Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004729.1 Hibiscus syriacus cultivar Beakdansim tig00010669_pilon, whole genome shotgun sequence
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: 220450
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:146 original size:23 final size:24
Alignment explanation
Indices: 116--176 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
106 CAAAACATAT
116 TCCAGGTCAAGTAT-CAGTCAAAA
1 TCCAGGTCAAGTATCCAGTCAAAA
* *
139 TCCAGGTCAAGTATCCGGTCAGAA
1 TCCAGGTCAAGTATCCAGTCAAAA
*
163 TCCAGGTCATGTAT
1 TCCAGGTCAAGTAT
177 TATAACAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 14 0.41
24 20 0.59
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (24 bp):
TCCAGGTCAAGTATCCAGTCAAAA
Found at i:1818 original size:18 final size:18
Alignment explanation
Indices: 1795--1857 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
1785 CAATTCTTGT
1795 TATCTTACAACATAAAGG
1 TATCTTACAACATAAAGG
* *** *
1813 TATCTTACAA-TTCTTGT
1 TATCTTACAACATAAAGG
*
1830 TATCTTACAACATAAGGG
1 TATCTTACAACATAAAGG
1848 TATCTTACAA
1 TATCTTACAA
1858 TTCTTGTTAT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
17 12 0.35
18 22 0.65
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (18 bp):
TATCTTACAACATAAAGG
Found at i:1830 original size:35 final size:35
Alignment explanation
Indices: 1784--1885 Score: 195
Period size: 35 Copynumber: 2.9 Consensus size: 35
1774 ACTTCGAGGG
*
1784 ACAATTCTTGTTATCTTACAACATAAAGGTATCTT
1 ACAATTCTTGTTATCTTACAACATAAGGGTATCTT
1819 ACAATTCTTGTTATCTTACAACATAAGGGTATCTT
1 ACAATTCTTGTTATCTTACAACATAAGGGTATCTT
1854 ACAATTCTTGTTATCTTACAACATAAGGGTAT
1 ACAATTCTTGTTATCTTACAACATAAGGGTAT
1886 TTTCAAAGTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (35 bp):
ACAATTCTTGTTATCTTACAACATAAGGGTATCTT
Found at i:1835 original size:17 final size:17
Alignment explanation
Indices: 1784--1874 Score: 74
Period size: 17 Copynumber: 5.2 Consensus size: 17
1774 ACTTCGAGGG
1784 ACAATTCTTGTTATCTT
1 ACAATTCTTGTTATCTT
* *** *
1801 ACAACATAAAGGTATCTT
1 ACAA-TTCTTGTTATCTT
1819 ACAATTCTTGTTATCTT
1 ACAATTCTTGTTATCTT
* *** *
1836 ACAACATAAGGGTATCTT
1 ACAA-TTCTTGTTATCTT
1854 ACAATTCTTGTTATCTT
1 ACAATTCTTGTTATCTT
1871 ACAA
1 ACAA
1875 CATAAGGGTA
Statistics
Matches: 52, Mismatches: 20, Indels: 4
0.68 0.26 0.05
Matches are distributed among these distances:
17 28 0.54
18 24 0.46
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.41
Consensus pattern (17 bp):
ACAATTCTTGTTATCTT
Found at i:3913 original size:27 final size:27
Alignment explanation
Indices: 3883--3969 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 27
3873 GTGCATTAAG
3883 GCATGAAAGGATGTCATAACTAAAAAT
1 GCATGAAAGGATGTCATAACTAAAAAT
* *
3910 GCATGAACA-TATG-CAT---T---AAG
1 GCATGAA-AGGATGTCATAACTAAAAAT
3930 GCATGAAAGGATGTCATAACTAAAAAT
1 GCATGAAAGGATGTCATAACTAAAAAT
*
3957 GCATGAACGGATG
1 GCATGAAAGGATG
3970 CATTAAGGCA
Statistics
Matches: 46, Mismatches: 5, Indels: 18
0.67 0.07 0.26
Matches are distributed among these distances:
19 1 0.02
20 12 0.26
21 3 0.07
23 1 0.02
24 1 0.02
26 3 0.07
27 24 0.52
28 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.22
Consensus pattern (27 bp):
GCATGAAAGGATGTCATAACTAAAAAT
Found at i:3925 original size:47 final size:47
Alignment explanation
Indices: 3849--4218 Score: 476
Period size: 47 Copynumber: 7.9 Consensus size: 47
3839 TAAACCGAAT
* * *
3849 TCATAACTAAAAAAGCATGAACGGGTGCATTAAGGCATGAAAGGATG
1 TCATAACTAAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATG
*
3896 TCATAACTAAAAATGCATGAACATATGCATTAAGGCATGAAAGGATG
1 TCATAACTAAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATG
* *
3943 TCATAACTAAAAATGCATGAACGGATGCATTAAGGCATAAAAGGATG
1 TCATAACTAAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATG
* *
3990 TCATAACTAAAAATGCATGAACGGATGCATTAAGGCATAAAAGGATG
1 TCATAACTAAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATG
** *
4037 TCATAACTAAAAATGCATGAA-AGGATGCATTAAGGTTTGAAAAGATG
1 TCATAACTAAAAATGCATGAACA-GATGCATTAAGGCATGAAAGGATG
* * *
4084 CCATAAATAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
1 TCATAACTAAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATG
* * * * ** * *
4131 ACATAACT-AAAATGCATGAAAAGATACTTTAAAACATGAATGTATG
1 TCATAACTAAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATG
* * *
4177 CCATCACTAAAAATGCATGAAC-GAATGTATTAAGGCATGAAA
1 TCATAACTAAAAATGCATGAACAG-ATGCATTAAGGCATGAAA
4219 AGAGGCCATA
Statistics
Matches: 282, Mismatches: 37, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
46 37 0.13
47 245 0.87
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.22
Consensus pattern (47 bp):
TCATAACTAAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATG
Found at i:3988 original size:20 final size:20
Alignment explanation
Indices: 3965--4036 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 20
3955 ATGCATGAAC
3965 GGATGCATTAAGGCATAAAA
1 GGATGCATTAAGGCATAAAA
* * *
3985 GGATGTCATAACTAAAAATGCATGAAC
1 GGATG-CAT---T---AAGGCATAAAA
4012 GGATGCATTAAGGCATAAAA
1 GGATGCATTAAGGCATAAAA
4032 GGATG
1 GGATG
4037 TCATAACTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
20 18 0.46
21 3 0.08
23 1 0.03
24 1 0.03
26 3 0.08
27 13 0.33
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (20 bp):
GGATGCATTAAGGCATAAAA
Found at i:5997 original size:20 final size:20
Alignment explanation
Indices: 5972--6011 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
5962 TTTGTTTTTT
*
5972 GTTCATCATATGAAATATGC
1 GTTCATCATATCAAATATGC
5992 GTTCATCATATCAAATATGC
1 GTTCATCATATCAAATATGC
6012 ACCTTAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (20 bp):
GTTCATCATATCAAATATGC
Found at i:6947 original size:60 final size:59
Alignment explanation
Indices: 6849--6962 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 59
6839 AGTCATGTGA
* *
6849 CCATTTTGTAACTTTAATAGTCTGAGGACTATAAAAAGCAA-CATCCTATAATCGAGTGG
1 CCATTTTATAACTTTAATAGTCTGAAGACTATAAAAAGCAATCA-CCTATAATCGAGTGG
* *
6908 CCATTTTATAACTTTTAATAGT-TGGAAGACTCA-ACAAAGCAATGACCTATAATCG
1 CCATTTTATAAC-TTTAATAGTCT-GAAGACT-ATAAAAAGCAATCACCTATAATCG
6963 GGGGACTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
59 12 0.26
60 33 0.70
61 2 0.04
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.31
Consensus pattern (59 bp):
CCATTTTATAACTTTAATAGTCTGAAGACTATAAAAAGCAATCACCTATAATCGAGTGG
Found at i:7148 original size:2 final size:2
Alignment explanation
Indices: 7141--7180 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7131 ATTGATTTTA
7141 AT AT 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 AT AT
7181 TTAAAGTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9067 original size:206 final size:201
Alignment explanation
Indices: 8689--9101 Score: 564
Period size: 206 Copynumber: 2.0 Consensus size: 201
8679 ATAAAGTTTC
8689 ACCCGACCCGAATATATGAATTAGAAACCCGACCCGAAATAATAAAAAATATTTTTATTCAATAA
1 ACCCGACCCGAATATATGAATTAGAAACCCGACCCGAAATAATAAAAAATATTTTTATTCAATAA
* * *
8754 AAACACTGACTTAATTGAAAAAATATATAGAGAGAGTGGTATTATTGCAATTATTCCTAAATATA
66 AAACACTGACTTAATTGAAAAAAAATATAGAGAGAGGGGTATTATTGCAATTACTCCTAAATATA
* * *
8819 AAAGGTAAAATTATATTTTTTTGGGTCGAGTCGGGTCGGGTATTTTTCACCCTAAACCCGAAC-C
131 AAAGGTAAAATTATATATATTT--GTCGA---GGGTCGGGTATTTCTCACCCTAAACCCGAACTC
8883 TGACCCGACCCG
191 -GACCCGACCCG
8895 ACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGAAATAATAATAAAATTATTTTTAT
1 ACCCGACCCGAATATATGAATTAG-AA----ACCCGACCCGAAATAATAA-AAAA-TATTTTTAT
* * * * *
8960 TCAATAAAAACAGTGACTTAATTGAAAAAAAATTATATATAGAGGGGTATTATTGTAATTGCTCC
59 TCAATAAAAACACTGACTTAATTGAAAAAAAA-TATAGAGAGAGGGGTATTATTGCAATTACTCC
*
9025 TAAATATATAAGGTAAAATTATATATATTT-TC-A-GGTCGGGTATTTCTCACCCTAAACCCGAA
123 TAAATATAAAAGGTAAAATTATATATATTTGTCGAGGGTCGGGTATTTCTCACCCTAAACCCGAA
9087 CTCGACCCGACCCG
188 CTCGACCCGACCCG
9101 A
1 A
9102 ATATCACACT
Statistics
Matches: 186, Mismatches: 12, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
206 65 0.35
207 3 0.02
210 1 0.01
211 21 0.11
212 4 0.02
213 39 0.21
214 53 0.28
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (201 bp):
ACCCGACCCGAATATATGAATTAGAAACCCGACCCGAAATAATAAAAAATATTTTTATTCAATAA
AAACACTGACTTAATTGAAAAAAAATATAGAGAGAGGGGTATTATTGCAATTACTCCTAAATATA
AAAGGTAAAATTATATATATTTGTCGAGGGTCGGGTATTTCTCACCCTAAACCCGAACTCGACCC
GACCCG
Found at i:23552 original size:12 final size:12
Alignment explanation
Indices: 23518--23545 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23508 TTAAAAAATT
23518 AAATATTTAAAG
1 AAATATTTAAAG
23530 AAATATTTAAAG
1 AAATATTTAAAG
23542 AAAT
1 AAAT
23546 TATTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (12 bp):
AAATATTTAAAG
Found at i:23726 original size:8 final size:9
Alignment explanation
Indices: 23662--23727 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
23652 AGAAATCAAT
23662 AAAAATA-A
1 AAAAATATA
*
23670 AAAAATATT
1 AAAAATATA
23679 AAAAATATA
1 AAAAATATA
* *
23688 AAAACTCTA
1 AAAAATATA
* *
23697 AAGAATGGACA
1 AAAAAT--ATA
23708 AAAAATATA
1 AAAAATATA
23717 AAAAAT-TA
1 AAAAATATA
23725 AAA
1 AAA
23728 TTAAAATATT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
8 12 0.27
9 27 0.60
11 6 0.13
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.20
Consensus pattern (9 bp):
AAAAATATA
Found at i:23765 original size:21 final size:20
Alignment explanation
Indices: 23727--23765 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23717 AAAAATTAAA
*
23727 ATTAAAATATTCACAAAAGT
1 ATTAAAATATTCAAAAAAGT
*
23747 ATTAAACATATTTAAAAAA
1 ATTAAA-ATATTCAAAAAA
23766 TATAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (20 bp):
ATTAAAATATTCAAAAAAGT
