Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001742.1 Hibiscus syriacus cultivar Beakdansim tig00003529_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: 111450
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1256 original size:2 final size:2
Alignment explanation
Indices: 1246--1282 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
1236 TTTATATAGA
*
1246 AT AT TT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1283 TGATAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4138 original size:33 final size:34
Alignment explanation
Indices: 4096--4165 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
4086 TTCATGTTCA
4096 AAATTCCAAAACAC-TTAA-TACATTCTAAACTCC
1 AAATTCCAAAACACTTTAATTACATTCTAAAC-CC
*
4129 AAATTCCAAAATACTTTAATTACATTCTAAACCC
1 AAATTCCAAAACACTTTAATTACATTCTAAACCC
4163 AAA
1 AAA
4166 ATTAAAGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 13 0.38
34 9 0.26
35 12 0.35
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (34 bp):
AAATTCCAAAACACTTTAATTACATTCTAAACCC
Found at i:4168 original size:35 final size:34
Alignment explanation
Indices: 4094--4168 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 34
4084 AATTCATGTT
4094 CAAAATTCCAAAACACTTAATACATTCTAAACTC
1 CAAAATTCCAAAACACTTAATACATTCTAAACTC
*
4128 C-AAATTCCAAAATACTTTAATTACATTCTAAAC-C
1 CAAAATTCCAAAACAC-TTAA-TACATTCTAAACTC
4162 CAAAATT
1 CAAAATT
4169 AAAGTATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
33 13 0.35
34 7 0.19
35 17 0.46
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (34 bp):
CAAAATTCCAAAACACTTAATACATTCTAAACTC
Found at i:4231 original size:34 final size:35
Alignment explanation
Indices: 4164--4237 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
4154 TCTAAACCCA
4164 AAATTAAAGTATTTTAGAATTTGAGGTTTAAAATG
1 AAATTAAAGTATTTTAGAATTTGAGGTTTAAAATG
* *
4199 TAATTAAATTATTTTAGAATTTG-GGTTTAAAATG
1 AAATTAAAGTATTTTAGAATTTGAGGTTTAAAATG
4233 AAATT
1 AAATT
4238 GAGGAATGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 15 0.42
35 21 0.58
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (35 bp):
AAATTAAAGTATTTTAGAATTTGAGGTTTAAAATG
Found at i:6559 original size:2 final size:2
Alignment explanation
Indices: 6552--6582 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
6542 TTTGTACTGA
6552 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
6583 CCGATAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7316 original size:83 final size:83
Alignment explanation
Indices: 7191--7378 Score: 207
Period size: 83 Copynumber: 2.3 Consensus size: 83
7181 ATATAAAAAT
* * * ** * ** *
7191 ATATAATAATATTTTTTAAATTCAAAATGTTAAATCTGAGAGTTTTACTCTGATCAAAACTCTTT
1 ATATAATAATATCTTTTAAATTCAAAATATTAAACCCAAGAGTTTTAATCCAACCAAAACTCTTT
* *
7256 TAATGTCTAAATTTAAAC
66 TAATATATAAATTTAAAC
* * *
7274 ATATCATAATATCTTTTAAATTTATAATATTAAACCCAAGAGTTTTAATCCAACCAAAACTCTTT
1 ATATAATAATATCTTTTAAATTCAAAATATTAAACCCAAGAGTTTTAATCCAACCAAAACTCTTT
*
7339 TAATATATAAATTTAAAT
66 TAATATATAAATTTAAAC
* *
7357 AGATAATACTAT-TATTTAAATT
1 ATATAATAATATCT-TTTAAATT
7379 AATATTAAAC
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
82 1 0.01
83 85 0.99
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (83 bp):
ATATAATAATATCTTTTAAATTCAAAATATTAAACCCAAGAGTTTTAATCCAACCAAAACTCTTT
TAATATATAAATTTAAAC
Found at i:9608 original size:3 final size:3
Alignment explanation
Indices: 9600--9629 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9590 GTATGAATCT
*
9600 TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
9630 CAAAAACTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:11754 original size:19 final size:16
Alignment explanation
Indices: 11720--11750 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11710 TATAAAATCT
11720 AATAATCCATAATATA
1 AATAATCCATAATATA
*
11736 AATAATCCATTATAT
1 AATAATCCATAATAT
11751 TATATATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAATCCATAATATA
Found at i:14120 original size:9 final size:9
Alignment explanation
Indices: 14106--14138 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
14096 AGAAACTGTA
14106 AAGAAGGAG
1 AAGAAGGAG
14115 AAGAAGGAG
1 AAGAAGGAG
14124 AAGAAGAGAG
1 AAGAAG-GAG
14134 AAGAA
1 AAGAA
14139 AAGGGTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (9 bp):
AAGAAGGAG
Found at i:19784 original size:14 final size:14
Alignment explanation
Indices: 19767--19801 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
19757 GTAATTTAGG
19767 GTTTAGGATTTATA
1 GTTTAGGATTTATA
* *
19781 GTTTAAGATTTGTA
1 GTTTAGGATTTATA
19795 GTTTAGG
1 GTTTAGG
19802 GTTAATTACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (14 bp):
GTTTAGGATTTATA
Found at i:19866 original size:11 final size:11
Alignment explanation
Indices: 19850--19912 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
19840 GTATTATAGA
19850 ATTTTTAATAT
1 ATTTTTAATAT
19861 ATTTTTAA-A-
1 ATTTTTAATAT
19870 ATTTTATAAT-T
1 ATTTT-TAATAT
*** * *
19881 ATCAATAGTGT
1 ATTTTTAATAT
19892 ATTTTTAATAT
1 ATTTTTAATAT
19903 ATTTTTAATA
1 ATTTTTAATA
19913 ATGTAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:22542 original size:30 final size:30
Alignment explanation
Indices: 22508--22575 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
22498 ATGGGCGAAT
22508 ATGAACAAGATTTTATGTCTGCTTAATTAA
1 ATGAACAAGATTTTATGTCTGCTTAATTAA
22538 ATGAACAAGATTTTATGTCTGCTTAATTAA
1 ATGAACAAGATTTTATGTCTGCTTAATTAA
22568 ATGAACAA
1 ATGAACAA
22576 ACACGAACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (30 bp):
ATGAACAAGATTTTATGTCTGCTTAATTAA
Found at i:23395 original size:8 final size:8
Alignment explanation
Indices: 23380--23434 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
23370 TGTTTTTGAA
23380 ATTT-TAT
1 ATTTATAT
23387 ATTTATAT
1 ATTTATAT
23395 ATTTATAT
1 ATTTATAT
* *
23403 AATAATAT
1 ATTTATAT
*
23411 TTTGTATAT
1 ATT-TATAT
*
23420 ATTT-TAA
1 ATTTATAT
23427 ATTTATAT
1 ATTTATAT
23435 TTTTGAATAA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
