Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold4087.1
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: 81809
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.30
Warning! 7262 characters in sequence are not A, C, G, or T
Found at i:2961 original size:55 final size:55
Alignment explanation
Indices: 2877--2985 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
2867 TGGGAAAGAA
2877 TCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATAACTGAACTG
1 TCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATAACTGAACTG
*
2932 TCTACTAGCTTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATAACTGAACT
1 TCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATAACTGAACT
2986 AGAAAGATTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.20
Consensus pattern (55 bp):
TCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATAACTGAACTG
Found at i:12156 original size:44 final size:44
Alignment explanation
Indices: 12063--12301 Score: 136
Period size: 44 Copynumber: 5.5 Consensus size: 44
12053 ATTTCAGATA
*
12063 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATC
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGTAATC
* * * * *
12107 CTATCTTCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG-GATC
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAAT--AGTAATC
* ** * * * *
12151 TTATCTCTCTGA-AGTTACAGTAGAGTAGATCG--CATCAG--GTC
1 TTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAAAT-AGTAATC
* * ** *
12192 TTATCTCCCTGAGGTTACAGTGGAGCAGA-CCAAGGAAT-TTCAGATC
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAA--AATAGT-A-ATC
* * **
12238 TTATCTCCCTGATATTACAGCGGAGTAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGTAATC
*
12282 CTATCTCCCTGAGATTACAG
1 TTATCTCCCTGAGATTACAG
12302 TGGAATGGAT
Statistics
Matches: 145, Mismatches: 35, Indels: 30
0.69 0.17 0.14
Matches are distributed among these distances:
40 1 0.01
41 26 0.18
42 2 0.01
43 7 0.05
44 75 0.52
45 4 0.03
46 28 0.19
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGTAATC
Found at i:12358 original size:88 final size:88
Alignment explanation
Indices: 12059--12378 Score: 299
Period size: 88 Copynumber: 3.6 Consensus size: 88
12049 AAAAATTTCA
* * * * *
12059 GATATTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTTCCTGAGATTA
1 GATATTATCTCCCTAAGATTACAGCAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
12124 CAGTGGAGCGGATTAAAATAAAG
66 CAGTGGAGCGGATTAAAATAAAG
* * * * * * * * *
12147 GATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCGCATC-AG--GTCTTATCTCCCTGAGGTT
1 GATATTATCTCCCT-AAGATTACAGCAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* ** **
12208 ACAGTGGAGCAGACCAAGGAATTTCA-
65 ACAGTGGAGCGGATTAA--AA-TAAAG
* * * *
12234 GATCTTATCTCCCTGATATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
1 GATATTATCTCCCTAAGATTACAGCAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
**
12299 CAGTGGAATGGATTAAAATAAAG
66 CAGTGGAGCGGATTAAAATAAAG
* * * * *
12322 GATATTATCTCTCTAAGATTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCC
1 GATATTATCTCCCTAAGATTACAGCAGAGTAGATTGAAGCTAGTAATCCTATCTCCC
12379 CGACGTGGTG
Statistics
Matches: 177, Mismatches: 46, Indels: 18
0.73 0.19 0.07
Matches are distributed among these distances:
85 29 0.16
86 1 0.01
87 36 0.20
88 81 0.46
89 2 0.01
90 28 0.16
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
GATATTATCTCCCTAAGATTACAGCAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
CAGTGGAGCGGATTAAAATAAAG
Found at i:15112 original size:26 final size:26