Found at i:24682 original size:60 final size:60
Alignment explanation
Indices: 24612--24724 Score: 210
Period size: 60 Copynumber: 1.9 Consensus size: 60
24602 AGAGCAAGCC
24612 AGATGTACAAGGCTTGATAGT-TGATTACAATTATTCATAAATATATAAAGTAACGAAATT
1 AGATGTACAAGGCTTGATAGTGT-ATTACAATTATTCATAAATATATAAAGTAACGAAATT
24672 AGATGTACAAGGCTTGATAGTGTATTACAATTATTCATAAATATATAAAGTAA
1 AGATGTACAAGGCTTGATAGTGTATTACAATTATTCATAAATATATAAAGTAA
24725 TAATTTTTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
60 51 0.98
61 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (60 bp):
AGATGTACAAGGCTTGATAGTGTATTACAATTATTCATAAATATATAAAGTAACGAAATT
Found at i:30075 original size:31 final size:30
Alignment explanation
Indices: 30035--30124 Score: 105
Period size: 31 Copynumber: 3.0 Consensus size: 30
30025 TAGATTTAGA
*
30035 GTTCAAATTAATATTTTATCTAAAGTTCAG
1 GTTCAAATTAATATTTTATCTAAAATTCAG
*
30065 GTGTCAAATTAATATTTATTATCTAAAATTTAAG
1 GT-TCAAATTAATA-TT-TTATCTAAAA-TTCAG
30099 GTT-AAATTAATA--TTATCTAAAATTCA
1 GTTCAAATTAATATTTTATCTAAAATTCA
30125 CGGATCAAGT
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
27 3 0.06
28 10 0.19
30 2 0.04
31 11 0.21
32 11 0.21
33 10 0.19
34 6 0.11
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (30 bp):
GTTCAAATTAATATTTTATCTAAAATTCAG
Found at i:30111 original size:32 final size:32
Alignment explanation
Indices: 30037--30112 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
30027 GATTTAGAGT
*
30037 TCAAATTAATA-TTTTATCTAAAGTTCAGGTG
1 TCAAATTAATATTTTTATCTAAAGTTAAGGTG
*
30068 TCAAATTAATATTTATTATCTAAAATTTAAGGT-
1 TCAAATTAATATTT-TTATCT-AAAGTTAAGGTG
30101 T-AAATTAATATT
1 TCAAATTAATATT
30113 ATCTAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
31 11 0.28
32 13 0.32
33 7 0.17
34 9 0.22
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.45
Consensus pattern (32 bp):
TCAAATTAATATTTTTATCTAAAGTTAAGGTG
Found at i:30685 original size:18 final size:19
Alignment explanation
Indices: 30643--30687 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
30633 TAATAAATAA
*
30643 TAAAAATATTTAGAAATTGT
1 TAAAAATATTTA-AAATTAT
30663 T--AAATATTT-AAATTAT
1 TAAAAATATTTAAAATTAT
30679 TAAAAATAT
1 TAAAAATAT
30688 ATAATTGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 7 0.32
18 14 0.64
20 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (19 bp):
TAAAAATATTTAAAATTAT
Found at i:33736 original size:32 final size:32
Alignment explanation
Indices: 33695--33757 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
33685 GTCCCGACCC
33695 GGATGTTACGGGTACCCGGCAATCGGGTACCT
1 GGATGTTACGGGTACCCGGCAATCGGGTACCT
* * *
33727 GGATTTTACGGGTATCCGGTAATCGGGTACC
1 GGATGTTACGGGTACCCGGCAATCGGGTACC
33758 CGATATCCGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.19, C:0.22, G:0.33, T:0.25
Consensus pattern (32 bp):
GGATGTTACGGGTACCCGGCAATCGGGTACCT
Found at i:34738 original size:3 final size:3
Alignment explanation
Indices: 34730--34779 Score: 73
Period size: 3 Copynumber: 15.7 Consensus size: 3
34720 CGGGTCTTTT
34730 TTA TTA TTA TTA TTTA TATA TTTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
34778 TT
1 TT
34780 TAATTTACAT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 36 0.82
4 7 0.16
5 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:35121 original size:2 final size:2
Alignment explanation
Indices: 35114--35139 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35104 ACCAATCAAA
35114 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
35140 CATTTACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40546 original size:14 final size:14
Alignment explanation
Indices: 40527--40567 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
40517 GAGAAAAGAA
40527 AAACAAAGAGAAAG
1 AAACAAAGAGAAAG
*
40541 AAACAAAGTGAAA-
1 AAACAAAGAGAAAG
40554 AAA-AGAAGAGAAAG
1 AAACA-AAGAGAAAG
40568 TGGACAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 12 0.52
ACGTcount: A:0.71, C:0.05, G:0.22, T:0.02
Consensus pattern (14 bp):
AAACAAAGAGAAAG
Found at i:41742 original size:4 final size:4
Alignment explanation
Indices: 41735--41842 Score: 191
Period size: 4 Copynumber: 27.0 Consensus size: 4
41725 ATACATCAAC
41735 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
41783 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACTAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-AT ACAT ACAT ACAT
*
41832 -GAT ACAT ACAT
1 ACAT ACAT ACAT
41843 CAAACATTTA
Statistics
Matches: 100, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
3 2 0.02
4 94 0.94
5 4 0.04
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:42513 original size:105 final size:102
Alignment explanation
Indices: 42372--42610 Score: 297
Period size: 105 Copynumber: 2.3 Consensus size: 102
42362 TGAGATTTTT
* * *
42372 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
*
42436 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
42477 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
42542 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
42579 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
42611 TCTAAAAACA
Statistics
Matches: 119, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 4 0.03
105 78 0.66
106 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:42601 original size:36 final size:34
Alignment explanation
Indices: 42556--42674 Score: 114
Period size: 36 Copynumber: 3.4 Consensus size: 34
42546 ACAAAGTTGA
*
42556 TCTCACTTGAGATCGTTTTCTCAAAAACAAACTTTG
1 TCTCACTTGAGA-C-TTTTCTCAAAAACAAATTTTG
* *
42592 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGAC-TTTTCTC-AAAAACAAATTTTG
* * * *
42628 TCTCATTTGAGACTATATCT-TAAAGCAAATTTTG
1 TCTCACTTGAGACT-TTTCTCAAAAACAAATTTTG
*
42662 TCTCGCTTGAGAC
1 TCTCACTTGAGAC
42675 ATCATTTTCT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 23 0.33
35 7 0.10
36 39 0.57
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (34 bp):
TCTCACTTGAGACTTTTCTCAAAAACAAATTTTG
Found at i:42662 original size:34 final size:36
Alignment explanation
Indices: 42574--42675 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
42564 GAGATCGTTT
* *
42574 TCTC-AAAAACAAACTTTGTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
** *
42609 TCTCTAAAAACAAATTTTGTCTCATTTGAGACTATA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
*
42645 TCT-T-AAAGCAAATTTTGTCTCGCTTGAGACA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
42676 TCATTTTCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 23 0.40
35 5 0.09
36 29 0.51
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
Found at i:42958 original size:28 final size:27
Alignment explanation
Indices: 42921--43017 Score: 97
Period size: 29 Copynumber: 3.4 Consensus size: 27
42911 CTTGAGACAG
*
42921 TTTCTCTTGAGATAAATCTTTGAGTCTA
1 TTTCTTTTGA-ATAAATCTTTGAGTCTA
* *
42949 TTCCTTTTGAATAAAAATCTTTGAGT-TG
1 TTTCTTTTGAAT--AAATCTTTGAGTCTA
*
42977 TTTCTTTTGAAACAAATATCTTTGAGTCTA
1 TTTCTTTTG-AA-TAA-ATCTTTGAGTCTA
43007 TTTCTTTTGAA
1 TTTCTTTTGAA
43018 ACAAAGTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.04
28 19 0.33
29 26 0.46
30 10 0.18
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (27 bp):
TTTCTTTTGAATAAATCTTTGAGTCTA
Found at i:43013 original size:30 final size:29
Alignment explanation
Indices: 42934--43022 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
42924 CTCTTGAGAT
*
42934 AAATCTTTGAGTCTATTCCTTTTGAATA-A
1 AAATCTTTGAGTCTATTTCTTTTGAA-ACA
*
42963 AAATCTTTGAGT-TGTTTCTTTTGAAACA
1 AAATCTTTGAGTCTATTTCTTTTGAAACA
42991 AATATCTTTGAGTCTATTTCTTTTGAAACA
1 AA-ATCTTTGAGTCTATTTCTTTTGAAACA
43021 AA
1 AA
43023 GTTTTGTCTC
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
27 1 0.02
28 14 0.26
29 22 0.41
30 17 0.31
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (29 bp):
AAATCTTTGAGTCTATTTCTTTTGAAACA
Found at i:43199 original size:68 final size:68
Alignment explanation
Indices: 43123--43292 Score: 272
Period size: 67 Copynumber: 2.5 Consensus size: 68
43113 TTTGAGATTG
* *
43123 TTTCTTTTGAAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAGCAAAATTTTGTCTCTCTTAAGA
1 TTTCTTTTGAAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
43188 TAA
66 TAA
43191 TTTCTTTTG-AAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
1 TTTCTTTTGAAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
*
43255 TAT
66 TAA
* * *
43258 TTTCTTTT-AAAAAAAAAATCTTTGAATCAGTTTCT
1 TTTCTTTTGAAAACAAAAATCTTTGAGTCTGTTTCT
43293 CTTAAAATGA
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
67 86 0.91
68 9 0.09
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (68 bp):
TTTCTTTTGAAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
TAA
Found at i:43657 original size:66 final size:66
Alignment explanation
Indices: 43519--43686 Score: 157
Period size: 66 Copynumber: 2.6 Consensus size: 66
43509 TGTAATCCAT
* * *
43519 CTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGGCAATTTCTTTTGAGAAAAAAA
1 CTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTTAAAGACAACTTCTTTTGAGAAAAAAA
*
43584 T
66 C
* * * ** *
43585 CATTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTC-TCGAGACAACTTCTTTTGA-AAATACC
1 CTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTTAAAGACAACTTCTTTTGAGAAA-A-A
*
43648 CAC
64 AAC
*
43651 CTTTGAGATC-GTTT-CTATTAAAAC-AAATTTTATCTC
1 CTTTGAG-TCTGTTTCCT-TTGAAACAAAATTTTATCTC
43687 GCATGAGACA
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
64 3 0.04
65 29 0.35
66 50 0.60
67 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (66 bp):
CTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTTAAAGACAACTTCTTTTGAGAAAAAAA
C
