Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 186 of 279
Found at i:60999141 original size:24 final size:24
Alignment explanation
Indices: 60999114--60999165 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
60999104 AATGATGCCG
*
60999114 TTTTGCTATTTTAAAAATT-TTTTA
1 TTTTG-TATTTTAAAAATTGATTTA
* *
60999138 TTTTGTTTTTTATAAATTGATTTA
1 TTTTGTATTTTAAAAATTGATTTA
60999162 TTTT
1 TTTT
60999166 TTGCTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (24 bp):
TTTTGTATTTTAAAAATTGATTTA
Found at i:60999236 original size:135 final size:137
Alignment explanation
Indices: 60999078--60999335 Score: 414
Period size: 135 Copynumber: 1.9 Consensus size: 137
60999068 TGAAAAATGC
* *
60999078 CGCAAAAATTTTTTAATTTTGAACAAAATGATGCCGTTTTGCTATTTTAAAAATTTTTTATTTTG
1 CGCAAAAATTTTTTAATTTTGAACAAAATGACGCCGTTTTGCTATTCT-AAAATTTTTTATTTTG
60999143 TTTTTTATAAATTGATTTATTTTTT-GC-TTA-AAAAACGCAGCTATTGCTTACCTCTAGCAGCG
65 TTTTTTATAAATTGATTTATTTTTTGGCGTTATAAAAACGCAGCTATTGCTTACCTCTAGCAGCG
60999205 TTTTTATG
130 TTTTTATG
* *
60999213 CGCAAAATTTTTTTCATTTTGAACAAAATGACGCCGTTTTGCTATTCTAAAATTTTTTATTTTGT
1 CGCAAAAATTTTTTAATTTTGAACAAAATGACGCCGTTTTGCTATTCTAAAATTTTTTATTTTGT
*
60999278 TTTTTATAAATTGATTTATTTTTTGCGGCGTTTATAAAAACGCCGCTATTGCTTACCT
66 TTTTTATAAATTGATTTATTTTTT--GGCG-TTATAAAAACGCAGCTATTGCTTACCT
60999336 TTAACTATGC
Statistics
Matches: 112, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
134 41 0.37
135 44 0.39
137 2 0.02
139 3 0.03
140 22 0.20
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (137 bp):
CGCAAAAATTTTTTAATTTTGAACAAAATGACGCCGTTTTGCTATTCTAAAATTTTTTATTTTGT
TTTTTATAAATTGATTTATTTTTTGGCGTTATAAAAACGCAGCTATTGCTTACCTCTAGCAGCGT
TTTTATG
Found at i:61000004 original size:22 final size:21
Alignment explanation
Indices: 60999967--61000007 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
60999957 CCTTAAATCC
*
60999967 CTAACTCTTAACCCCTAACAT
1 CTAACTCTAAACCCCTAACAT
60999988 CTAACTCCTAAACCCCTAAC
1 CTAACT-CTAAACCCCTAAC
61000008 CCCTAAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.24
Consensus pattern (21 bp):
CTAACTCTAAACCCCTAACAT
Found at i:61000012 original size:15 final size:15
Alignment explanation
Indices: 60999975--61000016 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
60999965 CCCTAACTCT
**
60999975 TAACCCCT-AACATC
1 TAACCCCTAAACCCC
*
60999989 TAACTCCTAAACCCC
1 TAACCCCTAAACCCC
61000004 TAACCCCTAAACC
1 TAACCCCTAAACC
61000017 TTAAATCCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:61000035 original size:21 final size:22
Alignment explanation
Indices: 60999996--61000037 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
60999986 ATCTAACTCC
60999996 TAAACCCCTAACCCCTAAACCT
1 TAAACCCCTAACCCCTAAACCT
* *
61000018 TAAATCCC-AACCCTTAAACC
1 TAAACCCCTAACCCCTAAACC
61000038 ATAATTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACCT
Found at i:61000309 original size:29 final size:28
Alignment explanation
Indices: 61000277--61000348 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
61000267 CCTTAACAGT
*
61000277 CTAACCCCTAAACCCCAACCATCTAACCC
1 CTAAACCCTAAACCCCAACC-TCTAACCC
* * *
61000306 CTAAACCTTAAATCCCAACCTCTAATCC
1 CTAAACCCTAAACCCCAACCTCTAACCC
* *
61000334 ATAATCCCTAAACCC
1 CTAAACCCTAAACCC
61000349 ATACTTCCCT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 18 0.51
29 17 0.49
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.19
Consensus pattern (28 bp):
CTAAACCCTAAACCCCAACCTCTAACCC
Found at i:61000909 original size:94 final size:93
Alignment explanation
Indices: 61000748--61000925 Score: 275
Period size: 94 Copynumber: 1.9 Consensus size: 93
61000738 AAGCCCTGAA
* * *
61000748 CATTAGTGGCGCTTTCTTAAAAACGTCGCTAAATCCCCAAAAGCTCAAAAAAAGGTGTTGTTGGG
1 CATTAGTGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAAAGGCGTCGTTGGG
61000813 CTTAGGTTTTTTTTGCGGCGCTTCCAAAG
66 CTTAGG-TTTTTTTGCGGCGCTTCCAAAG
* ** * *
61000842 CATTAGTGGCGCTTTCTTAAAAACGCCGCTAAGTCCCTGAAAGCTCACAAAACGGCGTCGTTGGG
1 CATTAGTGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAAAGGCGTCGTTGGG
61000907 CTTAGGTTTTTTTGCGGCG
66 CTTAGGTTTTTTTGCGGCG
61000926 TTTTTGGGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
93 13 0.17
94 63 0.83
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (93 bp):
CATTAGTGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAAAGGCGTCGTTGGG
CTTAGGTTTTTTTGCGGCGCTTCCAAAG
Found at i:61001058 original size:114 final size:113
Alignment explanation
Indices: 61000840--61001060 Score: 327
Period size: 114 Copynumber: 1.9 Consensus size: 113
61000830 GCGCTTCCAA
* * * * * *
61000840 AGCATTAGTGGCGCTTTCTTAAAAACGCCGCTAAGTCCCTGAAAGCTCACAAAACGGCGTCGTTG
1 AGCATTAGCGGCGCTTCCTTAAAAACACAGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTG
* **
61000905 GGCTTAGGTTTTTTTGCGGCGTTTTTGGGAAAGCACCGCTAACGCCCTG
66 GGCTTAGGTTTTTTTGCGGCGTTTCTCAGAAAG-ACCGCTAACGCCCTG
61000954 AGCATTAGCGGCGCTTCCTTAAAAACACAGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTG
1 AGCATTAGCGGCGCTTCCTTAAAAACACAGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTG
61001019 GGCTTAGGTTTTTTTGCGGCGCTTTCTCAGAAATG-CCGCTAA
66 GGCTTAGGTTTTTTTGCGGCG-TTTCTCAGAAA-GACCGCTAA
61001061 ATCCCCAAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
114 87 0.91
115 8 0.08
116 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (113 bp):
AGCATTAGCGGCGCTTCCTTAAAAACACAGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTG
GGCTTAGGTTTTTTTGCGGCGTTTCTCAGAAAGACCGCTAACGCCCTG
Found at i:61001082 original size:73 final size:72
Alignment explanation
Indices: 61000983--61001119 Score: 202
Period size: 73 Copynumber: 1.9 Consensus size: 72
61000973 TAAAAACACA
* * * *
61000983 GCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCA
1 GCTAAATCCCCAAAAGCTCACAAAACGACGTCGTTGGGCTTAGG-TCTTTTGCGGCGATTTCTCA
61001048 GAAATGCC
65 GAAATGCC
***
61001056 GCTAAATCCCCAAAAGCTCGGGAAACGACGTCGTTGGGCTTAGGTCTTTTGCGGCGATTTCTCA
1 GCTAAATCCCCAAAAGCTCACAAAACGACGTCGTTGGGCTTAGGTCTTTTGCGGCGATTTCTCA
61001120 AAAACGACGC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
72 18 0.32
73 39 0.68
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.27
Consensus pattern (72 bp):
GCTAAATCCCCAAAAGCTCACAAAACGACGTCGTTGGGCTTAGGTCTTTTGCGGCGATTTCTCAG
AAATGCC
Found at i:61003043 original size:2 final size:2
Alignment explanation
Indices: 61003036--61003088 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
61003026 TTCATAAGGG
*
61003036 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
61003078 TC TC TC TC TC T
1 TC TC TC TC TC T
61003089 TATTTCACTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:61004433 original size:3 final size:3
Alignment explanation
Indices: 61004418--61004452 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
61004408 ATAAATTTCA
* *
61004418 TAT TAT TAC TAT TAT TAT TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
61004453 GTTGTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:61004433 original size:12 final size:12
Alignment explanation
Indices: 61004418--61004449 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
61004408 ATAAATTTCA
61004418 TATTATTACTAT
1 TATTATTACTAT
61004430 TATTATTACTAT
1 TATTATTACTAT
61004442 TATTATTA
1 TATTATTA
61004450 TTAGTTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:61004819 original size:5 final size:5
Alignment explanation
Indices: 61004796--61004866 Score: 69
Period size: 5 Copynumber: 14.4 Consensus size: 5
61004786 TCTATTTTCC
*
61004796 TTTAT TGTTAT TATTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTTAC TTTAT
1 TTTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
*
61004847 GTTCA- TTTA- TTTA- TTTAT TT
1 -TTTAT TTTAT TTTAT TTTAT TT
61004867 ATATGTCCAT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
4 15 0.26
5 29 0.51
6 13 0.23
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:61004824 original size:10 final size:9
Alignment explanation
Indices: 61004781--61004910 Score: 76
Period size: 9 Copynumber: 14.3 Consensus size: 9
61004771 ATTTTATGAT
*
61004781 TTTTATCTA
1 TTTTATTTA
*
61004790 TTTTCCTTTA
1 TTTT-ATTTA
61004800 TTGTTA-TTA
1 TT-TTATTTA
*
61004809 TTAT-TTTA
1 TTTTATTTA
61004817 TTTTATTTA
1 TTTTATTTA
61004826 TTTTATTTTA
1 TTTTA-TTTA
61004836 TTTTACTTTA
1 TTTTA-TTTA
*
61004846 TGTTCATTTA
1 T-TTTATTTA
61004856 -TTTATTTA
1 TTTTATTTA
*
61004864 TTTATATGTCCA
1 TTT-TAT-T-TA
61004876 TTTT-TTTA
1 TTTTATTTA
*
61004884 -TGT-TTTA
1 TTTTATTTA
*
61004891 GTTTATTTA
1 TTTTATTTA
61004900 -TTTATTTA
1 TTTTATTTA
61004908 TTT
1 TTT
61004911 GTTGTTGTAT
Statistics
Matches: 96, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
7 6 0.06
8 25 0.26
9 27 0.28
10 27 0.28
11 7 0.07
12 4 0.04
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (9 bp):
TTTTATTTA
Found at i:61004827 original size:4 final size:4
Alignment explanation
Indices: 61004813--61004910 Score: 63
Period size: 4 Copynumber: 22.8 Consensus size: 4
61004803 TTATTATTAT
61004813 TTTA TTTTA TTTA TTTTA TTTTA TTTTA CTTTA TGTTCA TTTA TTTA TTTA
1 TTTA -TTTA TTTA -TTTA -TTTA -TTTA -TTTA T-TT-A TTTA TTTA TTTA
* * ** * *
61004864 TTTA TATG TCCA TTTT TTTA TGT- TTTA GTTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTT
61004911 GTTGTTGTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
3 2 0.03
4 42 0.55
5 30 0.39
6 2 0.03
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:61004871 original size:24 final size:23
Alignment explanation
Indices: 61004813--61004910 Score: 80
Period size: 24 Copynumber: 4.3 Consensus size: 23
61004803 TTATTATTAT
61004813 TTTATTTTAT-TT-ATTTTATTTTA
1 TTTATTTTATGTTCA-TTTA-TTTA
*
61004836 TTTTACTTTATGTTCATTTATTTA
1 -TTTATTTTATGTTCATTTATTTA
*
61004860 TTTATTTATATGTCCATTT-TTT-
1 TTTATTT-TATGTTCATTTATTTA
* * *
61004882 TATGTTTTA-GTTTATTTATTTA
1 TTTATTTTATGTTCATTTATTTA
61004904 TTTATTT
1 TTTATTT
61004911 GTTGTTGTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
20 6 0.10
21 5 0.08
22 10 0.17
23 9 0.15
24 23 0.38
25 6 0.10
26 1 0.02
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTATTTTATGTTCATTTATTTA
Found at i:61005441 original size:111 final size:108
Alignment explanation
Indices: 61005039--61005581 Score: 829
Period size: 111 Copynumber: 5.0 Consensus size: 108
61005029 TCAAAAAAGG
*
61005039 AAAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTACTG
1 AAAAT-TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
* * *
61005104 GGTTTCGATTTCTCGTTCGACCAAAT-GACTTAATATTCTTTTCA
65 GGTTTCGATTTCTCGTTCAACCAAATAG-CTAAATATCCTTTTCA
*
61005148 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTACTGG
1 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
* *
61005213 GTTTCGATTTCTCGTTCGACCGAATAGCTAAATATCCTTTT-A
66 GTTTCGATTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCA
*
61005255 AAAACTTTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTTAC
1 AAAA-TTTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGG-TAC
*
61005320 TGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCA
63 TGGGTTTCGA--TTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCA
* * *
61005368 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTG
1 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTACTG
*
61005433 GGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCA
65 GGTTTCGA--TTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCA
61005479 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
1 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
* * * *
61005544 GTTTCGATTTCACGTTTAGCCAAATTGCTAAATATCCT
66 GTTTCGATTTCTCGTTCAACCAAATAGCTAAATATCCT
61005582 CTTGAATTTT
Statistics
Matches: 408, Mismatches: 18, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
107 5 0.01
108 128 0.31
109 54 0.13
110 37 0.09
111 129 0.32
112 50 0.12
113 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (108 bp):
AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
GTTTCGATTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCA
Found at i:61009612 original size:1 final size:1
Alignment explanation
Indices: 61009606--61009707 Score: 51
Period size: 1 Copynumber: 102.0 Consensus size: 1
61009596 GTTCAGACTC
** * * * * * *** ***
61009606 AAAAAAAAAAGGAAAAACAAAAAAAAACAAAAAAACAAAAACAAAAATAAAAAAAATCGAAGTCA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
61009671 AAAAAAATAAAAAAAAAGAAGAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
61009708 GGAGAGGTCA
Statistics
Matches: 73, Mismatches: 28, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.83, C:0.06, G:0.07, T:0.04
Consensus pattern (1 bp):
A
Found at i:61009628 original size:18 final size:17
Alignment explanation
Indices: 61009605--61009659 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 17
61009595 AGTTCAGACT
*
61009605 CAAAAAAAAAAGGAAAAA
1 CAAAAAAAAAA-AAAAAA
61009623 CAAAAAAAAACAAAAAAA
1 CAAAAAAAAA-AAAAAAA
61009641 CAAAAACAAAAATAAAAAA
1 CAAAAA-AAAAA-AAAAAA
61009660 AATCGAAGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 22 0.67
19 11 0.33
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (17 bp):
CAAAAAAAAAAAAAAAA
Found at i:61009645 original size:14 final size:13
Alignment explanation
Indices: 61009605--61009701 Score: 61
Period size: 13 Copynumber: 6.8 Consensus size: 13
61009595 AGTTCAGACT
61009605 CAAAAAAAAAAGGAA
1 CAAAAAAAAAA--AA
61009620 -AAACAAAAAAAAA
1 CAAA-AAAAAAAAA
61009633 CAAAAAAACAAAAA
1 CAAAAAAA-AAAAA
61009647 CAAAAATAAAAAAAA
1 C-AAAA-AAAAAAAA
**
61009662 TCGAAGTCAAAAAAAA
1 -C-AA-AAAAAAAAAA
* *
61009678 TAAAAAAAAAGAA
1 CAAAAAAAAAAAA
*
61009691 GAAAAAAAAAA
1 CAAAAAAAAAA
61009702 GAAAAAGGAG
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
13 22 0.33
14 14 0.21
15 16 0.24
16 14 0.21
ACGTcount: A:0.82, C:0.07, G:0.06, T:0.04
Consensus pattern (13 bp):
CAAAAAAAAAAAA
Found at i:61009645 original size:24 final size:24
Alignment explanation
Indices: 61009606--61009707 Score: 86
Period size: 24 Copynumber: 4.2 Consensus size: 24
61009596 GTTCAGACTC
*
61009606 AAAAAAAAAAGGAAAAACAAAAAA
1 AAAAAAAAAAGCAAAAACAAAAAA
61009630 AAACAAAAAAA-CAAAAACAAAAATA
1 AAA-AAAAAAAGCAAAAACAAAAA-A
* *
61009655 AAAAAAATCGAAGTCAAAAA-AAATAA
1 AAAAAAA--AAAG-CAAAAACAAAAAA
* *
61009681 AAAAAAAGAAG-AAAAA-AAAAAG
1 AAAAAAAAAAGCAAAAACAAAAAA
61009703 AAAAA
1 AAAAA
61009708 GGAGAGGTCA
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
22 14 0.21
24 22 0.33
25 11 0.16
26 10 0.15
27 4 0.06
28 6 0.09
ACGTcount: A:0.83, C:0.06, G:0.07, T:0.04
Consensus pattern (24 bp):
AAAAAAAAAAGCAAAAACAAAAAA
Found at i:61010597 original size:15 final size:15
Alignment explanation
Indices: 61010576--61010639 Score: 85
Period size: 15 Copynumber: 4.2 Consensus size: 15
61010566 AAAAATGATG
61010576 AAAATGAAAAAA-AA
1 AAAATGAAAAAATAA
*
61010590 AAAGATGAAAAAATGA
1 AAA-ATGAAAAAATAA
61010606 AAAATGAAAAAATGAA
1 AAAATGAAAAAAT-AA
*
61010622 AAAATGAAAAAGTAA
1 AAAATGAAAAAATAA
61010637 AAA
1 AAA
61010640 TGGAGAGGCT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
14 3 0.07
15 24 0.55
16 17 0.39
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (15 bp):
AAAATGAAAAAATAA
Found at i:61010600 original size:8 final size:8
Alignment explanation
Indices: 61010565--61010632 Score: 88
Period size: 8 Copynumber: 8.6 Consensus size: 8
61010555 CTTTGAGTCA
61010565 AAAAAATG
1 AAAAAATG
*
61010573 ATGAAAATG
1 A-AAAAATG
61010582 AAAAAA--
1 AAAAAATG
61010588 AAAAAGATG
1 AAAAA-ATG
61010597 AAAAAATG
1 AAAAAATG
61010605 -AAAAATG
1 AAAAAATG
61010612 AAAAAATG
1 AAAAAATG
61010620 AAAAAATG
1 AAAAAATG
61010628 AAAAA
1 AAAAA
61010633 GTAAAAATGG
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
6 5 0.09
7 8 0.15
8 28 0.53
9 12 0.23
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:61010608 original size:6 final size:7
Alignment explanation
Indices: 61010566--61010641 Score: 64
Period size: 7 Copynumber: 10.0 Consensus size: 7
61010556 TTTGAGTCAA
61010566 AAAAATG
1 AAAAATG
61010573 ATGAAAATG
1 A--AAAATG
**
61010582 AAAAAAA
1 AAAAATG
61010589 AAAAGATG
1 AAAA-ATG
61010597 AAAAAATG
1 -AAAAATG
61010605 AAAAATG
1 AAAAATG
61010612 AAAAAATG
1 -AAAAATG
61010620 AAAAAATG
1 -AAAAATG
61010628 AAAAA-G
1 AAAAATG
61010634 TAAAAATG
1 -AAAAATG
61010642 GAGAGGCTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
6 1 0.02
7 26 0.45
8 20 0.34
9 11 0.19
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:61010638 original size:23 final size:22
Alignment explanation
Indices: 61010565--61010639 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 22
61010555 CTTTGAGTCA
* *
61010565 AAAAAATGATGAAAATGAAAAAA
1 AAAAAATGA-AAAAATGAAAAAT
61010588 AAAAAGATGAAAAAATGAAAAAT
1 AAAAA-ATGAAAAAATGAAAAAT
61010611 GAAAAAATGAAAAAATGAAAAAGT
1 -AAAAAATGAAAAAATGAAAAA-T
61010635 AAAAA
1 AAAAA
61010640 TGGAGAGGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
23 37 0.79
24 10 0.21
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (22 bp):
AAAAAATGAAAAAATGAAAAAT
Found at i:61012035 original size:75 final size:78
Alignment explanation
Indices: 61011911--61012966 Score: 1194
Period size: 86 Copynumber: 13.0 Consensus size: 78
61011901 AGAAGTAGAT
* *
61011911 CTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
*
61011976 GAGCGGGTT-A-A
66 GAGCTGGTTAAGA
* *
61011987 -TTGCCTTCCTGCATTAACAGCAACGCAGATTGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
*
61012051 GAGCGGGTT-A-A
66 GAGCTGGTTAAGA
* *
61012062 -TTGCCTTCCTGCATTAACAGCAACGCAGATTGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
*
61012126 GAGCGGGTT-A-A
66 GAGCTGGTTAAGA
* *
61012137 -TTGCCTTCCTGCATTAACAGCAACGCAGATTGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
*
61012201 GAGCGGGTT-A-A
66 GAGCTGGTTAAGA
* *
61012212 -TTGCCTTCCTGCATTAACAGCAACGCAGATTGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
61012276 GAGCTGGTTAAAGAAGCAGA
66 GAGCTGGTT-----A--AGA
* * *
61012296 TCTTGCCTTCCTGTATTAACAACAAAGCAGATTGAAAACAAAGCCTTGCCTTCATTGGTTGCAGT
1 -CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGT
61012361 GGAGCTGGTT-A-A
65 GGAGCTGGTTAAGA
* *
61012373 -TTGCCTTCCTGCATTAACAGCAAAGCAGATTGAAAACAAAGCATTGCCTTCATTGGTTGCAGTG
1 CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
61012437 GAGCTGGTTAAAAAAGCAGA
66 GAGCTGGTT-----A--AGA
*
61012457 TCTTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGT
1 -CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGT
61012522 GGAGCTGGTTAAAAAAGCAGA
65 GGAGCTGGTT-----A--AGA
*
61012543 TCTTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGT
1 -CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGT
61012608 GGAGCTGGTTAAAAAAGCAGA
65 GGAGCTGGTT-----A--AGA
*
61012629 TCTTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGT
1 -CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGT
61012694 GGAGCTGGTTAAAAAAGCAGA
65 GGAGCTGGTT-----A--AGA
*
61012715 TCTTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGT
1 -CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGT
61012780 GGAGCTGGTTAAAAAAGCAGA
65 GGAGCTGGTT-----A--AGA
*
61012801 TCTTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGT
1 -CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGT
61012866 GGAGCTGGTTAAAGAAGCAGA
65 GGAGCTGGTT-----A--AGA
* * * * *
61012887 TCTTGCTTTCTTGCATTAACAGCGAAGCAGATCGAAAACAAA-CCTTGCCTCTC-TCGGTTG-TG
1 -CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCT-TCATTGGTTGCAG
61012949 ATGGAGCTGGTTGAAGA
64 -TGGAGCTGGTT-AAGA
61012966 C
1 C
61012967 AAAAGATCTT
Statistics
Matches: 936, Mismatches: 20, Indels: 46
0.93 0.02 0.05
Matches are distributed among these distances:
75 363 0.39
77 1 0.00
78 2 0.00
79 3 0.00
81 1 0.00
83 2 0.00
84 3 0.00
85 25 0.03
86 536 0.57
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (78 bp):
CTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTG
GAGCTGGTTAAGA
Found at i:61012357 original size:86 final size:86
Alignment explanation
Indices: 61012212--61013024 Score: 1248
Period size: 86 Copynumber: 9.6 Consensus size: 86
61012202 AGCGGGTTAA
* * *
61012212 TTGCCTTCCTGCATTAACAGCAACGCAGATTGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
*
61012277 AGCTGGTTAAAGAAGCAGATC
66 AGCTGGTTAAAAAAGCAGATC
* * * *
61012298 TTGCCTTCCTGTATTAACAACAAAGCAGATTGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
61012363 AGCTGGTT--------A-A--
66 AGCTGGTTAAAAAAGCAGATC
* * *
61012373 TTGCCTTCCTGCATTAACAGCAAAGCAGATTGAAAACAAAGCATTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
61012438 AGCTGGTTAAAAAAGCAGATC
66 AGCTGGTTAAAAAAGCAGATC
61012459 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
61012524 AGCTGGTTAAAAAAGCAGATC
66 AGCTGGTTAAAAAAGCAGATC
61012545 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
61012610 AGCTGGTTAAAAAAGCAGATC
66 AGCTGGTTAAAAAAGCAGATC
61012631 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
61012696 AGCTGGTTAAAAAAGCAGATC
66 AGCTGGTTAAAAAAGCAGATC
61012717 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
61012782 AGCTGGTTAAAAAAGCAGATC
66 AGCTGGTTAAAAAAGCAGATC
61012803 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
*
61012868 AGCTGGTTAAAGAAGCAGATC
66 AGCTGGTTAAAAAAGCAGATC
* * * *
61012889 TTGCTTTCTTGCATTAACAGCGAAGCAGATCGAAAACAAA-CCTTGCCTCTC-TCGGTTG-TGAT
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCT-TCATTGGTTGCAG-T
61012951 GGAGCTGGTTGAAGACAAA--AGATC
64 GGAGCTGGTT-AA-A-AAAGCAGATC
* * * *
61012975 TTGCCTT-TCTGCATTGACAACGAAGCAGGTCGAAGACACAAA-CCTTGCCT
1 TTGCCTTCT-TGCATTAACAGCAAAGCAGATCGAA-A-ACAAAGCCTTGCCT
61013025 CTCTCGGTTG
Statistics
Matches: 689, Mismatches: 19, Indels: 36
0.93 0.03 0.05
Matches are distributed among these distances:
75 70 0.10
77 1 0.00
78 1 0.00
83 1 0.00
84 2 0.00
85 26 0.04
86 571 0.83
87 2 0.00
88 15 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (86 bp):
TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
AGCTGGTTAAAAAAGCAGATC
Found at i:61013022 original size:44 final size:43
Alignment explanation
Indices: 61012974--61013293 Score: 126
Period size: 44 Copynumber: 7.3 Consensus size: 43
61012964 GACAAAAGAT
61012974 CTTGCCTTTCTGCATTGACAACGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTTCT-CATTGACAACGAAGCAGGTCGAAGACACAAAC
* * ** * * * * *
61013018 CTTGCCTCTCTCGGTTG-TGATGGAGCTGGAT-GAAGACAAAAGAT
