Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006107.1 Hibiscus syriacus cultivar Beakdansim tig00014476_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: 84586
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:3054 original size:23 final size:22
Alignment explanation
Indices: 3028--3091 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 22
3018 CCTTCGGGAC
3028 ATGTGGCACTTTGGTGCAAACCT
1 ATGTGGCACTTTGGTGCAAA-CT
*
3051 ATGTGGTC-CTTTGG-G-ACAATT
1 ATGTGG-CACTTTGGTGCA-AACT
*
3072 ATGTGGCACTTCGGTGCAAA
1 ATGTGGCACTTTGGTGCAAA
3092 TTAGAGCTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
20 1 0.03
21 13 0.38
22 6 0.18
23 13 0.38
24 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (22 bp):
ATGTGGCACTTTGGTGCAAACT
Found at i:9778 original size:21 final size:21
Alignment explanation
Indices: 9752--9874 Score: 76
Period size: 21 Copynumber: 5.8 Consensus size: 21
9742 TCGAGGGTTC
*
9752 TATGTGGTC-CTTCGGAACAAT
1 TATGTGG-CACTTCGGTACAAT
* *
9773 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTAC-AA-T
*
9796 TAT-TGGTC-CTTCGG-ATAAT
1 TATGTGG-CACTTCGGTACAAT
* *
9815 TATGTGGCACTTTGGTACAAACC
1 TATGTGGCACTTCGGTAC-AA-T
* *
9838 TATGTGGTC-CTTCGGGATAAT
1 TATGTGG-CACTTCGGTACAAT
9859 TATGTGGCACTTCGGT
1 TATGTGGCACTTCGGT
9875 GTAAATTACG
Statistics
Matches: 77, Mismatches: 14, Indels: 22
0.68 0.12 0.19
Matches are distributed among these distances:
19 4 0.05
20 12 0.16
21 28 0.36
22 15 0.19
23 17 0.22
24 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (21 bp):
TATGTGGCACTTCGGTACAAT
Found at i:9823 original size:42 final size:43
Alignment explanation
Indices: 9751--9875 Score: 198
Period size: 42 Copynumber: 2.9 Consensus size: 43
9741 GTCGAGGGTT
*
9751 CTATGTGGTCCTTCGGAACAATTATGTGGCACTTCGGTGCAAAC
1 CTATGTGGTCCTTCGG-ATAATTATGTGGCACTTCGGTGCAAAC
* *
9795 CTAT-TGGTCCTTCGGATAATTATGTGGCACTTTGGTACAAAC
1 CTATGTGGTCCTTCGGATAATTATGTGGCACTTCGGTGCAAAC
9837 CTATGTGGTCCTTCGGGATAATTATGTGGCACTTCGGTG
1 CTATGTGGTCCTTC-GGATAATTATGTGGCACTTCGGTG
9876 TAAATTACGA
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
42 28 0.38
43 20 0.27
44 26 0.35
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (43 bp):
CTATGTGGTCCTTCGGATAATTATGTGGCACTTCGGTGCAAAC
Found at i:11434 original size:2 final size:2
Alignment explanation
Indices: 11427--11471 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
11417 AGTCCTTATC
11427 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11469 TA T
1 TA T
11472 TTAGGATAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11917 original size:125 final size:132
Alignment explanation
Indices: 11788--12039 Score: 279
Period size: 135 Copynumber: 1.9 Consensus size: 132
11778 CATACTAGTC
11788 ATATAAA-TATATTTATATATTTGTTT-AAATG-A-TAATA-TTATTTA-TTTTAAATATTAAG-
1 ATATAAATTA-ATTTAT-TATTTGTTTAAAATGTATTAATATTTATTTATTTTTAAATATTAAGA
* * * *
11846 AA-GGGCAGTCTTAATATAACTATATGTCCTATTCTGGTATTT-TAAATAAATAAATATTATAAA
64 AAGGGGCAGTCTTAATACAACTAGAAGTCCTATTCTGATATTTCTAAATAAATAAATATTATAAA
11909 AATT
129 AATT
* * * *
11913 ATATATATTAATTTATTTTTTTTTTAGAAATGTTTTATTAATATTTATTTATTTTTTAATATTAA
1 ATATAAATTAATTTATTATTTGTTTA-AAATG---TATTAATATTTATTTATTTTTAAATATTAA
* * * *
11978 GAAAGGGGCTGTCTTAATGCAACTAGAAGTCCTTTTCTGATATTTCTAAGTAAATAAATATT
62 GAAAGGGGCAGTCTTAATACAACTAGAAGTCCTATTCTGATATTTCTAAATAAATAAATATT
12040 TTTTTATAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
124 7 0.07
125 12 0.12
126 7 0.07
130 1 0.01
131 5 0.05
132 7 0.07
133 13 0.13
134 2 0.02
135 33 0.32
136 15 0.15
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (132 bp):
ATATAAATTAATTTATTATTTGTTTAAAATGTATTAATATTTATTTATTTTTAAATATTAAGAAA
GGGGCAGTCTTAATACAACTAGAAGTCCTATTCTGATATTTCTAAATAAATAAATATTATAAAAA
TT
Found at i:14971 original size:13 final size:13
Alignment explanation
Indices: 14955--14998 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
14945 ACATCCACAT
14955 TTTTGCATTTGTA
1 TTTTGCATTTGTA
*
14968 TTTTTGCGTTT-TCA
1 -TTTTGCATTTGT-A
14982 TTTTGCATTTGTA
1 TTTTGCATTTGTA
14995 TTTT
1 TTTT
14999 ATATTTGTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.11, C:0.09, G:0.14, T:0.66
Consensus pattern (13 bp):
TTTTGCATTTGTA
Found at i:17197 original size:125 final size:124
Alignment explanation
Indices: 17054--17294 Score: 394
Period size: 125 Copynumber: 1.9 Consensus size: 124
17044 TTCTCCAATG
* *
17054 AAAAAAAAATCATATATTCAAAGCATGACCTTGATCG-GATATTTGGCAGTTCGGTGTTTGCTCC
1 AAAAAAAAACCATATATTCAAAGCATAACCTTGATCGAG-TATTTGGCAGTTCGGTGTTTGCTCC
*
17118 ACTATGATTGTCAAGTCAAAGACATTGTGATGAGTTGAACCCTTTAATTAGTTTAATGAA
65 ACTATGATTGTCAAATCAAAGACATTGTGATGAGTTGAACCCTTTAATTAGTTTAATGAA
*
17178 AAAAAAGAAACCATATATTCAAAGCATAACCTTGATCGAGTATTTGGTAGTTCGGTGTTTGCTCC
1 AAAAAA-AAACCATATATTCAAAGCATAACCTTGATCGAGTATTTGGCAGTTCGGTGTTTGCTCC
* * *
17243 ACTGTGATTGTTAAATCGAAGACATTGTGATGAGTTGAACCCTTTAATTAGT
65 ACTATGATTGTCAAATCAAAGACATTGTGATGAGTTGAACCCTTTAATTAGT
17295 CCGATGAAGG
Statistics
Matches: 108, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
124 6 0.06
125 101 0.94
126 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (124 bp):
AAAAAAAAACCATATATTCAAAGCATAACCTTGATCGAGTATTTGGCAGTTCGGTGTTTGCTCCA
CTATGATTGTCAAATCAAAGACATTGTGATGAGTTGAACCCTTTAATTAGTTTAATGAA
Found at i:20542 original size:22 final size:22
Alignment explanation
Indices: 20514--20598 Score: 152
Period size: 22 Copynumber: 3.9 Consensus size: 22
20504 TCTACATTTA
* *
20514 TCAAAGATAATAGATTCTCTCC
1 TCAAAGATGATAGATTCTCTCT
20536 TCAAAGATGATAGATTCTCTCT
1 TCAAAGATGATAGATTCTCTCT
20558 TCAAAGATGATAGATTCTCTCT
1 TCAAAGATGATAGATTCTCTCT
20580 TCAAAGATGATAGATTCTC
1 TCAAAGATGATAGATTCTC
20599 GTTTTAAATC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 61 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (22 bp):
TCAAAGATGATAGATTCTCTCT
Found at i:21466 original size:45 final size:45
Alignment explanation
Indices: 21397--21500 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
21387 GGGAGTTTTT
* ** **
21397 TGATGTTTTCAAAACCTTCTGGTCATCTGTAAGACCTTTAGTACA
1 TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTACA
*
21442 TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTACA
*
21487 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
21501 AGCCTTCGAG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTACA
Found at i:21518 original size:121 final size:121
Alignment explanation
Indices: 21299--21696 Score: 643
Period size: 121 Copynumber: 3.3 Consensus size: 121
21289 CTATTTCCCA
* * *
21299 CATCTGTAAGACCTTCAGTGCATGATGTTATCAAAACCTTTGGGTCATCCACAAGACCTACAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTG
* * *
21364 CAGGATGTTTTCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAAAACCTTCTGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
* * *
21420 CATCTGTAAGACCTTTAGTACATGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTG
* *
21485 CAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTAATGTTTTCAAAGCCTTCGGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
* **
21541 CATCTGTAACACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTG
*
21606 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGT
66 CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
* *
21662 CATTTGTAAGACCTACAGTGCATGATGTTTTCAAA
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAA
21697 GAGCCTTTGG
Statistics
Matches: 254, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
121 254 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (121 bp):
CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTG
CAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
Found at i:21571 original size:45 final size:45
Alignment explanation
Indices: 21520--21631 Score: 170
Period size: 45 Copynumber: 2.4 Consensus size: 45
21510 GAGCTTTTTA
* *
21520 ATGTTTTCAAAGCCTTCGGGTCATCTGTAACACCTTCAGTGCATG
1 ATGTTTTCAAAGCCTTCGGGTCATCTGTAACACCTACAGTGCAGG
* *
21565 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGG
1 ATGTTTTCAAAGCCTTCGGGTCATCTGTAACACCTACAGTGCAGG
21610 ATGTTTTCAAAAAGCCTTCGGG
1 ATGTTTTC--AAAGCCTTCGGG
21632 AGCTTTTTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 49 0.82
47 11 0.18
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (45 bp):
ATGTTTTCAAAGCCTTCGGGTCATCTGTAACACCTACAGTGCAGG
Found at i:21648 original size:76 final size:76
Alignment explanation
Indices: 21563--21773 Score: 368
Period size: 76 Copynumber: 2.8 Consensus size: 76
21553 CTTCAGTGCA
* * *
21563 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
21628 CGGGAGCTTTT
66 CGGGAGCTTTT
* *
21639 TGATATTTTCAAAGCCTTCGGGTCATTTGTAAGACCTACAGTGCATGATGTTTTCAAAGAGCCTT
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
*
21704 TGGGAGCTTTT
66 CGGGAGCTTTT
21715 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAA
1 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAA
21774 CCTTTGGGTC
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 127 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (76 bp):
TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
CGGGAGCTTTT
Found at i:21679 original size:197 final size:197
Alignment explanation
Indices: 21442--22097 Score: 841
Period size: 197 Copynumber: 3.3 Consensus size: 197
21432 CTTTAGTACA
* * ** *
21442 TGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
* *
21507 CGAGAGCTTTTTAATGTTTTCAAAGCCTTCGGGTCATCTGTAACACCTTCAGTGCATGATGTTTT
66 CGAGAGCTTTTTAATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
** *
21572 CAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTT
131 CAAAACCTTCGGGTCATCCATAAGACCTACAGTGAAGGATGTTTTCAAAAAGCCTTCGGGAGCTT
21637 TT
196 TT
* * *
21639 TGATATTTTCAAAGCCTTCGGGTCATTTGTAAGACCTACAGTGCATGATGTTTTCAAAGAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
* * * *
21704 TGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
66 CGAGAGCTTTTTAATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
* *
21769 CAAAACCTTTGGGTCATCCATAAGACCTACAGTGGAGGATGTTTTCAAAAAGCCTTCGGGAGCTT
131 CAAAACCTTCGGGTCATCCATAAGACCTACAGTGAAGGATGTTTTCAAAAAGCCTTCGGGAGCTT
21834 TT
196 TT
* * *
21836 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATAATGTTTTCTAATCCTTCA
