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 77 of 207
Found at i:22382361 original size:25 final size:25
Alignment explanation
Indices: 22382306--22382387 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
22382296 CGAGCTGAAT
* * *
22382306 TCGAGCTGAATATCAGTAAGCTCATG
1 TCGAGCTAAATATCGGTAAGCTC-TC
22382332 T-GAGCTAAATATCGGTAAGCTCTC
1 TCGAGCTAAATATCGGTAAGCTCTC
*
22382356 TCGAGCTAAATATCGGTAACCTCTC
1 TCGAGCTAAATATCGGTAAGCTCTC
*
22382381 TTGAGCT
1 TCGAGCT
22382388 GAGAATCAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 2 0.04
25 47 0.94
26 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (25 bp):
TCGAGCTAAATATCGGTAAGCTCTC
Found at i:22385748 original size:42 final size:43
Alignment explanation
Indices: 22385701--22385809 Score: 148
Period size: 43 Copynumber: 2.6 Consensus size: 43
22385691 ATATTCGTAT
*
22385701 ACAAGCTACCATGTAGGTTGTGGATAAACGA-AAAATTTGCAA
1 ACAAGCTACCATGTAGGTTGTGGATAAACCACAAAATTTGCAA
* * * *
22385743 ACAAGCTACCTTGTAGGTTATGGATAAACCACCAATTTTGCAA
1 ACAAGCTACCATGTAGGTTGTGGATAAACCACAAAATTTGCAA
* *
22385786 AGAAGCTGCCATGTAGGTTGTGGA
1 ACAAGCTACCATGTAGGTTGTGGA
22385810 CGAAGCCACA
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 28 0.49
43 29 0.51
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (43 bp):
ACAAGCTACCATGTAGGTTGTGGATAAACCACAAAATTTGCAA
Found at i:22386686 original size:14 final size:14
Alignment explanation
Indices: 22386667--22386705 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
22386657 AAATCATCCT
22386667 ATACTTATGTCATA
1 ATACTTATGTCATA
22386681 ATACTTATGTCATA
1 ATACTTATGTCATA
22386695 ATACTTATGTC
1 ATACTTATGTC
22386706 GGGGATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (14 bp):
ATACTTATGTCATA
Found at i:22392203 original size:41 final size:41
Alignment explanation
Indices: 22392144--22392229 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
22392134 CATGTTATCA
** * *
22392144 CATATCGATGCCTCTGTCCTAGACA-GGGTCTTACAC-GAAT
1 CATATCGATGCCAATGTCCCAGA-ATGGGTCTTACACAAAAT
*
22392184 CATATACGATGCCAATGTCCCAGAATTGGTCTTACACAAAAT
1 CATAT-CGATGCCAATGTCCCAGAATGGGTCTTACACAAAAT
22392226 CATA
1 CATA
22392230 CCTCAAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
40 6 0.16
41 25 0.66
42 7 0.18
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (41 bp):
CATATCGATGCCAATGTCCCAGAATGGGTCTTACACAAAAT
Found at i:22400961 original size:39 final size:38
Alignment explanation
Indices: 22400911--22401164 Score: 282
Period size: 39 Copynumber: 6.6 Consensus size: 38
22400901 AGTACAACCA
* *
22400911 GGCACGTAAGTGCAATCAGGGGTACCAAGGTACAACAAG
1 GGCACGTAAGTGCGATCAGGGGTACCAA-GTACAACAGG
* * * ** *
22400950 GGCACATAAGTGCAATTAGGGGTATTGAAGTACAATAGG
1 GGCACGTAAGTGCGATCAGGGGTA-CCAAGTACAACAGG
* * *
22400989 GGCACGTAAGAGTGATCAGGGGTATCAAAGTACAACAGG
1 GGCACGTAAGTGCGATCAGGGGTA-CCAAGTACAACAGG
* *
22401028 GGCACGTAAGTGCGATCAGGGGTACCGAAGTAAAATAGG
1 GGCACGTAAGTGCGATCAGGGGTACC-AAGTACAACAGG
*
22401067 GGCACGTAAGTGCG-TCAGGGGTATCGAAGTACAACAGG
1 GGCACGTAAGTGCGATCAGGGGTA-CCAAGTACAACAGG
*
22401105 GGCACGTAAGTGCGATCAAGGGTACCAAAGTAC-A-A-G
1 GGCACGTAAGTGCGATCAGGGGTACC-AAGTACAACAGG
*
22401141 GGCACGTAAGTGCCATCAGGGGTA
1 GGCACGTAAGTGCGATCAGGGGTA
22401165 TAATTATATA
Statistics
Matches: 184, Mismatches: 26, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
36 23 0.12
37 1 0.01
38 36 0.20
39 122 0.66
40 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.16
Consensus pattern (38 bp):
GGCACGTAAGTGCGATCAGGGGTACCAAGTACAACAGG
Found at i:22401023 original size:78 final size:78
Alignment explanation
Indices: 22400874--22401165 Score: 317
Period size: 77 Copynumber: 3.8 Consensus size: 78
22400864 CGTAACCACA
* * * * * *
22400874 GCACAAAAGTGCTATTAGGAGTATCGAAGTACAACCA--GGCACGTAAGTGCAATCAGGGGTACC
1 GCACATAAGTGCAATTAGGGGTATCGAAGTACAA-TAGGGGCACGTAAGTGCGATCAGGGGTATC
* *
22400937 AAGGTACAACAAGG
65 AAAGTACAACAGGG
* * *
22400951 GCACATAAGTGCAATTAGGGGTATTGAAGTACAATAGGGGCACGTAAGAGTGATCAGGGGTATCA
1 GCACATAAGTGCAATTAGGGGTATCGAAGTACAATAGGGGCACGTAAGTGCGATCAGGGGTATCA
22401016 AAGTACAACAGGG
66 AAGTACAACAGGG
* * * * * *
22401029 GCACGTAAGTGCGATCAGGGGTACCGAAGTAAAATAGGGGCACGTAAGTGCG-TCAGGGGTATCG
1 GCACATAAGTGCAATTAGGGGTATCGAAGTACAATAGGGGCACGTAAGTGCGATCAGGGGTATCA
22401093 AAGTACAACAGGG
66 AAGTACAACAGGG
* * * * * * *
22401106 GCACGTAAGTGCGATCAAGGGTACCAAAGTAC-A-A-GGGCACGTAAGTGCCATCAGGGGTAT
1 GCACATAAGTGCAATTAGGGGTATCGAAGTACAATAGGGGCACGTAAGTGCGATCAGGGGTAT
22401166 AATTATATAA
Statistics
Matches: 188, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
74 14 0.07
75 11 0.06
76 2 0.01
77 83 0.44
78 78 0.41
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (78 bp):
GCACATAAGTGCAATTAGGGGTATCGAAGTACAATAGGGGCACGTAAGTGCGATCAGGGGTATCA
AAGTACAACAGGG
Found at i:22401038 original size:19 final size:19
Alignment explanation
Indices: 22401016--22401115 Score: 78
Period size: 19 Copynumber: 5.2 Consensus size: 19
22401006 AGGGGTATCA
22401016 AAGTACAACAGGGGCACGT
1 AAGTACAACAGGGGCACGT
* * *
22401035 AAGTGCGATCAGGGGTACCG-
1 AAGTAC-AACAGGGGCA-CGT
* *
22401055 AAGTAAAATAGGGGCACGT
1 AAGTACAACAGGGGCACGT
* ** *
22401074 AAGTGCGTCAGGGGTATCG-
1 AAGTACAACAGGGGCA-CGT
22401093 AAGTACAACAGGGGCACGT
1 AAGTACAACAGGGGCACGT
22401112 AAGT
1 AAGT
22401116 GCGATCAAGG
Statistics
Matches: 58, Mismatches: 18, Indels: 10
0.67 0.21 0.12
Matches are distributed among these distances:
18 4 0.07
19 38 0.66
20 14 0.24
21 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.35, T:0.15
Consensus pattern (19 bp):
AAGTACAACAGGGGCACGT
Found at i:22401117 original size:77 final size:77
Alignment explanation
Indices: 22400911--22401165 Score: 320
Period size: 78 Copynumber: 3.3 Consensus size: 77
22400901 AGTACAACCA
* * * * * * **
22400911 GGCACGTAAGTGCAATCAGGGGTACCAAGGTACAACAAGGGCACATAAGTGCAATTAGGGGTATT
1 GGCACGTAAGTGC-ATCAGGGGTATCAAAGTACAACAGGGGCACGTAAGTGCGATCAGGGGTACC
*
22400976 GAAGTACAATAGG
65 GAAGTAAAATAGG
22400989 GGCACGTAAGAGTG-ATCAGGGGTATCAAAGTACAACAGGGGCACGTAAGTGCGATCAGGGGTAC
1 GGCACGT-A-AGTGCATCAGGGGTATCAAAGTACAACAGGGGCACGTAAGTGCGATCAGGGGTAC
22401053 CGAAGTAAAATAGG
64 CGAAGTAAAATAGG
* * * *
22401067 GGCACGTAAGTGCGTCAGGGGTATCGAAGTACAACAGGGGCACGTAAGTGCGATCAAGGGTACCA
1 GGCACGTAAGTGCATCAGGGGTATCAAAGTACAACAGGGGCACGTAAGTGCGATCAGGGGTACCG
*
22401132 AAGT-ACA-A-G
66 AAGTAAAATAGG
22401141 GGCACGTAAGTGCCATCAGGGGTAT
1 GGCACGTAAGTG-CATCAGGGGTAT
22401166 AATTATATAA
Statistics
Matches: 158, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
74 13 0.08
75 12 0.08
76 6 0.04
77 53 0.34
78 69 0.44
79 1 0.01
80 4 0.03
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.16
Consensus pattern (77 bp):
GGCACGTAAGTGCATCAGGGGTATCAAAGTACAACAGGGGCACGTAAGTGCGATCAGGGGTACCG
AAGTAAAATAGG
Found at i:22402820 original size:16 final size:17
Alignment explanation
Indices: 22402789--22402821 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
22402779 AAAAATAATT
22402789 TAATTTGATATAATTTA
1 TAATTTGATATAATTTA
*
22402806 TAATTT-ATTTAATTTA
1 TAATTTGATATAATTTA
22402822 ATTGTCGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TAATTTGATATAATTTA
Found at i:22403875 original size:24 final size:22
Alignment explanation
Indices: 22403843--22403892 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
22403833 ATCTTAAAAT
*
22403843 AAAATCATTAATTAAAAATTAATA
1 AAAAACATTAATT-AAAA-TAATA
**
22403867 AAAAACATTTCTTAAAATAATA
1 AAAAACATTAATTAAAATAATA
22403889 AAAA
1 AAAA
22403893 TGTGTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 9 0.39
23 4 0.17
24 10 0.43
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAACATTAATTAAAATAATA
Found at i:22403977 original size:23 final size:23
Alignment explanation
Indices: 22403950--22403994 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22403940 ATATATTTTA
22403950 ATTAAATT-TTAAAAATAATTAAT
1 ATTAAATTCTTAAAAAT-ATTAAT
*
22403973 ATTAATTTCTTAAAAATATTAA
1 ATTAAATTCTTAAAAATATTAA
22403995 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTAAATTCTTAAAAATATTAAT
Found at i:22403986 original size:31 final size:33
Alignment explanation
Indices: 22403918--22403980 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
22403908 TTACAAATAT
* *
22403918 TTAAATATTTAAAATATAATTTATATATTTTAA
1 TTAAATATTTAAAATATAATTAATATAATTTAA
22403951 TTAAAT-TTTAAAA-ATAATTAATATTAATTT
1 TTAAATATTTAAAATATAATTAATA-TAATTT
22403981 CTTAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 9 0.33
32 12 0.44
33 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
TTAAATATTTAAAATATAATTAATATAATTTAA
Found at i:22404225 original size:26 final size:26
Alignment explanation
Indices: 22404196--22404247 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
22404186 AAACCAAACA
*
22404196 TTTCAAAAGTACTTCT-CAAAAGCAAT
1 TTTCAAAAGCACTT-TGCAAAAGCAAT
* *
22404222 TTTCCATAGCACTTTGCAAAAGCAAT
1 TTTCAAAAGCACTTTGCAAAAGCAAT
22404248 GCTAAACTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (26 bp):
TTTCAAAAGCACTTTGCAAAAGCAAT
Found at i:22407371 original size:16 final size:15
Alignment explanation
Indices: 22407352--22407385 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
22407342 AAAGTTGATA
*
22407352 ATAATTAATATATATT
1 ATAATAAATATA-ATT
22407368 ATAATAAATATAATT
1 ATAATAAATATAATT
22407383 ATA
1 ATA
22407386 TACTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:22423314 original size:24 final size:25
Alignment explanation
Indices: 22423269--22423350 Score: 121
Period size: 26 Copynumber: 3.2 Consensus size: 25
22423259 AATTTTCTTG
* *
22423269 AAATTTTATCGAGGGTAAAATTGTCA
1 AAATTTTACCG-GTGTAAAATTGTCA
22423295 AAATTTTACC-GTGTAAAATTGTCA
1 AAATTTTACCGGTGTAAAATTGTCA
22423319 AAATTTTACCGTGTGTAAAATTGTCA
1 AAATTTTACCG-GTGTAAAATTGTCA
22423345 AAATTT
1 AAATTT
22423351 AACTGGGGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
24 23 0.44
26 29 0.56
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
AAATTTTACCGGTGTAAAATTGTCA
Found at i:22433851 original size:23 final size:23
Alignment explanation
Indices: 22433807--22433851 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22433797 TAATTAAAGT
*
22433807 ATTCAATTTATATTTTTCTTTGC
1 ATTCAATTTATATTTTTATTTGC
*
22433830 ATTCATTTTAT-TTCTTTATTTG
1 ATTCAATTTATATT-TTTATTTG
22433852 AATCGAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.20, C:0.11, G:0.04, T:0.64
Consensus pattern (23 bp):
ATTCAATTTATATTTTTATTTGC
Found at i:22438759 original size:25 final size:26
Alignment explanation
Indices: 22438688--22438748 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
22438678 TATATATAAT
*
22438688 ATATATATTTGATTAAAAATAAAAAA
1 ATATATATTTGATTAAAAATTAAAAA
