Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_233
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: 120025
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Found at i:5145 original size:43 final size:43
Alignment explanation
Indices: 5091--5248 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
5081 GCCAACGTCT
* * *
5091 CAGACATGGTCTTACATGTAATCAAATATCGATGCCACTATCC
1 CAGACAGGGTCTTACATGAAATCAAATATCGATGCCACTGTCC
** *
5134 CAGACAGGGTCTTACACAAAATCAAATA-CGATGCCAATGTCC
1 CAGACAGGGTCTTACATGAAATCAAATATCGATGCCACTGTCC
* *
5176 CAGACATGGTCTTACATGTAATCTCAAAT-T-GATGCCAAC-GTCC
1 CAGACAGGGTCTTACATG-AA-ATCAAATATCGATGCC-ACTGTCC
* *
5219 CAGA-TGTGGTCTTACATGAAATCACATATC
1 CAGACAG-GGTCTTACATGAAATCAAATATC
5249 AGAAATCCTA
Statistics
Matches: 93, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
41 5 0.05
42 30 0.32
43 51 0.55
44 7 0.08
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
CAGACAGGGTCTTACATGAAATCAAATATCGATGCCACTGTCC
Found at i:5179 original size:42 final size:42
Alignment explanation
Indices: 5074--5191 Score: 146
Period size: 43 Copynumber: 2.8 Consensus size: 42
5064 CGAGAAGCTC
* * * ***
5074 ATACAATGCCAACGTCTCAGACATGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
* * *
5116 ATATCGATGCCACTATCCCAGACAGGGTCTTACACAAAATCAA
1 ATA-CGATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
5159 ATACGATGCCAATGTCCCAGACATGGTCTTACA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACA
5192 TGTAATCTCA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
Found at i:6931 original size:27 final size:26
Alignment explanation
Indices: 6898--7094 Score: 92
Period size: 27 Copynumber: 7.4 Consensus size: 26
6888 CCCCAGTTGC
*
6898 AAAATTACCAAAGTACCCCCGATTTAT
1 AAAATTACCAAA-TACCCTCGATTTAT
* * *
6925 AAAATTACTAAAATACCGTCGA-TTGT
1 AAAATTAC-CAAATACCCTCGATTTAT
* * *
6951 AAAATTACTGAAATGCCCTCGATTTGT
1 AAAATTAC-CAAATACCCTCGATTTAT
* **
6978 AGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACCA-AATACCCTCGATTTAT
*** ** *
7005 -AAATTACCGTTTCACCCTTAATTTAC
1 AAAATTACCAAAT-ACCCTCGATTTAT
***
7031 AAAATTACCGTTTTACCCTCGATTTAT
1 AAAATTACC-AAATACCCTCGATTTAT
* ** ** *
7058 AGAATTACCATTTTACCCTTAATTTAC
1 AAAATTACCA-AATACCCTCGATTTAT
7085 AAAATTACCA
1 AAAATTACCA
7095 TTTTACCCTC
Statistics
Matches: 135, Mismatches: 28, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
25 3 0.02
26 40 0.30
27 86 0.64
28 6 0.04
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.35
Consensus pattern (26 bp):
AAAATTACCAAATACCCTCGATTTAT
Found at i:6959 original size:26 final size:27
Alignment explanation
Indices: 6873--7011 Score: 97
Period size: 27 Copynumber: 5.3 Consensus size: 27
6863 TTAGTTTACC
* * *
6873 AAATTACTGAAATATCCC-C-AGTTGCA
1 AAATTACTAAAATA-CCCTCGATTTGTA
* * * *
6899 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
*
6926 AAATTACTAAAATACCGTCGA-TTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
6952 AAATTACTGAAATGCCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *** *
6979 GAATTACCATTTTACCCTCGATTTAT-
1 AAATTACTAAAATACCCTCGATTTGTA
7005 AAATTAC
1 AAATTAC
7012 CGTTTCACCC
Statistics
Matches: 87, Mismatches: 23, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
25 3 0.03
26 40 0.46
27 44 0.51
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:7035 original size:80 final size:81
Alignment explanation
Indices: 6951--7135 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 81
6941 CGTCGATTGT
* * * * *
6951 AAAATTACTGAAATGCCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTA-TAAATTACCGT
1 AAAATTACTGAAATACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCAT
*
7015 TTCACCCTTAATTTAC
66 TTCACCCTCAATTTAC
* *** *
7031 AAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCAT
1 AAAATTACTGAAATACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCAT
* *
7096 TTTACCCTCAGTTTAC
66 TTCACCCTCAATTTAC
***
7112 AAAATTACTGTTTTACCCTCGATT
1 AAAATTACTGAAATACCCTCGATT
7136 GTGAAATTAC
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 45 0.50
81 45 0.50
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (81 bp):
AAAATTACTGAAATACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCAT
TTCACCCTCAATTTAC
Found at i:7088 original size:54 final size:53
Alignment explanation
Indices: 6980--7130 Score: 223
Period size: 54 Copynumber: 2.8 Consensus size: 53
6970 CGATTTGTAG
*
6980 AATTACCATTTTACCCTCGATTTATAAATTACCGTTTCACCCTTAATTTACAA
1 AATTACCATTTTACCCTCGATTTATAAATTACCGTTTTACCCTTAATTTACAA
* *
7033 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAA
1 AATTACCATTTTACCCTCGATTTATA-AATTACCGTTTTACCCTTAATTTACAA
* *
7087 AATTACCATTTTACCCTC-AGTTTACAAAATTACTGTTTTACCCT
1 AATTACCATTTTACCCTCGA-TTTA-TAAATTACCGTTTTACCCT
7131 CGATTGTGAA
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
53 26 0.30
54 61 0.69
55 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (53 bp):
AATTACCATTTTACCCTCGATTTATAAATTACCGTTTTACCCTTAATTTACAA
Found at i:7095 original size:27 final size:27
Alignment explanation
Indices: 6980--7131 Score: 180
Period size: 27 Copynumber: 5.7 Consensus size: 27
6970 CGATTTGTAG
* *
6980 AATTACCATTTTACCCTCGATTTA-TA
1 AATTACCATTTTACCCTCAATTTACAA
* * *
7006 AATTACCGTTTCACCCTTAATTTACAA
1 AATTACCATTTTACCCTCAATTTACAA
* * * *
7033 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCAATTTACAA
*
7060 AATTACCATTTTACCCTTAATTTACAA
1 AATTACCATTTTACCCTCAATTTACAA
*
7087 AATTACCATTTTACCCTCAGTTTACAA
1 AATTACCATTTTACCCTCAATTTACAA
**
7114 AATTACTGTTTTACCCTC
1 AATTACCATTTTACCCTC
7132 GATTGTGAAA
Statistics
Matches: 106, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 20 0.19
