Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 127 of 207
Found at i:38893617 original size:20 final size:20
Alignment explanation
Indices: 38893594--38893631 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38893584 TTGTACTTCG
*
38893594 GTGCCTCTATTTGCACTTTA
1 GTGCCCCTATTTGCACTTTA
*
38893614 GTGCCCCTTTTTGCACTT
1 GTGCCCCTATTTGCACTT
38893632 CGATGCCTTT
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:0.11, C:0.29, G:0.16, T:0.45
Consensus pattern (20 bp):
GTGCCCCTATTTGCACTTTA
Found at i:38893638 original size:20 final size:20
Alignment explanation
Indices: 38893588--38893638 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
38893578 TGGGACTTGT
* *
38893588 ACTTCGGTGCCTCTATTTGC
1 ACTTCGATGCCCCTATTTGC
* *
38893608 ACTT-TAGTGCCCCTTTTTGC
1 ACTTCGA-TGCCCCTATTTGC
38893628 ACTTCGATGCC
1 ACTTCGATGCC
38893639 TTTGATCGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.12, C:0.31, G:0.18, T:0.39
Consensus pattern (20 bp):
ACTTCGATGCCCCTATTTGC
Found at i:38895216 original size:14 final size:14
Alignment explanation
Indices: 38895175--38895222 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
38895165 GTTTTGACTT
**
38895175 TAATTAATCAAAAT
1 TAATTAATCAAACC
*
38895189 TAATTTAATTAAACC
1 TAA-TTAATCAAACC
38895204 TAATTAATCAAACC
1 TAATTAATCAAACC
38895218 ATAAT
1 -TAAT
38895223 CACAATTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATTAATCAAACC
Found at i:38900423 original size:50 final size:49
Alignment explanation
Indices: 38900358--38900533 Score: 138
Period size: 50 Copynumber: 3.5 Consensus size: 49
38900348 TTCGGAAAGT
* *
38900358 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGTAATGTCTGGGAAGC
1 AAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTG-AATGTCTGGGAAGC
* * ** * * * * *
38900408 ATGATTCGCTGTTGTGGCTTTAAT-TTGTTCCGCTGCATCGCCTGCGAGGT
1 AAGATTCGCCGTTGTGGCTTTAATCTT-TTCAACTGAAT-GTCTGGGAAGC
* * * * *
38900458 AAGATTCGCTGTTGTAGCTTTGATCTTTTGAACTGCAATGTCAGGGAAGC
1 AAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTG-AATGTCTGGGAAGC
* * *
38900508 AAGATTCACCGATGTGGTTTTAATCT
1 AAGATTCGCCGTTGTGGCTTTAATCT
38900534 ATTCCACGGC
Statistics
Matches: 93, Mismatches: 29, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
49 4 0.04
50 85 0.91
51 4 0.04
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (49 bp):
AAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGAATGTCTGGGAAGC
Found at i:38900564 original size:100 final size:98
Alignment explanation
Indices: 38900354--38900632 Score: 275
Period size: 100 Copynumber: 2.9 Consensus size: 98
38900344 AACTTTCGGA
* * * * *
38900354 AAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGTAATGTCTGGGAAGCATGATTCGCTG
1 AAGTAAGATTCGCCGTTGTGGCTTT-ATC-TTTTAACTGCAATGTCAGGGAAGCAAGATTCACTG
* * * * *
38900419 TTGTGGCTTTAATTTGTTCCGCTGCATCGCCTGCG
64 ATGTGGCTTTAATCTGTTCCACGGCATCGCCAGCG
* * * *
38900454 AGGTAAGATTCGCTGTTGTAGCTTTGATCTTTTGAACTGCAATGTCAGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCCGTTGTGGCTTT-ATCTTTT-AACTGCAATGTCAGGGAAGCAAGATTCACTG
* * *
38900519 ATGTGGTTTTAATCTATTCCACGGCATTGCCAAG-G
64 ATGTGGCTTTAATCTGTTCCACGGCATCGCC-AGCG
* * * *
38900554 AAGTAGGATTCGCCGCTGTGGCTTTA---GTT---TGCAATGTCGGGGAAGCAAGATTCACTGAT
1 AAGTAAGATTCGCCGTTGTGGCTTTATCTTTTAACTGCAATGTCAGGGAAGCAAGATTCACTGAT
38900613 GTGGCTTTAATCTGTTCCAC
66 GTGGCTTTAATCTGTTCCAC
38900633 TACATCACTT
Statistics
Matches: 149, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
92 46 0.31
96 2 0.01
99 5 0.03
100 95 0.64
101 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (98 bp):
AAGTAAGATTCGCCGTTGTGGCTTTATCTTTTAACTGCAATGTCAGGGAAGCAAGATTCACTGAT
GTGGCTTTAATCTGTTCCACGGCATCGCCAGCG
Found at i:38900780 original size:44 final size:41
Alignment explanation
Indices: 38900674--38900781 Score: 101
Period size: 44 Copynumber: 2.6 Consensus size: 41
38900664 TTCGGTCTAT
* *
38900674 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTAATCCAC
* ** * * *
38900715 TCTACTGTAA-CTTCAAAGAGATAAGATCCTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGA-CC-TGA-TGTAATCCAC
38900759 TCCACTGTAATCTCAGGGAGATA
1 TCCACTGTAATCTCAGGGAGATA
38900782 GGATTACTAG
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
40 1 0.02
41 21 0.41
42 2 0.04
43 2 0.04
44 24 0.47
45 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (41 bp):
TCCACTGTAATCTCAGGGAGATAAGACCTGATGTAATCCAC
Found at i:38900811 original size:44 final size:44
Alignment explanation
Indices: 38900763--38900986 Score: 136
Period size: 44 Copynumber: 4.9 Consensus size: 44
38900753 ATCCGCTCCA
*
38900763 CTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTG
1 CTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCTG
* * * * *
38900807 CTGTAACCTCAGGGAGAT-AGATTTCTGGCTTTAATCTGATGCGATCTACT
1 CTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATC---TGC--TCT--G
* * * *
38900857 CTATTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTTAATCTGCT-T-
1 C---TGTAATC-TCAGGGAGATAAGAT--TACTAGCTTCAATCTGCTCTG
* *
38900902 CATTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCTG
1 C--TGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCTG
* * *
38900948 CTGAAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTG
1 CTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
38900987 ATGCGATCCA
Statistics
Matches: 140, Mismatches: 21, Indels: 38
0.70 0.11 0.19
Matches are distributed among these distances:
42 1 0.01
43 16 0.11
44 79 0.56
45 3 0.02
46 4 0.03
48 4 0.03
49 1 0.01
50 1 0.01
51 3 0.02
52 1 0.01
53 14 0.10
54 11 0.08
55 1 0.01
56 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (44 bp):
CTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCTG
Found at i:38901037 original size:142 final size:142
Alignment explanation
Indices: 38900701--38901128 Score: 655
Period size: 142 Copynumber: 3.0 Consensus size: 142
38900691 GAGATAAGAC
* *
38900701 CTGATGTGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
38900766 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAACCTCAGGGAGAT-AGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGAAATCTCAGGGAGATAAGATT
*
38900830 TCTGGCTTTAAT
131 TCTGGCTTCAAT
* * * *
38900842 CTGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTTCATTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
38900907 TAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGAAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGAAATCTCAGGGAGATAAGATT
38900972 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* *
38900984 CTGATGCGATCCACTCTACTGTTACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
** * ** *
38901049 TAATCTCAGGGAGATAGTTTTACTAGCTTCAATTTGCTCCACT-ATAATCTCTA-GGAGTTAAGA
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGA-AATCTC-AGGGAGATAAGA
38901112 TTTCTGGCTTCAAT
129 TTTCTGGCTTCAAT
38901126 CTG
1 CTG
38901129 CTCCACTATA
Statistics
Matches: 261, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
141 116 0.44
142 144 0.55
143 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGAAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:38901088 original size:44 final size:43
Alignment explanation
Indices: 38901035--38901157 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 43
38901025 CCTTTATTTT
* * *
38901035 AATCCGCTCCACTGTAATCTCAGGGAGATAGTTTTACTAGCTTC
1 AATCTGCTCCACTATAATCTCAGGGAGATAGATTT-CTAGCTTC
* * *
38901079 AATTTGCTCCACTATAATCTCTA-GGAGTTAAGATTTCTGGCTTC
1 AATCTGCTCCACTATAATCTC-AGGGAGAT-AGATTTCTAGCTTC
*
38901123 AATCTGCTCCACTATAA-CACCAGGGAGATAAGATT
1 AATCTGCTCCACTATAATC-TCAGGGAGAT-AGATT
38901158 CATCATTTTC
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
43 2 0.03
44 58 0.88
45 6 0.09
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (43 bp):
AATCTGCTCCACTATAATCTCAGGGAGATAGATTTCTAGCTTC
Found at i:38903530 original size:6 final size:6
Alignment explanation
Indices: 38903516--38903553 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
38903506 TTCTTATCAT
* *
38903516 TTTTTA TTTTGA TTTTGA TTTTGA GTTTGA TTTTGA TT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TT
38903554 GATTTTTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:38911718 original size:27 final size:27
Alignment explanation
Indices: 38911373--38911717 Score: 351
Period size: 27 Copynumber: 12.8 Consensus size: 27
38911363 TGCGATACGT
* *
38911373 GGGTAAAATTATCGAAATACCCTCGAT
1 GGGTAAAATTATCGAAATACCCTCAAA
*
38911400 GGGTAAAATTATCGAAATACCCTCAAT
1 GGGTAAAATTATCGAAATACCCTCAAA
* *
38911427 GGGTAAAATTACCGAAATACCCCCGAAA
1 GGGTAAAATTATCGAAATACCCTC-AAA
38911455 -GGTAAAATTATCGAAATACCCT-AAA
1 GGGTAAAATTATCGAAATACCCTCAAA
* * *
38911480 GGGTAAAATTATCAAAATACTCTCGAA
1 GGGTAAAATTATCGAAATACCCTCAAA
* * *
38911507 GAGTAAAATTATTGAAATACCCTCAAT
1 GGGTAAAATTATCGAAATACCCTCAAA
38911534 GGGTAAAATTATCGAAATACCCTCGAAA
1 GGGTAAAATTATCGAAATACCCTC-AAA
* * **
38911562 -GATAAAATTA-CTAAAGTATTCTCAAA
1 GGGTAAAATTATCGAAA-TACCCTCAAA
* *
38911588 GGGTAAAATTATTGAAATACTCTCAATA
1 GGGTAAAATTATCGAAATACCCTCAA-A
* *
38911616 -GGTATAATTATCAAAATACCCTCAAA
1 GGGTAAAATTATCGAAATACCCTCAAA
** **
38911642 GGAAAAAATTATCGAAATACCCTTGAA
1 GGGTAAAATTATCGAAATACCCTCAAA
* * *
38911669 GGGTAAAATTA-CTGTAATCCCCCCAAA
1 GGGTAAAATTATC-GAAATACCCTCAAA
* *
38911696 GGGTAAAATTTTTGAAATACCC
1 GGGTAAAATTATCGAAATACCC
38911718 CTGAGGGGTA
Statistics
Matches: 260, Mismatches: 47, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
25 3 0.01
26 29 0.11
27 220 0.85
28 8 0.03
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (27 bp):
GGGTAAAATTATCGAAATACCCTCAAA
Found at i:38911973 original size:26 final size:26
Alignment explanation
Indices: 38911942--38912009 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
38911932 TTATTGGCAA
*
38911942 CTTTGCTGCGATATTGATACTGATAG
1 CTTTGCTGCGATATTGATACTGACAG
* * * *
38911968 CTTTGCTGTGTTACTGATACTGGCAG
1 CTTTGCTGCGATATTGATACTGACAG
38911994 CTTTGCTGCGATATTG
1 CTTTGCTGCGATATTG
38912010 GTGTGTTGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.40
Consensus pattern (26 bp):
CTTTGCTGCGATATTGATACTGACAG
Found at i:38912154 original size:28 final size:29
Alignment explanation
Indices: 38912117--38912198 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 29
38912107 TGTACTGATA
* *
38912117 ACTGTTTTGGGCTAAGACCCACAC-TGTT
1 ACTGTATTGGGCTAAGACCCACACTTATT
*
38912145 ACTGTATTGGGCTAAGGCCCACACTTTATT
1 ACTGTATTGGGCTAAGACCCACAC-TTATT
* *
38912175 ACTGTATTGGGCTATGCCCCACAC
1 ACTGTATTGGGCTAAGACCCACAC
38912199 ACTGCTATTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 22 0.47
30 25 0.53
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (29 bp):
ACTGTATTGGGCTAAGACCCACACTTATT
Found at i:38912211 original size:30 final size:30
Alignment explanation
Indices: 38912117--38912211 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
38912107 TGTACTGATA
* *
38912117 ACTGTTTTGGGCTAAG-ACC-CACACTGTT
1 ACTGTATTGGGCTAAGCCCCACACACTGTT
* ** *
38912145 ACTGTATTGGGCTAAGGCCCACACTTTATT
1 ACTGTATTGGGCTAAGCCCCACACACTGTT
* *
38912175 ACTGTATTGGGCTATGCCCCACACACTGCT
1 ACTGTATTGGGCTAAGCCCCACACACTGTT
*
38912205 ATTGTAT
1 ACTGTAT
38912212 AAGGCTCAGG
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 15 0.28
29 2 0.04
30 36 0.68
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (30 bp):
ACTGTATTGGGCTAAGCCCCACACACTGTT
