Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold343
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: 198635
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Found at i:51 original size:26 final size:26
Alignment explanation
Indices: 22--102 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 26
12 TTTTTTTCAC
*
22 ATTTTCAATGAACTTTTATTTATTAA
1 ATTTTCAATAAACTTTTATTTATTAA
* ** *
48 ATTTTTAATTAAA-TTTTCATACATGAA
1 ATTTTCAA-TAAACTTTT-ATTTATTAA
*
75 ATTTGTCATTAAACTTCTTATTTATTAA
1 ATTT-TCAATAAACTT-TTATTTATTAA
103 TTAAACCTTC
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
26 11 0.28
27 17 0.43
28 10 0.25
29 2 0.05
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.52
Consensus pattern (26 bp):
ATTTTCAATAAACTTTTATTTATTAA
Found at i:180 original size:14 final size:14
Alignment explanation
Indices: 158--196 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
148 TATTTTTAAT
*
158 TGGACTTTCACATA
1 TGGAATTTCACATA
172 TGGAATTTCACATA
1 TGGAATTTCACATA
*
186 TAGGATTTTCA
1 T-GGAATTTCA
197 ATTATACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (14 bp):
TGGAATTTCACATA
Found at i:1669 original size:35 final size:36
Alignment explanation
Indices: 1640--1710 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
1630 AAAAATCTTC
1640 TCAAAAGAAGCTTTGGAAAGTCTCTAAAAATTATCT
1 TCAAAAGAAGCTTTGGAAAGTCTCTAAAAATTATCT
* * *
1676 TCAAGAGAAGCTTTTGAAAGTCT-TCAAAA-TATCT
1 TCAAAAGAAGCTTTGGAAAGTCTCTAAAAATTATCT
1710 T
1 T
1711 TAAGAAAGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 6 0.19
35 5 0.16
36 21 0.66
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (36 bp):
TCAAAAGAAGCTTTGGAAAGTCTCTAAAAATTATCT
Found at i:1859 original size:33 final size:34
Alignment explanation
Indices: 1741--1894 Score: 118
Period size: 34 Copynumber: 4.5 Consensus size: 34
1731 TCTAATAGCA
** *
1741 TCCTCAAGAAAGGCTTTGGAAACTCTCTGAAAAATG
1 TCCTCAAGAAAGGCTTTAAAAACT-T-TGAAAAAAG
1777 TCCTCAAGAAAGG-TTCTAAAAACTTTTGAAAAAAG
1 TCCTCAAGAAAGGCTT-TAAAAAC-TTTGAAAAAAG
* * * * *
1812 TCTTTAAGAGAGGCTTT-AAAACTTTGTAAAACG
1 TCCTCAAGAAAGGCTTTAAAAACTTTGAAAAAAG
* *
1845 TCCTTAAGAAAGGCTTTAGAAAGC-TTGAAAAACA-
1 TCCTCAAGAAAGGCTTTA-AAAACTTTGAAAAA-AG
* *
1879 CCCTCAAGAGAGGCTT
1 TCCTCAAGAAAGGCTT
1895 GAAGATTATC
Statistics
Matches: 96, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
33 24 0.25
34 25 0.26
35 25 0.26
36 21 0.22
37 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (34 bp):
TCCTCAAGAAAGGCTTTAAAAACTTTGAAAAAAG
Found at i:15399 original size:9 final size:9
Alignment explanation
Indices: 15387--15447 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
15377 CTCTCTCTAT
15387 TATCTCTCC
1 TATCTCTCC
15396 TATCTCTCC
1 TATCTCTCC
*
15405 T-TCTAT-C
1 TATCTCTCC
* *
15412 -ATCCCTTC
1 TATCTCTCC
*
15420 TATCTCTAC
1 TATCTCTCC
15429 TATCTCTCC
1 TATCTCTCC
*
15438 TAGCTCTCC
1 TATCTCTCC
15447 T
1 T
15448 CATATCATCC
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
7 4 0.10
8 5 0.12
9 33 0.79
ACGTcount: A:0.13, C:0.41, G:0.02, T:0.44
Consensus pattern (9 bp):
TATCTCTCC
Found at i:15411 original size:42 final size:42
Alignment explanation
Indices: 15359--15477 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
15349 TTCTTCTCTC
* * * *
15359 CTCCTCCTATCATCCCTTCTCTCTCTATTATCTCTCCTATCT
1 CTCCTTCTATCATCCCTTCTATCTCTACTATCTCTCCTAGCT
15401 CTCCTTCTATCATCCCTTCTATCTCTACTATCTCTCCTAGCT
1 CTCCTTCTATCATCCCTTCTATCTCTACTATCTCTCCTAGCT
* * *
15443 CTCC-TCATATCATCCCTCCTATCTCTTCTTTCTCT
1 CTCCTTC-TATCATCCCTTCTATCTCTACTATCTCT
15478 TTGAGGGCTA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 2 0.03
42 67 0.97
ACGTcount: A:0.13, C:0.42, G:0.01, T:0.45
Consensus pattern (42 bp):
CTCCTTCTATCATCCCTTCTATCTCTACTATCTCTCCTAGCT
Found at i:17300 original size:28 final size:28
Alignment explanation
Indices: 17247--17300 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
17237 TCAAGGAAGT
* *
17247 AAAATCAACAAGAAATATGAAGGGAAAC
1 AAAATCAACAAGAAATATCAAAGGAAAC
17275 AAAAT-AAGCAAGAAATATCAAAGGAA
1 AAAATCAA-CAAGAAATATCAAAGGAA
17301 GAGAAATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.63, C:0.09, G:0.17, T:0.11
Consensus pattern (28 bp):
AAAATCAACAAGAAATATCAAAGGAAAC
Found at i:28882 original size:79 final size:79
Alignment explanation
Indices: 28750--28973 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 79
28740 TCATTCATGT
* * * * * * *** *
28750 TTTTATTTCCAAAACACCAATTTTTTTACAATCGAGGATACTCCAATCTCGTTATTTTTGAGGGG
1 TTTTATTTTCAAAACACCAA-TTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCAAAGGG
*
28815 ATACTCCAACCTCAG
65 ATACTCCAACCCCAG
28830 TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGA
1 TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGA
*
28895 TACTCCAACCCCGG
66 TACTCCAACCCCAG
* * * *
28909 TTGTA-TTTCTAAAACATCAATTTTTCATAATCAGGGATACTCTAACCCCGATTTTATTTCCAAA
1 TTTTATTTTC-AAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCG---TTATTTCCAAA
28973 G
62 G
28974 CATCGATTTT
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
78 4 0.03
79 89 0.72
80 19 0.15
82 12 0.10
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (79 bp):
TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGA
TACTCCAACCCCAG
Found at i:28967 original size:51 final size:51
Alignment explanation
Indices: 28890--29006 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
28880 TTATTTCCAA
* * * *
28890 AGGGATACTCCAACCCCGGTTGTATTTCTAAAACATCAATTTTTCATAATC
1 AGGGATACTCCAACCCCGATTGTATTTCCAAAACATCAATTTTCCACAATC
* * * * *
28941 AGGGATACTCTAACCCCGATTTTATTTCCAAAGCATCGATTTTCCACATTC
1 AGGGATACTCCAACCCCGATTGTATTTCCAAAACATCAATTTTCCACAATC
*
28992 GGGGATACTCCAACC
1 AGGGATACTCCAACC
29007 ATGTTATCTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (51 bp):
AGGGATACTCCAACCCCGATTGTATTTCCAAAACATCAATTTTCCACAATC
Found at i:28983 original size:130 final size:130
Alignment explanation
Indices: 28812--29085 Score: 320
Period size: 130 Copynumber: 2.1 Consensus size: 130
28802 TATTTTTGAG
* * * *
28812 GGGATACTCCAACCTCAGTTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACC
* ** *
28877 CCGTTAT-TTCCAAAGGGATACTCCAACCCCGGTTGTATTTCTAAAACATCAATTTT-TCATAAT
66 ACGTTATCTT-CAAAGGGATACTCCAACCCCAATTGTATTTCTAAAACACCAATTTTCT-ATAAT
28940 CA
129 CA
* * * * *
28942 GGGATACTCTAACCCC-GATTTTATTTCCAAAGCATCGATTTTCCACATTCGGGGATACTCCAAC
1 GGGATACTCCAACCCCAG-TTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAAC
* * * * * *
29006 CATGTTATCTTCGAGGGGATACTCCAACCCCAATTTTATTTTTAAAACACCGATTTTCTATAATC
65 CACGTTATCTTCAAAGGGATACTCCAACCCCAATTGTATTTCTAAAACACCAATTTTCTATAATC
29071 A
130 A
*
29072 GGGATGCTCCAACC
1 GGGATACTCCAACC
29086 TTGTTATTTT
Statistics
Matches: 120, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
129 1 0.01
130 116 0.97
131 3 0.03
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (130 bp):
GGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACC
ACGTTATCTTCAAAGGGATACTCCAACCCCAATTGTATTTCTAAAACACCAATTTTCTATAATCA
Found at i:29025 original size:79 final size:78
Alignment explanation
Indices: 28942--29162 Score: 298
Period size: 79 Copynumber: 2.8 Consensus size: 78
28932 TTCATAATCA
* * * * *
28942 GGGATACTCTAACCCCGATTTTATTTCCAAAGCATCGATTTTCCACATTCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAA-CACCGATTTTCCATAATCGGGGATACTCCAACC
29007 ATGTTATCTTCGAG
65 ATGTTATCTTCGAG
* * * * *
29021 GGGATACTCCAACCCCAATTTTATTTTTAAAACACCGATTTTCTATAATCAGGGATGCTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCT-AAACACCGATTTTCCATAATCGGGGATACTCCAACC
* *
29086 TTGTTATTTTCGAG
65 ATGTTATCTTCGAG
29100 GGGATACTCCAACCCCGATTTTATTTCTAGAACACCGATTTTCCATAATCAGGGGATACTCCA
1 GGGATACTCCAACCCCGATTTTATTTCTA-AACACCGATTTTCCATAATC-GGGGATACTCCA
29163 GCCCCATTGT
Statistics
Matches: 122, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
78 1 0.01
79 108 0.89
80 13 0.11
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (78 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAACACCGATTTTCCATAATCGGGGATACTCCAACCA
TGTTATCTTCGAG
Found at i:29207 original size:209 final size:207
Alignment explanation
Indices: 28785--29189 Score: 492
Period size: 209 Copynumber: 1.9 Consensus size: 207
28775 TTACAATCGA
* * * * *
28785 GGATACTCCAATCTCGTTATTTTTGAGGGGATACTCCAACCTCAGTTTTATTTTCAAAACACCAA
1 GGATACTCCAACCTCGTTATCTTCGAGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAA
* *
28850 TTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTCCAACCCCGGTTGTAT
66 TTTTTCATAATCAGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTCCAACCCCGATTGTAT
* * * * * * *
28915 TTCTAAAACATCAATTTTTCATAATCAGGGATACTCTAACCCCGATTTTATTTCCAAAGCATCGA
131 TTCTAAAACACCAATTTTCCATAATCAGGGATACTCCAACCCCGATTTCATCTCCAAAACATCAA
28980 TTTTCCACATTCGG
196 TTTT-C-CATTCGG
* *
28994 GGATACTCCAACCAT-GTTATCTTCGAGGGGATACTCCAACCCCAATTTTATTTTTAAAACACCG
1 GGATACTCCAACC-TCGTTATCTTCGAGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCA
* ** * * * *
29058 A-TTTTCTATAATCAGGGATGCTCCAACCTTGTTATTTTCGAGGGGATACTCCAACCCCGATTTT
65 ATTTTTC-ATAATCAGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTCCAACCCCGATTGT
* * * *
29122 ATTTCTAGAACACCGATTTTCCATAATCAGGGGATACTCCAGCCCC-ATTGTCATCTCCAAAATA
129 ATTTCTAAAACACCAATTTTCCATAATCA-GGGATACTCCAACCCCGATT-TCATCTCCAAAACA
29186 TCAA
192 TCAA
29190 AATTTTCATC
Statistics
Matches: 165, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
208 5 0.03
209 132 0.80
210 28 0.17
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (207 bp):
GGATACTCCAACCTCGTTATCTTCGAGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAA
TTTTTCATAATCAGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTCCAACCCCGATTGTAT
TTCTAAAACACCAATTTTCCATAATCAGGGATACTCCAACCCCGATTTCATCTCCAAAACATCAA
TTTTCCATTCGG
Found at i:44903 original size:1 final size:1
Alignment explanation
Indices: 44899--44955 Score: 60
Period size: 1 Copynumber: 57.0 Consensus size: 1
44889 TTCTTTTTTT
* * * * * *
44899 AAAAAAAAAACAAAAAACAAAAAAACAAAAAAAAACAAAAAAACAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
44956 GAGAGAAAAG
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:44915 original size:8 final size:8
Alignment explanation
Indices: 44902--44948 Score: 69
Period size: 8 Copynumber: 5.8 Consensus size: 8
44892 TTTTTTTAAA
44902 AAAAAAAC
1 AAAAAAAC
44910 -AAAAAAC
1 AAAAAAAC
44917 AAAAAAAC
1 AAAAAAAC
44925 AAAAAAAAAC
1 --AAAAAAAC
44935 AAAAAAAC
1 AAAAAAAC
44943 AAAAAA
1 AAAAAA
44949 GAAAAAAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.19
8 21 0.58
10 8 0.22
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:44922 original size:18 final size:18
Alignment explanation
Indices: 44899--44948 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
44889 TTCTTTTTTT
44899 AAAAAAA-AAACAAAAAAC
1 AAAAAAACAAA-AAAAAAC
44917 AAAAAAACAAAAAAAAAC
1 AAAAAAACAAAAAAAAAC
44935 AAAAAAACAAAAAA
1 AAAAAAACAAAAAA
44949 GAAAAAAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 28 0.90
19 3 0.10
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAACAAAAAAAAAC
Found at i:44928 original size:26 final size:26
Alignment explanation
Indices: 44900--44948 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
44890 TCTTTTTTTA
44900 AAAAAAAAAC-AAAAAACAAAAAAAC
1 AAAAAAAAACAAAAAAACAAAAAAAC
44925 AAAAAAAAACAAAAAAACAAAAAA
1 AAAAAAAAACAAAAAAACAAAAAA
44949 GAAAAAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAAAAAACAAAAAAACAAAAAAAC
Found at i:46187 original size:61 final size:61
Alignment explanation
Indices: 46059--46663 Score: 699
Period size: 61 Copynumber: 10.1 Consensus size: 61
46049 GAGCAAGATG
* * * * *
46059 CCTTTCAAAGCCCACACAAGCTGGTGGCACTTTTCTAGTCCTCAAAGAGCTGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGACGCCTTTT
*
46121 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
46182 CCTTTTAAAGCCCACACAAGTTGGTGGCA--TTTCCCAGTCCTCAAAGAGTAGGACG-C---T
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT--TAGTCCTCAAAGAGCAGGACGCCTTTT
* *
46239 --TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
46299 CCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTTAAAGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
46360 CCTTTTAAAGACCACACAAGTTGGTGGCA--TTTCCCAGTCCTCAAAGAGCAGGA------TG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT--TAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
46415 CCTTTTAAAGCCCGCACAAGTTAGTGGCA-CTTTTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * **
