Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, 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: 12062019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 103452 characters in sequence are not A, C, G, or T
File 14 of 26
Found at i:5127627 original size:95 final size:94
Alignment explanation
Indices: 5127355--5127636 Score: 338
Period size: 95 Copynumber: 3.0 Consensus size: 94
5127345 ATAAAGAAAG
** ** *
5127355 AATTAGTCTTTGATTGAATCGGATTCAAT-CTTTGTACCTATATTCTGTAATGTTGA-TTTATCC
1 AATTAGTCTTTGATTGAATCAAATTCAATCCTTT-TACCTATATTCTGTAACATTCATTTTAT-C
5127418 TAATCTTTCAGAATATTTTATAAAGTTATAAA
64 T-ATCTTTCAGAATATTTTATAAAGTTATAAA
* * *
5127450 AGTTAGT-TTTCGATTGAATCAAATTCAATCCTTTTACTTATATTCTGTAACATTCATTTTACCT
1 AATTAGTCTTT-GATTGAATCAAATTCAATCCTTTTACCTATATTCTGTAACATTCATTTTATCT
* *
5127514 AGTCTTCCAAAATATTTTATAAAGTTATAAA
65 A-TCTTTCAGAATATTTTATAAAGTTATAAA
*
5127545 AATTAGTCTTTGATTGAAAT-AAATTCAATCCTTTTACCTATATTCTGTAACAATCATTTTATCT
1 AATTAGTCTTTGATTG-AATCAAATTCAATCCTTTTACCTATATTCTGTAACATTCATTTTATCT
* * * *
5127609 GATTTTTTAGAATGTTTTATAACGTTAT
65 -ATCTTTCAGAATATTTTATAAAGTTAT
5127637 CTTTTTACTT
Statistics
Matches: 160, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
94 4 0.03
95 141 0.88
96 15 0.09
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (94 bp):
AATTAGTCTTTGATTGAATCAAATTCAATCCTTTTACCTATATTCTGTAACATTCATTTTATCTA
TCTTTCAGAATATTTTATAAAGTTATAAA
Found at i:5127679 original size:26 final size:27
Alignment explanation
Indices: 5127623--5127680 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
5127613 TTTTAGAATG
* *
5127623 TTTTATAACGTTATCTTTTTACTTATA
1 TTTTATAACGTTATCATTTTACTAATA
*
5127650 TTTTATAACG-T-TCATTTTACCTAATC
1 TTTTATAACGTTATCATTTTA-CTAATA
5127676 TTTTA
1 TTTTA
5127681 GAATATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 7 0.26
26 10 0.37
27 10 0.37
ACGTcount: A:0.26, C:0.14, G:0.03, T:0.57
Consensus pattern (27 bp):
TTTTATAACGTTATCATTTTACTAATA
Found at i:5127822 original size:54 final size:54
Alignment explanation
Indices: 5127704--5127814 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 54
5127694 AGTTATAAAA
* * *
5127704 ATTACTCTTTAATTGAATCAAATTTAATCCTTTTACTTGTATTCTGTAACATTC
1 ATTACTCTTTGATTGAATCAAATTCAATCCTTTTACTTATATTCTGTAACATTC
* *
5127758 ATTACTCTTTGATTGAATCAAATTCAATCCTTTTACTTATATTTTGTAACGTTC
1 ATTACTCTTTGATTGAATCAAATTCAATCCTTTTACTTATATTCTGTAACATTC
5127812 ATT
1 ATT
5127815 TTGCTTTGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.49
Consensus pattern (54 bp):
ATTACTCTTTGATTGAATCAAATTCAATCCTTTTACTTATATTCTGTAACATTC
Found at i:5129400 original size:32 final size:33
Alignment explanation
Indices: 5129345--5129420 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
5129335 AATAAATATT
* *
5129345 ATAAAGAATATTATTTAATATTA-TTATATGTA
1 ATAAAGAATATTATTCAATATTATTTAAATGTA
*
5129377 ATAAAGAATATTATTCAGA-ATTATTTAAATTTA
1 ATAAAGAATATTATTCA-ATATTATTTAAATGTA
*
5129410 ATGAAGAATAT
1 ATAAAGAATAT
5129421 ATTTTGTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 20 0.53
33 18 0.47
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.42
Consensus pattern (33 bp):
ATAAAGAATATTATTCAATATTATTTAAATGTA
Found at i:5133341 original size:36 final size:34
Alignment explanation
Indices: 5133301--5133380 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
5133291 GGTCTTTTAG
* *
5133301 AATATTTTGTAACGTTCATTTTAACTAATCTT-TCAA
1 AATATTTTATAAC-TTCATTTTAA-TAATATTAT-AA
* *
5133337 AATATTTTATAACTTTATTTTTATAATATTATAA
1 AATATTTTATAACTTCATTTTAATAATATTATAA
5133371 AATATTTTAT
1 AATATTTTAT
5133381 CTTGATTCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 18 0.46
35 9 0.23
36 12 0.31
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (34 bp):
AATATTTTATAACTTCATTTTAATAATATTATAA
Found at i:5150099 original size:19 final size:19
Alignment explanation
Indices: 5150077--5150117 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
5150067 TCGAAATATT
*
5150077 TAATTTATTAATTAATAAA
1 TAATTTATTAATTAAAAAA
* *
5150096 TAATTTTTTATTTAAAAAA
1 TAATTTATTAATTAAAAAA
5150115 TAA
1 TAA
5150118 AATTTAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATTTATTAATTAAAAAA
Found at i:5150149 original size:3 final size:3
Alignment explanation
Indices: 5150143--5150195 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
5150133 TTTTCAATTC
5150143 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5150191 AAT AA
1 AAT AA
5150196 CAACAACAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5154406 original size:2 final size:2
Alignment explanation
Indices: 5154401--5154429 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5154391 TTATTAAATG
5154401 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5154430 AGTTCAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5154832 original size:22 final size:23
Alignment explanation
Indices: 5154804--5154849 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
5154794 ATATAATTAC
**
5154804 AATTTTTTAT-TTGTATTTTTTA
1 AATTTTTTATATTACATTTTTTA
5154826 AATTTTTTATATTACATTTTTTA
1 AATTTTTTATATTACATTTTTTA
5154849 A
1 A
5154850 TAAATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
AATTTTTTATATTACATTTTTTA
Found at i:5158228 original size:29 final size:29
Alignment explanation
Indices: 5158193--5158260 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
5158183 GAAAAGGCAC
* *
5158193 AAAAGAAGAAGTTGCATATGAATAGGTAT
1 AAAAGAAGAAGTTGCATATAAATAAGTAT
* * * *
5158222 AAGAGAATAAGTTGTATGTAAATAAGTAT
1 AAAAGAAGAAGTTGCATATAAATAAGTAT
5158251 AAAAGAAGAA
1 AAAAGAAGAA
5158261 TGTATATGTG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.53, C:0.01, G:0.22, T:0.24
Consensus pattern (29 bp):
AAAAGAAGAAGTTGCATATAAATAAGTAT
Found at i:5159869 original size:23 final size:21
Alignment explanation
Indices: 5159804--5159870 Score: 53
Period size: 23 Copynumber: 2.9 Consensus size: 21
5159794 TAAAAAAGCT
5159804 AAAAATTAATATTTTAAAATTAA
1 AAAAATT-ATA-TTTAAAATTAA
* * *
5159827 ATTAAATTTTAATTATAAATTATA
1 A-AAAATTATATTTA-AAATTA-A
5159851 AAAAATTCATATTTAAAATT
1 AAAAATT-ATATTTAAAATT
5159871 TTAAGTATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
22 3 0.09
23 19 0.56
24 12 0.35
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAAATTATATTTAAAATTAA
Found at i:5160293 original size:13 final size:13
Alignment explanation
Indices: 5160275--5160300 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5160265 TCTTTTTCCA
5160275 AAAAAGAAAAATG
1 AAAAAGAAAAATG
5160288 AAAAAGAAAAATG
1 AAAAAGAAAAATG
5160301 TGAGGAGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (13 bp):
AAAAAGAAAAATG
Found at i:5164773 original size:24 final size:22
Alignment explanation
Indices: 5164742--5164795 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
5164732 TGGTGAGTCC
*
5164742 AAGAGAGAGTGATGCAGAGAGGAG
1 AAGAGAGAGAG-TGCAG-GAGGAG
* *
5164766 GAGAGAGAGAGTGGAGGAGGAG
1 AAGAGAGAGAGTGCAGGAGGAG
5164788 AAGAGAGA
1 AAGAGAGA
5164796 AAATACNNNN
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 13 0.50
23 4 0.15
24 9 0.35
ACGTcount: A:0.43, C:0.02, G:0.50, T:0.06
Consensus pattern (22 bp):
AAGAGAGAGAGTGCAGGAGGAG
Found at i:5164776 original size:16 final size:16
Alignment explanation
Indices: 5164757--5164794 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5164747 AGAGTGATGC
5164757 AGAGAGGAGGA-GAGA
1 AGAGAGGAGGAGGAGA
*
5164772 GAGAGTGGAGGAGGAGA
1 -AGAGAGGAGGAGGAGA
5164789 AGAGAG
1 AGAGAG
5164795 AAAATACNNN
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.55, T:0.03
Consensus pattern (16 bp):
AGAGAGGAGGAGGAGA
Found at i:5179051 original size:12 final size:12
Alignment explanation
Indices: 5179034--5179058 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5179024 CCAATGTTTT
5179034 ATATTATATAAA
1 ATATTATATAAA
5179046 ATATTATATAAA
1 ATATTATATAAA
5179058 A
1 A
5179059 ATTTTCCATT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATTATATAAA
Found at i:5183211 original size:13 final size:14
Alignment explanation
Indices: 5183193--5183224 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
5183183 ATGGTTACAT
5183193 TATAATGCAACAA-
1 TATAATGCAACAAG
5183206 TATAATGCAACAAG
1 TATAATGCAACAAG
5183220 TATAA
1 TATAA
5183225 AACTTTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.25
Consensus pattern (14 bp):
TATAATGCAACAAG
Found at i:5186867 original size:14 final size:14
Alignment explanation
Indices: 5186848--5186875 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5186838 AAGACCAGAG
5186848 AATAAAAAAATAAT
1 AATAAAAAAATAAT
5186862 AATAAAAAAATAAT
1 AATAAAAAAATAAT