7 10 0.27
8 21 0.57
9 6 0.16
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (8 bp):
ATTTATAT
Found at i:24570 original size:29 final size:29
Alignment explanation
Indices: 24528--24589 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
24518 TGTCGTAGGT
*
24528 GGCGACCTTGTAGGACGCCATGCATTACG
1 GGCGACCTTGTAGGACGCCATGCACTACG
* *
24557 GGCGACCTTGTAGGTCGCCATGCACTCCG
1 GGCGACCTTGTAGGACGCCATGCACTACG
24586 GGCG
1 GGCG
24590 TCCTACCCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.16, C:0.31, G:0.34, T:0.19
Consensus pattern (29 bp):
GGCGACCTTGTAGGACGCCATGCACTACG
Found at i:24686 original size:29 final size:29
Alignment explanation
Indices: 24652--24707 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
24642 TCCCAACACA
* *
24652 TAGGTCGACATGCCCTTCGGGCGACCTTG
1 TAGGTCGACATGCACTCCGGGCGACCTTG
*
24681 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGACATGCACTCCGGGCGACCT
24708 ACCCTTGCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.14, C:0.34, G:0.30, T:0.21
Consensus pattern (29 bp):
TAGGTCGACATGCACTCCGGGCGACCTTG
Found at i:24760 original size:33 final size:33
Alignment explanation
Indices: 24723--24787 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
24713 TGCTCGGCTT
*
24723 CCCTCGCATAGCTCGCTCGGTTGCCCTCGGATG
1 CCCTCGCATAGCTCGCTCGGATGCCCTCGGATG
* *
24756 CCCTCGCATAGCTCGTTCGGATGGCCTCGGAT
1 CCCTCGCATAGCTCGCTCGGATGCCCTCGGAT
24788 ACCCAGCGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.11, C:0.37, G:0.28, T:0.25
Consensus pattern (33 bp):
CCCTCGCATAGCTCGCTCGGATGCCCTCGGATG
Found at i:26687 original size:2 final size:2
Alignment explanation
Indices: 26682--26727 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
26672 TTTTTTGTTT
* *
26682 TC TC TC TC TC TC TC TC AC TC TC TC TC TC TC TC TC TC TC TC AC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
26724 TC TC
1 TC TC
26728 ACTCAAAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.04, C:0.50, G:0.00, T:0.46
Consensus pattern (2 bp):
TC
Found at i:27123 original size:32 final size:32
Alignment explanation
Indices: 27064--27124 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
27054 GCTTGGATTC
* * **
27064 CCTCGCATAGCTTGCTCGGTTGCCCTCGGATG
1 CCTCGCATAGCTCGCTCGGATAACCTCGGATG
*
27096 CCTCGCATAGCTCGTTCGGATAACCTCGG
1 CCTCGCATAGCTCGCTCGGATAACCTCGG
27125 TCGGATGGCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.13, C:0.34, G:0.26, T:0.26
Consensus pattern (32 bp):
CCTCGCATAGCTCGCTCGGATAACCTCGGATG
Found at i:29905 original size:8 final size:8
Alignment explanation
Indices: 29894--29936 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
29884 TGTTATTATT
29894 TTATTTAA
1 TTATTTAA
29902 TTATTTAAA
1 TTATTT-AA
29911 TTATTTAA
1 TTATTTAA
*
29919 -TATTTTAT
1 TTA-TTTAA
29927 TTATTTAA
1 TTATTTAA
29935 TT
1 TT
29937 TTTTGCAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 2 0.07
8 18 0.60
9 10 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTTAA
Found at i:29931 original size:9 final size:9
Alignment explanation
Indices: 29893--29937 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
29883 TTGTTATTAT
29893 TTTATTTAA
1 TTTATTTAA
29902 -TTATTTAA
1 TTTATTTAA
*
29910 ATTATTTAA
1 TTTATTTAA
*
29919 --TATTTTA
1 TTTATTTAA
29926 TTTATTTAA
1 TTTATTTAA
29935 TTT
1 TTT
29938 TTTGCAGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
7 6 0.19
8 8 0.26
9 17 0.55
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTATTTAA
Found at i:34395 original size:28 final size:29
Alignment explanation
Indices: 34364--34419 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
34354 TCGTTTTCGC
*
34364 GTCGTGAACAATGACATA-CATATTTTTT
1 GTCGGGAACAATGACATACCATATTTTTT
* *
34392 GTCGGGAACAGTGTCATACCCATATTTT
1 GTCGGGAACAATGACATA-CCATATTTT
34420 CGCTTCTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 15 0.65
30 8 0.35
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (29 bp):
GTCGGGAACAATGACATACCATATTTTTT
Found at i:39867 original size:20 final size:20
Alignment explanation
Indices: 39842--39912 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
39832 TTTTCCTAAT
39842 TCGCAACGCGATTACGTAAA
1 TCGCAACGCGATTACGTAAA
39862 TCGCAACGCGATTACGTAAA
1 TCGCAACGCGATTACGTAAA
*
39882 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGATTACGTAAA
*
39902 TCGCAATGCGA
1 TCGCAACGCGA
39913 ATCTGACTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGATTACGTAAA
Found at i:40513 original size:20 final size:20
Alignment explanation
Indices: 40488--40578 Score: 105
Period size: 20 Copynumber: 4.5 Consensus size: 20
40478 TTCTAAACTT
* *
40488 AAAATCGTAACATGAAAATG
1 AAAATCGCAACACGAAAATG
40508 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
40528 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAAC-ACGA-AAATG
*
40549 AAAATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
40568 AAAATCGCAAC
1 AAAATCGCAAC
40579 GAGATAATCG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.26
20 29 0.48
21 16 0.26
ACGTcount: A:0.51, C:0.19, G:0.18, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:40567 original size:19 final size:19
Alignment explanation
Indices: 40503--40579 Score: 91
Period size: 19 Copynumber: 3.9 Consensus size: 19
40493 CGTAACATGA
*
40503 AAATGAAAATCGCAACACG
1 AAATGAAAATCGCAACGCG
** *
40522 AAAATGACTATCGCAACGAGAG
1 -AAATGAAAATCGCAAC--GCG
40544 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
40563 AAATGAAAATCGCAACG
1 AAATGAAAATCGCAACG
40580 AGATAATCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 19 0.40
20 14 0.29
21 14 0.29
22 1 0.02
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.12
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:40578 original size:40 final size:41
Alignment explanation
Indices: 40503--40582 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 41
40493 CGTAACATGA
**
40503 AAATGAAAATCGCAACACGAAAATGACTATCGCAACGAGAG
1 AAATGAAAATCGCAACACGAAAATGAAAATCGCAACGAGAG
