Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000466.1 Hibiscus syriacus cultivar Beakdansim tig00000863_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: 126160
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Found at i:3634 original size:26 final size:26
Alignment explanation
Indices: 3605--3669 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
3595 GAAAAAAGTG
* *
3605 AAAATGAATAAAAT-AAGGAAAATAA
1 AAAAAGAATAAAATAAAGCAAAATAA
*
3630 AAAAACAAATAAAATAAAGCAAAATAA
1 AAAAA-GAATAAAATAAAGCAAAATAA
*
3657 ATAAAGAATAAAA
1 AAAAAGAATAAAA
3670 AAGTTAGTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 4 0.12
26 15 0.45
27 14 0.42
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.14
Consensus pattern (26 bp):
AAAAAGAATAAAATAAAGCAAAATAA
Found at i:3670 original size:27 final size:26
Alignment explanation
Indices: 3605--3670 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 26
3595 GAAAAAAGTG
* *
3605 AAAATGAAT-AAAATAAGGAAAATAA
1 AAAAAGAATAAAAATAAGCAAAATAA
*
3630 AAAAACAA-ATAAAATAAAGCAAAATAA
1 AAAAAGAATA-AAAAT-AAGCAAAATAA
*
3657 ATAAAGAATAAAAA
1 AAAAAGAATAAAAA
3671 AGTTAGTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
25 6 0.19
26 5 0.16
27 20 0.62
28 1 0.03
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.14
Consensus pattern (26 bp):
AAAAAGAATAAAAATAAGCAAAATAA
Found at i:3731 original size:2 final size:2
Alignment explanation
Indices: 3726--3774 Score: 59
Period size: 2 Copynumber: 25.5 Consensus size: 2
3716 AGAAAAAAAG
*
3726 TA TA TA TA -A TA TA TA GTA -A TA -A TA TA AA 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
3766 TA TA TA TA T
1 TA TA TA TA T
3775 TAAAAAAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 3 0.07
2 36 0.88
3 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4142 original size:3 final size:3
Alignment explanation
Indices: 4020--4123 Score: 113
Period size: 3 Copynumber: 34.3 Consensus size: 3
4010 GTAGAATATG
* * * * *
4020 AAT AAT AAT AAT AAT AAT AAAT AA- AAGT AAG AGT AAG AGT ATAT AAA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AA-T AAT AAT AAT AAT A-AT AAT
*
4067 AAT -AG AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4114 AAT AAT AAT A
1 AAT AAT AAT A
4124 CAAAACTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
2 3 0.04
3 74 0.88
4 7 0.08
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:13273 original size:20 final size:21
Alignment explanation
Indices: 13235--13273 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13225 CATCAAGGTC
*
13235 TTTGTTGAGGCCATGAAATCT
1 TTTGTCGAGGCCATGAAATCT
13256 TTTGTCGAGGCCAT-AAAT
1 TTTGTCGAGGCCATGAAAT
13274 TCCTGCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (21 bp):
TTTGTCGAGGCCATGAAATCT
Found at i:14686 original size:19 final size:19
Alignment explanation
Indices: 14662--14711 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
14652 TAAGGGGGTA
14662 CATCGATGCACTCCTTATG
1 CATCGATGCACTCCTTATG
14681 CATCGATGCACTCCTTATG
1 CATCGATGCACTCCTTATG
14700 CATCGATGCACT
1 CATCGATGCACT
14712 ACTTGCATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (19 bp):
CATCGATGCACTCCTTATG
Found at i:18245 original size:2 final size:2
Alignment explanation
Indices: 18238--18280 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
18228 ATTTCATACT
18238 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
18280 T
1 T
18281 TCATTCTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19106 original size:20 final size:20
Alignment explanation
Indices: 19078--19115 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19068 TTCCCCTTGC
19078 AGTGCATCGATACATTCTAT
1 AGTGCATCGATACATTCTAT
* *
19098 AGTGTATCGATGCATTCT
1 AGTGCATCGATACATTCT
19116 TTAACATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAT
Found at i:20811 original size:20 final size:20
Alignment explanation
Indices: 20788--20852 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
20778 AGGGGGAACA
20788 GATTCCCCCTGGGGGGTATC
1 GATTCCCCCTGGGGGGTATC
* * *
20808 GATT-CCCC----AGGAATA
1 GATTCCCCCTGGGGGGTATC
20823 GATTCCCCCTGGGGGGTATC
1 GATTCCCCCTGGGGGGTATC
20843 GATTCCCCCT
1 GATTCCCCCT
20853 AAATAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
19 4 0.12
20 18 0.53
ACGTcount: A:0.15, C:0.32, G:0.28, T:0.25
Consensus pattern (20 bp):
GATTCCCCCTGGGGGGTATC
Found at i:20833 original size:35 final size:35
Alignment explanation
Indices: 20782--20850 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
20772 TTGTGCAGGG
20782 GGAACAGATTCCCCCTGGGGGGTATCGATTCCCCA
1 GGAACAGATTCCCCCTGGGGGGTATCGATTCCCCA
*
20817 GGAATAGATTCCCCCTGGGGGGTATCGATTCCCC
1 GGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
20851 CTAAATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.19, C:0.30, G:0.29, T:0.22
Consensus pattern (35 bp):
GGAACAGATTCCCCCTGGGGGGTATCGATTCCCCA
Found at i:21943 original size:24 final size:23
Alignment explanation
Indices: 21865--21952 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
21855 CAATCTTATA
* *
21865 TGGCACTACGGTGCAATTCTATG
1 TGGCACTTCGGTGCAATTCTACG
*
21888 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
21911 CGGTC-CTTCGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-C-AATTCTACG
21935 TGGCACTTCGGTGCAATT
1 TGGCACTTCGGTGCAATT
21953 TATATGAGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
22 1 0.02
23 34 0.63
24 18 0.33
25 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:23622 original size:23 final size:23
Alignment explanation
Indices: 23595--23638 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
23585 TTCTGGGCTA
* *
23595 GGGGAATCGGTACCCATTCAAGG
1 GGGGAACCGATACCCATTCAAGG
*
23618 GGGGAACCGATACCCCTTCAA
1 GGGGAACCGATACCCATTCAA
23639 ACGAACAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.16
Consensus pattern (23 bp):
GGGGAACCGATACCCATTCAAGG
Found at i:23711 original size:20 final size:22
Alignment explanation
Indices: 23666--23713 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
23656 GAATGTCATG
*
23666 AGGGAACCGATACCCCCATAGT
1 AGGGAACCGATACCCCCATAGA
*
23688 AGGGAACCGAT-CCCCCCTA-A
1 AGGGAACCGATACCCCCATAGA
23708 AGGGAA
1 AGGGAA
23714 ATTATAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 7 0.29
22 11 0.46
ACGTcount: A:0.33, C:0.31, G:0.25, T:0.10
Consensus pattern (22 bp):
AGGGAACCGATACCCCCATAGA
Found at i:28515 original size:23 final size:23
Alignment explanation
Indices: 28489--28532 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
28479 CAATCTTATA
28489 TGGCACTACGGTGCAATTCTAAG
1 TGGCACTACGGTGCAATTCTAAG
* *
28512 TGGCACTTCGGTGCATTTCTA
1 TGGCACTACGGTGCAATTCTA
28533 CGCAGTCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTAAG
Found at i:37113 original size:3 final size:3
Alignment explanation
Indices: 37105--37129 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37095 ACTATAGACT
37105 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