Alignment explanation
Indices: 15082--15205 Score: 176
Period size: 26 Copynumber: 4.7 Consensus size: 26
15072 TTCCTTATTT
* *
15082 GCCACAAAGGCATTCTTTCATATTAT
1 GCCACAAAGGCTTTCTTTCATATTAC
15108 GCCACAAAGGCTTTCTTTCATATTAC
1 GCCACAAAGGCTTTCTTTCATATTAC
**
15134 ATCACAAAGGCTTTCTTTCATATTAC
1 GCCACAAAGGCTTTCTTTCATATTAC
*
15160 GCCACAAAGGATTTTCTTTCATATTAC
1 GCCACAAAGG-CTTTCTTTCATATTAC
* *
15187 GTCATAAAGGCTTTCTTTC
1 GCCACAAAGGCTTTCTTTC
15206 TTCATATTAC
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 64 0.74
27 23 0.26
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.37
Consensus pattern (26 bp):
GCCACAAAGGCTTTCTTTCATATTAC
Found at i:15866 original size:20 final size:19
Alignment explanation
Indices: 15823--15866 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
15813 CCGTCACACC
*
15823 AAAATTTAATTAATTTTTT
1 AAAATTTAATAAATTTTTT
15842 AAAATTTAA-AAATATTTTT
1 AAAATTTAATAAAT-TTTTT
15861 ATAAAT
1 A-AAAT
15867 GTTACACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 15 0.68
20 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAATTTAATAAATTTTTT
Found at i:22172 original size:6 final size:6
Alignment explanation
Indices: 22119--22168 Score: 91
Period size: 6 Copynumber: 8.3 Consensus size: 6
22109 GAGTGAGTAT
*
22119 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGAGTA
1 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
22167 TG
1 TG
22169 AGTACGAGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.34
Consensus pattern (6 bp):
TGGGTA
Found at i:22929 original size:28 final size:27
Alignment explanation
Indices: 22894--22951 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
22884 AGGTTCTGAA
22894 TAAAAAGAAATATGTTTT-GTTGAAATAG
1 TAAAAAGAAATAT-TTTTAGTTG-AATAG
22922 TAAAAAGAAATATTTTTAGTTGAATAG
1 TAAAAAGAAATATTTTTAGTTGAATAG
22949 TAA
1 TAA
22952 GATTGCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 12 0.41
28 17 0.59
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (27 bp):
TAAAAAGAAATATTTTTAGTTGAATAG
Found at i:23348 original size:16 final size:16
Alignment explanation
Indices: 23327--23360 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
23317 AAGGACATCT
23327 TTCGGTTTACCTCTGA
1 TTCGGTTTACCTCTGA
23343 TTCGGTTTACCTCTGA
1 TTCGGTTTACCTCTGA
23359 TT
1 TT
23361 ATTACATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.47
Consensus pattern (16 bp):
TTCGGTTTACCTCTGA
Found at i:26485 original size:4 final size:4
Alignment explanation
Indices: 26476--26509 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
26466 ACAAAGGTGC
26476 TTTA TTTA TTTA TTTA TTTA TTTA TTT- TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
26510 CAAAATAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:28643 original size:3 final size:3
Alignment explanation
Indices: 28621--28814 Score: 86
Period size: 3 Copynumber: 65.0 Consensus size: 3
28611 AAATGGAAAT
* * * * *
28621 ATA ATG ATA AGA ACA ATA ATA ATA ATA TTA ATA TTA ATAA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * * * * * * * *
28666 AAA ATA ACA ACA TTA GTA ATA ATT CTA ATG ATA ATA CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * * * * *
28714 GTA AGG GTA ATA ATA ATA ATA TTA TTA ATA ATA CTA CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * ** * *
28762 ATC GTA ATC ATA A-A CTA ATT AGC TTA ATA ATA ATA AAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
28809 ATA ATA
1 ATA ATA
28815 GGACTAAATT
Statistics
Matches: 136, Mismatches: 52, Indels: 6
0.70 0.27 0.03