27 86 0.81
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCAATTTACAA
Found at i:7129 original size:81 final size:80
Alignment explanation
Indices: 6966--7135 Score: 250
Period size: 81 Copynumber: 2.1 Consensus size: 80
6956 TACTGAAATG
* * * * *
6966 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAAATTACCGTTTCACCCTTAATTTAC
1 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAAAAATTACCATTTCACCCTCAATTTAC
7031 AAAATTACCGTTTTA
66 AAAATTACCGTTTTA
* * *
7046 CCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTACCATTTTACCCTCAGTTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTA-AAAATTACCATTTCACCCTCAATTTA
*
7111 CAAAATTACTGTTTTA
65 CAAAATTACCGTTTTA
7127 CCCTCGATT
1 CCCTCGATT
7136 GTGAAATTAC
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 35 0.44
81 45 0.56
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.40
Consensus pattern (80 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAAAAATTACCATTTCACCCTCAATTTAC
AAAATTACCGTTTTA
Found at i:7478 original size:27 final size:27
Alignment explanation
Indices: 7140--7472 Score: 357
Period size: 27 Copynumber: 12.3 Consensus size: 27
7130 TCGATTGTGA
* * *
7140 AATTACTGAAGTACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * ** *
7167 AATTACCAAAATACCCCT-AATTTGTAA
1 AATTACCGAAATACCCCTGTA-GGGTAG
* **
7194 AATTACCAAAATACCCCTG-ATTTGT-G
1 AATTACCGAAATACCCCTGTA-GGGTAG
*
7220 AAATTACCGAAATACCCTTGTAGGGTAG
1 -AATTACCGAAATACCCCTGTAGGGTAG
* **
7248 AATTATCGAAATACCCCTACAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
7275 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
7302 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
7329 AATTATCGGAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
7356 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
7383 AATTATCGTAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
7410 AATTCCCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
7437 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
7464 AATTACCGA
1 AATTACCGA
7473 GGTACCTTGT
Statistics
Matches: 254, Mismatches: 47, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.00
27 251 0.99
28 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:7975 original size:22 final size:22
Alignment explanation
Indices: 7923--7987 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
7913 TTAAAGCCTT
* *
7923 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
7945 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
7967 CTGATTATGGCTGTATGCCAA
1 CTGATTATGGCTCTGTGCCAA
7988 ATGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:8164 original size:27 final size:26
Alignment explanation
Indices: 8129--8228 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 26
8119 ATGGCACAAA
* *
8129 GGCTTTGCCACATTATCTGTTTCTGGT
1 GGCTATGCCACAATATCTG-TTCTGGT
8156 GGCTATGCCACAAATATCTGTTCTGGT
1 GGCTATGCCAC-AATATCTGTTCTGGT
* * *
8183 GGCTCTGCCACAATATCTATATCTGTT
1 GGCTATGCCACAATATCTGT-TCTGGT
* * *
8210 GACTCTGTCACAATATCTG
1 GGCTATGCCACAATATCTG
8229 ATAACTGAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.13
27 48 0.76
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (26 bp):
GGCTATGCCACAATATCTGTTCTGGT
Found at i:8410 original size:31 final size:31
Alignment explanation
Indices: 8365--8475 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
8355 TTGCATTCAC
*
8365 ATTCTGATTTTTGATTTTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
* *
8397 ATTTTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
8428 ATTCTGATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
8459 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
8476 AGTTCTGATA
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
31 64 0.91
32 6 0.09
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:8436 original size:6 final size:6
Alignment explanation
Indices: 8388--8484 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
8378 ATTTTGTTAC
* * * *
8388 CTGATA CTGATT TTGATT TTGATT CT-ATT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
8437 TTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
8485 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 5 0.07
6 59 0.82
7 5 0.07
8 3 0.04
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:10490 original size:27 final size:27
Alignment explanation
Indices: 10457--10796 Score: 133
Period size: 27 Copynumber: 12.7 Consensus size: 27
10447 CCCCAGTTGC
* *
10457 AAAATTACCAAAGTACCCCCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTAT
* * *
10484 AAAATTACTAAAATACCGTCGA-TTGT
1 AAAATTACCAAAATACCCTCGATTTAT
* * *
10510 AAAATTACTAAAATGCCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTAT
* ***
10537 AGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTAT
*** * *
10564 -AAATTACC-GTTTCACCCTTGATTTAC
1 AAAATTACCAAAAT-ACCCTCGATTTAT
* ****
10590 AAAATTATCGTTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTAT
* *** *
10617 AGAATTACCATTTTACCCTC-AGTTTAC
1 AAAATTACCAAAATACCCTCGA-TTTAT
*** *
10644 AAAATTACCATTTTACCCTC-AGTTTAC
1 AAAATTACCAAAATACCCTCGA-TTTAT
**** *
10671 AAAATTACCGTTTTACCCTCGA-TTGT
1 AAAATTACCAAAATACCCTCGATTTAT
* ** **
10697 GAAATTACTGAAATACCC-CTG-TAGGAT
1 AAAATTACCAAAATACCCTC-GAT-TTAT
* *
10724 AGAATTACCAAAATACCC-CTGATTTGT
1 AAAATTACCAAAATACCCTC-GATTTAT
*
10751 AAAATTACCAAAATACCC-CTGATTTGT
1 AAAATTACCAAAATACCCTC-GATTTAT
* *
10778 GAAATTACCGAAATACCCT
1 AAAATTACCAAAATACCCT
10797 TGTAGGGTAG
Statistics
Matches: 254, Mismatches: 48, Indels: 21
0.79 0.15 0.07
Matches are distributed among these distances:
25 4 0.02
26 58 0.23
27 187 0.74
28 5 0.02