22438714 ATATATATTTGATTAAAAATTAAAAA
1 ATATATATTTGATTAAAAATTAAAAA
22438740 AT-TATATTT
1 ATATATATTT
22438749 AATAAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 7 0.21
26 27 0.79
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
ATATATATTTGATTAAAAATTAAAAA
Found at i:22448956 original size:10 final size:10
Alignment explanation
Indices: 22448943--22449176 Score: 93
Period size: 10 Copynumber: 23.4 Consensus size: 10
22448933 TCCTTCCCTC
22448943 TTCTTCTTCT
1 TTCTTCTTCT
* *
22448953 TTCTTTTTTT
1 TTCTTCTTCT
*
22448963 TCTCTTCTCCT
1 T-TCTTCTTCT
*
22448974 TTCCTT-TTTT
1 TT-CTTCTTCT
22448984 TTCCTTCTT-T
1 TT-CTTCTTCT
*
22448994 TTCTTTCTTTT
1 TTC-TTCTTCT
22449005 TTCTTC-TCAT
1 TTCTTCTTC-T
*
22449015 TTCCTT-TTTT
1 TT-CTTCTTCT
*
22449025 TTCCTCTT-T
1 TTCTTCTTCT
*
22449034 TTCTTTCTTTT
1 TTC-TTCTTCT
22449045 TTCTTC-TCAT
1 TTCTTCTTC-T
22449055 TTCCTT-TTCT
1 TT-CTTCTTCT
*
22449065 TTCCTCTT-T
1 TTCTTCTTCT
*
22449074 TTCTTTCTTTT
1 TTC-TTCTTCT
*
22449085 TTCTTCTCCT
1 TTCTTCTTCT
22449095 TTCCTT-TTCT
1 TT-CTTCTTCT
22449105 TTC--CTTCT
1 TTCTTCTTCT
22449113 TT-TTCTTTCT
1 TTCTTC-TTCT
* *
22449123 TTCCTCTCCT
1 TTCTTCTTCT
22449133 TTCCTT-TTCT
1 TT-CTTCTTCT
*
22449143 TTCTT-TTCC
1 TTCTTCTTCT
*
22449152 TTCAT-TTCT
1 TTCTTCTTCT
22449161 TTCTTTCTTTCT
1 TTC-TTC-TTCT
22449173 TTCT
1 TTCT
22449177 CTCTCCTTCT
Statistics
Matches: 172, Mismatches: 25, Indels: 53
0.69 0.10 0.21
Matches are distributed among these distances:
8 6 0.03
9 33 0.19
10 85 0.49
11 41 0.24
12 7 0.04
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:22448974 original size:41 final size:39
Alignment explanation
Indices: 22448914--22449185 Score: 218
Period size: 40 Copynumber: 6.6 Consensus size: 39
22448904 AAAAATTACA
* * *
22448914 TTTT-TTTC-TTTTT-TT-TCCTTCCTTCCCTCTTCTTCT
1 TTTTCTTTCTTTTTTCTTCTCCTTCCTT-TCTTTTCCTCT
*
22448950 TCTTTCTTT-TTTTTCTCTTCTCCTTTCCTTTTTTTTCCTTCT
1 T-TTTCTTTCTTTTT-TCTTCTCC-TTCCTTTCTTTTCC-TCT
* *
22448992 TTTTCTTTCTTTTTTCTTCTCATTTCCTTTTTTTTCCTCT
1 TTTTCTTTCTTTTTTCTTCTC-CTTCCTTTCTTTTCCTCT
*
22449032 TTTTCTTTCTTTTTTCTTCTCATTTCCTTT-TCTTTCCTCT
1 TTTTCTTTCTTTTTTCTTCTC-CTTCCTTTCT-TTTCCTCT
22449072 TTTTCTTTCTTTTTTCTTCTCCTTTCCTTT-TCTTTCCTTCT
1 TTTTCTTTCTTTTTTCTTCTCC-TTCCTTTCT-TTTCC-TCT
* *
22449113 TTTTCTTTCTTTCCTCTCCTT-TCCTTTTCTTTCTTTTCCTTCATT
1 TTTTCTTTCTTT--T-TTCTTCTCC-TTCCTTTCTTTTCC-TC--T
22449158 TCTTTCTTTCTTTCTTTCTCTCTCCTTC
1 T-TTTCTTTCTTT-TTTCT-TCTCCTTC
22449186 TCCCCCCACC
Statistics
Matches: 204, Mismatches: 10, Indels: 35
0.82 0.04 0.14
Matches are distributed among these distances:
36 1 0.00
37 3 0.01
38 7 0.03
39 2 0.01
40 78 0.38
41 50 0.25
42 15 0.07
43 19 0.09
44 8 0.04
45 7 0.03
46 14 0.07
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.69
Consensus pattern (39 bp):
TTTTCTTTCTTTTTTCTTCTCCTTCCTTTCTTTTCCTCT
Found at i:22449034 original size:40 final size:41
Alignment explanation
Indices: 22448945--22449173 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 41
22448935 CTTCCCTCTT
* *
22448945 CTTCTTCTTTCTTT-TTTTTCTCTTCTCCTTTCCTTTTTTTTC
1 CTTCTT-TTTCTTTCTTTTT-TCTTCTCATTTCCTTTTCTTTC
*
22448987 CTTCTTTTTCTTTCTTTTTTCTTCTCATTTCCTTTTTTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTCATTTCCTTTTCTTTC
22449028 C-TCTTTTTCTTTCTTTTTTCTTCTCATTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTCATTTCCTTTTCTTTC
*
22449068 C-TCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTCATTTCCTTTTCTTTC
* *
22449108 CTTCTTTTTCTTTC---TTTCCTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTTTTCTTCTCATTTCCTTTTCTTTC
*
22449146 TTTTCCTTCATTTCTTTCTTTCTTTCTT
1 -CTT-CTT--TTTCTTTCTTT-TTTCTT
22449174 TCTCTCTCCT
Statistics
Matches: 171, Mismatches: 6, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
38 23 0.13
39 2 0.01
40 81 0.47
41 41 0.24
42 19 0.11
46 5 0.03
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.70
Consensus pattern (41 bp):
CTTCTTTTTCTTTCTTTTTTCTTCTCATTTCCTTTTCTTTC
Found at i:22449062 original size:17 final size:17
Alignment explanation
Indices: 22448997--22449062 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 17
22448987 CTTCTTTTTC
*
22448997 TTTCTTTTTTCTTCTCA
1 TTTCCTTTTTCTTCTCA
* *
22449014 TTTCCTTTTTTTTCCTCTT
1 TTTCCTTTTTCTT-CTC-A
22449033 TTTCTTTCTTTTTTCTTCTCA
1 TTTC---C-TTTTTCTTCTCA
22449054 TTTCCTTTT
1 TTTCCTTTT
22449063 CTTTCCTCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
17 15 0.39
18 4 0.11
19 4 0.11
21 4 0.11
22 4 0.11
23 7 0.18
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTCCTTTTTCTTCTCA
Found at i:22449101 original size:5 final size:5
Alignment explanation
Indices: 22449091--22449153 Score: 58
Period size: 5 Copynumber: 13.0 Consensus size: 5
22449081 TTTTTTCTTC
* * * *
22449091 TCCTT TCCTT TTCTT TCC-T TCTTT TTCTT T-CTT TCCTC TCCTT TCCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
* *
22449139 TTCTT TCTTT TCCTT
1 TCCTT TCCTT TCCTT
22449154 CATTTCTTTC
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
4 7 0.16
5 38 0.84
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (5 bp):
TCCTT
Found at i:22449245 original size:27 final size:27
Alignment explanation
Indices: 22449214--22449272 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
22449204 GCCCCATTAT
22449214 ACTTTGGCACCA-TCGGTGTCGCCAATC
1 ACTTTGGCA-CATTCGGTGTCGCCAATC
* *
22449241 ACTTTGGCACATTTGGTGTCGCCAATG
1 ACTTTGGCACATTCGGTGTCGCCAATC
22449268 ACTTT
1 ACTTT
22449273 CCCTCCACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (27 bp):
ACTTTGGCACATTCGGTGTCGCCAATC
Found at i:22450985 original size:6 final size:7
Alignment explanation
Indices: 22450968--22450992 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22450958 TTTAAATCAA
22450968 AAAAAAT
1 AAAAAAT
22450975 AAAAAAT
1 AAAAAAT
22450982 AAAAAAT
1 AAAAAAT
22450989 AAAA
1 AAAA
22450993 TAATTTGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:22453128 original size:21 final size:22
Alignment explanation
Indices: 22453104--22453147 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
22453094 AAAAATTCAA
*
22453104 TAAATAAAAATTAT-TAAATAT
1 TAAATAAAAATAATATAAATAT
*
22453125 TAAATTAAAATAATATAAATAT
1 TAAATAAAAATAATATAAATAT
22453147 T
1 T
22453148 TTAAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATAAAAATAATATAAATAT
Found at i:22461611 original size:9 final size:10
Alignment explanation
Indices: 22461597--22461651 Score: 51
Period size: 9 Copynumber: 5.4 Consensus size: 10
22461587 AGTATACATA
22461597 TTTTTAAT-T
1 TTTTTAATAT
22461606 TTTTTAATAT
1 TTTTTAATAT
**
22461616 TTTGGAAATATT
1 TTT-TTAATA-T
22461628 TATTTTAATA-
1 T-TTTTAATAT
22461638 TTTTTAATAT
1 TTTTTAATAT
22461648 TTTT
1 TTTT
22461652 GATGTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
9 16 0.43
10 9 0.24
11 4 0.11
12 6 0.16
13 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (10 bp):
TTTTTAATAT
Found at i:22463317 original size:18 final size:18
Alignment explanation
Indices: 22463261--22463317 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
22463251 TGGCACCTCG
* *
22463261 GTTTTTACATATATCTCT
1 GTTTATACATATATCTGT
* *
22463279 GTGTATAGATATATCCATGT
1 GTTTATACATATAT-C-TGT
*
22463299 GTTTCTACATATATCTGT
1 GTTTATACATATATCTGT
22463317 G
1 G
22463318 CAATTATGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 15 0.50
19 2 0.07
20 13 0.43
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (18 bp):
GTTTATACATATATCTGT
Found at i:22469929 original size:18 final size:19
Alignment explanation
Indices: 22469908--22469952 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
22469898 TATTATTACT
22469908 TAATTTTTTAAAATGA-GG
1 TAATTTTTTAAAATGATGG
* * *
22469926 TAATATTTTAGAGTGATGG
1 TAATTTTTTAAAATGATGG
22469945 TAATTTTT
1 TAATTTTT
22469953 AAATTATTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (19 bp):
TAATTTTTTAAAATGATGG
Found at i:22479809 original size:85 final size:85
Alignment explanation
Indices: 22479664--22479833 Score: 295
Period size: 85 Copynumber: 2.0 Consensus size: 85
22479654 TTAGAGTAGA
* *
22479664 GGTTTAGGCTATTTCTAAATTCCCAAATAACGTAATGAATCATGTCTACAAGCAGTGATTCCAAA
1 GGTTTAGGCTATTTCTAAATTCCCAAATAACGCAATGAATCATGTCTACAAGCAGCGATTCCAAA
*
22479729 CAGTCACCAATTACTTTCGC
66 CACTCACCAATTACTTTCGC
* *
22479749 GGTTTAGGCTATTTCTAAATTCCCAAATAATGCATTGAATCATGTCTACAAGCAGCGATTCCAAA
1 GGTTTAGGCTATTTCTAAATTCCCAAATAACGCAATGAATCATGTCTACAAGCAGCGATTCCAAA
22479814 CACTCACCAATTACTTTCGC
66 CACTCACCAATTACTTTCGC
22479834 CTAGACTCCG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (85 bp):
GGTTTAGGCTATTTCTAAATTCCCAAATAACGCAATGAATCATGTCTACAAGCAGCGATTCCAAA
CACTCACCAATTACTTTCGC
Found at i:22487124 original size:89 final size:89
Alignment explanation
Indices: 22486972--22487889 Score: 1380
Period size: 89 Copynumber: 10.3 Consensus size: 89
22486962 AAATCCGCCA
* *
22486972 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
22487037 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * *
22487061 TCTTCGAACTGCTTCACCACCAGTATGGGAAGGCAAGATATGTTATCTTTGATCTACTCCACGCC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
22487126 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * * *
22487150 TCTCCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACACC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
22487215 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * * *
22487239 TCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTATTATCTCTGATCTATTTCACGCC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
22487304 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * *
22487328 TCTTTGACCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTACCTTTGATCTACTTCACGCC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
22487393 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * *
22487417 TCTTTGACCTGCTTCGCCACCAGTATGGGAAGGCGAAG-TCTGTTATCTCTGATCTACTTCACGC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGC-AAGATCTGTTATCTTTGATCTACTTCACGC
*
22487481 CAGTACATGAAGACAAGATCTGTTT
65 CAGTACATGAAGACAAGATCTGCTT
* * *
22487506 TCTTTGATCCGCTTTGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTT-ATCTACTTCACGC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT-TTGATCTACTTCACGC
*
22487570 CAGTACATGAAGACAAGATTTGCTT
65 CAGTACATGAAGACAAGATCTGCTT
* * * *
22487595 TCTTTGATCTGTTTCGCCACTAGTATGGGAA-G--A-CTCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
22487656 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * *
22487680 TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTACCTTTGATCTACTTCATGCC
1 TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
*