Found at i:44341 original size:28 final size:28
Alignment explanation
Indices: 44266--44362 Score: 106
Period size: 28 Copynumber: 3.3 Consensus size: 28
44256 GAGACAGTTG
44266 CTTTTGAAACACATTATCTTTGAG-CTTGTTT
1 CTTTTGAAACA-A--ATCTTTGAGTC-TGTTT
*
44297 TTTCTTGAAACAAATCTTTGAGTCTGTTT
1 CTT-TTGAAACAAATCTTTGAGTCTGTTT
* *
44326 CTTTTGAAACAAATCTTTGAATCGGTTT
1 CTTTTGAAACAAATCTTTGAGTCTGTTT
*
44354 CTCTTGAAA
1 CTTTTGAAA
44363 TCATAACTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
28 31 0.53
29 16 0.27
30 1 0.02
31 3 0.05
32 8 0.14
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGTCTGTTT
Found at i:44444 original size:40 final size:41
Alignment explanation
Indices: 44382--44628 Score: 146
Period size: 40 Copynumber: 5.7 Consensus size: 41
44372 CTAAAGATGG
* * *
44382 CCAGCCGTCCTCGTCACATAGGAACCGTGTCATTCCT-CAA
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCTACAA
* * *
44422 CCAGACC-TCCTCATCACGTAGGAGCCGGGTCA-CCCTTAGATAA
1 CCAG-CCGTCCTCATCACGTAGGAACCGTGTCATCCC-T--ACAA
* * *
44465 CCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCACTCCTAAAGA
1 CCAGCCGTCCTCATCACGTAGGAACC--G-TGTCA--TC-CCTACA-A
*
44513 TGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCT-CGA
1 ---CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCTACAA
* * *
44556 CCAGACC-TCCTCATCACGTAGGAGCTGTGTCA-CCCTTAGATAA
1 CCAG-CCGTCCTCATCACGTAGGAACCGTGTCATCCC-T--ACAA
** *
44599 CCAGTAGTCCTCATCGCGTAGGAACCGTGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGT
44629 TATCACCTTG
Statistics
Matches: 161, Mismatches: 23, Indels: 43
0.71 0.10 0.19
Matches are distributed among these distances:
39 5 0.03
40 54 0.34
41 4 0.02
42 2 0.01
43 50 0.31
45 4 0.02
46 4 0.02
47 2 0.01
48 5 0.03
49 3 0.02
50 2 0.01
51 26 0.16
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.21
Consensus pattern (41 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCTACAA
Found at i:44476 original size:43 final size:43
Alignment explanation
Indices: 44420--44625 Score: 163
Period size: 43 Copynumber: 4.7 Consensus size: 43
44410 GTCATTCCTC
*
44420 AACCAGACC-TCCTCATCACGTAGGAGCCGGGTCACCCTTAGAT
1 AACCAG-CCGTCCTCATCACGTAGGAACCGGGTCACCCTTAGAT
*
44463 AACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCACTCCTAAAGAT
1 AACCAGCCGTCCTCATCACGTAGGAACCG-G--GTCACC-CT--T--AGAT
** * *
44514 GGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCC-TCG--
1 AACCAGCCGTCCTCATCACGTAGGAACCGGGTCA-CCCTTAGAT
* * *
44555 -ACCAGACC-TCCTCATCACGTAGGAGCTGTGTCACCCTTAGAT
1 AACCAG-CCGTCCTCATCACGTAGGAACCGGGTCACCCTTAGAT
** *
44597 AACCAGTAGTCCTCATCGCGTAGGAACCG
1 AACCAGCCGTCCTCATCACGTAGGAACCG
44626 TGTTATCACC
Statistics
Matches: 131, Mismatches: 16, Indels: 32
0.73 0.09 0.18
Matches are distributed among these distances:
39 3 0.02
40 29 0.22
41 2 0.02
42 2 0.02
43 48 0.37
44 1 0.01
45 1 0.01
46 5 0.04
47 2 0.02
48 4 0.03
49 3 0.02
51 31 0.24
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.20
Consensus pattern (43 bp):
AACCAGCCGTCCTCATCACGTAGGAACCGGGTCACCCTTAGAT
Found at i:44609 original size:134 final size:134
Alignment explanation
Indices: 44368--44635 Score: 446
Period size: 134 Copynumber: 2.0 Consensus size: 134
44358 TGAAATCATA
* *
44368 ACTCCTAAAGATGGCCAGCCGTCCTCGTCACATAGGAACCGTGTCATTCCTCAACCAGACCTCCT
1 ACTCCTAAAGATGGCCAGCCGTCCTCATCACATAGGAACCGTGTCATCCCTCAACCAGACCTCCT
*
44433 CATCACGTAGGAGCCGGGTCACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTAT
66 CATCACGTAGGAGCCGGGTCACCCTTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTAT
44498 CACC
131 CACC
* *
44502 ACTCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCTCGACCAGACCTCCT
1 ACTCCTAAAGATGGCCAGCCGTCCTCATCACATAGGAACCGTGTCATCCCTCAACCAGACCTCCT
* * * * *
44567 CATCACGTAGGAGCTGTGTCACCCTTAGATAACCAGTAGTCCTCATCGCGTAGGAACCGTGTTAT
66 CATCACGTAGGAGCCGGGTCACCCTTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTAT
44632 CACC
131 CACC
44636 TTGAGATGGC
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
134 124 1.00
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.21
Consensus pattern (134 bp):
ACTCCTAAAGATGGCCAGCCGTCCTCATCACATAGGAACCGTGTCATCCCTCAACCAGACCTCCT
CATCACGTAGGAGCCGGGTCACCCTTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTAT
CACC
Found at i:44725 original size:130 final size:133
Alignment explanation
Indices: 44372--44725 Score: 403
Period size: 134 Copynumber: 2.7 Consensus size: 133
44362 ATCATAACTC
* * * * * *
44372 CTAAAGATGGCCAGCCGTCCTCGTCACATAGGAACCGTGTCATTCCTCAACCAGACCTCCTCATC
1 CTAAAGATGGCCAGACGTCCTCATCACGTAGGAACAGTGTCATCCCTCGACCAGACCTCCTCATC
* * *
44437 ACGTAGGAGCCGGGTCACCCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACC
66 ACGTAGGAACCGTGTCACCCTTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTATCACC
44502 ACT
131 ACT
* *
44505 CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCTCGACCAGACCTCCTCAT
1 -CTAAAGATGGCCAGACGTCCTCATCACGTAGGAACAGTGTCATCCCTCGACCAGACCTCCTCAT
* * * * *
44570 CACGTAGGAGCTGTGTCACCCTTAGATAACCAGTAGTCCTCATCGCGTAGGAACCGTGTTATCA-
65 CACGTAGGAACCGTGTCACCCTTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTATCAC
44634 C-CT
130 CACT
* * * * ** ** *
44637 -T-GAGATGGCCAAGAAC-TCTTCATCATGTATGAGTAGTGTCATCCCTCGACCAGATTTCTTCA
1 CTAAAGATGGCC-AG-ACGTCCTCATCACGTAGGAACAGTGTCATCCCTCGACCAGACCTCCTCA
* *
44699 TCACGTAGGAATCGTGTCACCTTTAGA
64 TCACGTAGGAACCGTGTCACCCTTAGA
44726 CGACCCGAAC
Statistics
Matches: 193, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
129 8 0.04
130 63 0.33
131 1 0.01
132 2 0.01
133 1 0.01
134 118 0.61
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (133 bp):
CTAAAGATGGCCAGACGTCCTCATCACGTAGGAACAGTGTCATCCCTCGACCAGACCTCCTCATC
ACGTAGGAACCGTGTCACCCTTAGATAACCAGCAGTCCTCATCACGTAGGAACCGAGTTATCACC
ACT
Found at i:44920 original size:3 final size:3
Alignment explanation
Indices: 44912--44967 Score: 85
Period size: 3 Copynumber: 17.7 Consensus size: 3
44902 CGGGTCTTTT
44912 TTA TTA TTA TTA TTTA TATA TTTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
44960 TTA TTA TT
1 TTA TTA TT
44968 TAATTTACAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
3 42 0.84
4 7 0.14
5 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:46433 original size:30 final size:29
Alignment explanation
Indices: 46399--46493 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 29
46389 CTATTTTTAT
46399 TATTTTAGTCCTGTAA-ATTCATGTTTATGC
1 TATTTTAGTCCTGTAACATTC-TGTTT-TGC
* * * *
46429 TATTTCAGTCCTTTAACTTTCTGTTTTGT
1 TATTTTAGTCCTGTAACATTCTGTTTTGC
** *
46458 TATTTTAG-CCATGTAAGTTTCTGTTTTATC
1 TATTTTAGTCC-TGTAACATTCTGTTTT-GC
46488 TATTTT
1 TATTTT
46494 GATCATTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
28 2 0.04
29 23 0.43
30 25 0.47
31 3 0.06
ACGTcount: A:0.19, C:0.14, G:0.12, T:0.56
Consensus pattern (29 bp):
TATTTTAGTCCTGTAACATTCTGTTTTGC
Found at i:46507 original size:29 final size:28
Alignment explanation
Indices: 46393--46523 Score: 67
Period size: 29 Copynumber: 4.5 Consensus size: 28
46383 AAATGTCTAT
46393 TTTTATTATTTTAGTCC-TGTAAA-TTCATG
1 TTTTATTATTTTAG-CCAT-TAAATTTC-TG
* * *
46422 -TTTATGCTATTTCAGTCCTTTAACTTTCTG
1 TTTTAT--TATTTTAG-CCATTAAATTTCTG
* *
46452 TTTTGTTATTTTAGCCATGTAAGTTTCTG
1 TTTTATTATTTTAGCCAT-TAAATTTCTG
*
46481 TTTTATCTATTTT-GATCATTAAATTTCCT-
1 TTTTAT-TATTTTAG-CCATTAAATTT-CTG
46510 TATTTA-TATTTTAG
1 T-TTTATTATTTTAG
46524 TCCTATTATT
Statistics
Matches: 82, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
28 14 0.17
29 30 0.37
30 30 0.37
31 8 0.10
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.56
Consensus pattern (28 bp):
TTTTATTATTTTAGCCATTAAATTTCTG
Found at i:51926 original size:34 final size:34
Alignment explanation
Indices: 51873--51941 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
51863 TCCTCTTGGC
* *
51873 ACCCACGAAGGTCCACCCATAGACGTACCTAACT
1 ACCCACGAAAGTCCACCCATAGACATACCTAACT
**
51907 ACCCACGAAAGTCTGCCCATAGACATACCTAACT
1 ACCCACGAAAGTCCACCCATAGACATACCTAACT
51941 A
1 A
51942 ATTCTAACTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.35, C:0.36, G:0.13, T:0.16
Consensus pattern (34 bp):
ACCCACGAAAGTCCACCCATAGACATACCTAACT
Found at i:65180 original size:35 final size:35
Alignment explanation
Indices: 65116--65183 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
65106 CCTTAGGTCC
* *
65116 ATAAGGAATTATCAACTCGATCGGTCTGAACCTAT
1 ATAAGGAATTACCAACTCGACCGGTCTGAACCTAT
*
65151 ATAAGGAATTACCAATTCGACCGAG-CTGAACCT
1 ATAAGGAATTACCAACTCGACCG-GTCTGAACCT
65184 GTAGAGACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 28 0.97
36 1 0.03
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (35 bp):
ATAAGGAATTACCAACTCGACCGGTCTGAACCTAT
Found at i:70161 original size:24 final size:24
Alignment explanation
Indices: 70100--70163 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
70090 ATATGATTTT
* * * *
70100 TGTTCTGATTTCTAAGCTGGATTC
1 TGTTATGATTTCTGATCTGAATTC
*
70124 TGTTATGATATCTGATCTGAATTC
1 TGTTATGATTTCTGATCTGAATTC
70148 TGTTATGATTTCTGAT
1 TGTTATGATTTCTGAT
70164 TCCTTTTTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.20, C:0.12, G:0.19, T:0.48
Consensus pattern (24 bp):
TGTTATGATTTCTGATCTGAATTC
Found at i:73216 original size:24 final size:24
Alignment explanation
Indices: 73157--73216 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
73147 TTTATCTGAT
* *
73157 TTCTGTTCTGATTTATGAGTTGGA
1 TTCTGTTCTGATATATGAGTTGAA
* * *
73181 TTCTATTATGATATCTGA-TATGAA
1 TTCTGTTCTGATATATGAGT-TGAA
73205 TTCTGTTCTGAT
1 TTCTGTTCTGAT
73217 TTCTAATTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.50
Consensus pattern (24 bp):
TTCTGTTCTGATATATGAGTTGAA
Found at i:77494 original size:12 final size:11