Found at i:38916795 original size:36 final size:36
Alignment explanation
Indices: 38916755--38916830 Score: 86
Period size: 36 Copynumber: 2.1 Consensus size: 36
38916745 AATTGGTCAT
38916755 GGAGGGAGTT-GGGGA-GGATTTGATGGAGAAAATCAA
1 GGAGGG-GTTAGGGGAGGGATTTGA-GGAGAAAATCAA
* *
38916791 GGA-GGGTTAAGGGGAGGGGTTTTAGGAGAAAATCAA
1 GGAGGGGTT-AGGGGAGGGATTTGAGGAGAAAATCAA
38916827 GGAG
1 GGAG
38916831 TTTGTTGGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
34 3 0.09
35 2 0.06
36 23 0.68
37 6 0.18
ACGTcount: A:0.33, C:0.03, G:0.46, T:0.18
Consensus pattern (36 bp):
GGAGGGGTTAGGGGAGGGATTTGAGGAGAAAATCAA
Found at i:38917902 original size:27 final size:27
Alignment explanation
Indices: 38917865--38918209 Score: 294
Period size: 27 Copynumber: 12.8 Consensus size: 27
38917855 TGTGGTTCGT
* *
38917865 GGGTAAAATTATCGAAATACCCTCGAT
1 GGGTAAAATTATCGAAATACCCTCAAA
*
38917892 GGGTAAAATTA-CTGAAATACCCTCAAT
1 GGGTAAAATTATC-GAAATACCCTCAAA
* *
38917919 GGGTAAAATTACCAAAATACCC-CTAAA
1 GGGTAAAATTATCGAAATACCCTC-AAA
**
38917946 GGGTAAAATTATCGAAATACCCTTGAA
1 GGGTAAAATTATCGAAATACCCTCAAA
*
38917973 GGGTAAAATTA-CAGAAATACTCC-CGAA
1 GGGTAAAATTATC-GAAATAC-CCTCAAA
* * *
38918000 GGGTAAACTTACCGAAATACCCTCAAT
1 GGGTAAAATTATCGAAATACCCTCAAA
* *
38918027 GGGTAAAATTATCGAAACACCCTTAAA
1 GGGTAAAATTATCGAAATACCCTCAAA
**
38918054 GGGTAAAATTA-CTGAAATACCCTCACC
1 GGGTAAAATTATC-GAAATACCCTCAAA
* * * *
38918081 GAGTAAAATTA-CTAAAATACCCACGAA
1 GGGTAAAATTATC-GAAATACCCTCAAA
* * * * *
38918108 TGATGAAATTACCAAAATACCCTCAAA
1 GGGTAAAATTATCGAAATACCCTCAAA
*
38918135 GGG-AAAATT-TACTGAAATACCCTCGAA
1 GGGTAAAATTAT-C-GAAATACCCTCAAA
* * *
38918162 GGGTAAAATTACCGTAATGCTCCT-AAA
1 GGGTAAAATTATCGAAATAC-CCTCAAA
38918189 GGGTAAAATTATCGAAATACC
1 GGGTAAAATTATCGAAATACC
38918210 TCCGAGATGT
Statistics
Matches: 258, Mismatches: 45, Indels: 31
0.77 0.13 0.09
Matches are distributed among these distances:
26 13 0.05
27 230 0.89
28 15 0.06
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (27 bp):
GGGTAAAATTATCGAAATACCCTCAAA
Found at i:38917928 original size:54 final size:54
Alignment explanation
Indices: 38917864--38918209 Score: 339
Period size: 54 Copynumber: 6.4 Consensus size: 54
38917854 GTGTGGTTCG
* *
38917864 TGGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCAA
1 TGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCAA
* * * * *
38917918 TGGGTAAAATTACCAAAATACCC-CTAAAGGGTAAAATTATCGAAATACCCTTGAA
1 TGGGTAAAATTATCGAAATACCCTC-GAAGGGTAAAATTACCGAAATACCC-TCAA
*
38917973 -GGGTAAAATTA-CAGAAATACTCC-CGAAGGGTAAACTTACCGAAATACCCTCAA
1 TGGGTAAAATTATC-GAAATAC-CCTCGAAGGGTAAAATTACCGAAATACCCTCAA
* ** * *
38918026 TGGGTAAAATTATCGAAACACCCTTAAAGGGTAAAATTACTGAAATACCCTCAC
1 TGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCAA
* * * * * * * *
38918080 CGAGTAAAATTA-CTAAAATACCCACGAATGATGAAATTACCAAAATACCCTCAA
1 TGGGTAAAATTATC-GAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCAA
* * *
38918134 AGGG-AAAATT-TACTGAAATACCCTCGAAGGGTAAAATTACCGTAATGCTCCT-AA
1 TGGGTAAAATTAT-C-GAAATACCCTCGAAGGGTAAAATTACCGAAATAC-CCTCAA
*
38918188 AGGGTAAAATTATCGAAATACC
1 TGGGTAAAATTATCGAAATACC
38918210 TCCGAGATGT
Statistics
Matches: 238, Mismatches: 41, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
53 14 0.06
54 206 0.87
55 17 0.07
56 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (54 bp):
TGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCAA
Found at i:38918004 original size:81 final size:81
Alignment explanation
Indices: 38917865--38918209 Score: 387
Period size: 81 Copynumber: 4.3 Consensus size: 81
38917855 TGTGGTTCGT
* *
38917865 GGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTC-AATGGGTAAAATT
1 GGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACTGAAATACCCTCGAA-GGGTAAAATT
38917929 ACCAAAATACCCCTAAA
65 ACCAAAATACCCCTAAA
** * *
38917946 GGGTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACAGAAATACTCC-CGAAGGGTAAACTT
1 GGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACTGAAATAC-CCTCGAAGGGTAAAATT
* *
38918010 ACCGAAATA-CCCTCAAT
65 ACCAAAATACCCCT-AAA
* * * *
38918027 GGGTAAAATTATCGAAACACCCTTAAAGGGTAAAATTACTGAAATACCCTC-ACCGAGTAAAATT
1 GGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACTGAAATACCCTCGA-AGGGTAAAATT
* *
38918091 ACTAAAATACCCAC-GAA
65 ACCAAAATACCC-CTAAA
* * * * *
38918108 TGATGAAATTACCAAAATACCCTCAAAGGG-AAAATTTACTGAAATACCCTCGAAGGGTAAAATT
1 GGGTAAAATTATCGAAATACCCTCAAAGGGTAAAA-TTACTGAAATACCCTCGAAGGGTAAAATT
** * *
38918172 ACCGTAATGCTCCTAAA
65 ACCAAAATACCCCTAAA
38918189 GGGTAAAATTATCGAAATACC
1 GGGTAAAATTATCGAAATACC
38918210 TCCGAGATGT
Statistics
Matches: 218, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
80 12 0.06
81 198 0.91
82 7 0.03
83 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (81 bp):
GGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACTGAAATACCCTCGAAGGGTAAAATTA
CCAAAATACCCCTAAA
Found at i:38918472 original size:26 final size:26
Alignment explanation
Indices: 38918419--38918473 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
38918409 TTTGCCACAA
* * *
38918419 ATACTGTTACTGGCAGCTTTGCTCTG
1 ATACTGATACTGGCAGCTCTACTCTG
*
38918445 ATACTGATACTGGCAGCTCTACTGTG
1 ATACTGATACTGGCAGCTCTACTCTG
38918471 ATA
1 ATA
38918474 TTATTATTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTCTACTCTG
Found at i:38918610 original size:28 final size:29
Alignment explanation
Indices: 38918568--38918651 Score: 98
Period size: 30 Copynumber: 2.9 Consensus size: 29
38918558 TTTGTACTAA
* * * *
38918568 TTACTATTTTAGGCTAAGGCCTATAC-TG
1 TTACTATATTGGGCTAAGGCCCACACTTG
38918596 TTACTATATTGGGCTAAGGCCCACACTTTG
1 TTACTATATTGGGCTAAGGCCCACAC-TTG
* *
38918626 TTACTGTATTGGGCTATGGCCCACAC
1 TTACTATATTGGGCTAAGGCCCACAC
38918652 ACTACTACTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 22 0.46
30 26 0.54
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (29 bp):
TTACTATATTGGGCTAAGGCCCACACTTG
Found at i:38918661 original size:30 final size:30
Alignment explanation
Indices: 38918597--38918675 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
38918587 CCTATACTGT
* ** **
38918597 TACTATATTGGGCTAAGGCCCACACTTTGT
1 TACTGTATTGGGCTAAGGCCCACACACTAC
*
38918627 TACTGTATTGGGCTATGGCCCACACACTAC
1 TACTGTATTGGGCTAAGGCCCACACACTAC
* *
38918657 TACTGTATAGGGCTTAGGC
1 TACTGTATTGGGCTAAGGC
38918676 TCAGACTGAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (30 bp):
TACTGTATTGGGCTAAGGCCCACACACTAC
Found at i:38922699 original size:19 final size:21
Alignment explanation
Indices: 38922677--38922716 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
38922667 ATAATTATAA
38922677 AAATAATTAA-A-TTTTAATT
1 AAATAATTAACATTTTTAATT
*
38922696 AAATTATTAACATTTTTAATT
1 AAATAATTAACATTTTTAATT
38922717 TTTTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATAATTAACATTTTTAATT
Found at i:38922728 original size:12 final size:12
Alignment explanation
Indices: 38922711--38922752 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
38922701 ATTAACATTT
38922711 TTAATTTTTTTA
1 TTAATTTTTTTA
* *
38922723 TTAATTTTATAA
1 TTAATTTTTTTA
38922735 TTAA--TTTTTA
1 TTAATTTTTTTA
38922745 TTAATTTT
1 TTAATTTT
38922753 AATTTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
10 8 0.33
12 16 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTAATTTTTTTA
Found at i:38922730 original size:10 final size:10
Alignment explanation
Indices: 38922717--38922762 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
38922707 ATTTTTAATT
38922717 TTTTTATTAA
1 TTTTTATTAA
38922727 TTTTATAATTAA
1 TTTT-T-ATTAA
38922739 TTTTTATTAA
1 TTTTTATTAA
* *
38922749 TTTTAATTTA
1 TTTTTATTAA
38922759 TTTT
1 TTTT
38922763 CGACAGTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 21 0.66
11 2 0.06
12 9 0.28
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTATTAA
Found at i:38928968 original size:46 final size:46
Alignment explanation
Indices: 38928911--38929025 Score: 194
Period size: 46 Copynumber: 2.5 Consensus size: 46
38928901 GACACCGTAG
* * **
38928911 ACAGAACGGCTAAAAGCCATAAGTATCACAGTAACGCTGCCTGTTA
1 ACAGAATGGCTAAAAGCCATAAGTATCACAGCAACGCTGCCAATTA
38928957 ACAGAATGGCTAAAAGCCATAAGTATCACAGCAACGCTGCCAATTA
1 ACAGAATGGCTAAAAGCCATAAGTATCACAGCAACGCTGCCAATTA
38929003 ACAGAATGGCTAAAAGCCATAAG
1 ACAGAATGGCTAAAAGCCATAAG
38929026 CAAAAAGGCA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (46 bp):
ACAGAATGGCTAAAAGCCATAAGTATCACAGCAACGCTGCCAATTA
Found at i:38929306 original size:27 final size:27
Alignment explanation
Indices: 38929229--38929471 Score: 233
Period size: 27 Copynumber: 9.0 Consensus size: 27
38929219 TTAGATCATC
*
38929229 TTACCCTTCGGGGGTATTTT-GATAATT
1 TTACCCTTCGAGGGTATTTTAG-TAATT
* **
38929256 TTACCCTTCGA-AGTATTTCGGTAATT
1 TTACCCTTCGAGGGTATTTTAGTAATT
* *
38929282 TTACCCTTCAAAGGTATTTTAGTAATT
1 TTACCCTTCGAGGGTATTTTAGTAATT
* *
38929309 TTACCCTTTGAGGGTATTTCAGTAATT
1 TTACCCTTCGAGGGTATTTTAGTAATT
* *
38929336 TTACCCTTTGAGGGTA-TTTCGTTAATT
1 TTACCCTTCGAGGGTATTTTAG-TAATT
* * *
38929363 TTACACTTCGGGGGTATTTTGGTAATT
1 TTACCCTTCGAGGGTATTTTAGTAATT
* ** *
38929390 TTACCCTTCGAAGGTATTTCGGTATTT
1 TTACCCTTCGAGGGTATTTTAGTAATT
*
38929417 TTACCAC-TCGAGGGTATTTTAATAATT
1 TTACC-CTTCGAGGGTATTTTAGTAATT
** * *
38929444 TTACCCTTTAAGGGTATTTAAGTCATT
1 TTACCCTTCGAGGGTATTTTAGTAATT
38929471 T
1 T
38929472 AACAACCTTT
Statistics
Matches: 178, Mismatches: 32, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
26 25 0.14
27 148 0.83
28 5 0.03
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (27 bp):
TTACCCTTCGAGGGTATTTTAGTAATT
Found at i:38935052 original size:16 final size:15
Alignment explanation
Indices: 38935027--38935057 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
38935017 CTTTTAATAC
38935027 ACTAGCACAAAGCCT
1 ACTAGCACAAAGCCT
38935042 ACTAGGCACAAAGCCT
1 ACTA-GCACAAAGCCT
38935058 GAATAACACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.39, C:0.32, G:0.16, T:0.13
Consensus pattern (15 bp):
ACTAGCACAAAGCCT
Found at i:38935086 original size:38 final size:38
Alignment explanation
Indices: 38935025--38935117 Score: 116
Period size: 38 Copynumber: 2.4 Consensus size: 38
38935015 AACTTTTAAT
*
38935025 ACACTAGCACAAAGCCTACTAGGCACAAAGCCTGAATA
1 ACACCAGCACAAAGCCTACTAGGCACAAAGCCTGAATA
* * * * *
38935063 ACACCAGCATAAAGCTTGCTAGGCATAGAGCCTGAATA
1 ACACCAGCACAAAGCCTACTAGGCACAAAGCCTGAATA
38935101 ACACC-GACACAAAGCCT
1 ACACCAG-CACAAAGCCT
38935118 GAATAACACC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.02
38 45 0.98
ACGTcount: A:0.40, C:0.29, G:0.17, T:0.14
Consensus pattern (38 bp):
ACACCAGCACAAAGCCTACTAGGCACAAAGCCTGAATA
Found at i:38935136 original size:22 final size:22
Alignment explanation
Indices: 38935091--38935139 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
38935081 CTAGGCATAG
*
38935091 AGCCTGAATAACACCGACACAA
1 AGCCTGAATAACACCAACACAA
* *
38935113 AGCCTGAATAACACCAAGATAA
1 AGCCTGAATAACACCAACACAA
38935135 AGCCT
1 AGCCT
38935140 ACTAGGCAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.29, G:0.14, T:0.12
Consensus pattern (22 bp):
AGCCTGAATAACACCAACACAA
Found at i:38935155 original size:60 final size:60
Alignment explanation
Indices: 38935048--38935160 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
38935038 GCCTACTAGG
* * * * *
38935048 CACAAAGCCTGAATAACACCAGCATAAAGCTTGCTAGGCATAGAGCCTGAATAACACCGA
