Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 34 of 103
Found at i:12835531 original size:18 final size:19
Alignment explanation
Indices: 12835492--12835531 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
12835482 TTAATATTTT
12835492 AATATTATTTTATTCATAA
1 AATATTATTTTATTCATAA
12835511 AATATTATTTTATTC-TAA
1 AATATTATTTTATTCATAA
12835529 AAT
1 AAT
12835532 TCTCCACTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTATTTTATTCATAA
Found at i:12837652 original size:35 final size:34
Alignment explanation
Indices: 12837606--12837696 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 34
12837596 GGGAGGAAAG
* * *
12837606 GAGCAGTTTAGCTACTGATTTTTGGAGGGAGAATA
1 GAGCAGCTTAGCTACTGATTTTT-GAGGAAAAATA
* * * *
12837641 GAGTAGCTTAGCTGCTAATTTTTTAGGAAAAATA
1 GAGCAGCTTAGCTACTGATTTTTGAGGAAAAATA
**
12837675 GAGCAGCTCGGCTACTGATTTT
1 GAGCAGCTTAGCTACTGATTTT
12837697 GATGTTGATA
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
34 25 0.57
35 19 0.43
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (34 bp):
GAGCAGCTTAGCTACTGATTTTTGAGGAAAAATA
Found at i:12853543 original size:24 final size:25
Alignment explanation
Indices: 12853509--12853561 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
12853499 AAACTAGTGT
12853509 AAAAGGTTTTTGGCTAAGCCTGGTA
1 AAAAGGTTTTTGGCTAAGCCTGGTA
* *
12853534 AAAAGGTTTTTGGCTGAGCTTGGTA
1 AAAAGGTTTTTGGCTAAGCCTGGTA
12853559 AAA
1 AAA
12853562 GCCATTGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.32
Consensus pattern (25 bp):
AAAAGGTTTTTGGCTAAGCCTGGTA
Found at i:12866772 original size:38 final size:38
Alignment explanation
Indices: 12866730--12866829 Score: 155
Period size: 38 Copynumber: 2.6 Consensus size: 38
12866720 ATGACATAGT
* *
12866730 TGTGCGCGATGTAGGGGTGCACACAATGACTCCATCTA
1 TGTGCACGATGTGGGGGTGCACACAATGACTCCATCTA
**
12866768 TGTGCACGATGTGGGGGTGCACATGATGACTCCATCTA
1 TGTGCACGATGTGGGGGTGCACACAATGACTCCATCTA
12866806 TGTGCACGATGTGGGGGTTGCACA
1 TGTGCACGATGTGGGGG-TGCACA
12866830 TGAGCTAGGT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 51 0.89
39 6 0.11
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGTGCACACAATGACTCCATCTA
Found at i:12867065 original size:21 final size:21
Alignment explanation
Indices: 12867040--12867091 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
12867030 AGGTTTTAAT
*
12867040 GAGAAACCCTCATGTAGTTGA
1 GAGAAACCCTCATGCAGTTGA
* **
12867061 GAGAAACCATTGTGCAGTTGA
1 GAGAAACCCTCATGCAGTTGA
*
12867082 GAGGAACCCT
1 GAGAAACCCT
12867092 TGTACAAATG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (21 bp):
GAGAAACCCTCATGCAGTTGA
Found at i:12867094 original size:21 final size:21
Alignment explanation
Indices: 12867055--12867094 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12867045 ACCCTCATGT
12867055 AGTTGAGAGAAACCATTGTGC
1 AGTTGAGAGAAACCATTGTGC
* *
12867076 AGTTGAGAGGAACCCTTGT
1 AGTTGAGAGAAACCATTGT
12867095 ACAAATGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (21 bp):
AGTTGAGAGAAACCATTGTGC
Found at i:12870708 original size:43 final size:43
Alignment explanation
Indices: 12870660--12870795 Score: 186
Period size: 43 Copynumber: 3.2 Consensus size: 43
12870650 ATTATGTGAT
* *
12870660 GATGATGACCC-GACTATGTGCGAGTAGGAAGTGCACATGAGTC
1 GATGATGACCCAG-CTATTTGCGAGTAGGGAGTGCACATGAGTC
* * *
12870703 GATGATGACCCAGCTATTTACGAGTAGGGAGTGAACATGAGTA
1 GATGATGACCCAGCTATTTGCGAGTAGGGAGTGCACATGAGTC
*
12870746 GATGATGACCCAGCTATTTGCGAGCAGGGAGTGCACATGAG-C
1 GATGATGACCCAGCTATTTGCGAGTAGGGAGTGCACATGAGTC
12870788 TGATGATG
1 -GATGATG
12870796 TTGAAATGTG
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
43 81 0.99
44 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (43 bp):
GATGATGACCCAGCTATTTGCGAGTAGGGAGTGCACATGAGTC
Found at i:12873660 original size:52 final size:52
Alignment explanation
Indices: 12873582--12873736 Score: 247
Period size: 52 Copynumber: 3.0 Consensus size: 52
12873572 ACTCCCACAT
* *
12873582 TGCACATGGCATATATCATTAGTGTGTACACTCACACAGCATACCACTATCA
1 TGCACATGGCATATATCATTAGTGTGTGCACTCACACAGCACACCACTATCA
* * *
12873634 TGCACATGGCATATATCATCAGTGTGTGTACTCACACAACACACCACTATCA
1 TGCACATGGCATATATCATTAGTGTGTGCACTCACACAGCACACCACTATCA
* *
12873686 CGCACATGGCATATATCATTAGTGTGTGCACTCACAAAGCACACCACTATC
1 TGCACATGGCATATATCATTAGTGTGTGCACTCACACAGCACACCACTATC
12873737 GTCGTCATGT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 93 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.25
Consensus pattern (52 bp):
TGCACATGGCATATATCATTAGTGTGTGCACTCACACAGCACACCACTATCA
Found at i:12876766 original size:12 final size:11
Alignment explanation
Indices: 12876759--12876795 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
12876749 TTTTTCTCTT
12876759 TTTCTTTCTCC
1 TTTCTTTCTCC
12876770 TTTCTTTCT--
1 TTTCTTTCTCC
*
12876779 TTCCTTTCTCC
1 TTTCTTTCTCC
12876790 TTTCTT
1 TTTCTT
12876796 CCAACTGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTCTTTCTCC
Found at i:12884807 original size:43 final size:43
Alignment explanation
Indices: 12884760--12884866 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
12884750 CCAACTCATG
** *
12884760 CGCACTCCCTACTCGCACAT-GGCTGGGTCATCATCGGGTTATA
1 CGCACTCCCTACTCGCACATAACCT-GGTCATCATCGGCTTATA
* * *
12884803 CGCACTCCCTACTAGCACATAACCTGGTCATCCTCGGCTTATG
1 CGCACTCCCTACTCGCACATAACCTGGTCATCATCGGCTTATA
12884846 CGCACTCCCTACTCGCACATA
1 CGCACTCCCTACTCGCACATA
12884867 GCCAAGTTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 54 0.96
44 2 0.04
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.24
Consensus pattern (43 bp):
CGCACTCCCTACTCGCACATAACCTGGTCATCATCGGCTTATA
Found at i:12892160 original size:20 final size:20
Alignment explanation
Indices: 12892115--12892179 Score: 94
Period size: 20 Copynumber: 3.1 Consensus size: 20
12892105 CGTATATACC
* *
12892115 CATCATCATCATCCCACCAACG
1 CATCATCATCAT--CACCAGCT
12892137 CATCATCATCATCACCAGCT
1 CATCATCATCATCACCAGCT
12892157 CATCATCATCATCACCAGCT
1 CATCATCATCATCACCAGCT
12892177 CAT
1 CAT
12892180 GCGCACTCCC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 29 0.71
22 12 0.29
ACGTcount: A:0.31, C:0.42, G:0.05, T:0.23
Consensus pattern (20 bp):
CATCATCATCATCACCAGCT
Found at i:12892230 original size:43 final size:43
Alignment explanation
Indices: 12892178--12892339 Score: 202
Period size: 43 Copynumber: 3.8 Consensus size: 43
12892168 TCACCAGCTC
* ** *
12892178 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTT
1 ATGCACACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
*
12892221 ATGCACACTCCCTACTCACACATAATCC-GGTCATCACCGGGTT
1 ATGCACACTCCCTACTCGCACATAA-CCGGGTCATCACCGGGTT
* **
12892264 ATGCACACTGCCTACTCGCACATAACCGGGTCATC-CTCGACTT
1 ATGCACACTCCCTACTCGCACATAACCGGGTCATCAC-CGGGTT
* *
12892307 ATGCGCACTCCCTACTCGCACATAGCCGGGTCA
1 ATGCACACTCCCTACTCGCACATAACCGGGTCA
12892340 ACATAATTAC
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 3 0.03
43 100 0.96
44 1 0.01
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCACACTCCCTACTCGCACATAACCGGGTCATCACCGGGTT
Found at i:12897037 original size:64 final size:63
Alignment explanation
Indices: 12896936--12897113 Score: 284
Period size: 63 Copynumber: 2.8 Consensus size: 63
12896926 TGATGCAACT
*
12896936 GTGCATGTGTGGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAAGGATGTGATAATTACGACC
1 GTGCATGTGCGGAGTGGGAAGTGCAATGCCAGTTGAATGAC-AAAGGATGTGATAATTACGACC
*
12897000 GTGCATGTGCGGAGTGGGAAGTGCAATGCTAGTTGAATGACAAAGGATGTGATAATTACGACC
1 GTGCATGTGCGGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAGGATGTGATAATTACGACC
* * * * *
12897063 GTGCATGTGCGAAGTGGGAAGTGCAATGCCTGTTTAATGATAAAGGTTGTG
1 GTGCATGTGCGGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAGGATGTG
12897114 GGGATGGCGA
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
63 67 0.63
64 39 0.37
ACGTcount: A:0.29, C:0.12, G:0.34, T:0.25
Consensus pattern (63 bp):
GTGCATGTGCGGAGTGGGAAGTGCAATGCCAGTTGAATGACAAAGGATGTGATAATTACGACC
Found at i:12903240 original size:55 final size:55
Alignment explanation
Indices: 12903090--12903246 Score: 154
Period size: 55 Copynumber: 2.8 Consensus size: 55
12903080 CCAACAATCC
*
12903090 TCAGCCTATGTGTCCCCCCACATCACACATAGCTGGATATAAAC-CACCACCAGTCA
1 TCAGCCTATGTGTCCCCCCACATCACACATAGCTGGA-ATCAACAC-CCACCAGTCA
* * ** * ** * * *
12903146 TCAGCCCATGTGTCCTCCCACATTTCATACGGCTAGAATCATCACCCACCGGTCA
1 TCAGCCTATGTGTCCCCCCACATCACACATAGCTGGAATCAACACCCACCAGTCA
* * * *
12903201 TTAGCTTATGTGTCCCCCCACATCGCACATAGCTGGAATCACCACC
1 TCAGCCTATGTGTCCCCCCACATCACACATAGCTGGAATCAACACC
12903247 GTCAGTACCG
Statistics
Matches: 78, Mismatches: 22, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
55 48 0.62
56 30 0.38
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.22
Consensus pattern (55 bp):
TCAGCCTATGTGTCCCCCCACATCACACATAGCTGGAATCAACACCCACCAGTCA
Found at i:12913599 original size:17 final size:17
Alignment explanation
Indices: 12913569--12913601 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12913559 TTCTTGATAA
12913569 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
12913586 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
12913602 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Found at i:12913798 original size:28 final size:28
Alignment explanation
Indices: 12913766--12913917 Score: 155
Period size: 28 Copynumber: 5.3 Consensus size: 28
12913756 AAGACAAAAA
*
12913766 AAATAT-TTTATCTTGTCTAAATTGAGAC
1 AAATATGTTT-TCTTGTCTAAATTAAGAC
*
12913794 AAATATGTTTTCTTGACTAAATTAAGAC
1 AAATATGTTTTCTTGTCTAAATTAAGAC
* *
12913822 AAAAAATAT-TTTTCGTGTCTTAAATTAAGGC
1 ---AAATATGTTTTCTTGTC-TAAATTAAGAC
* * *
12913853 AAACATATTTTCTTATCTAAATTAAGACC
1 AAATATGTTTTCTTGTCTAAATTAAGA-C
*
12913882 AAACATGTTTTCTTGTCTAAATTAAGAC
1 AAATATGTTTTCTTGTCTAAATTAAGAC
*
12913910 AAACATGT
1 AAATATGT
12913918 CAAAGCTGTC
Statistics
Matches: 106, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
28 45 0.42
29 37 0.35
30 8 0.08
31 16 0.15
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (28 bp):
AAATATGTTTTCTTGTCTAAATTAAGAC
Found at i:12913846 original size:59 final size:58
Alignment explanation
Indices: 12913752--12913917 Score: 201
Period size: 59 Copynumber: 2.8 Consensus size: 58
12913742 TCTTATTTGT
* *
12913752 AATTAAGACAAAAAAAATATTTTATCTTGTCTAAATTGAGACAAATATGTTTTCTTGA-CTA
1 AATTAAGAC--AAAAAATATTTT-TCTTGTCTAAATTAAGACAAACATGTTTTCTT-ATCTA
* * *
12913813 AATTAAGACAAAAAATATTTTTCGTGTCTTAAATTAAGGCAAACATATTTTCTTATCTA
1 AATTAAGACAAAAAATATTTTTCTTGTC-TAAATTAAGACAAACATGTTTTCTTATCTA