46476 CCTTTTAAAGCCCACATAAGCTGGTAGCACC-TTCAGTCCTCAAAGAGCAGGACACCTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
46536 CCTTTTAAAGTCCACACAAGTTGGTGGCA-CTCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCT-TTTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * *
46597 CCTTTTAAAGCCTACACAAGTTGGTGGCACTTTTTGGTCCTTAAAGAGCAGGACGCATTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
46658 CCTTTT
1 CCTTTT
46664 CTCCTTTGCC
Statistics
Matches: 468, Mismatches: 51, Indels: 49
0.82 0.09 0.09
Matches are distributed among these distances:
55 72 0.15
56 23 0.05
57 4 0.01
59 6 0.01
60 49 0.10
61 252 0.54
62 62 0.13
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:46215 original size:32 final size:32
Alignment explanation
Indices: 46118--46215 Score: 80
Period size: 32 Copynumber: 3.2 Consensus size: 32
46108 CTGGACACCT
46118 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
46150 ---CCTTTT--AGTCCTCAAAGAGTAGGACGCCT
1 TTTCCTTTTAAAGCCCACACA-AGTTGG-TGGCA
46179 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
46211 TTTCC
1 TTTCC
46216 CAGTCCTCAA
Statistics
Matches: 45, Mismatches: 14, Indels: 14
0.62 0.19 0.19
Matches are distributed among these distances:
27 7 0.16
28 5 0.11
29 8 0.18
32 13 0.29
33 5 0.11
34 7 0.16
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (32 bp):
TTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:46339 original size:178 final size:178
Alignment explanation
Indices: 46039--46663 Score: 875
Period size: 178 Copynumber: 3.5 Consensus size: 178
46029 TTCACCCTTT
* * * *
46039 AGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCCACACAAGCTGGTGGCACTTTTCTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
* * * *
46104 AGAGCTGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAG
66 AGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTCAAAGAG
* * *
46169 TAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCC
131 CAGGACACCTTTTCCTTTTAAAGACCACACAAGTTGGTGGCATTTCCC
* *
46217 AGTCCTCAAAGAGTAGGACGCTTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
* *
46282 AGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTTAAAGAG
66 AGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTCAAAGAG
46347 CAGGACACCTTTTCCTTTTAAAGACCACACAAGTTGGTGGCATTTCCC
131 CAGGACACCTTTTCCTTTTAAAGACCACACAAGTTGGTGGCATTTCCC
* * *
46395 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCGCACAAGTTAGTGGCACTTTTC-AGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
* * *
46459 AGAGCAGGATGCCTTTTCCTTTTAAAGCCCACATAAG-CTGGTAGCACCTTC-AGTCCTCAAAGA
66 AGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTC-GGTGGCACCTTCTAGTCCTCAAAGA
** *
46522 GCAGGACACCTCCTCCTTTTAAAGTCCACACAAGTTGGTGGCACTCTT--C
130 GCAGGACACCTTTTCCTTTTAAAGACCACACAAGTTGGTGGCA-T-TTCCC
* *
46571 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACTTTT-TGGT
1 AGTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGT
* *
46635 CCTTAAAGAGCAGGACGCATTTTCCTTTT
60 CCTCAAAGAGCAGGACGCCTTTTCCTTTT
46664 CTCCTTTGCC
Statistics
Matches: 401, Mismatches: 36, Indels: 16
0.89 0.08 0.04
Matches are distributed among these distances:
176 72 0.18
177 55 0.14
178 215 0.54
182 59 0.15
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (178 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAA
AGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTCGGTGGCACCTTCTAGTCCTCAAAGAG
CAGGACACCTTTTCCTTTTAAAGACCACACAAGTTGGTGGCATTTCCC
Found at i:49922 original size:79 final size:79
Alignment explanation
Indices: 49787--49993 Score: 292
Period size: 79 Copynumber: 2.6 Consensus size: 79
49777 TCATTCATGT
* *
49787 TTTTATTTCCAAAACACCAATTTTTTTATAATCGGGGATACTCCAACCCCGGTATTTCCGAA-GA
1 TTTTATTTTCAAAACACCAA-TTTTTCATAATCGGGGATACTCCAACCCCGGTATTTCC-AAGGA
49851 GATACTCCAACCGCAG
64 GATACTCCAACCGCAG
* *
49867 TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
1 TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGGTATTTCCAAGGAGA
*
49932 TACTCCAACCTCAG
66 TACTCCAACCGCAG
* * * *
49946 TTTTA-TTTCTAAAACATCAATTTTTCACAATTGGGGATACTGCAACCC
1 TTTTATTTTC-AAAACACCAATTTTTCATAATCGGGGATACTCCAACCC
49994 GATTTTATTT
Statistics
Matches: 116, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
78 6 0.05
79 91 0.78
80 19 0.16
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (79 bp):
TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGGTATTTCCAAGGAGA
TACTCCAACCGCAG
Found at i:50019 original size:50 final size:50
Alignment explanation
Indices: 49927--50043 Score: 155
Period size: 50 Copynumber: 2.3 Consensus size: 50
49917 TTATTTCCAA
* * *
49927 GGGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCACAATT
1 GGGGATACTCCAACC-CAGTTTTATTTCCAAAACATCAATTTTCCACAATC
* * *
49978 GGGGATACTGCAACCC-GATTTTATTTCCAAAGCATCGATTTTCCACAATC
1 GGGGATACTCCAACCCAG-TTTTATTTCCAAAACATCAATTTTCCACAATC
50028 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
50044 TGTTATCTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
49 1 0.02
50 43 0.74
51 14 0.24
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (50 bp):
GGGGATACTCCAACCCAGTTTTATTTCCAAAACATCAATTTTCCACAATC
Found at i:50112 original size:79 final size:78
Alignment explanation
Indices: 49978--50206 Score: 289
Period size: 79 Copynumber: 2.9 Consensus size: 78
49968 TTTCACAATT
* * * * *
49978 GGGGATACTGCAACCCGATTTTATTTCCAAAGCATCGATTTTCCACAATCGGGGATACTCCAACC
1 GGGGATACTCCAACCCGATTTTATTTCTAAAACATCGATTTTCCATAATCAGGGATACTCCAACC
50043 CTGTTATCTT-CGA
66 CTGTTAT-TTACGA
* * * *
50056 GGGGATACTCCAACCCTGATTTTATTTTTAAAACGTCGATTTTCTATAATCAGGGATGCTCCAAC
1 GGGGATACTCCAACCC-GATTTTATTTCTAAAACATCGATTTTCCATAATCAGGGATACTCCAAC
* *
50121 CCTATTATTTATGA
65 CCTGTTATTTACGA
* * *
50135 GGGGATACTCCAACCCCGATTTTATTTCTAGAACATCGCTTTTCCATAATCAAGGGATACTCCAG
1 GGGGATACTCCAA-CCCGATTTTATTTCTAAAACATCGATTTTCCATAATC-AGGGATACTCCAA
50200 CCCTGTT
64 CCCTGTT
50207 GTCATCTCCA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
78 17 0.13
79 91 0.71
80 20 0.16
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (78 bp):
GGGGATACTCCAACCCGATTTTATTTCTAAAACATCGATTTTCCATAATCAGGGATACTCCAACC
CTGTTATTTACGA
Found at i:50112 original size:129 final size:129
Alignment explanation
Indices: 49851--50122 Score: 318
Period size: 129 Copynumber: 2.1 Consensus size: 129
49841 TTTCCGAAGA
* * *
49851 GATACTCCAA-CCGCAGTTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCC
1 GATACTCCAACCCG-A-TTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCC
**
49915 CGTTATTTCCAAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCACAATTGG
64 CGTTATTTCCAAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCACAATCAG
49980 G
129 G
* * * * *
49981 GATACTGCAACCCGATTTTATTTCCAAAGCATCGATTTTCCACAATCGGGGATACTCCAACCCTG
1 GATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCCCG
* * * * * *
50046 TTATCTT-CGAGGGGATACTCCAACC-CTGATTTTATTTTTAAAACGTCGA-TTTTCTATAATCA
66 TTAT-TTCCAAGGGGATACTCCAACCTCAG-TTTTATTTCTAAAACATCAATTTTTC-ACAATCA
50108 GG
128 GG
*
50110 GATGCTCCAACCC
1 GATACTCCAACCC
50123 TATTATTTAT
Statistics
Matches: 120, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
128 7 0.06
129 98 0.82
130 12 0.10
131 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (129 bp):
GATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCCCG
TTATTTCCAAGGGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCACAATCAGG
Found at i:55598 original size:144 final size:144
Alignment explanation
Indices: 55335--55606 Score: 336
Period size: 144 Copynumber: 1.9 Consensus size: 144
55325 CCCTAGAATC
* * * *
55335 AAAGTTTGTCCCTAAAATGAGACAAACATTAATTCTTGCTAGAATCTCCATTCTTTTTATGATTA
1 AAAGTTTGTCCCTAAAATAAGACAAACATGAATTCTTGCTAGAATCTCCATTCTTTTCATCATTA
* * * *
55400 GACACCATAGATATGTTCCCTTCATTGGGAGACATGATATTGATCTTTCAGTTTCACAAGAAAGC
66 GACACCAAAAACATGTTCCCTTCATTGGGAGACATGACATTGATCTTTCAGTTTCACAAGAAAGC
55465 CTTTCTCTCCACCA
131 CTTTCTCTCCACCA
* * *
55479 AAAGTTTGTCCCTCAAATAAGACAAACATGGATTCTTGTTAGAATCTCCATTCTTTTCATCATT-
1 AAAGTTTGTCCCTAAAATAAGACAAACATGAATTCTTGCTAGAATCTCCATTCTTTTCATCATTA
* * * * *
55543 GTGCTA-CAAAAACATGTTATCCTT-ATTGGGATACATGACATTTATGCTTT-TGTTTCACAAGA
66 G-AC-ACCAAAAACATGTT-CCCTTCATTGGGAGACATGACATTGAT-CTTTCAGTTTCACAAGA
55605 AA
127 AA
55607 AGCATTTTTT
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
143 1 0.01
144 98 0.91
145 9 0.08
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (144 bp):
AAAGTTTGTCCCTAAAATAAGACAAACATGAATTCTTGCTAGAATCTCCATTCTTTTCATCATTA
GACACCAAAAACATGTTCCCTTCATTGGGAGACATGACATTGATCTTTCAGTTTCACAAGAAAGC
CTTTCTCTCCACCA
Found at i:58414 original size:43 final size:44
Alignment explanation
Indices: 58330--58415 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
58320 TAACACAAAC
*
58330 CCTAATGGACTTATTGTGCTAACAAGCCTAATTCTTAATTAAAA
1 CCTAATGGACTTATTGTGCTAACAAGCCCAATTCTTAATTAAAA
*
58374 CCTAATGGACTTATTGTGCTAA-AAGCCCATTTCTTAATTAAA
1 CCTAATGGACTTATTGTGCTAACAAGCCCAATTCTTAATTAAA
58416 CCAAAATAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 18 0.45
44 22 0.55
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (44 bp):
CCTAATGGACTTATTGTGCTAACAAGCCCAATTCTTAATTAAAA
Found at i:60194 original size:159 final size:156
Alignment explanation
Indices: 59737--61523 Score: 651
Period size: 159 Copynumber: 11.2 Consensus size: 156
59727 TTTCCACCAT
* * * * * * *
59737 TCCCTCAAATAAGACAACAATGGA--CTCCTACTAGAAACTCCATTCTTTCTATGATTAGGCTA-
1 TCCCTCAAATGAGACAAAAATGGATTCTCGT--TAGAATCTCAATTCTTTTTATGATT-GGCCAT
* ** * *
59799 CAAAAACATGTTATCCTTATTTGGATACATGATTTTGATGCTTTGGATTTGAAAGAAAAGCTTTT
63 CAAAAACATGTTCTCCTTATTAAGATACATGATATTGATGCTTT-GATTTTAAAGAAAAGCTTTT
*
59864 TTT-TCACCA-TTTTCTTTGGAATCAAAAT-TTA
127 TTTCT-ACCATTTTTC-TTAGAATC--AATGTTA
* * * * * * *
59895 TCCCTCAAATAAGACAAAAATGGATTCTCATTAAAATCTCAATT-TTTTTATGATAGGGCACCAT
1 TCCCTCAAATGAGACAAAAATGGATTCTCGTTAGAATCTCAATTCTTTTTATGATTGGCCATCAA
* * *
59959 AAACATGTTGTCCTTATTAGGATACA-GAATATTGATGCTTTGATTTTGCAAGAAAAGCTTTTGT
66 AAACATGTTCTCCTTATTAAGATACATG-ATATTGATGCTTTGATTTT-AAAGAAAAGCTTTT-T
* *
60023 TTC--CAATATTTTCATTATAATCAATGTTA
128 TTCTACCAT-TTTTC-TTAGAATCAATGTTA
* * * *
60052 GTGCCTTAAATGAGACAAAAATGGATTCTCGTTAGAATCTCAATTCTTTTCATGATTGGTCATCA
1 -TCCCTCAAATGAGACAAAAATGGATTCTCGTTAGAATCTCAATTCTTTTTATGATTGGCCATCA
** * * *
60117 AAAACACATTCTCCTCATTATGATACATGATATTGATGGTTT-AGTTTTATAAGAAAAGCTTTTT
65 AAAACATGTTCTCCTTATTAAGATACATGATATTGATGCTTTGA-TTTTA-AAGAAAAGCTTTTT
*
60181 TTCTACCATTTTTCTTAGAATCAAAGTTCA
128 TTCTACCATTTTTCTTAGAATCAATGTT-A
* * * * *
60211 TCCCTCAAATGTGACAAACATGGATTCTCGTTAGAATCTCCATTTCTTTTTTTGATTGACCTAT-
1 TCCCTCAAATGAGACAAAAATGGATTCTCGTTAGAATCT-CAATTCTTTTTATGATTGGCC-ATC
* * * * * *
60275 AAAAACATGTTCTCCTTATTAAGATGCATAATATTGATGCCTTTAATTTTGCACGAAAAGTTTTT
64 AAAAACATGTTCTCCTTATTAAGATACATGATATTGATG-CTTTGATTTT-AAAGAAAAGCTTTT
** * *
60340 CTTTCTTTCATTTTCTTTTCTTAGAATTAATGTACA
127 -TTTCTACCA---T-TTTTCTTAGAATCAATGT-TA
* * * * * * * ** * * *
60376 TCCTTCAAACGAGGA-AAACATGGATTCTCATTAGAATATCCACTCTTTTGGTGGTTGGGCAACA
1 TCCCTCAAATGA-GACAAAAATGGATTCTCGTTAGAATCTCAATTCTTTTTATGATTGGCCATCA
* * ** * * * * * * *
60440 AATAGATGTTAACATCATT-GGTATACCTG---TTGATGCTTTAATTTCGAAAGTAAAG--TTTT
65 AAAACATGTTCTCCTTATTAAG-ATACATGATATTGATGCTTTGATTT-TAAAGAAAAGCTTTTT
* *
60499 TTCTTTCCATTAATTTCCTTAGAA-CAAATTTTA
128 TTC-TACCATT--TTT-CTTAGAATC-AATGTTA
* * * * * * * * * *
60532 TCCCTCAAAAGAGACAAACATGGATTCTCCTTAGAATCTCTATTGTTTTCATGACTGGGCACCAT
1 TCCCTCAAATGAGACAAAAATGGATTCTCGTTAGAATCTCAATTCTTTTTATGATTGGCCATCAA
** * * * ** *
60597 AAACACATTCT--TTCAATAGGATTACATGATATTGATGTTTTCTTTTCTCAAGAAAAGCTTTTT
66 AAACATGTTCTCCTT-ATTAAGA-TACATGATATTGATGCTTTGATTT-TAAAGAAAAGC-TTTT
* ** * *
60660 TTTCAATTATTTTCCTTAGAATCAAAGTTCA
127 TTTCTACCATTTTTCTTAGAATCAATGTT-A
* ** * * ** * * * * *
60691 TCCCTTAAATGAGATGAACATGGATTATTATTAGAATCTCTATTCTTTTCATGATTGGGCACCAT
1 TCCCTCAAATGAGACAAAAATGGATTCTCGTTAGAATCTCAATTCTTTTTATGATTGGCCATCAA
* * * * * * *
60756 AAACATGTACTTCTCATTAGGATACATGATATTGATGATTTTG-TTTTATGAGAAAAACTTTTCT
66 AAACATGTTCTCCTTATTAAGATACATGATATTGATG-CTTTGATTTTA-AAGAAAAGCTTTT-T
* ** *
60820 TTCCA-CAACTTTCTTTAGAATCAAAGTTCA
128 TTCTACCATTTTTC-TTAGAATCAATGTT-A
* * * * ** * *
60850 TCCCTCAAATGTGACAAACATGGATTTTCATTAGAATCTCTTTTTTTTTTTTCATGATTGGGC-T
1 TCCCTCAAATGAGACAAAAATGGATTCTCGTTAGAATCTC--AATTCTTTTT-ATGATTGGCCAT
**** * * * * ** *
60914 ACAAAAGA-ACT-TTCTTAACATTAGGATACATGACACT-ATTGCTTTGGTTTCGCAAGAATAGC
63 -CAAAA-ACA-TGTTCTCCTTATTAAGATACATGATATTGA-TGCTTTGATTT-TAAAGAAAAGC
* * *
60976 TTTTCTTT-TCACCATTTTTCTTAGAACCAAAGTTTG
