Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold655.1
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: 842843
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 15444 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:8243 original size:38 final size:38
Alignment explanation
Indices: 8192--8267 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
8182 TTCATCCTTT
*
8192 TTCATTTCTTTTGGCCGACAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
8230 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
8268 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:9550 original size:40 final size:40
Alignment explanation
Indices: 9456--9600 Score: 157
Period size: 40 Copynumber: 3.6 Consensus size: 40
9446 TACTCGAATG
*
9456 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* ** * *
9497 ACATCTTGACTAAGAT-CCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
9537 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
9577 ATATCTGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
9601 CTTGTGCGAG
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 57 0.67
41 26 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:10617 original size:44 final size:44
Alignment explanation
Indices: 10549--10637 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
10539 CCCTGTTCCG
10549 AATTTGGAAATTCATTATAAATTAACCAGAGATAATTAGAAGTC
1 AATTTGGAAATTCATTATAAATTAACCAGAGATAATTAGAAGTC
*
10593 AATTTGGAAATTCATTATACATTAACCAGAGATAATTAGAAGTC
1 AATTTGGAAATTCATTATAAATTAACCAGAGATAATTAGAAGTC
10637 A
1 A
10638 TGCCATATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.31
Consensus pattern (44 bp):
AATTTGGAAATTCATTATAAATTAACCAGAGATAATTAGAAGTC
Found at i:13979 original size:40 final size:40
Alignment explanation
Indices: 13924--14141 Score: 282
Period size: 40 Copynumber: 5.5 Consensus size: 40
13914 CGGATGATAA
*
13924 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
13964 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
* *
14004 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* * *
14044 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* *
14084 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
* *
14124 CC-GGCTAAATCTCGAAGG
1 CCGGGCTAAGTCCCGAAGG
14142 TACTTGGTTG
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 15 0.09
40 150 0.90
41 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:22110 original size:39 final size:40
Alignment explanation
Indices: 22015--22110 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 40
22005 GATGATAACG
* * *
22015 GGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTAATTCC
22055 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCT-ATGTCC
1 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTGA-CTAAT-TCC
*
22095 -GGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
22111 TACTTGGTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
39 18 0.36
40 32 0.64
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTAATTCC
Found at i:33850 original size:25 final size:25
Alignment explanation
Indices: 33822--33900 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 25
33812 CTAATGGCCA
33822 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
** ****
33847 ATGTGAT-AATGTCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
33869 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
33894 ATGTGAT
1 ATGTGAT
33901 AAGGCCTAAT
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
22 7 0.18
23 9 0.23
24 9 0.23
25 14 0.36
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:33969 original size:49 final size:47
Alignment explanation
Indices: 33809--33984 Score: 271
Period size: 47 Copynumber: 3.7 Consensus size: 47
33799 ATGATAGTAT
33809 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
33856 TGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
33903 GGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAA
33952 GGCCTAATGGCCAATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCAATGTGATGAATGTGA-AAGT
33985 CCCGAAGGGC
Statistics
Matches: 117, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
47 74 0.63
49 39 0.33
50 4 0.03
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:34158 original size:37 final size:37
Alignment explanation
Indices: 34102--34180 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
34092 CCGAGCTCTA
* * *
34102 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
34139 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
34176 AAGAC
1 AAGAC
34181 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38415 original size:18 final size:18
Alignment explanation
Indices: 38392--38429 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
38382 GTCTCCATGC
38392 ATTTTAGGAA-AACATAAT
1 ATTTTAGGAATAACA-AAT
38410 ATTTTAGGAATAACAAAT
1 ATTTTAGGAATAACAAAT
38428 AT
1 AT
38430 AACATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (18 bp):
ATTTTAGGAATAACAAAT
Found at i:42591 original size:47 final size:47
Alignment explanation
Indices: 42513--42822 Score: 460
Period size: 47 Copynumber: 6.6 Consensus size: 47
42503 CCCTTCGGGA
* * * * * *
42513 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42559 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42607 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42654 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42701 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42750 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42797 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
42823 CACAATTATC
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
46 2 0.01
47 192 0.80
48 2 0.01
49 44 0.18
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42743 original size:96 final size:96
Alignment explanation
Indices: 42513--42822 Score: 490
Period size: 96 Copynumber: 3.3 Consensus size: 96
42503 CCCTTCGGGA
* * * *
42513 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT-TATCACATATATA
*
42575 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCATATTCATCACATCGGCCATTAGGC
* * *
42607 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
42670 ACTTTCATATTCATCACATCGGCCATTAGGC
66 ACTTTCATATTCATCACATCGGCCATTAGGC
42701 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
42766 ACTTTCATATTCATCACATCGGCCATTAGGC
66 ACTTTCATATTCATCACATCGGCCATTAGGC
42797 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
42823 CACAATTATC
Statistics
Matches: 200, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
93 1 0.00
94 94 0.47
95 2 0.01
96 103 0.51
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCATATTCATCACATCGGCCATTAGGC
Found at i:42769 original size:143 final size:141
Alignment explanation
Indices: 42513--42823 Score: 462
Period size: 143 Copynumber: 2.2 Consensus size: 141
42503 CCCTTCGGGA
* * * * *
42513 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCTCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCTCTATCACATATATACAC
42578 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
42643 GGCCATTAGGC
131 GGCCATTAGGC
* * *
42654 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC-CTTATCACATATATATA
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCTC-TATCAC--ATATATA
* * * *
42718 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCATATTCATCAC
63 CACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCAC
42783 ATCGGCCATTAGGC
128 ATCGGCCATTAGGC
* *
42797 CTTATCACATATATATACATTCACATC
1 CTTATCACATATATACACTTTCACATC
42824 ACAATTATCC
Statistics
Matches: 151, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
140 1 0.01
141 45 0.30
143 105 0.70
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCTCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:46538 original size:14 final size:14
Alignment explanation
Indices: 46519--46552 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
46509 GATTATATTA
46519 TTACAAAGA-AAAGT
1 TTACAAA-ATAAAGT
46533 TTACAAAATAAAGT
1 TTACAAAATAAAGT
46547 TTACAA
1 TTACAA
46553 TGAGAGGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 1 0.05
14 18 0.95
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (14 bp):
TTACAAAATAAAGT
Found at i:48401 original size:41 final size:41
Alignment explanation
Indices: 48336--48471 Score: 166
Period size: 41 Copynumber: 3.3 Consensus size: 41
48326 ATAAAATTTA
* * *
48336 CTAGGCATAAAGCCT-AGTATAATACACCGGCACAGAGTCTG
1 CTAGGCAAAAAGCCTGA-TATAATACACCGGCACAAAGCCTG
* *
48377 CTAGGCAAAAAGCCTGATAAAATACACCGGCATAAAGCCTG
1 CTAGGCAAAAAGCCTGATATAATACACCGGCACAAAGCCTG
* * * *
48418 CTAGGTAATAAGCCTGATATTATACACTGGCACAAAGCCTG
1 CTAGGCAAAAAGCCTGATATAATACACCGGCACAAAGCCTG
*
48459 CTAGGCATAAAGC
1 CTAGGCAAAAAGC
48472 TCGAATATCA
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 79 0.99
42 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.19
Consensus pattern (41 bp):
CTAGGCAAAAAGCCTGATATAATACACCGGCACAAAGCCTG
Found at i:55970 original size:41 final size:41
Alignment explanation
Indices: 55902--56043 Score: 164
Period size: 41 Copynumber: 3.5 Consensus size: 41
55892 ACATAAAATT
* * *
55902 TGCTAGGC-ATAAAGCCT-AGTGTAATACACCAGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
* *
55943 TGCTGGGCAATAAGCCTGATATAATACACCGGCATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * *
55984 TGCTAGGTAATAAGCCTGATATTATACACTGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
