Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 17 of 185
Found at i:4618633 original size:16 final size:16
Alignment explanation
Indices: 4618614--4618645 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4618604 TTAAGGTTTT
4618614 TAAGTTAAGGGTTTAG
1 TAAGTTAAGGGTTTAG
4618630 TAAGTTAAGGGTTTAG
1 TAAGTTAAGGGTTTAG
4618646 GGTTTTTAAT
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:0.00, G:0.31, T:0.38
Consensus pattern (16 bp):
TAAGTTAAGGGTTTAG
Found at i:4619171 original size:18 final size:18
Alignment explanation
Indices: 4619145--4619187 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4619135 GACTCGAAAA
* *
4619145 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
4619163 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
4619181 AGGAAAC
1 AGGAAAC
4619188 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:4620059 original size:20 final size:20
Alignment explanation
Indices: 4620022--4620059 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4620012 TTTATTTTTA
*
4620022 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
4620042 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
4620060 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:4621060 original size:11 final size:11
Alignment explanation
Indices: 4621046--4621123 Score: 74
Period size: 11 Copynumber: 7.0 Consensus size: 11
4621036 ATTAAATATG
4621046 AATTTGAGAGA
1 AATTTGAGAGA
*
4621057 AATTTG-GAAGG
1 AATTTGAG-AGA
4621068 AATTTGAGAGCA
1 AATTTGAGAG-A
4621080 AA-TTGAGAGGA
1 AATTTGAGA-GA
4621091 AATTT-AGAAGA
1 AATTTGAG-AGA
4621102 AA-TTGAGAGGA
1 AATTTGAGA-GA
4621113 AATTTGAGAGA
1 AATTTGAGAGA
4621124 GGATTAGTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 18
0.74 0.03 0.24
Matches are distributed among these distances:
10 4 0.07
11 39 0.70
12 13 0.23
ACGTcount: A:0.45, C:0.01, G:0.29, T:0.24
Consensus pattern (11 bp):
AATTTGAGAGA
Found at i:4621070 original size:22 final size:22
Alignment explanation
Indices: 4621046--4621123 Score: 99
Period size: 22 Copynumber: 3.5 Consensus size: 22
4621036 ATTAAATATG
4621046 AATTTGAGAGAAATTTG-GAAGG-
1 AATTTGAGAGAAA-TTGAG-AGGA
4621068 AATTTGAGAGCAAATTGAGAGGA
1 AATTTGAGAG-AAATTGAGAGGA
4621091 AATTT-AGAAGAAATTGAGAGGA
1 AATTTGAG-AGAAATTGAGAGGA
4621113 AATTTGAGAGA
1 AATTTGAGAGA
4621124 GGATTAGTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
22 38 0.75
23 13 0.25
ACGTcount: A:0.45, C:0.01, G:0.29, T:0.24
Consensus pattern (22 bp):
AATTTGAGAGAAATTGAGAGGA
Found at i:4621108 original size:33 final size:35
Alignment explanation
Indices: 4621046--4621122 Score: 106
Period size: 33 Copynumber: 2.3 Consensus size: 35
4621036 ATTAAATATG
* *
4621046 AATTTGAGA-GAAATTTGGAAGGAATTTGAGAGCA
1 AATTTGAGAGGAAATTTAGAAGGAAATTGAGAGCA
*
4621080 AA-TTGAGAGGAAATTTAGAA-GAAATTGAGAGGA
1 AATTTGAGAGGAAATTTAGAAGGAAATTGAGAGCA
4621113 AATTTGAGAG
1 AATTTGAGAG
4621123 AGGATTAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 19 0.50
34 19 0.50
ACGTcount: A:0.44, C:0.01, G:0.30, T:0.25
Consensus pattern (35 bp):
AATTTGAGAGGAAATTTAGAAGGAAATTGAGAGCA
Found at i:4625407 original size:5 final size:5
Alignment explanation
Indices: 4625397--4625421 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4625387 ATGTTTCCTG
4625397 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
4625422 TCCCCCTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:4633825 original size:27 final size:26
Alignment explanation
Indices: 4633790--4633845 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
4633780 ATACTATGCA
*
4633790 CTTATAATCTTGTCTCTTCTCATTTTT
1 CTTAAAATCTTGTCTCTTCTC-TTTTT
4633817 CTTAAAATCTTGTCTCTTCTCTTTTT
1 CTTAAAATCTTGTCTCTTCTCTTTTT
4633843 CTT
1 CTT
4633846 TTTCTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.14, C:0.23, G:0.04, T:0.59
Consensus pattern (26 bp):
CTTAAAATCTTGTCTCTTCTCTTTTT
Found at i:4634732 original size:23 final size:23
Alignment explanation
Indices: 4634674--4634728 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
4634664 TAATTTACAC
* *
4634674 AAATACTTATATTTATATTGTTA
