Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold33
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: 2032796
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 48244 characters in sequence are not A, C, G, or T
File 12 of 13
Found at i:1805810 original size:95 final size:94
Alignment explanation
Indices: 1805648--1805849 Score: 314
Period size: 95 Copynumber: 2.1 Consensus size: 94
1805638 CATTATGCTT
* *** *
1805648 TGTATCGATACAATGTATGGATACATGCTCATTGTATCGATACATACTCAATTGTATTGATACAT
1 TGTATCGATACATTGTATGGATACATGAGAATTGTATCGATACATACTCAATTGTATCGATACAT
* * *
1805713 AAAACTGGTAGTAGTTACCCTAAGTGAAA
66 AAAACTGGCAGTAGCTACCCTAAGTAAAA
*
1805742 TGTATCGATACATTGTATTGATACATGAAGAATTGTATCGATACATACTCAATTGTATCGATACA
1 TGTATCGATACATTGTATGGATACATG-AGAATTGTATCGATACATACTCAATTGTATCGATACA
1805807 TAAAACTGGCAGTAGCTACCCTAAGTAAAA
65 TAAAACTGGCAGTAGCTACCCTAAGTAAAA
1805837 TGTATCGATACAT
1 TGTATCGATACAT
1805850 AAAACTGGCA
Statistics
Matches: 98, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
94 25 0.26
95 73 0.74
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (94 bp):
TGTATCGATACATTGTATGGATACATGAGAATTGTATCGATACATACTCAATTGTATCGATACAT
AAAACTGGCAGTAGCTACCCTAAGTAAAA
Found at i:1805843 original size:42 final size:42
Alignment explanation
Indices: 1805795--1805891 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
1805785 CATACTCAAT
1805795 TGTATCGATACATAAAACTGGCAGTAGCTACCCTAAGTAAAA
1 TGTATCGATACATAAAACTGGCAGTAGCTACCCTAAGTAAAA
* * *
1805837 TGTATCGATACATAAAACTGGCAGTAGTTACCTTAAGTGAAA
1 TGTATCGATACATAAAACTGGCAGTAGCTACCCTAAGTAAAA
*
1805879 TGTATCTATACAT
1 TGTATCGATACAT
1805892 TGTATGGATA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (42 bp):
TGTATCGATACATAAAACTGGCAGTAGCTACCCTAAGTAAAA
Found at i:1805867 original size:137 final size:137
Alignment explanation
Indices: 1805700--1805986 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
1805690 CATACTCAAT
* * *
1805700 TGTATTGATACATAAAACTGGTAGTAGTTACCCTAAGTGAAATGTATCGATACATTGTATTGATA
1 TGTATCGATACATAAAACTGGCAGTAGTTACCCTAAGTGAAATGTATCGATACATTGTATGGATA
1805765 CATGAAGAATTGTATCGATACATACTCAATTGTATCGATACATAAAACTGGCAGTAGCTACCCTA
66 CATGAAGAATTGTATCGATACATACTCAATTGTATCGATACATAAAACTGGCAGTAGCTACCCTA
1805830 AGTAAAA
131 AGTAAAA
* *
1805837 TGTATCGATACATAAAACTGGCAGTAGTTACCTTAAGTGAAATGTATCTATACATTGTATGGATA
1 TGTATCGATACATAAAACTGGCAGTAGTTACCCTAAGTGAAATGTATCGATACATTGTATGGATA
*
1805902 CATGAAGAATTGTATCGATACATACTCAATTGTATCGATACATAAAACTGGCAGTAGCTACGCTA
66 CATGAAGAATTGTATCGATACATACTCAATTGTATCGATACATAAAACTGGCAGTAGCTACCCTA
1805967 AGTAAAA
131 AGTAAAA
1805974 TGTATCGATACAT
1 TGTATCGATACAT
1805987 TGTATGGATA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (137 bp):
TGTATCGATACATAAAACTGGCAGTAGTTACCCTAAGTGAAATGTATCGATACATTGTATGGATA
CATGAAGAATTGTATCGATACATACTCAATTGTATCGATACATAAAACTGGCAGTAGCTACCCTA
AGTAAAA
Found at i:1805937 original size:95 final size:95
Alignment explanation
Indices: 1805837--1806019 Score: 323
Period size: 95 Copynumber: 1.9 Consensus size: 95
1805827 CTAAGTAAAA
* * *
1805837 TGTATCGATACATAAAACTGGCAGTAGTTAC-CTTAAGTGAAATGTATCTATACATTGTATGGAT
1 TGTATCGATACATAAAACTGGCAGTAGCTACGC-TAAGTAAAATGTATCGATACATTGTATGGAT
1805901 ACATGAAGAATTGTATCGATACATACTCAAT
65 ACATGAAGAATTGTATCGATACATACTCAAT
1805932 TGTATCGATACATAAAACTGGCAGTAGCTACGCTAAGTAAAATGTATCGATACATTGTATGGATA
1 TGTATCGATACATAAAACTGGCAGTAGCTACGCTAAGTAAAATGTATCGATACATTGTATGGATA
1805997 CATGAAGAATTGTATCGATACAT
66 CATGAAGAATTGTATCGATACAT
1806020 TATGCCCAAT
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
95 83 0.99
96 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (95 bp):
TGTATCGATACATAAAACTGGCAGTAGCTACGCTAAGTAAAATGTATCGATACATTGTATGGATA
CATGAAGAATTGTATCGATACATACTCAAT
Found at i:1806776 original size:11 final size:11
Alignment explanation
Indices: 1806748--1806783 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
1806738 AGAGCTTACA
*
1806748 CAAATCAACTC
1 CAAATCAATTC
1806759 C-AATCAATTC
1 CAAATCAATTC
1806769 CAAATCAATTC
1 CAAATCAATTC
1806780 CAAA
1 CAAA
1806784 ATTACTAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (11 bp):
CAAATCAATTC
Found at i:1809826 original size:21 final size:21
Alignment explanation
Indices: 1809801--1809849 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
1809791 TTGTGAAAAA
1809801 AATGCA-TTGGTTGGATGAAAC
1 AATGCACTT-GTTGGATGAAAC
*
1809822 AATGCACTTGTTTGATGAAAC
1 AATGCACTTGTTGGATGAAAC
1809843 ATATGCA
1 A-ATGCA
1809850 ACTTTTATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (21 bp):
AATGCACTTGTTGGATGAAAC
Found at i:1811581 original size:78 final size:79
Alignment explanation
Indices: 1811498--1811960 Score: 355
Period size: 80 Copynumber: 5.9 Consensus size: 79
1811488 TCGAAGATTG
* * * * *
1811498 TGGGGTTAGAGTATCTCCGAGATGAAAAATTTAATATTTTGGGAGTAAAAATAGGGTTGGAGTA-
1 TGGGGTTAGAGTATCCCCAAAATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTAT
* *
1811562 CCCCCCAGAAATTA
66 CCCCTCAGAAATAA
* ** * * *
1811576 TGGGGTTAGAGTAT-CTCAATGGTGAAAATTTTAATATTTTAGAAATAAAAATAGGGTTAGAGTA
1 TGGGGTTAGAGTATCCCCAA-AATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTA
*
1811640 TCCTCTCAGAAATAA
65 TCCCCTCAGAAATAA
* * * * *
1811655 CGGAGGTTGGAGTATCCCCAAAATGAAAAATTTAATATTTTGGAAATGAAAATGGGGTTGGAATA
1 TGG-GGTTAGAGTATCCCCAAAATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTA
*
1811720 TCTCCTC-GAAAATAA
65 TCCCCTCAG-AAATAA
* * * ** * *
1811735 TAGTGTTAGAGTATCCCCGAAATGAAAAATTTAATATTTTAAAAATAAAAA-CGGAGTTAGAGTA
1 TGGGGTTAGAGTATCCCCAAAATGAAAAATTTAATATTTTGGAAATAAAAATAGG-GTTGGAGTA
* * * *
1811799 GCCCTTCAAAAATTA
65 TCCCCTCAGAAATAA
* *** * ** ** *
1811814 TGGGGTT-GAAGTATCCTCGATGGTGAAAATTTTAATATTTTAAAAATAAAAATAAAGTTAGAGT
1 TGGGGTTAG-AGTATCC-CCAAAATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGT
* *
1811878 ATCTCCTTAGAAATAA
64 ATCCCCTCAGAAATAA
* * ** * * * *
1811894 TAGAGTTAGAGTATCATCAAGATGAAAAATTTATTATTTTGAAAATAAAACA-A-GGTTGAAGTA
1 TGGGGTTAGAGTATCCCCAAAATGAAAAATTTAATATTTTGGAAATAAAA-ATAGGGTTGGAGTA
1811957 TCCC
65 TCCC
1811961 TTCTTGATGT
Statistics
Matches: 301, Mismatches: 72, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
77 2 0.01
78 65 0.22
79 112 0.37
80 117 0.39
81 5 0.02
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (79 bp):
TGGGGTTAGAGTATCCCCAAAATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTGGAGTAT
CCCCTCAGAAATAA
Found at i:1811794 original size:159 final size:159
Alignment explanation
Indices: 1811580--1811943 Score: 371
Period size: 159 Copynumber: 2.3 Consensus size: 159
1811570 AAATTATGGG
* * * * *
1811580 GTTAGAGTATC-TCAATGGTGAAAATTTTAATATTTTAGAAATAAAAATAGGGTTAGAGTA-TCC
1 GTTAGAGTATCACCAA-GATGAAAAATTTAATATTTTAAAAATAAAAATAGGGTTAGAGTAGCCC
* * ** *
1811643 TCTCAGAAATAACGGAGGTTGGAGTATCC-CCAAAATGAAAAATTTAATATTTTGGAAATGAAAA
65 T-TCAAAAATAACGG-GGTTGAAGTATCCTCCAAAATGAAAAATTTAATATTTTAAAAATAAAAA
*** * *
1811707 TGGGGTTGGAATATCTCCTCGA-AAATAATAGT
128 TAAAGTTAGAATATCTCCT-GAGAAATAATAGA
* *
1811739 GTTAGAGTATCCCCGAA-ATGAAAAATTTAATATTTTAAAAATAAAAA-CGGAGTTAGAGTAGCC
1 GTTAGAGTATCACC-AAGATGAAAAATTTAATATTTTAAAAATAAAAATAGG-GTTAGAGTAGCC
* * * *** *
1811802 CTTCAAAAATTATGGGGTTGAAGTATCCTCGATGGTGAAAATTTTAATATTTTAAAAATAAAAAT
64 CTTCAAAAATAACGGGGTTGAAGTATCCTCCAAAATGAAAAATTTAATATTTTAAAAATAAAAAT
* *
1811867 AAAGTTAGAGTATCTCCTTAGAAATAATAGA
129 AAAGTTAGAATATCTCCTGAGAAATAATAGA
* * *
1811898 GTTAGAGTATCATCAAGATGAAAAATTTATTATTTTGAAAATAAAA
1 GTTAGAGTATCACCAAGATGAAAAATTTAATATTTTAAAAATAAAA
1811944 CAAGGTTGAA
Statistics
Matches: 169, Mismatches: 29, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
158 17 0.10
159 146 0.86
160 4 0.02
161 2 0.01
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (159 bp):
GTTAGAGTATCACCAAGATGAAAAATTTAATATTTTAAAAATAAAAATAGGGTTAGAGTAGCCCT
TCAAAAATAACGGGGTTGAAGTATCCTCCAAAATGAAAAATTTAATATTTTAAAAATAAAAATAA
AGTTAGAATATCTCCTGAGAAATAATAGA
Found at i:1811811 original size:79 final size:79
Alignment explanation
Indices: 1811598--1811943 Score: 294
Period size: 79 Copynumber: 4.4 Consensus size: 79
1811588 ATCTCAATGG
* * * *
1811598 TGAAAATTTTAATATTTTAGAAATAAAAATAGG-GTTAGAGTA--TCCTCTCAGAAATAACGGAG
1 TGAAAAATTTAATATTTTAAAAATAAAAAT-GGAGTTAGAGTATCTCCT-TCAAAAATAA--TAG
* *
1811660 GTTGGAGTATCCCCAAAA
62 GTTAGAGTATCCCCGAAA
** * * * * *
1811678 TGAAAAATTTAATATTTTGGAAATGAAAATGGGGTTGGAATATCTCC-TCGAAAATAATAGTGTT
1 TGAAAAATTTAATATTTTAAAAATAAAAATGGAGTTAGAGTATCTCCTTCAAAAATAATAG-GTT
1811742 AGAGTATCCCCGAAA
65 AGAGTATCCCCGAAA
* * * *
1811757 TGAAAAATTTAATATTTTAAAAATAAAAACGGAGTTAGAGTAGC-CCTTCAAAAATTATGGGGTT
1 TGAAAAATTTAATATTTTAAAAATAAAAATGGAGTTAGAGTATCTCCTTCAAAAATAAT-AGGTT
* **
1811821 -GAAGTATCCTCGATGG
65 AG-AGTATCCCCGA-AA
* ** *
1811837 TGAAAATTTTAATATTTTAAAAATAAAAATAAAGTTAGAGTATCTCCTT-AGAAATAATAGAGTT
1 TGAAAAATTTAATATTTTAAAAATAAAAATGGAGTTAGAGTATCTCCTTCAAAAATAATAG-GTT
**
1811901 AGAGTATCATC-AAGA
65 AGAGTATCCCCGAA-A
* *
1811916 TGAAAAATTTATTATTTTGAAAATAAAA
1 TGAAAAATTTAATATTTTAAAAATAAAA
1811944 CAAGGTTGAA
Statistics
Matches: 216, Mismatches: 38, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
78 5 0.02
79 103 0.48
80 100 0.46
81 5 0.02
82 3 0.01
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (79 bp):
TGAAAAATTTAATATTTTAAAAATAAAAATGGAGTTAGAGTATCTCCTTCAAAAATAATAGGTTA
GAGTATCCCCGAAA