56025 TGCTAGGC-ATAAAGCCTGA
1 TGCTAGGCAAT-AAGCCTGA
56044 ATATCACTGA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
40 2 0.02
41 82 0.94
42 3 0.03
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:57760 original size:20 final size:19
Alignment explanation
Indices: 57730--57767 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
57720 TTTACCTACA
*
57730 TAAAAAATAAAAATAATAT
1 TAAAAAATAAAAAAAATAT
57749 TAAAATAATAAAAAAAATA
1 TAAAA-AATAAAAAAAATA
57768 ACATGCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAAAAATAAAAAAAATAT
Found at i:69013 original size:20 final size:20
Alignment explanation
Indices: 68988--69025 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
68978 TCGGTCGAAT
68988 CTGGAGCATCACTATGGTTG
1 CTGGAGCATCACTATGGTTG
*
69008 CTGGAGCATCACTGTGGT
1 CTGGAGCATCACTATGGT
69026 CGCCAGAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (20 bp):
CTGGAGCATCACTATGGTTG
Found at i:69034 original size:20 final size:20
Alignment explanation
Indices: 68991--69034 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
68981 GTCGAATCTG
* **
68991 GAGCATCACTATGGTTGCTG
1 GAGCATCACTATGGTCGCCA
*
69011 GAGCATCACTGTGGTCGCCA
1 GAGCATCACTATGGTCGCCA
69031 GAGC
1 GAGC
69035 GATCCACTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (20 bp):
GAGCATCACTATGGTCGCCA
Found at i:75083 original size:35 final size:35
Alignment explanation
Indices: 75044--75116 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
75034 CAAGTATGTG
75044 ATATATATTATTTATGTGAGATTAATCTGACGAGA
1 ATATATATTATTTATGTGAGATTAATCTGACGAGA
*
75079 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTAATCTGACGAGA
75114 ATA
1 ATA
75117 AAGAATGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTAATCTGACGAGA
Found at i:81228 original size:11 final size:11
Alignment explanation
Indices: 81206--81244 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
81196 TCTCTCACAT
*
81206 TCTCAAACCTC
1 TCTCAAATCTC
*
81217 TTTCAAATCTC
1 TCTCAAATCTC
*
81228 TCTCAAATTTC
1 TCTCAAATCTC
81239 TCTCAA
1 TCTCAA
81245 TTCCTTCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.38
Consensus pattern (11 bp):
TCTCAAATCTC
Found at i:109786 original size:42 final size:43
Alignment explanation
Indices: 109668--109808 Score: 171
Period size: 42 Copynumber: 3.3 Consensus size: 43
109658 ACATAGGATC
*
109668 CGATATGTG-TTTTCGTGTAAGACCAC-GTCTGGGACATTGGCAT
1 CGATATTTGATTTT-GTGTAAGACC-CTGTCTGGGACATTGGCAT
* *** *
109711 CGATATTGAGATTACATGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATT-TGATTTTGTGTAAGACCCTGTCTGGGACATTGGCAT
*
109755 C-ATATTTGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTTGTGTAAGACCCTGTCTGGGACATTGGCAT
109797 CGATATTTGATT
1 CGATATTTGATT
109809 ACAAGTAAGA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
42 31 0.38
43 21 0.26
44 28 0.34
45 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
CGATATTTGATTTTGTGTAAGACCCTGTCTGGGACATTGGCAT
Found at i:109795 original size:86 final size:86
Alignment explanation
Indices: 109677--109838 Score: 247
Period size: 86 Copynumber: 1.9 Consensus size: 86
109667 CCGATATGTG
* * *
109677 TTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATATTGAGATTACATGTAAGACCATGTCT
1 TTTTCGTGTAAGACCACGTCTGGGACAGTGGCATCGATATT-AGATTACAAGTAAGACCACGTCT
109742 GGGACATTGGCATCATATTTGA
65 GGGACATTGGCATCATATTTGA
*
109764 TTTT-GTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTACAAGTAAGACCACGTCT
1 TTTTCGTGTAAGACCAC-GTCTGGGACAGTGGCATCGATATTAGATTACAAGTAAGACCACGTCT
*
109827 GGGAGATTGGCA
65 GGGACATTGGCA
109839 ATGTACAAGC
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
85 32 0.46
86 33 0.48
87 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (86 bp):
TTTTCGTGTAAGACCACGTCTGGGACAGTGGCATCGATATTAGATTACAAGTAAGACCACGTCTG
GGACATTGGCATCATATTTGA
Found at i:109817 original size:43 final size:43
Alignment explanation
Indices: 109683--109838 Score: 208
Period size: 43 Copynumber: 3.6 Consensus size: 43
109673 TGTGTTTTCG
*
109683 TGTAAGACCACGTCTGGGACATTGGCATCGATATTGAGATTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATT-TGATTACA
* ***
109727 TGTAAGACCATGTCTGGGACATTGGCATC-ATATTTGATTTTG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
*
109769 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTACA
* *
109812 AGTAAGACCACGTCTGGGAGATTGGCA
1 TGTAAGACCACGTCTGGGACATTGGCA
109839 ATGTACAAGC
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 30 0.31
43 37 0.39
44 29 0.30
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
Found at i:122933 original size:31 final size:30
Alignment explanation
Indices: 122895--122953 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 30
122885 CCAATTGATA
122895 GTGTGATCGTATCTTCGACATCTTCCGAGC
1 GTGTGATCGTATCTTCGACATCTTCCGAGC
*
122925 NGTGTGATCGTATCTTCGACTTCTTCCGA
1 -GTGTGATCGTATCTTCGACATCTTCCGA
122954 TCCCCGAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.36
Consensus pattern (30 bp):
GTGTGATCGTATCTTCGACATCTTCCGAGC
Found at i:127273 original size:26 final size:26
Alignment explanation
Indices: 127244--127294 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
127234 AATTATAGTT
127244 AAATGTTA-AATATT-TATGTTGTTATG
1 AAATGTTAGAAT-TTATAT-TTGTTATG
127270 AAATGTTAGAATTTATATTTGTTAT
1 AAATGTTAGAATTTATATTTGTTAT
127295 AGCCAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (26 bp):
AAATGTTAGAATTTATATTTGTTATG
Found at i:130605 original size:15 final size:16
Alignment explanation
Indices: 130578--130607 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
130568 TAATATTAAA
130578 TTATTTTTAAATTTTT
1 TTATTTTTAAATTTTT
130594 TTATTTTT-AATTTT
1 TTATTTTTAAATTTT
130608 AAGTAACTTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTATTTTTAAATTTTT
Found at i:134986 original size:46 final size:46
Alignment explanation
Indices: 134935--135062 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 46
134925 ATGGTTGAGC
*
134935 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA--GATGCAACAGG
* * *
134982 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAAC-AGG
*
135027 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTA
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
135063 AGGGCGGGTT
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
43 6 0.09
45 4 0.06
46 29 0.42
47 28 0.41
48 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAACAGG
Found at i:135324 original size:19 final size:20
Alignment explanation
Indices: 135287--135324 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
135277 ATAAGGTGGT
135287 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
135307 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
135325 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:139092 original size:49 final size:47
Alignment explanation
Indices: 139015--139237 Score: 204
Period size: 49 Copynumber: 4.6 Consensus size: 47
139005 GTATAATGCA
139015 GATGTCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAGGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGACTATC-AAATCGAGGCC
* *
139064 GATGCCATGTCCCAAACATGGTCTTACACTGACTATCAAAATCGAGACC
1 GATG-CATGTCCCAGACATGGTCTTACACTGACTATC-AAATCGAGGCC
* * * * * *
139113 GACGCCATATCCTAGATATGGTCTTACACT-AGCTCTCACATATCCG-TGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGA-CTATCA-A-AT-CGAGGCC
* **
139163 GATGCATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGACTAT-CAAATCGAGGCC
* *
139209 AATGCATGTCTCAGACAT-GTCTTACACTG
1 GATGCATGTCCCAGACATGGTCTTACACTG
139238 GCACACTAAT
Statistics
Matches: 145, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.01
46 31 0.21
47 1 0.01
48 16 0.11
49 86 0.59
50 7 0.05
51 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGGTCTTACACTGACTATCAAATCGAGGCC
Found at i:143664 original size:39 final size:39
Alignment explanation
Indices: 143610--143688 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
143600 ATATTTTTCA
143610 TTTATTGATGATTTGACTACTGGGGAATGGGCTATGTTG
1 TTTATTGATGATTTGACTACTGGGGAATGGGCTATGTTG
*
143649 TTTATTGATGATTTGACTACTTGGGAATGGGCTATGTTG
1 TTTATTGATGATTTGACTACTGGGGAATGGGCTATGTTG
143688 T
1 T
143689 GAATGATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.20, C:0.08, G:0.29, T:0.43
Consensus pattern (39 bp):
TTTATTGATGATTTGACTACTGGGGAATGGGCTATGTTG
Found at i:144294 original size:17 final size:18
Alignment explanation
Indices: 144259--144305 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
144249 AATGTTCATT
* *
144259 ATATAAATAAAA-ATTAA
1 ATATAATTAAAATTTTAA
*
144276 ATGT-ATTAAAATTTTAA
1 ATATAATTAAAATTTTAA
144293 ATATAATTAAAAT
1 ATATAATTAAAAT
144306 AAATACATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 6 0.25
17 10 0.42
18 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
ATATAATTAAAATTTTAA
Found at i:147167 original size:53 final size:54
Alignment explanation
Indices: 147081--147197 Score: 155
Period size: 53 Copynumber: 2.2 Consensus size: 54
147071 CAAGGAGTAC
* * *
147081 GGAGATTGTATATGTATGTAAATTTGGTTTTGCAGAGCTTCGAACGGGTTGTAT
1 GGAGATTGAATATGTATGTAAATTTGGTTTTGCAGAGCTTCGAACGGATTGAAT
* * * * *
147135 GGAGATTGAATATGT-TGTTAATTTGGTTTTGCAGAGGTTTGGATGGATTGAAT
1 GGAGATTGAATATGTATGTAAATTTGGTTTTGCAGAGCTTCGAACGGATTGAAT
147188 GGAGATTGAA
1 GGAGATTGAA
147198 AGTAAATGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 41 0.75
54 14 0.25
