Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 102 of 349
Found at i:31894746 original size:40 final size:41
Alignment explanation
Indices: 31894661--31894795 Score: 179
Period size: 40 Copynumber: 3.3 Consensus size: 41
31894651 TGTTTGCTAA
*
31894661 AAAAACGCCGCTACTT-CTCAGTTTTTAGCGGCGTTTGGA-C
1 AAAAACGCCGCTA-TTACTCAGTTTTTAGCGGCGTTTTGAGC
*
31894701 TAAAAACGCCGCTATTACTCAG-TTTTAGCGGCATTTTGAGC
1 -AAAAACGCCGCTATTACTCAGTTTTTAGCGGCGTTTTGAGC
* *
31894742 AAAAACGCCGCTATTACTTAGTTTTTTAGCGGCGTTTTTAG-
1 AAAAACGCCGCTATTACTCAG-TTTTTAGCGGCGTTTTGAGC
31894783 AAAAACGCCGCTA
1 AAAAACGCCGCTA
31894796 ATGCATAATC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
40 37 0.44
41 32 0.38
42 16 0.19
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (41 bp):
AAAAACGCCGCTATTACTCAGTTTTTAGCGGCGTTTTGAGC
Found at i:31900439 original size:51 final size:51
Alignment explanation
Indices: 31900369--31900477 Score: 157
Period size: 51 Copynumber: 2.1 Consensus size: 51
31900359 AGCTATAGCA
* *
31900369 TCCATAAACACACCTAGGCACTGAGCG-TCAAGCCCGTAGGCTTCACATCCC
1 TCCAGAAACAAACCTAGGCACTGAGCGCT-AAGCCCGTAGGCTTCACATCCC
* * *
31900420 TCTAGAAACAAACCTAGGCACTGAGTGCTAAGCCTGTAGGCTTCACATCCC
1 TCCAGAAACAAACCTAGGCACTGAGCGCTAAGCCCGTAGGCTTCACATCCC
31900471 TCCAGAA
1 TCCAGAA
31900478 CACACTTGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.19
Consensus pattern (51 bp):
TCCAGAAACAAACCTAGGCACTGAGCGCTAAGCCCGTAGGCTTCACATCCC
Found at i:31907710 original size:7 final size:7
Alignment explanation
Indices: 31907698--31907748 Score: 102
Period size: 7 Copynumber: 7.3 Consensus size: 7
31907688 GAATCAAACC
31907698 CAGCAGG
1 CAGCAGG
31907705 CAGCAGG
1 CAGCAGG
31907712 CAGCAGG
1 CAGCAGG
31907719 CAGCAGG
1 CAGCAGG
31907726 CAGCAGG
1 CAGCAGG
31907733 CAGCAGG
1 CAGCAGG
31907740 CAGCAGG
1 CAGCAGG
31907747 CA
1 CA
31907749 AATAGAGAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.29, C:0.29, G:0.41, T:0.00
Consensus pattern (7 bp):
CAGCAGG
Found at i:31912386 original size:49 final size:49
Alignment explanation
Indices: 31912309--31912405 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
31912299 TCCTCTAAAT
* * *
31912309 ATATTTGAAAAAACTTAGAGATGATTAAGCATACTTGTAGTGGACACAG
1 ATATGTGAAAAAACTTAGAGATAATTAAGCATACTTGTAATGGACACAG
*
31912358 ATATGTGAAAAAACTTGGAGATAATTAAGCATACTTGTAATGGACACA
1 ATATGTGAAAAAACTTAGAGATAATTAAGCATACTTGTAATGGACACA
31912406 TACCCAGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (49 bp):
ATATGTGAAAAAACTTAGAGATAATTAAGCATACTTGTAATGGACACAG
Found at i:31915712 original size:5 final size:5
Alignment explanation
Indices: 31915702--31915729 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
31915692 AAGAAATTGT
31915702 TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
31915730 AAATAAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:31917493 original size:45 final size:45
Alignment explanation
Indices: 31917443--31917547 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
31917433 CCACTACTGT
* * *
31917443 TACTGTTA-TCATTACTGTTATCGATTCGGCATTTTGTGTGTCGAA
1 TACTGTTACT-ATTACCGTTATCGATTCAGCACTTTGTGTGTCGAA
* * * *
31917488 TACTGTTACTGTTACCGTTTTCGATTCAGTACTTTGTGTGTTGAA
1 TACTGTTACTATTACCGTTATCGATTCAGCACTTTGTGTGTCGAA
*
31917533 TACTGTTACTGTTAC
1 TACTGTTACTATTAC
31917548 TGTTTCAGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (45 bp):
TACTGTTACTATTACCGTTATCGATTCAGCACTTTGTGTGTCGAA
Found at i:31917930 original size:18 final size:18
Alignment explanation
Indices: 31917727--31917929 Score: 153
Period size: 18 Copynumber: 11.3 Consensus size: 18
31917717 TAACTGATTA
31917727 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
31917745 TTACCGAATAATTGACTG
1 TTACTGAATAATTGACTG
* * * *
31917763 TTACTGGACAATAGACTA
1 TTACTGAATAATTGACTG
* * *
31917781 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
* *
31917799 TTATTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
*
31917817 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
31917835 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
* *
31917853 TCACTGAATAAATGACTG
1 TTACTGAATAATTGACTG
* * *
31917871 TTATTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
* *
31917890 CTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
31917907 TTACTAAATAATTGACTG
1 TTACTGAATAATTGACTG
31917925 TTACT
1 TTACT
31917930 AGATAACTGA
Statistics
Matches: 148, Mismatches: 31, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
17 13 0.09
18 123 0.83
19 12 0.08
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:31918004 original size:18 final size:18
Alignment explanation
Indices: 31917981--31918015 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31917971 ATTGAACAAT
31917981 TGATTGTTACCGAATAAG
1 TGATTGTTACCGAATAAG
*
31917999 TGATTGTTACTGAATAA
1 TGATTGTTACCGAATAA
31918016 ATAATTGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (18 bp):
TGATTGTTACCGAATAAG
Found at i:31918022 original size:18 final size:18
Alignment explanation
Indices: 31917983--31918028 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
31917973 TGAACAATTG
* * *
31917983 ATTGTTACCGAATAAGTG
1 ATTGTTACTGAATAAATA
31918001 ATTGTTACTGAATAAATA
1 ATTGTTACTGAATAAATA
31918019 ATTGTT-CTGA
1 ATTGTTACTGA
31918029 TTGTTAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (18 bp):
ATTGTTACTGAATAAATA
Found at i:31919537 original size:57 final size:57
Alignment explanation
Indices: 31919412--31919543 Score: 151
Period size: 57 Copynumber: 2.3 Consensus size: 57
31919402 TCTTTCAGGT
* * * *
31919412 TATTTCCATTTTCATTTTGGAGAAAACCATATTTATTTTCAAATGATTTAATTTCTC
1 TATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGATTCAATTTCTC
* * * *
31919469 TGTTTTCATTTTTATTTT-GATGAAAATCATAATCATTTTCAAATGATTCCAGTTT-TC
1 TATTTTCATTTTCATTTTGGA-GAAAACCATAATCATTTTCAAATGATT-CAATTTCTC
*
31919526 TATTTTTATTTTCATTTT
1 TATTTTCATTTTCATTTT
31919544 CAAAAAAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
56 2 0.03
57 56 0.90
58 4 0.06
ACGTcount: A:0.27, C:0.12, G:0.07, T:0.54
Consensus pattern (57 bp):
TATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGATTCAATTTCTC
Found at i:31922321 original size:43 final size:43
Alignment explanation
Indices: 31922260--31922347 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
31922250 TCAATTTTGG
31922260 ACTCCTAGTGTCATTAGGTTTGCTTTGCTAGATTGATTCTTAC
1 ACTCCTAGTGTCATTAGGTTTGCTTTGCTAGATTGATTCTTAC
*
31922303 ACTCCTAGTGTCATTAGGTTTGCTTTGTTAGATTGATTCTTAC
1 ACTCCTAGTGTCATTAGGTTTGCTTTGCTAGATTGATTCTTAC
31922346 AC
1 AC
31922348 ATTTTGATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.44
Consensus pattern (43 bp):
ACTCCTAGTGTCATTAGGTTTGCTTTGCTAGATTGATTCTTAC
Found at i:31924988 original size:27 final size:27
Alignment explanation
Indices: 31924950--31925007 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
31924940 GAGTTAATAA
31924950 AATTCTCTTTGAGTTTTTCTTTT-AAAG
1 AATTCTCTTTGAG-TTTTCTTTTGAAAG
*
31924977 AATTC-CTCTTGAGTTTTCTTTTGGAAG
1 AATTCTCT-TTGAGTTTTCTTTTGAAAG
31925004 AATT
1 AATT
31925008 TTAATAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (27 bp):
AATTCTCTTTGAGTTTTCTTTTGAAAG
Found at i:31925957 original size:47 final size:47
Alignment explanation
Indices: 31925888--31925982 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
31925878 ATTTATAGAG
* *
31925888 ATAAAATTTAGAATTCTAATTCTAATAGACACCAAAATGCTAAAACT
1 ATAAAATATAGAATTCTAATTCTAATAGACACCAAAATACTAAAACT
* *
31925935 ATAAAATATAGAATTCTAATTCTAATAGGCATCAAAATACTAAAACT
1 ATAAAATATAGAATTCTAATTCTAATAGACACCAAAATACTAAAACT
31925982 A
1 A
31925983 AAATTTTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (47 bp):
ATAAAATATAGAATTCTAATTCTAATAGACACCAAAATACTAAAACT
Found at i:31927218 original size:19 final size:19
Alignment explanation
Indices: 31927181--31927244 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 19
31927171 TTTTTCGATA
* **
31927181 AAAATACATAAGATTTTAT
1 AAAATACATAAAAAATTAT
*
31927200 AAAATACATATAAAATTAT
1 AAAATACATAAAAAATTAT
31927219 AAAAAATACATAAAAAATTA-
1 --AAAATACATAAAAAATTAT
31927239 AAAATA
1 AAAATA
31927245 AATGAATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 6 0.16
19 15 0.39
21 17 0.45
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAATACATAAAAAATTAT
Found at i:31927224 original size:21 final size:20
Alignment explanation
Indices: 31927200--31927242 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
31927190 AAGATTTTAT
*
31927200 AAAATACATATAAAATTATAA
1 AAAATACATAAAAAATTA-AA
31927221 AAAATACATAAAAAATTAAA
1 AAAATACATAAAAAATTAAA
31927241 AA
1 AA
31927243 TAAATGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATACATAAAAAATTAAA
Found at i:31932712 original size:22 final size:22
Alignment explanation
Indices: 31932654--31932800 Score: 70
Period size: 22 Copynumber: 6.6 Consensus size: 22
31932644 TTTGCAGGTT
* *
31932654 TTTGGTGCTA-TTTTGGTGTTG
1 TTTGGTGCTATTTTTTGTGCTG
* *
31932675 TTGGTGATGCTGTTTTTTGTGCTG
1 TT--TGGTGCTATTTTTTGTGCTG
**
31932699 TTTGGTGCTATTTTTTGTATTG
1 TTTGGTGCTATTTTTTGTGCTG
* * *
31932721 TTTGGTGTTGTTTTAT-TGCTG
1 TTTGGTGCTATTTTTTGTGCTG
* * *
31932742 TGTTAGTG-T-TGTTTTGTTGTTG
1 T-TTGGTGCTATTTTTTG-TGCTG
* *
31932764 TTTTGGTGCTA-TGTTGGTGCTG
1 -TTTGGTGCTATTTTTTGTGCTG
*
31932786 TTTTGTTGCTATTTT
1 -TTTGGTGCTATTTT
31932801 GGTACTATTT
Statistics
Matches: 92, Mismatches: 24, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
20 4 0.04
21 7 0.08
22 57 0.62
23 13 0.14
24 11 0.12
ACGTcount: A:0.05, C:0.05, G:0.29, T:0.60
Consensus pattern (22 bp):
TTTGGTGCTATTTTTTGTGCTG
Found at i:31932765 original size:33 final size:33
Alignment explanation
Indices: 31932721--31932793 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
31932711 TTTTGTATTG
* * * *
31932721 TTTGGTGTTGTTTTATTGCTGTGTTAGTGTTGT
1 TTTGTTGTTGTTTTAGTGCTATGTTAGTGCTGT
* *
31932754 TTTGTTGTTGTTTTGGTGCTATGTTGGTGCTGT
1 TTTGTTGTTGTTTTAGTGCTATGTTAGTGCTGT
31932787 TTTGTTG
1 TTTGTTG
31932794 CTATTTTGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.04, C:0.04, G:0.32, T:0.60
Consensus pattern (33 bp):
TTTGTTGTTGTTTTAGTGCTATGTTAGTGCTGT
Found at i:31932780 original size:11 final size:11
Alignment explanation
Indices: 31932764--31932822 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
31932754 TTTGTTGTTG
31932764 TTTTGGTGCTA
1 TTTTGGTGCTA
* *
31932775 TGTTGGTGCTG
1 TTTTGGTGCTA
*
31932786 TTTTGTTGCTA
1 TTTTGGTGCTA
*
31932797 TTTTGGTACTA
1 TTTTGGTGCTA
* *