5186876 TTCACAATAC
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAAAAAATAAT
Found at i:5202730 original size:27 final size:27
Alignment explanation
Indices: 5202694--5202746 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
5202684 TAGAAGTGAA
*
5202694 AGAGAGAGTTTGTAGAGAAGAGTGGTG
1 AGAGAGAGTTTGTAGAGAAAAGTGGTG
*
5202721 AGAGAGAGTTTGTGGAGAAAAGTGGT
1 AGAGAGAGTTTGTAGAGAAAAGTGGT
5202747 AAGTGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.43, T:0.23
Consensus pattern (27 bp):
AGAGAGAGTTTGTAGAGAAAAGTGGTG
Found at i:5216997 original size:29 final size:31
Alignment explanation
Indices: 5216942--5217002 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
5216932 TACTTTAAGC
* *
5216942 AAAATATTTTTAAAAACTTCTAAATTATTTT
1 AAAATATTTTAAAAAAATTCTAAATTATTTT
*
5216973 AAAA-ATTTTAAAAAAATT-TATATTATTTT
1 AAAATATTTTAAAAAAATTCTAAATTATTTT
5217002 A
1 A
5217003 TTATGTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 11 0.41
30 12 0.44
31 4 0.15
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
AAAATATTTTAAAAAAATTCTAAATTATTTT
Found at i:5221625 original size:98 final size:97
Alignment explanation
Indices: 5221452--5221647 Score: 302
Period size: 98 Copynumber: 2.0 Consensus size: 97
5221442 AAATATGACA
* * *
5221452 TGTAACTTGATTTTTATTTTTGTATTTCACGAGGACATAAACTCTTGGAGTTAAACACCTTAAAC
1 TGTAACTTAATTTTTATCTTTGTATTTCACGAGGACATAAACTATTGGAGTTAAACACCTTAAAC
* *
5221517 ATGACGTGTAATAACTTTGTTTTCAACATTGTG
66 ATGACATGTAATAACTTT-TTTTCAACATGGTG
* * *
5221550 TGTAACTTAATTTTTATCTTTGTATTTCACTATGACATAAACTATTGGAGTTAACCACCTTAAAC
1 TGTAACTTAATTTTTATCTTTGTATTTCACGAGGACATAAACTATTGGAGTTAAACACCTTAAAC
*
5221615 ATGGCATGTAATAACTTTTTTTCAACATGGTG
66 ATGACATGTAATAACTTTTTTTCAACATGGTG
5221647 T
1 T
5221648 ATAATAACTT
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
97 14 0.16
98 75 0.84
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (97 bp):
TGTAACTTAATTTTTATCTTTGTATTTCACGAGGACATAAACTATTGGAGTTAAACACCTTAAAC
ATGACATGTAATAACTTTTTTTCAACATGGTG
Found at i:5221641 original size:26 final size:27
Alignment explanation
Indices: 5221612--5221678 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
5221602 AACCACCTTA
*
5221612 AACATGGCATGTAATAAC-TTTTTTTC
1 AACATGGCATATAATAACTTTTTTTTC
**
5221638 AACATGGTGTATAATAACTTTTTTTTC
1 AACATGGCATATAATAACTTTTTTTTC
*
5221665 AACATAGCATATAA
1 AACATGGCATATAA
5221679 CTTGGTCTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 15 0.44
27 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.40
Consensus pattern (27 bp):
AACATGGCATATAATAACTTTTTTTTC
Found at i:5221760 original size:123 final size:126
Alignment explanation
Indices: 5221564--5221794 Score: 335
Period size: 123 Copynumber: 1.9 Consensus size: 126
5221554 ACTTAATTTT
* * * **
5221564 TATCTTTGTATTTCACTATGACATAAACTATTGGAGTTAACCACCTTAAACATGGCATGTAATAA
1 TATCTTTGTATTTCACTAAGACACAAACTATTGAAGTTAACCACCTTAAACATAACATGTAATAA
*
5221629 CTT-TTTT-TCAACATGGTGTATAATAACTTTTTTTTCAACATAGCATATAACTTGGTCTC
66 CTTCTTTTCTCAACATGGTGTATAACAACTTTTTTTTCAACATAGCATATAACTTGGTCTC
* * *
5221688 TATCTTTGT-TTTCACTAAGACACAAACTCTTGAAGTTAAGCACTTTAAACATAACATGTAATAA
1 TATCTTTGTATTTCACTAAGACACAAACTATTGAAGTTAACCACCTTAAACATAACATGTAATAA
*
5221752 -TTGCTTTTCTCAACATGGTTTATAACAACTTTTTTTTCAACAT
66 CTT-CTTTTCTCAACATGGTGTATAACAACTTTTTTTTCAACAT
5221795 GACGTGCCAC
Statistics
Matches: 94, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
122 2 0.02
123 47 0.50
124 13 0.14
125 32 0.34
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.40
Consensus pattern (126 bp):
TATCTTTGTATTTCACTAAGACACAAACTATTGAAGTTAACCACCTTAAACATAACATGTAATAA
CTTCTTTTCTCAACATGGTGTATAACAACTTTTTTTTCAACATAGCATATAACTTGGTCTC
Found at i:5221871 original size:126 final size:122
Alignment explanation
Indices: 5221564--5221872 Score: 309
Period size: 125 Copynumber: 2.5 Consensus size: 122
5221554 ACTTAATTTT
* * * * *
5221564 TATCTTTGTATTTCACTATGACATAAACTATTGGAGTTAACCACCTTAAACATGGCATGTAATAA
1 TATCTTTG-CTTTCACTAAGACATAAACTCTT-GAGTTAAACACCTTAAACATGACATGTAATAA
* * *
5221629 CTTTTTTTCAACATGGTGTATAATAACTTTTTTTTCAACATAGCATATAACTTGGTCTC
64 CTTTTTTTCAACATGGTGTATAACAACTTTTTTTTCAACATAGCATACAACTTAGTCTC
* * * * *
5221688 TATCTTTGTTTTCACTAAGACACAAACTCTTGAAGTTAAGCACTTTAAACATAACATGTAATAA-
1 TATCTTTGCTTTCACTAAGACATAAACTCTTG-AGTTAAACACCTTAAACATGACATGTAATAAC
* * * * *
5221752 TTGCTTTTCTCAACATGGTTTATAACAACTTTTTTTTCAACAT-GACGTGCCACTTAGTCTT
65 TT--TTTT-TCAACATGGTGTATAACAACTTTTTTTTCAACATAG-CATACAACTTAGTCTC
* * * *
5221813 TATTTTTAGACTTT-ACTAGGACATAAACTCTTAGAGTTAAACGCCTTAAATATGACATGT
1 TATCTTT-G-CTTTCACTAAGACATAAACTCTT-GAGTTAAACACCTTAAACATGACATGT
5221873 TGCATACCAC
Statistics
Matches: 152, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
122 3 0.02
123 46 0.30
124 13 0.09
125 48 0.32
126 38 0.25
127 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (122 bp):
TATCTTTGCTTTCACTAAGACATAAACTCTTGAGTTAAACACCTTAAACATGACATGTAATAACT
TTTTTTCAACATGGTGTATAACAACTTTTTTTTCAACATAGCATACAACTTAGTCTC
Found at i:5223748 original size:21 final size:20
Alignment explanation
Indices: 5223722--5223782 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 20
5223712 TGGTCCTTTG
5223722 TTCTCTTTTCTTTTTTTTTC
1 TTCTCTTTTCTTTTTTTTTC
5223742 TTTCTCTTTT-TTTTCTTTTTC
1 -TTCTCTTTTCTTTT-TTTTTC
5223763 TTCATCTTTTCCTTTTTTTT
1 TTC-TCTTTT-CTTTTTTTT
5223783 AACCTATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
20 7 0.19
21 21 0.58
22 4 0.11
23 4 0.11
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (20 bp):
TTCTCTTTTCTTTTTTTTTC
Found at i:5223751 original size:15 final size:15
Alignment explanation
Indices: 5223728--5223764 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
5223718 TTTGTTCTCT
5223728 TTTCT-TTTTTTTTC
1 TTTCTCTTTTTTTTC
5223742 TTTCTCTTTTTTTTC
1 TTTCTCTTTTTTTTC
*
5223757 TTTTTCTT
1 TTTCTCTT
5223765 CATCTTTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTCTCTTTTTTTTC
Found at i:5224301 original size:34 final size:33
Alignment explanation
Indices: 5224250--5224315 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
5224240 TGATTATGTT
*
5224250 TTTTTTTTTTCTCTTTTTTTTGAGAATTCATAG
1 TTTTTTTTCTCTCTTTTTTTTGAGAATTCATAG
*
5224283 TTTTTTTTCTCTTTTTTTTTTTGAGAATTCATA
1 TTTTTTTTCTC-TCTTTTTTTTGAGAATTCATA
5224316 CTTTATTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 10 0.33
34 20 0.67
ACGTcount: A:0.15, C:0.09, G:0.08, T:0.68
Consensus pattern (33 bp):
TTTTTTTTCTCTCTTTTTTTTGAGAATTCATAG
Found at i:5237834 original size:42 final size:42
Alignment explanation
Indices: 5237769--5237865 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
5237759 CCTCCAAATG
* *
5237769 TTTTGGAGGGAAATTTTTAGGGGGGGAATA-TTTTAATT-GAAAC
1 TTTTGGAGGG-AATTTTT--GGGGGGAATACTTTGAATTAAAAAC
5237812 -TTTGGAGGGAATCTTTTGGGGGGAATACTTTGAATTAAAAAC
1 TTTTGGAGGGAAT-TTTTGGGGGGAATACTTTGAATTAAAAAC
5237854 TTTTGGAGGGAA
1 TTTTGGAGGGAA
5237866 ATGTGTGGGG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
40 10 0.21
41 10 0.21
42 17 0.35
43 11 0.23
ACGTcount: A:0.30, C:0.04, G:0.31, T:0.35
Consensus pattern (42 bp):
TTTTGGAGGGAATTTTTGGGGGGAATACTTTGAATTAAAAAC
Found at i:5243240 original size:14 final size:14
Alignment explanation
Indices: 5243223--5243283 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
5243213 ATTTTGAATT
5243223 GAAAACTTTGGAGG
1 GAAAACTTTGGAGG
* *
5243237 GAAATCTTTTGGGGG
1 GAAAAC-TTTGGAGG
* * **
5243252 GAATACTTTGAATT
1 GAAAACTTTGGAGG
*
5243266 AAAAACTTTGGAGG
1 GAAAACTTTGGAGG
5243280 GAAA
1 GAAA
5243284 TGTGTGGGGA
Statistics
Matches: 32, Mismatches: 14, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.36, C:0.07, G:0.30, T:0.28
Consensus pattern (14 bp):
GAAAACTTTGGAGG
Found at i:5243260 original size:15 final size:15
Alignment explanation
Indices: 5243178--5243254 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
5243168 AGAACCTCCC
*
5243178 AAATGTTTTGGAGGG
1 AAATCTTTTGGAGGG
*
5243193 AAATCTTTTAGGGGGG
1 AAATCTTTT-GGAGGG
* * * **
5243209 GAATATTTTGAATTG
1 AAATCTTTTGGAGGG
*
5243224 AAAAC-TTTGGAGGG
1 AAATCTTTTGGAGGG
*
5243238 AAATCTTTTGGGGGG
1 AAATCTTTTGGAGGG
5243253 AA
1 AA
5243255 TACTTTGAAT
Statistics
Matches: 44, Mismatches: 16, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
14 10 0.23
15 22 0.50
16 12 0.27
ACGTcount: A:0.30, C:0.04, G:0.34, T:0.32
Consensus pattern (15 bp):
AAATCTTTTGGAGGG
Found at i:5243265 original size:43 final size:44
Alignment explanation
Indices: 5243184--5243284 Score: 168
Period size: 43 Copynumber: 2.3 Consensus size: 44
5243174 TCCCAAATGT
* *
5243184 TTTGGAGGGAAATCTTTTAGGGGGGGAATATTTTGAATTGAAAAC