ACGTcount: A:0.26, C:0.04, G:0.32, T:0.38
Consensus pattern (54 bp):
GGAGATTGAATATGTATGTAAATTTGGTTTTGCAGAGCTTCGAACGGATTGAAT
Found at i:148119 original size:24 final size:26
Alignment explanation
Indices: 148092--148144 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
148082 ATATAAAAAT
148092 AAATATTTTT-A-ATAATTTAATATA
1 AAATATTTTTAATATAATTTAATATA
148116 AAATATTTTTAATATAATTTAATATA
1 AAATATTTTTAATATAATTTAATATA
148142 AAA
1 AAA
148145 ACAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 10 0.37
25 1 0.04
26 16 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
AAATATTTTTAATATAATTTAATATA
Found at i:148235 original size:23 final size:23
Alignment explanation
Indices: 148209--148348 Score: 57
Period size: 21 Copynumber: 6.3 Consensus size: 23
148199 AAATATAAAA
148209 ATAAAATATTTTAAATATTTAAT
1 ATAAAATATTTTAAATATTTAAT
*
148232 AT--AAT-TTATTATA-ATTT-A-
1 ATAAAATATT-TTAAATATTTAAT
* * **
148250 ATAAATTAATTTAATATAAATAAT
1 ATAAAATATTTTAA-ATATTTAAT
* * *
148274 -TTAAATATTTTACTATAATTTAAA
1 ATAAAATATTTTA-AAT-ATTTAAT
*
148298 ATAAAAATATTTTAAATATTTTA-
1 AT-AAAATATTTTAAATATTTAAT
* *
148321 ATAAAAT-TTAATACA-ATTTAAT
1 ATAAAATATT-TTAAATATTTAAT
148343 ATAAAA
1 ATAAAA
148349 ATAAAAAAAT
Statistics
Matches: 84, Mismatches: 19, Indels: 29
0.64 0.14 0.22
Matches are distributed among these distances:
18 2 0.02
19 1 0.01
20 11 0.13
21 16 0.19
22 16 0.19
23 16 0.19
24 9 0.11
25 3 0.04
26 10 0.12
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAAAATATTTTAAATATTTAAT
Found at i:148238 original size:10 final size:10
Alignment explanation
Indices: 148225--148346 Score: 91
Period size: 10 Copynumber: 13.1 Consensus size: 10
148215 TATTTTAAAT
148225 ATTTAATATA
1 ATTTAATATA
*
148235 ATTTATTATA
1 ATTTAATATA
148245 ATTTAATA-A
1 ATTTAATATA
*
148254 A-TTAATTTA
1 ATTTAATATA
*
148263 ATATAA-ATA
1 ATTTAATATA
148272 ATTTAA-ATA
1 ATTTAATATA
* *
148281 TTTTACTATA
1 ATTTAATATA
*
148291 ATTTAAAATA
1 ATTTAATATA
148301 A---AA-ATA
1 ATTTAATATA
*
148307 TTTTAA-ATA
1 ATTTAATATA
* *
148316 TTTTAATAAA
1 ATTTAATATA
*
148326 ATTTAATACA
1 ATTTAATATA
148336 ATTTAATATA
1 ATTTAATATA
148346 A
1 A
148347 AAATAAAAAA
Statistics
Matches: 89, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
6 3 0.03
7 2 0.02
8 5 0.06
9 29 0.33
10 50 0.56
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTTAATATA
Found at i:148243 original size:59 final size:60
Alignment explanation
Indices: 148030--148235 Score: 244
Period size: 59 Copynumber: 3.4 Consensus size: 60
148020 AGAAAATAGA
* *
148030 AAAATCTTTCTAATATAATTTAATATAAAATATTATTTCTAAATTTCAGAAAATATAAAAAT
1 AAAATATTT-TAA-ATAATTTAATATAAAATATTATTTCTAAATTTAAGAAAATATAAAAAT
* * * *
148092 -AAATATTTTTAATAATTTAATATAAAATATT-TTTAATATAATTTAATATAAA-A-ACAAA-
1 AAAATATTTTAAATAATTTAATATAAAATATTATTT-CTA-AATTTAAGA-AAATATAAAAAT
* *
148150 AAAATCTTTTAATATAATTTAACATAAAATATTATTTCTAAATTTAAGAAAATATAAAAAT
1 AAAATATTTTAA-ATAATTTAATATAAAATATTATTTCTAAATTTAAGAAAATATAAAAAT
148211 AAAATATTTTAAAT-ATTTAATATAA
1 AAAATATTTTAAATAATTTAATATAA
148236 TTTATTATAA
Statistics
Matches: 121, Mismatches: 14, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
58 6 0.05
59 54 0.45
60 37 0.31
61 24 0.20
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (60 bp):
AAAATATTTTAAATAATTTAATATAAAATATTATTTCTAAATTTAAGAAAATATAAAAAT
Found at i:148261 original size:13 final size:14
Alignment explanation
Indices: 148242--148277 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
148232 ATAATTTATT
148242 ATAATTTAATA-AA
1 ATAATTTAATATAA
*
148255 TTAATTTAATATAA
1 ATAATTTAATATAA
148269 ATAATTTAA
1 ATAATTTAA
148278 ATATTTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATTTAATATAA
Found at i:148293 original size:33 final size:33
Alignment explanation
Indices: 148256--148333 Score: 102
Period size: 35 Copynumber: 2.3 Consensus size: 33
148246 TTTAATAAAT
* *
148256 TAATTTAATATAAATAATTTAAATATTTTACTA
1 TAATTTAATAAAAATAATTTAAATATTTTAATA
*
148289 TAATTTAAAATAAAAATATTTTAAATATTTTAATA
1 TAATTT--AATAAAAATAATTTAAATATTTTAATA
*
148324 AAATTTAATA
1 TAATTTAATA
148334 CAATTTAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 10 0.26
35 29 0.74
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATTTAATAAAAATAATTTAAATATTTTAATA
Found at i:148297 original size:28 final size:27
Alignment explanation
Indices: 148212--148297 Score: 84
Period size: 28 Copynumber: 3.1 Consensus size: 27
148202 TATAAAAATA
*
148212 AAATATTTTAAATATTTAATATAATTT
1 AAATAATTTAAATATTTAATATAATTT
* * * *
148239 ATTATAATTT-AATAAATTAATTTAATAT
1 A-AATAATTTAAAT-ATTTAATATAATTT
*
148267 AAATAATTTAAATATTTTACTATAATTT
1 AAATAATTTAAATA-TTTAATATAATTT
148295 AAA
1 AAA
148298 ATAAAAATAT
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
27 12 0.27
28 33 0.73
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (27 bp):
AAATAATTTAAATATTTAATATAATTT
Found at i:148313 original size:35 final size:35
Alignment explanation
Indices: 148262--148331 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
148252 AAATTAATTT
* * *
148262 AATATAAATAATTTAAATATTTTACTATAATTTAA
1 AATAAAAATAATTTAAATATTTTAATAAAATTTAA
*
148297 AATAAAAATATTTTAAATATTTTAATAAAATTTAA
1 AATAAAAATAATTTAAATATTTTAATAAAATTTAA
148332 TACAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (35 bp):
AATAAAAATAATTTAAATATTTTAATAAAATTTAA
Found at i:148523 original size:3 final size:3
Alignment explanation
Indices: 148515--148539 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
148505 TTGTCATTTG
148515 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
148540 GATATCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:152462 original size:47 final size:47
Alignment explanation
Indices: 152399--152571 Score: 237
Period size: 47 Copynumber: 3.7 Consensus size: 47
152389 ATCCATAAGT
*
152399 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
152446 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* ** * *
152493 GAACTCAGACTCAACTCAACGAGTTCGGATG--T--TCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-C
152539 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
152572 CAAATATCCG
Statistics
Matches: 114, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 3 0.03
46 30 0.26
47 76 0.67
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:152560 original size:46 final size:48
Alignment explanation
Indices: 152345--152570 Score: 202
Period size: 47 Copynumber: 4.8 Consensus size: 48
152335 TGTAACCCGC
* * * * * **
152345 CCATAAGCGAACTTGGATTCAACTCAATGAGCTCGG--GCTTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCTATCACAT
* * *
152391 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-CTA-TCACAT
* *
152441 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-CTA-TCACAT
* * *
152488 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGATG-T-TCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCTATCACAT
*
152531 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
152571 CCAAATATCC
Statistics
Matches: 155, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
43 4 0.03
44 1 0.01
45 3 0.02
46 62 0.40
47 76 0.49
48 3 0.02
49 3 0.02
50 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (48 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCTATCACAT
Found at i:154163 original size:27 final size:27
Alignment explanation
Indices: 154141--154194 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
154131 GACCACACGT
*
154141 CCTTGGGATAGACCGTGTGCCACACAC
1 CCTTGGGATAGACCGTGAGCCACACAC
154168 CCTTGGGATAGACCGTGAGCCACACAC
1 CCTTGGGATAGACCGTGAGCCACACAC
154195 GGTTGAGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.33, G:0.26, T:0.17
Consensus pattern (27 bp):
CCTTGGGATAGACCGTGAGCCACACAC
Found at i:155259 original size:42 final size:43
Alignment explanation
Indices: 155126--155261 Score: 125
Period size: 42 Copynumber: 3.2 Consensus size: 43
155116 ATTAAGATGC
* ** *
155126 CAATGCCATGTCC-CAGAGGTGGTCTTACATGGGATCTCACAT
1 CAATGCCATGTCCTCAGACGTGGTCTTACATGAAATCTCATAT
* * ** * * * *
155168 CGATGCCATAT-CTCAGATATGGTCTTATACGAAAATCTTATTT
1 CAATGCCATGTCCTCAGACGTGGTCTTACATG-AAATCTCATAT
*
155211 CGATGCCATGTCCTCA-ACGTGGTCTTACATGAAATCTCATAT
1 CAATGCCATGTCCTCAGACGTGGTCTTACATGAAATCTCATAT
155253 CAATGCCAT
1 CAATGCCAT
155262 ATTCCAATTA
Statistics
Matches: 72, Mismatches: 19, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
41 1 0.01
42 40 0.56
43 27 0.38
44 4 0.06
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CAATGCCATGTCCTCAGACGTGGTCTTACATGAAATCTCATAT
Found at i:158808 original size:64 final size:64
Alignment explanation
Indices: 158680--158808 Score: 154
Period size: 64 Copynumber: 2.0 Consensus size: 64
158670 AGGAAAGAAA
* * **
158680 GGAAGGGAAAAAGCTTGAGAAAATCGGCTATCGTGGGTTGCTAGACTAAGGGATGGTTGGTGTT
1 GGAAGGGAAAAAGCTGGAGAAAATCGGCTATCGTGGGTTACTAGACTAAGGGATGGTTAATGTT
* * * *
158744 GGAAGGG-AAAAGCTGGAGAAAAATCGGCTATGGT-GGTTCACTAGATTAAGGTATGTTTAATGT
1 GGAAGGGAAAAAGCTGGAG-AAAATCGGCTATCGTGGGTT-ACTAGACTAAGGGATGGTTAATGT
158807 T
64 T
158808 G
1 G
158809 ATTAAGGTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
63 14 0.25
64 41 0.75
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (64 bp):
GGAAGGGAAAAAGCTGGAGAAAATCGGCTATCGTGGGTTACTAGACTAAGGGATGGTTAATGTT
Found at i:158811 original size:21 final size:21
Alignment explanation
Indices: 158787--158829 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