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTAT
Found at i:10518 original size:26 final size:27
Alignment explanation
Indices: 10432--10570 Score: 106
Period size: 27 Copynumber: 5.3 Consensus size: 27
10422 TCAGTTTACC
* * *
10432 AAATTACTGAAATATCCC-C-AGTTGCA
1 AAATTACTAAAATA-CCCTCGATTTGTA
* * * *
10458 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
*
10485 AAATTACTAAAATACCGTCGA-TTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
10511 AAATTACTAAAATGCCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *** *
10538 GAATTACCATTTTACCCTCGATTTAT-
1 AAATTACTAAAATACCCTCGATTTGTA
10564 AAATTAC
1 AAATTAC
10571 CGTTTCACCC
Statistics
Matches: 89, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
25 3 0.03
26 41 0.46
27 45 0.51
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:10647 original size:54 final size:54
Alignment explanation
Indices: 10539--10694 Score: 203
Period size: 54 Copynumber: 2.9 Consensus size: 54
10529 CGATTTGTAG
* *
10539 AATTACCATTTTACCCTCGATTTATAAATTACCGTTTCACCCT-TGATTTACAA
1 AATTACCATTTTACCCTCGATTTATAAATTACCGTTTTACCCTCAGATTTACAA
* * *
10592 AATTATCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAG-TTTACAA
1 AATTACCATTTTACCCTCGATTTATA-AATTACCGTTTTACCCTCAGATTTACAA
*
10646 AATTACCATTTTACCCTC-AGTTTACAAAATTACCGTTTTACCCTC-GATT
1 AATTACCATTTTACCCTCGA-TTTA-TAAATTACCGTTTTACCCTCAGATT
10695 GTGAAATTAC
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
53 26 0.29
54 61 0.69
55 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.40
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTATAAATTACCGTTTTACCCTCAGATTTACAA
Found at i:10684 original size:81 final size:80
Alignment explanation
Indices: 10525--10694 Score: 245
Period size: 81 Copynumber: 2.1 Consensus size: 80
10515 TACTAAAATG
* * * *
10525 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAAATTACCGTTTCACCCTTGATTTAC
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAAAAATTACCATTTCACCCTAGATTTAC
*
10590 AAAATTATCGTTTTA
66 AAAATTACCGTTTTA
*
10605 CCCTCGATTTATAGAATTACCATTTTACCCTC-AGTTTACAAAATTACCATTTTACCCTCAG-TT
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGA-TTTA-AAAATTACCATTTCACCCT-AGATT
10668 TACAAAATTACCGTTTTA
63 TACAAAATTACCGTTTTA
10686 CCCTCGATT
1 CCCTCGATT
10695 GTGAAATTAC
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
79 1 0.01
80 35 0.43
81 44 0.54
82 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (80 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAAAAATTACCATTTCACCCTAGATTTAC
AAAATTACCGTTTTA
Found at i:11011 original size:27 final size:27
Alignment explanation
Indices: 10699--11010 Score: 333
Period size: 27 Copynumber: 11.6 Consensus size: 27
10689 TCGATTGTGA
* *
10699 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** *
10726 AATTACCAAAATACCCCTG-ATTTGTAA
1 AATTACCGAAATACCCCTGTA-GGGTAG
* **
10753 AATTACCAAAATACCCCTG-ATTTGT-G
1 AATTACCGAAATACCCCTGTA-GGGTAG
*
10779 AAATTACCGAAATACCCTTGTAGGGTAG
1 -AATTACCGAAATACCCCTGTAGGGTAG
* *
10807 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
10834 AATTACCGAAATACCCCTATAGGGCAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
10861 AATTACCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
10888 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
10915 AATTATCGTAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
10942 AATTCCCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
10969 AATTACTAAAATACCTCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
10996 AATTATCGAGATACC
1 AATTACCGAAATACC
11011 TTGTGTGGTA
Statistics
Matches: 241, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.00
27 238 0.99
28 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:11506 original size:22 final size:22
Alignment explanation
Indices: 11454--11518 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
11444 TTAAAGCCTT
* *
11454 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
11476 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
11498 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
11519 ATGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:11707 original size:27 final size:27
Alignment explanation
Indices: 11677--11778 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
11667 ATTCTGTTAA
* *
11677 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
11704 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
* * *
11731 GTAGCTCTGCCACAATATCTATATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
11758 GTGTCTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
11779 ATAACTGAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.78
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:11955 original size:6 final size:6
Alignment explanation
Indices: 11938--12034 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
11928 ATTTTGTTAC
* * * *
11938 CTGATA CTGATT CTGATT TTGATT CT-ATT ACCTAATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
11987 TTGATT CT-ATCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
12035 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 6 0.08
6 57 0.79
7 5 0.07
8 4 0.06
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:11961 original size:31 final size:31
Alignment explanation
Indices: 11915--12026 Score: 161
Period size: 31 Copynumber: 3.6 Consensus size: 31
11905 TTGCATTCAC
* * *
11915 ATTCTGATTTTTGATTTTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTATTACCTAATACTG
11947 ATTCTGATTTTGATTCTATTACCTAATACTG
1 ATTCTGATTTTGATTCTATTACCTAATACTG
* *
11978 ATTCTGATTTTGATTCTATCACCTAATTCTG
1 ATTCTGATTTTGATTCTATTACCTAATACTG