1 TTTGGAGGGAAATCTTTTA-GGGGGGAATACTTTGAATTAAAAAC
5243229 TTTGGAGGGAAATCTTTT-GGGGGGAATACTTTGAATTAAAAAC
1 TTTGGAGGGAAATCTTTTAGGGGGGAATACTTTGAATTAAAAAC
5243272 TTTGGAGGGAAAT
1 TTTGGAGGGAAAT
5243285 GTGTGGGGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
43 36 0.67
45 18 0.33
ACGTcount: A:0.32, C:0.05, G:0.31, T:0.33
Consensus pattern (44 bp):
TTTGGAGGGAAATCTTTTAGGGGGGAATACTTTGAATTAAAAAC
Found at i:5243966 original size:23 final size:23
Alignment explanation
Indices: 5243940--5243984 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5243930 GTGTTTGACG
*
5243940 TATTAGTTGATATATGATCTTTT
1 TATTAGTTAATATATGATCTTTT
*
5243963 TATTAGTTAATGTATGATCTTT
1 TATTAGTTAATATATGATCTTT
5243985 CTATATAAAG
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:0.27, C:0.04, G:0.13, T:0.56
Consensus pattern (23 bp):
TATTAGTTAATATATGATCTTTT
Found at i:5256643 original size:34 final size:33
Alignment explanation
Indices: 5256599--5256662 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
5256589 TTATATTTTT
*
5256599 TTATCACAACTCATATATGGTAACATATCAAAC
1 TTATCACAACTCATATATGCTAACATATCAAAC
*
5256632 TTATCAACAACTCATATATGCTAATATATCA
1 TTATC-ACAACTCATATATGCTAACATATCA
5256663 TTTTTGTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 5 0.18
34 23 0.82
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (33 bp):
TTATCACAACTCATATATGCTAACATATCAAAC
Found at i:5263155 original size:143 final size:143
Alignment explanation
Indices: 5262897--5263180 Score: 430
Period size: 143 Copynumber: 2.0 Consensus size: 143
5262887 GTCTTGGAGC
* * *
5262897 GTTGGAAGTGATTTGACTAAGAAACTAGCCAATTTCCTTTTGAATTTTGTGTCTCACGATCACTT
1 GTTGGAAGTGATTAGACTAAGAAACTAGCCAATTTCCTTTGGAATTTTGTGTCTAACGATCACTT
* * *
5262962 GTAGTTGAGTATGGAAGTTCTCTAGTCGACACTCTTCTGGAAAGCTTGTATTTTCT-AAATCTGG
66 ATAGTTGAGTATGGAAGTTCTCTAGTCGACACTCTTATGGAAAGCTTGTATTTT-TGAAATCTGC
5263026 CTTGATGTAGTCAA
130 CTTGATGTAGTCAA
* *
5263040 GTTGGAGGTGATTAGAGC-AAGAAACTAGCCATTTTCCTTTGGAATTTTGTGTCTAACGATCACT
1 GTTGGAAGTGATTAGA-CTAAGAAACTAGCCAATTTCCTTTGGAATTTTGTGTCTAACGATCACT
*
5263104 TATAGTTGAGTATGGAAGTTCTCTAGTTGATC-CTCTTATGGAAAGCTTGTATTTTTGAAATCTG
65 TATAGTTGAGTATGGAAGTTCTCTAGTCGA-CACTCTTATGGAAAGCTTGTATTTTTGAAATCTG
*
5263168 CCTTGGTGTAGTC
129 CCTTGATGTAGTC
5263181 GACTACCACT
Statistics
Matches: 128, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
142 1 0.01
143 125 0.98
144 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (143 bp):
GTTGGAAGTGATTAGACTAAGAAACTAGCCAATTTCCTTTGGAATTTTGTGTCTAACGATCACTT
ATAGTTGAGTATGGAAGTTCTCTAGTCGACACTCTTATGGAAAGCTTGTATTTTTGAAATCTGCC
TTGATGTAGTCAA
Found at i:5272063 original size:30 final size:30
Alignment explanation
Indices: 5272029--5272096 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
5272019 AACCATTAGT
* * *
5272029 TATAAGAACTTATTTGACTAAAAATAAAAG
1 TATAAAAACTTATTTGAATAAAAATAAAAA
* *
5272059 TATAAAAACTTATTTGAATCAAAGTAAAAA
1 TATAAAAACTTATTTGAATAAAAATAAAAA
5272089 TATAAAAA
1 TATAAAAA
5272097 TTTGATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.29
Consensus pattern (30 bp):
TATAAAAACTTATTTGAATAAAAATAAAAA
Found at i:5281558 original size:14 final size:14
Alignment explanation
Indices: 5281526--5281557 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5281516 AAACGAAAAC
5281526 ATTTTTAGTTCTTT
1 ATTTTTAGTTCTTT
5281540 ATTTTTAGTT-TTT
1 ATTTTTAGTTCTTT
5281553 -TTTTT
1 ATTTTT
5281558 TCACCTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.28
13 3 0.17
14 10 0.56
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.78
Consensus pattern (14 bp):
ATTTTTAGTTCTTT
Found at i:5283560 original size:16 final size:16
Alignment explanation
Indices: 5283529--5283585 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 16
5283519 TTGAAAATTT
*
5283529 TGAAAG-ATTTTGAAA
1 TGAAAGCATTTTAAAA
5283544 TGAAAGCATTTTAAAA
1 TGAAAGCATTTTAAAA
* * * *
5283560 TG-CATCAATTTAATA
1 TGAAAGCATTTTAAAA
5283575 TGAAAGCATTT
1 TGAAAGCATTT
5283586 ATAATTGTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
15 17 0.53
16 15 0.47
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (16 bp):
TGAAAGCATTTTAAAA
Found at i:5290724 original size:146 final size:146
Alignment explanation
Indices: 5290443--5290712 Score: 411
Period size: 146 Copynumber: 1.9 Consensus size: 146
5290433 AGATCTATCT
* *
5290443 ATTATCTAGTACCATAGCAGAATCCTCAAGGTACTAAATAGGTAAGTGGCATTAATTGAATTTGT
1 ATTATCTAGTACCATAGCAGAATCCTCAAGGCACTAAATAGGTAAGTGGCATTAATTGAATTTGG
* * * *
5290508 TGCTTAAGTAACCAATAGCTATGAGAAATCAGAAACTACAGCATGAGTATTTCTTCAGTTAGTTC
66 AGCTCAAGTAACCAATAGCTATGAGAAATCAAAAACTACAGCATGAGCATTTCTTCAGTTAGTTC
5290573 AAACTAAAACCTTTCA
131 AAACTAAAACCTTTCA
*
5290589 ATTATCTAGTACCATAGCAGAATCCTCAAGGCACTAAATATGTAAG-GAGCATTAATTGAATTTG
1 ATTATCTAGTACCATAGCAGAATCCTCAAGGCACTAAATAGGTAAGTG-GCATTAATTGAATTTG
* * *
5290653 GAGCTCAAGTGACCCA-AGGTATGAG-AATGCAAAAACTACAGCATGAGCATTTCTTCAGTT
65 GAGCTCAAGTAACCAATAGCTATGAGAAAT-CAAAAACTACAGCATGAGCATTTCTTCAGTT
5290713 TTGTTTAAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
144 3 0.03
145 38 0.34
146 71 0.63
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (146 bp):
ATTATCTAGTACCATAGCAGAATCCTCAAGGCACTAAATAGGTAAGTGGCATTAATTGAATTTGG
AGCTCAAGTAACCAATAGCTATGAGAAATCAAAAACTACAGCATGAGCATTTCTTCAGTTAGTTC
AAACTAAAACCTTTCA
Found at i:5291856 original size:26 final size:26
Alignment explanation
Indices: 5291827--5291905 Score: 60
Period size: 26 Copynumber: 3.1 Consensus size: 26
5291817 CATCAAGAAT
5291827 GAAATAAACAACAGATAGTTCAATTG
1 GAAATAAACAACAGATAGTTCAATTG
* * **
5291853 GAAA-ACATAA-AG---GCTTACAAGAG
1 GAAATAAACAACAGATAG-TT-CAATTG
5291876 TGAAATAAACAACAGATAGTTCAATTG
1 -GAAATAAACAACAGATAGTTCAATTG
5291903 GAA
1 GAA
5291906 GACATAAATG
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
21 1 0.03
22 2 0.05
23 4 0.11
24 6 0.16
25 8 0.22
26 9 0.24
27 4 0.11
28 2 0.05
29 1 0.03
ACGTcount: A:0.51, C:0.11, G:0.18, T:0.20
Consensus pattern (26 bp):
GAAATAAACAACAGATAGTTCAATTG
Found at i:5291880 original size:50 final size:50
Alignment explanation
Indices: 5291820--5291936 Score: 189
Period size: 50 Copynumber: 2.3 Consensus size: 50
5291810 ATACAAGCAT
5291820 CAAGAATGAAATAAACAACAGATAGTTCAATTGGAAAACATAAAGGCTTA
1 CAAGAATGAAATAAACAACAGATAGTTCAATTGGAAAACATAAAGGCTTA
* * * *
5291870 CAAGAGTGAAATAAACAACAGATAGTTCAATTGGAAGACATAAATGCTTT
1 CAAGAATGAAATAAACAACAGATAGTTCAATTGGAAAACATAAAGGCTTA
*
5291920 CAACAATGAAATAAACA
1 CAAGAATGAAATAAACA
5291937 TACTTCTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (50 bp):
CAAGAATGAAATAAACAACAGATAGTTCAATTGGAAAACATAAAGGCTTA
Found at i:5295793 original size:22 final size:20
Alignment explanation
Indices: 5295754--5295801 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
5295744 AGTTAAGCTT
* *
5295754 AAATATTTATTTATATATTTTA
1 AAAT-TTTATTTAAATA-TATA
5295776 AAATTTTATTTAAAATATATA
1 AAATTTTATTT-AAATATATA
5295797 AAATT
1 AAATT
5295802 GAGTCAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATTTTATTTAAATATATA
Found at i:5324153 original size:19 final size:19
Alignment explanation
Indices: 5324129--5324165 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
5324119 GGATAAAGAG
5324129 AAGATTTGAGCTATTAGAA
1 AAGATTTGAGCTATTAGAA
5324148 AAGATTTGAGCTATTAGA
1 AAGATTTGAGCTATTAGA
5324166 GAATGGCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (19 bp):
AAGATTTGAGCTATTAGAA
Found at i:5327305 original size:58 final size:58
Alignment explanation
Indices: 5327241--5327362 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 58
5327231 CTTTAGTCAA
***
5327241 GTTTGTGCTTACCATTATATCGCTTTACATTATGCAAATGGTTTCTATTACTTTGGAT
1 GTTTGTGCTTACCATTATATCGCTTTACATTATGCAAACAATTTCTATTACTTTGGAT
* *
5327299 GTTTGTGCTTACTATTATATTGCTTTACATTATGCAAACAATTTCTATTACTTTGGAT
1 GTTTGTGCTTACCATTATATCGCTTTACATTATGCAAACAATTTCTATTACTTTGGAT
5327357 GTTTGT
1 GTTTGT
5327363 AATAAAATCA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.48
Consensus pattern (58 bp):
GTTTGTGCTTACCATTATATCGCTTTACATTATGCAAACAATTTCTATTACTTTGGAT
Found at i:5330802 original size:2 final size:2
Alignment explanation
Indices: 5330795--5330819 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5330785 TACATAACAT
5330795 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
5330820 GTTCAATAAA
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:5335719 original size:3 final size:3
Alignment explanation
Indices: 5335711--5335739 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
5335701 AGGATTGGTT