158777 TGGTTCACTA
158787 GATTAAGGTATGTTTAATGTT
1 GATTAAGGTATGTTTAATGTT
158808 GATTAAGGTATGTTTAATGTT
1 GATTAAGGTATGTTTAATGTT
158829 G
1 G
158830 CTTTGAAAGT
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:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (21 bp):
GATTAAGGTATGTTTAATGTT
Found at i:159398 original size:97 final size:97
Alignment explanation
Indices: 159232--159424 Score: 377
Period size: 97 Copynumber: 2.0 Consensus size: 97
159222 ACATTATTGA
159232 GTAATGTATGTGTTTTGAAATTGATGGAATAGAGAGTATGCTTAAATTGTGTTATGAACAATTAT
1 GTAATGTATGTGTTTTGAAATTGATGGAATAGAGAGTATGCTTAAATTGTGTTATGAACAATTAT
159297 ATGTTAAATCAAGGTTTGCTAAGCTAGCTATT
66 ATGTTAAATCAAGGTTTGCTAAGCTAGCTATT
*
159329 GTAATGTATGTGTTTTGAAATTGATGGAATGGAGAGTATGCTTAAATTGTGTTATGAACAATTAT
1 GTAATGTATGTGTTTTGAAATTGATGGAATAGAGAGTATGCTTAAATTGTGTTATGAACAATTAT
159394 ATGTTAAATCAAGGTTTGCTAAGCTAGCTAT
66 ATGTTAAATCAAGGTTTGCTAAGCTAGCTAT
159425 AAAGGTGAAG
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (97 bp):
GTAATGTATGTGTTTTGAAATTGATGGAATAGAGAGTATGCTTAAATTGTGTTATGAACAATTAT
ATGTTAAATCAAGGTTTGCTAAGCTAGCTATT
Found at i:160408 original size:40 final size:40
Alignment explanation
Indices: 160214--160431 Score: 221
Period size: 40 Copynumber: 5.5 Consensus size: 40
160204 ATAACGGTGT
* * * *
160214 TAAGTCCCGAAGTCATTTGTGCTAGTGATTAATTCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
* * *
160254 TAAGTCCCGAACGCATTTGTGCGAGTTACTAATTCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
* **
160294 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTTTGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
160334 TAAGTCCCGAAGGCATCTGTGTG-T-GTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCAT-T-TGTGCTAGTTACTAAT-TCCGGGC
** * *
160374 TAAGTCTTGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAAT-TCCGGGC
* *
160414 TAAGGCCCGATGGC-TTTG
1 TAAGTCCCGAAGGCATTTG
160432 CGAGTGGTTA
Statistics
Matches: 153, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
38 4 0.03
39 8 0.05
40 136 0.89
41 1 0.01
42 4 0.03
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
Found at i:162700 original size:40 final size:40
Alignment explanation
Indices: 162610--162834 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
162600 TTGAATGATG
* * * * *
162610 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
162650 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
162690 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
162729 TCCGGGTTAAGTCCCGAAGGCATTTGTGGGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
162769 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
162810 -CCGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
162835 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.21
40 116 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:162852 original size:80 final size:80
Alignment explanation
Indices: 162663--162867 Score: 204
Period size: 80 Copynumber: 2.6 Consensus size: 80
162653 GGACTAAGAT
** * * *
162663 CCGAAGGCATTTGTGCGAGAT-ACTAATTTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACT
* *
162726 AAATCCGGGTTAAGTC
65 AAATCCGAGCTAAGTC
*** * *
162742 CCGAAGGCATTTGTGGGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
*
162807 TAA-CCGAGCTATGTC
66 -AATCCGAGCTAAGTC
* * *
162822 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
162868 TACGTGATTT
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 47 0.44
80 57 0.53
81 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
AATCCGAGCTAAGTC
Found at i:170213 original size:27 final size:27
Alignment explanation
Indices: 170183--170236 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
170173 AAGGAAGGGA
170183 AAGAACTTGGAGAAAAATCGGCTATGG
1 AAGAACTTGGAGAAAAATCGGCTATGG
*
170210 AAGAGCTTGGAGAAAAATCGGCTATGG
1 AAGAACTTGGAGAAAAATCGGCTATGG
170237 TGGTTCACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.31, T:0.19
Consensus pattern (27 bp):
AAGAACTTGGAGAAAAATCGGCTATGG
Found at i:171607 original size:40 final size:40
Alignment explanation
Indices: 171552--171741 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
171542 GATGATAACG
* * * *
171552 GGGTTAAGTCCCGAAGACATTTGTGCTAGTGATTAATTTC
1 GGGTTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCC
*
171592 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGTTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCC
171632 GGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAATTCC
1 GGGTTAAGTCCCGAAGGCATTTGTGCT-AGTTACTAATTCC
* *
171672 GAGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT-ATATCC
1 GGGTTAAGTCCCGAAGGCATTTGTGCT-AGTTACTAAT-TCC
*
171712 GGGCTAAGTCCCGAAGGCATTTGTGCTAGT
1 GGGTTAAGTCCCGAAGGCATTTGTGCTAGT
171742 GACCATATCC
Statistics
Matches: 138, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.01
40 135 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (40 bp):
GGGTTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCC
Found at i:171750 original size:40 final size:40
Alignment explanation
Indices: 171556--171773 Score: 257
Period size: 40 Copynumber: 5.5 Consensus size: 40
171546 ATAACGGGGT
* * * * *
171556 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTTCGGGT
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
* *
171596 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
*
171636 TAAGTCCCGAAGGCATTTGTG-TGAGTTACTAATTCCGAGC
1 TAAGTCCCGAAGGCATTTGTGCT-AGTTACTAATTCCGGGC
171676 TAAGTCCCGAAGGCATTTGTG-TGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCT-AGTTACTAAT-TCCGGGC
* *
171716 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCTAGTTACTAAT-TCCGGGC
* *
171756 TAAGGCCCGATGGC-TTTG
1 TAAGTCCCGAAGGCATTTG
171774 CGAGTGGTTA
Statistics
Matches: 162, Mismatches: 12, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
39 6 0.04
40 155 0.96
41 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCCGGGC
Found at i:178074 original size:43 final size:43
Alignment explanation
Indices: 178016--178134 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 43
178006 GGGATCTCAC
*
178016 ATCGATGCCATATCCCAGATATGGTCTTATACGAAAATCTTAT
1 ATCGATGCCATATCCCAGATATGGTCTTATACGAAAATCTAAT
* * ** * *
178059 TTCGATGCCATATCCCCGAGGTAGTCTTACACG-AAATCTAAT
1 ATCGATGCCATATCCCAGATATGGTCTTATACGAAAATCTAAT
* *
178101 ATCAACGCCATATCCCAGATATGGTCTTATACGA
1 ATCGATGCCATATCCCAGATATGGTCTTATACGA
178135 GATCTCATCA
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 33 0.55
43 27 0.45
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
ATCGATGCCATATCCCAGATATGGTCTTATACGAAAATCTAAT
Found at i:182699 original size:27 final size:27
Alignment explanation
Indices: 182625--182711 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 27
182615 GAATACTTTA
* *
182625 GTTTACCAAATTACTGAAATGCCCTTG
1 GTTTACAAAATTACTGAAATACCCTTG
* *
182652 ACTTT-CTAAAAATTA-TAGAAATACCGTTG
1 -GTTTAC--AAAATTACT-GAAATACCCTTG
182681 GTTTACAAAATTACTGAAATACCCTTG
1 GTTTACAAAATTACTGAAATACCCTTG
182708 GTTT
1 GTTT
182712 GTAGATTTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
27 23 0.48
28 8 0.17
29 17 0.35
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (27 bp):
GTTTACAAAATTACTGAAATACCCTTG
Found at i:182795 original size:27 final size:27
Alignment explanation
Indices: 182752--182825 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
182742 AAATGACTAA
*
182752 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
182779 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
182806 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
182826 TAACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:183664 original size:25 final size:24
Alignment explanation
Indices: 183626--183708 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
183616 AGGAAGTGCT
*
183626 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
183650 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
* *
183675 AGAAAGGGCTTTACCCCAG-TTACT
1 A-AAAGGGCTTTGCCCCAGTTTACC
183699 AAAAGAGGCT
1 AAAAG-GGCT
183709 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 9 0.18
25 38 0.75
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:183951 original size:31 final size:31
Alignment explanation
Indices: 183916--183999 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
183906 CATTTACAGT
183916 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
183947 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
183978 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
184000 TCAGGACTAA
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:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:186167 original size:29 final size:29
Alignment explanation
Indices: 186133--186191 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
186123 CATTTGCTTG
186133 TATACATGTCATGTTTCATTTCCACGATT
1 TATACATGTCATGTTTCATTTCCACGATT
186162 TATACATGTCATGTTTCATTTCCACGATT
1 TATACATGTCATGTTTCATTTCCACGATT
186191 T
1 T
186192 CGTACATACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (29 bp):
TATACATGTCATGTTTCATTTCCACGATT
Found at i:186432 original size:43 final size:43
Alignment explanation
Indices: 186372--186483 Score: 131
Period size: 42 Copynumber: 2.6 Consensus size: 43
186362 AATGCCGACA
* * * * *
186372 TCCCGGACGTGGTCTTACATGTAATTCAG-TATCGATGCCTCTG
1 TCCCAGACATGGTCTTACACGTAAATCAGATA-CGATGCCTATG
*