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTC-AA-----AA
* * * * * * **
21901 GGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGTCATCTGTAAGACCTA
60 AG-CCTTC--GAGAGCT---TTTTA--ATGTTTTC--AAAGCCTTCGGGTCATCTGTAAGACCTA
*
21966 CAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGAAGGATGTGTTCAAA
115 CAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGAAGGATGTTTTCAAA
22031 CAAGCCTTCGGGAGCTTTT
180 -AAGCCTTCGGGAGCTTTT
*
22050 TGATA-TTT-AAAACC-TCTGGGTCATCTGTAAGACCTACAGTGCAAGATG
1 TGATATTTTCAAAACCTTC-GGGTCATCTGTAAGACCTACAGTGCATGATG
22098 ATAAGACCTC
Statistics
Matches: 401, Mismatches: 40, Indels: 21
0.87 0.09 0.05
Matches are distributed among these distances:
197 232 0.58
198 2 0.00
203 1 0.00
204 2 0.00
206 4 0.01
209 1 0.00
211 9 0.02
212 34 0.08
213 93 0.23
214 23 0.06
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (197 bp):
TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
CGAGAGCTTTTTAATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
CAAAACCTTCGGGTCATCCATAAGACCTACAGTGAAGGATGTTTTCAAAAAGCCTTCGGGAGCTT
TT
Found at i:21769 original size:121 final size:121
Alignment explanation
Indices: 21639--21949 Score: 496
Period size: 121 Copynumber: 2.6 Consensus size: 121
21629 GGGAGCTTTT
* * *** * *
21639 TGATATTTTCAAAGCCTTCGGGTCATTTGTAAGACCTACAGTGCATGATGTTTTCAAAGAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
*
21704 TGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
66 CGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
* *
21760 TGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTGGAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
21825 CGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
66 CGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
* * * *
21881 TAATGTTTTCTAATCCTTCAGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
21946 CGGG
66 CGGG
21950 TCATCTGTAA
Statistics
Matches: 174, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
121 174 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (121 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
CGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
Found at i:21784 original size:45 final size:45
Alignment explanation
Indices: 21715--21828 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 45
21705 GGGAGCTTTT
* * **
21715 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
* *
21760 TGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTGGA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
*
21805 GGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
21829 AGCTTTTTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
45 48 0.81
46 4 0.07
47 7 0.12
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
Found at i:21917 original size:318 final size:318
Alignment explanation
Indices: 21351--22147 Score: 1014
Period size: 318 Copynumber: 2.5 Consensus size: 318
21341 GGTCATCCAC
* *
21351 AAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAAAACCTTC
1 AAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTC
* **
21416 TGGTCATCTGTAAGACCTTTAGTACATGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTAC
66 GGGTCATCTGTAAGACCTACAGTACATGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTAC
*
21481 AGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTAATGTTTTCAAAGCCTTCGGGTCATCT
131 AGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTAATATTTTCAAAGCCTTCGGGTCATCT
* * * **
21546 GTAACACCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGA
196 GTAACACCTACAGTGCATAATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCAGGA
21611 TGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATTTGT
261 TGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATTTGT
* * * *
21669 AAGACCTACAGTGCATGATGTTTTCAAAGAGCCTTTGGGAGCTTTTTGATATTTTCAAAGCCTTC
1 AAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTC
* **
21734 GGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTAC
66 GGGTCATCTGTAAGACCTACAGTACATGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTAC
* * *
21799 AGTGGAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCT
131 AGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTAATATTTTCAAAGCCTTCGGGTCATCT
* * *
21864 GTAAGACCTACAGTGCATAATGTTTTCTAATCCTTCAGGTCATCCATAAGACCTACAGTGCAGGA
196 GTAACACCTACAGTGCATAATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCAGGA
* * *
21929 TGTTTTCAAAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGG
261 TGTTTTCAAAAAGCCTTCGGG--AGCT-T------T----T---TGATATTTTCAAAGCCTTCGG
***
21994 GTCATCCAT
310 GTCATTTGT
* *
22003 AAGACCTACAGTGAAGGATGTGTTCAAACAAGCCTTCGGGAGCTTTTTGATA-TTT-AAAACC-T
1 AAGACCTACAGTGCAGGATGTTTTCAAA-AAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTT
* * * * *
22065 CTGGGTCATCTGTAAGACCTACAGTGCAAGATG--AT-AAGACC-TCATGGCCATCCATAAGACC
65 C-GGGTCATCTGTAAGACCTACAGTACATGATGTTTTCAAAACCTTCA-GGTCATCCATAAGACC
* **
22126 TACAATGTGGGATGTTTTCAAA
128 TACAGTGCAGGATGTTTTCAAA
22148 TGAGATTTTA
Statistics
Matches: 415, Mismatches: 45, Indels: 26
0.85 0.09 0.05
Matches are distributed among these distances:
318 257 0.62
320 3 0.01
321 1 0.00
327 1 0.00
329 1 0.00
330 39 0.09
331 2 0.00
332 2 0.00
333 35 0.08
334 53 0.13
335 21 0.05
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (318 bp):
AAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTC
GGGTCATCTGTAAGACCTACAGTACATGATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTAC
AGTGCAGGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTAATATTTTCAAAGCCTTCGGGTCATCT
GTAACACCTACAGTGCATAATGTTTTCAAAACCTTCAGGTCATCCATAAGACCTACAGTGCAGGA
TGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATTTGT
Found at i:21959 original size:92 final size:92
Alignment explanation
Indices: 21846--22042 Score: 331
Period size: 92 Copynumber: 2.1 Consensus size: 92
21836 TGATATTTTC
* *
21846 AAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATAATGTTTTCTAATCCTTCAGGTCATCCAT
1 AAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATAATGTTTTCAAAACCTTCAGGTCATCCAT
* *
21911 AAGACCTACAGTGCAGGATGTTTTCAA
66 AAGACCTACAGTGAAGGATGTGTTCAA
* *
21938 AAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCAT
1 AAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATAATGTTTTCAAAACCTTCAGGTCATCCAT
22003 AAGACCTACAGTGAAGGATGTGTTCAA
66 AAGACCTACAGTGAAGGATGTGTTCAA
22030 ACAAGCCTTCGGG
1 A-AAGCCTTCGGG
22043 AGCTTTTTGA
Statistics
Matches: 98, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 87 0.89
93 11 0.11
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (92 bp):
AAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATAATGTTTTCAAAACCTTCAGGTCATCCAT
AAGACCTACAGTGAAGGATGTGTTCAA
Found at i:21964 original size:47 final size:46
Alignment explanation
Indices: 21841--22042 Score: 248
Period size: 45 Copynumber: 4.4 Consensus size: 46
21831 CTTTTTGATA
** **
21841 TTTTC-AAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATAATG
1 TTTTCAAAAGCCTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
* * *
21886 TTTTC-TAATCCTTCAGGTCATCCATAAGACCTACAGTGCAGGATG
1 TTTTCAAAAGCCTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
** *
21931 TTTTCAAAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATG
1 TTTTC-AAAAGCCTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
*
21978 TTTTCAAAA-CCTTCGGGTCATCCATAAGACCTACAGTGAAGGATG
1 TTTTCAAAAGCCTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
*
22023 TGTTCAAACAAGCCTTCGGG
1 TTTTC-AA-AAGCCTTCGGG
22043 AGCTTTTTGA
Statistics
Matches: 134, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
45 79 0.59
46 6 0.04
47 41 0.31
48 8 0.06
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (46 bp):
TTTTCAAAAGCCTTCGGGTCATCCATAAGACCTACAGTGCAGGATG
Found at i:22412 original size:12 final size:12
Alignment explanation
Indices: 22397--22435 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
22387 ATTTTTCATT
22397 TTACTTTTATTA
1 TTACTTTTATTA
*
22409 TTACTTTTTTTA
1 TTACTTTTATTA
22421 TTA-TTATTATTA
1 TTACTT-TTATTA
22433 TTA
1 TTA
22436 ATATATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 2 0.08
12 22 0.92
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (12 bp):
TTACTTTTATTA
Found at i:22462 original size:16 final size:15
Alignment explanation
Indices: 22443--22472 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22433 TTAATATATA
22443 TAAATATATATATTAT
1 TAAATATAT-TATTAT
22459 TAAATATATTATTA
1 TAAATATATTATTA
22473 CAGGCCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATATATTATTAT
Found at i:22465 original size:12 final size:12
Alignment explanation
Indices: 22428--22472 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
22418 TTATTATTAT
22428 TATTATTAATATA
1 TATTATTAA-ATA
* * *
22441 TATAAATATATA
1 TATTATTAAATA
22453 TATTATTAAATA
1 TATTATTAAATA
22465 TATTATTA
1 TATTATTA
22473 CAGGCCATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATTATTAAATA
Found at i:23551 original size:2 final size:2
Alignment explanation
Indices: 23544--23590 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
23534 AGTCATTATC
23544 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23586 TA TA T
1 TA TA T
23591 TAGATAGTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24179 original size:2 final size:2
Alignment explanation
Indices: 24172--24232 Score: 83
Period size: 2 Copynumber: 32.0 Consensus size: 2
24162 TAAAAACTTA
*
24172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
24213 AT GT AT AT AT AT -T A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
24233 TTTCTTAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
1 3 0.06
2 49 0.94
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29607 original size:4 final size:4
Alignment explanation
Indices: 29600--30170 Score: 1100
Period size: 4 Copynumber: 144.2 Consensus size: 4
29590 ACACTTTGTT
29600 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
29648 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
29696 TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
29742 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
29790 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