* * *
12913872 AATTAAGACCAAACAT-GTTTTCTTGTCTAAATTAAGACAAACATGT
1 AATTAAGACAAAAAATATTTTTCTTGTCTAAATTAAGACAAACATGT
12913918 CAAAGCTGTC
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 17 0.18
58 16 0.17
59 50 0.54
61 9 0.10
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.37
Consensus pattern (58 bp):
AATTAAGACAAAAAATATTTTTCTTGTCTAAATTAAGACAAACATGTTTTCTTATCTA
Found at i:12913884 original size:29 final size:28
Alignment explanation
Indices: 12913776--12913915 Score: 163
Period size: 29 Copynumber: 4.9 Consensus size: 28
12913766 AAATATTTTA
* * *
12913776 TCTTGTCTAAATTGAGACAAATATGTTT
1 TCTTGTCTAAATTAAGACAAACATATTT
* *
12913804 TCTTGACTAAATTAAGACAAAAAATATTTT
1 TCTTGTCTAAATTAAGAC-AAACATA-TTT
* *
12913834 TCGTGTCTTAAATTAAGGCAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATATTT
* *
12913863 TCTTATCTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATATTT
12913892 TCTTGTCTAAATTAAGACAAACAT
1 TCTTGTCTAAATTAAGACAAACAT
12913916 GTCAAAGCTG
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 32 0.34
29 39 0.41
30 14 0.15
31 10 0.11
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATATTT
Found at i:12922866 original size:20 final size:20
Alignment explanation
Indices: 12922849--12922886 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
12922839 CCTCAAATCT
12922849 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
12922869 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
12922887 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:12927754 original size:19 final size:22
Alignment explanation
Indices: 12927704--12927750 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
12927694 GAGAGGAAAG
*
12927704 GAAGAGAGGAAGTCACGGTGGT
1 GAAGAGAGGAAGCCACGGTGGT
12927726 GAAGAGAGGAAGCCACGGTGGT
1 GAAGAGAGGAAGCCACGGTGGT
12927748 GAA
1 GAA
12927751 AGGAGTGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.11, G:0.45, T:0.11
Consensus pattern (22 bp):
GAAGAGAGGAAGCCACGGTGGT
Found at i:12929927 original size:14 final size:14
Alignment explanation
Indices: 12929864--12929929 Score: 50
Period size: 14 Copynumber: 4.8 Consensus size: 14
12929854 ATTTTTCTAA
12929864 TTAGTTTACTTTTAT
1 TTAGTTTA-TTTTAT
* *
12929879 TAAG-TTATTTTGTT
1 TTAGTTTATTTT-AT
*
12929893 TTA-TGCTATTTT-T
1 TTAGT-TTATTTTAT
12929906 TT-GTTTATTTTAT
1 TTAGTTTATTTTAT
12929919 TTAGTTTATTT
1 TTAGTTTATTT
12929930 ATTATTTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
12 6 0.15
13 11 0.28
14 14 0.35
15 9 0.22
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.70
Consensus pattern (14 bp):
TTAGTTTATTTTAT
Found at i:12931166 original size:16 final size:18
Alignment explanation
Indices: 12931142--12931178 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
12931132 ATGATTTAAT
*
12931142 TTTATTTAATT-TTT-AG
1 TTTAATTAATTATTTGAG
12931158 TTTAATTAATTATTTGAG
1 TTTAATTAATTATTTGAG
12931176 TTT
1 TTT
12931179 CTCTGTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 3 0.17
18 5 0.28
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TTTAATTAATTATTTGAG
Found at i:12932247 original size:55 final size:55
Alignment explanation
Indices: 12932162--12932308 Score: 240
Period size: 55 Copynumber: 2.7 Consensus size: 55
12932152 AACCACCAAC
*
12932162 TCATCAGCTCATGTGCACTCCCACATCGCACATAGCTGAAATCATCATCCACTGA
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGAAATCATCATCCACTGA
* * * *
12932217 TCATCAGCTTATGTGCACTCCCACACCGCACATAGATGGAATCATCATCCACTGG
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGAAATCATCATCCACTGA
*
12932272 TCATCAACTCATGTGCACTCCCACACCGCACATAGCT
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCT
12932309 AGAGTCACCA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 84 1.00
ACGTcount: A:0.28, C:0.35, G:0.14, T:0.23
Consensus pattern (55 bp):
TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGAAATCATCATCCACTGA
Found at i:12936723 original size:37 final size:37
Alignment explanation
Indices: 12936673--12936754 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
12936663 TGTTGGGTGG
*
12936673 TGATGTTGAAGTGTGCGAGTAGAGACTGCACACATGA
1 TGATGATGAAGTGTGCGAGTAGAGACTGCACACATGA
* * *
12936710 TGATGATGGAGTGTGCGAGTAGGGAGTGCACACATGA
1 TGATGATGAAGTGTGCGAGTAGAGACTGCACACATGA
*
12936747 TGACGATG
1 TGATGATG
12936755 TATGTATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.28, C:0.12, G:0.37, T:0.23
Consensus pattern (37 bp):
TGATGATGAAGTGTGCGAGTAGAGACTGCACACATGA
Found at i:12946818 original size:59 final size:58
Alignment explanation
Indices: 12946713--12946854 Score: 193
Period size: 59 Copynumber: 2.5 Consensus size: 58
12946703 TAATTTATAC
* *
12946713 AAAACATGTTTGTCTTAA-TT-ATACAAAAAAATATGTTTTGTCTTAATTTAGA-CAAG
1 AAAACATGTTTGTCTTAATTTAAGACAAAAAAATACGTTTTGTCTTAATTTA-ACCAAG
*
12946769 AAAACATGTTTGTCTTAATTTAAGATAAGAAAAATACGTTTTGTCTTAATTTAACCAAG
1 AAAACATGTTTGTCTTAATTTAAGACAA-AAAAATACGTTTTGTCTTAATTTAACCAAG
* *
12946828 AAAACATATTTGTCTCAATTT-AGACAA
1 AAAACATGTTTGTCTTAATTTAAGACAA
12946855 GATAACATAT
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
56 18 0.24
57 2 0.03
58 10 0.13
59 46 0.61
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (58 bp):
AAAACATGTTTGTCTTAATTTAAGACAAAAAAATACGTTTTGTCTTAATTTAACCAAG
Found at i:12946855 original size:28 final size:28
Alignment explanation
Indices: 12946668--12946871 Score: 170
Period size: 28 Copynumber: 7.2 Consensus size: 28
12946658 TTTTACATGT
* *
12946668 TTTGTCTTAATTTAGACAAGAAAACTTGC
1 TTTGTCTTAATTTAGACAAGAAAACAT-A
* * *
12946697 TTT-TTTTAATTTATAC---AAAACATG
1 TTTGTCTTAATTTAGACAAGAAAACATA
* * * *
12946721 TTTGTCTTAA-TTATACAAAAAAATATGT
1 TTTGTCTTAATTTAGACAAGAAAACAT-A
*
12946749 TTTGTCTTAATTTAGACAAGAAAACATG
1 TTTGTCTTAATTTAGACAAGAAAACATA
*
12946777 TTTGTCTTAATTTAAGATAAGAAAA-ATA
1 TTTGTCTTAATTT-AGACAAGAAAACATA
12946805 CGTTTTGTCTTAATTTA-ACCAAGAAAACATA
1 ---TTTGTCTTAATTTAGA-CAAGAAAACATA
* *
12946836 TTTGTCTCAATTTAGACAAGATAACATA
1 TTTGTCTTAATTTAGACAAGAAAACATA
12946864 TTTTGTCT
1 -TTTGTCT
12946872 GTTAGTATAA
Statistics
Matches: 145, Mismatches: 16, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
24 9 0.06
25 11 0.08
27 6 0.04
28 60 0.41
29 35 0.24
30 8 0.06
31 16 0.11
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (28 bp):
TTTGTCTTAATTTAGACAAGAAAACATA
Found at i:12956171 original size:54 final size:54
Alignment explanation
Indices: 12956089--12956249 Score: 295
Period size: 54 Copynumber: 3.0 Consensus size: 54
12956079 CATTATGTGC
* *
12956089 ATCTCACCCAGCTCATGTGCATCCCACCACATTGTGCACATAGCCGGACATCCT
1 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCCT
*
12956143 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGTCGAACATCCT
1 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCCT
12956197 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCC
1 ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCC
12956250 CATCCATCTC
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 103 1.00
ACGTcount: A:0.25, C:0.40, G:0.14, T:0.21
Consensus pattern (54 bp):
ATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGAACATCCT
Found at i:12957406 original size:17 final size:17
Alignment explanation
Indices: 12957373--12957407 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12957363 AAAAACCAAG
12957373 CTTTTCTTTCTTTTTCT
1 CTTTTCTTTCTTTTTCT
12957390 CTTTT-TTTCTTTCTTCT
1 CTTTTCTTTCTTT-TTCT
12957407 C
1 C
12957408 CTCCTAGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
CTTTTCTTTCTTTTTCT
Found at i:12957518 original size:25 final size:25
Alignment explanation
Indices: 12957477--12957533 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
12957467 AAGTTTGGAG
*
12957477 AAGAAAGAAGTAAGAAAAGAAAGGAA
1 AAGAAATAAGTAAGAAAA-AAAGGAA
* *
12957503 AGGAAATAAG-AAGAAAACAAGGAA
1 AAGAAATAAGTAAGAAAAAAAGGAA
12957527 AAGAAAT
1 AAGAAAT
12957534 TGAAAAACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 12 0.44
25 7 0.26
26 8 0.30
ACGTcount: A:0.68, C:0.02, G:0.25, T:0.05
Consensus pattern (25 bp):
AAGAAATAAGTAAGAAAAAAAGGAA
Found at i:12969315 original size:2 final size:2
Alignment explanation
Indices: 12969308--12969339 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
12969298 ACATACATAC
*
12969308 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12969340 GAAAAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12969319 original size:10 final size:10
Alignment explanation
Indices: 12969304--12969336 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
12969294 ACATACATAC
12969304 ATACATATAT
1 ATACATATAT
12969314 ATACATATAT
1 ATACATATAT
*
12969324 ATATATATAT
1 ATACATATAT
12969334 ATA
1 ATA
12969337 TATGAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (10 bp):
ATACATATAT
Found at i:12969321 original size:8 final size:8
Alignment explanation
Indices: 12969287--12969339 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
12969277 AAGCATTTTG
12969287 TATACATA
1 TATACATA
*
12969295 CATACATA
1 TATACATA
*
12969303 CATACATATA
1 TATAC--ATA
12969313 TATACATA
1 TATACATA
*
12969321 TATATATA
1 TATACATA
*
12969329 TATATATA
1 TATACATA
12969337 TAT
1 TAT
12969340 GAAAAAAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
8 33 0.82
10 7 0.17
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (8 bp):
TATACATA
Found at i:12969323 original size:12 final size:12
Alignment explanation
Indices: 12969287--12969339 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
12969277 AAGCATTTTG
*
12969287 TATACATACATA
1 TATACATATATA
*
12969299 CATACATACATATA
1 TATACAT--ATATA
12969313 TATACATATATA
1 TATACATATATA
*
12969325 TATATATATATA
1 TATACATATATA
12969337 TAT
1 TAT
12969340 GAAAAAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
12 25 0.71
14 10 0.29
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (12 bp):
TATACATATATA
Found at i:12970560 original size:68 final size:68
Alignment explanation
Indices: 12970451--12970783 Score: 252
Period size: 68 Copynumber: 4.9 Consensus size: 68
12970441 ACAAGCTTGC
*
12970451 TCATCTCATA-AGGTACATGGAA-AGTACATCATATACATAATCTCATGGCATTCATCATATTTT
1 TCATCTCATATA-GTATATGGAATA-TACATCATATACATAATCTCATGGCATTCATCATATTTT
12970514 CTCAA
64 CTCAA
* * * *
12970519 TCATCTCATGTAGTATATGGAATATACATCATATACATAATCTTATGGCATTTATTAT-TCTTTC
1 TCATCTCATATAGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATAT-TTTC
12970583 TCAA
65 TCAA
* * ** * * * *** *
12970587 TCATCTCATGTAGTATATGGAAATACACATTTTATACATAATCTCAAGACATTTATCATGCATAC