186415 TCCTAGACA-GGCTCTTACACG-AAATCAGATACGATGCCTATG
1 TCCCAGACATGG-TCTTACACGTAAATCAGATACGATGCCTATG
186457 TCCCAGACATGGTCTTACACGTAAATC
1 TCCCAGACATGGTCTTACACGTAAATC
186484 TCAAATCAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
42 35 0.60
43 23 0.40
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAAATCAGATACGATGCCTATG
Found at i:200119 original size:43 final size:43
Alignment explanation
Indices: 200050--200189 Score: 149
Period size: 42 Copynumber: 3.3 Consensus size: 43
200040 GTCCCAGACG
* *
200050 TGGTCTTACATG-GAATCTCACATCGATGCCATATCCTAGATA
1 TGGTCTTACATGAAAATCTCATATCGATGCCATATCCTAGATA
* * * * ** **
200092 TGGTCTTATATGAAAATCTTATTTCGATGCCATGTCCCCGACG
1 TGGTCTTACATGAAAATCTCATATCGATGCCATATCCTAGATA
* * *
200135 TGGTCTTACACG-AAATCTCATATCAACGCCATATCCTAGATA
1 TGGTCTTACATGAAAATCTCATATCGATGCCATATCCTAGATA
200177 TGGTCTTACATGA
1 TGGTCTTACATGA
200190 TAACACAAAA
Statistics
Matches: 74, Mismatches: 22, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
42 43 0.58
43 31 0.42
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (43 bp):
TGGTCTTACATGAAAATCTCATATCGATGCCATATCCTAGATA
Found at i:200166 original size:42 final size:42
Alignment explanation
Indices: 200033--200189 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 42
200023 TAAAATGTCA
* * *
200033 ATGCTATGTCCCAGACGTGGTCTTACATGGAATCTCACATCG
1 ATGCCATGTCCCAGACGTGGTCTTACATGAAATCTCATATCG
* * ** * * *
200075 ATGCCATATCCTAGATATGGTCTTATATGAAAATCTTATTTCG
1 ATGCCATGTCCCAGACGTGGTCTTACATG-AAATCTCATATCG
* * *
200118 ATGCCATGTCCCCGACGTGGTCTTACACGAAATCTCATATCA
1 ATGCCATGTCCCAGACGTGGTCTTACATGAAATCTCATATCG
* * * **
200160 ACGCCATATCCTAGATATGGTCTTACATGA
1 ATGCCATGTCCCAGACGTGGTCTTACATGA
200190 TAACACAAAA
Statistics
Matches: 87, Mismatches: 27, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
42 56 0.64
43 31 0.36
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATGTCCCAGACGTGGTCTTACATGAAATCTCATATCG
Found at i:200181 original size:85 final size:85
Alignment explanation
Indices: 200033--200189 Score: 242
Period size: 85 Copynumber: 1.8 Consensus size: 85
200023 TAAAATGTCA
* * * * *
200033 ATGCTATGTCCCAGACGTGGTCTTACATGGAATCTCACATCGATGCCATATCCTAGATATGGTCT
1 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCTAGATATGGTCT
*
200098 TATATGAAAATCTTATTTCG
66 TACATGAAAATCTTATTTCG
* *
200118 ATGCCATGTCCCCGACGTGGTCTTACACGAAATCTCATATCAACGCCATATCCTAGATATGGTCT
1 ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCTAGATATGGTCT
200183 TACATGA
66 TACATGA
200190 TAACACAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (85 bp):
ATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCTAGATATGGTCT
TACATGAAAATCTTATTTCG
Found at i:203532 original size:46 final size:45
Alignment explanation
Indices: 203465--203637 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 45
203455 TGATATGTGT
*
203465 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-TATGAGA
* ** * * *
203511 GCTAGTGTAAGACATGTCTGGGACATGCACCGGTTTTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CCTCATATGAGA
* * * *
203557 GCTAGTATAAGACATGTCTAGGACATGCATCAGCCTCGAGATAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC---ATATGA-GA
*
203605 GCTAGTGTAAGACCTGTCTGGGACATGGCATCG
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCG
203638 ACATTGGTAG
Statistics
Matches: 100, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 66 0.66
47 2 0.02
48 26 0.26
49 5 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATATGAGA
Found at i:203664 original size:49 final size:49
Alignment explanation
Indices: 203607--203779 Score: 163
Period size: 49 Copynumber: 3.6 Consensus size: 49
203597 ATATACAAGC
* *
203607 TAGTGTAAGACCTGTCTGGGACATGGCATCGACATTGGTAGATGAGAGT
1 TAGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAGATGAAAGT
* * ** * *
203656 TAGTGTAAGACCTTTCTGGGACACGAAATC-ATCTTTGATATATGAAAGT
1 TAGTGTAAGACCTGTCTGGGACATGGCATCGA-CATTGATAGATGAAAGT
* * * ** *
203705 CAGTGTAAGACCTGTCTAGGACATGGCATCGACTTTGAT-G-TGTTAGC
1 TAGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAGATGAAAGT
* *
203752 CAGTGTAAGACCATGTTTGGGACATGGC
1 TAGTGTAAGACC-TGTCTGGGACATGGC
203780 GTCGGCATCT
Statistics
Matches: 101, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
47 16 0.16
48 14 0.14
49 70 0.69
50 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (49 bp):
TAGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAGATGAAAGT
Found at i:206825 original size:36 final size:34
Alignment explanation
Indices: 206769--206841 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 34
206759 TACTTTTGTA
* *
206769 TTCCTACTTCAATTTGGAATTGGATTATTCTTTCTT
1 TTCCTACTTCAATTTAGAATTGAATTA-T-TTTCTT
* *
206805 TTCCTATTTCCATTTAGAATTGAATTATTTTCTT
1 TTCCTACTTCAATTTAGAATTGAATTATTTTCTT
206839 TTC
1 TTC
206842 TCTTTCAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 9 0.27
35 1 0.03
36 23 0.70
ACGTcount: A:0.21, C:0.16, G:0.08, T:0.55
Consensus pattern (34 bp):
TTCCTACTTCAATTTAGAATTGAATTATTTTCTT
Found at i:219033 original size:43 final size:42
Alignment explanation
Indices: 218983--219096 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
218973 GGGATTTTAC
* *
218983 ATTGATGCCATATCCTAGATATGGTCTTATACGGAAATCTTAT
1 ATTGATGCCATATCCCAGATATGGTCTTATAC-GAAATCTCAT
* * * **
219026 TTTGATGCCATGTCCCCGACGTGGTCTTATACGAAATCTCAT
1 ATTGATGCCATATCCCAGATATGGTCTTATACGAAATCTCAT
** * *
219068 ATCAACGTCATATCCCAGATATGGTCTTA
1 ATTGATGCCATATCCCAGATATGGTCTTA
219097 CATGGTATCA
Statistics
Matches: 55, Mismatches: 16, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
42 29 0.53
43 26 0.47
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (42 bp):
ATTGATGCCATATCCCAGATATGGTCTTATACGAAATCTCAT
Found at i:219093 original size:42 final size:43
Alignment explanation
Indices: 218989--219157 Score: 110
Period size: 42 Copynumber: 3.9 Consensus size: 43
218979 TTACATTGAT
* * * ** *
218989 GCCATATCCTAGATATGGTCTTATACGGAAATCTTATTTTGAT
1 GCCATATCCCAGATATGGTCTTATACGGAAATCTCATATCAAC
* * **
219032 GCCATGTCCCCGACGTGGTCTTATAC-GAAATCTCATATCAAC
1 GCCATATCCCAGATATGGTCTTATACGGAAATCTCATATCAAC
* * * * * *
219074 GTCATATCCCAGATATGGTCTTACATGG-TATCATAATGCGATGCCAAT
1 GCCATATCCCAGATATGGTCTTATACGGAAATC-TCAT---AT--CAAC
*
219122 GCCATATCCCAGATATGGTCTTATACGG-GATCTCAT
1 GCCATATCCCAGATATGGTCTTATACGGAAATCTCAT
219158 CAACCCAAAT
Statistics
Matches: 94, Mismatches: 25, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
42 33 0.35
43 25 0.27
46 2 0.02
47 3 0.03
48 31 0.33
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (43 bp):
GCCATATCCCAGATATGGTCTTATACGGAAATCTCATATCAAC
Found at i:223159 original size:49 final size:48
Alignment explanation
Indices: 223052--223229 Score: 171
Period size: 49 Copynumber: 3.7 Consensus size: 48
223042 GTACAATGCC
* * * * * **
223052 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCTAAGT-T
1 GATGCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATCGGTGT
* *
223100 GATGCCATGTCCCAGACAGGTCTTCCACTGACTTTCATATATCGAG-GCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTG-T
* * * * *
223149 GATGTCATGTCCCAGACAGGTTTTACACTGGCTCTCATTTATTGGTGT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGT
*
223197 CGATGCCATGTCCCAGACAGGTCATACACTGAC
1 -GATGCCATGTCCCAGACAGGTCTTACACTGAC
223230 ACAAGTCAAG
Statistics
Matches: 105, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
47 19 0.18
48 19 0.18
49 67 0.64
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (48 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGT
Found at i:223313 original size:48 final size:46
Alignment explanation
Indices: 223250--223367 Score: 123
Period size: 46 Copynumber: 2.5 Consensus size: 46
223240 TAGATGCCAC
* * *
223250 GTCCCGGACAGGTCTTACACTAG-TTTGCAT-ATCTCGAGGCCAATGCAT
1 GTCCCAGACATGTCTTACACTAGCTAT-CATAATCT-G-GGCCAA-GCAT
* * * *
223298 GTCCCAGACATGTCTTACACTGGCTATCATAATGTGGTCGAAGCAT
1 GTCCCAGACATGTCTTACACTAGCTATCATAATCTGGGCCAAGCAT
223344 GTCCCAGACATGTCTTACACTAGC
1 GTCCCAGACATGTCTTACACTAGC
223368 ACACATATCA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
46 27 0.45
47 4 0.07
48 24 0.40
49 5 0.08
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (46 bp):
GTCCCAGACATGTCTTACACTAGCTATCATAATCTGGGCCAAGCAT
Found at i:224054 original size:20 final size:18
Alignment explanation
Indices: 224017--224067 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
224007 AGTATAGAAC
224017 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
224034 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
224054 TTACAACTTTACAA
1 TCACAA-TTTACAA
224068 AATAACCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:226772 original size:44 final size:44
Alignment explanation
Indices: 226722--226808 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
226712 AGTGTCATCC
** * *
226722 ATAGCCGAAGCTATGTTGAATTGCACACTAAGTGCCATATATAT
1 ATAGCCGAAGCTATGTCAAATCGCACACTAAGTGCCACATATAT
*
226766 ATAGCCGAAGCTATGTCAAATCGTACACTAAGTGCCACATATA
1 ATAGCCGAAGCTATGTCAAATCGCACACTAAGTGCCACATATA
226809 GTTGATTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (44 bp):
ATAGCCGAAGCTATGTCAAATCGCACACTAAGTGCCACATATAT
Found at i:227026 original size:33 final size:33
Alignment explanation
Indices: 226984--227050 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
226974 GATCTAATCT
*
226984 CGTTTATCTCAATCTATATAATATAAAAATTTA
1 CGTTTATCTCAATCTATATAATATAAAAAATTA
227017 CGTTTATCTCAATCTATATAATATAAAAAATTA
