Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008982.1 Hibiscus syriacus cultivar Beakdansim tig00112344_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: 2253222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 12
Found at i:1979137 original size:83 final size:82
Alignment explanation
Indices: 1979040--1979372 Score: 290
Period size: 83 Copynumber: 4.1 Consensus size: 82
1979030 TACTTTAGCA
* *
1979040 GCGTTTTTT-AAACAAACGCCGTAATAGAGTTGTAATTTAGCAGCGTTTTTAGCTCAAACGTCGC
1 GCGTTTTTTCAAA-AAACGCCGTAATAGAGTTGTAATTTAGCGGCGTTTTTAG-TCAAACGCCGC
1979104 AATTGA-GTTGTTTATAGTG
64 AA-TGATGTTGTTTATAGTG
* * * * * * *
1979123 GCGTTTTTTCAACAAACACCGAAATAGAGTGGTAATGTAGCGGCGTTTTT-GTACAAACGCCACG
1 GCGTTTTTTCAAAAAACGCCGTAATAGAGTTGTAATTTAGCGGCGTTTTTAGT-CAAACGCCGCA
* *
1979187 ATAATGTTATTTATAGTG
65 ATGATGTTGTTTATAGTG
* * *
1979205 GCGTTTGTTCAAAAAACG--GT-ATAGA-TTAGTAATTTAGCTGCGTTTATTAAAT-AAACGCCG
1 GCGTTTTTTCAAAAAACGCCGTAATAGAGTT-GTAATTTAGCGGCGTTT-TT-AGTCAAACGCCG
*
1979265 CAAT-AGTATTGTTTATAGTG
63 CAATGA-TGTTGTTTATAGTG
* * * * ** * * *
1979285 GCGTTTGTGCAAAAAATGCAGTAATAGAGTAATAATCTAGCGGCGTTTGTAGGCAAACGCCGCAA
1 GCGTTTTTTCAAAAAACGCCGTAATAGAGTTGTAATTTAGCGGCGTTTTTAGTCAAACGCCGCAA
*
1979350 T-ATGTTGTTTATCGTG
66 TGATGTTGTTTATAGTG
*
1979366 GCATTTT
1 GCGTTTT
1979373 ATAAAAACGC
Statistics
Matches: 201, Mismatches: 36, Indels: 28
0.76 0.14 0.11
Matches are distributed among these distances:
78 1 0.00
79 21 0.10
80 41 0.20
81 21 0.10
82 54 0.27
83 60 0.30
84 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (82 bp):
GCGTTTTTTCAAAAAACGCCGTAATAGAGTTGTAATTTAGCGGCGTTTTTAGTCAAACGCCGCAA
TGATGTTGTTTATAGTG
Found at i:1979344 original size:162 final size:160
Alignment explanation
Indices: 1979063--1979367 Score: 348
Period size: 162 Copynumber: 1.9 Consensus size: 160
1979053 AAACGCCGTA
** * *
1979063 ATAGAGTTGTAATTTAGCAGCGTTTTTAGCTCAAACGTCGCAATTGAGTTGTTTATAGTGGCGTT
1 ATAGAGTTGTAATTTAGCAGCGTTTTTAAATCAAACGCCGCAATAGAGTTGTTTATAGTGGCGTT
* * * * ** * *
1979128 TTTTCAACAAACACCGAAATAGAGTGGTAATGTAGCGGCGTTTTTGTACAAACGCCACGATAATG
66 TGTGCAAAAAACACAGAAATAGAGTAATAATCTAGCGGCG-TTTTGTACAAACGCCACAAT-ATG
1979193 TTATTTATAGTGGCGTTTGTTCAAAAAACGGT
129 TTATTTATAGTGGCGTTTGTTCAAAAAACGGT
*
1979225 ATAGA-TTAGTAATTTAGCTGCGTTTATTAAAT-AAACGCCGCAATAGTA-TTGTTTATAGTGGC
1 ATAGAGTT-GTAATTTAGCAGCGTTT-TTAAATCAAACGCCGCAATAG-AGTTGTTTATAGTGGC
** * *
1979287 GTTTGTGCAAAAAATGCAGTAATAGAGTAATAATCTAGCGGCG-TTTGTAGGCAAACGCCGCAAT
63 GTTTGTGCAAAAAACACAGAAATAGAGTAATAATCTAGCGGCGTTTTGTA--CAAACGCCACAAT
* *
1979351 ATGTTGTTTATCGTGGC
126 ATGTTATTTATAGTGGC
1979368 ATTTTATAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
160 6 0.05
161 17 0.14
162 91 0.76
163 5 0.04
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (160 bp):
ATAGAGTTGTAATTTAGCAGCGTTTTTAAATCAAACGCCGCAATAGAGTTGTTTATAGTGGCGTT
TGTGCAAAAAACACAGAAATAGAGTAATAATCTAGCGGCGTTTTGTACAAACGCCACAATATGTT
ATTTATAGTGGCGTTTGTTCAAAAAACGGT
Found at i:1979602 original size:41 final size:42
Alignment explanation
Indices: 1979556--1979651 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 42
1979546 TTTTGGTAAC
* * *
1979556 AAACGCTGCAAATGGGTCAGACTTTAGTGGC-GTTTTACAAG
1 AAACGCCGCAAAAGGGTCAGACATTAGTGGCAGTTTTACAAG
* * * *
1979597 AAACGCCGTAAAAGGGTCATACATTAGTGGCATTTTTACAAA
1 AAACGCCGCAAAAGGGTCAGACATTAGTGGCAGTTTTACAAG
*
1979639 AAATGCCGCAAAA
1 AAACGCCGCAAAA
1979652 AAATTATATA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 26 0.58
42 19 0.42
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (42 bp):
AAACGCCGCAAAAGGGTCAGACATTAGTGGCAGTTTTACAAG
Found at i:1980602 original size:14 final size:14
Alignment explanation
Indices: 1980583--1980609 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1980573 TTTATTATTT
1980583 CTAGATATATTATA
1 CTAGATATATTATA
1980597 CTAGATATATTAT
1 CTAGATATATTAT
1980610 GTCATTTCCT
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:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (14 bp):
CTAGATATATTATA
Found at i:1982124 original size:17 final size:17
Alignment explanation
Indices: 1982090--1982127 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1982080 AATTTTATCT
*
1982090 ATATTATTAGCAATTAA
1 ATATTATTAGCAACTAA
1982107 ATATTATTATGC-ACTAA
1 ATATTATTA-GCAACTAA
1982124 ATAT
1 ATAT
1982128 GATAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (17 bp):
ATATTATTAGCAACTAA
Found at i:1982435 original size:21 final size:21
Alignment explanation
Indices: 1982411--1982496 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
1982401 ATGAAACAAG
1982411 GGAAGCAGAGAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
* ** * *
1982432 GGAAACAGCTAGAGCAACAAC
1 GGAAGCAGAGAGAGCAGCAGC
* *
1982453 GGAAGCAGAGAGAGAAGCAGT
1 GGAAGCAGAGAGAGCAGCAGC
* *
1982474 GGCAGCACAGAGAG-AGGCAGC
1 GGAAGCAGAGAGAGCA-GCAGC
1982495 GG
1 GG
1982497 CAGAATAAAG
Statistics
Matches: 49, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 1 0.02
21 48 0.98
ACGTcount: A:0.40, C:0.19, G:0.40, T:0.02
Consensus pattern (21 bp):
GGAAGCAGAGAGAGCAGCAGC
Found at i:1983113 original size:87 final size:85
Alignment explanation
Indices: 1982850--1983204 Score: 236
Period size: 87 Copynumber: 4.1 Consensus size: 85
1982840 CATATATTTA
* * *
1982850 GCGGCGTTTGTGATAAAAACGCCGCGAAATC-TCAA-GACATATTGCGGCGTTT-TCGACGAAAA
1 GCGGCGTTTGTGAGAAAAACGCCGCTAAA-CATCAACG-CCTATTGCGGCGTTTGTCG-C-AAAA
* * *
1982912 TGCCGCTAAATCTCAAGACATATTCT
62 TGCCGCTAAATATCAACACCTA-T-T
* * ** * * *
1982938 GCGGCGTTTGT-AGGAAAACGCCGCTAAATATCAACATCT-TCTGCGGCGTTTGTAGGAAAAACG
1 GCGGCGTTTGTGAGAAAAACGCCGCTAAACATCAACGCCTAT-TGCGGCGTTTGT-CGCAAAATG
* * * * *
1983001 CCGGTAAAAATAAACATCTACT
64 CCGCTAAATATCAACACCTATT
*
1983023 GCGGCGTTTGTGAAGAAAAACGCCGCTAAACATCAACGCCTATTGCGGCGTTTGTCTGCCAAATG
1 GCGGCGTTTGTG-AGAAAAACGCCGCTAAACATCAACGCCTATTGCGGCGTTTGTC-GCAAAATG
*
1983088 CCGTTAAATATCAACACCTATT
64 CCGCTAAATATCAACACCTATT
* ***** * ** * *
1983110 GCGGCGTTTTTCTTCCAAACGCCGCTAAATATCAATACCTTTTGCGGCGTTTGTTG-AACAATCG
1 GCGGCGTTTGTGAGAAAAACGCCGCTAAACATCAACGCCTATTGCGGCGTTTGTCGCAA-AAT-G
* * ***
1983174 CCGCTATATGTTGTCACCTATT
64 CCGCTAAATATCAACACCTATT
1983196 GCGGCGTTT
1 GCGGCGTTT
1983205 TTTTGTTGAA
Statistics
Matches: 207, Mismatches: 49, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
84 1 0.00
85 16 0.08
86 61 0.29
87 115 0.56
88 13 0.06
89 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (85 bp):
GCGGCGTTTGTGAGAAAAACGCCGCTAAACATCAACGCCTATTGCGGCGTTTGTCGCAAAATGCC
GCTAAATATCAACACCTATT
Found at i:1983176 original size:43 final size:44
Alignment explanation
Indices: 1982850--1983204 Score: 232
Period size: 43 Copynumber: 8.2 Consensus size: 44
1982840 CATATATTTA
* * * *
1982850 GCGGCGTTTGTGAT-AA-AAACGCCGCGAAATCTCAAGACATATT
1 GCGGCGTTTGT-ATGAACAAACGCCGCTAAATATCAACACCTATT
* * * * *
1982893 GCGGCGTTT-T-CG-ACGAAAATGCCGCTAAATCTCAAGACATATTCT
1 GCGGCGTTTGTATGAAC--AAACGCCGCTAAATATCAACACCTA-T-T
* *
1982938 GCGGCGTTTGTA-GGA-AAACGCCGCTAAATATCAACATCT-TCT
1 GCGGCGTTTGTATGAACAAACGCCGCTAAATATCAACACCTAT-T
* * * * * *
1982980 GCGGCGTTTGTAGGAA-AAACGCCGGTAAAAATAAACATCTACT
1 GCGGCGTTTGTATGAACAAACGCCGCTAAATATCAACACCTATT
* * *
1983023 GCGGCGTTTGTGAAGAA-AAACGCCGCTAAACATCAACGCCTATT
1 GCGGCGTTTGT-ATGAACAAACGCCGCTAAATATCAACACCTATT
* * * *
1983067 GCGGCGTTTGTCTG-CCAAATGCCGTTAAATATCAACACCTATT
1 GCGGCGTTTGTATGAACAAACGCCGCTAAATATCAACACCTATT
* * ** * *
1983110 GCGGCGTTTTTCT-TCCAAACGCCGCTAAATATCAATACCTTTT
1 GCGGCGTTTGTATGAACAAACGCCGCTAAATATCAACACCTATT
* * * ***
1983153 GCGGCGTTTGT-TGAACAATCGCCGCTATATGTTGTCACCTATT
1 GCGGCGTTTGTATGAACAAACGCCGCTAAATATCAACACCTATT
1983196 GCGGCGTTT
1 GCGGCGTTT
1983205 TTTTGTTGAA
Statistics
Matches: 254, Mismatches: 43, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
40 1 0.00
42 17 0.07
43 167 0.66
44 56 0.22
45 10 0.04
46 2 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (44 bp):
GCGGCGTTTGTATGAACAAACGCCGCTAAATATCAACACCTATT
Found at i:1987064 original size:19 final size:19
Alignment explanation
Indices: 1987040--1987079 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1987030 CCATAAACAC
1987040 GGTACGACTTTAATTTTTT
1 GGTACGACTTTAATTTTTT
1987059 GGTACGACTTTAATTTTTT
1 GGTACGACTTTAATTTTTT
1987078 GG
1 GG
1987080 GTGAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (19 bp):
GGTACGACTTTAATTTTTT
Found at i:1994435 original size:2 final size:2
Alignment explanation
Indices: 1994428--1994459 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1994418 TATTAAAATA
1994428 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
1994460 TAACAATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1997063 original size:31 final size:30
Alignment explanation
Indices: 1997020--1997095 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
1997010 ACTGATACGA
* *
1997020 ATTACCTAAATGCAACCT-AAATGTACTGTGT
1 ATTATCTAAATGCAACCTGAAA--TACTGTGC
* *
1997051 ATTATCTAAATGCACCCTGACATACTGTGC
1 ATTATCTAAATGCAACCTGAAATACTGTGC
1997081 ATTATCTAAATGCAA
1 ATTATCTAAATGCAA
1997096 ACTTGACTAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 21 0.54
31 16 0.41
32 2 0.05
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.32
Consensus pattern (30 bp):
ATTATCTAAATGCAACCTGAAATACTGTGC
Found at i:2004634 original size:3 final size:3
Alignment explanation
Indices: 2004626--2004702 Score: 136
Period size: 3 Copynumber: 25.7 Consensus size: 3
2004616 TTAATATATT
* *
2004626 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2004674 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2004703 TATTTAATAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2005215 original size:113 final size:114
Alignment explanation
Indices: 2005032--2005592 Score: 887
Period size: 113 Copynumber: 5.0 Consensus size: 114
2005022 AGAATTATGC
* * *
2005032 AAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* ** * * *
2005097 TATGAACTTTCTCTGGAAAAGCTGCTCCATCAAGTGATGGATTTGA-GC
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGGATTTCAGGT
** *
2005145 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
2005210 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGAT-GAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGGATTTCAGGT
2005258 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
2005323 TATGAACTTTCTCTGGAAAAGATAATCCATCAATTGAT-GAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGGATTTCAGGT
* * *
2005371 AAAAGATTGAACAAATTCTTCTTATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
2005436 TATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTT-AGGT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGGATTTCAGGT
2005484 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
2005549 TATAAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTT
66 TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGGATTT
2005593 GAATATTTGC
Statistics
Matches: 416, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