123 TTTT-TTTCT-ACCATTTTTCTTAGAATCAATG-TTA
* * * ** ** * *
61012 TCTCTTAAATGACACAATCATGGATTCTTATTAGAATCTCCATTCTTTTCATGATTAGG-C-TGC
1 TCCCTCAAATGAGACAAAAATGGATTCTCGTTAGAATCTCAATTCTTTTTATGATT-GGCCAT-C
** * * ** ** * * ** *
61075 AAAAACACATTATCCTCATTGGGATACACAACATTGATGCTTTGCTTTTGCTAGCAAAGCTTTTT
64 AAAAACATGTTCTCCTTATTAAGATACATGATATTGATGCTTTGATTTT-AAAGAAAAGCTTTTT
* * * **
61140 TTTTATCTCATTTTCCTTAGAATGAAAATTCA
128 TTCTA-C-CATTTTTCTTAGAATCAATGTT-A
* * * * * * * * * *
61172 CCCCTCAAA-GAAGACACACATTGATTCTCATTAGATTCTCTATTCTTTTTATGGTTAGG-AAAC
1 TCCCTCAAATG-AGACAAAAATGGATTCTCGTTAGAATCTCAATTCTTTTTATGATT-GGCCATC
* ** * * * * * *** * *
61235 AAAAAGACATTCTCCTCATTAGGATCCATGATATTAATGCTTTGGTCTCGCAGGAAAAGGTTTTT
64 AAAAACATGTTCTCCTTATTAAGATACATGATATTGATGCTTTGAT-TTTAAAGAAAAGCTTTTT
* * *
61300 TT-TCATCATTTTCCTTAGAATCAATGTTTG
128 TTCT-ACCATTTTTCTTAGAATCAATG-TTA
* * * * * ** * *
61330 TCCCTTAAAATGAGACAAACATGGATTTTCATTTGAATCTCTTTTCCTTTTATG-TTAGG-CACC
1 TCCC-TCAAATGAGACAAAAATGGATTCTCGTTAGAATCTCAATTCTTTTTATGATT-GGCCATC
* * * * * * * * **
61393 ATAAACACGTTCTTCTCATTAGGATACA-CACTATTGGTGCTTTGGCTTTGCAAGAAAAGCTTTT
64 AAAAACATGTTCTCCTTATTAAGATACATGA-TATTGATGCTTT-GATTTTAAAGAAAAGCTTTT
* * * *
61457 TGTTCCACCATTTTCCTTAGAATCTAGGTTTA
127 T-TTCTACCATTTTTCTTAGAATCAATG-TTA
* * * *
61489 TCACTCAAATGATACAAACATGGATTCTCATTAGA
1 TCCCTCAAATGAGACAAAAATGGATTCTCGTTAGA
61524 TTCCTTAGAA
Statistics
Matches: 1263, Mismatches: 278, Indels: 176
0.74 0.16 0.10
Matches are distributed among these distances:
154 2 0.00
155 6 0.00
156 79 0.06
157 79 0.06
158 272 0.22
159 417 0.33
160 176 0.14
161 31 0.02
162 107 0.08
163 12 0.01
164 32 0.03
165 48 0.04
166 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (156 bp):
TCCCTCAAATGAGACAAAAATGGATTCTCGTTAGAATCTCAATTCTTTTTATGATTGGCCATCAA
AAACATGTTCTCCTTATTAAGATACATGATATTGATGCTTTGATTTTAAAGAAAAGCTTTTTTTC
TACCATTTTTCTTAGAATCAATGTTA
Found at i:61277 original size:160 final size:158
Alignment explanation
Indices: 61034--61479 Score: 346
Period size: 160 Copynumber: 2.8 Consensus size: 158
61024 CACAATCATG
* *** *
61034 GATTCTTATTAGAATCTCCATTCTTTTCATGATTAGGCTGCAAAAACACATTATCCTCATTGGGA
1 GATTCTCATTAGAATCTCCATTCTTTTCATGATTAGGAAACAAAAACACATTATCCTCATTAGGA
* * * * *
61099 TACACAACATTGATGCTTTGCTTTTGCTA-GCAAAGCTTTTTTTTTATCTCATTTTCCTTAGAAT
66 TACACAACATTAATGCTTTGCTCTCGC-AGGAAAAGCTTTTTTTTCA--TCATTTTCCTTAGAAT
61163 GAAAATTCACCCCTCAAAGAAGACACACATT
128 GAAAATTCACCCCTCAAAGAAGACACACATT
* * * * * *
61194 GATTCTCATTAGATTCTCTATTCTTTTTATGGTTAGGAAACAAAAAGACATTCTCCTCATTAGGA
1 GATTCTCATTAGAATCTCCATTCTTTTCATGATTAGGAAACAAAAACACATTATCCTCATTAGGA
* ** * * * *
61259 TCCATGATATTAATGCTTTGGTCTCGCAGGAAAAGGTTTTTTTTCATCATTTTCCTTAGAATCAA
66 TACACAACATTAATGCTTTGCTCTCGCAGGAAAAGCTTTTTTTTCATCATTTTCCTTAGAATGAA
** *** * * *
61324 TGTTTGTCCCTTAAA-ATGAGACAAACATG
131 AATTCACCCCTCAAAGA--AGACACACATT
* * ** * * * * * *
61353 GATTTTCATTTGAATCTCTTTTCCTTTT-ATG-TTAGGCACCATAAACACGTTCTTCTCATTAGG
1 GATTCTCATTAGAATCTCCATT-CTTTTCATGATTAGGAAACAAAAACACATTATCCTCATTAGG
** * * * *
61416 ATACAC-ACTATTGGTGCTTTGGCT-TTGCAAGAAAAGCTTTTTGTTCCACCATTTTCCTTAGAA
65 ATACACAAC-ATTAATGCTTT-GCTCTCGCAGGAAAAGCTTTTT-TTTCATCATTTTCCTTAGAA
61479 T
127 T
61480 CTAGGTTTAT
Statistics
Matches: 227, Mismatches: 52, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
157 2 0.01
158 81 0.36
159 52 0.23
160 92 0.41
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (158 bp):
GATTCTCATTAGAATCTCCATTCTTTTCATGATTAGGAAACAAAAACACATTATCCTCATTAGGA
TACACAACATTAATGCTTTGCTCTCGCAGGAAAAGCTTTTTTTTCATCATTTTCCTTAGAATGAA
AATTCACCCCTCAAAGAAGACACACATT
Found at i:65805 original size:15 final size:14
Alignment explanation
Indices: 65785--65834 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
65775 ATCATTTCAA
65785 AAAAAAAAGGTTGGC
1 AAAAAAAA-GTTGGC
**
65800 AAAAAAGAA-TAAG-
1 AAAAAA-AAGTTGGC
65813 AAAAAAAAGTTGGC
1 AAAAAAAAGTTGGC
65827 AAAAAAAA
1 AAAAAAAA
65835 ATAGAGGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 2 0.07
13 8 0.29
14 10 0.36
15 6 0.21
16 2 0.07
ACGTcount: A:0.68, C:0.04, G:0.18, T:0.10
Consensus pattern (14 bp):
AAAAAAAAGTTGGC
Found at i:65824 original size:27 final size:28
Alignment explanation
Indices: 65785--65837 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
65775 ATCATTTCAA
*
65785 AAAAAAAAGGTTGGCAAAAAAGAATAAG
1 AAAAAAAAGGTTGGCAAAAAAAAATAAG
65813 AAAAAAAA-GTTGGCAAAAAAAAATA
1 AAAAAAAAGGTTGGCAAAAAAAAATA
65838 GAGGTTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.68, C:0.04, G:0.17, T:0.11
Consensus pattern (28 bp):
AAAAAAAAGGTTGGCAAAAAAAAATAAG
Found at i:76410 original size:18 final size:18
Alignment explanation
Indices: 76383--76453 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
76373 TCTGTCATCC
*
76383 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTATTATCT
*
76401 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTGTCTCT-AT--TATC-T
* *
76423 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTATTATCT
76443 CTCCTGTCTCT
1 CTCCTGTCTCT
76454 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 20 0.49
19 1 0.02
20 1 0.02
21 8 0.20
22 1 0.02
24 10 0.24
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTATTATCT
Found at i:76423 original size:42 final size:42
Alignment explanation
Indices: 76368--76486 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
76358 TTCTTCTCTA
* * *
76368 CTCCTTCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
76410 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
76452 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
76487 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.08, C:0.45, G:0.03, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:76427 original size:12 final size:11
Alignment explanation
Indices: 76401--76476 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
76391 TCTATTATCT
*
76401 CTCCTGTCTCTC
1 CTCCTATCTC-C
76413 CTCCTATCATCC
1 CTCCTATC-TCC
76425 CTCCTATCT--
1 CTCCTATCTCC
*
76434 CTACTATCT--
1 CTCCTATCTCC
*
76443 CTCCTGTCTCTC
1 CTCCTATCTC-C
76455 CTCCTATCATCC
1 CTCCTATC-TCC
*
76467 CTCCTCTCTC
1 CTCCTATCTC
76477 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:76428 original size:24 final size:24
Alignment explanation
Indices: 76392--76477 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
76382 CCTCCTCTCT
* *
76392 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
76416 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
76437 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
76458 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
76478 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:80190 original size:49 final size:49
Alignment explanation
Indices: 80135--80326 Score: 258
Period size: 49 Copynumber: 3.9 Consensus size: 49
80125 GATGCCAATA
* **
80135 TGCTGATTTAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCTAATG
1 TGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCCGATG
* * * *
80184 TGCTGATTTAAGGCCAACGACATCGGTCTTAAAGATGAAGGCGCCGATG
1 TGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCCGATG
* ** *
80233 TGTTGATTCAAGGCCAGTGATATCGGACTTAAAGATGAAGGTGCCGATA
1 TGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCCGATG
* * *
80282 TGCTGATTCAAGGGCAGCGATATTGGACTTAAAGATGAAGGTGCC
1 TGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCC
80327 TGTAGACACC
Statistics
Matches: 126, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 126 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCCGATG
Found at i:81046 original size:61 final size:62
Alignment explanation
Indices: 80921--81072 Score: 243
Period size: 61 Copynumber: 2.5 Consensus size: 62
80911 AGCCCCTCCA
* * ***
80921 TCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAG
1 TCCTCAAAGAGCAGGACGCCTTCTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAG
80983 TCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTCCCAG
1 TCCTCAAAGAGCAGGACGCCTTCTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAG
*
81044 TCCTCAAAGAGCAGGACGCCCTCTCCTTT
1 TCCTCAAAGAGCAGGACGCCTTCTCCTTT
81073 CACCCTTTAG
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
61 56 0.67
62 28 0.33
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (62 bp):
TCCTCAAAGAGCAGGACGCCTTCTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAG
Found at i:81158 original size:54 final size:54
Alignment explanation
Indices: 81076--81268 Score: 235
Period size: 54 Copynumber: 3.4 Consensus size: 54
81066 CTCCTTTCAC
*
81076 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
81130 CCTTTAGTCCTTAAAGAGCAGGATGCCTTTCAAAGCTCACACTAGTTAGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
81184 CTTCTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCT-TTAGTCCTCAAAGAGCAGGATG------CCTTTTAAAGCCCACACAAGTTGGTGGCA
81245 -CTTCCTAGTCCTCAAAGAGCAGGA
1 CCTT--TAGTCCTCAAAGAGCAGGA
81269 CGCTCTCTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
54 50 0.43
55 21 0.18
59 1 0.01
60 1 0.01
61 44 0.38
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (54 bp):
CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:81254 original size:61 final size:59
Alignment explanation
Indices: 81101--81268 Score: 222
Period size: 61 Copynumber: 2.9 Consensus size: 59
81091 GAGCAGGACG
*
81101 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTTAAAGAGCAGGATGCCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGATGCCTTT
* * *
81160 -C----AAAGCTCACACTAGTTAGTGGCACTTCTTAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTC-TAGTCCTCAAAGAGCAGGATGCC-TTT
81216 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CTAGTCCTCAAAGAGCAGGA
81269 CGCTCTCTCC
Statistics
Matches: 93, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
53 3 0.03
54 20 0.22
55 22 0.24
56 3 0.03
57 1 0.01
58 1 0.01
61 42 0.45
62 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (59 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTAGTCCTCAAAGAGCAGGATGCCTTT
Found at i:81281 original size:61 final size:56
Alignment explanation
Indices: 81080--81270 Score: 221
Period size: 61 Copynumber: 3.4 Consensus size: 56
81070 TTTCACCCTT
81080 TAGTCCTCAAAGAGCAGGACG--CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-
1 TAGTCCTCAAAGAGCAGGACGTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
* * * * * *
81134 TAGTCCTTAAAGAGCAGGA--TGCCTTTCAAAGCTCACACTAGTTAGTGGCACTTC
1 TAGTCCTCAAAGAGCAGGACGTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
*
81188 TTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 -TAGTCCTCAAAGAGCAGGA---C-GTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-C
81250 TAGTCCTCAAAGAGCAGGACG
1 TAGTCCTCAAAGAGCAGGACG
81271 CTCTCTCCTT
Statistics
Matches: 114, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
53 3 0.03
54 43 0.38
55 18 0.16
58 1 0.01
61 48 0.42
62 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (56 bp):
TAGTCCTCAAAGAGCAGGACGTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
Found at i:81315 original size:209 final size:209
Alignment explanation
Indices: 80948--81664 Score: 1016
Period size: 209 Copynumber: 3.5 Consensus size: 209
80938 GCCTTTTTCT
*
80948 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
81013 AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCACCC
66 AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCACCC
*
81078 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTTA
131 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCA
81143 AAGAGCAGGATGCC
196 AAGAGCAGGATGCC
* * * * *
81157 TTTCAAAGCTCACACTAGTTAGTGGCACTTCTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
* *
81222 AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCC
66 AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCACCC
* * * * * * *
81287 GTTAGTCCTCAAATAGCAGGATGCCTTTTAAAGCCCACTCAAGTTTGTGGTA-CTTCCCAGTCCT
131 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--TAGTCCT
81351 CAAAGAGCAGGATG-C
194 CAAAGAGCAGGATGCC
* * *
81366 ---C----CTCTC-C---TT--T--CAC-CCTTGAGTCCTCAAAGAGCAGGACGCCTTCTCCTTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTCTT-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTT
81415 TAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCACC
65 TAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCACC
81480 CTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTC
130 CTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTC
*
81545 AAAGAGCAGGACGCC
195 AAAGAGCAGGATGCC
*