29838 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
29886 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
29934 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
29982 TGTA TGTA TG-- TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
30028 TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
30074 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
30122 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
30170 T
1 T
30171 AAAATTTTAG
Statistics
Matches: 561, Mismatches: 0, Indels: 12
0.98 0.00 0.02
Matches are distributed among these distances:
2 6 0.01
4 555 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:30243 original size:22 final size:21
Alignment explanation
Indices: 30198--30374 Score: 155
Period size: 22 Copynumber: 8.2 Consensus size: 21
30188 TTTATATACA
*
30198 TATATAATAATATAAAATATAAG
1 TATATAAT-ATATAATATA-AAG
*
30221 TATATTATATATATATATAAAG
1 TATATAATATATA-ATATAAAG
* * *
30243 TATA-ATTATAAAAAATAAAG
1 TATATAATATATAATATAAAG
*
30263 TCTAT-ATGCATATAATATAAAG
1 TATATAAT--ATATAATATAAAG
* *
30285 TATATAATATATAAAATAAAA
1 TATATAATATATAATATAAAG
30306 TATATAAGTAT-TAAATATAAAG
1 TATATAA-TATAT-AATATAAAG
* *
30328 TATATAATATATAACATAAAA
1 TATATAATATATAATATAAAG
30349 TATATAAGTAT-TAAATATAAAG
1 TATATAA-TATAT-AATATAAAG
30371 TATA
1 TATA
30375 GTTATAAAGA
Statistics
Matches: 125, Mismatches: 19, Indels: 21
0.76 0.12 0.13
Matches are distributed among these distances:
20 11 0.09
21 42 0.34
22 59 0.47
23 13 0.10
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
TATATAATATATAATATAAAG
Found at i:30276 original size:43 final size:43
Alignment explanation
Indices: 30198--30401 Score: 202
Period size: 43 Copynumber: 4.7 Consensus size: 43
30188 TTTATATACA
* * * *
30198 TATATAATAATATAAAATATAAGTATATTA-TATATATATATAAAG
1 TATATAAT-ATAAAAAATA-AAATATATAAGTAT-TAAATATAAAG
* * * * *
30243 TATA-ATTATAAAAAATAAAGTCTATATGCA-TATAATATAAAG
1 TATATAATATAAAAAATAAAATATATAAGTATTA-AATATAAAG
*
30285 TATATAATATATAAAATAAAATATATAAGTATTAAATATAAAG
1 TATATAATATAAAAAATAAAATATATAAGTATTAAATATAAAG
* *
30328 TATATAATATATAACATAAAATATATAAGTATTAAATATAAAG
1 TATATAATATAAAAAATAAAATATATAAGTATTAAATATAAAG
* *
30371 TATAGT--TATAAAGACTAAAATATATAAGTAT
1 TATA-TAATATAAAAAATAAAATATATAAGTAT
30402 GTATTAAAGT
Statistics
Matches: 136, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.01
42 40 0.29
43 85 0.62
44 5 0.04
45 4 0.03
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (43 bp):
TATATAATATAAAAAATAAAATATATAAGTATTAAATATAAAG
Found at i:30291 original size:14 final size:15
Alignment explanation
Indices: 30272--30431 Score: 105
Period size: 14 Copynumber: 11.2 Consensus size: 15
30262 GTCTATATGC
30272 ATATAATATA-AAGT
1 ATATAATATATAAGT
*
30286 ATATAATATATAA-A
1 ATATAATATATAAGT
*
30300 ATAAAATATATAAGT
1 ATATAATATATAAGT
30315 AT-TAA-ATATAAAGT
1 ATATAATATAT-AAGT
*
30329 ATATAATATATAA-C
1 ATATAATATATAAGT
*
30343 ATAAAATATATAAGT
1 ATATAATATATAAGT
30358 AT-TAA-ATATAAAGT
1 ATATAATATAT-AAGT
30372 ATAGT--TATA-AAG-
1 ATA-TAATATATAAGT
*
30384 ACTAAAATATATAAGT
1 A-TATAATATATAAGT
*
30400 ATGT-AT-TA-AAGT
1 ATATAATATATAAGT
*
30412 ATTTAAGTATATAAAGT
1 ATATAA-TATAT-AAGT
30429 ATA
1 ATA
30432 AGTATGTATA
Statistics
Matches: 113, Mismatches: 13, Indels: 37
0.69 0.08 0.23
Matches are distributed among these distances:
12 8 0.07
13 16 0.14
14 57 0.50
15 20 0.18
16 6 0.05
17 6 0.05
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.36
Consensus pattern (15 bp):
ATATAATATATAAGT
Found at i:30295 original size:7 final size:7
Alignment explanation
Indices: 30190--30368 Score: 97
Period size: 7 Copynumber: 25.0 Consensus size: 7
30180 GTATAAAGTT
30190 TATATACA
1 TATATA-A
30198 TATATAA
1 TATATAA
30205 TAATATAA
1 T-ATATAA
*
30213 AATATAA
1 TATATAA
*
30220 GTATATTA
1 -TATATAA
30228 TATAT-A
1 TATATAA
30234 TATATAA
1 TATATAA
30241 -AGTATAA
1 TA-TATAA
30248 T-TATAA
1 TATATAA
* *
30254 AAAATAA
1 TATATAA
*
30261 -AGTCTATA
1 TA-TATA-A
30269 TGCATATAA
1 T--ATATAA
30278 TATA-AA
1 TATATAA
30284 GTATATAA
1 -TATATAA
30292 TATATAA
1 TATATAA
* *
30299 AATAAAA
1 TATATAA
30306 TATATAA
1 TATATAA
30313 GTAT-TAA
1 -TATATAA
30320 -ATATAAA
1 TATAT-AA
30327 GTATATAA
1 -TATATAA
30335 TATATAA
1 TATATAA
* *
30342 CATAAAA
1 TATATAA
30349 TATATAA
1 TATATAA
30356 GTAT-TAA
1 -TATATAA
30363 -ATATAA
1 TATATAA
30369 AGTATAGTTA
Statistics
Matches: 135, Mismatches: 16, Indels: 42
0.70 0.08 0.22
Matches are distributed among these distances:
5 4 0.03
6 19 0.14
7 74 0.55
8 28 0.21
9 6 0.04
10 3 0.02
11 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (7 bp):
TATATAA
Found at i:30441 original size:17 final size:17
Alignment explanation
Indices: 30393--30441 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
30383 GACTAAAATA
30393 TATAAGTATGTATTAAAG
1 TATAAGTATGTA-TAAAG
30411 TATTTAAGTA--TATAAAG
1 TA--TAAGTATGTATAAAG
30428 TATAAGTATGTATA
1 TATAAGTATGTATA
30442 TGTATGTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
15 6 0.22
17 11 0.41
18 4 0.15
20 6 0.22
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (17 bp):
TATAAGTATGTATAAAG
Found at i:30490 original size:30 final size:30
Alignment explanation
Indices: 30456--30512 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
30446 TGTGTGTATA
30456 TATATATATATGTA-CATAAACTATATAGTT
1 TATATATATAT-TATCATAAACTATATAGTT
* *
30486 TATATTTATATTATTATAAACTATATA
1 TATATATATATTATCATAAACTATATA
30513 TAAACTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (30 bp):
TATATATATATTATCATAAACTATATAGTT
Found at i:30513 original size:32 final size:33
Alignment explanation
Indices: 30452--30547 Score: 101
Period size: 33 Copynumber: 2.9 Consensus size: 33
30442 TGTATGTGTG
*
30452 TATATATATATATATGTACATAAACTATATAGT---T
1 TATATATATAT-TATGT--ATAAACTATATA-TAAAC
*
30486 TATATTTATATTAT-TATAAACTATATATAAAC
1 TATATATATATTATGTATAAACTATATATAAAC
*
30518 TATATATATATTATGTATAAACTACATATA
1 TATATATATATTATGTATAAACTATATATA
30548 CCATGTATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
29 1 0.02
30 12 0.22
32 14 0.26
33 17 0.31
34 10 0.19
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (33 bp):
TATATATATATTATGTATAAACTATATATAAAC
Found at i:30514 original size:11 final size:11
Alignment explanation
Indices: 30500--30547 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
30490 TTTATATTAT
30500 TATAAACTATA
1 TATAAACTATA
30511 TATAAACTATA
1 TATAAACTATA
* * *
30522 TATATATTATG
1 TATAAACTATA
*
30533 TATAAACTACA
1 TATAAACTATA
30544 TATA
1 TATA
30548 CCATGTATAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (11 bp):
TATAAACTATA
Found at i:30526 original size:30 final size:30
Alignment explanation
Indices: 30457--30547 Score: 78
Period size: 30 Copynumber: 2.9 Consensus size: 30
30447 GTGTGTATAT
* **
30457 ATATATATATGTA-CATAAACTATATAGT-TT
1 ATATATATAT-TATTATAAACTATATA-TAAA
*
30487 ATATTTATATTATTATAAACTATATATAAA
1 ATATATATATTATTATAAACTATATATAAA
*
30517 CTATATATATATTATGTATAAACTACATATA
1 --ATATATATATTAT-TATAAACTATATATA
30548 CCATGTATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 3 0.06
30 21 0.42
32 12 0.24
33 14 0.28
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (30 bp):
ATATATATATTATTATAAACTATATATAAA
Found at i:30618 original size:22 final size:22
Alignment explanation
Indices: 30591--30632 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
30581 ATTGAACTAT
30591 ATATAAACTATATAGTTTATTA
1 ATATAAACTATATAGTTTATTA
*
30613 ATATAAATTATATAGTTTAT
1 ATATAAACTATATAGTTTAT
30633 ATGTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (22 bp):
ATATAAACTATATAGTTTATTA
Found at i:30687 original size:17 final size:17
Alignment explanation
Indices: 30667--30720 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
30657 AATATACAAC
* *
30667 TTATATTTATATATTAT
1 TTATAATTATAAATTAT
30684 TTATAATTATAAATTAT
1 TTATAATTATAAATTAT
*
30701 ATATACTATGTATAAATTAT
1 TTATA--AT-TATAAATTAT
30721 ATAGTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 19 0.61
19 2 0.06
20 10 0.32
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TTATAATTATAAATTAT
Found at i:30808 original size:22 final size:20
Alignment explanation
Indices: 30755--31091 Score: 114
Period size: 22 Copynumber: 16.4 Consensus size: 20
30745 TGTATATAAG
*
30755 TATATATATACACTTTATATT
1 TATAT-TATATACTTTATATT
30776 TAATACTTATATACTTTATATT
1 T-ATA-TTATATACTTTATATT
* *
30798 ATATATGTATATA-TATATATA
1 -TATAT-TATATACTTTATATT
* * ** * *
30819 CACACACACACACTTTATAGTT
1 TATA-TTATATACTTTATA-TT
30841 TATA-TATATACTTATATACTT
1 TATATTATATACTT-TATA-TT
* *
30862 TATATT-TCATGCTTATATACT
1 TATATTAT-ATACTT-TATATT
*
30883 TATATT-TAATGCTTATATAATT
1 TATATTAT-ATACTT-TAT-ATT
*
30905 TATATTATATACTTATACACTT
1 TATATTATATACTT-TATA-TT
30927 TATATT-TATTACTTATATACTT
1 TATATTATA-TACTT-TATA-TT
* *
30949 TATATTAT-TA-TATACCTATA
1 TATATTATATACTTTA--TATT
* * *
30969 TACACTT-TATAC-TAAAACTT
1 TATA-TTATATACTTTATA-TT
30989 TATA-TATATACTTTATA--
1 TATATTATATACTTTATATT
*
31006 TGTA-TATATACTTTATATT
1 TATATTATATACTTTATATT
*
31025 ATATATTATATACTTTAGTTTT
1 -TATATTATATACTTTA-TATT
* *
31047 TATAAT-TATACTTTATATA
1 TATATTATATACTTTATATT
*
31066 TATA-TA-ATA-TTTATACTA
1 TATATTATATACTTTATA-TT
31084 TATATTAT
1 TATATTAT
31092 TATATATGTA
Statistics
Matches: 244, Mismatches: 40, Indels: 65
0.70 0.11 0.19
Matches are distributed among these distances:
17 22 0.09
18 11 0.05
19 16 0.07
20 36 0.15
21 70 0.29
22 85 0.35
23 4 0.02
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (20 bp):
TATATTATATACTTTATATT
Found at i:30881 original size:30 final size:28
Alignment explanation
Indices: 30830--30961 Score: 97
Period size: 30 Copynumber: 4.3 Consensus size: 28
30820 ACACACACAC
*
30830 ACTTTATAGTTTAT-ATATATACTTATAT
1 ACTTTATA-TTTATCTTATATACTTATAT
30858 ACTTTATATTTCATGCTTATATACTTATATTT
1 ACTTTATATTT-AT-CTTATATACTTATA--T
* *
30890 AATGCTTATATAATTTATATTATATACTTATAC
1 -A--CTT-TAT-ATTTATCTTATATACTTATAT
30923 ACTTTATATTTATTACTTATATACTT-TAT
1 ACTTTATATTTA-T-CTTATATACTTATAT
*
30952 ATTATTATAT
1 ACT-TTATAT
30962 ACCTATATAC
Statistics
Matches: 85, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
27 3 0.04
28 15 0.18
29 8 0.09
30 31 0.36
32 2 0.02
33 1 0.01
