Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002495.1 Hibiscus syriacus cultivar Beakdansim tig00005088_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: 143529
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:291 original size:142 final size:143
Alignment explanation
Indices: 1--361 Score: 457
Period size: 142 Copynumber: 2.5 Consensus size: 143
1 AATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTG-AAAATCAGGACGA
1 AATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCA-GA-GA
* * * **
65 TCAGACGATGGACGGTTGACGGATCGGAGAAACAAATCCGGGTGGTTTTAGCCTCTTGCCGATGA
64 TCGGACGGTGGAAGGTTGACGGATCGGAGAAACAAATCCGGACGGTTTTAGCCTCTTGCCGATGA
**
130 TCGGAATATTTGATC
129 TCGGAATATGCGATC
145 -ATATTCCGAACGGTCAAAAGTTG-GGAAGGCCATCACGAACAACATATTGAAAAATCAG-GATC
1 AATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGAGATC
* * *
207 GGACGGTGGAAGG-TGACGGATCGGAGAAAATAAATCCGGACGATTTTTAGCCTCTTGCCGGTGA
66 GGACGGTGGAAGGTTGACGGATCGGAG-AAACAAATCCGGACG-GTTTTAGCCTCTTGCCGATGA
*
271 TCGGAATCTGCGATC
129 TCGGAATATGCGATC
* * * * * *
286 AATATTCCGAACGGTCAAAAGTTGTGCG-ATGCCAACA-AAACAACCTATTGAAAAATCAAGACA
1 AATATTCCGAACGGTCAAAAGTTGCG-GAAGGCCATCACGAACAACATATTGAAAAATC-AGA-G
349 ATCGGACGGTGGA
63 ATCGGACGGTGGA
362 TGACGGCAGA
Statistics
Matches: 192, Mismatches: 16, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
139 13 0.07
140 26 0.14
141 31 0.16
142 68 0.35
143 40 0.21
144 1 0.01
145 13 0.07
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (143 bp):
AATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGAGATC
GGACGGTGGAAGGTTGACGGATCGGAGAAACAAATCCGGACGGTTTTAGCCTCTTGCCGATGATC
GGAATATGCGATC
Found at i:2154 original size:14 final size:14
Alignment explanation
Indices: 2135--2164 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2125 CTATAGTGTG
2135 TTATCATAAATTTA
1 TTATCATAAATTTA
*
2149 TTATCATAACTTTA
1 TTATCATAAATTTA
2163 TT
1 TT
2165 TCAAATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATCATAAATTTA
Found at i:4046 original size:45 final size:45
Alignment explanation
Indices: 3996--4091 Score: 131
Period size: 45 Copynumber: 2.1 Consensus size: 45
3986 TTTTTTAGCA
* *
3996 ATAAAAAACA-AGTAAGAAAACTTTCAAAAAGATAAAGTAATTATC
1 ATAAAAAACAGAG-AAGAAAACTTTCAAAAAGAGAAAGTAATGATC
***
4041 ATAAAATTGAGAGAAGAAAACTTTCAAAAAGAGAAAGTAATGATC
1 ATAAAAAACAGAGAAGAAAACTTTCAAAAAGAGAAAGTAATGATC
4086 ATAAAA
1 ATAAAA
4092 CTGAGAGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
45 43 0.96
46 2 0.04
ACGTcount: A:0.59, C:0.07, G:0.12, T:0.21
Consensus pattern (45 bp):
ATAAAAAACAGAGAAGAAAACTTTCAAAAAGAGAAAGTAATGATC
Found at i:4097 original size:45 final size:45
Alignment explanation
Indices: 4009--4100 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
3999 AAAAACAAGT
* * *
4009 AAGAAAACTTTCAAAAAGATAAAGTAATTATCATAAAATTGAGAG
1 AAGAAAACTTTCAAAAAGAGAAAGTAATGATCATAAAACTGAGAG
4054 AAGAAAACTTTCAAAAAGAGAAAGTAATGATCATAAAACTGAGAG
1 AAGAAAACTTTCAAAAAGAGAAAGTAATGATCATAAAACTGAGAG
4099 AA
1 AA
4101 AGAGAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.57, C:0.08, G:0.15, T:0.21
Consensus pattern (45 bp):
AAGAAAACTTTCAAAAAGAGAAAGTAATGATCATAAAACTGAGAG
Found at i:12519 original size:39 final size:38
Alignment explanation
Indices: 12476--12553 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 38
12466 ACTTGTTTAA
12476 CGGAAGAGTTACTAATGACTAGGGAGTGATCAGCATTGT
1 CGGAAGAGTTACTAATGACTAGGGAGT-ATCAGCATTGT
12515 CGGAAGAGTTACTAATGACTAGGGAGTATCAGCATTGT
1 CGGAAGAGTTACTAATGACTAGGGAGTATCAGCATTGT
12553 C
1 C
12554 ATCGTCATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 12 0.31
39 27 0.69
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (38 bp):
CGGAAGAGTTACTAATGACTAGGGAGTATCAGCATTGT
Found at i:16426 original size:2 final size:2
Alignment explanation
Indices: 16421--16466 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
16411 ACACACACAC
16421 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16463 AG AG
1 AG AG
16467 TACCTTTTCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19876 original size:22 final size:22
Alignment explanation
Indices: 19848--19894 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
19838 TCACGTGACA
19848 CGTCAGTAGAAAGTAACAGTTT
1 CGTCAGTAGAAAGTAACAGTTT
19870 CGTCAGTAGAAAGTAACAGTTT
1 CGTCAGTAGAAAGTAACAGTTT
19892 CGT
1 CGT
19895 TGGTTAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (22 bp):
CGTCAGTAGAAAGTAACAGTTT
Found at i:21640 original size:33 final size:34
Alignment explanation
Indices: 21593--21657 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
21583 GTAAGAAAAC
* *
21593 TTATCGGTTGAAATAATA-CCTTTTCCAATAACA
1 TTATCGATTAAAATAATACCCTTTTCCAATAACA
*
21626 TTATCGATTAAAATAATACCCTTTTTCAATAA
1 TTATCGATTAAAATAATACCCTTTTCCAATAA
21658 AGTACACCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (34 bp):
TTATCGATTAAAATAATACCCTTTTCCAATAACA
Found at i:22516 original size:28 final size:28
Alignment explanation
Indices: 22482--22566 Score: 161
Period size: 28 Copynumber: 3.0 Consensus size: 28
22472 AATTATAATT
22482 TTTAAGCAGAACAAGATAAAATTACCAC
1 TTTAAGCAGAACAAGATAAAATTACCAC
*
22510 TTTAAGCAGAACAAGATAAAATAACCAC