5335711 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5335740 GTAAAACCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5340751 original size:14 final size:14
Alignment explanation
Indices: 5340732--5340758 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5340722 TGGTAAATTT
5340732 TTTTTTATAAGTTC
1 TTTTTTATAAGTTC
5340746 TTTTTTATAAGTT
1 TTTTTTATAAGTT
5340759 ATAATTTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTTTATAAGTTC
Found at i:5354807 original size:20 final size:20
Alignment explanation
Indices: 5354771--5354809 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5354761 CTTCCTGCAA
*
5354771 CTTTAATTAGTTGAAATAAG
1 CTTTAATTAGTTAAAATAAG
5354791 CTTTAATT-GATTAAAATAA
1 CTTTAATTAG-TTAAAATAA
5354810 TTTAAGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (20 bp):
CTTTAATTAGTTAAAATAAG
Found at i:5355487 original size:29 final size:29
Alignment explanation
Indices: 5355429--5355487 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
5355419 TAAAATATTC
* *
5355429 ACAATATCCATAGTAGCTAAACACGATAT
1 ACAATATCCACAGTAGCTAAACAAGATAT
* *
5355458 ACAATATCCACAGTAGCTAAGCAAGTTAT
1 ACAATATCCACAGTAGCTAAACAAGATAT
5355487 A
1 A
5355488 TTCAATCTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (29 bp):
ACAATATCCACAGTAGCTAAACAAGATAT
Found at i:5356167 original size:14 final size:14
Alignment explanation
Indices: 5356148--5356174 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5356138 TATTTATTCT
5356148 CAATATCAATCAAC
1 CAATATCAATCAAC
5356162 CAATATCAATCAA
1 CAATATCAATCAA
5356175 GCATTTCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (14 bp):
CAATATCAATCAAC
Found at i:5356972 original size:17 final size:17
Alignment explanation
Indices: 5356946--5356987 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
5356936 ACATTGTTGA
5356946 TTTCTCCACTAAATGGC
1 TTTCTCCACTAAATGGC
* **
5356963 TTTCTTCACTTGATGGC
1 TTTCTCCACTAAATGGC
5356980 TTTCTCCA
1 TTTCTCCA
5356988 TCTCATACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.29, G:0.12, T:0.43
Consensus pattern (17 bp):
TTTCTCCACTAAATGGC
Found at i:5369440 original size:26 final size:28
Alignment explanation
Indices: 5369406--5369465 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 28
5369396 CTTCTTTTTC
5369406 TTTTATCTTT-ACG-ACTTCATGTTCAT
1 TTTTATCTTTAACGTACTTCATGTTCAT
*
5369432 TTTTTTCTTTGAACGTTACTTCATGTTCAT
1 TTTTATCTTT-AACG-TACTTCATGTTCAT
5369462 TTTT
1 TTTT
5369466 GTCTCGACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 9 0.31
28 3 0.10
30 17 0.59
ACGTcount: A:0.17, C:0.17, G:0.08, T:0.58
Consensus pattern (28 bp):
TTTTATCTTTAACGTACTTCATGTTCAT
Found at i:5370670 original size:18 final size:18
Alignment explanation
Indices: 5370647--5370682 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5370637 CTCTTGGGGT
*
5370647 AAGAAAGGAGAAAATTAA
1 AAGAAAGGAAAAAATTAA
*
5370665 AAGAAATGAAAAAATTAA
1 AAGAAAGGAAAAAATTAA
5370683 GTGAAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (18 bp):
AAGAAAGGAAAAAATTAA
Found at i:5374476 original size:21 final size:21
Alignment explanation
Indices: 5374450--5374498 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
5374440 GCAAGTGATC
*
5374450 ATGAGATAAGGTAATCTGCAA
1 ATGAGATAAGGTAATATGCAA
5374471 ATGAGATAAGGTAATATGCAA
1 ATGAGATAAGGTAATATGCAA
5374492 ATGAGAT
1 ATGAGAT
5374499 GTCTCGATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.24
Consensus pattern (21 bp):
ATGAGATAAGGTAATATGCAA
Found at i:5375749 original size:46 final size:45
Alignment explanation
Indices: 5375674--5375852 Score: 171
Period size: 46 Copynumber: 3.9 Consensus size: 45
5375664 AACCCATTCA
* * * *
5375674 TCAAATCCTCTAGGTATATTCTTTAAAATCTCAGAGTAAGCAATTT
1 TCAAATCTTCTA-GTACAATCTTCAAAATCTCAGAGTAAGCAATTT
* * * *
5375720 TCAAATCATCCAAGTACAATCTCCAAAATCTCAAAGTAAG-AATTT
1 TCAAATC-TTCTAGTACAATCTTCAAAATCTCAGAGTAAGCAATTT
* * * *
5375765 TCAAATCTTTTAGATACAATCTTCAAAGTCTCCGAGTAAGTAATTT
1 TCAAATCTTCTAG-TACAATCTTCAAAATCTCAGAGTAAGCAATTT
* * * *
5375811 TCATATCTTTCTAGTGCAATCTTCAAAATCTCTGAGAAAGCA
1 TCAAATC-TTCTAGTACAATCTTCAAAATCTCAGAGTAAGCA
5375853 TTGGATCCAA
Statistics
Matches: 107, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
44 3 0.03
45 34 0.32
46 63 0.59
47 7 0.07
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.34
Consensus pattern (45 bp):
TCAAATCTTCTAGTACAATCTTCAAAATCTCAGAGTAAGCAATTT
Found at i:5375770 original size:22 final size:22
Alignment explanation
Indices: 5375699--5375772 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
5375689 ATATTCTTTA
*
5375699 AAATCTCAGAGTAAGCAATTTTC
1 AAATCTCAAAGTAAG-AATTTTC
* * * *
5375722 AAATCATCCAAGT-ACAATCTCC
1 AAATC-TCAAAGTAAGAATTTTC
5375744 AAAATCTCAAAGTAAGAATTTTC
1 -AAATCTCAAAGTAAGAATTTTC
5375767 AAATCT
1 AAATCT
5375773 TTTAGATACA
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
22 17 0.44
23 17 0.44
24 5 0.13
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.28
Consensus pattern (22 bp):
AAATCTCAAAGTAAGAATTTTC
Found at i:5375961 original size:66 final size:66
Alignment explanation
Indices: 5375853--5376047 Score: 259
Period size: 66 Copynumber: 3.0 Consensus size: 66
5375843 TGAGAAAGCA
* * * * **
5375853 TTGGATCCAAGATTGAAAATC-CCTAGAATGGACATTGAGTTTTGCTATCAATCCAT-TGATGAA
1 TTGGATCCAAGATTAAAAATCTTCGA-AATTGACATCAAGTTTTGCTATCAATCCATCT-ATGAA
5375916 TCC
64 TCC
* * *
5375919 TTGGATCCAAGATTAAAAATCTTCGAAATTGACATCAGGTTTTGCTATCGATCCATCTATGAGTC
1 TTGGATCCAAGATTAAAAATCTTCGAAATTGACATCAAGTTTTGCTATCAATCCATCTATGAATC
*
5375984 G
66 C
*
5375985 TTGGATCCAAGATTGAAAATCTTCGAAATTGACATCAAGTTTTGCTATCAATCCATCTATGAA
1 TTGGATCCAAGATTAAAAATCTTCGAAATTGACATCAAGTTTTGCTATCAATCCATCTATGAA
5376048 CAATGCGAGA
Statistics
Matches: 113, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
66 110 0.97
67 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (66 bp):
TTGGATCCAAGATTAAAAATCTTCGAAATTGACATCAAGTTTTGCTATCAATCCATCTATGAATC
C
Found at i:5380243 original size:38 final size:37
Alignment explanation
Indices: 5380176--5380248 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 37
5380166 ATTAGTATCA
5380176 TAGTATAGTATATACATTAAAAATATATACTAATATG
1 TAGTATAGTATATACATTAAAAATATATACTAATATG
** *
5380213 TAGTATAGTAATATGTATTAAAAATTTATACTAATA
1 TAGTATAGT-ATATACATTAAAAATATATACTAATA
5380249 ATATTGTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 9 0.28
38 23 0.72
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (37 bp):
TAGTATAGTATATACATTAAAAATATATACTAATATG
Found at i:5387898 original size:29 final size:27
Alignment explanation
Indices: 5387863--5387933 Score: 74
Period size: 32 Copynumber: 2.5 Consensus size: 27
5387853 ATTAATGAAG
5387863 TAAAATAAAAAA-TTATTAATAATTTAAAAT
1 TAAAATAAAAAATTTA-TAATAA-TT--AAT
5387893 TAAATATTAAAAAATTTATAATAATTAAT
1 TAAA-A-TAAAAAATTTATAATAATTAAT
5387922 T-AAATAAAAAAT
1 TAAAATAAAAAAT
5387934 ATTTATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
26 8 0.21
27 1 0.03
28 2 0.05
29 4 0.11
30 4 0.11
31 3 0.08
32 13 0.34
33 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAAATAAAAAATTTATAATAATTAAT
Found at i:5390348 original size:16 final size:17
Alignment explanation
Indices: 5390316--5390350 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
5390306 TATCAGATGT
*
5390316 TATTTTCAAAATTAAAA
1 TATTTTCAAAATGAAAA
5390333 TATTTT-AAAATGAAAA
1 TATTTTCAAAATGAAAA
5390349 TA
1 TA
5390351 ACATAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
TATTTTCAAAATGAAAA
Found at i:5395945 original size:14 final size:14
Alignment explanation
Indices: 5395926--5395955 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5395916 AAAGCCATGA
5395926 AGAAGATGAAGTAG
1 AGAAGATGAAGTAG
5395940 AGAAGATGAAGTAG
1 AGAAGATGAAGTAG
5395954 AG
1 AG
5395956 GAATAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.37, T:0.13
Consensus pattern (14 bp):
AGAAGATGAAGTAG
Found at i:5396403 original size:27 final size:27
Alignment explanation
Indices: 5396373--5396428 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
5396363 TTTTACAAAA
*
5396373 ATGAAACCAGAGCAGTTCTCCCAGATC
1 ATGAAACCAGAGCAATTCTCCCAGATC
* *
5396400 ATGAAACCATAGCAATTCTCCCATATC
1 ATGAAACCAGAGCAATTCTCCCAGATC
5396427 AT
1 AT
5396429 TTAATTGCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (27 bp):
ATGAAACCAGAGCAATTCTCCCAGATC
Found at i:5406661 original size:44 final size:45
Alignment explanation
Indices: 5406589--5406675 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
5406579 CAGAAAAGTA
5406589 TATGGAGAGTTTAAAAGTAGAACCATGGGAAAACTATTGATGCAG
1 TATGGAGAGTTTAAAAGTAGAACCATGGGAAAACTATTGATGCAG
* * *
5406634 TATGGAGAGTTT-AAAGTGGAACCATGGGAAAATTGTTGATGC