*
12009 ATTCTGATTCTGATTCTA
1 ATTCTGATTTTGATTCTA
12027 GTTCTGATAA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
31 67 0.91
32 7 0.09
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTATTACCTAATACTG
Found at i:12697 original size:81 final size:82
Alignment explanation
Indices: 12601--12754 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 82
12591 ATATGGTCAC
* * *
12601 TAGCATAAATGCCTTCGGGACTTAGCCCGAATATAGTCGC-TAGCACAAATGCCTTC-GGATCTT
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGAATATAGTCGCTTAGCACAAAAGCCTTCGGGA-CTT
*
12664 AGTCCGGATGTAGTCGCT
65 AGCCCGGATGTAGTCGCT
*
12682 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTA
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGAATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTA
12747 GCCCGGAT
66 GCCCGGAT
12755 ATCATTCGAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 37 0.56
82 26 0.39
83 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (82 bp):
TAGCACAAAAGCCTTCGGGACTTAGCCCGAATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTA
GCCCGGATGTAGTCGCT
Found at i:12698 original size:41 final size:41
Alignment explanation
Indices: 12601--12756 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
12591 ATATGGTCAC
* * *
12601 TAGCATAAATGCCTTCGGGACTTAGCCCGAATATAGTCGC-
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCT
* * *
12641 TAGCACAAATGCCTTC-GGATCTTAGTCCGGATGTAGTCGCT
1 TAGCACAAAAGCCTTCGGGA-CTTAGCCCGGATATAGTCGCT
12682 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCT
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCT
12723 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
12757 CATTCGAGTA
Statistics
Matches: 106, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.03
40 32 0.30
41 68 0.64
42 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (41 bp):
TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCT
Found at i:20774 original size:41 final size:40
Alignment explanation
Indices: 20639--20783 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
20629 CTCGCACAAG
* * * *
20639 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
20679 GCCTTCGGGACTTAGCCCGGATTTAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
20719 GCCTTC-AGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
20760 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
20784 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 59 0.66
41 27 0.30
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:22913 original size:27 final size:27
Alignment explanation
Indices: 22883--22950 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
22873 AAACATAAGA
22883 GCATAATC-GTCATTCTACCATACAGGG
1 GCATAA-CGGTCATTCTACCATACAGGG
* * * *
22910 GCATTACGGTCATTTTTCCCTACAGGG
1 GCATAACGGTCATTCTACCATACAGGG
*
22937 GCATTACGGTCATT
1 GCATAACGGTCATT
22951 TTCCAAACTG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (27 bp):
GCATAACGGTCATTCTACCATACAGGG
Found at i:22964 original size:27 final size:27
Alignment explanation
Indices: 22904--22963 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
22894 ATTCTACCAT
**
22904 ACAGGGGCATTACGGTCATTTTTCCCT
1 ACAGGGGCATTACGGTCATTTTTCCAA
22931 ACAGGGGCATTACGGTCA-TTTTCCAA
1 ACAGGGGCATTACGGTCATTTTTCCAA
*
22957 ACTGGGG
1 ACAGGGG
22964 GTATTTATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 12 0.40
27 18 0.60
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (27 bp):
ACAGGGGCATTACGGTCATTTTTCCAA
Found at i:23352 original size:20 final size:19
Alignment explanation
Indices: 23310--23352 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
23300 CTGGCCTACG
* * *
23310 GGCCTATTCGGCCCATTAT
1 GGCCTATTAGGCCCATAAC
23329 GGCCTATTGAGGCCCATAAC
1 GGCCTATT-AGGCCCATAAC
23349 GGCC
1 GGCC
23353 CCAGTCCACG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.19, C:0.33, G:0.26, T:0.23
Consensus pattern (19 bp):
GGCCTATTAGGCCCATAAC
Found at i:27136 original size:50 final size:49
Alignment explanation
Indices: 26977--27201 Score: 288
Period size: 49 Copynumber: 4.5 Consensus size: 49
26967 CTGATATGCA
* * * *
26977 TAGTAGCCTGCACATAGCACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
*
27026 TAGTAGCCTGCACCTAGTACTACACACGTGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
* * ** *
27075 TAGTAACCTGCACTTAGTACTGCACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGGTACACG
* * * * *
27125 TTGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCTGGTACACG
27176 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
27202 TCCGACCTCA
Statistics
Matches: 152, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 75 0.49
50 41 0.27
51 35 0.23
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
Found at i:27144 original size:99 final size:101
Alignment explanation
Indices: 26975--27201 Score: 289
Period size: 99 Copynumber: 2.3 Consensus size: 101
26965 ATCTGATATG
* * * * ** * *
26975 CATAGTAGCCTGCACATAGCACTACACATGTGACC-AATTATCCGGTACACGTAGTAGCCTGCAC
1 CATAGTAACCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCAC
*
27039 CTAGTACTACACACGTGA-C-CAATTATCTGGTACA
66 CTAGTACTACACACGTGATCACAATTATCGGGTACA
* * *
27073 CGTAGTAACCTGCACTTAGTACTGCACACGTGACCTAACCATCTGATACACGTTGTAGCCTGCAC
1 CATAGTAACCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCAC
* * *
27138 TTAGTACTACACACGTGATCACAGTTATCGGGTACG
66 CTAGTACTACACACGTGATCACAATTATCGGGTACA
*
27174 CATAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAACCTGCACTTAGTACTACACA
27202 TCCGACCTCA
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 29 0.27
99 41 0.38
100 1 0.01
101 37 0.34