1 TTTAAGCAGAACAAGATAAAATTACCAC
22538 TTTAAGCAGAACAAGATAAAATTACCAC
1 TTTAAGCAGAACAAGATAAAATTACCAC
22566 T
1 T
22567 CCTTGGCTTG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.51, C:0.18, G:0.11, T:0.21
Consensus pattern (28 bp):
TTTAAGCAGAACAAGATAAAATTACCAC
Found at i:27010 original size:21 final size:21
Alignment explanation
Indices: 26984--27029 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
26974 CCGAAAATAA
*
26984 TAAAAATCATTAATATTTTAGG
1 TAAAAAT-AATAATATTTTAGG
*
27006 TAAAAATAATAATGTTTTAGG
1 TAAAAATAATAATATTTTAGG
27027 TAA
1 TAA
27030 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAGG
Found at i:27564 original size:14 final size:14
Alignment explanation
Indices: 27545--27572 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27535 AAGTGAAAGA
27545 ATAGTTATATAATT
1 ATAGTTATATAATT
27559 ATAGTTATATAATT
1 ATAGTTATATAATT
27573 TTGTTATGAT
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:27743 original size:30 final size:30
Alignment explanation
Indices: 27709--27804 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
27699 AGAAACGGAA
***
27709 GAACCGGCTGAAAACCGGGGAAACCGGA-GT
1 GAACCGGCTGAAAACCGACAAAACC-GATGT
*
27739 GAACCGGCTGAAAACCGACAAAACCGATTT
1 GAACCGGCTGAAAACCGACAAAACCGATGT
*
27769 GAACCGGCTGAAAACCGACAAAACCGATTT
1 GAACCGGCTGAAAACCGACAAAACCGATGT
27799 GAACCG
1 GAACCG
27805 CCGATTCACT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.38, C:0.26, G:0.26, T:0.10
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGACAAAACCGATGT
Found at i:28057 original size:24 final size:24
Alignment explanation
Indices: 28028--28083 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
28018 TAGAAGTTCG
28028 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
28052 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
28076 ATTGAAGC
1 ATTGAAGC
28084 GAAAGAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:35138 original size:19 final size:20
Alignment explanation
Indices: 35114--35151 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
35104 AATAACTTTT
35114 TTATTATATT-ATATTGTAA
1 TTATTATATTCATATTGTAA
35133 TTATTATATTCATATTGTA
1 TTATTATATTCATATTGTA
35152 TTAACTGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (20 bp):
TTATTATATTCATATTGTAA
Found at i:36822 original size:32 final size:30
Alignment explanation
Indices: 36764--36842 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 30
36754 TGGACTCCTC
*
36764 ATAATAAATATTAAAAAAATTGAATTCATA
1 ATAATAAATATTAAAAAAATTAAATTCATA
* *
36794 ATAATAAATATTGAGGAAAAATTAAATTCTTA
1 ATAATAAATATT-A-AAAAAATTAAATTCATA
* * *
36826 ATGACAAGTATTAAAAA
1 ATAATAAATATTAAAAA
36843 TAACTAGAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
30 15 0.38
31 2 0.05
32 23 0.57
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.32
Consensus pattern (30 bp):
ATAATAAATATTAAAAAAATTAAATTCATA
Found at i:37730 original size:17 final size:18
Alignment explanation
Indices: 37700--37741 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
37690 ACTTTGACTA
*
37700 ATTATT-ATATAAAATTT
1 ATTATTAATATAAAATAT
37717 ATTATTAATA-AAAATAT
1 ATTATTAATATAAAATAT
37734 ATT-TTAAT
1 ATTATTAAT
37742 TTTTTTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 15 0.65
18 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTATTAATATAAAATAT
Found at i:37797 original size:15 final size:15
Alignment explanation
Indices: 37758--37799 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
37748 AATCAAGTAG
37758 TTTTAAAATATATAT
1 TTTTAAAATATATAT
*
37773 TTTATAAAATTTA-AT
1 TTT-TAAAATATATAT
37788 TATTTAAAATAT
1 T-TTTAAAATAT
37800 TTAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTAAAATATATAT
Found at i:51695 original size:2 final size:2
Alignment explanation
Indices: 51688--51734 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
51678 ATTTTGAGTA
51688 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
51730 AT AT A
1 AT AT A
51735 ATTAACAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:51984 original size:17 final size:17
Alignment explanation
Indices: 51962--51994 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51952 TCACATAACA
51962 ACTTTTCAATTACAACG
1 ACTTTTCAATTACAACG
*
51979 ACTTTTCAATTGCAAC
1 ACTTTTCAATTACAAC
51995 AACATTAGCC
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:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (17 bp):
ACTTTTCAATTACAACG
Found at i:55648 original size:29 final size:29
Alignment explanation
Indices: 55592--55648 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
55582 TTTGATTTGA
** * *
55592 TTTTATATTGATTCTTAAATTTTAAAATG
1 TTTTATATCAATTCTAAAATTATAAAATG
*
55621 TTTTATATCAATTCTAAAATTATCAAAT
1 TTTTATATCAATTCTAAAATTATAAAAT
55649 ATCATTTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.51
Consensus pattern (29 bp):
TTTTATATCAATTCTAAAATTATAAAATG
Found at i:56788 original size:58 final size:58
Alignment explanation
Indices: 56711--56854 Score: 245
Period size: 58 Copynumber: 2.5 Consensus size: 58
56701 TAGTTAAATT
* *
56711 GCAACGCGATTTTCTAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACAATC
1 GCAAAGCGATTTTCCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACAATC
*
56769 GCAATA-CGATTTTCCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATC
1 GCAA-AGCGATTTTCCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACAATC
56827 GCAAAGCGATTTTCCAAATTCGCAACGC
1 GCAAAGCGATTTTCCAAATTCGCAACGC
56855 GAATAGTTAA
Statistics
Matches: 81, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
57 1 0.01
58 80 0.99
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (58 bp):
GCAAAGCGATTTTCCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACAATC
Found at i:56891 original size:136 final size:137
Alignment explanation
Indices: 56725--56990 Score: 455
Period size: 136 Copynumber: 1.9 Consensus size: 137
56715 CGCGATTTTC
*
56725 TAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACAATCGCAATA-CGATTTTCCAAATT
1 TAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACAATCGCAA-AGCGATTTTCCAAATT
* *
56789 CGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAAAGCGATTTTCCAAATTCGCAACG
65 CGCAACGCTAATTACCGATATAGGTAAACACTACTATCGCAAAGCAATTTTCCAAATTCGCAACG
56854 CGAATAGT
130 CGAATAGT
* *
56862 TAAA-TCGCAACGCTAATTACCGACATAGGTACACAGTACTATCGCAAAGCGATTTTCCAAATTC
1 TAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACAATCGCAAAGCGATTTTCCAAATTC
*
56926 GCAACGCTAATTACCGATATAGGTAAACACTACTATCGCAATGCAATTTTCCAAATTCGCAACGC
66 GCAACGCTAATTACCGATATAGGTAAACACTACTATCGCAAAGCAATTTTCCAAATTCGCAACGC
56991 TAATTACCGA
Statistics
Matches: 122, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
135 1 0.01
136 117 0.96
137 4 0.03
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (137 bp):
TAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACAATCGCAAAGCGATTTTCCAAATTC
GCAACGCTAATTACCGATATAGGTAAACACTACTATCGCAAAGCAATTTTCCAAATTCGCAACGC
GAATAGT
Found at i:56917 original size:78 final size:78
Alignment explanation
Indices: 56788--56932 Score: 272
Period size: 78 Copynumber: 1.9 Consensus size: 78
56778 TTTTCCAAAT
*
56788 TCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAAAGCGATTTTCCAAATTCGCAAC
1 TCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAAAGCGATTTTCCAAATTCGCAAC
56853 GCGAATAGTTAAA
66 GCGAATAGTTAAA
*
56866 TCGCAACGCTAATTACCGACATAGGTACACAGTACTATCGCAAAGCGATTTTCCAAATTCGCAAC
1 TCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAAAGCGATTTTCCAAATTCGCAAC
56931 GC
66 GC
56933 TAATTACCGA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 65 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (78 bp):
TCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAAAGCGATTTTCCAAATTCGCAAC
GCGAATAGTTAAA
Found at i:56935 original size:58 final size:58
Alignment explanation
Indices: 56866--57048 Score: 303
Period size: 58 Copynumber: 3.2 Consensus size: 58
56856 AATAGTTAAA
56866 TCGCAACGCTAATTACCGACATAGGTACACAGTACTATCGCAAAGCGATTTTCCAAAT
1 TCGCAACGCTAATTACCGACATAGGTACACAGTACTATCGCAAAGCGATTTTCCAAAT
* * * * *
56924 TCGCAACGCTAATTACCGATATAGGTAAACACTACTATCGCAATGCAATTTTCCAAAT
1 TCGCAACGCTAATTACCGACATAGGTACACAGTACTATCGCAAAGCGATTTTCCAAAT
*
56982 TCGCAACGCTAATTACCGACATAGGTACACAGTACTATCGCAACGCGATTTTCCAAAT
1 TCGCAACGCTAATTACCGACATAGGTACACAGTACTATCGCAAAGCGATTTTCCAAAT
*
57040 TCGTAACGC
1 TCGCAACGC
57049 AAATAGTTAA
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 114 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (58 bp):
TCGCAACGCTAATTACCGACATAGGTACACAGTACTATCGCAAAGCGATTTTCCAAAT
Found at i:56977 original size:194 final size:194
Alignment explanation
Indices: 56711--57068 Score: 617
Period size: 194 Copynumber: 1.8 Consensus size: 194
56701 TAGTTAAATT
* * *
56711 GCAACGCGATTTTCTAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACAATCGCAATAC
1 GCAAAGCGATTTTCCAAATTCGCAACGCTAATTACCGATATAGGTAAACACTACAATCGCAATAC
* *
56776 GATTTTCCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAAAGCGATTTTC
66 AATTTTCCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAAAGCGATTTTC
*
56841 CAAATTCGCAACGCGAATAGTTAAATCGCAACGCTAATTACCGACATAGGTACACAGTACTATC
131 CAAATTCGCAACGCAAATAGTTAAATCGCAACGCTAATTACCGACATAGGTACACAGTACTATC
* *
56905 GCAAAGCGATTTTCCAAATTCGCAACGCTAATTACCGATATAGGTAAACACTACTATCGCAATGC
1 GCAAAGCGATTTTCCAAATTCGCAACGCTAATTACCGATATAGGTAAACACTACAATCGCAATAC
* *
56970 AATTTTCCAAATTCGCAACGCTAATTACCGACATAGGTACACAGTACTATCGCAACGCGATTTTC
66 AATTTTCCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAAAGCGATTTTC
*
57035 CAAATTCGTAACGCAAATAGTTAAATCGCAACGC
131 CAAATTCGCAACGCAAATAGTTAAATCGCAACGC
57069 GAATAGGTAA
Statistics
Matches: 153, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
194 153 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (194 bp):
GCAAAGCGATTTTCCAAATTCGCAACGCTAATTACCGATATAGGTAAACACTACAATCGCAATAC
AATTTTCCAAATTCGCAACGCTAATTACCGACATAGGTAAACAGTACTATCGCAAAGCGATTTTC
CAAATTCGCAACGCAAATAGTTAAATCGCAACGCTAATTACCGACATAGGTACACAGTACTATC
Found at i:57073 original size:20 final size:20
Alignment explanation
Indices: 57044--57088 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
57034 CCAAATTCGT
*
57044 AACGCAAATAGTTAAATCGC
1 AACGCAAATAGGTAAATCGC
*
57064 AACGCGAATAGGTAAATCGC
1 AACGCAAATAGGTAAATCGC
57084 AACGC
1 AACGC