1 CACAAAGCCTGAATAACACCAGCATAAAGCCTACTAGGCAGAAAGCCTAAATAACACCGA
38935108 CACAAAGCCTGAATAACACCAAG-ATAAAGCCTACTAGGCAGAAAGCCTAAATA
1 CACAAAGCCTGAATAACACC-AGCATAAAGCCTACTAGGCAGAAAGCCTAAATA
38935161 GCATTATACT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 45 0.96
61 2 0.04
ACGTcount: A:0.43, C:0.26, G:0.17, T:0.14
Consensus pattern (60 bp):
CACAAAGCCTGAATAACACCAGCATAAAGCCTACTAGGCAGAAAGCCTAAATAACACCGA
Found at i:38939507 original size:27 final size:28
Alignment explanation
Indices: 38939466--38939521 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
38939456 GCGTAAGTTC
38939466 TTTTTTTACAGGGGTTTTTCGGTTCTTA
1 TTTTTTTACAGGGGTTTTTCGGTTCTTA
38939494 TTTTTTTACA-GGGTTTTTCGGTTCTTA
1 TTTTTTTACAGGGGTTTTTCGGTTCTTA
38939521 T
1 T
38939522 ATCTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.11, C:0.11, G:0.20, T:0.59
Consensus pattern (28 bp):
TTTTTTTACAGGGGTTTTTCGGTTCTTA
Found at i:38939528 original size:28 final size:28
Alignment explanation
Indices: 38939469--38939528 Score: 95
Period size: 27 Copynumber: 2.1 Consensus size: 28
38939459 TAAGTTCTTT
*
38939469 TTTTACAGGGGTTTTTCGGTTCTTATTT
1 TTTTACAGGGGTTTTTCGGTTCTTATTC
38939497 TTTTACA-GGGTTTTTCGGTTCTTATATC
1 TTTTACAGGGGTTTTTCGGTTCTTAT-TC
38939525 TTTT
1 TTTT
38939529 TTTTTTGACC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (28 bp):
TTTTACAGGGGTTTTTCGGTTCTTATTC
Found at i:38940462 original size:44 final size:44
Alignment explanation
Indices: 38940414--38940651 Score: 174
Period size: 44 Copynumber: 5.2 Consensus size: 44
38940404 CCTTTATTTT
* *
38940414 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGTTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * *
38940458 AATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * * * *** *
38940502 AATCTAATGCGATCTACTCTACTGTAA-CTTCAGAGAGATGACA-TCCTTTATTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGATTAC-TGGCTTC
* * *
38940556 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * *
38940600 AATTTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
*
38940644 AATTTGCT
1 AATCTGCT
38940652 TCCTTACACT
Statistics
Matches: 149, Mismatches: 31, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
44 109 0.73
45 4 0.03
46 1 0.01
47 3 0.02
49 2 0.01
51 2 0.01
52 1 0.01
53 4 0.03
54 23 0.15
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
Found at i:38940622 original size:142 final size:142
Alignment explanation
Indices: 38940377--38940646 Score: 468
Period size: 142 Copynumber: 1.9 Consensus size: 142
38940367 TGCGATCCTT
* ** *
38940377 TCTATTGTAACTTCAGAGAGATGTGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGA
1 TCTACTGTAACTTCAGAGAGATGACATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
* *
38940442 TAGGATTACTGGTTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
66 TAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
38940507 AATGCGATCTAC
131 AATGCGATCTAC
38940519 TCTACTGTAACTTCAGAGAGATGACATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
1 TCTACTGTAACTTCAGAGAGATGACATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
* *
38940584 TAGGATTACTAGCTTCAATTTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAAT
66 TAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAAT
38940647 TTGCTTCCTT
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 120 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (142 bp):
TCTACTGTAACTTCAGAGAGATGACATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
TAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
AATGCGATCTAC
Found at i:38941092 original size:16 final size:16
Alignment explanation
Indices: 38941071--38941104 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
38941061 GGGTAGAAAT
38941071 ATGTGGCTTTTCCTCA
1 ATGTGGCTTTTCCTCA
38941087 ATGTGGCTTTTCCTCA
1 ATGTGGCTTTTCCTCA
38941103 AT
1 AT
38941105 CCTCTCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (16 bp):
ATGTGGCTTTTCCTCA
Found at i:38945054 original size:39 final size:39
Alignment explanation
Indices: 38944850--38945072 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 39
38944840 TTGAATGCTG
* * * * * *
38944850 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * *
38944890 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
*
38944930 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* **
38944970 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
* *
38945010 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
38945049 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38945073 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
39 39 0.25
40 109 0.69
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:38945092 original size:79 final size:80
Alignment explanation
Indices: 38944925--38945107 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
38944915 GTGCGAGATA
* * *
38944925 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
38944990 CAGTCGTGCGAGTTG
66 CAGTCGAACGAGGAG
* * * *
38945005 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
38945069 CATTTGAACGAGGAG
66 CAGTCGAACGAGGAG
* *
38945084 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
38945108 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CAGTCGAACGAGGAG
Found at i:38952830 original size:40 final size:39
Alignment explanation
Indices: 38952708--38952925 Score: 148
Period size: 40 Copynumber: 5.6 Consensus size: 39
38952698 TGAATGCTGT
* * *
38952708 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTAATATT--ATC
1 CGGGTTAAGTCCCGAAGGCATTGTGC-GAGT--TATTAAATC
* * * * *
38952748 CGGATTAAGAT-CCGAA-GCCTTTTGCGAGATA-CAAATC
1 CGGGTTAAG-TCCCGAAGGCATTGTGCGAGTTATTAAATC
38952785 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATC
1 CGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTATTAAATC
*
38952825 CGGGTTAAGTCCCGAAGGCAGTG-GCGAGTTGAAGTTTTAAAT-
1 CGGGTTAAGTCCCGAAGGCATTGTGCGAGTT--A---TTAAATC
* * * *
38952867 CGGGTTATGT-CCGAA-GCATTGTGTGAGTTACTAAAAC
1 CGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATTAAATC
* *
38952904 CGGGCTATGTCCCGAAGGCATT
1 CGGGTTAAGTCCCGAAGGCATT
38952926 TGAACGAGGA
Statistics
Matches: 143, Mismatches: 19, Indels: 33
0.73 0.10 0.17
Matches are distributed among these distances:
36 7 0.05
37 25 0.17
38 18 0.13
39 22 0.15
40 44 0.31
41 12 0.08
42 9 0.06
43 6 0.04
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (39 bp):
CGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATTAAATC
Found at i:38960260 original size:19 final size:19
Alignment explanation
Indices: 38960236--38960281 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
38960226 AATAATTTTA
* *
38960236 AATGCATATG-ATGACATG
1 AATGCAGATGCATGAAATG
38960254 TAATGCAGATGCATGAAATG
1 -AATGCAGATGCATGAAATG
38960274 AATGCAGA
1 AATGCAGA
38960282 AAGGTGTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (19 bp):
AATGCAGATGCATGAAATG
Found at i:38962890 original size:37 final size:37
Alignment explanation
Indices: 38962847--38962925 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38962837 TTATCACGAA
* * *
38962847 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
38962884 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
38962921 GTCTT
1 GTCTT
38962926 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:38963105 original size:49 final size:48
Alignment explanation
Indices: 38963043--38963200 Score: 273
Period size: 49 Copynumber: 3.2 Consensus size: 48
38963033 GCCCTTCGGG
38963043 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA-AC
38963093 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA-AC
*
38963142 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAA-
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAAC
38963189 ACTTTCACATTC
1 ACTTTCACATTC
38963201 TCAAAGTAAG
Statistics
Matches: 106, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
47 12 0.11
48 1 0.01
49 89 0.84
50 4 0.04
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (48 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAAC
Found at i:38967103 original size:50 final size:50
Alignment explanation
Indices: 38967046--38967145 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
38967036 GTTTTTTTCA
*
38967046 AATCAATTTTTTGATTTTGCTATAATAAGACAAAAACAATCAATTTTACG
1 AATCAATTTTTTGATTTTGCGATAATAAGACAAAAACAATCAATTTTACG
38967096 AATCAATTTTTTGATTTTGCGATAATAAGACAAAAACAATCAATTTTACG
1 AATCAATTTTTTGATTTTGCGATAATAAGACAAAAACAATCAATTTTACG
38967146 GCTTCACTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (50 bp):
AATCAATTTTTTGATTTTGCGATAATAAGACAAAAACAATCAATTTTACG
Found at i:38969026 original size:36 final size:36
Alignment explanation
Indices: 38968977--38969048 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
38968967 GACGACACCG
38968977 TTTTAAATCTGGTGATTAAAACTAAAATAAAACTAA
1 TTTTAAATCTGGTGATTAAAACTAAAATAAAACTAA
*
38969013 TTTTAAATTTGGTGATTAAAACTAAAATAAAACTAA
1 TTTTAAATCTGGTGATTAAAACTAAAATAAAACTAA
38969049 AAAACCCTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (36 bp):
TTTTAAATCTGGTGATTAAAACTAAAATAAAACTAA
Found at i:38977094 original size:75 final size:76
Alignment explanation
Indices: 38976962--38977101 Score: 201
Period size: 75 Copynumber: 1.9 Consensus size: 76
38976952 AACTTTTAAT
* * *
38976962 ACACTGGCACAAAGCCTACTAGGCACAAAGTCTGAATAACATTAGCATAAAGCCTGCTAGGCACA
1 ACACTGGCACAAAGCCTACTAGGCACAAAGCCTGAATAACACTAGCACAAAGCCTGCTAGGCACA
38977027 GAGCTTGAATA
66 GAGCTTGAATA
* * * * *
38977038 ACACT-GCACAAAGTCTGCTAGGCACAGAGCCTGAATAACACTGGCACAAAGTCTGCTAGGCACA
1 ACACTGGCACAAAGCCTACTAGGCACAAAGCCTGAATAACACTAGCACAAAGCCTGCTAGGCACA
38977102 AAGCCTGCTA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
75 51 0.91
76 5 0.09
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (76 bp):
ACACTGGCACAAAGCCTACTAGGCACAAAGCCTGAATAACACTAGCACAAAGCCTGCTAGGCACA
GAGCTTGAATA
Found at i:38977101 original size:16 final size:16
Alignment explanation
Indices: 38977080--38977124 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
38977070 GAATAACACT
*
38977080 GGCACAAAGTCTGCTA
1 GGCACAAAGCCTGCTA
38977096 GGCACAAAGCCTGCTA
1 GGCACAAAGCCTGCTA
38977112 GGCACAAAGCCTG
1 GGCACAAAGCCTG
38977125 AATAACACCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.27, T:0.13
Consensus pattern (16 bp):
GGCACAAAGCCTGCTA
Found at i:38977107 original size:38 final size:38
Alignment explanation
Indices: 38976962--38977108 Score: 197
Period size: 38 Copynumber: 3.9 Consensus size: 38
38976952 AACTTTTAAT
* *
38976962 ACACTGGCACAAAGCCTACTAGGCACAAAGTCTGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTGAATA
* * * * *
38977000 ACATTAGCATAAAGCCTGCTAGGCACAGAGCTTGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTGAATA
* *
38977038 ACACT-GCACAAAGTCTGCTAGGCACAGAGCCTGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTGAATA
*
38977075 ACACTGGCACAAAGTCTGCTAGGCACAAAGCCTG
1 ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTG
38977109 CTAGGCACAA
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
37 34 0.35
38 62 0.65
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (38 bp):
ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTGAATA
Found at i:38979872 original size:25 final size:25
Alignment explanation
Indices: 38979844--38979911 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