*
40544 AAATGAAAATCGCAACGCG-AAATGAAAATCGCAACGAGA
1 AAATGAAAATCGCAACACGAAAATGAAAATCGCAACGAGA
40583 TAATCGTAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 18 0.50
41 18 0.50
ACGTcount: A:0.50, C:0.19, G:0.20, T:0.11
Consensus pattern (41 bp):
AAATGAAAATCGCAACACGAAAATGAAAATCGCAACGAGAG
Found at i:40682 original size:20 final size:19
Alignment explanation
Indices: 40605--40675 Score: 88
Period size: 20 Copynumber: 3.6 Consensus size: 19
40595 GAAACCAAAA
* **
40605 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATAGTCATT
40624 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATAGTCATT
40643 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATAGTCATT
*
40663 CTCTCGTTGCGAT
1 -TCGCGTTGCGAT
40676 TTTCATTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
19 17 0.37
20 28 0.61
21 1 0.02
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.39
Consensus pattern (19 bp):
TCGCGTTGCGATAGTCATT
Found at i:42540 original size:94 final size:94
Alignment explanation
Indices: 42379--42593 Score: 378
Period size: 94 Copynumber: 2.3 Consensus size: 94
42369 TAGATTGCTT
* *
42379 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
42444 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
42473 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
42538 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
42567 AGTAAATTTGTTCAGTTGCTGCCAATT
1 AGTAAATTTATTCGGTTGCTGCCAATT
42594 GAAACTTGAA
Statistics
Matches: 116, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
93 20 0.17
94 96 0.83
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:44450 original size:14 final size:14
Alignment explanation
Indices: 44431--44466 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
44421 ATTGTTTAAT
44431 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
44445 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
44459 TGATTTGT
1 TGATTTGT
44467 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:44589 original size:19 final size:17
Alignment explanation
Indices: 44573--44623 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
44563 AAAAATGACT
44573 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
44592 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
44606 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
44623 A
1 A
44624 AATTGCAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.30
16 5 0.19
17 7 0.26
19 7 0.26
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.14
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:44615 original size:33 final size:33
Alignment explanation
Indices: 44573--44666 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 33
44563 AAAAATGACT
* *
44573 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
44606 ATCGCAATGCGAAATGAAAATTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
44639 ATCACAACGCGAAACT-AAAATCGCAACG
1 ATCGCAATGCGAAA-TGAAAATCGCAACG
44667 CGAAACTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 53 0.98
34 1 0.02
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:44688 original size:19 final size:19
Alignment explanation
Indices: 44636--44682 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
44626 TTGCAACGAC
*
44636 AAAATCACAACGCGAAACT
1 AAAATCGCAACGCGAAACT
44655 AAAATCGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
*
44674 AAATTCGCA
1 AAAATCGCA
44683 TTGCGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.49, C:0.26, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Found at i:44699 original size:19 final size:19
Alignment explanation
Indices: 44677--44848 Score: 104
Period size: 19 Copynumber: 9.7 Consensus size: 19
44667 CGAAACTAAA
44677 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
44696 TTCGCTTTGTGA--TTC--
1 TTCGCATTGCGATTTTCAT
* * *
44711 -CCTCATTACGATTTTCAT
1 TTCGCATTGCGATTTTCAT
44729 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
44745 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
**
44762 TTCGCATTGCGATAGTCAT
1 TTCGCATTGCGATTTTCAT
* *
44781 TTCCGCGTTGCGATATTCAT
1 TT-CGCATTGCGATTTTCAT
* *
44801 ATTTGCGTTGCGATTTTCA-
1 -TTCGCATTGCGATTTTCAT
44820 --CG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
44835 TTCACATTGCGATT
1 TTCGCATTGCGATT
44849 CTCTCGTTGC
Statistics
Matches: 116, Mismatches: 20, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
14 24 0.21
16 11 0.09
17 11 0.09
19 39 0.34
20 29 0.25
21 2 0.02
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:44728 original size:33 final size:33
Alignment explanation
Indices: 44681--44861 Score: 146
Period size: 33 Copynumber: 5.3 Consensus size: 33
44671 ACTAAATTCG
* *
44681 CATTGCGATTTTCATTTCGCTTTGTGATTCCCT
1 CATTGCGATTTTCATTTCGCATTGCGATTCCCT
* *
44714 CATTACGATTTTCATTTCGCATTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCATTGCGATTCCCT
* *
44747 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCG
1 CATTGCGATTTTCATTTCGCATTGCGAT--TC----CCT
* * * * ** *
44786 CGTTGCGATATTCATATTTGCGTTGCGATTTTCA
1 CATTGCGATTTTCAT-TTCGCATTGCGATTCCCT
* * *
44820 CGTTGCGATTTTCATTTCACATTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCATTGCGATTCCCT
*
44853 CGTTGCGAT
1 CATTGCGAT
44862 AGTAATTTCC
Statistics
Matches: 121, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
33 77 0.64
34 15 0.12
35 2 0.02
38 1 0.01
39 15 0.12
40 11 0.09
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:44793 original size:20 final size:19
Alignment explanation
Indices: 44747--44819 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
44737 GCGATTCTCT
*
44747 CGTTGCGATTTTCATTTCG
1 CGTTGCGATATTCATTTCG
* *
44766 CATTGCGATAGTCATTTCCG
1 CGTTGCGATATTCATTT-CG
*
44786 CGTTGCGATATTCATATTTG
1 CGTTGCGATATTCAT-TTCG
*
44806 CGTTGCGATTTTCA
1 CGTTGCGATATTCA
44820 CGTTGCGATT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 14 0.31
20 29 0.64
21 2 0.04
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (19 bp):