1 TCATCTCATATAGTATATGG-AATATACATCATATACATAATCTCATGGCATTCATCATATTTTC
*
12970652 TAAA
65 TCAA
* * * * * * **
12970656 TCACCTCATATGGTATATGGAGTTTATATCATATACATAGTCTTC-TAGTATATGTCATGCATA-
1 TCATCTCATATAGTATATGGAATATACATCATATACATAATC-TCAT-G-GCAT-TCAT-CATAT
12970719 -TT-T-AA
61 TTTCTCAA
* * *
12970724 TCATCTCATAT-GATATATGGAATTTACATCATATACTTAAATCTTATGGCATTCATCATA
1 TCATCTCATATAG-TATATGGAATATACATCATATACAT-AATCTCATGGCATTCATCATA
12970784 CCAAACGTGC
Statistics
Matches: 213, Mismatches: 39, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
65 4 0.02
66 4 0.02
67 4 0.02
68 128 0.60
69 63 0.30
70 4 0.02
71 3 0.01
72 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (68 bp):
TCATCTCATATAGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATATTTTCT
CAA
Found at i:12974978 original size:85 final size:84
Alignment explanation
Indices: 12974886--12975054 Score: 329
Period size: 85 Copynumber: 2.0 Consensus size: 84
12974876 GCTTCTTCTT
12974886 CTTCTTCTTCCTTCCATCTCAAGTTGCTTTCATCCTCCATGGAAATTTGTTTGAAACCTCCATAA
1 CTTCTTCTTCCTTCCATCTCAAGTTGCTTTCATCCTCCATGGAAATTTGTTTGAAACCTCCATAA
12974951 TTTCCCACAAGATAGCTTC
66 TTTCCCACAAGATAGCTTC
12974970 NCTTCTTCTTCCTTCCATCTCAAGTTGCTTTCATCCTCCATGGAAATTTGTTTGAAACCTCCATA
1 -CTTCTTCTTCCTTCCATCTCAAGTTGCTTTCATCCTCCATGGAAATTTGTTTGAAACCTCCATA
12975035 ATTTCCCACAAGATAGCTTC
65 ATTTCCCACAAGATAGCTTC
12975055 AATTTTCATG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.22, C:0.30, G:0.09, T:0.38
Consensus pattern (84 bp):
CTTCTTCTTCCTTCCATCTCAAGTTGCTTTCATCCTCCATGGAAATTTGTTTGAAACCTCCATAA
TTTCCCACAAGATAGCTTC
Found at i:12989478 original size:39 final size:37
Alignment explanation
Indices: 12989412--12989546 Score: 121
Period size: 37 Copynumber: 3.5 Consensus size: 37
12989402 AGAATGCCTA
12989412 TGTGCGCGATGTGAGGGGAGCACATGATGGCATTAGT
1 TGTGCGCGATGTGAGGGGAGCACATGATGGCATTAGT
* *
12989449 TGTGCGCGATGTG-GGGGTGCACACGATGATGATG-ATATATGCCA
1 TGTGCGCGATGTGAGGGGAG--CAC-ATGATG--GCAT-TA-G--T
* * *
12989493 TGTGTGTGATGTGGGGGGAGCACATGATGGCATTAGT
1 TGTGCGCGATGTGAGGGGAGCACATGATGGCATTAGT
*
12989530 TATGCGCGATGTGAGGG
1 TGTGCGCGATGTGAGGG
12989547 TGCACAAGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
36 5 0.06
37 26 0.34
38 3 0.04
39 7 0.09
40 5 0.06
41 5 0.06
42 7 0.09
43 3 0.04
44 11 0.14
45 5 0.06
ACGTcount: A:0.21, C:0.13, G:0.41, T:0.26
Consensus pattern (37 bp):
TGTGCGCGATGTGAGGGGAGCACATGATGGCATTAGT
Found at i:12989483 original size:81 final size:81
Alignment explanation
Indices: 12989395--12989558 Score: 249
Period size: 81 Copynumber: 2.0 Consensus size: 81
12989385 AGGAAATGTG
*
12989395 GATGATGAGA-ATGCCTATGTGCGCGATGTGAGGGGAGCACATGATGGCATTAGTTGTGCGCGAT
1 GATGATGAGATATGCC-ATGTGCGCGATGTGAGGGGAGCACATGATGGCATTAGTTATGCGCGAT
* *
12989459 GTGGGGGTGCACACGAT
65 GTGAGGGTGCACAAGAT
* * * *
12989476 GATGATGATATATGCCATGTGTGTGATGTGGGGGGAGCACATGATGGCATTAGTTATGCGCGATG
1 GATGATGAGATATGCCATGTGCGCGATGTGAGGGGAGCACATGATGGCATTAGTTATGCGCGATG
12989541 TGAGGGTGCACAAGAT
66 TGAGGGTGCACAAGAT
12989557 GA
1 GA
12989559 CTTCGACTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
81 70 0.93
82 5 0.07
ACGTcount: A:0.24, C:0.13, G:0.38, T:0.25
Consensus pattern (81 bp):
GATGATGAGATATGCCATGTGCGCGATGTGAGGGGAGCACATGATGGCATTAGTTATGCGCGATG
TGAGGGTGCACAAGAT
Found at i:12989630 original size:2 final size:2
Alignment explanation
Indices: 12989623--12989657 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12989613 TACATGCTTG
12989623 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12989658 GCTATAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12990646 original size:27 final size:28
Alignment explanation
Indices: 12990615--12990680 Score: 100
Period size: 29 Copynumber: 2.4 Consensus size: 28
12990605 CAATATTAAC
12990615 TATCAACATA-ATATAGGAGCATAAGGA
1 TATCAACATATATATAGGAGCATAAGGA
12990642 TATCAACATAATATATAGGAGCATAAGGA
1 TATCAACAT-ATATATAGGAGCATAAGGA
*
12990671 T-TCATCATAT
1 TATCAACATAT
12990681 TACACATTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
27 11 0.31
28 7 0.19
29 18 0.50
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.27
Consensus pattern (28 bp):
TATCAACATATATATAGGAGCATAAGGA
Found at i:12994660 original size:29 final size:28
Alignment explanation
Indices: 12994615--12994873 Score: 284
Period size: 29 Copynumber: 8.9 Consensus size: 28
12994605 ATATGTTTTC
12994615 TCTTAATTTAGATAAGAAAACATGTTTG
1 TCTTAATTTAGATAAGAAAACATGTTTG
* *
12994643 TCTTAATTTAAGACAAGAAAGCATGTTTTG
1 TCTTAATTT-AGATAAGAAAACATG-TTTG
*
12994673 TCTTAATATAGATAAGAAAACATGTTTTG
1 TCTTAATTTAGATAAGAAAACATG-TTTG
*
12994702 TCTTAATTTAGACAAGAAAACATGTTTG
1 TCTTAATTTAGATAAGAAAACATGTTTG
* * *
12994730 TTTTAATTTAAGATAGGAAAAATATGTTTTG
1 TCTTAATTT-AGATAAG-AAAACATG-TTTG
* * *
12994761 TCTTAATCTAGACAAAAAAACATGTTTG
1 TCTTAATTTAGATAAGAAAACATGTTTG
* * *
12994789 TCTCACTTTAAGATAAGAAAAATATGTTTTG
1 TCTTAATTT-AGATAAG-AAAACATG-TTTG
*
12994820 TCTTAATCTAGATAAGAAAACATGTTTG
1 TCTTAATTTAGATAAGAAAACATGTTTG
* * *
12994848 TCTCAATTTAGATGAGAAAAGATGTT
1 TCTTAATTTAGATAAGAAAACATGTT
12994874 CTATTTTAAT
Statistics
Matches: 192, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
28 57 0.30
29 77 0.40
30 37 0.19
31 21 0.11
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (28 bp):
TCTTAATTTAGATAAGAAAACATGTTTG
Found at i:12994757 original size:59 final size:58
Alignment explanation
Indices: 12994615--12994873 Score: 319
Period size: 59 Copynumber: 4.5 Consensus size: 58
12994605 ATATGTTTTC
* *
12994615 TCTTAATTT-AGATAAGAAAACATG-TTTGTCTTAATTTAAGACAAGAAAGCATGTTTTG
1 TCTTAATTTAAGATAAGAAAACATGTTTTGTCTTAATCT-AGACAAGAAAACATG-TTTG
* *
12994673 TCTTAATAT-AGATAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAAACATGTTTG
1 TCTTAATTTAAGATAAGAAAACATGTTTTGTCTTAATCTAGACAAGAAAACATGTTTG
* * * *
12994730 TTTTAATTTAAGATAGGAAAAATATGTTTTGTCTTAATCTAGACAAAAAAACATGTTTG
1 TCTTAATTTAAGATAAG-AAAACATGTTTTGTCTTAATCTAGACAAGAAAACATGTTTG
* * * *
12994789 TCTCACTTTAAGATAAGAAAAATATGTTTTGTCTTAATCTAGATAAGAAAACATGTTTG
1 TCTTAATTTAAGATAAG-AAAACATGTTTTGTCTTAATCTAGACAAGAAAACATGTTTG
* * *
12994848 TCTCAATTT-AGATGAGAAAAGATGTT
1 TCTTAATTTAAGATAAGAAAACATGTT
12994874 CTATTTTAAT
Statistics
Matches: 181, Mismatches: 17, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
57 20 0.11
58 49 0.27
59 112 0.62
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (58 bp):
TCTTAATTTAAGATAAGAAAACATGTTTTGTCTTAATCTAGACAAGAAAACATGTTTG
Found at i:12999263 original size:3 final size:3
Alignment explanation
Indices: 12999255--12999284 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
12999245 TCATAATTAA
12999255 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
12999285 TAAATATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12999542 original size:18 final size:18
Alignment explanation
Indices: 12999515--12999549 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12999505 ATTACTAGTC
* *
12999515 ATTAGCATAAACTAAAAT
1 ATTAGAATAAAATAAAAT
12999533 ATTAGAATAAAATAAAA
1 ATTAGAATAAAATAAAA
12999550 CATGATCTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
ATTAGAATAAAATAAAAT
Found at i:13029652 original size:74 final size:74
Alignment explanation
Indices: 13029515--13029713 Score: 265
Period size: 74 Copynumber: 2.7 Consensus size: 74
13029505 AGCATATTCT
* ** * * * *
13029515 AAGATAGAGAAGACTTCGTCGACTAAGACGCATGGTTAGTCAACTAAGATCTCACTGCCAGAAAC
1 AAGACAGAGAAGACTTAATCGACTAAGAAGCATGGTTAGTTAACTAAGAGCTCACTGCCAGAAAA
*
13029580 TTTAATTAC
66 TTCAATTAC
* * *
13029589 AAGACAGAG-AGAACTTAATCGACTAAGAAGCATGGTTAGTTAACTGAGAGCTCATTGCTAGAAA
1 AAGACAGAGAAG-ACTTAATCGACTAAGAAGCATGGTTAGTTAACTAAGAGCTCACTGCCAGAAA
13029653 ATTCAATTAC
65 ATTCAATTAC
* *
13029663 AAGACAGAGAAGACTTAATCAACTAAGAAGTATGGTTAGTTAACTAAGAGC
1 AAGACAGAGAAGACTTAATCGACTAAGAAGCATGGTTAGTTAACTAAGAGC
13029714 ACTCTGTCTG
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
73 2 0.02
74 105 0.96
75 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (74 bp):
AAGACAGAGAAGACTTAATCGACTAAGAAGCATGGTTAGTTAACTAAGAGCTCACTGCCAGAAAA
TTCAATTAC
Found at i:13038117 original size:55 final size:55
Alignment explanation
Indices: 13038056--13038190 Score: 200
Period size: 55 Copynumber: 2.5 Consensus size: 55
13038046 GTTTTGTGTT
* * *
13038056 GTGTGGGAGTGCACATGAGCTGATGACCGGTGGGTGATGATTCCAACTATATGC-
1 GTGTGGGAGTGCACATGAGTTGATGACCGGAGGATGATGATTCCAACTATATGCA
* * *
13038110 GATGTGGGAGTGCACATGAGTTGATGACTGGAGGATGATGATTCCAGCTATGTGCA
1 G-TGTGGGAGTGCACATGAGTTGATGACCGGAGGATGATGATTCCAACTATATGCA
13038166 GTGTGGGAGTGCACATGAGTTGATG
1 GTGTGGGAGTGCACATGAGTTGATG
13038191 TCCAGTGGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
54 1 0.01
55 71 0.97
56 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.37, T:0.27
Consensus pattern (55 bp):
GTGTGGGAGTGCACATGAGTTGATGACCGGAGGATGATGATTCCAACTATATGCA
Found at i:13040083 original size:22 final size:22
Alignment explanation
Indices: 13040049--13040097 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
13040039 ATAAATATCA
**
13040049 TTTTCCAGTAGCTTATTC-TCAT
1 TTTTCCAACAGCTTATTCTTC-T
*
13040071 TTTTCCAACAGCTTCTTCTTCT
1 TTTTCCAACAGCTTATTCTTCT
13040093 TTTTC
1 TTTTC
13040098 TTCTTCCTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.14, C:0.27, G:0.06, T:0.53
Consensus pattern (22 bp):
TTTTCCAACAGCTTATTCTTCT
Found at i:13043804 original size:13 final size:13
Alignment explanation
Indices: 13043786--13043811 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13043776 TTTCAGAAAA
13043786 TTTATAAAATCAT
1 TTTATAAAATCAT
13043799 TTTATAAAATCAT
1 TTTATAAAATCAT
13043812 AATTTCTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:13045070 original size:18 final size:19
Alignment explanation
Indices: 13045047--13045082 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13045037 CTTCTAAACT
13045047 TCAAATCA-ACTCCAATAC
1 TCAAATCATACTCCAATAC
13045065 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
13045083 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:13049677 original size:2 final size:2
Alignment explanation
Indices: 13049670--13049697 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13049660 TATTTAGAGA
13049670 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13049698 GTTCAATAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13063197 original size:28 final size:29
Alignment explanation
Indices: 13063164--13063300 Score: 101
Period size: 28 Copynumber: 4.7 Consensus size: 29
13063154 GAAGATAAAA
*