1 CGTTTATCTCAATCTATATAATATAAAAAATTA
227050 C
1 C
227051 TAATTTAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.40
Consensus pattern (33 bp):
CGTTTATCTCAATCTATATAATATAAAAAATTA
Found at i:232404 original size:66 final size:67
Alignment explanation
Indices: 232275--232404 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 67
232265 GGGATGTATC
*
232275 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
232340 AGGACA
62 AGGACA
* *
232346 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
232405 TTCACCATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.16
68 1 0.02
71 21 0.38
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:257211 original size:24 final size:24
Alignment explanation
Indices: 257179--257233 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
257169 ACACCTTCAT
**
257179 ATACATATAAACATTAACACATAC
1 ATACATATAAACAGAAACACATAC
* * *
257203 ATACTTATACACAGAAACACATAT
1 ATACATATAAACAGAAACACATAC
257227 ATACATA
1 ATACATA
257234 CCTTTCGCAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.20, G:0.02, T:0.25
Consensus pattern (24 bp):
ATACATATAAACAGAAACACATAC
Found at i:261521 original size:27 final size:28
Alignment explanation
Indices: 261477--261543 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
261467 AATGGGTCAT
*
261477 AAATACCCTTG-ACTTGTAAAAT-TACTA
1 AAATACCCTTGTACGTGTAAAATGT-CTA
*
261504 AAATACCCTTGTA-GTGTAAAATGTCTG
1 AAATACCCTTGTACGTGTAAAATGTCTA
*
261531 TAATACCCTTGTA
1 AAATACCCTTGTA
261544 TGGTAGAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (28 bp):
AAATACCCTTGTACGTGTAAAATGTCTA
Found at i:261729 original size:22 final size:20
Alignment explanation
Indices: 261692--261735 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
261682 ATGGAGGAAG
*
261692 TGTACAACTTGTAGCCGTTC
1 TGTACAACTTGCAGCCGTTC
*
261712 TGTACAAGGCTTGCAGCCTTTC
1 TGTACAA--CTTGCAGCCGTTC
261734 TG
1 TG
261736 CGATACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (20 bp):
TGTACAACTTGCAGCCGTTC
Found at i:268182 original size:37 final size:37
Alignment explanation
Indices: 268119--268227 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
268109 AGCTCAGACG
* *
268119 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
268156 AAATCTCCACACGTAGTCATCCGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
268193 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
268228 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:268502 original size:48 final size:47
Alignment explanation
Indices: 268373--268554 Score: 242
Period size: 46 Copynumber: 3.8 Consensus size: 47
268363 GCACATCGCC
* *
268373 TACATATTTCACACTAGCCATTCGGCTTTGCCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATAT-CATATCTC--A
* * *
268423 TATATATTTCACATT-GACCATTCAGCGTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATAT-CATATCTCA
*
268471 TACATATTTCACATTAGCCATTCGGCTTTACCACATA-CATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATCATATCTCA
*
268517 TACATTTTTCACATTAGCCATTCGGCTTTACCACATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATAT
268555 ATGCATGTTC
Statistics
Matches: 118, Mismatches: 11, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
46 44 0.37
48 33 0.28
49 2 0.02
50 39 0.33
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (47 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATCATATCTCA
Found at i:268604 original size:47 final size:47
Alignment explanation
Indices: 268525--268718 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
268515 CATACATTTT
* * * *
268525 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
268572 CCACATTGGCCATTCGGCCTTATCACACATATGCGTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
268619 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
268666 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
268713 TCACAT
1 TCACAT
268719 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:268645 original size:22 final size:22
Alignment explanation
Indices: 268618--268689 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
268608 GCTCACATTC
268618 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
268640 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
268664 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
268687 ATC
1 ATC
268690 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:268719 original size:25 final size:25
Alignment explanation
Indices: 268640--268719 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
268630 ATTCGGCCTT
**
268640 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
268665 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
268687 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
268712 ATCACATA
1 ATCACATA
268720 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:283633 original size:27 final size:27
Alignment explanation
Indices: 283603--283780 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
283593 ATATCGAGTC
* * *
283603 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
283630 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
283657 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** ** *
283685 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
283712 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
283739 CGCACACTTAGTGCAACATATTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
283766 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
283781 GTACAATTTA
Statistics
Matches: 133, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 109 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:283742 original size:82 final size:81
Alignment explanation
Indices: 283624--283779 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
283614 TGCTATATAA
*
283624 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
283689 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
283706 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATATTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
283770 CACTTAGTGC
65 CACTTAGTGC
283780 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:286487 original size:35 final size:34
Alignment explanation
Indices: 286440--286509 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 34
286430 TATTCAAGGG
286440 TACCCATTAGGGCACTTAACCAAGAAACACTCTT
1 TACCCATTAGGGCACTTAACCAAGAAACACTCTT
*
286474 TNACCCATTAGGGCACTTAACCAAGAAACCCTCTT
1 T-ACCCATTAGGGCACTTAACCAAGAAACACTCTT
286509 T
1 T
286510 CGAGCCACTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 1 0.03
35 33 0.97
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.24
Consensus pattern (34 bp):
TACCCATTAGGGCACTTAACCAAGAAACACTCTT
Found at i:294589 original size:40 final size:40
Alignment explanation
Indices: 294485--294743 Score: 346
Period size: 40 Copynumber: 6.5 Consensus size: 40
294475 CGGATGATAA
* *
294485 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
294525 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
294564 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
294604 CCAGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
294644 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC--GAGTTACTATAT
* *
294686 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
294726 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
294744 TACTTGGTTT
Statistics
Matches: 198, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
39 49 0.25
40 111 0.56
42 38 0.19
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:299443 original size:27 final size:26
Alignment explanation
Indices: 299406--299471 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 26
299396 AGATATAGAT
*
299406 ATTTTGTGGCAGTGCCACCAGAACAG
1 ATTTTGTGGCAGGGCCACCAGAACAG
299432 ATTTATGTGGCAGGGCCACCAGAACAG
1 ATTT-TGTGGCAGGGCCACCAGAACAG
299459 ATAATTTGTGGCA
1 AT--TTTGTGGCA
299472 TAGCCACTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 4 0.11
27 23 0.64
28 7 0.19
29 2 0.06
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (26 bp):
ATTTTGTGGCAGGGCCACCAGAACAG
Found at i:299477 original size:28 final size:26
Alignment explanation
Indices: 299392--299478 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 26
299382 GTGACAGAGT
*
299392 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCA-TGC
*
299421 CACCAGAACAGAT-TTATGTGGCAGGGC
1 CACCAGAACAGATATT-TGTGGCA-TGC
299448 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAT-GC
299476 CAC
1 CAC
299479 TAGGACGCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
26 2 0.04
27 23 0.45
28 17 0.33
29 9 0.18
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (26 bp):
CACCAGAACAGATATTTGTGGCATGC
Found at i:299662 original size:28 final size:28
Alignment explanation
Indices: 299587--299680 Score: 143
Period size: 28 Copynumber: 3.3 Consensus size: 28
299577 AAATTAACCC
* * *
299587 TAGGTGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
299615 TAGGGGTTATAATGGTAATTTTGCATACA
1 TAGGGG-TATAATGGTAATTTTGCATACA
*
299644 TAGGGGTATAATGGTAATTTTGTATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
299672 TAGGGGTAT
1 TAGGGGTAT
299681 TCTAGTACAT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
28 35 0.57
29 26 0.43
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:299951 original size:16 final size:15
Alignment explanation
Indices: 299930--299959 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