CGTTGCGATATTCATTTCG
Found at i:44825 original size:14 final size:14
Alignment explanation
Indices: 44806--44833 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44796 TTCATATTTG
44806 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
44820 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
44834 TTTCACATTG
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:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:44870 original size:33 final size:33
Alignment explanation
Indices: 44683--44881 Score: 130
Period size: 33 Copynumber: 5.8 Consensus size: 33
44673 TAAATTCGCA
* * * * * *
44683 TTGCGATTTTCATTTCGCTTTGTGATTCCCTCA
1 TTGCGATATTAATTTCGCATTGCGATTCTCTCG
* * *
44716 TTACGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATATTAATTTCGCATTGCGATTCTCTCG
* * *
44749 TTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCGCG
1 TTGCGATATTAATTTCGCATTGCGAT--TC---T-CTCG
* * *
44788 TTGCGATATTCATATTT-GCGTTGCGATTTTCACG
1 TTGCGATATT-A-ATTTCGCATTGCGATTCTCTCG
* * *
44822 TTGCGATTTTCATTTCACATTGCGATTCTCTCG
1 TTGCGATATTAATTTCGCATTGCGATTCTCTCG
* *
44855 TTGCGATAGTAATTTCCGCGTTGCGAT
1 TTGCGATATTAATTT-CGCATTGCGAT
44882 AGACATTAAG
Statistics
Matches: 133, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
32 4 0.03
33 78 0.59
34 21 0.16
35 3 0.02
38 2 0.02
39 12 0.09
40 9 0.07
41 4 0.03
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.44
Consensus pattern (33 bp):
TTGCGATATTAATTTCGCATTGCGATTCTCTCG
Found at i:48325 original size:21 final size:21
Alignment explanation
Indices: 48301--48346 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
48291 TATTCGCGTT
48301 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
48322 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
48343 GCGA
1 GCGA
48347 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:51199 original size:24 final size:25
Alignment explanation
Indices: 51172--51219 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
51162 ACCCTCAAGA
*
51172 GAAATAAAAA-AA-AGAACATAATAT
1 GAAAAAAAAATAAGAGAAC-TAATAT
51196 GAAAAAAAAATAAGAGAACTAATA
1 GAAAAAAAAATAAGAGAACTAATA
51220 ATTACCGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 7 0.33
26 5 0.24
ACGTcount: A:0.71, C:0.04, G:0.10, T:0.15
Consensus pattern (25 bp):
GAAAAAAAAATAAGAGAACTAATAT
Found at i:58518 original size:19 final size:20
Alignment explanation
Indices: 58482--58520 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
58472 AATATGCTCG
58482 GGGGGAACCGATTCCCCCCA
1 GGGGGAACCGATTCCCCCCA
*
58502 GGGGGTACCGATTCCCCCC
1 GGGGGAACCGATTCCCCCC
58521 TTGTATAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.41, G:0.31, T:0.13
Consensus pattern (20 bp):
GGGGGAACCGATTCCCCCCA
Found at i:59528 original size:21 final size:21
Alignment explanation
Indices: 59485--59529 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
59475 TATCGCATTA
**
59485 CGATTTTCCAAATTCGCGTTG
1 CGATTTTCCAAATTCGCAATG
*
59506 CGATTTTCCTAATTCGCAATG
1 CGATTTTCCAAATTCGCAATG
59527 CGA
1 CGA
59530 ATACATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (21 bp):
CGATTTTCCAAATTCGCAATG
Found at i:59544 original size:20 final size:20
Alignment explanation
Indices: 59519--59612 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
59509 TTTTCCTAAT
59519 TCGCAATGCGAATACATAAA
1 TCGCAATGCGAATACATAAA
* **
59539 TCGCAACGCGAATTTGGA-AAA
1 TCGCAATGCGAA--TACATAAA
* *
59560 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACATAAA
*
59580 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACATAAA
*
59600 TCGCAACGCGAAT
1 TCGCAATGCGAAT
59613 CTGACTATCG
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 1 0.02
20 45 0.74
21 13 0.21
22 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACATAAA
Found at i:59622 original size:20 final size:20
Alignment explanation
Indices: 59599--59662 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
59589 GAATACGTAA
* *
59599 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
59619 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
59639 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
59659 ATCG
1 ATCG
59663 TAATACTGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:60438 original size:24 final size:24
Alignment explanation
Indices: 60411--60464 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
60401 GTATTCGAAA
*
60411 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
60435 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
60459 TTTGAT
1 TTTGAT
60465 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:60656 original size:12 final size:12
Alignment explanation
Indices: 60639--60663 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60629 ATATAATCCT
60639 GAAGAAGAAAAA
1 GAAGAAGAAAAA
60651 GAAGAAGAAAAA
1 GAAGAAGAAAAA
60663 G
1 G
60664 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:62894 original size:14 final size:14
Alignment explanation
Indices: 62875--62902 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
62865 TTCATTTGAC
62875 AATCGCAACGCGAA
1 AATCGCAACGCGAA
62889 AATCGCAACGCGAA
1 AATCGCAACGCGAA
62903 TATGACTATC
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:0.29, G:0.21, T:0.07
Consensus pattern (14 bp):
AATCGCAACGCGAA
Found at i:62974 original size:19 final size:19
Alignment explanation
Indices: 62886--63034 Score: 119
Period size: 20 Copynumber: 7.9 Consensus size: 19
62876 ATCGCAACGC
62886 GAAAATCGCAACGCGAATAT
1 GAAAATCGCAACGCGAA-AT
** *
62906 GACTATCGCAACACAGAAAT
1 GAAAATCGCAACGC-GAAAT
** *
62926 GACTATCGCAACGCGGAATT
1 GAAAATCGCAACGC-GAAAT
** *
62946 GACTATCGCAATGCGAAAT
1 GAAAATCGCAACGCGAAAT
*
62965 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAACGCGAAAT
*
62984 GAAAATCGCAA--CG-AGT
1 GAAAATCGCAACGCGAAAT
*
63000 G--AATCGCAATGCGAAAAT
1 GAAAATCGCAACGCG-AAAT
63018 GAAAATCGCAACGCGAA
1 GAAAATCGCAACGCGAA
63035 TTTAGTTTCG
Statistics
Matches: 109, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
14 8 0.07