1 CTTGCCTTTCTC-ATTGACAACGAAGCAGG-TCGAAGACACAA-AC
* * *
61013062 TTTGTCTTTCTACATTGACAGCGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTTCT-CATTGACAACGAAGCAGGTCGAAGACACAAAC
* * ** * * * * * * *
61013106 CTTGCCTCTCTCGGTTG-TGATGGAGCTGGTTGAAGGCAAAAGAT
1 CTTGCCTTTCTC-ATTGACAACGAAGCAGGTCGAAGACACAA-AC
* * * *
61013150 CTTGCCTTCCTGCATTGACAGCGAATCAGGTCAAAGACACAAAC
1 CTTGCCTTTCT-CATTGACAACGAAGCAGGTCGAAGACACAAAC
* * ** * * * * * * *
61013194 CTTGCCTCTCTCGGTTG-TGATGGAGCTGGTTGAAGGCAAAAGAT
1 CTTGCCTTTCTC-ATTGACAACGAAGCAGGTCGAAGACACAA-AC
* * * *
61013238 CTTGCCTTCCTGCATTGACAGCGAATCAGGTCAAAGACACAAAC
1 CTTGCCTTTCT-CATTGACAACGAAGCAGGTCGAAGACACAAAC
*
61013282 CTTGCCTCTCTC
1 CTTGCCTTTCTC
61013294 GGTTGTAGCG
Statistics
Matches: 180, Mismatches: 82, Indels: 29
0.62 0.28 0.10
Matches are distributed among these distances:
43 48 0.27
44 88 0.49
45 44 0.24
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (43 bp):
CTTGCCTTTCTCATTGACAACGAAGCAGGTCGAAGACACAAAC
Found at i:61013044 original size:88 final size:85
Alignment explanation
Indices: 61012373--61013336 Score: 991
Period size: 86 Copynumber: 11.1 Consensus size: 85
61012363 AGCTGGTTAA
* * * *
61012373 TTGCCTTCCTGCATTAACAGCAAAGCAGATTGAAAACAAAGCATTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATCGGTTGCAGTGG
61012438 AGCTGGTTAA-AAAAGCAGATC
66 AGCTGGTTAAGAAAA--AGATC
*
61012459 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATCGGTTGCAGTGG
61012524 AGCTGGTTAA-AAAAGCAGATC
66 AGCTGGTTAAGAAAA--AGATC
*
61012545 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATCGGTTGCAGTGG
61012610 AGCTGGTTAA-AAAAGCAGATC
66 AGCTGGTTAAGAAAA--AGATC
*
61012631 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATCGGTTGCAGTGG
61012696 AGCTGGTTAA-AAAAGCAGATC
66 AGCTGGTTAAGAAAA--AGATC
*
61012717 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATCGGTTGCAGTGG
61012782 AGCTGGTTAA-AAAAGCAGATC
66 AGCTGGTTAAGAAAA--AGATC
*
61012803 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATCGGTTGCAGTGG
**
61012868 AGCTGGTTAAAGAAGCAGATC
66 AGCTGGTT-AAGAAAAAGATC
* * *
61012889 TTGCTTTCTTGCATTAACAGCGAAGCAGATCGAAAACAAA-CCTTGCCTCTC-TCGGTTG-TGAT
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCT-TCATCGGTTGCAG-T
61012951 GGAGCTGGTTGAAGACAAAAGATC
64 GGAGCTGGTT-AAGA-AAAAGATC
* * * * *
61012975 TTGCCTT-TCTGCATTGACAACGAAGCAGGTCGAAGACACAAA-CCTTGCCTCTC-TCGGTTG-T
1 TTGCCTTCT-TGCATTAACAGCAAAGCAGATCGAA-A-ACAAAGCCTTGCCT-TCATCGGTTGCA
* *
61013036 GATGGAGCTGGATGAAGACAAAAGATT
62 G-TGGAGCTGG-TTAAGA-AAAAGATC
* * * * * *
61013063 TTGTCTT-TCTACATTGACAGCGAAGCAGGTCGAAGACACAAA-CCTTGCCTCTC-TCGGTTG-T
1 TTGCCTTCT-TGCATTAACAGCAAAGCAGATCGAA-A-ACAAAGCCTTGCCT-TCATCGGTTGCA
*
61013124 GATGGAGCTGGTTGAAGGCAAAAGATC
62 G-TGGAGCTGGTT-AA-GAAAAAGATC
* * * * * * *
61013151 TTGCCTTCCTGCATTGACAGCGAATCAGGTC-AAAGACACAAACCTTGCCTCTC-TCGGTTG-TG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAA-ACA-AAGCCTTGCCT-TCATCGGTTGCAG
*
61013213 ATGGAGCTGGTTGAAGGCAAAAGATC
63 -TGGAGCTGGTT-AA-GAAAAAGATC
* * * * * * *
61013239 TTGCCTTCCTGCATTGACAGCGAATCAGGTC-AAAGACACAAACCTTGCCTCTC-TCGGTTGTAG
1 TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAA-ACA-AAGCCTTGCCT-TCATCGGTTGCAG
* * * *
61013302 CGGAGTTGGTTGGAGAAACTAG-TC
63 TGGAGCTGGTT-AAGAAA-AAGATC
61013326 TTGCCTTCTTG
1 TTGCCTTCTTG
61013337 TACTGACAGC
Statistics
Matches: 826, Mismatches: 36, Indels: 31
0.92 0.04 0.03
Matches are distributed among these distances:
84 1 0.00
85 30 0.04
86 497 0.60
87 23 0.03
88 272 0.33
89 3 0.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (85 bp):
TTGCCTTCTTGCATTAACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTTCATCGGTTGCAGTGG
AGCTGGTTAAGAAAAAGATC
Found at i:61013376 original size:176 final size:176
Alignment explanation
Indices: 61012884--61013347 Score: 598
Period size: 176 Copynumber: 2.7 Consensus size: 176
61012874 TTAAAGAAGC
* * * * * *
61012884 AGATCTTGCTTTCTTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCGGTTG
* * * * * * * *
61012947 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTTCTGCATTGACAACGAAGCAGGTCGAAGAC
66 TGACGGAGCTGGTTGAAGGCAAAAGATCTTGCCTTCCTGCACTGACAGCGAATCAGCTCAAAGAC
61013012 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGATGAAGACAAA
131 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGATGAAGACAAA
* * * *
61013058 AGATTTTGTCTTTCTACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCGGTTG
* * *
61013123 TGATGGAGCTGGTTGAAGGCAAAAGATCTTGCCTTCCTGCATTGACAGCGAATCAGGTCAAAGAC
66 TGACGGAGCTGGTTGAAGGCAAAAGATCTTGCCTTCCTGCACTGACAGCGAATCAGCTCAAAGAC
* *
61013188 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGGCAAA
131 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGATGAAGACAAA
* *
61013234 AGATCTTGCCTTCCTGCATTGACAGCGAATCAGGTCAAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCGGTTG
* * * *
61013299 T-AGCGGAGTTGGTTGGA-G-AAACTAG-TCTTGCCTTCTTGTACTGACAGCG
66 TGA-CGGAGCTGGTTGAAGGCAAA--AGATCTTGCCTTCCTGCACTGACAGCG
61013348 GAGTAGACTA
Statistics
Matches: 258, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
174 34 0.13
175 24 0.09
176 200 0.78
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (176 bp):
AGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCGGTTG
TGACGGAGCTGGTTGAAGGCAAAAGATCTTGCCTTCCTGCACTGACAGCGAATCAGCTCAAAGAC
ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGATGAAGACAAA
Found at i:61013377 original size:45 final size:45
Alignment explanation
Indices: 61013325--61013413 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
61013315 AGAAACTAGT
* *
61013325 CTTGCCTTCTTGTACTGACAGCGGAGTAGACTAAAGATAGTAGAG
1 CTTGCCTTCCTGTACTGACAACGGAGTAGACTAAAGATAGTAGAG
* * *
61013370 CTTGCCTTCCTGTACTGACAACGGAGTAGATTGAAGATTGTAGA
1 CTTGCCTTCCTGTACTGACAACGGAGTAGACTAAAGATAGTAGA
61013414 TTCTGTCTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (45 bp):
CTTGCCTTCCTGTACTGACAACGGAGTAGACTAAAGATAGTAGAG
Found at i:61013468 original size:44 final size:44
Alignment explanation
Indices: 61013419--61013553 Score: 162
Period size: 44 Copynumber: 3.1 Consensus size: 44
61013409 GTAGATTCTG
* *
61013419 TCTCCCTAAGTAGTAGTGGAACAGATCGAAGATGGTGAATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCCTA
* * * **** * *
61013463 TCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTCCAAATTCTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCCTA
*
61013507 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCCTA
61013551 TCT
1 TCT
61013554 TCCCAAGATA
Statistics
Matches: 70, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCCTA
Found at i:61013541 original size:88 final size:88
Alignment explanation
Indices: 61013392--61013553 Score: 261
Period size: 88 Copynumber: 1.8 Consensus size: 88
61013382 TACTGACAAC
** * *
61013392 GGAGTAGATTGAAGATTGTAGATTCTGTCTCCCTAAGTAGTAGTGGAACAGATCGAAGATGGTGA
1 GGAGTAGATTGAAGATTCCAAATTCTGTCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGTGA
61013457 ATCCTATCTCCCTAAGCAGTAGT
66 ATCCTATCTCCCTAAGCAGTAGT
* *
61013480 GGAGTAGGTTGAAGATTCCAAATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGA
1 GGAGTAGATTGAAGATTCCAAATTCTGTCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGTGA
*
61013545 ATCTTATCT
66 ATCCTATCT
61013554 TCCCAAGATA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 67 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (88 bp):
GGAGTAGATTGAAGATTCCAAATTCTGTCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGTGA
ATCCTATCTCCCTAAGCAGTAGT
Found at i:61013703 original size:132 final size:132
Alignment explanation
Indices: 61013461--61013703 Score: 335
Period size: 132 Copynumber: 1.8 Consensus size: 132
61013451 TGGTGAATCC
* * * *
61013461 TATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTCCAAATTCTGTCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGAAGCGGAGTAGGCTGAAGATTCCAAATCCTGTCTCCCTAAGCAGTAGTGG
* * *** * *
61013526 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGGGAAGCAAGTTTAAGCCACTAGC
66 AGCAGACCAAAGACAATGAATCTTATCTTCCCAAGATAATAGGGAAGCAAGTTTAAGCCACTAGC
61013591 CT
131 CT
* * * *
61013593 TATCTCCCTGAGCAGAAGCGGAGTAGGCTGAAGATTGCAGATCCTGTCTCCCTAAGCGGTAGTGG
1 TATCTCCCTAAGCAGAAGCGGAGTAGGCTGAAGATTCCAAATCCTGTCTCCCTAAGCAGTAGTGG
61013658 AGCAGACCAAAGACAATGAATCTTATCTTCCCAAGGA-AATAGGGAA
66 AGCAGACCAAAGACAATGAATCTTATCTTCCCAA-GATAATAGGGAA
61013704 CCAGATTGGA
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
132 93 0.98
133 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24
Consensus pattern (132 bp):
TATCTCCCTAAGCAGAAGCGGAGTAGGCTGAAGATTCCAAATCCTGTCTCCCTAAGCAGTAGTGG
AGCAGACCAAAGACAATGAATCTTATCTTCCCAAGATAATAGGGAAGCAAGTTTAAGCCACTAGC
CT
Found at i:61014375 original size:3 final size:3
Alignment explanation
Indices: 61014360--61014394 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
61014350 ATAAATTTCA
* *
61014360 TAT TAT TAC TAT TAT TAT TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
61014395 GTTGTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:61014375 original size:12 final size:12
Alignment explanation
Indices: 61014360--61014391 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
61014350 ATAAATTTCA
61014360 TATTATTACTAT
1 TATTATTACTAT
61014372 TATTATTACTAT
1 TATTATTACTAT
61014384 TATTATTA
1 TATTATTA
61014392 TTAGTTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:61014769 original size:4 final size:4
Alignment explanation
Indices: 61014755--61014851 Score: 63
Period size: 4 Copynumber: 22.8 Consensus size: 4
61014745 TTATTATTAT
61014755 TTTA TTTTA TTTA TTTTA TTTTA TTTTA CTTTA TGTTCA TTTA TTTA TTTA
1 TTTA -TTTA TTTA -TTTA -TTTA -TTTA -TTTA T-TT-A TTTA TTTA TTTA
* * ** *
61014806 TTTA TATG TCCA TTT- TTTA TAT- TTTA GTTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTT
61014852 GTTGTTGTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
3 5 0.07
4 39 0.51
5 30 0.39
6 2 0.03
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:61015207 original size:111 final size:111
Alignment explanation
Indices: 61014980--61015524 Score: 888
Period size: 111 Copynumber: 5.0 Consensus size: 111
61014970 TCAAAAAAGG
* * *
61014980 AAAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTACT
1 AAAAT-TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACT
* * * *
61015044 AGGTTTCGA--TTTCTCGTTCGACCAAAT-GACTTAATATCCTTTTCA
65 GGGTGTCGATTTTTCTCGTTCAACCAAATAG-CTAAATATCCTTTTCA
61015089 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTG
1 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTG
61015154 GGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCA
66 GGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCA
61015200 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTG
1 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTG
61015265 GGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCA
66 GGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCA
61015311 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTG
1 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTG
61015376 GGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCA
66 GGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCA
* * *
61015422 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTACTG
1 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTG
* * * * *
61015486 GGTTTCGA--TTTCACGTTTAGCCAAATTGCTAAATATCCT
66 GGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCT
61015525 CTTGAATTTT
Statistics
Matches: 417, Mismatches: 15, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
108 65 0.16
109 29 0.07
110 25 0.06
111 297 0.71
112 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (111 bp):
AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTG
GGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTCA
Found at i:61019301 original size:28 final size:28
Alignment explanation
Indices: 61019261--61019318 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
61019251 ATCAAAAGGT
*
61019261 GTTTGTGAAATTTATGATCTTTCTAGAG
1 GTTTGTGAAATTTATGATCCTTCTAGAG
61019289 GTTTGTGAAATTTATGATCCTTCTAGAG
1 GTTTGTGAAATTTATGATCCTTCTAGAG
61019317 GT
1 GT
61019319 GTTATTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.45
Consensus pattern (28 bp):
GTTTGTGAAATTTATGATCCTTCTAGAG
Found at i:61021239 original size:46 final size:46
Alignment explanation
Indices: 61021168--61021261 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
61021158 AGTTGAGAAA
*** *
61021168 AGAGGGAAAGAAAGTGAATGGCACTCTTTATAAGCAAATTGTTGGC
1 AGAGGGAAAGAAAGTGAACAACACTCTTTATAAGCAAATCGTTGGC
61021214 AGAGGGAAAGAAAGTGAACAACACTCTTTATAAGCAAATCGTTGGC
1 AGAGGGAAAGAAAGTGAACAACACTCTTTATAAGCAAATCGTTGGC
61021260 AG
1 AG
61021262 CTTAATGTAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (46 bp):
AGAGGGAAAGAAAGTGAACAACACTCTTTATAAGCAAATCGTTGGC
Found at i:61024147 original size:51 final size:51
Alignment explanation
Indices: 61024014--61024149 Score: 163
Period size: 50 Copynumber: 2.7 Consensus size: 51
61024004 AGTGAAAGTG
*
61024014 ATGGTCACGTGTGTCA-TACTATGTGCAAGCTACTACGTGTACTGGAATGAT
1 ATGGTCACATGTGT-AGTACTATGTGCAAGCTACTACGTGTACTGGAATGAT
* * *
61024065 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGG-ATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACT-GGAATGAT
* *
61024114 AATGGTCACATGTGTAGTACTATATGCACGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAAGCTACTA
61024150 TATGAACCGA
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
49 6 0.08
50 37 0.50
51 31 0.42
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACTGGAATGAT
Found at i:61030926 original size:27 final size:27
Alignment explanation
Indices: 61030896--61030974 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 27
61030886 CACGTTCTGT
61030896 AATTATAAAAAATATAAAAATTTATAA
1 AATTATAAAAAATATAAAAATTTATAA
* *
61030923 AATTATAAAAAACATTAAAA-TTATAA
1 AATTATAAAAAATATAAAAATTTATAA
61030949 AA--ATAAAAATTTATATAAAAATTTAT
1 AATTATAAAAA---ATATAAAAATTTAT
61030975 TATTTATTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
24 7 0.16
26 8 0.18
27 25 0.57
28 4 0.09
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (27 bp):
AATTATAAAAAATATAAAAATTTATAA
Found at i:61030952 original size:9 final size:9
Alignment explanation
Indices: 61030896--61030952 Score: 62
Period size: 9 Copynumber: 6.3 Consensus size: 9
61030886 CACGTTCTGT
61030896 AATTATAAA
1 AATTATAAA
*
61030905 AAATATAAA
1 AATTATAAA
61030914 AATT-TATAA
1 AATTATA-AA
61030923 AATTATAAA
1 AATTATAAA
** *
61030932 AAACATTAA
1 AATTATAAA
61030941 AATTATAAA
1 AATTATAAA
61030950 AAT
1 AAT
61030953 AAAAATTTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
8 2 0.05
9 34 0.89
10 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
AATTATAAA
Found at i:61031173 original size:18 final size:19
Alignment explanation
Indices: 61031133--61031173 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
61031123 TTTTATAAAA
*
61031133 TTTTATAAAATATTTATCT
1 TTTTATAAAATATTTATCG
*
61031152 TTTTATAAAAT-TTTATGG
1 TTTTATAAAATATTTATCG
61031170 TTTT
1 TTTT
61031174 TAATTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (19 bp):
TTTTATAAAATATTTATCG
Found at i:61034934 original size:28 final size:28
Alignment explanation
Indices: 61034901--61034971 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
61034891 TAATGAGATT
* **
61034901 AGCACTAAGTGTGCGAGTTTAATTG-AA
1 AGCACTAAGTGTGCGAGTATAAGGGTAA
61034928 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTATAAGGGTAA
61034957 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
61034972 TACTTATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 1 0.03
28 35 0.90
29 3 0.08
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTATAAGGGTAA
Found at i:61035931 original size:22 final size:22
Alignment explanation
Indices: 61035906--61036021 Score: 92
Period size: 22 Copynumber: 5.0 Consensus size: 22
61035896 TTTGTGTTAT
61035906 AAATTTAATGTATAATGCTGTC
1 AAATTTAATGTATAATGCTGTC
*
61035928 AAATTTTAA-GTATATTGATGTTGTC
1 AAA-TTTAATGTATA---ATGCTGTC
* *
61035953 CATTTTAATGTATAATGCTGTCC
1 AAATTTAATGTATAATGCTGT-C
*
61035976 AATTTTAA-GTATATTGATGCTGTC
1 AAATTTAATGTATA---ATGCTGTC
* *
61036000 TAATTCAATGTATAATGCTGTC
1 AAATTTAATGTATAATGCTGTC
61036022 CATTTAGAGC
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
22 27 0.36
23 13 0.17
24 11 0.14
25 25 0.33
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (22 bp):
AAATTTAATGTATAATGCTGTC
Found at i:61035980 original size:47 final size:47
Alignment explanation
Indices: 61035907--61036071 Score: 201
Period size: 47 Copynumber: 3.5 Consensus size: 47
61035897 TTGTGTTATA
* *
61035907 AATTTAATGTATAATGCTGTCAAATTTTAAGTATATTGATGTTGTCC
1 AATTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCC
* *
61035954 ATTTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCT
1 AATTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCC
* * *
61036001 AATTCAATGTATAATGCTGTCC-A-TTTAGAGCATATT-ATTGCTGCCC
1 AATTTAATGTATAATGCTGTCCAATTTTA-AGTATATTGA-TGCTGTCC
* *
61036047 AATTTGATGAATAATTGCTGTCCAA
1 AATTTAATGTATAA-TGCTGTCCAA
61036072 AACAGGGTTG
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
45 5 0.05
46 25 0.25
47 71 0.70
48 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (47 bp):
AATTTAATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGTCC
Found at i:61036013 original size:25 final size:25
Alignment explanation
Indices: 61035920--61036004 Score: 106
Period size: 25 Copynumber: 3.5 Consensus size: 25
61035910 TTAATGTATA
*
61035920 ATGCTGTCAAATTTTAAGTATATTG
1 ATGCTGTCCAATTTTAAGTATATTG
*
61035945 ATGTTGTCC-ATTTTAATGTATA---
1 ATGCTGTCCAATTTTAA-GTATATTG
61035967 ATGCTGTCCAATTTTAAGTATATTG
1 ATGCTGTCCAATTTTAAGTATATTG
*
61035992 ATGCTGTCTAATT
1 ATGCTGTCCAATT
61036005 CAATGTATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
22 13 0.25
23 7 0.14
24 7 0.14
25 24 0.47
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (25 bp):
ATGCTGTCCAATTTTAAGTATATTG
Found at i:61036283 original size:173 final size:173
Alignment explanation
Indices: 61035994--61036337 Score: 688
Period size: 173 Copynumber: 2.0 Consensus size: 173
61035984 GTATATTGAT
61035994 GCTGTCTAATTCAATGTATAATGCTGTCCATTTAGAGCATATTATTGCTGCCCAATTTGATGAAT
1 GCTGTCTAATTCAATGTATAATGCTGTCCATTTAGAGCATATTATTGCTGCCCAATTTGATGAAT
61036059 AATTGCTGTCCAAAACAGGGTTGGTTCTTTATGTCTGTAGTATGTTACATAGTTAATCATTTATT
66 AATTGCTGTCCAAAACAGGGTTGGTTCTTTATGTCTGTAGTATGTTACATAGTTAATCATTTATT
61036124 AATGAAATAAATGTATGCAAATAGTAGTTTTAATATTGGCTAA
131 AATGAAATAAATGTATGCAAATAGTAGTTTTAATATTGGCTAA
61036167 GCTGTCTAATTCAATGTATAATGCTGTCCATTTAGAGCATATTATTGCTGCCCAATTTGATGAAT
1 GCTGTCTAATTCAATGTATAATGCTGTCCATTTAGAGCATATTATTGCTGCCCAATTTGATGAAT
61036232 AATTGCTGTCCAAAACAGGGTTGGTTCTTTATGTCTGTAGTATGTTACATAGTTAATCATTTATT
66 AATTGCTGTCCAAAACAGGGTTGGTTCTTTATGTCTGTAGTATGTTACATAGTTAATCATTTATT
61036297 AATGAAATAAATGTATGCAAATAGTAGTTTTAATATTGGCT
131 AATGAAATAAATGTATGCAAATAGTAGTTTTAATATTGGCT
61036338 CGGCATATGA
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 171 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (173 bp):
GCTGTCTAATTCAATGTATAATGCTGTCCATTTAGAGCATATTATTGCTGCCCAATTTGATGAAT
AATTGCTGTCCAAAACAGGGTTGGTTCTTTATGTCTGTAGTATGTTACATAGTTAATCATTTATT
AATGAAATAAATGTATGCAAATAGTAGTTTTAATATTGGCTAA
Found at i:61040005 original size:134 final size:136
Alignment explanation
Indices: 61039701--61040005 Score: 382
Period size: 137 Copynumber: 2.2 Consensus size: 136
61039691 ATTTACATAG
* * ** * * * * *
61039701 AGTTGCGATCGTAGATCAGTGAACTCAAAATGAACTGTTCATGATCGTAAATCAATGAGCTTAGG
1 AGTTGCGATCATAAATCAACGAACTCAAAATAAACTATTCACGATAGTAAATCAATGAGCTTAAG
*
61039766 TTGTGATCGTAAATCAGCAAGCTTTAATATTATTATCAATTGAGATCGTAAATCAACGAACTATT
66 TTGTGATCGTAAATCAGCAAGCTTTAATA-TATTATCAATGGAGATCGTAAATCAACGAACTATT
*
61039831 TGAATGA
130 TCAATGA
** * *
61039838 AGTTGCGATTTTAAATCAATGAACTCAAAATAAACTATTCACGATAGTAAATCATTGAGCTTAAG
1 AGTTGCGATCATAAATCAACGAACTCAAAATAAACTATTCACGATAGTAAATCAATGAGCTTAAG
* * * *
61039903 TTGTGATCGTATATCAGCAAGCTTTAATA-A-TA-CTAGTGGTGATCGTAAATCAATGAACTATT
66 TTGTGATCGTAAATCAGCAAGCTTTAATATATTATC-AATGGAGATCGTAAATCAACGAACTATT
*
61039965 TCAATGG
130 TCAATGA
*
61039972 AGTTGTGATCATAAATCAACGAACTCAAAATAAA
1 AGTTGCGATCATAAATCAACGAACTCAAAATAAA
61040006 TTGTTCATGA
Statistics
Matches: 146, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
133 1 0.01
134 61 0.42
135 1 0.01
137 83 0.57
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (136 bp):
AGTTGCGATCATAAATCAACGAACTCAAAATAAACTATTCACGATAGTAAATCAATGAGCTTAAG
TTGTGATCGTAAATCAGCAAGCTTTAATATATTATCAATGGAGATCGTAAATCAACGAACTATTT
CAATGA
Found at i:61040023 original size:134 final size:132
Alignment explanation
Indices: 61039578--61040026 Score: 461
Period size: 134 Copynumber: 3.3 Consensus size: 132
61039568 ATTATGATTG
* * * * * **
61039578 TAAATCGATGAACTCAAAATAAATTGTTCATGATTATAAATCAATGAACATAAGGCGTGATCGTA
1 TAAATCAATGAACTCAAAATAAACTGTTCATGATCATAAATCAATGAGCTTAAGTTGTGATCGTA
** * * * * * * * *
61039643 AGTCAATAAGCTTTAATAGTACCAATTATTATCGTAAACCAGTAAACTATTTACATAGAGTTGCG
66 A-TCAGCAAGCTTTAATAATACTAATTGTGATCGTAAATCAATGAACTATTTA-ATGGAGTTGCG
*
61039708 ATCG
129 ATCA
* * * * *
61039712 TAGATCAGTGAACTCAAAATGAACTGTTCATGATCGTAAATCAATGAGCTTAGGTTGTGATCGTA
1 TAAATCAATGAACTCAAAATAAACTGTTCATGATCATAAATCAATGAGCTTAAGTTGTGATCGT-
* * *
61039777 AATCAGCAAGCTTTAATATTATTA-TCAATTGAGATCGTAAATCAACGAACTATTTGAATGAAGT
65 AATCAGCAAGCTTTAATA--A-TACT-AATTGTGATCGTAAATCAATGAACTATTT-AATGGAGT
**
61039841 TGCGATTT
125 TGCGATCA
* * *
61039849 TAAATCAATGAACTCAAAATAAACTATTCACGAT-AGTAAATCATTGAGCTTAAGTTGTGATCGT
1 TAAATCAATGAACTCAAAATAAACTGTTCATGATCA-TAAATCAATGAGCTTAAGTTGTGATCGT
* * *
61039913 ATATCAGCAAGCTTTAATAATACTAGTGGTGATCGTAAATCAATGAACTATTTCAATGGAGTTGT
65 A-ATCAGCAAGCTTTAATAATACTAATTGTGATCGTAAATCAATGAACTATTT-AATGGAGTTGC
61039978 GATCA
128 GATCA
* *
61039983 TAAATCAACGAACTCAAAATAAATTGTTCATGATCATAAATCAA
1 TAAATCAATGAACTCAAAATAAACTGTTCATGATCATAAATCAA
61040027 CAAACTTTAA
Statistics
Matches: 256, Mismatches: 49, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
134 142 0.55
135 5 0.02
136 1 0.00
137 107 0.42
138 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (132 bp):
TAAATCAATGAACTCAAAATAAACTGTTCATGATCATAAATCAATGAGCTTAAGTTGTGATCGTA
ATCAGCAAGCTTTAATAATACTAATTGTGATCGTAAATCAATGAACTATTTAATGGAGTTGCGAT