Found at i:1814085 original size:53 final size:51
Alignment explanation
Indices: 1814021--1814155 Score: 198
Period size: 53 Copynumber: 2.6 Consensus size: 51
1814011 AATAACCTGT
* *
1814021 ATGTATCGATACATTGAAGAATGTATCGATACATTTGGGTCAAAAATATCGGA
1 ATGTATCGATACAATGAAGAATGTATCGATACATTTGGGTCAAAAAT-T-AGA
* *
1814074 ATGTATCGATACAATGAAGAATGTATTGATACATTTGGGTCAAAACTTAGA
1 ATGTATCGATACAATGAAGAATGTATCGATACATTTGGGTCAAAAATTAGA
* *
1814125 ATATATCGATACAATGAAAAATGTATCGATA
1 ATGTATCGATACAATGAAGAATGTATCGATA
1814156 TATTGTAAGC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
51 30 0.40
52 1 0.01
53 44 0.59
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACAATGAAGAATGTATCGATACATTTGGGTCAAAAATTAGA
Found at i:1814171 original size:21 final size:20
Alignment explanation
Indices: 1814145--1814198 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
1814135 ACAATGAAAA
1814145 ATGTATCGATATATTGTAAGC
1 ATGTATCGATATATT-TAAGC
* * ***
1814166 ATGTATTGATACATTTACTT
1 ATGTATCGATATATTTAAGC
1814186 ATGTATCGATATA
1 ATGTATCGATATA
1814199 ATTCCTTTTC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (20 bp):
ATGTATCGATATATTTAAGC
Found at i:1814262 original size:21 final size:21
Alignment explanation
Indices: 1814238--1814292 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
1814228 GACATGGTCC
*
1814238 TGTATCGATACATTTTAAACA
1 TGTATCGATACATTTCAAACA
* **
1814259 TGTATTGATACA-TTCACTCA
1 TGTATCGATACATTTCAAACA
1814279 TGTATCGATACATT
1 TGTATCGATACATT
1814293 CACTATCTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTTCAAACA
Found at i:1814305 original size:21 final size:20
Alignment explanation
Indices: 1814238--1814311 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
1814228 GACATGGTCC
* **
1814238 TGTATCGATACATTTTAAACA
1 TGTATCGATACA-TTCACTCA
*
1814259 TGTATTGATACATTCACTCA
1 TGTATCGATACATTCACTCA
1814279 TGTATCGATACATTCACT-A
1 TGTATCGATACATTCACTCA
1814298 TCTGTATCGATACA
1 --TGTATCGATACA
1814312 AATTGTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 22 0.48
21 23 0.50
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTCACTCA
Found at i:1815035 original size:31 final size:31
Alignment explanation
Indices: 1814985--1815108 Score: 160
Period size: 31 Copynumber: 3.9 Consensus size: 31
1814975 CTTACAACAT
* *
1814985 TATCTTTTGA-AGGCTAAGATAGAACCTCCA
1 TATCTTTTCACAGGCTAAGATAGAACCTCCC
*
1815015 TATCTTTTCACAAGCTAAGATAGAACCTCCC
1 TATCTTTTCACAGGCTAAGATAGAACCTCCC
* * *
1815046 TATCTTTTCACAGGTTAAAATAAAACCTCTTCCC
1 TATCTTTTCACAGGCTAAGATAGAA-C-C-TCCC
1815080 TATCTTTTCACAGGCTAAGATAGAACCTC
1 TATCTTTTCACAGGCTAAGATAGAACCTC
1815109 TTAATTATTT
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
30 9 0.11
31 41 0.51
32 2 0.03
33 2 0.03
34 26 0.32
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.31
Consensus pattern (31 bp):
TATCTTTTCACAGGCTAAGATAGAACCTCCC
Found at i:1815085 original size:34 final size:34
Alignment explanation
Indices: 1815015--1815110 Score: 117
Period size: 34 Copynumber: 2.9 Consensus size: 34
1815005 AGAACCTCCA
* * *
1815015 TATCTTTTCACAAGCTAAGATAGAA-C-C-TCCC
1 TATCTTTTCACAGGCTAAAATAAAACCTCTTCCC
*
1815046 TATCTTTTCACAGGTTAAAATAAAACCTCTTCCC
1 TATCTTTTCACAGGCTAAAATAAAACCTCTTCCC
* *
1815080 TATCTTTTCACAGGCTAAGATAGAACCTCTT
1 TATCTTTTCACAGGCTAAAATAAAACCTCTT
1815111 AATTATTTCA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
31 21 0.38
32 1 0.02
33 1 0.02
34 32 0.58
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.33
Consensus pattern (34 bp):
TATCTTTTCACAGGCTAAAATAAAACCTCTTCCC
Found at i:1815708 original size:19 final size:19
Alignment explanation
Indices: 1815684--1815776 Score: 93
Period size: 19 Copynumber: 5.5 Consensus size: 19
1815674 CATTTTATGG
*
1815684 TGTATCGAAACAAAGAAAA
1 TGTATCGATACAAAGAAAA
1815703 TGTATCGATAC------AA
1 TGTATCGATACAAAGAAAA
1815716 TGTATCGATACAAAGAAAA
1 TGTATCGATACAAAGAAAA
1815735 TGTATCGATAC------AA
1 TGTATCGATACAAAGAAAA
1815748 TGTATCGATACAAAGAAAA
1 TGTATCGATACAAAGAAAA
1815767 TGTATCGATA
1 TGTATCGATA
1815777 AGCAATATGT
Statistics
Matches: 61, Mismatches: 1, Indels: 24
0.71 0.01 0.28
Matches are distributed among these distances:
13 26 0.43
19 35 0.57
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (19 bp):
TGTATCGATACAAAGAAAA
Found at i:1815719 original size:13 final size:13
Alignment explanation
Indices: 1815701--1815760 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
1815691 AAACAAAGAA
1815701 AATGTATCGATAC
1 AATGTATCGATAC
1815714 AATGTATCGATAC
1 AATGTATCGATAC
1815727 AA---A--GA-A-
1 AATGTATCGATAC
1815733 AATGTATCGATAC
1 AATGTATCGATAC
1815746 AATGTATCGATAC
1 AATGTATCGATAC
1815759 AA
1 AA
1815761 AGAAAATGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
6 2 0.05
7 1 0.03
8 2 0.05
9 1 0.03
10 1 0.03
11 2 0.05
12 1 0.03
13 30 0.75
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1815729 original size:32 final size:32
Alignment explanation
Indices: 1815684--1815795 Score: 179
Period size: 32 Copynumber: 3.4 Consensus size: 32
1815674 CATTTTATGG
*
1815684 TGTATCGAAACAAAGAAAATGTATCGATACAA
1 TGTATCGATACAAAGAAAATGTATCGATACAA
1815716 TGTATCGATACAAAGAAAATGTATCGATACAA
1 TGTATCGATACAAAGAAAATGTATCGATACAA
1815748 TGTATCGATACAAAGAAAATGTATCGATAAGCAATA
1 TGTATCGATACAAAGAAAATGTATCGAT-A-C-A-A
1815784 TGTATCGATACA
1 TGTATCGATACA
1815796 TCTGGGTGTG
Statistics
Matches: 75, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
32 59 0.79
33 1 0.01
34 1 0.01
35 1 0.01
36 13 0.17
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.25
Consensus pattern (32 bp):
TGTATCGATACAAAGAAAATGTATCGATACAA
Found at i:1816402 original size:22 final size:22
Alignment explanation
Indices: 1816377--1816421 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1816367 ACTTAGATTA
* *
1816377 CTTGTTGATTCTTGTTTTTCTT
1 CTTGTTGATTCTAGTTGTTCTT
*
1816399 CTTGTTGGTTCTAGTTGTTCTT
1 CTTGTTGATTCTAGTTGTTCTT
1816421 C
1 C
1816422 AACTGTTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.04, C:0.16, G:0.18, T:0.62
Consensus pattern (22 bp):
CTTGTTGATTCTAGTTGTTCTT
Found at i:1817104 original size:20 final size:21
Alignment explanation
Indices: 1817079--1817120 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
1817069 ACTTTAAATA
1817079 AATTTTA-CTTGAAAAACATT
1 AATTTTAGCTTGAAAAACATT
1817099 AATTTTATGCTTGAAAAACATT
1 AATTTTA-GCTTGAAAAACATT
1817121 TAAACATGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (21 bp):
AATTTTAGCTTGAAAAACATT
Found at i:1817746 original size:21 final size:21
Alignment explanation
Indices: 1817721--1817775 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
1817711 AACTCGAGTT
*
1817721 AAATATTATTATTGTTA-TTAA
1 AAATATTATTATT-TAATTTAA
*
1817742 AAATATTTAATATTTAATTTAA
1 AAATA-TTATTATTTAATTTAA
1817764 AAATATTATTAT
1 AAATATTATTAT
1817776 AAAATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AAATATTATTATTTAATTTAA
Found at i:1817781 original size:21 final size:22
Alignment explanation
Indices: 1817738--1817781 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1817728 ATTATTGTTA
**
1817738 TTAAAAATATTTAATATTTAAT
1 TTAAAAATATTTAATATAAAAT
*
1817760 TTAAAAATA-TTATTATAAAAT
1 TTAAAAATATTTAATATAAAAT
1817781 T
1 T
1817782 ATTTATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAAAATATTTAATATAAAAT
Found at i:1818479 original size:20 final size:20
Alignment explanation
Indices: 1818429--1818486 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1818419 CGATACGCAT
* *
1818429 ATAAATATATTGATACAATTC
1 ATAAATATATCGATAC-ATCC
* *
1818450 A-GAATGTATCGATACATCC
1 ATAAATATATCGATACATCC
1818469 ATAAATATATCGATACAT
1 ATAAATATATCGATACAT
1818487 TGAGTCCAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.13
20 25 0.83
21 1 0.03
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.33
Consensus pattern (20 bp):
ATAAATATATCGATACATCC
Found at i:1819580 original size:27 final size:27
Alignment explanation
Indices: 1819515--1819585 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
1819505 ATTGTGAAAT
1819515 AATATTTTAATA-A-TAA-A-TAATAT
1 AATATTTTAATATATTAATATTAATAT
1819538 --TATTTTAAGTAT-TTAATATTAATAT
1 AATATTTTAA-TATATTAATATTAATAT
1819563 AATATTTTAATATATTAATATTA
1 AATATTTTAATATATTAATATTA
1819586 TAATTAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
21 8 0.20
22 2 0.05
23 3 0.08
24 1 0.03
25 6 0.15
26 3 0.08
27 17 0.43
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
AATATTTTAATATATTAATATTAATAT
Found at i:1819657 original size:15 final size:14
Alignment explanation
Indices: 1819637--1819670 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
1819627 TAAATAGTTT
*
1819637 TTAATATTTTAATAA
1 TTAATAATTTAAT-A
1819652 TTAATAATTTAATA
1 TTAATAATTTAATA
1819666 TTAAT
1 TTAAT
1819671 GTCAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAATAATTTAATA
Found at i:1820165 original size:23 final size:22
Alignment explanation
Indices: 1820135--1820178 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
1820125 TTATACTATA
1820135 AATATTTAATAATAAAAAAATT
1 AATATTTAATAATAAAAAAATT
*
1820157 AATATTTTAATAATATAAAAAT
1 AATA-TTTAATAATAAAAAAAT
1820179 AGTAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATATTTAATAATAAAAAAATT
Found at i:1821045 original size:14 final size:14
Alignment explanation