35 16 0.19
36 5 0.06
37 4 0.05
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (28 bp):
ACTTTATATTTATCTTATATACTTATAT
Found at i:30900 original size:43 final size:44
Alignment explanation
Indices: 30839--31091 Score: 154
Period size: 43 Copynumber: 5.7 Consensus size: 44
30829 CACTTTATAG
* * *
30839 TTTATATAT-ATACTTATATACTTTATATT-TCATGCTTATATAC
1 TTTATATTTAATACTTATATACTTTATATTAT-ATACTTATACAC
* *
30882 -TTATATTTAATGCTTATATAATTTATATTATATACTTATACAC
1 TTTATATTTAATACTTATATACTTTATATTATATACTTATACAC
*
30925 TTTATATTTATTACTTATATACTTTATATTATTATATACCTATATACAC
1 TTTATATTTAATACTTATATAC-TT-TA-TATTATATA-CT-TATACAC
* * * * *
30974 TTTATA-CTAAAACTT-TATA-TATATACTT-TATATGTATATATAC
1 TTTATATTTAATACTTATATACTTTATA-TTATATA-CT-TATACAC
* * *
31017 TTTATA-TTATATA-TTATATACTTTAGT-TTTTATAATTATAC-T
1 TTTATATTTA-ATACTTATATACTTTA-TATTATATACTTATACAC
*
31059 TTATATATATATAATA-TT-TATACTATATATTAT
1 TT-TATAT-T-TAATACTTATATACTTTATATTAT
31092 TATATATGTA
Statistics
Matches: 168, Mismatches: 23, Indels: 37
0.74 0.10 0.16
Matches are distributed among these distances:
42 9 0.05
43 61 0.36
44 43 0.26
45 16 0.10
46 5 0.03
47 13 0.08
48 8 0.05
49 13 0.08
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (44 bp):
TTTATATTTAATACTTATATACTTTATATTATATACTTATACAC
Found at i:30970 original size:18 final size:18
Alignment explanation
Indices: 30933--30982 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
30923 ACTTTATATT
*
30933 TATTACTTATATACTTTA
1 TATTACTTATATACTATA
30951 TATTA-TTATATACCTATA
1 TATTACTTATATA-CTATA
*
30969 TA-CACTT-TATACTA
1 TATTACTTATATACTA
30983 AAACTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 3 0.11
17 12 0.43
18 13 0.46
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTACTTATATACTATA
Found at i:30980 original size:17 final size:15
Alignment explanation
Indices: 30912--31029 Score: 61
Period size: 17 Copynumber: 7.7 Consensus size: 15
30902 ATTTATATTA
30912 TATACT-TATACACTT
1 TATACTATATA-ACTT
* *
30927 TATA-TTTATTACTT
1 TATACTATATAACTT
*
30941 ATATACTTTATATTA-TT
1 -TATAC--TATATAACTT
30958 ATATACCTATATACACTT
1 -TATA-CTATATA-ACTT
30976 TATACTA-A-AACTT
1 TATACTATATAACTT
30989 TATA-TATAT-ACTT
1 TATACTATATAACTT
*
31002 TATATGTATATATACTT
1 TATA-CTATATA-ACTT
*
31019 TATATTATATA
1 TATACTATATA
31030 TTATATACTT
Statistics
Matches: 85, Mismatches: 4, Indels: 27
0.73 0.03 0.23
Matches are distributed among these distances:
12 2 0.02
13 17 0.20
14 6 0.07
15 17 0.20
16 14 0.16
17 20 0.24
18 9 0.11
ACGTcount: A:0.37, C:0.11, G:0.01, T:0.51
Consensus pattern (15 bp):
TATACTATATAACTT
Found at i:30996 original size:2 final size:2
Alignment explanation
Indices: 30989--31164 Score: 86
Period size: 2 Copynumber: 89.0 Consensus size: 2
30979 ACTAAAACTT
* * *
30989 TA TA TA TA TA CTT TA TA TG TA TA TA TA CTT TA TA T- TA TA TA T-
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
31031 TA TA TA CTT TA GTT TT TA TA -A T- TA TA CTT TA TA TA TA TA TA
1 TA TA TA -TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
31072 -A TA TT TA TA CTA TA TA T- TA T- TA TA TA TG TA TA TA TA T- TT
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
31111 TA TA CTA -A AA CTT TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31153 GTA TA TA -A TA TA
1 -TA TA TA TA TA TA
31165 AAGTATATGA
Statistics
Matches: 134, Mismatches: 20, Indels: 40
0.69 0.10 0.21
Matches are distributed among these distances:
1 11 0.08
2 113 0.84
3 10 0.07
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31011 original size:13 final size:13
Alignment explanation
Indices: 30965--31145 Score: 81
Period size: 13 Copynumber: 13.6 Consensus size: 13
30955 ATTATATACC
*
30965 TATATACACTTTA
1 TATATATACTTTA
*
30978 TACTA-AAACTTTA
1 TA-TATATACTTTA
30991 TATATATACTTTATA
1 TATATATAC-TT-TA
31006 TGTATATATACTTTA
1 --TATATATACTTTA
31021 TAT-TATA-TATTA
1 TATATATACT-TTA
* * *
31033 TATACTTTAGTTTT
1 TATA-TATACTTTA
31047 TATAATTATACTTTA
1 TAT-A-TATACTTTA
*
31062 TATATATA--TAA
1 TATATATACTTTA
* *
31073 TATTTATACTATA
1 TATATATACTTTA
* *
31086 TATTATTATA-TATG
1 TA-TA-TATACTTTA
*
31100 TATATATATTTTA
1 TATATATACTTTA
*
31113 TACTA-AAACTTTA
1 TA-TATATACTTTA
*
31126 TATATATA-TATA
1 TATATATACTTTA
31138 TATATATA
1 TATATATA
31146 TATATAAGTA
Statistics
Matches: 130, Mismatches: 20, Indels: 37
0.70 0.11 0.20
Matches are distributed among these distances:
11 10 0.08
12 29 0.22
13 40 0.31
14 21 0.16
15 19 0.15
16 2 0.02
17 9 0.07
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (13 bp):
TATATATACTTTA
Found at i:31014 original size:135 final size:134
Alignment explanation
Indices: 30895--31149 Score: 336
Period size: 135 Copynumber: 1.9 Consensus size: 134
30885 TATTTAATGC
* * * *
30895 TTATATAATTTA-TATTATATACTTATACACTTTATATTTAT-TACT-TATATACTTTATATTAT
1 TTATATAATTTAGT-TTATATAATTAT--ACTTTATATATATATAATATATATACTATATATTAT
* *
30957 TATATACCTATATACACTTTATACTAAAACTTTATATATATACTTTATATGTATATATACTTTAT
63 TATATACCTATATACACTTTATACTAAAACTTTATATATATA-TATATATATATATATACTTTAT
31022 ATTATATA
127 ATTATATA
* * *
31030 TTATATACTTTAGTTTTTATAATTATACTTTATATATATATAATATTTATACTATATATTATTAT
1 TTATATAATTTAGTTTATATAATTATACTTTATATATATATAATATATATACTATATATTATTAT
** * *
31095 ATATGTATATATATTTTATACTAAAACTTTATATATATATATATATATATATATA
66 ATACCTATATACACTTTATACTAAAACTTTATATATATATATATATATATATATA
31150 TAAGTATATA
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
133 12 0.12
134 17 0.16
135 74 0.71
136 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (134 bp):
TTATATAATTTAGTTTATATAATTATACTTTATATATATATAATATATATACTATATATTATTAT
ATACCTATATACACTTTATACTAAAACTTTATATATATATATATATATATATATACTTTATATTA
TATA
Found at i:31113 original size:34 final size:32
Alignment explanation
Indices: 30896--31140 Score: 130
Period size: 32 Copynumber: 7.5 Consensus size: 32
30886 ATTTAATGCT
* *
30896 TATATA-ATTTATATTATATACTTATACACTTTA
1 TATATATATATATATTTTATACTTAT--ACTTTA
* * *
30929 TAT-T-TAT-TA-CTTATATACTTTATATTATTA
1 TATATATATATATATTTTATAC-TTATACT-TTA
** * * * *
30959 TATACCTATATACACTTTATACTAAAACTTTA
1 TATATATATATATATTTTATACTTATACTTTA
*
30991 TATATATACTTTATATGTATATATACTT-TA-TATTA
1 TATATATA-TATATAT-T-T-TATACTTATACT-TTA
* *
31026 TATATTATATACTTTAGTTTTTATAATTATACTTTA
1 TATA-TATATA-TATA--TTTTATACTTATACTTTA
*
31062 TATATATATA-ATA-TTTATACTATATATTATTA
1 TATATATATATATATTTTATACT-TATACT-TTA
* * *
31094 TATATGTATATATATTTTATACTAAAACTTTA
1 TATATATATATATATTTTATACTTATACTTTA
31126 TATATATATATATAT
1 TATATATATATATAT
31141 ATATATATAT
Statistics
Matches: 163, Mismatches: 27, Indels: 45
0.69 0.11 0.19
Matches are distributed among these distances:
29 2 0.01
30 21 0.13
31 11 0.07
32 44 0.27
33 21 0.13
34 16 0.10
35 22 0.13
36 23 0.14
37 2 0.01
38 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (32 bp):
TATATATATATATATTTTATACTTATACTTTA
Found at i:31114 original size:58 final size:58
Alignment explanation
Indices: 30995--31116 Score: 142
Period size: 58 Copynumber: 2.1 Consensus size: 58
30985 ACTTTATATA
* * * * *
30995 TATACTTTATATGTATATATACTTTATATTATATATTATATACTTTAGTTTTTATAAT
1 TATACTTTATATATATATATACTTTATACTATATATTATATACTATAGTATATATAAT
*
31053 TATACTTTATATATATATAATA-TTTATACTATATATTAT-TA-TATATGTATATATATTT
1 TATACTTTATATATATAT-ATACTTTATACTATATATTATATACTATA-GTATATATA-AT
31111 TATACT
1 TATACT
31117 AAAACTTTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
56 3 0.05
57 9 0.16
58 40 0.73
59 3 0.05
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (58 bp):
TATACTTTATATATATATATACTTTATACTATATATTATATACTATAGTATATATAAT
Found at i:31168 original size:14 final size:15
Alignment explanation
Indices: 31124--31208 Score: 79
Period size: 14 Copynumber: 5.7 Consensus size: 15
31114 ACTAAAACTT
*
31124 TATATATATATATA-
1 TATATATATATAAAG
31138 TATATATATATATAAG
1 TATATATATATA-AAG
31154 TATATA-ATATAAAG
1 TATATATATATAAAG
31168 TATATGATTTATATAAAG
1 TATAT-A--TATATAAAG
* *
31186 T-TGT-TGTATAAAG
1 TATATATATATAAAG
31199 TATATATATA
1 TATATATATA
31209 CTTTATAGTT
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
13 9 0.16
14 22 0.38
15 10 0.17
16 6 0.10
17 2 0.03
18 9 0.16
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (15 bp):
TATATATATATAAAG
Found at i:31215 original size:20 final size:19
Alignment explanation
Indices: 31192--31235 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
31182 AAAGTTGTTG
31192 TATAAAGTATATATATACT
1 TATAAAGTATATATATACT
*
31211 T-TATAGTTTATATATATACT
1 TATAAAG--TATATATATACT
31231 TATAA
1 TATAA
31236 TATACTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
18 4 0.20
19 1 0.05
20 13 0.65
21 2 0.10
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (19 bp):
TATAAAGTATATATATACT
Found at i:31338 original size:31 final size:31
Alignment explanation
Indices: 31300--31369 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
31290 CCTTATAGTT
31300 TATATATATATTCTTTATAGTTTACACTTCA
1 TATATATATATTCTTTATAGTTTACACTTCA
31331 TATATATATATTCTTTATAGTTTACACTTCA
1 TATATATATATTCTTTATAGTTTACACTTCA
*
31362 TATGTATA
1 TATATATA
31370 CTTATACTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.51
Consensus pattern (31 bp):
TATATATATATTCTTTATAGTTTACACTTCA
Found at i:31433 original size:14 final size:14
Alignment explanation
Indices: 31410--31546 Score: 67
Period size: 14 Copynumber: 9.9 Consensus size: 14
31400 TAAGTGTATA
*
31410 TATATTTATATACT
1 TATATATATATACT
*
31424 TATATGTATATACT
1 TATATATATATACT
31438 TATATATATATA--
1 TATATATATATACT
31450 TATACT-TATA-A-T
1 TATA-TATATATACT
* * *
31462 GTAT-TAATCTATGCA
1 -TATAT-ATATATACT
*
31477 TA-AGTATAATGTACAT
1 TATA-TAT-ATATAC-T
* *
31493 TATATATACATACA
1 TATATATATATACT
31507 TATATATATATA-T
1 TATATATATATACT
31520 ATATATATATATA-T
1 -TATATATATATACT
31534 ATATATATATATA
1 -TATATATATATA
31547 TTTGAATTTA
Statistics
Matches: 96, Mismatches: 14, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.02
12 8 0.08
13 7 0.07
14 65 0.68
15 8 0.08
16 5 0.05
17 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.47
Consensus pattern (14 bp):
TATATATATATACT
Found at i:31447 original size:4 final size:4
Alignment explanation
Indices: 31406--31547 Score: 95
Period size: 4 Copynumber: 36.8 Consensus size: 4
31396 TGAATAAGTG