Alignment explanation
Indices: 77473--77509 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
77463 TTCATCCAAA
77473 ATTATGTTATT
1 ATTATGTTATT
77484 ATTACTGTTATT
1 ATTA-TGTTATT
77496 ATTA--TTATT
1 ATTATGTTATT
77505 ATTAT
1 ATTAT
77510 TTTAAGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.38
11 4 0.17
12 11 0.46
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (11 bp):
ATTATGTTATT
Found at i:77707 original size:2 final size:2
Alignment explanation
Indices: 77700--77729 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
77690 TTTATTTTTC
77700 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
77730 TAATACTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78658 original size:34 final size:34
Alignment explanation
Indices: 78605--78694 Score: 126
Period size: 34 Copynumber: 2.6 Consensus size: 34
78595 ACACACTGGA
* *
78605 TAAAGAAATATCAGGTAAACATAGTATGAATTGC
1 TAAAAAAATATCAGGTAAACATAGTATGAATAGC
* *
78639 TAAAAAAATATTAGATAAACATAGTATGAATAGC
1 TAAAAAAATATCAGGTAAACATAGTATGAATAGC
**
78673 TCCAAAAATATCAGGTAAACAT
1 TAAAAAAATATCAGGTAAACAT
78695 GGTTTCCATA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (34 bp):
TAAAAAAATATCAGGTAAACATAGTATGAATAGC
Found at i:80866 original size:17 final size:17
Alignment explanation
Indices: 80844--80876 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
80834 CTGGACTTAG
*
80844 CCGTTGACTGTTGACTA
1 CCGTTGACCGTTGACTA
80861 CCGTTGACCGTTGACT
1 CCGTTGACCGTTGACT
80877 GTTAACTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.27, G:0.24, T:0.33
Consensus pattern (17 bp):
CCGTTGACCGTTGACTA
Found at i:87232 original size:33 final size:34
Alignment explanation
Indices: 87185--87268 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 34
87175 CTGGATAAAG
* *
87185 AAATATCAGGTAAACATAGTATGAATTGCT-GAA
1 AAATATCAGGTAAACATAGTATGAATAGCTCCAA
* * *
87218 AAATATTAGATAAACAAAGTATGAATAGCTCCAA
1 AAATATCAGGTAAACATAGTATGAATAGCTCCAA
87252 AAATATCAGGTAAACAT
1 AAATATCAGGTAAACAT
87269 GGTTTCCATA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 26 0.62
34 16 0.38
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (34 bp):
AAATATCAGGTAAACATAGTATGAATAGCTCCAA
Found at i:88242 original size:13 final size:11
Alignment explanation
Indices: 88214--88242 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
88204 CTAATATATT
88214 TTCTCTCCAAA
1 TTCTCTCCAAA
88225 TTCTCTCCAAA
1 TTCTCTCCAAA
88236 TTCTCTC
1 TTCTCTC
88243 AATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (11 bp):
TTCTCTCCAAA
Found at i:91258 original size:32 final size:32
Alignment explanation
Indices: 91220--91280 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
91210 GGAAAATAGT
* *
91220 ACATTTTACCGGCAATACAAAAACTAGGATCC
1 ACATTTTACCGGCAAAACAAAAAATAGGATCC
91252 ACATTTTACCGGCAAAACAAAAAATAGGA
1 ACATTTTACCGGCAAAACAAAAAATAGGA
91281 CCCAATAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.20
Consensus pattern (32 bp):
ACATTTTACCGGCAAAACAAAAAATAGGATCC
Found at i:91797 original size:3 final size:3
Alignment explanation
Indices: 91789--91893 Score: 210
Period size: 3 Copynumber: 35.0 Consensus size: 3
91779 GACGGGTCTA
91789 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
91837 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
91885 TAT TAT TAT
1 TAT TAT TAT
91894 AAGTCTTAAA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 102 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:97395 original size:35 final size:35
Alignment explanation
Indices: 97349--97419 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
97339 CCTTAGGTCC
* *
97349 ATAAGGAATTACCAGCTCGATC-AGTCTGAACCTAT
1 ATAAGGAATTACCAACTCGACCGAG-CTGAACCTAT
*
97384 ATAAGGAATTACCAATTCGACCGAGCTGAACCTAT
1 ATAAGGAATTACCAACTCGACCGAGCTGAACCTAT
97419 A
1 A
97420 GAGACTTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 30 0.94
36 2 0.06
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (35 bp):
ATAAGGAATTACCAACTCGACCGAGCTGAACCTAT
Found at i:107700 original size:2 final size:2
Alignment explanation
Indices: 107693--107717 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
107683 ATTTTGAAAG
107693 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 T
107718 GTGTGTGTGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108074 original size:42 final size:42
Alignment explanation
Indices: 108009--108118 Score: 184
Period size: 42 Copynumber: 2.6 Consensus size: 42
107999 TAAGGGTTAT
*
108009 ACGGGGTAAGGTTGGTGCGTTGAGCTATGCTATAAAAAGGTC
1 ACGGGGTAAGGTTGGTGCATTGAGCTATGCTATAAAAAGGTC
* *
108051 ATGGGGTAAGGTTGGTGCATTGAGCTATGCTCTAAAAAGGTC
1 ACGGGGTAAGGTTGGTGCATTGAGCTATGCTATAAAAAGGTC
*
108093 ACGGGGTAAGGTTGGTTCATTGAGCT
1 ACGGGGTAAGGTTGGTGCATTGAGCT
108119 TAGTTTCGAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.28
Consensus pattern (42 bp):
ACGGGGTAAGGTTGGTGCATTGAGCTATGCTATAAAAAGGTC
Found at i:109818 original size:21 final size:21
Alignment explanation
Indices: 109780--109819 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
109770 TCTTATTTTA
**
109780 TTTATTTAATTGTGAATTAGG
1 TTTATTTAATTGACAATTAGG
*
109801 TTTATTTATTTGACAATTA
1 TTTATTTAATTGACAATTA
109820 CAATGCTTTT
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:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTATTTAATTGACAATTAGG
Found at i:118272 original size:16 final size:17
Alignment explanation
Indices: 118242--118275 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
118232 TATCGCCGAC
118242 CGAAATTTCACTATTCA
1 CGAAATTTCACTATTCA
118259 CGAAATTT-ACTATTCA
1 CGAAATTTCACTATTCA
118275 C
1 C
118276 ATGAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (17 bp):
CGAAATTTCACTATTCA
Found at i:122226 original size:39 final size:38
Alignment explanation
Indices: 122161--122953 Score: 919
Period size: 39 Copynumber: 20.7 Consensus size: 38
122151 AGGTTTAATA
122161 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGATG
1 AGTTCTTCAGACTATGAAC-TCTTCTTCCTCTTCAGATG
* ** *
122200 AGTTCTTCAGATTACAAACTCGTTCTTCCTCTTCATATG
1 AGTTCTTCAGACTATGAACTC-TTCTTCCTCTTCAGATG
*
122239 AGTTCGTCAGACTATGAACTCCTTCTTCCTCTTCA-A--
1 AGTTCTTCAGACTATGAACT-CTTCTTCCTCTTCAGATG
* *
122275 A---CTATGA-AC--T---C-CTTCTTCCTCTTCAGACG
1 AGTTCT-TCAGACTATGAACTCTTCTTCCTCTTCAGATG
* *
122304 AGTTCTTCAGACTATGAACTCCTTATTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACT-CTTCTTCCTCTTCAGATG
* * *
122343 AGTTCTTCAGACTGTGAACTCCTTCTTTCTCTTCAGACG
1 AGTTCTTCAGACTATGAACT-CTTCTTCCTCTTCAGATG
*
122382 AGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTC-TTCTTCCTCTTCAGATG
* * * *
122421 AGTTCTTCATATTATGAACTCATTCTTCCTCTTTAGACG
1 AGTTCTTCAGACTATGAACTC-TTCTTCCTCTTCAGATG
*
122460 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGATG
1 AGTTCTTCAGACTATGAACT-CTTCTTCCTCTTCAGATG
* *
122499 AGCTCTTTAGACTATGAACTCCTTCTTCCTCTTCAGATG
1 AGTTCTTCAGACTATGAACT-CTTCTTCCTCTTCAGATG
* * *
122538 AGTTCTTTAGACTATGAACTCCTTCTTCTTCTTCAGACG
1 AGTTCTTCAGACTATGAACT-CTTCTTCCTCTTCAGATG
* * *
122577 AGTTATTTAAACTATGAACTCCTTCTTCCTCTTCAGATG
1 AGTTCTTCAGACTATGAACT-CTTCTTCCTCTTCAGATG
* *
122616 AGTTCTTCAGACTATGAACTCATTCTTCCTCTTCACACG
1 AGTTCTTCAGACTATGAACTC-TTCTTCCTCTTCAGATG
*
122655 AGTTCTTCAGACTATGAACTCATTCTTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACTC-TTCTTCCTCTTCAGATG
* * *
122694 AGTTCTTCAGATTATGAACTCCTTCTTCCACTTTAGATG
1 AGTTCTTCAGACTATGAACT-CTTCTTCCTCTTCAGATG
*
122733 AGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAAATG
1 AGTTCTTCAGACTATGAACT-CTTCTTCCTCTTCAGATG
*
122772 AGTTCTTCAGACTATGAACTCTTTCTTCCTCTTCAGAGG
1 AGTTCTTCAGACTATGAACTC-TTCTTCCTCTTCAGATG
* *
122811 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACG
1 AGTTCTTCAGACTATGAACT-CTTCTTCCTCTTCAGATG
* * **
122850 AGTTCTTCAGACTATGAACCCCTTCTTCATCTTCAGACC
1 AGTTCTTCAGACTATGAA-CTCTTCTTCCTCTTCAGATG
* *
122889 AGTTCTTCAGACTATGAACTCTTTTTTCCTCTTCATATG
1 AGTTCTTCAGACTATGAACTC-TTCTTCCTCTTCAGATG
*
122928 AGTTCTTCATACTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACT-CTTCT
122954 GGAAATGTTT
Statistics
Matches: 665, Mismatches: 63, Indels: 52
0.85 0.08 0.07
Matches are distributed among these distances:
26 14 0.02
27 1 0.00
28 1 0.00
29 1 0.00
31 3 0.00
32 4 0.01
33 3 0.00
34 3 0.00
36 1 0.00
37 1 0.00
38 8 0.01
39 619 0.93
40 6 0.01
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (38 bp):
AGTTCTTCAGACTATGAACTCTTCTTCCTCTTCAGATG
Found at i:122285 original size:26 final size:26
Alignment explanation
Indices: 122249--122299 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
122239 AGTTCGTCAG
122249 ACTATGAACTCCTTCTTCCTCTTCAA
1 ACTATGAACTCCTTCTTCCTCTTCAA
122275 ACTATGAACTCCTTCTTCCTCTTCA
1 ACTATGAACTCCTTCTTCCTCTTCA
122300 GACGAGTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.35, G:0.04, T:0.39
Consensus pattern (26 bp):
ACTATGAACTCCTTCTTCCTCTTCAA
Found at i:122285 original size:65 final size:65
Alignment explanation
Indices: 122216--122338 Score: 201
Period size: 65 Copynumber: 1.9 Consensus size: 65
122206 TCAGATTACA
* * * *
122216 AACTCGTTCTTCCTCTTCATATGAGTTCGTCAGACTATGAACTCCTTCTTCCTCTTCAAACTATG
1 AACTCCTTCTTCCTCTTCAGACGAGTTCGTCAGACTATGAACTCCTTATTCCTCTTCAAACTATG
*
122281 AACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTATTCCTCTTCA
1 AACTCCTTCTTCCTCTTCAGACGAGTTCGTCAGACTATGAACTCCTTATTCCTCTTCA
122339 GACGAGTTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.21, C:0.31, G:0.10, T:0.38
Consensus pattern (65 bp):
AACTCCTTCTTCCTCTTCAGACGAGTTCGTCAGACTATGAACTCCTTATTCCTCTTCAAACTATG
Found at i:122350 original size:78 final size:78
Alignment explanation
Indices: 122268--122953 Score: 1012