1 TATGGAGAGTTTAAAAGTAGAACCATGGGAAAACTATTGATGC
5406676 GGTCATCAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 27 0.69
45 12 0.31
ACGTcount: A:0.37, C:0.08, G:0.29, T:0.26
Consensus pattern (45 bp):
TATGGAGAGTTTAAAAGTAGAACCATGGGAAAACTATTGATGCAG
Found at i:5408089 original size:22 final size:21
Alignment explanation
Indices: 5408047--5408096 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
5408037 AATCTCTTAC
5408047 ATTAAAAATTTTATAAAATTA
1 ATTAAAAATTTTATAAAATTA
* **
5408068 ATTATAAATTATTATATTATT-
1 ATTAAAAATT-TTATAAAATTA
5408089 ATTAAAAA
1 ATTAAAAA
5408097 AGTATTAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTAAAAATTTTATAAAATTA
Found at i:5415672 original size:75 final size:75
Alignment explanation
Indices: 5415585--5415728 Score: 207
Period size: 75 Copynumber: 1.9 Consensus size: 75
5415575 TCAACATGTC
* **
5415585 ATAATAAATAATGATGGACAAGATAATACGATCACGTGATATTTTTCACCCTTCATGTCAGTATC
1 ATAATAAATAATGATAGACAAGATAATACGATCACACGATATTTTTCACCCTTCATGTCAGTATC
5415650 ACATTATATT
66 ACATTATATT
* * * * * *
5415660 ATAATAAATAATGATAGACAAGATGATAGGGTCACACGATATTTTTCATCTTTCATGTTAGTATC
1 ATAATAAATAATGATAGACAAGATAATACGATCACACGATATTTTTCACCCTTCATGTCAGTATC
5415725 ACAT
66 ACAT
5415729 GAGTATAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 60 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (75 bp):
ATAATAAATAATGATAGACAAGATAATACGATCACACGATATTTTTCACCCTTCATGTCAGTATC
ACATTATATT
Found at i:5415817 original size:30 final size:30
Alignment explanation
Indices: 5415783--5415853 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
5415773 ACTTGTTAAT
* **
5415783 TATAAAATTATATTTGACTTAAAAT-AAAAA
1 TATAAAATTATAATT-AAATAAAATAAAAAA
5415813 TATAAAAATT-TAATTAAATAAAATAAAAAA
1 TAT-AAAATTATAATTAAATAAAATAAAAAA
*
5415843 TAAAAAATTAT
1 TATAAAATTAT
5415854 TAAAATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 13 0.38
30 15 0.44
31 6 0.18
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (30 bp):
TATAAAATTATAATTAAATAAAATAAAAAA
Found at i:5415859 original size:28 final size:29
Alignment explanation
Indices: 5415802--5415857 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
5415792 ATATTTGACT
*
5415802 TAAAATAAAAATATAAAAATTTAATTAAA
1 TAAAATAAAAATATAAAAAATTAATTAAA
5415831 TAAAATAAAAA-ATAAAAAATT-ATTAAA
1 TAAAATAAAAATATAAAAAATTAATTAAA
5415858 ATTTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 6 0.23
28 9 0.35
29 11 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (29 bp):
TAAAATAAAAATATAAAAAATTAATTAAA
Found at i:5424429 original size:2 final size:2
Alignment explanation
Indices: 5424422--5424447 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5424412 TTTCCCAAAA
5424422 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
5424448 GTGGGTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5425079 original size:22 final size:22
Alignment explanation
Indices: 5425051--5425100 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
5425041 TATATATATT
*
5425051 TTTTTTATAA-TAATTGTTAATA
1 TTTTTTATAATTAATT-TAAATA
5425073 TTTTTTATAATTAATTTAAATA
1 TTTTTTATAATTAATTTAAATA
5425095 TTTTTT
1 TTTTTT
5425101 GAATTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTTTATAATTAATTTAAATA
Found at i:5434263 original size:2 final size:2
Alignment explanation
Indices: 5434256--5434283 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5434246 AGACATATTC
5434256 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
5434284 TTGAAAGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5438916 original size:24 final size:24
Alignment explanation
Indices: 5438885--5438933 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
5438875 CTCGTGTGAT
5438885 TTTAAATTTTAAAAATA-AAAATTA
1 TTTAAA-TTTAAAAATATAAAATTA
*
5438909 TTTAAATTTATAAATATAAAATTA
1 TTTAAATTTAAAAATATAAAATTA
5438933 T
1 T
5438934 ATTTTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTAAATTTAAAAATATAAAATTA
Found at i:5439642 original size:19 final size:19
Alignment explanation
Indices: 5439618--5439656 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
5439608 ATAAATTAAA
5439618 TATTTAAGTATATATATTT
1 TATTTAAGTATATATATTT
** *
5439637 TATTTATTTATTTATATTT
1 TATTTAAGTATATATATTT
5439656 T
1 T
5439657 TAAATCAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TATTTAAGTATATATATTT
Found at i:5441161 original size:3 final size:3
Alignment explanation
Indices: 5441153--5441183 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
5441143 TTCTCTTCGT
*
5441153 TTC TTC TTC TTC GTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
5441184 CCAGCACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:5446431 original size:24 final size:24
Alignment explanation
Indices: 5446416--5446462 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
5446406 ATCATACTTT
5446416 CAATAATAAATGAAATCGATCTTA
1 CAATAATAAATGAAATCGATCTTA
*
5446440 CAATAATAGATGAAATCGATCTT
1 CAATAATAAATGAAATCGATCTT
5446463 GCGATTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.30
Consensus pattern (24 bp):
CAATAATAAATGAAATCGATCTTA
Found at i:5449666 original size:7 final size:8
Alignment explanation
Indices: 5449647--5449692 Score: 58
Period size: 8 Copynumber: 5.5 Consensus size: 8
5449637 AATAGAGAAA
5449647 AAAAAATT
1 AAAAAATT
5449655 AAAAAATT
1 AAAAAATT
5449663 AAAAAATAT
1 AAAAAAT-T
5449672 AAAAAA-T
1 AAAAAATT
5449679 AATAAAATTT
1 AA-AAAA-TT
5449689 AAAA
1 AAAA
5449693 CTTTAATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
7 3 0.09
8 19 0.56
9 9 0.26
10 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAAAATT
Found at i:5449668 original size:17 final size:16
Alignment explanation
Indices: 5449646--5449692 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
5449636 CAATAGAGAA
5449646 AAAAAAATTAAAAAAT
1 AAAAAAATTAAAAAAT
*
5449662 TAAAAAATATAAAAAAT
1 AAAAAAAT-TAAAAAAT
*
5449679 AATAAAATTTAAAA
1 AA-AAAAATTAAAA
5449693 CTTTAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 7 0.27
17 14 0.54
18 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAAATTAAAAAAT
Found at i:5451069 original size:2 final size:2
Alignment explanation
Indices: 5451062--5451088 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5451052 TTGCCATCAC
5451062 TA 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 TA T
5451089 GAATAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5451355 original size:29 final size:29
Alignment explanation
Indices: 5451323--5451380 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
5451313 CTGTTTAAAA
5451323 AATTTAAATAAAATGTTTAT-TTTTTATTT
1 AATTTAAATAAAAT-TTTATATTTTTATTT
*
5451352 AATTTAATTAAAATTTTATATTTTTATTT
1 AATTTAAATAAAATTTTATATTTTTATTT
5451381 TTAAATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
AATTTAAATAAAATTTTATATTTTTATTT
Found at i:5451399 original size:30 final size:28
Alignment explanation
Indices: 5451327--5451400 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 28
5451317 TTAAAAAATT
* *
5451327 TAAATAAAATGTTTATTTTTTATTTAATT
1 TAAAT-AAATTTTTATTTTTTATTTAATA
* *
5451356 TAATTAAAATTTTATATTTTTATTTTTAA-A
1 TAAAT-AAATTTT-TATTTTT-TATTTAATA
5451386 TAAATAAATTTTTAT
1 TAAATAAATTTTTAT
5451401 GATTAATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 3 0.08
29 18 0.47
30 11 0.29
31 6 0.16
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (28 bp):
TAAATAAATTTTTATTTTTTATTTAATA
Found at i:5460904 original size:4 final size:4
Alignment explanation
Indices: 5460897--5460938 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
5460887 ACCAACCGAG
5460897 CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CA
1 CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CA
5460939 TCGCAAAGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CAAT
Found at i:5465046 original size:12 final size:14
Alignment explanation
Indices: 5465017--5465048 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
5465007 TTTATGTGGA
5465017 CTATCAATATTATT
1 CTATCAATATTATT
5465031 CTAT-AATATT-TT
1 CTATCAATATTATT
5465043 CTATCA
1 CTATCA
5465049 GGAATTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.35
13 7 0.41
14 4 0.24
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (14 bp):
CTATCAATATTATT
Found at i:5472353 original size:13 final size:13
Alignment explanation
Indices: 5472335--5472360 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5472325 TATCTGTCTC
5472335 TTTTCTCTTTTTT
1 TTTTCTCTTTTTT
5472348 TTTTCTCTTTTTT
1 TTTTCTCTTTTTT
5472361 GAAATGCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTCTCTTTTTT
Found at i:5475398 original size:2 final size:2
Alignment explanation
Indices: 5475391--5475417 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5475381 AGATCTATCT
5475391 TA 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 TA T
5475418 TTGAAAGGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5476304 original size:79 final size:79
Alignment explanation
Indices: 5476194--5476368 Score: 298
Period size: 79 Copynumber: 2.2 Consensus size: 79
5476184 TTTTCTTATC
* * * *
5476194 ACAAAATATTTTAT-ATAATAAATTATTACAGGACTTAATTTGGTCTTTGATTATTTTTCAGAAT
1 ACAAAATATTTTGTAATCATAAACTATTACAGGACTTAATTTGGTCTTTGATTATTTTTCACAAT
5476258 ATTTTTATAACATT
66 ATTTTTATAACATT
5476272 ACAAAATATTTTGTAATCATAAACTATTACAGGACTTAATTTGGTCTTTGATTATTTTTCACAAT
1 ACAAAATATTTTGTAATCATAAACTATTACAGGACTTAATTTGGTCTTTGATTATTTTTCACAAT
5476337 ATTTTTATAACATT
66 ATTTTTATAACATT
*
5476351 GCAAAATATTTTGTAATC
1 ACAAAATATTTTGTAATC
5476369 TATCACATGA
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
78 13 0.14
79 78 0.86
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.46
Consensus pattern (79 bp):
ACAAAATATTTTGTAATCATAAACTATTACAGGACTTAATTTGGTCTTTGATTATTTTTCACAAT
ATTTTTATAACATT
Found at i:5476560 original size:20 final size:20
Alignment explanation
Indices: 5476535--5476574 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
5476525 AAACTATTTA
5476535 AAAATAATCTATTGAATCTT
1 AAAATAATCTATTGAATCTT
*
5476555 AAAATAATCTATTTAATCTT
1 AAAATAATCTATTGAATCTT
5476575 TTTGTATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAATAATCTATTGAATCTT
Found at i:5479516 original size:21 final size:22
Alignment explanation
Indices: 5479469--5479516 Score: 53
Period size: 26 Copynumber: 2.0 Consensus size: 22
5479459 GAAAAGATCA
5479469 AGATGAAAATTATCCTTACTCCGAAG
1 AGATGAAAATTATCCTTA---C-AAG
5479495 AGATGAAAATTATCCTTA-AAG
1 AGATGAAAATTATCCTTACAAG
5479516 A
1 A
5479517 TAATGTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.18
26 18 0.82
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (22 bp):
AGATGAAAATTATCCTTACAAG
Found at i:5482611 original size:2 final size:2
Alignment explanation
Indices: 5482604--5482628 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5482594 CACAATATTT
5482604 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
5482629 TGATTGATTG
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:5483043 original size:13 final size:14
Alignment explanation
Indices: 5483022--5483063 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
5483012 AATTATTAAA
*
5483022 TAATTTAAAAT-TT
1 TAATATAAAATATT
5483035 TAATATAAAATATT
1 TAATATAAAATATT
*
5483049 TAACAATAAAATATT
1 TAA-TATAAAATATT
5483064 CTATTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 10 0.40
14 5 0.20
15 10 0.40
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATATAAAATATT
Found at i:5488367 original size:151 final size:153
Alignment explanation
Indices: 5488088--5488403 Score: 372
Period size: 151 Copynumber: 2.1 Consensus size: 153
5488078 TGCTATTTGC
* * * * *
5488088 TATATTATGGACCCAGCCGTGTCTGAATTAAAACTTTCTTGCAAAAACATCCTTTTTTTTTTCTA
1 TATATTATGAACCCAGACATGTCTGAATTAAAACGTTCTTGCAAAAACATCC-TCTTTTTTTC-A
* * * ** * *
5488153 TGTGTGCATGGGTCTTTGCATGCGTGTGGGTATCTGGTGGTGGTGGGAGTTTACATTTTGGAAAT
64 TGTGT-CATGGGTCTGTGCACGCGTGTGCGTATCTGGTGGCAGCGGGAGTTTACATTTTGGAAAC
*
5488218 TTGATATCATTAGC-AGGTGGAAGGTG
128 TTGATATCATTAGCAAGG-GGAAAGTG
*
5488244 TATATTATGAACCCAGACATGTCTGAATTAAAAACGGTT-TTGCAAAATCATCC-CTTTTTTTC-
1 TATATTATGAACCCAGACATGTCTGAATT-AAAAC-GTTCTTGCAAAAACATCCTCTTTTTTTCA
* * *
5488306 TGTGT-ATTGGTCTGTGCACGTGTGTGCGTATCTGGTGGCAGCGGGGGTTTACATTTTGGAAACT
64 TGTGTCATGGGTCTGTGCACGCGTGTGCGTATCTGGTGGCAGCGGGAGTTTACATTTTGGAAACT
*
5488370 TGATATCATTATCAAGGGGAAAGTG
129 TGATATCATTAGCAAGGGGAAAGTG
5488395 TATAATTAT
1 TAT-ATTAT
5488404 CTTGATATCC
Statistics
Matches: 138, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
151 71 0.51
152 8 0.06
153 5 0.04
155 8 0.06
156 26 0.19
157 18 0.13
158 2 0.01
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (153 bp):
TATATTATGAACCCAGACATGTCTGAATTAAAACGTTCTTGCAAAAACATCCTCTTTTTTTCATG
TGTCATGGGTCTGTGCACGCGTGTGCGTATCTGGTGGCAGCGGGAGTTTACATTTTGGAAACTTG
ATATCATTAGCAAGGGGAAAGTG
Found at i:5495778 original size:38 final size:38
Alignment explanation
Indices: 5495736--5495809 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 38
5495726 CCTGTAGGAA
* *
5495736 CCAATAGTTAACCATCGCTAGAA-AACATCAGCTAACAT
1 CCAATAGTTAACCAACACTA-AAGAACATCAGCTAACAT
5495774 CCAATAGTTAACCAACACTAAAGAACATCAGCTAAC
1 CCAATAGTTAACCAACACTAAAGAACATCAGCTAAC
5495810 TTGTTATCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 2 0.06
38 31 0.94
ACGTcount: A:0.45, C:0.27, G:0.09, T:0.19
Consensus pattern (38 bp):
CCAATAGTTAACCAACACTAAAGAACATCAGCTAACAT
Found at i:5504832 original size:3 final size:3
Alignment explanation
Indices: 5504824--5504848 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5504814 TCCCCATCTC
5504824 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
5504849 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:5505278 original size:28 final size:30
Alignment explanation
Indices: 5505237--5505293 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
5505227 TCATTCTCGG
5505237 ATATGATATATTATAA-TAT-TAAAAAATT
1 ATATGATATATTATAATTATATAAAAAATT
5505265 ATAT-ATATATTTATAATTATATAAAAAAT
1 ATATGATATA-TTATAATTATATAAAAAAT
5505294 GTTTCATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 5 0.19
28 10 0.38
29 3 0.12
30 8 0.31
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (30 bp):
ATATGATATATTATAATTATATAAAAAATT
Found at i:5505383 original size:8 final size:9
Alignment explanation
Indices: 5505366--5505394 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
5505356 TTATTAAAAA
5505366 TTTTATTTT
1 TTTTATTTT
5505375 TTTTATTTT
1 TTTTATTTT
5505384 TTTTATTTT
1 TTTTATTTT
5505393 TT
1 TT
5505395 AAGTTGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTATTTT
Found at i:5508174 original size:2 final size:2
Alignment explanation
Indices: 5508167--5508201 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5508157 TTGTTATGAA
5508167 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5508202 GAAAGAGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5516735 original size:7 final size:7
Alignment explanation
Indices: 5516724--5516753 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
5516714 AAGTATCATT
*
5516724 TGCTTCT
1 TGCTTCA
5516731 TGCTTCA
1 TGCTTCA
5516738 TGCTTCA
1 TGCTTCA
5516745 TGCTTCA
1 TGCTTCA
5516752 TG
1 TG
5516754 ACCTTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.10, C:0.27, G:0.17, T:0.47
Consensus pattern (7 bp):
TGCTTCA
Found at i:5523542 original size:21 final size:21
Alignment explanation
Indices: 5523513--5523557 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5523503 TAGTGATGAT
* *
5523513 GAGGATGATGTTGATGAAGAG
1 GAGGATGATGATGAAGAAGAG
* *
5523534 GAGGGTGATGATGAAGGAGAG
1 GAGGATGATGATGAAGAAGAG
5523555 GAG
1 GAG
5523558 AAAGAGCAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.49, T:0.18
Consensus pattern (21 bp):
GAGGATGATGATGAAGAAGAG
Found at i:5531771 original size:60 final size:60
Alignment explanation
Indices: 5531678--5531794 Score: 216
Period size: 60 Copynumber: 1.9 Consensus size: 60
5531668 AAAGAAAGAG
5531678 ATAAAGAAATGCTTATGGCTTCACCAGGGAGTTAAAATGATTAACAAAGGCAAATCAGAT
1 ATAAAGAAATGCTTATGGCTTCACCAGGGAGTTAAAATGATTAACAAAGGCAAATCAGAT
* *
5531738 ATAAAGAAATGCTTATGGTTTCACTAGGGAGTTAAAATGATTAACAAAGGCAAATCA
1 ATAAAGAAATGCTTATGGCTTCACCAGGGAGTTAAAATGATTAACAAAGGCAAATCA
5531795 TTAGTAGTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.25
Consensus pattern (60 bp):
ATAAAGAAATGCTTATGGCTTCACCAGGGAGTTAAAATGATTAACAAAGGCAAATCAGAT
Found at i:5536876 original size:21 final size:20
Alignment explanation
Indices: 5536852--5536893 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
5536842 CAAATCCTCA
* *
5536852 CTTTCTTTACTTTTTTTTTTT
1 CTTTCTTT-CTTTATTCTTTT
5536873 CTTTCTTTCTTTATTCTTTT
1 CTTTCTTTCTTTATTCTTTT
5536893 C
1 C
5536894 CACATTGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (20 bp):
CTTTCTTTCTTTATTCTTTT
Found at i:5537307 original size:12 final size:14
Alignment explanation
Indices: 5537277--5537306 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
5537267 ATATTTATGT
5537277 AAAATTATAATTAA
1 AAAATTATAATTAA
5537291 AAAATTAT-ATTAA
1 AAAATTATAATTAA
5537304 AAA
1 AAA
5537307 TAAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAATTATAATTAA
Found at i:5537329 original size:22 final size:23