31932808 TTTTGTTACTA
1 TTTTGGTGCTA
31932819 TTTT
1 TTTT
31932823 TATATTTAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.10, C:0.08, G:0.22, T:0.59
Consensus pattern (11 bp):
TTTTGGTGCTA
Found at i:31932801 original size:33 final size:33
Alignment explanation
Indices: 31932737--31932808 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
31932727 GTTGTTTTAT
* * * *
31932737 TGCTGTGTTAGTGTTGTTTTGTTGTTGTTTTGG
1 TGCTATGTTAGTGCTGTTTTGTTGCTATTTTGG
*
31932770 TGCTATGTTGGTGCTGTTTTGTTGCTATTTTGG
1 TGCTATGTTAGTGCTGTTTTGTTGCTATTTTGG
*
31932803 TACTAT
1 TGCTAT
31932809 TTTGTTACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.07, C:0.07, G:0.29, T:0.57
Consensus pattern (33 bp):
TGCTATGTTAGTGCTGTTTTGTTGCTATTTTGG
Found at i:31932802 original size:22 final size:22
Alignment explanation
Indices: 31932753--31932822 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
31932743 GTTAGTGTTG
* * *
31932753 TTTTGTTGTTGTTTTGGTGCTA
1 TTTTGGTGCTGTTTTGTTGCTA
*
31932775 TGTTGGTGCTGTTTTGTTGCTA
1 TTTTGGTGCTGTTTTGTTGCTA
* * *
31932797 TTTTGGTACTATTTTGTTACTA
1 TTTTGGTGCTGTTTTGTTGCTA
31932819 TTTT
1 TTTT
31932823 TATATTTAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.09, C:0.07, G:0.23, T:0.61
Consensus pattern (22 bp):
TTTTGGTGCTGTTTTGTTGCTA
Found at i:31933868 original size:12 final size:11
Alignment explanation
Indices: 31933851--31933883 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
31933841 TTATTTGTTT
31933851 TTTGTTTTAATA
1 TTTGTTTTAA-A
31933863 TTTGTTTTAAA
1 TTTGTTTTAAA
31933874 TTT-TTTTAAA
1 TTTGTTTTAAA
31933884 ATGAAATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 4 0.19
12 10 0.48
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (11 bp):
TTTGTTTTAAA
Found at i:31941865 original size:124 final size:124
Alignment explanation
Indices: 31941629--31941927 Score: 377
Period size: 124 Copynumber: 2.4 Consensus size: 124
31941619 GGGCTTAACC
* * * *
31941629 CTGCAAGCTCTTAGAATA-TCGATTGGGAGCGTAGGTCCGCTAACTGTTTTTAGAGGTTGCGATC
1 CTGCAAGCTCTTAGAATATTAG-CTGGGAGCGTAGGTCCGCTAGCTGTTTTTAGAGGTTGCGACC
** *
31941693 ATGTACCGACAAACCTTTATAACATCAGCTGGAAACGTAAGTCCGCTAGCTA-TGTTGGAG
65 ATAAACCGACAAACCTTTATAACATCAGCTGGAAACATAAGTCCGCTAG-TAGTGTTGGAG
* * * * * *
31941753 CTGCGAGCTCTTAGAATATTAGCTGTGAGCATAGGTCCGCTAGTTGTTTTTTGAGGTTGTGACCA
1 CTGCAAGCTCTTAGAATATTAGCTGGGAGCGTAGGTCCGCTAGCTGTTTTTAGAGGTTGCGACCA
* * * * *
31941818 TAAACCGGCAAACCTTTATAACATCAGCTGGGAACATAGGTCTGCTAGTAGTGTTTGAG
66 TAAACCGACAAACCTTTATAACATCAGCTGGAAACATAAGTCCGCTAGTAGTGTTGGAG
* * *
31941877 CTGTAAGCTCTTAGAATATTAGCTGGGAGTGTAGGTCTGCTAGCTGTTTTT
1 CTGCAAGCTCTTAGAATATTAGCTGGGAGCGTAGGTCCGCTAGCTGTTTTT
31941928 GAAGGTTACA
Statistics
Matches: 148, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
123 2 0.01
124 144 0.97
125 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (124 bp):
CTGCAAGCTCTTAGAATATTAGCTGGGAGCGTAGGTCCGCTAGCTGTTTTTAGAGGTTGCGACCA
TAAACCGACAAACCTTTATAACATCAGCTGGAAACATAAGTCCGCTAGTAGTGTTGGAG
Found at i:31942646 original size:16 final size:16
Alignment explanation
Indices: 31942625--31942669 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
31942615 CTTAATTTCT
31942625 TAATTATTATATTATA
1 TAATTATTATATTATA
* *
31942641 TAATTATTATTTTATT
1 TAATTATTATATTATA
*
31942657 TAAATTATAATAT
1 T-AATTATTATAT
31942670 GAATTATAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATTATTATATTATA
Found at i:31942835 original size:3 final size:3
Alignment explanation
Indices: 31942829--31942854 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
31942819 AATAATAATA
31942829 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
31942855 GAAATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:31956530 original size:3 final size:3
Alignment explanation
Indices: 31956522--31956573 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
31956512 TAAAAAGTTG
31956522 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
31956570 ATA A
1 ATA A
31956574 AGTAAGGACA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:31958856 original size:20 final size:19
Alignment explanation
Indices: 31958821--31958858 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
31958811 ATTTTTATTT
*
31958821 AAAAAAATTAATAATGAAA
1 AAAAAAATGAATAATGAAA
31958840 AAAAAAATGAATGAATGAA
1 AAAAAAATGAAT-AATGAA
31958859 GTCAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (19 bp):
AAAAAAATGAATAATGAAA
Found at i:31965454 original size:25 final size:25
Alignment explanation
Indices: 31965416--31965483 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 25
31965406 AGACATACCA
31965416 CAGCTCGTATGAGCTTACCGATTTG
1 CAGCTCGTATGAGCTTACCGATTTG
31965441 CAGCTCGTGA-GAGCTTACCGATTCT-
1 CAGCTCGT-ATGAGCTTACCGATT-TG
*
31965466 CAGTTCGTATGAGCTTAC
1 CAGCTCGTATGAGCTTAC
31965484 TTGTAATAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
24 1 0.03
25 36 0.92
26 2 0.05
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.31
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTTG
Found at i:31966748 original size:44 final size:42
Alignment explanation
Indices: 31966687--31966846 Score: 205
Period size: 44 Copynumber: 3.7 Consensus size: 42
31966677 TTTACGTGTA
*
31966687 AAGATCATATCTGGGATATGGCATTGATATGAGACTTCATGTT
1 AAGACCATATCTGGGATATGGCATTGATATGAGACTTCATG-T
31966730 AAAGACCATATCTGGGATATGGCATTGATATGAGACTTCATGT
1 -AAGACCATATCTGGGATATGGCATTGATATGAGACTTCATGT
* * * * *
31966773 AAGACCATAGCTGGGCTATTGGCATTGATATAAG-GTCCCATGT
1 AAGACCATATCTGGGATA-TGGCATTGATATGAGACT-TCATGT
* *
31966816 AAGACCATCTCTGGGATATGGCATTGGTATG
1 AAGACCATATCTGGGATATGGCATTGATATG
31966847 GTACTATGTA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
42 28 0.27
43 35 0.34
44 40 0.39
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (42 bp):
AAGACCATATCTGGGATATGGCATTGATATGAGACTTCATGT
Found at i:31974549 original size:43 final size:43
Alignment explanation
Indices: 31974501--31974588 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
31974491 CCTAAGACAC
*
31974501 GGGTGTGTCTCTTGGACGTGTAAGTCACACAGCCTGGTCACAT
1 GGGTGTGTCTCTTGGACATGTAAGTCACACAGCCTGGTCACAT
* * * *
31974544 GGGTGTGTCTTTTGGACATGTGAGTCAGACGGCCTGGTCACAT
1 GGGTGTGTCTCTTGGACATGTAAGTCACACAGCCTGGTCACAT
31974587 GG
1 GG
31974589 TCGTGTGACC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.28
Consensus pattern (43 bp):
GGGTGTGTCTCTTGGACATGTAAGTCACACAGCCTGGTCACAT
Found at i:31977213 original size:40 final size:40
Alignment explanation
Indices: 31977144--31977224 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
31977134 TTTTATCTGA
* * *
31977144 ATTTTTGTAAATATTTTGTAGTGTTAATTATAAGTTTTAT
1 ATTTTTGTAAATATTTTGTAGTATCAATTATAAGTCTTAT
* * * *
31977184 ATTTTTGTGAATCTTTTGTATTATCAATTATAGGTCTTAT
1 ATTTTTGTAAATATTTTGTAGTATCAATTATAAGTCTTAT
31977224 A
1 A
31977225 AATTTTTTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.56
Consensus pattern (40 bp):
ATTTTTGTAAATATTTTGTAGTATCAATTATAAGTCTTAT
Found at i:31977303 original size:36 final size:34
Alignment explanation
Indices: 31977217--31977376 Score: 112
Period size: 34 Copynumber: 4.7 Consensus size: 34
31977207 TCAATTATAG
* * ** *
31977217 GTCTTATAAATTTT-TTTCATTTTTTAATTTTAA
1 GTCTTATTACTTTTGTTTCATTTAGTAGTTTTAA
**
31977250 GTCTTATTAGC-AGTGTTTCTACTATTAG-AGTTTTAA
1 GTCTTATTA-CTTTTGTTTC-A-T-TTAGTAGTTTTAA
*
31977286 GTCTTATTACTTTTGTTTCATTTTGTAGTTTTAA
1 GTCTTATTACTTTTGTTTCATTTAGTAGTTTTAA
* **
31977320 CTCTTATTA-TATTTGTTTCATTTTTTAGTTTTAA
1 GTCTTATTACT-TTTGTTTCATTTAGTAGTTTTAA
* * * *
31977354 GCCTTATCATTTTTGTTCCATTT
1 GTCTTATTACTTTTGTTTCATTT
31977377 TGGTGAATAT
Statistics
Matches: 102, Mismatches: 16, Indels: 17
0.76 0.12 0.13
Matches are distributed among these distances:
33 13 0.13
34 60 0.59
35 4 0.04
36 23 0.23
37 2 0.02
ACGTcount: A:0.21, C:0.11, G:0.09, T:0.59
Consensus pattern (34 bp):
GTCTTATTACTTTTGTTTCATTTAGTAGTTTTAA
Found at i:31977325 original size:34 final size:33
Alignment explanation
Indices: 31977278--31977378 Score: 123
Period size: 34 Copynumber: 3.0 Consensus size: 33
31977268 CTACTATTAG
*
31977278 AGTTTTAAGTCTTATTACTTTTGTTTCATTTTGT
1 AGTTTTAACTCTTATTA-TTTTGTTTCATTTTGT
*
31977312 AGTTTTAACTCTTATTATATTTGTTTCATTTTTT
1 AGTTTTAACTCTTATTAT-TTTGTTTCATTTTGT
* *
31977346 AGTTTTAAGC-CTTATCATTTTTGTTCCATTTTG
1 AGTTTTAA-CTCTTATTA-TTTTGTTTCATTTTG
31977379 GTGAATATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
33 1 0.02
34 56 0.95
35 2 0.03
ACGTcount: A:0.19, C:0.11, G:0.10, T:0.60
Consensus pattern (33 bp):
AGTTTTAACTCTTATTATTTTGTTTCATTTTGT
Found at i:31977337 original size:70 final size:68
Alignment explanation
Indices: 31977217--31977378 Score: 157
Period size: 68 Copynumber: 2.4 Consensus size: 68
31977207 TCAATTATAG
* *
31977217 GTCTTATAAATTTT-TTTCATTTTTTAATTTTAAGTCTTATTAGCAGTGTTTCTACTATTAGAGT
1 GTCTTATAAATTTTGTTTCATTTTGTAATTTTAACTCTTATTAGCAGTGTTTC-A-TATTAGAGT
31977281 TTTAA
64 TTTAA
* * * * * * **
31977286 GTCTTATTACTTTTGTTTCATTTTGTAGTTTTAACTCTTATTA-TATTTGTTTCATTTTTTAGTT
1 GTCTTATAAATTTTGTTTCATTTTGTAATTTTAACTCTTATTAGCA-GTGTTTCATATTAGAGTT
31977350 TTAA
65 TTAA
* * * *
31977354 GCCTTATCATTTTTGTTCCATTTTG
1 GTCTTATAAATTTTGTTTCATTTTG
31977379 GTGAATATTT
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
68 32 0.42
69 14 0.18
70 31 0.40
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (68 bp):
GTCTTATAAATTTTGTTTCATTTTGTAATTTTAACTCTTATTAGCAGTGTTTCATATTAGAGTTT
TAA
Found at i:31980975 original size:23 final size:22
Alignment explanation
Indices: 31980936--31980978 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
31980926 ATTGAAGAAA
31980936 AATTCAAATTTTGAGTTAAACG
1 AATTCAAATTTTGAGTTAAACG
31980958 AATT-AAATTATTCGAGTTAAA
1 AATTCAAATT-TT-GAGTTAAA
31980979 TAAGTTATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (22 bp):
AATTCAAATTTTGAGTTAAACG
Found at i:31981817 original size:6 final size:6
Alignment explanation
Indices: 31981803--31981836 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
31981793 ATTCGATTCG
* *
31981803 ATTCGA ATTCAA ATTCAA ATTCGA ATTCAA ATTC
1 ATTCAA ATTCAA ATTCAA ATTCAA ATTCAA ATTC
31981837 CATCTCACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (6 bp):
ATTCAA
Found at i:31986188 original size:54 final size:52
Alignment explanation
Indices: 31986061--31986203 Score: 180
Period size: 53 Copynumber: 2.7 Consensus size: 52
31986051 AAAGGAGGGA
31986061 AGCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTTTCAAAAAAAAATGGG
1 AGCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGAC-TTCAAAAAAAAATGGG
* * * * *
31986114 GGGCAAAGTGAAAACCCGCAAAGGGCACTTTGATAC-TCAAATAAAAATGGAAAG
1 AGCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTTCAAAAAAAAATGG---G
* *
31986168 AGCCAAAGTGAAAACTCGCAAAGGACGCTTTGAGAC
1 AGCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGAC
31986204 CTAATAATAA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
51 13 0.17
53 32 0.42
54 31 0.41
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (52 bp):
AGCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTTCAAAAAAAAATGGG
Found at i:31987617 original size:178 final size:178
Alignment explanation
Indices: 31987318--31988117 Score: 1379
Period size: 178 Copynumber: 4.5 Consensus size: 178
31987308 ATTGGTAAAG
* * * * ** * *
31987318 ATTGAAGATCTTATTTCCCTTAAGTTGCAGTGGAATAGATCCTCGCAGATGGAATCTTATCTTCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
* * * *
31987383 TGTATCGGCAA-TGGAGAAGATTTCACCACCAAGCCCTATCTCTCTGAGGTAGCAAGAGAGCAGG
66 TGTATCGGCAAGT-GAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGG
* *
31987447 TTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
130 TTGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
31987496 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
* *
31987561 TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
66 TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
31987626 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
*
31987674 ATTGAAGATTTTATCTCCCTAAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
* *
31987739 TGTATCGACAAGGGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
66 TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
31987804 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
31987852 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
*
31987917 TGTATCGGCAAGGGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
66 TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
31987982 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
*
31988030 ATTGAAGATTTTATCTCCCTGAAGATGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
31988095 TGTATCGGCAA-TGGAGCAGATTT
66 TGTATCGGCAAGT-GAGCAGATTT
31988118 AATCTCGTCT
Statistics
Matches: 599, Mismatches: 21, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
178 598 1.00
179 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (178 bp):
ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
Found at i:31987651 original size:43 final size:46
Alignment explanation
Indices: 31987596--31987689 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 46
31987586 CCACCAAGCC
*
31987596 TTATC-TCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGAA-TG-A-ATT
1 TTATCTTCTCTGAGGTAGCAAGGA-AGCAGATTG-AGAATTGAAGATT
31987639 TTATCTTC-CTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
1 TTATCTTCTCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
31987684 TTATCT
1 TTATCT
31987690 CCCTAAAGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
42 4 0.09
43 27 0.60
44 5 0.11
45 9 0.20
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (46 bp):
TTATCTTCTCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
Found at i:31987835 original size:43 final size:45
Alignment explanation
Indices: 31987774--31988051 Score: 126
Period size: 43 Copynumber: 6.3 Consensus size: 45
31987764 CCACCAAGCC
*
31987774 TTATCTCTCC-GAGGTAGCAAGAGAA-CAGGTTGAAGAA-TG-A-ATT
1 TTATCT-TCCTGAGGTAGCAAG-GAAGCAGATTG-AGAATTGAAGATT
31987817 TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
1 TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
* * * * * *
31987862 TTATCTCCCTGAAGTTGC-AGCGGAGCAGATCTTCGCAG-A-TGGA-ATC
1 TTATCTTCCTGAGGTAGCAAG-GAAGCAGA--TT-G-AGAATTGAAGATT
* * * ** ** **
31987908 TTATC-TCCATGTA--TCGGCAAGGGAGCAGATTTCACCA-CCAAG-CC
1 TTATCTTCC-TG-AGGT-AGCAAGGAAGCAGA-TTGAGAATTGAAGATT
*
31987952 TTATCTCTCC-GAGGTAGCAAGAGAA-CAGGTTGAAGAA-TG-A-ATT
1 TTATCT-TCCTGAGGTAGCAAG-GAAGCAGATTG-AGAATTGAAGATT
31987995 TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
1 TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
*
31988040 TTATCTCCCTGA
1 TTATCTTCCTGA
31988052 AGATGCAGCG
Statistics
Matches: 179, Mismatches: 28, Indels: 54
0.69 0.11 0.21
Matches are distributed among these distances:
42 20 0.11
43 55 0.31
44 23 0.13
45 47 0.26
46 22 0.12
47 8 0.04
48 2 0.01
49 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (45 bp):
TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
Found at i:32001986 original size:54 final size:52
Alignment explanation
Indices: 32001860--32002001 Score: 187
Period size: 54 Copynumber: 2.7 Consensus size: 52
32001850 AGGGAGGGAA
*
32001860 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTTTCAAAAAAAAATGGGG
1 GCCAAAGTGAAAACCCGCAAAGGACGCTTTGAGAC-TTCAAAAAAAAATGGGG
* * * *
32001913 GGCAAAGTGAAAACCCGCAAAGGACACTTTGATAC-TCAAATAAAAATGGAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGACGCTTTGAGACTTCAAAAAAAAATGG---GG
*
32001967 GCCAAAGTGAAAACTCGCAAAGGACGCTTTGAGAC
1 GCCAAAGTGAAAACCCGCAAAGGACGCTTTGAGAC
32002002 CCAATAATAA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
51 13 0.17
53 31 0.40
54 33 0.43
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.15
Consensus pattern (52 bp):
GCCAAAGTGAAAACCCGCAAAGGACGCTTTGAGACTTCAAAAAAAAATGGGG
Found at i:32003418 original size:178 final size:178
Alignment explanation
Indices: 32003118--32003915 Score: 1352
Period size: 178 Copynumber: 4.5 Consensus size: 178
32003108 ATTGGTAAAG
* * * ** * *
32003118 ATTGAAGATCTTATTTCCCTGAAGTTGCAGTGGAATAGATCCTCGCAGATGGAATCTTATCTTCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
* * * * *
32003183 TGTATCGGCAA-TGGAGAAGATTTCACCACCAAGCCCTATCTCTCTGAGGTCGCAAGAGAGCAGG
66 TGTATCGGCAAGT-GAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGG
* *
32003247 TTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
130 TTGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
32003296 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
* *
32003361 TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
66 TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
32003426 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
32003474 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
*
32003539 TGTATC-GCAAG-GAGCAGATTTCACCACCAAGCCTTATCTCTCCAAGGTAGCAAGAGAACAGGT
66 TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
*
32003602 TGAAGAATGAATTTTATCTTTCTGAGGTAGCAAGGAAGCAGATTGAGA
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
32003650 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
*
32003715 TGTATCGGCAAGGGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
66 TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
*
32003780 TGAAGAATGAATTTTATCTTCCCGAGGTAGCAAGGAAGCAGATTGAGA
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
*
32003828 ATTGAAGATTTTATCTCCCTGAAGATGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
*
32003893 TGTATCGGTAA-TGGAGCAGATTT
66 TGTATCGGCAAGT-GAGCAGATTT
32003916 AATCTCGTCT
Statistics
Matches: 594, Mismatches: 22, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
176 167 0.28
177 10 0.02
178 416 0.70
179 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (178 bp):
ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
Found at i:32003451 original size:43 final size:45
Alignment explanation
Indices: 32003396--32003495 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 45
32003386 CCACCAAGCC
*
32003396 TTATC-TCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGAA-TG-A-ATT
1 TTATCTTC-CTGAGGTAGCAAGGA-AGCAGATTG-AGAATTGAAGATT
32003439 TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
1 TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
*
32003484 TTATCTCCCTGA
1 TTATCTTCCTGA
32003496 AGTTGCAGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
42 4 0.08
43 27 0.54
44 5 0.10
45 14 0.28
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (45 bp):
TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
Found at i:32003769 original size:354 final size:356
Alignment explanation
Indices: 32003118--32003915 Score: 1384
Period size: 354 Copynumber: 2.2 Consensus size: 356
32003108 ATTGGTAAAG
* * * ** * *
32003118 ATTGAAGATCTTATTTCCCTGAAGTTGCAGTGGAATAGATCCTCGCAGATGGAATCTTATCTTCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
* ** * *
32003183 TGTATCGGCAATGGAGAAGATTTCACCACCAAGCCCTATCTCTCTGAGGTCGCAAGAGAGCAGGT
66 TGTATCGGCAATGGAGCAGATTTCACCACCAAGCCCTATCTCTCCAAGGTAGCAAGAGAACAGGT
*
32003248 TGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATTTTATCTC
131 TGAAGAATGAATCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATTTTATCTC
*
32003313 CCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCATGTATCGGCAAGTGAGC
196 CCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCATGTATCGGCAAGGGAGC
* *
32003378 AGATTTCACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAATTTTAT
261 AGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGTTGAAGAATGAATTTTAT
*
32003443 CTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
326 CTTCCCGAGGTAGCAAGGAAGCAGATTGAGA
32003474 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
*
32003539 TGTATC-GCAA-GGAGCAGATTTCACCACCAAGCCTTATCTCTCCAAGGTAGCAAGAGAACAGGT
66 TGTATCGGCAATGGAGCAGATTTCACCACCAAGCCCTATCTCTCCAAGGTAGCAAGAGAACAGGT
* *
32003602 TGAAGAATGAATTTTATCTTTCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATTTTATCTC
131 TGAAGAATGAATCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATTTTATCTC
32003667 CCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCATGTATCGGCAAGGGAGC
196 CCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCATGTATCGGCAAGGGAGC
32003732 AGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGTTGAAGAATGAATTTTAT
261 AGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGTTGAAGAATGAATTTTAT
32003797 CTTCCCGAGGTAGCAAGGAAGCAGATTGAGA
326 CTTCCCGAGGTAGCAAGGAAGCAGATTGAGA
*
32003828 ATTGAAGATTTTATCTCCCTGAAGATGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
*
32003893 TGTATCGGTAATGGAGCAGATTT
66 TGTATCGGCAATGGAGCAGATTT
32003916 AATCTCGTCT
Statistics
Matches: 418, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
354 336 0.80
355 7 0.02
356 75 0.18
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (356 bp):
ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