112 5 0.01
113 408 0.98
114 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (114 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGGATTTCAGGT
Found at i:2006725 original size:83 final size:83
Alignment explanation
Indices: 2006321--2006724 Score: 663
Period size: 83 Copynumber: 4.9 Consensus size: 83
2006311 GTAGTTCTTA
* *
2006321 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACACATTCATCTTCTA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTA
2006385 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
*
2006404 CCAAACCAGATCAGATAACTCAAAAAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT-TCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCT-A
2006468 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
2006487 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
2006552 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
2006570 CCAAACCAGATCAGATAAATCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
* * *
2006635 ATTCAAT-AGCTGGTTTTA
66 ATTCAATGA-TTGGTTCTG
* *
2006653 CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGG-AGCATTCATCTTCTA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCA-AATTCATCTTCTA
2006717 AATTCAAT
65 AATTCAAT
2006725 AACTCGTTTA
Statistics
Matches: 305, Mismatches: 11, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
82 3 0.01
83 299 0.98
84 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
ATTCAATGATTGGTTCTG
Found at i:2007665 original size:10 final size:10
Alignment explanation
Indices: 2007650--2007695 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
2007640 TTGACCTCCC
2007650 CTTTTTTTTT
1 CTTTTTTTTT
2007660 CTTTTTTTTT
1 CTTTTTTTTT
2007670 CTCTCTTTTTTT
1 CT-T-TTTTTTT
*
2007682 C-TTTTCTTT
1 CTTTTTTTTT
2007691 CTTTT
1 CTTTT
2007696 CAAGCATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 7 0.22
10 16 0.50
11 1 0.03
12 8 0.25
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:2007686 original size:17 final size:16
Alignment explanation
Indices: 2007661--2007695 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
2007651 TTTTTTTTTC
2007661 TTTTTTTTTCTCTCTT
1 TTTTTTTTTCTCTCTT
*
2007677 TTTTTCTTTTCTTTCTT
1 TTTTT-TTTTCTCTCTT
2007694 TT
1 TT
2007696 CAAGCATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTTTTCTCTCTT
Found at i:2019738 original size:13 final size:13
Alignment explanation
Indices: 2019722--2019753 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
2019712 CCGTCGCCAA
2019722 CCACCGCCGCCGG
1 CCACCGCCGCCGG
2019735 CCACCGCCGCCGG
1 CCACCGCCGCCGG
2019748 CCACCG
1 CCACCG
2019754 TCTTCGGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.62, G:0.28, T:0.00
Consensus pattern (13 bp):
CCACCGCCGCCGG
Found at i:2020387 original size:3 final size:3
Alignment explanation
Indices: 2020379--2020452 Score: 121
Period size: 3 Copynumber: 24.7 Consensus size: 3
2020369 TTAATATATT
* *
2020379 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
2020427 TTA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
2020453 TTTATAATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2025776 original size:19 final size:19
Alignment explanation
Indices: 2025749--2025800 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
2025739 CATCGAATTG
* *
2025749 AAACTCATCGAATCTATTC
1 AAACCCATCAAATCTATTC
*
2025768 AAACCCATCAAATCTATTT
1 AAACCCATCAAATCTATTC
2025787 AAACCCATCAAATC
1 AAACCCATCAAATC
2025801 AGGATAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (19 bp):
AAACCCATCAAATCTATTC
Found at i:2027170 original size:2 final size:2
Alignment explanation
Indices: 2027163--2027187 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2027153 CAAACTGTAA
2027163 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2027188 ACGTAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2027440 original size:31 final size:31
Alignment explanation
Indices: 2027402--2027481 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
2027392 ATCACTTTTG
**
2027402 TTTTTATTTAATTAAGATATGATTGTTTTCA
1 TTTTTATTTAATTAAGATATGATCATTTTCA
* * *
2027433 TTTTTATTTAACTAAAATATGATCATTTTCG
1 TTTTTATTTAATTAAGATATGATCATTTTCA
2027464 TTTTTATTTAATTAAGAT
1 TTTTTATTTAATTAAGAT
2027482 GTAGTCATCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.56
Consensus pattern (31 bp):
TTTTTATTTAATTAAGATATGATCATTTTCA
Found at i:2027711 original size:15 final size:15
Alignment explanation
Indices: 2027679--2027712 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2027669 CAATTCGAAG
* *
2027679 ATTTTAGTTTATTTT
1 ATTTTAGTTTAATAT
2027694 ATTTTAGTTTAATAT
1 ATTTTAGTTTAATAT
2027709 ATTT
1 ATTT
2027713 ATTTTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
ATTTTAGTTTAATAT
Found at i:2032243 original size:8 final size:8
Alignment explanation
Indices: 2032230--2032263 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
2032220 AAGATACCCT
2032230 ATTCAAAA
1 ATTCAAAA
2032238 ATTCAAAA
1 ATTCAAAA
2032246 ATTCAAAA
1 ATTCAAAA
2032254 ATTCAAAA
1 ATTCAAAA
2032262 AT
1 AT
2032264 GTTGATATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (8 bp):
ATTCAAAA
Found at i:2032502 original size:21 final size:21
Alignment explanation
Indices: 2032464--2032504 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2032454 AAAAATCTCG
*
2032464 GATATCCAAAATTTCGGATCA
1 GATATCCAAAATTCCGGATCA
2032485 GATATCC-AAATATCCGGATC
1 GATATCCAAAAT-TCCGGATC
2032505 CAAATCTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (21 bp):
GATATCCAAAATTCCGGATCA
Found at i:2032901 original size:53 final size:51
Alignment explanation
Indices: 2032825--2032975 Score: 187
Period size: 53 Copynumber: 2.9 Consensus size: 51
2032815 AACAATAAAC
* ** ** *
2032825 CAACATAAGATGTGAAAAATAAAAATATTACATAAGAGTATCAAGTCTCAAAT
1 CAACACAAGATGTTCAAAATAAAAATACAACACAAGAGTATCAAGTCTC--AT
* * * *
2032878 CAACACAAGATGTTCATATTAAAAATACCACACAAGAGTATCAAATCTCAT
1 CAACACAAGATGTTCAAAATAAAAATACAACACAAGAGTATCAAGTCTCAT
2032929 CAACACAAGATGTTCAAAAT-AAAATACAACACAAGAGTATCAAGTCT
1 CAACACAAGATGTTCAAAATAAAAATACAACACAAGAGTATCAAGTCT
2032976 TAACAACATA
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
50 25 0.29
51 20 0.24
53 40 0.47
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.23
Consensus pattern (51 bp):
CAACACAAGATGTTCAAAATAAAAATACAACACAAGAGTATCAAGTCTCAT
Found at i:2032903 original size:26 final size:26
Alignment explanation
Indices: 2032874--2032964 Score: 84
Period size: 26 Copynumber: 3.6 Consensus size: 26
2032864 ATCAAGTCTC
*
2032874 AAAT-CAACACAAGATGTTCATATTAA
1 AAATACAACACAAGATGTTCAAATT-A
*
2032900 AAATACCACACAAGA-GTATCAAATCT-
1 AAATACAACACAAGATGT-TCAAAT-TA
* *
2032926 -CAT-CAACACAAGATGTTCAAAATA
1 AAATACAACACAAGATGTTCAAATTA
2032950 AAATACAACACAAGA
1 AAATACAACACAAGA
2032965 GTATCAAGTC
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
23 1 0.02
24 14 0.27
25 6 0.12
26 16 0.31
27 14 0.27
28 1 0.02
ACGTcount: A:0.53, C:0.20, G:0.08, T:0.20
Consensus pattern (26 bp):
AAATACAACACAAGATGTTCAAATTA
Found at i:2043718 original size:19 final size:19
Alignment explanation
Indices: 2043694--2043745 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
2043684 GAATGCAATT
2043694 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
2043713 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
*
2043732 AGTACATCGATGCA
1 AGTGCATCGATGCA
2043746 CCCTCTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:2044121 original size:44 final size:44
Alignment explanation
Indices: 2044073--2044161 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
2044063 TACGATAAGT
2044073 CTATCTCTTATCATTGAATTTATGATTCCATATTCATGCACATA
1 CTATCTCTTATCATTGAATTTATGATTCCATATTCATGCACATA
2044117 CTATCTCTTATCATTGAATTTATGATTCCATATTCATGCACATA
1 CTATCTCTTATCATTGAATTTATGATTCCATATTCATGCACATA
2044161 C
1 C
2044162 ATACATATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (44 bp):
CTATCTCTTATCATTGAATTTATGATTCCATATTCATGCACATA
Found at i:2044438 original size:18 final size:18
Alignment explanation
Indices: 2044415--2044473 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
2044405 AGGGATTATC
2044415 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* * *
2044433 AGTGGTTCTTCAGAACAAT
1 AGTGGTCCTTCGGGAC-AT
*
2044452 CAGTGGTCCTTCGGGATAT
1 -AGTGGTCCTTCGGGACAT
2044471 AGT
1 AGT
2044474 CATCATTCGG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
18 16 0.50
19 4 0.12
20 12 0.38
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:2052824 original size:21 final size:21
Alignment explanation
Indices: 2052798--2052842 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2052788 GATTTCTGGG
* *
2052798 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2052819 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2052840 CAA
1 CAA
2052843 ACGAACAAGA
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:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2054179 original size:31 final size:31
Alignment explanation
Indices: 2054071--2054202 Score: 149
Period size: 31 Copynumber: 4.2 Consensus size: 31
2054061 AGAGTCGAGG
2054071 GTTTACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAAGGAACATATGGACA
***
2054102 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAAGGA-ACATATGGACA
*
2054134 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAAGGAACATATGGACA
** ** * *
2054165 GTTTACCTGGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTAAGGAACATATGGACA
2054196 GTTTACC
1 GTTTACC
2054203 GAGGATCTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
31 57 0.68
32 27 0.32
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (31 bp):
GTTTACCTATGTTCTAAGGAACATATGGACA
Found at i:2054286 original size:29 final size:30
Alignment explanation
Indices: 2054184--2054283 Score: 148
Period size: 30 Copynumber: 3.3 Consensus size: 30
2054174 GGTTCTTCGG
*
2054184 GACCTATGGACAGTTTACCGAGGATCTTTAT
1 GACCTCTGGACAG-TTACCGAGGATCTTTAT
2054215 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
2054245 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2054274 GACCTCTGGA
1 GACCTCTGGA
2054284 TAGGTCCTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
29 18 0.28
30 35 0.54
31 12 0.18
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:2057494 original size:21 final size:21
Alignment explanation
Indices: 2057468--2057512 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2057458 GATTTCTGGG
* *
2057468 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2057489 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2057510 CAA
1 CAA
2057513 ACGAACAAGA
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:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2058835 original size:31 final size:31
Alignment explanation
Indices: 2058741--2058842 Score: 116
Period size: 31 Copynumber: 3.3 Consensus size: 31
2058731 AGAGTCGAGG