Matches are distributed among these distances:
2 3 0.02
3 130 0.96
4 3 0.02
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:29845 original size:2 final size:2
Alignment explanation
Indices: 29840--29869 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
29830 TCATTATTAT
29840 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
29870 TATATATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:30773 original size:38 final size:37
Alignment explanation
Indices: 30704--30776 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
30694 TTTTCATAAT
* *
30704 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
30741 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
30777 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:30807 original size:23 final size:22
Alignment explanation
Indices: 30764--30807 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
30754 TTTCAAGTCA
30764 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
30787 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
30808 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:30932 original size:23 final size:23
Alignment explanation
Indices: 30906--31004 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
30896 ATAAGTGCCA
30906 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
30929 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
30952 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
30975 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
30998 CACTGAT
1 CACTGAT
31005 CAATAACACT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:30973 original size:46 final size:46
Alignment explanation
Indices: 30906--31004 Score: 189
Period size: 46 Copynumber: 2.2 Consensus size: 46
30896 ATAAGTGCCA
*
30906 CACTGATATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
30952 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
30998 CACTGAT
1 CACTGAT
31005 CAATAACACT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (46 bp):
CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
Found at i:36623 original size:29 final size:28
Alignment explanation
Indices: 36560--36615 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
36550 ACCCTAATCC
36560 AATTAAAAAATGGGTTTGTGGTTCAGCA
1 AATTAAAAAATGGGTTTGTGGTTCAGCA
*
36588 AATTAAAAAATGTGTTTGTGGTTCAGCA
1 AATTAAAAAATGGGTTTGTGGTTCAGCA
36616 GCTTTAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (28 bp):
AATTAAAAAATGGGTTTGTGGTTCAGCA
Found at i:39788 original size:25 final size:25
Alignment explanation
Indices: 39743--39790 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
39733 AAAAAATTAA
* *
39743 TTTATTTTTAATTATTTAAATATTT
1 TTTATTTTGAATTATTCAAATATTT
39768 TTTATTTTGAACTTA-TCAAATAT
1 TTTATTTTGAA-TTATTCAAATAT
39791 GGTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTATTTTGAATTATTCAAATATTT
Found at i:45948 original size:20 final size:18
Alignment explanation
Indices: 45923--45974 Score: 50
Period size: 20 Copynumber: 2.8 Consensus size: 18
45913 CAATAAATGC
45923 ATAAAAAATTATAAAAAT
1 ATAAAAAATTATAAAAAT
** *
45941 AATCAAAATTTTACAAAAAT
1 -AT-AAAAAATTATAAAAAT
*
45961 ATAAAAAATAATAA
1 ATAAAAAATTATAA
45975 GCGTAATTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 3
0.71 0.20 0.09
Matches are distributed among these distances:
18 8 0.32
19 4 0.16
20 13 0.52
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAAAAAATTATAAAAAT
Found at i:46128 original size:20 final size:21
Alignment explanation
Indices: 46077--46131 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