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAACCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCAC
CTAGTACTACACACGTGATCACAATTATCGGGTACA
Found at i:27714 original size:56 final size:56
Alignment explanation
Indices: 27628--27740 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
27618 TTTTCCAATA
27628 TATTAAATCATAAAATATATGCAATAATAGTAAGAAATATAATTCAAACATAACAT
1 TATTAAATCATAAAATATATGCAATAATAGTAAGAAATATAATTCAAACATAACAT
27684 TATTAAATCATAAAATATATGCAATAATAGTAAGAAATATAATTCAAACATAACAT
1 TATTAAATCATAAAATATATGCAATAATAGTAAGAAATATAATTCAAACATAACAT
27740 T
1 T
27741 GCATTATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.31
Consensus pattern (56 bp):
TATTAAATCATAAAATATATGCAATAATAGTAAGAAATATAATTCAAACATAACAT
Found at i:29665 original size:16 final size:16
Alignment explanation
Indices: 29646--29681 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
29636 GAAGTTTTAA
* *
29646 CTTTTTGACTTTTTGG
1 CTTTTCGACTTTTCGG
29662 CTTTTCGACTTTTCGG
1 CTTTTCGACTTTTCGG
29678 CTTT
1 CTTT
29682 CATCGATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.19, G:0.17, T:0.58
Consensus pattern (16 bp):
CTTTTCGACTTTTCGG
Found at i:31615 original size:48 final size:48
Alignment explanation
Indices: 31563--31831 Score: 378
Period size: 48 Copynumber: 5.6 Consensus size: 48
31553 TACCGAGGCT
* * * *
31563 GATGCCATATCCTAGATATGGTCTTACACTGGCACACACATCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGTC
* * * * *
31611 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATCAACGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGTC
* * * * *
31659 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAACGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGTC
* *
31707 GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGTC
31755 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATG-C
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGTC
31802 TGATGCCATGTCCCAGACATGGTCTTACAC
1 -GATGCCATGTCCCAGACATGGTCTTACAC
31832 AGGATCTCGT
Statistics
Matches: 201, Mismatches: 19, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
47 1 0.00
48 200 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGTC
Found at i:31663 original size:96 final size:96
Alignment explanation
Indices: 31518--31831 Score: 389
Period size: 96 Copynumber: 3.3 Consensus size: 96
31508 TCATATCAAC
* * ** * * * * * *
31518 GCCATATCCCAGATATGGTCTTACA-TGAAATCACATACCGAGGCTGATGCCATATCCTAGATAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCA-CACATATCAACGCTGATGCCATGTCCCAGACAT
*
31582 GGTCTTACACTGGCACACACATCAATGTCGAT
65 GGTCTTACACTGGCACACATATCAATGTCGAT
* * * *
31614 GCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATCAACGTTGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTGATGCCATGTCCCAGACATG
* * * * *
31679 GTCTTACACTAGCTCTCATATCAACGTTGAT
66 GTCTTACACTGGCACACATATCAATGTCGAT
* * *
31710 GCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAATGCCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTGATGCCATGTCCCAGACATG
31775 GTCTTACACTGGCACACATATCAATG-CTGAT
66 GTCTTACACTGGCACACATATCAATGTC-GAT
31806 GCCATGTCCCAGACATGGTCTTACAC
1 GCCATGTCCCAGACATGGTCTTACAC
31832 AGGATCTCGT
Statistics
Matches: 184, Mismatches: 32, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
96 182 0.99
97 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCTGATGCCATGTCCCAGACATG
GTCTTACACTGGCACACATATCAATGTCGAT
Found at i:31729 original size:144 final size:144
Alignment explanation
Indices: 31562--31831 Score: 441
Period size: 144 Copynumber: 1.9 Consensus size: 144
31552 ATACCGAGGC
* * * *
31562 TGATGCCATATCCTAGATATGGTCTTACACTGGCACACACATCAATGTCGATGCCATGTCCCAGA
1 TGATGCCATATCCCAAACATGGTCTTACACTGGCACACACATCAATGCCGATGCCATGTCCCAGA
* * * *
31627 CATGGTCTTACATTGGCTCTCATATCAACGTTGATGCCATGTCCCAGACATGGTCTTACACTAGC
66 CATGGTCTTACACTGGCACACATATCAACGCTGATGCCATGTCCCAGACATGGTCTTACACTAGC
31692 TCTCATATCAACGT
131 TCTCATATCAACGT
* *
31706 TGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAATGCCGATGCCATGTCCCAGA
1 TGATGCCATATCCCAAACATGGTCTTACACTGGCACACACATCAATGCCGATGCCATGTCCCAGA
*
31771 CATGGTCTTACACTGGCACACATATCAATGCTGATGCCATGTCCCAGACATGGTCTTACAC
66 CATGGTCTTACACTGGCACACATATCAACGCTGATGCCATGTCCCAGACATGGTCTTACAC
31832 AGGATCTCGT
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
144 115 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (144 bp):
TGATGCCATATCCCAAACATGGTCTTACACTGGCACACACATCAATGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGGCACACATATCAACGCTGATGCCATGTCCCAGACATGGTCTTACACTAGC
TCTCATATCAACGT
Found at i:36403 original size:40 final size:39
Alignment explanation
Indices: 36359--36543 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
36349 GCTACTTGTT
*
36359 CAAATGCCTTCGGGTCATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATT-TAGTAACTCGCA
*
36399 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATTTAGTAACTCGCA
* *
36439 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
36478 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATTTAGTAAC-TCGCA
36519 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
36544 CATCATTCGA
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
Found at i:36461 original size:79 final size:80
Alignment explanation
Indices: 36326--36541 Score: 223
Period size: 79 Copynumber: 2.7 Consensus size: 80
36316 AAATCACGTA
** * * *
36326 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTT-GTTCAAATGCCTTCGGGTCATAGCCCGATTA
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTTAGCACAAATGCCTTCGGGACTTAGCCCGAAT-
36387 TAGTAACTCGCACAAATG
63 TAGTAACTCGCACAAATG
* *
36405 CCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCC-GAATT