Alignment explanation
Indices: 5537290--5537334 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
5537280 ATTATAATTA
*
5537290 AAAAATTATATTAAAAA-TAAAT
1 AAAAATAATATTAAAAATTAAAT
**
5537312 AAAAATAATATTTCAAATTAAAT
1 AAAAATAATATTAAAAATTAAAT
5537335 CCAGTCCAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAAATAATATTAAAAATTAAAT
Found at i:5537782 original size:5 final size:5
Alignment explanation
Indices: 5537772--5537805 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
5537762 TATTATTATT
5537772 ATCGG ATCGG ATCGG ATCGG ATCGG ATCGG ATCG
1 ATCGG ATCGG ATCGG ATCGG ATCGG ATCGG ATCG
5537806 AACCTCCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (5 bp):
ATCGG
Found at i:5552143 original size:15 final size:14
Alignment explanation
Indices: 5552123--5552156 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5552113 TAAATAGCTT
5552123 ATTTATATAAAAAAA
1 ATTTATA-AAAAAAA
*
5552138 ATTTATAAAAATAA
1 ATTTATAAAAAAAA
5552152 ATTTA
1 ATTTA
5552157 CCAATCAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATTTATAAAAAAAA
Found at i:5552146 original size:13 final size:14
Alignment explanation
Indices: 5552128--5552156 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
5552118 AGCTTATTTA
5552128 TATAAAAA-AAATT
1 TATAAAAATAAATT
5552141 TATAAAAATAAATT
1 TATAAAAATAAATT
5552155 TA
1 TA
5552157 CCAATCAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TATAAAAATAAATT
Found at i:5555448 original size:6 final size:6
Alignment explanation
Indices: 5555437--5555461 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5555427 TCTTCATTTT
5555437 GTGGAG GTGGAG GTGGAG GTGGAG G
1 GTGGAG GTGGAG GTGGAG GTGGAG G
5555462 CTGTTGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (6 bp):
GTGGAG
Found at i:5559538 original size:2 final size:2
Alignment explanation
Indices: 5559531--5559598 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
5559521 TATAACAAAT
5559531 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
5559573 GA GA GA GA GA GA GA GA GA GA CA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
5559599 CTCGGCAACA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.01, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5566695 original size:32 final size:32
Alignment explanation
Indices: 5566659--5566721 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
5566649 AAATTAATGT
**
5566659 AATATGGCTAAAAGACTGGATTCATAGTCAGC
1 AATATGGCTAAAAGACTGGAACCATAGTCAGC
5566691 AATATGGCTAAAAGACTGGAACCATAGTCAG
1 AATATGGCTAAAAGACTGGAACCATAGTCAG
5566722 TGTAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (32 bp):
AATATGGCTAAAAGACTGGAACCATAGTCAGC
Found at i:5575891 original size:30 final size:30
Alignment explanation
Indices: 5575856--5575920 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
5575846 TGTAATTTCC
** *
5575856 TTTTAATAATTTATACAAATATTTATTTAT
1 TTTTAATAAGATATACAAATATGTATTTAT
* *
5575886 TTTTAATAAGATATACGAATGTGTATTTAT
1 TTTTAATAAGATATACAAATATGTATTTAT
5575916 TTTTA
1 TTTTA
5575921 TGTTATGGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (30 bp):
TTTTAATAAGATATACAAATATGTATTTAT
Found at i:5576167 original size:21 final size:19
Alignment explanation
Indices: 5576143--5576182 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 19
5576133 CTTGATATAA
5576143 TATTTAAAAAAATTCTTAAAT
1 TATTT-AAAAAATT-TTAAAT
5576164 TATTTAAAAAATTTTAAAT
1 TATTTAAAAAATTTTAAAT
5576183 AAGTTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 8 0.42
21 5 0.26
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TATTTAAAAAATTTTAAAT
Found at i:5583827 original size:2 final size:2
Alignment explanation
Indices: 5583820--5583844 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5583810 TAACATTGCT
5583820 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
5583845 TTTGCAGGCT
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:5583906 original size:114 final size:114
Alignment explanation
Indices: 5583709--5583932 Score: 376
Period size: 114 Copynumber: 2.0 Consensus size: 114
5583699 TTTAAATTTA
* *
5583709 ATATATATATATATTTATATATATTGTAGGCTTCAAACCACAATTTAAGCCTTAAAAGGTCACAA
1 ATATATATATATATATATATATATTGCAGGCTTCAAACCACAATTTAAGCCTTAAAAGGTCACAA
* *
5583774 TAATAATCACATCTTTAAAGTAACCTTCCTTGACAGTAACATTGCTTAT
66 TAACAATCACACCTTTAAAGTAACCTTCCTTGACAGTAACATTGCTTAT
* *
5583823 ATATATATATATATATATATATTTTGCAGGCTTCAAACTACAATTTAAGCCTTAAAAGGTCACAA
1 ATATATATATATATATATATATATTGCAGGCTTCAAACCACAATTTAAGCCTTAAAAGGTCACAA
* *
5583888 TAACAATCACACCTTTAAAGTCACTTTCCTTGACAGTAACATTGC
66 TAACAATCACACCTTTAAAGTAACCTTCCTTGACAGTAACATTGC
5583933 AAAGCAGTAG
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (114 bp):
ATATATATATATATATATATATATTGCAGGCTTCAAACCACAATTTAAGCCTTAAAAGGTCACAA
TAACAATCACACCTTTAAAGTAACCTTCCTTGACAGTAACATTGCTTAT
Found at i:5601226 original size:17 final size:16
Alignment explanation
Indices: 5601176--5601227 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
5601166 ATGTATTATT
* *
5601176 TTATAAATTTAACAAA
1 TTATTAATTTATCAAA
* *
5601192 TTATTACTTAATCAAAA
1 TTATTAATTTATC-AAA
5601209 TTATTAATTTATCGAAA
1 TTATTAATTTATC-AAA
5601226 TT
1 TT
5601228 TTATTGTAGT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (16 bp):
TTATTAATTTATCAAA
Found at i:5610564 original size:14 final size:13
Alignment explanation
Indices: 5610531--5610570 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
5610521 GAAAAGAGTA
*
5610531 AAGAATAGAAAAG
1 AAGAAAAGAAAAG
5610544 AAGAAAAGAAAAG
1 AAGAAAAGAAAAG
5610557 AGAGAAAAGGAAAA
1 A-AGAAAA-GAAAA
5610571 TCATTCTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.54
14 6 0.25
15 5 0.21
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (13 bp):
AAGAAAAGAAAAG
Found at i:5611789 original size:305 final size:300
Alignment explanation
Indices: 5611282--5612381 Score: 1243
Period size: 301 Copynumber: 3.7 Consensus size: 300
5611272 TCAAAAAAAC
* *
5611282 AAATTCATTCTATCTTTTAAATATTAAGTTTAATTAATTTGGTGGGAACTTTTTCAATTTTGAAC
1 AAATTCATTCTATCTTTTAAATATTAAGTTTAATTAATTTGATGGGAACTTTTTCACTTTTGAAC
* * * * *
5611347 TCCTTAATTTCGTATACATCCAAATAGTTGAGAGAATTTATACCTTTGAATTTCTTCTTTGTGAC
66 TCCTTAATTTCGTATCCATCAAAATAGTTAAGAGAATTTATACCTTTGAGTTTCTTCTTTGTGCC
* *
5611412 -ACTCTCATAAATTATGGATGGATTAACAAGAA-CATTCACACTTTTCAATTCCTTTCTTGAGTC
131 GACTCTCATAAATTATGAATGGATTAAC-AGAAGCATTCACACTTTTCAATTCCTTGCTTGAGTC
** * ** *
5611475 TCCATAATTAGAAGCACCAACAAAATTATAAAATAATTTCTAAGTTAGCATAATTGACTTCAAAT
195 TTGATAATTATAAGCACCAACAAAATTGCAAAATAATTTGTAAGTTAGCATAATTGACTTCAAAT
* *
5611540 ATATCTCAAATTTAAAAGGTGTCAAAAGTATGTTACAATGTAT
260 ATATCTCAAATTT--AAGGTGTCAAAAGTATGTTCCAATATAT
* **
5611583 AAATTCATTCTATCTTTTAATTATTAAGTTTAATTAATTTGATGGGAGTTTTTTTCACTTTTGAA
1 AAATTCATTCTATCTTTTAAATATTAAGTTTAATTAATTTGATGGGA-ACTTTTTCACTTTTGAA
* * * * *
5611648 CTCCTTAATTTTGTATCCAACAAAATAGATT-AGAGATTTTATACGTTTGAGTTTTTTCTTTGTG
65 CTCCTTAATTTCGTATCCATCAAAATAG-TTAAGAGAATTTATACCTTTGAGTTTCTTCTTTGTG
* *
5611712 CCGGAGCTCTCATAAATTATGAGTGGATTAACAGAAGCATTCACACTTTTCAATTCCTTGCTGGA
129 CC-GA-CTCTCATAAATTATGAATGGATTAACAGAAGCATTCACACTTTTCAATTCCTTGCTTGA
* * * *
5611777 GCCTTGATAATTATAAGCGCCAACAAAATTGCAAAATAAATTGTAAGTTAGCATAATTCACTTCA
192 GTCTTGATAATTATAAGCACCAACAAAATTGCAAAATAATTTGTAAGTTAGCATAATTGACTTC-
* ***
5611842 AAATATATCTC-AATTTATATGGTGTCAAAACTATGTTCCAATANNN
256 AAATATATCTCAAATTTA-A-GGTGTCAAAAGTATGTTCCAATATAT
******* * *
5611888 NNNNNNNTTCTATCTTTCAAATATTAAGTTTAATTAATTTGATGGGAGCTTTTTCACTTTTGAAC
1 AAATTCATTCTATCTTTTAAATATTAAGTTTAATTAATTTGATGGGAACTTTTTCACTTTTGAAC
** *
5611953 T-C--AATTTCGTATCCATCAAAATAGTTTTGAGAATTTATACCTTTGAGTTCCTTCTCATTGTC
66 TCCTTAATTTCGTATCCATCAAAATAGTTAAGAGAATTTATACCTTTGAGTTTCTTCT--TTGT-
* * * * * *
5612015 GAC-ACTCGCATAAATTATAAATGGATTAACAGGAGAATTCACACTTTTCAATTCTTTGCTTGAG
128 GCCGACTCTCATAAATTATGAATGGATTAACAGAAGCATTCACACTTTTCAATTCCTTGCTTGAG
5612079 TCTTGATAATTATAAGCACCAACAAAATTGCAAAATAATTTGTAAGTTAGCATAATTG---TC-A
193 TCTTGATAATTATAAGCACCAACAAAATTGCAAAATAATTTGTAAGTTAGCATAATTGACTTCAA
*
5612140 A-AT-T-T-AAA--T--GGTGTCAAAAGTATATTCCAATATAT
258 ATATATCTCAAATTTAAGGTGTCAAAAGTATGTTCCAATATAT
* * * * * *
5612175 AAATTGATTCTATCTTTTAATTGTTAAGTTTAAGTAATTTGATGGGAACTTTTTCA-TCTTGTAC
1 AAATTCATTCTATCTTTTAAATATTAAGTTTAATTAATTTGATGGGAACTTTTTCACTTTTGAAC
* * * * * *
5612239 TCCTTACTTTCGTATCGATCAAAATAGTTAAGAGAATATATACCTTTGAGTTCCTTATTTGAGCC
66 TCCTTAATTTCGTATCCATCAAAATAGTTAAGAGAATTTATACCTTTGAGTTTCTTCTTTGTGCC
* * * * * * * *
5612304 TGTATTCTCATAAATTATGAATGGATTGATAGGAGCATTCACCCTTTTGAATTCCTTCCTTGAAT
131 -G-ACTCTCATAAATTATGAATGGATTAACAGAAGCATTCACACTTTTCAATTCCTTGCTTGAGT