16 5 0.05
17 2 0.02
18 3 0.03
19 34 0.31
20 54 0.50
21 3 0.03
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAACGCGAAAT
Found at i:63088 original size:34 final size:34
Alignment explanation
Indices: 63045--63140 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
63035 TTTAGTTTCG
63045 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
63079 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
* ** * *
63112 TGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
63141 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:64692 original size:21 final size:22
Alignment explanation
Indices: 64642--64744 Score: 56
Period size: 21 Copynumber: 4.9 Consensus size: 22
64632 AATGTTGGGA
* *
64642 GGGACCTCTTCAAC-GATGACAG
1 GGGA-CTCTTGAACGGATGAGAG
* * *
64664 TGGCCTCTTGAACGG-TGGGAG
1 GGGACTCTTGAACGGATGAGAG
* *
64685 GGGACTCTT-AAGGGATGATAG
1 GGGACTCTTGAACGGATGAGAG
* *
64706 GGGCCTCTTGAAC-GAT-AGGG
1 GGGACTCTTGAACGGATGAGAG
*
64726 GAGGCCTCTTGAAC-GATGA
1 G-GGACTCTTGAACGGATGA
64745 CAGGTGAGTC
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
20 7 0.11
21 49 0.79
22 6 0.10
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GGGACTCTTGAACGGATGAGAG
Found at i:64735 original size:42 final size:42
Alignment explanation
Indices: 64656--64748 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 42
64646 CCTCTTCAAC
* * *
64656 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTAAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTAAGG
* * *
64698 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAA-C
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTT-AAGG
64740 GATGACAGG
1 GATGACAGG
64749 TGAGTCGGGC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
42 37 0.88
43 5 0.12
ACGTcount: A:0.24, C:0.17, G:0.39, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTAAGG
Found at i:65251 original size:20 final size:20
Alignment explanation
Indices: 65237--65316 Score: 133
Period size: 20 Copynumber: 4.0 Consensus size: 20
65227 AATCGTAACT
65237 CGAAAATGACTATCGCAACG
1 CGAAAATGACTATCGCAACG
65257 CGAAAATGACTATCGCAACG
1 CGAAAATGACTATCGCAACG
*
65277 CGAAAATGACTATCGCAATG
1 CGAAAATGACTATCGCAACG
**
65297 CGAATTTGACTATCGCAACG
1 CGAAAATGACTATCGCAACG
65317 AGAGAATCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.19
Consensus pattern (20 bp):
CGAAAATGACTATCGCAACG
Found at i:65292 original size:40 final size:40
Alignment explanation
Indices: 65228--65316 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
65218 GAAACTTAAA
* *
65228 ATCGTAACTCGAAAATGACTATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACT
* **
65268 ATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACT
65308 ATCGCAACG
1 ATCGCAACG
65317 AGAGAATCGC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (40 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACT
Found at i:65351 original size:19 final size:19
Alignment explanation
Indices: 65323--65554 Score: 107
Period size: 20 Copynumber: 12.7 Consensus size: 19
65313 AACGAGAGAA
* *
65323 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATATTCATT
65342 TCGCATTGCG--ATTC-TT
1 TCGCATTGCGATATTCATT
* * *
65358 TTG--TTGCGATAGTCAAAT
1 TCGCATTGCGATATTC-ATT
*
65376 TCGCATTGCGATAGTCATTT
1 TCGCATTGCGATATTCA-TT
*
65396 TCGCATTGCGATAGTCATTT
1 TCGCATTGCGATATTCA-TT
* * *
65416 TCTCATTGCGGTAGTCATTT
1 TCGCATTGCGATATTCA-TT
* * *
65436 TCGCGTTGCGATCTT--GT
1 TCGCATTGCGATATTCATT
* *
65453 T-G--TTTCGATTTTCATT
1 TCGCATTGCGATATTCATT
* *
65469 TTGCATTGCGATTTTCATT
1 TCGCATTGCGATATTCATT
65488 TCGCATTGCG--ATTC---
1 TCGCATTGCGATATTCATT
* *
65502 TCTCATTGCGATAGTCATTT
1 TCGCATTGCGATATTCA-TT
* * *
65522 TCACGTTGCGATAGTCATTT
1 TCGCATTGCGATATTCA-TT
65542 TCGCATTGCGATA
1 TCGCATTGCGATA
65555 GTAAACTATT
Statistics
Matches: 168, Mismatches: 27, Indels: 35
0.73 0.12 0.15
Matches are distributed among these distances:
14 22 0.13
16 13 0.08
17 9 0.05
18 3 0.02
19 32 0.19
20 89 0.53
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (19 bp):
TCGCATTGCGATATTCATT
Found at i:65386 original size:20 final size:20
Alignment explanation
Indices: 65361--65556 Score: 161
Period size: 20 Copynumber: 10.5 Consensus size: 20
65351 GATTCTTTTG
**
65361 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
65381 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
65401 TTGCGATAGTCATTTTCTCA
1 TTGCGATAGTCATTTTCGCA
* *
65421 TTGCGGTAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
65441 TTGCG--A-TC-TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
* **
65455 TTTCGATTTTCATTTT-GCA
1 TTGCGATAGTCATTTTCGCA
**
65474 TTGCGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
65493 TTGCGAT--TC----TCTCA
1 TTGCGATAGTCATTTTCGCA
* *
65507 TTGCGATAGTCATTTTCACG
1 TTGCGATAGTCATTTTCGCA
65527 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
65547 TTGCGATAGT
1 TTGCGATAGT
65557 AAACTATTCT
Statistics
Matches: 148, Mismatches: 14, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
14 15 0.10
16 5 0.03
17 11 0.07
18 6 0.04
19 21 0.14
20 90 0.61
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:65423 original size:40 final size:40
Alignment explanation
Indices: 65323--65556 Score: 161
Period size: 40 Copynumber: 6.4 Consensus size: 40
65313 AACGAGAGAA
* **
65323 TCGCAATGCGATTTTCA-TTTCGCATTGCGAT--TC-TTT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
**
65359 T-G--TTGCGATAGTCAAATTCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
* *
65396 TCGCATTGCGATAGTCATTTTCTCATTGCGGTAGTCATTT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
* * **
65436 TCGCGTTGCG--A-TC-TTGTT-G--TTTCGATTTTCATTT
1 TCGCATTGCGATAGTCATT-TTCGCATTGCGATAGTCATTT
**
65470 T-GCATTGCGATTTTCA-TTTCGCATTGCGAT--TC----
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
* * *
65502 TCTCATTGCGATAGTCATTTTCACGTTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
65542 TCGCATTGCGATAGT
1 TCGCATTGCGATAGT
65557 AAACTATTCT
Statistics