2058741 GTTTACCTATGTTCTAAGGAAAATATGGACA
1 GTTTACCTATGTTCTAAGGAAAATATGGACA
*** *
2058772 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAAGGA-AAATATGGACA
* * *
2058804 GTATACCTATGTTCTAAGGAATATATAGACA
1 GTTTACCTATGTTCTAAGGAAAATATGGACA
2058835 GTTTACCT
1 GTTTACCT
2058843 GGGTTCTTCG
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
31 31 0.54
32 26 0.46
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (31 bp):
GTTTACCTATGTTCTAAGGAAAATATGGACA
Found at i:2058956 original size:29 final size:30
Alignment explanation
Indices: 2058854--2058953 Score: 148
Period size: 30 Copynumber: 3.3 Consensus size: 30
2058844 GGTTCTTCGG
*
2058854 GACCTATGGACAGTTTACCGAGGATCTTTAT
1 GACCTCTGGACAG-TTACCGAGGATCTTTAT
2058885 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
2058915 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2058944 GACCTCTGGA
1 GACCTCTGGA
2058954 TAGGTCTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
29 18 0.28
30 35 0.54
31 12 0.18
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:2063236 original size:18 final size:18
Alignment explanation
Indices: 2063213--2063247 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2063203 CGGAACAATC
2063213 AGTGGTCCTTCGGGATAT
1 AGTGGTCCTTCGGGATAT
*
2063231 AGTGGTCCTTGGGGATA
1 AGTGGTCCTTCGGGATA
2063248 AATATTCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.14, G:0.37, T:0.31
Consensus pattern (18 bp):
AGTGGTCCTTCGGGATAT
Found at i:2064181 original size:24 final size:23
Alignment explanation
Indices: 2064153--2064207 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
2064143 CACTTAATCC
*
2064153 CTAATTAAT-AGTAAACTAAAAGT
1 CTAATTAATAAATAAA-TAAAAGT
* *
2064176 CTTAATAAATAAATAAATAAAATT
1 C-TAATTAATAAATAAATAAAAGT
2064200 CTAATTAA
1 CTAATTAA
2064208 AATTATAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 7 0.27
24 14 0.54
25 5 0.19
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
CTAATTAATAAATAAATAAAAGT
Found at i:2067897 original size:12 final size:12
Alignment explanation
Indices: 2067880--2067904 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2067870 AAGATTAATA
2067880 AAAAATATTATT
1 AAAAATATTATT
2067892 AAAAATATTATT
1 AAAAATATTATT
2067904 A
1 A
2067905 TCTTTTTAAC
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):
AAAAATATTATT
Found at i:2070184 original size:39 final size:40
Alignment explanation
Indices: 2070141--2070234 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 40
2070131 AGGCAAATAC
2070141 TTTCTTAAACTAGCATGAATTAAGT-ACAAGGTAGGTATT
1 TTTCTTAAACTAGCATGAATTAAGTAACAAGGTAGGTATT
* * * * *
2070180 TTTCTTAATCTAGCATGAGTTGAGTAAAATAAGGTTGGTATT
1 TTTCTTAAACTAGCATGAATTAAGT--AACAAGGTAGGTATT
2070222 TTT-TTAAACTAGC
1 TTTCTTAAACTAGC
2070235 TTGAGTAGCG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 22 0.48
41 9 0.20
42 15 0.33
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (40 bp):
TTTCTTAAACTAGCATGAATTAAGTAACAAGGTAGGTATT
Found at i:2081646 original size:35 final size:35
Alignment explanation
Indices: 2081572--2081639 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
2081562 TTCATGTTCA
*
2081572 AAATTCCAAAACTCTTCAATTACATTCTAAACCCC
1 AAATTCCAAAACTCTTCAAATACATTCTAAACCCC
* *
2081607 AAATTTCAAAA-TACTTCAAATATATTCTAAACC
1 AAATTCCAAAACT-CTTCAAATACATTCTAAACC
2081640 TTAAATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.03
35 28 0.97
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (35 bp):
AAATTCCAAAACTCTTCAAATACATTCTAAACCCC
Found at i:2081717 original size:35 final size:35
Alignment explanation
Indices: 2081642--2081720 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
2081632 TCTAAACCTT
* *
2081642 AAATTGAAGTATTTTAAAATTTAGGGTTTAAAATT
1 AAATTGAAGTAGTTTAAAATTTAGGGTTTAAAATG
* * * *
2081677 TAATTGAATTAGTTTAGAATTT-GGGATTTATAATG
1 AAATTGAAGTAGTTTAAAATTTAGGG-TTTAAAATG
2081712 AAATTGAAG
1 AAATTGAAG
2081721 ATTGTGTTGG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
34 3 0.09
35 32 0.91
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.42
Consensus pattern (35 bp):
AAATTGAAGTAGTTTAAAATTTAGGGTTTAAAATG
Found at i:2082003 original size:28 final size:28
Alignment explanation
Indices: 2081963--2082018 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2081953 AAAAGTTCAG
2081963 TGACCATTACTATACTTTACCCTAAAAT
1 TGACCATTACTATACTTTACCCTAAAAT
2081991 TGACCATTACTATACTTTACCCTAAAAT
1 TGACCATTACTATACTTTACCCTAAAAT
2082019 AAATTATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (28 bp):
TGACCATTACTATACTTTACCCTAAAAT
Found at i:2088123 original size:65 final size:66
Alignment explanation
Indices: 2088014--2088146 Score: 259
Period size: 65 Copynumber: 2.0 Consensus size: 66
2088004 GAGGTGATTC
2088014 CTCAGTTTCACAAACCTTCGCTTTTGTAAAAATCTCCATGTATGAACAACGCAAGGAAAATGGGT
1 CTCAGTTTCACAAACCTTCGCTTTTGTAAAAATCTCCATGTATGAACAACGCAAGGAAAATGGGT
2088079 T
66 T
2088080 CTCA-TTTCACAAACCTTCGCTTTTGTAAAAATCTCCATGTATGAACAACGCAAGGAAAATGGGT
1 CTCAGTTTCACAAACCTTCGCTTTTGTAAAAATCTCCATGTATGAACAACGCAAGGAAAATGGGT
2088144 T
66 T
2088145 CT
1 CT
2088147 GAAAGTATTA
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
65 63 0.94
66 4 0.06
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (66 bp):
CTCAGTTTCACAAACCTTCGCTTTTGTAAAAATCTCCATGTATGAACAACGCAAGGAAAATGGGT
T
Found at i:2089681 original size:22 final size:22
Alignment explanation
Indices: 2089655--2089697 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2089645 TAATAAATTA
2089655 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2089677 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2089698 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2089706 original size:22 final size:22
Alignment explanation
Indices: 2089657--2089705 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2089647 ATAAATTATT
**
2089657 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2089679 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2089702 TAAA
1 TAAA
2089706 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2089709 original size:54 final size:54
Alignment explanation
Indices: 2089645--2090057 Score: 477
Period size: 54 Copynumber: 7.6 Consensus size: 54
2089635 ACAACAACAA
2089645 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
2089699 TAATAAATTATTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAA-TC---C--AT--A-T-TTTAAAATAAATCAATCCATAC
* *
2089763 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * ** * ** * **
2089811 AAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** *
2089866 -AATCCA-TATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
2089919 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
2089973 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
2090027 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
2090058 CAACTACAAT
Statistics
Matches: 305, Mismatches: 30, Indels: 48
0.80 0.08 0.13
Matches are distributed among these distances:
48 24 0.08
49 3 0.01
50 2 0.01
52 8 0.03
53 11 0.04
54 193 0.63
55 13 0.04
56 5 0.02
57 2 0.01
58 11 0.04
60 3 0.01
62 2 0.01
63 3 0.01
64 25 0.08
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:2089719 original size:14 final size:14
Alignment explanation
Indices: 2089700--2089752 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
2089690 AATCCATACT
2089700 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
2089714 AATAAATCAATTCATACT
1 AATAAAT-TATT--TA-A
2089732 AATAAATTATTTAA
1 AATAAATTATTTAA
2089746 AATAAAT
1 AATAAAT
2089753 CAATCCATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:2089735 original size:18 final size:18
Alignment explanation
Indices: 2089682--2089738 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
2089672 CATATTTTAA
*
2089682 AATAAATCAATCCATACT
1 AATAAATCAATTCATACT
* *
2089700 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
2089714 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
2089732 AATAAAT
1 AATAAAT
2089739 TATTTAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 7 0.23
15 5 0.17
17 4 0.13
18 14 0.47
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:2089828 original size:14 final size:14
Alignment explanation
Indices: 2089811--2089864 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
2089801 CAATCTATAC
2089811 AAATAAATTATTTA
1 AAATAAATTATTTA
*
2089825 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
2089842 CTAATAAATTATTTA
1 -AAATAAATTATTTA
2089857 AAATAAAT
1 AAATAAAT
2089865 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:2089926 original size:22 final size:22
Alignment explanation
Indices: 2089853--2089917 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
2089843 TAATAAATTA
2089853 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
2089875 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
2089897 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2089918 CTAATAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2089980 original size:22 final size:22
Alignment explanation
Indices: 2089931--2089979 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2089921 ATAAATTATT
**
2089931 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
2089953 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
2089976 TAAA
1 TAAA
2089980 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2090009 original size:22 final size:22
Alignment explanation
Indices: 2089983--2090025 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2089973 TAATAAATTA
*
2089983 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
2090005 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
2090026 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:2090034 original size:22 final size:22
Alignment explanation
Indices: 2089985--2090033 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2089975 ATAAATTATT
* **
2089985 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATACATATAA
2090007 TAAAATAAATCAATACATACTAA
1 TAAAATAAATCAATACATA-TAA
2090030 TAAA
1 TAAA
2090034 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:2090074 original size:188 final size:183
Alignment explanation
Indices: 2089709--2090236 Score: 717
Period size: 188 Copynumber: 2.8 Consensus size: 183
2089699 TAATAAATTA
* * **
2089709 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AA
* * * * * *
2089774 TAAATCAATCCATATTTTAAAATAAATCAATCT-ATACAAATAAAT---TA-TTTAAAATAAATC
62 TAAATCAAT-C-TATATT--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATC
* ** *
2089834 AATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAT
122 AATC-ATACTAATAAATTATTTAAAATAAATCAATCCATACTACAAAATAAATCAATCCATAT
2089897 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
2089962 TCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATAC
66 TCAATCTATATTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT-CATAC