81560 TTTCAAAGCCCACACAAGTTGGTGGCACCT-TTAGTCCTCAAAGAGCAGGACGCCTT-T-C----
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
* * *
81618 AAAGCCCACACGAGTTAGTGGCACTTCTCAGTCCTCAAAGAGCAGGA
66 AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGA
81665 TGCCTTTTCC
Statistics
Matches: 451, Mismatches: 36, Indels: 49
0.84 0.07 0.09
Matches are distributed among these distances:
193 22 0.05
194 143 0.32
195 3 0.01
196 1 0.00
197 1 0.00
198 2 0.00
201 4 0.01
202 49 0.11
205 2 0.00
206 2 0.00
207 2 0.00
208 27 0.06
209 174 0.39
210 19 0.04
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (209 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCACCC
TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCA
AAGAGCAGGATGCC
Found at i:81456 original size:100 final size:95
Alignment explanation
Indices: 81187--81559 Score: 506
Period size: 94 Copynumber: 3.9 Consensus size: 95
81177 AGTGGCACTT
* *
81187 CTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTA
1 CTTAGTCCTCAAAGAGCAGGA---C-GTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
*
81252 GTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACC
62 GTCCTCAAAGAGCAGGACGCCCTCTCCTTTCACC
* * * * *
81286 CGTTAGTCCTCAAATAGCAGGA--TGCCTTTTAAAGCCCACTCAAGTTTGTGGTACTTCCCAGTC
1 C-TTAGTCCTCAAAGAGCAGGACGTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
*
81349 CTCAAAGAGCAGGATGCCCTCTCCTTTCACC
65 CTCAAAGAGCAGGACGCCCTCTCCTTTCACC
81380 CTTGAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 CTT-AGTCCTCAAAGAGCAGGACG---T-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
81445 AGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCACC
61 AGTCCTCAAAGAGCAGGACGCCCTCTCCTTTCACC
*
81480 CTTTAGTCCTCAAAGAGCAGGACG--CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--TAGT
1 C-TTAGTCCTCAAAGAGCAGGACGTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGT
81541 CCTCAAAGAGCAGGACGCC
64 CCTCAAAGAGCAGGACGCC
81560 TTTCAAAGCC
Statistics
Matches: 249, Mismatches: 15, Indels: 26
0.86 0.05 0.09
Matches are distributed among these distances:
93 24 0.10
94 112 0.45
95 3 0.01
99 2 0.01
100 106 0.43
101 2 0.01
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (95 bp):
CTTAGTCCTCAAAGAGCAGGACGTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCC
TCAAAGAGCAGGACGCCCTCTCCTTTCACC
Found at i:81561 original size:54 final size:54
Alignment explanation
Indices: 81479--81734 Score: 379
Period size: 54 Copynumber: 4.6 Consensus size: 54
81469 CTCCTTTCAC
*
81479 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
81533 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
81587 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTAGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
81641 -CTTCTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTT-T-AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA
81702 CCTTCTAGTCCTCAAAGAGCAGGACGCTCTTTC
1 CCTT-TAGTCCTCAAAGAGCAGGACGC-CTTTC
81735 CTTTCACCCT
Statistics
Matches: 185, Mismatches: 7, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
53 3 0.02
54 106 0.57
55 21 0.11
56 3 0.02
57 1 0.01
60 1 0.01
61 44 0.24
62 6 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (54 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:81794 original size:155 final size:148
Alignment explanation
Indices: 81587--81881 Score: 412
Period size: 155 Copynumber: 1.9 Consensus size: 148
81577 GTTGGTGGCA
*
81587 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTAGTGGCA-CTTCTCAGTC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTAGTGGCACCTT-TCAGTC
* * * *
81651 CTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCA
65 CTCAAAGAGCA--A-GAC---GCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTCA
81716 AAGAGCAGGACGCTCTTTCCTTTCAC
124 AAGAGCAGGACGC-CTTTCCTTTCAC
* * * *
81742 CCTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCC
* *
81807 TCAAAGAGCAAGACGCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCCAGTCTTCAAAGAGCA
66 TCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCA
81872 GGACGCCTTT
131 GGACGCCTTT
81882 TTCTTTTCAA
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
148 4 0.03
149 52 0.41
152 2 0.02
153 1 0.01
155 66 0.52
156 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (148 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCC
TCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCA
GGACGCCTTTCCTTTCAC
Found at i:81804 original size:55 final size:55
Alignment explanation
Indices: 81739--81943 Score: 230
Period size: 55 Copynumber: 3.6 Consensus size: 55
81729 TCTTTCCTTT
*
81739 CACCCTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* * * * *
81794 CACCTTTTAGTCTTCAAAGAGCAAGACGCCTTTTAAAGCCCACACGAGTTGGTGG
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
** *
81849 CACCCTCCAGTCTTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGG
1 CACCCTTTAGTCCTCAAAGAGCAGGACG-C-----C-TTTCAAAGCCCACACAAGTTGGTGG
** * *
81911 CACTTTTTAGTCCTCAAAGAGTAGGACACCTTT
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTT
81944 TCCTTTTCTC
Statistics
Matches: 124, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
55 76 0.61
56 2 0.02
61 2 0.02
62 44 0.35
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (55 bp):
CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:81928 original size:62 final size:61
Alignment explanation
Indices: 81769--81951 Score: 225
Period size: 62 Copynumber: 3.1 Consensus size: 61
81759 GTAGGACGCC
*
81769 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAAGACG-C----CT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGACGCCTTTTCT
* * **
81825 TTT-AAAGCCCACACGAGTTGGTGGCACCCTCCAGTCTTCAAAGAGCAGGACGCCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGACGCC-TTTTCT
* * * *
81886 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGACACCTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGACGCCTTTT-CT
81948 TTTC
1 TTTC
81952 TCCTTTGTCC
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
55 44 0.42
56 4 0.04
61 9 0.08
62 49 0.46
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGACGCCTTTTCT
Found at i:81964 original size:210 final size:209
Alignment explanation
Indices: 81533--81972 Score: 681
Period size: 210 Copynumber: 2.1 Consensus size: 209
81523 GTTGGTGGCA
81533 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCT
* *
81598 CAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTAGTGGCACTTCTCAGTCCTCAAAGAGCAG
66 CAAAGAGCAAGACGCCTTTCAAAGCCCACACGAGTTAGTGGCACCTCTCAGTCCTCAAAGAGCAG
* *
81663 GATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACG
131 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACC
81728 CTCTTTCCTTTCAC
196 CTCTTTCCTTTCAC
* *
81742 CCTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTTAGTCC
* * *
81807 TCAAAGAGCAAGACGCCTTTTAAAGCCCACACGAGTTGGTGGCACC-CTCCAGTCTTCAAAGAGC
65 TCAAAGAGCAAGACGCCTTTCAAAGCCCACACGAGTTAGTGGCACCTCT-CAGTCCTCAAAGAGC
* * * *
81871 AGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGG
129 AGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGG
*
81936 ACACCT-TTTCCTTTTC-T
193 AC-CCTCTTTCC-TTTCAC
81953 CCTTT-GTCCTCAAAGAGCAG
1 CCTTTAGTCCTCAAAGAGCAG
81973 CACACACTTC
Statistics
Matches: 211, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
209 57 0.27
210 93 0.44
211 55 0.26
212 6 0.03
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (209 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCT
CAAAGAGCAAGACGCCTTTCAAAGCCCACACGAGTTAGTGGCACCTCTCAGTCCTCAAAGAGCAG
GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACC
CTCTTTCCTTTCAC
Found at i:82172 original size:46 final size:44
Alignment explanation
Indices: 81941--82195 Score: 233
Period size: 42 Copynumber: 5.8 Consensus size: 44
81931 GTAGGACACC
* * * *
81941 TTTTCCTTTTCT-CCTTTGTCCTCAAAGAGCAGCACACACTTC-
1 TTTTCCTTTTTTCCCTTTGTCCTCAAAGAGCAGGACGCATTTCG
* * * *
81983 ATTCCCTTATTTCCTCTTTTGTCCTCAAAGAGCAGGACGCACTTT-A
1 TTTTCCTTTTTTCC-C-TTTGTCCTCAAAGAGCAGGACGCA-TTTCG
* *
82029 TTTTCC-TCTTT-CTTTTGTCCTCAAAGAGCAGGACGCATTTCG
1 TTTTCCTTTTTTCCCTTTGTCCTCAAAGAGCAGGACGCATTTCG
* *
82071 TTTTCCTTTTCT-CCTTTGTCCTCAAAGAGCAGGACGC-TCT-G
1 TTTTCCTTTTTTCCCTTTGTCCTCAAAGAGCAGGACGCATTTCG
* *
82112 TATTTCCTTCTTTTCCCTTCTAGTCCTCAAAGAGCAAGACACATTTCG
1 T-TTTCCTT-TTTTCCCTT-T-GTCCTCAAAGAGCAGGACGCATTTCG
*
82160 TTTTCCTTTTTT-CCTTTTTCCTCGAAA-AGCAGGACG
1 TTTTCCTTTTTTCCCTTTGTCCTC-AAAGAGCAGGACG
82196 TACTCTTCTT
Statistics
Matches: 175, Mismatches: 23, Indels: 29
0.77 0.10 0.13
Matches are distributed among these distances:
41 5 0.03
42 47 0.27
43 43 0.25
44 10 0.06
45 31 0.18
46 28 0.16
47 9 0.05
48 2 0.01
ACGTcount: A:0.19, C:0.29, G:0.13, T:0.39
Consensus pattern (44 bp):
TTTTCCTTTTTTCCCTTTGTCCTCAAAGAGCAGGACGCATTTCG
Found at i:82175 original size:89 final size:85
Alignment explanation
Indices: 82000--82195 Score: 261
Period size: 89 Copynumber: 2.3 Consensus size: 85
81990 TATTTCCTCT
* * * *
82000 TTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGACGC
1 TTTGTCCTCAAAGAGCAGGACGCACTGTATTTTCCTCTTTCTTTAGTCCTCAAAGAGCAAGACAC
82065 ATTTCGTTTTCCTTTTCTCC
66 ATTTCGTTTTCCTTTTCTCC
*
82085 TTTGTCCTCAAAGAGCAGGACGCTCTGTA-TTTCCTTCTTTTCCCTTCTAGTCCTCAAAGAGCAA
1 TTTGTCCTCAAAGAGCAGGACGCACTGTATTTTCC-TC-TTT--CTT-TAGTCCTCAAAGAGCAA
*
82149 GACACATTTCGTTTTCCTTTTTTCC
61 GACACATTTCGTTTTCCTTTTCTCC
*
82174 TTTTTCCTCGAAA-AGCAGGACG
1 TTTGTCCTC-AAAGAGCAGGACG
82196 TACTCTTCTT
Statistics
Matches: 98, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
84 5 0.05
85 29 0.30
86 3 0.03
88 3 0.03
89 55 0.56
90 3 0.03
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.38
Consensus pattern (85 bp):
TTTGTCCTCAAAGAGCAGGACGCACTGTATTTTCCTCTTTCTTTAGTCCTCAAAGAGCAAGACAC
ATTTCGTTTTCCTTTTCTCC
Found at i:82755 original size:13 final size:13
Alignment explanation
Indices: 82737--82762 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82727 ATTTGTAGAA
82737 TGTATCGATACAT
1 TGTATCGATACAT
82750 TGTATCGATACAT
1 TGTATCGATACAT
82763 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:85242 original size:79 final size:78
Alignment explanation
Indices: 85148--85466 Score: 345
Period size: 79 Copynumber: 4.0 Consensus size: 78
85138 TTTTTCATCG
* *
85148 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTA
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCA
85213 ATTTCTCATAATC
66 ATTTCTCATAATC
* * * * *
85226 GGGAATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTGGTTTTATTTCCAAAACACC
1 GGG-ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATC
* *
85291 AATTTCTCACAATTA
65 AATTTCTCATAA-TC
* * * * *
85306 GGGATACTCCAACCCCGCTATTTTCGCGGGGATACTTCAACCCCGATTTTATTT-TCAAAATATC
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCT-AAAATATC
*
85370 GATTT-TCTATAATC
65 AATTTCTC-ATAATC
** * ** * * *
85384 AGGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCAATTTTTATTTCTAGAACAC
1 -GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC-GGTTTTATTTCTAAAATAT
* *
85449 CGATTTTTCATAATC
64 CAATTTCTCATAATC
85464 GGG
1 GGG
85467 GGATACTTTA
Statistics
Matches: 201, Mismatches: 32, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
78 6 0.03
79 164 0.82
80 28 0.14
81 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (78 bp):
GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATCA
ATTTCTCATAATC
Found at i:86579 original size:49 final size:49
Alignment explanation
Indices: 86490--86619 Score: 161
Period size: 49 Copynumber: 2.7 Consensus size: 49
86480 TATTAGACTT
* * * * * * **
86490 GTGCCAATGTACTGATTCAAGGCTAGTGACATTGGTCTTAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAAGATAAAG
*
86539 GTGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAAGATAAAG
* *
86588 GTGCCAATATGCTGATTTAAGGCCAACGATAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATAT
86620 TGGGCTTGTG
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAAGATAAAG
Found at i:86631 original size:88 final size:88
Alignment explanation
Indices: 86539--86846 Score: 447
Period size: 88 Copynumber: 3.5 Consensus size: 88
86529 AAAGATAAAG
* * * * ** *
86539 GTGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
*
86604 TTAAGGCCAACGATATTGGGCTT
66 TCAAGGCCAACGATATTGGGCTT
*
86627 GTGCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* * *
86692 TCAAGGCAAATGATATTGAGCTT
66 TCAAGGCCAACGATATTGGGCTT
* *
86715 GTGCCAATGTGCTGATTCAAGACCAGTGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
*