13063164 AAAATATTTTATCTTGTCTAAATTGAGAC
1 AAAATATTTTATCTTGTCTAAATTAAGAC
13063193 -AAATATGTTTA-CTT-TACTAAATTAAGAC
1 AAAATAT-TTTATCTTGT-CTAAATTAAGAC
13063221 AAAAAATATTTT-TCTTGTCTTAAATTAACG-C
1 --AAAATATTTTATCTTGTC-TAAATTAA-GAC
* *
13063252 AAACATA-TTT-CCTTATCTAAATTAAGAC
1 AAA-ATATTTTATCTTGTCTAAATTAAGAC
* *
13063280 CAAACATGTTT-TCTTGTCTAA
1 AAAATAT-TTTATCTTGTCTAA
13063301 CTAACACAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
27 4 0.05
28 31 0.35
29 26 0.30
30 10 0.11
31 16 0.18
32 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (29 bp):
AAAATATTTTATCTTGTCTAAATTAAGAC
Found at i:13063272 original size:59 final size:59
Alignment explanation
Indices: 13063162--13063298 Score: 156
Period size: 59 Copynumber: 2.3 Consensus size: 59
13063152 ATGAAGATAA
* * *
13063162 AAAAAATATTTTATCTTGTC-TAAATTGAGACAAATATGTTTACTTTACTAAATTAAGAC
1 AAAAAATATTTT-TCTTGTCTTAAATTAAGACAAACATATTTACTTTACTAAATTAAGAC
*
13063221 AAAAAATATTTTTCTTGTCTTAAATTAACG-CAAACATATTT-CCTTATCTAAATTAAGAC
1 AAAAAATATTTTTCTTGTCTTAAATTAA-GACAAACATATTTACTTTA-CTAAATTAAGAC
* * *
13063280 CAAACAT-GTTTTCTTGTCT
1 AAAAAATATTTTTCTTGTCT
13063299 AACTAACACA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
58 22 0.32
59 45 0.66
60 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (59 bp):
AAAAAATATTTTTCTTGTCTTAAATTAAGACAAACATATTTACTTTACTAAATTAAGAC
Found at i:13063285 original size:29 final size:29
Alignment explanation
Indices: 13063175--13063300 Score: 107
Period size: 29 Copynumber: 4.3 Consensus size: 29
13063165 AAATATTTTA
* * *
13063175 TCTTGTCTAAATTGAGA-CAAATATGTTT
1 TCTTGTCTAAATTAAGACCAAACATATTT
* * *
13063203 ACTT-TACTAAATTAAGACAAAAAATATTTT
1 TCTTGT-CTAAATTAAGACCAAACATA-TTT
13063233 TCTTGTCTTAAATT-A-ACGCAAACATATTT
1 TCTTGTC-TAAATTAAGAC-CAAACATATTT
* * *
13063262 CCTTATCTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGACCAAACATATTT
13063291 TCTTGTCTAA
1 TCTTGTCTAA
13063301 CTAACACAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
27 1 0.01
28 19 0.25
29 34 0.44
30 16 0.21
31 7 0.09
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (29 bp):
TCTTGTCTAAATTAAGACCAAACATATTT
Found at i:13069381 original size:19 final size:19
Alignment explanation
Indices: 13069357--13069394 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13069347 CTGTCAAACC
*
13069357 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
13069376 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13069395 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13074531 original size:37 final size:37
Alignment explanation
Indices: 13074488--13074633 Score: 224
Period size: 37 Copynumber: 3.9 Consensus size: 37
13074478 TTCATCGTCA
*
13074488 TGTGCACTCCCTACTCACACACTTCAACATCATCATG
1 TGTGCACTCCCTACTCGCACACTTCAACATCATCATG
*
13074525 TGTGCACTCCCTACTCGCACAC-TCTAACATCGTCATG
1 TGTGCACTCCCTACTCGCACACTTC-AACATCATCATG
*
13074562 TGTGCACTCCCTACTTGCACACTTCAACAAT-ATCATG
1 TGTGCACTCCCTACTCGCACACTTCAAC-ATCATCATG
*
13074599 TGTGCACTCCCTACTCGCACACTTTAACATCATCA
1 TGTGCACTCCCTACTCGCACACTTCAACATCATCA
13074634 CACAACATTA
Statistics
Matches: 99, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
36 4 0.04
37 91 0.92
38 4 0.04
ACGTcount: A:0.25, C:0.36, G:0.10, T:0.28
Consensus pattern (37 bp):
TGTGCACTCCCTACTCGCACACTTCAACATCATCATG
Found at i:13088882 original size:21 final size:23
Alignment explanation
Indices: 13088853--13088895 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
13088843 ACCCTAGGTG
*
13088853 GAAACATTCAAGGGAA-AAGTGT
1 GAAACATTCAAGGAAACAAGTGT
13088875 GAAA-ATTCAAGGAAACAAGTG
1 GAAACATTCAAGGAAACAAGTG
13088896 AAAAAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.49, C:0.09, G:0.26, T:0.16
Consensus pattern (23 bp):
GAAACATTCAAGGAAACAAGTGT
Found at i:13088900 original size:21 final size:20
Alignment explanation
Indices: 13088853--13088900 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
13088843 ACCCTAGGTG
* *
13088853 GAAACATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
13088873 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
13088895 GAAAAA
1 GAAAAA
13088901 ATGTAAGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.54, C:0.08, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:13107001 original size:23 final size:23
Alignment explanation
Indices: 13106948--13107016 Score: 84
Period size: 23 Copynumber: 2.9 Consensus size: 23
13106938 CGGTTCCGTC
** *
13106948 TTTTGTTTTCCTTTTGTTGGTTTTT
1 TTTTGTTTTTATTTT-TTGG-TATT
*
13106973 TTTTGTTTTTGTTTTTTGGTATT
1 TTTTGTTTTTATTTTTTGGTATT
13106996 TTTTGTTTTTATTTTTTGGTA
1 TTTTGTTTTTATTTTTTGGTA
13107017 GGCCAGGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 23 0.57
24 4 0.10
25 13 0.32
ACGTcount: A:0.04, C:0.03, G:0.16, T:0.77
Consensus pattern (23 bp):
TTTTGTTTTTATTTTTTGGTATT
Found at i:13110022 original size:17 final size:17
Alignment explanation
Indices: 13109992--13110024 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13109982 TTCTTGATAA
13109992 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
13110009 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
13110025 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Found at i:13110244 original size:28 final size:28
Alignment explanation
Indices: 13110166--13110336 Score: 175
Period size: 29 Copynumber: 5.9 Consensus size: 28
13110156 TTAAGACAAC
*
13110166 TCTTGTCTATAATTAAGACAAAAAAAT-TTT
1 TCTTGTCTA-AATTAAGAC--AAACATGTTT
* * *
13110196 ATCTTGTTTAAATTGAGACAAATATGTTT
1 -TCTTGTCTAAATTAAGACAAACATGTTT
* **
13110225 TATTGAATAAATTAAGACAAACTAT-TTT
1 TCTTGTCTAAATTAAGACAAAC-ATGTTT
* *
13110253 TCTTGTCTTAAATTAAGGCAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATGTTT
13110282 TCTTGTCTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATGTTT
*
13110311 TTTTGTCTAAATTAAGACAAACATGT
1 TCTTGTCTAAATTAAGACAAACATGT
13110337 CAAAGCTGCC
Statistics
Matches: 120, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
28 49 0.41
29 55 0.46
30 8 0.07
31 8 0.07
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:13110266 original size:57 final size:56
Alignment explanation
Indices: 13110176--13110336 Score: 173
Period size: 57 Copynumber: 2.8 Consensus size: 56
13110166 TCTTGTCTAT
* * *
13110176 AATTAAGACAAAAAAATTTTATCTTGT-TTAAATTGAGACAAATATGTTTTATTGAATA
1 AATTAAGAC--AAACATTTT-TCTTGTCTTAAATTAAGACAAACATGTTTTATTGAATA
* * * **
13110234 AATTAAGACAAACTATTTTTCTTGTCTTAAATTAAGGCAAACATATTTTCTTGTCTA
1 AATTAAGACAAAC-ATTTTTCTTGTCTTAAATTAAGACAAACATGTTTTATTGAATA
*
13110291 AATTAAGACCAAACATGTTTTTTTGTC-TAAATTAAGACAAACATGT
1 AATTAAGA-CAAACAT-TTTTCTTGTCTTAAATTAAGACAAACATGT
13110337 CAAAGCTGCC
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
56 9 0.10
57 56 0.64
58 23 0.26
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (56 bp):
AATTAAGACAAACATTTTTCTTGTCTTAAATTAAGACAAACATGTTTTATTGAATA
Found at i:13111555 original size:35 final size:35
Alignment explanation
Indices: 13111516--13111604 Score: 110
Period size: 35 Copynumber: 2.5 Consensus size: 35
13111506 GTAGTGTTTT
*
13111516 ACTTGTTCTAGTTGTTT-TACGTGAAAT-GACGCTTC
1 ACTTGTTCTAGTT-TTTCTACGTGAAATAG-CACTTC
* *
13111551 ACTTGTTCTAGTTTTTCTGCGTGAAGTAGCACTTC
1 ACTTGTTCTAGTTTTTCTACGTGAAATAGCACTTC
*
13111586 ACTTGTTCTAGTTATTCTA
1 ACTTGTTCTAGTTTTTCTA
13111605 TGTCAATATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 3 0.06
35 43 0.91
36 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (35 bp):
ACTTGTTCTAGTTTTTCTACGTGAAATAGCACTTC
Found at i:13112319 original size:25 final size:25
Alignment explanation
Indices: 13112267--13112320 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
13112257 GGTTAATAAT
* **
13112267 ATTAATCTTCATGCAATAAATAGCC
1 ATTAATCTTCATACAATAAATAAAC
* *
13112292 ATTAATCTTTATATAATAAATAAAC
1 ATTAATCTTCATACAATAAATAAAC
13112317 ATTA
1 ATTA
13112321 GTTTCAGTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.37
Consensus pattern (25 bp):
ATTAATCTTCATACAATAAATAAAC
Found at i:13113362 original size:19 final size:19
Alignment explanation
Indices: 13113334--13113374 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
13113324 CTCTTCTTCG
13113334 TCATGCTCCCACGCCATTT
1 TCATGCTCCCACGCCATTT
* *
13113353 TCATGGTCCCATGCCATTT
1 TCATGCTCCCACGCCATTT
13113372 TCA
1 TCA
13113375 CCTTGCCACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.37, G:0.12, T:0.34
Consensus pattern (19 bp):
TCATGCTCCCACGCCATTT
Found at i:13118034 original size:2 final size:2
Alignment explanation
Indices: 13118027--13118053 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13118017 ACTTTCTATA
13118027 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
13118054 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13118058 original size:2 final size:2
Alignment explanation
Indices: 13118053--13118099 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
13118043 ACACACACAC
13118053 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13118094 AT AT AT
1 AT AT AT
13118100 GGTTTGAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:13124490 original size:21 final size:22
Alignment explanation
Indices: 13124465--13124505 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13124455 CCTAGGTGGA
*
13124465 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
13124486 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
13124506 AAAAATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:13124506 original size:20 final size:21
Alignment explanation
Indices: 13124465--13124509 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
13124455 CCTAGGTGGA
*
13124465 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
13124486 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
13124506 AAAA
1 AAAA
13124510 ATGTAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:13124510 original size:21 final size:20
Alignment explanation
Indices: 13124463--13124511 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
13124453 ACCCTAGGTG
*
13124463 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
13124483 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
13124505 GAAAAAT
1 GAAAAAT
13124512 GTAAGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 18 0.75
22 5 0.21
ACGTcount: A:0.55, C:0.06, G:0.22, T:0.16
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:13128204 original size:20 final size:20
Alignment explanation
Indices: 13128179--13128224 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
13128169 TTTTGGCCTC