57089 TAATTACCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (20 bp):
AACGCAAATAGGTAAATCGC
Found at i:57159 original size:20 final size:21
Alignment explanation
Indices: 57117--57168 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
57107 AACAGTACTA
* *
57117 TCGCAATGCGATTTTCAAAAT
1 TCGCAACGCGGTTTTCAAAAT
57138 TCGCAACGCGGTTTTC-AAAT
1 TCGCAACGCGGTTTTCAAAAT
57158 TCGCAACGCGG
1 TCGCAACGCGG
57169 ATTACCGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (21 bp):
TCGCAACGCGGTTTTCAAAAT
Found at i:57321 original size:58 final size:58
Alignment explanation
Indices: 57257--57381 Score: 178
Period size: 58 Copynumber: 2.2 Consensus size: 58
57247 ATTGGAGGTC
* * *
57257 GCGTTGCGAATTTGGAAAATTGCATTGCGATAGTACTGTTTACCTATGTCGGTAATTT
1 GCGTTGCGAATTTGGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTA
* * * * *
57315 GTGTTGCAAATTTGTAAAATCGCATTGTGATAGTATTGTTTACCTATATCGGTAATTA
1 GCGTTGCGAATTTGGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTA
57373 GCGTTGCGA
1 GCGTTGCGA
57382 TTTACCTATT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (58 bp):
GCGTTGCGAATTTGGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTAATTA
Found at i:57402 original size:20 final size:20
Alignment explanation
Indices: 57373--57417 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
57363 TCGGTAATTA
* *
57373 GCGTTGCGATTTACCTATTC
1 GCGTTACGATTTAACTATTC
57393 GCGTTACGATTTAACTATTC
1 GCGTTACGATTTAACTATTC
57413 GCGTT
1 GCGTT
57418 TCAATTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (20 bp):
GCGTTACGATTTAACTATTC
Found at i:57424 original size:20 final size:20
Alignment explanation
Indices: 57381--57424 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
57371 TAGCGTTGCG
* *
57381 ATTTACCTATTCGCGTTACG
1 ATTTAACTATTCGCGTTACA
*
57401 ATTTAACTATTCGCGTTTCA
1 ATTTAACTATTCGCGTTACA
57421 ATTT
1 ATTT
57425 TGGAACCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTTAACTATTCGCGTTACA
Found at i:61222 original size:19 final size:18
Alignment explanation
Indices: 61191--61239 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 18
61181 ACCTCAAATT
61191 ATTTTATATTTAATTGTA
1 ATTTTATATTTAATTGTA
*
61209 ATTTTATAATTTAATTTTA
1 ATTTTAT-ATTTAATTGTA
61228 ATTTTTATATTT
1 A-TTTTATATTT
61240 TGTATTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 7 0.25
19 15 0.54
20 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTATATTTAATTGTA
Found at i:61235 original size:20 final size:20
Alignment explanation
Indices: 61192--61254 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
61182 CCTCAAATTA
*
61192 TTTTAT-ATTTAATTGTAA-
1 TTTTATAATTTAATTTTAAT
61210 TTTTATAATTTAATTTTAAT
1 TTTTATAATTTAATTTTAAT
* *
61230 TTTTATATTTTGTATTTT-AT
1 TTTTATAATTT-AATTTTAAT
61250 TTTTA
1 TTTTA
61255 GATTATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 6 0.15
19 11 0.28
20 17 0.44
21 5 0.13
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTATAATTTAATTTTAAT
Found at i:61245 original size:7 final size:7
Alignment explanation
Indices: 61190--61254 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 7
61180 GACCTCAAAT
61190 TATTTTA
1 TATTTTA
61197 TA-TTTA
1 TATTTTA
*
61203 -ATTGTA
1 TATTTTA
61209 -ATTTTA
1 TATTTTA
*
61215 TAATTTA
1 TATTTTA
61222 -ATTTTA
1 TATTTTA
61228 -ATTTTTA
1 TA-TTTTA
*
61235 TATTTTG
1 TATTTTA
61242 TATTTTA
1 TATTTTA
61249 T-TTTTA
1 TATTTTA
61255 GATTATATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
5 1 0.02
6 23 0.48
7 23 0.48
8 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (7 bp):
TATTTTA
Found at i:61263 original size:27 final size:26
Alignment explanation
Indices: 61190--61273 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 26
61180 GACCTCAAAT
* * *
61190 TATTTTATATTTAATTGTA-ATTTTA
1 TATTTTATTTTTAATTATATATTTTG
* * *
61215 TAATTTAATTTTAATTTTTATATTTTG
1 TATTTTATTTTTAA-TTATATATTTTG
*
61242 TATTTTATTTTTAGATTATATAATTTG
1 TATTTTATTTTTA-ATTATATATTTTG
*
61269 AATTT
1 TATTT
61274 ATAAATTGTA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
25 11 0.24
26 4 0.09
27 30 0.65
28 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (26 bp):
TATTTTATTTTTAATTATATATTTTG
Found at i:74661 original size:64 final size:65
Alignment explanation
Indices: 74572--74733 Score: 179
Period size: 64 Copynumber: 2.5 Consensus size: 65
74562 TCCCTTGGCG
* * * *
74572 GGTGCATCGATGCATTA-TCTATGCATCGGTGCA-TAAATCCCATTCGATGTTTGTATTTT-AAG
1 GGTGCATCGATGCACTACT-TGTGCATCGATACACT-AATCCCATTCGATGTTTGTATTTTAAAG
74634 CA
64 CA
* ** * *
74636 GGTGCATCGATGCACTACTTGTGCATCGATACACTGATGGCATTCGATGTTTTTATTTTAAAGGA
1 GGTGCATCGATGCACTACTTGTGCATCGATACACTAATCCCATTCGATGTTTGTATTTTAAAGCA
* *
74701 -GTGCATCGATGCACTTCATGTGCATCGATACAC
1 GGTGCATCGATGCACTACTTGTGCATCGATACAC
74734 CTTGAATAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
64 78 0.93
65 6 0.07
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (65 bp):
GGTGCATCGATGCACTACTTGTGCATCGATACACTAATCCCATTCGATGTTTGTATTTTAAAGCA
Found at i:76537 original size:12 final size:12
Alignment explanation
Indices: 76520--76544 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76510 TTCATGTTGA
76520 CTTCTACCTCTT
1 CTTCTACCTCTT