*
5612369 CTCGATAATTATA
194 CTTGATAATTATA
5612382 TGTGCCAACT
Statistics
Matches: 676, Mismatches: 103, Indels: 52
0.81 0.12 0.06
Matches are distributed among these distances:
286 9 0.01
287 69 0.10
289 110 0.16
291 1 0.00
293 3 0.00
294 1 0.00
295 2 0.00
296 2 0.00
298 2 0.00
300 2 0.00
301 195 0.29
302 69 0.10
303 8 0.01
304 25 0.04
305 167 0.25
306 11 0.02
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (300 bp):
AAATTCATTCTATCTTTTAAATATTAAGTTTAATTAATTTGATGGGAACTTTTTCACTTTTGAAC
TCCTTAATTTCGTATCCATCAAAATAGTTAAGAGAATTTATACCTTTGAGTTTCTTCTTTGTGCC
GACTCTCATAAATTATGAATGGATTAACAGAAGCATTCACACTTTTCAATTCCTTGCTTGAGTCT
TGATAATTATAAGCACCAACAAAATTGCAAAATAATTTGTAAGTTAGCATAATTGACTTCAAATA
TATCTCAAATTTAAGGTGTCAAAAGTATGTTCCAATATAT
Found at i:5614472 original size:2 final size:2
Alignment explanation
Indices: 5614437--5614461 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5614427 TGTTTTGTTT
5614437 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
5614462 TTGAAATATA
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:5615819 original size:97 final size:90
Alignment explanation
Indices: 5615630--5615820 Score: 301
Period size: 97 Copynumber: 2.0 Consensus size: 90
5615620 TCATCACTTT
*
5615630 TGGATTCTTTCACTGAACCTTTATATTCAGAATCATAATTACCAAACTCTGGATCATTTGGACCT
1 TGGATTCTTTCACTAAACCTTTATATTCAGAATCATAATTACCAAACTCTGGATCATTTGGACCT
5615695 TTATTTGATGGAGCATTTTCACCTC
66 TTATTTGATGGAGCATTTTCACCTC
*
5615720 TGGATTCTTTCACTAAACCTTTATATTCAGAATCATAAGCATAATTACCAAATTCTGGATCATTT
1 TGGATTCTTTCACTAAACCTTTATATTCAG-A--AT---CATAATTACCAAACTCTGGATCA-TT
5615785 TGGACCTTTATTTGATGGAGCATTTTCACCTC
59 TGGACCTTTATTTGATGGAGCATTTTCACCTC
5615817 TGGA
1 TGGA
5615821 CTGTGGTTCA
Statistics
Matches: 92, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
90 29 0.32
91 1 0.01
93 2 0.02
96 22 0.24
97 38 0.41
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (90 bp):
TGGATTCTTTCACTAAACCTTTATATTCAGAATCATAATTACCAAACTCTGGATCATTTGGACCT
TTATTTGATGGAGCATTTTCACCTC
Found at i:5616144 original size:87 final size:87
Alignment explanation
Indices: 5615998--5616371 Score: 642
Period size: 87 Copynumber: 4.3 Consensus size: 87
5615988 GATCATAAGC
* * * *
5615998 ATAAGCACCGACCTCTGGATCATTTACACCTTTGTTTGCAGGAGCATCTTCACCTTTGGATTCTT
1 ATAAGCACCAAACTCTGGATCATTTACACCTTTGTTCGAAGGAGCATCTTCACCTTTGGATTCTT
5616063 TGTTTGAATTATCACCATACCA
66 TGTTTGAATTATCACCATACCA
* * *
5616085 ATAAGCACCAAACTCTGGATCAGTTACACCTTTGTTTGCAGGAGCATCTTCACCTTTGGATTCTT
1 ATAAGCACCAAACTCTGGATCATTTACACCTTTGTTCGAAGGAGCATCTTCACCTTTGGATTCTT
5616150 TGTTTGAATTATCACCATACCA
66 TGTTTGAATTATCACCATACCA
5616172 ATAAGCACCAAACTCTGGATCATTTACACCTTTGTTCGAAGGAGCATCTTCACCTTTGGATTCTT
1 ATAAGCACCAAACTCTGGATCATTTACACCTTTGTTCGAAGGAGCATCTTCACCTTTGGATTCTT
5616237 TGTTTGAATTATCACCATACCA
66 TGTTTGAATTATCACCATACCA
5616259 ATAAGCACCAAACTCTGGATCATTTACACCTTTGTTCGAAGGAGCATCTTCACCTTTGGAATT-T
1 ATAAGCACCAAACTCTGGATCATTTACACCTTTGTTCGAAGGAGCATCTTCACCTTTGG-ATTCT
**
5616323 TTGCCTGAATTATCACCATACCA
65 TTGTTTGAATTATCACCATACCA
*
5616346 ATAAGCACCAAACTCGGGATCATTTA
1 ATAAGCACCAAACTCTGGATCATTTA
5616372 TACCCTTTTG
Statistics
Matches: 277, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
87 274 0.99
88 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (87 bp):
ATAAGCACCAAACTCTGGATCATTTACACCTTTGTTCGAAGGAGCATCTTCACCTTTGGATTCTT
TGTTTGAATTATCACCATACCA
Found at i:5625777 original size:2 final size:2
Alignment explanation
Indices: 5625772--5625796 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5625762 TATATGTGTC
5625772 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
5625797 GTAAATGAGA
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:5626412 original size:30 final size:29
Alignment explanation
Indices: 5626369--5626461 Score: 93
Period size: 27 Copynumber: 3.3 Consensus size: 29
5626359 AGTTACATGT
* *
5626369 CATGTTTAAAAAATAATATTGTTACACAC
1 CATGTTCAAAAAAAAATATTGTTACACAC
* *
5626398 CATGTTC--AAAAAAATATTATTATACAC
1 CATGTTCAAAAAAAAATATTGTTACACAC
* * *
5626425 CATGTTGAAAAAAAAA-ATTGTTGCATAC
1 CATGTTCAAAAAAAAATATTGTTACACAC
*
5626453 CATCTTCAA
1 CATGTTCAA
5626462 GGTGTTTAAC
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
27 23 0.45
28 15 0.29
29 13 0.25
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (29 bp):
CATGTTCAAAAAAAAATATTGTTACACAC
Found at i:5626436 original size:155 final size:154
Alignment explanation
Indices: 5626248--5626584 Score: 376
Period size: 155 Copynumber: 2.2 Consensus size: 154
5626238 AGAAAATTAA
* * * * * * *
5626248 AAAAAAAAAGTTATTATACTCTATGTTAAAAAAAATATATTGTT-ATTCCTTATGTTTAAGGTGT
1 AAAAAAAAAGTTATTATACACCATGTTAAAAAAAAAAAATTGTTCATACC--ATCTTCAAGGTGT
* * * * * *
5626312 TTAA-TTCTAAGAGTTTATATTTTAATAAAATACAAAGATAAAGATCAAGTTACATGTCATGTTT
64 TTAACTCCAAAG-GTTTATATCTTAATAAAATACAAAAATAAAGATCAAGTTACAAGTCATGTTG
5626376 AAAAAATAATATTGTTACACACCATGTTC
128 AAAAAA-AAT-TTGTTACACACCATGTTC
* *
5626405 AAAAAAATA-TTATTATACACCATGTT-GAAAAAAAAAATTGTTGCATACCATCTTCAAGGTGTT
1 AAAAAAAAAGTTATTATACACCATGTTAAAAAAAAAAAATTGTT-CATACCATCTTCAAGGTGTT
*
5626468 TAACTCCAAAGGTTTATATCTTAATGAAATACAAAAATAAAGATCAAGTTACAAGTCATGTTGAA
65 TAACTCCAAAGGTTTATATCTTAATAAAATACAAAAATAAAGATCAAGTTACAAGTCATGTTGAA
** ** *
5626533 AAAAAATTTGTTACATGCCATAATG
130 AAAAAATTTGTTACACACCATGTTC
* * *
5626558 AAAAAAAAAATTATTACACATCATGTT
1 AAAAAAAAAGTTATTATACACCATGTT
5626585 TAATGTGTTT
Statistics
Matches: 152, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
153 21 0.14
154 18 0.12
155 81 0.53
156 20 0.13
157 12 0.08
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (154 bp):
AAAAAAAAAGTTATTATACACCATGTTAAAAAAAAAAAATTGTTCATACCATCTTCAAGGTGTTT
AACTCCAAAGGTTTATATCTTAATAAAATACAAAAATAAAGATCAAGTTACAAGTCATGTTGAAA
AAAAATTTGTTACACACCATGTTC
Found at i:5626694 original size:27 final size:27
Alignment explanation
Indices: 5626639--5626704 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
5626629 GATAAAGACC
* * *
5626639 ACACGCCATATTGAAAAAAAAATTGTT
1 ACACGTCATGTTGAAAAAAAAATTATT
*
5626666 ACATGTCATGTTGAAGAAAAAAA-TATT
1 ACACGTCATGTTGAA-AAAAAAATTATT
*
5626693 ACACGTTATGTT
1 ACACGTCATGTT
5626705 TAAAGTGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 25 0.78
28 7 0.22
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (27 bp):
ACACGTCATGTTGAAAAAAAAATTATT
Found at i:5626713 original size:120 final size:121
Alignment explanation
Indices: 5626528--5626752 Score: 335
Period size: 120 Copynumber: 1.9 Consensus size: 121
5626518 ACAAGTCATG
* *
5626528 TTGAAAAAAAATTTGTTACATGCCATAATGAAAAAAAAAATTATTACACATCATGTTTAATGTGT
1 TTGAAAAAAAAATTGTTACATGCCATAATGAAAAAAAAAATTATTACACATCATGTTTAAAGTGT
*
5626593 TTAAATCTAAGAATTTATGTCCTAATGAAATACAAAGATAAAGACCACACGCCATA
66 TTAAATCCAAGAATTTATGTCCTAATGAAATACAAAGATAAAGACCACACGCCATA
* ** * * *
5626649 TTGAAAAAAAAATTGTTACATGTCATGTTGAAGAAAAAAA-TATTACACGTTATGTTTAAAGTGT
1 TTGAAAAAAAAATTGTTACATGCCATAATGAAAAAAAAAATTATTACACATCATGTTTAAAGTGT
* * *
5626713 TTAACTCCAATAGTTTATGTCCTAATGAAATACAAAGATA
66 TTAAATCCAAGAATTTATGTCCTAATGAAATACAAAGATA
5626753 GAAACTAAGT
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
120 57 0.62
121 35 0.38
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (121 bp):
TTGAAAAAAAAATTGTTACATGCCATAATGAAAAAAAAAATTATTACACATCATGTTTAAAGTGT
TTAAATCCAAGAATTTATGTCCTAATGAAATACAAAGATAAAGACCACACGCCATA
Found at i:5626780 original size:120 final size:116
Alignment explanation
Indices: 5626533--5626807 Score: 275
Period size: 120 Copynumber: 2.3 Consensus size: 116
5626523 TCATGTTGAA
* ** *
5626533 AAAAAATTTGTTACATGCCATAATGAAAAAAAAAATTATTACACATCATGTTTAATGTGTTTAAA
1 AAAAAA-TTGTTACATGACATGTTG-AAAAAAAAATTATTACACATCATGTTTAAAGTGTTTAAA
* *
5626598 TCTAAGAATTTATGTCCTAATGAAATACAAAGATAAAGACCACACGCCATATT
64 TCCAAGAATTTATGTCCTAATGAAATACAAAGATAAAGACCACACACCATATT
* * *
5626651 GAAAAAAAAATTGTTACATGTCATGTTGAAGAAAAAAA-TATTACACGTTATGTTTAAAGTGTTT
1 ----AAAAAATTGTTACATGACATGTTGAA-AAAAAAATTATTACACATCATGTTTAAAGTGTTT
* * * *
5626715 AACTCCAATAGTTTATGTCCTAATGAAATACAAAGATAGAA-ACTAAGTTACACACCATATT
61 AAATCCAAGAATTTATGTCCTAATGAAATACAAAGATA-AAGAC-----CACACACCATATT
*
5626776 AAAAAAAATTGTTACATGAGATGTTGAAAAAA
1 --AAAAAATTGTTACATGACATGTTGAAAAAA
5626808 GTTATTATAG
Statistics
Matches: 132, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
120 61 0.46
121 24 0.18
122 10 0.08
123 26 0.20
125 11 0.08
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (116 bp):
AAAAAATTGTTACATGACATGTTGAAAAAAAAATTATTACACATCATGTTTAAAGTGTTTAAATC
CAAGAATTTATGTCCTAATGAAATACAAAGATAAAGACCACACACCATATT
Done.