38979834 CTCGTGTGAA
* * *
38979844 CATATCGATTTATAGCTCATGAGAG
1 CATACCGATTTACAGCTCAAGAGAG
* *
38979869 CATACCGATCTACAGCTCAAGTGAG
1 CATACCGATTTACAGCTCAAGAGAG
*
38979894 CATACCGATTCACAGCTC
1 CATACCGATTTACAGCTC
38979912 GTATGAGTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (25 bp):
CATACCGATTTACAGCTCAAGAGAG
Found at i:38979918 original size:25 final size:25
Alignment explanation
Indices: 38979830--38979923 Score: 68
Period size: 25 Copynumber: 3.8 Consensus size: 25
38979820 GTTCTAACCA
* * * *
38979830 ACAGCTCGTGTGAACATATCGATTT
1 ACAGCTCGTATGAGCATACCGATTC
* *
38979855 ATAGCTCATGA-GAGCATACCGA-TC
1 ACAGCTCGT-ATGAGCATACCGATTC
*
38979879 TACAGCTC-AAGTGAGCATACCGATTC
1 -ACAGCTCGTA-TGAGCATACCGATTC
*
38979905 ACAGCTCGTATGAGTATAC
1 ACAGCTCGTATGAGCATAC
38979924 ATGTATATGA
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 48 0.91
26 3 0.06
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (25 bp):
ACAGCTCGTATGAGCATACCGATTC
Found at i:38982279 original size:22 final size:22
Alignment explanation
Indices: 38982254--38982297 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
38982244 TCTGCATAAT
38982254 TAATAAATGTTTTATCAACAGC
1 TAATAAATGTTTTATCAACAGC
38982276 TAATAAATGTTTTATCAACAGC
1 TAATAAATGTTTTATCAACAGC
38982298 GAAGAGATAT
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:0.09, T:0.36
Consensus pattern (22 bp):
TAATAAATGTTTTATCAACAGC
Found at i:38986918 original size:23 final size:23
Alignment explanation
Indices: 38986892--38986972 Score: 60
Period size: 23 Copynumber: 3.5 Consensus size: 23
38986882 TAATAATTTT
*
38986892 TGGATTGAAGTATAAGTTTAAAA
1 TGGAATGAAGTATAAGTTTAAAA
* **
38986915 TGGAATGAAAATCATAA---TAATTTT
1 TGGAATG-AAGT-ATAAGTTTAA--AA
*
38986939 TGGATTGAAGTATAAGTTTAAAA
1 TGGAATGAAGTATAAGTTTAAAA
38986962 TGGAATGAAGT
1 TGGAATGAAGT
38986973 TAACATTCTT
Statistics
Matches: 42, Mismatches: 9, Indels: 14
0.65 0.14 0.22
Matches are distributed among these distances:
22 7 0.17
23 19 0.45
24 9 0.21
25 7 0.17
ACGTcount: A:0.43, C:0.01, G:0.21, T:0.35
Consensus pattern (23 bp):
TGGAATGAAGTATAAGTTTAAAA
Found at i:38986945 original size:47 final size:47
Alignment explanation
Indices: 38986876--38986970 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
38986866 AGTAATATAT
38986876 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
1 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
38986923 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
1 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
38986970 A
1 A
38986971 GTTAACATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (47 bp):
AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
Found at i:38987005 original size:24 final size:24
Alignment explanation
Indices: 38986973--38987020 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
38986963 GGAATGAAGT
38986973 TAACATTCTTATTTTCACATTATA
1 TAACATTCTTATTTTCACATTATA
38986997 TAACATTCTTATTTTCACATTATA
1 TAACATTCTTATTTTCACATTATA
38987021 AAACTGTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (24 bp):
TAACATTCTTATTTTCACATTATA
Found at i:38989267 original size:20 final size:21
Alignment explanation
Indices: 38989242--38989300 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
38989232 AAGAATATAA
38989242 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAATTTTTATAAATT
* *
38989262 ATTTTG-AATTTCTAAAAATT
1 ATTTTGAAATTTTTATAAATT
*
38989282 ATTTTGAATTATTTTATAA
1 ATTTTGAAAT-TTTTATAA
38989301 TTTTTGTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 10 0.32
20 13 0.42
21 2 0.06
22 6 0.19
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (21 bp):
ATTTTGAAATTTTTATAAATT
Found at i:38989986 original size:25 final size:26
Alignment explanation
Indices: 38989946--38989994 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
38989936 ATCAAGCAGA
38989946 CCAATAAAAATATATATA-ATTTAGG
1 CCAATAAAAATATATATATATTTAGG
38989971 CCAA-AAAAATACTATATATATTTA
1 CCAATAAAAATA-TATATATATTTA
38989995 TCTTTTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
25 10 0.45
26 5 0.23
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (26 bp):
CCAATAAAAATATATATATATTTAGG
Found at i:38994568 original size:21 final size:21
Alignment explanation
Indices: 38994535--38994576 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
38994525 CATCCCTAAT
38994535 TAAATATTCAAATAATGTTTTA
1 TAAATATTCAAATAAT-TTTTA
* *
38994557 TAAA-ATTGAAATTATTTTTA
1 TAAATATTCAAATAATTTTTA
38994577 ATTTAAAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
TAAATATTCAAATAATTTTTA
Found at i:38997252 original size:74 final size:74
Alignment explanation
Indices: 38997138--38997280 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 74
38997128 CGAAAATACA
* * * * *
38997138 CCAAATGCTCGTAAGAGCTCATCCACCCAATAAAATGCCAAATGC-TCTGAAGAGCTAGTCCAAC
1 CCAAAGGCTCATAAGAGCTAATCCACCCAATAAAACGCCAAATGCTTC-AAAGAGCTAGTCCAAC
38997202 CGAAATCACG
65 CGAAATCACG
* *
38997212 CCAAAGGCTCATAAGAGCTAATCCACCCAATAACACGCCAATTGCTTCAAAGAGCTAGTCCAACC
1 CCAAAGGCTCATAAGAGCTAATCCACCCAATAAAACGCCAAATGCTTCAAAGAGCTAGTCCAACC
38997277 GAAA
66 GAAA
38997281 ACACATTAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 59 0.97
75 2 0.03
ACGTcount: A:0.38, C:0.30, G:0.15, T:0.17
Consensus pattern (74 bp):
CCAAAGGCTCATAAGAGCTAATCCACCCAATAAAACGCCAAATGCTTCAAAGAGCTAGTCCAACC
GAAATCACG
Found at i:38997284 original size:37 final size:37
Alignment explanation
Indices: 38997122--38997284 Score: 120
Period size: 37 Copynumber: 4.4 Consensus size: 37
38997112 AACATAGTAT
* * * * *
38997122 TCCATCCGAAAATACACCAAATGCTCGTAAGAGCTCA-
1 TCCAACCGAAAACACGCCAAAGGCTCATAAGAGCT-AG
* * * *
38997159 TCC-ACCCAATAAAATGCCAAATGCTC-TGAAGAGCTAG
1 TCCAACCGAA-AACACGCCAAAGGCTCAT-AAGAGCTAG
* *
38997196 TCCAACCGAAATCACGCCAAAGGCTCATAAGAGCTAA
1 TCCAACCGAAAACACGCCAAAGGCTCATAAGAGCTAG
* **
38997233 TCC-ACCCAATAACACGCCAATTGCTTCA-AAGAGCTAG
1 TCCAACCGAA-AACACGCCAAAGGC-TCATAAGAGCTAG
38997270 TCCAACCGAAAACAC
1 TCCAACCGAAAACAC
38997285 ATTAAAACAA
Statistics
Matches: 101, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
36 11 0.11
37 76 0.75
38 14 0.14
ACGTcount: A:0.39, C:0.31, G:0.14, T:0.17
Consensus pattern (37 bp):
TCCAACCGAAAACACGCCAAAGGCTCATAAGAGCTAG
Found at i:38999099 original size:145 final size:144
Alignment explanation
Indices: 38998832--38999158 Score: 447
Period size: 145 Copynumber: 2.3 Consensus size: 144
38998822 GATATTGAAT
* * * * * * * *
38998832 GTGAGCCCAACTCTAGTTGGGTAAACCAACAATGTTTTCCCCCAGCGCTAGTCGGTTATATCGAT
1 GTGAGCCCAACTCTAGTTGGATAAACCAACGATATTTGCCCCCAACGCTAGTCAGTTATACCGAC
* * *
38998897 GATTGTGTGCCCAGCACTAGTTAGACAAACTGACAAAAGTTGCGCCTAGCGCTAGTCGAATATAT
66 GATTGTGTGCCCAGCACTAGTTAGACAAACTAACAAAAGTTGCGCCCAGCGCCAGTCGAATATAT
38998962 CAAAAAAAATCCATA
131 -AAAAAAAATCCATA
* * * *
38998977 GTGAGCCCAACTCTAGTTGGATAAACCAATGATATTTGCGCCCAACGCTAGTTAGTTATACCGGC
1 GTGAGCCCAACTCTAGTTGGATAAACCAACGATATTTGCCCCCAACGCTAGTCAGTTATACCGAC
* * *
38999042 GATTGTGTGCCTAGCACTAGTTAGACAATCTAACAAAAGTTGCGCCCAGTGCCAGTCGAATATAT
66 GATTGTGTGCCCAGCACTAGTTAGACAAACTAACAAAAGTTGCGCCCAGCGCCAGTCGAATATAT
** *
38999107 TGACAAAATCCATA
131 AAAAAAAATCCATA
*
38999121 GTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTG
1 GTGAGCCCAACTCTAGTTGGATAAACCAACGATATTTG
38999159 TTTAATTATT
Statistics
Matches: 159, Mismatches: 23, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
144 47 0.30
145 112 0.70
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (144 bp):
GTGAGCCCAACTCTAGTTGGATAAACCAACGATATTTGCCCCCAACGCTAGTCAGTTATACCGAC
GATTGTGTGCCCAGCACTAGTTAGACAAACTAACAAAAGTTGCGCCCAGCGCCAGTCGAATATAT
AAAAAAAATCCATA
Found at i:39000204 original size:14 final size:15
Alignment explanation
Indices: 39000185--39000223 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
39000175 ATTTCCTTTA
39000185 CATATTATAATTA-T
1 CATATTATAATTATT
39000199 CATATTATAATTATT
1 CATATTATAATTATT
*
39000214 AATATTATAA
1 CATATTATAA
39000224 CATATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (15 bp):
CATATTATAATTATT
Found at i:39000639 original size:13 final size:14
Alignment explanation
Indices: 39000621--39000650 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
39000611 TGACACATTC
39000621 GTTAGTTAA-TTTA
1 GTTAGTTAATTTTA
39000634 GTTAGTTAATTTTA
1 GTTAGTTAATTTTA
39000648 GTT
1 GTT
39000651 TTAATCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (14 bp):
GTTAGTTAATTTTA
Found at i:39011608 original size:56 final size:56
Alignment explanation
Indices: 39011542--39011659 Score: 139
Period size: 56 Copynumber: 2.1 Consensus size: 56
39011532 TCCATGCCCT
* * * ** * *
39011542 TGTGAATATACTGACTTGGGACACAC-GACCAAGCCACATGCTCGTGTGCTAGGCCG
1 TGTGAGTATACTGACCTAGGACACACAG-CCAAAACACATGCCCGTGTGCTAGGCCA
* *
39011598 TGTGAGTATACTGACCTAGGTCACACAGCCAAAACACATGCCCGTGTGCTAGGTCA
1 TGTGAGTATACTGACCTAGGACACACAGCCAAAACACATGCCCGTGTGCTAGGCCA
39011654 TGTGAG
1 TGTGAG
39011660 AAATTTGAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
56 51 0.98
57 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.22
Consensus pattern (56 bp):
TGTGAGTATACTGACCTAGGACACACAGCCAAAACACATGCCCGTGTGCTAGGCCA
Found at i:39012589 original size:50 final size:50
Alignment explanation
Indices: 39012528--39012632 Score: 122
Period size: 50 Copynumber: 2.1 Consensus size: 50
39012518 AAGCTCCTCC
* ** *
39012528 GAGCTGAATAACGGGAAGCTCATGTGAGCTG-AATATCGAAAAGCACATTA
1 GAGCTGAATAACGGCAAGCTCATAAGAGCTGTAA-ATCGAAAAGCACATAA
* * * *
39012578 GAGCTGTATAACGGCAATCTCATAAGAGCTGTAAATCGGAAAGCTCATAA
1 GAGCTGAATAACGGCAAGCTCATAAGAGCTGTAAATCGAAAAGCACATAA
39012628 GAGCT
1 GAGCT
39012633 ATGTTCTGCC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 44 0.96
51 2 0.04
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (50 bp):
GAGCTGAATAACGGCAAGCTCATAAGAGCTGTAAATCGAAAAGCACATAA
Found at i:39012605 original size:25 final size:25
Alignment explanation
Indices: 39012543--39012632 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
39012533 GAATAACGGG
** *
39012543 AAGCTCATGTGAGCTG-AATATCGAA
1 AAGCTCATAAGAGCTGTAA-ATCGGA
* * *
39012568 AAGCACATTAGAGCTGTATAA-CGGC
1 AAGCTCATAAGAGCTGTA-AATCGGA
*
39012593 AATCTCATAAGAGCTGTAAATCGGA
1 AAGCTCATAAGAGCTGTAAATCGGA
39012618 AAGCTCATAAGAGCT
1 AAGCTCATAAGAGCT
39012633 ATGTTCTGCC
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
24 2 0.04
25 47 0.90
26 2 0.04
27 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (25 bp):
AAGCTCATAAGAGCTGTAAATCGGA
Found at i:39012825 original size:22 final size:22
Alignment explanation
Indices: 39012774--39012826 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
39012764 TCATGGAAAT
39012774 TGTAC-ATTTAACAAATAATAA
1 TGTACAATTTAACAAATAATAA
*
39012795 T-T-CAATTTAACACAT-ATGAA
1 TGTACAATTTAACAAATAAT-AA
39012815 TGTACAATTTAA
1 TGTACAATTTAA
39012827 TTACACGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 3 0.11
20 14 0.52
21 2 0.07
22 8 0.30
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (22 bp):
TGTACAATTTAACAAATAATAA
Found at i:39015684 original size:21 final size:21
Alignment explanation
Indices: 39015658--39015705 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
39015648 CAACTCTAAG
39015658 TCATGTGTTAGATAGTTCTTT
1 TCATGTGTTAGATAGTTCTTT
*
39015679 TCATGTGTTGGATAGTTCTTT
1 TCATGTGTTAGATAGTTCTTT
39015700 TCATGT