TGTATCGGCAATGGAGCAGATTTCACCACCAAGCCCTATCTCTCCAAGGTAGCAAGAGAACAGGT
TGAAGAATGAATCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATTTTATCTC
CCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCATGTATCGGCAAGGGAGC
AGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGTTGAAGAATGAATTTTAT
CTTCCCGAGGTAGCAAGGAAGCAGATTGAGA
Found at i:32003805 original size:43 final size:46
Alignment explanation
Indices: 32003750--32003843 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 46
32003740 CCACCAAGCC
*
32003750 TTATC-TCTCCGAGGTAGCAAGAGAA-CAGGTTGAAGAA-TG-A-ATT
1 TTATCTTCTCCGAGGTAGCAAG-GAAGCAGATTG-AGAATTGAAGATT
32003793 TTATCTTC-CCGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
1 TTATCTTCTCCGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
32003838 TTATCT
1 TTATCT
32003844 CCCTGAAGAT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
42 7 0.16
43 26 0.58
44 3 0.07
45 9 0.20
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (46 bp):
TTATCTTCTCCGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
Found at i:32014843 original size:199 final size:198
Alignment explanation
Indices: 32014504--32014900 Score: 578
Period size: 199 Copynumber: 2.0 Consensus size: 198
32014494 TGTATTTAAT
* *
32014504 TTTTTTGGGACTTAACTAGTACCTAAACTTAAAAATTGTAAGTTAACTTGATACTTTTTTAAGTA
1 TTTTTTGGGACATAACTAGTACCTAAACTTAAAAATCGTAAGTTAACTTGATACTTTTTTAAGTA
* * * ** * *
32014569 CCTAACTAACACTATTAAAATATGTTGATATGGAACTGACGACCAATTAACATGGTTACACATGT
66 CATAACTAACACAATTAAAAAACATTGATATGGAACTGACGACCAATTAACATGGTGACACATAT
* * * *
32014634 TAAGTTTGTAATGCCTTCAACCCGATCCAATTCGCTAGATCCGAATCTTAGGTGTTACAACTCGA
131 TAAGTTTGTAACGCCTTCAACCCGATCCAATTCGCCAAATCCGAATCTTAGGTGTTACAACTCAA
32014699 TTA
196 TTA
*
32014702 TTTTTTGGGACATAACTAGTACTTAAACTTAAAAATCGTAAGTTAACTTGATACTTTTTTTAAGT
1 TTTTTTGGGACATAACTAGTACCTAAACTTAAAAATCGTAAGTTAACTTGATAC-TTTTTTAAGT
* * *
32014767 ACATGACTAACACAATTAAAAAACATTGATATGGAGCTGACGACCAATTAGCATGGTGACACATA
65 ACATAACTAACACAATTAAAAAACATTGATATGGAACTGACGACCAATTAACATGGTGACACATA
* * * * * *
32014832 TTAATTTTGTAACGCCTTTAACCCGATCCTATTTGCCAAATCTGAATCTTGGGTGTTACAACTCA
130 TTAAGTTTGTAACGCCTTCAACCCGATCCAATTCGCCAAATCCGAATCTTAGGTGTTACAACTCA
32014897 ATTA
195 ATTA
32014901 CATACTTACT
Statistics
Matches: 175, Mismatches: 23, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
198 51 0.29
199 124 0.71
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (198 bp):
TTTTTTGGGACATAACTAGTACCTAAACTTAAAAATCGTAAGTTAACTTGATACTTTTTTAAGTA
CATAACTAACACAATTAAAAAACATTGATATGGAACTGACGACCAATTAACATGGTGACACATAT
TAAGTTTGTAACGCCTTCAACCCGATCCAATTCGCCAAATCCGAATCTTAGGTGTTACAACTCAA
TTA
Found at i:32015555 original size:211 final size:211
Alignment explanation
Indices: 32015191--32015610 Score: 777
Period size: 211 Copynumber: 2.0 Consensus size: 211
32015181 CTGTAGCACA
32015191 ATACACAAAGGTAAGTTCATGAGAGCTTCGTGAGTTAGACTCAATTTACTTGTATTGTCTCCATA
1 ATACACAAAGGTAAGTTCATGAGAGCTTCGTGAGTTAGACTCAATTTACTTGTATTGTCTCCATA
*
32015256 CAACGTATCTAGGAATTTTATTGTCATGTGATTGTTCTTCGTTCTTCAACTTGACTTTGGCGAGT
66 CAACGTATCTAGGAATTTTATTGTCATGTCATTGTTCTTCGTTCTTCAACTTGACTTTGGCGAGT
* *
32015321 ATCTTTCTTCTTTATACCATAGACATCACACCTAACCTTGAAATCATGTTTTATCCTTCTCTTCA
131 ATCTTTCTTCTTCATACCATAGACATCACACCTAACCTTGAAATCATGTTTTACCCTTCTCTTCA
*
32015386 CTGATTCATTACTTGT
196 CTAATTCATTACTTGT
*
32015402 ATACACAAAGGTAAGTTCATGAGAGCTTCGTGAGTTAGATTCAATTTACTTGTATTGTCTCCATA
1 ATACACAAAGGTAAGTTCATGAGAGCTTCGTGAGTTAGACTCAATTTACTTGTATTGTCTCCATA
*
32015467 CAACGTATCTAGGAATTTTATTGTCATGTCATTGTTCTTCGTTCTTCATCTTGACTTTGGCGAGT
66 CAACGTATCTAGGAATTTTATTGTCATGTCATTGTTCTTCGTTCTTCAACTTGACTTTGGCGAGT
*
32015532 ATTTTTCTTCTTCATACCATAGACATCACACCTAACCTTGAAATCATGTTTTACCCTTCTCTTCA
131 ATCTTTCTTCTTCATACCATAGACATCACACCTAACCTTGAAATCATGTTTTACCCTTCTCTTCA
32015597 CTAATTCATTACTT
196 CTAATTCATTACTT
32015611 ACATTATTTA
Statistics
Matches: 202, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
211 202 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (211 bp):
ATACACAAAGGTAAGTTCATGAGAGCTTCGTGAGTTAGACTCAATTTACTTGTATTGTCTCCATA
CAACGTATCTAGGAATTTTATTGTCATGTCATTGTTCTTCGTTCTTCAACTTGACTTTGGCGAGT
ATCTTTCTTCTTCATACCATAGACATCACACCTAACCTTGAAATCATGTTTTACCCTTCTCTTCA
CTAATTCATTACTTGT
Found at i:32015905 original size:27 final size:27
Alignment explanation
Indices: 32015818--32015907 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
32015808 ATTTTTTCTC
*
32015818 TCAGTGTTCGCCATATGTTCTATTCCT
1 TCAGTGTTCGCCATATGTACTATTCCT
** *
32015845 TCAAAGTTCGTCATATGTACTATTCCT
1 TCAGTGTTCGCCATATGTACTATTCCT
*
32015872 TCAGTGTTTGCCATATGTACTATTCCT
1 TCAGTGTTCGCCATATGTACTATTCCT
*
32015899 TCTGTGTTC
1 TCAGTGTTC
32015908 ACGATACTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.44
Consensus pattern (27 bp):
TCAGTGTTCGCCATATGTACTATTCCT
Found at i:32016089 original size:27 final size:27
Alignment explanation
Indices: 32016022--32016082 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
32016012 TCCATGATCA
32016022 CCACAAAGGCTTCCATTTCACAGATTG
1 CCACAAAGGCTTCCATTTCACAGATTG
*
32016049 CCACAAAGGCTTCCATTTCATAGATTG
1 CCACAAAGGCTTCCATTTCACAGATTG
32016076 CCACAAA
1 CCACAAA
32016083 AGTTTCCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.25
Consensus pattern (27 bp):
CCACAAAGGCTTCCATTTCACAGATTG
Found at i:32018704 original size:134 final size:133
Alignment explanation
Indices: 32018464--32019151 Score: 701
Period size: 134 Copynumber: 5.2 Consensus size: 133
32018454 GGATAAGTTA
** * *
32018464 TAGAGTTCATTGATTTACGATTGCAACTACATTCAAACAGTTCACTGATTTATGATCACAATTGA
1 TAGAGTTCACCGATTTACGATTGCAACT-CATTCAAACAGTTCACTAATTTACGATCACAATTGA
* * * *
32018529 TATTATCAAAGCTCAG-TGATTTA-TATTCATAGCTTACGTTCATTGATTTACGATCATGAACTA
65 TATTATTAAAGCTC-GTTGATTTACGA-TCACAGCTTAAGTTCATTGATTTACGATCATGAACTA
32018592 TTCACT
128 TTCACT
* *
32018598 TAGAGTTCACCAATTTACGATTGCAACTCTATTCAAACATTTCACTAATTTACGATCACAATTGA
1 TAGAGTTCACCGATTTACGATTGCAACTC-ATTCAAACAGTTCACTAATTTACGATCACAATTGA
* * *
32018663 TATTGTTAAAGCTCGTTGATTTACGTTCACATG-TTAGGTTCATTGATTTACGATCATGAA-TAG
65 TATTATTAAAGCTCGTTGATTTACGATCACA-GCTTAAGTTCATTGATTTACGATCATGAACTA-
32018726 TTCACT
128 TTCACT
* ** *
32018732 TAGAGGTT-ACTGATTTACGATTGCAACTCCATTTGAATAGTTCGACT-ATTTACGATCACAATT
1 TAGA-GTTCACCGATTTACGATTGCAACT-CATTCAAACAGTTC-ACTAATTTACGATCACAATT
* * * **
32018795 GATAATATTAAAGCTTGTTGATTTACGATCACAGCTTAAGTTTATTGATTTACGATCATGAACGG
63 GATATTATTAAAGCTCGTTGATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACTA
32018860 TTCACT
128 TTCACT
* * * * *
32018866 TAGAGTTCACTGATTTACG-TTCACAACTCCATTCAAATAGTTCATTAATTTACGATCACAACTG
1 TAGAGTTCACCGATTTACGATT-GCAACT-CATTCAAACAGTTCACTAATTTACGATCACAATTG
* * * * * * ** *
32018930 ATATTGTTAAAACTCGTTGATTTACGATCATAGATTAAGTTTATTAATTTATAATCATAAACT-T
64 ATATTATTAAAGCTCGTTGATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACTAT
32018994 TCACT
129 TCACT
* * ** * * * *
32018999 TAAAGTTCATCGATTTATAATCGCAACTACATTCAAACATTTCACTAATTTATGATCACAACTGA
1 TAGAGTTCACCGATTTACGATTGCAACT-CATTCAAACAGTTCACTAATTTACGATCACAATTGA
* * * * * * * *
32019064 TATTCTTAAAACTCGTTGATTTATGATCACAACTT-AGTTCATTGATTTATGATTATGAACAACT
65 TATTATTAAAGCTCGTTGATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACTATT
*
32019128 CATT
130 CACT
* * *
32019132 TTGAGTTAACTGATTTACGA
1 TAGAGTTCACCGATTTACGA
32019152 GTTAACTGAT
Statistics
Matches: 465, Mismatches: 74, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
132 20 0.04
133 116 0.25
134 321 0.69
135 8 0.02
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (133 bp):
TAGAGTTCACCGATTTACGATTGCAACTCATTCAAACAGTTCACTAATTTACGATCACAATTGAT
ATTATTAAAGCTCGTTGATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACTATTC
ACT
Found at i:32019155 original size:16 final size:16
Alignment explanation
Indices: 32019134--32019165 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32019124 AACTCATTTT
32019134 GAGTTAACTGATTTAC
1 GAGTTAACTGATTTAC
32019150 GAGTTAACTGATTTAC
1 GAGTTAACTGATTTAC
32019166 AATCACAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (16 bp):
GAGTTAACTGATTTAC
Found at i:32021884 original size:42 final size:42
Alignment explanation
Indices: 32021819--32021929 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 42
32021809 ATTAAGATTC
* *
32021819 CATATAAGACCATATCTGAGATATGGCCTCGATATG-TGATTT
1 CATATAAGACCATATCGGGGATATGGCCTCGATATGAT-ATTT
* * * *
32021861 CGTATAAGACTATGTCGGGGATATGGCGTCGATATGATATTT
1 CATATAAGACCATATCGGGGATATGGCCTCGATATGATATTT
* *
32021903 CATGTAAGACCATATCGGGAATATGGC
1 CATATAAGACCATATCGGGGATATGGC
32021930 ATTGAAACAA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (42 bp):
CATATAAGACCATATCGGGGATATGGCCTCGATATGATATTT
Found at i:32023541 original size:21 final size:22
Alignment explanation
Indices: 32023510--32023550 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
32023500 TTTACCTTTT
*
32023510 TTAAAGTTAAAAGTCAAAACCA
1 TTAAAGTTAAAAGGCAAAACCA
32023532 TTAAA-TTAAAAGGCAAAAC
1 TTAAAGTTAAAAGGCAAAAC
32023551 TACGTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.56, C:0.12, G:0.10, T:0.22
Consensus pattern (22 bp):
TTAAAGTTAAAAGGCAAAACCA
Found at i:32037623 original size:130 final size:130
Alignment explanation
Indices: 32037436--32037806 Score: 428
Period size: 130 Copynumber: 2.9 Consensus size: 130
32037426 AAAATTCTTC
* **
32037436 AAAACGAAGACGAAATTTGATGTTCGGTGATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* *
32037501 TTTCGCATTTGCTCAAAATAATCGAATTTTC-CTTCGAAATTTCA-TTCATATCTTTTAAAATCA
66 TTTCGCATTTGCTCAAAATAATCGAA-TATCACTTCAAAATTTCACTT-ATATCTTTTAAAATCA
32037564 CT
129 CT
* * * * *
32037566 TAAATGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCATGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * * *
32037631 TTTCGCATTTGTTCAAAATAATCGAATATCACTTTAAAATTTTACTTGTGTCTTTTAAAATCTCT
66 TTTCGCATTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTTATATCTTTTAAAATCACT
* * * * * *
32037696 AAAACGAAGGCGATATGTGATATTTGGCAATTCGCAGG-ATCGTGCGCTAACGTGTTGGGTAGCA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGC-GGAATCGTGCCCTAACGTGTTGGGTTGCA
* * * *
32037760 ATTTC-C-TGATTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACT
65 ATTTCGCAT--TTGCTCAAAATAATCGAATATCACTTCAAAATTTCACT
32037807 CGGCTCTTCT
Statistics
Matches: 205, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
128 1 0.00
129 4 0.02
130 196 0.96
131 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (130 bp):
AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCATTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTTATATCTTTTAAAATCACT
Found at i:32049559 original size:44 final size:44
Alignment explanation
Indices: 32049510--32049801 Score: 469
Period size: 44 Copynumber: 6.6 Consensus size: 44
32049500 CCCGCAGATC
* *
32049510 GCGGAGAGCAGATCGAGGATAGTAGATTTGGCATCTCTGTATTG
1 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
*
32049554 GCGGAGAGCAGATCGAGGATAGCAGATTTGGCATCTCTGTATTG
1 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
*
32049598 ACGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
1 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
32049642 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
1 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
* *
32049686 GCGGAGAGCAGATCGAAAATAACAGATTTGGCATCTCTGTATTG
1 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
*
32049730 GCGGAGAGCAGATCGAAGA-CGACAGATTTGGCATCTCTGTATTG
1 GCGGAGAGCAGATCGAAGATAG-CAGATTTGGCATCTCTGTATTG
* * * *
32049774 ACAGAGAGCAGATCGAAAATAACAGATT
1 GCGGAGAGCAGATCGAAGATAGCAGATT
32049802 GGTGTTCCCG
Statistics
Matches: 232, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
44 232 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (44 bp):
GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
Found at i:32051635 original size:25 final size:25
Alignment explanation
Indices: 32051606--32051655 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
32051596 GCATGTTATT
32051606 AATCTTACATTATTCTATACATATA
1 AATCTTACATTATTCTATACATATA
32051631 AATCTTACATTATTCTATACATATA
1 AATCTTACATTATTCTATACATATA
32051656 GTTTCTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (25 bp):
AATCTTACATTATTCTATACATATA
Found at i:32052901 original size:130 final size:131
Alignment explanation
Indices: 32052652--32053018 Score: 379
Period size: 130 Copynumber: 2.8 Consensus size: 131
32052642 AAAATTCTTC
* * * *
32052652 AAAACGAAGACGAAATTTGATGTTCGGCGATTCACGGAATCGT-GCCCTAACGTGTTGGGTTACA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTAGCCCTAACGTGTTGGGTTGCA
* * * **
32052716 ATTTCGTATTTGCTCAAAATAATCGAATTTTCCTTCGAAA-TTTCATTCATATCTTTTAAAATCC
66 ATTTCGCATTTGTTCAAAATAATCGAA-TATCCTTTAAAATTTTCATTCATATCTTTTAAAATCC
32052780 CT
130 CT
* * * *
32052782 TAAATGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATC-TAGCCCTAACGTGTTGGGTTGCA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTAGCCCTAACGTGTTGGGTTGCA
* *
32052846 ATTTCGCATTTGTTCAAAATAATCGAATATCACTTTAAAATTTTGC-TT-GTGTCTTTTAAAATC
66 ATTTCGCATTTGTTCAAAATAATCGAATATC-CTTTAAAATTTT-CATTCATATCTTTTAAAATC
*
32052909 TCT
129 CCT
* * * * * * * ** *
32052912 AAAACAAAGGCGATATGTGATATTTGGCAATTCGTGGGATCGTA-CTTTAACGTGTTGGGTAGCA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTAGCCCTAACGTGTTGGGTTGCA
* * *
32052976 ATTTCCCGA-TTGTTTAAAATAATCAAATATCCTTTCAAAATTT
66 ATTTCGC-ATTTGTTCAAAATAATCGAATATCCTTT-AAAATTT
32053019 CACTCGACTC
Statistics
Matches: 198, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
129 8 0.04
130 181 0.91
131 8 0.04
132 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (131 bp):
AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTAGCCCTAACGTGTTGGGTTGCA
ATTTCGCATTTGTTCAAAATAATCGAATATCCTTTAAAATTTTCATTCATATCTTTTAAAATCCC
T
Found at i:32060671 original size:8 final size:8
Alignment explanation
Indices: 32060658--32060683 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
32060648 TAATTAATCG
32060658 AATTAACC
1 AATTAACC
32060666 AATTAACC
1 AATTAACC
32060674 AATTAACC
1 AATTAACC
32060682 AA
1 AA
32060684 AATATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (8 bp):
AATTAACC
Found at i:32061483 original size:10 final size:9
Alignment explanation
Indices: 32061419--32061503 Score: 62
Period size: 10 Copynumber: 8.7 Consensus size: 9
32061409 CTTACACGGT
32061419 ATTATAAAA
1 ATTATAAAA
*
32061428 ATTTTAGAAA
1 ATTATA-AAA
*
32061438 ACTATAGTAAA
1 ATTATA--AAA
*
32061449 ATTATATAA
1 ATTATAAAA
32061458 ATTACTAAAA
1 ATTA-TAAAA
*
32061468 TTTTATAAAGA
1 -ATTATAAA-A
32061479 ATTATAAAA
1 ATTATAAAA
*
32061488 ATAATAAAAA
1 ATTAT-AAAA
32061498 ATTATA
1 ATTATA
32061504 GATAAAATTT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
9 17 0.29
10 30 0.51
11 12 0.20
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (9 bp):
ATTATAAAA
Found at i:32070187 original size:20 final size:22
Alignment explanation
Indices: 32070150--32070189 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
32070140 ATTATTAGAA
*
32070150 TTTATAAAAATGTTAAATAAAT
1 TTTATAAAAATGTAAAATAAAT
32070172 TTTA-AAAAAT-TAAAATAA
1 TTTATAAAAATGTAAAATAA
32070190 TAAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (22 bp):
TTTATAAAAATGTAAAATAAAT
Found at i:32071513 original size:10 final size:10
Alignment explanation
Indices: 32071498--32071528 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
32071488 GTTAGTGGTC
32071498 GGATTTAGTG
1 GGATTTAGTG
32071508 GGATTTAGTG
1 GGATTTAGTG
*
32071518 GGATTTGGTG
1 GGATTTAGTG
32071528 G
1 G
32071529 TTAGTGGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (10 bp):
GGATTTAGTG
Found at i:32074681 original size:13 final size:13
Alignment explanation
Indices: 32074663--32074688 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32074653 TAATTTTGTA
32074663 TATCTGTATCTGT
1 TATCTGTATCTGT
32074676 TATCTGTATCTGT
1 TATCTGTATCTGT
32074689 ACATGGGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (13 bp):
TATCTGTATCTGT
Found at i:32076545 original size:18 final size:19
Alignment explanation
Indices: 32076515--32076551 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
32076505 GTAACTACTC
32076515 ATTTTCCCTATTAT-AAAT
1 ATTTTCCCTATTATGAAAT
32076533 ATTTT-CCTCATTATGAAAT
1 ATTTTCCCT-ATTATGAAAT
32076552 TCTTTTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 10 0.59
19 4 0.24
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTTTCCCTATTATGAAAT
Found at i:32076876 original size:2 final size:2
Alignment explanation
Indices: 32076865--32076897 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
32076855 TTTAATTATT
32076865 TA TA -A 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
32076898 AGCATGAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:32080021 original size:84 final size:84
Alignment explanation
Indices: 32079928--32080088 Score: 295
Period size: 84 Copynumber: 1.9 Consensus size: 84
32079918 GCAGACGAGG
32079928 TTGAAGATAACAACAAGCAAGAAAGTGAAAGTTGGGATTAAGTTGGCAAGAGCAAAAGTAAGGGT
1 TTGAAGATAACAACAAGCAAGAAAGTGAAAGTTGGGATTAAGTTGGCAAGAGCAAAAGTAAGGGT
32079993 TGGAGAGCTGTAGACGAAC
66 TGGAGAGCTGTAGACGAAC
*
32080012 TTGAAGATAACAAGAAGCAAGAAAGTGAAAGTTGGGATTAAGTTGGCAAGAGCAAAAGTAAGGGT
1 TTGAAGATAACAACAAGCAAGAAAGTGAAAGTTGGGATTAAGTTGGCAAGAGCAAAAGTAAGGGT
* *
32080077 TGGGGAGTTGTA
66 TGGAGAGCTGTA
32080089 TCTTGCACCA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.41, C:0.07, G:0.32, T:0.19
Consensus pattern (84 bp):
TTGAAGATAACAACAAGCAAGAAAGTGAAAGTTGGGATTAAGTTGGCAAGAGCAAAAGTAAGGGT
TGGAGAGCTGTAGACGAAC
Found at i:32083788 original size:31 final size:31
Alignment explanation
Indices: 32083753--32083814 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
32083743 ATATTGTAGA
32083753 CCTTAAAGAAATAATAAAAAATAAATATTTT
1 CCTTAAAGAAATAATAAAAAATAAATATTTT
32083784 CCTTAAAGAAATAATAAAAAATAAATATTTT
1 CCTTAAAGAAATAATAAAAAATAAATATTTT
32083815 TACTTCGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (31 bp):
CCTTAAAGAAATAATAAAAAATAAATATTTT
Found at i:32087784 original size:35 final size:35
Alignment explanation
Indices: 32087738--32087849 Score: 174
Period size: 35 Copynumber: 3.2 Consensus size: 35
32087728 TGAAGATCTT
*
32087738 GAAGAAAATGGAAGGAAAATAAAAAAGAATAGAGA
1 GAAGAAGATGGAAGGAAAATAAAAAAGAATAGAGA
**
32087773 GAAGAAGATGGAAGGAAAATAAAAAAG-ATCCAGA
1 GAAGAAGATGGAAGGAAAATAAAAAAGAATAGAGA
32087807 G-AGAAGATGGAAGGAAAATAAAAAAGAACTAGAGA
1 GAAGAAGATGGAAGGAAAATAAAAAAGAA-TAGAGA
32087842 GAAGAAGA
1 GAAGAAGA
32087850 AATGAAGAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
33 25 0.36
34 7 0.10
35 31 0.45
36 6 0.09
ACGTcount: A:0.62, C:0.03, G:0.28, T:0.08
Consensus pattern (35 bp):
GAAGAAGATGGAAGGAAAATAAAAAAGAATAGAGA
Found at i:32087817 original size:33 final size:33
Alignment explanation
Indices: 32087740--32087846 Score: 151
Period size: 33 Copynumber: 3.2 Consensus size: 33
32087730 AAGATCTTGA
* **
32087740 AGAAAATGGAAGGAAAATAAAAAAGAATAGAGAG
1 AGAAGATGGAAGGAAAATAAAAAAG-ATCCAGAG
32087774 AAGAAGATGGAAGGAAAATAAAAAAGATCCAGAG
1 -AGAAGATGGAAGGAAAATAAAAAAGATCCAGAG
* *
32087808 AGAAGATGGAAGGAAAATAAAAAAGAACTAGAG
1 AGAAGATGGAAGGAAAATAAAAAAGATCCAGAG
32087841 AGAAGA
1 AGAAGA
32087847 AGAAATGAAG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
33 37 0.55
34 6 0.09
35 24 0.36
ACGTcount: A:0.62, C:0.03, G:0.27, T:0.08
Consensus pattern (33 bp):
AGAAGATGGAAGGAAAATAAAAAAGATCCAGAG
Found at i:32091979 original size:46 final size:46
Alignment explanation
Indices: 32091912--32092084 Score: 310
Period size: 46 Copynumber: 3.8 Consensus size: 46
32091902 ATGTAACCCG
* * * *
32091912 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
32091958 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
32092004 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
32092050 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
32092085 ATGCCCAAAT
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 123 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:32094513 original size:15 final size:15
Alignment explanation
Indices: 32094504--32094544 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
32094494 GAGAAACTCG
32094504 GAATAAAGAAATCTA
1 GAATAAAGAAATCTA
* *
32094519 GAATAAAGAGATCCA
1 GAATAAAGAAATCTA
*
32094534 GGATAAAGAAA
1 GAATAAAGAAA
32094545 CCCAAGATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.59, C:0.07, G:0.20, T:0.15
Consensus pattern (15 bp):
GAATAAAGAAATCTA
Found at i:32097316 original size:46 final size:46
Alignment explanation
Indices: 32097249--32097418 Score: 286
Period size: 46 Copynumber: 3.7 Consensus size: 46
32097239 TAACCCGCCA
* * * * *
32097249 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATAC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
*
32097295 ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
32097341 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