86779 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAACGATATTGGGCTT
* * *
86802 GTGCCAATGTGCTGAGTCAAGGCCAGTAACATTGGACTTAAAGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGAT
86847 GGTTAAGGTG
Statistics
Matches: 196, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
87 78 0.40
88 118 0.60
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (88 bp):
GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
TCAAGGCCAACGATATTGGGCTT
Found at i:86661 original size:39 final size:39
Alignment explanation
Indices: 86588--86836 Score: 156
Period size: 39 Copynumber: 5.9 Consensus size: 39
86578 AAAGATGAAG
* ** *
86588 GTGCCAATATGCTGATTTAAGGCCAACGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
* * *
86627 GTGCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGAT
1 GTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGC-T-----T
* * * *
86672 AAAGGTGCCAATATGCTGATTCAAGGCAAATGATATTGAGCTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
* * *
86715 GTGCCAATGTGCTGATTCAAGACCAGTGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
* *
86754 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
* * *
86802 GTGCCAATGTGCTGAGTCAAGGCCAGTAACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGTGACATTGG
86837 ACTTAAAGAT
Statistics
Matches: 160, Mismatches: 31, Indels: 38
0.70 0.14 0.17
Matches are distributed among these distances:
39 92 0.57
40 1 0.01
43 1 0.01
45 1 0.01
48 35 0.22
49 30 0.19
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
Found at i:86697 original size:137 final size:137
Alignment explanation
Indices: 86451--86698 Score: 433
Period size: 137 Copynumber: 1.8 Consensus size: 137
86441 CGTCCCGACA
* * * *
86451 GTGCCAATATGTTGATTCAAGGTCAGCGATATTAGACTTGTGCCAATGTACTGATTCAAGGCTAG
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTAGACTTGTGCCAATGTACTGATTCAAGGCCAG
86516 TGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAA
66 TGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAA
86581 GATGAAG
131 GATGAAG
* * *
86588 GTGCCAATATGCTGATTTAAGGCCAACGATATTGGGCTTGTGCCAATGTACTGATTCAAGGCCAG
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTAGACTTGTGCCAATGTACTGATTCAAGGCCAG
86653 TGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGC
66 TGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGC
86699 AAATGATATT
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 104 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (137 bp):
GTGCCAATATGCTGATTCAAGGCCAACGATATTAGACTTGTGCCAATGTACTGATTCAAGGCCAG
TGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAA
GATGAAG
Found at i:86934 original size:34 final size:32
Alignment explanation
Indices: 86894--87477 Score: 577
Period size: 33 Copynumber: 18.1 Consensus size: 32
86884 AAGGTATGGG
* *
86894 CTTAAAAGGGAAAAGAGTGCCACGGAGTCGTGGA
1 CTTAAAA-GAAAAAG-GTGCCACGGAGTTGTGGA
* *
86928 CATAAAA-AGAAAAGGTGCCACAGAGTTGTGGA
1 CTTAAAAGA-AAAAGGTGCCACGGAGTTGTGGA
* *
86960 CTTAAAAGGAACAAGGTGCCACGGAGTTATGGA
1 CTTAAAA-GAAAAAGGTGCCACGGAGTTGTGGA
* *
86993 CTTAAAAGGAAAAGGGTACCACGGAGTTGTGGA
1 CTTAAAA-GAAAAAGGTGCCACGGAGTTGTGGA
* *
87026 CTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGG
1 CTTAAAA-GAAAAAG-GTGCCACGGAGTTGTGGA
87060 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGA
1 C-TT-AAAAGAAAAAGGTGCCACGGAGTTGTGGA
* *
87094 CTTAAAAGGAAAAAGATGCAACGGAGTTGTGGA
1 CTTAAAA-GAAAAAGGTGCCACGGAGTTGTGGA
*
87127 CTTAAAAG-----GGTGCCACGGAGTTATGGA
1 CTTAAAAGAAAAAGGTGCCACGGAGTTGTGGA
* *
87154 CTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGG
1 CTTAAAA-GAAAAAG-GTGCCACGGAGTTGTGGA
87188 CTTTAAAA-AAAAAGGTGCCACGGAGTTGTGGA
1 C-TTAAAAGAAAAAGGTGCCACGGAGTTGTGGA
* *
87220 CTTAAAAGGAAAATGATGCCACGGAGTTGTGGA
1 CTTAAAA-GAAAAAGGTGCCACGGAGTTGTGGA
87253 CTTAAAAG-----GGTGCCACGGAGTTGTGGA
1 CTTAAAAGAAAAAGGTGCCACGGAGTTGTGGA
87280 CTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGA
1 CTT-AAAAGAAAAAG-GTGCCACGGAGTTGTGGA
87314 CTTAAAAGAAAAAGGTGCCACAGG-GTTGTGGA
1 CTTAAAAGAAAAAGGTGCCAC-GGAGTTGTGGA
* * *
87346 CTTAAAAGGAAAAAGATGCCACTGAGTCGTGGA
1 CTTAAAA-GAAAAAGGTGCCACGGAGTTGTGGA
* * *
87379 CTTTAAAG-AAAAGGATGCCACTGAGTCGTGGA
1 CTTAAAAGAAAAAGG-TGCCACGGAGTTGTGGA
** ** **
87411 CTTTTAAGAAAAAGGATGCCACTAAGTCATGGA
1 CTTAAAAGAAAAAGG-TGCCACGGAGTTGTGGA
** * * *
87444 CTTTGAAG-AAAAGATGCCACAGAGTCGTGGA
1 CTTAAAAGAAAAAGGTGCCACGGAGTTGTGGA
87475 CTT
1 CTT
87478 TGAGAAGAGA
Statistics
Matches: 477, Mismatches: 44, Indels: 61
0.82 0.08 0.10
Matches are distributed among these distances:
27 44 0.09
28 6 0.01
31 28 0.06
32 98 0.21
33 205 0.43
34 77 0.16
35 15 0.03
36 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (32 bp):
CTTAAAAGAAAAAGGTGCCACGGAGTTGTGGA
Found at i:86981 original size:33 final size:31
Alignment explanation
Indices: 86894--87571 Score: 548
Period size: 33 Copynumber: 21.1 Consensus size: 31
86884 AAGGTATGGG
*
86894 CTTAAAAGGGAAAAGAGTGCCACGGAGTCGTGGA
1 CTTAAAA--GAAAAG-GTGCCACGGAGTTGTGGA
* *
86928 CATAAAAAGAAAAGGTGCCACAGAGTTGTGGA
1 C-TTAAAAGAAAAGGTGCCACGGAGTTGTGGA
*
86960 CTTAAAAGGAACAAGGTGCCACGGAGTTATGGA
1 CTTAAAA-GAA-AAGGTGCCACGGAGTTGTGGA
*
86993 CTTAAAAGGAAAAGGGTACCACGGAGTTGTGGA
1 CTTAAAA-GAAAA-GGTGCCACGGAGTTGTGGA
* *
87026 CTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGG
1 CTTAAAA-G-AAAAG-GTGCCACGGAGTTGTGGA
87060 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGA
1 C-TT-AAAAG-AAAAGGTGCCACGGAGTTGTGGA
* *
87094 CTTAAAAGGAAAAAGATGCAACGGAGTTGTGGA
1 CTTAAAA-G-AAAAGGTGCCACGGAGTTGTGGA
*
87127 CTTAAAAG----GGTGCCACGGAGTTATGGA
1 CTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
* *
87154 CTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGG
1 CTTAAAA-G-AAAAG-GTGCCACGGAGTTGTGGA
*
87188 CTTTAAAAAAAAAGGTGCCACGGAGTTGTGGA
1 C-TTAAAAGAAAAGGTGCCACGGAGTTGTGGA
*
87220 CTTAAAAGGAAAATGATGCCACGGAGTTGTGGA
1 CTTAAAA-GAAAA-GGTGCCACGGAGTTGTGGA
87253 CTTAAAAG----GGTGCCACGGAGTTGTGGA
1 CTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
87280 CTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGA
1 CTT-AAAAG-AAAAG-GTGCCACGGAGTTGTGGA
87314 CTTAAAAGAAAAAGGTGCCACAGG-GTTGTGGA
1 CTTAAAAG-AAAAGGTGCCAC-GGAGTTGTGGA
* * *
87346 CTTAAAAGGAAAAAGATGCCACTGAGTCGTGGA
1 CTTAAAA-G-AAAAGGTGCCACGGAGTTGTGGA
* * *
87379 CTTTAAAGAAAAGGATGCCACTGAGTCGTGGA
1 CTTAAAAGAAAAGG-TGCCACGGAGTTGTGGA
** ** **
87411 CTTTTAAGAAAAAGGATGCCACTAAGTCATGGA
1 CTTAAAAG-AAAAGG-TGCCACGGAGTTGTGGA
** * * *
87444 CTTTGAAGAAAAGATGCCACAGAGTCGTGGA
1 CTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
* * * * * * *
87475 CTTTGAGAAG-AGAGATGCCACAGCGTCGTGAA
1 C-TT-AAAAGAAAAGGTGCCACGGAGTTGTGGA
** * *
87507 CTTTGAAGAAAAGATGCCACAGAGTTGTGGA
1 CTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
** * ** *
87538 CTTTGAAGAAAAGATGCCATAGAGTCGTGGA
1 CTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
87569 CTT
1 CTT
87572 TGAGAAAAGA
Statistics
Matches: 559, Mismatches: 51, Indels: 71
0.82 0.07 0.10
Matches are distributed among these distances:
27 44 0.08
28 6 0.01
30 4 0.01
31 83 0.15
32 124 0.22
33 199 0.36
34 75 0.13
35 20 0.04
36 4 0.01
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.20
Consensus pattern (31 bp):
CTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
Found at i:86993 original size:65 final size:64
Alignment explanation
Indices: 86894--87477 Score: 648
Period size: 65 Copynumber: 9.0 Consensus size: 64
86884 AAGGTATGGG
* * * *
86894 CTTAAAAGGGAAAAGAGTGCCACGGAGTCGTGGACATAAAAAGAAAAGGTGCCACAGAGTTGTGG
1 CTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGAAAAGGTGCCACGGAGTTGTGG
86959 A
64 A
* * *
86960 CTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAGGGTACCACGGAGTTGTGG
1 CTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GAAAA-GGTGCCACGGAGTTGTGG
87025 A
64 A
* *
87026 CTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGT
1 CTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGAC-TT-AAAAG-AAAAGGTGCCACGGAGTTGT
87091 GGA
62 GGA
* * *
87094 CTTAAAAGGAAAAAGATGCAACGGAGTTGTGGACTTAAAAG----GGTGCCACGGAGTTATGGA
1 CTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
* * *
87154 CTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAAAAAAAGGTGCCACGGAGTTGTGG
1 CTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGAAAAGGTGCCACGGAGTTGTGG
87219 A
64 A
* *
87220 CTTAAAAGGAAAATGATGCCACGGAGTTGTGGACTTAAAAG----GGTGCCACGGAGTTGTGGA
1 CTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
*
87280 CTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACAGG-GTTGTG
1 CTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGACTTAAAAG-AAAAGGTGCCAC-GGAGTTGTG
87344 GA
63 GA
* * * * * *
87346 CTTAAAAGGAAAAAGATGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGA
1 CTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAGG-TGCCACGGAGTTGTGGA
** ** ** ** * * *
87411 CTTTTAA-GAAAAAGGATGCCACTAAGTCATGGACTTTGAAGAAAAGATGCCACAGAGTCGTGGA
1 CTTAAAAGGAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
87475 CTT
1 CTT
87478 TGAGAAGAGA
Statistics
Matches: 452, Mismatches: 44, Indels: 46
0.83 0.08 0.08
Matches are distributed among these distances:
60 65 0.14
61 40 0.09
62 6 0.01
64 44 0.10
65 110 0.24
66 108 0.24
67 35 0.08
68 36 0.08
69 8 0.02
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (64 bp):
CTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAGGTGCCACGGAGTTGTGGA
Found at i:87142 original size:60 final size:60
Alignment explanation
Indices: 87070--87386 Score: 411
Period size: 60 Copynumber: 5.1 Consensus size: 60
87060 CTTTAAAAAG
* *
87070 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCAACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
* * *
87130 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGAC-TT
* *
87192 AAAAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAATGATGCCACGGAGTTGTGGACTT
1 ----AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
*
87256 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGACTT
* *
87317 AAAAGAAAAAGGTGCCACAGG-GTTGTGGACTTAAAAGGAAAAAGATGCCACTGAGTCGTGGACT
1 AAAAG-----GGTGCCAC-GGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACT
87381 T
60 T
*
87382 TAAAG
1 AAAAG
87387 AAAAGGATGC
Statistics
Matches: 227, Mismatches: 17, Indels: 21
0.86 0.06 0.08
Matches are distributed among these distances:
60 75 0.33
61 40 0.18
62 2 0.01
64 2 0.01
65 38 0.17
66 68 0.30
67 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.20
Consensus pattern (60 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
Found at i:87260 original size:126 final size:126
Alignment explanation
Indices: 86888--87386 Score: 689
Period size: 126 Copynumber: 3.9 Consensus size: 126
86878 GCCACAAAGG
* * * * *
86888 TATGGGCTTAAAAGGGAAAAGAGTGCCACGGAGTCGTGGACATAAAA-AGAAAAGGTGCCACAGA
1 TATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGA-AAAAGGTGCCACGGA
* * * *
86952 GTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAGGGTACCACGG
65 GTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT------AAAAGGGTGCCACGG
87017 AGT
124 AGT
* * *
87020 TGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
1 TATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGAAAAAGGTGCCACGG
*
87085 AGTTGTGGACTTAAAAGGAAAAAGATGCAACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
64 AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
87148 TATGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAA-AAAAAGGTGCCACGGA
1 TATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGAAAAAGGTGCCACGGA
*
87212 GTTGTGGACTTAAAAGGAAAATGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
65 GTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
87274 TGTGGACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACAGG-
1 TATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCAC-GGA
* * *
87338 GTTGTGGACTTAAAAGGAAAAAGATGCCACTGAGTCGTGGACTTTAAAG
65 GTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAG
87387 AAAAGGATGC
Statistics
Matches: 336, Mismatches: 26, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
125 6 0.02
126 171 0.51
127 6 0.02
128 58 0.17
132 35 0.10
133 1 0.00
134 58 0.17
135 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.19
Consensus pattern (126 bp):
TATGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAG
TTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
Found at i:88876 original size:6 final size:6
Alignment explanation
Indices: 88857--88902 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
88847 TCTTTTTTTG
*