37130 AACCCAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:37384 original size:15 final size:14
Alignment explanation
Indices: 37355--37386 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
37345 AATGGACAGT
37355 AATCCCTGCAAAAA
1 AATCCCTGCAAAAA
*
37369 AATCCCTGCGAAAA
1 AATCCCTGCAAAAA
37383 AATC
1 AATC
37387 TCTGTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.28, G:0.09, T:0.16
Consensus pattern (14 bp):
AATCCCTGCAAAAA
Found at i:41939 original size:11 final size:11
Alignment explanation
Indices: 41923--41947 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
41913 CTTTTCGATG
41923 TTTTTCTCTTT
1 TTTTTCTCTTT
41934 TTTTTCTCTTT
1 TTTTTCTCTTT
41945 TTT
1 TTT
41948 CTCTTCTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCTCTTT
Found at i:41995 original size:17 final size:17
Alignment explanation
Indices: 41973--42008 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
41963 TTTATGTCTC
41973 TTTTTTGTTGTTTTTAT
1 TTTTTTGTTGTTTTTAT
*
41990 TTTTTTTTTGTTTTTAT
1 TTTTTTGTTGTTTTTAT
42007 TT
1 TT
42009 GCTCTGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.06, C:0.00, G:0.08, T:0.86
Consensus pattern (17 bp):
TTTTTTGTTGTTTTTAT
Found at i:42592 original size:12 final size:12
Alignment explanation
Indices: 42575--42602 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
42565 AAAATTAGTA
42575 AATACTAATAAT
1 AATACTAATAAT
42587 AATACTAATAAT
1 AATACTAATAAT
42599 AATA
1 AATA
42603 ATAAAAAAGA
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:0.07, G:0.00, T:0.32
Consensus pattern (12 bp):
AATACTAATAAT
Found at i:42981 original size:13 final size:13
Alignment explanation
Indices: 42963--42989 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42953 AATAGTAGAA
42963 CAGTCTTCATATG
1 CAGTCTTCATATG
42976 CAGTCTTCATATG
1 CAGTCTTCATATG
42989 C
1 C
42990 GCATCTGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:51646 original size:15 final size:15
Alignment explanation
Indices: 51626--51707 Score: 103
Period size: 15 Copynumber: 5.5 Consensus size: 15
51616 TTTCGGAAAA
* *
51626 TGAATTATTGGAGTT
1 TGAATTACTGGAATT
51641 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
51656 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
51671 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
51686 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
51700 TGAATTAC
1 TGAATTAC
51708 ATTTCTGGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
14 12 0.21
15 46 0.79
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.37
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:51671 original size:45 final size:44
Alignment explanation
Indices: 51620--51707 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 44
51610 TTGGTTTTTC
* * **
51620 GGAAAATGAATTATTGGAGTTTGAATTACTGGAATTTGAATTACT
1 GGAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACT
51665 GGAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GGAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
51708 ATTTCTGGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 14 0.36
45 25 0.64
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.34
Consensus pattern (44 bp):
GGAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACT
Found at i:51705 original size:29 final size:30
Alignment explanation
Indices: 51641--51707 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
51631 TATTGGAGTT
51641 TGAATTACTGGAATTTGAATTACTGGAAAA
1 TGAATTACTGGAATTTGAATTACTGGAAAA
51671 TGAATTACTGGAATTTGAATT-CTGGAAAA
1 TGAATTACTGGAATTTGAATTACTGGAAAA
51700 TGAATTAC
1 TGAATTAC
51708 ATTTCTGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 16 0.43
30 21 0.57
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.34
Consensus pattern (30 bp):
TGAATTACTGGAATTTGAATTACTGGAAAA
Found at i:51713 original size:20 final size:20
Alignment explanation
Indices: 51690--51739 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
51680 GGAATTTGAA
51690 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
51710 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
51730 TTTTGGAAAA
1 TTCTGGAAAA
51740 CATCTGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:51989 original size:27 final size:27
Alignment explanation
Indices: 51938--52017 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 27
51928 TTACTAAAAT
* *
51938 ATTATTGAAATATAAATAATATTATTC
1 ATTATTAAAATATAAAAAATATTATTC
**
51965 ATTATTAAATATATAAAAAATTTATTATAG
1 ATTATTAAA-ATATAAAAAA--TATTATTC
*
51995 ATTATTAAAATAAAATAAAATAT
1 ATTATTAAAATATAA-AAAATAT
52018 CTTATATTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 8 0.18
28 12 0.27
29 5 0.11
30 19 0.43
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (27 bp):
ATTATTAAAATATAAAAAATATTATTC
Found at i:52088 original size:21 final size:20
Alignment explanation
Indices: 52051--52104 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
52041 ATTTTATATA
*
52051 ATATTAAAAATA-TAT-AAT
1 ATATTATAAATATTATAAAT
52069 ATTATTATAAATATTAATAAAT
1 A-TATTATAAATATT-ATAAAT
*
52091 ATATTTTAAATATT
1 ATATTATAAATATT
52105 TTAATAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 10 0.33
20 1 0.03
21 14 0.47
22 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTATAAATATTATAAAT
Found at i:54171 original size:23 final size:23
Alignment explanation
Indices: 54136--54208 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
54126 ATACTTTACA
*
54136 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
54159 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
54182 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
54205 ATAT
1 ATAT
54209 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:54759 original size:183 final size:182
Alignment explanation
Indices: 54451--55055 Score: 1034
Period size: 183 Copynumber: 3.3 Consensus size: 182
54441 AATATATATG
*
54451 TCGACACATTTTTCTTCTAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAG
1 TCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAG
*
54516 GTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGGTTATATTACAAAATTATCTATT
66 GTTGTAGACCTATTCGCTCATAAAA-CAGTATATTTATACCGGTTATATTACAAAATTATCTATT
*
54581 ACATTATAATTCTTGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTA
130 ACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTA
*
54634 TCGACACATTTTTCTTTCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAG
1 TCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAG
*
54699 GTTGTAGACCTATTCGCTCATAAAACCAGTATATTTATATCGGTTATATTACAAAATTATCTATT
66 GTTGTAGACCTATTCGCTCATAAAA-CAGTATATTTATACCGGTTATATTACAAAATTATCTATT
54764 ACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTA
130 ACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTA
54817 TCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAG
1 TCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAG
*
54882 GTTGTAGACCTTTTCGCTCATAAAACAGGTATATTTATACCGGTTATATTACAAAATTATCTATT
66 GTTGTAGACCTATTCGCTCATAAAACA-GTATATTTATACCGGTTATATTACAAAATTATCTATT
** * * *
54947 ACATTATAATTCTGGGTTATGATGTTTTTTCAA--TCGACACTTTTTGAAAAGGTA
130 ACATTATAATTCTGGGTTCCGATG---TGTAAATGTCGACACTTTTTGACAAGGTA
*
55001 TCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAAAGT
1 TCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGT
55056 CTGAAAATTT
Statistics
Matches: 403, Mismatches: 15, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
182 2 0.00
183 323 0.80
184 74 0.18
186 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (182 bp):
TCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAG
GTTGTAGACCTATTCGCTCATAAAACAGTATATTTATACCGGTTATATTACAAAATTATCTATTA
CATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTA
Found at i:56308 original size:18 final size:18
Alignment explanation
Indices: 56281--56326 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
56271 GTTTGGATCA
* *
56281 TCATCATCATCATCATCG
1 TCATCTTCATCATCAGCG
* *
56299 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCAGCG
56317 TCATCTTCAT
1 TCATCTTCAT
56327 TGACCGCTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCAGCG
Found at i:56310 original size:12 final size:12
Alignment explanation
Indices: 56281--56326 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
56271 GTTTGGATCA
* *
56281 TCATCATCATCA
1 TCATCGTCATCT
56293 TCATCGTCATCT
1 TCATCGTCATCT
*
56305 TCATCGTCAGCT
1 TCATCGTCATCT
*
56317 TCATCTTCAT
1 TCATCGTCAT
56327 TGACCGCTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.39
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:58365 original size:200 final size:200
Alignment explanation
Indices: 57849--58589 Score: 1295
Period size: 200 Copynumber: 3.7 Consensus size: 200
57839 TTATATACCA
*
57849 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAAAAATTACCTATTACATTATACTT
*
57914 ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCC
66 ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
*
57979 TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAAGTGTCGACACATTATTT
131 TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT-ACAAAAGTGTCGACACATTATTT
58044 AGACCT
195 AGACCT
* * *
58050 ATTCTCTCATAAAACTGGTATACTTGTACCAATTATATTGAAAAATTACCTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAAAAATTACCTATTACATTATACTT
*
58115 ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCC
66 ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
* * *
58180 TGTTTGCCATTCATTTTGTACCAAAAATATCGACACAAACTACAAAAGTGTCGACATATTATTTA
131 TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTA
58245 GACCT
196 GACCT
*
58250 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACAC-ATTACATTATACT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAAAAATTAC-CTATTACATTATACT
*
58314 TTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACC
65 TATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACC
*
58379 CTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGATACATTATTT
130 CTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTT
*
58444 AGACAT
195 AGACCT
*
58450 ATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAAAAATAACCTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAAAAATTACCTATTACATTATACTT
* * *
58515 TTGGGTTTCGATGTTTGTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCA
66 ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
58580 TGTTTGCCAT
131 TGTTTGCCAT
58590 ATTGTAAATT
Statistics
Matches: 515, Mismatches: 23, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
199 1 0.00
200 348 0.68
201 166 0.32
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
ATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAAAAATTACCTATTACATTATACTT
ATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTA
GACCT
Found at i:58713 original size:18 final size:18
Alignment explanation
Indices: 58690--58750 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
58680 TCTCATTCAT
*
58690 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
58708 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
58727 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
58746 AATTA
1 AATTA
58751 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:58726 original size:19 final size:19
Alignment explanation
Indices: 58702--58750 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
58692 TTATATTCAC
58702 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
58721 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
58740 ATACAAAATTA
1 ATACAAAATTA
58751 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:59828 original size:20 final size:20
Alignment explanation
Indices: 59801--59867 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
59791 TCTGGTAACG
*
59801 TTTTACCGGCTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
59820 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
59841 TTTTACCGGTTTTATCATAT
1 TTTTACCGGTTTTATCATAT
59861 TTTTACC
1 TTTTACC
59868 TGGTATATCG
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
19 2 0.04
20 40 0.89
21 3 0.07
ACGTcount: A:0.18, C:0.18, G:0.10, T:0.54
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:59876 original size:20 final size:20
Alignment explanation
Indices: 59801--59876 Score: 86
Period size: 20 Copynumber: 3.8 Consensus size: 20
59791 TCTGGTAACG
59801 TTTTACCGGCTT-TATCAT-T
1 TTTTACCGG-TTATATCATAT
*
59820 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTATATCATAT
*
59841 TTTTACCGGTTTTATCATAT
1 TTTTACCGGTTATATCATAT
59861 TTTTACCTGG-TATATC
1 TTTTACC-GGTTATATC
59877 GTTTTGGATC
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
19 4 0.08
20 43 0.83
21 5 0.10
ACGTcount: A:0.18, C:0.17, G:0.12, T:0.53
Consensus pattern (20 bp):
TTTTACCGGTTATATCATAT
Found at i:59967 original size:201 final size:202
Alignment explanation
Indices: 59622--60058 Score: 619
Period size: 201 Copynumber: 2.2 Consensus size: 202
59612 CGGTATCATT
* * *
59622 TTACCGGTTTTATCAT-TTTGATACTGGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATC
1 TTACCGGTTTTATCATATTT-TTACCGGTTTTATCATATTTTTACCTGGTATATCGTTGTGGATC
* *
59686 GATATATTTTTTTAAAGTATCGACACATTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAA
65 GATATATTTTTTAAAAGTATCGACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAA
* * * *
59751 AGTGTCGATCCTTATA-TAAAGTATCGACACTTTCAATATATCTGGTAACGTTTTACCGGCTTTA
130 AGTGTCGATCCTTATATTAAAGTACCGACACTTTAAATATATCCGGTAACGCTTTACCGGCTTTA
**
59815 TCATTTTG
195 TCATTTCA
*
59823 TTACCGGTTTTATCATATTTTTACCGGTTTTATCATATTTTTACCTGGTATATCGTTTTGGATCG
1 TTACCGGTTTTATCATATTTTTACCGGTTTTATCATATTTTTACCTGGTATATCGTTGTGGATCG
* **
59888 ATATATTTTTTAAAAGTATCGACACTTTATAGGATTTAAAACTGCTTCTCTTTTAAATTCACGAA
66 ATATATTTTTTAAAAGTATCGACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCAC-AA
* * *
59953 A-TGTCGATCCTTATATTAAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTA
130 AGTGTCGATCCTTATATTAAAGTACCGACACTTTAAATATATCCGGTAACGCTTTACCGGCTTTA
60017 TCATTTCA
195 TCATTTCA
* * * * * *
60025 ATACAGGTTTTGTCATAGTTTTACCTGTTATATC
1 TTACCGGTTTTATCATATTTTTACCGGTTTTATC
60059 GTTTTGGATC
Statistics
Matches: 209, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
201 128 0.61
202 81 0.39
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (202 bp):
TTACCGGTTTTATCATATTTTTACCGGTTTTATCATATTTTTACCTGGTATATCGTTGTGGATCG
ATATATTTTTTAAAAGTATCGACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAA
GTGTCGATCCTTATATTAAAGTACCGACACTTTAAATATATCCGGTAACGCTTTACCGGCTTTAT
CATTTCA
Found at i:61369 original size:22 final size:23
Alignment explanation
Indices: 61343--61385 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
61333 AAAGTTAAAA
61343 TTAATTCTTTAAATTT-ATATAT
1 TTAATTCTTTAAATTTCATATAT
* *
61365 TTAATTTTTTATATTTCATAT
1 TTAATTCTTTAAATTTCATAT
61386 TTGTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (23 bp):
TTAATTCTTTAAATTTCATATAT
Found at i:62948 original size:6 final size:6
Alignment explanation
Indices: 62937--63014 Score: 156
Period size: 6 Copynumber: 13.0 Consensus size: 6
62927 TCATGTTGTC
62937 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
62985 ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT
63015 GTTATGTATG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 72 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:67538 original size:6 final size:6
Alignment explanation
Indices: 67527--68168 Score: 1229
Period size: 6 Copynumber: 107.3 Consensus size: 6
67517 TTCGTCAACA
67527 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
67575 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
*
67623 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGTGT ATGTGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATA--TGT ATATGT
67673 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
67721 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
67769 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
67817 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
67865 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
67913 ATATGT ATATGT ATATGT ATATGT ATATGT ATATG- -TATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
67959 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
68007 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATG- -TATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
68053 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
68101 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
68149 ATATGT ATATGT ATATGT AT
1 ATATGT ATATGT ATATGT AT
68169 GAGTGTTTAT
Statistics
Matches: 628, Mismatches: 2, Indels: 12
0.98 0.00 0.02
Matches are distributed among these distances:
4 8 0.01
6 615 0.98
8 5 0.01
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:74150 original size:43 final size:43
Alignment explanation
Indices: 74089--74176 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
74079 AAAAATTAGA
74089 GGTCATCAAATCATAATGGACGAGTACAAACTATACTTTTGGG
1 GGTCATCAAATCATAATGGACGAGTACAAACTATACTTTTGGG
**
74132 GGTCATCAAATCATAATGGGTGAGTACAAACTATACTTTTGGG
1 GGTCATCAAATCATAATGGACGAGTACAAACTATACTTTTGGG
74175 GG
1 GG
74177 AGTTAATTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (43 bp):
GGTCATCAAATCATAATGGACGAGTACAAACTATACTTTTGGG
Found at i:75537 original size:12 final size:14
Alignment explanation
Indices: 75505--75535 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
75495 CCCATATATA
75505 TATATTTTTTTAAT
1 TATATTTTTTTAAT
*
75519 TATATTTTTTTATT
1 TATATTTTTTTAAT
75533 TAT
1 TAT
75536 TTACTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATATTTTTTTAAT
Found at i:75571 original size:14 final size:14
Alignment explanation
Indices: 75552--75591 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
75542 TATTCCTTTT
75552 TTATTTATATTATA
1 TTATTTATATTATA
*
75566 TTATTTTTATTATA
1 TTATTTATATTATA
75580 TATATCTTATAT
1 T-TAT-TTATAT
75592 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:75614 original size:19 final size:19
Alignment explanation
Indices: 75574--75615 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
75564 TATTATTTTT
*
75574 ATTATATATATCTTATATC
1 ATTATATATATCATATATC
75593 ATTATATATAT-ATATATGC
1 ATTATATATATCATATAT-C
75612 ATTA
1 ATTA
75616 ATTTTTCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTATATATATCATATATC
Found at i:75894 original size:18 final size:17
Alignment explanation
Indices: 75867--75900 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
75857 TTTTTATTCA
75867 TTTTTAATTTCTTTTACC
1 TTTTTAATTT-TTTTACC
*
75885 TTTTTTATTTTTTTAC
1 TTTTTAATTTTTTTAC
75901 TCCATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTAATTTTTTTACC
Found at i:75898 original size:17 final size:17
Alignment explanation
Indices: 75854--75900 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
75844 TATGTACATA
75854 TTATTTTTATT-CATTTT
1 TTATTTTT-TTACATTTT
* *
75871 TAATTTCTTTTACCTTTT
1 TTATTT-TTTTACATTTT
75889 TTATTTTTTTAC
1 TTATTTTTTTAC
75901 TCCATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTTTTACATTTT
Found at i:79132 original size:10 final size:9
Alignment explanation
Indices: 79111--79161 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
79101 CAATCGGAAC
79111 AAAAAGAGA
1 AAAAAGAGA
79120 AAAAAGAGA
1 AAAAAGAGA
*
79129 AAAAA-AGC
1 AAAAAGAGA
* *
79137 AAAGAGAAAA
1 AAAAAG-AGA
79147 TAAAAAGAGA
1 -AAAAAGAGA
79157 AAAAA
1 AAAAA
79162 CAAAGGAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
8 6 0.18
9 19 0.58
10 3 0.09
11 5 0.15
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (9 bp):
AAAAAGAGA
Found at i:79151 original size:28 final size:25
Alignment explanation
Indices: 79120--79172 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 25
79110 CAAAAAGAGA
79120 AAAAAGAGAAAAAAAGCAAAGAGAAAAT
1 AAAAAGAG-AAAAAA-CAAAG-GAAAAT
79148 AAAAAGAGAAAAAACAAAGGAAAAT
1 AAAAAGAGAAAAAACAAAGGAAAAT
79173 TGAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.24
26 5 0.20
27 6 0.24
28 8 0.32
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (25 bp):
AAAAAGAGAAAAAACAAAGGAAAAT
Found at i:79153 original size:13 final size:14
Alignment explanation
Indices: 79122--79172 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 14
79112 AAAAGAGAAA
*
79122 AAAGAGAAAAAAAGC
1 AAAGAGAAAATAA-C
79137 AAAGAGAAAATAA-
1 AAAGAGAAAATAAC
79150 AAAGAGAAAA-AAC
1 AAAGAGAAAATAAC
79163 AAAG-GAAAAT
1 AAAGAGAAAAT
79173 TGAAGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 7 0.21
13 14 0.42
15 12 0.36
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAGAAAATAAC
Found at i:79159 original size:26 final size:26
Alignment explanation
Indices: 79113--79172 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
79103 ATCGGAACAA