CA
Found at i:61040132 original size:206 final size:206
Alignment explanation
Indices: 61039849--61040229 Score: 476
Period size: 206 Copynumber: 1.8 Consensus size: 206
61039839 GTTGCGATTT
* * * * * * *
61039849 TAAATCAATGAACTCAAAATAAACTATTCACGATAGTAAATCATTGAGCTTAAGTTGTGATCGTA
1 TAAATCAATGAACGCAAAATAAACTAGTCACGATAGTAAATCAATGAACTTAAGCTGTGACCATA
* * * * **
61039914 TATCAGCAAGCTTTAATAATA-CTAGTGGTGATCGTAAATCAATGAACTATTTCAATGGAGTTGT
66 AATCAACAAGCTTTAATAATAGC-AGTCGTGATCGTAAATCAACGAACTATTTCAATGGAGTTAC
* * *
61039978 GATCATAAATCAACGAACTCAAAATAAATTGTTCATGATCATAAATCAACAAACTTTAATACTAC
130 AATCATAAATCAACAAAATCAAAATAAATTGTTCATGATCATAAATCAACAAACTTTAATACTAC
61040043 TAGTCATGATCA
195 TAGTCATGATCA
* * * **
61040055 TAAATCAGTGAACGCAAAATGAACTAGTCATGATCTTAAATCAATGAACTTAAGCTGTGACCATA
1 TAAATCAATGAACGCAAAATAAACTAGTCACGATAGTAAATCAATGAACTTAAGCTGTGACCATA
* * * *
61040120 AATCAACAAGCTTTAATAATAGCAGTCGTGATTGTAAATCAGCGAACTGTTTGAATGGAGTTACA
66 AATCAACAAGCTTTAATAATAGCAGTCGTGATCGTAAATCAACGAACTATTTCAATGGAGTTACA
* ** * *
61040185 ATCATAAATTAGTAAAATCAAAATGAATTGTTCATGATCGTAAAT
131 ATCATAAATCAACAAAATCAAAATAAATTGTTCATGATCATAAAT
61040230 AAATGAACTT
Statistics
Matches: 144, Mismatches: 30, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
206 143 0.99
207 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (206 bp):
TAAATCAATGAACGCAAAATAAACTAGTCACGATAGTAAATCAATGAACTTAAGCTGTGACCATA
AATCAACAAGCTTTAATAATAGCAGTCGTGATCGTAAATCAACGAACTATTTCAATGGAGTTACA
ATCATAAATCAACAAAATCAAAATAAATTGTTCATGATCATAAATCAACAAACTTTAATACTACT
AGTCATGATCA
Found at i:61040220 original size:134 final size:132
Alignment explanation
Indices: 61040051--61040423 Score: 408
Period size: 134 Copynumber: 2.8 Consensus size: 132
61040041 ACTAGTCATG
* * * *
61040051 ATCATAAATCAGTGAACGCAAAATGAACTAG-TCATGATCTTAAATCAATGAACTTAAGCTGTGA
1 ATCATAAATCAGTGAACTCAAAATGAA-TTGTTCATGATCGTAAAT-AATGAACTTAAGCTATGA
* * * * * *
61040115 CCATAAATCAACAAGCTTTAATAATAGCAGTCGTGATTGTAAATCAGCGAACTGTTTGAATGGAG
64 TCGTAAATCAGCAAGCTTTAATAATA-CAGTCGTGATCGTAAATCAACGAACTGTTTGAATGAAG
61040180 TTACA
128 TTACA
* * * *
61040185 ATCATAAATTAGTAAAATCAAAATGAATTGTTCATGATCGTAAATAAATGAACTTAAGTTATGAT
1 ATCATAAATCAGTGAACTCAAAATGAATTGTTCATGATCGTAAAT-AATGAACTTAAGCTATGAT
* * * * * * *
61040250 CGTAAATCAGCGAGCTTTAATAATATCAGTCATAATCATAAATCAATGAACTTTTTGAGTGAAGT
65 CGTAAATCAGCAAGCTTTAATAATA-CAGTCGTGATCGTAAATCAACGAACTGTTTGAATGAAGT
* *
61040315 TGCG
129 TACA
* * ** * *
61040319 ATAATTAATCAACGAACTCAAAATGAACTATTCATGATCGTAAATAAGTGAACTTAAGC-ATGAT
1 ATCATAAATCAGTGAACTCAAAATGAATTGTTCATGATCGTAAATAA-TGAACTTAAGCTATGAT
61040383 CGTAAATCAGCAAGCTTTAATAATACTAGTCGTGATCGTAA
65 CGTAAATCAGCAAGCTTTAATAATAC-AGTCGTGATCGTAA
61040424 TTAGTGAATT
Statistics
Matches: 197, Mismatches: 39, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
132 1 0.01
133 44 0.22
134 152 0.77
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (132 bp):
ATCATAAATCAGTGAACTCAAAATGAATTGTTCATGATCGTAAATAATGAACTTAAGCTATGATC
GTAAATCAGCAAGCTTTAATAATACAGTCGTGATCGTAAATCAACGAACTGTTTGAATGAAGTTA
CA
Found at i:61040234 original size:25 final size:26
Alignment explanation
Indices: 61040205--61040256 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
61040195 AGTAAAATCA
61040205 AAATGAA-TT-GTTCATGATCGTAAAT
1 AAATGAACTTAGTT-ATGATCGTAAAT
61040230 AAATGAACTTAAGTTATGATCGTAAAT
1 AAATGAACTT-AGTTATGATCGTAAAT
61040257 CAGCGAGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 7 0.29
26 2 0.08
27 12 0.50
28 3 0.12
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (26 bp):
AAATGAACTTAGTTATGATCGTAAAT
Found at i:61040338 original size:340 final size:342
Alignment explanation
Indices: 61039715--61040363 Score: 793
Period size: 340 Copynumber: 1.9 Consensus size: 342
61039705 GCGATCGTAG
* * * * * *
61039715 ATCAGTGAACTCAAAATGAACTGTTCATGATCGTAAATCAATGAGCTTAGGTTGTGATCGTAAAT
1 ATCAGTGAACGCAAAATGAACTGTTCATGATCGTAAATCAATGAACTTAAGCTGTGACCATAAAT
* * * * *
61039780 CAGCAAGCTTTAATATTATTATCAATTGAGATCGTAAATCAACGAACTATTTGAATGAAGTTGCG
66 CAACAAGCTTTAATA-TATTAGCAATCGAGATCGTAAATCAACGAACTATTTGAATGAAGTTACA
** * * * * * *
61039845 ATTTTAAATCAATGAACTCAAAATAAACTATTCACGATAGTAAATCATTGAGCTTAAGTTGTGAT
130 ATCATAAATCAATAAAATCAAAATAAACTATTCACGATAGTAAATAAATGAACTTAAGTTATGAT
* ** * * *
61039910 CGTATATCAGCAAGCTTTAATAATACTAGTGGTGATCGTAAATCAATGAACTATTTCAATGGAGT
195 CGTAAATCAGCAAGCTTTAATAATACTAGTCATAATCATAAATCAATGAACTATTTCAATGAAGT
* * * *
61039975 TGTGATCATAAATCAACGAACTCAAAATAAATTGTTCATGATCATAAATCAACAAACTTTAATAC
260 TGCGATAATAAATCAACGAACTCAAAATAAACTATTCATGATCATAAATCAACAAACTTTAATAC
61040040 TACTAGTCATGATCATAA
325 TACTAGTCATGATCATAA
*
61040058 ATCAGTGAACGCAAAATGAACTAG-TCATGATCTTAAATCAATGAACTTAAGCTGTGACCATAAA
1 ATCAGTGAACGCAAAATGAACT-GTTCATGATCGTAAATCAATGAACTTAAGCTGTGACCATAAA
* * * * * *
61040122 TCAACAAGCTTTAATA-A-TAGCAGTCGTGATTGTAAATCAGCGAACTGTTTGAATGGAGTTACA
65 TCAACAAGCTTTAATATATTAGCAATCGAGATCGTAAATCAACGAACTATTTGAATGAAGTTACA
* * * * * * *
61040185 ATCATAAATTAGTAAAATCAAAATGAATTGTTCATGATCGTAAATAAATGAACTTAAGTTATGAT
130 ATCATAAATCAATAAAATCAAAATAAACTATTCACGATAGTAAATAAATGAACTTAAGTTATGAT
* * * *
61040250 CGTAAATCAGCGAGCTTTAATAATA-TCAGTCATAATCATAAATCAATGAACTTTTTGAGTGAAG
195 CGTAAATCAGCAAGCTTTAATAATACT-AGTCATAATCATAAATCAATGAACTATTTCAATGAAG
* * *
61040314 TTGCGATAATTAATCAACGAACTCAAAATGAACTATTCATGATCGTAAAT
259 TTGCGATAATAAATCAACGAACTCAAAATAAACTATTCATGATCATAAAT
61040364 AAGTGAACTT
Statistics
Matches: 254, Mismatches: 50, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
339 1 0.00
340 181 0.71
341 1 0.00
343 70 0.28
344 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (342 bp):
ATCAGTGAACGCAAAATGAACTGTTCATGATCGTAAATCAATGAACTTAAGCTGTGACCATAAAT
CAACAAGCTTTAATATATTAGCAATCGAGATCGTAAATCAACGAACTATTTGAATGAAGTTACAA
TCATAAATCAATAAAATCAAAATAAACTATTCACGATAGTAAATAAATGAACTTAAGTTATGATC
GTAAATCAGCAAGCTTTAATAATACTAGTCATAATCATAAATCAATGAACTATTTCAATGAAGTT
GCGATAATAAATCAACGAACTCAAAATAAACTATTCATGATCATAAATCAACAAACTTTAATACT
ACTAGTCATGATCATAA
Found at i:61044381 original size:28 final size:27
Alignment explanation
Indices: 61044320--61044471 Score: 250
Period size: 27 Copynumber: 5.6 Consensus size: 27
61044310 ATATTAAGTC
* *
61044320 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
61044347 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
61044375 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
61044402 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
61044430 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
61044457 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61044472 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 65 0.55
28 53 0.45
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:61044388 original size:55 final size:55
Alignment explanation
Indices: 61044320--61044471 Score: 268
Period size: 55 Copynumber: 2.8 Consensus size: 55
61044310 ATATTAAGTC
* *
61044320 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
61044375 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
61044430 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
61044472 GCACAATTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 93 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:61059024 original size:26 final size:26
Alignment explanation
Indices: 61058995--61059045 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
61058985 GGAAGTATTA
61058995 TGTTACTAGCAACTTTGCTGCGATAC
1 TGTTACTAGCAACTTTGCTGCGATAC
* *
61059021 TGTTACTGGCAGCTTTGCTGCGATA
1 TGTTACTAGCAACTTTGCTGCGATA
61059046 TTGGTGTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (26 bp):
TGTTACTAGCAACTTTGCTGCGATAC
Found at i:61065079 original size:27 final size:28
Alignment explanation
Indices: 61065036--61065111 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
61065026 TAAATTAGGT
** *
61065036 AAAATGACCAAAATACCCCTAA-AG-GG
1 AAAATGACCATTATACCCCTAATAGATG
* *
61065062 TAAAATGACTATTTTACCCCTAATAGATG
1 -AAAATGACCATTATACCCCTAATAGATG
61065091 AAAATGACCATTATACCCCTA
1 AAAATGACCATTATACCCCTA
61065112 GAGGTAGGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 18 0.45
28 21 0.52
29 1 0.03
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (28 bp):
AAAATGACCATTATACCCCTAATAGATG
Found at i:61065107 original size:28 final size:27
Alignment explanation
Indices: 61065033--61065111 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
61065023 CCCTAAATTA
**
61065033 GGTAAAATGACCAAAATACCCCTAAAG
1 GGTAAAATGACCATTATACCCCTAAAG
* *
61065060 GGTAAAATGACTATTTTACCCCTAATA-
1 GGTAAAATGACCATTATACCCCTAA-AG
*
61065087 GATGAAAATGACCATTATACCCCTA
1 GGT-AAAATGACCATTATACCCCTA
61065112 GAGGTAGGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 23 0.53
28 20 0.47
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCATTATACCCCTAAAG
Found at i:61075785 original size:32 final size:32
Alignment explanation
Indices: 61075748--61075808 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
61075738 AATGTTTAAT
* * *
61075748 GGTGGAATTTTAAACTTAAAAATAGTAAATAC
1 GGTGGAATTATAAACATAAAAATAATAAATAC
*
61075780 GGTGGAATTATAAACATAGAAATAATAAA
1 GGTGGAATTATAAACATAAAAATAATAAA
61075809 GTATATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (32 bp):
GGTGGAATTATAAACATAAAAATAATAAATAC
Found at i:61080385 original size:23 final size:23
Alignment explanation
Indices: 61080355--61080400 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
61080345 CGTCCTACTT
61080355 CTATCAGACATGAATTAAAATAA
1 CTATCAGACATGAATTAAAATAA
61080378 CTATCAGACATGAATTAAAATAA
1 CTATCAGACATGAATTAAAATAA
61080401 GTAAAATCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (23 bp):
CTATCAGACATGAATTAAAATAA
Found at i:61080750 original size:34 final size:33
Alignment explanation
Indices: 61080674--61080743 Score: 108
Period size: 34 Copynumber: 2.2 Consensus size: 33
61080664 CAATTAATTA
*
61080674 ACAGT-TCAGT-TCAGTTGGGCCTTTGCCCATT
1 ACAGTATCAGTATCAGTTGGGCCTTAGCCCATT
61080705 ACAGTATCAGTATCAGTGTGGGCCTTAGCCCATT
1 ACAGTATCAGTATCAGT-TGGGCCTTAGCCCATT
61080739 ACAGT
1 ACAGT
61080744 GACAGTAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
31 5 0.14
32 5 0.14
33 5 0.14
34 20 0.57
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.31
Consensus pattern (33 bp):
ACAGTATCAGTATCAGTTGGGCCTTAGCCCATT
Found at i:61081064 original size:27 final size:27
Alignment explanation
Indices: 61081022--61081093 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
61081012 ATAACATAAA
61081022 GCAT-ACAATCATTTTATAACATAGGG
1 GCATAACAATCATTTTATAACATAGGG
* * *
61081048 GCATAACATTCATTTTACAATATAGGG
1 GCATAACAATCATTTTATAACATAGGG
* *
61081075 CCATAACAGTCATTTTATA
1 GCATAACAATCATTTTATA
61081094 TCAGTTTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 4 0.10
27 35 0.90
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (27 bp):
GCATAACAATCATTTTATAACATAGGG
Found at i:61082416 original size:44 final size:44
Alignment explanation
Indices: 61082353--61082441 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
61082343 CCCAACAAAT
*
61082353 CGGGATAACTTCCTCAATCTCATAATCTTCTCCTAAAATCACTC