76532 CTTCTACCTCTT
1 CTTCTACCTCTT
76544 C
1 C
76545 CTCTTTGAGA
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:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCTACCTCTT
Found at i:79119 original size:64 final size:65
Alignment explanation
Indices: 79030--79191 Score: 170
Period size: 64 Copynumber: 2.5 Consensus size: 65
79020 TCCCTTGAAG
* * * * *
79030 GGTGCATCAATGCACTA-TCTATGCATCGGTGCA-TAAATCTCATTCGATGTTTGTATTTT-AAG
1 GGTGCATCGATGCACTACT-TGTGCATCGATACACT-AATCGCATTCGATGTTTGTATTTTAAAG
79092 CA
64 CA
* * * *
79094 GGTGCATCGATGCACTACTTGTGCATCGATACACTGATGGCATTCGATGTTTTTATTTTAAAGGA
1 GGTGCATCGATGCACTACTTGTGCATCGATACACTAATCGCATTCGATGTTTGTATTTTAAAGCA
* * *
79159 -GTGCATTGATGCACTTCATGTGCATCGATACAC
1 GGTGCATCGATGCACTACTTGTGCATCGATACAC
79192 CTTGAACAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
64 77 0.93
65 6 0.07
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (65 bp):
GGTGCATCGATGCACTACTTGTGCATCGATACACTAATCGCATTCGATGTTTGTATTTTAAAGCA
Found at i:81423 original size:18 final size:19
Alignment explanation
Indices: 81397--81432 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
81387 CGGTCAATGT
*
81397 TGGTTAAAG-TCAACGGTA
1 TGGTCAAAGCTCAACGGTA
81415 TGGTCAAAGCTCAACGGT
1 TGGTCAAAGCTCAACGGT
81433 CTAGTTCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (19 bp):
TGGTCAAAGCTCAACGGTA
Found at i:82223 original size:21 final size:21
Alignment explanation
Indices: 82199--82240 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
82189 AGAGCTTGGG
*
82199 GGTTTCATAA-TTTGGGGATTT
1 GGTTTC-TAACTTTAGGGATTT
82220 GGTTTCTAACTTTAGGGATTT
1 GGTTTCTAACTTTAGGGATTT
82241 AAAATCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.19, C:0.07, G:0.26, T:0.48
Consensus pattern (21 bp):
GGTTTCTAACTTTAGGGATTT
Found at i:83029 original size:34 final size:34
Alignment explanation
Indices: 82991--83061 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
82981 GATATGTATG
*
82991 TATGATTTTAATTATCTCGTATATGCTAAATAGA
1 TATGATTTTAATTATCTCATATATGCTAAATAGA
83025 TATGATTTTAATTATCTCATATATGCTAAATAGA
1 TATGATTTTAATTATCTCATATATGCTAAATAGA
83059 TAT
1 TAT
83062 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (34 bp):
TATGATTTTAATTATCTCATATATGCTAAATAGA
Found at i:91427 original size:2 final size:2
Alignment explanation
Indices: 91422--91466 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
91412 TCTCTCTCTC
91422 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
91464 TA T
1 TA T
91467 GAAGTTAACT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:92106 original size:17 final size:18
Alignment explanation
Indices: 92081--92116 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
92071 TCTAAATAAT
*
92081 TTTTTAATATAATT-ATA
1 TTTTAAATATAATTCATA
92098 TTTTAAATATAATTCATA
1 TTTTAAATATAATTCATA
92116 T
1 T
92117 ATATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAAATATAATTCATA
Found at i:93064 original size:23 final size:23
Alignment explanation
Indices: 93034--93083 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
93024 GGTGATGGAG
93034 CAACCACATCAGTTGCTCTTGCA
1 CAACCACATCAGTTGCTCTTGCA
93057 CAACCACATCAGTTGCTCTTGCA
1 CAACCACATCAGTTGCTCTTGCA
93080 CAAC
1 CAAC
93084 GTTTGATAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.28, C:0.36, G:0.12, T:0.24
Consensus pattern (23 bp):
CAACCACATCAGTTGCTCTTGCA
Found at i:97281 original size:24 final size:20
Alignment explanation
Indices: 97228--97304 Score: 86
Period size: 20 Copynumber: 3.7 Consensus size: 20
97218 TTCCCCTTGA
97228 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
97248 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
*
97271 ATGTGCATCGATGCACTACT-C
1 A-GTGCATCGATGCA-TTCTAC
97292 A-TGCATCGATGCA
1 AGTGCATCGATGCA
97305 CTACTCATGC
Statistics
Matches: 51, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
19 12 0.24
20 17 0.33
21 2 0.04
22 1 0.02
23 4 0.08
24 13 0.25
25 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:97298 original size:19 final size:19
Alignment explanation
Indices: 97274--97320 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
97264 CTTTAACATG
97274 TGCATCGATGCACTACTCA
1 TGCATCGATGCACTACTCA
97293 TGCATCGATGCACTACTCA
1 TGCATCGATGCACTACTCA
97312 TGCATCGAT
1 TGCATCGAT
97321 ACACAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (19 bp):
TGCATCGATGCACTACTCA
Found at i:100529 original size:63 final size:62
Alignment explanation
Indices: 100454--100612 Score: 176
Period size: 63 Copynumber: 2.5 Consensus size: 62
100444 TTTGTTGAAG
* * * * * *
100454 GTGCATCGATGCATATGAAGTGCATCGATGGATTAAT-TTAAATACAAACATTGAATGTCGTCA
1 GTGCATCGATGCATA-GGAGTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTCA
* ** **
100517 GTGCATCGATGCATAAGGAGTGCGTCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
100580 GTGCATCGATGCATCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCAT
100613 GCCTCCATTA
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
63 76 0.94
64 5 0.06
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (62 bp):
GTGCATCGATGCATAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:101984 original size:121 final size:121