* *
31406 TATA TATA TTTA TATA CT-TA TATG TATA TACT- TATA TATA TATA TATA
1 TATA TATA TATA TATA -TATA TATA TATA TA-TA TATA TATA TATA TATA
* * * * * *
31454 CT-TA TA-A TGTA T-TA -ATC TATG CATA -AGTA TA-A TGTA CAT- TATA
1 -TATA TATA TATA TATA TATA TATA TATA TA-TA TATA TATA TATA TATA
* *
31497 TATA CATA CATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
31545 TAT
1 TAT
31548 TTGAATTTAA
Statistics
Matches: 110, Mismatches: 15, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
3 13 0.12
4 93 0.85
5 4 0.04
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.47
Consensus pattern (4 bp):
TATA
Found at i:31517 original size:6 final size:6
Alignment explanation
Indices: 31493--31547 Score: 92
Period size: 6 Copynumber: 9.2 Consensus size: 6
31483 TAATGTACAT
* *
31493 TATATA TACATA CATATA TATATA TATATA TATATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
31541 TATATA T
1 TATATA T
31548 TTGAATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (6 bp):
TATATA
Found at i:32329 original size:28 final size:28
Alignment explanation
Indices: 32289--32353 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
32279 TTTGGTACTT
* *
32289 TATATACATATATAAAGTATAAAGTATA
1 TATATATATATATAAAGTATAAAGTACA
*
32317 TATATATATATATAAAGTATAATGTACA
1 TATATATATATATAAAGTATAAAGTACA
32345 T-TATATATA
1 TATATATATA
32354 CATACATCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 8 0.24
28 26 0.76
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (28 bp):
TATATATATATATAAAGTATAAAGTACA
Found at i:32349 original size:21 final size:21
Alignment explanation
Indices: 32306--32353 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
32296 ATATATAAAG
*
32306 TATAAAGTATATATATATATA
1 TATAAAGTATATATACATATA
*
32327 TATAAAGTATAATGTACATTATA
1 TATAAAGTAT-ATATACA-TATA
32350 TATA
1 TATA
32354 CATACATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
22 5 0.22
23 8 0.35
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (21 bp):
TATAAAGTATATATACATATA
Found at i:32709 original size:24 final size:24
Alignment explanation
Indices: 32680--32725 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
32670 TTTAGTCCAT
32680 TTTTAT-ATTAATATCAACTTCACA
1 TTTTATAATTAAT-TCAACTTCACA
*
32704 TTTTATAATTAATTCAATTTCA
1 TTTTATAATTAATTCAACTTCA
32726 TCCCTCATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTTATAATTAATTCAACTTCACA
Found at i:32863 original size:15 final size:16
Alignment explanation
Indices: 32833--32872 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
32823 AAGTGTTTGG
*
32833 ATATAAGTATTAAAGT
1 ATATAAATATTAAAGT
32849 ATATAAATA-TAAAGT
1 ATATAAATATTAAAGT
*
32864 ATATTAATA
1 ATATAAATA
32873 ATAATAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (16 bp):
ATATAAATATTAAAGT
Found at i:33768 original size:34 final size:37
Alignment explanation
Indices: 33690--33770 Score: 98
Period size: 34 Copynumber: 2.3 Consensus size: 37
33680 ATAATTATCT
* *
33690 ATATATATTTATAAAATTTATATAAATTATTCTTAAA
1 ATATTTATTTATAAAATTTATAGAAATTATTCTTAAA
* *
33727 A-AATTATTTATAATA-TTAT-GAAATTATT-TTAAA
1 ATATTTATTTATAAAATTTATAGAAATTATTCTTAAA
33760 ATATTTATTTA
1 ATATTTATTTA
33771 ATTTTTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
33 6 0.16
34 16 0.42
35 4 0.11
36 11 0.29
37 1 0.03
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (37 bp):
ATATTTATTTATAAAATTTATAGAAATTATTCTTAAA
Found at i:33815 original size:23 final size:23
Alignment explanation
Indices: 33785--33830 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
33775 TTAAAATCGT
33785 ATTATTTATTTAAAATAAAATTA
1 ATTATTTATTTAAAATAAAATTA
* *
33808 ATTATTTATTTTAAATAATATTA
1 ATTATTTATTTAAAATAAAATTA
33831 TATTTAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTATTTATTTAAAATAAAATTA
Found at i:33822 original size:19 final size:19
Alignment explanation
Indices: 33750--33822 Score: 51
Period size: 23 Copynumber: 3.5 Consensus size: 19
33740 TATTATGAAA
*
33750 TTATTTTAAAA-TATTTAT
1 TTATTTTAAAATTAATTAT
33768 TTAATTTTTAAAATCGT-ATTAT
1 TT-A-TTTTAAAAT--TAATTAT
33790 TTATTTAAAATAAAATTAATTAT
1 TTATTT----TAAAATTAATTAT
33813 TTATTTTAAA
1 TTATTTTAAA
33823 TAATATTATA
Statistics
Matches: 44, Mismatches: 1, Indels: 19
0.69 0.02 0.30
Matches are distributed among these distances:
18 2 0.05
19 5 0.11
20 11 0.25
21 1 0.02
22 7 0.16
23 12 0.27
24 6 0.14
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (19 bp):
TTATTTTAAAATTAATTAT
Found at i:33830 original size:19 final size:21
Alignment explanation
Indices: 33784--33836 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
33774 TTTAAAATCG
33784 TATTATTTATTTAAAATAAAAT
1 TATTATTTATTTAAAAT-AAAT
*
33806 TAATTATTTATTTTAAATAATAT
1 T-ATTATTTATTTAAAATAA-AT
33829 TA-TATTTA
1 TATTATTTA
33837 GATTATCCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.21
22 4 0.14
23 18 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATTTATTTAAAATAAAT
Found at i:34987 original size:21 final size:21
Alignment explanation
Indices: 34869--35007 Score: 77
Period size: 20 Copynumber: 6.7 Consensus size: 21
34859 ACGCGAAATA
**
34869 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
34889 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
**
34909 AAAATCGCAACGCGATTCTTGA
1 AAAATCGCAACGCGATT-TTCC
* ** *
34931 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* **
34952 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * * *
34973 AGAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
34993 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
35008 ACACATAAAT
Statistics
Matches: 87, Mismatches: 29, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
19 1 0.01
20 37 0.43
21 32 0.37
22 17 0.20
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:35069 original size:20 final size:20
Alignment explanation
Indices: 34975--35203 Score: 239
Period size: 20 Copynumber: 11.4 Consensus size: 20
34965 GATTTTCCAG
* ** *
34975 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
34995 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
35015 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
35035 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
35055 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
35075 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
35095 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
35115 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * * *
35135 AATCGCAAGGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
35155 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
35175 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
35195 AATCACAAC
1 AATCGCAAC
35204 ACTGAAATTT
Statistics
Matches: 177, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 173 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:35932 original size:24 final size:24
Alignment explanation
Indices: 35893--35939 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
35883 AAATTTGGTC
35893 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
35917 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
35940 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:36130 original size:12 final size:12
Alignment explanation
Indices: 36113--36137 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36103 ATATAATCCT
36113 GAAGAAGAAAAA
1 GAAGAAGAAAAA
36125 GAAGAAGAAAAA
1 GAAGAAGAAAAA
36137 G
1 G
36138 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:38462 original size:19 final size:18
Alignment explanation
Indices: 38412--38631 Score: 195
Period size: 19 Copynumber: 12.7 Consensus size: 18
38402 GCAACGAGAG
38412 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-A
*
38431 AATCCCAA--C---ATGA
1 AATCGCAATGCGAAATGA
38444 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATG-A
38464 AATCGCAATGCGAAATGA
1 AATCGCAATGCGAAATGA
38482 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-A
*
38501 AATCGCAA--CGACA-G-
1 AATCGCAATGCGAAATGA
38515 AATCGCAATGCGGAAATGA
1 AATCGCAATGC-GAAATGA
*
38534 AATCGCAA--CGAGA-G-
1 AATCGCAATGCGAAATGA
38548 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-A
38567 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-A
*
38586 AATCGCAA--CGAGA-G-
1 AATCGCAATGCGAAATGA
*
38600 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAA-TGA
*
38619 AATCGCATTGCGA
1 AATCGCAATGCGA
38632 TTCTCTCGTT
Statistics
Matches: 168, Mismatches: 10, Indels: 46
0.75 0.04 0.21
Matches are distributed among these distances:
13 8 0.05
14 27 0.16
15 2 0.01
16 14 0.08
17 14 0.08
18 19 0.11
19 72 0.43
20 12 0.07
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.15
Consensus pattern (18 bp):
AATCGCAATGCGAAATGA
Found at i:38465 original size:33 final size:33
Alignment explanation
Indices: 38398--38574 Score: 243
Period size: 33 Copynumber: 5.2 Consensus size: 33
38388 CGGAAATTAC
38398 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
38431 AATCCCAAC-ATGA-AATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAGAATCGCAATGC-GAAATGAA
*
38464 AATCGCAATGCGAAATGAAATCGCAATGCGAAATGAA
1 AATCGCAA--CGAGA-G-AATCGCAATGCGAAATGAA
*
38501 AATCGCAACGACAGAATCGCAATGCGGAAATG-A
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAA
38534 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
38567 AATCGCAA
1 AATCGCAA
38575 TGCGAAATGA
Statistics
Matches: 129, Mismatches: 5, Indels: 20
0.84 0.03 0.13
Matches are distributed among these distances:
32 18 0.14
33 70 0.54
34 7 0.05
35 6 0.05
36 1 0.01
37 16 0.12
38 11 0.09
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:38469 original size:52 final size:51
Alignment explanation
Indices: 38412--38631 Score: 261
Period size: 52 Copynumber: 4.3 Consensus size: 51
38402 GCAACGAGAG
*
38412 AATCGCAATGCGAAATGAAAATCCCAAC-ATGA-AATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATG-AAATCGCAACGA-GAGAATCGCAATGC-GAAATGAA
* * * * *
38464 AATCGCAATGCGAAATGAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGACA
1 AATCGCAATGCGAAATGAAATCGCAACGAGAGAATCG-CAATGCGAAATGA-A
38514 GAATCGCAATGCGGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 -AATCGCAATGC-GAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