Period size: 78 Copynumber: 8.8 Consensus size: 78
122258 TCCTTCTTCC
* *
122268 TCTTCAAACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTATTCC
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCC
122333 TCTTCAGACGAGT
66 TCTTCAGACGAGT
* * *
122346 TCTTCAGACTGTGAACTCCTTCTTTCTCTTCAGACGAGTTCTTCAGACTATGAACTCATTCTTCC
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCC
122411 TCTTCAGACGAGT
66 TCTTCAGACGAGT
* * * * *
122424 TCTTCATATTATGAACTCATTCTTCCTCTTTAGACGAGTTCTTCAGATTATGAACTCCTTCTTCC
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCC
* *
122489 TCTTCAGATGAGC
66 TCTTCAGACGAGT
* * * *
122502 TCTTTAGACTATGAACTCCTTCTTCCTCTTCAGATGAGTTCTTTAGACTATGAACTCCTTCTTCT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCC
122567 TCTTCAGACGAGT
66 TCTTCAGACGAGT
* * * * *
122580 TATTTAAACTATGAACTCCTTCTTCCTCTTCAGATGAGTTCTTCAGACTATGAACTCATTCTTCC
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCC
*
122645 TCTTCACACGAGT
66 TCTTCAGACGAGT
* *
122658 TCTTCAGACTATGAACTCATTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCC
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCC
* * *
122723 ACTTTAGATGAGT
66 TCTTCAGACGAGT
* * *
122736 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAAATGAGTTCTTCAGACTATGAACTCTTTCTTCC
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCC
*
122801 TCTTCAGAGGAGT
66 TCTTCAGACGAGT
* * *
122814 TCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACCCCTTCTTCA
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCC
*
122879 TCTTCAGACCAGT
66 TCTTCAGACGAGT
* * * * *
122892 TCTTCAGACTATGAACTCTTTTTTCCTCTTCATATGAGTTCTTCATACTATGAACTCCTTCT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
122954 GGAAATGTTT
Statistics
Matches: 542, Mismatches: 66, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 542 1.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (78 bp):
TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCC
TCTTCAGACGAGT
Found at i:122396 original size:117 final size:117
Alignment explanation
Indices: 122268--122953 Score: 1021
Period size: 117 Copynumber: 5.9 Consensus size: 117
122258 TCCTTCTTCC
* * *
122268 TCTTCAAACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCCTTATTCC
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCATTCTTCC
* * *
122333 TCTTCAGACGAGTTCTTCAGACTGTGAACTCCTTCTTTCTCTTCAGACGAGT
66 TCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGATGAGT
* * *
122385 TCTTCAGACTATGAACTCATTCTTCCTCTTCAGACGAGTTCTTCATATTATGAACTCATTCTTCC
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCATTCTTCC
* * *
122450 TCTTTAGACGAGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGATGAGC
66 TCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGATGAGT
* * * * *
122502 TCTTTAGACTATGAACTCCTTCTTCCTCTTCAGATGAGTTCTTTAGACTATGAACTCCTTCTTCT
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCATTCTTCC
* * *
122567 TCTTCAGACGAGTTATTTAAACTATGAACTCCTTCTTCCTCTTCAGATGAGT
66 TCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGATGAGT
* *
122619 TCTTCAGACTATGAACTCATTCTTCCTCTTCACACGAGTTCTTCAGACTATGAACTCATTCTTCC
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCATTCTTCC
* * *
122684 TCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCCACTTTAGATGAGT
66 TCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGATGAGT
* * *
122736 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAAATGAGTTCTTCAGACTATGAACTCTTTCTTCC
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCATTCTTCC
* * *
122801 TCTTCAGAGGAGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCAGACGAGT
66 TCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGATGAGT
* * * * *
122853 TCTTCAGACTATGAACCCCTTCTTCATCTTCAGACCAGTTCTTCAGACTATGAACTCTTTTTTCC
1 TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCATTCTTCC
* * *
122918 TCTTCATATGAGTTCTTCATACTATGAACTCCTTCT
66 TCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCT
122954 GGAAATGTTT
Statistics
Matches: 512, Mismatches: 57, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
117 512 1.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (117 bp):
TCTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGACTATGAACTCATTCTTCC
TCTTCAGACGAGTTCTTCAGACTATGAACTCCTTCTTCCTCTTCAGATGAGT
Found at i:122643 original size:20 final size:20
Alignment explanation
Indices: 122618--122682 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
122608 TTCAGATGAG
122618 TTCTTCAGACTATGAACTCA
1 TTCTTCAGACTATGAACTCA
** * *
122638 TTCTTC-CTCT-TCACAC-GA
1 TTCTTCAGACTATGA-ACTCA
122656 GTTCTTCAGACTATGAACTCA
1 -TTCTTCAGACTATGAACTCA
122677 TTCTTC
1 TTCTTC
122683 CTCTTCAGAC
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
18 3 0.09
19 10 0.31
20 16 0.50
21 3 0.09
ACGTcount: A:0.23, C:0.29, G:0.09, T:0.38
Consensus pattern (20 bp):
TTCTTCAGACTATGAACTCA
Found at i:123109 original size:45 final size:45
Alignment explanation
Indices: 123012--123394 Score: 446
Period size: 45 Copynumber: 8.5 Consensus size: 45
123002 AAATCATCTA
* ** *
123012 GCACTGAAGGTCTAATGGATGGA-CCGAAGGCTTTTTGAAAACATCTT
1 GCACTGAAGGTCTTACAGAT-GACCCGAAGGC--TTTGAAAACATCAT
* *
123059 GCACTGTAGGTCTTACAGATAACCCGAAGGCTTTGAAAACATCAT
1 GCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAAACATCAT
* ** * *
123104 GCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCCT
1 GCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAAACATCAT
** * *
123149 GCACTGAAGGTCTTATGGATGACCCAAAGGTTTTGAAAACATCAT
1 GCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAAACATCAT
* * *
123194 GCACTGAAGGTCTTACAGATGACCCGAATG-TTTCGAAAATATCCT
1 GCACTGAAGGTCTTACAGATGACCCGAAGGCTTT-GAAAACATCAT
* * ** * *
123239 ACACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCCT
1 GCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAAACATCAT
* ** *
123284 GCACTGTAGGTCTTATGGATGACCCAAAGGCTTTGAAAACATCAT
1 GCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAAACATCAT
*
123329 GCACTGAAGGTCTTACAGATGACCCAAAGGCTTTGAAAACATCAT
1 GCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAAACATCAT
*
123374 ACACTGAAGGTCTTACAGATG
1 GCACTGAAGGTCTTACAGATG
123395 TGGGAAATAG
Statistics
Matches: 299, Mismatches: 34, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
44 3 0.01
45 268 0.90
46 4 0.01
47 24 0.08
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (45 bp):
GCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAAACATCAT
Found at i:123256 original size:135 final size:135
Alignment explanation
Indices: 123012--123388 Score: 587
Period size: 135 Copynumber: 2.8 Consensus size: 135
123002 AAATCATCTA
* * * *
123012 GCACTGAAGGTCTAATGGATGGA-CCGAAGGCTTTTTGAAAACATCTTGCACTGTAGGTCTTACA
1 GCACTGAAGGTCTTATGGAT-GACCCAAAGG--TTTTGAAAACATCATGCACTGAAGGTCTTACA
* *
123076 GATAACCCGAAGGCTTTGAAAACATCATGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAA
63 GATGACCCGAAGGCTTTGAAAACATCATACACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAA
123141 AACATCCT
128 AACATCCT
123149 GCACTGAAGGTCTTATGGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGAT
1 GCACTGAAGGTCTTATGGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGAT
* * *
123214 GACCCGAATG-TTTCGAAAATATCCTACACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAA
66 GACCCGAAGGCTTT-GAAAACATCATACACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAA
123278 CATCCT
130 CATCCT
* *
123284 GCACTGTAGGTCTTATGGATGACCCAAAGGCTTTGAAAACATCATGCACTGAAGGTCTTACAGAT
1 GCACTGAAGGTCTTATGGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGAT
* *
123349 GACCCAAAGGCTTTGAAAACATCATACACTGAAGGTCTTA
66 GACCCGAAGGCTTTGAAAACATCATACACTGTAGGTCTTA
123389 CAGATGTGGG
Statistics
Matches: 221, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
134 3 0.01
135 188 0.85
136 5 0.02
137 25 0.11
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (135 bp):
GCACTGAAGGTCTTATGGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGAT
GACCCGAAGGCTTTGAAAACATCATACACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAAC
ATCCT
Found at i:124080 original size:22 final size:22
Alignment explanation
Indices: 124055--124131 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
124045 AATAAAGCTT
*
124055 TCATCTTTGAAAAGAGAGTCTA
1 TCATCTTTGAAAAGAGAATCTA
*
124077 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
124099 TCATCTTTGAAGAATA-AATCTA
1 TCATCTTTGAA-AAGAGAATCTA
*
124121 TTATCTTTGAA
1 TCATCTTTGAA
124132 GAATGTAGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
22 47 0.96
23 2 0.04
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:124132 original size:22 final size:22
Alignment explanation
Indices: 124045--124135 Score: 96
Period size: 22 Copynumber: 4.1 Consensus size: 22
124035 GTAGAAATCC
* *
124045 AATAAAGCTTTCATCTTTGAA-
1 AATAAATCTATCATCTTTGAAG
* *
124066 AAGAGAGTCTATCATCTTTGAAG
1 AATA-AATCTATCATCTTTGAAG
*
124089 AGA-GAATCTATCATCTTTGAAG
1 A-ATAAATCTATCATCTTTGAAG
*
124111 AATAAATCTATTATCTTTGAAG
1 AATAAATCTATCATCTTTGAAG
124133 AAT
1 AAT
124136 GTAGATGTAG
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
21 4 0.07
22 52 0.90
23 1 0.02
24 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (22 bp):
AATAAATCTATCATCTTTGAAG
Found at i:129763 original size:42 final size:42
Alignment explanation
Indices: 129704--129787 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
129694 TTAATTTTGT
* * * * * *
129704 CATTTGCTCTTTTGAATCATCTTGTAATTTTTTTTCTTGATC
1 CATTTGCTCATTTGAATCACCCTGGAACTTTTTTACTTGATC
*
129746 CATTTGTTCATTTGAATCACCCTGGAACTTTTTTACTTGATC
1 CATTTGCTCATTTGAATCACCCTGGAACTTTTTTACTTGATC
129788 AATCATCTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.51