Matches: 152, Mismatches: 23, Indels: 42
0.70 0.11 0.19
Matches are distributed among these distances:
32 1 0.01
33 28 0.18
34 37 0.24
35 3 0.02
36 13 0.09
37 8 0.05
38 8 0.05
40 54 0.36
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.43
Consensus pattern (40 bp):
TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
Found at i:67472 original size:20 final size:20
Alignment explanation
Indices: 67425--67492 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
67415 GAAACTTTAA
* **
67425 ATCGCATCACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
*
67445 ATCACAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
67465 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
67485 ATCGCAAC
1 ATCGCAAC
67493 GCAAGAATCG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.43, C:0.25, G:0.15, T:0.18
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:67533 original size:33 final size:34
Alignment explanation
Indices: 67465--67534 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
67455 GAAAATGACT
* **
67465 ATCGCAACGCGAATTTGACTATCGCAACGCAAGA
1 ATCGCAACGCGAATATGAAAATCGCAACGCAAGA
67499 ATCGCAACGCGAA-ATGAAAATCGCAACG-ACAGA
1 ATCGCAACGCGAATATGAAAATCGCAACGCA-AGA
67532 ATC
1 ATC
67535 ACATTGCGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 1 0.03
33 18 0.56
34 13 0.41
ACGTcount: A:0.40, C:0.26, G:0.20, T:0.14
Consensus pattern (34 bp):
ATCGCAACGCGAATATGAAAATCGCAACGCAAGA
Found at i:67887 original size:22 final size:22
Alignment explanation
Indices: 67862--67937 Score: 98
Period size: 22 Copynumber: 3.5 Consensus size: 22
67852 CGACCGTGAA
67862 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGCCGGAGATGGAGAC
* * *
67884 TGATATCGTCGGAGATGGTGAC
1 TGATTTCGCCGGAGATGGAGAC
* *
67906 TGATTTCGCCGGAGATGGGGAA
1 TGATTTCGCCGGAGATGGAGAC
*
67928 TGATGTCGCC
1 TGATTTCGCC
67938 TTAGAGAGTG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.21, C:0.17, G:0.37, T:0.25
Consensus pattern (22 bp):
TGATTTCGCCGGAGATGGAGAC
Found at i:68148 original size:20 final size:20
Alignment explanation
Indices: 68132--68257 Score: 216
Period size: 20 Copynumber: 6.3 Consensus size: 20
68122 CAGATTCACG
68132 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
68152 TTGCGATTTTCGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
68172 TTGCGATTTTCGTATTCGCA
1 TTGCGATTTACGTATTCGCA
68192 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
68212 TTGCTATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
68232 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
68252 TTGCGA
1 TTGCGA
68258 ATTAGGAAAA
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 100 1.00
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:68279 original size:21 final size:21
Alignment explanation
Indices: 68255--68294 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
68245 ATTCGCATTG
68255 CGAATTAGGAAAATCGCAACA
1 CGAATTAGGAAAATCGCAACA
*
68276 CGAATTTGGAAAATCGCAA
1 CGAATTAGGAAAATCGCAA
68295 TGCGATAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (21 bp):
CGAATTAGGAAAATCGCAACA
Found at i:71968 original size:187 final size:189
Alignment explanation
Indices: 71694--72066 Score: 534
Period size: 189 Copynumber: 2.0 Consensus size: 189
71684 ACTATGTTAC
* * * * * * * *
71694 TCCATCTAAGTGTATAGATGTTTTTAACGGGGCTCGTAATAATATTTTTGTGTGTAAGATTGTTT
1 TCCAACTAAGTGTACAGAGGTTTTTAACGAGACCCGTAATAATATTCTTGTGTGTAAGATTATTT
*
71759 TTGAATAAAATTATACATTTTCATCT-AAA-AATAGATTTTCAATCGAAAATATAAAAAATACAT
66 TTGAATAAAATCATACATTTTCATCTAAAATAATAGATTTTCAATCGAAAATATAAAAAATACAT
*
71822 CTCAAATATAATCTAAAAATTTTAGGAGGAGTGATTGCCCTTAACCGCTCATCTTTTCT
131 CTCAAATATAATCTAAAAATTTTAGGAGGAGTGATTACCCTTAACCGCTCATCTTTTCT
* * *
71881 TCCAACTAAGTGTACGGAGGTTTTTAACGAGACCCGTATTAATATTCTTGTGTGTATGATTATTT
1 TCCAACTAAGTGTACAGAGGTTTTTAACGAGACCCGTAATAATATTCTTGTGTGTAAGATTATTT
* ** *
71946 TTGAATGAAATCATGTATTTTCATCTAAAATAATAGATTTTCAATCTAAAATATAAAAAATACAT
66 TTGAATAAAATCATACATTTTCATCTAAAATAATAGATTTTCAATCGAAAATATAAAAAATACAT
* * * * *
72011 CTCAAATATAATCTAAAAGTTTTAGGGGGAGTGATTACCTTTACCCGCTCCTCTTT
131 CTCAAATATAATCTAAAAATTTTAGGAGGAGTGATTACCCTTAACCGCTCATCTTT
72067 CGGTCTATAT
Statistics
Matches: 162, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
187 76 0.47
188 3 0.02
189 83 0.51
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (189 bp):
TCCAACTAAGTGTACAGAGGTTTTTAACGAGACCCGTAATAATATTCTTGTGTGTAAGATTATTT
TTGAATAAAATCATACATTTTCATCTAAAATAATAGATTTTCAATCGAAAATATAAAAAATACAT
CTCAAATATAATCTAAAAATTTTAGGAGGAGTGATTACCCTTAACCGCTCATCTTTTCT
Found at i:72079 original size:2 final size:2
Alignment explanation
Indices: 72072--72096 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
72062 TCTTTCGGTC
72072 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
72097 GAACAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:73543 original size:2 final size:2
Alignment explanation
Indices: 73536--73564 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
73526 GATAAATTTA
73536 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73565 TATTATTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74683 original size:44 final size:45
Alignment explanation
Indices: 74595--74686 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 45
74585 CATGGTTATC
*
74595 ATACTGGTTTCTTATTATTATTTAATATTATGTGGGAAATTAATTG
1 ATACTGGTTTCTTATTATTATTT-ATATTATGTCGGAAATTAATTG
74641 ATACTGGTTTCTTATTATTATTT-TATTATGTCGGAAATTAATTG
1 ATACTGGTTTCTTATTATTATTTATATTATGTCGGAAATTAATTG
74685 AT
1 AT
74687 TCGGATCGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 22 0.49
46 23 0.51
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.51
Consensus pattern (45 bp):
ATACTGGTTTCTTATTATTATTTATATTATGTCGGAAATTAATTG
Found at i:77788 original size:21 final size:21
Alignment explanation
Indices: 77763--77803 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
77753 AACATGGATC
77763 ATTTTCATTTATATTTAATTT
1 ATTTTCATTTATATTTAATTT
* *