1 TCATGT
39015706 TGCTGTAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.10, G:0.21, T:0.52
Consensus pattern (21 bp):
TCATGTGTTAGATAGTTCTTT
Found at i:39021359 original size:29 final size:27
Alignment explanation
Indices: 39021264--39021363 Score: 105
Period size: 27 Copynumber: 3.6 Consensus size: 27
39021254 GTATAATAAG
*
39021264 CCCGCACACTTAGTGCT-TAATAGTCGAA
1 CCCGCACACTTAGTGCTATAA-A-TTGAA
* *
39021292 CTCGCACACTTAGTGCTATATAA-TCAA
1 CCCGCACACTTAGTGCTATA-AATTGAA
*
39021319 CCTGCACACTTAGTGCTATACAATTTGAA
1 CCCGCACACTTAGTGCTATA-AA-TTGAA
39021348 CCCGCACACTTAGTGC
1 CCCGCACACTTAGTGC
39021364 CAATCTCATG
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.37
28 16 0.27
29 21 0.35
30 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CCCGCACACTTAGTGCTATAAATTGAA
Found at i:39029311 original size:28 final size:29
Alignment explanation
Indices: 39029279--39029377 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 29
39029269 ATAATAAGCC
*
39029279 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
39029307 CGCACACTTAGTGC-TATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
39029335 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
39029364 CGCACACTTAGTGC
1 CGCACACTTAGTGC
39029378 CAATCTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.07
28 35 0.57
29 17 0.28
30 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:39032507 original size:23 final size:23
Alignment explanation
Indices: 39032440--39032521 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
39032430 CTTGATCAGT
*
39032440 ATACGACACAT-AAGTAACTAAA
1 ATACGACACATAAAGTACCTAAA
* *
39032462 AT--GACACACGAAA-TACCTGAA
1 ATACGACACA-TAAAGTACCTAAA
*
39032483 ATACGACACATAAAGTGCCTAAA
1 ATACGACACATAAAGTACCTAAA
*
39032506 ATACGGCACATAAAGT
1 ATACGACACATAAAGT
39032522 GCCTGATCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
20 6 0.12
21 8 0.17
22 7 0.15
23 27 0.56
ACGTcount: A:0.49, C:0.21, G:0.13, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTACCTAAA
Found at i:39038361 original size:26 final size:26
Alignment explanation
Indices: 39038288--39038365 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
39038278 TCATCCAATA
* *
39038288 ACATACCAT-TTGTGGACAAGCCACC
1 ACATAACATATTGTGGACAAACCACC
* * *
39038313 ACAT-A-A-ATT-TCGATAAACGACC
1 ACATAACATATTGTGGACAAACCACC
39038335 ACATAACATATTGTGGACAAACCACC
1 ACATAACATATTGTGGACAAACCACC
39038361 ACATA
1 ACATA
39038366 TTTGCTGATA
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
22 13 0.32
23 4 0.10
24 1 0.03
25 7 0.17
26 15 0.38
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.21
Consensus pattern (26 bp):
ACATAACATATTGTGGACAAACCACC
Found at i:39038382 original size:47 final size:46
Alignment explanation
Indices: 39038288--39038387 Score: 132
Period size: 47 Copynumber: 2.1 Consensus size: 46
39038278 TCATCCAATA
* *
39038288 ACATACCATTTGTGGACAAGCCACCACATAAATTTCGATAAACGACC
1 ACATAACATTTGTGGACAAACCACCACAT-AATTTCGATAAACGACC
39038335 ACATAACATATTGTGGACAAACCACCACAT-ATTTGCTGAT-AACGACC
1 ACATAACAT-TTGTGGACAAACCACCACATAATTT-C-GATAAACGACC
39038382 ACATAA
1 ACATAA
39038388 TCGCAGATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
46 4 0.08
47 22 0.46
48 22 0.46
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (46 bp):
ACATAACATTTGTGGACAAACCACCACATAATTTCGATAAACGACC
Found at i:39038396 original size:21 final size:21
Alignment explanation
Indices: 39038358--39038397 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
39038348 TGGACAAACC
* * *
39038358 ACCACATATTTGCTGATAACG
1 ACCACATAATCGCAGATAACG
39038379 ACCACATAATCGCAGATAA
1 ACCACATAATCGCAGATAA
39038398 GTTGCCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (21 bp):
ACCACATAATCGCAGATAACG
Found at i:39067459 original size:62 final size:59
Alignment explanation
Indices: 39067370--39067486 Score: 135
Period size: 62 Copynumber: 1.9 Consensus size: 59
39067360 ATTAATTATG
** * * *
39067370 TTAATATTAAATATAATTTAATTTTTATCCTGTAGATAAAAATTCTATTATTTTAATAAGAT
1 TTAATATTAAATATAATCGAATATTTAT-CT-T-GATAAAAATTATATTAATTTAATAAGAT
* * *
39067432 TTAATATTAGATTTAATCGAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATATAATCGAATATTTATCTTGATAAAAATTATATTAATTTAATA
39067487 GTAAAGTGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
59 21 0.45
60 1 0.02
61 2 0.04
62 23 0.49
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATATAATCGAATATTTATCTTGATAAAAATTATATTAATTTAATAAGAT
Found at i:39070222 original size:20 final size:20
Alignment explanation
Indices: 39070194--39070232 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39070184 TACTTTCTTC
*
39070194 TTTACTTACTCTCTTACTTT
1 TTTAATTACTCTCTTACTTT
*
39070214 TTTAATTACTTTCTTACTT
1 TTTAATTACTCTCTTACTT
39070233 AAATAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATTACTCTCTTACTTT
Found at i:39070567 original size:50 final size:50
Alignment explanation
Indices: 39070446--39070684 Score: 189
Period size: 50 Copynumber: 4.7 Consensus size: 50
39070436 ATTCCAAAGT
* * * * * *
39070446 CATGTCTCAGACATGGTCTTACATGGGATG-TTTCCT-GTACTGCCAATGT
1 CATGTCCCAGACATGGTCTTACATGGGA-GCTCTCATATTAGTGCCAATGC
* * * * *
39070495 CATATCCCAAATATGGTCTTACATGGGAGTTCTCATATTAGTGCCCATGC
1 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATTAGTGCCAATGC
* * * ** * *
39070545 CATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTACCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATTAGTGCCAATGC
* * * *
39070595 CATGTCCCAGACATGGTCTTACGTGAGACCTCTCATAACCTCAATAATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCAT-A--T---TAGTGCCAATGC
39070651 CATGTCCCAGACATGGTCTTACATGGG-G-TCTCAT
1 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCAT
39070685 CCCCCTAATG
Statistics
Matches: 148, Mismatches: 34, Indels: 11
0.77 0.18 0.06
Matches are distributed among these distances:
48 1 0.01
49 28 0.19
50 80 0.54
53 1 0.01
54 6 0.04
56 32 0.22
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATTAGTGCCAATGC
Found at i:39073895 original size:38 final size:38
Alignment explanation
Indices: 39073734--39073975 Score: 201
Period size: 38 Copynumber: 6.4 Consensus size: 38
39073724 TGAAATACCA
39073734 AATATACTGAATGTTGCTCAATCGAGCAAAATCTA-TT
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTT
* * * * *
39073771 GAACACACTG--TGTAATGCTCACTGGAGCAAAACCTACTT
1 -AATATACTGAATGT--TGCTCAATCGAGCAAAATCTACTT
** * *
39073810 AATATACCAAATGTTTCTC-ATCAAG-AAAATCTACTT
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTT
39073846 AATATACTGAATGTTGCTCAATCGAGCAAAATCTA-TT
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTT
* * * * **
39073883 AAATAAATTGAATGTTGCTCAATTGAG-AATAACCTACCA
1 -AATATACTGAATGTTGCTCAATCGAGCAA-AATCTACTT
* * * * *
39073922 AATATACCGAATATTGCTCAATCAAGTAAAATCTACTAA
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACT-T
39073961 AATATACTGAATGTT
1 AATATACTGAATGTT
39073976 CTTCAACCGG
Statistics
Matches: 158, Mismatches: 34, Indels: 23
0.73 0.16 0.11
Matches are distributed among these distances:
36 29 0.18
37 12 0.08
38 96 0.61
39 18 0.11
40 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (38 bp):
AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTT
Found at i:39077742 original size:29 final size:29
Alignment explanation
Indices: 39077708--39077766 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
39077698 CCAAATATAT
* * *
39077708 TGAATGTTGCTCAATGGAGTAAAATCTAC
1 TGAATGTCGCTCAATCGAGCAAAATCTAC
39077737 TGAATGTCGCTCAATCGAGCAAAATCTAC
1 TGAATGTCGCTCAATCGAGCAAAATCTAC
39077766 T
1 T
39077767 AAACACGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (29 bp):
TGAATGTCGCTCAATCGAGCAAAATCTAC
Found at i:39077847 original size:38 final size:38
Alignment explanation
Indices: 39077738--39077989 Score: 183
Period size: 38 Copynumber: 6.6 Consensus size: 38
39077728 AAAATCTACT
* * * **
39077738 GAATGTCGCTCAATCGAGCAAAATCTACTA-AACACGC
1 GAATGTTGCTCAATCGAGCAAAACCTACTAGAATATAC
*
39077775 TAAATGTTGCTCAATCGAGCAAAACCTA-TAGAATATATC
1 -GAATGTTGCTCAATCGAGCAAAACCTACTAGAATATA-C
*
39077814 GAATGTTGCTCAATCGAGCAAAATCTACT-GAATATAC
1 GAATGTTGCTCAATCGAGCAAAACCTACTAGAATATAC
**** * * * *
39077851 TGAATGCCATTGAATCGATCAAAATCTACT-G-ATCACAC
1 -GAATGTTGCTCAATCGAGCAAAACCTACTAGAAT-ATAC
* *
39077889 TGAATGTTGCTCAATCGAGCGAAACCTA-TCGAATATACC
1 -GAATGTTGCTCAATCGAGCAAAACCTACTAGAATATA-C
* * * *
39077928 GAATGTTTCTCAATCGAGTAAAACCTACTAAAATATATT
1 GAATGTTGCTCAATCGAGCAAAACCTACTAGAATATA-C
* * *
39077967 AAATGTTGTTCAATCAAGCAAAA
1 GAATGTTGCTCAATCGAGCAAAA
39077990 ATATATTGAC
Statistics
Matches: 169, Mismatches: 36, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
37 6 0.04
38 133 0.79
39 30 0.18
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (38 bp):
GAATGTTGCTCAATCGAGCAAAACCTACTAGAATATAC
Found at i:39077934 original size:114 final size:114
Alignment explanation
Indices: 39077749--39077956 Score: 317
Period size: 114 Copynumber: 1.8 Consensus size: 114
39077739 AATGTCGCTC
* *
39077749 AATCGAGCAAAATCTACTAAACACGCTAAATGTTGCTCAATCGAGCAAAACCTATAGAATATATC
1 AATCGAGCAAAATCTACTAAACACACTAAATGTTGCTCAATCGAGCAAAACCTATAGAATATACC
*
39077814 GAATGTTGCTCAATCGAGCAAAATCTACTGAATATACTGAATGCCATTG
66 GAATGTTGCTCAATCGAGCAAAACCTACTGAATATACTGAATGCCATTG
* * * * * *
39077863 AATCGATCAAAATCTACTGATCACACTGAATGTTGCTCAATCGAGCGAAACCTATCGAATATACC
1 AATCGAGCAAAATCTACTAAACACACTAAATGTTGCTCAATCGAGCAAAACCTATAGAATATACC
* *
39077928 GAATGTTTCTCAATCGAGTAAAACCTACT
66 GAATGTTGCTCAATCGAGCAAAACCTACT
39077957 AAAATATATT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 83 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (114 bp):
AATCGAGCAAAATCTACTAAACACACTAAATGTTGCTCAATCGAGCAAAACCTATAGAATATACC
GAATGTTGCTCAATCGAGCAAAACCTACTGAATATACTGAATGCCATTG
Found at i:39078651 original size:21 final size:21
Alignment explanation
Indices: 39078627--39078695 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
39078617 GAAGATGGTT
39078627 TTTGTCTTATAAAATTGTGTA
1 TTTGTCTTATAAAATTGTGTA
* * * *
39078648 TTTGGGTGTTTTTGAAGA-TG-GTT
1 TTT--GT-CTTAT-AAAATTGTGTA
39078671 TTTGTCTTATAAAATTGTGTA
1 TTTGTCTTATAAAATTGTGTA
39078692 TTTG
1 TTTG
39078696 GGTGTTTTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 11 0.32
23 7 0.21
24 5 0.15
25 3 0.09
ACGTcount: A:0.22, C:0.03, G:0.22, T:0.54
Consensus pattern (21 bp):
TTTGTCTTATAAAATTGTGTA
Found at i:39078677 original size:44 final size:44
Alignment explanation
Indices: 39078604--39078704 Score: 184
Period size: 44 Copynumber: 2.3 Consensus size: 44
39078594 CTTTGACATG
* *
39078604 TTTGAGTGTATTTGAAGATGGTTTTTGTCTTATAAAATTGTGTA
1 TTTGGGTGTTTTTGAAGATGGTTTTTGTCTTATAAAATTGTGTA
39078648 TTTGGGTGTTTTTGAAGATGGTTTTTGTCTTATAAAATTGTGTA
1 TTTGGGTGTTTTTGAAGATGGTTTTTGTCTTATAAAATTGTGTA
39078692 TTTGGGTGTTTTT
1 TTTGGGTGTTTTT
39078705 AGGTACCTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.20, C:0.02, G:0.25, T:0.53
Consensus pattern (44 bp):
TTTGGGTGTTTTTGAAGATGGTTTTTGTCTTATAAAATTGTGTA
Found at i:39089851 original size:16 final size:17
Alignment explanation
Indices: 39089812--39089851 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
39089802 ATTTTTATAG
39089812 AGGAAAAATAAAATAAA
1 AGGAAAAATAAAATAAA
**
39089829 AATAAAAAT-AAATAAA
1 AGGAAAAATAAAATAAA
39089845 AGGAAAA
1 AGGAAAA
39089852 TTGCCCCGTC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (17 bp):