1 AAATATTTATATTTATACTGTTA
*
4634697 AAATATTCATATTTATACT-TTA
1 AAATATTTATATTTATACTGTTA
4634719 AAATATTTAT
1 AAATATTTAT
4634729 TATTAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (23 bp):
AAATATTTATATTTATACTGTTA
Found at i:4640284 original size:6 final size:6
Alignment explanation
Indices: 4640273--4640305 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
4640263 ACGTAAATAA
*
4640273 ATATTT ATATTT ATATTT ATATTT ATATAT ATA
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATA
4640306 ATTAACGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
ATATTT
Found at i:4641077 original size:30 final size:26
Alignment explanation
Indices: 4641006--4641068 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 26
4640996 ACATCACATA
* *
4641006 ATTTTGTCCACGA-TTT-CATGGTTTT
1 ATTTTGTTCAC-ATTTTCCATGATTTT
4641031 ATTTTGTTCACATTTTCCATGATTTT
1 ATTTTGTTCACATTTTCCATGATTTT
4641057 GATTTTGTTCAC
1 -ATTTTGTTCAC
4641069 TCCATTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 1 0.03
25 13 0.39
26 8 0.24
27 11 0.33
ACGTcount: A:0.17, C:0.16, G:0.13, T:0.54
Consensus pattern (26 bp):
ATTTTGTTCACATTTTCCATGATTTT
Found at i:4642399 original size:61 final size:62
Alignment explanation
Indices: 4642261--4642408 Score: 158
Period size: 61 Copynumber: 2.4 Consensus size: 62
4642251 AGGTCGTGTA
* * * *
4642261 ACTCACTGTTGCTATTAGAGACCACACGAGCTAGAGACACGAGTGTGTGTCTAGGCCATATG
1 ACTCACTATTACTATTAGAGACCACACGAGCCAGAGACACGAGTGTGTGTCCAGGCCATATG
* * * * *
4642323 ACTCACTGTTGCTATTAGAGACCACAC-TGCCAGAGACAC-A-TGCTTGTGTCCAGGCCGTGTG
1 ACTCACTATTACTATTAGAGACCACACGAGCCAGAGACACGAGTG--TGTGTCCAGGCCATATG
* *
4642384 ACTTACTATTACTATTAAAGACCAC
1 ACTCACTATTACTATTAGAGACCAC
4642409 GTAGGTCAGA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 2 0.03
60 1 0.01
61 45 0.60
62 27 0.36
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (62 bp):
ACTCACTATTACTATTAGAGACCACACGAGCCAGAGACACGAGTGTGTGTCCAGGCCATATG
Found at i:4675529 original size:30 final size:30
Alignment explanation
Indices: 4675495--4675555 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
4675485 CACGGGCTGG
4675495 CACATAGGCGTGTGTCTAGCCCGTGTGGCT
1 CACATAGGCGTGTGTCTAGCCCGTGTGGCT
* *
4675525 CACATGGGTGTGTGTCTAGCCCGTGTGGCT
1 CACATAGGCGTGTGTCTAGCCCGTGTGGCT
4675555 C
1 C
4675556 CTAAAATCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.11, C:0.26, G:0.34, T:0.28
Consensus pattern (30 bp):
CACATAGGCGTGTGTCTAGCCCGTGTGGCT
Found at i:4677634 original size:18 final size:18
Alignment explanation
Indices: 4677611--4677646 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4677601 GTTTTGAATG
* *
4677611 TTATTTTTATTATTATTT
1 TTATTTTAATAATTATTT
4677629 TTATTTTAATAATTATTT
1 TTATTTTAATAATTATTT
4677647 ACATGTTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTTTAATAATTATTT
Found at i:4678120 original size:16 final size:16
Alignment explanation
Indices: 4678099--4678132 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4678089 CATGAGAGTC
4678099 TGGATTCAATCTCAAT
1 TGGATTCAATCTCAAT
4678115 TGGATTCAATCTCAAT
1 TGGATTCAATCTCAAT
4678131 TG
1 TG
4678133 TAACTCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (16 bp):
TGGATTCAATCTCAAT
Found at i:4681307 original size:6 final size:6
Alignment explanation
Indices: 4681296--4681341 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
4681286 AAATCTACTT
*
4681296 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATACAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
4681342 CCTCATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:4681921 original size:48 final size:48
Alignment explanation
Indices: 4681865--4681961 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
4681855 TTTATTCAAT
4681865 TTTAACATTTGAGTAACAAGCTTTCAATTTATTATATGAAAAATTTTC
1 TTTAACATTTGAGTAACAAGCTTTCAATTTATTATATGAAAAATTTTC
*
4681913 TTTAACATTTGAGTAACAAGCTTTCAATTTCTTATATGAAAAATTTTC
1 TTTAACATTTGAGTAACAAGCTTTCAATTTATTATATGAAAAATTTTC
4681961 T
1 T
4681962 ACCAGGGGAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.44
Consensus pattern (48 bp):
TTTAACATTTGAGTAACAAGCTTTCAATTTATTATATGAAAAATTTTC