13128179 ATTTGACTTATTGAAGTATA
1 ATTTGACTTATTGAAGTATA
* *
13128199 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGAAGTATA
13128219 ATTTGA
1 ATTTGA
13128225 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:13128326 original size:28 final size:28
Alignment explanation
Indices: 13128269--13128327 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
13128259 TTTGAAGTAT
* * *
13128269 AGGGGTAAAATGGTAATTTTACCATCCC
1 AGGGGCAAAATAGTAATTTTACCACCCC
13128297 AGGGGCAAAATAGTAATTTT-CCACCACC
1 AGGGGCAAAATAGTAATTTTACCACC-CC
13128325 AGG
1 AGG
13128328 ACATTTTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (28 bp):
AGGGGCAAAATAGTAATTTTACCACCCC
Found at i:13139468 original size:66 final size:65
Alignment explanation
Indices: 13139390--13139538 Score: 181
Period size: 66 Copynumber: 2.3 Consensus size: 65
13139380 GGCTTTTCGC
* * * ** *
13139390 AGGCTCAGCCACAACCTTTAGCAATGGTTTTTCACGGGATCAACCAAAACTTAAAGTGGTTCTTC
1 AGGCTCAACCACAACCTTTA-CAATAGTTTTTCACGGGATAAACCAAAACCCAAAGTGATTCTTC
13139455 A
65 A
* * * * *
13139456 AGGCTCAACCACAACCTTTTACACTAGTTTTTCATGGGCTAAACTAAAACCCAAAGTGATTTTTC
1 AGGCTCAACCACAACC-TTTACAATAGTTTTTCACGGGATAAACCAAAACCCAAAGTGATTCTTC
13139521 A
65 A
13139522 AGGCTCAACCACAACCT
1 AGGCTCAACCACAACCT
13139539 ATAACAATCA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
65 1 0.01
66 66 0.93
67 4 0.06
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (65 bp):
AGGCTCAACCACAACCTTTACAATAGTTTTTCACGGGATAAACCAAAACCCAAAGTGATTCTTCA
Found at i:13151047 original size:2 final size:2
Alignment explanation
Indices: 13151040--13151064 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13151030 ACTTTCTATA
13151040 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
13151065 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13164542 original size:85 final size:85
Alignment explanation
Indices: 13164394--13164881 Score: 700
Period size: 85 Copynumber: 5.8 Consensus size: 85
13164384 TATTAATTCC
* * * *
13164394 AATGTTTAATTTTAGCATATTGCCAATCATTTTAATTAAAAATCCAAACAATGATTCTAAACATT
1 AATGTTTAATTCTAGCATATTACCAATCATTTTAATTAATAATCCAAACAATAATTCTAAACATT
*
13164459 AATTCCCCAACATAATTCTT
66 AATTCCCAAACATAATTCTT
*
13164479 AATGTTTAATTCTAGCATATTACCAATCATTTTAATTGAA-AATCCAAACAATAATTCTCAACAT
1 AATGTTTAATTCTAGCATATTACCAATCATTTTAATT-AATAATCCAAACAATAATTCTAAACAT
* *
13164543 TGATTCCCAAACATAATTTTT
65 TAATTCCCAAACATAATTCTT
* * **
13164564 AATATTTAATTCTAACATATTACCAATCATTTTAATTAATTGTCCAAACAATAATTCTAAACATT
1 AATGTTTAATTCTAGCATATTACCAATCATTTTAATTAATAATCCAAACAATAATTCTAAACATT
*
13164629 AATTCCCAAACATAATTTTT
66 AATTCCCAAACATAATTCTT
* * * * *
13164649 TATGTTTAATTCTAGTATATTACCAATCATTTTAATTAATTATCCAAACAATAATTTTAAAAATT
1 AATGTTTAATTCTAGCATATTACCAATCATTTTAATTAATAATCCAAACAATAATTCTAAACATT
13164714 AATTCCCAAACATAATTCTT
66 AATTCCCAAACATAATTCTT
* *
13164734 AATGTTTAATTCTAGCATATTACCAATCATTTTAATTAA-AACTCCAAATAATAATTCTAAACAC
1 AATGTTTAATTCTAGCATATTACCAATCATTTTAATTAATAA-TCCAAACAATAATTCTAAACAT
*
13164798 TAATTCCTAAACATAATTCTT
65 TAATTCCCAAACATAATTCTT
* * *
13164819 AATGTTAAATTCTAGC--A-T-CAAATCATTTTAATTAATTATCCAAACAATAATTCTAAACATT
1 AATGTTTAATTCTAGCATATTACCAATCATTTTAATTAATAATCCAAACAATAATTCTAAACATT
13164880 AA
66 AA
13164882 ACTCTTTGAA
Statistics
Matches: 365, Mismatches: 34, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
81 39 0.11
82 2 0.01
83 1 0.00
84 3 0.01
85 318 0.87
86 2 0.01
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (85 bp):
AATGTTTAATTCTAGCATATTACCAATCATTTTAATTAATAATCCAAACAATAATTCTAAACATT
AATTCCCAAACATAATTCTT
Found at i:13164735 original size:27 final size:28
Alignment explanation
Indices: 13164682--13164735 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
13164672 CAATCATTTT
*
13164682 AATTAATTATCCAAACAATAATTTTAAA
1 AATTAATTACCCAAACAATAATTTTAAA
13164710 AATTAATT-CCCAAAC-ATAATTCTTAA
1 AATTAATTACCCAAACAATAATT-TTAA
13164736 TGTTTAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 6 0.25
27 10 0.42
28 8 0.33
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (28 bp):
AATTAATTACCCAAACAATAATTTTAAA
Found at i:13164809 original size:14 final size:13
Alignment explanation
Indices: 13164784--13164816 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
13164774 ACTCCAAATA
13164784 ATAATT-CTAAAC
1 ATAATTCCTAAAC
13164796 ACTAATTCCTAAAC
1 A-TAATTCCTAAAC
13164810 ATAATTC
1 ATAATTC
13164817 TTAATGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 11 0.58
14 7 0.37
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATTCCTAAAC
Found at i:13168606 original size:340 final size:342
Alignment explanation
Indices: 13167896--13168624 Score: 1054
Period size: 342 Copynumber: 2.1 Consensus size: 342
13167886 AAAAAGCTTT
** * *
13167896 TAATCGGTTAAAGACAAGTTTTCTCGATTAACCTGGAGTAATGGAGACAGATAGAATAATTTTAA
1 TAATCGGTTAAAGACAAGTTTAATCGATTAACCTGGAGCAATGGAGACAAATAGAATAATTTTAA
* * * * * * *
13167961 TGTATTAAAGCCAACTTTAATCGATTAACCTGAAGCATAGGAAAATAGATAGAAAGATTTTAATC
66 TGTATTAAAGCCAACTTTAATCGATTAACCCGAAGCACAAGAAAACAAACAAAAAGATTTTAATC
* *
13168026 AATTAAAATCCATTTTAAAAGACTAAAAGTTCATACAAATTTGAATTCAAAACCACTAGAAGACA
131 AATTAAAATCCATTTTAAAAGACTAAAAGGTCAAACAAATTTGAATTCAAAACCACTAGAAGACA
* **
13168091 AAAATAATAGCCAAATTCTTCCCAAACTATTTACAATGATTAAGTTGCACTCTTTAAGTATAAAT
196 AAAATAATAGCCAAATTCTTCCCAAACTATCTACAATGATTAAGTTGCACTCTCCAAGTATAAAT
* * *
13168156 AAGGGTTCAAATGATCATAAATGTAAAAGAGAACCATACAAGAGCAAGATTGATCCAAGAAAAGC
261 AAGGGTTCAAATGATCATAAATGTAAAAAAGAACCATACAAAAGCAAGATTGAGCCAAGAAAAGC
13168221 CAAAAAATTCTCTTTTC
326 CAAAAAATTCTCTTTTC
* * * **
13168238 TAATCGATTGAAGACAAGTTTCATCGATTAACCTAAAGCAATGGAGACAAATAGAATAATTTTAA
1 TAATCGGTTAAAGACAAGTTTAATCGATTAACCTGGAGCAATGGAGACAAATAGAATAATTTTAA
*
13168303 T-TGATTAAAGCCAACTTTAATTGATTAACCCGAAGCACAAGAAAACAAACAAAAAGATTTTAAT
66 TGT-ATTAAAGCCAACTTTAATCGATTAACCCGAAGCACAAGAAAACAAACAAAAAGATTTTAAT
** * * * * *
13168367 CGGTTAATATCCATTTTAATAGATTAAAAGGTCAAACAAATTTGAA-TCAAAATCGCTAGAAGAC
130 CAATTAAAATCCATTTTAAAAGACTAAAAGGTCAAACAAATTTGAATTCAAAACCACTAGAAGAC
** * *
13168431 -AAAATAATAGCCAAATTCTTCTTAAACTATCTGCAATGATTAAGTTTCACTCTCCAAGTATAAA
195 AAAAATAATAGCCAAATTCTTCCCAAACTATCTACAATGATTAAGTTGCACTCTCCAAGTATAAA
*
13168495 TAAGGGTTCAAATGATCAT-AATGTAAAAAAGAACCATCCAAAAGCAAGATTGAGCCAA-AAAGA
260 TAAGGGTTCAAATGATCATAAATGTAAAAAAGAACCATACAAAAGCAAGATTGAGCCAAGAAA-A
13168558 GCCAAAAAAATTCTCTTTTC
324 GCC-AAAAAATTCTCTTTTC
*
13168578 TAATTGGTTAAAGACAAGTTTAATCGATTAACCTGGAGCAATGGAGA
1 TAATCGGTTAAAGACAAGTTTAATCGATTAACCTGGAGCAATGGAGA
13168625 TAGATGTGAG
Statistics
Matches: 342, Mismatches: 42, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
338 3 0.01
339 39 0.11
340 133 0.39
341 17 0.05
342 150 0.44
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (342 bp):
TAATCGGTTAAAGACAAGTTTAATCGATTAACCTGGAGCAATGGAGACAAATAGAATAATTTTAA
TGTATTAAAGCCAACTTTAATCGATTAACCCGAAGCACAAGAAAACAAACAAAAAGATTTTAATC
AATTAAAATCCATTTTAAAAGACTAAAAGGTCAAACAAATTTGAATTCAAAACCACTAGAAGACA
AAAATAATAGCCAAATTCTTCCCAAACTATCTACAATGATTAAGTTGCACTCTCCAAGTATAAAT
AAGGGTTCAAATGATCATAAATGTAAAAAAGAACCATACAAAAGCAAGATTGAGCCAAGAAAAGC
CAAAAAATTCTCTTTTC
Found at i:13169790 original size:28 final size:28
Alignment explanation
Indices: 13169758--13169979 Score: 246
Period size: 29 Copynumber: 7.6 Consensus size: 28
13169748 TGACAACTTT
13169758 AACATGTTTGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
* *
13169786 AACATGTATGGCCTTAATTTAGACAAGAA
1 AACATGT-TTGTCTTAATTTAGACAAGAA
*
13169815 AATATGTTTGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
*
13169843 AACATGTTTGGTCTTAATTTAGACCAGAA
1 AACATGTTT-GTCTTAATTTAGACAAGAA
* *
13169872 AATATGCTTGTCTTAATTTAAGACAAGAAA
1 AACATGTTTGTCTTAATTT-AGACAAG-AA
* * *
13169902 AATATTTTTTGTCTTAATCTAGACAAGAA
1 AACA-TGTTTGTCTTAATTTAGACAAGAA
* * *
13169931 AACATATTTGTCTTAGTTTTAGCCAAGATGA
1 AACATGTTTGTCTTA-ATTTAGACAAGA--A
* *
13169962 AATATTTTTGTCTTAATT
1 AACATGTTTGTCTTAATT
13169980 AAAAACCATA
Statistics
Matches: 165, Mismatches: 21, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
28 54 0.33
29 70 0.42
30 15 0.09
31 26 0.16
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:13169849 original size:57 final size:57
Alignment explanation
Indices: 13169761--13169945 Score: 262
Period size: 57 Copynumber: 3.2 Consensus size: 57
13169751 CAACTTTAAC
* *
13169761 ATGTTTGTCTTAATTTAGACAAGAAAACATGTATGGCCTTAATTTAGACAAGAAAAT
1 ATGTTTGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATTTAGACAAGAAAAT
*
13169818 ATGTTTGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATTTAGACCAGAAAAT
1 ATGTTTGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATTTAGACAAGAAAAT
* * * * * *
13169875 ATGCTTGTCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATCTAGACAAGAAAAC
1 ATGTTTGTCTTAATTT-AGACAAG-AAAACATGTTTGGTCTTAATTTAGACAAGAAAAT
*
13169934 ATATTTGTCTTA
1 ATGTTTGTCTTA
13169946 GTTTTAGCCA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
57 69 0.61
58 7 0.06
59 38 0.33
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (57 bp):
ATGTTTGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATTTAGACAAGAAAAT
Found at i:13170153 original size:17 final size:17
Alignment explanation
Indices: 13170131--13170163 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13170121 ATAATAATAA
13170131 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
13170148 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
13170164 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:13171182 original size:63 final size:62
Alignment explanation
Indices: 13171043--13171182 Score: 147
Period size: 62 Copynumber: 2.2 Consensus size: 62
13171033 AAATTCTATT
* * * * * * * * *
13171043 TTTTAATCGGTTAAAGACAAGTTTCATCAATTAACCTGGAGTAATGGAAACAGATAGAATAA
1 TTTTAATAGGTTAAAGACAACTTTAATCAATTAACCTGAAGCAAAGAAAACAAACAGAATAA
* *
13171105 TTTTAATAGATTAAAGCCAACTTTAATCAATTAACCTGAAGCACAAGAAAACAAACAGAA-AGA
1 TTTTAATAGGTTAAAGACAACTTTAATCAATTAACCTGAAGCA-AAGAAAACAAACAGAATA-A
*
13171168 TTTTAATTGGTTAAA
1 TTTTAATAGGTTAAA
13171183 ATCCATTTTA
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
62 37 0.59
63 26 0.41
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (62 bp):
TTTTAATAGGTTAAAGACAACTTTAATCAATTAACCTGAAGCAAAGAAAACAAACAGAATAA
Found at i:13171438 original size:340 final size:338
Alignment explanation
Indices: 13170794--13172000 Score: 1456
Period size: 340 Copynumber: 3.5 Consensus size: 338
13170784 ATTTTAATTG
* * *
13170794 ATTAACTTGAAGCACAAGAAAACAGACAGAAAGATTTTAATCGGTTAAAATCCATTTTAATAGAT