*
36467 AGTATCTCGCACAAATG
64 AGTAACTCGCACAAATG
** * *
36484 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCG
36542 GACATCATTC
Statistics
Matches: 116, Mismatches: 12, Indels: 18
0.79 0.08 0.12
Matches are distributed among these distances:
78 3 0.03
79 66 0.57
80 47 0.41
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGAATTAG
TAACTCGCACAAATG
Found at i:38034 original size:56 final size:56
Alignment explanation
Indices: 37967--38142 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
37957 TATTAGTTTA
*
37967 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
38023 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
38079 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
38135 TTGCCCAT
1 TTGCCCAT
38143 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:41393 original size:42 final size:42
Alignment explanation
Indices: 41346--41449 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 42
41336 TTGGCCAACC
* **
41346 CACACGCCCATGTGCCAGGCCTTGCAACTCTTGAAATGGCCT
1 CACACGCCCATGTGCCAGGCCGTGCAACTCTCAAAATGGCCT
* *
41388 CACACGCCCATGTGGCAGGCCGTGTAACTCTCAAAATGGCCT
1 CACACGCCCATGTGCCAGGCCGTGCAACTCTCAAAATGGCCT
* * * *
41430 TACACACCAATGTGTCAGGC
1 CACACGCCCATGTGCCAGGC
41450 GTTTGTTAGG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.24, C:0.34, G:0.22, T:0.20
Consensus pattern (42 bp):
CACACGCCCATGTGCCAGGCCGTGCAACTCTCAAAATGGCCT
Found at i:49192 original size:37 final size:37
Alignment explanation
Indices: 49120--49197 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
49110 TATTACGAAG
* * *
49120 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGA
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
* * *
49157 TCTTACCCGGACAAAATCCCCACATGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
49194 TCTT
1 TCTT
49198 TAGAGCTCGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
Found at i:49443 original size:49 final size:49
Alignment explanation
Indices: 49316--49830 Score: 858
Period size: 49 Copynumber: 10.8 Consensus size: 49
49306 CCCTTCGGGA
*
49316 CTTATCAC--ATATATACACTTTCACATTCATCACAACGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49363 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCAATAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49410 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49459 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49508 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49555 CTTATCACATATATATACACTTTGACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49604 CTTATCACATTTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49653 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49702 CTTATCAC--ATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49749 CTGATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49796 CTTATCTCATATAT-T-CA-TGTTCACATCCATCACAT
1 CTTATCACATATATATACACT-TTCACATTCATCACAT
49831 AGAATCCTAA
Statistics
Matches: 448, Mismatches: 13, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 206 0.46
48 1 0.00
49 240 0.54
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49577 original size:145 final size:143
Alignment explanation
Indices: 49316--49830 Score: 874
Period size: 145 Copynumber: 3.6 Consensus size: 143
49306 CCCTTCGGGA
*
49316 CTTATCACATATATACACTTTCACATTCATCACAACGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
49381 TTTCACATTCATCACATCGGCCAATAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
49446 TCGGCCATTAGGC
131 TCGGCCATTAGGC
49459 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
49524 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTGACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
49589 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
49604 CTTATCACATTTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
49669 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
*
49732 CATATCGGCCATTAGGC
127 CACATCGGCCATTAGGC
* * *
49749 CTGATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATTCA-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
49813 TGTTCACATCCATCACAT
66 T-TTCACATTCATCACAT
49831 AGAATCCTAA
Statistics
Matches: 356, Mismatches: 9, Indels: 16
0.93 0.02 0.04
Matches are distributed among these distances:
140 1 0.00
141 23 0.06
143 54 0.15
145 231 0.65
147 47 0.13
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:54678 original size:40 final size:40
Alignment explanation
Indices: 54619--54846 Score: 402
Period size: 40 Copynumber: 5.7 Consensus size: 40
54609 GAGCATTGGA
*
54619 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
54659 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
54699 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
54739 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
54779 ACATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
54819 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
54847 ATGTGTTTGC
Statistics
Matches: 180, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:63217 original size:40 final size:40
Alignment explanation
Indices: 63158--63385 Score: 402
Period size: 40 Copynumber: 5.7 Consensus size: 40
63148 GAGCATTGGA
*
63158 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
63198 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
63238 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
63278 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
63318 ACATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
63358 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
63386 ATGTGTTTGC