32097387 ATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTC
32097419 AGATGCCCAA
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 117 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
Found at i:32099536 original size:50 final size:53
Alignment explanation
Indices: 32099468--32099566 Score: 159
Period size: 50 Copynumber: 1.9 Consensus size: 53
32099458 ATAACACACT
*
32099468 TGGGCACTGAGTGCCAAGCCCGAAGGCTA-ACATCC-CT-CCAGAAACATGTC
1 TGGGCACTAAGTGCCAAGCCCGAAGGCTACACATCCTCTCCCAGAAACATGTC
*
32099518 TGGGCACTAAGTGTCAAGCCCGAAGGCTACACATCCTCTCCCAGAAACA
1 TGGGCACTAAGTGCCAAGCCCGAAGGCTACACATCCTCTCCCAGAAACA
32099567 CGCCTGAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 27 0.61
51 6 0.14
52 2 0.05
53 9 0.20
ACGTcount: A:0.29, C:0.32, G:0.22, T:0.16
Consensus pattern (53 bp):
TGGGCACTAAGTGCCAAGCCCGAAGGCTACACATCCTCTCCCAGAAACATGTC
Found at i:32102156 original size:14 final size:14
Alignment explanation
Indices: 32102137--32102163 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32102127 ACTTCTGTGA
32102137 AAATAAAATAAAAT
1 AAATAAAATAAAAT
32102151 AAATAAAATAAAA
1 AAATAAAATAAAA
32102164 AACACACAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:32102284 original size:28 final size:28
Alignment explanation
Indices: 32102240--32102293 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
32102230 TGTCAAATTC
*
32102240 GAATAATTAGAAGAGGAATAGACTATGA
1 GAATAATTAGAAAAGGAATAGACTATGA
*
32102268 GAATAATTATAAAAGGAATAGACTAT
1 GAATAATTAGAAAAGGAATAGACTAT
32102294 ATCTATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.52, C:0.04, G:0.20, T:0.24
Consensus pattern (28 bp):
GAATAATTAGAAAAGGAATAGACTATGA
Found at i:32104902 original size:14 final size:15
Alignment explanation
Indices: 32104883--32104912 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
32104873 TTTCCCGTCT
32104883 ATTTTTCAA-TCTTA
1 ATTTTTCAATTCTTA
32104897 ATTTTTCAATTCTTA
1 ATTTTTCAATTCTTA
32104912 A
1 A
32104913 ATACGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTCAATTCTTA
Found at i:32106599 original size:4 final size:5
Alignment explanation
Indices: 32106579--32106618 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
32106569 CCAATTTGTG
32106579 AAAAT AAAAT AAAAT -AAAT AAAAAT AAAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAA
32106619 ACATACAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 19 0.58
6 10 0.30
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:32106610 original size:21 final size:20
Alignment explanation
Indices: 32106579--32106617 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
32106569 CCAATTTGTG
32106579 AAAATAAAATAAAATAAATA
1 AAAATAAAATAAAATAAATA
32106599 AAAATAAAAATAAAATAAA
1 AAAAT-AAAATAAAATAAA
32106618 AACATACAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAATAAAATAAAATAAATA
Found at i:32107693 original size:21 final size:21
Alignment explanation
Indices: 32107669--32107725 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
32107659 TGGATAAAAC
32107669 ATTTAATTAAATATTTAT-CT
1 ATTTAATTAAATATTTATACT
*
32107689 AATTT--TTAAA-AATTATGACT
1 -ATTTAATTAAATATTTAT-ACT
*
32107709 ATCTAATTAAATATTTA
1 ATTTAATTAAATATTTA
32107726 AGAGAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 9
0.70 0.08 0.22
Matches are distributed among these distances:
18 5 0.18
19 8 0.29
20 2 0.07
21 9 0.32
22 4 0.14
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTAATTAAATATTTATACT
Found at i:32107961 original size:16 final size:16
Alignment explanation
Indices: 32107927--32107966 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
32107917 AATGGATAAA
* *
32107927 TTATCTAATTAATTTT
1 TTATCTAATTAAATAT
*
32107943 TTATTTAATTAAATAT
1 TTATCTAATTAAATAT
32107959 TTATCTAA
1 TTATCTAA
32107967 ATACAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATCTAATTAAATAT
Found at i:32109938 original size:24 final size:25
Alignment explanation
Indices: 32109894--32109943 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
32109884 CTTGAGACCA
32109894 TAATTATAAGGAAAAACTAAGGGGC
1 TAATTATAAGGAAAAACTAAGGGGC
32109919 TAATTATAAGG-AAAACTAAGGGGC
1 TAATTATAAGGAAAAACTAAGGGGC
32109943 T
1 T
32109944 TTTAAGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.46, C:0.08, G:0.24, T:0.22
Consensus pattern (25 bp):
TAATTATAAGGAAAAACTAAGGGGC
Found at i:32111999 original size:18 final size:19
Alignment explanation
Indices: 32111970--32112008 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
32111960 ATTAATATAT
32111970 TATAATTTTAAAAT-TTAAA
1 TATAATTTT-AAATGTTAAA
32111989 TATAA-TTTAAATGTTAAA
1 TATAATTTTAAATGTTAAA
32112007 TA
1 TA
32112009 CTATTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 10 0.53
19 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TATAATTTTAAATGTTAAA
Found at i:32115136 original size:15 final size:15
Alignment explanation
Indices: 32115116--32115167 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
32115106 ACTACAAAAA
32115116 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
32115131 ATTTATAATTATAATAAAT
1 ATTTATTA-T-TAAT--AT
*
32115150 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
32115165 ATT
1 ATT
32115168 CAATATGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:32115153 original size:19 final size:19
Alignment explanation
Indices: 32115129--32115165 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32115119 TATTATTAAT
*
32115129 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
32115148 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
32115166 TTCAATATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:32115202 original size:13 final size:14
Alignment explanation
Indices: 32115182--32115222 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
32115172 ATGTGAAGAA
32115182 TATTATTTAAAATT
1 TATTATTTAAAATT
32115196 T-TTATTTTTAAAATT
1 TATTA--TTTAAAATT
32115211 TATTA-TTAAAAT
1 TATTATTTAAAAT
32115223 AAAATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTTAAAATT
Found at i:32115207 original size:15 final size:17
Alignment explanation
Indices: 32115182--32115218 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
32115172 ATGTGAAGAA
32115182 TATTATTTAAAATTT-T
1 TATTATTTAAAATTTAT
32115198 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
32115214 TATTA
1 TATTA
32115219 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:32115242 original size:18 final size:18
Alignment explanation
Indices: 32115204--32115239 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32115194 TTTTTATTTT
*
32115204 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
32115222 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
32115240 TAATTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:32115269 original size:16 final size:16
Alignment explanation
Indices: 32115250--32115280 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32115240 TAATTATTAA
32115250 AATAATTAATTATATT
1 AATAATTAATTATATT
*
32115266 AATAATTTATTATAT
1 AATAATTAATTATAT
32115281 GACTAAATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATAATTAATTATATT
Found at i:32115862 original size:13 final size:13
Alignment explanation
Indices: 32115832--32115918 Score: 53
Period size: 12 Copynumber: 6.9 Consensus size: 13
32115822 GTTATCATTA
*
32115832 AATTTTAATAGGAT
1 AATTTTAATA-AAT
32115846 AATTATTAA-AAAT
1 AATT-TTAATAAAT
32115859 AA-TTTAATAAAT
1 AATTTTAATAAAT
*
32115871 AA-TTTAAT-CAT
1 AATTTTAATAAAT
32115882 AA-TTTAAT--AT
1 AATTTTAATAAAT
*
32115892 AATTATTATTAAAT
1 AATT-TTAATAAAT
*
32115906 ATAATTTAATAAA
1 A-ATTTTAATAAA
32115919 AATAAAAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
10 4 0.07
11 15 0.25
12 17 0.28
13 4 0.07
14 15 0.25
15 6 0.10
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (13 bp):
AATTTTAATAAAT
Found at i:32115865 original size:26 final size:25
Alignment explanation
Indices: 32115835--32115918 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 25
32115825 ATCATTAAAT
*
32115835 TTTAATAGGATAATTATTAAAAATAA
1 TTTAATA-AATAATTATTAAAAATAA
**
32115861 TTTAATAAATAA-T-TTAATCATAA
1 TTTAATAAATAATTATTAAAAATAA
* *
32115884 TTTAATATAATTATTATTAAATATAA
1 TTTAATA-AATAATTATTAAAAATAA
32115910 TTTAATAAA
1 TTTAATAAA
32115919 AATAAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
23 15 0.31
24 5 0.10
25 7 0.14
26 22 0.45
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATAAATAATTATTAAAAATAA
Found at i:32115923 original size:63 final size:63
Alignment explanation
Indices: 32115844--32115986 Score: 173
Period size: 63 Copynumber: 2.3 Consensus size: 63
32115834 TTTTAATAGG
* ** * *
32115844 ATAATTATTAAAAATAATTTAATAAATAATTTAATCATAAT-TTAATATAATTATTATTAAA-T
1 ATAATTAATAAAAATAA-AAAATAAATAATTTAATAACAATCTTAATATAATTATTATTAAAGT
* * *
32115906 ATAATTTAATAAAAATAAAAAATATATAATTTAATAACATTCTTAATATATTTATTATTAAAGT
1 ATAA-TTAATAAAAATAAAAAATAAATAATTTAATAACAATCTTAATATAATTATTATTAAAGT
32115970 ATGAATTAATAAAAATA
1 AT-AATTAATAAAAATA
32115987 TAATATTAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
62 21 0.30
63 31 0.45
64 15 0.22
65 2 0.03
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (63 bp):
ATAATTAATAAAAATAAAAAATAAATAATTTAATAACAATCTTAATATAATTATTATTAAAGT
Found at i:32117612 original size:63 final size:63
Alignment explanation
Indices: 32117494--32117612 Score: 175
Period size: 63 Copynumber: 1.9 Consensus size: 63
32117484 TCTCACACTA
* * *
32117494 CCTGGACACATGCCCGTGCCCCTGGCCCGTGTGACTCTAATTCCAAAACAGTGAGTTACACGG
1 CCTGAACACATGCCCATGCCCCTGGCCCGTGTGACTCTAATTCCAAAACAATGAGTTACACGG
* * * *
32117557 CCTGAACACATGCCCATGTCCTTGGCCCGTGTGACTTTAATTCCAAAATAATGAGT
1 CCTGAACACATGCCCATGCCCCTGGCCCGTGTGACTCTAATTCCAAAACAATGAGT
32117613 AATACGATCT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (63 bp):
CCTGAACACATGCCCATGCCCCTGGCCCGTGTGACTCTAATTCCAAAACAATGAGTTACACGG
Found at i:32119545 original size:19 final size:19
Alignment explanation
Indices: 32119521--32119559 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32119511 GAAGAGGGAG
32119521 GAAAGAAGTTTGAATTTTT
1 GAAAGAAGTTTGAATTTTT
32119540 GAAAGAAGTTTGAATTTTT
1 GAAAGAAGTTTGAATTTTT
32119559 G
1 G
32119560 TGAATACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (19 bp):
GAAAGAAGTTTGAATTTTT
Found at i:32125200 original size:47 final size:47
Alignment explanation
Indices: 32125149--32125635 Score: 641
Period size: 47 Copynumber: 10.1 Consensus size: 47
32125139 TTAGGATTTT