Alignment explanation
Indices: 101825--102188 Score: 658
Period size: 121 Copynumber: 3.0 Consensus size: 121
101815 CGAGGGTCTA
*
101825 TGTGGTCCTTCGGGACATATATGTATTATTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
*
101890 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTTGTCCTTTGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTTGGGACAT
101946 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
*
102011 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTTGGGACAT
* * *
102067 TGTGGTCCTTCGTGACATATATATATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
102132 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTAT-GGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTT-TGGGACAT
102188 T
1 T
102189 ATTATATGGC
Statistics
Matches: 235, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
121 235 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (121 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTTGGGACAT
Found at i:102024 original size:59 final size:59
Alignment explanation
Indices: 101840--102024 Score: 132
Period size: 59 Copynumber: 3.1 Consensus size: 59
101830 TCCTTCGGGA
*
101840 CATATATGTATTATTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
1 CATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
* * * ** * * *
101899 CATATGTATATGATTCTTAAGG-A-ATGATATGTTGTCCT-TTG-G-GACAT--TGTGGTCCTTC
1 CATA--TATGT-ATTCTT-TGGAACATG-TGTGAAGT-CTGGTGAGACACATACT-TGATCC--C
**
101957 GGG
57 TAG
101960 ACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
1 -CATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
102020 CATAT
1 CATAT
102025 GTATATGATT
Statistics
Matches: 88, Mismatches: 21, Indels: 34
0.62 0.15 0.24
Matches are distributed among these distances:
58 5 0.06
59 28 0.32
60 14 0.16
61 14 0.16
62 22 0.25
63 5 0.06
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (59 bp):
CATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAG
Found at i:102072 original size:18 final size:18
Alignment explanation
Indices: 102049--102084 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
102039 AGGAATGATA
102049 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
*
102067 TGTGGTCCTTCGTGACAT
1 TGTGGTCCTTCGGGACAT
102085 ATATATATTC
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:0.11, C:0.22, G:0.31, T:0.36
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:102247 original size:23 final size:23
Alignment explanation
Indices: 102195--102255 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
102185 CATTATTATA
102195 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* * *
102218 CGACACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
*
102241 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
102256 TTTATATGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:106084 original size:19 final size:20
Alignment explanation
Indices: 106055--106092 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
106045 AGAAATTTGT
106055 TGAAGGTGCATCGATGCATA
1 TGAAGGTGCATCGATGCATA
106075 TGAA-GTGCATCGATGCAT
1 TGAAGGTGCATCGATGCAT
106093 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAAGGTGCATCGATGCATA
Found at i:106135 original size:63 final size:62
Alignment explanation
Indices: 106060--106218 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 62
106050 TTTGTTGAAG
* * * *
106060 GTGCATCGATGCATATGAAGTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATA-GGAGTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTCA
** **
106123 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
106186 GTGCATCGATGCATCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCAT
106219 GCCTCCATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
63 80 0.94
64 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (62 bp):
GTGCATCGATGCATAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:107586 original size:121 final size:121
Alignment explanation
Indices: 107428--107789 Score: 674
Period size: 121 Copynumber: 3.0 Consensus size: 121
107418 CGAGGGTCTA
107428 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* *
107493 GATCCCTAGCATATGCATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGGCAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
107549 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
107614 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
107670 TGTGGTCCTTCGGGAC--ATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
**
107733 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
107789 T
1 T
107790 ATTATATGGC
Statistics
Matches: 237, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
119 102 0.43
121 135 0.57
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (121 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
Found at i:107675 original size:18 final size:18
Alignment explanation
Indices: 107652--107687 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
107642 AGGAATGATA
107652 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
107670 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