Consensus pattern (42 bp):
CATTTGCTCATTTGAATCACCCTGGAACTTTTTTACTTGATC
Found at i:130276 original size:43 final size:42
Alignment explanation
Indices: 130194--130277 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 42
130184 TGGTACATCA
* * *
130194 AATAAAACTTTATATATAGGGATAGATTTCACTCTTAACTTT
1 AATAAAACTTTACATATAGGGATAGACTTCACTCCTAACTTT
130236 AATAAAACTTTACATATAGGGGATA-ACCTTCACTCCTAACTT
1 AATAAAACTTTACATATA-GGGATAGA-CTTCACTCCTAACTT
130278 CTCTAAGGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 18 0.49
43 19 0.51
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (42 bp):
AATAAAACTTTACATATAGGGATAGACTTCACTCCTAACTTT
Found at i:130793 original size:36 final size:36
Alignment explanation
Indices: 130744--130870 Score: 209
Period size: 36 Copynumber: 3.5 Consensus size: 36
130734 CATAAAATGT
*
130744 TTTTGGTACCAATCTAACAGGATCTTTGTGGAATAC
1 TTTTGGTATCAATCTAACAGGATCTTTGTGGAATAC
* *
130780 ATTTGGTATCAATCTAAAAGGATCTTTGTGGAATAC
1 TTTTGGTATCAATCTAACAGGATCTTTGTGGAATAC
130816 TTTTGGTATCAATCTAACAGGATCTTTGTGGAATAC
1 TTTTGGTATCAATCTAACAGGATCTTTGTGGAATAC
* *
130852 TTTTGGCATCAATCGAACA
1 TTTTGGTATCAATCTAACA
130871 TGATAATGCC
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 84 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (36 bp):
TTTTGGTATCAATCTAACAGGATCTTTGTGGAATAC
Found at i:132343 original size:17 final size:20
Alignment explanation
Indices: 132320--132363 Score: 67
Period size: 17 Copynumber: 2.4 Consensus size: 20
132310 CCCCTTTCTT
132320 TAATATTAA-AAA-TAAATA
1 TAATATTAATAAATTAAATA
132338 -AATATTAATAAATTAAATA
1 TAATATTAATAAATTAAATA
132357 TAATATT
1 TAATATT
132364 TTATTATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.35
18 3 0.13
19 6 0.26
20 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAATATTAATAAATTAAATA
Found at i:135050 original size:2 final size:2
Alignment explanation
Indices: 135043--135091 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
135033 TCGCTTGGTT
135043 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
135085 TA TA TA T
1 TA TA TA T
135092 TTGATTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:137879 original size:17 final size:17
Alignment explanation
Indices: 137857--137928 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 17
137847 AATTAAGAGT
137857 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
137874 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
*
137891 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
* * *
137908 TAACTTTATTCAATGAAC
1 T-AGTTTAATAAATGAAC
137926 TAG
1 TAG
137929 ATGCATGAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
17 32 0.70
18 14 0.30
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:142766 original size:21 final size:21
Alignment explanation
Indices: 142740--142787 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
142730 TTTTTGGTAC
142740 TAAATTGAACCGTTAATATAT
1 TAAATTGAACCGTTAATATAT
142761 TAAATTGAACCGTTAATATAT
1 TAAATTGAACCGTTAATATAT
142782 TAAATT
1 TAAATT
142788 TCATCGGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (21 bp):
TAAATTGAACCGTTAATATAT
Found at i:147540 original size:3 final size:3
Alignment explanation
Indices: 147532--147603 Score: 108
Period size: 3 Copynumber: 23.3 Consensus size: 3
147522 ATTATATTTT
147532 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA TTAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA -TAA TAA TAA
**
147579 TAA TTT TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
147604 TATATGAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
3 57 0.90
4 6 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:147820 original size:45 final size:45
Alignment explanation
Indices: 147759--147848 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
147749 CCTATCATTT
* *
147759 TGCACTGTAGGTCTTACAGATAAC-CTGAAGGTTTTGAAAACATCA
1 TGCACTGAAGGGCTTACAGATAACTC-GAAGGTTTTGAAAACATCA
* *
147804 TGCACTGAAGGGCTTACAGATGACTCGAAGGTTTTGAAAATATCA
1 TGCACTGAAGGGCTTACAGATAACTCGAAGGTTTTGAAAACATCA
147849 AAAAGCTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 39 0.98
46 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (45 bp):
TGCACTGAAGGGCTTACAGATAACTCGAAGGTTTTGAAAACATCA
Found at i:147916 original size:76 final size:74
Alignment explanation
Indices: 147782--147924 Score: 196
Period size: 76 Copynumber: 1.9 Consensus size: 74
147772 TTACAGATAA
* * *
147782 CCTGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACTCGAAGGTTTTGAAAATAT
1 CCTGAAGGTTTTGAAAACATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAAAT
147847 CAAAAAGCT
66 CAAAAAGCT
* * * **
147856 CCTGAAGGCTTTTTGAAAACATCCTACACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAAA
1 CCTGAAGG--TTTTGAAAACATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAA
147921 ATCA
64 ATCA
147925 TGCACTGAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
74 8 0.14
76 51 0.86
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (74 bp):
CCTGAAGGTTTTGAAAACATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAAAT
CAAAAAGCT
Found at i:147931 original size:45 final size:45
Alignment explanation
Indices: 147866--147969 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
147856 CCTGAAGGCT
* * * ** *
147866 TTTTGAAAACATCCTACACTGCAGGTCTTATGGATGACCCGAAGG
1 TTTTGAAAACATCATACACTGAAGGGCTTAAAGATGACCCAAAGG
* *
147911 TTTTGAAAAAATCATGCACTGAAGGGCTTAAAGATGACCCAAAGG
1 TTTTGAAAACATCATACACTGAAGGGCTTAAAGATGACCCAAAGG
147956 TTTTGAAAACATCA
1 TTTTGAAAACATCA
147970 AAAAGCTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (45 bp):
TTTTGAAAACATCATACACTGAAGGGCTTAAAGATGACCCAAAGG
Found at i:147975 original size:121 final size:121
Alignment explanation
Indices: 147759--148241 Score: 786
Period size: 121 Copynumber: 4.0 Consensus size: 121
147749 CCTATCATTT
* ** * *
147759 TGCACTGTAGGTCTTACAGATAACCTGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
1 TGCACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
* * *
147824 TGACTCGAAGGTTTTGAAAATATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCC
66 TGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCC
* * *
147880 TACACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAAAATCATGCACTGAAGGGCTTAAAGA
1 TGCACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
* * * * *
147945 TGACCCAAAGGTTTTGAAAACATCAAAAAGCTCCTGAAAGATTTTCGAAAACATCC
66 TGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCC
* *
148001 TGCACTGCAGGTCTTATGGATGACCCGGAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGA
1 TGCACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
*
148066 TGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCC
66 TGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCC
*
148122 TGCATTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
1 TGCACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
148187 TGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATC
66 TGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATC
148242 AAAAAGCTCC
Statistics
Matches: 334, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
121 334 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (121 bp):
TGCACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
TGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCC
Found at i:148062 original size:45 final size:45
Alignment explanation
Indices: 147986--148090 Score: 156
Period size: 45 Copynumber: 2.3 Consensus size: 45
147976 TCCTGAAAGA
* * * * *
147986 TTTTCGAAAACATCCTGCACTGCAGGTCTTATGGATGACCCGGAGG
1 TTTT-GAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGG
148032 TTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGG
148077 TTTTGAAAACATCA
1 TTTTGAAAACATCA
148091 AAAAGCTCCC
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 50 0.93
46 4 0.07
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGG
Found at i:148165 original size:45 final size:45
Alignment explanation
Indices: 148098--148515 Score: 156
Period size: 45 Copynumber: 8.5 Consensus size: 45
148088 TCAAAAAGCT
* * * * * **
148098 CCCGAAGGCTTTTTAAAAACATCCTGCATTGCAGGTCTTATGGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
148145 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * * * * *
148190 CCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAA-GGCTTTTTGAAAACATCAAAAAGCT
1 CCCGAAGGTTTTGAAAACATC---ATGC-ACTGAAGGGC---TT------A-C-AGATG-A
* * * * **
148250 CCCGAAGGCTTTTTGATAACATCCTGCACTGCAGGTCTTATGGATGA
1 CCCGAAGG-TTTT-GAAAACATCATGCACTGAAGGGCTTACAGATGA
*
148297 CCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * * * * * *
148342 CCCAAAGGTTTTGAAAACATCAAAAAGCTCCCGAA-GGCTTTTTGAAAACATAAAAAAGCT
1 CCCGAAGGTTTTGAAAACATC---ATGC-ACTGAAGGGC---TT----AC----AGATG-A
* * * * **
148402 CCCGAAGGCTTTTTAAAAACATCTTGCACTGCAGGTCTTATGGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * *
148449 CCCGAAGGTTTTGAAAACATCATGCGCTGAAAGGATTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
148494 CCCGAAGGTTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
148516 AAAAGCTCCC
Statistics
Matches: 271, Mismatches: 62, Indels: 78
0.66 0.15 0.19
Matches are distributed among these distances:
45 147 0.54
46 4 0.01
47 24 0.09
48 16 0.06
49 7 0.03
50 1 0.00
51 4 0.01
52 1 0.00
55 2 0.01
56 4 0.01
57 1 0.00
58 7 0.03
59 14 0.05
60 15 0.06
61 4 0.01
62 20 0.07
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:148236 original size:31 final size:31
Alignment explanation
Indices: 148190--148272 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
148180 TTACAGATGA
148190 CCCGAAGG--TTTTGAAAACATCAAAAAGCT