22487745 AGTACATGAAGACAAGATCTGTTTTT
66 AGTACATGAAGACAAGATCTG--CTT
* *
22487771 TCCTTCGATCTACTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATCTTTGATCTACTTCACGC
1 T-CTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGC
*
22487836 CAGTACATGAAGACAAGATCTGTTT
65 CAGTACATGAAGACAAGATCTGCTT
*
22487861 TCTTCGATCCGCTTCGCCACCAGTATGGG
1 TCTTCGATCTGCTTCGCCACCAGTATGGG
22487890 CCGGGTCTTC
Statistics
Matches: 757, Mismatches: 61, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
84 2 0.00
85 76 0.10
86 1 0.00
88 5 0.01
89 583 0.77
90 8 0.01
91 3 0.00
92 79 0.10
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGCTT
Found at i:22497525 original size:3 final size:3
Alignment explanation
Indices: 22497517--22497579 Score: 56
Period size: 3 Copynumber: 20.3 Consensus size: 3
22497507 GTAAACAATG
* * *
22497517 TAA TAA TAA TGA T-A TAA TGA TAAA TAAA TAAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA T-AA T-AA T-AA TAA TAA TAA TAA TAA
*
22497564 TAA TGA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
22497580 GGACTAAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
2 2 0.04
3 39 0.76
4 10 0.20
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22497572 original size:18 final size:18
Alignment explanation
Indices: 22497513--22497580 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
22497503 GATAGTAAAC
22497513 AATG-TAATAATAATGATAT
1 AATGATAATAATAATG--AT
22497532 AATGAT-A-AATAA--AT
1 AATGATAATAATAATGAT
*
22497546 AAATAATAATAATAATGAT
1 -AATGATAATAATAATGAT
22497565 AATGATAATAATAATG
1 AATGATAATAATAATG
22497581 GACTAAATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
14 2 0.05
15 5 0.12
16 1 0.02
17 5 0.12
18 20 0.49
19 7 0.17
20 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (18 bp):
AATGATAATAATAATGAT
Found at i:22497575 original size:32 final size:32
Alignment explanation
Indices: 22497498--22497575 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
22497488 TACAGTGGTA
* * *
22497498 ATAATGATAGTAAACAATGTAATAATAATGAT
1 ATAATGATAATAAACAATATAATAATAATAAT
*
22497530 ATAATGATAAATAAATAA-ATAATAATAATAAT
1 ATAATGAT-AATAAACAATATAATAATAATAAT
22497562 GATAATGATAATAA
1 -ATAATGATAATAA
22497576 TAATGGACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
32 25 0.62
33 15 0.38
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.31
Consensus pattern (32 bp):
ATAATGATAATAAACAATATAATAATAATAAT
Found at i:22498687 original size:16 final size:16
Alignment explanation
Indices: 22498662--22498692 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22498652 TTTAAGTGAA
22498662 TTGAAATACTATATGT
1 TTGAAATACTATATGT
*
22498678 TTGAATTACTATATG
1 TTGAAATACTATATG
22498693 ATATGGTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (16 bp):
TTGAAATACTATATGT
Found at i:22501865 original size:25 final size:25
Alignment explanation
Indices: 22501837--22501884 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
22501827 TTTAATGTTC
*
22501837 AATTTGATA-TATGTGTTTTTTTTCT
1 AATTTGATACT-TGAGTTTTTTTTCT
*
22501862 AATTTGGTACTTGAGTTTTTTTT
1 AATTTGATACTTGAGTTTTTTTT
22501885 TCTCAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.19, C:0.04, G:0.15, T:0.62
Consensus pattern (25 bp):
AATTTGATACTTGAGTTTTTTTTCT
Found at i:22504243 original size:7 final size:7
Alignment explanation
Indices: 22504231--22504261 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
22504221 AATCATATGT
22504231 TTTATTA
1 TTTATTA
22504238 TTTATTA
1 TTTATTA
22504245 TTTATTA
1 TTTATTA
*
22504252 TATATTA
1 TTTATTA
22504259 TTT
1 TTT
22504262 TTCAACGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:22506395 original size:63 final size:63
Alignment explanation
Indices: 22506296--22506424 Score: 215
Period size: 63 Copynumber: 2.0 Consensus size: 63
22506286 CAACCTGATT
*
22506296 TATAACTTAAATTTTGTAATTCAAAATCTATTAAGATGCGCCTCATT-CTCGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAAATCTATTAAGATGCGCCTCATTCCT-GATGTGATAAGAA
* *
22506359 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGTGCCTCATTCCTGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAAATCTATTAAGATGCGCCTCATTCCTGATGTGATAAGAA
22506422 TAT
1 TAT
22506425 CTCTTTGTGA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
63 60 0.97
64 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (63 bp):
TATAACTTAAATTTGGTAATTCAAAATCTATTAAGATGCGCCTCATTCCTGATGTGATAAGAA
Found at i:22507354 original size:35 final size:34
Alignment explanation
Indices: 22507300--22507372 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 34
22507290 AGACCAAGAG
* *
22507300 GATTGAAGGCCAGGGGAGTATGGAAAGTGATTTA
1 GATTGAAGACCAGGGGAGTATGGAAAGTGATTCA
22507334 GATTGAAGACCATGGGGAGTATGGAAAGTGATTCA
1 GATTGAAGACCA-GGGGAGTATGGAAAGTGATTCA
22507369 GATT
1 GATT
22507373 CAGATTGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 11 0.31
35 25 0.69
ACGTcount: A:0.33, C:0.07, G:0.36, T:0.25
Consensus pattern (34 bp):
GATTGAAGACCAGGGGAGTATGGAAAGTGATTCA
Found at i:22507600 original size:57 final size:59
Alignment explanation
Indices: 22507539--22507667 Score: 142
Period size: 57 Copynumber: 2.2 Consensus size: 59
22507529 CTCATGAGAT
* * *
22507539 TATATTATAATTTTTATGAATTTATATTT-TAAT-A-ATATTAAGAATGTTATTAAATTA
1 TATATTATAATTTTTATGAAATTATATTTGTAATAACATATTAA-AATATGATTAAATTA
* * *
22507596 TATATTTTTATTTTTATTAAATTATATTTGGTAATAATCATATTAAAATATGATTAAATTA
1 TATATTATAATTTTTATGAAATTATATTT-GTAATAA-CATATTAAAATATGATTAAATTA
22507657 T-TATTA-AATTT
1 TATATTATAATTT
22507668 AATAATAATC
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
57 25 0.42
59 8 0.14
60 5 0.08
61 14 0.24
62 7 0.12
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (59 bp):
TATATTATAATTTTTATGAAATTATATTTGTAATAACATATTAAAATATGATTAAATTA
Found at i:22510358 original size:16 final size:17
Alignment explanation
Indices: 22510326--22510359 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22510316 TAATAGTGGT
*
22510326 TTGAAATGTTAACTTAA
1 TTGAAATATTAACTTAA
22510343 TTGAAATATT-ACTTAA
1 TTGAAATATTAACTTAA
22510359 T
1 T
22510360 GACTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (17 bp):
TTGAAATATTAACTTAA
Found at i:22518001 original size:35 final size:35
Alignment explanation
Indices: 22517926--22518017 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 35
22517916 GTACATCGAT
* * *
22517926 AATCCAACCATAACACGCCAGATGCTCATACGAGCC
1 AATCCAACCAAAACACGCCA-ATGCTCAAAAGAGCC
** *
22517962 AATCCCTCCAAAACACGCCAATGCTCAAAAGAGCT
1 AATCCAACCAAAACACGCCAATGCTCAAAAGAGCC
*
22517997 AATCCAACCGAAACACGCCAA
1 AATCCAACCAAAACACGCCAA
22518018 ACAGAAAGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 30 0.64
36 17 0.36
ACGTcount: A:0.40, C:0.36, G:0.12, T:0.12
Consensus pattern (35 bp):
AATCCAACCAAAACACGCCAATGCTCAAAAGAGCC
Found at i:22520628 original size:17 final size:19
Alignment explanation
Indices: 22520606--22520642 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
22520596 TTTAGGGAAT
22520606 AAATT-GAATAAAAT-ACA
1 AAATTGGAATAAAATGACA
*
22520623 AAATTGGTATAAAATGACA
1 AAATTGGAATAAAATGACA
22520642 A
1 A
22520643 TTGACTGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 8 0.47
19 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.11, T:0.24
Consensus pattern (19 bp):
AAATTGGAATAAAATGACA
Found at i:22526333 original size:20 final size:19
Alignment explanation
Indices: 22526310--22526414 Score: 84
Period size: 20 Copynumber: 5.3 Consensus size: 19
22526300 TAAGTGCGTT
22526310 CAGGGGTACTGAAGTACAAA
1 CAGGGGTAC-GAAGTACAAA
* * ** *
22526330 CAGGGGCACGTATGTGTAAT
1 CAGGGGTACG-AAGTACAAA
22526350 CAGGGGTACGAAGTACAAA
1 CAGGGGTACGAAGTACAAA
* * * *
22526369 CAGGGGCACGTATGTGCAAT
1 CAGGGGTACG-AAGTACAAA
22526389 CAGGGGTACCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
*
22526409 TAGGGG
1 CAGGGG
22526415 CATGTATGTG
Statistics
Matches: 63, Mismatches: 19, Indels: 6
0.72 0.22 0.07
Matches are distributed among these distances:
19 15 0.24
20 46 0.73
21 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.34, T:0.16
Consensus pattern (19 bp):
CAGGGGTACGAAGTACAAA
Found at i:22526422 original size:79 final size:81
Alignment explanation
Indices: 22526290--22526469 Score: 247
Period size: 79 Copynumber: 2.2 Consensus size: 81
22526280 AGAGTATAAT
* * ** * * *
22526290 CAGGGGCACTTAAGTGCGTTCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGTAA-TCAGG
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAG
22526354 GGTAC-GAAGTACAAA
66 GGTACTGAAGTACAAA
* *
22526369 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAATAGGGGCATGTATGTGCAATTCAAG
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAG
22526434 GGTACTGAAGTACAAA
66 GGTACTGAAGTACAAA
* *
22526450 TAGGGACACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
22526470 TCATGCAATA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 51 0.58
80 9 0.10
81 28 0.32
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (81 bp):
CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAAG
GGTACTGAAGTACAAA
Found at i:22526449 original size:41 final size:41
Alignment explanation
Indices: 22526290--22526472 Score: 248
Period size: 40 Copynumber: 4.6 Consensus size: 41
22526280 AGAGTATAAT
* * *
22526290 CAGGGGCACTTAAGTGC-GTTCAGGGGTACTGAAGTACAAA
1 CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
*
22526330 CAGGGGCACGTATGTGTAA-TCAGGGGTAC-GAAGTACAAA
1 CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
*
22526369 CAGGGGCACGTATGTGCAA-TCAGGGGTACCGAAGTACAAA
1 CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
* * *
22526409 TAGGGGCATGTATGTGCAATTCAAGGGTACTGAAGTACAAA
1 CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
* *
22526450 TAGGGACACGTATGTGCAATTCA
1 CAGGGGCACGTATGTGCAATTCA
22526473 TGCAATAATT
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 38 0.29
40 51 0.40
41 40 0.31
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.20
Consensus pattern (41 bp):
CAGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAA
Found at i:22529296 original size:34 final size:34
Alignment explanation
Indices: 22529207--22529323 Score: 101
Period size: 34 Copynumber: 3.4 Consensus size: 34
22529197 TTCTGATCTT
* * * * * * *
22529207 ATATGAAATTCTAATCTGACATATGCTTCTAGAA
1 ATATGAAATTTTGATCTGATATATGTTTTTGGTA
* * * *
22529241 ATATGACATTCTAATCCGATATATGTTTTTGG-A
1 ATATGAAATTTTGATCTGATATATGTTTTTGGTA
**
22529274 ATTATGGCATTTTGATCTGATATATGTTTTTGGTA
1 A-TATGAAATTTTGATCTGATATATGTTTTTGGTA
22529309 ATATGAAATTTTGAT
1 ATATGAAATTTTGAT
22529324 ATTATATTTG
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
33 2 0.03
34 65 0.94
35 2 0.03