AGGAAAAATAAAATAAA
Found at i:39093685 original size:2 final size:2
Alignment explanation
Indices: 39093672--39093705 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
39093662 AATATTCTTT
* *
39093672 TA TA TT TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39093706 CCTATGTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:39093936 original size:15 final size:15
Alignment explanation
Indices: 39093916--39093946 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
39093906 ATATATTTTT
39093916 TATTTTTTTTCTTTA
1 TATTTTTTTTCTTTA
*
39093931 TATTTTTTTTGTTTA
1 TATTTTTTTTCTTTA
39093946 T
1 T
39093947 TTCCTTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.81
Consensus pattern (15 bp):
TATTTTTTTTCTTTA
Found at i:39095883 original size:19 final size:19
Alignment explanation
Indices: 39095843--39095885 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
39095833 GTCTCTTTAT
*
39095843 GCATTCATCTCATGCATTC
1 GCATTCATCTCATGCATAC
*
39095862 GCATTACATGTCAT-CATAC
1 GCATT-CATCTCATGCATAC
39095881 GCATT
1 GCATT
39095886 TAAATCCACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (19 bp):
GCATTCATCTCATGCATAC
Found at i:39099577 original size:25 final size:25
Alignment explanation
Indices: 39099543--39099591 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
39099533 AATATTCTTC
* *
39099543 CTTATTCTGTATCGATCACAACTCT
1 CTTACTCTGTATCAATCACAACTCT
39099568 CTTACTCTGTATCAATCACAACTC
1 CTTACTCTGTATCAATCACAACTC
39099592 AATATCTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.31, G:0.06, T:0.37
Consensus pattern (25 bp):
CTTACTCTGTATCAATCACAACTCT
Found at i:39104277 original size:15 final size:15
Alignment explanation
Indices: 39104257--39104287 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
39104247 TGAAAAATAA
39104257 TCAAAAGCAACTAAG
1 TCAAAAGCAACTAAG
39104272 TCAAAAGCAACTAAG
1 TCAAAAGCAACTAAG
39104287 T
1 T
39104288 AAGCTCAAAC
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:0.52, C:0.19, G:0.13, T:0.16
Consensus pattern (15 bp):
TCAAAAGCAACTAAG
Found at i:39108007 original size:21 final size:20
Alignment explanation
Indices: 39107979--39108019 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
39107969 CAATTTTCAC
**
39107979 GAAAATTTATTAAAACTTTA
1 GAAAATTTAGCAAAACTTTA
39107999 GAAATATTTAGCAAAACTTTA
1 GAAA-ATTTAGCAAAACTTTA
39108020 AAGTAAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (20 bp):
GAAAATTTAGCAAAACTTTA
Found at i:39109398 original size:11 final size:11
Alignment explanation
Indices: 39109382--39109407 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
39109372 ACTTCTTTCC
39109382 CCTTATAAAGA
1 CCTTATAAAGA
39109393 CCTTATAAAGA
1 CCTTATAAAGA
39109404 CCTT
1 CCTT
39109408 GTTGATCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (11 bp):
CCTTATAAAGA
Found at i:39113659 original size:24 final size:23
Alignment explanation
Indices: 39113609--39113661 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
39113599 TTATTATAAT
* *
39113609 TTTTATTTTTTTTAAAATATGAT
1 TTTTAATTTTTTTAAAATATGAA
* *
39113632 TTTTAATTTTTTTAAATTTATTAA
1 TTTTAATTTTTTTAAA-ATATGAA
39113656 TTTTAA
1 TTTTAA
39113662 AATTTTATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTTAATTTTTTTAAAATATGAA
Found at i:39115730 original size:22 final size:24
Alignment explanation
Indices: 39115690--39115733 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
39115680 GTAAAGTATT
39115690 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
39115714 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
39115734 AATATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:39117963 original size:28 final size:28
Alignment explanation
Indices: 39117921--39118035 Score: 164
Period size: 27 Copynumber: 4.2 Consensus size: 28
39117911 CTATTCAGTA
* *
39117921 ACAGT-ACAGTGTGGGCCTTAGCTCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
39117948 ACAGTAACAATGTGGG-CGTAGCCTAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
39117975 ACAGTAACAATGT-GGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
39118002 ATAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
39118030 ACAGTA
1 ACAGTA
39118036 TCGGTACAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
26 2 0.03
27 47 0.61
28 28 0.36
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:39118421 original size:27 final size:27
Alignment explanation
Indices: 39118391--39118545 Score: 193
Period size: 27 Copynumber: 5.7 Consensus size: 27
39118381 ATCTCGTAGA
*
39118391 GGTATTTCGGTCATTTTACCCTATTGG
1 GGTATTTCGGTCATTTTACCCTATGGG
*
39118418 GGTATTTCGATCATTTTACCCTATGGG
1 GGTATTTCGGTCATTTTACCCTATGGG
* *
39118445 GGTATTTCGGCCATTCTACCCTATGGG
1 GGTATTTCGGTCATTTTACCCTATGGG
* * * *
39118472 GGTATTTCGATCATTCTATCTTATGGG
1 GGTATTTCGGTCATTTTACCCTATGGG
* **
39118499 GGTATTTCGGTCATTTTATCCTATAAG
1 GGTATTTCGGTCATTTTACCCTATGGG
* *
39118526 GGTATTTTGGCCATTTTACC
1 GGTATTTCGGTCATTTTACC
39118546 TATTTTAGGG
Statistics
Matches: 111, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (27 bp):
GGTATTTCGGTCATTTTACCCTATGGG
Found at i:39118961 original size:27 final size:28
Alignment explanation
Indices: 39118923--39118986 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
39118913 GATTTACCCT
39118923 AATACAGTAACAATGT-GGCCTTAGCCC
1 AATACAGTAACAATGTGGGCCTTAGCCC
*
39118950 AATATAGTAACAATGTGGGCCTTAGCCC
1 AATACAGTAACAATGTGGGCCTTAGCCC
39118978 AATACAGTA
1 AATACAGTA
39118987 TCGGTACAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (28 bp):
AATACAGTAACAATGTGGGCCTTAGCCC
Found at i:39119370 original size:27 final size:27
Alignment explanation
Indices: 39119340--39119496 Score: 224
Period size: 27 Copynumber: 5.8 Consensus size: 27
39119330 TCATCTCGTA
*
39119340 GGGGTATTTCGGTCATTTTACCCTATT
1 GGGGTATTTCGGTCATTTTACCCTATG
*
39119367 GGGGTATTTCGATCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
39119394 GGGGTATTTCGGTCATTCTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* * *
39119421 GGGGTATTTCGATCATTCTACCTTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
39119448 GGGGTATTTCGGTCATTTTATCCTATA
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
39119475 AGGGTATTTTGGTCATTTTACC
1 GGGGTATTTCGGTCATTTTACC
39119497 TATTTTAGGG
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTTACCCTATG
Found at i:39119808 original size:951 final size:951
Alignment explanation
Indices: 39117969--39119871 Score: 3698
Period size: 951 Copynumber: 2.0 Consensus size: 951
39117959 GTGGGCGTAG
39117969 CCTAATACAGTAACAATGTGGCCTTAGCCCAATATAGTAACAATGTGGGCCTTAGCCCAATACAG
1 CCTAATACAGTAACAATGTGGCCTTAGCCCAATATAGTAACAATGTGGGCCTTAGCCCAATACAG
*
39118034 TATCGGTACAGTGCAATAATGCAATCCATCCCAATCCAGCCAACACACCACTCCGTACCACCAAC
66 TATCGGTACAGTGCAATAATGCAATCCATCCCAATCCAGCCAACACACCACTCCATACCACCAAC
39118099 CCACCATGTGGGGATAAAATTGACCCACCCAGCCAACACACCAATATCACAGCAAACCAGCCAGT
131 CCACCATGTGGGGATAAAATTGACCCACCCAGCCAACACACCAATATCACAGCAAACCAGCCAGT
*
39118164 AAAATAAACGGCATATACCCATCAGTAGGTCCACAGTCGTCTTGGGCGACCCGTGCAAACTTATC
196 AAAATAAACAGCATATACCCATCAGTAGGTCCACAGTCGTCTTGGGCGACCCGTGCAAACTTATC
39118229 AGTACGATACACTTCCTCCAAATATAACAACCCATACCCATGTAATATGTCGTGACATAATATCG
261 AGTACGATACACTTCCTCCAAATATAACAACCCATACCCATGTAATATGTCGTGACATAATATCG
39118294 TACGTGTATGCAAAATGTCATGCTCAATCACAGTCATACATATTATAGAGCAAATCAGTCATAAC
326 TACGTGTATGCAAAATGTCATGCTCAATCACAGTCATACATATTATAGAGCAAATCAGTCATAAC
39118359 ATAAGGCCATAACAGTCATTTCATCTCGTAGAGGTATTTCGGTCATTTTACCCTATTGGGGTATT
391 ATAAGGCCATAACAGTCATTTCATCTCGTAGAGGTATTTCGGTCATTTTACCCTATTGGGGTATT
39118424 TCGATCATTTTACCCTATGGGGGTATTTCGGCCATTCTACCCTATGGGGGTATTTCGATCATTCT
456 TCGATCATTTTACCCTATGGGGGTATTTCGGCCATTCTACCCTATGGGGGTATTTCGATCATTCT
*
39118489 ATCTTATGGGGGTATTTCGGTCATTTTATCCTATAAGGGTATTTTGGCCATTTTACCTATTTTAG
521 ACCTTATGGGGGTATTTCGGTCATTTTATCCTATAAGGGTATTTTGGCCATTTTACCTATTTTAG
*
39118554 GGTCTCGGTGTAGATATCGACCTCTCGAAATGTCCGCAGTCGCCTCAAGCGATCAGGTAACCTAA
586 GGTCTCGGTGTAGATATCGACCTCTCGAAATGTCCGCAGTCACCTCAAGCGATCAGGTAACCTAA
*
39118619 ATGGTCATAGATGCGGCTATCTATATCCATATGAGACTTAAAAACCTAATTCATCATATTTATAG
651 ATGGTCATAGATGCGACTATCTATATCCATATGAGACTTAAAAACCTAATTCATCATATTTATAG
*
39118684 ATTATCAGGAACATTGACTACTCCAGGCAACATTATCAGAATCCATATGACCACATCAAGCTTGA
716 ATTATCAAGAACATTGACTACTCCAGGCAACATTATCAGAATCCATATGACCACATCAAGCTTGA
39118749 AAGCAGTTTCAATATACTACAATCTTTAACTTGCAACTAATAATAACTTGATCTGTATTTATCTT
781 AAGCAGTTTCAATATACTACAATCTTTAACTTGCAACTAATAATAACTTGATCTGTATTTATCTT
39118814 TTAATAACACTATTATATATAATTCACCAAAAATATTTTACAATTGCCCAAATCATTTTCTGTAT
846 TTAATAACACTATTATATATAATTCACCAAAAATATTTTACAATTGCCCAAATCATTTTCTGTAT
39118879 AAAGATAACTAAAATAACTCTGCTTGTACTATCTGATTTAC
911 AAAGATAACTAAAATAACTCTGCTTGTACTATCTGATTTAC
39118920 CCTAATACAGTAACAATGTGGCCTTAGCCCAATATAGTAACAATGTGGGCCTTAGCCCAATACAG
1 CCTAATACAGTAACAATGTGGCCTTAGCCCAATATAGTAACAATGTGGGCCTTAGCCCAATACAG
39118985 TATCGGTACAGTGCAATAATGCAATCCATCCCAATCCAGCCAACACACCACTCCATACCACCAAC
66 TATCGGTACAGTGCAATAATGCAATCCATCCCAATCCAGCCAACACACCACTCCATACCACCAAC
39119050 CCACCATGTGGGGATAAAATTGACCCACCCAGCCAACACACCAATATCACAGCAAACCAGCCAGT
131 CCACCATGTGGGGATAAAATTGACCCACCCAGCCAACACACCAATATCACAGCAAACCAGCCAGT
39119115 AAAATAAACAGCATATACCCATCAGTAGGTCCACAGTCGTCTTGGGCGACCCGTGCAAACTTATC
196 AAAATAAACAGCATATACCCATCAGTAGGTCCACAGTCGTCTTGGGCGACCCGTGCAAACTTATC
*
39119180 AGTACGATACACTTCCTCCAAATATAACAACTCATACCCATGTAATATGTCGTGACATAATATCG
261 AGTACGATACACTTCCTCCAAATATAACAACCCATACCCATGTAATATGTCGTGACATAATATCG
*
39119245 TATGTGTATGCAAAATGTCATGCTCAATCACAGTCATACATATTATAGAGCAAATCAGTCATAAC
326 TACGTGTATGCAAAATGTCATGCTCAATCACAGTCATACATATTATAGAGCAAATCAGTCATAAC
*
39119310 ATAAGGCCATAACAGTCATTTCATCTCGTAGGGGTATTTCGGTCATTTTACCCTATTGGGGTATT
391 ATAAGGCCATAACAGTCATTTCATCTCGTAGAGGTATTTCGGTCATTTTACCCTATTGGGGTATT
*
39119375 TCGATCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTCT
456 TCGATCATTTTACCCTATGGGGGTATTTCGGCCATTCTACCCTATGGGGGTATTTCGATCATTCT
*
39119440 ACCTTATGGGGGTATTTCGGTCATTTTATCCTATAAGGGTATTTTGGTCATTTTACCTATTTTAG
521 ACCTTATGGGGGTATTTCGGTCATTTTATCCTATAAGGGTATTTTGGCCATTTTACCTATTTTAG
39119505 GGTCTCGGTGTAGATATCGACCTCTCGAAATGTCCGCAGTCACCTCAAGCGATCAGGTAACCTAA
586 GGTCTCGGTGTAGATATCGACCTCTCGAAATGTCCGCAGTCACCTCAAGCGATCAGGTAACCTAA
*
39119570 ATGGTCATAGATGCGACTATCTATATCCATATGAGACTTAAAAACCTATTTCATCATATTTATAG
651 ATGGTCATAGATGCGACTATCTATATCCATATGAGACTTAAAAACCTAATTCATCATATTTATAG
39119635 ATTATCAAGAACATTGACTACTCCAGGCAACATTATCAGAATCCATATGACCACATCAAGCTTGA
716 ATTATCAAGAACATTGACTACTCCAGGCAACATTATCAGAATCCATATGACCACATCAAGCTTGA
39119700 AAGCAGTTTCAATATACTACAATCTTTAACTTGCAACTAATAATAACTTGATCTGTATTTATCTT
781 AAGCAGTTTCAATATACTACAATCTTTAACTTGCAACTAATAATAACTTGATCTGTATTTATCTT
39119765 TTAATAACACTATTATATATAATTCACCAAAAATATTTTACAATTGCCCAAATCATTTTCTGTAT
846 TTAATAACACTATTATATATAATTCACCAAAAATATTTTACAATTGCCCAAATCATTTTCTGTAT
39119830 AAAGATAACTAAAATAACTCTGCTTGTACTATCTGATTTAC
911 AAAGATAACTAAAATAACTCTGCTTGTACTATCTGATTTAC
39119871 C
1 C
39119872 AGACTCACTA
Statistics
Matches: 940, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
951 940 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (951 bp):
CCTAATACAGTAACAATGTGGCCTTAGCCCAATATAGTAACAATGTGGGCCTTAGCCCAATACAG
TATCGGTACAGTGCAATAATGCAATCCATCCCAATCCAGCCAACACACCACTCCATACCACCAAC
CCACCATGTGGGGATAAAATTGACCCACCCAGCCAACACACCAATATCACAGCAAACCAGCCAGT