88857 TTTG-T TTT-TT TTTGTT TTTGTT TTTGTCT TTTGTT TTTTTT TTTGT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGT-T TTTGTT TTTGTT TTTGT
88903 GTGTTTTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
5 7 0.19
6 23 0.64
7 6 0.17
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (6 bp):
TTTGTT
Found at i:88894 original size:19 final size:19
Alignment explanation
Indices: 88851--88902 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
88841 TTGCACTCTT
* *
88851 TTTTTGTTTGTTTTTTTTTG
1 TTTTTGTTT-TTGTCTTTTG
88871 TTTTTGTTTTTGTCTTTTG
1 TTTTTGTTTTTGTCTTTTG
*
88890 TTTTTTTTTTTGT
1 TTTTTGTTTTTGT
88903 GTGTTTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 20 0.69
20 9 0.31
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (19 bp):
TTTTTGTTTTTGTCTTTTG
Found at i:88909 original size:14 final size:14
Alignment explanation
Indices: 88849--88910 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 14
88839 CTTTGCACTC
*
88849 TTTTTTTGTTTGTT
1 TTTTTTTGTGTGTT
*
88863 TTTTTTTGTTTTTGTT
1 TTTTTTTG--TGTGTT
*
88879 TTTGTCTTT-TGTTTT
1 TTT-T-TTTGTGTGTT
88894 TTTTTTTGTGTGTT
1 TTTTTTTGTGTGTT
88908 TTT
1 TTT
88911 ACTTTTGACT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 3 0.08
14 17 0.43
15 7 0.17
16 9 0.22
17 1 0.03
18 3 0.08
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.84
Consensus pattern (14 bp):
TTTTTTTGTGTGTT
Found at i:88917 original size:35 final size:33
Alignment explanation
Indices: 88852--88923 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 33
88842 TGCACTCTTT
** *
88852 TTTTGTTTGTTTTTTTTTGTTTTTGTTTTTGTC
1 TTTTGTTTGTTTTTTTTTGTTTTTACTTTTGAC
*
88885 TTTTGTTTTTTTTTTTGTGTGTTTTTACTTTTGAC
1 TTTTGTTTGTTTTTTT-T-TGTTTTTACTTTTGAC
88920 TTTT
1 TTTT
88924 TCATCATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 15 0.45
34 1 0.03
35 17 0.52
ACGTcount: A:0.03, C:0.04, G:0.14, T:0.79
Consensus pattern (33 bp):
TTTTGTTTGTTTTTTTTTGTTTTTACTTTTGAC
Found at i:94414 original size:51 final size:51
Alignment explanation
Indices: 94342--94451 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 51
94332 ACAGGGTTGG
* * *
94342 AGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTCGA
1 AGTATCCCTGATTATAAAAAATTGGTATTTTAAAAATAAAATCGGGGTCGA
* * *
94393 AGTAT-CCTCGATTGTAAAAAATTGGTATTTTAAAAATAAAATCGGGGTTGG
1 AGTATCCCT-GATTATAAAAAATTGGTATTTTAAAAATAAAATCGGGGTCGA
94444 AGTATCCC
1 AGTATCCC
94452 CTCAAAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
50 3 0.06
51 46 0.90
52 2 0.04
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (51 bp):
AGTATCCCTGATTATAAAAAATTGGTATTTTAAAAATAAAATCGGGGTCGA
Found at i:96935 original size:13 final size:13
Alignment explanation
Indices: 96917--96946 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
96907 AAAATGCCTG
96917 AATGTATCGATAC
1 AATGTATCGATAC
*
96930 AATGTATTGATAC
1 AATGTATCGATAC
96943 AATG
1 AATG
96947 AGCCATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:97046 original size:13 final size:13
Alignment explanation
Indices: 96999--97028 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
96989 GTAAACCCAG
96999 AATGTATCAATAC
1 AATGTATCAATAC
*
97012 AATGTATCGATAC
1 AATGTATCAATAC
97025 AATG
1 AATG
97029 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:99941 original size:13 final size:13
Alignment explanation
Indices: 99923--99983 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 13
99913 ATACAAAGAT
99923 CAATGTATCGATA
1 CAATGTATCGATA
99936 CAATGTATCGAT-
1 CAATGTATCGATA
*
99948 --A--TATTGA-A
1 CAATGTATCGATA
*
99956 TAATGTATCGATA
1 CAATGTATCGATA
*
99969 TAATGTATCGATA
1 CAATGTATCGATA
99982 CA
1 CA
99984 TTGAATAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
8 5 0.13
10 2 0.05
12 5 0.13
13 27 0.69
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:99947 original size:33 final size:33
Alignment explanation
Indices: 99905--100003 Score: 146
Period size: 33 Copynumber: 3.0 Consensus size: 33
99895 AAATTCCTAG
**
99905 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACATTGAAT-AATGTATCGATACA
* *
99938 ATGTATCGATATATTGAATAATGTATCGATATA
1 ATGTATCGATACATTGAATAATGTATCGATACA
99971 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACATTGAATAATGTATCGATACA
100004 TTTCCTTGGC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
33 57 0.97
34 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACATTGAATAATGTATCGATACA
Found at i:100002 original size:20 final size:20
Alignment explanation
Indices: 99937--100005 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
99927 GTATCGATAC
*
99937 AATGTATCGATATATTGAAT
1 AATGTATCGATACATTGAAT
99957 AATGTATCG----A-T--AT
1 AATGTATCGATACATTGAAT
99970 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
99990 AATGTATCGATACATT
1 AATGTATCGATACATT
100006 TCCTTGGCAG
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.26
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
20 27 0.64
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTGAAT
Found at i:101119 original size:28 final size:27
Alignment explanation
Indices: 101085--101166 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 27
101075 TTTGTCTTCA
101085 TTGATTTCTCTTCCTTTGATATTTCTTG
1 TTGATTTCTCTTCC-TTGATATTTCTTG
*
101113 CTT-ATTTCGT-TTCCCTTAATATTTCTTG
1 -TTGATTTC-TCTT-CCTTGATATTTCTTG
* *
101141 TTGATTTCACTTCCTTGATCTTTCTT
1 TTGATTTCTCTTCCTTGATATTTCTT
101167 ATCAAAGTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
27 14 0.31
28 26 0.58
29 5 0.11
ACGTcount: A:0.12, C:0.21, G:0.09, T:0.59
Consensus pattern (27 bp):
TTGATTTCTCTTCCTTGATATTTCTTG
Found at i:103846 original size:12 final size:12
Alignment explanation
Indices: 103829--103856 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
103819 TCAATAAGGC
103829 ATGACCACGCCT
1 ATGACCACGCCT
103841 ATGACCACGCCT
1 ATGACCACGCCT
103853 ATGA
1 ATGA
103857 TTAATGCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.18
Consensus pattern (12 bp):
ATGACCACGCCT
Found at i:116866 original size:18 final size:18
Alignment explanation
Indices: 116825--116907 Score: 77
Period size: 16 Copynumber: 4.8 Consensus size: 18
116815 CATTGGGGTT
*
116825 GAAAATCTATGATT-ATA
1 GAAAATCTATGATTCTTA
116842 G-AAATCTATGATTCTTA
1 GAAAATCTATGATTCTTA
*
116859 GAAAATCTAAGATTCTTA
1 GAAAATCTATGATTCTTA
* *
116877 -AAATATTCTGTGATTCCT-
1 GAAA-A-TCTATGATTCTTA
116895 -AAAATCTATGATT
1 GAAAATCTATGATT
116908 GATGTTGATC
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
16 20 0.36
17 8 0.14
18 19 0.34
19 9 0.16
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.39
Consensus pattern (18 bp):
GAAAATCTATGATTCTTA
Found at i:119649 original size:18 final size:18
Alignment explanation
Indices: 119626--119690 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
119616 ATGATTACAG
119626 AAATCTATGATTCTTAGA
1 AAATCTATGATTCTTAGA
**
119644 AAATCTGCGATTCTTAGA
1 AAATCTATGATTCTTAGA
*
119662 AAATTCTATGATTCCT--A
1 AAA-TCTATGATTCTTAGA
119679 AAATCTATGATT
1 AAATCTATGATT
119691 GATGCTGATC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
16 9 0.22
17 4 0.10
18 19 0.46
19 9 0.22
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
AAATCTATGATTCTTAGA
Found at i:127174 original size:12 final size:11
Alignment explanation
Indices: 127152--127227 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
127142 AGAGAAAGAA
*
127152 GAGAGAGGAGG
1 GAGATAGGAGG
127163 GATGATAGGAGG
1 GA-GATAGGAGG
*
127175 AGAGACAGGA--
1 -GAGATAGGAGG
*
127185 GAGATAGTA--
1 GAGATAGGAGG
127194 GAGATAGGAGG
1 GAGATAGGAGG
127205 GATGATAGGAGG
1 GA-GATAGGAGG
*
127217 AGAGACAGGAG
1 -GAGATAGGAG
127228 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:127184 original size:24 final size:24
Alignment explanation
Indices: 127151--127236 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
127141 AAGAGAAAGA
*
127151 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
127175 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
127193 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
127217 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
127237 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:127203 original size:42 final size:42
Alignment explanation
Indices: 127142--127260 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
127132 TAGCCCTCAA
* *
127142 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
127184 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
127226 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
127261 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:132729 original size:26 final size:29
Alignment explanation
Indices: 132699--132761 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
132689 TTGGAAATAT
*
132699 ATAATTAGA-CTCC-AA-TAATTAATCAC
1 ATAATTAGACCACCGAATTAATTAATCAC
*
132725 ATAATTCATACCACCGAATTAATTAATCAC
1 ATAATT-AGACCACCGAATTAATTAATCAC
132755 ATAATTA
1 ATAATTA
132762 TTAATCTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 6 0.19
27 2 0.06
28 3 0.10
29 3 0.10
30 17 0.55
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (29 bp):
ATAATTAGACCACCGAATTAATTAATCAC
Found at i:133846 original size:15 final size:17
Alignment explanation
Indices: 133817--133849 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
133807 TACTCTTATA
133817 TGTAATATAATTAAATT
1 TGTAATATAATTAAATT
133834 TGTAATA-AA-TAAATT
1 TGTAATATAATTAAATT
133849 T
1 T
133850 TGAGTTGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TGTAATATAATTAAATT
Found at i:139369 original size:9 final size:9
Alignment explanation
Indices: 139352--139410 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
139342 ATGATTGAAA
*
139352 GAGAAATAG
1 GAGAGATAG
139361 GAGAGATAG
1 GAGAGATAG
*
139370 TAGAGATAG
1 GAGAGATAG
*
139379 GAGGGAT--
1 GAGAGATAG
* *
139386 GATAG-GAG
1 GAGAGATAG
139394 GAGAGATAG
1 GAGAGATAG
139403 GAGAGATA
1 GAGAGATA
139411 ATAGAGAGAG
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.11
9 31 0.82
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.14
Consensus pattern (9 bp):
GAGAGATAG
Found at i:139391 original size:12 final size:12
Alignment explanation
Indices: 139371--139405 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
139361 GAGAGATAGT
139371 AGAGATAGGAGG
1 AGAGATAGGAGG
139383 -GATGATAGGAGG
1 AGA-GATAGGAGG
139395 AGAGATAGGAG
1 AGAGATAGGAG
139406 AGATAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.49, T:0.11
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:139414 original size:12 final size:12
Alignment explanation
Indices: 139374--139419 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
139364 AGATAGTAGA
*
139374 GATAGGAGGGAT
1 GATAGGAGAGAT
139386 GATAGGAGGAGA-
1 GATAGGA-GAGAT
139398 GATAGGAGAGAT
1 GATAGGAGAGAT
*
139410 AATA-GAGAGA
1 GATAGGAGAGA
139420 GGAGGGATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 10 0.33
12 17 0.57
13 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.13
Consensus pattern (12 bp):
GATAGGAGAGAT
Found at i:139435 original size:42 final size:42
Alignment explanation
Indices: 139329--139438 Score: 157
Period size: 42 Copynumber: 2.6 Consensus size: 42
139319 AAGAGAAAGA
* * * *
139329 AGAGATAGGAGGGATGATTGAAAGAGAAATAGGAGAGATAGT
1 AGAGATAGGAGGGATGATAGGAGGAGAAATAGGAGAGATAAT
*
139371 AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAAT
1 AGAGATAGGAGGGATGATAGGAGGAGAAATAGGAGAGATAAT
* *
139413 AGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGGAGGGATGATAGGAGGAG
139439 GAGAGAAGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.43, C:0.01, G:0.44, T:0.13
Consensus pattern (42 bp):
AGAGATAGGAGGGATGATAGGAGGAGAAATAGGAGAGATAAT
Found at i:140154 original size:13 final size:13
Alignment explanation
Indices: 140136--140162 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
140126 TACTAATCCT
140136 TTACTTCTAGGCA
1 TTACTTCTAGGCA
140149 TTACTTCTAGGCA
1 TTACTTCTAGGCA
140162 T
1 T
140163 AGGGAAATCA
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:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (13 bp):
TTACTTCTAGGCA
Found at i:143917 original size:124 final size:124
Alignment explanation
Indices: 143692--143942 Score: 475
Period size: 124 Copynumber: 2.0 Consensus size: 124
143682 TTGAAGGAGG
*
143692 GGCTGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCATTGGAAGGATTTCAAG
1 GGCTAATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCATTGGAAGGATTTCAAG
143757 GACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCT
66 GACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCT
* *
143816 GGCTAATGAAAACCAAGGAAGGTCCATTGAAGGCAAAGACCTGAAGGCGTTGGAAGGATTTCAAG
1 GGCTAATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCATTGGAAGGATTTCAAG
143881 GACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCT
66 GACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCT
143940 GGC
1 GGC
143943 CTATTTGAAA
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.39, C:0.15, G:0.31, T:0.14
Consensus pattern (124 bp):
GGCTAATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCATTGGAAGGATTTCAAG
GACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCT
Found at i:145463 original size:12 final size:11
Alignment explanation
Indices: 145441--145516 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
145431 AGAGAAAGAA
*
145441 GAGAGAGGAGG
1 GAGATAGGAGG
145452 GATGATAGGAGG
1 GA-GATAGGAGG
*
145464 AGAGACAGGA--
1 -GAGATAGGAGG
*
145474 GAGATAGTA--
1 GAGATAGGAGG
145483 GAGATAGGAGG
1 GAGATAGGAGG
145494 GATGATAGGAGG
1 GA-GATAGGAGG
*
145506 AGAGACAGGAG
1 -GAGATAGGAG
145517 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:145473 original size:24 final size:24
Alignment explanation
Indices: 145440--145525 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
145430 AAGAGAAAGA
*
145440 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
145464 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
145482 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
145506 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
145526 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:145492 original size:42 final size:42
Alignment explanation
Indices: 145431--145549 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
145421 TAGCCCTCAA
* *
145431 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
145473 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
145515 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
145550 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:150017 original size:124 final size:124
Alignment explanation
Indices: 149792--150042 Score: 475
Period size: 124 Copynumber: 2.0 Consensus size: 124
149782 TTGAAGGAGG
*
149792 GGCTGATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCATTGGAAGGATTTCAAG
1 GGCTAATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCATTGGAAGGATTTCAAG
149857 GACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCT
66 GACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCT
* *
149916 GGCTAATGAAAACCAAGGAAGGTCCATTGAAGGCAAAGACCTGAAGGCGTTGGAAGGATTTCAAG
1 GGCTAATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCATTGGAAGGATTTCAAG
149981 GACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCT
66 GACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCT
150040 GGC
1 GGC
150043 CTATTTGAAA
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.39, C:0.15, G:0.31, T:0.14
Consensus pattern (124 bp):
GGCTAATGAAAACCAAGGAAGGTCCATTGAAGACAAAGACCTGAAGGCATTGGAAGGATTTCAAG
GACCAATAACGAGGGCAAAGGCAAAGAGGATAAAGGAAGACCTAGAGAAGATGGTTGCT
Found at i:151563 original size:12 final size:11
Alignment explanation
Indices: 151541--151616 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
151531 AGAGAAAGAA
*
151541 GAGAGAGGAGG
1 GAGATAGGAGG
151552 GATGATAGGAGG
1 GA-GATAGGAGG
*
151564 AGAGACAGGA--
1 -GAGATAGGAGG
*
151574 GAGATAGTA--
1 GAGATAGGAGG
151583 GAGATAGGAGG
1 GAGATAGGAGG
151594 GATGATAGGAGG
1 GA-GATAGGAGG
*
151606 AGAGACAGGAG
1 -GAGATAGGAG
151617 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:151573 original size:24 final size:24
Alignment explanation
Indices: 151540--151625 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
151530 AAGAGAAAGA
*
151540 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
151564 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
151582 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
151606 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
151626 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:151592 original size:42 final size:42
Alignment explanation
Indices: 151531--151649 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
151521 TAGCCCTCAA
* *
151531 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
151573 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
151615 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
151650 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:157490 original size:42 final size:42
Alignment explanation
Indices: 157435--157553 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
157425 TTCTTCTCTC
* *
157435 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
157477 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
157519 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
157554 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:157494 original size:12 final size:11
Alignment explanation
Indices: 157468--157543 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
157458 TCTATTATCT
*
157468 CTCCTGTCTCTC
1 CTCCTATCTC-C
157480 CTCCTATCATCC
1 CTCCTATC-TCC
157492 CTCCTATCT--
1 CTCCTATCTCC
*
157501 CTACTATCT--
1 CTCCTATCTCC
*
157510 CTCCTGTCTCTC
1 CTCCTATCTC-C
157522 CTCCTATCATCC
1 CTCCTATC-TCC
*
157534 CTCCTCTCTC
1 CTCCTATCTC
157544 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:157495 original size:24 final size:24
Alignment explanation
Indices: 157459--157544 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
157449 CCTCCTCTCT
* *
157459 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
157483 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
157504 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
157525 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
157545 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:157519 original size:18 final size:18
Alignment explanation
Indices: 157450--157520 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
157440 CCTGTCATCC
* *
157450 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
157468 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
157490 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
157510 CTCCTGTCTCT
1 CTCCTGTCTCT
157521 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:167066 original size:42 final size:42
Alignment explanation
Indices: 167011--167129 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
167001 TTCTTCTCTC
* *
167011 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
167053 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
167095 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
167130 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:167070 original size:12 final size:11
Alignment explanation
Indices: 167044--167119 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
167034 TCTATTATCT
*
167044 CTCCTGTCTCTC
1 CTCCTATCTC-C
167056 CTCCTATCATCC
1 CTCCTATC-TCC
167068 CTCCTATCT--
1 CTCCTATCTCC
*
167077 CTACTATCT--
1 CTCCTATCTCC
*
167086 CTCCTGTCTCTC
1 CTCCTATCTC-C
167098 CTCCTATCATCC
1 CTCCTATC-TCC
*
167110 CTCCTCTCTC
1 CTCCTATCTC
167120 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:167071 original size:24 final size:24
Alignment explanation
Indices: 167035--167120 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
167025 CCTCCTCTCT
* *
167035 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
167059 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
167080 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
167101 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
167121 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:167095 original size:18 final size:18
Alignment explanation
Indices: 167026--167096 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
167016 CCTGTCATCC
* *
167026 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
167044 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
167066 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
167086 CTCCTGTCTCT
1 CTCCTGTCTCT
167097 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:171660 original size:18 final size:19
Alignment explanation
Indices: 171618--171667 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
171608 TCCATTTTCT
171618 TCTCTCCTCT-TCTTGTCA
1 TCTCTCCTCTCTCTTGTCA
*
171636 TCCCTCCTCTCTCTAT-T-A
1 TCTCTCCTCTCTCT-TGTCA
*
171654 TCTCTCCTATCTCT
1 TCTCTCCTCTCTCT
171668 CCTCCTATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 22 0.81
19 4 0.15
20 1 0.04
ACGTcount: A:0.08, C:0.42, G:0.02, T:0.48
Consensus pattern (19 bp):
TCTCTCCTCTCTCTTGTCA
Found at i:171672 original size:12 final size:12
Alignment explanation
Indices: 171657--171721 Score: 54
Period size: 12 Copynumber: 5.9 Consensus size: 12
171647 TCTATTATCT
171657 CTCCTATCTCTC
1 CTCCTATCTCTC
171669 CTCCTATCATC-C
1 CTCCTATC-TCTC
*
171681 CT-C-ATTTCT-
1 CTCCTATCTCTC
*
171690 CTACTA--TCT-
1 CTCCTATCTCTC
171699 CTCCTATCTCTC
1 CTCCTATCTCTC
171711 CTCCTATCTCT
1 CTCCTATCTCT
171722 TCTTTTTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
9 12 0.27
10 3 0.07
11 5 0.11
12 22 0.50
13 2 0.05
ACGTcount: A:0.12, C:0.45, G:0.00, T:0.43
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:171683 original size:42 final size:42
Alignment explanation
Indices: 171633--171718 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
171623 CCTCTTCTTG
* *
171633 TCATCCCTCCTCTCTCTATTATCTCTCCTATCTCTCCTCCTA
1 TCATCCCTCATCTCTCTACTATCTCTCCTATCTCTCCTCCTA
*
171675 TCATCCCTCATTTCTCTACTATCTCTCCTATCTCTCCTCCTA
1 TCATCCCTCATCTCTCTACTATCTCTCCTATCTCTCCTCCTA
171717 TC
1 TC
171719 TCTTCTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.13, C:0.44, G:0.00, T:0.43
Consensus pattern (42 bp):
TCATCCCTCATCTCTCTACTATCTCTCCTATCTCTCCTCCTA
Found at i:185529 original size:9 final size:9
Alignment explanation
Indices: 185510--185557 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
185500 AGAGAAAATG
185510 AATATTCTAA
1 AATA-TCTAA
185520 AATATCTAAA
1 AATATCT-AA
**
185530 AATATAAAA
1 AATATCTAA
185539 AATATCTAA
1 AATATCTAA
185548 AATATC-AA
1 AATATCTAA
185556 AA
1 AA
185558 CGTGAAAGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 4 0.12
9 18 0.55
10 11 0.33
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (9 bp):
AATATCTAA
Found at i:185549 original size:18 final size:20
Alignment explanation
Indices: 185518--185557 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
185508 TGAATATTCT
185518 AAAATATCTAAAAATAT-AA
1 AAAATATCTAAAAATATCAA
185537 AAAATATCT-AAAATATCAA
1 AAAATATCTAAAAATATCAA
185556 AA
1 AA
185558 CGTGAAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATATCTAAAAATATCAA
Found at i:192125 original size:157 final size:158
Alignment explanation
Indices: 191915--192250 Score: 403
Period size: 160 Copynumber: 2.1 Consensus size: 158
191905 ATCTTGATAA
* * * *
191915 CCTAAAGGACT-AAAAAATAATCATAAAAAGGTGAACCTATCCTAAGTATACACCTTTAGTATAA
1 CCTAAAGGACTAAAAAAATAATCATAAAAAGGTAAACCTATCCTAAATACACACCTTTAGCATAA
* * ** * **
191979 AAGCATCC-AGTGATTACATTGGACTTGGTTTTAAGGGAAATTA-TCAAAATA-CCCTTAGGGAC
66 AAGCATCCAAGTAACTACATTAAACTTGATTTTAAGGGAAATTACT-AAAATACCCCTTAAAGAC
* *
192041 TACCTTCATCTTGAAAGCATCCTTGTGAC
130 TACCTTCATCTTAAAAGCATCCTGGTGAC
* * *
192070 CCTAAAGGACTAAAAAATATAATCA-AAGAAAGGTAAACCTTTCCTAAATGCACACCTTTGGCAT
1 CCTAAAGGACTAAAAAA-ATAATCATAA-AAAGGTAAACCTATCCTAAATACACACCTTTAGCAT
* *
192134 AAGAGCATCCTAATTAACTACATTAAACTTGATTTTAAGGGAAATTACTAAAATACCCCTTAAAG
64 AAAAGCATCC-AAGTAACTACATTAAACTTGATTTTAAGGGAAATTACTAAAATACCCCTTAAAG
* *
192199 ACTACTTTTATCTTAAAAGCATCCTGGTGAC
128 ACTACCTTCATCTTAAAAGCATCCTGGTGAC
*
192230 CTTAAAGGACTAAAAACAATA
1 CCTAAAGGACTAAAAA-AATA
192251 GGAAATGACA
Statistics
Matches: 152, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
155 11 0.07
156 7 0.05
157 45 0.30
159 35 0.23
160 53 0.35
161 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (158 bp):
CCTAAAGGACTAAAAAAATAATCATAAAAAGGTAAACCTATCCTAAATACACACCTTTAGCATAA
AAGCATCCAAGTAACTACATTAAACTTGATTTTAAGGGAAATTACTAAAATACCCCTTAAAGACT
ACCTTCATCTTAAAAGCATCCTGGTGAC
Found at i:192245 original size:159 final size:155
Alignment explanation
Indices: 191915--192245 Score: 396
Period size: 157 Copynumber: 2.1 Consensus size: 155
191905 ATCTTGATAA
* * * *
191915 CCTAAAGGACTAAAAAATAATCATAAAAAGGTGAACCTATCCTAAGTATACACCTTTAGTATAAA
1 CCTAAAGGACTAAAAAATAATCATAAAAAGGTAAACCTATCCTAAATACACACCTTTAGCATAAA