Found at i:4682556 original size:64 final size:64
Alignment explanation
Indices: 4682472--4682733 Score: 506
Period size: 64 Copynumber: 4.1 Consensus size: 64
4682462 TTTGATATGG
*
4682472 ATGAGGTAATTGCAACATCACTTAGACTTCAATGAAATAATTTACACTAAAGAGAAATAAAAAA
1 ATGAAGTAATTGCAACATCACTTAGACTTCAATGAAATAATTTACACTAAAGAGAAATAAAAAA
4682536 ATGAAGTAATTGCAACATCACTTAGACTTCAATGAAATAATTTACACTAAAGAGAAATAAAAAA
1 ATGAAGTAATTGCAACATCACTTAGACTTCAATGAAATAATTTACACTAAAGAGAAATAAAAAA
4682600 ATGAAGTAATTGCAACATCACTTAGACTTCAATGAAATAATTTACACTAAAGAGAAATAAAAAA
1 ATGAAGTAATTGCAACATCACTTAGACTTCAATGAAATAATTTACACTAAAGAGAAATAAAAAA
4682664 ATGAAGTAATTGCAACATCACTTAGACTTCAATGAAATAATTTACACTAAAGAGAAATAAAAAAA
1 ATGAAGTAATTGCAACATCACTTAGACTTCAATGAAATAATTTACACTAAAGAGAAAT-AAAAAA
4682729 ATGAA
1 ATGAA
4682734 CTTATTTACC
Statistics
Matches: 196, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
64 185 0.94
65 11 0.06
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.25
Consensus pattern (64 bp):
ATGAAGTAATTGCAACATCACTTAGACTTCAATGAAATAATTTACACTAAAGAGAAATAAAAAA
Found at i:4682881 original size:7 final size:7
Alignment explanation
Indices: 4682869--4682905 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
4682859 TTATGACACC
4682869 AATGGTA
1 AATGGTA
4682876 AATGGTA
1 AATGGTA
4682883 AATGGTA
1 AATGGTA
4682890 AATGGTA
1 AATGGTA
4682897 AAT-GTA
1 AATGGTA
4682903 AAT
1 AAT
4682906 TTGTTTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (7 bp):
AATGGTA
Found at i:4705802 original size:22 final size:22
Alignment explanation
Indices: 4705761--4705826 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
4705751 TGTGGGGTCA
*
4705761 ACACGCCCATATG-AAGGAGGC
1 ACACGCCCATGTGAAAGGAGGC
*
4705782 ACACGCCCATGCGAAAGGAGGC
1 ACACGCCCATGTGAAAGGAGGC
* *
4705804 ACATGCCCGTGTGAAAGGAGGC
1 ACACGCCCATGTGAAAGGAGGC
4705826 A
1 A
4705827 TACGGTCGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 11 0.28
22 28 0.72
ACGTcount: A:0.32, C:0.27, G:0.32, T:0.09
Consensus pattern (22 bp):
ACACGCCCATGTGAAAGGAGGC
Found at i:4708508 original size:30 final size:30
Alignment explanation
Indices: 4708472--4708592 Score: 124
Period size: 30 Copynumber: 4.2 Consensus size: 30
4708462 AATAAATATT
* * *
4708472 TTTTTTAATTTTAAAATATTTTTTACATAC
1 TTTTTTAATTTTAAAATAATTTTAAAATAC
*** *
4708502 TTTTTTAATTTT-TTTTAATTTTAAAATAT
1 TTTTTTAATTTTAAAATAATTTTAAAATAC
*
4708531 TTTTTTAATTTTAAAATACTTTTAAAATAC
1 TTTTTTAATTTTAAAATAATTTTAAAATAC
**
4708561 TTTTTTAATTTT--TTTAATTTTAAAATA-
1 TTTTTTAATTTTAAAATAATTTTAAAATAC
4708588 TTTTT
1 TTTTT
4708593 AAAATAATTT
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
27 5 0.07
28 12 0.16
29 22 0.29
30 36 0.48
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTTTAATTTTAAAATAATTTTAAAATAC
Found at i:4708572 original size:39 final size:40
Alignment explanation
Indices: 4708529--4708612 Score: 143
Period size: 39 Copynumber: 2.1 Consensus size: 40
4708519 ATTTTAAAAT
4708529 ATTTTTTTAATTTTAAAATACTTTTAAAAT-ACTTTTTTA
1 ATTTTTTTAATTTTAAAATACTTTTAAAATAACTTTTTTA
* *
4708568 ATTTTTTTAATTTTAAAATATTTTTAAAATAATTTTTTTA
1 ATTTTTTTAATTTTAAAATACTTTTAAAATAACTTTTTTA
4708608 ATTTT
1 ATTTT
4708613 ATTCAATCGA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 29 0.69
40 13 0.31
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATACTTTTAAAATAACTTTTTTA
Found at i:4708573 original size:58 final size:59
Alignment explanation
Indices: 4708465--4708592 Score: 213
Period size: 59 Copynumber: 2.2 Consensus size: 59
4708455 CCGATATAAT
* * *
4708465 AAATATTTTTTTTAATTTTAAAATATTTTTTACATACTTTTTTAATTTTTTTTAATTTTA
1 AAATA-TTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAATTTTTTTTAATTTTA
4708525 AAATATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAA-TTTTTTTAATTTTA
1 AAATATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAATTTTTTTTAATTTTA
4708583 AAATATTTTT
1 AAATATTTTT
4708593 AAAATAATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
58 24 0.37
59 36 0.55
60 5 0.08
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (59 bp):
AAATATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAATTTTTTTTAATTTTA
Found at i:4709844 original size:88 final size:91
Alignment explanation
Indices: 4709746--4710001 Score: 410
Period size: 92 Copynumber: 2.8 Consensus size: 91
4709736 ATCATTTCTC
* **
4709746 TTTTTTCAATTTTTCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCGATTAAGAA
1 TTTTTTCAATTTTCCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
4709811 GCCATCAACTTCTC-T-TTC-TTTTT
66 GCCATCAACTTCTCTTCTTCTTTTTT
4709834 TTTTTTCAATTTTCCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
1 TTTTTTCAATTTTCCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
*
4709899 ACCATCAACTTCTCTTCTTCTTTTTTT
66 GCCATCAACTTCTCTTCTTC-TTTTTT
* * *
4709926 TTTTTTCAATTTCCCCCCACATATATAAGAAATAAAACTTTTGATTCATCAATGTCCTTTCAGAA
1 TTTTTTCAATTTTCCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
*
4709991 GCAATCAACTT
66 GCCATCAACTT
4710002 TTATATTCTT
Statistics
Matches: 155, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
88 75 0.48
89 1 0.01
90 3 0.02
92 76 0.49
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (91 bp):
TTTTTTCAATTTTCCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
GCCATCAACTTCTCTTCTTCTTTTTT
Found at i:4710510 original size:5 final size:5
Alignment explanation
Indices: 4710500--4710525 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4710490 GAATCCATCG
4710500 CTTTC CTTTC CTTTC CTTTC CTTTC C
1 CTTTC CTTTC CTTTC CTTTC CTTTC C
4710526 CCTATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (5 bp):
CTTTC
Found at i:4715764 original size:628 final size:626
Alignment explanation
Indices: 4714675--4716432 Score: 2328
Period size: 628 Copynumber: 2.8 Consensus size: 626
4714665 TTGGGGTTAA
* * *
4714675 ATCATAAA-CTCCCTCTTTCTTTTTATCTCATAACTATCAATCTCATACCCAATTTCATATGAGA
1 ATCATAAAGC-CCCTCTCTCTTTTTATCTCATAACTATCAATCCCATACCCAATTTCATCTGAGA
* ** * *
4714739 AGAAACAATTGTGGTTAGAGTTTTCCGGTTCTGGTGGCAAATCATGACACAACCTCTCTCATGTT
65 AGAAACAATTGTGGTGAGAGTTTT-CAATTCTGGTGGTAGATCATGACACAACCTCTCTCATGTT
*
4714804 ATTAGCATCAATGCTACAACTATTTTCCTACCAAGGTAATTCCAATCTCA-TTTATATTCTTACT
129 ACTAGCATCAATGCTACAACTATTTTCCTACCAAGGTAATTCCAATC-CACTTTATA---TT-CT
* * * * *
4714868 TCAATCAATCCACTTATATGCATATGCATATA-CATATACCATGTCCTCCTCTCTTTTTTCAATT
189 TCAATCAATCCACTTATATACATATACATATATCATAT-CC---TCCTCTTTTTTTTTTTCAA-T
* *
4714932 TTTCCC-CACATATATAACAAATAAAACTTTTGATTCATCAATGTCCTTTCAGGAGCCATTAACT
249 TTTCCCTCACATATATAACAAATAAAACTTTTGATTCATCAATGTCCTTTCAGAAGCCATCAACT
* * *
4714996 TTTATATTCTTTTTTATTATGTTGTTTCTGTATACATCAAAATTTTTCGTGTCTCCTTTCTACTT
314 TTTATATCCTTCTTTATCATGTTGTTTCTGTATACATCAAAATTTTTCGTGTCTCCTTTCTACTT
* * * * * *
4715061 ATCAAAAAATTTGTCCTAAATTTTTCTTGTTATTATCGACCACGATGATAACTAAATTAGGTAAT
379 ATCAAAATATATGTCCTAAGTTTTTCTTGTTATTATCAACCACAACGATAACTAAATTAGGTAAT
*
4715126 ATAGAAATTTCTATCCATGTGTAAATATGGCATGGAAACAAATCTA-CTAGTATTAA-TCAGATG
444 ATAGAAATTTCTAT-CATGTGTAAATATGGCATGGAAACAAATC-AGCTAGTATTAATTCAGATC
* * * **
4715189 TAAACAGCCGGAATGGCTTAGTTATTCAGATGAACCAAACATGGTGTTAAGGTGGTGATGTGGTT
507 TAAACACCCAGAATGGCTTAGTTATTCAGATGAACCAAACATGATGTTAAGGTGGCAATGTGGTT
4715254 TGTTTAAGACATTTGTTAATAATTTGGGGTTAAATCTTTTTGGGTCTAATAATAT
572 TGTTTAAGACATTTGTTAATAATTTGGGGTTAAATCTTTTTGGGTCTAATAATAT
*
4715309 ATCATAAA-CCTTCTCTCTCTTTTTATCTCATAACTATCAATCCCATACCCAATTTCATCTGAGA
1 ATCATAAAGCC-CCTCTCTCTTTTTATCTCATAACTATCAATCCCATACCCAATTTCATCTGAGA
* *
4715373 AGAAACAATTGTGGTGAGAGCTTTTCAATTTTAGTGGTAGATCATGACACAACCTCTCTCATGTT
65 AGAAACAATTGTGGTGAGAG-TTTTCAATTCTGGTGGTAGATCATGACACAACCTCTCTCATGTT
*
4715438 ACTAGCATCAATGCTACAACTATTCTCCTACCAAGGTAATTCCAATCCACTTTATATTCTTCAAT
129 ACTAGCATCAATGCTACAACTATTTTCCTACCAAGGTAATTCCAATCCACTTTATATTCTTCAAT
** *
4715503 CAATCCACTTATATACATATACATATATCATATCCTCCAGTTTTTTTTCTTTCAATTTTCCCTTA
194 CAATCCACTTATATACATATACATATATCATATCCTCCTCTTTTTTTT-TTTCAATTTTCCCTCA
* *
4715568 CATATATATCAAATAAAACTTTTGATTCATCAATATCCTTTCAGAAGCCATCAACTTTTATATCC
258 CATATATAACAAATAAAACTTTTGATTCATCAATGTCCTTTCAGAAGCCATCAACTTTTATATCC
*
4715633 TTCTTTATCATGTTGTTTCTGTATACATCAAAATTTTTCGTGTCTCCTTTCTCCTTATCAAAATA