Statistics
Matches: 180, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:66027 original size:40 final size:40
Alignment explanation
Indices: 65995--66265 Score: 463
Period size: 40 Copynumber: 6.8 Consensus size: 40
65985 CCAGCATGAT
* * * *
65995 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
66035 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
66075 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
66115 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
66155 TGCTCTTCGGGACTTAGCCCGGATATATC-CTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
66194 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
66234 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
66266 CTCAATTCTC
Statistics
Matches: 218, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 39 0.18
40 179 0.82
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:66240 original size:119 final size:120
Alignment explanation
Indices: 65995--66265 Score: 463
Period size: 119 Copynumber: 2.3 Consensus size: 120
65985 CCAGCATGAT
* * * * **
65995 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCACGGATA
66060 TATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
66 TATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
66115 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCACGGATA
*
66180 TATC-CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
66 TATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
66234 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
66266 CTCAATTCTC
Statistics
Matches: 143, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 81 0.57
120 62 0.43
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (120 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCACGGATA
TATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:67544 original size:37 final size:37
Alignment explanation
Indices: 67484--67561 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
67474 TATTACGAAG
* * *
67484 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGA
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
* *
67521 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
67558 TCTT
1 TCTT
67562 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGA
Found at i:67854 original size:49 final size:49
Alignment explanation
Indices: 67681--68241 Score: 936
Period size: 47 Copynumber: 11.7 Consensus size: 49
67671 CCTTCGGGAA
* * * *
67681 TTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCTATTAGGCC
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
67728 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
67775 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
67822 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCC
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
67871 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
67920 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
67967 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
68016 TTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
68065 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
68114 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
68161 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
68208 TTATCTCATATAT-T-CA-TGTTCACATCCATCACAT
1 TTATCACATATATATACACT-TTCACATTCATCACAT
68242 AGAATCCTAA
Statistics
Matches: 495, Mismatches: 10, Indels: 18
0.95 0.02 0.03
Matches are distributed among these distances:
46 2 0.00
47 251 0.51
48 1 0.00
49 241 0.49
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.34
Consensus pattern (49 bp):
TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:67952 original size:145 final size:143
Alignment explanation
Indices: 67681--68241 Score: 943
Period size: 145 Copynumber: 3.9 Consensus size: 143
67671 CCTTCGGGAA
* * * *
67681 TTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCTATTAGGCCTTATCACATATATACA
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
67744 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
67809 CGGCCATTAGGCC
131 CGGCCATTAGGCC
*
67822 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATA
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
67887 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
64 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
67952 ATCGGCCATTAGGCC
129 ATCGGCCATTAGGCC
67967 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
*
68032 CATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
64 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
68097 ACATCGGCCATTAGGCC
127 ACATCGGCCATTAGGCC
68114 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* * *
68177 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATTCA-TGTTCACATCCATCACA
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACA
68241 T
130 T
68242 AGAATCCTAA
Statistics
Matches: 404, Mismatches: 9, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
140 1 0.00
141 32 0.08
142 1 0.00
143 86 0.21
145 237 0.59
147 47 0.12
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.34
Consensus pattern (143 bp):
TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCC
Found at i:73570 original size:41 final size:41
Alignment explanation
Indices: 73525--73621 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 41
73515 ATGGGTCTAT
* *
73525 TCACACAAGCTAACAGTCCGAACATAGCTACATGGTGTCGC
1 TCACACAAGCTAACAGTCCGAACATAGCTACATGGTGCCAC
* * *
73566 TCACACAAGCTAACTGTCCGAACGTAGCTACATGGTGCCAT
1 TCACACAAGCTAACAGTCCGAACATAGCTACATGGTGCCAC
*
73607 TCACACAAGTTAACA
1 TCACACAAGCTAACA