77784 ATTTTTATTTTTATTTAATT
1 ATTTTCATTTATATTTAATT
77804 AAGATGTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTTCATTTATATTTAATTT
Found at i:78511 original size:13 final size:14
Alignment explanation
Indices: 78479--78511 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
78469 TTTAATTGCG
78479 AAAA-TTAAGAATT
1 AAAATTTAAGAATT
78492 AAAATTTAA-AATT
1 AAAATTTAAGAATT
78505 AAAATTT
1 AAAATTT
78512 TGATTCGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
AAAATTTAAGAATT
Found at i:78733 original size:17 final size:16
Alignment explanation
Indices: 78667--78843 Score: 56
Period size: 17 Copynumber: 10.2 Consensus size: 16
78657 AATTAAAGAG
78667 AAAAAT-AAAAAAAAT
1 AAAAATAAAAAAAAAT
* *
78682 AAAAA-AACATAAAAT
1 AAAAATAAAAAAAAAT
* *
78697 AATAAGTCAAAGGAATAAAT
1 AA-AAAT-AAA--AAAAAAT
78717 AAAAATAGAAAAAAAAT
1 AAAAATA-AAAAAAAAT
78734 ATAATTAATAAAATAAAAA-
1 A-AA--AATAAAA-AAAAAT
*
78753 AATGAATAAAATATAAAAT
1 AA-AAATAAAA-A-AAAAT
* *
78772 AAAATTTAGTAAAAAGAAT
1 AAAA-ATA--AAAAAAAAT
* *
78791 AAGAAT-AGAAAAAAT
1 AAAAATAAAAAAAAAT
* *
78806 CAAAATCAAAATAAAAT
1 AAAAAT-AAAAAAAAAT
* *
78823 AAAATTACTAAAAAAAT
1 AAAAATA-AAAAAAAAT
78840 AAAA
1 AAAA
78844 GAGGTTAAAT
Statistics
Matches: 118, Mismatches: 24, Indels: 38
0.66 0.13 0.21
Matches are distributed among these distances:
15 25 0.21
16 3 0.03
17 38 0.32
18 12 0.10
19 20 0.17
20 17 0.14
21 3 0.03
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (16 bp):
AAAAATAAAAAAAAAT
Found at i:78751 original size:31 final size:29
Alignment explanation
Indices: 78713--78776 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 29
78703 TCAAAGGAAT
*
78713 AAATAAAAATA-GAAAAAAAATATAATTAATA
1 AAATAAAAAAATG-AAAAAAATATAA--AATA
*
78744 AAATAAAAAAATGAATAAAATATAAAATA
1 AAATAAAAAAATGAAAAAAATATAAAATA
78773 AAAT
1 AAAT
78777 TTAGTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 8 0.27
31 21 0.70
32 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (29 bp):
AAATAAAAAAATGAAAAAAATATAAAATA
Found at i:78761 original size:24 final size:22
Alignment explanation
Indices: 78726--78775 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
78716 TAAAAATAGA
*
78726 AAAAAAATAT-AATTAATAAAAT
1 AAAAAAATATAAAAT-ATAAAAT
78748 AAAAAAATGAATAAAATATAAAAT
1 AAAAAAAT--ATAAAATATAAAAT
78772 AAAA
1 AAAA
78776 TTTAGTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.33
24 13 0.54
25 3 0.12
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAAAAATATAAAATATAAAAT
Found at i:79822 original size:30 final size:29
Alignment explanation
Indices: 79786--79848 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
79776 TACCTTGGTA
79786 TGGTTTTTTTAGTTTACTCGTGGGTTCTG
1 TGGTTTTTTTAGTTTACTCGTGGGTTCTG
* *
79815 TTGG-TTTTTTGGTTTACTCGTGGGTTTTG
1 -TGGTTTTTTTAGTTTACTCGTGGGTTCTG
79844 TGGTT
1 TGGTT
79849 CTCGATCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 3 0.10
29 24 0.80
30 3 0.10
ACGTcount: A:0.05, C:0.08, G:0.30, T:0.57
Consensus pattern (29 bp):
TGGTTTTTTTAGTTTACTCGTGGGTTCTG
Found at i:80324 original size:2 final size:2
Alignment explanation
Indices: 80317--80356 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
80307 TATTTCCAAA
80317 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
80357 TTTTCCAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:80392 original size:38 final size:36
Alignment explanation
Indices: 80340--80666 Score: 173
Period size: 38 Copynumber: 8.7 Consensus size: 36
80330 TATATATATA
80340 TATATATATATATATATTTTTCCAAAATGATTTTTAAAC
1 TATATAT-TATATATATTTTT-CAAAATG-TTTTTAAAC
* * *
80379 TATATATTATATATATTTTCCAAAATATTTTGAAAAC
1 TATATATTATATATATTTTTCAAAATGTTTT-TAAAC
* * *
80416 TATATTTTATATGTA-TCTTCAAAATGTTTTTCAAA-
1 TATATATTATATATATTTTTCAAAATGTTTTT-AAAC
*
80451 AATCATA-TAGTATATATTTTT-AAAATGTTTTTTTTTCAAAATC
1 TAT-ATATTA-TATATATTTTTCAAAATG----TTTTT--AAA-C
* * *
80494 TATATAATATATATA-TTCTCAAAATGTTTTTGAAAAAA
1 TATATATTATATATATTTTTCAAAATGTTTTT---AAAC
* *
80532 TATATATTACATATATATTTTCAAAATGTTTTAAAAAC
1 TATATATTATATATAT-TTTTCAAAATGTTTT-TAAAC
* * * * **
80570 CATATATTATATGTAAGTTTTCAAAAATATTTAAAAAC
1 TATATATTATATAT-ATTTTTC-AAAATGTTTTTAAAC
* * * * *
80608 CATATATTATATA-ATTTCT-GAAATGATTTCAAAC
1 TATATATTATATATATTTTTCAAAATGTTTTTAAAC
* * * *
80642 TATATAATATACATACTTTTAAAAA
1 TATATATTATATATATTTTTCAAAA
80667 ATCTTCTTCA
Statistics
Matches: 223, Mismatches: 43, Indels: 47
0.71 0.14 0.15
Matches are distributed among these distances:
34 20 0.09
35 8 0.04
36 39 0.17
37 26 0.12
38 66 0.30
39 20 0.09
40 19 0.09
41 6 0.03
42 15 0.07
43 4 0.02
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (36 bp):
TATATATTATATATATTTTTCAAAATGTTTTTAAAC
Found at i:80394 original size:40 final size:37
Alignment explanation
Indices: 80338--80620 Score: 168
Period size: 40 Copynumber: 7.4 Consensus size: 37
80328 TATATATATA
80338 TATATATATATATATATATTTTTCCAAAATGATTTTTAAAC
1 TATATAT-TATATATATA-TTTT-CAAAATG-TTTTTAAAC
* * *
80379 TATATATTATATATAT-TTTCCAAAATATTTTGAAAAC
1 TATATATTATATATATATTTTCAAAATGTTTT-TAAAC
* *
80416 TATAT-TT-TATATGTATCTTCAAAATGTTTTTCAAA-
1 TATATATTATATATATATTTTCAAAATGTTTTT-AAAC
* *
80451 -A-ATCA-TATAGTATATATTTTTAAAATGTTTTTTTTTCAAAA
1 TATAT-ATTATA-TATATATTTTCAAAATG----TTTTT-AAAC
* * * *
80492 TCTATATAATATATATATTCTCAAAATGTTTTTGAAAAAA
1 TATATATTATATATATATTTTCAAAATGTTTTT---AAAC
* *
80532 TATATATTACATATATATTTTCAAAATGTTTTAAAAAC
1 TATATATTATATATATATTTTCAAAATGTTTT-TAAAC
* * * **
80570 CATATATTATATGTA-AGTTTTCAAAAATATTTAAAAAC
1 TATATATTATATATATA-TTTTC-AAAATGTTTTTAAAC
*
80608 CATATATTATATA
1 TATATATTATATA
80621 ATTTCTGAAA
Statistics
Matches: 194, Mismatches: 28, Indels: 43
0.73 0.11 0.16
Matches are distributed among these distances:
33 2 0.01
34 2 0.01
35 8 0.04
36 35 0.18
37 16 0.08
38 45 0.23
39 8 0.04
40 50 0.26
41 7 0.04
42 16 0.08
43 5 0.03
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.46
Consensus pattern (37 bp):
TATATATTATATATATATTTTCAAAATGTTTTTAAAC