AAAATAAACAGCATATACCCATCAGTAGGTCCACAGTCGTCTTGGGCGACCCGTGCAAACTTATC
AGTACGATACACTTCCTCCAAATATAACAACCCATACCCATGTAATATGTCGTGACATAATATCG
TACGTGTATGCAAAATGTCATGCTCAATCACAGTCATACATATTATAGAGCAAATCAGTCATAAC
ATAAGGCCATAACAGTCATTTCATCTCGTAGAGGTATTTCGGTCATTTTACCCTATTGGGGTATT
TCGATCATTTTACCCTATGGGGGTATTTCGGCCATTCTACCCTATGGGGGTATTTCGATCATTCT
ACCTTATGGGGGTATTTCGGTCATTTTATCCTATAAGGGTATTTTGGCCATTTTACCTATTTTAG
GGTCTCGGTGTAGATATCGACCTCTCGAAATGTCCGCAGTCACCTCAAGCGATCAGGTAACCTAA
ATGGTCATAGATGCGACTATCTATATCCATATGAGACTTAAAAACCTAATTCATCATATTTATAG
ATTATCAAGAACATTGACTACTCCAGGCAACATTATCAGAATCCATATGACCACATCAAGCTTGA
AAGCAGTTTCAATATACTACAATCTTTAACTTGCAACTAATAATAACTTGATCTGTATTTATCTT
TTAATAACACTATTATATATAATTCACCAAAAATATTTTACAATTGCCCAAATCATTTTCTGTAT
AAAGATAACTAAAATAACTCTGCTTGTACTATCTGATTTAC
Found at i:39120821 original size:20 final size:20
Alignment explanation
Indices: 39120796--39120857 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
39120786 TATGTGCATT
*
39120796 CAGGGGCACCAAAGTACAAA
1 CAGGGGCACCAAAGTGCAAA
* **
39120816 CAGGGGCA-CAGATGTGCATT
1 CAGGGGCACCA-AAGTGCAAA
39120836 CAGGGGCACCAAAGTGCAAA
1 CAGGGGCACCAAAGTGCAAA
39120856 CA
1 CA
39120858 AAGGCACAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.37, C:0.24, G:0.29, T:0.10
Consensus pattern (20 bp):
CAGGGGCACCAAAGTGCAAA
Found at i:39120842 original size:40 final size:38
Alignment explanation
Indices: 39120763--39120884 Score: 154
Period size: 40 Copynumber: 3.1 Consensus size: 38
39120753 GTGATTGGGA
* *
39120763 GCACCAAAGTGCAAACAGGTACATATGTGCATTCAGGG
1 GCACCAAAGTGCAAACAGGCACAGATGTGCATTCAGGG
*
39120801 GCACCAAAGTACAAACAGGGGCACAGATGTGCATTCAGGG
1 GCACCAAAGTGCAAACA--GGCACAGATGTGCATTCAGGG
* * *
39120841 GCACCAAAGTGCAAACAAAGGCACAGATATGCATTTAGAG
1 GCACCAAAGTGCAAAC--AGGCACAGATGTGCATTCAGGG
39120881 GCAC
1 GCAC
39120885 TTTTTCATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
38 16 0.22
40 56 0.77
42 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (38 bp):
GCACCAAAGTGCAAACAGGCACAGATGTGCATTCAGGG
Found at i:39122310 original size:18 final size:19
Alignment explanation
Indices: 39122287--39122322 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
39122277 TCATATAGGG
39122287 TCATTGATTTC-ACTTAAA
1 TCATTGATTTCAACTTAAA
39122305 TCATTGATTTCAACTTAA
1 TCATTGATTTCAACTTAA
39122323 GCAAATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (19 bp):
TCATTGATTTCAACTTAAA
Found at i:39122769 original size:40 final size:40
Alignment explanation
Indices: 39122724--39122829 Score: 194
Period size: 40 Copynumber: 2.6 Consensus size: 40
39122714 AAGCATTCTT
*
39122724 TTCAGTAGATTCAATAGGTATGGCTCAAAAGCGCATATGG
1 TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCGCATATGG
39122764 TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCGCATATGG
1 TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCGCATATGG
*
39122804 TTTAGTAGATTCAGTAGGTATGGCTC
1 TTCAGTAGATTCAGTAGGTATGGCTC
39122830 TTCTGAGCAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (40 bp):
TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCGCATATGG
Found at i:39138963 original size:9 final size:9
Alignment explanation
Indices: 39138940--39139483 Score: 235
Period size: 9 Copynumber: 59.1 Consensus size: 9
39138930 ATCAAAAATC
39138940 ACATAACTT
1 ACATAACTT
* *
39138949 ATATAATTT
1 ACATAACTT
*
39138958 ACATAACTC
1 ACATAACTT
*
39138967 ACGTAACTT
1 ACATAACTT
*
39138976 ACATAATTT
1 ACATAACTT
*
39138985 A-ATAACCAT
1 ACATAA-CTT
39138994 ATCATAACTT
1 A-CATAACTT
*
39139004 ACATAATTT
1 ACATAACTT
*
39139013 ACATACCTTT
1 ACATAAC-TT
* *
39139023 AAAGAA-TT
1 ACATAACTT
* *
39139031 AAAAAAAACTTT
1 --ACATAAC-TT
*
39139043 GGATCTTAACTT
1 --A-CATAACTT
39139055 A-ATAACTT
1 ACATAACTT
* **
39139063 ATATATATCAG
1 ACATA-A-CTT
39139074 ACCATAACTT
1 AC-ATAACTT
*
39139084 ACATAACTG
1 ACATAACTT
*
39139093 ACAT-ACAT
1 ACATAACTT
39139101 ACATAACTT
1 ACATAACTT
39139110 A-ATAACTT
1 ACATAACTT
* *
39139118 AAATATATCAT
1 ACATA-A-CTT
*
39139129 ATCATAACTC
1 A-CATAACTT
39139139 ACATAACTT
1 ACATAACTT
39139148 ACATAACTT
1 ACATAACTT
39139157 A-ATAACTT
1 ACATAACTT
* *
39139165 ATATATATCAT
1 ACATA-A-CTT
39139176 ACCATAACTT
1 A-CATAACTT
* *
39139186 ACAAAACAAAT
1 ACATAAC--TT
39139197 ACATAACTT
1 ACATAACTT
39139206 ACATAACTT
1 ACATAACTT
39139215 ACATAA--T
1 ACATAACTT
*
39139222 ACATAA-AT
1 ACATAACTT
* * *
39139230 ATATATCAT
1 ACATAACTT
39139239 ATCATAACTT
1 A-CATAACTT
*
39139249 ACATAACTC
1 ACATAACTT
*
39139258 ACAT-ACAT
1 ACATAACTT
39139266 ACATAACTT
1 ACATAACTT
*
39139275 A-ATGACTT
1 ACATAACTT
* * *
39139283 ATATGTATCAT
1 ACA--TAACTT
*
39139294 ATCATAACTC
1 A-CATAACTT
39139304 ACATAACTT
1 ACATAACTT
39139313 ACATAACTT
1 ACATAACTT
39139322 A-ATAACTT
1 ACATAACTT
* *
39139330 ATATATATCAT
1 ACATA-A-CTT
39139341 ACCATAACTT
1 A-CATAACTT
* *
39139351 ACGTAACTC
1 ACATAACTT
39139360 ACATAACTT
1 ACATAACTT
39139369 ACATAACTT
1 ACATAACTT
39139378 ACATAA--T
1 ACATAACTT
*
39139385 ACATAA-AT
1 ACATAACTT
* * *
39139393 ATATATCAT
1 ACATAACTT
39139402 ACCATAACTT
1 A-CATAACTT
39139412 ACATAACTT
1 ACATAACTT
39139421 A-ATTATACTT
1 ACA-TA-ACTT
39139431 --ATAACTT
1 ACATAACTT
*
39139438 ACATAAATAT
1 ACATAACT-T
* * *
39139448 ATATCACAT
1 ACATAACTT
39139457 -CATAACTT
1 ACATAACTT
*
39139465 ACATAATTT
1 ACATAACTT
39139474 ACATAACTT
1 ACATAACTT
39139483 A
1 A
39139484 ATTATACTTA
Statistics
Matches: 404, Mismatches: 86, Indels: 90
0.70 0.15 0.16
Matches are distributed among these distances:
7 18 0.04
8 74 0.18
9 207 0.51
10 54 0.13
11 30 0.07
12 18 0.04
13 3 0.01
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.34
Consensus pattern (9 bp):
ACATAACTT
Found at i:39139005 original size:28 final size:27
Alignment explanation
Indices: 39138897--39139390 Score: 117
Period size: 29 Copynumber: 17.8 Consensus size: 27
39138887 AAATGAATAT
* * *
39138897 ATAATTTACATAACTTACATAAATATAT
1 ATAATTTACATAACTCACATAACT-TAC
* * * * *
39138925 ATCATAT-CAAAAATCACATAACTTAT
1 ATAATTTACATAACTCACATAACTTAC
*
39138951 ATAATTTACATAACTCACGTAACTTAC
1 ATAATTTACATAACTCACATAACTTAC
39138978 ATAATTTA-ATAAC-CATATCATAACTTAC
1 ATAATTTACATAACTC--A-CATAACTTAC
* * * * *
39139006 ATAATTTACATACCTTTAAAGAA-TTAAAA
1 ATAATTTACATAAC-TCACATAACTT--AC
* * * *
39139035 AAAACTTTGGATCTTAACTTA-ATAACTTAT
1 ATAA-TTT--A-CATAACTCACATAACTTAC
** * *
39139065 ATATATCAGACCATAACTTACATAACTGAC
1 ATA-AT-TTA-CATAACTCACATAACTTAC
* *
39139095 ATACA--TACATAACTTA-ATAACTTAA
1 ATA-ATTTACATAACTCACATAACTTAC
*
39139120 ATATATCATATCATAACTCACATAACTTAC
1 ATA-AT-TTA-CATAACTCACATAACTTAC
* * * *
39139150 ATAACTTA-ATAACTTATATATATCATACC
1 ATAATTTACATAACTCACATA-A-CTTA-C
* *
39139179 ATAACTTACAAAACAAAT-ACATAACTTAC
1 ATAATTTACATAAC---TCACATAACTTAC
* * *
39139208 ATAACTTACATAA-T-ACATAAATATAT
1 ATAATTTACATAACTCACATAACT-TAC
* * * *
39139234 ATCATAT-CATAACTTACATAACTCAC
1 ATAATTTACATAACTCACATAACTTAC
* * *
39139260 ATACA--TACATAACTTA-ATGACTTAT
1 ATA-ATTTACATAACTCACATAACTTAC
* *
39139285 ATGTATCATATCATAACTCACATAACTTAC
1 AT-AAT-TTA-CATAACTCACATAACTTAC
* * * *
39139315 ATAACTTA-ATAACTTATATATATCATACC
1 ATAATTTACATAACTCACATA-A-CTTA-C
* *
39139344 ATAACTTACGTAACTCACATAACTTAC
1 ATAATTTACATAACTCACATAACTTAC
*
39139371 ATAACTTACATAA-T-ACATAA
1 ATAATTTACATAACTCACATAA
39139391 ATATATATCA
Statistics
Matches: 349, Mismatches: 73, Indels: 91
0.68 0.14 0.18
Matches are distributed among these distances:
25 41 0.12
26 62 0.18
27 62 0.18
28 42 0.12
29 68 0.19
30 54 0.15
31 5 0.01
32 10 0.03
33 5 0.01
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.33
Consensus pattern (27 bp):
ATAATTTACATAACTCACATAACTTAC
Found at i:39139151 original size:47 final size:47
Alignment explanation
Indices: 39139085--39139215 Score: 174
Period size: 47 Copynumber: 2.7 Consensus size: 47
39139075 CCATAACTTA
* *
39139085 CATAACTGACAT-ACATACATAACTTAATAACTTAAATATATCATAT
1 CATAACTCACATAACATACATAACTTAATAACTTAAATATATCATAC
* *
39139131 CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
1 CATAACTCACATAACATACATAACTTAATAACTTAAATATATCATAC
* *
39139178 CATAACTTACAAAACAAATACATAACTTACATAACTTA
1 CATAACTCACATAAC--ATACATAACTTA-ATAACTTA
39139216 CATAATACAT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 11 0.15
47 44 0.59
49 11 0.15
50 8 0.11
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.31
Consensus pattern (47 bp):
CATAACTCACATAACATACATAACTTAATAACTTAAATATATCATAC
Found at i:39139264 original size:165 final size:163
Alignment explanation
Indices: 39139063--39139494 Score: 633
Period size: 165 Copynumber: 2.6 Consensus size: 163
39139053 TTAATAACTT
* * *
39139063 ATATATATCAGACCATAACTTACATAACTGACATACATACATAACTTAATAACTTAAATATATCA
1 ATATATATCATACCATAACTTACATAACTCACATACATACATAACTTAATAACTTATATATATCA
39139128 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACAAAAC
66 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACAAAAC
39139193 AAAT-ACATAACTTACATAACTTACATAATACATAA
131 ---TCACATAACTTACATAACTTACATAATACATAA
* * *
39139228 ATATATATCATATCATAACTTACATAACTCACATACATACATAACTTAATGACTTATATGTATCA
1 ATATATATCATACCATAACTTACATAACTCACATACATACATAACTTAATAACTTATATATATCA
**
39139293 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACGTAAC
66 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACAAAAC
39139358 TCACATAACTTACATAACTTACATAATACATAA
131 TCACATAACTTACATAACTTACATAATACATAA
* *
39139391 ATATATATCATACCATAACTTACATAACTTA-AT-TATACTTATAACTTACATAA---ATATATA
1 ATATATATCATACCATAACTTACATAACTCACATACATAC--ATAACTTA-ATAACTTATATATA
* * *
39139451 TCACATCATAACTTACATAATTTACATAACTTAATTATACTTAT
63 TCATATCATAACTCACATAACTTACATAACTTAA-TA-ACTTAT
39139495 CCTTAAACCC
Statistics
Matches: 245, Mismatches: 16, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
161 41 0.17
162 5 0.02
163 74 0.30
164 3 0.01
165 122 0.50
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (163 bp):
ATATATATCATACCATAACTTACATAACTCACATACATACATAACTTAATAACTTATATATATCA
TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACAAAAC
TCACATAACTTACATAACTTACATAATACATAA
Found at i:39139324 original size:47 final size:47
Alignment explanation
Indices: 39139198--39139378 Score: 188
Period size: 47 Copynumber: 3.7 Consensus size: 47
39139188 AAAACAAATA
* *
39139198 CATAACTTACATAACTTACATAA--TACATAAATATATATCATATCATAAC
1 CATAACTCACATAACTTACATAACTTA-ATAACT-TATAT-ATATCAT-AC
* * * *
39139247 TTACATAACTCACAT-ACATACATAACTTAATGACTTATATGTATCATAT
1 ---CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
39139296 CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
1 CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
* * *
39139343 CATAACTTACGTAACTCACATAACTTACATAACTTA
1 CATAACTCACATAACTTACATAACTTA-ATAACTTA
39139379 CATAATACAT
Statistics
Matches: 112, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
46 12 0.11
47 54 0.48
48 8 0.07
49 1 0.01
50 6 0.05
51 14 0.12
52 15 0.13
53 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (47 bp):
CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
Found at i:39139328 original size:8 final size:9
Alignment explanation
Indices: 39139076--39139483 Score: 236
Period size: 9 Copynumber: 45.0 Consensus size: 9
39139066 TATATCAGAC
39139076 CATAACTTA
1 CATAACTTA
*
39139085 CATAACTGA
1 CATAACTTA
*
39139094 CAT-ACATA
1 CATAACTTA
39139102 CATAACTTA
1 CATAACTTA