323 TTCTTTATCATGTTGTTTCTGTATACATCAAAATTTTTCGTGTCTCCTTTCTACTTATCAAAATA
* * *
4715698 TATGTCTTAAGTTTTTCTTGTTATTATCAACCACAACGATTACTAAATTAGATAATAT-GTAAAT
388 TATGTCCTAAGTTTTTCTTGTTATTATCAACCACAACGATAACTAAATTAGGTAATATAG-AAAT
* * * *
4715762 TTCTATTCATGTGTAAATATGGCATGGAAATAAATCAGCTGGTATTAATTTAGATCTATACACCC
452 TTCTA-TCATGTGTAAATATGGCATGGAAACAAATCAGCTAGTATTAATTCAGATCTAAACACCC
*
4715827 AGAATGGCTTAGTTATTCAGATGAACCAAACATGATGTTAAGGTGGCAATGTGGTTTGTTTAAGG
516 AGAATGGCTTAGTTATTCAGATGAACCAAACATGATGTTAAGGTGGCAATGTGGTTTGTTTAAGA
* *
4715892 CATTTGTTAATAGTTTGGGGTTAAATTTTTTTGGGTCTAATAATAT
581 CATTTGTTAATAATTTGGGGTTAAATCTTTTTGGGTCTAATAATAT
*
4715938 ATCATAAAGCCCCTCTCTCTTTTTATCTCATAACTATCAATCCCATATCCAATTTCATCTATGGA
1 ATCATAAAGCCCCTCTCTCTTTTTATCTCATAACTATCAATCCCATACCCAATTTCATC--T-GA
*
4716003 GGAAATGAGAAGAACCAATAGTGGTGAGAGTTTTTCAATTCTGGTGGTAGATCATGACACAACCT
63 -G--A--AG-A-AA-CAATTGTGGTGAGAG-TTTTCAATTCTGGTGGTAGATCATGACACAACCT
*
4716068 CTCTCATGTTACTAGCATCAATGCT---A-T-TTTTCC-ACCAAGGTAATTCTAATCC-CATTTA
119 CTCTCATGTTACTAGCATCAATGCTACAACTATTTTCCTACCAAGGTAATTCCAATCCAC-TTTA
* * *
4716126 TATTCTTATTCCAATTAATCCACTAATATACATATACATATATCATATCCTCCTCTCTCTCTCTC
183 TATTC---TT-CAATCAATCCACTTATATACATATACATATATCATATCCTCCTCT-T-T-T-TT
* * * * * * *
4716191 TTTTTCAATTTT-CCTCCACAGATATAAGATATAAAACTTTTGATTCATTAGTGCCCTTTTAGAA
240 TTTTTCAATTTTCCCT-CACATATATAACAAATAAAACTTTTGATTCATCAATGTCCTTTCAGAA
* * *
4716255 GCCATCAACTTTTATATCATTCTTTATCATGTCGTTTCGGTATACATCAAAATATTTT-GTGTCT
304 GCCATCAACTTTTATATCCTTCTTTATCATGTTGTTTCTGTATACATCAAAAT-TTTTCGTGTCT
* *** *
4716319 CCTTTTCTGCTTATCAAAATATCCATCCTAAGTTTTTCTTGTTATTATCAACCACAACGAAAACT
368 CC-TTTCTACTTATCAAAATATATGTCCTAAGTTTTTCTTGTTATTATCAACCACAACGATAACT
* *
4716384 AAATTAGGTAATATAAAAAATTTCTATC-TGTGTAAATATGACATGGAAA
432 AAATTAGGTAATAT-AGAAATTTCTATCATGTGTAAATATGGCATGGAAA
4716433 TTTCTACTTA
Statistics
Matches: 1001, Mismatches: 87, Indels: 65
0.87 0.08 0.06
Matches are distributed among these distances:
627 17 0.02
628 224 0.22
629 171 0.17
630 36 0.04
631 8 0.01
632 2 0.00
633 5 0.00
634 189 0.19
635 10 0.01
636 1 0.00
637 5 0.00
638 42 0.04
639 3 0.00
640 75 0.07
641 127 0.13
642 77 0.08
643 9 0.01
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (626 bp):
ATCATAAAGCCCCTCTCTCTTTTTATCTCATAACTATCAATCCCATACCCAATTTCATCTGAGAA
GAAACAATTGTGGTGAGAGTTTTCAATTCTGGTGGTAGATCATGACACAACCTCTCTCATGTTAC
TAGCATCAATGCTACAACTATTTTCCTACCAAGGTAATTCCAATCCACTTTATATTCTTCAATCA
ATCCACTTATATACATATACATATATCATATCCTCCTCTTTTTTTTTTTCAATTTTCCCTCACAT
ATATAACAAATAAAACTTTTGATTCATCAATGTCCTTTCAGAAGCCATCAACTTTTATATCCTTC
TTTATCATGTTGTTTCTGTATACATCAAAATTTTTCGTGTCTCCTTTCTACTTATCAAAATATAT
GTCCTAAGTTTTTCTTGTTATTATCAACCACAACGATAACTAAATTAGGTAATATAGAAATTTCT
ATCATGTGTAAATATGGCATGGAAACAAATCAGCTAGTATTAATTCAGATCTAAACACCCAGAAT
GGCTTAGTTATTCAGATGAACCAAACATGATGTTAAGGTGGCAATGTGGTTTGTTTAAGACATTT
GTTAATAATTTGGGGTTAAATCTTTTTGGGTCTAATAATAT
Found at i:4717765 original size:8 final size:8
Alignment explanation
Indices: 4717754--4717823 Score: 50
Period size: 8 Copynumber: 7.9 Consensus size: 8
4717744 TAAAAAATTA
4717754 TAATTTTT
1 TAATTTTT
4717762 TAATTTTT
1 TAATTTTT
*
4717770 AATGATTTTT
1 --TAATTTTT
4717780 TAATTTTT
1 TAATTTTT
*
4717788 AAAAATATTTT
1 --TAAT-TTTT
4717799 TATATTTTT
1 TA-ATTTTT
4717808 TAAATTTTT
1 T-AATTTTT
*
4717817 AAATTTT
1 TAATTTT
4717824 AAAAAATTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
8 21 0.42
9 12 0.24
10 13 0.26
11 4 0.08
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (8 bp):
TAATTTTT
Found at i:4717797 original size:20 final size:21
Alignment explanation
Indices: 4717756--4717811 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 21
4717746 AAAAATTATA
4717756 ATTTTTTAATTTTT---AATG
1 ATTTTTTAATTTTTAAAAATG
4717774 ATTTTTTAATTTTTAAAAAT-
1 ATTTTTTAATTTTTAAAAATG
*
4717794 ATTTTTATATTTTTTAAA
1 ATTTTT-TAATTTTTAAA
4717812 TTTTTAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 14 0.42
20 6 0.18
21 13 0.39
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTTTTTAATTTTTAAAAATG
Found at i:4717798 original size:18 final size:17