Indices: 1821014--1821061 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
1821004 GTTAAAATTT
*
1821014 TTTATATATTTAAAA
1 TTTATA-ATTTAATA
*
1821029 TTTATAATTTTATA
1 TTTATAATTTAATA
1821043 TTTAT-ATTTAAATA
1 TTTATAATTT-AATA
1821057 TTTAT
1 TTTAT
1821062 TAAATATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 4 0.14
14 19 0.66
15 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTATAATTTAATA
Found at i:1821069 original size:27 final size:27
Alignment explanation
Indices: 1821017--1821083 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
1821007 AAAATTTTTT
* *
1821017 ATATATTTAAA-ATTTATAATTTTATAT
1 ATATATTTAAATATTTATAA-TATATAA
*
1821044 TTATATTTAAATATTTATTAA-ATATAA
1 ATATATTTAAATATTTA-TAATATATAA
*
1821071 ATATATTTTAATA
1 ATATATTTAAATA
1821084 CATTAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 25 0.76
28 5 0.15
29 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
ATATATTTAAATATTTATAATATATAA
Found at i:1822289 original size:16 final size:16
Alignment explanation
Indices: 1822260--1822306 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1822250 CATAACAATA
* *
1822260 ATATTATATAATATTT
1 ATATTAAATTATATTT
1822276 ATATTAAATTATA-TT
1 ATATTAAATTATATTT
*
1822291 ATTATTAAAGTATATT
1 A-TATTAAATTATATT
1822307 AGAACTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 3 0.12
16 22 0.85
17 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATTAAATTATATTT
Found at i:1822307 original size:16 final size:16
Alignment explanation
Indices: 1822277--1822307 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1822267 ATAATATTTA
*
1822277 TATTAAATTATATTAT
1 TATTAAAGTATATTAT
1822293 TATTAAAGTATATTA
1 TATTAAAGTATATTA
1822308 GAACTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TATTAAAGTATATTAT
Found at i:1822364 original size:18 final size:19
Alignment explanation
Indices: 1822343--1822381 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1822333 AAATTTTTAT
*
1822343 TTTTTAAAAAA-TTAAAAA
1 TTTTCAAAAAATTTAAAAA
1822361 TTTTCAAAAAATTTAAAAA
1 TTTTCAAAAAATTTAAAAA
1822380 TT
1 TT
1822382 ATTTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTTCAAAAAATTTAAAAA
Found at i:1822960 original size:19 final size:19
Alignment explanation
Indices: 1822932--1822986 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1822922 TCGTCAAATT
1822932 TATA-TTATATAATTTTAA
1 TATATTTATATAATTTTAA
*
1822950 TATATTTATAT-ATTTATAT
1 TATATTTATATAATTT-TAA
1822969 TATATTTATATTAATTTT
1 TATATTTATA-TAATTTT
1822987 TATTTAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 8 0.25
19 18 0.56
20 2 0.06
21 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATTTATATAATTTTAA
Found at i:1822972 original size:11 final size:11
Alignment explanation
Indices: 1822929--1822990 Score: 51
Period size: 10 Copynumber: 5.8 Consensus size: 11
1822919 TCTTCGTCAA
1822929 ATTTATATTAT
1 ATTTATATTAT
* *
1822940 A-TAATTTTAAT
1 ATTTATATT-AT
1822951 ATATT-TA-TAT
1 AT-TTATATTAT
1822961 ATTTATATTAT
1 ATTTATATTAT
1822972 ATTTATATTA-
1 ATTTATATTAT
*
1822982 ATTTTTATT
1 ATTTATATT
1822991 TAATAATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
9 2 0.05
10 19 0.46
11 18 0.44
12 1 0.02
13 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:1822974 original size:37 final size:37
Alignment explanation
Indices: 1822952--1823024 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
1822942 AATTTTAATA
1822952 TATTT-AT-ATATTTATATTATATTTATATTAATTTT
1 TATTTAATAATATTTATATTATATTTATATTAATTTT
*
1822987 TATTTAATAATATTTATATTA-ATTTTTATTTAATTTT
1 TATTTAATAATATTTATATTATATTTATA-TTAATTTT
1823024 T
1 T
1823025 TATCATATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
35 5 0.15
36 8 0.24
37 21 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (37 bp):
TATTTAATAATATTTATATTATATTTATATTAATTTT
Found at i:1822992 original size:16 final size:16
Alignment explanation
Indices: 1822971--1823018 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
1822961 ATTTATATTA
1822971 TATTTATATTAATTTT
1 TATTTATATTAATTTT
1822987 TATTTA-A-TAA----
1 TATTTATATTAATTTT
1822997 TATTTATATTAATTTT
1 TATTTATATTAATTTT
1823013 TATTTA
1 TATTTA
1823019 ATTTTTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
10 6 0.23
11 1 0.04
12 3 0.12
14 3 0.12
15 1 0.04
16 12 0.46
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTATATTAATTTT
Found at i:1823005 original size:26 final size:26
Alignment explanation
Indices: 1822960--1823020 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
1822950 TATATTTATA
*
1822960 TATTTATATTATATTTATATTAATTTT
1 TATTTA-ATAATATTTATATTAATTTT
1822987 TATTTAATAATATTTATATTAATTTT
1 TATTTAATAATATTTATATTAATTTT
1823013 TATTTAAT
1 TATTTAAT
1823021 TTTTTATCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 27 0.82
27 6 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTTAATAATATTTATATTAATTTT
Found at i:1823027 original size:12 final size:12
Alignment explanation
Indices: 1822962--1823024 Score: 69
Period size: 11 Copynumber: 5.2 Consensus size: 12
1822952 TATTTATATA
*
1822962 TTTATATT-ATA
1 TTTATATTAATT
1822973 TTTATATTAATT
1 TTTATATTAATT
1822985 TTTAT-TTAATAAT
1 TTTATATTAAT--T
1822998 ATTTATATTAATT
1 -TTTATATTAATT
1823011 TTTAT-TTAATT
1 TTTATATTAATT
1823022 TTT
1 TTT
1823025 TATCATATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
11 22 0.48
12 12 0.26
13 2 0.04
14 5 0.11
15 5 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTATATTAATT
Found at i:1824291 original size:20 final size:20
Alignment explanation
Indices: 1824266--1824308 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
1824256 AATCAATCTA
1824266 TAATAAAATAGTTATTTAAG
1 TAATAAAATAGTTATTTAAG
1824286 TAATAAAATAGTTATTTAAG
1 TAATAAAATAGTTATTTAAG
1824306 TAA
1 TAA
1824309 AGTAAACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (20 bp):
TAATAAAATAGTTATTTAAG
Found at i:1825148 original size:30 final size:31
Alignment explanation
Indices: 1825078--1825148 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 31
1825068 TAATAGTACT
* *
1825078 ATAA-AATTTTAAAAAAATTAAAGATGATCA
1 ATAACAATTTTAAAAAAATAAAAAATGATCA
** *
1825108 ATAATTATTTT-AAAAAATAAAAAATGATCT
1 ATAACAATTTTAAAAAAATAAAAAATGATCA
*
1825138 TTAACAATTTT
1 ATAACAATTTT
1825149 CATTTAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
30 28 0.85
31 5 0.15
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (31 bp):
ATAACAATTTTAAAAAAATAAAAAATGATCA
Found at i:1825241 original size:33 final size:33
Alignment explanation
Indices: 1825176--1825241 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1825166 TTGAAAAGTT
*
1825176 TTAAGATAAATATTTATTTTTAATACTGTTAAA
1 TTAAGATAAATATTTATTTTTAATACTATTAAA
*
1825209 TTAAGA-ATAATATTTATTTTTAATATTATTAAA
1 TTAAGATA-AATATTTATTTTTAATACTATTAAA
1825242 ATTGATATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (33 bp):
TTAAGATAAATATTTATTTTTAATACTATTAAA
Found at i:1825921 original size:22 final size:22
Alignment explanation
Indices: 1825887--1825936 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1825877 TATTTATATA
*
1825887 TTTATATCTTATTCATATTAAT
1 TTTATATCTTATTCAAATTAAT
* *
1825909 TTTATAT-TATATTTAAATTATT
1 TTTATATCT-TATTCAAATTAAT
1825931 TTTATA
1 TTTATA
1825937 CGATACAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTATATCTTATTCAAATTAAT
Found at i:1826022 original size:21 final size:19
Alignment explanation
Indices: 1825998--1826044 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
1825988 ATTTATATTA
*
1825998 AATATATAATACTTTAAAAAT
1 AATATATAA-A-TTAAAAAAT
1826019 AATA-ATAAATTAAAAAAT
1 AATATATAAATTAAAAAAT
1826037 AAT-TATAA
1 AATATATAA
1826045 CACAAATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 15 0.62
19 1 0.04
20 4 0.17
21 4 0.17
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AATATATAAATTAAAAAAT
Found at i:1827194 original size:21 final size:22
Alignment explanation
Indices: 1827158--1827211 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
1827148 TCGTTATTCG
1827158 TTTATTTAAT-TT-AAATTACTA
1 TTTA-TTAATATTAAAATTACTA
* *
1827179 TTTA-TAATATTAAAATTATTT
1 TTTATTAATATTAAAATTACTA
1827200 TTTATTAATATT
1 TTTATTAATATT
1827212 TATATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 4 0.14
20 2 0.07
21 15 0.54
22 7 0.25
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTATTAATATTAAAATTACTA
Found at i:1827219 original size:21 final size:21
Alignment explanation
Indices: 1827195--1827234 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1827185 ATATTAAAAT
*
1827195 TATTTT-TTATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
1827216 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
1827235 AATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:1827536 original size:21 final size:21
Alignment explanation
Indices: 1827511--1827551 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1827501 TGATATTTAA
**
1827511 TTATTATAATTATGAGATTAT
1 TTATTATAACAATGAGATTAT
1827532 TTATTATAACAATGAGATTA
1 TTATTATAACAATGAGATTA
1827552 AAGGCTCTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.46
Consensus pattern (21 bp):
TTATTATAACAATGAGATTAT
Found at i:1827885 original size:37 final size:40
Alignment explanation
Indices: 1827799--1827921 Score: 116
Period size: 37 Copynumber: 3.2 Consensus size: 40
1827789 AAAATAAATA
* * * * * *