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (34 bp):
ATATGAAATTTTGATCTGATATATGTTTTTGGTA
Found at i:22529372 original size:41 final size:41
Alignment explanation
Indices: 22529314--22529408 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
22529304 TGGTAATATG
* ** *
22529314 AAATTTTGATATTATATTTGTATTTGTGTACATTATAAGT-A
1 AAATTTTG-TATGATATTTACATTTGTGCACATTATAAGTAA
**
22529355 AAATTTTGTGATGATATTTACATTTGTGCATGTTATAAGTAA
1 AAATTTTGT-ATGATATTTACATTTGTGCACATTATAAGTAA
22529397 AAATTTTGTATG
1 AAATTTTGTATG
22529409 TGGGCCAAGC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 1 0.02
41 35 0.76
42 10 0.22
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.48
Consensus pattern (41 bp):
AAATTTTGTATGATATTTACATTTGTGCACATTATAAGTAA
Found at i:22532185 original size:17 final size:17
Alignment explanation
Indices: 22532163--22532195 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22532153 CCATCACATT
22532163 AAAGGCACATAAATGTG
1 AAAGGCACATAAATGTG
22532180 AAAGGCACATAAATGT
1 AAAGGCACATAAATGT
22532196 AAGACCCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.18
Consensus pattern (17 bp):
AAAGGCACATAAATGTG
Found at i:22533885 original size:20 final size:20
Alignment explanation
Indices: 22533818--22533884 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 20
22533808 ATATTAAATA
*
22533818 TTTAAAATAAAGAATAACAT
1 TTTAAAATAAAGATTAACAT
* * * * *
22533838 TATAAAAGTAAAAATAAAGAA
1 TTTAAAA-TAAAGATTAACAT
22533859 TTTAAATATAAAGATTAA-AT
1 TTTAAA-ATAAAGATTAACAT
22533879 TTTAAA
1 TTTAAA
22533885 TTTAAATATA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
20 13 0.37
21 21 0.60
22 1 0.03
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (20 bp):
TTTAAAATAAAGATTAACAT
Found at i:22535681 original size:12 final size:12
Alignment explanation
Indices: 22535664--22535697 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
22535654 CGGCCCGCCC
22535664 ATATTAATTTTT
1 ATATTAATTTTT
*
22535676 ATATTATTTTTT
1 ATATTAATTTTT
22535688 ATA-TAATTTT
1 ATATTAATTTT
22535698 AAAATAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:22539621 original size:3 final size:3
Alignment explanation
Indices: 22539613--22539637 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22539603 CTATCTTGTC
22539613 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
22539638 AACTACTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:22541846 original size:20 final size:21
Alignment explanation
Indices: 22541823--22541862 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
22541813 AAATAAAGGA
*
22541823 ATTACACTTGAAATA-AAAAT
1 ATTACACTTCAAATATAAAAT
*
22541843 ATTACATTTCAAATATAAAA
1 ATTACACTTCAAATATAAAA
22541863 AATACATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (21 bp):
ATTACACTTCAAATATAAAAT
Found at i:22544076 original size:33 final size:33
Alignment explanation
Indices: 22544034--22544101 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
22544024 CAACCGAAGT
22544034 TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
1 TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
22544067 TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
1 TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
22544100 TA
1 TA
22544102 ACATTAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.12, G:0.26, T:0.13
Consensus pattern (33 bp):
TATGGAAAGGCCAAGCGATAAAAGAATGGAAAC
Found at i:22550472 original size:35 final size:30
Alignment explanation
Indices: 22550433--22550506 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 30
22550423 TAATTTTAAT
22550433 AATTAAATTTACATTATTAAATCAAAAAATAGAAA-
1 AATTAAATTTAC-TTA--AAAT--AAAAATA-AAAG
22550468 AATTAAA-TTACTTAAAATAAAAATAAAAG
1 AATTAAATTTACTTAAAATAAAAATAAAAG
22550497 AATTAAATTT
1 AATTAAATTT
22550507 CAAATATACA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
28 3 0.08
29 14 0.38
30 2 0.05
31 4 0.11
33 3 0.08
34 4 0.11
35 7 0.19
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (30 bp):
AATTAAATTTACTTAAAATAAAAATAAAAG
Found at i:22550519 original size:29 final size:28
Alignment explanation
Indices: 22550457--22550519 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
22550447 TATTAAATCA
*
22550457 AAAAATAGAAAAATTAAATTACTTAAAAT
1 AAAAATAGAAAAATTAAATTA-TCAAAAT
22550486 AAAAATA-AAAGAATTAAATT-TCAAATAT
1 AAAAATAGAAA-AATTAAATTATCAAA-AT
22550514 ACAAAA
1 A-AAAA
22550520 AGTGAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 4 0.13
28 6 0.20
29 20 0.67
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (28 bp):
AAAAATAGAAAAATTAAATTATCAAAAT
Found at i:22552064 original size:28 final size:27
Alignment explanation
Indices: 22552006--22552064 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
22551996 GATTTCGCGG
22552006 AAAATGGCCCATTCCGGTAAATACTTAA
1 AAAATGGCCCATTCCGGTAAATA-TTAA
* *
22552034 AAAAGTGGCCTATTTCGGTAAAT-TTAA
1 AAAA-TGGCCCATTCCGGTAAATATTAA
22552061 AAAA
1 AAAA
22552065 AAAGGGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.29
28 4 0.14
29 16 0.57
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATGGCCCATTCCGGTAAATATTAA
Found at i:22553359 original size:63 final size:63
Alignment explanation
Indices: 22553258--22553385 Score: 148
Period size: 63 Copynumber: 2.0 Consensus size: 63
22553248 TCACAAGTAT
* * * * * * **
22553258 CATAGCATGCACACTCATTCCCCGCATCATCACCTTCAGCTTTGGTTTATTTTACAAAACCAC
1 CATAGCACGCACAATCATTCCCCACATCAACACATTCAGCATAAGTTTATTTTACAAAACCAC
* * * *
22553321 CATAGCACGCACAATTATTCCCTACATCAACACATTCAGCATAAGTTTATTTTACACAAGCAC
1 CATAGCACGCACAATCATTCCCCACATCAACACATTCAGCATAAGTTTATTTTACAAAACCAC
22553384 CA
1 CA
22553386 CCGTACATGC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.32, C:0.31, G:0.09, T:0.28
Consensus pattern (63 bp):
CATAGCACGCACAATCATTCCCCACATCAACACATTCAGCATAAGTTTATTTTACAAAACCAC
Found at i:22557521 original size:17 final size:17
Alignment explanation
Indices: 22557499--22557532 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22557489 AAATTAAAAC
22557499 TTAAATCATAATTACCT
1 TTAAATCATAATTACCT
**
22557516 TTAAATTTTAATTACCT
1 TTAAATCATAATTACCT
22557533 ACCAATAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAATCATAATTACCT
Found at i:22561039 original size:17 final size:18
Alignment explanation
Indices: 22561007--22561043 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
22560997 TGAAATTTAT
*
22561007 CAAGTTTTATTTTAAAAA
1 CAAGTTTTAGTTTAAAAA
22561025 CAAGTTTT-GTTTAAAAA
1 CAAGTTTTAGTTTAAAAA
22561042 CA
1 CA
22561044 TTATATTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (18 bp):
CAAGTTTTAGTTTAAAAA
Found at i:22563055 original size:20 final size:20
Alignment explanation
Indices: 22563026--22563135 Score: 86
Period size: 20 Copynumber: 5.5 Consensus size: 20
22563016 AAATTCGAAG
* *
22563026 GTATCGATACTTTTAGTGAA
1 GTATCAATACTTTTAGTAAA
* *
22563046 GTATCAATAC-TTTACCTTAA
1 GTATCAATACTTTTA-GTAAA
*
22563066 GTATCAATA-TTTT-TTAAAA
1 GTATCAATACTTTTAGT-AAA
* *
22563085 CTATCAATAC-TTTAGCTTAA
1 GTATCAATACTTTTAG-TAAA
22563105 GTATCAATACTTTT-GTTAAA
1 GTATCAATACTTTTAG-TAAA
22563125 GTATCAATACT
1 GTATCAATACT
22563136 GCAATGCCCA
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
18 1 0.01
19 17 0.24
20 50 0.69
21 4 0.06
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (20 bp):
GTATCAATACTTTTAGTAAA
Found at i:22563090 original size:39 final size:40
Alignment explanation
Indices: 22563047--22563135 Score: 137
Period size: 39 Copynumber: 2.2 Consensus size: 40
22563037 TTTAGTGAAG
22563047 TATCAATACTTTACCTTAAGTATCAATA-TTTT-TTAAAAC
1 TATCAATACTTTACCTTAAGTATCAATACTTTTGTT-AAAC
* *
22563086 TATCAATACTTTAGCTTAAGTATCAATACTTTTGTTAAAG
1 TATCAATACTTTACCTTAAGTATCAATACTTTTGTTAAAC
22563126 TATCAATACT
1 TATCAATACT
22563136 GCAATGCCCA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 27 0.59
40 17 0.37
41 2 0.04
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.43
Consensus pattern (40 bp):
TATCAATACTTTACCTTAAGTATCAATACTTTTGTTAAAC
Found at i:22571223 original size:68 final size:71
Alignment explanation
Indices: 22571081--22571225 Score: 156
Period size: 68 Copynumber: 2.1 Consensus size: 71
22571071 TATTAAATCT
* * *
22571081 TATTAAATTAATAAAATATTTTTCTACAAGATAAACATTAAATTAAATTTAATATTAAGATAATC
1 TATTAAATTAATAAAATATCTATCTA-AAGATAAACATTAAATTAAATTTAATATTAAGATAATA
**
22571146 AGTTGAA
65 AAATGAA
** *
22571153 TATTAAATTAATAAAATA-CTAT-T-AAGATAAGTATTAAATTAAATTTAATGTTAA-ATATATT
1 TATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTAAATTTAATATTAAGATA-A-T
22571214 AAAAT-AA
64 AAAATGAA
22571221 TATTA
1 TATTA
22571226 TTTTTGGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
67 3 0.05
68 36 0.57
69 3 0.05
70 1 0.02
71 2 0.03
72 18 0.29
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (71 bp):
TATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTAAATTTAATATTAAGATAATAA
AATGAA
Found at i:22571627 original size:19 final size:19
Alignment explanation
Indices: 22571603--22571645 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
22571593 AAAACATCAT
* *
22571603 ATTAATTTTAATTAATTTG
1 ATTAATTTAAATTAACTTG
*
22571622 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTAACTTG
22571641 ATTAA
1 ATTAA
22571646 AATTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:22573144 original size:22 final size:22
Alignment explanation
Indices: 22573117--22573183 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 22
22573107 CGAATAAACT
*
22573117 GAGAGCACAAATGTGCTAATCA
1 GAGAGCACTAATGTGCTAATCA
*
22573139 GAGAGCACTAACGTGCTAATAGTCA
1 GAGAGCACTAATGTGCT-A-A-TCA
22573164 GAGAGCACTAATGTGCTAAT
1 GAGAGCACTAATGTGCTAAT
22573184 AATCAGAGCG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
22 16 0.41
23 2 0.05
24 2 0.05
25 19 0.49
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (22 bp):
GAGAGCACTAATGTGCTAATCA
Found at i:22573168 original size:25 final size:25
Alignment explanation
Indices: 22573133--22573191 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
22573123 ACAAATGTGC
22573133 TAATCAGAGAGCACTAACGTGCTAA
1 TAATCAGAGAGCACTAACGTGCTAA
* *
22573158 TAGTCAGAGAGCACTAATGTGCTAA
1 TAATCAGAGAGCACTAACGTGCTAA
22573183 TAATCAGAG
1 TAATCAGAG
22573192 CGCGCGCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (25 bp):
TAATCAGAGAGCACTAACGTGCTAA
Found at i:22580087 original size:12 final size:11
Alignment explanation
Indices: 22580072--22580187 Score: 65
Period size: 12 Copynumber: 9.5 Consensus size: 11
22580062 AATTTCATAA
22580072 AAAAAAAGAAAG
1 AAAAAAA-AAAG
22580084 AAAAGAAAAAAG
1 AAAA-AAAAAAG
22580096 AAAAAAAAACA-
1 AAAAAAAAA-AG
*
22580107 AAAGAAAAAAG