* *
79113 AAAGAG-AAA-AAAGAGAAAAAAAGC
1 AAAGAGAAAATAAAAAGAAAAAAAAC
*
79137 AAAGAGAAAATAAAAAGAGAAAAAAC
1 AAAGAGAAAATAAAAAGAAAAAAAAC
79163 AAAG-GAAAAT
1 AAAGAGAAAAT
79173 TGAAGAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 9 0.29
26 16 0.52
ACGTcount: A:0.75, C:0.03, G:0.18, T:0.03
Consensus pattern (26 bp):
AAAGAGAAAATAAAAAGAAAAAAAAC
Found at i:80879 original size:37 final size:37
Alignment explanation
Indices: 80827--80898 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
80817 TAAAAAGAAG
* *
80827 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAA
1 ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACAAA
* *
80864 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACA
80899 TAAACATTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:80967 original size:36 final size:36
Alignment explanation
Indices: 80914--81001 Score: 158
Period size: 36 Copynumber: 2.4 Consensus size: 36
80904 ATTGAAAACA
*
80914 TTTCCCTTGAAATAAATTTCGTCTCTCTTAAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTAAGACAG
*
80950 TTTCTCTTGAAACAAATTTCGTCTCTCTTAAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTAAGACAG
80986 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
81002 ATCTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTAAGACAG
Found at i:81032 original size:101 final size:101
Alignment explanation
Indices: 80846--81064 Score: 269
Period size: 101 Copynumber: 2.2 Consensus size: 101
80836 CGCTTGAGAT
* * * *
80846 AGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAA
1 AGTTTCTCTTGAAAC-AAATTTCGTCTCCCTTAAGACAGTTTCCCTTGAAACATAAACATTGAAA
* * * *
80911 ACATTTCCCTTGAAATAAATTTCGTCTCTCTTAAGAC
65 ACATTTCCCCTAAAACAAATTTCGTCTCCCTTAAGAC
* * *
80948 AGTTTCTCTTGAAACAAATTTCGTCTCTCTTAAGACAGTTTCCCTTGAAACA-AAATCTTTGAAT
1 AGTTTCTCTTGAAACAAATTTCGTCTCCCTTAAGACAGTTTCCCTTGAAACATAAA-CATTGAAA
** * *
81012 TTATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGAC
65 ACATTTCCCCTAAAACAAATTTCGTCTCCCTTAAGAC
*
81049 ATTTTCTCTTGAAACA
1 AGTTTCTCTTGAAACA
81065 CAAAATCTTC
Statistics
Matches: 100, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
100 3 0.03
101 83 0.83
102 14 0.14
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (101 bp):
AGTTTCTCTTGAAACAAATTTCGTCTCCCTTAAGACAGTTTCCCTTGAAACATAAACATTGAAAA
CATTTCCCCTAAAACAAATTTCGTCTCCCTTAAGAC
Found at i:81095 original size:67 final size:65
Alignment explanation
Indices: 80950--81121 Score: 200
Period size: 65 Copynumber: 2.6 Consensus size: 65
80940 CTTAAGACAG
* * * * * **
80950 TTTCTCTTGAAACAAATTTCGTCTCTCTTAAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTA
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATCTTCAAATTTA
* * *
81015 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACATTTTCTCTTGAAACACAAAATCTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTCAAATT
81080 TA
64 TA
* * *
81082 TTTCCCTTAAAACAAAATTTTGTTTCCATTGAGACTGTTT
1 TTTCCCTTAAAAC-AAATTTTGTCTCCCTTGAGACAGTTT
81122 TCATGAAACA
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
65 37 0.42
66 2 0.02
67 28 0.31
68 22 0.25
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (65 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATCTTCAAATTTA
Found at i:81129 original size:67 final size:67
Alignment explanation
Indices: 80959--81131 Score: 185
Period size: 67 Copynumber: 2.6 Consensus size: 67
80949 GTTTCTCTTG
* * * * * **
80959 AAACAAATTTCGTCTCTC-TTAAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCC
1 AAACAAATTTTGTCTC-CATTGAGACATTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCC
81021 CTA
65 CTA
* * *
81024 AAACAAATTTTGTCTCCCTTGAGACATTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCATTGAGACATTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
81089 TA
66 TA
*
81091 AAACAAAATTTTGTTTCCATTGAGAC-TGTTT-TCATGAAACA
1 AAAC-AAATTTTGTCTCCATTGAGACAT-TTTCTCATGAAACA
81132 ACAGATATCT
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
64 1 0.01
65 30 0.32
66 2 0.02
67 38 0.41
68 22 0.24
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.38
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCATTGAGACATTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:82049 original size:110 final size:110
Alignment explanation
Indices: 81856--82054 Score: 312
Period size: 110 Copynumber: 1.8 Consensus size: 110
81846 GTTTCAGAGC
*
81856 CAATTTTAACTTCACAGCGAGGAATATTAGACTCAAGACAACACAAGCTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAGCGAGGAATATTAGACTCAAGACAACACAAGCTCAACTTCACAACGAAG
*
81921 GGGCGACTGATTGTCAACAAACAACTTTTTAGTTTCATTCAAAGT
66 GGGCGACTGACTGTCAACAAACAACTTTTTAGTTTCATTCAAAGT
* *
81966 CAATTTCAACTTCACAGCGAAGG-ATATT-GAACTCGAGACAACACAAGCTCAACTTCACAGCGA
1 CAATTTCAACTTCACAGCG-AGGAATATTAG-ACTCAAGACAACACAAGCTCAACTTCACAACGA
* *
82029 AGGGGCGGCTGGCTGTCAACAAACAA
64 AGGGGCGACTGACTGTCAACAAACAA
82055 TTTCCCAGTT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
109 1 0.01
110 77 0.95
111 3 0.04
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.22
Consensus pattern (110 bp):
CAATTTCAACTTCACAGCGAGGAATATTAGACTCAAGACAACACAAGCTCAACTTCACAACGAAG
GGGCGACTGACTGTCAACAAACAACTTTTTAGTTTCATTCAAAGT
Found at i:83443 original size:16 final size:16
Alignment explanation
Indices: 83422--83517 Score: 68
Period size: 19 Copynumber: 5.6 Consensus size: 16
83412 TCGTCCCCTA
83422 TATATATATTTTTAAT
1 TATATATATTTTTAAT
83438 TATATATATTTTT-AT
1 TATATATATTTTTAAT
* * *
83453 TATATTCCTTTTTTTATT
1 TATA-T-ATATTTTTAAT
*
83471 TATATTATATTATTTTTAT
1 TATA-TATA-T-TTTTAAT
*
83490 TATATATATCTTATATCAT
1 TATATATAT-TT-T-TAAT
83509 TATATATAT
1 TATATATAT
83518 ATATATATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
15 6 0.09
16 14 0.22
17 10 0.16
18 13 0.20
19 21 0.33
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATATATTTTTAAT
Found at i:83483 original size:14 final size:14
Alignment explanation
Indices: 83466--83505 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
83456 ATTCCTTTTT
83466 TTATTTATATTATA
1 TTATTTATATTATA
*
83480 TTATTTTTATTATA
1 TTATTTATATTATA
83494 TATATCTTATAT
1 T-TAT-TTATAT
83506 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:83487 original size:23 final size:23
Alignment explanation
Indices: 83444--83498 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
83434 TAATTATATA
* * *
83444 TATTTTTATTATATTCCTTTTTT
1 TATTTATATTATATTACTTTTAT
*
83467 TATTTATATTATATTATTTTTAT
1 TATTTATATTATATTACTTTTAT
*
83490 TATATATAT
1 TATTTATAT
83499 CTTATATCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTTATATTATATTACTTTTAT
Found at i:83497 original size:2 final size:2
Alignment explanation
Indices: 83490--83586 Score: 78
Period size: 2 Copynumber: 49.5 Consensus size: 2
83480 TTATTTTTAT
*
83490 TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
83531 TG TA T- TA -A TT TT TC T- TCA TT TA CTA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA -TA TA TA TA TA TA TA TA TA