Alignment explanation
Indices: 4717758--4717828 Score: 63
Period size: 18 Copynumber: 4.0 Consensus size: 17
4717748 AAATTATAAT
* *
4717758 TTTTTAATTTTTAATGAT
1 TTTTTAATTTTTAA-AAA
4717776 TTTTTAATTTTTAAAAATA
1 TTTTTAATTTTT-AAAA-A
*
4717795 TTTTTATATTTTT-TAAA
1 TTTTTA-ATTTTTAAAAA
*
4717812 TTTTTAAATTTTAAAAA
1 TTTTTAATTTTTAAAAA
4717829 ATTAATTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
16 5 0.11
17 10 0.23
18 15 0.34
19 8 0.18
20 6 0.14
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (17 bp):
TTTTTAATTTTTAAAAA
Found at i:4717800 original size:37 final size:37
Alignment explanation
Indices: 4717721--4717830 Score: 103
Period size: 37 Copynumber: 2.8 Consensus size: 37
4717711 CATTTAATTA
* * *
4717721 ATTTTTTAAATTTTGAAAAATATTAAAAAATTATAATTTTTT
1 ATTTTTTAAATTTT--TAAATTTTAAAAAA-TAT--TTTTAT
* * *
4717763 AATTTTTAATGATTTTTTAATTTTTAAAAATATTTTTAT
1 ATTTTTTAA--ATTTTTAAATTTTAAAAAATATTTTTAT
4717802 ATTTTTTAAATTTTTAAATTTTAAAAAAT
1 ATTTTTTAAATTTTTAAATTTTAAAAAAT
4717831 TAATTAAATG
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
37 18 0.32
39 13 0.23
41 3 0.05
42 18 0.32
44 5 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (37 bp):
ATTTTTTAAATTTTTAAATTTTAAAAAATATTTTTAT
Found at i:4718829 original size:30 final size:30
Alignment explanation
Indices: 4718794--4718852 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
4718784 TATTTTATTG
4718794 TTAATTTTATTATTATTTTAAAGACATTTA
1 TTAATTTTATTATTATTTTAAAGACATTTA
* * *
4718824 TTAATTTTGTTATTATTTTAGAGGCATTT
1 TTAATTTTATTATTATTTTAAAGACATTT
4718853 GCTTGTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGACATTTA
Found at i:4724186 original size:22 final size:21
Alignment explanation
Indices: 4724149--4724189 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
4724139 CTCACTGCCC
4724149 ATCTTCAAAAACCTTAAAAGA
1 ATCTTCAAAAACCTTAAAAGA
4724170 ATCTTACAAACAA-CTTAAAA
1 ATCTT-CAAA-AACCTTAAAA
4724190 ACATCCAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 11 0.61
23 2 0.11
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.24
Consensus pattern (21 bp):
ATCTTCAAAAACCTTAAAAGA
Found at i:4734421 original size:41 final size:41
Alignment explanation
Indices: 4734376--4734484 Score: 175
Period size: 41 Copynumber: 2.6 Consensus size: 41
4734366 GACTTTACGT
*
4734376 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGC
*
4734417 CTAGCAGGCTAAGTGCCAGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGC
4734458 CTAGCAGG-TAAAGTGCCAGTGAATCTG
1 CTAGCAGGCT-AAGTGCCAGTG-ATCTG
4734485 TTTAAATTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
40 1 0.02
41 58 0.92
42 4 0.06
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAGC
Found at i:4734749 original size:36 final size:34
Alignment explanation
Indices: 4734655--4734768 Score: 104
Period size: 34 Copynumber: 3.3 Consensus size: 34
4734645 GTTGGATATA
* * *
4734655 TATATGTATGCATTCGGCATATGTGGATT-ATAAG
1 TATATATATGCATTTGGCATATGTAG-TTGATAAG
* *
4734689 TATATATGTGCATTTGGCACATGTAGTTGATAAG
1 TATATATATGCATTTGGCATATGTAGTTGATAAG
* * * *
4734723 TATAAATATATGCTTTTGGCATATGTATTTGAAAAA
1 TAT--ATATATGCATTTGGCATATGTAGTTGATAAG
4734759 TCATATATAT
1 T-ATATATAT
4734769 AAATGCATTC
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
33 2 0.03
34 29 0.45
35 6 0.09
36 26 0.40
37 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.40
Consensus pattern (34 bp):
TATATATATGCATTTGGCATATGTAGTTGATAAG
Found at i:4735732 original size:25 final size:25
Alignment explanation
Indices: 4735698--4735746 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
4735688 AAGCCTTAGC
4735698 CCATTTCAGTAACAGTAAGCATTAT
1 CCATTTCAGTAACAGTAAGCATTAT
4735723 CCATTTCAGTAACAGTAAGCATTA
1 CCATTTCAGTAACAGTAAGCATTA
4735747 GGGCCTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (25 bp):
CCATTTCAGTAACAGTAAGCATTAT
Found at i:4755131 original size:84 final size:84
Alignment explanation
Indices: 4754983--4755155 Score: 258
Period size: 84 Copynumber: 2.1 Consensus size: 84
4754973 ATGATACAAA
* * *
4754983 AATAACATAAATATGGCATGCATTAAAAAATAGAGAATACTTGATGCACTGTCGGTGCACAAGTC