1827799 TATT-TTTAATATAAATAAAAAATTAATTATTTT-TTATT
1 TATTATTTAACATAAACATAAATTTAATAATTTTAATATT
1827837 T-TTATTTAACATAAACAT-AATTT-AT-A-TTTATATATT
1 TATTATTTAACATAAACATAAATTTAATAATTTTA-ATATT
* *
1827873 TATTATTTAACATAAATATAAATTTAATAATTTTAATAAT
1 TATTATTTAACATAAACATAAATTTAATAATTTTAATATT
1827913 TATTATTTA
1 TATTATTTA
1827922 TATACATATT
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
34 3 0.04
35 1 0.01
36 7 0.10
37 22 0.31
38 17 0.24
39 2 0.03
40 14 0.20
41 4 0.06
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (40 bp):
TATTATTTAACATAAACATAAATTTAATAATTTTAATATT
Found at i:1828241 original size:17 final size:17
Alignment explanation
Indices: 1828221--1828269 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
1828211 AAATTATATT
1828221 TATATTAAATAATAAAA
1 TATATTAAATAATAAAA
* *
1828238 TATATTAAA-AGTATAA
1 TATATTAAATAATAAAA
*
1828254 TAATGTTAAATAATAA
1 T-ATATTAAATAATAA
1828270 TTAAAATGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 6 0.24
17 16 0.64
18 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (17 bp):
TATATTAAATAATAAAA
Found at i:1828247 original size:34 final size:34
Alignment explanation
Indices: 1828191--1828317 Score: 101
Period size: 34 Copynumber: 3.5 Consensus size: 34
1828181 GCATACATAA
* *
1828191 TAAATAATTAAGTATTATTAAAATTATATTTATAT
1 TAAATAATAAAATA-TATTAAAATTATATTTATAT
* * * *
1828226 TAAATAATAAAATATATTAAAAGTATAATAATGT
1 TAAATAATAAAATATATTAAAATTATATTTATAT
* *
1828260 TAAATAATAATTAAAATGTTATAAAAATTATATTTATAT
1 T--A-AATAA-TAAAAT-ATATTAAAATTATATTTATAT
* *
1828299 CAAATTATTAAAATATATT
1 TAAA-TAATAAAATATATT
1828318 TATGTCAAAA
Statistics
Matches: 70, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
34 17 0.24
35 15 0.21
36 9 0.13
37 8 0.11
38 6 0.09
39 15 0.21
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.43
Consensus pattern (34 bp):
TAAATAATAAAATATATTAAAATTATATTTATAT
Found at i:1828331 original size:26 final size:25
Alignment explanation
Indices: 1828278--1828326 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
1828268 AATTAAAATG
1828278 TTATAAAAATTATATTTATATCAAA
1 TTATAAAAATTATATTTATATCAAA
* *
1828303 TTATTAAAA-TATATTTATGTCAAA
1 TTATAAAAATTATATTTATATCAAA
1828327 AATTAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (25 bp):
TTATAAAAATTATATTTATATCAAA
Found at i:1829380 original size:23 final size:23
Alignment explanation
Indices: 1829354--1829397 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
1829344 TATAATTATT
1829354 TTTAAAATA-AAATATTTAATAAA
1 TTTAAAATATAAAT-TTTAATAAA
1829377 TTTAAAATATAAATTTTAATA
1 TTTAAAATATAAATTTTAATA
1829398 TTTATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTAAAATATAAATTTTAATAAA
Found at i:1829538 original size:5 final size:5
Alignment explanation
Indices: 1829476--1829524 Score: 55
Period size: 5 Copynumber: 9.4 Consensus size: 5
1829466 TATTAAAAAT
*
1829476 AATTA AATTA AATTA AATTA AATTGA TCAATT- AATTC AATTA AATTA
1 AATTA AATTA AATTA AATTA AATT-A --AATTA AATTA AATTA AATTA
1829523 AA
1 AA
1829525 AAATTATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
4 4 0.10
5 30 0.77
6 1 0.03
8 4 0.10
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (5 bp):
AATTA
Found at i:1829634 original size:20 final size:20
Alignment explanation
Indices: 1829611--1829659 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
1829601 CTTCCAAACT
*
1829611 TTTATTTTTAA-TTGATTAAA
1 TTTATATTTAACTT-ATTAAA
*
1829631 TTTAATATTTAACTTATTAAT
1 TTT-ATATTTAACTTATTAAA
1829652 TTTATATT
1 TTTATATT
1829660 AAAACTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 15 0.60
22 2 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTATATTTAACTTATTAAA
Found at i:1829697 original size:17 final size:17
Alignment explanation
Indices: 1829677--1829725 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
1829667 ATATTATTAA
*
1829677 ATTAAATATATATTTTT
1 ATTAAATATATATTTAT
*
1829694 ATTAATTATA-ATTTAT
1 ATTAAATATATATTTAT
* *
1829710 ATTTAATATTTATTTA
1 ATTAAATATATATTTA
1829726 ATACAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTAAATATATATTTAT
Found at i:1829697 original size:22 final size:22
Alignment explanation
Indices: 1829670--1829713 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1829660 AAAACTTATA
1829670 TTATTAAATTA-AATATATATTT
1 TTATT-AATTATAATATATATTT
*
1829692 TTATTAATTATAATTTATATTT
1 TTATTAATTATAATATATATTT
1829714 AATATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTAATTATAATATATATTT
Found at i:1830116 original size:2 final size:2
Alignment explanation
Indices: 1830109--1830158 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
1830099 TAATATCCCT
* * *
1830109 TC TC TC TC CC TC TC -C TC TA TC TC TC TC TC -C TC TC TC TT TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
1830149 TC TC TT TC TC
1 TC TC TC TC TC
1830159 CCCCTCCTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1830133 original size:19 final size:19
Alignment explanation
Indices: 1830109--1830153 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
1830099 TAATATCCCT
1830109 TCTCTCTC-CCTCTCCTCTA
1 TCTCTCTCTCCTCT-CTCTA
*
1830128 TCTCTCTCTCCTCTCTCTT
1 TCTCTCTCTCCTCTCTCTA
1830147 TCTCTCT
1 TCTCTCT
1830154 TTCTCCCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (19 bp):
TCTCTCTCTCCTCTCTCTA
Found at i:1830136 original size:15 final size:15
Alignment explanation
Indices: 1830113--1830152 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1830103 ATCCCTTCTC
*
1830113 TCTCCCTCTCCTCTA
1 TCTCTCTCTCCTCTA
*
1830128 TCTCTCTCTCCTCTC
1 TCTCTCTCTCCTCTA
*
1830143 TCTTTCTCTC
1 TCTCTCTCTC
1830153 TTTCTCCCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (15 bp):
TCTCTCTCTCCTCTA
Found at i:1837561 original size:21 final size:21
Alignment explanation
Indices: 1837522--1837578 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
1837512 AAAGATATAT
*
1837522 TTGGATGAAATG-ATACATTGG
1 TTGGATGAAA-GAATGCATTGG
**
1837543 TTGGATGAAAGAATGCATTTT
1 TTGGATGAAAGAATGCATTGG
*
1837564 TTGGATGAAAAAATG
1 TTGGATGAAAGAATG
1837579 TAACTTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (21 bp):
TTGGATGAAAGAATGCATTGG
Found at i:1837586 original size:21 final size:21
Alignment explanation
Indices: 1837543--1837586 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1837533 GATACATTGG
* **
1837543 TTGGATGAAAGAATGCATTTT
1 TTGGATGAAAAAATGCAACTT
*
1837564 TTGGATGAAAAAATGTAACTT
1 TTGGATGAAAAAATGCAACTT
1837585 TT
1 TT
1837587 AATAACCAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (21 bp):
TTGGATGAAAAAATGCAACTT
Found at i:1840900 original size:20 final size:20
Alignment explanation
Indices: 1840875--1840948 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
1840865 ACATAAGTTT
*
1840875 TGTATCGATACATGATTCAA
1 TGTATCGATACATTATTCAA
* *
1840895 TGTATCGATAAATTA-CCTAGA
1 TGTATCGATACATTATTC-A-A
*
1840916 TGTATCGATGCATTATTCAA
1 TGTATCGATACATTATTCAA
1840936 TGTATCGATACAT
1 TGTATCGATACAT
1840949 ACAGGTAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 1 0.02
20 27 0.61
21 15 0.34
22 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTATTCAA
Found at i:1851534 original size:1 final size:1
Alignment explanation
Indices: 1851528--1851588 Score: 59
Period size: 1 Copynumber: 61.0 Consensus size: 1
1851518 CGTCATCTGC
* * * * * * *
1851528 AAAAAAAAAAAAAACAAAAAACAAAAACAAAAAAAATAAAAAATAAAATAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1851589 GAGGAAGAAA
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.89, C:0.05, G:0.00, T:0.07
Consensus pattern (1 bp):
A
Found at i:1852945 original size:28 final size:28
Alignment explanation
Indices: 1852902--1852980 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 28
1852892 GAATCCCTTC
* *
1852902 TCAAAGCCCACTAGTCAGTGGCACCTCT
1 TCAAAGTCCACAAGTCAGTGGCACCTCT
* * *
1852930 TCAAAGTCCATAAGTCAGTGGCATCTTT
1 TCAAAGTCCACAAGTCAGTGGCACCTCT
*
1852958 TCGAAGTCCACAA-TCAGTGGCAC
1 TCAAAGTCCACAAGTCAGTGGCAC
1852981 TTGCTGTATA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 9 0.21
28 34 0.79
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (28 bp):
TCAAAGTCCACAAGTCAGTGGCACCTCT
Found at i:1853310 original size:32 final size:32
Alignment explanation
Indices: 1853161--1853302 Score: 135
Period size: 32 Copynumber: 4.5 Consensus size: 32
1853151 AACCTTCTCT
* ** * *
1853161 AAAGTCCACACAAGTTGGTGACAA-CCTTCTCC
1 AAAGCCCACACAAGTCAGTGGCAACCCTT-TCA
* * * * *
1853193 AAAGCCCACGCAAGTCAATGGTAACCC-CTCC
1 AAAGCCCACACAAGTCAGTGGCAACCCTTTCA
* *
1853224 AAAGCCCATACAAGTCAGTGGCGACCCTTTCA
1 AAAGCCCACACAAGTCAGTGGCAACCCTTTCA
*
1853256 AAAGCCTACACAAGTCAGTGGCAACCCTTTCA
1 AAAGCCCACACAAGTCAGTGGCAACCCTTTCA
*
1853288 AAAGTCCACACAAGT
1 AAAGCCCACACAAGT
1853303 TGGTGGCATT
Statistics
Matches: 88, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
31 25 0.28
32 61 0.69
33 2 0.02
ACGTcount: A:0.34, C:0.32, G:0.16, T:0.18
Consensus pattern (32 bp):
AAAGCCCACACAAGTCAGTGGCAACCCTTTCA
Found at i:1853324 original size:63 final size:61
Alignment explanation
Indices: 1853161--1853326 Score: 152
Period size: 63 Copynumber: 2.6 Consensus size: 61
1853151 AACCTTCTCT
* * * *
1853161 AAAGTCCACACAAGTTGGTGACAACCTTCTCCAAAGCCCACGCAAGTCAATGGTAACCCCTCC
1 AAAGTCCACACAAGTTGGTGGCAACCTT-T-CAAAGCCCACACAAGTCAATGGCAACCCCTCA
* * ** * * * *