38567 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
38619 AATCGCATTGCGA
1 AATCGCAATGCGA
38632 TTCTCTCGTT
Statistics
Matches: 146, Mismatches: 13, Indels: 18
0.82 0.07 0.10
Matches are distributed among these distances:
49 5 0.03
50 3 0.02
51 33 0.23
52 91 0.62
53 7 0.05
54 7 0.05
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.15
Consensus pattern (51 bp):
AATCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:38524 original size:103 final size:104
Alignment explanation
Indices: 38398--38593 Score: 319
Period size: 103 Copynumber: 1.9 Consensus size: 104
38388 CGGAAATTAC
*
38398 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAAC-ATGA-AATCGCAATGCGGAAA
1 AATCGCAACGACAGAATCGCAATGCGGAAATG-AAATCCCAACGA-GAGAATCGCAATGC-GAAA
38460 TGAAAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAA
63 TGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
38501 AATCGCAACGACAGAATCGCAATGCGGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGA
1 AATCGCAACGACAGAATCGCAATGCGGAAATGAAATCCCAACGAGAGAATCGCAATGCGAAATGA
38566 AAATCGCAATGCGAAATGAAAATCGCAA
66 AAATCGCAATGCGAAATGAAAATCGCAA
38594 CGAGAGAATC
Statistics
Matches: 87, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
103 60 0.69
104 27 0.31
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (104 bp):
AATCGCAACGACAGAATCGCAATGCGGAAATGAAATCCCAACGAGAGAATCGCAATGCGAAATGA
AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:38645 original size:14 final size:14
Alignment explanation
Indices: 38626--38679 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
38616 TAAAATCGCA
38626 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
38640 TTGCGATTTCATTTCG
1 TTGCGA-TTC-TCTCG
*
38656 CATTGCGATTCTCTCT
1 --TTGCGATTCTCTCG
38672 TTGCGATT
1 TTGCGATT
38680 TTCATTTCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 14 0.42
15 3 0.09
16 7 0.21
17 3 0.09
18 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:38645 original size:85 final size:84
Alignment explanation
Indices: 38464--38625 Score: 281
Period size: 85 Copynumber: 1.9 Consensus size: 84
38454 CGGAAATGAA
38464 AATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGGA
1 AATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGGA
*
38529 AATGAAATCGCAACGAGAG
66 AATAAAATCGCAACGAGAG
*
38548 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-G
1 AATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGG
38612 AAATTAAAATCGCA
65 AAA-TAAAATCGCA
38626 TTGCGATTCT
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
84 21 0.28
85 53 0.72
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (84 bp):
AATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGGA
AATAAAATCGCAACGAGAG
Found at i:38658 original size:32 final size:33
Alignment explanation
Indices: 38621--38698 Score: 140
Period size: 32 Copynumber: 2.4 Consensus size: 33
38611 GAAATTAAAA
38621 TCGCATTGCGATTCTCTCGTTGCGA-TTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
38653 TCGCATTGCGATTCTCTCTTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
38686 TCGCATTGCGATT
1 TCGCATTGCGATT
38699 TTCATTTCGC
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 24 0.55
33 20 0.45
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:38696 original size:19 final size:19
Alignment explanation
Indices: 38640--38716 Score: 94
Period size: 19 Copynumber: 4.4 Consensus size: 19
38630 GATTCTCTCG
38640 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
38658 TTGCGA--TTC---TCTCT
1 TTGCGATTTTCATTTCGCA
38672 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
38691 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
38710 TTGCGAT
1 TTGCGAT
38717 AGTCATTTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
14 9 0.18
16 3 0.06
17 3 0.06
18 6 0.12
19 29 0.58
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:38722 original size:19 final size:19
Alignment explanation
Indices: 38681--38724 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
38671 TTTGCGATTT
**
38681 TCATTTCGCATTGCGATTT
1 TCATTTCGCATTGCGATAG
38700 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
38719 TCATTT
1 TCATTT
38725 TGCCTTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:38841 original size:14 final size:14
Alignment explanation
Indices: 38822--38858 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
38812 CATCAATTAC
38822 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
38836 ACAAATCATCTTTT
1 ACAAATCAACTTTT
38850 ACAAATCAA
1 ACAAATCAA
38859 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:40806 original size:19 final size:19
Alignment explanation
Indices: 40764--40936 Score: 132
Period size: 19 Copynumber: 9.6 Consensus size: 19
40754 TAGTTTACTT
* *
40764 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
40784 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
** **
40803 TCGCAACAAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
* **
40822 TCGTAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
40841 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
40860 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
* *
40874 TCGCAATGCAAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
40893 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
40907 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
40926 TCGCAATGCGA
1 TCGCAACGCGA
40937 TTTTGGTTTC
Statistics
Matches: 122, Mismatches: 21, Indels: 21
0.74 0.13 0.13
Matches are distributed among these distances:
14 18 0.15
15 1 0.01
16 6 0.05
17 6 0.05
18 1 0.01
19 78 0.64
20 12 0.10
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:40888 original size:33 final size:33
Alignment explanation
Indices: 40839--40931 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
40829 GCGAAACCAA
40839 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* * *
40872 AATCGCAATGCAAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
40905 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
40932 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:40979 original size:32 final size:33
Alignment explanation
Indices: 40932--41021 Score: 110
Period size: 32 Copynumber: 2.7 Consensus size: 33
40922 AAAATCGCAA
** * *
40932 TGCGATTTTGGTTTCGCGTTGCGA-TCTTTTGT
1 TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
*
40964 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
*
40997 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTTAA-TTTCGCGTTGCGA
41022 AAGTAAACTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
32 22 0.44
33 16 0.32
34 12 0.24
ACGTcount: A:0.10, C:0.18, G:0.26, T:0.47
Consensus pattern (33 bp):
TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
Found at i:41255 original size:92 final size:93
Alignment explanation
Indices: 41069--41532 Score: 868
Period size: 92 Copynumber: 5.1 Consensus size: 93
41059 ATGGATTGCA
41069 TTAC-TTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
41132 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
41160 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
41225 TAGCAGAATTGGCAGCAACCGAA-AAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
41252 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
41317 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
41345 TTACTTTCAACCAAAAGAC-AAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAG-T
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
41407 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
41435 TTACTTTCAACCAAAATACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
41500 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
41528 TTACT
1 TTACT
41533 AAGCAATCTA
Statistics
Matches: 365, Mismatches: 2, Indels: 10
0.97 0.01 0.03
Matches are distributed among these distances:
90 47 0.13
91 46 0.13
92 159 0.44
93 113 0.31
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:41481 original size:183 final size:185
Alignment explanation
Indices: 41069--41532 Score: 866
Period size: 183 Copynumber: 2.5 Consensus size: 185
41059 ATGGATTGCA
41069 TTAC-TTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
41132 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
41197 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAAAAT
41252 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
41317 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGAC-AATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
41380 ATTTCACAGTGTTAAAGAATACACAG-TTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA-AAAT
*
41435 TTACTTTCAACCAAAATACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
41500 TAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACT
41533 AAGCAATCTA
Statistics
Matches: 276, Mismatches: 2, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
182 24 0.09
183 136 0.49
184 35 0.13
185 81 0.29
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (185 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAAAAT
Found at i:43245 original size:20 final size:19
Alignment explanation
Indices: 43213--43307 Score: 94
Period size: 20 Copynumber: 5.2 Consensus size: 19
43203 TTTTGGTTGA
43213 AATGAAATCGCAACGAGAG
1 AATGAAATCGCAACGAGAG
**
43232 AATGACTGTCGCAACGAGAG
1 AATGA-AATCGCAACGAGAG
43252 AAATGAAATCGCAAC--GAG
1 -AATGAAATCGCAACGAGAG
*
43270 -A-G-AATCGCAACGCGA-
1 AATGAAATCGCAACGAGAG
43285 AATGAAAATCGCAACGAGAG
1 AATG-AAATCGCAACGAGAG
43305 AAT
1 AAT
43308 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
14 9 0.15
15 1 0.02
16 4 0.06
17 1 0.02
18 3 0.05
19 17 0.27
20 22 0.35
21 5 0.08
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (19 bp):
AATGAAATCGCAACGAGAG
Found at i:43277 original size:14 final size:14
Alignment explanation
Indices: 43258--43314 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
43248 AGAGAAATGA
43258 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
43272 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
43291 AATCGCAACGAGAG
1 AATCGCAACGAGAG
43305 AATCGCAACG
1 AATCGCAACG
43315 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:43296 original size:19 final size:19
Alignment explanation