299920 AAAATACCGA
299930 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
299946 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
299960 CCGATCTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:300501 original size:45 final size:45
Alignment explanation
Indices: 300437--300525 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
300427 AAAAGTCGAT
300437 CTTTCAGTGACTTTAGTATTCGGCCAAGTCCCTTTTAATGTGGGG
1 CTTTCAGTGACTTTAGTATTCGGCCAAGTCCCTTTTAATGTGGGG
*
300482 CTTTCAGTGACTTTAGTATTCGGCCAAGTCCCTTTTTATGTGGG
1 CTTTCAGTGACTTTAGTATTCGGCCAAGTCCCTTTTAATGTGGG
300526 ATTTTCGGCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (45 bp):
CTTTCAGTGACTTTAGTATTCGGCCAAGTCCCTTTTAATGTGGGG
Found at i:307411 original size:27 final size:28
Alignment explanation
Indices: 307369--307449 Score: 94
Period size: 27 Copynumber: 2.9 Consensus size: 28
307359 GTCACCAGAT
* *
307369 ACAGATATTTTGTGGCAGTGCCACCAAA
1 ACAGATATTATGTGGCAGGGCCACCAAA
*
307397 ACAGAT-TTATGTGGCAGGGCCACCAGA
1 ACAGATATTATGTGGCAGGGCCACCAAA
**
307424 ACAGATAATT-TGTGGCATAGCCACCA
1 ACAGAT-ATTATGTGGCAGGGCCACCA
307450 GGACGCTTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 24 0.52
28 20 0.43
29 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.22
Consensus pattern (28 bp):
ACAGATATTATGTGGCAGGGCCACCAAA
Found at i:307603 original size:28 final size:28
Alignment explanation
Indices: 307560--307620 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
307550 TAACCCTAGA
* *
307560 GGTATAAAGGTCATTTTTCATACATAGG
1 GGTATAAAGGTAATTTTGCATACATAGG
*
307588 GGTATAATGGTAATTTTGCATACATAGG
1 GGTATAAAGGTAATTTTGCATACATAGG
307616 GGTAT
1 GGTAT
307621 TCTAGTACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (28 bp):
GGTATAAAGGTAATTTTGCATACATAGG
Found at i:307895 original size:8 final size:8
Alignment explanation
Indices: 307869--307898 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
307859 CAAAATACCA
307869 GCTTTTCG
1 GCTTTTCG
*
307877 GCATTTCG
1 GCTTTTCG
307885 GCTTTTCG
1 GCTTTTCG
307893 GCTTTT
1 GCTTTT
307899 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:333641 original size:29 final size:30
Alignment explanation
Indices: 333535--333629 Score: 126
Period size: 29 Copynumber: 3.3 Consensus size: 30
333525 TTTCACATAC
* * *
333535 GTATCTGGCCCATTAAGCCC-AATCATATT
1 GTATATGGCCCATTAGGCCCAAATCACATT
*
333564 -CATATGGCCCATTAGGCCCAAATCAC-TT
1 GTATATGGCCCATTAGGCCCAAATCACATT
333592 GTATATGGCCCATTAGGCCCAAATCACATT
1 GTATATGGCCCATTAGGCCCAAATCACATT
333622 -TATATGGC
1 GTATATGGC
333630 TAGTTAGGCC
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
28 18 0.31
29 38 0.66
30 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (30 bp):
GTATATGGCCCATTAGGCCCAAATCACATT
Found at i:337768 original size:28 final size:29
Alignment explanation
Indices: 337736--337849 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
337726 TACCTATATC
* *
337736 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
337764 TGGCCCATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-CATA
* *
337793 TGGCCCATTTGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
337822 TGGCCTATTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
337850 ATCATGCTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 27 0.36
29 46 0.61
30 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:341429 original size:66 final size:66
Alignment explanation
Indices: 341303--341429 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
341293 TTATTGCATG
* * * *
341303 AATGTCGTTGCATGAGTTAATCCTAGATTGCATCTAGAATTGTTACTACACCTAACAGCTGCCTG
1 AATGTCGCTGCATGAGTTAATCCTAGATTGCATCCAGAATTGTCACCACACCTAACAGCTGCCTG
341368 C
66 C
* * * * *
341369 AATGTCGCTGTATGAGTTAATTCC-AGATTGCGTCCAGAATTGTCGCCACATCTAATAGCTG
1 AATGTCGCTGCATGAGTTAA-TCCTAGATTGCATCCAGAATTGTCACCACACCTAACAGCTG
341430 TCCAGATAAG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 48 0.94
67 3 0.06
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (66 bp):
AATGTCGCTGCATGAGTTAATCCTAGATTGCATCCAGAATTGTCACCACACCTAACAGCTGCCTG
C
Found at i:357041 original size:47 final size:43
Alignment explanation
Indices: 356923--357095 Score: 132
Period size: 46 Copynumber: 3.8 Consensus size: 43
356913 TCATTTGTGT
*
356923 GAGCTAGTGTAAGACATATCTGGGACATGCATCAGCCACATTAAAA
1 GAGCTAGTGTAAGACATATCTGGGACATGCATC-G--GCATTAAAA
* * * * *
356969 GAACCAGTGTAATACCATGTTTGGGACATGGCATCGGCATTAAGATGA
1 GAGCTAGTGTAAGA-CATATCTGGGACAT-GCATCGGCATTAA-A--A
* *
357017 GTGCTAGTGTAAGACATATCTGGGACATGCATCGGC-CTAGAGACA
1 GAGCTAGTGTAAGACATATCTGGGACATGCATCGGCATTA-A-A-A
* * *
357062 TAAGCTAGTGTAAGACATGTCTGCGACATGCATC
1 -GAGCTAGTGTAAGACATATCTGGGACATGCATC
357096 AGCTACGAGA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
45 9 0.09
46 52 0.51
47 25 0.25
48 16 0.16
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (43 bp):
GAGCTAGTGTAAGACATATCTGGGACATGCATCGGCATTAAAA
Found at i:358341 original size:21 final size:21
Alignment explanation
Indices: 358317--358376 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
358307 GTCAAAATGG
*
358317 TCACATGGGGGTGGTGCCCTT
1 TCACATGGGCGTGGTGCCCTT
* *
358338 TCACATAGGCGTGTTGCCCTT
1 TCACATGGGCGTGGTGCCCTT
*
358359 TCACACGGGCGT-GTGCCC
1 TCACATGGGCGTGGTGCCC
358377 CTATGTCAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 5 0.15
21 28 0.85
ACGTcount: A:0.12, C:0.30, G:0.32, T:0.27
Consensus pattern (21 bp):
TCACATGGGCGTGGTGCCCTT
Found at i:361919 original size:27 final size:27
Alignment explanation
Indices: 361866--361919 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
361856 TGTCATGTGA
* * *
361866 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
* *
361893 AATTGAATGATAAATTACTATTTCATG
1 AATTGAATGACAAATTACTATTACATG
361920 GGTTGTATGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:362243 original size:49 final size:49
Alignment explanation
Indices: 362167--362345 Score: 259
Period size: 49 Copynumber: 3.6 Consensus size: 49
362157 ATTGTGAGGC
362167 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGT
* * * * ** *
362216 CGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGATAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAA-TT-GGT
*
362267 CACATGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAATTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGT
*
362316 CACATGTGAAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
362346 TGCGTACCAG
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 69 0.62
50 4 0.04
51 39 0.35
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (49 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGT
Found at i:362343 original size:100 final size:100
Alignment explanation
Indices: 362167--362358 Score: 339
Period size: 100 Copynumber: 1.9 Consensus size: 100
362157 ATTGTGAGGC
* * *
362167 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAATTGGTCACATGTGAAGTACTA
*
362232 AGTGCAAGCTACTATGCGTACCCGATAACTTCGAT
66 AGTGCAAGCTACTATGCGTACCAGATAACTTCGAT
362267 CACATGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAATTGGTCACATGTGAAGTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAATTGGTCACATGTGAAGTACTA
*
362332 AGTGCAGGCTACTATGCGTACCAGATA
66 AGTGCAAGCTACTATGCGTACCAGATA
362359 GCCTTGTCTA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (100 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAATTGGTCACATGTGAAGTACTA
AGTGCAAGCTACTATGCGTACCAGATAACTTCGAT
Found at i:366558 original size:27 final size:27
Alignment explanation
Indices: 366519--366742 Score: 265
Period size: 27 Copynumber: 8.3 Consensus size: 27
366509 GGAACAGAAT
*
366519 AATGACTGAAATACCCCCATAGGGTAA
1 AATGACTAAAATACCCCCATAGGGTAA
* *
366546 AATAACTAAAATATCCCCATAGGGTAA
1 AATGACTAAAATACCCCCATAGGGTAA
*
366573 AATGACTAAAATACCCTCATAGGGTAA
1 AATGACTAAAATACCCCCATAGGGTAA
* *
366600 AATGACTGAAATACCCCTATAGGGTAA
1 AATGACTAAAATACCCCCATAGGGTAA
**
366627 AATGA-TCGGAATACCCCCATAGGGTAA
1 AATGACT-AAAATACCCCCATAGGGTAA
*
366654 AATGAC-AGAAATACCCCCATAAGGTAA
1 AATGACTA-AAATACCCCCATAGGGTAA
*
366681 AATTA-TCAAAATACCCCCATAGGGTAA
1 AATGACT-AAAATACCCCCATAGGGTAA
** ** *
366708 AATGACTGTAATACCCCTGTAAGGTAA
1 AATGACTAAAATACCCCCATAGGGTAA
366735 AATGACTA
1 AATGACTA
366743 TTTTTCCCTT
Statistics
Matches: 168, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 165 0.98
28 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (27 bp):
AATGACTAAAATACCCCCATAGGGTAA
Found at i:366843 original size:80 final size:80
Alignment explanation
Indices: 366733--366891 Score: 187
Period size: 80 Copynumber: 2.0 Consensus size: 80
366723 CCTGTAAGGT
* * * *
366733 AAAATGACTATTTTTCCCTTATGTGTTAAAATGACAAT-TTTACCCTTATGTGATAAAATGA-TG
1 AAAATGACTATTTTGCCCTTATATGGTAAAATGACAATCTTT-CCCTTATGAGATAAAATGACT-
* *
366796 GTTTTTCCCTTATGTGC
64 ATTTTACCCTTATGTGC
* * ** *
366813 AAAATGATTGTTTTGCCCTTATATGGTAAAATGACGGTCTTTCCCTTATGAGGTAAAATGACTAT
1 AAAATGACTATTTTGCCCTTATATGGTAAAATGACAATCTTTCCCTTATGAGATAAAATGACTAT
366878 TTTACCCTTATGTG
66 TTTACCCTTATGTG
366892 GTAGGATGAC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 62 0.94
81 4 0.06
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (80 bp):
AAAATGACTATTTTGCCCTTATATGGTAAAATGACAATCTTTCCCTTATGAGATAAAATGACTAT
TTTACCCTTATGTGC
Found at i:366894 original size:54 final size:53
Alignment explanation
Indices: 366730--366894 Score: 195