46067 TTCTTTACAA
*
46077 TTTT-TTATAATTTTTGTGAT
1 TTTTATTATAATTTTTCTGAT
* *
46097 TTCTA-TAAAATTTTTCT-AT
1 TTTTATTATAATTTTTCTGAT
46116 TTTTATTATAATTTTT
1 TTTTATTATAATTTTT
46132 AAATATTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTATTATAATTTTTCTGAT
Found at i:46149 original size:10 final size:9
Alignment explanation
Indices: 46057--46194 Score: 51
Period size: 10 Copynumber: 13.8 Consensus size: 9
46047 TTTGAATTTT
46057 TTTTTATAAA
1 TTTTTAT-AA
*
46067 TTCTTTACAA
1 TT-TTTATAA
46077 TTTTTTATAA
1 -TTTTTATAA
* *
46087 TTTTTGTGA
1 TTTTTATAA
*
46096 TTTCTATAAAA
1 TTT-T-TATAA
* *
46107 TTTTTCTATT
1 TTTTTATA-A
46117 TTTATTATAA
1 TTT-TTATAA
*
46127 TTTTTAAATA
1 TTTTTATA-A
46137 TTTTCTATAA
1 TTTT-TATAA
46147 TTTTTTATAAAA
1 -TTTTTAT--AA
* *
46159 TTTTAATAT
1 TTTTTATAA
46168 TTTTCTATAA
1 TTTT-TATAA
* *
46178 CTTTTATCGA
1 TTTTTAT-AA
46188 TTTTTAT
1 TTTTTAT
46195 TTCTTTTATC
Statistics
Matches: 94, Mismatches: 21, Indels: 26
0.67 0.15 0.18
Matches are distributed among these distances:
9 24 0.26
10 40 0.43
11 28 0.30
12 2 0.02
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:46172 original size:31 final size:31
Alignment explanation
Indices: 46102--46182 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
46092 GTGATTTCTA
**
46102 TAAA-ATTTTTCTAT--TTTTATTATAATTTT
1 TAAATATTTTTCTATAATTTT-TTATAAAATT
46131 TAAATAT-TTTCTATAATTTTTTATAAAATT
1 TAAATATTTTTCTATAATTTTTTATAAAATT
* *
46161 TTAATATTTTTCTATAACTTTT
1 TAAATATTTTTCTATAATTTTT
46183 ATCGATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
29 11 0.25
30 16 0.36
31 17 0.39
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (31 bp):
TAAATATTTTTCTATAATTTTTTATAAAATT
Found at i:50763 original size:32 final size:31
Alignment explanation
Indices: 50721--50783 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
50711 TTGAATTTAA
* *
50721 TAAAATAAAACAAA-ACATTAAATTAAATATT
1 TAAAATAAAACAAATA-ATAAAATCAAATATT
50752 TAAAAGTAAAACAAATAATAAAATCAAATATT
1 TAAAA-TAAAACAAATAATAAAATCAAATATT
50784 CATATCCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 5 0.18
32 22 0.79
33 1 0.04
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (31 bp):
TAAAATAAAACAAATAATAAAATCAAATATT
Found at i:59611 original size:18 final size:18
Alignment explanation
Indices: 59578--59620 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
59568 ATGTTATAAA
59578 GATGGAA-AGAGGGTGAT
1 GATGGAATAGAGGGTGAT
*
59595 GATGGAATAGAGTGTGAT
1 GATGGAATAGAGGGTGAT
59613 GATGGAAT
1 GATGGAAT
59621 TAAGGCCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.35, C:0.00, G:0.42, T:0.23
Consensus pattern (18 bp):
GATGGAATAGAGGGTGAT
Found at i:59803 original size:29 final size:29
Alignment explanation
Indices: 59676--59841 Score: 136
Period size: 29 Copynumber: 5.6 Consensus size: 29
59666 GTCATTAGGG
* *
59676 TTTATCAGACACTATGTACAGGTGATTATA
1 TTTATCAGGCACTATGTACCGGTG-TTATA
* * * **
59706 TTTATTAGGTACTATGAACCGGTGGCCATA
1 TTTATCAGGCACTATGTACCGGT-GTTATA
* * * * *
59736 -TTATCAAGTACTTTGTATCGGTGTTCATG
1 TTTATCAGGCACTATGTACCGGTGTT-ATA
*
59765 TTGTATCAGGCACTATGTGCCGGTGTTATA
1 TT-TATCAGGCACTATGTACCGGTGTTATA
* *
59795 TTTATCAGGCACTATGTGCCAGTGTTATA
1 TTTATCAGGCACTATGTACCGGTGTTATA
**
59824 TTTATCAGATACTATGTA
1 TTTATCAGGCACTATGTA
59842 TAGGTGGTGG
Statistics
Matches: 107, Mismatches: 25, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
28 1 0.01
29 60 0.56
30 26 0.24
31 20 0.19
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (29 bp):
TTTATCAGGCACTATGTACCGGTGTTATA