107688 ATGTATTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:107689 original size:62 final size:62
Alignment explanation
Indices: 107502--107693 Score: 145
Period size: 62 Copynumber: 3.1 Consensus size: 62
107492 TGATCCCTAG
* *
107502 CATATGCATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGGCATTGTGGTCCTTCGGGA
1 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
* * * * * *
107564 CATA--TATGT-ATTCTT-TGGAA-CATGTGTGAAGT-CTGGT-GAGACACATACT-TGATCC--
1 CATATGTATATGATTCTTAAGGAATGATATGTG--GTCCT--TCG-G-GACAT--TGTGGTCCTT
**
107619 CTAG-
58 CGGGA
107623 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
1 CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
107685 CATATGTAT
1 CATATGTAT
107694 TCTTTGGAAC
Statistics
Matches: 93, Mismatches: 18, Indels: 38
0.62 0.12 0.26
Matches are distributed among these distances:
57 6 0.06
58 7 0.08
59 18 0.19
60 11 0.12
61 11 0.12
62 27 0.29
63 7 0.08
64 6 0.06
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.35
Consensus pattern (62 bp):
CATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGA
Found at i:107856 original size:23 final size:23
Alignment explanation
Indices: 107796--107848 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
107786 CATTATTATA
107796 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
107819 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
107842 TGGCACT
1 TGGCACT
107849 TCTGTGCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:107864 original size:23 final size:23
Alignment explanation
Indices: 107787--107864 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
107777 CCTTATGGAC
*
107787 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * *
107811 ATTCTACGCGGCACTACGGTGCA
1 ATTATATGTGGCACTACGGTGCA
* * *
107834 ATTCTATGTGGCACTTCTGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
107857 TTTATATG
1 ATTATATG
107865 AGCTGTAGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:110015 original size:65 final size:63
Alignment explanation
Indices: 109905--110040 Score: 150
Period size: 65 Copynumber: 2.1 Consensus size: 63
109895 TCTTTAACAT
* * * *
109905 GTGCATCGATGCACTACTCATGCATCGATACACAAATTACCTTCGATGTTTTCATT-TTTAAAGG
1 GTGCATCGATGCACTACTCATACACCGATACACAAATTACATTCGATG-TTTC-TTCTTTAAAGA
* * * *
109969 GATGCATCGATGCACTCCTTATACACCGATGCATC-AATTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACTCATACACCGATACA-CAAATTACATTCGATGTTTCTTCTTTAAAGA
110033 GTGCATCG
1 GTGCATCG
110041 CCCAGAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
63 9 0.15
64 13 0.21
65 38 0.62
66 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTACTCATACACCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGA
Found at i:115167 original size:20 final size:20
Alignment explanation
Indices: 115137--115190 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
115127 ACACCAACAT
115137 CTTTT-AATTAATTTCTTTA
1 CTTTTCAATTAATTTCTTTA
115156 CTTTTCAATTAATTTCTTTA
1 CTTTTCAATTAATTTCTTTA
*
115176 CTTTTCAATTTATTT
1 CTTTTCAATTAATTT
115191 AATTTGGTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (20 bp):
CTTTTCAATTAATTTCTTTA
Found at i:116622 original size:281 final size:276
Alignment explanation
Indices: 116116--116671 Score: 1035
Period size: 281 Copynumber: 2.0 Consensus size: 276
116106 AATTTAAATG
116116 GATAATGAAAGAGGTTGAAAATGATTGGAAGTCTAGGGAGCTGAAGAAACAAAACAGGGGAATGT
1 GATAATGAAAGAGGTTGAAAATGATTGGAAGTCTAGGGAGCTGAAGAAACAAAACAGGGGAATGT
116181 TGGAATTTGGGGGGAATTTGTGGGGTGGGCGGCAATCAAAAGGGATTTGGGTTGGATTTAACTAG
66 TGGAATTTGGGGGGAATTTGTGGGGTGGGCGGCAATCAAAAGGGATTTGGGTTGGATTTAACTAG
116246 GTGCGTTGGCCCCTTACATATTTCACTAATGTGCATCGTTAATGAAACAATGCACTTTATAAAAC
131 GTGCGTTGGCCCCTTACATATTTCACTAATGTGCATCGTTAATGAAACAATGCACTTTATAAAAC
116311 AAAAAAAAATTGCCTACTGTCGCACTAATCTTCACGCTTAAGGTTCAAGTTTTTCGCCATTTTCT
196 AAAAAAAAATTGCCTACTGTCGCACTAATCTTCACGCTTAAGGTTCAAG-TTTTCGCCATTTTCT
116376 CGCCTTTAGTTTGAACT
260 CGCCTTTAGTTTGAACT
116393 GATAATGAAAGAGGTTGAAAATGATTGGAAGTCTAGGGAAGCTGAAAGAAAACAAAACAGGGGAA
1 GATAATGAAAGAGGTTGAAAATGATTGGAAGTCTAGGG-AGCTG-AAG-AAACAAAACAGGGGAA
116458 TGTTGGAATTTGGGGGGGAAGTTTGTGGGGTGGGCGGCAATCAAAAGGGATTTGGGTTGGATTTA
63 TGTTGGAATTT-GGGGGGAA-TTTGTGGGGTGGGCGGCAATCAAAAGGGATTTGGGTTGGATTTA
116523 ACTATGGTGCGTTGGCCCCTTACATATTTCACTAATGTGCATCGTTAATG-AA-AATGCACTTTA
126 ACTA-GGTGCGTTGGCCCCTTACATATTTCACTAATGTGCATCGTTAATGAAACAATGCACTTTA
116586 TAAAACAAAAAAAAATTGCCTACTGTCGCACTAATCTTCACGCTTAAGGTTCAAGTTTTCGCCAT
190 TAAAACAAAAAAAAATTGCCTACTGTCGCACTAATCTTCACGCTTAAGGTTCAAGTTTTCGCCAT
116651 TTTCTCGCCTTTAGTTTGAAC
255 TTTCTCGCCTTTAGTTTGAAC
116672 AATTCTTGAT
Statistics
Matches: 273, Mismatches: 0, Indels: 9
0.97 0.00 0.03
Matches are distributed among these distances:
277 38 0.14
278 5 0.02
279 3 0.01
280 58 0.21
281 74 0.27
282 50 0.18
283 45 0.16
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (276 bp):
GATAATGAAAGAGGTTGAAAATGATTGGAAGTCTAGGGAGCTGAAGAAACAAAACAGGGGAATGT
TGGAATTTGGGGGGAATTTGTGGGGTGGGCGGCAATCAAAAGGGATTTGGGTTGGATTTAACTAG
GTGCGTTGGCCCCTTACATATTTCACTAATGTGCATCGTTAATGAAACAATGCACTTTATAAAAC
AAAAAAAAATTGCCTACTGTCGCACTAATCTTCACGCTTAAGGTTCAAGTTTTCGCCATTTTCTC