1 CCCGAAGGCTTTTTGAAAACATCAAAAAGCT
148219 CCCGAAGGCTTTTTGAAAACATCAAAAAGCT
1 CCCGAAGGCTTTTTGAAAACATCAAAAAGCT
*
148250 CCCGAAGGCTTTTTGATAACATC
1 CCCGAAGGCTTTTTGAAAACATC
148273 CTGCACTGCA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 8 0.16
31 43 0.84
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (31 bp):
CCCGAAGGCTTTTTGAAAACATCAAAAAGCT
Found at i:148353 original size:152 final size:152
Alignment explanation
Indices: 148069--148545 Score: 843
Period size: 152 Copynumber: 3.2 Consensus size: 152
148059 TTATAGATGA
*
148069 CCCGAAGG--TTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCCTGCATTGCAG
1 CCCGAAGGCTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCCTGCACTGCAG
*
148132 GTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAG
66 GTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAG
148197 GTTTTGAAAACATCAAAAAGCT
131 GTTTTGAAAACATCAAAAAGCT
* *
148219 CCCGAAGGCTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGATAACATCCTGCACTGCAG
1 CCCGAAGGCTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCCTGCACTGCAG
*
148284 GTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCAAAG
66 GTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAG
148349 GTTTTGAAAACATCAAAAAGCT
131 GTTTTGAAAACATCAAAAAGCT
* *
148371 CCCGAAGGCTTTTTGAAAACATAAAAAAGCTCCCGAAGGCTTTTTAAAAACATCTTGCACTGCAG
1 CCCGAAGGCTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCCTGCACTGCAG
* *
148436 GTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCGCTGAAA-GGATTACAGATGACCCGAA
66 GTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACT-AAAGGGCTTACAGATGACCCGAA
148500 GGTTTTGAAAACATCAAAAAGCT
130 GGTTTTGAAAACATCAAAAAGCT
148523 CCCGAAGGCTTTTTGAAAACATC
1 CCCGAAGGCTTTTTGAAAACATC
148546 CTGCACTGCA
Statistics
Matches: 311, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
150 8 0.03
152 300 0.96
153 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (152 bp):
CCCGAAGGCTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCCTGCACTGCAG
GTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAG
GTTTTGAAAACATCAAAAAGCT
Found at i:148385 original size:31 final size:31
Alignment explanation
Indices: 148350--148424 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
148340 GACCCAAAGG
148350 TTTTGAAAACATCAAAAAGCTCCCGAAGGCT
1 TTTTGAAAACATCAAAAAGCTCCCGAAGGCT
*
148381 TTTTGAAAACATAAAAAAGCTCCCGAAGGCT
1 TTTTGAAAACATCAAAAAGCTCCCGAAGGCT
*
148412 TTTTAAAAACATC
1 TTTTGAAAACATC
148425 TTGCACTGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.25
Consensus pattern (31 bp):
TTTTGAAAACATCAAAAAGCTCCCGAAGGCT
Found at i:148506 original size:121 final size:121
Alignment explanation
Indices: 148371--148733 Score: 582
Period size: 121 Copynumber: 3.0 Consensus size: 121
148361 TCAAAAAGCT
* * *
148371 CCCGAAGGCTTTTTGAAAACATAAAAAAGCTCCCGAAGGCTTTTTAAAAACATCTTGCACTGCAG
1 CCCGAAGG--TTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGCAG
* * *
148436 GTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCGCTGAAAGGATTACAGATGA
64 GTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
148494 CCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGT
1 CCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGT
* *
148559 CTTATGGATGGCCCGAAGGTTTTGAAAACACCATGCACTGAAGGGCTTACAGATGA
66 CTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* * *
148615 CCCAAAGGTTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGAAAACATCCTACACTGCAGGT
1 CCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGT
* * *
148680 CTTATGGATGACCCGAAGATTTTGAAAAAATCATTCACTGAAGGGCTTACAGAT
66 CTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGAT
148734 ATGGGAAATA
Statistics
Matches: 224, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
121 216 0.96
123 8 0.04
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (121 bp):
CCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGT
CTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:148508 original size:273 final size:270
Alignment explanation
Indices: 147835--148665 Score: 1053
Period size: 273 Copynumber: 3.0 Consensus size: 270
147825 GACTCGAAGG
* * * * *
147835 TTTTGAAAATATCAAAAAGCTCCTGAAGGCTTTTTGAAAACATCCTACACTGCAGGTCTTATGGA
1 TTTTGAAAACATAAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTATGGA
* * *
147900 TGACCCGAAGGTTTTGAAAAAATCATGCACTGAAGGGCTTAAAGATGACCCAAAGGTTTTGAAAA
66 TGACCCGAAGGTTTTG-AAAAATCATGC-CTGAAAGGATT-AAGATGACCCGAAGGTTTTGAAAA
* * * * *
147965 CATCAAAAAGCTCCTGAAAGATTTTCGAAAACATCCTGCACTGCAGGTCTTATGGATGACCCGGA
128 CATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTATGGATGACCCGAA
* *
148030 GGTTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTTGAAAACATCAAAAA
193 GGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCAAAAA
148095 GCTCCCGAAGGCT
258 GCTCCCGAAGGCT
* * ** *
148108 TTTTAAAAACATCCTGCATTGCAGGTCTTATGGATGACCCGAAGG--TTTTGAAAACATCATGCA
1 TTTTGAAAACA---T--A----A-----AAAAGCT--CCCGAAGGCTTTTTGAAAACATCATGCA
* * ** *
148171 CTGAAGGGCTTACAGATGACCCGAAGGTTTTG-AAAA-CAT--C---AA--A--AAGCT--CCCG
50 CTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAAATCATGCCTGAAAGGATTAAGATGACCCG
*
148223 AAGGCTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGATAACATCCTGCACTGCAGGTCT
115 AAGG--TTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCT
*
148288 TATGGATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCAAAGGTTT
178 TATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTT
148353 TGAAAACATCAAAAAGCTCCCGAAGGCT
243 TGAAAACATCAAAAAGCTCCCGAAGGCT
* *
148381 TTTTGAAAACATAAAAAAGCTCCCGAAGGCTTTTTAAAAACATCTTGCACTGCAGGTCTTATGGA
1 TTTTGAAAACATAAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTATGGA
148446 TGACCCGAAGGTTTTGAAAACATCATGCGCTGAAAGGATTACAGATGACCCGAAGGTTTTGAAAA
66 TGACCCGAAGGTTTTGAAAA-ATCATGC-CTGAAAGGATTA-AGATGACCCGAAGGTTTTGAAAA
*
148511 CATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTATGGATGGCCCGAA
128 CATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTATGGATGACCCGAA
*
148576 GGTTTTGAAAACACCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCAAAAA
193 GGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCAAAAA
*
148641 GCTCCCAAAGGCT
258 GCTCCCGAAGGCT
148654 TTTTGAAAACAT
1 TTTTGAAAACAT
148666 CCTACACTGC
Statistics
Matches: 478, Mismatches: 44, Indels: 72
0.80 0.07 0.12
Matches are distributed among these distances:
257 8 0.02
259 47 0.10
260 3 0.01
261 1 0.00
262 3 0.01
264 1 0.00
265 1 0.00
268 3 0.01
270 2 0.00
271 7 0.01
272 1 0.00
273 328 0.69
275 8 0.02
276 1 0.00
278 1 0.00
281 1 0.00
282 1 0.00
284 3 0.01
285 4 0.01
287 47 0.10
289 7 0.01
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (270 bp):
TTTTGAAAACATAAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTATGGA
TGACCCGAAGGTTTTGAAAAATCATGCCTGAAAGGATTAAGATGACCCGAAGGTTTTGAAAACAT
CAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTATGGATGACCCGAAGGT
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCAAAAAGCT
CCCGAAGGCT
Found at i:148539 original size:76 final size:74
Alignment explanation
Indices: 148449--148588 Score: 183
Period size: 76 Copynumber: 1.9 Consensus size: 74
148439 TTATGGATGA
*
148449 CCCGAAGGTTTTGAAAACATCATGCGCTGAAAGG-ATTACAGATGACCCGAAGGTTTTGAAAACA
1 CCCGAAGGTTTTGAAAACATCATGCACTG-AAGGTATTACAGATGACCCGAAGGTTTTGAAAACA
148513 TCAAAAAGCT
65 TCAAAAAGCT
* * * ** *
148523 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTATGGATGGCCCGAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGTATTACAGATGACCCGAAGGTTTTGAAAAC
148588 A
64 A
148589 CCATGCACTG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
74 8 0.14
75 3 0.05
76 45 0.80
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (74 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTATTACAGATGACCCGAAGGTTTTGAAAACAT
CAAAAAGCT
Found at i:148596 original size:45 final size:45
Alignment explanation
Indices: 148523--148635 Score: 138
Period size: 45 Copynumber: 2.5 Consensus size: 45
148513 TCAAAAAGCT
* * ** *
148523 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTATGGATGG
1 CCCGAAGG--TTTTGAAAACATCCTGCACTGAAGGGCTTACAGATGA
148570 CCCGAAGGTTTTGAAAACA-CCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCC-TGCACTGAAGGGCTTACAGATGA
*
148615 CCCAAAGGTTTTGAAAACATC
1 CCCGAAGGTTTTGAAAACATC
148636 AAAAAGCTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
44 2 0.03
45 47 0.81
46 1 0.02
47 8 0.14
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCCTGCACTGAAGGGCTTACAGATGA
Found at i:156252 original size:14 final size:14
Alignment explanation
Indices: 156235--156278 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
156225 AAAAAAATGT
156235 AATGAAAATGCAAA
1 AATGAAAATGCAAA
156249 AATGCATAAATGCAAA
1 AATG-A-AAATGCAAA
156265 AAT-AAGAATGCAAA
1 AATGAA-AATGCAAA
156279 CTGTGCAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.04
14 13 0.48
15 1 0.04
16 12 0.44
ACGTcount: A:0.61, C:0.09, G:0.14, T:0.16
Consensus pattern (14 bp):
AATGAAAATGCAAA
Found at i:158718 original size:2 final size:2
Alignment explanation
Indices: 158713--158757 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
158703 ATAAAAAATA
158713 AT AT AT 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 AT AT AT
158755 AT A
1 AT A
158758 AATGAAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:159743 original size:11 final size:11
Alignment explanation
Indices: 159729--159762 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
159719 GACTAATATG
159729 AAAATAATAAT
1 AAAATAATAAT
159740 AAAATAATAATT
1 AAAATAATAA-T
*
159752 AAAGTAATAAT
1 AAAATAATAAT
159763 GTAAACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:159759 original size:12 final size:12