1853224 AAAGCCCATACAAGTCAGTGGCGACCCTTTCAAAAGCCTACACAAGTCAGTGGCAACCCTTTCA
1 AAAGTCCACACAAGTTGGTGGC-AACCTTTC-AAAGCCCACACAAGTCAATGGCAACCC-CTCA
* *
1853288 AAAGTCCACACAAGTTGGTGGCATTCCTTTCTAAGCCCA
1 AAAGTCCACACAAGTTGGTGGCA-ACCTTTCAAAGCCCA
1853327 ATGTCGCTGG
Statistics
Matches: 80, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
62 1 0.01
63 48 0.60
64 31 0.39
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (61 bp):
AAAGTCCACACAAGTTGGTGGCAACCTTTCAAAGCCCACACAAGTCAATGGCAACCCCTCA
Found at i:1853389 original size:52 final size:52
Alignment explanation
Indices: 1853324--1853864 Score: 327
Period size: 52 Copynumber: 10.4 Consensus size: 52
1853314 CTTTCTAAGC
* *
1853324 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCATCTCATCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTCTTCTCATCTTCAAGT
* * * ** * **
1853376 CTAATGTCACTGG-CTGTGAACCAGCATATTAACATTCTTCGT-ATCTTTAAAC
1 CCAATGTCGCTGGCCT-TGAATCAGCATATTGGCATTCTTC-TCATCTTCAAGT
* * * *
1853428 CCAATATTGATGGCCTTGAATCAGCATATTGGCATTCTTTTCATCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTCTTCTCATCTTCAAGT
* * * * * * * *
1853480 CTAACGTCGCTGGCCGTGAATCAGCACATTGACATTCTTCGCATCTTTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTCTTCTCATCTTCAAGT
* * * * *
1853532 CCAATATCGCTGACCTTGAATTAGCATATTGGCAACTTTATTATTC-TCCTTAACCTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGC-A--TTCTT-CTCAT-CTT---C--AAGT
* *
1853593 ACAATGTCGCTGGCCTTGAATCAGCATATTGGCA--C--CATCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTCTTC-TCATCTTCAAGT
* * * * * *
1853642 CCAATATCACTGGCTTTGAACCAGCATATTGGCA-TCTT-T-AAC-TCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTCTTCTCATCTTC-AAGT
* * *
1853691 CCAATGTTGCTGGCCTTGAATTAGCATATTGGCATTCTTCTTATCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTCTTCTCATCTTCAAGT
* * * * * * * * * *
1853743 CTAATGTCACTGGCCGTGAATCAGTACACTGACATTCTT-TGTATCTTTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTCTTCT-CATCTTCAAGT
* * * ** ** * *
1853795 CCAATATTGCTGGCCTTGAATCAACATA-TCCCACCCTTATCATCTTCAAAT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTCTTCTCATCTTCAAGT
*
1853846 CCAATGACG-TGGCCTTGAA
1 CCAATGTCGCTGGCCTTGAA
1853865 CTAGCACGTT
Statistics
Matches: 363, Mismatches: 100, Indels: 54
0.70 0.19 0.10
Matches are distributed among these distances:
48 1 0.00
49 66 0.18
50 16 0.04
51 24 0.07
52 202 0.56
53 6 0.02
54 5 0.01
55 6 0.02
56 4 0.01
60 1 0.00
61 32 0.09
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (52 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTCTTCTCATCTTCAAGT
Found at i:1853695 original size:49 final size:49
Alignment explanation
Indices: 1853602--1853725 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 49
1853592 TACAATGTCG
* * * *
1853602 CTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATATCA
1 CTGGCCTTGAATCAGCATATTGGCATCATCAACTCTAAGCCCAATATCA
* * * * * **
1853651 CTGGCTTTGAACCAGCATATTGGCATCTTTAACTCTAAGCCCAATGTTG
1 CTGGCCTTGAATCAGCATATTGGCATCATCAACTCTAAGCCCAATATCA
*
1853700 CTGGCCTTGAATTAGCATATTGGCAT
1 CTGGCCTTGAATCAGCATATTGGCAT
1853726 TCTTCTTATC
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 61 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (49 bp):
CTGGCCTTGAATCAGCATATTGGCATCATCAACTCTAAGCCCAATATCA
Found at i:1853798 original size:263 final size:267
Alignment explanation
Indices: 1853325--1853815 Score: 722
Period size: 263 Copynumber: 1.8 Consensus size: 267
1853315 TTTCTAAGCC
* * *
1853325 CAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCATCTCATCTTCAAGTCTAATGTCACTGGC
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCA-CTCATCTTCAAGTCCAATATCACTGGC
* *
1853390 TGTGAACCAGCATATTAACATTCTTCGTATCTTTAAACCCAATATTGATGGCCTTGAATCAGCAT
65 TGTGAACCAGCATATTAACATTCTTC-TAACTCTAAACCCAATATTGATGGCCTTGAATCAGCAT
* *
1853455 ATTGGCATTCTTTTCATCTTCAAGTCTAACGTCGCTGGCCGTGAATCAGCACATTGACATTCTTC
129 ATTGGCATTCTTTTCATCTTCAAGTCTAACGTCACTGGCCGTGAATCAGCACACTGACATTCTTC
1853520 GCATCTTTAAGCCCAATATCGCTGACCTTGAATTAGCATATTGGCAACTTTATTATTCTCCTTAA
194 GCATCTTTAAGCCCAATATCGCTGACCTTGAATTAGCATATTGGCAACTTTATTATTCTCCTTAA
1853585 CCTTAAGTA
259 CCTTAAGTA
* *
1853594 CAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCA-TCATCTTTAAGTCCAATATCACTGGCT
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCACTCATCTTCAAGTCCAATATCACTGGCT
* ** * * * *
1853657 TTGAACCAGCATATTGGCA-TCTT-TAACTCTAAGCCCAATGTTGCTGGCCTTGAATTAGCATAT
66 GTGAACCAGCATATTAACATTCTTCTAACTCTAAACCCAATATTGATGGCCTTGAATCAGCATAT
* * *
1853720 TGGCATTCTTCTT-ATCTTCAAGTCTAATGTCACTGGCCGTGAATCAGTACACTGACATTCTTTG
131 TGGCATTCTT-TTCATCTTCAAGTCTAACGTCACTGGCCGTGAATCAGCACACTGACATTCTTCG
* * *
1853784 TATCTTTAAGCCCAATATTGCTGGCCTTGAAT
195 CATCTTTAAGCCCAATATCGCTGACCTTGAAT
1853816 CAACATATCC
Statistics
Matches: 199, Mismatches: 22, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
263 119 0.60
264 2 0.01
265 4 0.02
266 40 0.20
268 2 0.01
269 32 0.16
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (267 bp):
CAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCACTCATCTTCAAGTCCAATATCACTGGCT
GTGAACCAGCATATTAACATTCTTCTAACTCTAAACCCAATATTGATGGCCTTGAATCAGCATAT
TGGCATTCTTTTCATCTTCAAGTCTAACGTCACTGGCCGTGAATCAGCACACTGACATTCTTCGC
ATCTTTAAGCCCAATATCGCTGACCTTGAATTAGCATATTGGCAACTTTATTATTCTCCTTAACC
TTAAGTA
Found at i:1860820 original size:52 final size:52
Alignment explanation
Indices: 1860750--1860870 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
1860740 GAAAATTTAT
* *
1860750 CTGCATGTATCGATACATTTAATAGTGTATCGATACATTTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
1860802 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1860854 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1860871 AAGATCGGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1860883 original size:52 final size:52
Alignment explanation
Indices: 1860750--1860890 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 52
1860740 GAAAATTTAT
* *
1860750 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATTTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* *** *
1860802 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
1860854 CTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
1860891 ATGTATCGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 4 0.05
52 73 0.95
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1860897 original size:13 final size:13
Alignment explanation
Indices: 1860879--1860903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1860869 CAAAGATCGG
1860879 TGTATCGATACAA
1 TGTATCGATACAA
1860892 TGTATCGATACA
1 TGTATCGATACA
1860904 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1860991 original size:33 final size:33
Alignment explanation
Indices: 1860949--1861011 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1860939 GCTTAAATTG
1860949 TATCGATACAAAAAAATATGTATCGATACATTA
1 TATCGATACAAAAAAATATGTATCGATACATTA
* ***
1860982 TATCGATACAACATTTTATGTATCGATACA
1 TATCGATACAAAAAAATATGTATCGATACA
1861012 AATCGTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (33 bp):
TATCGATACAAAAAAATATGTATCGATACATTA
Found at i:1861656 original size:25 final size:27
Alignment explanation
Indices: 1861627--1861680 Score: 85
Period size: 25 Copynumber: 2.1 Consensus size: 27
1861617 ATAGTATTAA
1861627 TAATATATAT-AATTTT-AATTTAATT
1 TAATATATATAAATTTTAAATTTAATT
*
1861652 TAATATATATAAATTTTAAATTTTATT
1 TAATATATATAAATTTTAAATTTAATT
1861679 TA
1 TA
1861681 TATTTGTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 10 0.38
26 6 0.23
27 10 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TAATATATATAAATTTTAAATTTAATT
Found at i:1861764 original size:19 final size:19
Alignment explanation
Indices: 1861738--1861775 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1861728 TTATATTATA
*
1861738 TTTTTTAA-TTTAATAATT
1 TTTTTTAAGTTTAAAAATT
1861756 TTTTGTTAAGTTTAAAAATT
1 TTTT-TTAAGTTTAAAAATT
1861776 ATAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TTTTTTAAGTTTAAAAATT
Found at i:1862844 original size:2 final size:2
Alignment explanation
Indices: 1862837--1862870 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1862827 ATACTTTTCA
1862837 AT AT AT 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 AT AT AT
1862871 GAGTTTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1863753 original size:2 final size:2
Alignment explanation
Indices: 1863746--1863774 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1863736 CGTAGTACCA
1863746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1863775 GTGCATGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1863974 original size:21 final size:20
Alignment explanation
Indices: 1863929--1863974 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
1863919 ATTTAAAAAA
1863929 ATTAATAAATTAATAAATAT
1 ATTAATAAATTAATAAATAT
*
1863949 TTTAATAAATGTAA-AACATAT
1 ATTAATAAAT-TAATAA-ATAT
1863970 ATTAA
1 ATTAA
1863975 ATATATCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTAATAAATTAATAAATAT
Found at i:1869069 original size:20 final size:20
Alignment explanation
Indices: 1869044--1869081 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1869034 CCATCACGTA
1869044 AAGCTTGTAGAAAACATGTG
1 AAGCTTGTAGAAAACATGTG
1869064 AAGCTTGTAGAAAACATG
1 AAGCTTGTAGAAAACATG