GCCTTTAGTTTGAACT
Found at i:116782 original size:22 final size:22
Alignment explanation
Indices: 116741--116782 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
116731 AAATTGAAAC
* * *
116741 AAATAAAATAACAAATGAAATT
1 AAATAAAAAAAAAAAAGAAATT
116763 AAATAAAAAAAAAAAAGAAA
1 AAATAAAAAAAAAAAAGAAA
116783 AATTAGAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (22 bp):
AAATAAAAAAAAAAAAGAAATT
Found at i:117938 original size:152 final size:147
Alignment explanation
Indices: 117733--118020 Score: 515
Period size: 152 Copynumber: 1.9 Consensus size: 147
117723 TAAAAGGGCC
117733 TATAATCGAGTCCTCGCACATAAAATTTCAAAGACATAAATTGGATTTTGAGGCAATTCATTTTT
1 TATAATCGAGTCCTCGCACATAAAATTTCAAAGACATAAATTGGATTTTGAGGCAATTCATTTTT
117798 TCGGTTTAAATTCCATGCATG-TGACATTTCCCACGTGATTTACAAAACATATAAGTGTCACGAA
66 TCGGTTTAAATTCCATGCATGTTGACATTTCCCACGTGA-TTAC-AAACATAT-AGTGTCACGAA
117862 ATAGCGTAAGCCAGGGCCTA
128 ATAGCGTAAGCCAGGGCCTA
117882 TATAATCGAGTCCTCGCACATAAAAAATTTCAAAAGACATAAATTGGATTTTGAGGCAATTCATT
1 TATAATCGAGTCCTCGCACAT--AAAATTTC-AAAGACATAAATTGGATTTTGAGGCAATTCATT
117947 TTTTCGGTTTAAATTCCATGCATGTTGACATTTCCCACGTGATTACAAACATATAGTGTCACGAA
63 TTTTCGGTTTAAATTCCATGCATGTTGACATTTCCCACGTGATTACAAACATATAGTGTCACGAA
118012 ATAGCGTAA
128 ATAGCGTAA
118021 CCAAAAGAAA
Statistics
Matches: 135, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
149 21 0.16
150 20 0.15
151 16 0.12
152 61 0.45
153 17 0.13
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (147 bp):
TATAATCGAGTCCTCGCACATAAAATTTCAAAGACATAAATTGGATTTTGAGGCAATTCATTTTT
TCGGTTTAAATTCCATGCATGTTGACATTTCCCACGTGATTACAAACATATAGTGTCACGAAATA
GCGTAAGCCAGGGCCTA
Found at i:118269 original size:19 final size:19
Alignment explanation
Indices: 118245--118291 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
118235 AATCTAAAGG
118245 TAATTTACCTATGGTCAGA
1 TAATTTACCTATGGTCAGA
118264 TAATTTACCTATGGTCAGA
1 TAATTTACCTATGGTCAGA
118283 TAATTTACC
1 TAATTTACC
118292 ATATCCATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (19 bp):
TAATTTACCTATGGTCAGA
Found at i:122265 original size:56 final size:56
Alignment explanation
Indices: 122187--122308 Score: 183
Period size: 56 Copynumber: 2.2 Consensus size: 56
122177 TTGTTGTTAA
122187 TCTTCATCAACGGTGCCACTTTGACATGCGTCT-TTATTCGAGTCAAAATAATCCATT
1 TCTT-ATCAACGGTGCCACTTTGACATGCGT-TATTATTCGAGTCAAAATAATCCATT
* * *
122244 TCTTATCAACGGTGCCACTTTGACATGTGTTATTATTCGCGTCAAAATAATCTATT
1 TCTTATCAACGGTGCCACTTTGACATGCGTTATTATTCGAGTCAAAATAATCCATT
*
122300 TCTTCTCAA
1 TCTTATCAA
122309 ATAATATTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
55 1 0.02
56 55 0.92
57 4 0.07
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (56 bp):
TCTTATCAACGGTGCCACTTTGACATGCGTTATTATTCGAGTCAAAATAATCCATT
Found at i:122502 original size:23 final size:25
Alignment explanation
Indices: 122476--122525 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 25
122466 GTAAAATAAA
*
122476 ATTAAAAA-CAAGAAGA-TAAGAAG
1 ATTAAAAAGAAAGAAGATTAAGAAG
122499 ATTAAAAAGTAAAGAAGATTAAGAAG
1 ATTAAAAAG-AAAGAAGATTAAGAAG
122525 A
1 A
122526 AGATCTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
25 7 0.30
26 8 0.35
ACGTcount: A:0.64, C:0.02, G:0.18, T:0.16
Consensus pattern (25 bp):
ATTAAAAAGAAAGAAGATTAAGAAG
Found at i:122524 original size:9 final size:9
Alignment explanation
Indices: 122485--122525 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
122475 AATTAAAAAC
122485 AAGAAGA-T
1 AAGAAGATT
122493 AAGAAGATT
1 AAGAAGATT
* *
122502 AAAAAG-TA
1 AAGAAGATT
122510 AAGAAGATT
1 AAGAAGATT
122519 AAGAAGA
1 AAGAAGA
122526 AGATCTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 13 0.48
9 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (9 bp):
AAGAAGATT
Found at i:125078 original size:24 final size:26
Alignment explanation
Indices: 125032--125080 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
125022 AAAAGTCAAA
*
125032 TAATTTGTTTTATACTAATTGGGTTT
1 TAATTTGGTTTATACTAATTGGGTTT
125058 TAATTTGGTTT-TA-TAATTGGGTT
1 TAATTTGGTTTATACTAATTGGGTT
125081 AATCAAGGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
25 2 0.09
26 10 0.45
ACGTcount: A:0.22, C:0.02, G:0.18, T:0.57
Consensus pattern (26 bp):
TAATTTGGTTTATACTAATTGGGTTT
Found at i:134160 original size:28 final size:27
Alignment explanation
Indices: 134124--134179 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
134114 TTCTATGAAG
*
134124 TATTGACTTTATGAATTTTATTTTCTAA
1 TATTGAC-TTATGAATTTTATTTTATAA
* *
134152 TATTTACTTATGGATTTTATTTTATAA
1 TATTGACTTATGAATTTTATTTTATAA
134179 T
1 T
134180 TTCTATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (27 bp):
TATTGACTTATGAATTTTATTTTATAA
Found at i:134789 original size:38 final size:38
Alignment explanation
Indices: 134747--134823 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
134737 TTGATAAGTT
* *
134747 TTCCACCACATTACTTATTTATCTTACATTATAAGGAA
1 TTCCACCACATTACTTATTTAACTGACATTATAAGGAA
134785 TTCCACCACATTACTTATTTAACTGACATTATAAGGAA
1 TTCCACCACATTACTTATTTAACTGACATTATAAGGAA
134823 T
1 T
134824 GCCAAAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (38 bp):
TTCCACCACATTACTTATTTAACTGACATTATAAGGAA
Done.