2090027 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
130 TAATAAATTATTTAAAATAAATCAATCCAT---ACTACAA-AATAAATCAATCCATAT
*
2090085 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
2090150 TCAAT-TCATATTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATA
66 TCAATCT-ATATTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAA-TCATA
2090214 CTAATAAATTATTTAAAATAAAT
129 CTAATAAATTATTTAAAATAAAT
2090237 TATTTTAAAA
Statistics
Matches: 311, Mismatches: 17, Indels: 24
0.88 0.05 0.07
Matches are distributed among these distances:
179 3 0.01
180 16 0.05
182 4 0.01
183 3 0.01
184 61 0.20
185 5 0.02
187 5 0.02
188 213 0.68
189 1 0.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.36
Consensus pattern (183 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCTATATTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCATACT
AATAAATTATTTAAAATAAATCAATCCATACTACAAAATAAATCAATCCATAT
Found at i:2090083 original size:80 final size:80
Alignment explanation
Indices: 2089988--2090137 Score: 284
Period size: 80 Copynumber: 1.9 Consensus size: 80
2089978 AATTATTTAA
2089988 AATAAATCAATCCATATTTTAAAATAAATCAATAC-ATACTAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATCCATATTTTAAAATAAATCAAT-CTATACTAATAAATTATTTAAAATAAATCAA
2090052 TCCATACAACTACAAT
65 TCCATACAACTACAAT
2090068 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
2090133 CCATA
66 CCATA
2090138 TTTTAAAATA
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.99
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:2090132 original size:54 final size:54
Alignment explanation
Indices: 2090068--2090236 Score: 313
Period size: 54 Copynumber: 3.1 Consensus size: 54
2090058 CAACTACAAT
2090068 AATAAATCAATCCATATTTTAAAATAAATCAA-TCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAA
*
2090122 AATAAATCAATCCATATTTTAAAATAAATCAATTCATATTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
2090176 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
2090230 AATAAAT
1 AATAAAT
2090237 TATTTTAAAA
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
54 110 0.98
55 2 0.02
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
Found at i:2090143 original size:22 final size:22
Alignment explanation
Indices: 2090117--2090161 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
2090107 TAATAAATTA
2090117 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
2090139 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
2090161 T
1 T
2090162 AATAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2090165 original size:18 final size:18
Alignment explanation
Indices: 2090144--2090222 Score: 58
Period size: 22 Copynumber: 4.4 Consensus size: 18
2090134 CATATTTTAA
2090144 AATAAATCAATTCATATT
1 AATAAATCAATTCATATT
* *
2090162 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATATT
*
2090176 AATAAATCAATCCATATTTT
1 AATAAATCAATTCATA--TT
*
2090196 AAAATAAATCAATTCATACT
1 --AATAAATCAATTCATATT
2090216 AATAAAT
1 AATAAAT
2090223 TATTTAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
14 7 0.15
15 4 0.09
17 5 0.11
18 14 0.30
20 1 0.02
22 15 0.33
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAAATCAATTCATATT
Found at i:2090168 original size:22 final size:22
Alignment explanation
Indices: 2090115--2090167 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
2090105 ACTAATAAAT
2090115 TATT-TAAAATAAATCAATCCA
1 TATTATAAAATAAATCAATCCA
* *
2090136 TATTTTAAAATAAATCAATTCA
1 TATTATAAAATAAATCAATCCA
2090158 TATTAATAAA
1 TATT-ATAAA
2090168 TTATTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 4 0.14
22 20 0.71
23 4 0.14
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (22 bp):
TATTATAAAATAAATCAATCCA
Found at i:2090197 original size:22 final size:22
Alignment explanation
Indices: 2090171--2090271 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
2090161 TAATAAATTA
2090171 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
2090193 TTTAAAATAAATCAATTCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
2090216 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
2090240 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
2090262 TTTATAATAA
1 TTTAAAATAA
2090272 TTTATTTTAA
Statistics
Matches: 58, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
22 32 0.55
23 12 0.21
24 12 0.21
25 2 0.03
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2090245 original size:15 final size:15
Alignment explanation
Indices: 2090216--2090364 Score: 165
Period size: 15 Copynumber: 9.5 Consensus size: 15
2090206 AATTCATACT
2090216 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
2090230 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
2090245 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
2090267 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
2090282 AGTAAATTATTTTAA
1 AATAAATTATTTTAA
* *
2090297 AGTAAATTATTTTAT
1 AATAAATTATTTTAA
*
2090312 AATAAATTATTTTAT
1 AATAAATTATTTTAA
2090327 AATAAATTATTTTTAA
1 AATAAATTA-TTTTAA
2090343 AATAAATTATTTTAA
1 AATAAATTATTTTAA
2090358 AATAAAT
1 AATAAAT
2090365 AACCTTATTA
Statistics
Matches: 118, Mismatches: 8, Indels: 17
0.83 0.06 0.12
Matches are distributed among these distances:
14 9 0.08
15 78 0.66
16 14 0.12
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.08
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:2090251 original size:69 final size:67
Alignment explanation
Indices: 2090162--2090318 Score: 203
Period size: 69 Copynumber: 2.3 Consensus size: 67
2090152 AATTCATATT
2090162 AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAA-TAAATTA
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAAT-AATCAATT-ATA--AAGTAAATTA
2090225 -TTTAA
62 TTTTAA
* ** *
2090230 AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAGTAAATTATTTT
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATTATAAAGTAAATTATTTT
2090295 AA
66 AA
* *
2090297 AGTAAATTATTTTATAATAAAT
1 AATAAATTATTTTAAAATAAAT
2090319 TATTTTATAA
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
65 2 0.03
66 7 0.09
67 27 0.34
68 15 0.19
69 29 0.36
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATTATAAAGTAAATTATTTT
AA
Found at i:2090275 original size:47 final size:49
Alignment explanation
Indices: 2089794--2090349 Score: 209
Period size: 54 Copynumber: 10.8 Consensus size: 49
2089784 CATATTTTAA
* * *
2089794 AATAAATCAATCTATACAAATAAATTA-TTTAAAATAAATCAATCTATACT
1 AATAAAT-AATTTATA-AAGTAAATTATTTTAAAATAAATCAATCCATACT
* * * *
2089844 AATAAATTATTTAAAATAAA-TCAATCCATATTTTAAAATAAATCAATTCATATTTT
1 AATAAATAATTT---ATAAAGTAAAT---TATTTTAAAATAAATCAATCCATA--CT
** *
2089900 AAAATAAATCAATCCATACTAA-TAAATTA-TTTAAAATAAATCAATCCATATTTT
1 --AATAAAT-AATTTATA--AAGTAAATTATTTTAAAATAAATCAATCCATA--CT
* *
2089954 AAAATAAATCAATCTATACTAA-TAAATTA-TTTAAAATAAATCAATCCATATTTT
1 --AATAAAT-AATTTATA--AAGTAAATTATTTTAAAATAAATCAATCCATA--CT
**
2090008 AAAATAAATCAATACATACTAA-TAAATTA-TTTAAAATAAATCAATCCATAC-
1 --AATAAAT-AATTTATA--AAGTAAATTATTTTAAAATAAATCAATCCATACT
** * ** *
2090059 AACTACAATAATAAATCAA-TCCA-TATTTTAAAATAAATCAATCTATACT
1 AA-TA-AATAATTTATAAAGTAAATTATTTTAAAATAAATCAATCCATACT
* * * *
2090108 AATAAATTATTTAAAATAAA-TCAATCCATATTTTAAAATAAATCAATTCATATT
1 AATAAATAATTT---ATAAAGTAAAT---TATTTTAAAATAAATCAATCCATACT
* * *
2090162 AATAAATTATTTAAAATAAA-TCAATCCATATTTTAAAATAAATCAATTCATACT
1 AATAAATAATTT---ATAAAGTAAAT---TATTTTAAAATAAATCAATCCATACT
*
2090216 AATAAATTATTTA-AAA-TAAATTATTTTAAAATAAATCAATCCATA-T
1 AATAAATAATTTATAAAGTAAATTATTTTAAAATAAATCAATCCATACT
** * * **
2090262 TTTATAATAATTTATTTTAAAGTAAATTATTTTAAAGTAAAT-TAT-TTTA-T
1 AATA-AATAATTTA---TAAAGTAAATTATTTTAAAATAAATCAATCCATACT
*
2090312 AATAAATTATTT-TATAA-TAAATTATTTTTAAAATAAAT
1 AATAAATAATTTATA-AAGTAAATTA-TTTTAAAATAAAT
2090350 TATTTTAAAA
Statistics
Matches: 431, Mismatches: 42, Indels: 70
0.79 0.08 0.13
Matches are distributed among these distances:
45 9 0.02
46 17 0.04
47 38 0.09
48 27 0.06
49 14 0.03
50 38 0.09
51 11 0.03
52 22 0.05
53 2 0.00
54 232 0.54
55 2 0.00
56 4 0.01
58 13 0.03
59 2 0.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (49 bp):
AATAAATAATTTATAAAGTAAATTATTTTAAAATAAATCAATCCATACT
Found at i:2090310 original size:45 final size:46
Alignment explanation
Indices: 2090192--2090364 Score: 165
Period size: 45 Copynumber: 3.6 Consensus size: 46
2090182 TCAATCCATA
* * *
2090192 TTTTAAAATAAATCAATTCATACTAATAAATTA-TTTAAAATAAATTA-
1 TTTTAAAATAAAT-TATT-TTA-TAATAAATTATTTTATAATAAATTAT
*
2090239 TTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTA-AAGTAAATTA-
1 TTTTAAAAT--A--AAT---TATTTTATAATAAATTATTTTATAA-TAAATTAT
*
2090291 TTTTAAAGTAAATTATTTTATAATAAATTATTTTATAATAAATTAT
1 TTTTAAAATAAATTATTTTATAATAAATTATTTTATAATAAATTAT
*
2090337 TTTTAAAATAAATTATTTTAAAATAAAT
1 TTTTAAAATAAATTATTTTATAATAAAT
2090365 AACCTTATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
45 28 0.26
46 28 0.26
47 9 0.08
48 3 0.03
49 1 0.01
50 1 0.01
51 14 0.13
52 21 0.19
53 3 0.03
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (46 bp):
TTTTAAAATAAATTATTTTATAATAAATTATTTTATAATAAATTAT
Found at i:2092998 original size:35 final size:35
Alignment explanation
Indices: 2092959--2093062 Score: 138
Period size: 35 Copynumber: 2.9 Consensus size: 35
2092949 TGAAAATTTG
2092959 GTTTTTAAAGTTTGGTAAATGTTTTTTTGAAAATA
1 GTTTTTAAAGTTTGGTAAATGTTTTTTTGAAAATA
* * *
2092994 GTTTTCAAAGTTTGGTAAATATTTCTTTGAAAAATA
1 GTTTTTAAAGTTTGGTAAATGTTTTTTTG-AAAATA
* *
2093030 GTTTTTCAAAGTTTGGTAGATG-TTTGTTGAAAA
1 GTTTTT-AAAGTTTGGTAAATGTTTTTTTGAAAA
2093063 ATGATAATGA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
35 30 0.51
36 16 0.27
37 13 0.22
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (35 bp):
GTTTTTAAAGTTTGGTAAATGTTTTTTTGAAAATA
Found at i:2093060 original size:36 final size:36
Alignment explanation
Indices: 2092959--2093064 Score: 146
Period size: 37 Copynumber: 3.0 Consensus size: 36
2092949 TGAAAATTTG
2092959 GTTTTT-AAAGTTTGGTAAATGTTTTTTTG-AAAATA
1 GTTTTTCAAAGTTTGGTAAATG-TTTTTTGAAAAATA
*
2092994 G-TTTTCAAAGTTTGGTAAATATTTCTTTGAAAAATA
1 GTTTTTCAAAGTTTGGTAAATGTTT-TTTGAAAAATA
* *
2093030 GTTTTTCAAAGTTTGGTAGATGTTTGTTGAAAAAT
1 GTTTTTCAAAGTTTGGTAAATGTTTTTTGAAAAAT
2093065 GATAATGAGA
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
34 7 0.11
35 19 0.30
36 16 0.25
37 21 0.33
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (36 bp):
GTTTTTCAAAGTTTGGTAAATGTTTTTTGAAAAATA
Found at i:2093183 original size:37 final size:37
Alignment explanation
Indices: 2093133--2093206 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
2093123 TTAAGTTTCA
2093133 ACTATAAATACCCTAACTCATTTAGCTTCAAAACCAT
1 ACTATAAATACCCTAACTCATTTAGCTTCAAAACCAT
2093170 ACTATAAATACCCTAACTCATTTAGCTTCAAAACCAT
1 ACTATAAATACCCTAACTCATTTAGCTTCAAAACCAT
2093207 CCCAAATCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.27, G:0.03, T:0.30
Consensus pattern (37 bp):
ACTATAAATACCCTAACTCATTTAGCTTCAAAACCAT