1869082 AAATGATGGG
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:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (20 bp):
AAGCTTGTAGAAAACATGTG
Found at i:1874649 original size:22 final size:19
Alignment explanation
Indices: 1874619--1874667 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
1874609 TTAATGGCAT
1874619 TCATATTCATGACATTCATTCA
1 TCATATTCAT-A-A-TCATTCA
*
1874641 TCATTTTCATAATCATTCA
1 TCATATTCATAATCATTCA
1874660 TCAGTATT
1 TCA-TATT
1874668 TGCTTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 10 0.42
20 4 0.17
21 1 0.04
22 9 0.38
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.45
Consensus pattern (19 bp):
TCATATTCATAATCATTCA
Found at i:1882910 original size:42 final size:42
Alignment explanation
Indices: 1882849--1883468 Score: 529
Period size: 42 Copynumber: 14.7 Consensus size: 42
1882839 ATCTTTTTTG
*
1882849 TTTTCCCTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTT
1 TTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT
* * *
1882891 TTTTCCCTTAGTATGCCTGTCGGTTTTGACCTTGGAGACTTT
1 TTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT
* * * *
1882933 TCTTCCCTCAGTCTGCCTGTCGACTTTGACCCTAGAGACTTT
1 TTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT
* *
1882975 TTTT-CCTTCAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTT
1 TTTTCCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT
* * * * *
1883017 CTTTCCCTTAGTCTGCCTGTCGACTTCGTCTCTGGAGACTTT
1 TTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT
* * * *
1883059 CTTTCCCTTAGTCTGCTTATCGGCTTTGACCTTGGAGACTTT
1 TTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT
** * * *
1883101 CCTT-CCTTAGTCTGCTTGTCGGCTTCGTCCCTGGAGA-TTT
1 TTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT
* * * * * *
1883141 TTTTTCTTTCAGTCTGCCTATCGAC-TTCATCCCTGAAGACTTT
1 TTTTCCCTT-AGTCTGCCTGTCGGCTTTGA-CCCTGGAGACTTT
* * ** * * *
1883184 CTTTCTCGCAGTCTGCTTGTCGGCTTCAGTCCCTGGAGACTTT
1 TTTTCCCTTAGTCTGCCTGTCGGCTT-TGACCCTGGAGACTTT
* * **
1883227 CTTTCCCTTAGTCTGCCTGTCGACTTTGACCCTAAAGACTTT
1 TTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT
*** * *
1883269 TCAACCCTCAGTCTGCTTGGT-GGCTTTGACCCTGGAGACTTT
1 TTTTCCCTTAGTCTGCCT-GTCGGCTTTGACCCTGGAGACTTT
*** * * *
1883311 TCAACCCTCAGTCTTCCTGTCGGCTTTTAAACCC-GGAGACTTT
1 TTTTCCCTTAGTCTGCCTGTCGGC-TTT-GACCCTGGAGACTTT
*** *
1883354 TCAACCCTCT-GTCTACCTGTCGGCTTTGACCCTGGAGACTTT
1 TTTTCCCT-TAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT
* *
1883396 TCTTAT-CCTTAGTCTACCTGTCGGCTTTGACCATGGA-ACTTT
1 T-TT-TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT
* * * *
1883438 CTTTCCCTAAGTCTGCCCGTTGGCTTTGACC
1 TTTTCCCTTAGTCTGCCTGTCGGCTTTGACC
1883469 TGGGAGAATA
Statistics
Matches: 472, Mismatches: 88, Indels: 37
0.79 0.15 0.06
Matches are distributed among these distances:
40 6 0.01
41 66 0.14
42 289 0.61
43 107 0.23
44 4 0.01
ACGTcount: A:0.13, C:0.30, G:0.19, T:0.39
Consensus pattern (42 bp):
TTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT
Found at i:1883074 original size:126 final size:124
Alignment explanation
Indices: 1882849--1883468 Score: 484
Period size: 127 Copynumber: 4.9 Consensus size: 124
1882839 ATCTTTTTTG
* * * * *
1882849 TTTTCCCTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTTTTTCCCTTAGTATGCCTGTCGG
1 TTTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTTTTCCCTTAGTCTGCCTGTCGA
* * * * * *
1882914 TTTTGACCTTGGAGACTTT-TCTTCCCTCAGTCTGCCTGTCGACTTTGACCCTAGAGACTT
66 CTTCGTCC-TGGAGACTTTCT-TTCCCTCAGTCTGCTTGTCGGCTTTGACCCTGGAGACTT
* *
1882974 TTTTTCCTTCAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCTTTCCCTTAGTCTGCCTGTCG
1 TTTTCCCTT-AGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTTTTCCCTTAGTCTGCCTGTCG
* * *
1883039 ACTTCGTCTCTGGAGACTTTCTTTCCCTTAGTCTGCTTATCGGCTTTGACCTTGGAGACTT
65 ACTTCGTC-CTGGAGACTTTCTTTCCCTCAGTCTGCTTGTCGGCTTTGACCCTGGAGACTT
* * * * *
1883100 TCCTT-CCTTAGTCTGCTTGTCGGCTTCGTCCCTGGAGA-TTTTTTTTCTTTCAGTCTGCCTATC
1 T-TTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTTTTCCCTT-AGTCTGCCTGTC
* * * * * *
1883163 GACTTCATCCCTGAAGACTTTCTTTCTCGCAGTCTGCTTGTCGGCTTCAGTCCCTGGAGACTT
64 GACTTCGT-CCTGGAGACTTTCTTTCCCTCAGTCTGCTTGTCGGCTT-TGACCCTGGAGACTT
* * * ** *** * *
1883226 TCTTTCCCTTAGTCTGCCTGTCGACTTTGACCCTAAAGACTTTTCAACCCTCAGTCTGCTTGGT-
1 T-TTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTTTTCCCTTAGTCTGCCT-GTC
* * * ** * * *
1883290 GGCTTTGACCCTGGAGACTTT-TCAACCCTCAGTCTTCCTGTCGGCTTTTAAACCC-GGAGACTT
64 GACTTCG-TCCTGGAGACTTTCT-TTCCCTCAGTCTGCTTGTCGGC-TTT-GACCCTGGAGACTT
** * * * *
1883353 TTCAACCCTCT-GTCTACCTGTCGGCTTTGACCCTGGAGACTTTTCTTAT-CCTTAGTCTACCTG
1 TT-TTCCCT-TAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTT-TT-TCCCTTAGTCTGCCTG
* * * * ** *
1883416 TCGGCTTTGACCATGGA-ACTTTCTTTCCCTAAGTCTGCCCGTTGGCTTTGACC
62 TCGACTTCGTCC-TGGAGACTTTCTTTCCCTCAGTCTGCTTGTCGGCTTTGACC
1883469 TGGGAGAATA
Statistics
Matches: 394, Mismatches: 80, Indels: 42
0.76 0.16 0.08
Matches are distributed among these distances:
124 9 0.02
125 89 0.23
126 124 0.31
127 137 0.35
128 35 0.09
ACGTcount: A:0.13, C:0.30, G:0.19, T:0.39
Consensus pattern (124 bp):
TTTTCCCTTAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTTTTTCCCTTAGTCTGCCTGTCGA
CTTCGTCCTGGAGACTTTCTTTCCCTCAGTCTGCTTGTCGGCTTTGACCCTGGAGACTT
Found at i:1883268 original size:210 final size:209
Alignment explanation
Indices: 1882849--1883454 Score: 598
Period size: 210 Copynumber: 2.9 Consensus size: 209
1882839 ATCTTTTTTG
* * **
1882849 TTTTCCCTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTTTTTCCCTTAGTATGCCTGTCGG
1 TTTTCCCTTAGTCTGCTTGTCGGCTTTGACCCTGGAGACTTTCCTTCCCTTAGTATGCCTGTCGG
* * * * * *
1882914 TTTTGACCTTGGAGACTTTTCTTCCCTCAGTCTGCCTGTCGACTTTGACCCTAGAGACTTTTTTT
66 CTTCGACCCTGGAGACTTTTCTTCCCTCAGTCTGCCTATCGACTTTCACCCTAGAGACTTTCTTT
*
1882979 CCTTCAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCTTTCCCTTAGTCTGCCTGTCGACTTC
131 CCTGCAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCTTTCCCTTAGTCTGCCTGTCGACTTC
* * **
1883044 GTCTCTGGAGACTT
196 GACCCTAAAGACTT
* * * *
1883058 TCTTTCCCTTAGTCTGCTTATCGGCTTTGACCTTGGAGACTTTCCTT-CCTTAGTCTGCTTGTCG
1 T-TTTCCCTTAGTCTGCTTGTCGGCTTTGACCCTGGAGACTTTCCTTCCCTTAGTATGCCTGTCG
* * * **
1883122 GCTTCGTCCCTGGAGATTTTTTTTCTTTCAGTCTGCCTATCGAC-TTCATCCCT-GAAGACTTTC
65 GCTTCGACCCTGGAGACTTTTCTTCCCTCAGTCTGCCTATCGACTTTCA-CCCTAG-AGACTTTC
*
1883185 TTT-CTCGCAGTCTGCTTGTCGGCTTCAGTCCCTGGAGACTTTCTTTCCCTTAGTCTGCCTGTCG
128 TTTCCT-GCAGTCTGCCTGTCGGCTTC-GTCCCTGGAGACTTTCTTTCCCTTAGTCTGCCTGTCG
*
1883249 ACTTTGACCCTAAAGACTT
191 ACTTCGACCCTAAAGACTT
** * * ** * * *
1883268 TTCAACCCTCAGTCTGCTTGGT-GGCTTTGACCCTGGAGACTTTTCAACCCTCAGTCTTCCTGTC
1 TT-TTCCCTTAGTCTGCTT-GTCGGCTTTGACCCTGGAGACTTTCCTTCCCTTAGTATGCCTGTC
** ** * * * * * *
1883332 GGCTTTTAAACCC-GGAGACTTTTCAACCCTCTGTCTACCTGTCGGCTTTGACCCTGGAGACTTT
64 GGC--TTCGACCCTGGAGACTTTTCTTCCCTCAGTCTGCCTATCGACTTTCACCCTAGAGAC-TT
* * * * * *
1883396 TCTTATCCT-TAGTCTACCTGTCGGCTTTGACCATGGA-ACTTTCTTTCCCTAAGTCTGCC
126 TCTT-TCCTGCAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCTTTCCCTTAGTCTGCC
1883455 CGTTGGCTTT
Statistics
Matches: 324, Mismatches: 58, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
208 6 0.02
209 84 0.26
210 125 0.39
211 38 0.12
212 38 0.12
213 30 0.09
214 1 0.00
215 2 0.01
ACGTcount: A:0.13, C:0.30, G:0.19, T:0.39
Consensus pattern (209 bp):
TTTTCCCTTAGTCTGCTTGTCGGCTTTGACCCTGGAGACTTTCCTTCCCTTAGTATGCCTGTCGG
CTTCGACCCTGGAGACTTTTCTTCCCTCAGTCTGCCTATCGACTTTCACCCTAGAGACTTTCTTT
CCTGCAGTCTGCCTGTCGGCTTCGTCCCTGGAGACTTTCTTTCCCTTAGTCTGCCTGTCGACTTC
GACCCTAAAGACTT
Found at i:1884246 original size:20 final size:20
Alignment explanation
Indices: 1884221--1884261 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1884211 TACCCATCAC
1884221 GTGAAGCTTGTAGAAAACAT
1 GTGAAGCTTGTAGAAAACAT
1884241 GTGAAGCTTGTAGAAAACAT
1 GTGAAGCTTGTAGAAAACAT
1884261 G
1 G
1884262 AAATGATGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (20 bp):
GTGAAGCTTGTAGAAAACAT
Found at i:1885349 original size:16 final size:16
Alignment explanation
Indices: 1885319--1885359 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1885309 AAATTAGAAT
1885319 TAAAAATAA-AAAATAA
1 TAAAAA-AATAAAATAA
*
1885335 TAACAAAATAAAATAA
1 TAAAAAAATAAAATAA
1885351 TAAAAAAAT
1 TAAAAAAAT
1885360 TATTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAAAAATAAAATAA
Found at i:1889975 original size:32 final size:31
Alignment explanation
Indices: 1889938--1890019 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 31
1889928 TTCTAAAGCT
1889938 GTTAACTTTGATCACAGAT-TTATACACTTTTA
1 GTTAACTTTGATCA-A-ATATTATACACTTTTA
*
1889970 GTTAACTTTGATTCTAAATATTATACACTTTTG
1 GTTAACTTTGA-TC-AAATATTATACACTTTTA
1890003 GTTAACTTTGATCAAAT
1 GTTAACTTTGATCAAAT
1890020 TTCTTAAAGT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
31 4 0.09
32 15 0.33
33 26 0.57
34 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (31 bp):
GTTAACTTTGATCAAATATTATACACTTTTA
Found at i:1890894 original size:43 final size:46
Alignment explanation
Indices: 1890847--1890938 Score: 111
Period size: 45 Copynumber: 2.0 Consensus size: 46
1890837 ATTTATACCA
* * *
1890847 TATTT-ATATATTTTATTATAT-TATAA-TTATATT-TAAAATATTT
1 TATTTAATAAATTTTAATATATAAATAATTTATATTATAAAAT-TTT