* * ** * **
191980 AGCATCCAGTGATTACATTGGACTTGGTTTTAAGGGAAATTATCAAAATACCCTTAGGGACTACC
66 AGCATCCAGTAACTACATTAAACTTGATTTTAAGGGAAATTATCAAAATACCCTTAAAGACTACC
* *
192045 TTCATCTTGAAAGCATCCTTGTGAC
131 TTCATCTTAAAAGCATCCTGGTGAC
* * *
192070 CCTAAAGGACTAAAAAATATAATCA-AAGAAAGGTAAACCTTTCCTAAATGCACACCTTTGGCAT
1 CCTAAAGGACT-AAAAA-ATAATCATAA-AAAGGTAAACCTATCCTAAATACACACCTTTAGCAT
* *
192134 AAGAGCATCCTAATTAACTACATTAAACTTGATTTTAAGGGAAATTA-CTAAAATACCCCTTAAA
63 AAAAGCATCC--AGTAACTACATTAAACTTGATTTTAAGGGAAATTATC-AAAATA-CCCTTAAA
* *
192198 GACTACTTTTATCTTAAAAGCATCCTGGTGAC
124 GACTACCTTCATCTTAAAAGCATCCTGGTGAC
*
192230 CTTAAAGGACTAAAAA
1 CCTAAAGGACTAAAAA
192246 CAATAGGAAA
Statistics
Matches: 148, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
155 11 0.07
156 7 0.05
157 45 0.30
158 1 0.01
159 40 0.27
160 44 0.30
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (155 bp):
CCTAAAGGACTAAAAAATAATCATAAAAAGGTAAACCTATCCTAAATACACACCTTTAGCATAAA
AGCATCCAGTAACTACATTAAACTTGATTTTAAGGGAAATTATCAAAATACCCTTAAAGACTACC
TTCATCTTAAAAGCATCCTGGTGAC
Found at i:193118 original size:18 final size:19
Alignment explanation
Indices: 193072--193119 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
193062 TATTTATGAC
*
193072 AAAATCAAAATCACATCAA
1 AAAATCAACATCACATCAA
* *
193091 AAAATTAACATCATATCAA
1 AAAATCAACATCACATCAA
193110 AAAA-CAACAT
1 AAAATCAACAT
193120 ATTTATGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATCAACATCACATCAA
Found at i:195699 original size:77 final size:79
Alignment explanation
Indices: 195611--195757 Score: 219
Period size: 79 Copynumber: 1.9 Consensus size: 79
195601 TCCCTCAGAG
* * *
195611 ATGATGGGGTTGGAGTAT-CTCGA-GATGAAAAATTGATATTTAGGAAA-TAAAAATGGGGTTGG
1 ATGATGGGGTTGGAGTATCCCCGATGATGAAAAATCGAGATTT-GGAAAGTAAAAATGGGGTTGG
195673 AGTATCCTTTCGGAA
65 AGTATCCTTTCGGAA
* *
195688 ATGATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGAGATTTTGAAAGTAAAAATGGGGTTGGA
1 ATGATGGGGTTGGAGTATCCCCGATGATGAAAAATCGAGATTTGGAAAGTAAAAATGGGGTTGGA
195753 GTATC
66 GTATC
195758 GCGATGGTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
77 18 0.29
78 8 0.13
79 36 0.58
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (79 bp):
ATGATGGGGTTGGAGTATCCCCGATGATGAAAAATCGAGATTTGGAAAGTAAAAATGGGGTTGGA
GTATCCTTTCGGAA
Found at i:195796 original size:52 final size:50
Alignment explanation
Indices: 195691--195810 Score: 177
Period size: 52 Copynumber: 2.3 Consensus size: 50
195681 TTCGGAAATG
195691 ATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGAGATTTTGAAAGTAAAA
1 ATGGGGTTGGAGTAT-CCCGATGGTGAAAAATCGAGATTTTGAAAGTAAAA
* * *
195742 ATGGGGTTGGAGTATCGCGATGGTGAAAAATTCGATGCTTTTGGAAGTAAAA
1 ATGGGGTTGGAGTATCCCGATGGTGAAAAA-TCGA-GATTTTGAAAGTAAAA
*
195794 ATGGGGTTAGAGTATCC
1 ATGGGGTTGGAGTATCC
195811 TCTTGGAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
50 14 0.23
51 19 0.31
52 29 0.47
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (50 bp):
ATGGGGTTGGAGTATCCCGATGGTGAAAAATCGAGATTTTGAAAGTAAAA
Found at i:195807 original size:131 final size:128
Alignment explanation
Indices: 195614--195851 Score: 370
Period size: 131 Copynumber: 1.8 Consensus size: 128
195604 CTCAGAGATG
* *
195614 ATGGGGTTGGAGTATCTCGAGATGAAAAATTGATATTTAGGAAATAAAAATGGGGTTGGAGTATC
1 ATGGGGTTGGAGTATCGCGAGATGAAAAATTGATATTTAGGAAATAAAAATGGGGTTAGAGTATC
*
195679 CT-TTCGGAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGAGATTTTGAAAGTAAAA
66 CTCTT-GGAAATGATGGGGTTGGAGTATCCCCAATGGTGAAAAATCGAGATTTTGAAAGTAAAA
* * * *
195742 ATGGGGTTGGAGTATCGCGATGGTGAAAAATTCGATGCTTTTGGAAGTAAAAATGGGGTTAGAGT
1 ATGGGGTTGGAGTATCGCGA-GATGAAAAATT-GAT-ATTTAGGAAATAAAAATGGGGTTAGAGT
195807 ATCCTCTTGGAAATGATGGGGTTGGAGTATCCCCAATGGTGAAAA
63 ATCCTCTTGGAAATGATGGGGTTGGAGTATCCCCAATGGTGAAAA
195852 TTTTGGGTTT
Statistics
Matches: 99, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
128 19 0.19
129 10 0.10
130 3 0.03
131 65 0.66
132 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (128 bp):
ATGGGGTTGGAGTATCGCGAGATGAAAAATTGATATTTAGGAAATAAAAATGGGGTTAGAGTATC
CTCTTGGAAATGATGGGGTTGGAGTATCCCCAATGGTGAAAAATCGAGATTTTGAAAGTAAAA
Found at i:195948 original size:83 final size:83
Alignment explanation
Indices: 195786--195948 Score: 186
Period size: 83 Copynumber: 2.0 Consensus size: 83
195776 ATGCTTTTGG
* * * *
195786 AAGTAAAAATGGGGTTAGAGTATCCTCTTGGAAATGATGGGGTTGGAGTATCCCCAATGGTGAAA
1 AAGTAAAAATGGGGTTACAGTATCCTCTTGAAAATGATAGGGTTGGAGTATCCCCAATGGAGAAA
** * *
195851 ATTTTGGGTTTTTTTTTC
66 AAATTGGATATTTTTTTC
* * * *
195869 AAGTAAAAATGGGGTTCCAGTATCC-CTTCGAAAATGATAGGGTTGGAGTATCCTCAGTTGAGAA
1 AAGTAAAAATGGGGTTACAGTATCCTCTT-GAAAATGATAGGGTTGGAGTATCCCCAATGGAG-A
195933 AAAAATT-GATATTTTT
64 AAAAATTGGATATTTTT
195949 GAAGTAAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
82 3 0.05
83 57 0.86
84 6 0.09
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (83 bp):
AAGTAAAAATGGGGTTACAGTATCCTCTTGAAAATGATAGGGTTGGAGTATCCCCAATGGAGAAA
AAATTGGATATTTTTTTC
Found at i:196050 original size:217 final size:214
Alignment explanation
Indices: 195658--196237 Score: 521
Period size: 217 Copynumber: 2.7 Consensus size: 214
195648 ATTTAGGAAA
** * * * * **
195658 TAAAAATGGGGTTGGAGTATCCTTTCGGAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAAAT
1 TAAAAATGGGGTTCCAGTATCCCTTCGAAAATGATAGGGTTGGAGTATCCCAGATGGAAAAAAAT
* * *
195723 CGAGATTTTGAAAGTAAAAATGGGGTTGGAGTATCGCGATGGTGAAAAATTCGATGCTTTTGGAA
66 CGAGATTTTGAAAGTAAAAACGGGGTTAGAGTATCGCGATGGTGAAAAATTCGATGATTTTGGAA
* * * * *
195788 GTAAAAATGGGGTTAGAGTATCCTCTTGGAAATGATGGGGTTGGAGTATCCCCAATGGTGAAAAT
131 GTAAAAACGAGGTTAGAGTATCCTCTTAGAAATGATAGGGTTGGAGTATCCCCAATGGCGAAAAT
195853 TTTGGGTTTTTTTTTCAAG
196 TTTGGGTTTTTTTTTCAAG
*
195872 TAAAAATGGGGTTCCAGTATCCCTTCGAAAATGATAGGGTTGGAGTATCCTCAGTTGAGAAAAAA
1 TAAAAATGGGGTTCCAGTATCCCTTCGAAAATGATAGGGTTGGAGTATCC-CAGATG-GAAAAAA
* * * * *
195937 ATTGATATTTTTG-AAGTAAAAAACGGGGTTAGAGTGTC-CTTGATGGTGAAAATTTTGAT-ATT
64 ATCGAGA-TTTTGAAAGT-AAAAACGGGGTTAGAGTATCGC--GATGGTGAAAAATTCGATGATT
* * * * *
195999 TTTGAAGTAAAAACGAGGTTGGAGTATCC-CTTCATAAATGATAGGGTTGGAGTGTCCCCGATGG
125 TTGGAAGTAAAAACGAGGTTAGAGTATCCTCTT-AGAAATGATAGGGTTGGAGTATCCCCAATGG
** * * * *
196063 CGAAAAAATT-CG-ATATTTTTGAAG
189 CGAAAATTTTGGGTTTTTTTTTCAAG
** ** * * * * ** *
196087 TAAAAATAAGGTTGGAGTATCCCTTTGGAAATAAT-GAGGTTAGAGTATCCC-GATGGTGAAATA
1 TAAAAATGGGGTTCCAGTATCCCTTCGAAAATGATAG-GGTTGGAGTATCCCAGATGGAAAAAAA
* * * * * * * * * *
196150 TCAAGATTTTGGAAGT-AAAATGAGGTTAAAGTATCCCAATGGTGAAAAATTCGATGCTCTTCGA
65 TCGAGATTTTGAAAGTAAAAACGGGGTTAGAGTATCGCGATGGTGAAAAATTCGATGATTTTGGA
* *
196214 AGTAAAAATGAGGTTACAGTATCC
130 AGTAAAAACGAGGTTAGAGTATCC
196238 CCGATGGTGA
Statistics
Matches: 294, Mismatches: 61, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
209 15 0.05
210 41 0.14
211 6 0.02
212 12 0.04
213 3 0.01
214 47 0.16
215 53 0.18
216 19 0.06
217 82 0.28
218 16 0.05
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.31
Consensus pattern (214 bp):
TAAAAATGGGGTTCCAGTATCCCTTCGAAAATGATAGGGTTGGAGTATCCCAGATGGAAAAAAAT
CGAGATTTTGAAAGTAAAAACGGGGTTAGAGTATCGCGATGGTGAAAAATTCGATGATTTTGGAA
GTAAAAACGAGGTTAGAGTATCCTCTTAGAAATGATAGGGTTGGAGTATCCCCAATGGCGAAAAT
TTTGGGTTTTTTTTTCAAG
Found at i:196099 original size:81 final size:80
Alignment explanation
Indices: 195962--196111 Score: 219
Period size: 81 Copynumber: 1.9 Consensus size: 80
195952 GTAAAAAACG
** * * * *
195962 GGGTTAGAGTGTCCTTGATGGTGAAAATTTTGATATTTTTGAAGTAAAAACGAGGTTGGAGTATC
1 GGGTTAGAGTGTCCCCGATGGCGAAAAATTCGATATTTTTGAAGTAAAAACAAGGTTGGAGTATC
196027 CCTTCATAAATGATA
66 CCTTCATAAATGATA
* *
196042 GGGTTGGAGTGTCCCCGATGGCGAAAAAATTCGATATTTTTGAAGTAAAAATAAGGTTGGAGTAT
1 GGGTTAGAGTGTCCCCGATGGCG-AAAAATTCGATATTTTTGAAGTAAAAACAAGGTTGGAGTAT
196107 CCCTT
65 CCCTT
196112 TGGAAATAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
80 19 0.31
81 42 0.69
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.33
Consensus pattern (80 bp):
GGGTTAGAGTGTCCCCGATGGCGAAAAATTCGATATTTTTGAAGTAAAAACAAGGTTGGAGTATC
CCTTCATAAATGATA
Found at i:196183 original size:49 final size:52
Alignment explanation
Indices: 196119--196250 Score: 162
Period size: 49 Copynumber: 2.6 Consensus size: 52
196109 CTTTGGAAAT
* * * *
196119 AATGAGGTTAGAGTATCCCGATGGTGAAATA-TC-AAGATTTTGGAAGT-AA
1 AATGAGGTTAAAGTATCCCGATGGTGAAAAATTCGAAGATCTTCGAAGTAAA
* * *
196168 AATGAGGTTAAAGTATCCCAATGGTGAAAAATTCGATGCTCTTCGAAGTAAA
1 AATGAGGTTAAAGTATCCCGATGGTGAAAAATTCGAAGATCTTCGAAGTAAA
*
196220 AATGAGGTTACAGTATCCCCGATGGTGAAAA
1 AATGAGGTTAAAGTAT-CCCGATGGTGAAAA
196251 TTTTGATATT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
49 28 0.40
50 2 0.03
51 10 0.14
52 17 0.24
53 13 0.19
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (52 bp):
AATGAGGTTAAAGTATCCCGATGGTGAAAAATTCGAAGATCTTCGAAGTAAA
Found at i:196235 original size:52 final size:52
Alignment explanation
Indices: 196119--196290 Score: 181
Period size: 52 Copynumber: 3.4 Consensus size: 52
196109 CTTTGGAAAT
* * * *
196119 AATGAGGTTAGAGTATCCCGATGGTGAAATA-TC-AAGATTTTGGAAGT-AA
1 AATGAGGTTACAGTATCCCGATGGTGAAAAATTCGATGATTTTCGAAGTAAA
* * * *
196168 AATGAGGTTAAAGTATCCCAATGGTGAAAAATTCGATGCTCTTCGAAGTAAA
1 AATGAGGTTACAGTATCCCGATGGTGAAAAATTCGATGATTTTCGAAGTAAA
* * * *
196220 AATGAGGTTACAGTATCCCCGATGGTGAAAATTTTGAT-ATTTTTGAAGAAAA
1 AATGAGGTTACAGTAT-CCCGATGGTGAAAAATTCGATGATTTTCGAAGTAAA
* *
196272 AATGGGGTTGCAGTATCCC
1 AATGAGGTTACAGTATCCC
196291 TTTGCAAATG
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
49 28 0.27
50 2 0.02
51 13 0.13
52 41 0.40
53 18 0.18
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (52 bp):
AATGAGGTTACAGTATCCCGATGGTGAAAAATTCGATGATTTTCGAAGTAAA
Found at i:196323 original size:80 final size:79
Alignment explanation
Indices: 196231--196581 Score: 400
Period size: 80 Copynumber: 4.4 Consensus size: 79
196221 ATGAGGTTAC
* *** * *
196231 AGTATCCCCGATGGTGAAAATTTTGATATTTTTGAAGAAAAAATGGGGTTGCAGTATCCCTTTGC
1 AGTATCCCCGATGGTGAAAAATTTGATATTTTTGAAGAAAAAACAAGGTTGGAGTATCCCTTAG-
196296 AAATGATAGGGTTGG
65 AAATGATAGGGTTGG
* * * * *
196311 AGTATCCTCGATGGAGAAAAAATTTGATATTTTTGAAGTAAAAACCAGGTTAGAGTATCCC-TAG
1 AGTATCCCCGATGGTG-AAAAATTTGATATTTTTGAAGAAAAAACAAGGTTGGAGTATCCCTTA-
*
196375 GAAATGATGGGGTTGG
64 GAAATGATAGGGTTGG
* * * * *
196391 AGTATCCCTGATGGTGAAAATTTTGAT-TTTTTGAAGTAAAAATAAGGTTGGAGTATCCCCTCAG
1 AGTATCCCCGATGGTGAAAAATTTGATATTTTTGAAGAAAAAACAAGGTTGGAGTAT-CCCTTAG
* *
196455 AAATGATGGGGCTGG
65 AAATGATAGGGTTGG
* * * * *
196470 AGTATCCTCGATGGTGAAAAATTTGATATTTTTGAAGAAAAAACAGGGTTGGAGGATCCCCTCAA
1 AGTATCCCCGATGGTGAAAAATTTGATATTTTTGAAGAAAAAACAAGGTTGGAGTAT-CCCTTAG
196535 AAATGATAGGGTTGG
65 AAATGATAGGGTTGG
* * *
196550 TGTATCCCCAATGGCGAAAAATTTGATATTTT
1 AGTATCCCCGATGGTGAAAAATTTGATATTTT
196582 GGACGTAGAA
Statistics
Matches: 232, Mismatches: 34, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
78 26 0.11
79 52 0.22
80 116 0.50
81 38 0.16
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.31
Consensus pattern (79 bp):
AGTATCCCCGATGGTGAAAAATTTGATATTTTTGAAGAAAAAACAAGGTTGGAGTATCCCTTAGA
AATGATAGGGTTGG
Found at i:196539 original size:159 final size:159
Alignment explanation
Indices: 196231--196582 Score: 451
Period size: 159 Copynumber: 2.2 Consensus size: 159
196221 ATGAGGTTAC
** **
196231 AGTATCCCCGATGGTGAAAATTTTGATATTTTTGAAGAAAAAATGGGGTTGCAGTATCCCTTTGC
1 AGTATCCCCGATGGTGAAAATTTTGAT-TTTTTGAAGAAAAAATAAGGTTGCAGTATCCCTCAGC
* *
196296 AAATGATAGGGTTGGAGTATCCTCGATGGAGAAAAAATTTGATATTTTTGAAGTAAAAACCAGGT
65 AAATGATAGGGCTGGAGTATCCTCGATGGAGAAAAAATTTGATATTTTTGAAGTAAAAAACAGGT
* * *
196361 TAGAGTATCCCTAGGAAATGATGGGGTTGG
130 TAGAGGATCCCTAGAAAATGATAGGGTTGG
* * *
196391 AGTATCCCTGATGGTGAAAATTTTGATTTTTTGAAGTAAAAATAAGGTTGGAGTATCCCCTCAG-
1 AGTATCCCCGATGGTGAAAATTTTGATTTTTTGAAGAAAAAATAAGGTTGCAGTAT-CCCTCAGC
* *
196455 AAATGATGGGGCTGGAGTATCCTCGATGGTG-AAAAATTTGATATTTTTGAAG-AAAAAACAGGG
65 AAATGATAGGGCTGGAGTATCCTCGATGGAGAAAAAATTTGATATTTTTGAAGTAAAAAACA-GG
*
196518 TTGGAGGATCCCCTCA-AAAATGATAGGGTTGG
129 TTAGAGGAT-CCCT-AGAAAATGATAGGGTTGG
* * * * *
196550 TGTATCCCCAATGGCGAAAAATTTGATATTTTG
1 AGTATCCCCGATGGTGAAAATTTTGATTTTTTG
196583 GACGTAGAAA
Statistics
Matches: 167, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
157 7 0.04
158 30 0.18
159 98 0.59
160 32 0.19
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (159 bp):
AGTATCCCCGATGGTGAAAATTTTGATTTTTTGAAGAAAAAATAAGGTTGCAGTATCCCTCAGCA
AATGATAGGGCTGGAGTATCCTCGATGGAGAAAAAATTTGATATTTTTGAAGTAAAAAACAGGTT
AGAGGATCCCTAGAAAATGATAGGGTTGG
Done.