73622 AGTATCCGCA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.21
Consensus pattern (41 bp):
TCACACAAGCTAACAGTCCGAACATAGCTACATGGTGCCAC
Found at i:76898 original size:40 final size:40
Alignment explanation
Indices: 76831--77087 Score: 315
Period size: 40 Copynumber: 6.5 Consensus size: 40
76821 ACCCAAGTAT
*
76831 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
76870 CCTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
76910 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
76950 CTTCGGGACATAGCCCGGATATAGCAACTCGGACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
76990 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
77030 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
77070 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
77088 TTATCATCCG
Statistics
Matches: 183, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.08
40 164 0.90
41 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:76964 original size:80 final size:80
Alignment explanation
Indices: 76831--77087 Score: 394
Period size: 80 Copynumber: 3.2 Consensus size: 80
76821 ACCCAAGTAT
* * * * * *
76831 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCCTCGGGTCTTAGCCCAGATATA
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
76893 GCAACTCGCACAAATGC
64 GCAACTCGCACAAATGC
76910 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
*
76975 AACTCGGACAAATGC
66 AACTCGCACAAATGC
76990 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
77055 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* *
77070 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
77088 TTATCATCCG
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.07
80 152 0.92
81 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:80461 original size:39 final size:39
Alignment explanation
Indices: 80410--80487 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
80400 ATGTGTCACT
80410 ATAAATCACAAATTCTTTACTCGATTCTAGCTAAACTAA
1 ATAAATCACAAATTCTTTACTCGATTCTAGCTAAACTAA
80449 ATAAATCACAAATTCTTTACTCGATTCTAGCTAAACTAA
1 ATAAATCACAAATTCTTTACTCGATTCTAGCTAAACTAA
80488 CATTGGTGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (39 bp):
ATAAATCACAAATTCTTTACTCGATTCTAGCTAAACTAA
Found at i:85389 original size:7 final size:7
Alignment explanation
Indices: 85379--85411 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
85369 TTAAATCTGC
85379 TAAAAAA
1 TAAAAAA
85386 T-AAAAA
1 TAAAAAA
85392 TAAATAAA
1 TAAA-AAA
85400 TAAAAAA
1 TAAAAAA
85407 TAAAA
1 TAAAA
85412 GGTAGTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAAAAA
Found at i:89874 original size:21 final size:21
Alignment explanation
Indices: 89837--89876 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
89827 TCTTAAGTCT
*
89837 TGATGATGAATCTGGCTTCTA
1 TGATGATCAATCTGGCTTCTA
89858 TGATGGATCAATC-GGCTTC
1 TGAT-GATCAATCTGGCTTC
89877 CTTAGGGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (21 bp):
TGATGATCAATCTGGCTTCTA
Found at i:95389 original size:40 final size:40
Alignment explanation
Indices: 95326--95529 Score: 213
Period size: 40 Copynumber: 5.1 Consensus size: 40
95316 CGGAATTTAA
** *
95326 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
95366 CCGG-TCATGGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGAT-ATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
95406 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
95445 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
95485 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
95525 CCGGA
1 CCGGA
95530 CATCATTCGA
Statistics
Matches: 137, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 89 0.65
41 13 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:95462 original size:79 final size:79
Alignment explanation
Indices: 95347--95529 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 79
95337 TACTCGTTCA
* * *
95347 AATGCCTTCGGGACATAGCCCGGTCATGGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGG-AATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
95411 TTTAGTAAC-TCGCACC
64 TATAGTAACTTAGCA-C
* **
95427 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
95491 ATGGTCACTTAGCAC
65 ATAGTAACTTAGCAC
*
95506 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
95530 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 4 0.05
79 57 0.65
80 27 0.31
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
TAGTAACTTAGCAC
Found at i:105853 original size:21 final size:20
Alignment explanation
Indices: 105815--105858 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
105805 CCAGGATCAA
* *
105815 TTTAAAACAAAACAGAAAGT
1 TTTAAAAAAAAACAGAAAAT
*
105835 TTTAAAAAAAAACTTGAAAAT
1 TTTAAAAAAAAAC-AGAAAAT
105856 TTT
1 TTT
105859 GTAAATAGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (20 bp):
TTTAAAAAAAAACAGAAAAT
Found at i:113546 original size:40 final size:40
Alignment explanation
Indices: 113448--113710 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
113438 TCCTCGTTCA
* * * * * *
113448 AATGCCTTCGGGACATAGCCCGGTTTTAGTGACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
113487 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
113527 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
113567 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
113607 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
113647 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
113687 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
113711 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 36 0.18
40 155 0.78
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Done.