Found at i:59830 original size:89 final size:90
Alignment explanation
Indices: 59678--59847 Score: 193
Period size: 89 Copynumber: 1.9 Consensus size: 90
59668 CATTAGGGTT
* * *
59678 TATCAGACACTATGTACAGGTGATTATATTTATTAGGTACTATGAACCGGTGGCCATATTATCA-
1 TATCAGACACTATGTACAGGTGATTATATTTATCAGGCACTATGAACCAGTGGCCATATTATCAG
* *
59742 AGTACTTTGTATCGGTGTTCATGTTG
66 A-TACTATGTATAGGTGTTCATGTTG
* * * ** **
59768 TATCAGGCACTATGTGCCGGTG-TTATATTTATCAGGCACTATGTGCCAGT-GTTATATTTATCA
1 TATCAGACACTATGTACAGGTGATTATATTTATCAGGCACTATGAACCAGTGGCCATA-TTATCA
59831 GATACTATGTATAGGTG
65 GATACTATGTATAGGTG
59848 GTGGATATCA
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
88 4 0.06
89 42 0.64
90 20 0.30
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.38
Consensus pattern (90 bp):
TATCAGACACTATGTACAGGTGATTATATTTATCAGGCACTATGAACCAGTGGCCATATTATCAG
ATACTATGTATAGGTGTTCATGTTG
Found at i:61917 original size:51 final size:51
Alignment explanation
Indices: 61790--61972 Score: 194
Period size: 51 Copynumber: 3.6 Consensus size: 51
61780 AAAGTGATGG
* * *
61790 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-ATGATAGGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GTTATGA
* * * * *
61841 TGCA--TGTCTAGTACTATGTGTAGGCTACTATGCGTACCGGATAGTTTTGA
1 T-CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTATGA
* * *
61891 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAAT-A
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTATGA
* *
61941 GTCACATGTGTAGTACTATGTGCAGGGTACTA
1 -TCACGTGTGTAGTACTATGTGCAGGCTACTA
61973 TATGAACTGA
Statistics
Matches: 109, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 2 0.02
50 38 0.35
51 67 0.61
52 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTATGA
Found at i:62034 original size:45 final size:45
Alignment explanation
Indices: 61983--62071 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
61973 TATGAACTGA
* *
61983 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
*
62028 ACATCATTGATTAATGAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
62072 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:65558 original size:6 final size:6
Alignment explanation
Indices: 65534--65614 Score: 72
Period size: 6 Copynumber: 13.0 Consensus size: 6
65524 CAAGTCGTTG
* * * * * *
65534 CCTCCA CTTCCA CCACCT CCTCCT CCTCCA CCACCA CCTCCT CCTCCA
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA
*
65582 CCTCCA CCTCCA CCACTACCA CCTCCA CTTCCA
1 CCTCCA CCTCCA -C-CT-CCA CCTCCA CCTCCA
65615 TATCCGGACC
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
6 52 0.85
7 3 0.05
8 3 0.05
9 3 0.05
ACGTcount: A:0.17, C:0.63, G:0.00, T:0.20
Consensus pattern (6 bp):
CCTCCA
Found at i:65563 original size:18 final size:18
Alignment explanation
Indices: 65542--65592 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
65532 TGCCTCCACT
*
65542 TCCACCACCTCCTCCTCC
1 TCCACCACCACCTCCTCC
65560 TCCACCACCACCTCCTCC
1 TCCACCACCACCTCCTCC
*
65578 TCCACCTCCACCTCC
1 TCCACCACCACCTCC
65593 ACCACTACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.14, C:0.67, G:0.00, T:0.20
Consensus pattern (18 bp):
TCCACCACCACCTCCTCC
Found at i:65603 original size:15 final size:15
Alignment explanation
Indices: 65558--65609 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
65548 ACCTCCTCCT
* *
65558 CCTCCACCACCACCT
1 CCTCCACCACTACCA
*
65573 CCTCCTCCACCT-CCA
1 CCTCCACCA-CTACCA
65588 CCTCCACCACTACCA
1 CCTCCACCACTACCA
65603 CCTCCAC
1 CCTCCAC
65610 TTCCATATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.06