1 CGGGATAACTTCCCCAATCTCATAATCTTCTCCTAAAATCACTC
*
61082397 CGGGATAACTTCCCCAATCTCATAATCTTCTCCTAATATCACTC
1 CGGGATAACTTCCCCAATCTCATAATCTTCTCCTAAAATCACTC
61082441 C
1 C
61082442 AACCTTTCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.34, G:0.07, T:0.31
Consensus pattern (44 bp):
CGGGATAACTTCCCCAATCTCATAATCTTCTCCTAAAATCACTC
Found at i:61088136 original size:27 final size:26
Alignment explanation
Indices: 61088098--61088168 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
61088088 ATAACATAAA
61088098 GCAT-ACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACAT-GGG
** *
61088124 GCATAACAGTCATTTTACCACGTGGG
1 GCATAACAGTCATTTTATAACATGGG
61088150 GCATAACAGTCATTTTATA
1 GCATAACAGTCATTTTATA
61088169 TCAGTTTGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 24 0.62
27 15 0.38
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (26 bp):
GCATAACAGTCATTTTATAACATGGG
Found at i:61092740 original size:24 final size:24
Alignment explanation
Indices: 61092713--61092761 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
61092703 ATGCTCTTAT
61092713 GAGCT-GTAATCGGTAAGCTCATAC
1 GAGCTAGTAA-CGGTAAGCTCATAC
61092737 GAGCTGAGTAACGGTAAGCTCATAC
1 GAGCT-AGTAACGGTAAGCTCATAC
61092762 TAGTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.22
25 14 0.61
26 4 0.17
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (24 bp):
GAGCTAGTAACGGTAAGCTCATAC
Found at i:61094276 original size:44 final size:44
Alignment explanation
Indices: 61094213--61094300 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
61094203 AAAATGATTG
*
61094213 AAACAAATCTACTTGGAATCAGCCATATCGAGGTTATGTCTGGA
1 AAACAAAGCTACTTGGAATCAGCCATATCGAGGTTATGTCTGGA
* *
61094257 AAACAAAGCTACTTGGAATCAGTCATATCGAGGTTATGTTTGGA
1 AAACAAAGCTACTTGGAATCAGCCATATCGAGGTTATGTCTGGA
61094301 TTGTAATGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (44 bp):
AAACAAAGCTACTTGGAATCAGCCATATCGAGGTTATGTCTGGA
Found at i:61095776 original size:20 final size:20
Alignment explanation
Indices: 61095740--61095777 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
61095730 GGTTACGATT
*
61095740 AATTAATTAAAGCTTAATTA
1 AATTAATTAAAGATTAATTA
*
61095760 AATTAATTAAGGATTAAT
1 AATTAATTAAAGATTAAT
61095778 GATTAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (20 bp):
AATTAATTAAAGATTAATTA
Found at i:61096938 original size:28 final size:29
Alignment explanation
Indices: 61096870--61096947 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
61096860 GACTAGTTAC
* *
61096870 AATGTCATCTTGTGTGAGAAAATTCATAA
1 AATGTCAACTTGTGTGAGCAAATTCATAA
* *
61096899 AATG-CTAGCTTGAGTGAGCAAATTCAT-A
1 AATGTC-AACTTGTGTGAGCAAATTCATAA
61096927 AATGTCAACTTGTGTGAGCAA
1 AATGTCAACTTGTGTGAGCAA
61096948 CCCTAATCTC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
28 19 0.45
29 23 0.55
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (29 bp):
AATGTCAACTTGTGTGAGCAAATTCATAA
Found at i:61097952 original size:51 final size:51
Alignment explanation
Indices: 61097896--61097996 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
61097886 CCTTGAATGT
* *
61097896 TTGAAAAGCTTCACAAATTAACTATTGATTGGTTTAAGGATACTATCGGGA
1 TTGAAAAACTTCACAAATTAACTATTGATTGATTTAAGGATACTATCGGGA
* * * *
61097947 TTGAAAAACTTCGCAGATTAACTCTTGATTGATTTAAGGATAGTATCGGG
1 TTGAAAAACTTCACAAATTAACTATTGATTGATTTAAGGATACTATCGGG
61097997 CTTTCGTTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.34
Consensus pattern (51 bp):
TTGAAAAACTTCACAAATTAACTATTGATTGATTTAAGGATACTATCGGGA
Found at i:61100268 original size:21 final size:21
Alignment explanation
Indices: 61100244--61100286 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
61100234 AGATGATGTG
61100244 GCTGTTAAGTTTGACTTTTTT
1 GCTGTTAAGTTTGACTTTTTT
61100265 GCTGTTAAGTTTGACTTTTTT
1 GCTGTTAAGTTTGACTTTTTT
61100286 G
1 G
61100287 TTTCCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.09, G:0.21, T:0.56
Consensus pattern (21 bp):
GCTGTTAAGTTTGACTTTTTT
Found at i:61100418 original size:16 final size:16
Alignment explanation
Indices: 61100397--61100427 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
61100387 TAATTTAATT
61100397 AAATTTATTTACAATA
1 AAATTTATTTACAATA
61100413 AAATTTATTTACAAT
1 AAATTTATTTACAAT
61100428 TTTTGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTTATTTACAATA
Found at i:61103835 original size:24 final size:24
Alignment explanation
Indices: 61103808--61103855 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
61103798 CCTTCACTAT
*
61103808 CAACATCGTCCCCACCCTTAGTCC
1 CAACATCGTCCCCACCCTCAGTCC
* *
61103832 CAACATCTTCTCCACCCTCAGTCC
1 CAACATCGTCCCCACCCTCAGTCC
61103856 TAGAATTTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.50, G:0.06, T:0.23
Consensus pattern (24 bp):
CAACATCGTCCCCACCCTCAGTCC
Found at i:61113833 original size:22 final size:21
Alignment explanation
Indices: 61113797--61113849 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
61113787 TTATTTATAA
*
61113797 TTTT-TTTTAT-TTTTTTACTT
1 TTTTCTTTTATATTTTATA-TT
61113817 TTTTCATTTTATATTTTATATT
1 TTTTC-TTTTATATTTTATATT
61113839 TTTTCTTTTAT
1 TTTTCTTTTAT
61113850 TGTGACTTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 13 0.45
23 6 0.21
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTTTTATATTTTATATT
Found at i:61126316 original size:44 final size:44
Alignment explanation
Indices: 61126253--61126341 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
61126243 TATAAAAAAA
61126253 GGGAAAGAGGGAAGGATCTTACCGGTGTTCAGTTTTCCAACATC
1 GGGAAAGAGGGAAGGATCTTACCGGTGTTCAGTTTTCCAACATC
*
61126297 GGGAAAGAGGGAAGGATCTTACCGGTGTTCAGTTTTCGAACATC
1 GGGAAAGAGGGAAGGATCTTACCGGTGTTCAGTTTTCCAACATC
61126341 G
1 G
61126342 TGGACGACCG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (44 bp):
GGGAAAGAGGGAAGGATCTTACCGGTGTTCAGTTTTCCAACATC
Found at i:61126702 original size:22 final size:22
Alignment explanation
Indices: 61126677--61126719 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
61126667 TTTTTTTGTT
* *
61126677 GTTTTTTTTCTTAAAAAAAAAG
1 GTTTTTTATCATAAAAAAAAAG
*
61126699 GTTTTTTATGATAAAAAAAAA
1 GTTTTTTATCATAAAAAAAAA
61126720 AGAGAGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (22 bp):
GTTTTTTATCATAAAAAAAAAG
Found at i:61126849 original size:39 final size:40
Alignment explanation
Indices: 61126739--61126892 Score: 258
Period size: 39 Copynumber: 3.9 Consensus size: 40
61126729 ATAAAGTATG
* *
61126739 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
61126779 GTTTCAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
61126819 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
61126858 GTTTTAATTAATAAT-AAAACAAAATAGCATGGGGG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGG
61126893 GAGTGGAATC
Statistics
Matches: 109, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 58 0.53
40 51 0.47
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:61126894 original size:79 final size:80
Alignment explanation
Indices: 61126739--61126892 Score: 258
Period size: 79 Copynumber: 1.9 Consensus size: 80
61126729 ATAAAGTATG
*
61126739 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAAATGGTTTCAATTAATAATAAAAACAAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAAATAGTTTCAATTAATAATAAAAACAAAA
*
61126804 TAGTATGGGGGAATA
66 TAGCATGGGGGAATA
* *
61126819 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAAT-AAAACAAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAAATAGTTTCAATTAATAATAAAAACAAAA
61126882 TAGCATGGGGG
66 TAGCATGGGGG
61126893 GAGTGGAATC
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 19 0.27
79 36 0.51
80 15 0.21
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (80 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAAATAGTTTCAATTAATAATAAAAACAAAA
TAGCATGGGGGAATA
Found at i:61127417 original size:48 final size:48
Alignment explanation
Indices: 61127360--61127461 Score: 204
Period size: 48 Copynumber: 2.1 Consensus size: 48
61127350 ATATATTTAT
61127360 AATATTACTAATAGTTTATTTTTTACATTATTATGTATATACCATGAA
1 AATATTACTAATAGTTTATTTTTTACATTATTATGTATATACCATGAA
61127408 AATATTACTAATAGTTTATTTTTTACATTATTATGTATATACCATGAA
1 AATATTACTAATAGTTTATTTTTTACATTATTATGTATATACCATGAA
61127456 AATATT
1 AATATT
61127462 TTAATATTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (48 bp):
AATATTACTAATAGTTTATTTTTTACATTATTATGTATATACCATGAA
Found at i:61127495 original size:48 final size:48
Alignment explanation
Indices: 61127360--61127497 Score: 190
Period size: 48 Copynumber: 2.8 Consensus size: 48
61127350 ATATATTTAT
*
61127360 AATATTACTAATAGTTTATTTTTTACATTATTATGTATATACCATGAA
1 AATATTACTAATAGTTTATTTTATACATTATTATGTATATACCATGAA
*
61127408 AATATTACTAATAGTTTATTTTTTACATTATTATGTATATACCATGAA
1 AATATTACTAATAGTTTATTTTATACATTATTATGTATATACCATGAA
* *
61127456 AATATT-TTAATA-TTATATTATGTATACATTATATATATATAT
1 AATATTACTAATAGTT-TATT-T-TATACATTAT-TATGTATAT
61127498 CTTTTAATAT
Statistics
Matches: 83, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
46 2 0.02
47 9 0.11
48 55 0.66
49 9 0.11
50 8 0.10
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (48 bp):
AATATTACTAATAGTTTATTTTATACATTATTATGTATATACCATGAA
Found at i:61137780 original size:99 final size:99
Alignment explanation
Indices: 61137604--61137802 Score: 389
Period size: 99 Copynumber: 2.0 Consensus size: 99
61137594 CTTAATCGGT
61137604 AAAAATACCTAATAGTCATAAGTACATGTTAGTGTGTGAATTTGATGTTGTCATAGAAGGGAAAA
1 AAAAATACCTAATAGTCATAAGTACATGTTAGTGTGTGAATTTGATGTTGTCATAGAAGGGAAAA
61137669 ATGATCAGTATGTCATAAAACATAAGAAAATAGG
66 ATGATCAGTATGTCATAAAACATAAGAAAATAGG
61137703 AAAAATACCTAATAGTCATAAGTACATGTTAGTGTGTGAATTTGATGTTGTCATAGAAGGGAAAA
1 AAAAATACCTAATAGTCATAAGTACATGTTAGTGTGTGAATTTGATGTTGTCATAGAAGGGAAAA
*
61137768 ATGATCATTATGTCATAAAACATAAGAAAATAGG
66 ATGATCAGTATGTCATAAAACATAAGAAAATAGG
61137802 A
1 A
61137803 TGAAGTTTAA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.29
Consensus pattern (99 bp):
AAAAATACCTAATAGTCATAAGTACATGTTAGTGTGTGAATTTGATGTTGTCATAGAAGGGAAAA
ATGATCAGTATGTCATAAAACATAAGAAAATAGG
Found at i:61138310 original size:44 final size:45
Alignment explanation
Indices: 61138222--61138310 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 45
61138212 AGAACAGAAA
*
61138222 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
*
61138268 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGA
61138311 ATAATTCATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.49
46 21 0.51
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:61138325 original size:44 final size:45
Alignment explanation
Indices: 61138215--61138348 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 45
61138205 ACAGGACAGA
* * * *
61138215 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATATAAGTCCATATTA-AAATATGGCATTGGAG
* * * *
61138261 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATATAAGTCCATATTAAAATATGGCATTGGAG
** * * *
61138305 ACAGGAATAATTCATATAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATATAAGTCCATATTAAA-ATATGGCATTGG
61138349 CAGGGTATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 35 0.48
45 1 0.01
46 37 0.51
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATATAAGTCCATATTAAAATATGGCATTGGAG