Indices: 43272--43336 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
43262 GCAACGAGAG
43272 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
43291 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
43305 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
43324 AATCGCAATGCGA
1 AATCGCAACGCGA
43337 TTTTGGTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:43298 original size:33 final size:33
Alignment explanation
Indices: 43251--43331 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
43241 CGCAACGAGA
43251 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
43283 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
43316 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
43332 TGCGATTTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 6 0.12
33 42 0.88
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:43405 original size:21 final size:20
Alignment explanation
Indices: 43359--43450 Score: 114
Period size: 21 Copynumber: 4.5 Consensus size: 20
43349 GTTGCGATTC
43359 TCTCGTTGCGATTTTCA-TT
1 TCTCGTTGCGATTTTCATTT
*
43378 TCGCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCA-TTT
*** *
43399 TCTCGTTGCGACAGTCATTC
1 TCTCGTTGCGATTTTCATTT
43419 TCTCGTTGCGATTTTCATTT
1 TCTCGTTGCGATTTTCATTT
43439 ATCTCGTTGCGA
1 -TCTCGTTGCGA
43451 CTCTTCTGCA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.27
20 18 0.30
21 26 0.43
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.47
Consensus pattern (20 bp):
TCTCGTTGCGATTTTCATTT
Found at i:43437 original size:41 final size:40
Alignment explanation
Indices: 43359--43451 Score: 132
Period size: 41 Copynumber: 2.3 Consensus size: 40
43349 GTTGCGATTC
*** *
43359 TCTCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATTTT
1 TCTCGTTGCGACAGTCATTTCGCGTTGCGATTTTCATTTA
*
43399 TCTCGTTGCGACAGTCATTCTCTCGTTGCGATTTTCATTTA
1 TCTCGTTGCGACAGTCATT-TCGCGTTGCGATTTTCATTTA
43440 TCTCGTTGCGAC
1 TCTCGTTGCGAC
43452 TCTTCTGCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 16 0.34
41 31 0.66
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (40 bp):
TCTCGTTGCGACAGTCATTTCGCGTTGCGATTTTCATTTA
Found at i:43572 original size:33 final size:33
Alignment explanation
Indices: 43530--43600 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
43520 AATACTAACT
43530 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
43563 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
43596 TGAAA
1 TGAAA
43601 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:44001 original size:20 final size:20
Alignment explanation
Indices: 43976--44149 Score: 244
Period size: 20 Copynumber: 8.7 Consensus size: 20
43966 CTTTAAAAAT
43976 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
43996 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
44016 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
44037 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
44057 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
44077 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
44097 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
44117 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
44137 CGCGTTGCGATTT
1 CGCGTTGCGATTT
44150 TTCATATTCG
Statistics
Matches: 138, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
20 120 0.87
21 18 0.13
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:44181 original size:21 final size:21
Alignment explanation
Indices: 44157--44232 Score: 50
Period size: 21 Copynumber: 3.6 Consensus size: 21
44147 TTTTTCATAT
*
44157 TCGCGTTGCGATTCTGTAAAA
1 TCGCATTGCGATTCTGTAAAA
* **
44178 TCGCAATGCGAATTC-GTACTA
1 TCGCATTGCG-ATTCTGTAAAA
*
44199 TCGTATTGCGATT-T-TCAAGAA
1 TCGCATTGCGATTCTGT-AA-AA
*
44220 TCGCGTTGCGATT
1 TCGCATTGCGATT
44233 TTGGAAACTG
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
19 1 0.02
20 4 0.10
21 32 0.78
22 4 0.10
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTCTGTAAAA
Found at i:46318 original size:3 final size:3
Alignment explanation
Indices: 46312--46370 Score: 64
Period size: 3 Copynumber: 19.7 Consensus size: 3
46302 TTCTTCATCG
* * * * *
46312 TCC TCC TCC TCC TCT TCC TCC TCC TCC TCC TCC TCA TCA TCA TCC TCG
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
*
46360 TCC TCA TCC TC
1 TCC TCC TCC TC
46371 ACCCATTTCA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.07, C:0.56, G:0.02, T:0.36
Consensus pattern (3 bp):
TCC
Found at i:46336 original size:21 final size:21
Alignment explanation
Indices: 46303--46364 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
46293 GATTTCTTCT
*
46303 TCTTCATCGTCCTCCTCCTCC
1 TCTTCATCATCCTCCTCCTCC
* *
46324 TCTTCCTCCTCCTCCTCCTCC
1 TCTTCATCATCCTCCTCCTCC
* *
46345 TCATCATCATCCTCGTCCTC
1 TCTTCATCATCCTCCTCCTC
46365 ATCCTCACCC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.06, C:0.53, G:0.03, T:0.37
Consensus pattern (21 bp):
TCTTCATCATCCTCCTCCTCC
Found at i:57559 original size:30 final size:31
Alignment explanation
Indices: 57473--57568 Score: 108
Period size: 32 Copynumber: 3.1 Consensus size: 31
57463 AAGAGTCGAG
* *
57473 GGTTACCTATGTCCTTCAGGACATATGAACA
1 GGTTACCTATGTTCTTCAGGACATATGGACA
*
57504 GGATTACCTATG-TCATTCGGGACATATGGACA
1 GG-TTACCTATGTTC-TTCAGGACATATGGACA
*
57536 -GTTACCTATGTTC-TCAGGAACATATGGATA
1 GGTTACCTATGTTCTTCAGG-ACATATGGACA
57566 GGT
1 GGT
57569 CCTTCTGGAC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
29 4 0.07
30 19 0.35
31 8 0.15
32 24 0.44
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (31 bp):
GGTTACCTATGTTCTTCAGGACATATGGACA
Found at i:61006 original size:25 final size:24
Alignment explanation
Indices: 60974--61034 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
60964 TTTTTATAAA
*
60974 ATAT-TTATTTTATTTACTATATTT
1 ATATATTATTTTATTTAAT-TATTT
*
60998 ATATATTATTATATTTTAATTATTT
1 ATATATTATTTTA-TTTAATTATTT
61023 AT-TA-TATTTTAT
1 ATATATTATTTTAT
61035 AATTAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 1 0.03
23 6 0.19
24 6 0.19
25 14 0.44
26 5 0.16
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (24 bp):
ATATATTATTTTATTTAATTATTT
Found at i:61012 original size:16 final size:16
Alignment explanation
Indices: 60951--61067 Score: 69
Period size: 16 Copynumber: 7.9 Consensus size: 16
60941 AATTTGCAAA
*
60951 ATATATTATAATATTTTT
1 ATATATTAT--TATATTT
* *
60969 ATAAAATATT-TATTT
1 ATATATTATTATATTT
*
60984 -TAT-TTACTATATTT
1 ATATATTATTATATTT
60998 ATATATTATTATATTT
1 ATATATTATTATATTT
61014 -TA-ATTATT-TA--T
1 ATATATTATTATATTT
*
61025 -TATATT-TTATAATT
1 ATATATTATTATATTT
61039 A-ATATTATTATATTT
1 ATATATTATTATATTT
*
61054 ACT-TATTATAATAT
1 A-TATATTATTATAT
61068 AATTTCATTT
Statistics
Matches: 79, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
11 5 0.06
12 5 0.06
13 5 0.06
14 19 0.24
15 17 0.22
16 21 0.27
18 7 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATATTATTATATTT
Found at i:61012 original size:47 final size:43
Alignment explanation
Indices: 60951--61053 Score: 113
Period size: 43 Copynumber: 2.4 Consensus size: 43
60941 AATTTGCAAA
* * *
60951 ATATATTATAATATTTTTATAAAATATTTATTTTATTTACTATATTT
1 ATATATTATTATATTTTT-T-AAATATTTATTATATTT--TATAATT
*
60998 ATATATTATTATA--TTTTAATTATTTATTATATTTTATAATT
1 ATATATTATTATATTTTTTAAATATTTATTATATTTTATAATT
61039 A-ATATTATTATATTT
1 ATATATTATTATATTT
61054 ACTTATTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
40 11 0.22
41 7 0.14
42 1 0.02
43 15 0.30
44 1 0.02
45 3 0.06
47 12 0.24
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (43 bp):
ATATATTATTATATTTTTTAAATATTTATTATATTTTATAATT
Found at i:61013 original size:34 final size:31
Alignment explanation
Indices: 60985--61060 Score: 59
Period size: 31 Copynumber: 2.4 Consensus size: 31
60975 TATTTATTTT
*
60985 ATTTACTATATTTATATATTATTATATTT-TAATT
1 ATTTACTATATTT-TATA--ATTATATTTAT-TTT
* *
61019 ATTTATTATATTTTATAATTA-ATATTATTAT
1 ATTTACTATATTTTATAATTATAT-TTATTTT
61050 ATTTACT-TATT
1 ATTTACTATATT
61061 ATAATATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
30 6 0.17
31 13 0.36
32 1 0.03
33 4 0.11
34 12 0.33
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (31 bp):
ATTTACTATATTTTATAATTATATTTATTTT
Found at i:61060 original size:35 final size:34
Alignment explanation
Indices: 60956--61063 Score: 98
Period size: 34 Copynumber: 3.2 Consensus size: 34
60946 GCAAAATATA
* * *
60956 TTATAATATTTTTATA-AAATAT-TTAT-TTTAT
1 TTATTATATTTATATATTAATATATTATATTTAT
* * * *
60987 TTACTATATTTATATATTATTATATTTTAATTAT
1 TTATTATATTTATATATTAATATATTATATTTAT
*
61021 TTATTATATTT-TATAATTAATATTATTATATTTAC
1 TTATTATATTTATAT-ATTAATA-TATTATATTTAT
61056 TTATTATA
1 TTATTATA
61064 ATATAATTTC
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
31 13 0.22
32 4 0.07
33 6 0.10
34 20 0.33
35 17 0.28
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (34 bp):
TTATTATATTTATATATTAATATATTATATTTAT
Found at i:61582 original size:20 final size:19
Alignment explanation
Indices: 61535--61573 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
61525 ATGACCAACA
*
61535 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
61554 AAATCGCAACGCGATCTCT
1 AAATCGCAACGCGATCTCT
61573 A
1 A
61574 GTATCGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:61639 original size:20 final size:20
Alignment explanation
Indices: 61616--61659 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
61606 GATTTTGACT
61616 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
61636 ATCGCAATGTGAATATGTAA
1 ATCGCAATGCGAATATGTAA
61656 ATCG
1 ATCG
61660 TAACGCGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:62552 original size:24 final size:24
Alignment explanation
Indices: 62525--62578 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
62515 GTATTCGAAA
62525 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
62549 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
62573 TTTGAT
1 TTTGAT
62579 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:62797 original size:14 final size:13
Alignment explanation
Indices: 62769--62806 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
62759 GAAAAAAAAA
*
62769 GAAG-AAATCCCC
1 GAAGAAAATACCC
62781 GAAGAAAAGTACCC