39139111 -ATAACTTA
1 CATAACTTA
* *
39139119 AATATATCATA
1 CATA-A-CTTA
*
39139130 TCATAACTCA
1 -CATAACTTA
39139140 CATAACTTA
1 CATAACTTA
39139149 CATAACTTA
1 CATAACTTA
39139158 -ATAACTTA
1 CATAACTTA
* *
39139166 TATATATCATA
1 CATA-A-CTTA
39139177 CCATAACTTA
1 -CATAACTTA
* *
39139187 CAAAACAAATA
1 CATAAC--TTA
39139198 CATAACTTA
1 CATAACTTA
39139207 CATAACTTA
1 CATAACTTA
39139216 CATAA--TA
1 CATAACTTA
*
39139223 CATAA-ATA
1 CATAACTTA
* * *
39139231 TATATCATA
1 CATAACTTA
39139240 TCATAACTTA
1 -CATAACTTA
*
39139250 CATAACTCA
1 CATAACTTA
*
39139259 CAT-ACATA
1 CATAACTTA
39139267 CATAACTTA
1 CATAACTTA
*
39139276 -ATGACTTA
1 CATAACTTA
* * *
39139284 TATGTATCATA
1 CA--TAACTTA
*
39139295 TCATAACTCA
1 -CATAACTTA
39139305 CATAACTTA
1 CATAACTTA
39139314 CATAACTTA
1 CATAACTTA
39139323 -ATAACTTA
1 CATAACTTA
* *
39139331 TATATATCATA
1 CATA-A-CTTA
39139342 CCATAACTTA
1 -CATAACTTA
* *
39139352 CGTAACTCA
1 CATAACTTA
39139361 CATAACTTA
1 CATAACTTA
39139370 CATAACTTA
1 CATAACTTA
39139379 CATAA--TA
1 CATAACTTA
*
39139386 CATAA-ATA
1 CATAACTTA
* * *
39139394 TATATCATA
1 CATAACTTA
39139403 CCATAACTTA
1 -CATAACTTA
39139413 CATAACTTA
1 CATAACTTA
39139422 -ATTATACTT-
1 CA-TA-ACTTA
39139431 -ATAACTTA
1 CATAACTTA
*
39139439 CATAAATATA
1 CATAACT-TA
* * *
39139449 TATCACAT-
1 CATAACTTA
39139457 CATAACTTA
1 CATAACTTA
*
39139466 CATAATTTA
1 CATAACTTA
39139475 CATAACTTA
1 CATAACTTA
39139484 ATTATACTTA
Statistics
Matches: 311, Mismatches: 56, Indels: 64
0.72 0.13 0.15
Matches are distributed among these distances:
7 18 0.06
8 61 0.20
9 163 0.52
10 36 0.12
11 23 0.07
12 10 0.03
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:39142153 original size:21 final size:21
Alignment explanation
Indices: 39142126--39142238 Score: 129
Period size: 21 Copynumber: 5.4 Consensus size: 21
39142116 CTACAATTTA
* *
39142126 AAGCAGAAGCAGCAACGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
* *
39142147 AAACAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGAG
*
39142168 AAGCAAAGGCAGCAGCGA-AGG
1 AAGCAGAGGCAGCAGCGAGA-G
*
39142189 AAGCAGAGGCAGTAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
* *
39142210 AAGCAGAGGCAGCAACGAGGG
1 AAGCAGAGGCAGCAGCGAGAG
*
39142231 AAGTAGAG
1 AAGCAGAG
39142239 TAGAGCAGAA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
21 76 0.99
22 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.40, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:39142624 original size:43 final size:42
Alignment explanation
Indices: 39142512--39142821 Score: 277
Period size: 42 Copynumber: 7.3 Consensus size: 42
39142502 GATGCCAAAG
* * *
39142512 TTAGTGGCGTTTT-TAGTAAAA-TGCTGCTAAAGGTCATGTTT
1 TTAGCGGCGTTTTCTA-TAAAAGCGCCGCTAAAGGTCATGTTT
* * * *
39142553 TTAGCGGCATTTGCTATAAAAGTGCCGCTAAAGGTTATGTTTT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATG-TTT
* * *
39142596 TTAGCGGCGTTTTCTACAAAGGCACCGCTAAAGGTCATGTTCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGTT-T
** * *
39142639 TTAGTAGCG-TTTCTATAAAAGCGTCGCTAAAGGTCATGTTC
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGTTT
* *
39142680 TTAGTGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATG-TTT
* * * * * *
39142723 TTAGCGGC-ATTGCTATAAAAACGTCGCTAAATGTCATGATCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATG-TTT
* * * **
39142765 ATAGCGGCGTTTATGTGAAAAAAGCGCCGCTAAAGGTCATGACCT
1 TTAGCGGCGTTT-TCT-ATAAAAGCGCCGCTAAAGGTCATG-TTT
39142810 TTAGCGGCGTTT
1 TTAGCGGCGTTT
39142822 ATGTAAAAAA
Statistics
Matches: 221, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
41 23 0.10
42 110 0.50
43 53 0.24
44 1 0.00
45 34 0.15
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGTTT
Found at i:39142724 original size:84 final size:84
Alignment explanation
Indices: 39142512--39142817 Score: 330
Period size: 84 Copynumber: 3.6 Consensus size: 84
39142502 GATGCCAAAG
* * * *
39142512 TTAGTGGCGTTTT-TAGTAAAA-TGCTGCTAAAGGTCATG-TTTTTAGCGGCATTTGCTATAAAA
1 TTAGCGGCGTTTTCTA-TAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTT-CTATAAAA
* * * *
39142574 GTGCCGCTAAAGGTTATGTTTT
64 GCGTCGCTAAAGGTCATG-TTC
* * * * ** *
39142596 TTAGCGGCGTTTTCTACAAAGGCACCGCTAAAGGTCATGTTCTTTAGTAGCGTTTCTATAAAAGC
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTCTATAAAAGC
39142661 GTCGCTAAAGGTCATGTTC
66 GTCGCTAAAGGTCATGTTC
* * *
39142680 TTAGTGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTGCTATAAAAAC
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTCTATAAAAGC
* *
39142745 GTCGCTAAATGTCATGATC
66 GTCGCTAAAGGTCATGTTC
* * *
39142764 TATAGCGGCGTTTATGTGAAAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGC
1 T-TAGCGGCGTTT-TCT-ATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
39142818 GTTTATGTAA
Statistics
Matches: 186, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
84 90 0.48
85 49 0.26
86 13 0.07
87 34 0.18
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (84 bp):
TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTCTATAAAAGC
GTCGCTAAAGGTCATGTTC
Found at i:39143282 original size:9 final size:9
Alignment explanation
Indices: 39143268--39143350 Score: 105
Period size: 9 Copynumber: 9.2 Consensus size: 9
39143258 GTAGTGATTC
39143268 AATTCGGTT
1 AATTCGGTT
39143277 AATTCGGTT
1 AATTCGGTT
*
39143286 AATTCGGGT
1 AATTCGGTT
*
39143295 AATTCGATT
1 AATTCGGTT
*
39143304 AATTCGATT
1 AATTCGGTT
*
39143313 AATTCAAG-T
1 AATTC-GGTT
39143322 AATTCGGTT
1 AATTCGGTT
*
39143331 AATTCAGTT
1 AATTCGGTT
39143340 AATTCGGTT
1 AATTCGGTT
39143349 AA
1 AA
39143351 CCGACCAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
8 1 0.02
9 63 0.98
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:39150725 original size:30 final size:28
Alignment explanation
Indices: 39150683--39150770 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
39150673 TAAATTTCAA
* *
39150683 ATTTTGTT-ATATATATATATACATGCAT
1 ATTTT-TTAATATATATATATACATACAC
* * *
39150711 ATATTTTATAATATATACATAAACGTACAC
1 AT-TTTT-TAATATATATATATACATACAC
* * *
39150741 ATTTTTTAATTTATATATATATACACAC
1 ATTTTTTAATATATATATATACATACAC
39150769 AT
1 AT
39150771 ACTTTTATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
28 21 0.46
29 8 0.17
30 17 0.37
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.45
Consensus pattern (28 bp):
ATTTTTTAATATATATATATACATACAC
Found at i:39150913 original size:27 final size:27
Alignment explanation
Indices: 39150855--39150930 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
39150845 TATTTATATT
39150855 TATATATATTTTTTTATAATTCACATA
1 TATATATATTTTTTTATAATTCACATA
*
39150882 CATATATATTTTTCTTAT-ATGT-ACATA
1 TATATATATTTTT-TTATAAT-TCACATA
*
39150909 TATAT-TTTTAGTTTTTATAATT
1 TATATATATT--TTTTTATAATT
39150931 TTTATCTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
26 3 0.07
27 28 0.68
28 10 0.24
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.58
Consensus pattern (27 bp):
TATATATATTTTTTTATAATTCACATA
Found at i:39151011 original size:3 final size:3
Alignment explanation
Indices: 39151003--39151091 Score: 178
Period size: 3 Copynumber: 29.7 Consensus size: 3
39150993 TTACATGTTC
39151003 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
39151051 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
39151092 GCTTTAGTTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:39151230 original size:20 final size:21
Alignment explanation
Indices: 39151196--39151245 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
39151186 TGCTCATATT
*
39151196 ATTTTTACTTGCATTATCAT-A
1 ATTTTTACTTCCATTA-CATCA
39151217 ATTTTTA-TTCCATTACATCA
1 ATTTTTACTTCCATTACATCA
39151237 ATTTTTACT
1 ATTTTTACT
39151246 CAGATTCGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 15 0.58
21 8 0.31
ACGTcount: A:0.28, C:0.16, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTTTTACTTCCATTACATCA
Found at i:39152291 original size:26 final size:27
Alignment explanation
Indices: 39152261--39152314 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
39152251 TTAAGAAGGA
39152261 TAAGCACGAAGTTTGAAA-ATTAATTT
1 TAAGCACGAAGTTTGAAATATTAATTT
*
39152287 TAAGCACGAAGTTTGAAATTTTAATTT
1 TAAGCACGAAGTTTGAAATATTAATTT
39152314 T
1 T
39152315 CATAAATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
TAAGCACGAAGTTTGAAATATTAATTT
Found at i:39154734 original size:6 final size:6
Alignment explanation
Indices: 39154717--39154759 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
39154707 ATGTGAGGTA
* * * *
39154717 AGTATT AATATT AGTATT TGTATT AGTATT ATTATT ATTATT A
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT A
39154760 TGAGTGGGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (6 bp):
AGTATT
Found at i:39155166 original size:37 final size:39
Alignment explanation
Indices: 39155116--39155207 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 39
39155106 CGGATAGATT
* *
39155116 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCT-TGGC
1 CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTAT--C
**
39155153 CGATGAGGCACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTATC
39155192 CGATGAGGCACTGGGT
1 CGATGAGGCACTGGGT
39155208 GCCATTCTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
37 20 0.43
38 2 0.04
39 22 0.47
40 2 0.04
41 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTATC
Found at i:39157432 original size:28 final size:26
Alignment explanation
Indices: 39157360--39157432 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 26
39157350 TAGAAAATTT
*
39157360 TTTATCAAAAATTA-GAAATTATTAAA
1 TTTAT-AAAAATTATAAAATTATTAAA
*
39157386 TATT-TAAAAAATATTAAAATTGATATAAA
1 T-TTATAAAAATTA-TAAAATT-AT-TAAA
39157415 TTTATAAAAATTATAAAA
1 TTTATAAAAATTATAAAA
39157433 AAATTTATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
25 7 0.18
26 2 0.05
27 7 0.18
28 9 0.24
29 13 0.34
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (26 bp):
TTTATAAAAATTATAAAATTATTAAA
Found at i:39157438 original size:21 final size:21
Alignment explanation
Indices: 39157412--39157454 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
39157402 AAATTGATAT
39157412 AAATTTATAAAAATTATAAAA
1 AAATTTATAAAAATTATAAAA
**
39157433 AAATTTATAAGTATTATAAAA
1 AAATTTATAAAAATTATAAAA
39157454 A
1 A
39157455 TATATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTTATAAAAATTATAAAA
Found at i:39157524 original size:21 final size:21
Alignment explanation
Indices: 39157490--39157569 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
39157480 AATTTTTTTA
*
39157490 TAAAA-TTAATAAAACATAT-T
1 TAAAATTTTATAAAA-ATATAT
*
39157510 TAAAATTTTATAAAAATGTAT
1 TAAAATTTTATAAAAATATAT
*
39157531 TAAAATTCTATAAAAA-AT-T
1 TAAAATTTTATAAAAATATAT
* * *
39157550 AAAAATTATAAAAAAATATA
1 TAAAATTTTATAAAAATATA
39157570 AGATATTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
19 14 0.29
20 11 0.22
21 24 0.49
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (21 bp):
TAAAATTTTATAAAAATATAT
Found at i:39157561 original size:17 final size:18
Alignment explanation
Indices: 39157529--39157564 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
39157519 ATAAAAATGT
*
39157529 ATTAAAATTCTATAAAAA
1 ATTAAAAATCTATAAAAA
39157547 ATTAAAAAT-TATAAAAA
1 ATTAAAAATCTATAAAAA
39157564 A
1 A
39157565 ATATAAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATTAAAAATCTATAAAAA
Done.