Found at i:2096920 original size:22 final size:22
Alignment explanation
Indices: 2096888--2096938 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
2096878 AGCTGTTAGC
*
2096888 AGGTACGTGAATAATCCAGACA
1 AGGTACATGAATAATCCAGACA
*
2096910 AGGTACATGAATAATCCAGGCA
1 AGGTACATGAATAATCCAGACA
2096932 AGGTACA
1 AGGTACA
2096939 CTGGGAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (22 bp):
AGGTACATGAATAATCCAGACA
Found at i:2097649 original size:35 final size:36
Alignment explanation
Indices: 2097596--2097712 Score: 139
Period size: 35 Copynumber: 3.2 Consensus size: 36
2097586 TGGCAACCAA
* *
2097596 CTTTGAAAAATTGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAATAGATTTTCAAAGTTTGGTAAATGTTT
2097633 CTTTGAAAATA-ATTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATAGATTTTCAAAGTTTGGTAAATGTTT
* * * *
2097668 CTTTAAAAAATAGTTTTTCAAAGTTTCGTAGATGTTT
1 CTTT-GAAAATAGATTTTCAAAGTTTGGTAAATGTTT
*
2097705 -GTTGAAAA
1 CTTTGAAAA
2097713 ATGATAATGG
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
35 31 0.44
36 13 0.19
37 26 0.37
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.44
Consensus pattern (36 bp):
CTTTGAAAATAGATTTTCAAAGTTTGGTAAATGTTT
Found at i:2097703 original size:37 final size:37
Alignment explanation
Indices: 2097596--2097713 Score: 141
Period size: 37 Copynumber: 3.2 Consensus size: 37
2097586 TGGCAACCAA
* * *
2097596 CTTTGAAAAATTGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTAAAAAATAGATTTTCAAAGTTTGGTAAATGTTT
*
2097633 CTTT-GAAAATA-ATTTTCAAAGTTTGGTAAATGTTT
1 CTTTAAAAAATAGATTTTCAAAGTTTGGTAAATGTTT
* * *
2097668 CTTTAAAAAATAGTTTTTCAAAGTTTCGTAGATGTTT
1 CTTTAAAAAATAGATTTTCAAAGTTTGGTAAATGTTT
* *
2097705 GTTGAAAAA
1 CTTTAAAAA
2097714 TGATAATGGG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
35 27 0.39
36 11 0.16
37 32 0.46
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (37 bp):
CTTTAAAAAATAGATTTTCAAAGTTTGGTAAATGTTT
Found at i:2098905 original size:22 final size:23
Alignment explanation
Indices: 2098873--2098915 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
2098863 ACCGGTTAAA
**
2098873 ATTTAGACCGGTTATGTTATATT
1 ATTTAGACCGGAAATGTTATATT
2098896 ATTTA-ACCGGAAATGTTATA
1 ATTTAGACCGGAAATGTTATA
2098916 AAGTACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (23 bp):
ATTTAGACCGGAAATGTTATATT
Found at i:2098949 original size:23 final size:23
Alignment explanation
Indices: 2098923--2098970 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2098913 ATAAAGTACA
*
2098923 ATAACATACTAGGTAACGCTTAT
1 ATAACATAATAGGTAACGCTTAT
** *
2098946 ATAATGTAATAGGTATCGCTTAT
1 ATAACATAATAGGTAACGCTTAT
2098969 AT
1 AT
2098971 TGACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAACGCTTAT
Found at i:2099515 original size:23 final size:23
Alignment explanation
Indices: 2099449--2099515 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
2099439 ATAATATAAG
* *
2099449 CACTACATATTACATTATATAAA
1 CACTACCTATTACATTATATTAA
* *
2099472 CGCTACCTATTATATTATATTAA
1 CACTACCTATTACATTATATTAA
*
2099495 CACTACCTATTACATCATATT
1 CACTACCTATTACATTATATT
2099516 TTTACATATT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.39
Consensus pattern (23 bp):
CACTACCTATTACATTATATTAA
Found at i:2099967 original size:23 final size:23
Alignment explanation
Indices: 2099932--2100004 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
2099922 ATACTTTACA
*
2099932 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
2099955 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
2099978 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
2100001 ATAT
1 ATAT
2100005 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:2100030 original size:490 final size:490
Alignment explanation
Indices: 2099040--2100841 Score: 3384
Period size: 490 Copynumber: 3.7 Consensus size: 490
2099030 TACATTATAA
*
2099040 TATATTGAAAGTGTCTATACTTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTT
1 TATATTGAAAGTGTCTATAC-TTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTT
*
2099105 ATGTTTCAA--TTTTTTAATAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCAT
65 ATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAT
*
2099168 TTGCAAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAAT
130 TTGCAAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAAC
2099233 AATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAA-TT--TAATAA
195 AATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAA
2099295 TA-ATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
260 TATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
2099359 TCACTCAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAA
325 TCACTCAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAA
* * *
2099424 AAGGATAGATACTTTATAATATAAGCACTACATATTACATTATATAAACGCTACCTATTATATTA
390 AAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTA
* *
2099489 TATTAA-CACTACCTATTACATCATATTTTTACATAT
455 TA-TAAGCGCTACCTATTACATCATATTTTTACCTAT
2099525 TATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTA
1 TATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTA
*
2099590 TGTTTCAATTTTTTTTAATAGTGTTTCAAGTTTTCCACCTACAATATTAATTTAATAATTTCATT
66 TGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
*
2099655 TGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACA
131 TGCAAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACA
*
2099720 ATATTAACCAAAGATAATAATAAATTTGTAATATATATGTTTATTGTTTTTAATTTAATAATAAT
196 ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAAT
2099785 ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
261 ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
* *
2099850 CACTCAAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAATATGGACACTTTTATAAAA
326 CACTCAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
2099915 AGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTAT
391 AGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTAT
2099980 ATAAGCGCTACCTATTACATCATATTTTTACCTAT
456 ATAAGCGCTACCTATTACATCATATTTTTACCTAT
2100015 TATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTA
1 TATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTA
2100080 TGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
66 TGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
2100145 TGCAAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACA
131 TGCAAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACA
2100210 ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAAT
196 ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAAT
2100275 ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
261 ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
2100340 CACTCAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
326 CACTCAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
* * *
2100405 AAGATAGATACTTTACAATATAAGTACTACCTATTACATTATATAAACGCTGCCTATTACATTAT
391 AGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTAT
2100470 ATAAGCGCTACCTATTACATCATATTTTTACCTAT
456 ATAAGCGCTACCTATTACATCATATTTTTACCTAT
2100505 TATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTA
1 TATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTA
2100570 TGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
66 TGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
*
2100635 TGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACA
131 TGCAAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACA
2100700 ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAAT
196 ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAAT
2100765 ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
261 ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
2100830 CACTCAAAAGAT
326 CACTCAAAAGAT
2100842 GTACATACCT
Statistics
Matches: 1288, Mismatches: 22, Indels: 9
0.98 0.02 0.01
Matches are distributed among these distances:
484 52 0.04
485 20 0.02
486 168 0.13
487 2 0.00
489 11 0.01
490 1035 0.80
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (490 bp):
TATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTA
TGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
TGCAAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACA
ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAAT
ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
CACTCAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
AGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTAT
ATAAGCGCTACCTATTACATCATATTTTTACCTAT
Found at i:2100460 original size:23 final size:23
Alignment explanation
Indices: 2100431--2100494 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
2100421 AATATAAGTA
2100431 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
2100454 CTGCCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
*
2100477 CTACCTATTACATCATAT
1 CTACCTATTACATTATAT
2100495 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.36
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:2103647 original size:183 final size:183
Alignment explanation
Indices: 2103336--2104092 Score: 1324
Period size: 183 Copynumber: 4.1 Consensus size: 183
2103326 TACTTAAAAT
*
2103336 TACCGACACAATATTAAAACGTGTCGATATAGGTTGTAAGACCTATTCGCTCATAAAACCGGTAT
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGT-AGACCTATTCGCTCATAAAACCGGTAT
* * *
2103401 ATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTAGGTTCCGATTTGTAAATG
65 ATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATG
*
2103466 TCGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAG
130 TCGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
2103520 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
2103585 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
2103650 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
2103703 TTCCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
2103768 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
2103833 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
2103886 TTCCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * *
2103951 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT-CGATGTTTTTTCAA
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG---TGTAAA
*
2104015 --TCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAG
128 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
2104069 TACAGACACAATATTAAAAAGTGT
1 TACCGACACAATATTAAAAAGTGT
2104093 GAAAACTTTG
Statistics
Matches: 555, Mismatches: 14, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
182 8 0.01
183 508 0.92
184 35 0.06
185 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (183 bp):
TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
Found at i:2105303 original size:3 final size:3
Alignment explanation
Indices: 2105295--2105342 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
2105285 ACTTGTTTGG