1 AAAAAAAAAAG
22580118 AAAACTCAAAGTCAAA-
1 AAAA---AAA---AAAG
*
22580134 ATACAAAAAAATG
1 A-A-AAAAAAAAG
22580147 AAAATAAAAAAG
1 AAAA-AAAAAAG
*
22580159 AAAAAGAAAAG
1 AAAAAAAAAAG
22580170 AAAAAGAAAAAAG
1 -AAAA-AAAAAAG
22580183 AAAAA
1 AAAAA
22580188 GGAGAGGCCA
Statistics
Matches: 83, Mismatches: 6, Indels: 31
0.69 0.05 0.26
Matches are distributed among these distances:
10 1 0.01
11 25 0.30
12 34 0.41
13 10 0.12
14 3 0.04
15 3 0.04
16 1 0.01
17 4 0.05
18 2 0.02
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.04
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:22580089 original size:9 final size:8
Alignment explanation
Indices: 22580072--22580187 Score: 67
Period size: 9 Copynumber: 13.6 Consensus size: 8
22580062 AATTTCATAA
22580072 AAAAAAAG
1 AAAAAAAG
22580080 AAAGAAAAG
1 AAA-AAAAG
22580089 -AAAAAAG
1 AAAAAAAG
22580096 AAAAAAA-
1 AAAAAAAG
*
22580103 AACAAAAG
1 AAAAAAAG
22580111 -AAAAAAG
1 AAAAAAAG
22580118 AAAACTCAAAG
1 AAAA---AAAG
* * *
22580129 TCAAAATAC
1 -AAAAAAAG
22580138 AAAAAAATG
1 AAAAAAA-G
*
22580147 AAAATAAAA
1 AAAA-AAAG
22580156 AAGAAAAAG
1 AA-AAAAAG
*
22580165 AAAAGAAAA
1 AAAA-AAAG
22580174 AGAAAAAAG
1 A-AAAAAAG
22580183 AAAAA
1 AAAAA
22580188 GGAGAGGCCA
Statistics
Matches: 83, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
7 17 0.20
8 25 0.30
9 26 0.31
10 8 0.10
11 4 0.05
12 3 0.04
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:22580096 original size:7 final size:7
Alignment explanation
Indices: 22580073--22580121 Score: 62
Period size: 7 Copynumber: 6.6 Consensus size: 7
22580063 ATTTCATAAA
22580073 AAAAAAG
1 AAAAAAG
22580080 AAAGAAAAG
1 -AA-AAAAG
22580089 AAAAAAG
1 AAAAAAG
*
22580096 AAAAAAA
1 AAAAAAG
22580103 AACAAAAG
1 AA-AAAAG
22580111 AAAAAAG
1 AAAAAAG
22580118 AAAA
1 AAAA
22580122 CTCAAAGTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
7 22 0.59
8 10 0.27
9 5 0.14
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:22580109 original size:22 final size:23
Alignment explanation
Indices: 22580073--22580121 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
22580063 ATTTCATAAA
*
22580073 AAAAAAGAAAGAAAAGAAAAAAG
1 AAAAAAGAAACAAAAGAAAAAAG
22580096 AAAAAA-AAACAAAAGAAAAAAG
1 AAAAAAGAAACAAAAGAAAAAAG
22580118 AAAA
1 AAAA
22580122 CTCAAAGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (23 bp):
AAAAAAGAAACAAAAGAAAAAAG
Found at i:22580162 original size:5 final size:6
Alignment explanation
Indices: 22580140--22580188 Score: 57
Period size: 6 Copynumber: 8.0 Consensus size: 6
22580130 CAAAATACAA
22580140 AAAAATG AAAATA- AAAAAG AAAAAG -AAAAG AAAAAG AAAAAAG AAAAAG
1 AAAAA-G AAAA-AG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG
22580189 GAGAGGCCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
5 6 0.16
6 21 0.55
7 10 0.26
8 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:22582465 original size:44 final size:44
Alignment explanation
Indices: 22582417--22582972 Score: 132
Period size: 44 Copynumber: 12.8 Consensus size: 44
22582407 AAAATAACAT
*
22582417 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGTGA
* * * * ** *
22582461 ATCTTATCTTCCC-CAGGAGTAG-GGAAGCAGATTTAAG-CCATTA
1 ATCTTATC-TCCCTAAGCAGTAGTGG-AGTAGATTGAAGACGGTGA
* * * * * * * * **
22582504 GTCCTATCTCCCT-GGACAGCAGGGGAATAGGTGGAAGATTGT-A
1 ATCTTATCTCCCTAAG-CAGTAGTGGAGTAGATTGAAGACGGTGA
* * * **
22582547 AGCCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGTGA
* * * * **
22582592 ATCTTATCTTCCC--AGGAGTAG-GGAAGCAGATTTAAGCCACT-A
1 ATCTTATC-TCCCTAAGCAGTAGTGG-AGTAGATTGAAGACGGTGA
* * * * * * ***
22582634 GTCCTATCTCCCT-GGACAATAGTGGAATAGGTTGAAGGTTGTGA
1 ATCTTATCTCCCTAAG-CAGTAGTGGAGTAGATTGAAGACGGTGA
* * * * * *****
22582678 ATCCTATCTCCCT-GGTCAGTAGTGGAATAGGTTGAAAATTACAA
1 ATCTTATCTCCCTAAG-CAGTAGTGGAGTAGATTGAAGACGGTGA
* *
22582722 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGTGA
* * * * *
22582766 ATCTTATCT-TCTCAGGAGTAG-GGAAGCAGATTTGAACCAC--T-A
1 ATCTTATCTCCCTAAGCAGTAGTGG-AGTAGA-TTGAA-GACGGTGA
* * * * * * * * * *
22582808 GTCCTATCTCCCT-GGACAGCAGGGGAATAGGTGGAAGA--TTGT
1 ATCTTATCTCCCTAAG-CAGTAGTGGAGTAGATTGAAGACGGTGA
* ** *
22582850 ATGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAA-A-ATTACA
1 AT--CTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGT-GA
* *
22582895 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGTGA
* *
22582940 ATCTTATTTTCCCCAAG-AGTAG-GGAAGTAGATT
1 ATCTTA-TCTCCCTAAGCAGTAGTGG-AGTAGATT
22582973 TAAGCCACTA
Statistics
Matches: 366, Mismatches: 112, Indels: 68
0.67 0.21 0.12
Matches are distributed among these distances:
41 6 0.02
42 31 0.08
43 82 0.22
44 219 0.60
45 25 0.07
46 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGTGA
Found at i:22582661 original size:130 final size:132
Alignment explanation
Indices: 22582419--22582703 Score: 434
Period size: 130 Copynumber: 2.2 Consensus size: 132
22582409 AATAACATAT
* **
22582419 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAGGAGTAGG
* *
22582484 GAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGGACAGCAGGGGAATAGGTGGAAGATTGT-AA
66 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAACAGGGGAATAGGTGGAAGATTGTGAA
22582548 GC
131 GC
22582550 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTT-CCCAGGAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAGGAGTAGG
* * * *
22582614 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAATAGTGGAATAGGTTGAAGGTTGTGAA
66 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAACAGGGGAATAGGTGGAAGATTGTGAA
*
22582679 TC
131 GC
*
22582681 C-TATCTCCCT-GGTCAGTAGTGGA
1 CTTATCTCCCTAAG-CAGTAGTGGA
22582704 ATAGGTTGAA
Statistics
Matches: 141, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
129 1 0.01
130 87 0.62
131 53 0.38
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (132 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAGGAGTAGG
GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAACAGGGGAATAGGTGGAAGATTGTGAA
GC
Found at i:22583079 original size:44 final size:44
Alignment explanation
Indices: 22582984--22583083 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 44
22582974 AAGCCACTAG
* ** **
22582984 TCCTATCTCCCTGGACAGCAGTGGAATATGTTGAAGGTTGTGAA
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTCAGAA
* *
22583028 TCCTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAAATTACAG-A
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATT-CAGAA
*
22583072 TCTTATCTCCCT
1 TCCTATCTCCCT
22583084 AAGCAATAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
44 45 0.98
45 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (44 bp):
TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTCAGAA
Found at i:22583233 original size:44 final size:45
Alignment explanation
Indices: 22583185--22583447 Score: 172
Period size: 44 Copynumber: 6.0 Consensus size: 45
22583175 AACAGGGGAA
* *
22583185 TAGGTGGAAGATTGTAAG-CCTTATCTCCCTAAGCAGTAGTGGAG
1 TAGGTTGAAGAATGTAAGACCTTATCTCCCTAAGCAGTAGTGGAG
* * *
22583229 TAGGTTGAA-AAT-TACAGATCTTATATCCCTAAGTAGTAGTGGAG
1 TAGGTTGAAGAATGTA-AGACCTTATCTCCCTAAGCAGTAGTGGAG
* * ** * * * * *
22583273 CAGATTGAAGACGGTGA-ATCTTATTTTCCC-CAGAAGTAG-GGAAG
1 TAGGTTGAAGAATGTAAGACCTTA-TCTCCCTAAGCAGTAGTGG-AG
* * * * * ** * *
22583317 CAGGTTTAAGCCA-CT-AGTCC-TATCTCCCTGGGCAGCAGTGGAA
1 TAGGTTGAAG-AATGTAAGACCTTATCTCCCTAAGCAGTAGTGGAG
*
22583360 TAGGTTGAAGATTGTAAG-CCTTATCTCCCTAAGCAGTAGTGGAG
1 TAGGTTGAAGAATGTAAGACCTTATCTCCCTAAGCAGTAGTGGAG
*
22583404 TAGGTTGAA-AAT-TACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TAGGTTGAAGAATGTA-AGACCTTATCTCCCTAAGCAGTAGTGGAG
22583448 CAGATAAAAA
Statistics
Matches: 167, Mismatches: 37, Indels: 30
0.71 0.16 0.13
Matches are distributed among these distances:
42 9 0.05
43 30 0.18
44 120 0.72
45 7 0.04
46 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (45 bp):
TAGGTTGAAGAATGTAAGACCTTATCTCCCTAAGCAGTAGTGGAG
Found at i:22583469 original size:44 final size:44
Alignment explanation
Indices: 22583379--22583461 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
22583369 GATTGTAAGC
* * *
22583379 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGGATGAAAATAACAGAT
22583423 CTTATCTCCCTAAGCAGTAGTGGAGCA-GAT-AAAA-AACAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGGATGAAAATAACAG
22583462 TGAATCTTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 4 0.11
42 4 0.11
43 2 0.06
44 26 0.72
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGGATGAAAATAACAGAT
Found at i:22583469 original size:175 final size:175
Alignment explanation
Indices: 22582550--22583452 Score: 1361
Period size: 175 Copynumber: 5.2 Consensus size: 175
22582540 GATTGTAAGC
**
22582550 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTT-CCCAGGAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
** *
22582614 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAATAGTGGAATAGGTTGAAGGTTGTGAA
66 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGT-AA
* * * *
22582679 TCC-TATCTCCCT-GGTCAGTAGTGGAATAGGTTGAAAATTACAAAT
130 GCCTTATCTCCCTAAG-CAGTAGTGGAGTAGGTTGAAAATTACAGAT
*
22582724 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTT-CTCAGGAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
* * *
22582788 GAAGCAGATTTGAA-CCACTAGTCCTATCTCCCTGGACAGCAGGGGAATAGGTGGAAGATTGTAT
66 GAAGCAGATTT-AAGCCACTAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAA
22582852 GCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
130 GCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
* *
22582898 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATTTTCCCCAAGAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
* * *
22582963 GAAGTAGATTTAAGCCACTAGTCCTATCTCCCTGGACAGCAGTGGAATATGTTGAAGGTTGTGAA
66 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGT-AA
* ** * *
22583028 TCC-TATCT-CCTTGGTCAGCAGTGGAATAGGTTGAAAATTACAGAT
130 GCCTTATCTCCCTAAG-CAGTAGTGGAGTAGGTTGAAAATTACAGAT
* * ** *
22583073 CTTATCTCCCTAAGCAATAGTGCAGCAGATCGAAGACGGCAAATCTTATCTTCCCTAGGAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
* * * *
22583138 GAAGCAGATTTAAGTCACTAGTCCTATCTCCCTGGACAACAGGGGAATAGGTGGAAGATTGTAAG
66 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAG
22583203 CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
131 CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
* * * * *
22583248 CTTATATCCCTAAGTAGTAGTGGAGCAGATTGAAGACGGTGAATCTTATTTTCCCCAGAAGTAGG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
* *
22583313 GAAGCAGGTTTAAGCCACTAGTCCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATTGTAAG
66 GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAG
22583378 CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
131 CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
22583423 CTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAT
22583453 AAAAAACAGT
Statistics
Matches: 656, Mismatches: 64, Indels: 17
0.89 0.09 0.02
Matches are distributed among these distances:
173 3 0.00
174 213 0.32
175 433 0.66
176 7 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (175 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGG
GAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAG
CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
Found at i:22591581 original size:17 final size:17
Alignment explanation
Indices: 22591559--22591592 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22591549 CTTAGAAGAA
22591559 CTTAGTCCAACAAACTT
1 CTTAGTCCAACAAACTT
*
22591576 CTTAGTCCAACATACTT
1 CTTAGTCCAACAAACTT
22591593 TTTAACATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (17 bp):
CTTAGTCCAACAAACTT
Found at i:22594065 original size:22 final size:19
Alignment explanation
Indices: 22594031--22594071 Score: 55
Period size: 22 Copynumber: 2.0 Consensus size: 19
22594021 ATTTAGACTT
22594031 TAAAATGAAGTTTTTAGTTA
1 TAAAATGAAGTTTTT-GTTA
22594051 TAAAATTGCAAGTTTTTGTTA
1 TAAAA-TG-AAGTTTTTGTTA
22594072 AAAGTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 8 0.42
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (19 bp):
TAAAATGAAGTTTTTGTTA
Found at i:22600749 original size:28 final size:27
Alignment explanation
Indices: 22600684--22600749 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
22600674 CATCTTTCAG
**
22600684 TTTTAAATTTTGTCTATTTATTCATTT
1 TTTTAAATTTTGAATATTTATTCATTT
*
22600711 TTTTATTATTTTGAATATTTATTC-TTAGT
1 TTTTA-AATTTTGAATATTTATTCATT--T
22600740 TTTTAAATTT
1 TTTTAAATTT
22600750 ATTCTTTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 7 0.22
28 19 0.59
29 6 0.19
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTTAAATTTTGAATATTTATTCATTT
Found at i:22606821 original size:44 final size:44
Alignment explanation
Indices: 22606771--22606855 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
22606761 AATTAATTAT
22606771 AGAAAATACTTACTAATCTAATCGAGTCACGAATTAGTAGTTAC
1 AGAAAATACTTACTAATCTAATCGAGTCACGAATTAGTAGTTAC
*
22606815 AGAAAATACTTACTAATCTAATCGAGTCATGAATTAGTAGT
1 AGAAAATACTTACTAATCTAATCGAGTCACGAATTAGTAGT
22606856 ATGAATCCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (44 bp):
AGAAAATACTTACTAATCTAATCGAGTCACGAATTAGTAGTTAC
Found at i:22607578 original size:9 final size:9
Alignment explanation
Indices: 22607484--22607577 Score: 127
Period size: 9 Copynumber: 10.4 Consensus size: 9
22607474 GTAGTGATTC
*
22607484 AATTTGGTT
1 AATTCGGTT
*
22607493 AATTCGGGT
1 AATTCGGTT
22607502 AATTCGGTT
1 AATTCGGTT
*
22607511 AATTCGGGT
1 AATTCGGTT
22607520 AATTCGGTT
1 AATTCGGTT
*
22607529 AATTCGATT
1 AATTCGGTT
22607538 AATTCAGG-T
1 AATTC-GGTT
22607547 AATTCGGTT
1 AATTCGGTT
22607556 AATTCGGTT
1 AATTCGGTT
*
22607565 AATTTGGTT
1 AATTCGGTT
22607574 AATT
1 AATT
22607578 TTTAACCAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
8 2 0.03
9 72 0.96
10 1 0.01
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:22613075 original size:21 final size:21
Alignment explanation
Indices: 22613034--22613075 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
22613024 AGCCTTTAGA
* *
22613034 TAAGGAGAGATTTTGGATAAT
1 TAAGGAGAGAGTTAGGATAAT
22613055 TAAGG-GAGAGTTAGGACTAAT
1 TAAGGAGAGAGTTAGGA-TAAT
22613076 GAACTTGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.38, C:0.02, G:0.31, T:0.29
Consensus pattern (21 bp):
TAAGGAGAGAGTTAGGATAAT
Found at i:22619813 original size:13 final size:13
Alignment explanation
Indices: 22619779--22619806 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22619769 ACCTTAAAAT
22619779 ATATATTATATAC
1 ATATATTATATAC
22619792 ATATATTATATAC
1 ATATATTATATAC
22619805 AT
1 AT
22619807 CAATTATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATTATATAC
Found at i:22620742 original size:40 final size:40
Alignment explanation
Indices: 22620668--22620743 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
22620658 ACTGTTCATG
* *
22620668 CCACGTCAGCAAATCGCGTCCTAGGGGGCTCGATTTGTGT
1 CCACGTCAGCAAATCGCGTCCTAGGGGACGCGATTTGTGT
* *
22620708 CCACGTCAGCAAATCGCG-CTTACGTGGACGCGATTT
1 CCACGTCAGCAAATCGCGTCCTA-GGGGACGCGATTT
22620744 CCTGGTGCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.10
40 28 0.90
ACGTcount: A:0.20, C:0.29, G:0.28, T:0.24
Consensus pattern (40 bp):
CCACGTCAGCAAATCGCGTCCTAGGGGACGCGATTTGTGT
Found at i:22623518 original size:50 final size:50
Alignment explanation
Indices: 22623382--22623674 Score: 272
Period size: 50 Copynumber: 5.8 Consensus size: 50
22623372 ATTTGGGTAA
* *
22623382 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATG
*
22623438 AGAGGTCCCATGT----CCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * *
22623484 AGAGGTTCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * *
22623534 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * * * * * *
22623584 AGAACTCCCATGTAAGACCATATCTGAGATATGGCATTGGTAGT-ACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** * *
22623633 AAACATCCCATGTAAGACCATGTCTGGGATATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22623675 TGTTATTATC
Statistics
Matches: 202, Mismatches: 31, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
46 15 0.07
49 42 0.21
50 109 0.54
51 1 0.00
52 23 0.11
56 12 0.06
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:22625650 original size:18 final size:18
Alignment explanation
Indices: 22625627--22625669 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22625617 TACCAAGTGC
*
22625627 GTATCCTAGCCATTATAT
1 GTATCCTAACCATTATAT
*
22625645 GTATCCTAACCCTTATAT
1 GTATCCTAACCATTATAT
*
22625663 GTTTCCT
1 GTATCCT
22625670 TTTCCCAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCATTATAT
Found at i:22629402 original size:126 final size:126
Alignment explanation
Indices: 22629177--22629801 Score: 929
Period size: 126 Copynumber: 5.0 Consensus size: 126
22629167 GGCCAAACAT
*
22629177 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTTCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
22629242 CTACTTGAAGCGTTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
* *
22629303 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCCTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
22629368 CTGCTTAAAGCGTTTTTGACACTATTTGTTCAAAAAC-GTCTTTTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTC-AAAACTGTCTTCTCAAAATTATTTTTTCAG
*
22629429 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-TCAATTTTGCTGATAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCAT
* *
22629493 CCTGCTTGAAGCGTTTTTAACAC--TTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
* * * * *
22629553 GAACCACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGCAATTTTGTTGGCAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
** * *
22629618 CTGCTTGAAGTATTTTTGACACTATTTGTTTAGAAA-TGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCA-AAACTGTCTTCTCAAAATTATTTTTTCAG
* * * *
22629679 GAACTACTGTAG-AAAAGAGCGTCCACATGGGAGCTTTTTTCATTAATTTTGTTGACAGTGCTTC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * * *
22629743 CTTCTTGAAGCGTTTTTGGCACTATTTGTTTAGAACTGTCTTCTCAAAATTGTTTTTTC
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACTGTCTTCTCAAAATTATTTTTTC
22629802 TAGAACCTGT
Statistics
Matches: 452, Mismatches: 39, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
123 4 0.01
124 109 0.24
125 98 0.22
126 234 0.52
127 7 0.02
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACTGTCTTCTCAAAATTATTTTTTCAG
Found at i:22629620 original size:250 final size:250
Alignment explanation
Indices: 22629177--22629801 Score: 939
Period size: 250 Copynumber: 2.5 Consensus size: 250
22629167 GGCCAAACAT
*
22629177 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTTCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-TAATTTTGCTGACAGTGCATC
* *
22629242 CTACTTGAAGCGTTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATTATTTTTTCAGGAAC
65 CTACTTGAAGCGTTTTTGACAC-ATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAGGAAC
* * *
22629307 TACTGTAGAAAAAGAGCATCCACGTGGGAGCCTTTTTCAGTAATTTTGCTGACAGTGCATCCTGC
129 CACTATAGAAAAAGAGCATCCACGTGGGAGCCTTTTTCAGCAATTTTGCTGACAGTGCATCCTGC
* * *
22629372 TTAAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTTTCAAAATTATTTTTTCAG
194 TTAAAGCATTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAA
*
22629429 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAT-AATTTTGCTGACAGTGCATC
* *
22629494 CTGCTTGAAGCGTTTTTAACAC-TTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAGGAACC
65 CTACTTGAAGCGTTTTTGACACATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAGGAACC
* * * *
22629558 ACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGCAATTTTGTTGGCAGTGCATCCTGCT
130 ACTATAGAAAAAGAGCATCCACGTGGGAGCCTTTTTCAGCAATTTTGCTGACAGTGCATCCTGCT
* * * * *
22629623 TGAAGTATTTTTGACACTATTTGTTTAGAAATGTCTTCTCAAAATTATTTTTTCAA
195 TAAAGCATTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAA
* * *
22629679 GAACTACTGTAG-AAAAGAGCGTCCACATGGGAGCTTTTTTCATTAATTTTGTTGACAGTGCTTC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-TAATTTTGCTGACAGTGCATC
* * * *
22629743 CTTCTTGAAGCGTTTTTGGCACTATTTGTTTAGAACTGTCTTCTCAAAATTGTTTTTTC
65 CTACTTGAAGCGTTTTTGACAC-ATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTC
22629802 TAGAACCTGT
Statistics
Matches: 339, Mismatches: 30, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
249 65 0.19
250 159 0.47
251 34 0.10
252 81 0.24
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (250 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATAATTTTGCTGACAGTGCATCC
TACTTGAAGCGTTTTTGACACATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAGGAACCA
CTATAGAAAAAGAGCATCCACGTGGGAGCCTTTTTCAGCAATTTTGCTGACAGTGCATCCTGCTT
AAAGCATTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAA
Found at i:22629863 original size:23 final size:23
Alignment explanation
Indices: 22629830--22629874 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
22629820 ACCTTATTGT
22629830 CAATATGATTTTAAAAAAAAACA
1 CAATATGATTTTAAAAAAAAACA
*
22629853 CAATATTATTTTAAAAAAAAAC
1 CAATATGATTTTAAAAAAAAAC
22629875 TAAACCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (23 bp):
CAATATGATTTTAAAAAAAAACA
Found at i:22629913 original size:34 final size:32
Alignment explanation
Indices: 22629861--22629972 Score: 107
Period size: 34 Copynumber: 3.3 Consensus size: 32