Found at i:61138430 original size:46 final size:46
Alignment explanation
Indices: 61138363--61138451 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
61138353 GTATTGATAG
61138363 ACAGGAATGACCCTAGTATCCTTAGTATTCCGAGTGGTTCAACAAA
1 ACAGGAATGACCCTAGTATCCTTAGTATTCCGAGTGGTTCAACAAA
*
61138409 ACAGGAATGACCCTAGTATCCTTAGTATTCCTAGTGGTTCAAC
1 ACAGGAATGACCCTAGTATCCTTAGTATTCCGAGTGGTTCAAC
61138452 GGGTCAGAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (46 bp):
ACAGGAATGACCCTAGTATCCTTAGTATTCCGAGTGGTTCAACAAA
Found at i:61145745 original size:44 final size:45
Alignment explanation
Indices: 61145657--61145745 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 45
61145647 AGAACAGAAA
*
61145657 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
*
61145703 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGA
61145746 ATAATTCATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.49
46 21 0.51
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:61145760 original size:44 final size:45
Alignment explanation
Indices: 61145650--61145783 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 45
61145640 ACAGGACAGA
* * * *
61145650 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATATAAGTCCATATTA-AAATATGGCATTGGAG
* * * *
61145696 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATATAAGTCCATATTAAAATATGGCATTGGAG
** * * *
61145740 ACAGGAATAATTCATATAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATATAAGTCCATATTAAA-ATATGGCATTGG
61145784 CAGGGTATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 35 0.48
45 1 0.01
46 37 0.51
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATATAAGTCCATATTAAAATATGGCATTGGAG
Found at i:61163763 original size:15 final size:15
Alignment explanation
Indices: 61163743--61163773 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
61163733 TTTACTTTCC
61163743 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
61163758 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
61163773 A
1 A
61163774 AAATCTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:61171792 original size:20 final size:20
Alignment explanation
Indices: 61171769--61171806 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
61171759 AAAAATACAA
*
61171769 TATTTATTAAAAATAAAAAG
1 TATTTAATAAAAATAAAAAG
61171789 TATTTAATAAAAATAAAA
1 TATTTAATAAAAATAAAA
61171807 TTAAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
TATTTAATAAAAATAAAAAG
Found at i:61177185 original size:26 final size:24
Alignment explanation
Indices: 61177127--61177195 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 24
61177117 TTCTCTTTTC
* *
61177127 ATATCATTTATTCTAAATATTTTAT
1 ATATTATTTATT-TAAATATTATAT
*
61177152 ACATTATTTATGTTAAATCATTATAT
1 ATATTATTTAT-TTAAAT-ATTATAT
61177178 ATATTATTTATTTTAAAT
1 ATATTATTTA-TTTAAAT
61177196 TTTCATCTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 14 0.38
26 22 0.59
27 1 0.03
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (24 bp):
ATATTATTTATTTAAATATTATAT
Found at i:61181728 original size:83 final size:83
Alignment explanation
Indices: 61181581--61181746 Score: 190
Period size: 83 Copynumber: 2.0 Consensus size: 83
61181571 GAAATAACAA
* * * *
61181581 TGAAGATTCCCTTTACCCCCTGGTTTTACCCCGGCAAACGCTCAAACGCAACATGAGACACACAC
1 TGAAGATCCCCTCTACCCCCTGGTTTCACCCCGGCAAACGCTCAAACGCAACACGAGACACACAC
* * *
61181646 GCAGAGGCCATCCATTAC
66 ACAAAGACCATCCATTAC
** * * * *
61181664 TGAAGATCCCCTCTACCCCCTGGTTTCACCCCGGTGAATGCTCAAACGTAACCCGAG-CTGCACA
1 TGAAGATCCCCTCTACCCCCTGGTTTCACCCCGGCAAACGCTCAAACGCAACACGAGAC-ACACA
*
61181728 CACAAAGACCATCCGTTAC
65 CACAAAGACCATCCATTAC
61181747 GATCAGGCCT
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
82 1 0.01
83 67 0.99
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (83 bp):
TGAAGATCCCCTCTACCCCCTGGTTTCACCCCGGCAAACGCTCAAACGCAACACGAGACACACAC
ACAAAGACCATCCATTAC
Found at i:61192001 original size:26 final size:24
Alignment explanation
Indices: 61191943--61192011 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 24
61191933 TTCTCTTTTC
* *
61191943 ATATCATTTATTCTAAATATTTTAT
1 ATATTATTTATT-TAAATATTATAT
*
61191968 ACATTATTTATGTTAAATCATTATAT
1 ATATTATTTAT-TTAAAT-ATTATAT
61191994 ATATTATTTATTTTAAAT
1 ATATTATTTA-TTTAAAT
61192012 TTTCATCTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 14 0.38
26 22 0.59
27 1 0.03
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (24 bp):
ATATTATTTATTTAAATATTATAT
Found at i:61197075 original size:13 final size:13
Alignment explanation
Indices: 61197057--61197095 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
61197047 ATCCATCACA
61197057 CAATTTTAATTTT
1 CAATTTTAATTTT
61197070 CAATTTTAATATTT
1 CAATTTTAAT-TTT
* *
61197084 GAATTTAAATTT
1 CAATTTTAATTT
61197096 ATTAATTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (13 bp):
CAATTTTAATTTT
Found at i:61197089 original size:27 final size:27
Alignment explanation
Indices: 61197058--61197124 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
61197048 TCCATCACAC
* *
61197058 AATTTTAATTT-TCAATTTTAATATTT
1 AATTTAAATTTATCAATTTCAATATTT
*
61197084 GAATTTAAATTTATTAATTTCAATATTT
1 -AATTTAAATTTATCAATTTCAATATTT
*
61197112 AATTTAAAGTTAT
1 AATTTAAATTTAT
61197125 AAATCTCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 22 0.63
28 13 0.37
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (27 bp):
AATTTAAATTTATCAATTTCAATATTT
Found at i:61197115 original size:13 final size:14
Alignment explanation
Indices: 61197057--61197116 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
61197047 ATCCATCACA
61197057 CAATTTTAAT-TTT
1 CAATTTTAATATTT
61197070 CAATTTTAATATTT
1 CAATTTTAATATTT
* *
61197084 GAATTTAAAT-TTAT
1 CAATTTTAATATT-T
* *
61197098 TAATTTCAATATTT
1 CAATTTTAATATTT
61197112 -AATTT
1 CAATTT
61197117 AAAGTTATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
13 17 0.43
14 21 0.52
15 2 0.05
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (14 bp):
CAATTTTAATATTT
Found at i:61197518 original size:21 final size:21
Alignment explanation
Indices: 61197470--61197535 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
61197460 AAATTTGAAA
*
61197470 ATAAAACATAATATAATATTTTTC
1 ATAAAA-ATAA-ATAATA-TTATC
*
61197494 ATAAAGATAAATAATATTATC
1 ATAAAAATAAATAATATTATC
61197515 ATAAAAATAAATAAATATTAT
1 ATAAAAATAAAT-AATATTAT
61197536 TTAATTATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 15 0.39
22 14 0.37
23 4 0.11
24 5 0.13
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (21 bp):
ATAAAAATAAATAATATTATC
Found at i:61197522 original size:51 final size:52
Alignment explanation
Indices: 61197467--61197570 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 52
61197457 TTTAAATTTG
* * *
61197467 AAAATAAA-ACATAATATAATATTTTTCATAAAGATAAATAATA-TTATCATA
1 AAAATAAATAAATAATAT-ATAATTATCATAAAGATAAATAATATTTATCATA
* * * *
61197518 AAAATAAATAAATATTATTTAATTATCATAAAGGTAAATATTATTTATCATA
1 AAAATAAATAAATAATATATAATTATCATAAAGATAAATAATATTTATCATA
61197570 A
1 A
61197571 TATTTATATC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
51 28 0.64
52 16 0.36
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (52 bp):
AAAATAAATAAATAATATATAATTATCATAAAGATAAATAATATTTATCATA
Found at i:61197721 original size:22 final size:22
Alignment explanation
Indices: 61197693--61197736 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
61197683 TTAATAATAG
61197693 TTAAAATATTTTTCTCTCAAAA
1 TTAAAATATTTTTCTCTCAAAA
61197715 TTAAAATATTTTTCTCTCAAAA
1 TTAAAATATTTTTCTCTCAAAA
61197737 CTGATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAAATATTTTTCTCTCAAAA
Found at i:61197967 original size:23 final size:24
Alignment explanation
Indices: 61197941--61197991 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
61197931 TAAATTATTT
*
61197941 AAAACTTTACTTT-T-AGATTAAAA
1 AAAACTTTA-TTTCTAAAATTAAAA
61197964 AAAACTTTATTTCTAAAATTAAAA
1 AAAACTTTATTTCTAAAATTAAAA
61197988 AAAA
1 AAAA
61197992 GTATTAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 3 0.12
23 10 0.40
24 12 0.48
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAAACTTTATTTCTAAAATTAAAA
Found at i:61198205 original size:17 final size:17
Alignment explanation
Indices: 61198185--61198238 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
61198175 ATTTTAAATA
61198185 TTATTTTATCAATAATT
1 TTATTTTATCAATAATT
*
61198202 TTATTTTA-CTAT-ATT
1 TTATTTTATCAATAATT
*
61198217 GTTATTTAAAT-AATAATT
1 -TTATTT-TATCAATAATT
61198235 TTAT
1 TTAT
61198239 AAAACAAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 3 0.10
16 9 0.30
17 15 0.50
18 3 0.10
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TTATTTTATCAATAATT
Found at i:61198805 original size:73 final size:73
Alignment explanation
Indices: 61198728--61201662 Score: 5870
Period size: 73 Copynumber: 40.2 Consensus size: 73
61198718 CGCTTAGAAA
61198728 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61198793 CTTCTCAG
66 CTTCTCAG
61198801 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61198866 CTTCTCAG
66 CTTCTCAG
61198874 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61198939 CTTCTCAG
66 CTTCTCAG
61198947 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199012 CTTCTCAG
66 CTTCTCAG
61199020 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199085 CTTCTCAG
66 CTTCTCAG
61199093 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199158 CTTCTCAG
66 CTTCTCAG
61199166 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199231 CTTCTCAG
66 CTTCTCAG
61199239 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199304 CTTCTCAG
66 CTTCTCAG
61199312 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199377 CTTCTCAG
66 CTTCTCAG
61199385 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199450 CTTCTCAG
66 CTTCTCAG
61199458 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199523 CTTCTCAG
66 CTTCTCAG
61199531 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199596 CTTCTCAG
66 CTTCTCAG
61199604 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199669 CTTCTCAG
66 CTTCTCAG
61199677 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199742 CTTCTCAG
66 CTTCTCAG
61199750 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199815 CTTCTCAG
66 CTTCTCAG
61199823 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199888 CTTCTCAG
66 CTTCTCAG
61199896 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61199961 CTTCTCAG
66 CTTCTCAG
61199969 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200034 CTTCTCAG
66 CTTCTCAG
61200042 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200107 CTTCTCAG
66 CTTCTCAG
61200115 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200180 CTTCTCAG
66 CTTCTCAG
61200188 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200253 CTTCTCAG
66 CTTCTCAG
61200261 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200326 CTTCTCAG
66 CTTCTCAG
61200334 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200399 CTTCTCAG
66 CTTCTCAG
61200407 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200472 CTTCTCAG