Alignment explanation
Indices: 159729--159767 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
159719 GACTAATATG
159729 AAAATAATAA-T
1 AAAATAATAATT
159740 AAAATAATAATT
1 AAAATAATAATT
*
159752 AAAGTAATAATGT
1 AAAATAATAAT-T
159765 AAA
1 AAA
159768 CATATCGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 10 0.40
12 11 0.44
13 4 0.16
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (12 bp):
AAAATAATAATT
Found at i:161144 original size:3 final size:3
Alignment explanation
Indices: 161136--161208 Score: 101
Period size: 3 Copynumber: 23.3 Consensus size: 3
161126 ATTATATTTT
**
161136 TAA TAA TAA TAA TAA TAA TAA TAAA TATA TAA TTAA TAA TAA TAA TTT
1 TAA TAA TAA TAA TAA TAA TAA T-AA TA-A TAA -TAA TAA TAA TAA TAA
161184 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
161209 TATATGAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
3 54 0.86
4 9 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:166584 original size:23 final size:23
Alignment explanation
Indices: 166547--166604 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
166537 TTTTATATGG
* *
166547 CACTTCAGTGCAATTCTACGCGA
1 CACTTCGGTGTAATTCTACGCGA
* *
166570 CACTTCGGTGTAATTCTACGTGG
1 CACTTCGGTGTAATTCTACGCGA
166593 CACTTCGGTGTA
1 CACTTCGGTGTA
166605 TTTATACGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (23 bp):
CACTTCGGTGTAATTCTACGCGA
Found at i:167578 original size:23 final size:23
Alignment explanation
Indices: 167510--167570 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
167500 ACATTTTATA
* *
167510 TGGCACTTCAGTGCAATTCTACA
1 TGGCACTTCGGTGCAATTCTACG
* * *
167533 CGGTACTTCGGTGAAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
167556 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
167571 TTTATACGAG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:181633 original size:130 final size:131
Alignment explanation
Indices: 181383--181744 Score: 505
Period size: 130 Copynumber: 2.8 Consensus size: 131
181373 ATTTTAAGAA
* * *
181383 AAAATTATAATATCTAATTATTTCCAATAGAGAATAAATGACCTCTCATGCCTTAAAGCAGTCAT
1 AAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGACAT
* * * *
181448 TTATTACTCCAATCGAAACGAAGAGATATCATTATTTCGTCTAAAAAATCAATATTGATTCGAGT
66 TTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTAAAAAATCAATATTGATTCGAGA
181513 G
131 G
* * *
181514 AAAATGATAATATATAATGATTTCCAATCGATAATAAATGACCTCTCATGCCTT-AAGCAGACAT
1 AAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGACAT
*
181578 TTATTACTCCAATCGAAATGAAGATATATCACTATTCCGTCGT-AAAAATCAATATTGATTCGAG
66 TTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTC-TAAAAAATCAATATTGATTCGAG
181642 AG
130 AG
* * * * *
181644 AAAACGATAATATCTAATTATTTGCAATCGAGAATAAATGATCACTTATGCCTTAAAGCA-ATCA
1 AAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGA-CA
* * * *
181708 CTTATTACTCCAACCGAAATGAAAAGATATTACTATT
65 TTTATTACTCCAATCGAAATGAAGAGATATCACTATT
181745 TTCAACATCG
Statistics
Matches: 204, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
130 115 0.56
131 89 0.44
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (131 bp):
AAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGACAT
TTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTAAAAAATCAATATTGATTCGAGA
G
Found at i:183758 original size:3 final size:3
Alignment explanation
Indices: 183750--183807 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
183740 CTGAAAAAAT
183750 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
183798 TAA TAA TAA T
1 TAA TAA TAA T
183808 GTCGAGACGG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:185191 original size:48 final size:49
Alignment explanation
Indices: 185101--185195 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 49
185091 TCTTTTAGGA
* * **
185101 TTAGATTTATTATTTTATTAGGAATTAAGATTGAGTTGAAACATTATTC
1 TTAGATTTACTATTTTATTAGGAATTAAGATTGAATCAAAACATTATTC
*
185150 TTAG-TTTACTATTTTATTAGGAATTATGATTGAATCAAAACATTAT
1 TTAGATTTACTATTTTATTAGGAATTAAGATTGAATCAAAACATTAT
185196 CTTTATTCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 37 0.90
49 4 0.10
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (49 bp):
TTAGATTTACTATTTTATTAGGAATTAAGATTGAATCAAAACATTATTC
Found at i:187901 original size:14 final size:14
Alignment explanation
Indices: 187882--187909 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
187872 AACCCGAACT
187882 GAGTCAACTCGTTC
1 GAGTCAACTCGTTC
187896 GAGTCAACTCGTTC
1 GAGTCAACTCGTTC
187910 ACTTTGATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (14 bp):
GAGTCAACTCGTTC
Found at i:193274 original size:18 final size:18
Alignment explanation
Indices: 193248--193288 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
193238 TAGGACAGCT
* *
193248 ATCTATCTATTATTCATC
1 ATCTTTCTAATATTCATC
*
193266 ATCTTTCTAATATTCATT
1 ATCTTTCTAATATTCATC
193284 ATCTT
1 ATCTT
193289 ATTTGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.54
Consensus pattern (18 bp):
ATCTTTCTAATATTCATC
Found at i:196631 original size:26 final size:26
Alignment explanation
Indices: 196592--196645 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
196582 ACCATTAAAT
*
196592 AAAAAATCTATTTTTAGAATAAATTG
1 AAAAAATATATTTTTAGAATAAATTG
*
196618 AAAAAATATGTTTTTAGAATAAATTG
1 AAAAAATATATTTTTAGAATAAATTG
196644 AA
1 AA
196646 CCGATGTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (26 bp):
AAAAAATATATTTTTAGAATAAATTG
Found at i:199312 original size:13 final size:13
Alignment explanation
Indices: 199294--199323 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
199284 GCAGCTTGGT
*
199294 GAGCCATTGAGCC
1 GAGCCACTGAGCC
199307 GAGCCACTGAGCC
1 GAGCCACTGAGCC
199320 GAGC
1 GAGC
199324 TAAACCACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.33, G:0.33, T:0.10
Consensus pattern (13 bp):
GAGCCACTGAGCC
Found at i:199331 original size:18 final size:18
Alignment explanation
Indices: 199310--199357 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
199300 TTGAGCCGAG
*
199310 CCACTGAGCCGAGCTAAA
1 CCACTGAGCCGAGCCAAA
* * *
199328 CCACTAAGTCGAGCCAAG
1 CCACTGAGCCGAGCCAAA
199346 CCGACTGAGCCG
1 CC-ACTGAGCCG
199358 TTGGTCATTG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.29, C:0.35, G:0.25, T:0.10
Consensus pattern (18 bp):
CCACTGAGCCGAGCCAAA
Found at i:201861 original size:31 final size:31
Alignment explanation
Indices: 201823--201898 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
201813 CTAATGTGAC
* * *
201823 TCTTGGGTAGGCTCTGCGGCCCCGAGATTAT
1 TCTTGGGTAGGCCCTGCAGCCCCGAGATCAT
*
201854 TCTTGGGTAGGCCCTGCAGCCCTGAGATCAT
1 TCTTGGGTAGGCCCTGCAGCCCCGAGATCAT
201885 TCTTGGGTAGGCCC
1 TCTTGGGTAGGCCC
201899 CGTGGCCTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.13, C:0.28, G:0.32, T:0.28
Consensus pattern (31 bp):
TCTTGGGTAGGCCCTGCAGCCCCGAGATCAT
Found at i:206059 original size:3 final size:3
Alignment explanation
Indices: 206053--206138 Score: 127
Period size: 3 Copynumber: 28.7 Consensus size: 3
206043 TTTTTATCCA
* ** *
206053 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
206101 TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
206139 ATTTATATTA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:206071 original size:12 final size:12
Alignment explanation
Indices: 206056--206149 Score: 97
Period size: 12 Copynumber: 8.0 Consensus size: 12
206046 TTATCCATAT
206056 TATTATTATTAA
1 TATTATTATTAA
206068 TATTATTATT-A
1 TATTATTATTAA
* *
206079 TCCTTATTATTAT
1 T-ATTATTATTAA
*
206092 TAATATTATT-A
1 TATTATTATTAA
*
206103 TCATTATTATTAT
1 T-ATTATTATTAA
*
206116 TATTATTATTAT
1 TATTATTATTAA
206128 TATTATTATTAA
1 TATTATTATTAA
206140 T-TTA-TATTAA
1 TATTATTATTAA
206150 ATATATTAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
10 6 0.09
11 6 0.09
12 56 0.80
13 2 0.03
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:207597 original size:13 final size:13
Alignment explanation
Indices: 207569--207603 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
207559 TTGTATTTTA
207569 TTATTAAATA-TT
1 TTATTAAATATTT
207581 TTATTAAATATTT
1 TTATTAAATATTT
207594 TTA-TAAATAT
1 TTATTAAATAT
207604 ATAATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTATTAAATATTT
Found at i:220233 original size:83 final size:83
Alignment explanation
Indices: 220088--220449 Score: 617
Period size: 83 Copynumber: 4.4 Consensus size: 83
220078 AGTTCAAACA
*
220088 TGAA-TTGGAAGATGAATTTGCCAAT-GCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
1 TGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGA
220151 TTGGACAGAATCAAGCAT
66 TTGGACAGAATCAAGCAT
* * *
220169 TGAATTTAGAAGATGAATGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
1 TGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGA
220234 TTGGACAGAATCAAGCAT
66 TTGGACAGAATCAAGCAT
220252 TGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGA
1 TGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGA
220317 TTGGACAGAATCAAGCAT
66 TTGGACAGAATCAAGCAT
220335 TGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTTCTTTAAGTTATCTGATCTG
1 TGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTG-TTCTTTAAGTTATCTGATCTG
*
220400 ATTGGACAGAATCAATCA-
65 ATTGGACAGAATCAAGCAT
*
220418 -GAATTTGGAAGATGAATGTGCTC-ATAGCATCT
1 TGAATTTGGAAGATGAATTTGC-CAATAGCATCT
220450 C
Statistics
Matches: 270, Mismatches: 7, Indels: 7
0.95 0.02 0.02
Matches are distributed among these distances:
81 4 0.01
82 48 0.18
83 180 0.67
84 38 0.14
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (83 bp):
TGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGA
TTGGACAGAATCAAGCAT
Done.