22629851 CACAATATTA
* *
22629861 TTTTAAAAAAAAACTAAACCCAATTTTAATTAAT
1 TTTTTAAAAACAA-TAAACCCAA-TTTAATTAAT
22629895 TTTCTTAAAAACAATAAACCCAAATTTAATTAAT
1 TTT-TTAAAAACAATAAACCC-AATTTAATTAAT
* ** *
22629929 TTATTTAAAACCCCTAAACCTTAATTTAATTAAT
1 TT-TTTAAAAACAATAAACC-CAATTTAATTAAT
*
22629963 TTTTAAAAAA
1 TTTTTAAAAA
22629973 GAACACTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
33 6 0.09
34 49 0.74
35 11 0.17
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (32 bp):
TTTTTAAAAACAATAAACCCAATTTAATTAAT
Found at i:22630045 original size:21 final size:21
Alignment explanation
Indices: 22630020--22630087 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
22630010 AACCTAGAAC
22630020 CCTAAATTATTTTAACAAAAT
1 CCTAAATTATTTTAACAAAAT
** **
22630041 CCTAAACCTTA--CAAACCTAAT
1 CCTAAA--TTATTTTAACAAAAT
*
22630062 CCTAAATTATTTTAACAAAAC
1 CCTAAATTATTTTAACAAAAT
22630083 CCTAA
1 CCTAA
22630088 CCCTAAAAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
19 3 0.09
21 28 0.82
23 3 0.09
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.31
Consensus pattern (21 bp):
CCTAAATTATTTTAACAAAAT
Found at i:22630102 original size:42 final size:42
Alignment explanation
Indices: 22630020--22630102 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
22630010 AACCTAGAAC
* * *
22630020 CCTAAATTATTTTAACAAAATCCTAAACCTTACAAACCTAAT
1 CCTAAATTATTTTAACAAAACCCTAAACCCTAAAAACCTAAT
22630062 CCTAAATTATTTTAACAAAACCCT-AACCCTAAAAATCCTAA
1 CCTAAATTATTTTAACAAAACCCTAAACCCTAAAAA-CCTAA
22630103 ACTAAAAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 9 0.24
42 28 0.76
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (42 bp):
CCTAAATTATTTTAACAAAACCCTAAACCCTAAAAACCTAAT
Found at i:22630433 original size:19 final size:20
Alignment explanation
Indices: 22630405--22630447 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
22630395 GTCATATAAA
*
22630405 AATT-TAATTTTAAA-ATTT
1 AATTATAATTTAAAACATTT
22630423 AATTATAATTTAAAACATTT
1 AATTATAATTTAAAACATTT
22630443 -ATTAT
1 AATTAT
22630448 TATTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 14 0.64
20 4 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTATAATTTAAAACATTT
Found at i:22630456 original size:19 final size:20
Alignment explanation
Indices: 22630419--22630456 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
22630409 TAATTTTAAA
*
22630419 ATTTAATTATAATTTAAAAC
1 ATTTAATTATAATTAAAAAC
*
22630439 ATTT-ATTATTATTAAAAA
1 ATTTAATTATAATTAAAAA
22630457 TCTCTTAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAATTATAATTAAAAAC
Found at i:22638414 original size:15 final size:16
Alignment explanation
Indices: 22638394--22638429 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
22638384 ATAAAAGCAT
22638394 AACATAAAAA-TATCA
1 AACATAAAAAGTATCA
22638409 AACATAAAAAGTATCA
1 AACATAAAAAGTATCA
*
22638425 TACAT
1 AACAT
22638430 TAGTTTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.61, C:0.14, G:0.03, T:0.22
Consensus pattern (16 bp):
AACATAAAAAGTATCA
Found at i:22638455 original size:30 final size:30
Alignment explanation
Indices: 22638410--22638479 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
22638400 AAAATATCAA
*
22638410 ACAT-AAAAAGTATCATACATTAGTTTTAC
1 ACATAAAAAAGCATCATACATTAGTTTTAC
22638439 ACATAAAAAAGCATCATACATTAGTTTTAC
1 ACATAAAAAAGCATCATACATTAGTTTTAC
*
22638469 ACGTAAAAAAG
1 ACATAAAAAAG
22638480 TAGTATAGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.29
Consensus pattern (30 bp):
ACATAAAAAAGCATCATACATTAGTTTTAC
Found at i:22644949 original size:42 final size:42
Alignment explanation
Indices: 22644890--22644987 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
22644880 ACGATTCAAG
*
22644890 TTAGTGAGTTACACGGCCTAGCA-CACAGGCGTGTGGGGCATC
1 TTAGTGAGTTACACGGCCT-GCAGCACAGGCGTCTGGGGCATC
* * *
22644932 TTAGTAAGTTGCACGGCCTGGAGCACAGGCGTCTGGGGCATC
1 TTAGTGAGTTACACGGCCTGCAGCACAGGCGTCTGGGGCATC
*
22644974 TCAGTGAGTTACAC
1 TTAGTGAGTTACAC
22644988 AAGTGAGGAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.04
42 46 0.96
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.22
Consensus pattern (42 bp):
TTAGTGAGTTACACGGCCTGCAGCACAGGCGTCTGGGGCATC
Found at i:22661952 original size:7 final size:6
Alignment explanation
Indices: 22661923--22661951 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
22661913 TTTTAAATAT
22661923 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
22661952 TTGAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:22666703 original size:27 final size:29
Alignment explanation
Indices: 22666654--22666709 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
22666644 AAAATAATTT
*
22666654 TAAAATTAATATATAAAGCAAC-TAAAAA
1 TAAAATTAATATATAAAACAACTTAAAAA
*
22666682 TAAAA-TAATATATAAAATAACTTAAAAA
1 TAAAATTAATATATAAAACAACTTAAAAA
22666710 AATCATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (29 bp):
TAAAATTAATATATAAAACAACTTAAAAA
Found at i:22666762 original size:21 final size:20
Alignment explanation
Indices: 22666726--22666764 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
22666716 TTACAAAGCA
22666726 AGTTAAAATAACATATAATG
1 AGTTAAAATAACATATAATG
*
22666746 AGTTAAATATAATATATAA
1 AGTTAAA-ATAACATATAA
22666765 AAAGGGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (20 bp):
AGTTAAAATAACATATAATG
Found at i:22675943 original size:34 final size:34
Alignment explanation
Indices: 22675895--22675959 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
22675885 CAGAAGGGCG
* *
22675895 CTAATCTCCCAGTGACATTTAATTAAGCATTGCA
1 CTAATCTCCCAGTGAAATTTAATCAAGCATTGCA
*
22675929 CTAATCTCCTAGTGAAATTTAATCAAGCATT
1 CTAATCTCCCAGTGAAATTTAATCAAGCATT
22675960 AAGGGCCCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.34
Consensus pattern (34 bp):
CTAATCTCCCAGTGAAATTTAATCAAGCATTGCA
Found at i:22680384 original size:20 final size:19
Alignment explanation
Indices: 22680359--22680403 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
22680349 CAGTAAAATG
22680359 TTTTCTCGAAAATGATTTAC
1 TTTTCT-GAAAATGATTTAC
*
22680379 TTTTCTGGAAATGATTTAC
1 TTTTCTGAAAATGATTTAC
22680398 TTTTCT
1 TTTTCT
22680404 AGTGTTTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.51
Consensus pattern (19 bp):
TTTTCTGAAAATGATTTAC
Found at i:22680507 original size:18 final size:18
Alignment explanation
Indices: 22680481--22680523 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
22680471 AAAAGTTGTT
*
22680481 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
22680499 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
22680517 TTTATAT
1 TTTATAT
22680524 TTTAAATTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:22683796 original size:6 final size:6
Alignment explanation
Indices: 22683785--22683826 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
22683775 GATCAAGGAT
* * *
22683785 AGGGGA AGGGGA AGGGAA AGGGAA AGGGAA AGGGGA AGGGAA
1 AGGGAA AGGGAA AGGGAA AGGGAA AGGGAA AGGGAA AGGGAA
22683827 GATCGGTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (6 bp):
AGGGAA
Found at i:22683805 original size:12 final size:12
Alignment explanation
Indices: 22683785--22683826 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
22683775 GATCAAGGAT
*
22683785 AGGGGAAGGGGA
1 AGGGAAAGGGGA
*
22683797 AGGGAAAGGGAA
1 AGGGAAAGGGGA
22683809 AGGGAAAGGGGA
1 AGGGAAAGGGGA
22683821 AGGGAA
1 AGGGAA
22683827 GATCGGTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (12 bp):
AGGGAAAGGGGA
Found at i:22689400 original size:21 final size:21
Alignment explanation
Indices: 22689363--22689402 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22689353 ATATAAGTAT
*
22689363 ACATATACTATATATAAAACA
1 ACATATACTATACATAAAACA
22689384 ACATATA-TATTACATAAAA
1 ACATATACTA-TACATAAAA
22689403 ACGATGCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
ACATATACTATACATAAAACA
Found at i:22689442 original size:3 final size:3
Alignment explanation
Indices: 22689422--22689464 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
22689412 GCGCATGAAT
*
22689422 ATA AGA ATA A-A A-A ATA ATA ATA ATA ATA ATAA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT
22689465 GATACAAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 4 0.11
3 29 0.81
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:22689449 original size:19 final size:19
Alignment explanation
Indices: 22689422--22689464 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
22689412 GCGCATGAAT
*
22689422 ATAAGAATAAAAAATAATA
1 ATAATAATAAAAAATAATA
*
22689441 ATAATAATAATAAATAATA
1 ATAATAATAAAAAATAATA
22689460 ATAAT
1 ATAAT
22689465 GATACAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
ATAATAATAAAAAATAATA
Found at i:22689945 original size:23 final size:22
Alignment explanation
Indices: 22689915--22689959 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
22689905 AAATTAAATC
22689915 TCTAAGATTGCAAAATCATATCT
1 TCTAAGATTGC-AAATCATATCT
*
22689938 TCTAAGATTGCATATCATATCT
1 TCTAAGATTGCAAATCATATCT
22689960 AAGATTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (22 bp):
TCTAAGATTGCAAATCATATCT
Found at i:22689962 original size:19 final size:19
Alignment explanation
Indices: 22689915--22689991 Score: 91
Period size: 19 Copynumber: 3.8 Consensus size: 19
22689905 AAATTAAATC
*
22689915 TCTAAGATTGCAAAATCATA
1 TCTAAGATTGC-ATATCATA
22689935 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTGCATATCATA
* *
22689957 TCTAAGATTACATACCATA
1 TCTAAGATTGCATATCATA
22689976 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
22689992 CTTGAAGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 31 0.63
22 7 0.14
23 11 0.22
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22690594 original size:45 final size:45
Alignment explanation
Indices: 22690539--22690878 Score: 246
Period size: 45 Copynumber: 7.7 Consensus size: 45
22690529 GTTTATTTAA
* * * *
22690539 TCTGCCCCACTGCAATTTTAGAGG-GATAAGACTTG-ATTTCTTGAG
1 TCTGCTCCACTGCAACTTCAG-GGAGATAAGACTCGCA-TTCTTGAG
*
22690584 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCATTCTTGGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCATTCTTGAG
* *
22690629 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-ATGC--GA-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCATTCTTGAG
* * * *
22690670 TCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTGTGATT-TT-AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTC-G-CATTCTTGAG
** * * * * *
22690713 TCCACTCTACTGCAACTTCAGGGAGATAGGA-T--TATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCATT--CTTGAG
* * * *