66 CTTCTCAG
61200480 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200545 CTTCTCAG
66 CTTCTCAG
61200553 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200618 CTTCTCAG
66 CTTCTCAG
61200626 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200691 CTTCTCAG
66 CTTCTCAG
61200699 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200764 CTTCTCAG
66 CTTCTCAG
61200772 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200837 CTTCTCAG
66 CTTCTCAG
61200845 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200910 CTTCTCAG
66 CTTCTCAG
61200918 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61200983 CTTCTCAG
66 CTTCTCAG
61200991 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61201056 CTTCTCAG
66 CTTCTCAG
61201064 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61201129 CTTCTCAG
66 CTTCTCAG
61201137 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61201202 CTTCTCAG
66 CTTCTCAG
61201210 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61201275 CTTCTCAG
66 CTTCTCAG
61201283 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61201348 CTTCTCAG
66 CTTCTCAG
61201356 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61201421 CTTCTCAG
66 CTTCTCAG
61201429 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61201494 CTTCTCAG
66 CTTCTCAG
61201502 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61201567 CTTCTCAG
66 CTTCTCAG
61201575 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
1 AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
61201640 CTTCTCAG
66 CTTCTCAG
61201648 AAAACGCCGCTAAAG
1 AAAACGCCGCTAAAG
61201663 ATCATGTTCT
Statistics
Matches: 2862, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 2862 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.20
Consensus pattern (73 bp):
AAAACGCCGCTAAAGGCCCAAAAAACAAAGAAAACGGCGTCGTTGCCCTTAGGTTTTTTGCGGCG
CTTCTCAG
Found at i:61204847 original size:31 final size:30
Alignment explanation
Indices: 61204790--61204848 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
61204780 GTAAATACTT
* * * *
61204790 AAAATTTGAGGGATTAAAGTGTAAATATGA
1 AAAAGTTGAAGGACTAAAGTGAAAATATGA
61204820 AAAAGTTGAAGGACTAATAGTGAAAATAT
1 AAAAGTTGAAGGACTAA-AGTGAAAATAT
61204849 TTTAAGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.49, C:0.02, G:0.22, T:0.27
Consensus pattern (30 bp):
AAAAGTTGAAGGACTAAAGTGAAAATATGA
Found at i:61211447 original size:14 final size:13
Alignment explanation
Indices: 61211430--61211462 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
61211420 TTATAATTAA
61211430 ATTTAAGTAAAAAT
1 ATTTAA-TAAAAAT
61211444 ATTT-ATAAAAAT
1 ATTTAATAAAAAT
61211456 ATTTAAT
1 ATTTAAT
61211463 TTTAGTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.61
13 3 0.17
14 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
ATTTAATAAAAAT
Found at i:61212020 original size:29 final size:29
Alignment explanation
Indices: 61211965--61212020 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
61211955 TGAAGAGGTG
**
61211965 GTCCATTACTCCATTTAATTATTCCATTT
1 GTCCATTACTCCATTTAATTAGACCATTT
*
61211994 GTCCATTATTCCATTTAATTAGACCAT
1 GTCCATTACTCCATTTAATTAGACCAT
61212021 AAAATCTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.27, C:0.23, G:0.05, T:0.45
Consensus pattern (29 bp):
GTCCATTACTCCATTTAATTAGACCATTT
Found at i:61213908 original size:18 final size:18
Alignment explanation
Indices: 61213882--61213922 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
61213872 ATATGTATGT
*
61213882 GAACTCTTATATGCAATGC
1 GAACTCTTATATG-AATAC
61213901 GAAC-CTTATATGAATAC
1 GAACTCTTATATGAATAC
61213918 GAACT
1 GAACT
61213923 AAATGTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 8 0.40
19 4 0.20
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (18 bp):
GAACTCTTATATGAATAC
Found at i:61214255 original size:20 final size:20
Alignment explanation
Indices: 61214218--61214255 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
61214208 CTTGACAAGC
*
61214218 ATAGCATCGATTGTTGAGAA
1 ATAGCATCGATTGATGAGAA
61214238 ATAGCAT-GATATGATGAG
1 ATAGCATCGAT-TGATGAG
61214256 TTTATGTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (20 bp):
ATAGCATCGATTGATGAGAA
Found at i:61219603 original size:5 final size:5
Alignment explanation
Indices: 61219595--61219626 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
61219585 GTTCTTTTGA
61219595 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT
61219627 GCATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:61219636 original size:15 final size:15
Alignment explanation
Indices: 61219580--61219622 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
61219570 ACTTTTCATG
* *
61219580 TTTCTGTTCTTTTGA
1 TTTCTTTTCTTTTCA
*
61219595 -TTCTTTTCTTTTCT
1 TTTCTTTTCTTTTCA
61219609 TTTCTTTTCTTTTC
1 TTTCTTTTCTTTTC
61219623 TTTTGCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.02, C:0.19, G:0.05, T:0.74
Consensus pattern (15 bp):
TTTCTTTTCTTTTCA
Found at i:61230366 original size:6 final size:6
Alignment explanation
Indices: 61230355--61230410 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
61230345 GATTGGAGGG
* * * *
61230355 AAAGAA AAAGAA AAA-AA AAATGAA AATGAA AATGAA AGAGAA AGAGAA
1 AAAGAA AAAGAA AAAGAA AAA-GAA AAAGAA AAAGAA AAAGAA AAAGAA
61230403 AAA-AA AAA
1 AAAGAA AAA
61230411 CAAAGTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
5 10 0.23
6 30 0.68
7 4 0.09
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:61231938 original size:49 final size:50
Alignment explanation
Indices: 61231885--61231996 Score: 122
Period size: 49 Copynumber: 2.3 Consensus size: 50
61231875 AAAAAGTACT
* * *
61231885 TGGTGCCGGCCATCTACATGGCCAACA-CC-TAAAAAAAATTTAACATCTC
1 TGGTGCCGGCCATCTACACGACCAACACCCAAAAAAAAAATTT-ACATCTC
* * * *
61231934 TGGTGTCGACCAT-TACACGATCAATACCCAAAAAAAAAATTTACATCTC
1 TGGTGCCGGCCATCTACACGACCAACACCCAAAAAAAAAATTTACATCTC
*
61231983 TAGTGCCGGCCATC
1 TGGTGCCGGCCATC
61231997 AGTGTACCAA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
48 9 0.18
49 30 0.60
50 11 0.22
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (50 bp):
TGGTGCCGGCCATCTACACGACCAACACCCAAAAAAAAAATTTACATCTC
Found at i:61237274 original size:30 final size:32
Alignment explanation
Indices: 61237225--61237289 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
61237215 TTTGAACTTT
*
61237225 TTTATATTTTTAATTTAAATTTTGATTTAATTA
1 TTTATATTTTTAA-TTAAATTTTGAATTAATTA
*
61237258 TTTATATTTTT-A-TAAATTTTGAATTATTTA
1 TTTATATTTTTAATTAAATTTTGAATTAATTA
61237288 TT
1 TT
61237290 GATGTGACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 18 0.60
32 1 0.03
33 11 0.37
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (32 bp):
TTTATATTTTTAATTAAATTTTGAATTAATTA
Found at i:61239252 original size:15 final size:16
Alignment explanation
Indices: 61239232--61239262 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61239222 CGGTCGAACA
61239232 AGCATT-ATGAAATAG
1 AGCATTCATGAAATAG
61239247 AGCATTCATGAAATAG
1 AGCATTCATGAAATAG
61239263 CTTCACAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (16 bp):
AGCATTCATGAAATAG
Found at i:61241243 original size:22 final size:24
Alignment explanation
Indices: 61241216--61241264 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
61241206 TATTATTAAC
61241216 TTTAAAA-AATTTA-AAATATATA
1 TTTAAAATAATTTATAAATATATA
* *
61241238 TTTAAAATATTTTATTAATATATA
1 TTTAAAATAATTTATAAATATATA
61241262 TTT
1 TTT
61241265 TGAAATTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
23 5 0.22
24 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTAAAATAATTTATAAATATATA
Found at i:61241299 original size:22 final size:21
Alignment explanation
Indices: 61241261--61241315 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
61241251 ATTAATATAT
*
61241261 ATTTTGAA-ATTACTTTTTTAA
1 ATTTTAAATATTACTTTTTT-A
*
61241282 ATTTTAAATATTATTTTTTTA
1 ATTTTAAATATTACTTTTTTA
61241303 ATATTTAAATATT
1 AT-TTTAAATATT
61241316 TTAAACATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTTTAAATATTACTTTTTTA
Found at i:61241319 original size:31 final size:31
Alignment explanation
Indices: 61241282--61241393 Score: 115
Period size: 31 Copynumber: 3.5 Consensus size: 31
61241272 ACTTTTTTAA
*
61241282 ATTTTAAATATTATTTTTTTAATATTTA-AAT
1 ATTTTAAATATTATTTATTT-ATATTTATAAT
*
61241313 ATTTTAAACATTCAAATTTATTTAT-TTTATAAT
1 ATTTTAAATATT---ATTTATTTATATTTATAAT
*
61241346 AATTTAAATATTATTTAATTTA-ATTTATAAT
1 ATTTTAAATATTATTT-ATTTATATTTATAAT
61241377 ATTTTAAATTATT-TTTA
1 ATTTTAAA-TATTATTTA
61241394 AAGATATTCA
Statistics
Matches: 69, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
30 5 0.07
31 34 0.49
32 8 0.12
33 15 0.22
34 7 0.10
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (31 bp):
ATTTTAAATATTATTTATTTATATTTATAAT
Found at i:61241386 original size:21 final size:21
Alignment explanation
Indices: 61241345--61241386 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
61241335 TATTTTATAA
*
61241345 TAATTTAAATATTATTTAATT
1 TAATTTAAATATTATTAAATT
61241366 TAATTTATAATATT-TTAAATT
1 TAATTTA-AATATTATTAAATT
61241387 ATTTTTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTTAAATATTATTAAATT
Found at i:61241804 original size:12 final size:12
Alignment explanation
Indices: 61241762--61241801 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
61241752 TTTTTTAAAT
61241762 TTTAAA-TATTA
1 TTTAAATTATTA
61241773 TTTAAATTATTA
1 TTTAAATTATTA
61241785 TTTAAATTATT-
1 TTTAAATTATTA
61241796 TTTAAA
1 TTTAAA
61241802 ATTTTGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 12 0.43
12 16 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTAAATTATTA
Found at i:61241904 original size:8 final size:8
Alignment explanation
Indices: 61241891--61241939 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
61241881 TCTCTGACAT
61241891 TTTTTTTA
1 TTTTTTTA
*
61241899 TTTTTTTC
1 TTTTTTTA
61241907 TTTATCTTTA
1 TTT-T-TTTA
*
61241917 TTTATTTA
1 TTTTTTTA
61241925 TTTATTTTA
1 TTT-TTTTA
61241934 TTTTTT
1 TTTTTT
61241940 ATTATTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 20 0.59
9 8 0.24
10 6 0.18
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:61241918 original size:18 final size:17
Alignment explanation
Indices: 61241889--61241939 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
61241879 TTTCTCTGAC
*
61241889 ATTTTTTTTATTTTTTT
1 ATTTATTTTATTTTTTT
* *
61241906 CTTTATCTTTATTTATTT
1 ATTTAT-TTTATTTTTTT
61241924 ATTTATTTTATTTTTT
1 ATTTATTTTATTTTTT
61241940 ATTATTAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (17 bp):
ATTTATTTTATTTTTTT
Found at i:61241940 original size:12 final size:12
Alignment explanation
Indices: 61241890--61241942 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
61241880 TTCTCTGACA
61241890 TTTT-TTTTATT
1 TTTTATTTTATT
61241901 TTTT-TCTTTA-T
1 TTTTAT-TTTATT
*
61241912 CTTTA-TTTATT
1 TTTTATTTTATT
61241923 TATTTATTTTATT
1 T-TTTATTTTATT
61241936 TTTTATT
1 TTTTATT
61241943 ATTAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 4 0.11
11 10 0.29
12 14 0.40
13 7 0.20
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTATTTTATT
Done.