1 GAAGAAAA-TACCC
62795 GAAGAAAATACC
1 GAAGAAAATACC
62807 ACGGGAGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 4 0.17
13 7 0.30
14 12 0.52
ACGTcount: A:0.50, C:0.24, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAGAAAATACCC
Found at i:64851 original size:12 final size:12
Alignment explanation
Indices: 64834--64876 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
64824 CAAGCAAAAG
64834 GCAATCAAAATC
1 GCAATCAAAATC
64846 GCAATCAAAATC
1 GCAATCAAAATC
**
64858 AAAATCAAAATC
1 GCAATCAAAATC
*
64870 CCAATCA
1 GCAATCA
64877 CAACTGGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.53, C:0.26, G:0.05, T:0.16
Consensus pattern (12 bp):
GCAATCAAAATC
Found at i:64857 original size:6 final size:6
Alignment explanation
Indices: 64836--64869 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
64826 AGCAAAAGGC
**
64836 AATCAA AATCGC AATCAA AATCAA AATCAA AATC
1 AATCAA AATCAA AATCAA AATCAA AATCAA AATC
64870 CCAATCACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.18
Consensus pattern (6 bp):
AATCAA
Found at i:65072 original size:20 final size:20
Alignment explanation
Indices: 65047--65143 Score: 135
Period size: 20 Copynumber: 4.8 Consensus size: 20
65037 TTACACATTC
65047 ATTTGAATATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
*
65067 ATTTGACTATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
*
65087 ATTTGACTATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
*
65107 ATTTGATTATCGCAACAG-GA
1 ATTTGAATATCGCAAC-GCGA
65127 ATTT-AACTATCGCAACG
1 ATTTGAA-TATCGCAACG
65144 AGAAAATCGT
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
19 2 0.03
20 69 0.96
21 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (20 bp):
ATTTGAATATCGCAACGCGA
Found at i:65102 original size:40 final size:39
Alignment explanation
Indices: 65047--65200 Score: 149
Period size: 40 Copynumber: 4.0 Consensus size: 39
65037 TTACACATTC
*
65047 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGAA-TTGACTATCGCAACGCGA
*
65087 ATTTGACTATCGCAACGCGAATTTGATTATCGCAACAG-GA
1 ATTTGACTATCGCAACGCGAA-TTGACTATCGCAAC-GCGA
* * * * *
65127 ATTTAACTATCGCAACGAGAA---A--ATCGTAAAGCGT
1 ATTTGACTATCGCAACGCGAATTGACTATCGCAACGCGA
* * *
65161 ATTAGACTATCGCAACGCGAATTGACTTTCGCAATGCGA
1 ATTTGACTATCGCAACGCGAATTGACTATCGCAACGCGA
65200 A
1 A
65201 AATCCCAACG
Statistics
Matches: 93, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
33 1 0.01
34 25 0.27
36 1 0.01
37 1 0.01
39 9 0.10
40 55 0.59
41 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (39 bp):
ATTTGACTATCGCAACGCGAATTGACTATCGCAACGCGA
Found at i:65244 original size:20 final size:20
Alignment explanation
Indices: 65215--65290 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
65205 CCAACGCGAA
*
65215 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCATTGCGATT
*
65235 TTGTCTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
65255 TTGACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
* *
65275 TTGAGTTTAGCATTGC
1 TTGACTTTCGCATTGC
65291 AAAAGTGTAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.46
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:65988 original size:20 final size:20
Alignment explanation
Indices: 65951--65988 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
65941 AAAATCAAAC
*
65951 AAAATATTAGATGGTAAAAT
1 AAAATATTAGATGCTAAAAT
65971 AAAATATT-GAATGCTAAA
1 AAAATATTAG-ATGCTAAA
65989 CAAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (20 bp):
AAAATATTAGATGCTAAAAT
Found at i:66020 original size:26 final size:25
Alignment explanation
Indices: 65965--66026 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
65955 TATTAGATGG
*
65965 TAAAATAAAATATTGAATGCTAAAC
1 TAAAATAAAATATTGAATACTAAAC
* * * *
65990 AAAAATAAAATTTTAGAATATTAAAT
1 TAAAATAAAATATT-GAATACTAAAC
66016 TAAAAATAAAA
1 T-AAAATAAAA
66027 AAATTTTAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
25 12 0.41
26 8 0.28
27 9 0.31
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (25 bp):
TAAAATAAAATATTGAATACTAAAC
Found at i:66101 original size:20 final size:20
Alignment explanation
Indices: 66073--66119 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
66063 AAAATGTCAC
* *
66073 AAGAGAAATAA-ATAAAAATT
1 AAGAAAAATAATA-AAAAAAT
66093 AAGAAAAATAATAAAAAAAT
1 AAGAAAAATAATAAAAAAAT
66113 AAGAAAA
1 AAGAAAA
66120 TATTAATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.15
Consensus pattern (20 bp):
AAGAAAAATAATAAAAAAAT
Found at i:66573 original size:20 final size:20
Alignment explanation
Indices: 66548--66587 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
66538 CCACCACCTG
66548 CCACCGTCAG-TCACTATTCA
1 CCACCG-CAGATCACTATTCA
*
66568 CCACCGCCGATCACTATTCA
1 CCACCGCAGATCACTATTCA
66588 TGGTGCCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.25, C:0.42, G:0.10, T:0.23
Consensus pattern (20 bp):
CCACCGCAGATCACTATTCA
Found at i:67426 original size:85 final size:85
Alignment explanation
Indices: 67311--67510 Score: 319
Period size: 85 Copynumber: 2.4 Consensus size: 85
67301 TTGTTAACAA
* * **
67311 ATAACTCTTCTTGCCTTGAGTTATGCTGTAAATTTGATATGTCTTTGAGCTGAATGTAATCGAAC
1 ATAACCCTTCTCGCCTTGAGTTATGCTGTAAATAAGATATGTCTTTGAGCTGAATGTAATCGAAC
* *
67376 TCGAAGGTCTTGGTTGATAG
66 TCGAAGGTCTTGATTGACAG
*
67396 ATAACCCTTCTCGCCTTGAGTTATGATGTAAATAAGATATGTCTTTGAGCTGAATGTAATCGAAC
1 ATAACCCTTCTCGCCTTGAGTTATGCTGTAAATAAGATATGTCTTTGAGCTGAATGTAATCGAAC
*
67461 TCGAAGGTCTTTATTGACAG
66 TCGAAGGTCTTGATTGACAG
*
67481 ATAACCCTTATCGCCTTGAGTTATGCTGTA
1 ATAACCCTTCTCGCCTTGAGTTATGCTGTA
67511 CTAAGCTGAG
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 105 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (85 bp):
ATAACCCTTCTCGCCTTGAGTTATGCTGTAAATAAGATATGTCTTTGAGCTGAATGTAATCGAAC
TCGAAGGTCTTGATTGACAG
Found at i:67743 original size:85 final size:85
Alignment explanation
Indices: 67611--67852 Score: 301
Period size: 85 Copynumber: 2.8 Consensus size: 85
67601 ATGTATCGTC
* * * * *
67611 GAGCTGAATGGAATCAAACTCGTCA-GTTTTTGCTGATAGATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAATGTAATCAAACTCG-AAGGTCTTTGATGATAGATAACCCTTCTCGCCTTGAGCTATG
*
67675 CTGTAAATTTGATATG-CCTCT
65 CTGTAAATTTGACATGTCCT-T
* *
67696 GAGCTGAATGTAATCAAACTCGAAGGTCTTTGATGACAGATAACCCTTCTCGCCTTGAGTTATGC
1 GAGCTGAATGTAATCAAACTCGAAGGTCTTTGATGATAGATAACCCTTCTCGCCTTGAGCTATGC
67761 TGTAAATTTGACATGTCCTT
66 TGTAAATTTGACATGTCCTT
* * * *
67781 GAGCTGAATGTAATCGAACTCGAAGGTTTCATTGTTGATATATAGA-CCTTCTCGCCTTGAGCTA
1 GAGCTGAATGTAATCAAACTCGAAGG--TCTTTGATGATAGATA-ACCCTTCTCGCCTTGAGCTA
*
67845 TGTTGTAA
63 TGCTGTAA
67853 TAGGATGGGG
Statistics
Matches: 137, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
84 1 0.01
85 96 0.70
86 3 0.02
87 36 0.26
88 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (85 bp):
GAGCTGAATGTAATCAAACTCGAAGGTCTTTGATGATAGATAACCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGACATGTCCTT
Found at i:68249 original size:65 final size:67
Alignment explanation
Indices: 68108--68282 Score: 224
Period size: 65 Copynumber: 2.7 Consensus size: 67
68098 TGAAGTTGAG
* *
68108 CTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATTCAA--T-G-GT--TTCTTCACCAAATTG
1 CTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTCGAGTAAGTCTTCACCAAATTG
68167 GT
66 GT
* * *
68169 -TTTGAGTTGGATATCCTTCGTAGTGAAGTTGAAATCCAATCTCGAGTAAGT-TTCACTAAATT-
1 CTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTCGAGTAAGTCTTCACCAAATTG
68231 GT
66 GT
* *
68233 CTTTAAATTGGATATCCTTCGTTGTGAAGTTGAAATCTAATCTCGAGTAA
1 CTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTCGAGTAA
68283 ATTGTATCTC
Statistics
Matches: 98, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
60 36 0.37
62 1 0.01
63 1 0.01
64 4 0.04
65 55 0.56
66 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.39
Consensus pattern (67 bp):
CTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTCGAGTAAGTCTTCACCAAATTG
GT
Found at i:69728 original size:2 final size:2
Alignment explanation
Indices: 69721--69749 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
69711 AGCTTTATTG
69721 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
69750 TTTTTATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:73694 original size:20 final size:20
Alignment explanation
Indices: 73669--73706 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
73659 AAAATCAAAC
73669 AAAATATT-AGATGGTAAAAT
1 AAAATATTGA-ATGGTAAAAT
73689 AAAATATTGAATGGTAAA
1 AAAATATTGAATGGTAAA
73707 CAAAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (20 bp):
AAAATATTGAATGGTAAAAT
Found at i:73712 original size:20 final size:20
Alignment explanation
Indices: 73665--73712 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
73655 GAAAAAAATC
73665 AAAC-AAAATATTAGATGGT
1 AAACAAAAATATTAGATGGT
73684 AAA-ATAAAATATT-GAATGGT
1 AAACA-AAAATATTAG-ATGGT
73704 AAACAAAAA
1 AAACAAAAA
73713 GAAATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 4 0.16
20 20 0.80
21 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.23
Consensus pattern (20 bp):
AAACAAAAATATTAGATGGT
Found at i:73823 original size:20 final size:21
Alignment explanation
Indices: 73788--73835 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
73778 AAAATGTCAC
*
73788 AAGAGAAATAAATAAA-AAATT
1 AAGAAAAATAAATAAACAAA-T
73809 AAGAAAAAT-AATAAACAAAT
1 AAGAAAAATAAATAAACAAAT
73829 AAGAAAA
1 AAGAAAA
73836 TATTAATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (21 bp):
AAGAAAAATAAATAAACAAAT
Found at i:75636 original size:2 final size:2
Alignment explanation
Indices: 75629--75671 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
75619 TTGTCCTTTA
75629 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75671 A
1 A
75672 ACTATTATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:76994 original size:12 final size:13
Alignment explanation
Indices: 76977--77008 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
76967 GCCTTTCGTC
76977 ATTTATTTAT-TT
1 ATTTATTTATATT
76989 ATTTATTTATATT
1 ATTTATTTATATT
77002 -TTTATTT
1 ATTTATTT
77009 TACTAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 17 0.89
13 2 0.11
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
ATTTATTTATATT
Done.