22690757 TCTACTCCACTACAACTTCAGGGAGATAAGATTCGTCA-TCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCG-CATTCTTGAG
* * * *
22690802 TCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTTCTT-AG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTCGCATTCTTGAG
22690846 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
22690879 AGATGCGATC
Statistics
Matches: 240, Mismatches: 33, Indels: 45
0.75 0.10 0.14
Matches are distributed among these distances:
39 1 0.00
40 26 0.11
41 6 0.03
42 4 0.02
43 6 0.03
44 87 0.36
45 107 0.45
46 1 0.00
47 1 0.00
48 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCATTCTTGAG
Found at i:22690685 original size:40 final size:43
Alignment explanation
Indices: 22690584--22690916 Score: 150
Period size: 44 Copynumber: 7.7 Consensus size: 43
22690574 ATTTCTTGAG
* * *
22690584 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCATTCTTGGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGC-T-GA
22690629 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-ATGC-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGCTGA
* * * * * ** *
22690670 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-CATGCTGA
** * * ** *
22690713 TCCACTCTACTGCAACTTCAGGGAGATAGGA---TTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCA-T-GC--TGA
* * ** *
22690757 TCTACTCCACTACAACTTCAGGGAGATAAGATTCGTCAT-CTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-CATGC-TGA
* * ** * * *
22690801 GTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTTCTTA
1 -TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACCCGCATGCTGA
**
22690845 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC-GA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGCTGA
* * *
22690887 TCTGCT-CTCTGCAACTTTAGAGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
22690917 TCTGTGATTT
Statistics
Matches: 228, Mismatches: 42, Indels: 41
0.73 0.14 0.13
Matches are distributed among these distances:
40 46 0.20
41 14 0.06
42 3 0.01
43 7 0.03
44 91 0.40
45 65 0.29
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGCTGA
Found at i:22690730 original size:44 final size:44
Alignment explanation
Indices: 22690674--22691006 Score: 143
Period size: 44 Copynumber: 7.7 Consensus size: 44
22690664 ATGCGATCTG
* *
22690674 CTCT-CTGCAACTTCAGAGAGATAAGATCT-GTGATTTTAATCCA
1 CTCTACTGCAACTTCAGGGAGATAAGAT-TAGTGACTTTAATCCA
* * * *
22690717 CTCTACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTA
1 CTCTACTGCAACTTCAGGGAGATAAGATTAGTGACTTTAATCCA
* * * * * *
22690761 CTCCACTACAACTTCAGGGAGATAAGATTCGTCATCTTCAGTCTGC-
1 CTCTACTGCAACTTCAGGGAGATAAGATTAGTGA-CTTTAATC--CA
* * ** * **
22690807 CTC-ACTACAACTTCA-GGAGGATAAGGCTT-GCTTTC-TTAGTCTG
1 CTCTACTGCAACTTCAGGGA-GATAA-GATTAG-TGACTTTAATCCA
* * * **
22690850 CTCCACTGCAACTTCAGGGAGATAAGACTAGATG-C---GATCTG
1 CTCTACTGCAACTTCAGGGAGATAAGATTAG-TGACTTTAATCCA
* * * *
22690891 CTCT-CTGCAACTTTAGAGAGATAAGATCT-GTGATTTTAATCCG
1 CTCTACTGCAACTTCAGGGAGATAAGAT-TAGTGACTTTAATCCA
* * * * * * * **
22690934 CTCCACTACGACTTCAAGGAGATAGGATTATTGGCTTTAATCTG
1 CTCTACTGCAACTTCAGGGAGATAAGATTAGTGACTTTAATCCA
* *
22690978 CTCCACTGCAGCTTCAGGGAGATAAGATT
1 CTCTACTGCAACTTCAGGGAGATAAGATT
22691007 CGCCATCTTC
Statistics
Matches: 220, Mismatches: 51, Indels: 37
0.71 0.17 0.12
Matches are distributed among these distances:
39 2 0.01
40 21 0.10
41 8 0.04
43 19 0.09
44 135 0.61
45 28 0.13
46 7 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCTACTGCAACTTCAGGGAGATAAGATTAGTGACTTTAATCCA
Found at i:22690896 original size:217 final size:218
Alignment explanation
Indices: 22690577--22691021 Score: 689
Period size: 217 Copynumber: 2.0 Consensus size: 218
22690567 AGACTTGATT
* * *
22690577 TCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCATTCTTGGGTCTGCTCCACTGC
1 TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCGCATTCTTGAGTCTGCTCCACTGC
*
22690642 AACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA
66 AACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA
* * *
22690707 TTTTAATCCACTCTACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTACAA
131 TTTTAATCCACTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTAATCTACTCCACTACAA
*
22690772 CTTCAGGGAGATAAGATTCGTCA
196 CTTCAGGGAGATAAGATTCGCCA
* * *
22690795 TCTTCAGTCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTTCTT-AGTCTGCTCCACT
1 TCTTCAGTCTGCTC-CACTACAACTTCAGGGA-GATAAGACTCGCATTCTTGAGTCTGCTCCACT
* *
22690857 GCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTGT
64 GCAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGT
* * * *
22690922 GATTTTAATCCGCTCCACTACGACTTCAAGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGC
129 GATTTTAATCCACTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTAATCTACTCCACTAC
*
22690987 AGCTTCAGGGAGATAAGATTCGCCA
194 AACTTCAGGGAGATAAGATTCGCCA
22691012 TCTTCAGTCT
1 TCTTCAGTCT
22691022 TTTAAATTGC
Statistics
Matches: 207, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
217 169 0.82
218 38 0.18
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (218 bp):
TCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCGCATTCTTGAGTCTGCTCCACTGC
AACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA
TTTTAATCCACTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTAATCTACTCCACTACAA
CTTCAGGGAGATAAGATTCGCCA
Found at i:22691437 original size:88 final size:88
Alignment explanation
Indices: 22691283--22691783 Score: 725
Period size: 88 Copynumber: 5.7 Consensus size: 88
22691273 GTTGTCAGTG
* * *
22691283 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAGGAAGGCAAGATCTGCTAT
22691348 TTTTAACCTGCTCCGCTACAACC
66 TTTTAACCTGCTCCGCTACAACC
* * *
22691371 CAGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCGATGTTAGTGCAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAGGAAGGCAAGATCTGCTAT
*
22691436 TTTTAACCTACTCCGCTACAACC
66 TTTTAACCTGCTCCGCTACAACC
* * * * *
22691459 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAAGAAGACAAGATCTGCAAT
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAGGAAGGCAAGATCTGCTAT
* * **
22691524 TTTTAACATGCTCCACTGTAACC
66 TTTTAACCTGCTCCGCTACAACC
* * * * * *
22691547 CAGAGAGGCAAGACTGATGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTTAT
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAGGAAGGCAAGATCTGCTAT
22691612 TTTTAACCTGCTCCGCTACAACC
66 TTTTAACCTGCTCCGCTACAACC
** *
22691635 CAGGGAGGCAAGATTGGTGTCTTCGATCTGCTTCGATGTCAGTGTAGGAAGGCAAGATCTGCTAT
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAGGAAGGCAAGATCTGCTAT
*
22691700 TTTTAACCTACTCCGCTACAACC
66 TTTTAACCTGCTCCGCTACAACC
* * *
22691723 CAGGGAGGTAAGGTTGGTGTCTTCGATCTGCTTC-ACTGTCGGTGCAGGAAGGCAAGATCTG
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGA-TGTCAGTGCAGGAAGGCAAGATCTG
22691784 TTATCTTCAC
Statistics
Matches: 368, Mismatches: 44, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
87 1 0.00
88 367 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (88 bp):
CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGATGTCAGTGCAGGAAGGCAAGATCTGCTAT
TTTTAACCTGCTCCGCTACAACC
Found at i:22691765 original size:264 final size:264
Alignment explanation
Indices: 22691288--22691783 Score: 857
Period size: 264 Copynumber: 1.9 Consensus size: 264
22691278 CAGTGCAGGA
* *
22691288 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATCTGCTATTTTTA
1 AGGCAAGACTGATGTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATCTGCTATTTTTA
* *
22691353 ACCTGCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCGATGTTAGTGCAG
66 ACCTGCTCCGCTACAACCCAGGGAGGCAAGATTGGTGTCTTCGATCTACTTCGATGTCAGTGCAG
22691418 GAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTC
131 GAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTC
**
22691483 GATCTGCTTCGTTGTCGGTGCAAGAAGACAAGATCTGCAATTTTTAACATGCTCCACTGTAACCC
196 GATCTGCTTCACTGTCGGTGCAAGAAGACAAGATCTGCAATTTTTAACATGCTCCACTGTAACCC
22691548 AGAG
261 AGAG
* * *
22691552 AGGCAAGACTGATGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTTATTTTTA
1 AGGCAAGACTGATGTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATCTGCTATTTTTA
* *
22691617 ACCTGCTCCGCTACAACCCAGGGAGGCAAGATTGGTGTCTTCGATCTGCTTCGATGTCAGTGTAG
66 ACCTGCTCCGCTACAACCCAGGGAGGCAAGATTGGTGTCTTCGATCTACTTCGATGTCAGTGCAG
* *
22691682 GAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGGGAGGTAAGGTTGGTGTCTTC
131 GAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTC
* *
22691747 GATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTG
196 GATCTGCTTCACTGTCGGTGCAAGAAGACAAGATCTG
22691784 TTATCTTCAC
Statistics
Matches: 217, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
264 217 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (264 bp):
AGGCAAGACTGATGTCTTCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATCTGCTATTTTTA
ACCTGCTCCGCTACAACCCAGGGAGGCAAGATTGGTGTCTTCGATCTACTTCGATGTCAGTGCAG
GAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTC
GATCTGCTTCACTGTCGGTGCAAGAAGACAAGATCTGCAATTTTTAACATGCTCCACTGTAACCC
AGAG
Found at i:22693134 original size:14 final size:15
Alignment explanation
Indices: 22693111--22693143 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
22693101 ATTGACGTTT
22693111 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
22693125 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
22693140 TTCC
1 TTCC
22693144 CAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:22696966 original size:29 final size:30
Alignment explanation
Indices: 22696910--22696966 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
22696900 CCATTTCTAT
* *
22696910 TTTAGAAAAAAATAAAAATTAGTTGTCGAC
1 TTTAGAAAAAAACAAAAATTAGTAGTCGAC
22696940 TTTA-AAAAAAACAAAAATTGAG-AGTCG
1 TTTAGAAAAAAACAAAAATT-AGTAGTCG
22696967 CCAACAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (30 bp):
TTTAGAAAAAAACAAAAATTAGTAGTCGAC
Found at i:22698205 original size:23 final size:22
Alignment explanation
Indices: 22698146--22698205 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
22698136 AATAAAAATA
22698146 AAAACATATGTATACTATATAT
1 AAAACATATGTATACTATATAT
* *
22698168 ATAAGCATACGTATACTATATAT
1 A-AAACATATGTATACTATATAT
*
22698191 AAAACAATATATATA
1 AAAAC-ATATGTATA
22698206 TTACATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (22 bp):
AAAACATATGTATACTATATAT
Found at i:22698254 original size:3 final size:3
Alignment explanation
Indices: 22698235--22698276 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
22698225 GCGCATGAAT
* *
22698235 ATA AGA ATA AAA ATA ATA ATA ATA ATAA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA AT
22698277 GATACAAGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Done.