Period size: 54 Copynumber: 3.1 Consensus size: 53
366720 ACCCCTGTAA
** * *
366730 GGTAAAATGACTATTTTTCCCTTATGTGTTAAAATGACAATTTTACCCTTATGT
1 GGTAAAATGACGGTTTTTCCCTTATG-GGTAAAATGACTATTTTACCCTTATGT
* * * * * * * *
366784 GATAAAATGATGGTTTTTCCCTTATGTGCAAAATGATTGTTTTGCCCTTATAT
1 GGTAAAATGACGGTTTTTCCCTTATGGGTAAAATGACTATTTTACCCTTATGT
*
366837 GGTAAAATGACGGTCTTTCCCTTATGAGGTAAAATGACTATTTTACCCTTATGT
1 GGTAAAATGACGGTTTTTCCCTTATG-GGTAAAATGACTATTTTACCCTTATGT
366891 GGTA
1 GGTA
366895 GGATGACTGT
Statistics
Matches: 89, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
53 42 0.47
54 47 0.53
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (53 bp):
GGTAAAATGACGGTTTTTCCCTTATGGGTAAAATGACTATTTTACCCTTATGT
Found at i:366900 original size:27 final size:27
Alignment explanation
Indices: 366703--366907 Score: 173
Period size: 27 Copynumber: 7.6 Consensus size: 27
366693 ACCCCCATAG
** * * **
366703 GGTAAAATGACTGTAATACCCCTGTAA
1 GGTAAAATGACTGTTTTACCCTTATGT
* *
366730 GGTAAAATGACTATTTTTCCCTTATGT
1 GGTAAAATGACTGTTTTACCCTTATGT
* **
366757 GTTAAAATGACAATTTTACCCTTATGT
1 GGTAAAATGACTGTTTTACCCTTATGT
* *
366784 GATAAAATGA-TGGTTTTTCCCTTATGT
1 GGTAAAATGACT-GTTTTACCCTTATGT
* * * *
366811 -GCAAAATGATTGTTTTGCCCTTATAT
1 GGTAAAATGACTGTTTTACCCTTATGT
* *
366837 GGTAAAATGACGGTCTTT-CCCTTATGA
1 GGTAAAATGACTGT-TTTACCCTTATGT
*
366864 GGTAAAATGACTATTTTACCCTTATGT
1 GGTAAAATGACTGTTTTACCCTTATGT
**
366891 GGTAGGATGACTGTTTT
1 GGTAAAATGACTGTTTT
366908 GCCCCTAAGT
Statistics
Matches: 143, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
26 23 0.16
27 117 0.82
28 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (27 bp):
GGTAAAATGACTGTTTTACCCTTATGT
Found at i:367268 original size:18 final size:18
Alignment explanation
Indices: 367242--367314 Score: 119
Period size: 18 Copynumber: 4.1 Consensus size: 18
367232 AGGACTTGAT
*
367242 ACTGCTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
*
367260 ACTGTTTACTGTTACTAC
1 ACTGTTTACTGTTACTGC
*
367278 ACTGATTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
367296 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGTTACTGC
367314 A
1 A
367315 ATGGGCCAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (18 bp):
ACTGTTTACTGTTACTGC
Found at i:367288 original size:7 final size:6
Alignment explanation
Indices: 367241--367312 Score: 51
Period size: 6 Copynumber: 11.8 Consensus size: 6
367231 TAGGACTTGA
* * *
367241 TACTGCT TACTGT TACTG- CACTGTT TACTGT TACT-A CACTGAT TACTGT
1 TACTG-T TACTGT TACTGT TACTG-T TACTGT TACTGT TACTG-T TACTGT
*
367290 TACTG- CACTGTT TACTGT TACTG
1 TACTGT TACTG-T TACTGT TACTG
367313 CAATGGGCCA
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
5 11 0.22
6 23 0.45
7 17 0.33
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.43
Consensus pattern (6 bp):
TACTGT
Found at i:367294 original size:36 final size:36
Alignment explanation
Indices: 367242--367311 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
367232 AGGACTTGAT
*
367242 ACTGCTTACTGTTACTGCACTGTTTACTGTTACTAC
1 ACTGATTACTGTTACTGCACTGTTTACTGTTACTAC
367278 ACTGATTACTGTTACTGCACTGTTTACTGTTACT
1 ACTGATTACTGTTACTGCACTGTTTACTGTTACT
367312 GCAATGGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (36 bp):
ACTGATTACTGTTACTGCACTGTTTACTGTTACTAC
Found at i:371058 original size:15 final size:13
Alignment explanation
Indices: 371029--371055 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
371019 GCTCAGTAGG
371029 GACACGCCCGTGT
1 GACACGCCCGTGT
371042 GACACGCCCGTGT
1 GACACGCCCGTGT
371055 G
1 G
371056 TGATTACTCC
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:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:382957 original size:13 final size:14
Alignment explanation
Indices: 382932--382972 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
382922 AAATAAGATA
382932 AATAAATATAAAAGT
1 AATAAATA-AAAAGT
*
382947 GA-AAATAAAAA-T
1 AATAAATAAAAAGT
382959 AATAAATAAAAAGT
1 AATAAATAAAAAGT
382973 TTTTAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 2 0.09
13 13 0.59
14 6 0.27
15 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (14 bp):
AATAAATAAAAAGT
Found at i:385566 original size:28 final size:28
Alignment explanation
Indices: 385511--385589 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
385501 TGTACCATAT
* *
385511 TCGATAC-CTCACACGCTAAGTGCTATTC
1 TCGATACTTTCACACACTAAGTGC-ATTC
* *
385539 TGGAT-GTTTCACACACTAAGTGTCATTC
1 TCGATACTTTCACACACTAAGTG-CATTC
*
385567 TCGATACTTT-GCACACTAAGTGC
1 TCGATACTTTCACACACTAAGTGC
385590 CATTTATATC
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
27 1 0.02
28 36 0.88
29 4 0.10
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (28 bp):
TCGATACTTTCACACACTAAGTGCATTC
Found at i:391758 original size:90 final size:89
Alignment explanation
Indices: 391571--391832 Score: 315
Period size: 90 Copynumber: 3.0 Consensus size: 89
391561 TTTCATCAAA
* * * *
391571 TCACCGGCATT-TAGCCTGCTAGGTTTTAAAAACCCGAAT--TCAT-TCACTGGCATTTCGCCTG
1 TCACCGGCATTATAGCCTGCTAGG--CTCAAAGCCCGAATAGT-ATCTCACTGGCATTTAGCCTG
* * * *
391632 CTAGGCTC-GAGGCCTG-ATA-TCCTT
63 CTAGGCTCAAAGGCCCGAATAGTCATC
391656 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGTATCTCACTGGCATTGTAGCCTGC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCCGAATAGTATCTCACTGGCATT-TAGCCTGC
391721 TAGGCTCAAAGGCCCGAATAGT-ATC
64 TAGGCTCAAAGGCCCGAATAGTCATC
* *
391746 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTCTCACCGGCATTATAGCCTGC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTATCTCACTGGCATT-TAGCCTGC
391811 TAGGCTCAAAGGCCCGAATAGT
64 TAGGCTCAAAGGCCCGAATAGT
391833 GTCGTACGAT
Statistics
Matches: 156, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
84 1 0.01
85 21 0.13
86 14 0.09
87 12 0.08
88 14 0.09
89 9 0.06
90 84 0.54
91 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (89 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACTGGCATTTAGCCTGCTA
GGCTCAAAGGCCCGAATAGTCATC
Found at i:391835 original size:45 final size:45
Alignment explanation
Indices: 391656--391832 Score: 311
Period size: 45 Copynumber: 3.9 Consensus size: 45
391646 TGATATCCTT
391656 TCACCGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
* *
391701 TCACTGGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
391746 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
391791 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
391833 GTCGTACGAT
Statistics
Matches: 126, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
44 3 0.02
45 123 0.98
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:395280 original size:43 final size:42
Alignment explanation
Indices: 395124--395280 Score: 113
Period size: 43 Copynumber: 3.7 Consensus size: 42
395114 TGTGTTACTG
* *
395124 TGTAAGATCACGTCTGGGACGTTGGCATCGACT-TATGATTTAA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTAA
* * * **
395167 GTGTAAGACCACGTCTGGGATGTTGGAAT-AATATTTGATTTTG
1 -TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGA-TTAA
* *** * * *
395210 TGTAAGATCTTATCTTGGAAAG-AGGCATCGATATTTGATTACA
1 TGTAAGACCACGTC-TGGGACGTTGGCATCGATATTTGATTA-A
395253 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
395281 TGTACGAGCT
Statistics
Matches: 83, Mismatches: 25, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
42 22 0.27
43 36 0.43
44 25 0.30
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAA
Found at i:397428 original size:27 final size:26
Alignment explanation
Indices: 397376--397435 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
397366 CCACATATAT
*
397376 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
397402 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
397429 ATATCTG
1 ATATCTG
397436 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:402099 original size:13 final size:13
Alignment explanation
Indices: 402081--402105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
402071 ACAAATGATA
402081 AAATTTTCACACG
1 AAATTTTCACACG
402094 AAATTTTCACAC
1 AAATTTTCACAC
402106 ATTAATTCAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:409733 original size:27 final size:27
Alignment explanation
Indices: 409703--409809 Score: 121
Period size: 27 Copynumber: 3.9 Consensus size: 27
409693 GGCTGGCAAA
* *
409703 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
409730 ACAGATAA-GCATGGCAGAGCCACCAGA-
1 ACAGATAATG--TGGCAGAGCCACCAGAT
*
409757 ACAGATATATGTGGTAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
409785 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
409810 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
26 2 0.03
27 51 0.74
28 15 0.22
29 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.17
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:409760 original size:54 final size:54
Alignment explanation
Indices: 409702--409809 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
409692 TGGCTGGCAA
*
409702 AACAGATA-ATGTGACAGAGTCACCAGATACAGATAAGCATGGCAGAGCCACCAG
1 AACAGATATATGTGACAGAGCCACCAGAT-CAGATAAGCATGGCAGAGCCACCAG
** *** *
409756 AACAGATATATGTGGTAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 AACAGATATATGTGACAGAGCCACCAGATCAGATAAGCATGGCAGAGCCACCAG
409810 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
54 29 0.63
55 17 0.37
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (54 bp):
AACAGATATATGTGACAGAGCCACCAGATCAGATAAGCATGGCAGAGCCACCAG
Done.