1 AATAACATAAATATGACATGCATTAAAAAATAGAGAATACTTGATGCACTATCGATGCACAAGTC
4755048 CCATGCACCATAGGTGAAT
66 CCATGCACCATAGGTGAAT
** * *
4755067 AATAACATAAATATGACATGCATTAAAAAA-AGGAGAATGTTTGATGCACTATCGATGTATAAGT
1 AATAACATAAATATGACATGCATTAAAAAATA-GAGAATACTTGATGCACTATCGATGCACAAGT
*
4755131 CTCATGCACCATAGGTGAAT
65 CCCATGCACCATAGGTGAAT
4755151 AATAA
1 AATAA
4755156 TATGACAACT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
83 1 0.01
84 79 0.99
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (84 bp):
AATAACATAAATATGACATGCATTAAAAAATAGAGAATACTTGATGCACTATCGATGCACAAGTC
CCATGCACCATAGGTGAAT
Found at i:4755220 original size:21 final size:22
Alignment explanation
Indices: 4755196--4755255 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 22
4755186 ACAGTGGAGG
4755196 ACTTATAAATAAATACTAA-TA
1 ACTTATAAATAAATACTAATTA
* *
4755217 ACTT-TAATTAAATAATAATTA
1 ACTTATAAATAAATACTAATTA
4755238 A-TTATAAATAAATACTAA
1 ACTTATAAATAAATACTAA
4755256 AACCCTAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (22 bp):
ACTTATAAATAAATACTAATTA
Found at i:4755382 original size:16 final size:17
Alignment explanation
Indices: 4755341--4755382 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
4755331 TGTCATTTAC
4755341 AAAAGTTATGTTTAGTAT
1 AAAA-TTATGTTTAGTAT
**
4755359 TTAATTATGTTTA-TAT
1 AAAATTATGTTTAGTAT
4755375 AAAATTAT
1 AAAATTAT
4755383 TAATATTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 9 0.45
17 9 0.45
18 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (17 bp):
AAAATTATGTTTAGTAT
Found at i:4757248 original size:21 final size:20
Alignment explanation
Indices: 4757205--4757244 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4757195 TAATTTTTAA
4757205 ATTTTTAAAAATTCAAAAAT
1 ATTTTTAAAAATTCAAAAAT
4757225 ATTTTTAAAAAATT-AAAAAT
1 ATTTTT-AAAAATTCAAAAAT
4757245 TATTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTTTAAAAATTCAAAAAT
Found at i:4758699 original size:6 final size:6
Alignment explanation
Indices: 4758689--4758722 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
4758679 AAGTTTCCAA
*
4758689 AAATGA AAATGG AAATGG AAATGG AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
4758723 TATCCATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:4760531 original size:5 final size:5
Alignment explanation
Indices: 4760502--4760544 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
4760492 TCTAACAATA
*
4760502 ATTAT AATTAT AATTATT TTTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT -ATTAT -ATTA-T ATTAT ATTAT ATTAT ATTAT ATTAT
4760545 TGATTTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
5 20 0.59
6 13 0.38
7 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:4761405 original size:23 final size:26
Alignment explanation
Indices: 4761360--4761412 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 26
4761350 TAATTATGAG
4761360 TTGAAAATTTTTATTATAATATTTGAA
1 TTGAAAATTTTTATTAT-ATATTTGAA
*
4761387 TTGAAAA-TTTTATT-T-TATTTTAA
1 TTGAAAATTTTTATTATATATTTGAA
4761410 TTG
1 TTG
4761413 TTACAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 10 0.40
25 1 0.04
26 7 0.28
27 7 0.28
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (26 bp):
TTGAAAATTTTTATTATATATTTGAA
Found at i:4776541 original size:15 final size:15
Alignment explanation
Indices: 4776518--4776551 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4776508 TTACAATGCG
*
4776518 TTAATGAAATGCTTA
1 TTAAAGAAATGCTTA
4776533 TTAAAGAAATGCTTA
1 TTAAAGAAATGCTTA
4776548 TTAA
1 TTAA
4776552 TGTTTGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (15 bp):
TTAAAGAAATGCTTA
Found at i:4781344 original size:30 final size:30
Alignment explanation
Indices: 4781310--4781375 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
4781300 TTAATAGGCT
**
4781310 AGTGATTTAAATAATTTTTTTAAATAGTTC
1 AGTGATTTAAATAAAATTTTTAAATAGTTC
* *
4781340 AGTGACTTAAATAAAATTTTTGAATAGTTC
1 AGTGATTTAAATAAAATTTTTAAATAGTTC
*
4781370 AATGAT
1 AGTGAT
4781376 CTAATTGTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (30 bp):
AGTGATTTAAATAAAATTTTTAAATAGTTC