83572 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
83587 TCTTAATATT
Statistics
Matches: 80, Mismatches: 7, Indels: 16
0.78 0.07 0.16
Matches are distributed among these distances:
1 5 0.06
2 70 0.88
3 5 0.06
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (2 bp):
TA
Found at i:83622 original size:12 final size:12
Alignment explanation
Indices: 83471--83678 Score: 70
Period size: 12 Copynumber: 16.9 Consensus size: 12
83461 TTTTTTTATT
83471 TATA-TTATAT-
1 TATATTTATATA
*
83481 TATTTTTATTATA
1 TATATTTA-TATA
83494 TATATCTTATATCA
1 TATAT-TTATAT-A
*
83508 T-TATATATATA
1 TATATTTATATA
*
83519 TATATATATATA
1 TATATTTATATA
* * * *
83531 TGTATTAATTTT
1 TATATTTATATA
*
83543 TCTTCATTTACTATA
1 T-AT-ATTTA-TATA
*
83558 TATATATATATA
1 TATATTTATATA
*
83570 TATATATATATA
1 TATATTTATATA
83582 TATATTCT-TA-A
1 TATATT-TATATA
83593 TATTATTT-TATA
1 TA-TATTTATATA
** *
83605 CGTTTTTATATA
1 TATATTTATATA
* *
83617 TATTTTTTCTCAATA
1 TA-TATTTAT--ATA
* * * *
83632 TTCTATTTTTGTT
1 -TATATTTATATA
*
83645 TTTATTTATATA
1 TATATTTATATA
*
83657 TATATATATATA
1 TATATTTATATA
83669 TATA-TTATAT
1 TATATTTATAT
83679 TTTTACTTTA
Statistics
Matches: 148, Mismatches: 33, Indels: 33
0.69 0.15 0.15
Matches are distributed among these distances:
10 3 0.02
11 20 0.14
12 80 0.54
13 23 0.16
14 10 0.07
15 11 0.07
16 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (12 bp):
TATATTTATATA
Found at i:83639 original size:39 final size:34
Alignment explanation
Indices: 83574--83659 Score: 91
Period size: 37 Copynumber: 2.4 Consensus size: 34
83564 TATATATATA
*
83574 TATATATATATATTCTTAATATTATTTTATACGTTTT
1 TATATATATATATTCTCAATATTATTTT-T--GTTTT
* *
83611 TATATATATTTTTTCTCAATATTCTATTTTTGTTTT
1 TATATATATATATTCTCAATA-T-TATTTTTGTTTT
*
83647 TATTTATATATAT
1 TATATATATATAT
83660 ATATATATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
36 15 0.37
37 18 0.44
38 2 0.05
39 6 0.15
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (34 bp):
TATATATATATATTCTCAATATTATTTTTGTTTT
Found at i:83818 original size:10 final size:9
Alignment explanation
Indices: 83803--83846 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
83793 GTACACATTA
83803 TTTTTATTT
1 TTTTTATTT
83812 CTTTTTAATTT
1 -TTTTT-ATTT
**
83823 TTTTTACCT
1 TTTTTATTT
83832 TTTTTATTT
1 TTTTTATTT
83841 TTTTTA
1 TTTTTA
83847 CTCCATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 15 0.52
10 10 0.34
11 4 0.14
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTATTT
Found at i:83824 original size:18 final size:18
Alignment explanation
Indices: 83812--83847 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
83802 ATTTTTATTT
83812 CTTTTTAATTTTTTTTAC
1 CTTTTTAATTTTTTTTAC
*
83830 CTTTTTTATTTTTTTTAC
1 CTTTTTAATTTTTTTTAC
83848 TCCATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (18 bp):
CTTTTTAATTTTTTTTAC
Found at i:83931 original size:19 final size:17
Alignment explanation
Indices: 83900--83958 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 17
83890 ATTTTATTCA
*
83900 TTTTGTTTA-TTTTTAT
1 TTTTTTTTATTTTTTAT
83916 TTTTTTAATTATTTTTTACGT
1 TTTTTT--TTATTTTTTA--T
*
83937 GTTTTTTTATTTTTTAT
1 TTTTTTTTATTTTTTAT
83954 TTTTT
1 TTTTT
83959 CTTGTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
16 5 0.14
17 5 0.14
18 3 0.09
19 16 0.46
21 6 0.17
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTTTTTTATTTTTTAT
Found at i:83943 original size:25 final size:25
Alignment explanation
Indices: 83915--83974 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
83905 TTTATTTTTA
83915 TTTTT-TTAATTATTTTTTACGTGTT
1 TTTTTATTAATTATTTTTT-CGTGTT
** *
83940 TTTTTATTTTTTATTTTTTCTTGTT
1 TTTTTATTAATTATTTTTTCGTGTT
83965 TTATTTATTA
1 TT-TTTATTA
83975 TTCTCACATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (25 bp):
TTTTTATTAATTATTTTTTCGTGTT
Found at i:89066 original size:2 final size:2
Alignment explanation
Indices: 89059--89083 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
89049 ATAAATTTTG
89059 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 A
89084 AATTACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89437 original size:2 final size:2
Alignment explanation
Indices: 89430--89459 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
89420 TAATTAAATC
89430 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
89460 TTGATTTACT
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:91030 original size:21 final size:21
Alignment explanation
Indices: 90913--91050 Score: 59
Period size: 21 Copynumber: 6.7 Consensus size: 21
90903 ACGCGAAATA
**
90913 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
90933 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
90953 AAAATCGCAACGCGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* * ** *
90974 AAAATCGCGATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* * **
90995 ATATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * * *
91016 ATAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
91036 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
91051 ACACATAAAT
Statistics
Matches: 85, Mismatches: 29, Indels: 8
0.70 0.24 0.07
Matches are distributed among these distances:
19 1 0.01
20 38 0.45
21 44 0.52
22 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:91112 original size:20 final size:20
Alignment explanation
Indices: 91018--91386 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
91008 GATTTTCCAT
* ** *
91018 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
91038 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
91058 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
91078 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
91098 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
91118 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
91138 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
91158 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
91178 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
91198 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
91218 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
91238 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
91258 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
91278 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
91298 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
91318 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
91338 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
91358 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
91378 AATCACAAC
1 AATCGCAAC
91387 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:92108 original size:24 final size:24
Alignment explanation
Indices: 92069--92115 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
92059 AAATTTGGTC
92069 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