15 28 0.90
16 1 0.03
ACGTcount: A:0.19, C:0.65, G:0.00, T:0.15
Consensus pattern (15 bp):
CCTCCACCACTACCA
Found at i:65654 original size:3 final size:3
Alignment explanation
Indices: 65648--65705 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
65638 TCCTCCATTG
* * * * * *
65648 CCA CCA CCA CCT CCA CCA CCT CTA CCA CCA CCA CCT CCT CCA CCA CCT
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
*
65696 CCA CCT CCA C
1 CCA CCA CCA C
65706 TTCCATATCC
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.22, C:0.66, G:0.00, T:0.12
Consensus pattern (3 bp):
CCA
Found at i:65665 original size:9 final size:9
Alignment explanation
Indices: 65651--65700 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
65641 TCCATTGCCA
65651 CCACCACCT
1 CCACCACCT
65660 CCACCACCT
1 CCACCACCT
* *
65669 CTACCACCA
1 CCACCACCT
*
65678 CCACCTCCT
1 CCACCACCT
65687 CCACCACCT
1 CCACCACCT
65696 CCACC
1 CCACC
65701 TCCACTTCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.22, C:0.66, G:0.00, T:0.12
Consensus pattern (9 bp):
CCACCACCT
Found at i:65665 original size:12 final size:12
Alignment explanation
Indices: 65648--65710 Score: 74
Period size: 12 Copynumber: 5.2 Consensus size: 12
65638 TCCTCCATTG
65648 CCACCACCACCT
1 CCACCACCACCT
*
65660 CCACCACC-TCT
1 CCACCACCACCT
65671 ACCACCACCACCT
1 -CCACCACCACCT
*
65684 CCTCCACCACCT
1 CCACCACCACCT
* *
65696 CCACCTCCACTT
1 CCACCACCACCT
65708 CCA
1 CCA
65711 TATCCAGATC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
11 2 0.05
12 39 0.91
13 2 0.05
ACGTcount: A:0.22, C:0.63, G:0.00, T:0.14
Consensus pattern (12 bp):
CCACCACCACCT
Found at i:65679 original size:114 final size:107
Alignment explanation
Indices: 65543--65879 Score: 404
Period size: 114 Copynumber: 3.1 Consensus size: 107
65533 GCCTCCACTT
* * * *
65543 CCACCACCTCCTCCTCCT-CCACCACCACCTCCTCCTCCACCTCCACCTCCACCACTACCACCTC
1 CCACCGCCTCCACCACCTACCACCACCACCTCCTCCACCACCTCCACCTCCACCACTACCA--TC
65607 CACTTCCATATCCGGACCCATATCCTGACCCTCCTCCATTGCCA
64 CACTTCCATATCCGGACCCATATCCTGACCCTCCTCCATTGCCA
*
65651 CCACCACCTCCACCACCTCTACCACCACCACCTCCTCCACCACCTCCACCTCCACTTC-CATATC
1 CCACCGCCTCCACCA-C-CTACCACCACCACCTCCTCCACCACCTCCACCTCCAC--CAC-TA-C
*
65715 CAGATCCACTTCCATATCCGGACCCATATCCTGACCCTCCTCTATTGCCA
60 C--ATCCACTTCCATATCCGGACCCATATCCTGACCCTCCTCCATTGCCA
*
65765 CCACCGCCTCCACCACCTCCACCACCACCACCTCCTCCACCACCTCCACCT---CCACTTCCAT-
1 CCACCGCCTCCACCACCT--ACCACCACCACCTCCTCCACCACCTCCACCTCCACCACTACCATC
* ** *
65826 -A--TCCAGATCCAAACCCATATCCTGACCCTTCTCCATTGCCA
64 CACTTCCATATCCGGACCCATATCCTGACCCTCCTCCATTGCCA
65867 CCACCGCCTCCAC
1 CCACCGCCTCCAC
65880 TTCCATATCC
Statistics
Matches: 206, Mismatches: 11, Indels: 30
0.83 0.04 0.12
Matches are distributed among these distances:
102 48 0.23
104 1 0.00
106 2 0.01
108 15 0.07
109 3 0.01
110 3 0.01
111 34 0.17
112 3 0.01
113 4 0.02
114 92 0.45
116 1 0.00
ACGTcount: A:0.21, C:0.55, G:0.04, T:0.20
Consensus pattern (107 bp):
CCACCGCCTCCACCACCTACCACCACCACCTCCTCCACCACCTCCACCTCCACCACTACCATCCA
CTTCCATATCCGGACCCATATCCTGACCCTCCTCCATTGCCA
Found at i:65716 original size:18 final size:18
Alignment explanation
Indices: 65695--65733 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
65685 CTCCACCACC
*
65695 TCCACCTCCACTTCCATA
1 TCCACATCCACTTCCATA
*
65713 TCCAGATCCACTTCCATA
1 TCCACATCCACTTCCATA
65731 TCC
1 TCC
65734 GGACCCATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.46, G:0.03, T:0.28
Consensus pattern (18 bp):
TCCACATCCACTTCCATA
Found at i:65779 original size:12 final size:12