* * *
32125149 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGCCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
32125196 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
32125247 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
32125294 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
32125345 ATGTGATGAATGTGAACATGCGTATGTGTAATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
32125392 ATGTGATGAATGTGAACCTGTATATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
32125445 ATATGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
32125492 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGGCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
32125539 ATGTGATGAATGTGAACATGCATATATGAGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
32125586 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
32125633 ATG
1 ATG
32125636 CGAAACGTGT
Statistics
Matches: 391, Mismatches: 35, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
47 259 0.66
48 1 0.00
49 4 0.01
51 85 0.22
52 1 0.00
53 41 0.10
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:32125251 original size:24 final size:24
Alignment explanation
Indices: 32125223--32125298 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
32125213 CCGTATATAT
32125223 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
32125247 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
32125270 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
32125294 ATGTG
1 ATGTG
32125299 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:32125260 original size:98 final size:98
Alignment explanation
Indices: 32125149--32125635 Score: 756
Period size: 98 Copynumber: 5.0 Consensus size: 98
32125139 TTAGGATTTT
* *
32125149 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGCCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
32125214 CGTATATATATGTGTGATAAGGCCGAATGGCCA
66 CGTATATATATGTGTGATAAGGCCGAATGGCCA
32125247 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
32125312 CGTATATATATGTGTGATAAGGCCGAATGGCCA
66 CGTATATATATGTGTGATAAGGCCGAATGGCCA
*
32125345 ATGTGATGAATGTGAACATGCGTATGTGTAATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
32125410 TGTATATATATATGTGTGATAAGGCCGAATGGCCA
66 CG--TATATATATGTGTGATAAGGCCGAATGGCCA
*
32125445 ATATGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*** *
32125508 C--ATGCGTATGTGTGATAAGGCCGAATGGGCA
66 CGTATATATATGTGTGATAAGGCCGAATGGCCA
* * * * *
32125539 ATGTGATGAATGTGAACATGCATATATGAGATAAGACCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
32125604 TG-A-ATATATGTG-G-TAAGGCCGAATGGCTA
66 CGTATATATATGTGTGATAAGGCCGAATGGCCA
32125633 ATG
1 ATG
32125636 CGAAACGTGT
Statistics
Matches: 362, Mismatches: 22, Indels: 14
0.91 0.06 0.04
Matches are distributed among these distances:
94 101 0.28
95 1 0.00
96 6 0.02
97 1 0.00
98 161 0.44
100 92 0.25
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (98 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CGTATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:32125698 original size:46 final size:46
Alignment explanation
Indices: 32125609--32125699 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
32125599 GAACATGAAT
* * * *
32125609 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
32125655 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
32125700 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:32125706 original size:141 final size:140
Alignment explanation
Indices: 32125152--32125644 Score: 466
Period size: 147 Copynumber: 3.4 Consensus size: 140
32125142 GGATTTTATG
* ** * * * *
32125152 TGATGGATGTGAACATGCGTATGTGTGATAAGCCCGAATGGCCAATGTGATGAATGTGAACCCGT
1 TGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAA--C--
*** * * * * * *
32125217 ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAG
61 ATGCGTATGTGTGATAAAGCCAAATGGGCAATGTGATGAATGTGAACATGCATATATGAGATAAG
* *
32125282 GCCGAATGGCCAATG
126 ACCGAATGGCCAATA
** * *
32125297 TGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 TGATGAATGTGAACATG-A-ATATA--TGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAAC
* * * * ** *
32125362 ATGCGTATGTGTAATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATGTGT
61 ATGCGTATGTGTGATAAAGCCAAATGGGCAATGTGATGAATGTGAA-C---ATGCATATA--TGA
*
32125427 GATAAGGCCGAATGGCCAATA
120 GATAAGACCGAATGGCCAATA
** * * *
32125448 TGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 TGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACATGC
* *
32125513 GTATGTGTGATAAGGCCGAATGGGCAATGTGATGAATGTGAACATGCATATATGAGATAAGACCG
65 GTATGTGTGATAAAGCCAAATGGGCAATGTGATGAATGTGAACATGCATATATGAGATAAGACCG
*
32125578 AATGGCCAATG
130 AATGGCCAATA
* *
32125589 TGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATGCGA-AACGTG
1 TGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTG
32125645 TATGAGATGG
Statistics
Matches: 303, Mismatches: 35, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
139 5 0.02
141 65 0.21
143 7 0.02
145 56 0.18
146 2 0.01
147 86 0.28
149 44 0.15
151 38 0.13
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (140 bp):
TGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTGAACATGCG
TATGTGTGATAAAGCCAAATGGGCAATGTGATGAATGTGAACATGCATATATGAGATAAGACCGA
ATGGCCAATA
Found at i:32125954 original size:37 final size:37
Alignment explanation
Indices: 32125846--32125954 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
32125836 GGAAATATAT
*
32125846 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
32125883 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
32125920 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
32125955 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:32135084 original size:34 final size:36
Alignment explanation
Indices: 32135041--32135124 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 36
32135031 GTATCGAATT
32135041 CAAAAATAGT-A-AGCATCAAGAGGCGTTACAAACA
1 CAAAAATAGTAACAGCATCAAGAGGCGTTACAAACA
32135075 CAAAAATAGTTTAACACAGCATCAAGAGGCGTTACAAACA
1 CAAAAATAG--T-A-ACAGCATCAAGAGGCGTTACAAACA
32135115 CAAAAATAGT
1 CAAAAATAGT
32135125 TTAACGCATC
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
34 9 0.20
36 1 0.02
38 1 0.02
39 1 0.02
40 32 0.73
ACGTcount: A:0.50, C:0.18, G:0.15, T:0.17
Consensus pattern (36 bp):
CAAAAATAGTAACAGCATCAAGAGGCGTTACAAACA
Found at i:32135107 original size:40 final size:40
Alignment explanation
Indices: 32135052--32135129 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
32135042 AAAAATAGTA
32135052 AGCATCAAGAGGCGTTACAAACACAAAAATAGTTTAACAC
1 AGCATCAAGAGGCGTTACAAACACAAAAATAGTTTAACAC
32135092 AGCATCAAGAGGCGTTACAAACACAAAAATAGTTTAAC
1 AGCATCAAGAGGCGTTACAAACACAAAAATAGTTTAAC
32135130 GCATCGTACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.18
Consensus pattern (40 bp):
AGCATCAAGAGGCGTTACAAACACAAAAATAGTTTAACAC
Found at i:32149250 original size:28 final size:28
Alignment explanation
Indices: 32149212--32149318 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
32149202 GAATCATTCG
* *
32149212 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
32149240 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
32149268 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
32149296 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
32149319 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:32154309 original size:28 final size:28
Alignment explanation
Indices: 32154275--32154481 Score: 181
Period size: 28 Copynumber: 7.5 Consensus size: 28
32154265 AACCGATCTT
***
32154275 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
** *
32154303 GCACACACAGTGCCTCAACAAC-GATCTC
1 GCACACACAGTG-CTCAATTACGGAACTC
*
32154331 GCACACACAGTGCTC-GTTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
** * *
32154358 G-ACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCAATTACGGAACTC
***
32154386 GCACACA-AGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
** * *
32154413 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCAATTACGGAACTC
*
32154442 GCACACACAGTGCTCGATTACGGAACTC
1 GCACACACAGTGCTCAATTACGGAACTC
32154470 -CACACACAGTGC
1 GCACACACAGTGC
32154482 CTATGTTCAC
Statistics
Matches: 138, Mismatches: 34, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
26 12 0.09
27 40 0.29
28 56 0.41
29 30 0.22
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.17
Consensus pattern (28 bp):
GCACACACAGTGCTCAATTACGGAACTC
Found at i:32154342 original size:56 final size:57
Alignment explanation
Indices: 32154245--32154483 Score: 380
Period size: 56 Copynumber: 4.2 Consensus size: 57
32154235 GATCTCATTT
* *
32154245 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
*
32154304 CACACACAGTGCCTCAACAA-CGATCTCGCACACACAGTGC-TCGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
32154359 -ACACACAGTGCCTCAACAACCGATCTCGCACACA-AGTGCTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
* *
32154414 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTC-
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
32154470 CACACACAGTGCCT
1 CACACACAGTGCCT
32154484 ATGTTCACTT
Statistics
Matches: 170, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
54 24 0.14
55 42 0.25
56 67 0.39
57 30 0.18
59 7 0.04
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
Found at i:32156496 original size:28 final size:28
Alignment explanation
Indices: 32156458--32156564 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
32156448 GAATCATTCG
* *
32156458 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
32156486 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
32156514 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
32156542 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
32156565 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:32162999 original size:27 final size:27
Alignment explanation
Indices: 32162969--32163147 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
32162959 ATATTGAGTC
* *
32162969 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
32162996 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
32163023 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
32163051 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
32163078 CGCACACTTAGTGC-ATCATATCTCATTT
1 CGCACACTTAGTGCTA-CATA-ATCAACT
* * *
32163106 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