1890890 TATTTAAATAAATTTTAATATATAAATAATTTATATTATAAAATTTT
1 TATTT-AATAAATTTTAATATATAAATAATTTATATTATAAAATTTT
1890937 TA
1 TA
1890939 AATATATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
43 5 0.12
45 14 0.34
46 4 0.10
47 12 0.29
48 6 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (46 bp):
TATTTAATAAATTTTAATATATAAATAATTTATATTATAAAATTTT
Found at i:1890903 original size:29 final size:29
Alignment explanation
Indices: 1890846--1890900 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
1890836 TATTTATACC
* *
1890846 ATATTTATATATTTTATTATATTATAATT
1 ATATTTAAATATTTTATTATAATATAATT
1890875 ATATTTAAAATATTTTATT-TAA-ATAA
1 ATATTT-AAATATTTTATTATAATATAA
1890901 ATTTTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 4 0.17
29 8 0.35
30 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
ATATTTAAATATTTTATTATAATATAATT
Found at i:1890923 original size:31 final size:33
Alignment explanation
Indices: 1890882--1890945 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 33
1890872 ATTATATTTA
*
1890882 AAATATTTTAT-TTA-AATAAATTTT-AATATAT
1 AAATAATTTATATTATAA-AAATTTTAAATATAT
*
1890913 AAATAATTTATATTATAAAATTTTTAAATATAT
1 AAATAATTTATATTATAAAAATTTTAAATATAT
1890946 TTATATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 10 0.36
32 9 0.32
33 9 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (33 bp):
AAATAATTTATATTATAAAAATTTTAAATATAT
Found at i:1890956 original size:33 final size:32
Alignment explanation
Indices: 1890882--1890958 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
1890872 ATTATATTTA
1890882 AAATATTTTATTTA-AATAAATTTTAATATAT
1 AAATATTTTATTTATAATAAATTTTAATATAT
* *
1890913 AAATAATTTATATTATAA-AATTTTTAAATATAT
1 AAATATTTTAT-TTATAATAAATTTT-AATATAT
**
1890946 TTATATTTTATTT
1 AAATATTTTATTT
1890959 TATTTTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
31 10 0.26
32 11 0.29
33 17 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
AAATATTTTATTTATAATAAATTTTAATATAT
Found at i:1890959 original size:5 final size:5
Alignment explanation
Indices: 1890943--1890991 Score: 73
Period size: 5 Copynumber: 9.6 Consensus size: 5
1890933 TTTTTAAATA
1890943 TATTT ATATTT TATTT TATTT TATTT TATTT TATTT T-TTAT TATTT TAT
1 TATTT -TATTT TATTT TATTT TATTT TATTT TATTT TATT-T TATTT TAT
1890992 ATATATTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
4 2 0.05
5 32 0.78
6 7 0.17
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:1891231 original size:20 final size:20
Alignment explanation
Indices: 1891206--1891293 Score: 64
Period size: 20 Copynumber: 4.6 Consensus size: 20
1891196 TATATTATGA
1891206 TAAAATATATAAATATATAT
1 TAAAATATATAAATATATAT
* *
1891226 TAAAATATATATAAAAAATTAT
1 TAAAATATATA-AATATA-TAT
* *
1891248 TAATATAT-TAAA-ATTTA-
1 TAAAATATATAAATATATAT
1891265 TATAAATATA-AAATAT-T-T
1 TA-AAATATATAAATATATAT
1891283 T-AAATATATAA
1 TAAAATATATAA
1891294 TAAAATTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
16 7 0.13
17 4 0.07
18 12 0.22
19 3 0.05
20 13 0.24
21 6 0.11
22 10 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAATATATAAATATATAT
Found at i:1891237 original size:14 final size:14
Alignment explanation
Indices: 1891218--1891268 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
1891208 AAATATATAA
1891218 ATATATATTAAAAT
1 ATATATATTAAAAT
*
1891232 ATATATA-AAAAATT
1 ATATATATTAAAA-T
1891246 ATTAATATATTAAAAT
1 A-T-ATATATTAAAAT
*
1891262 TTATATA
1 ATATATA
1891269 AATATAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
13 4 0.13
14 14 0.47
15 2 0.07
16 6 0.20
17 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATATATTAAAAT
Found at i:1891253 original size:18 final size:18
Alignment explanation
Indices: 1891232--1891300 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
1891222 ATATTAAAAT
1891232 ATATATAAAAAATTATTA
1 ATATATAAAAAATTATTA
* *
1891250 ATATATTAAAATTTATATA
1 ATATATAAAAAATTAT-TA
*
1891269 A-ATATAAAATATT-TTAA
1 ATATATAAAAAATTATT-A
1891286 ATATATAATAAAATT
1 ATATATAA-AAAATT
1891301 TTTTATCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
16 1 0.02
17 3 0.07
18 29 0.71
19 8 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATATAAAAAATTATTA
Found at i:1891255 original size:30 final size:32
Alignment explanation
Indices: 1891207--1891270 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 32
1891197 ATATTATGAT
1891207 AAAATATATAAATATATATTAAAATATATATAA
1 AAAATATATAAA-ATATATTAAAATATATATAA
* *
1891240 AAAAT-TAT-TAATATATTAAAATTTATATAA
1 AAAATATATAAAATATATTAAAATATATATAA
1891270 A
1 A
1891271 TATAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 20 0.69
31 1 0.03
32 3 0.10
33 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (32 bp):
AAAATATATAAAATATATTAAAATATATATAA
Found at i:1891303 original size:20 final size:19
Alignment explanation
Indices: 1891232--1891303 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 19
1891222 ATATTAAAAT
* *
1891232 ATATATAAAAAATTATT-A
1 ATATATATAAAATTTTTAA
*
1891250 ATATAT-TAAAA--TTTAT
1 ATATATATAAAATTTTTAA
*
1891266 ATAAATATAAAATATTTTAA
1 ATATATATAAAAT-TTTTAA
1891286 ATATATAATAAAATTTTT
1 ATATAT-ATAAAATTTTT
1891304 TATCAATCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
15 2 0.05
16 5 0.12
17 9 0.21
18 6 0.14
20 13 0.31
21 7 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATATATAAAATTTTTAA
Found at i:1891354 original size:14 final size:14
Alignment explanation
Indices: 1891325--1891358 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1891315 ATATCACGTA
*
1891325 TTAATT-AAATTTT
1 TTAATTAAAAATTT
1891338 TTAATTAAAAATTT
1 TTAATTAAAAATTT
1891352 TTAATTA
1 TTAATTA
1891359 TATTATGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAATTAAAAATTT
Found at i:1892544 original size:2 final size:2
Alignment explanation
Indices: 1892539--1892583 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
1892529 AAAAATTTGA
* * *
1892539 AT AT AT TT AT AT CT -T AT AT AT AC 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 AT AT AT AT AT
1892580 AT AT
1 AT AT
1892584 GAAATTTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1893976 original size:13 final size:13
Alignment explanation
Indices: 1893960--1893984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1893950 TAATTTATAT
1893960 AATATTTTAAAAA
1 AATATTTTAAAAA
1893973 AATATTTTAAAA
1 AATATTTTAAAA
1893985 TTTTAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATTTTAAAAA
Found at i:1900688 original size:24 final size:24
Alignment explanation
Indices: 1900642--1900689 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1900632 AATTATTTTA
* ***
1900642 TTAAATAATATTTTTATTTAATTT
1 TTAAATAATATATTTAAAAAATTT
1900666 TTAAATAATATATTTAAAAAATTT
1 TTAAATAATATATTTAAAAAATTT
1900690 AATTCACTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTAAATAATATATTTAAAAAATTT
Found at i:1901407 original size:17 final size:17
Alignment explanation
Indices: 1901356--1901407 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
1901346 TTATTTGATA
*
1901356 AATTATTTTAAAAAGTT
1 AATTATTTTAAAAATTT
1901373 -ATTATTTTTAAAAATTT
1 AATTA-TTTTAAAAATTT
*
1901390 AATTATTTTAAAATTTT
1 AATTATTTTAAAAATTT
1901407 A
1 A
1901408 GAAAATTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 4 0.13
17 23 0.74
18 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
AATTATTTTAAAAATTT
Found at i:1901515 original size:17 final size:17
Alignment explanation
Indices: 1901493--1901549 Score: 80
Period size: 17 Copynumber: 3.3 Consensus size: 17
1901483 ATTATACGAT
1901493 ATAATTATAATATAAAA
1 ATAATTATAATATAAAA
*
1901510 ATAATTAATATTATAAAA
1 ATAATT-ATAATATAAAA
1901528 ATTAA-TATAATATAAAA
1 A-TAATTATAATATAAAA
1901545 ATAAT
1 ATAAT
1901550 ATGTATATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 3 0.09
17 17 0.49
18 12 0.34
19 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAATTATAATATAAAA
Found at i:1901556 original size:20 final size:19
Alignment explanation
Indices: 1901496--1901556 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
1901486 ATACGATATA
1901496 ATTATAATATAAAAATAAT
1 ATTATAATATAAAAATAAT
* *
1901515 -TAATATTATAAAAAT--T
1 ATTATAATATAAAAATAAT
*
1901531 AATATAATATAAAAATAAT
1 ATTATAATATAAAAATAAT
1901550 ATGTATA
1 AT-TATA
1901557 TAGTGTATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
16 1 0.03
17 12 0.38
18 13 0.41
19 2 0.06
20 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
ATTATAATATAAAAATAAT
Found at i:1901557 original size:17 final size:16
Alignment explanation
Indices: 1901470--1901558 Score: 61
Period size: 17 Copynumber: 5.1 Consensus size: 16
1901460 ATGATAACTT
*
1901470 TAAATATAATATTATTA
1 TAAAAATAATATTA-TA
* * *
1901487 TACGATATAATTATAATA
1 TA-AAAATAA-TATTATA
*
1901505 TAAAAATAATTAATATTA
1 TAAAAATAA-TATTA-TA
*
1901523 TAAAAATTAATATAATA
1 TAAAAA-TAATATTATA
1901540 TAAAAATAATATGTATA
1 TAAAAATAATAT-TATA
1901557 TA
1 TA
1901559 GTGTATATAC
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
16 6 0.10
17 24 0.41
18 21 0.36
19 7 0.12
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.39
Consensus pattern (16 bp):
TAAAAATAATATTATA
Found at i:1902847 original size:21 final size:21
Alignment explanation
Indices: 1902823--1902862 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1902813 ATATTTTATT
*