Found at i:87468 original size:10 final size:10
Alignment explanation
Indices: 87453--87478 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
87443 TAAACTAACC
87453 GAACAAACAT
1 GAACAAACAT
87463 GAACAAACAT
1 GAACAAACAT
87473 GAACAA
1 GAACAA
87479 GGGTATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.19, G:0.12, T:0.08
Consensus pattern (10 bp):
GAACAAACAT
Found at i:87640 original size:10 final size:10
Alignment explanation
Indices: 87621--87667 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
87611 CGTTTAAATG
*
87621 ATAAATGAAC
1 ATAAACGAAC
87631 ATAAACGAAC
1 ATAAACGAAC
* *
87641 ACAAACGAAT
1 ATAAACGAAC
*
87651 GTAAACGAAC
1 ATAAACGAAC
87661 ATAAACG
1 ATAAACG
87668 GACGAAAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.57, C:0.17, G:0.13, T:0.13
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:87917 original size:24 final size:24
Alignment explanation
Indices: 87855--87917 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
87845 CGAGTCTGGA
*
87855 GAACATAAATGAACATAAACGAAC
1 GAACATAAATGAACATAAACAAAC
* * *
87879 GAATATAAATAAACATAAATAAAC
1 GAACATAAATGAACATAAACAAAC
* *
87903 GAGCATAAACGAACA
1 GAACATAAATGAACA
87918 AATTATCAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.14
Consensus pattern (24 bp):
GAACATAAATGAACATAAACAAAC
Found at i:93840 original size:17 final size:17
Alignment explanation
Indices: 93818--93851 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
93808 GAGAACTAGT
93818 TTCTGCGTCTGCTTTTA
1 TTCTGCGTCTGCTTTTA
93835 TTCTGCGTCTGCTTTTA
1 TTCTGCGTCTGCTTTTA
93852 GCAGTCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.24, G:0.18, T:0.53
Consensus pattern (17 bp):
TTCTGCGTCTGCTTTTA
Found at i:94230 original size:25 final size:25
Alignment explanation
Indices: 94192--94239 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
94182 GTTCGGTAAA
*
94192 TTATTTGTGATTCATTTATATAAAAT
1 TTATTTATGATTCATTTAT-TAAAAT
94218 TTATTTATG-TTCATTTATTAAA
1 TTATTTATGATTCATTTATTAAA
94240 TTAGATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 9 0.43
26 8 0.38
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.56
Consensus pattern (25 bp):
TTATTTATGATTCATTTATTAAAAT
Found at i:94260 original size:41 final size:41
Alignment explanation
Indices: 94215--94322 Score: 189
Period size: 41 Copynumber: 2.6 Consensus size: 41
94205 ATTTATATAA
* * *
94215 AATTTATTTATGTTCATTTATTAAATTAGATAAATGAGTAT
1 AATTTTTTTATCTTCATTTAATAAATTAGATAAATGAGTAT
94256 AATTTTTTTATCTTCATTTAATAAATTAGATAAATGAGTAT
1 AATTTTTTTATCTTCATTTAATAAATTAGATAAATGAGTAT
94297 AATTTTTTTATCTTCATTTAATAAAT
1 AATTTTTTTATCTTCATTTAATAAAT
94323 GAATGAACAC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (41 bp):
AATTTTTTTATCTTCATTTAATAAATTAGATAAATGAGTAT
Found at i:94416 original size:24 final size:24
Alignment explanation
Indices: 94389--94440 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
94379 TATTGACTTA
94389 TTTATAGACCCAAT-TATAAGCTTG
1 TTTATAGACCC-ATCTATAAGCTTG
* * *
94413 TTTATCGACTCGTCTATAAGCTTG
1 TTTATAGACCCATCTATAAGCTTG
94437 TTTA
1 TTTA
94441 CTTGATTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (24 bp):
TTTATAGACCCATCTATAAGCTTG
Found at i:94656 original size:22 final size:23
Alignment explanation
Indices: 94631--94688 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
94621 ATATTTCACG
94631 AATGTTAAATGAACATGTTT-CA
1 AATGTTAAATGAACATGTTTACA
* *
94653 AATGTTAAACGAACATGTTTACG
1 AATGTTAAATGAACATGTTTACA
*
94676 AACGTTAAATGAA
1 AATGTTAAATGAA
94689 TGTGTTCCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (23 bp):
AATGTTAAATGAACATGTTTACA
Found at i:99070 original size:3 final size:3
Alignment explanation
Indices: 99062--99088 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
99052 TAATCAAAAT
99062 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
99089 ATATTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:99409 original size:23 final size:23
Alignment explanation
Indices: 99377--99421 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
99367 AATTTATAAA
99377 ATAATAATTAAAATTTTTGAATG
1 ATAATAATTAAAATTTTTGAATG
* *
99400 ATAATTATTAAATTTTTTGAAT
1 ATAATAATTAAAATTTTTGAAT
99422 TGTTACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (23 bp):
ATAATAATTAAAATTTTTGAATG
Found at i:100927 original size:143 final size:143
Alignment explanation
Indices: 100718--101054 Score: 498
Period size: 143 Copynumber: 2.4 Consensus size: 143
100708 AAAAGTTTGT
* * * *
100718 GAACTGAAAAGTTTCTGTCATTGTGTATTATTTTACGTATGAGAAATGCACGTTTTTATGATATG
1 GAACTGAAAAGTTTCTGTCATGGTGCATTATTTTACATATGAGAAATGCACATTTTTATGATATG
* * * *
100783 AAGTGATATGTCA-CTACTGAAAAAATTTCTAAAATGTGTTGATATATCATTGAAAAATTGTTGA
66 AAGTGATATGTCATC-ACTGAAAAAATTTCTAAAATGAGTTGATATATAATTGAAAAATTGCTAA
100847 AGATGATTAATTGG
130 AGATGATTAATTGG
* * * * *
100861 GCACTGAAAAGTTTATGCCATGGTGCATTATTTCT-CATATGAGAAATGTACATTTTTCTGATAT
1 GAACTGAAAAGTTTCTGTCATGGTGCATTATTT-TACATATGAGAAATGCACATTTTTATGATAT
100925 GAAGTGATATGTCATCACTGAAAAAATTTCTAAAATGAGTTGATATATAATTGAAAAATTGCTAA
65 GAAGTGATATGTCATCACTGAAAAAATTTCTAAAATGAGTTGATATATAATTGAAAAATTGCTAA
100990 AGATGATTAATTGG
130 AGATGATTAATTGG
* * *
101004 GAATTGAAAAGTTTCTGTCATGGTACATTATTTTACCTATGAGAAATGCAC
1 GAACTGAAAAGTTTCTGTCATGGTGCATTATTTTACATATGAGAAATGCAC
101055 GTTTCACTGA
Statistics
Matches: 171, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
142 1 0.01
143 168 0.98
144 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (143 bp):
GAACTGAAAAGTTTCTGTCATGGTGCATTATTTTACATATGAGAAATGCACATTTTTATGATATG
AAGTGATATGTCATCACTGAAAAAATTTCTAAAATGAGTTGATATATAATTGAAAAATTGCTAAA
GATGATTAATTGG
Found at i:106157 original size:15 final size:15
Alignment explanation
Indices: 106137--106167 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
106127 AGTGCAGACC
*
106137 AAGAAAGAGAAAAAG
1 AAGAAAAAGAAAAAG
106152 AAGAAAAAGAAAAAG
1 AAGAAAAAGAAAAAG
106167 A
1 A
106168 GTGAAGATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAAAAG
Done.