1 ATTAACCTGAAGCACAAGAAAACAAACAAAAAGATTTTAATCGGTTAAAATCCATTTTAATAGAT
* * *
13170859 TAAAAGGTCAGACAGATTTGAATTTAGAACCACTAGAAGACAAAATAATAG-CAAATTCTTCCCA
66 TAAAAGGTCAAACAGATTTGAATTCAAAACCACTAGAAGACAAAATAATAGCCAAATTCTTCCCA
* * * * * *
13170923 AACTGTCTACAATGATTAAGTTTCACTCTTCAAGTACAAATAAGGGTTCAATCGATCATAAATTT
131 AACTATCTGCAACGATTAAGTTTCACTCTTCAAGTATAAATAAGGGTTCAATCAATCATAAATGT
* * * * *
13170988 AAAAAAGAATCACCCGAAAGCAAGATTGAGCCAAGAAGAGCCAAAAAATTCTATTTTTTAATCGG
196 -AAAAAGAACCATCC-AAAGCAAGATTGAGCCAAGAAGAGCC-AAAAATTCTCTTTTCTAATTGG
* * ** * *
13171053 TTAAAGACAAGTTTCATCAATTAACCTGGAGTAATGGAAACAGATAGAATAATTTTAATAGATTA
258 TTAAAGACAAGTTTCATCGATTAACCTAGAACAATGGAGACAGATAGAATAATTTTAATCGATTA
13171118 AAGCCAACTTTAATCA
323 AAGCCAACTTTAATCA
* *
13171134 ATTAACCTGAAGCACAAGAAAACAAACAGAAAGATTTTAATTGGTTAAAATCCATTTTAATAGAT
1 ATTAACCTGAAGCACAAGAAAACAAACAAAAAGATTTTAATCGGTTAAAATCCATTTTAATAGAT
* * * * *
13171199 TCAAAGGTCAAACATATTTGAATTCAAAATCACTAAAAGACAAAATAATAGCCAAATTCTTCCTA
66 TAAAAGGTCAAACAGATTTGAATTCAAAACCACTAGAAGACAAAATAATAGCCAAATTCTTCCCA
* * * * *
13171264 GACTATCTGCAATGATTAAGTTTCACTCTTCAAGTATAAATAAGGGTTCAATCTATCGTCAATGT
131 AACTATCTGCAACGATTAAGTTTCACTCTTCAAGTATAAATAAGGGTTCAATCAATCATAAATGT
13171329 AAAAGAGAACCATCCAAGAGCAAGATTGAGCCAAGAAGAGCCTAAAAATTCTCTTTTCTAATTGG
196 AAAA-AGAACCATCCAA-AGCAAGATTGAGCCAAGAAGAGCC-AAAAATTCTCTTTTCTAATTGG
*
13171394 -TAAAGACAAGTTTCATCGATTAACCTAGAACAATGGAGACAGATAGAAAAATTTTAATCGATTA
258 TTAAAGACAAGTTTCATCGATTAACCTAGAACAATGGAGACAGATAGAATAATTTTAATCGATTA
*
13171458 AAGCTAACTTTAATCA
323 AAGCCAACTTTAATCA
* * *
13171474 ATT-ACCTGAAGCACAAGAAAATAGACAAAAAGATTTTAATTGATTAAAATCCATTTTAATAGAT
1 ATTAACCTGAAGCACAAGAAAACAAACAAAAAG------ATT--TT--AAT-C---------GGT
* * * *
13171538 TAAAATCCATTTTAATAGATTAAAAGGTTAGATAGATTGGAATTCAAAACCACTAGAAGACAAAA
46 TAAAATCCATTTTAATAGATTAAAAGGTCAAACAGATTTGAATTCAAAACCACTAGAAGACAAAA
* * *
13171603 TAATAGCCAAATTCTACCCAAACTATCTGCAACAATTAAGTTTCACTCTCCAAGTATAAATAAGG
111 TAATAGCCAAATTCTTCCCAAACTATCTGCAACGATTAAGTTTCACTCTTCAAGTATAAATAAGG
*
13171668 GTTCAATCAATCATAAATGTAAACAAGAACCATCCAAAAGGAAGATTGAGCC------A---AAA
176 GTTCAATCAATCATAAATGTAAA-AAGAACCATCC-AAAGCAAGATTGAGCCAAGAAGAGCCAAA
* *
13171724 AATTTTCTTTTCTAATTGGTTAAAGACAAGTTTCATCGATTAACCTA-AAGCAATGGAGACAAAT
239 AATTCTCTTTTCTAATTGGTTAAAGACAAGTTTCATCGATTAACCTAGAA-CAATGGAGACAGAT
*
13171788 AGAATACTTTTAATCGATTAAAGCCAACTTTAATCA
303 AGAATAATTTTAATCGATTAAAGCCAACTTTAATCA
* * * * *
13171824 ATTAACCTAAAGCATAAGAAAACAACCAAAAATATTTTAATCGGTTAAAATCTATTTTAATAGAT
1 ATTAACCTGAAGCACAAGAAAACAAACAAAAAGATTTTAATCGGTTAAAATCCATTTTAATAGAT
* * * * * *
13171889 TAAAAAGTGAGACGGATTTGAATTC-AAACCATTAGAAGACCAAATAATAGCCAAATTCTTCCCA
66 TAAAAGGTCAAACAGATTTGAATTCAAAACCACTAGAAGACAAAATAATAGCCAAATTCTTCCCA
*
13171953 AA-TAGTTTGCAACGATTAAGTTTCACTC-TCAAAGTATAAATAAGGGTT
131 AACTA-TCTGCAACGATTAAGTTTCACTCTTC-AAGTATAAATAAGGGTT
13172001 TAAACTGTCA
Statistics
Matches: 757, Mismatches: 80, Indels: 70
0.83 0.09 0.08
Matches are distributed among these distances:
329 3 0.00
330 76 0.10
331 41 0.05
339 26 0.03
340 188 0.25
341 123 0.16
343 2 0.00
345 6 0.01
347 2 0.00
349 26 0.03
350 76 0.10
351 23 0.03
353 1 0.00
359 161 0.21
360 3 0.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (338 bp):
ATTAACCTGAAGCACAAGAAAACAAACAAAAAGATTTTAATCGGTTAAAATCCATTTTAATAGAT
TAAAAGGTCAAACAGATTTGAATTCAAAACCACTAGAAGACAAAATAATAGCCAAATTCTTCCCA
AACTATCTGCAACGATTAAGTTTCACTCTTCAAGTATAAATAAGGGTTCAATCAATCATAAATGT
AAAAAGAACCATCCAAAGCAAGATTGAGCCAAGAAGAGCCAAAAATTCTCTTTTCTAATTGGTTA
AAGACAAGTTTCATCGATTAACCTAGAACAATGGAGACAGATAGAATAATTTTAATCGATTAAAG
CCAACTTTAATCA
Found at i:13171531 original size:20 final size:20
Alignment explanation
Indices: 13171506--13171562 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
13171496 AGACAAAAAG
*
13171506 ATTTTAATTGATTAAAATCC
1 ATTTTAATAGATTAAAATCC
13171526 ATTTTAATAGATTAAAATCC
1 ATTTTAATAGATTAAAATCC
13171546 ATTTTAATAGATTAAAA
1 ATTTTAATAGATTAAAA
13171563 GGTTAGATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (20 bp):
ATTTTAATAGATTAAAATCC
Found at i:13171891 original size:20 final size:20
Alignment explanation
Indices: 13171856--13171893 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13171846 CAACCAAAAA
* *
13171856 TATTTTAATCGGTTAAAATC
1 TATTTTAATAGATTAAAATC
13171876 TATTTTAATAGATTAAAA
1 TATTTTAATAGATTAAAA
13171894 AGTGAGACGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (20 bp):
TATTTTAATAGATTAAAATC
Found at i:13172807 original size:21 final size:21
Alignment explanation
Indices: 13172756--13172810 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
13172746 CATCATCTGT
*
13172756 ACGAGGGTTCCTCTCAACTGC
1 ACGAGGGTTTCTCTCAACTGC
*
13172777 ACAAGGGTTTCTCTCAACTGC
1 ACGAGGGTTTCTCTCAACTGC
13172798 ACGAGGGTTTCTC
1 ACGAGGGTTTCTC
13172811 GTTAAAACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (21 bp):
ACGAGGGTTTCTCTCAACTGC
Found at i:13175197 original size:63 final size:62
Alignment explanation
Indices: 13175061--13175197 Score: 152
Period size: 62 Copynumber: 2.2 Consensus size: 62
13175051 TTCTCTTTTC
* * * * * *
13175061 TAATCGGTTAAAGACAAGTTTCATCGATTAACCTAGAGCAATGGAGACAGATAGCCAAATTT
1 TAATCGGTTAAAGACAACTTTAATCGATTAACCTAGAGCAAAGAAAACAGATAGCAAAATTT
* * *
13175123 TAATCGATTAAAGCCAACTTTAATCGATTAACCT-GAAGCACAAGAAAACATATAG-AAAGATTT
1 TAATCGGTTAAAGACAACTTTAATCGATTAACCTAG-AGCA-AAGAAAACAGATAGCAAA-ATTT
13175186 TAATCGGTTAAA
1 TAATCGGTTAAA
13175198 ATCCATTTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
61 1 0.02
62 36 0.58
63 25 0.40
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.26
Consensus pattern (62 bp):
TAATCGGTTAAAGACAACTTTAATCGATTAACCTAGAGCAAAGAAAACAGATAGCAAAATTT
Found at i:13175523 original size:341 final size:341
Alignment explanation
Indices: 13174649--13176399 Score: 2438
Period size: 341 Copynumber: 5.2 Consensus size: 341
13174639 TCAAATAAAT
*
13174649 GATCATAAATGTAAAAAAGAACCATCCAAGAGCAAGATTAAGCCAA-AAAGAGCCAAAAAATTCT
1 GATCATAAATGTAAAAAAGAACCATCCAAGAGCAAGATTGAGCCAAGAAA-AGCCAAAAAATTCT
* *
13174713 CTTTTCTAATCGGTTAAAGACAAGTTTCATCAATTAACCTAGAGCAATGGAGATAGATAGAATAA
65 CTTTTCTAATCGGTTAAAGACAAGTTTCATCGATTAACCTAGAGCAATGGAGACAGATAGAATAA
* * * *
13174778 TTTTAATCGATTAAAGCCAACTTAAATTGATTAACTTGAAGCACAAGAAAACAAAC-GAAAAGAT
130 TTTTAATCGATTAAAGCCAACTTTAATCGATTAACCTGAAGCACAAGAAAACAGACAG-AAAGAT
* * *
13174842 TTTAATTGGTTAAAATCCATTTTAATAGATTAAAAAGTTAGACAA-ATTTGAATTCAAAACCACT
194 TTTAATCGGTTAAAATCCATTTTAATAGATTAAAAGGTCAGA-AAGATTTGAATTCAAAACCACT
* * * *
13174906 AGAAGACAAAATAATAGCCAAATTCTTCCGAAATTGTCTGCAATGATTAAGTTTCACTCTCTAAG
258 AGAAGACAAAATAATAGCCAAATTCTTCCCAAACTATCTGCAATGATTAAGTTTCACTCTCCAAG
13174971 TATAAATAAGGGTTCGAAT-
323 TATAAATAAGGGTTC-AATC
* * * *
13174990 AATCATAAATGTAAAAAAAAAACCATACAAGAGCAAGATTGAGCCAAGAAGAGCCAAAAAATTCT
1 GATCATAAATGT-AAAAAAGAACCATCCAAGAGCAAGATTGAGCCAAGAAAAGCCAAAAAATTCT
*
13175055 CTTTTCTAATCGGTTAAAGACAAGTTTCATCGATTAACCTAGAGCAATGGAGACAGATAGCCA-A
65 CTTTTCTAATCGGTTAAAGACAAGTTTCATCGATTAACCTAGAGCAATGGAGACAGATAG-AATA
* *
13175119 ATTTTAATCGATTAAAGCCAACTTTAATCGATTAACCTGAAGCACAAGAAAACATATAGAAAGAT
129 ATTTTAATCGATTAAAGCCAACTTTAATCGATTAACCTGAAGCACAAGAAAACAGACAGAAAGAT
*
13175184 TTTAATCGGTTAAAATCCATTTTAATAGATTAAAAGGTCAGAAAGATTTGAATTCAAAACCATTA
194 TTTAATCGGTTAAAATCCATTTTAATAGATTAAAAGGTCAGAAAGATTTGAATTCAAAACCACTA
* * *
13175249 GAAGACAAAATAGTAGCCAAATTCTTCCCAAACTATCTTCAATGATTAAGTTTCACTCTCCAAGA
259 GAAGACAAAATAATAGCCAAATTCTTCCCAAACTATCTGCAATGATTAAGTTTCACTCTCCAAGT
13175314 ATAAATAAGGGTTCAATC
324 ATAAATAAGGGTTCAATC
*
13175332 GATCATAAATGTAAAAGAGAACCATCCAAGAGCAAGATTGAGCCAAGAAAAGCCAAAAAATTCTC
1 GATCATAAATGTAAAAAAGAACCATCCAAGAGCAAGATTGAGCCAAGAAAAGCCAAAAAATTCTC
* * * *
13175397 TTTTCTAATCGATTAAAGACAAGTTTCATCGATTAACATGGAGCAATGAAGACAGATAGAATAAT
66 TTTTCTAATCGGTTAAAGACAAGTTTCATCGATTAACCTAGAGCAATGGAGACAGATAGAATAAT
* * *
13175462 TTTAATCGATTAAATCCAACTTTAATCAATTAACCTGAAGCACATGAAAACAGACAGAAAGATTT
131 TTTAATCGATTAAAGCCAACTTTAATCGATTAACCTGAAGCACAAGAAAACAGACAGAAAGATTT
* * * *
13175527 TAATCAGTTAAAATCCATTTTAATAGATTAAAAGGTGAGACAGATTTGAATTCAAAGCCACTAGA
196 TAATCGGTTAAAATCCATTTTAATAGATTAAAAGGTCAGAAAGATTTGAATTCAAAACCACTAGA
* * * * *
13175592 AGA-AAAACTAATAGCCAAATTCTTCCCAAACTGTATGTAATGATTAAGTTTCATTCCCCAAGTA
261 AGACAAAA-TAATAGCCAAATTCTTCCCAAACTATCTGCAATGATTAAGTTTCACTCTCCAAGTA
13175656 TAAATAAGGGTTC-A--
325 TAAATAAGGGTTCAATC
*
13175670 -A-CATAAATGTAAAAAAAAACCATCCAAGAGCAAGATTGAGCCAAGAAAAGCCAAAAAATTCTC
1 GATCATAAATGTAAAAAAGAACCATCCAAGAGCAAGATTGAGCCAAGAAAAGCCAAAAAATTCTC
* * *
13175733 ---TCT--TC---T-------A-----ATCGATTAACTTGGAGCAATGGAGACAAATAGAATAAT
66 TTTTCTAATCGGTTAAAGACAAGTTTCATCGATTAACCTAGAGCAATGGAGACAGATAGAATAAT
* *
13175778 TTTAATCGATTAAAGCCAACTTTAATCGATTAACCTAAAGCATAA-AAAAGCAGACAGAAAGATT
131 TTTAATCGATTAAAGCCAACTTTAATCGATTAACCTGAAGCACAAGAAAA-CAGACAGAAAGATT
**
13175842 TTAATCAATTAAAATCCATTTTAATAGATTAAAAGGTCA-AACAGATTTGAATTCAAAACCACTA
195 TTAATCGGTTAAAATCCATTTTAATAGATTAAAAGGTCAGAA-AGATTTGAATTCAAAACCACTA
* *
13175906 GAAGAAAAAATAATAGCCAAATTTTTCCCAAACTATCTGCAATGATTAAGTTTCACTCTCCAAGT
259 GAAGACAAAATAATAGCCAAATTCTTCCCAAACTATCTGCAATGATTAAGTTTCACTCTCCAAGT
13175971 ATAAATAAGGGTTCAATC
324 ATAAATAAGGGTTCAATC
* * * *
13175989 GATCATAAATGTAAAAGAGAACCATCCAAGAGCAAGACTAAGCCAAGAAAAG-CAAAAAACATCT
1 GATCATAAATGTAAAAAAGAACCATCCAAGAGCAAGATTGAGCCAAGAAAAGCCAAAAAA-TTCT
* *
13176053 ATTTTCTAATTGGTTAAAGACAAGTTTCATCGATTAACCTAGAGCAATGGAGACAGATAGAATAA
65 CTTTTCTAATCGGTTAAAGACAAGTTTCATCGATTAACCTAGAGCAATGGAGACAGATAGAATAA
* * * * * *
13176118 TTGTAATCAATTAATGCCAACTTTAATCGATTAACCTGAAGTACAAGAAAACAGACAAAAATATT
130 TTTTAATCGATTAAAGCCAACTTTAATCGATTAACCTGAAGCACAAGAAAACAGACAGAAAGATT
* * ** *
13176183 TTAATGGGTTAAAATCCATTTTAGTAGATTAAAATTTCAGACAA-ATTTGAATTCAAAACCACAA
195 TTAATCGGTTAAAATCCATTTTAATAGATTAAAAGGTCAGA-AAGATTTGAATTCAAAACCACTA
* * *
13176247 GAAGACAAAATAATAGCCAAATTCTTCTCAAACTATCTACAATGATTAAGTTTCACTCTCTAAGT
259 GAAGACAAAATAATAGCCAAATTCTTCCCAAACTATCTGCAATGATTAAGTTTCACTCTCCAAGT
*
13176312 ATAAATAAGGGTTCAAAC
324 ATAAATAAGGGTTCAATC
* * * * * * *
13176330 GATCATAAATGTAAAAGAGAACCACCCAAAAGCAAAATTGTGCCAAGAAGAGCTAAAAAATTCTC
1 GATCATAAATGTAAAAAAGAACCATCCAAGAGCAAGATTGAGCCAAGAAAAGCCAAAAAATTCTC
13176395 TTTTC
66 TTTTC
13176400 AACTATATTC
Statistics
Matches: 1256, Mismatches: 113, Indels: 82
0.87 0.08 0.06
Matches are distributed among these distances:
315 5 0.00
316 215 0.17
317 5 0.00
320 8 0.01
321 49 0.04
324 3 0.00
326 1 0.00
328 1 0.00
329 1 0.00