92093 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
92116 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:92307 original size:12 final size:12
Alignment explanation
Indices: 92290--92314 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92280 ATATAATCCT
92290 GAAGAAGAAAAA
1 GAAGAAGAAAAA
92302 GAAGAAGAAAAA
1 GAAGAAGAAAAA
92314 G
1 G
92315 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:94646 original size:20 final size:19
Alignment explanation
Indices: 94595--94695 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 19
94585 CGGAAAATAC
*
94595 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
94614 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
94628 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
94648 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
94662 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
94681 AATCGCAATGCGAAA
1 AATCGCAATGCGAAA
94696 CTCTCGTTGC
Statistics
Matches: 67, Mismatches: 4, Indels: 22
0.72 0.04 0.24
Matches are distributed among these distances:
14 22 0.33
15 1 0.01
16 3 0.04
17 2 0.03
18 2 0.03
19 24 0.36
20 13 0.19
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:94682 original size:33 final size:33
Alignment explanation
Indices: 94595--94688 Score: 136
Period size: 34 Copynumber: 2.8 Consensus size: 33
94585 CGGAAAATAC
* *
94595 AATCGCAACGCGAAATGAAAATCCCAACATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACATGAA
*
94628 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAAC-ATGAA
94662 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
94689 TGCGAAACTC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
33 26 0.46
34 29 0.52
35 1 0.02
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACATGAA
Found at i:94726 original size:19 final size:19
Alignment explanation
Indices: 94702--94746 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
94692 GAAACTCTCG
94702 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
94721 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
94740 TTGCGAT
1 TTGCGAT
94747 AGTCATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:94752 original size:19 final size:19
Alignment explanation
Indices: 94711--94754 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
94701 GTTGCGATTT
**
94711 TCATTTCGCATTGCGATTT
1 TCATTTCGCATTGCGATAG
94730 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
94749 TCATTT
1 TCATTT
94755 TTGCCTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:94872 original size:14 final size:14
Alignment explanation
Indices: 94853--94889 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
94843 CATCAATTAC
94853 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
94867 ACAAATCATCTTTT
1 ACAAATCAACTTTT
94881 ACAAATCAA
1 ACAAATCAA
94890 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:96896 original size:33 final size:33
Alignment explanation
Indices: 96850--96942 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
96840 GCGAAACCAA
* *
96850 AATCGCAACGCGAAATTAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
* *
96883 AATCGTAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
96916 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
96943 TGCGATTTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.13
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:96921 original size:14 final size:14
Alignment explanation
Indices: 96869--96925 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
96859 GCGAAATTAA
*
96869 AATCGCAACGACAG
1 AATCGCAACGAAAG
*
96883 AATCGTAATGCGAAATG
1 AATCGCAA--CGAAA-G
96900 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
96916 AATCGCAACG
1 AATCGCAACG
96926 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 17 0.49
16 5 0.14
17 6 0.17
19 7 0.20
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:96940 original size:19 final size:19
Alignment explanation
Indices: 96813--96947 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
96803 TAGTTTACTT
* *
96813 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
96833 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
96852 TCGCAACGCGAAATTAAAA
1 TCGCAACGCGAAATGAAAA
*
96871 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
* *
96885 TCGTAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
96904 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
96918 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
96937 TCGCAATGCGA
1 TCGCAACGCGA
96948 TTTTGGTTTC
Statistics
Matches: 94, Mismatches: 11, Indels: 21
0.75 0.09 0.17
Matches are distributed among these distances:
14 15 0.16
16 10 0.11
17 11 0.12
19 46 0.49
20 12 0.13
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:96965 original size:19 final size:19
Alignment explanation
Indices: 96943--97071 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
96933 AAAATCGCAA
96943 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
96962 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
96976 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
96995 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
97009 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
97028 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
97047 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
97067 TGCGA
1 TGCGA
97072 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:96985 original size:33 final size:33
Alignment explanation
Indices: 96943--97034 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
96933 AAAATCGCAA
96943 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
96976 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
97009 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
97035 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:97498 original size:92 final size:93
Alignment explanation
Indices: 97115--97679 Score: 1107
Period size: 93 Copynumber: 6.1 Consensus size: 93
97105 TTGAATGGAT
97115 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
97180 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
97208 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
97273 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
97301 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
97366 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
97394 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
97458 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
97486 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
97550 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
97578 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
97643 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
97671 AAATTTACT
1 AAATTTACT
97680 AAGCAATCTA
Statistics
Matches: 470, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