Alignment explanation
Indices: 65762--65824 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
65752 TCCTCTATTG
*
65762 CCACCACCGCCT
1 CCACCACCACCT
* *
65774 CCACCACCTCCA
1 CCACCACCACCT
65786 CCACCACCACCT
1 CCACCACCACCT
*
65798 CCTCCACCACCT
1 CCACCACCACCT
* *
65810 CCACCTCCACTT
1 CCACCACCACCT
65822 CCA
1 CCA
65825 TATCCAGATC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.21, C:0.65, G:0.02, T:0.13
Consensus pattern (12 bp):
CCACCACCACCT
Found at i:65783 original size:9 final size:9
Alignment explanation
Indices: 65765--65814 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
65755 TCTATTGCCA
*
65765 CCACCGCCT
1 CCACCACCT
65774 CCACCACCT
1 CCACCACCT
*
65783 CCACCACCA
1 CCACCACCT
*
65792 CCACCTCCT
1 CCACCACCT
65801 CCACCACCT
1 CCACCACCT
65810 CCACC
1 CCACC
65815 TCCACTTCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.20, C:0.68, G:0.02, T:0.10
Consensus pattern (9 bp):
CCACCACCT
Found at i:65792 original size:15 final size:15
Alignment explanation
Indices: 65762--65819 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 15
65752 TCCTCTATTG
* *
65762 CCACCACCGCCTCCA
1 CCACCACCTCCACCA
* *
65777 CCACCTCCACCACCA
1 CCACCACCTCCACCA
*
65792 CCACCTCCTCCACCA
1 CCACCACCTCCACCA
*
65807 CCTCCACCTCCAC
1 CCACCACCTCCAC
65820 TTCCATATCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.21, C:0.67, G:0.02, T:0.10
Consensus pattern (15 bp):
CCACCACCTCCACCA
Found at i:65912 original size:3 final size:3
Alignment explanation
Indices: 65906--65954 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
65896 TCCTCCACTG
* * * * *
65906 CCA CCA CCT CCA CCG CCA CCT CCT CCT CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
65954 C
1 C
65955 TAGCACTACC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.22, C:0.67, G:0.02, T:0.08
Consensus pattern (3 bp):
CCA
Found at i:65917 original size:15 final size:15
Alignment explanation
Indices: 65897--65954 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 15
65887 TCCAAACCCT
*
65897 CCTCCACTGCCACCA
1 CCTCCACCGCCACCA
*
65912 CCTCCACCGCCACCT
1 CCTCCACCGCCACCA
* *
65927 CCTCCTCCACCACCA
1 CCTCCACCGCCACCA
* *
65942 CCACCACCACCAC
1 CCTCCACCGCCAC
65955 TAGCACTACC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.21, C:0.66, G:0.03, T:0.10
Consensus pattern (15 bp):
CCTCCACCGCCACCA
Found at i:65989 original size:18 final size:18
Alignment explanation
Indices: 65968--66003 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
65958 CACTACCACC
65968 TCCACTTCCATATCCAGA
1 TCCACTTCCATATCCAGA
*
65986 TCCACTTCCGTATCCAGA
1 TCCACTTCCATATCCAGA
66004 CCCTTCTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.39, G:0.08, T:0.28
Consensus pattern (18 bp):
TCCACTTCCATATCCAGA
Found at i:66029 original size:9 final size:9
Alignment explanation
Indices: 66017--66051 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
66007 TTCTCCACTG
66017 CCACCACCT
1 CCACCACCT
*
66026 CCACCACCA
1 CCACCACCT
*
66035 CCACCTCCT
1 CCACCACCT
66044 CCACCACC
1 CCACCACC
66052 ACTAGAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.23, C:0.69, G:0.00, T:0.09
Consensus pattern (9 bp):
CCACCACCT
Found at i:66029 original size:15 final size:15
Alignment explanation
Indices: 66017--66053 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
66007 TTCTCCACTG
66017 CCACCACCTCCACCA
1 CCACCACCTCCACCA
*
66032 CCACCACCTCCTCCA
1 CCACCACCTCCACCA
66047 CCACCAC
1 CCACCAC
66054 TAGAAATACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.68, G:0.00, T:0.08