331 2 0.00
333 3 0.00
336 61 0.05
337 1 0.00
340 6 0.00
341 575 0.46
342 315 0.25
343 5 0.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.26
Consensus pattern (341 bp):
GATCATAAATGTAAAAAAGAACCATCCAAGAGCAAGATTGAGCCAAGAAAAGCCAAAAAATTCTC
TTTTCTAATCGGTTAAAGACAAGTTTCATCGATTAACCTAGAGCAATGGAGACAGATAGAATAAT
TTTAATCGATTAAAGCCAACTTTAATCGATTAACCTGAAGCACAAGAAAACAGACAGAAAGATTT
TAATCGGTTAAAATCCATTTTAATAGATTAAAAGGTCAGAAAGATTTGAATTCAAAACCACTAGA
AGACAAAATAATAGCCAAATTCTTCCCAAACTATCTGCAATGATTAAGTTTCACTCTCCAAGTAT
AAATAAGGGTTCAATC
Found at i:13175550 original size:63 final size:62
Alignment explanation
Indices: 13175402--13175531 Score: 154
Period size: 62 Copynumber: 2.1 Consensus size: 62
13175392 TTCTCTTTTC
** * * * * * *
13175402 TAATCGATTAAAGACAAGTTTCATCGATTAACATGGAGCAATGAAGACAGATAGAATAATTT
1 TAATCGATTAAATCCAACTTTAATCAATTAACATGAAGCAATGAAAACAGACAGAATAATTT
*
13175464 TAATCGATTAAATCCAACTTTAATCAATTAACCTGAAGCACATGAAAACAGACAGAA-AGATTT
1 TAATCGATTAAATCCAACTTTAATCAATTAACATGAAGCA-ATGAAAACAGACAGAATA-ATTT
13175527 TAATC
1 TAATC
13175532 AGTTAAAATC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
62 34 0.60
63 23 0.40
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.27
Consensus pattern (62 bp):
TAATCGATTAAATCCAACTTTAATCAATTAACATGAAGCAATGAAAACAGACAGAATAATTT
Found at i:13175557 original size:63 final size:63
Alignment explanation
Indices: 13175402--13175557 Score: 153
Period size: 63 Copynumber: 2.5 Consensus size: 63
13175392 TTCTCTTTTC
** * * * * *
13175402 TAATCGATTAAAGACAAGTTTCATC-GATTAACATGGAGCAATGAAGACAGATAGAATAATTT
1 TAATCGATTAAATCCAACTTTAATCAGATTAACATGAAGCAATGAAAACAGACAGAATAATTT
*
13175464 TAATCGATTAAATCCAACTTTAATCA-ATTAACCTGAAGCACATGAAAACAGACAGAA-AGATTT
1 TAATCGATTAAATCCAACTTTAATCAGATTAACATGAAGCA-ATGAAAACAGACAGAATA-ATTT
*
13175527 TAATC-AGTTAAAATCC-ATTTTAAT-AGATTAA
1 TAATCGA-TT-AAATCCAACTTTAATCAGATTAA
13175558 AAGGTGAGAC
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
62 36 0.46
63 37 0.47
64 6 0.08
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (63 bp):
TAATCGATTAAATCCAACTTTAATCAGATTAACATGAAGCAATGAAAACAGACAGAATAATTT
Found at i:13177207 original size:3 final size:3
Alignment explanation
Indices: 13177199--13177223 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13177189 AATATTTCAA
13177199 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
13177224 TATTTTAAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13179956 original size:19 final size:19
Alignment explanation
Indices: 13179932--13179969 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13179922 CTGCCAAACC
*
13179932 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
13179951 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13179970 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13182563 original size:15 final size:15
Alignment explanation
Indices: 13182543--13182592 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
13182533 ATATATATTT
13182543 TTCTTTTCTTTTCTC
1 TTCTTTTCTTTTCTC
*
13182558 TTCTTTTCTTTTCTT
1 TTCTTTTCTTTTCTC
*
13182573 TTCTTTTCTCTTCCTC
1 TTCTTTTCT-TTTCTC
13182589 TTCT
1 TTCT
13182593 CTCCAACCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
15 23 0.74
16 8 0.26
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTCTTTTCTTTTCTC
Found at i:13182594 original size:5 final size:5
Alignment explanation
Indices: 13182541--13182581 Score: 73
Period size: 5 Copynumber: 8.2 Consensus size: 5
13182531 ATATATATAT
*
13182541 TTTTC TTTTC TTTTC TCTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
13182582 CTTCCTCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:13182789 original size:33 final size:34
Alignment explanation
Indices: 13182752--13182832 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
13182742 ATATCCACAC
*
13182752 CAAAATCAGCAGTTAAGCTGCTTTA-TTTCTCC-T
1 CAAAATCAGCAGTTAAGCTGCTCTATTTTC-CCTT
* * *
13182785 CAAAATTAGTAGCTAAGCTGCTCTATTTTCCCTT
1 CAAAATCAGCAGTTAAGCTGCTCTATTTTCCCTT
13182819 CAAAAATCAGCAGT
1 C-AAAATCAGCAGT
13182833 CAAAGCTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
33 23 0.61
34 6 0.16
35 9 0.24
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (34 bp):
CAAAATCAGCAGTTAAGCTGCTCTATTTTCCCTT
Found at i:13183036 original size:29 final size:29
Alignment explanation
Indices: 13182993--13183050 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
13182983 AAACCGCCCC
13182993 CTCAACTCAGCTTTT-TCTTCACTTTCTTT
1 CTCAACTCAGCTTTTCTCTTC-CTTTCTTT
*
13183022 CTCAAGCTCAG-TTTTCTCTTCTTTTCTTT
1 CTCAA-CTCAGCTTTTCTCTTCCTTTCTTT
13183051 TTTCTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.12, C:0.29, G:0.05, T:0.53
Consensus pattern (29 bp):
CTCAACTCAGCTTTTCTCTTCCTTTCTTT
Found at i:13185201 original size:41 final size:41
Alignment explanation
Indices: 13185156--13185251 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
13185146 TAACATAAGG
13185156 TTTAATCAGTTAAACAAATGCAGGATGCAAAACAAAAGCCT
1 TTTAATCAGTTAAACAAATGCAGGATGCAAAACAAAAGCCT
** * *
13185197 TTTAATCAGTTAAACGGATGTAGGATGCAAAACATAAGCCT
1 TTTAATCAGTTAAACAAATGCAGGATGCAAAACAAAAGCCT
13185238 TTTAATCAGTTAAA
1 TTTAATCAGTTAAA
13185252 AGAGAAGAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.27
Consensus pattern (41 bp):
TTTAATCAGTTAAACAAATGCAGGATGCAAAACAAAAGCCT
Found at i:13185285 original size:21 final size:22
Alignment explanation
Indices: 13185245--13185285 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13185235 CCTTTTAATC
*
13185245 AGTTAAAAGAGAAGAGTTAACT
1 AGTTAAAAGACAAGAGTTAACT
*
13185267 AGTTAAAAGTCAA-AGTTAA
1 AGTTAAAAGACAAGAGTTAA
13185286 AGTGTCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.51, C:0.05, G:0.20, T:0.24
Consensus pattern (22 bp):
AGTTAAAAGACAAGAGTTAACT
Found at i:13190934 original size:14 final size:14
Alignment explanation
Indices: 13190887--13190935 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
13190877 AGGAAGGAAC
*
13190887 AAGAAAAGAAAAGGA
1 AAGAAAAGAAAA-CA
13190902 AAG-AAAGAAAACA
1 AAGAAAAGAAAACA
* *
13190915 AGGAAAAGAAAATA
1 AAGAAAAGAAAACA
13190929 AAGAAAA
1 AAGAAAA
13190936 ATTTAATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 3 0.10
14 23 0.79
15 3 0.10
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (14 bp):
AAGAAAAGAAAACA
Found at i:13195390 original size:499 final size:499
Alignment explanation
Indices: 13194449--13195425 Score: 1864
Period size: 499 Copynumber: 2.0 Consensus size: 499
13194439 CATCATCATT
13194449 GAATAAAATTTAAACATTAAAACCAAAGGAATAAAAGAATAACAAAAAGATAGAAAAAACCAAGG
1 GAATAAAATTTAAACATTAAAACCAAAGGAATAAAAGAATAACAAAAAGATAGAAAAAACCAAGG
13194514 AATGTATTCTTGATCTCTAAATCTCCTTGAATTCTTCAAATTCCTTCAATGACTCTATAGCTTGA
66 AATGTATTCTTGATCTCTAAATCTCCTTGAATTCTTCAAATTCCTTCAATGACTCTATAGCTTGA
* *
13194579 CTCTTAGCTGTTAATCTAGTGTTTCTCTTCCCTCCCTTAAGTCCTCCGAAAGGTTGTTTTTATAG
131 CTCTCAGCTGTTAATCTAGTGTTTCTCTTCCCTCCCTTAAGTCCTCCGAAAGGTTGTTTTTATAA
*
13194644 GCTTTGAAGTTAGGCCAAGTTGGGTGAAAAAAGAAGTCAATTTCAGTTGAGATTTCCTCATCAAA
196 GCTTTGAAGTTAGGCCAAGTTGGGTGAAAAAAGAAGTCAATTTCAGCTGAGATTTCCTCATCAAA
13194709 CTATATAAGTCACAGCTTTGCCAAATTAATTAACAGAAATTATAATTGCTCTAAGACTACTATAG
261 CTATATAAGTCACAGCTTTGCCAAATTAATTAACAGAAATTATAATTGCTCTAAGACTACTATAG
13194774 TATATCAATTTTGACAAGATTTTTAACCATTTTTCATGTTGAACTGGGAAGTGGTAAACATGAAA
326 TATATCAATTTTGACAAGATTTTTAACCATTTTTCATGTTGAACTGGGAAGTGGTAAACATGAAA
*
13194839 GTTGTAGATCTTTCTCTTAGCTTTTCAATGGTTTAAGAATCGCTTAATTTGGAGCTCTTTAGAGA
391 GTTGTAGATCTTTCTCTTAGCTTTTCAATGGTTTAAGAATCACTTAATTTGGAGCTCTTTAGAGA
13194904 AAGTTATGGCCAAAATATCAAAACATTAAAAGATAGAAAAGATA
456 AAGTTATGGCCAAAATATCAAAACATTAAAAGATAGAAAAGATA
13194948 GAATAAAATTTAAACATTAAAACCAAAGGAATAAAAGAATAACAAAAAGATAGAAAAAACCAAGG
1 GAATAAAATTTAAACATTAAAACCAAAGGAATAAAAGAATAACAAAAAGATAGAAAAAACCAAGG
13195013 AATGTATTCTTGATCTCTAAATCTCCTTGAATTCTTCAAATTCCTTCAATGACTCTATAGCTTGA
66 AATGTATTCTTGATCTCTAAATCTCCTTGAATTCTTCAAATTCCTTCAATGACTCTATAGCTTGA
*
13195078 CTCTCAGCTGTTAATCTGGTGTTTCTCTTCCCTCCCTTAAGTCCTCCGAAAGGTTGTTTTTATAA
131 CTCTCAGCTGTTAATCTAGTGTTTCTCTTCCCTCCCTTAAGTCCTCCGAAAGGTTGTTTTTATAA
* *
13195143 GCTTTGAAGTTAGGCCAAGTTGGGTGAAGAAAGAAGTCAATTTCAGCTGAGATTTCTTCATCAAA
196 GCTTTGAAGTTAGGCCAAGTTGGGTGAAAAAAGAAGTCAATTTCAGCTGAGATTTCCTCATCAAA
*
13195208 CTATATAAGTCACAGCTTTGCCAAATTAATTAACAGAAATTGTAATTGCTCTAAGACTACTATAG
261 CTATATAAGTCACAGCTTTGCCAAATTAATTAACAGAAATTATAATTGCTCTAAGACTACTATAG
*
13195273 TATGTCAATTTTGACAAGATTTTTAACCATTTTTCATGTTGAACTGGGAAGTGGTAAACATGAAA
326 TATATCAATTTTGACAAGATTTTTAACCATTTTTCATGTTGAACTGGGAAGTGGTAAACATGAAA
*
13195338 GTTGTAGATCTTTCTCTTAGCTTTTCAATGGTTTAAGAATCACTTCATTTGGAGCTCTTTAGAGA
391 GTTGTAGATCTTTCTCTTAGCTTTTCAATGGTTTAAGAATCACTTAATTTGGAGCTCTTTAGAGA
13195403 AAGTTATGGCCAAAATATCAAAA
456 AAGTTATGGCCAAAATATCAAAA
13195426 TATATGCAGT
Statistics
Matches: 468, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
499 468 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (499 bp):
GAATAAAATTTAAACATTAAAACCAAAGGAATAAAAGAATAACAAAAAGATAGAAAAAACCAAGG
AATGTATTCTTGATCTCTAAATCTCCTTGAATTCTTCAAATTCCTTCAATGACTCTATAGCTTGA
CTCTCAGCTGTTAATCTAGTGTTTCTCTTCCCTCCCTTAAGTCCTCCGAAAGGTTGTTTTTATAA
GCTTTGAAGTTAGGCCAAGTTGGGTGAAAAAAGAAGTCAATTTCAGCTGAGATTTCCTCATCAAA
CTATATAAGTCACAGCTTTGCCAAATTAATTAACAGAAATTATAATTGCTCTAAGACTACTATAG
TATATCAATTTTGACAAGATTTTTAACCATTTTTCATGTTGAACTGGGAAGTGGTAAACATGAAA
GTTGTAGATCTTTCTCTTAGCTTTTCAATGGTTTAAGAATCACTTAATTTGGAGCTCTTTAGAGA
AAGTTATGGCCAAAATATCAAAACATTAAAAGATAGAAAAGATA
Found at i:13197697 original size:30 final size:30
Alignment explanation
Indices: 13197662--13197733 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
13197652 AAAAAAAATT
*
13197662 TTGAAATTTTTTTTTGAA-ATATTTTTTTA
1 TTGAAATTTTTTTTTAAATATATTTTTTTA
*
13197691 TATGAAA-TTTTTTTTAAATATATTTTTTTC
1 T-TGAAATTTTTTTTTAAATATATTTTTTTA
13197721 TTGAAATTTTTTT
1 TTGAAATTTTTTT
13197734 GAATTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
29 16 0.42
30 22 0.58
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (30 bp):
TTGAAATTTTTTTTTAAATATATTTTTTTA
Found at i:13197701 original size:28 final size:28
Alignment explanation
Indices: 13197670--13197743 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
13197660 TTTTGAAATT
13197670 TTTTTTTGAAATATTTTTTTAT-ATGAAA
1 TTTTTTTGAAATATTTTTTT-TCATGAAA
* *
13197698 TTTTTTTTAAATATATTTTTTTCTTGAAA
1 TTTTTTTGAAATAT-TTTTTTTCATGAAA
13197727 TTTTTTTG-AAT-TTTTTT
1 TTTTTTTGAAATATTTTTT
13197744 AAATTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.12
27 1 0.02