92 184 0.39
93 286 0.61
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:97624 original size:185 final size:186
Alignment explanation
Indices: 97115--97679 Score: 1107
Period size: 185 Copynumber: 3.0 Consensus size: 186
97105 TTGAATGGAT
97115 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
97180 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
97245 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
97301 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
97366 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
97431 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
97486 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
97550 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
97615 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
97671 AAATTTACT
1 AAATTTACT
97680 AAGCAATCTA
Statistics
Matches: 377, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
184 92 0.24
185 153 0.41
186 132 0.35
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:99405 original size:14 final size:14
Alignment explanation
Indices: 99386--99475 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
99376 TTGAAATGAA
99386 AATCGCAACGAGAG
1 AATCGCAACGAGAG
99400 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
99417 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
99433 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
99452 AATCGCAACGAGAG
1 AATCGCAACGAGAG
99466 AATCGCAACG
1 AATCGCAACG
99476 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:99423 original size:33 final size:33
Alignment explanation
Indices: 99378--99492 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
99368 TCTTTTGGTT
99378 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
99411 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
99444 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
99477 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
99493 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:99424 original size:19 final size:18
Alignment explanation
Indices: 99385--99497 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
99375 GTTGAAATGA
99385 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
99400 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
99417 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
99433 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
99450 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
99466 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
99483 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
99498 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:99541 original size:33 final size:33
Alignment explanation
Indices: 99493--99563 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
99483 AAAATCGCAA
**
99493 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
99526 TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
99559 TGCGA
1 TGCGA
99564 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.10, C:0.21, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
Found at i:99726 original size:33 final size:33
Alignment explanation
Indices: 99684--99754 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
99674 AATACTAACT
*
99684 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
99717 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
99750 TGAAA
1 TGAAA
99755 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:99988 original size:22 final size:22
Alignment explanation
Indices: 99936--99990 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
99926 TGGTTGTGAG
**
99936 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
99958 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
99980 GGATTTCTTCG
1 GGATTTCTTCG
99991 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:100161 original size:20 final size:20
Alignment explanation
Indices: 100136--100328 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
100126 CTTTAAATAT
100136 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
100156 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
100178 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
100197 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
100217 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
100237 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
100257 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
100277 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
100297 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
100317 CGCGTTGCGATT
1 CGCGTTGCGATT
100329 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:100323 original size:60 final size:60
Alignment explanation
Indices: 100136--100328 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
100126 CTTTAAATAT
**
100136 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
100197 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
100257 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
100317 CGCGTTGCGATT
1 CGCGTTGCGATT
100329 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:100409 original size:20 final size:20
Alignment explanation
Indices: 100384--100435 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
100374 AAGAATCGCG
*
100384 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
100404 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
100424 TTGCGATTCTGG
1 TTGCGATTCTGG
100436 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:102162 original size:22 final size:24
Alignment explanation
Indices: 102134--102179 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
102124 TAATATGATA
*
102134 ATTAAAAGTT-AATA-TTTAATAT
1 ATTAAAAATTAAATATTTTAATAT
102156 ATTAAAAATTAAATATTTTAATAT
1 ATTAAAAATTAAATATTTTAATAT
102180 GTTATCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 4 0.19
24 8 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
ATTAAAAATTAAATATTTTAATAT
Found at i:120024 original size:22 final size:22
Alignment explanation
Indices: 119976--120036 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
119966 ATATGAAATT
119976 TGTCCCGAATGACCTCA--TATA
1 TGTCCCGAATGACCT-ATGTATA
* *
119997 TATCCCGAAAGACCTATGTATA
1 TGTCCCGAATGACCTATGTATA
120019 TGTCCCGAATGACCTATG
1 TGTCCCGAATGACCTATG
120037 CAACCTTCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.03
21 13 0.38
22 20 0.59
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (22 bp):
TGTCCCGAATGACCTATGTATA
Found at i:125345 original size:22 final size:22
Alignment explanation
Indices: 125301--125341 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
125291 TCGGTACCCC
*
125301 TACTATGATATCGATACTTCTT
1 TACTATGATATCGATACTCCTT
*
125323 TACTATGGTAT-GATACTCC
1 TACTATGATATCGATACTCC
125342 CTTTCAGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (22 bp):
TACTATGATATCGATACTCCTT
Done.