* * * *
2105295 ATC ATC ATC ATC ATC ATC ATC ATC GTC AGC TTC ATC GTC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
2105343 GCATCTTCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.27, C:0.33, G:0.06, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:2105343 original size:12 final size:12
Alignment explanation
Indices: 2105296--2105357 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
2105286 CTTGTTTGGA
*
2105296 TCATCATCATCA
1 TCATCATCATCG
2105308 TCATCATCATCG
1 TCATCATCATCG
* *
2105320 TCAGCTTCATCG
1 TCATCATCATCG
2105332 TCATCATCATCG
1 TCATCATCATCG
*
2105344 -CATCTTCATCG
1 TCATCATCATCG
2105355 TCA
1 TCA
2105358 GCTTCATCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
11 10 0.23
12 33 0.77
ACGTcount: A:0.24, C:0.34, G:0.08, T:0.34
Consensus pattern (12 bp):
TCATCATCATCG
Found at i:2105362 original size:12 final size:12
Alignment explanation
Indices: 2105314--2105365 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
2105304 ATCATCATCA
2105314 TCATCGTCAGCT
1 TCATCGTCAGCT
* *
2105326 TCATCGTCATCA
1 TCATCGTCAGCT
*
2105338 TCATCG-CATCT
1 TCATCGTCAGCT
2105349 TCATCGTCAGCT
1 TCATCGTCAGCT
2105361 TCATC
1 TCATC
2105366 TTCATTGACC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 10 0.29
12 25 0.71
ACGTcount: A:0.19, C:0.35, G:0.12, T:0.35
Consensus pattern (12 bp):
TCATCGTCAGCT
Found at i:2107210 original size:200 final size:200
Alignment explanation
Indices: 2106961--2108993 Score: 3730
Period size: 200 Copynumber: 10.1 Consensus size: 200
2106951 GATGTTTTTG
*
2106961 GGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
2107026 TAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
2107091 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
2107156 TATAT
196 TATAT
* *
2107161 AGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
2107226 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
* * *
2107291 GATTGAAAAATTACATATTACATTGTACTTTTGGTTTTTGATGTTTTTGGGATCGACACTTTCTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
2107356 TATAT
196 TATAT
*
2107361 GGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
2107426 TAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
2107491 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
2107556 TATAT
196 TATAT
* *
2107561 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGACCAAATATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
2107626 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
*
2107691 GATTGAAAAATTACATATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCAACA
131 GATTG---AA--A-A-ATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACA
2107756 CTTTTTATATAT
189 CTTTTTATATAT
*
2107768 GTATCGACACTTTATGGTTGCA-CCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
2107832 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
2107897 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
2107962 TATAT
196 TATAT
*
2107967 AGATCGACACTTTATGGTTGCACCCTGTTTT-CATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
2108031 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
2108096 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
2108161 TATAT
196 TATAT
2108166 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
2108231 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCAGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
2108296 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
2108361 TATAT
196 TATAT
2108366 GGATCGACACTTTATGGTTGCA-CCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
2108430 TAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
2108495 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
2108560 TATAT
196 TATAT
* *
2108565 GGATTGACACTTTATGGTTGCATCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
* * *
2108630 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGATATAGTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
2108695 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
2108760 TATAT
196 TATAT
*
2108765 GGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
* * *
2108830 TCAAATAGTGTCGACACATTAGTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
* *
2108895 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGAAGTTTTTGGGATCGACATTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
2108960 TATAT
196 TATAT
*
2108965 GGTTCGACACTTTATGGTTGCACCCTGTT
1 GGATCGACACTTTATGGTTGCACCCTGTT
2108994 GGCCATATTG
Statistics
Matches: 1776, Mismatches: 47, Indels: 20
0.96 0.03 0.01
Matches are distributed among these distances:
199 474 0.27
200 1104 0.62
201 1 0.00
203 4 0.00
205 1 0.00
206 111 0.06
207 81 0.05
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (200 bp):
GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
TATAT
Found at i:2108345 original size:399 final size:400
Alignment explanation
Indices: 2106961--2108993 Score: 3730
Period size: 399 Copynumber: 5.1 Consensus size: 400
2106951 GATGTTTTTG
*
2106961 GGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
2107026 TAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
2107091 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
* *
2107156 TATATAGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGACCAAAAATATCGACA
196 TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACA
2107221 CAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
261 CAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
* *
2107286 GGTTAGATTGAAAAATTACATATTACATTGTACTTTTGGTTTTTGATGTTTTTGGGATCGACACT
326 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACT
*
2107351 TTCTATATAT
391 TTTTATATAT
*
2107361 GGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
2107426 TAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
2107491 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
* *
2107556 TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGACCAAATATATCGACA
196 TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACA
2107621 CAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
261 CAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
2107686 GGTTAGATTGAAAAATTACATATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
326 GGTTAGATTG---AA--A-A-ATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGAT
*
2107751 CAACACTTTTTATATAT
384 CGACACTTTTTATATAT
*
2107768 GTATCGACACTTTATGGTTGCA-CCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
2107832 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
2107897 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
*
2107962 TATATAGATCGACACTTTATGGTTGCACCCTGTTTT-CATTCATTCTGGACCAAAAATATCGACA
196 TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACA
2108026 CAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
261 CAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
2108091 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACT
326 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACT
2108156 TTTTATATAT
391 TTTTATATAT
2108166 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
2108231 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCAGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
2108296 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
2108361 TATATGGATCGACACTTTATGGTTGCA-CCTGTTTTCCATTCATTCTGGACCAAAAATATCGACA
196 TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACA
*
2108425 CAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
261 CAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
2108490 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACT
326 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACT
2108555 TTTTATATAT
391 TTTTATATAT
* *
2108565 GGATTGACACTTTATGGTTGCATCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
* * *
2108630 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGATATAGTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
2108695 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
*
2108760 TATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGACCAAAAATATCGACA
196 TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACA
* * *
2108825 CAAACTCAAATAGTGTCGACACATTAGTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
261 CAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
* *
2108890 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGAAGTTTTTGGGATCGACATT
326 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACT
2108955 TTTTATATAT
391 TTTTATATAT
*
2108965 GGTTCGACACTTTATGGTTGCACCCTGTT
1 GGATCGACACTTTATGGTTGCACCCTGTT
2108994 GGCCATATTG
Statistics
Matches: 1590, Mismatches: 33, Indels: 20
0.97 0.02 0.01
Matches are distributed among these distances:
398 89 0.06
399 581 0.37
400 530 0.33
402 2 0.00
403 2 0.00
405 102 0.06
406 206 0.13
407 78 0.05
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (400 bp):
GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACA
CAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACT
TTTTATATAT
Found at i:2109123 original size:18 final size:18
Alignment explanation
Indices: 2109100--2109160 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
2109090 TCTCATTCAT
*
2109100 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
2109118 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
2109137 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
2109156 AATTA
1 AATTA
2109161 ACCATACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:2109136 original size:19 final size:19
Alignment explanation
Indices: 2109112--2109160 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2109102 TTATATTCAC
2109112 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
2109131 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2109150 ATACAAAATTA
1 ATACAAAATTA
2109161 ACCATACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2110988 original size:33 final size:33
Alignment explanation
Indices: 2110951--2111016 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2110941 CATTTTAATA
*
2110951 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
2110984 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
2111017 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:2111075 original size:21 final size:21
Alignment explanation
Indices: 2111050--2111114 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
2111040 CCCCTTATGC
* *
2111050 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
2111071 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
2111092 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
2111113 CT
1 CT
2111115 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:2113168 original size:24 final size:24
Alignment explanation
Indices: 2113131--2113183 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2113121 CCGTTCTATC
2113131 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