28 17 0.41
29 18 0.44
ACGTcount: A:0.26, C:0.01, G:0.05, T:0.68
Consensus pattern (28 bp):
TTTTTTTGAAATATTTTTTTTCATGAAA
Found at i:13197701 original size:29 final size:29
Alignment explanation
Indices: 13197662--13197733 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 29
13197652 AAAAAAAATT
*
13197662 TTGAAATTTTTTTTTGAA-ATATTTTTTTA
1 TTGAAA-TTTTTTTTAAATATATTTTTTTA
*
13197691 TATGAAATTTTTTTTAAATATATTTTTTTC
1 T-TGAAATTTTTTTTAAATATATTTTTTTA
13197721 TTGAAATTTTTTT
1 TTGAAATTTTTTT
13197734 GAATTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 23 0.59
30 16 0.41
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (29 bp):
TTGAAATTTTTTTTAAATATATTTTTTTA
Found at i:13197730 original size:11 final size:11
Alignment explanation
Indices: 13197715--13197764 Score: 68
Period size: 10 Copynumber: 4.6 Consensus size: 11
13197705 TAAATATATT
13197715 TTTTTCTTGAAA
1 TTTTT-TTGAAA
13197727 TTTTTTTG-AA
1 TTTTTTTGAAA
13197737 TTTTTTT-AAA
1 TTTTTTTGAAA
*
13197747 TTTTTTTTAAA
1 TTTTTTTGAAA
13197758 TTTTTTT
1 TTTTTTT
13197765 ATATGAACCT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
10 18 0.50
11 13 0.36
12 5 0.14
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (11 bp):
TTTTTTTGAAA
Found at i:13203600 original size:2 final size:2
Alignment explanation
Indices: 13203593--13203636 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
13203583 TTAAATGATA
*
13203593 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13203635 AT
1 AT
13203637 TTCTTGATCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13215484 original size:37 final size:37
Alignment explanation
Indices: 13215434--13215548 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 37
13215424 ATGCAATATC
13215434 ATCATCATGTGTGCACTTCCTACTCGCACAC-TCTAAT
1 ATCATCATGTGTGCACTTCCTACTCGCACACTTC-AAT
* *
13215471 ATCATCATTTGTGCACTTCCTACTCGCACACTTCAAC
1 ATCATCATGTGTGCACTTCCTACTCGCACACTTCAAT
* *
13215508 ATCATCATGTGTGCACTCCCTACTTGCACACTTCAAT
1 ATCATCATGTGTGCACTTCCTACTCGCACACTTCAAT
13215545 ATCA
1 ATCA
13215549 GCACACAACA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
37 69 0.97
38 2 0.03
ACGTcount: A:0.25, C:0.33, G:0.10, T:0.32
Consensus pattern (37 bp):
ATCATCATGTGTGCACTTCCTACTCGCACACTTCAAT
Found at i:13216959 original size:20 final size:19
Alignment explanation
Indices: 13216931--13216978 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
13216921 AGGTCTTACA
*
13216931 GTTTTTCTTGCTTTATCTT
1 GTTTCTCTTGCTTTATCTT
* *
13216950 GGTTTCTCTTTCTTTTTCTT
1 -GTTTCTCTTGCTTTATCTT
*
13216970 CTTTCTCTT
1 GTTTCTCTT
13216979 CATAAGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.02, C:0.21, G:0.08, T:0.69
Consensus pattern (19 bp):
GTTTCTCTTGCTTTATCTT
Found at i:13217418 original size:21 final size:21
Alignment explanation
Indices: 13217359--13217420 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
13217349 AGGGAGGTTT
* *
13217359 AAAACTTATGTAAACAAGTTC
1 AAAACTTATTTAAACAATTTC
* *
13217380 AAAACTTATTCAAGCAATTTC
1 AAAACTTATTTAAACAATTTC
*
13217401 AAAACTCATTTAAACAATTT
1 AAAACTTATTTAAACAATTT
13217421 TTAAAACTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (21 bp):
AAAACTTATTTAAACAATTTC
Found at i:13217533 original size:21 final size:21
Alignment explanation
Indices: 13217498--13217563 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
13217488 TAAAATTAAG
*
13217498 TTCAAAGACTCATTCAAACAAT
1 TTCAAA-AATCATTCAAACAAT
*
13217520 TTCAAAAATCATTCAAACAAG
1 TTCAAAAATCATTCAAACAAT
* *
13217541 TTCAAAGATCATTCAAGCAAT
1 TTCAAAAATCATTCAAACAAT
13217562 TT
1 TT
13217564 TGATCATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 33 0.85
22 6 0.15
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (21 bp):
TTCAAAAATCATTCAAACAAT
Found at i:13217989 original size:21 final size:22
Alignment explanation
Indices: 13217965--13218009 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
13217955 TATGTATTTG
* *
13217965 AACTT-CTTCAAATAGTTTTTA
1 AACTTGCTTCAAATAATCTTTA
*
13217986 AACTTGCTTTAAATAATCTTTA
1 AACTTGCTTCAAATAATCTTTA
13218008 AA
1 AA
13218010 GTTCCTATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.44
Consensus pattern (22 bp):
AACTTGCTTCAAATAATCTTTA
Found at i:13218069 original size:21 final size:20
Alignment explanation
Indices: 13218041--13218079 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13218031 AAAAGTTTCA
13218041 AAATTGCTTAAATGAGTTCT
1 AAATTGCTTAAATGAGTTCT
*
13218061 AAATGTGCTTGAATGAGTT
1 AAAT-TGCTTAAATGAGTT
13218080 TCGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (20 bp):
AAATTGCTTAAATGAGTTCT
Found at i:13218668 original size:16 final size:16
Alignment explanation
Indices: 13218647--13218681 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13218637 TTTCAAGCTA
*
13218647 TCTTTGAGCTCCAAAT
1 TCTTTGAGCTCAAAAT
*
13218663 TCTTTGTGCTCAAAAT
1 TCTTTGAGCTCAAAAT
13218679 TCT
1 TCT
13218682 GTGCTTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (16 bp):
TCTTTGAGCTCAAAAT
Found at i:13219276 original size:21 final size:21
Alignment explanation
Indices: 13219252--13219293 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13219242 GACTCATTTG
13219252 AACAACTTAAAAAATCATTCA
1 AACAACTTAAAAAATCATTCA
* * *
13219273 AACAAGTTCAAAGATCATTCA
1 AACAACTTAAAAAATCATTCA
13219294 TGTTACGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.19, G:0.05, T:0.24
Consensus pattern (21 bp):
AACAACTTAAAAAATCATTCA
Found at i:13222521 original size:15 final size:15
Alignment explanation
Indices: 13222491--13222519 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13222481 CAATTAAATA
13222491 CTCTTTGTTCATTTT
1 CTCTTTGTTCATTTT
13222506 CTCTTTG-TCATTTT
1 CTCTTTGTTCATTTT
13222520 TCACATGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.21, G:0.07, T:0.66
Consensus pattern (15 bp):
CTCTTTGTTCATTTT
Found at i:13222874 original size:29 final size:30
Alignment explanation
Indices: 13222837--13222905 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
13222827 GCAAATTGAT
*
13222837 CCTTCAACTTTTGA-TAATTACAACTT-CAAC
1 CCTT-AACTTTTCATTAATTACAA-TTCCAAC
* *
13222867 CCTTAACTTTTCATTATTTACAATTCCACC
1 CCTTAACTTTTCATTAATTACAATTCCAAC
13222897 CCTTAACTT
1 CCTTAACTT
13222906 CTTATTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.29, C:0.29, G:0.01, T:0.41
Consensus pattern (30 bp):
CCTTAACTTTTCATTAATTACAATTCCAAC
Found at i:13223735 original size:21 final size:21
Alignment explanation
Indices: 13223696--13223735 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13223686 TCAATTATCT
* **
13223696 TTGAAGTTGTTTGGTTGATCC
1 TTGAACTTGTTTGAATGATCC
13223717 TTGAACTTGTTTGAATGAT
1 TTGAACTTGTTTGAATGAT
13223736 TTTTGAATGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.25, T:0.47
Consensus pattern (21 bp):
TTGAACTTGTTTGAATGATCC
Found at i:13223897 original size:20 final size:21
Alignment explanation
Indices: 13223860--13223914 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
13223850 AATGTGCCTG
* **
13223860 AATGAGTTTTGATTTTG-TTA
1 AATGAATTTTGAACTTGTTTA
*
13223880 AATGATTTTTGAACTTGTTTA
1 AATGAATTTTGAACTTGTTTA
*
13223901 AGTGAATTTTGAAC
1 AATGAATTTTGAAC
13223915 ATAAATTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.49
Consensus pattern (21 bp):
AATGAATTTTGAACTTGTTTA
Found at i:13224686 original size:59 final size:59
Alignment explanation
Indices: 13224607--13224736 Score: 210
Period size: 59 Copynumber: 2.2 Consensus size: 59
13224597 GTATTATTGT
*
13224607 AAGGTTGTGCTTAATCCATAAAAGGCATA-AAGGTTATAACTTAGCCTTGAAAAGTTCA-G
1 AAGGTTGTGCTTAATCCATAAAAGGCATAGAA-GTTATAACTTAGCCTTGAAAAGTT-ATA
*
13224666 AAGGTTGTGCTTAATCCATAAAAGGCATAGAAGTTCTAACTTAGCCTTGAAAAGTTATA
1 AAGGTTGTGCTTAATCCATAAAAGGCATAGAAGTTATAACTTAGCCTTGAAAAGTTATA
13224725 AAGGTTGTGCTT
1 AAGGTTGTGCTT
13224737 GTGTGAGACC
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
58 1 0.01
59 64 0.96
60 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (59 bp):
AAGGTTGTGCTTAATCCATAAAAGGCATAGAAGTTATAACTTAGCCTTGAAAAGTTATA
Found at i:13224689 original size:29 final size:29
Alignment explanation
Indices: 13224607--13224694 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
13224597 GTATTATTGT
13224607 AAGGTTGTGCTTAATCCATAAAAGGCATA
1 AAGGTTGTGCTTAATCCATAAAAGGCATA
* * * * * *
13224636 AAGGTTATAACTT-AGCCTTGAAAAGTTCA-G
1 AAGGTTGT-GCTTAATCCAT-AAAAG-GCATA
13224666 AAGGTTGTGCTTAATCCATAAAAGGCATA
1 AAGGTTGTGCTTAATCCATAAAAGGCATA
13224695 GAAGTTCTAA
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
28 2 0.05
29 19 0.45
30 19 0.45
31 2 0.05
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (29 bp):
AAGGTTGTGCTTAATCCATAAAAGGCATA
Found at i:13224698 original size:30 final size:30
Alignment explanation
Indices: 13224607--13224698 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 30
13224597 GTATTATTGT
13224607 AAGGTTGTGCTTAATCCATAAAAGGCATA-
1 AAGGTTGTGCTTAATCCATAAAAGGCATAG
* * * * *
13224636 AAGGTTATAACTT-AGCCTTGAAAA-G-TTCAG
1 AAGGTTGT-GCTTAATCCAT-AAAAGGCAT-AG
13224666 AAGGTTGTGCTTAATCCATAAAAGGCATAG
1 AAGGTTGTGCTTAATCCATAAAAGGCATAG
13224696 AAG
1 AAG
13224699 TTCTAACTTA
Statistics
Matches: 46, Mismatches: 10, Indels: 13
0.67 0.14 0.19
Matches are distributed among these distances:
28 1 0.02
29 20 0.43
30 24 0.52
31 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (30 bp):
AAGGTTGTGCTTAATCCATAAAAGGCATAG
Found at i:13226012 original size:17 final size:19
Alignment explanation
Indices: 13225971--13226012 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
13225961 GTATATATAT
13225971 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTG-A-TG
13225992 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGATG
13226009 ATGA
1 ATGA
13226013 TGTTGAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.40
Consensus pattern (19 bp):
ATGAATATATGTTGTGATG
Found at i:13226049 original size:37 final size:37
Alignment explanation
Indices: 13226007--13226125 Score: 204
Period size: 37 Copynumber: 3.2 Consensus size: 37
13225997 TAATGTTGTG
13226007 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
* *
13226044 TGATGATGTT-AGAGTGTGAGAGTAAGGAGTGCACACA
1 TGATGATGTTGA-AGTGTGCGAGTAGGGAGTGCACACA
13226081 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
13226118 TGATGATG
1 TGATGATG
13226126 ATATTGCATT
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
36 1 0.01
37 74 0.97
38 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.37, T:0.25
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
Done.