Consensus pattern (15 bp):
CCACCACCTCCACCA
Found at i:66038 original size:18 final size:18
Alignment explanation
Indices: 66017--66053 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
66007 TTCTCCACTG
66017 CCACCACCTCCACCACCA
1 CCACCACCTCCACCACCA
*
66035 CCACCTCCTCCACCACCA
1 CCACCACCTCCACCACCA
66053 C
1 C
66054 TAGAAATACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.68, G:0.00, T:0.08
Consensus pattern (18 bp):
CCACCACCTCCACCACCA
Found at i:66126 original size:99 final size:99
Alignment explanation
Indices: 65921--66112 Score: 249
Period size: 99 Copynumber: 1.9 Consensus size: 99
65911 ACCTCCACCG
* * * *
65921 CCACCTCCTCCTCCACCACCACCACCACCACCACTAGCACTACCACCTCCACTTCCATATCCAGA
1 CCACCTCCACCACCACCACCACCACCACCACCACTAGAAATACCACCTCCACTTCCATATCCAGA
* * ****
65986 TCCACTTCCGTATCCAGACCCTTCTCCACTGCCA
66 CCCACTTCCATATCCAGACCCGAAACCACTGCCA
* * *
66020 CCACCTCCACCACCACCACCTCCTCCACCACCACTAGAAATACCACCTTCACTTCCATATCCAGA
1 CCACCTCCACCACCACCACCACCACCACCACCACTAGAAATACCACCTCCACTTCCATATCCAGA
* *
66085 CCCACTTCCATATCCGGATCCGAAACCA
66 CCCACTTCCATATCCAGACCCGAAACCA
66113 TATCCCGATC
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
99 78 1.00
ACGTcount: A:0.26, C:0.51, G:0.05, T:0.18
Consensus pattern (99 bp):
CCACCTCCACCACCACCACCACCACCACCACCACTAGAAATACCACCTCCACTTCCATATCCAGA
CCCACTTCCATATCCAGACCCGAAACCACTGCCA
Found at i:66143 original size:3 final size:3
Alignment explanation
Indices: 66137--66167 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
66127 TCCATTGCCG
*
66137 CCA CCA CCA CCA CCT CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA C
66168 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.68, G:0.00, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:73047 original size:12 final size:12
Alignment explanation
Indices: 73027--73070 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
73017 TCCAGAGCCT
73027 CCACCACCTCCG
1 CCACCACCTCCG
*
73039 CCTCCACCTCCG
1 CCACCACCTCCG
73051 CCACCA-C-CC-
1 CCACCACCTCCG
73060 CCACCACCTCC
1 CCACCACCTCC
73071 CTTTCCTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 6 0.21
10 3 0.11
11 3 0.11
12 16 0.57
ACGTcount: A:0.16, C:0.70, G:0.05, T:0.09
Consensus pattern (12 bp):
CCACCACCTCCG
Found at i:76268 original size:40 final size:40
Alignment explanation
Indices: 76190--76268 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
76180 TTACAAACAA
** * *
76190 AAACGCCGTTAAAGACCATGTTCTTTAGTGGCATTTTTAC
1 AAACGCCGCAAAAGAACATGTTCTTTAGTGGCACTTTTAC
*
76230 AAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTA
1 AAACGCCGCAAAAGAACATGTTCTTTAGTGGCACTTTTA
76269 TACAAAAACG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (40 bp):
AAACGCCGCAAAAGAACATGTTCTTTAGTGGCACTTTTAC
Found at i:76356 original size:14 final size:14
Alignment explanation
Indices: 76333--76366 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
76323 GCCCTCCTGT
*
76333 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
76347 AGCAACATTTCAAA
1 AGCAACATTTCAAA
76361 AGCAAC
1 AGCAAC
76367 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:76658 original size:21 final size:21
Alignment explanation
Indices: 76590--76660 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
76580 TTTTGCTCTG
* *
76590 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
76611 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
76632 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
76653 CTCTGCTT
1 CTCTGCTT
76661 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Done.