2113155 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
2113179 TATTT
1 TATTT
2113184 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:2113378 original size:20 final size:20
Alignment explanation
Indices: 2113336--2113383 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
2113326 CATTTTACCG
*
2113336 GTTTTATCATTTTGATACCT
1 GTTTTATCATTTTGATACAT
*
2113356 GTTTTATCATATTT-TTACAT
1 GTTTTATCAT-TTTGATACAT
*
2113376 GTTATATC
1 GTTTTATC
2113384 GTTGTGGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.56
Consensus pattern (20 bp):
GTTTTATCATTTTGATACAT
Found at i:2113536 original size:20 final size:20
Alignment explanation
Indices: 2113509--2113555 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2113499 TCCGGTAACG
2113509 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
2113528 TTCTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
2113549 TTTTACC
1 TTTTACC
2113556 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.19, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:2113599 original size:181 final size:182
Alignment explanation
Indices: 2113295--2113767 Score: 700
Period size: 181 Copynumber: 2.6 Consensus size: 182
2113285 CGTACTTACG
* * * *
2113295 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCTGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTT
* * *
2113360 TATCATATTTTTACATGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
2113425 AGG-CGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAC-CTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
2113476 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTT
* *
2113541 TATCATATTTTTACCTGGTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
2113606 AGGACTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * *
2113658 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCA-TTTCAATACTGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTC-ATACCGGTT
* * * * *
2113722 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCAACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTT
2113768 AATTTGGATC
Statistics
Matches: 264, Mismatches: 25, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
181 170 0.64
182 94 0.36
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:2117029 original size:2 final size:2
Alignment explanation
Indices: 2117024--2117055 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2117014 ATCGTGTATG
2117024 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2117056 ATTTATGCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2122363 original size:20 final size:20
Alignment explanation
Indices: 2122338--2122404 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
2122328 AACCAACAAA
2122338 TTCGCAACACGATCTCTAAT
1 TTCGCAACACGATCTCTAAT
* *
2122358 TTCGCAACACAATTTCTAAAT
1 TTCGCAACACGATCTCT-AAT
* * *
2122379 TT-GCAACGCGATTCTCCAAA
1 TTCGCAACACGA-TCTCTAAT
2122399 TTCGCA
1 TTCGCA
2122405 TCGCAATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 26 0.70
21 11 0.30
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.30
Consensus pattern (20 bp):
TTCGCAACACGATCTCTAAT
Found at i:2122412 original size:41 final size:40
Alignment explanation
Indices: 2122335--2122425 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 40
2122325 AATAACCAAC
* *
2122335 AAATTCGCAACACGATCTCTAATTTCGCAACACAATTTCT
1 AAATTCGCAACACGATCTCCAAATTCGCAACACAATTTCT
* * * *
2122375 AAATTTGCAACGCGATTCTCCAAATTCGCATCGCAATTT-T
1 AAATTCGCAACACGA-TCTCCAAATTCGCAACACAATTTCT
2122415 CAAATTCGCAA
1 -AAATTCGCAA
2122426 TGCTAATTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 14 0.33
41 28 0.67
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (40 bp):
AAATTCGCAACACGATCTCCAAATTCGCAACACAATTTCT
Found at i:2122504 original size:20 final size:20
Alignment explanation
Indices: 2122456--2122504 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
2122446 AAACACAACT
2122456 ATTCACAACTCAGTTTTCAA
1 ATTCACAACTCAGTTTTCAA
*
2122476 ATTTACAACTCAGTTTTCAA
1 ATTCACAACTCAGTTTTCAA
*
2122496 ATTCCCAAC
1 ATTCACAAC
2122505 GCGAATTTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.35
Consensus pattern (20 bp):
ATTCACAACTCAGTTTTCAA
Found at i:2122610 original size:26 final size:27
Alignment explanation
Indices: 2122562--2122627 Score: 116
Period size: 26 Copynumber: 2.5 Consensus size: 27
2122552 GTGTGACTTC
2122562 CATATTGAACTAAAAAAATCTTCTAAT
1 CATATTGAACTAAAAAAATCTTCTAAT
*
2122589 CATATTTAACTAAAAAAA-CTTCTAAT
1 CATATTGAACTAAAAAAATCTTCTAAT
2122615 CATATTGAACTAA
1 CATATTGAACTAA
2122628 TTGTGATTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
26 20 0.54
27 17 0.46
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.33
Consensus pattern (27 bp):
CATATTGAACTAAAAAAATCTTCTAAT
Found at i:2122911 original size:21 final size:20
Alignment explanation
Indices: 2122869--2122943 Score: 98
Period size: 20 Copynumber: 3.7 Consensus size: 20
2122859 TCGATAATTA
*
2122869 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGGAAATC
2122889 GCGTTGCGAATTTGGAGAATC
1 GCGTTGCGAATTTGGA-AATC
*
2122910 GCGTTGTGAATTTGGAAA-C
1 GCGTTGCGAATTTGGAAATC
*
2122929 TGTGTTGCGAATTTG
1 -GCGTTGCGAATTTG
2122944 TTGGTTATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 29 0.59
21 19 0.39
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (20 bp):
GCGTTGCGAATTTGGAAATC
Found at i:2138168 original size:8 final size:9
Alignment explanation
Indices: 2138150--2138179 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
2138140 ATATATTACA
2138150 TTTTTATTT
1 TTTTTATTT
2138159 TTTTTATTT
1 TTTTTATTT
2138168 TTTTTATTT
1 TTTTTATTT
2138177 TTT
1 TTT
2138180 GTTTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTATTT
Found at i:2138188 original size:12 final size:10
Alignment explanation
Indices: 2138150--2138197 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 10
2138140 ATATATTACA
2138150 TTTTTA-TTT
1 TTTTTATTTT
2138159 TTTTTA-TTT
1 TTTTTATTTT
2138168 TTTTTATTTT
1 TTTTTATTTT
*
2138178 TTGTTTAATTT
1 TT-TTTATTTT
*
2138189 TATTTATTT
1 TTTTTATTT
2138198 CCATTATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
9 15 0.44
10 11 0.32
11 8 0.24
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:2138194 original size:21 final size:19
Alignment explanation
Indices: 2138152--2138197 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
2138142 ATATTACATT
*
2138152 TTTA-TTTTTTTTATTTTT
1 TTTATTTTTTTTTATTTTA
2138170 TTTATTTTTTGTTTAATTTTA
1 TTTATTTTTT-TTT-ATTTTA
2138191 TTTATTT
1 TTTATTT
2138198 CCATTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 5 0.21
20 3 0.12
21 12 0.50
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTATTTTTTTTTATTTTA
Found at i:2138331 original size:48 final size:48
Alignment explanation
Indices: 2138230--2138332 Score: 154
Period size: 48 Copynumber: 2.1 Consensus size: 48
2138220 ATATATATAT
* *
2138230 ATTATTTTAATAGGTAGCGGTTTGATTATTTTAATAGGTAGTGGTTTG
1 ATTATTTTAATAGGTAGCGGTTTGATTATTTTAATAAGTAGTGGGTTG
* *
2138278 ATTATTTTAATATGTAGTGGTTTGATTATTTTAATAAGTAGTGGGTT-
1 ATTATTTTAATAGGTAGCGGTTTGATTATTTTAATAAGTAGTGGGTTG
2138325 ATTTATTT
1 A-TTATTT
2138333 ATTTATTTGG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 1 0.02
48 49 0.98
ACGTcount: A:0.26, C:0.01, G:0.21, T:0.51
Consensus pattern (48 bp):
ATTATTTTAATAGGTAGCGGTTTGATTATTTTAATAAGTAGTGGGTTG
Found at i:2138332 original size:24 final size:24
Alignment explanation
Indices: 2138230--2138321 Score: 157
Period size: 24 Copynumber: 3.8 Consensus size: 24
2138220 ATATATATAT
*
2138230 ATTATTTTAATAGGTAGCGGTTTG
1 ATTATTTTAATAGGTAGTGGTTTG
2138254 ATTATTTTAATAGGTAGTGGTTTG
1 ATTATTTTAATAGGTAGTGGTTTG
*
2138278 ATTATTTTAATATGTAGTGGTTTG
1 ATTATTTTAATAGGTAGTGGTTTG
*
2138302 ATTATTTTAATAAGTAGTGG
1 ATTATTTTAATAGGTAGTGG
2138322 GTTATTTATT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.49
Consensus pattern (24 bp):
ATTATTTTAATAGGTAGTGGTTTG
Found at i:2142450 original size:24 final size:24
Alignment explanation
Indices: 2142418--2142470 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
2142408 TTAAAACACA
*
2142418 TTTTGTCTCCCTTGAGACGGTTTC
1 TTTTGTCTCCCTTGAGACAGTTTC
2142442 TTTTGTCTCCCTTGAGACAGTTTC
1 TTTTGTCTCCCTTGAGACAGTTTC
2142466 TTTTG
1 TTTTG
2142471 GAACTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.09, C:0.23, G:0.19, T:0.49
Consensus pattern (24 bp):
TTTTGTCTCCCTTGAGACAGTTTC
Found at i:2142493 original size:37 final size:38
Alignment explanation
Indices: 2142442--2142549 Score: 150
Period size: 37 Copynumber: 2.9 Consensus size: 38
2142432 AGACGGTTTC
* * *
2142442 TTTTGTCTCCCTTGAGACAGTTTCTT-TTGGAACTAAG
1 TTTTGTCTCCCTTGAGACAGTTTCTTCTTGAAACAAAA
*
2142479 TTTTGTCTCTCTTGAGACAGTTT-TTCTTGAAACAAAA
1 TTTTGTCTCCCTTGAGACAGTTTCTTCTTGAAACAAAA
*
2142516 TTTTGTCTCCCTGGAGACAGTTTC-TCTTGAAACA
1 TTTTGTCTCCCTTGAGACAGTTTCTTCTTGAAACA
2142550 TAAACATTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
36 2 0.03
37 61 0.97
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (38 bp):
TTTTGTCTCCCTTGAGACAGTTTCTTCTTGAAACAAAA
Found at i:2142622 original size:36 final size:37
Alignment explanation
Indices: 2142581--2142688 Score: 130
Period size: 36 Copynumber: 2.9 Consensus size: 37
2142571 TTAAAATGAA
* * *
2142581 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAG
1 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAAAG
* * *
2142618 -TTTGTCTCCCTTGAGACAGTTTCTTTTTG-AACTAAG
1 TTTTGTCTCACTTGAGACAGTTTC-TCTTGAAACAAAG
*
2142654 TTTTATCTCACTTGAGACAGTTTCTCTTGAAACAA
1 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAA
2142689 CACAATTTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
36 31 0.53
37 28 0.47
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (37 bp):
TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAAAG
Found at i:2143048 original size:106 final size:106
Alignment explanation
Indices: 2142925--2143788 Score: 1343
Period size: 106 Copynumber: 8.2 Consensus size: 106
2142915 ATATCGTACC
* * ** *
2142925 ACTCAAGACAACGCAAGTTCAACTTCACGGCGAAGATACCGCTGGTTGTCAATAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
2142990 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
2143031 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
* *
2143096 AATTTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
2143137 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
2143202 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
2143243 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAATAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
* *
2143308 AATTTTAGAGCCAATTTCAACTTCACAACGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
2143349 ACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAATAACCAACTTCAC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
2143414 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
2143455 ACTCCAGACAACGTAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGCCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
2143520 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
2143561 ACTCCAGACAACGTAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAACCAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
*
2143626 AATTTCAGAGCCAAGTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * * *
2143667 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAAACAATTTC-C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
** * * *
2143731 TGGTTCCAGAGCCAATTTCAACTTCACGACGAAGGATGTTGG
66 -AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
2143773 CCTCGAAACAACGCAA
1 ACTCCAGACAACGCAA
2143789 CTTACATTGG
Statistics
Matches: 703, Mismatches: 54, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
105 1 0.00
106 702 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:2145393 original size:9 final size:9
Alignment explanation
Indices: 2145381--2145409 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2145371 ATATATTACA
2145381 TTTTTA-TT
1 TTTTTATTT
2145389 TTTTTATTT
1 TTTTTATTT
2145398 TTTTTATTT
1 TTTTTATTT
2145407 TTT
1 TTT
2145410 GTTTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTATTT
Found at i:2145424 original size:21 final size:19
Alignment explanation
Indices: 2145387--2145427 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
2145377 TACATTTTTA
*
2145387 TTTTTTTATTTTTTTTATT
1 TTTTTTTATTTTATTTATT
2145406 TTTTGTTTAATTTTATTTATT
1 TTTT-TTT-ATTTTATTTATT
2145427 T
1 T
2145428 CCATTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 12 0.63
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTTTATTTTATTTATT
Found at i:2145561 original size:48 final size:48
Alignment explanation
Indices: 2145460--2145562 Score: 154
Period size: 48 Copynumber: 2.1 Consensus size: 48
2145450 ATATATATAT
* *
2145460 ATTATTTTAATAGGTAGCGGTTTGATTATTTTAATAGGTAGTGGTTTG
1 ATTATTTTAATAGGTAGCGGTTTGATTATTTTAATAAGTAGTGGGTTG
* *
2145508 ATTATTTTAATATGTAGTGGTTTGATTATTTTAATAAGTAGTGGGTT-
1 ATTATTTTAATAGGTAGCGGTTTGATTATTTTAATAAGTAGTGGGTTG
2145555 ATTTATTT
1 A-TTATTT
2145563 GGTAATTTCG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 1 0.02
48 49 0.98
ACGTcount: A:0.26, C:0.01, G:0.21, T:0.51
Consensus pattern (48 bp):
ATTATTTTAATAGGTAGCGGTTTGATTATTTTAATAAGTAGTGGGTTG
Found at i:2145562 original size:24 final size:24
Alignment explanation
Indices: 2145460--2145551 Score: 157
Period size: 24 Copynumber: 3.8 Consensus size: 24
2145450 ATATATATAT
*
2145460 ATTATTTTAATAGGTAGCGGTTTG
1 ATTATTTTAATAGGTAGTGGTTTG
2145484 ATTATTTTAATAGGTAGTGGTTTG
1 ATTATTTTAATAGGTAGTGGTTTG
*
2145508 ATTATTTTAATATGTAGTGGTTTG
1 ATTATTTTAATAGGTAGTGGTTTG
*
2145532 ATTATTTTAATAAGTAGTGG
1 ATTATTTTAATAGGTAGTGG
2145552 GTTATTTATT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.49
Consensus pattern (24 bp):
ATTATTTTAATAGGTAGTGGTTTG
Found at i:2145605 original size:27 final size:28
Alignment explanation
Indices: 2145567--2145623 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 28
2145557 TTATTTGGTA
*
2145567 ATTTCGTTTTTC-TCTTTTATT-TTTTTT
1 ATTTCATTTTTCAT-TTTTATTCTTTTTT
2145594 ATTTCATTTTTCATTTTTATTCCTTTTTT
1 ATTTCATTTTTCATTTTTATT-CTTTTTT
2145623 A
1 A
2145624 AAATTGTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 18 0.69
28 1 0.04
29 7 0.27
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (28 bp):
ATTTCATTTTTCATTTTTATTCTTTTTT
Found at i:2149720 original size:24 final size:25
Alignment explanation
Indices: 2149693--2149748 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
2149683 TGAGTGAACT
2149693 ATTTTTTACTTCAATCAAGC-TCGA
1 ATTTTTTACTTCAATCAAGCTTCGA
*** * *
2149717 ATTTTAGGCTTCAATCGAGCTTCTA
1 ATTTTTTACTTCAATCAAGCTTCGA
2149742 ATTTTTT
1 ATTTTTT
2149749 TTTGAGTTCA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.46
Consensus pattern (25 bp):
ATTTTTTACTTCAATCAAGCTTCGA
Found at i:2150803 original size:29 final size:29
Alignment explanation
Indices: 2150771--2150830 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
2150761 ATTTATATAG
*
2150771 GTAGGCGGGAG-GCGTGGAAGATTAAGGCA
1 GTAGGCGGG-GTGCGTGGAAGATCAAGGCA
*
2150800 GTAGGCGGGGTGTGTGGAAGATCAAGGCA
1 GTAGGCGGGGTGCGTGGAAGATCAAGGCA
2150829 GT
1 GT
2150831 GTGGTATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.25, C:0.10, G:0.48, T:0.17
Consensus pattern (29 bp):
GTAGGCGGGGTGCGTGGAAGATCAAGGCA
Found at i:2150955 original size:12 final size:12
Alignment explanation
Indices: 2150938--2150962 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2150928 GCGCCGTTTC
2150938 TACTTTAAGTGG
1 TACTTTAAGTGG
2150950 TACTTTAAGTGG
1 TACTTTAAGTGG
2150962 T
1 T
2150963 GTTTGTTTTT
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:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (12 bp):
TACTTTAAGTGG
Found at i:2151237 original size:30 final size:30
Alignment explanation
Indices: 2151201--2151344 Score: 119
Period size: 30 Copynumber: 4.5 Consensus size: 30
2151191 TAATAATGTT
2151201 ATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
* * *
2151231 ATTTATTATAAAATAAATTATTTTAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
* * *
2151261 AATTATTATAAAATATGGATTGATTTATTTTAAAATA
1 ATTTATT-TTAAA-AT--A---ATTTATTATAAAATA
* *
2151298 ATTTATTTT-AAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAAATAATTTATTA-TA-A-AATA
2151330 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
2151345 TGGATTGATT
Statistics
Matches: 91, Mismatches: 12, Indels: 19
0.75 0.10 0.16
Matches are distributed among these distances:
29 7 0.08
30 35 0.38
31 4 0.04
32 14 0.15
33 5 0.05
34 3 0.03
35 2 0.02
36 1 0.01
37 20 0.22
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (30 bp):
ATTTATTTTAAAATAATTTATTATAAAATA
Found at i:2151312 original size:14 final size:15
Alignment explanation
Indices: 2151201--2151318 Score: 121
Period size: 15 Copynumber: 7.5 Consensus size: 15
2151191 TAATAATGTT
2151201 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
2151216 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
2151231 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
2151246 AATTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
2151261 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
2151280 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
2151298 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
2151312 ATTTATT
1 ATTTATT
2151319 AGTATAGATT
Statistics
Matches: 90, Mismatches: 6, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
14 12 0.13
15 58 0.64
16 4 0.04
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.04
22 6 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:2151336 original size:32 final size:31
Alignment explanation
Indices: 2151298--2151395 Score: 115
Period size: 32 Copynumber: 3.4 Consensus size: 31
2151288 TTTTAAAATA
2151298 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
2151330 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
2151352 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
2151384 ATTTATTTTAAA
1 ATTTATTTTAAA
2151396 ATATGGATTG
Statistics
Matches: 56, Mismatches: 0, Indels: 20
0.74 0.00 0.26
Matches are distributed among these distances:
22 14 0.25
23 2 0.04
24 2 0.04
26 3 0.05
27 2 0.04
28 3 0.05
30 2 0.04
31 2 0.04
32 26 0.46
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (31 bp):
ATTTATTTTAAATAATTTATTAGTATGATTG
Found at i:2151337 original size:22 final size:22
Alignment explanation
Indices: 2151321--2151363 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2151311 AATTTATTAG
2151321 TATAGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAAA
*
2151343 TATGGATTGATTTATTTTAAA
1 TATAGATTGATTTATTTTAAA
2151364 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATAGATTGATTTATTTTAAAA
Found at i:2151353 original size:69 final size:67
Alignment explanation
Indices: 2151216--2151373 Score: 203
Period size: 69 Copynumber: 2.3 Consensus size: 67
2151206 TTTTAAAATA
*
2151216 ATTTATTATAAAATAATTTATTATAAAATAAATTATTTTAAAATAAATTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAAATTATTTTAAAATAAATTATTATAAAATATGGAT
2151281 TG
66 TG
* * * * * * *
2151283 ATTTATTTTAAAATAATTTATT-TTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATG
1 ATTTATTTTAAAATAATTTATTATAAAATAAATTATT--T-TAAAATAAATTATTATAAAATATG
2151347 GATTG
63 GATTG
2151352 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
2151374 GTATGGATTG
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
66 12 0.15
67 21 0.27
68 13 0.16
69 33 0.42
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (67 bp):
ATTTATTTTAAAATAATTTATTATAAAATAAATTATTTTAAAATAAATTATTATAAAATATGGAT
TG
Found at i:2151363 original size:54 final size:54
Alignment explanation
Indices: 2151298--2151970 Score: 494
Period size: 54 Copynumber: 12.4 Consensus size: 54
2151288 TTTTAAAATA
*
2151298 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
2151352 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* **
2151406 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * **
2151455 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTT-AAATAATTTATTAG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * ***
2151509 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
* *
2151566 ATTTATTTTAAATAATCTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
2151620 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * ** * * ***
2151670 ATTTGTATGGATTAATTTATTTTAAAATATGGATTGATTTATTATTTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TTTA-AAATATGGATTG
2151731 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA-ATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
2151783 ATTTATTTTAAATAATTTATTAGTATGGACTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *** *
2151833 ATTT-GTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATAGATTG
1 ATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
2151895 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
2151949 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
2151971 TTGTAGTTAT
Statistics
Matches: 502, Mismatches: 74, Indels: 86
0.76 0.11 0.13
Matches are distributed among these distances:
47 4 0.01
48 27 0.05
49 6 0.01
50 36 0.07
51 1 0.00
52 57 0.11
53 7 0.01
54 231 0.46
55 13 0.03
56 15 0.03
57 28 0.06
58 36 0.07
59 5 0.01
60 2 0.00
61 17 0.03
62 14 0.03
63 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:2151389 original size:18 final size:18
Alignment explanation
Indices: 2151366--2151413 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
2151356 ATTTTAAATA
*
2151366 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
2151384 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
2151406 ATTTATTA
1 ATTTATTA
2151414 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Done.