32163133 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32163148 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 82 0.64
28 46 0.36
29 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:32163061 original size:55 final size:53
Alignment explanation
Indices: 32162969--32163147 Score: 198
Period size: 55 Copynumber: 3.3 Consensus size: 53
32162959 ATATTGAGTC
* * * * *
32162969 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACAT-ATCAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
32163023 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATA-TC-AACTCGCACACTTAGTGCAACATAGTCAAAT
**
32163078 CGCACACTTAGTGC-ATCATATCTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATA--TCAACTCGCACACTTAGTGCAACATAGTCAAAT
32163133 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32163148 GTACAATTTA
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 20 0.19
55 82 0.78
56 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:32171261 original size:27 final size:27
Alignment explanation
Indices: 32171231--32171408 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32171221 ATATTGAGTC
* * * *
32171231 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
32171258 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32171285 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
32171313 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
32171340 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
32171367 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32171394 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32171409 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:32171370 original size:82 final size:81
Alignment explanation
Indices: 32171252--32171407 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32171242 TGCTATATAA
* *
32171252 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32171317 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32171334 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32171398 CACTTAGTGC
65 CACTTAGTGC
32171408 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32174913 original size:16 final size:16
Alignment explanation
Indices: 32174892--32174924 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32174882 TTTTCACCTA
32174892 TTAGTTAT-AAGTTCAT
1 TTAGTTATGAAG-TCAT
32174908 TTAGTTATGAAGTCAT
1 TTAGTTATGAAGTCAT
32174924 T
1 T
32174925 CCACTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.48
Consensus pattern (16 bp):
TTAGTTATGAAGTCAT
Found at i:32178917 original size:29 final size:29
Alignment explanation
Indices: 32178859--32178914 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
32178849 GGGGGTGGGA
32178859 TGGGAGGGGAGTAAAAGTTTTAGGGAAAG
1 TGGGAGGGGAGTAAAAGTTTTAGGGAAAG
32178888 TGGGA-GGGAGTAAAA-TTTTAAGGGAAA
1 TGGGAGGGGAGTAAAAGTTTT-AGGGAAA
32178915 AGTAAAGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 4 0.15
28 17 0.65
29 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.21
Consensus pattern (29 bp):
TGGGAGGGGAGTAAAAGTTTTAGGGAAAG
Found at i:32179888 original size:24 final size:24
Alignment explanation
Indices: 32179861--32179909 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
32179851 TGCAAAGTAG
32179861 TTACTTTTTGAAGTGGAAAGACTT
1 TTACTTTTTGAAGTGGAAAGACTT
*
32179885 TTACTTTTTGAAGTGGAATGACTT
1 TTACTTTTTGAAGTGGAAAGACTT
32179909 T
1 T
32179910 GGAACCCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (24 bp):
TTACTTTTTGAAGTGGAAAGACTT
Found at i:32187683 original size:21 final size:22
Alignment explanation
Indices: 32187652--32187692 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
32187642 TTTAAGTAAA
*
32187652 GTTTGTAATTTTATATAATTAG
1 GTTTGTAATTTTACATAATTAG
32187674 GTTT-TAATTTTACATAATT
1 GTTTGTAATTTTACATAATT
32187693 TCATTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (22 bp):
GTTTGTAATTTTACATAATTAG
Found at i:32193104 original size:13 final size:13
Alignment explanation
Indices: 32193086--32193112 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32193076 CTCTTTTGAA
32193086 CTCTGTTTAAACT
1 CTCTGTTTAAACT
32193099 CTCTGTTTAAACT
1 CTCTGTTTAAACT
32193112 C
1 C
32193113 CTTAAAGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.07, T:0.44
Consensus pattern (13 bp):
CTCTGTTTAAACT
Found at i:32195966 original size:369 final size:369
Alignment explanation
Indices: 32195287--32196025 Score: 1478
Period size: 369 Copynumber: 2.0 Consensus size: 369
32195277 TTGCAAAATA
32195287 GTCCTCTTGTTAGAAACTCATGCTACAAGGACCTTAAAAGTACTAAAATATTCAAGAAAAACCCT
1 GTCCTCTTGTTAGAAACTCATGCTACAAGGACCTTAAAAGTACTAAAATATTCAAGAAAAACCCT
32195352 CAAATCAATTACTTTCAAAGGCTTTAAGTTGCTAAAAAATTTTCAAGCTTCAATGGTCATTTTCT
66 CAAATCAATTACTTTCAAAGGCTTTAAGTTGCTAAAAAATTTTCAAGCTTCAATGGTCATTTTCT
32195417 TGGAGAAAAATCGATGGAGAAGAAAGAGAGATGAAAAAAAATGACAGCTTTTACTATTTGTTTTA
131 TGGAGAAAAATCGATGGAGAAGAAAGAGAGATGAAAAAAAATGACAGCTTTTACTATTTGTTTTA
32195482 TTTTATTCATTTTCAACACCTAATTTCACCAAATTTTGACTTTTGACCACCTTTGTCTCCTATGG
196 TTTTATTCATTTTCAACACCTAATTTCACCAAATTTTGACTTTTGACCACCTTTGTCTCCTATGG
32195547 CCAGCCATGCTATTCTAAAGGGTCTAATTGCCCATTAAAGACCTCCAATTTAGGTTCTCTAGCTA
261 CCAGCCATGCTATTCTAAAGGGTCTAATTGCCCATTAAAGACCTCCAATTTAGGTTCTCTAGCTA
32195612 TTTGACACCCTTAGCTATCAAAATAGGACTTTTGCACTTTATGC
326 TTTGACACCCTTAGCTATCAAAATAGGACTTTTGCACTTTATGC
32195656 GTCCTCTTGTTAGAAACTCATGCTACAAGGACCTTAAAAGTACTAAAATATTCAAGAAAAACCCT
1 GTCCTCTTGTTAGAAACTCATGCTACAAGGACCTTAAAAGTACTAAAATATTCAAGAAAAACCCT
32195721 CAAATCAATTACTTTCAAAGGCTTTAAGTTGCTAAAAAATTTTCAAGCTTCAATGGTCATTTTCT
66 CAAATCAATTACTTTCAAAGGCTTTAAGTTGCTAAAAAATTTTCAAGCTTCAATGGTCATTTTCT
32195786 TGGAGAAAAATCGATGGAGAAGAAAGAGAGATGAAAAAAAATGACAGCTTTTACTATTTGTTTTA
131 TGGAGAAAAATCGATGGAGAAGAAAGAGAGATGAAAAAAAATGACAGCTTTTACTATTTGTTTTA
32195851 TTTTATTCATTTTCAACACCTAATTTCACCAAATTTTGACTTTTGACCACCTTTGTCTCCTATGG
196 TTTTATTCATTTTCAACACCTAATTTCACCAAATTTTGACTTTTGACCACCTTTGTCTCCTATGG
32195916 CCAGCCATGCTATTCTAAAGGGTCTAATTGCCCATTAAAGACCTCCAATTTAGGTTCTCTAGCTA
261 CCAGCCATGCTATTCTAAAGGGTCTAATTGCCCATTAAAGACCTCCAATTTAGGTTCTCTAGCTA
32195981 TTTGACACCCTTAGCTATCAAAATAGGACTTTTGCACTTTATGC
326 TTTGACACCCTTAGCTATCAAAATAGGACTTTTGCACTTTATGC
32196025 G
1 G
32196026 ATTTAGTCCC
Statistics
Matches: 370, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
369 370 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (369 bp):
GTCCTCTTGTTAGAAACTCATGCTACAAGGACCTTAAAAGTACTAAAATATTCAAGAAAAACCCT
CAAATCAATTACTTTCAAAGGCTTTAAGTTGCTAAAAAATTTTCAAGCTTCAATGGTCATTTTCT
TGGAGAAAAATCGATGGAGAAGAAAGAGAGATGAAAAAAAATGACAGCTTTTACTATTTGTTTTA
TTTTATTCATTTTCAACACCTAATTTCACCAAATTTTGACTTTTGACCACCTTTGTCTCCTATGG
CCAGCCATGCTATTCTAAAGGGTCTAATTGCCCATTAAAGACCTCCAATTTAGGTTCTCTAGCTA
TTTGACACCCTTAGCTATCAAAATAGGACTTTTGCACTTTATGC
Found at i:32198886 original size:74 final size:74
Alignment explanation
Indices: 32198763--32198902 Score: 253
Period size: 74 Copynumber: 1.9 Consensus size: 74
32198753 GATCCTTAGA
*
32198763 AAGGGATACTTATTCTTCACAGTCACCTTGTTGAGCTGCCTGTAATCTATTCATAACCTCATCGA
1 AAGGGATACTTATTCTTCACAGTCACCTTGTTGAGCTGCCTGTAATCTATACATAACCTCATCGA
32198828 CCCATTGGC
66 CCCATTGGC
* *
32198837 AAGGGATACTTATTCTTCACAGTCACCTTGTTGAGTTGCCTGTAGTCTATACATAACCTCATCGA
1 AAGGGATACTTATTCTTCACAGTCACCTTGTTGAGCTGCCTGTAATCTATACATAACCTCATCGA
32198902 C
66 C
32198903 TTGTCTTTCT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (74 bp):
AAGGGATACTTATTCTTCACAGTCACCTTGTTGAGCTGCCTGTAATCTATACATAACCTCATCGA
CCCATTGGC
Found at i:32201478 original size:15 final size:14
Alignment explanation
Indices: 32201392--32201487 Score: 51
Period size: 14 Copynumber: 6.9 Consensus size: 14
32201382 TTAATTTAGT
*
32201392 AAATGAAAGAAATA-
1 AAATGAAATAAA-AG
32201406 AAATGAAAT-AAAG
1 AAATGAAATAAAAG
32201419 -AAT-AAATAAAAG
1 AAATGAAATAAAAG
*
32201431 AAA-GAAATATAAG
1 AAATGAAATAAAAG
* * *
32201444 AAAAAGAAACAGGGAAG
1 -AAATGAAATA--AAAG
32201461 AAATGAAATAGAAAG
1 AAATGAAATA-AAAG
*
32201476 AAA-GAAAGAAAA
1 AAATGAAATAAAA
32201488 AAAAATAAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 17
0.73 0.09 0.19
Matches are distributed among these distances:
11 4 0.06
12 8 0.12
13 15 0.23
14 16 0.24
15 12 0.18
16 8 0.12
17 3 0.05
ACGTcount: A:0.71, C:0.01, G:0.18, T:0.10
Consensus pattern (14 bp):
AAATGAAATAAAAG
Found at i:32206135 original size:45 final size:45
Alignment explanation
Indices: 32206071--32206163 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
32206061 GTTCTTAGTA
32206071 ATGCCATTCGGGTTGACAAATGCTCCAGCTACCTTTATGGATCTC
1 ATGCCATTCGGGTTGACAAATGCTCCAGCTACCTTTATGGATCTC
* *
32206116 ATGCCATTCGGGTTGACAAATGCTCCAGCTGCTTTTATGGATCTC
1 ATGCCATTCGGGTTGACAAATGCTCCAGCTACCTTTATGGATCTC
32206161 ATG
1 ATG
32206164 AATCATATCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (45 bp):
ATGCCATTCGGGTTGACAAATGCTCCAGCTACCTTTATGGATCTC
Found at i:32208401 original size:16 final size:16
Alignment explanation
Indices: 32208367--32208409 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
32208357 GTAAAAGCTA
* *
32208367 AAATGCTGAAATGCTG
1 AAATGCTGAAATACCG
*
32208383 AAATGCTGAATTACCG
1 AAATGCTGAAATACCG
*
32208399 AAATGCCGAAA
1 AAATGCTGAAA
32208410 GTTTTGCTGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (16 bp):
AAATGCTGAAATACCG
Found at i:32208409 original size:8 final size:8
Alignment explanation
Indices: 32208367--32208392 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
32208357 GTAAAAGCTA
32208367 AAATGCTG
1 AAATGCTG
32208375 AAATGCTG
1 AAATGCTG
32208383 AAATGCTG
1 AAATGCTG
32208391 AA
1 AA
32208393 TTACCGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (8 bp):
AAATGCTG
Found at i:32208662 original size:29 final size:28
Alignment explanation
Indices: 32208621--32208679 Score: 100
Period size: 29 Copynumber: 2.1 Consensus size: 28
32208611 GTGAGCATGA
32208621 ATATAATGTGATTTGGGCCTAAAGGGCC
1 ATATAATGTGATTTGGGCCTAAAGGGCC
*
32208649 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATAT-AATGTGATTTGGGCCTAAAGGGCC
32208678 AT
1 AT
32208680 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
ATATAATGTGATTTGGGCCTAAAGGGCC
Found at i:32212840 original size:16 final size:16
Alignment explanation
Indices: 32212821--32212851 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32212811 CTTCTTCACT
32212821 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
32212837 TACTTACTTACTTAA
1 TACTCACTTACTTAA
32212852 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Done.