1902823 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TAAAAAATATA
1902844 TAAATATTAATAAAAAATA
1 TAAATATTAATAAAAAATA
1902863 ATTTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAATATTAATAAAAAATATA
Found at i:1902889 original size:20 final size:19
Alignment explanation
Indices: 1902825--1902890 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
1902815 ATTTTATTTA
1902825 AATTTAAT-TATAAAATATAT
1 AATTTAATATA-AAAATA-AT
1902845 AAATATTAATA-AAAAATAAT
1 -AAT-TTAATATAAAAATAAT
*
1902865 -TTTTAATAATAAAAATAAT
1 AATTTAAT-ATAAAAATAAT
1902884 AATTTAA
1 AATTTAA
1902891 ACTTAATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
17 5 0.13
18 2 0.05
19 9 0.24
20 7 0.18
21 9 0.24
22 6 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTTAATATAAAAATAAT
Found at i:1903461 original size:29 final size:30
Alignment explanation
Indices: 1903429--1903499 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 30
1903419 ATTTTTACAT
1903429 ATTTATATT-T-TTATATTATATTTTATGTA
1 ATTTATATTATATTATA-TATATTTTATGTA
*
1903458 ATTT-T-TTCATATTATATATATTTTATGTC
1 ATTTATATT-ATATTATATATATTTTATGTA
1903487 ATATTATAATTAT
1 AT-TTAT-ATTAT
1903500 TTTTTTCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 19 0.56
30 7 0.21
31 1 0.03
32 2 0.06
33 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (30 bp):
ATTTATATTATATTATATATATTTTATGTA
Found at i:1903490 original size:21 final size:20
Alignment explanation
Indices: 1903412--1903513 Score: 70
Period size: 20 Copynumber: 5.2 Consensus size: 20
1903402 TAATTCGTAA
* *
1903412 TATATAAATTTT-TACATAT
1 TATATATATTTTATTCATAT
*
1903431 T-TATAT-TTTTATATTATAT
1 TATATATATTTTAT-TCATAT
* *
1903450 TTTATGTAATTTT-TTCATAT
1 TATATAT-ATTTTATTCATAT
1903470 TATATATATTTTATGTCATAT
1 TATATATATTTTAT-TCATAT
* *
1903491 TATA-ATTATTTTTTTCATTT
1 TATATA-TATTTTATTCATAT
1903511 TAT
1 TAT
1903514 GTTTAATATT
Statistics
Matches: 66, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
17 4 0.06
18 5 0.08
19 11 0.17
20 24 0.36
21 18 0.27
22 4 0.06
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TATATATATTTTATTCATAT
Found at i:1903504 original size:41 final size:40
Alignment explanation
Indices: 1903418--1903513 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 40
1903408 GTAATATATA
* * *
1903418 AATTTTTACATATT-TATATTTTTATATTATATTTTATGT
1 AATTTTTTCATATTATATATTTTTATATCATATTTAATGT
*
1903457 AATTTTTTCATATTATATATATTTTATGTCATATTATAAT-T
1 AATTTTTTCATATTATATAT-TTTTATATCATATT-TAATGT
* *
1903498 ATTTTTTTCATTTTAT
1 AATTTTTTCATATTAT
1903514 GTTTAATATT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
39 13 0.27
40 5 0.10
41 27 0.56
42 3 0.06
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (40 bp):
AATTTTTTCATATTATATATTTTTATATCATATTTAATGT
Found at i:1911368 original size:16 final size:16
Alignment explanation
Indices: 1911347--1911404 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
1911337 ACTTAACTTT
1911347 AAATAACTTAAATCTA
1 AAATAACTTAAATCTA
* *
1911363 AAATAACTCAAA-CTCG
1 AAATAACTTAAATCT-A
* *
1911379 AAATAATTTAAATTCAA
1 AAATAACTTAAA-TCTA
1911396 AAATAACTT
1 AAATAACTT
1911405 GAAAATTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 2 0.06
16 21 0.66
17 8 0.25
18 1 0.03
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.29
Consensus pattern (16 bp):
AAATAACTTAAATCTA
Found at i:1911454 original size:16 final size:15
Alignment explanation
Indices: 1911425--1911464 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
1911415 AAACTTGAAA
*
1911425 TAACTCAATCCAAAT
1 TAACTCAATCCAAAC
1911440 TAACTCAACTCCAAAC
1 TAACTCAA-TCCAAAC
1911456 TAACTCAAT
1 TAACTCAAT
1911465 TCGTTCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (15 bp):
TAACTCAATCCAAAC
Found at i:1912263 original size:46 final size:49
Alignment explanation
Indices: 1912201--1912294 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 49
1912191 AATCTACCGA
*
1912201 ATAAATATTTATTTCAAT-A-TTT-TTATATTTTATATTT-TACATTAAG
1 ATAAATATTTATTTCAATCACTTTATTATATTATAT-TTTATACATTAAG
1912247 ATAAATATTT-TATTCAATCACTTTATTATATTATATTTTATACATTAA
1 ATAAATATTTAT-TTCAATCACTTTATTATATTATATTTTATACATTAA
1912295 TTAAAGATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
45 1 0.02
46 16 0.38
47 1 0.02
48 6 0.14
49 18 0.43
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.54
Consensus pattern (49 bp):
ATAAATATTTATTTCAATCACTTTATTATATTATATTTTATACATTAAG
Found at i:1916107 original size:2 final size:2
Alignment explanation
Indices: 1916100--1916135 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1916090 GTATTGTTGC
1916100 AT AT AT AT 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 AT AT AT AT
1916136 GTTAACATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1916539 original size:21 final size:20
Alignment explanation
Indices: 1916514--1916554 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
1916504 TATTTTTATT
1916514 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TAT-AAATATA
1916535 TAAATATTAATATAAATATA
1 TAAATATTAATATAAATATA
1916555 ATTTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATATTAATATAAATATA
Found at i:1920651 original size:24 final size:24
Alignment explanation
Indices: 1920624--1920669 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1920614 AAAATCGAAC
1920624 CAGTTAAATTCTGGTTGAATCTGT
1 CAGTTAAATTCTGGTTGAATCTGT
* * *
1920648 CAGTTTAGTTCTGGTTTAATCT
1 CAGTTAAATTCTGGTTGAATCT
1920670 TTTTTTCCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.46
Consensus pattern (24 bp):
CAGTTAAATTCTGGTTGAATCTGT
Found at i:1921586 original size:33 final size:34
Alignment explanation
Indices: 1921523--1921586 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
1921513 ATATTTTTTA
*
1921523 TTTTAATTTTAATTATATGAGAGATGAATATCGT
1 TTTTAATTTTAATTATATGAGAGATAAATATCGT
* *
1921557 TTTTAA-TTTAATTATATTATAGATAAATAT
1 TTTTAATTTTAATTATATGAGAGATAAATAT
1921587 TATTTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (34 bp):
TTTTAATTTTAATTATATGAGAGATAAATATCGT
Found at i:1922344 original size:23 final size:24
Alignment explanation
Indices: 1922296--1922344 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
1922286 TAAGAAATAT
* *
1922296 AAAAGTAAAAAAAATTAAGTTTAG
1 AAAAGTAAAAAAAAATAAGTTAAG
*
1922320 AAAA-TAAAAAAAAATATGTTAAG
1 AAAAGTAAAAAAAAATAAGTTAAG
1922343 AA
1 AA
1922345 GAAAAATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.22
Consensus pattern (24 bp):
AAAAGTAAAAAAAAATAAGTTAAG
Found at i:1922684 original size:27 final size:31
Alignment explanation
Indices: 1922623--1922692 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 31
1922613 CTTATTGATT
1922623 TAATTTAAAAAAATAATAACAAAAATTAAATA
1 TAATTT-AAAAAATAATAACAAAAATTAAATA
1922655 TAATTTAAAAAAT-ATAA-AAAAA-TAAA-A
1 TAATTTAAAAAATAATAACAAAAATTAAATA
*
1922682 TAAATTAAAAA
1 TAATTTAAAAA
1922693 TAAAATATCG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 11 0.30
28 4 0.11
29 5 0.14
30 4 0.11
31 7 0.19
32 6 0.16
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.27
Consensus pattern (31 bp):
TAATTTAAAAAATAATAACAAAAATTAAATA
Found at i:1922686 original size:33 final size:32
Alignment explanation
Indices: 1922623--1922686 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
1922613 CTTATTGATT
* *
1922623 TAATTTAAAAAAATAATAACAAAAATTAAATA
1 TAATTTAAAAAAATAATAAAAAAAAATAAATA
1922655 TAATTTAAAAAATATAA-AAAAATAAAATAAAT
1 TAATTTAAAAAA-ATAATAAAAA-AAAATAAAT
1922687 TAAAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (32 bp):
TAATTTAAAAAAATAATAAAAAAAAATAAATA
Found at i:1925008 original size:35 final size:35
Alignment explanation
Indices: 1924967--1925095 Score: 129
Period size: 35 Copynumber: 3.6 Consensus size: 35
1924957 AAATGGATAA
*
1924967 AATTTTTAATTATTTAATATAAATATAATTTTAAT
1 AATTTTTAATTATTTAATATAAATATAATTTTATT
* *
1925002 AATTTTTAATTATTATTCAACATAAACATAATTTTATTT
1 AATTTTTAATTA-T-TT-AATATAAATATAATTTTA-TT
* *
1925041 ACA-TTTT-ATAATTTAATTTAAATATAA-TTTATT
1 A-ATTTTTAATTATTTAATATAAATATAATTTTATT
*
1925074 AATTTATTAATTATTTATTATA
1 AATTT-TTAATTATTTAATATA
1925096 TAGATTTATT
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
32 1 0.01
33 5 0.07
34 6 0.08
35 32 0.42
36 3 0.04
37 3 0.04
38 19 0.25
39 6 0.08
40 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (35 bp):
AATTTTTAATTATTTAATATAAATATAATTTTATT
Found at i:1925134 original size:13 final size:13
Alignment explanation
Indices: 1925076--1925135 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 13
1925066 AATTTATTAA
*
1925076 TTTATTAATTATT
1 TTTAATAATTATT
1925089 TATTATATAGATT-TAT
1 T-TTA-ATA-ATTAT-T
*
1925105 TTTAATTAAATATT
1 TTTAA-TAATTATT
1925119 TTTAATAATTATT
1 TTTAATAATTATT
1925132 TTTA
1 TTTA
1925136 TTTTAATCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
13 12 0.32
14 12 0.32
15 9 0.24
16 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TTTAATAATTATT
Found at i:1925218 original size:21 final size:21
Alignment explanation
Indices: 1925194--1925245 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
1925184 TAAATTAATT
*
1925194 TTAATTTTATTATTATAATAC
1 TTAATTTTATTATTATAATAA
** *
1925215 TTAACCTCATTATTATAATAA
1 TTAATTTTATTATTATAATAA
1925236 TTAATTTTAT
1 TTAATTTTAT
1925246 CGATATTATT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (21 bp):
TTAATTTTATTATTATAATAA
Done.