Found at i:4785848 original size:123 final size:125
Alignment explanation
Indices: 4785532--4785881 Score: 564
Period size: 125 Copynumber: 2.8 Consensus size: 125
4785522 TTATTTCGAG
* * *
4785532 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTTTACTAGGATGCTATTTGAGAAGAAATTGT
1 TTGACATTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
* *
4785596 GAAATCGCGCTCTCGTGGACGCGATTTTGCTACAGTAAGTCATGTAAGAAATAAATTTTTT
65 GAAATCGCGCACTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
* *
4785657 TTGACATTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTAAGAAGAAATTGTG
1 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
4785722 AAATCGCGCACTCGTGGACGTGATTTTGCTACAGTAGGTCATGTAAGAAAT-AA-TTTTT
66 AAATCGCGCACTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
*
4785780 TTGACCTTTCTGAAG-AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACATTTCTG-AGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
*
4785844 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
65 GAAATCGCGCACTCGTGGACGCGATTTTGCTACAGTAG
4785882 CAAGTTTGGA
Statistics
Matches: 210, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
123 99 0.47
124 4 0.02
125 106 0.50
126 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (125 bp):
TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCACTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
Found at i:4788852 original size:424 final size:424
Alignment explanation
Indices: 4788064--4788909 Score: 1638
Period size: 424 Copynumber: 2.0 Consensus size: 424
4788054 TCACGAGATG
* *
4788064 TTGGCAATCTTACGATCCCAAAACGGAGAAGGGGCGGACTACCTTTGTAACATATGTTTCGAACA
1 TTGGCAATCTTACGATCCCAAAACGGAGAAGGGGCAGACTACCTTTGTAACATACGTTTCGAACA
4788129 GTGGGCACAAGCATACGACGGAGGCCTACGATATGTCCATATGACGTCGAACCTGGCAGAATGCA
66 GTGGGCACAAGCATACGACGGAGGCCTACGATATGTCCATATGACGTCGAACCTGGCAGAATGCA
4788194 TAAATTCTGTTCTTAAAGGAACGCGCCATCTACCGATAACATCGATTGTACGAGAGACATATTTC
131 TAAATTCTGTTCTTAAAGGAACGCGCCATCTACCGATAACATCGATTGTACGAGAGACATATTTC
*
4788259 TGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAACTTATTCAGGCCAGATGCAGGGTAGCCATGT
196 TGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAACTTATGCAGGCCAGATGCAGGGTAGCCATGT
4788324 ATGGTGCAGTAAGGTAGTTCAAGAAATTAACAAGGCGAAGGCGAGGGCAAATATCATGTACATAG
261 ATGGTGCAGTAAGGTAGTTCAAGAAATTAACAAGGCGAAGGCGAGGGCAAATATCATGTACATAG
4788389 TGTGTCATGATCGAGACAATTTATGGTTTCGTGTGACGGAGTCTGACAGACCGCACCAAGGTGTT
326 TGTGTCATGATCGAGACAATTTATGGTTTCGTGTGACGGAGTCTGACAGACCGCACCAAGGTGTT
4788454 GTTGGCGGGTAATATCGTGTACACTTGCGAAATA
391 GTTGGCGGGTAATATCGTGTACACTTGCGAAATA
* *
4788488 TTGGCAATTTTACGATCCCAAAACGGAGAAGGGGCAGCCTACCTTTGTAACATACGTTTCGAACA
1 TTGGCAATCTTACGATCCCAAAACGGAGAAGGGGCAGACTACCTTTGTAACATACGTTTCGAACA
4788553 GTGGGCACAAGCATACGACGGAGGCCTACGATATGTCCATATGACGTCGAACCTGGCAGAATGCA
66 GTGGGCACAAGCATACGACGGAGGCCTACGATATGTCCATATGACGTCGAACCTGGCAGAATGCA
4788618 TAAATTCTGTTCTTAAAGGAACGCGCCATCTACCGATAACATCGATTGTACGAGAGACATATTTC
131 TAAATTCTGTTCTTAAAGGAACGCGCCATCTACCGATAACATCGATTGTACGAGAGACATATTTC
*
4788683 TGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAACTTATGCAGGCCAGATGCAGGGTGGCCATGT
196 TGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAACTTATGCAGGCCAGATGCAGGGTAGCCATGT
4788748 ATGGTGCAGTAAGGTAGTTCAAGAAATTAACAAGGCGAAGGCGAGGGCAAATATCATGTACATAG
261 ATGGTGCAGTAAGGTAGTTCAAGAAATTAACAAGGCGAAGGCGAGGGCAAATATCATGTACATAG
4788813 TGTGTCATGATCGAGACAATTTATGGTTTCGTGTGACGGAGTCTGACAGACCGCACCAAGGTGTT
326 TGTGTCATGATCGAGACAATTTATGGTTTCGTGTGACGGAGTCTGACAGACCGCACCAAGGTGTT
4788878 GTTGGCGGGTAATATCGTGTACACTTGCGAAA
391 GTTGGCGGGTAATATCGTGTACACTTGCGAAA
4788910 CAGGACTTGT
Statistics
Matches: 416, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
424 416 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (424 bp):
TTGGCAATCTTACGATCCCAAAACGGAGAAGGGGCAGACTACCTTTGTAACATACGTTTCGAACA
GTGGGCACAAGCATACGACGGAGGCCTACGATATGTCCATATGACGTCGAACCTGGCAGAATGCA
TAAATTCTGTTCTTAAAGGAACGCGCCATCTACCGATAACATCGATTGTACGAGAGACATATTTC
TGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAACTTATGCAGGCCAGATGCAGGGTAGCCATGT
ATGGTGCAGTAAGGTAGTTCAAGAAATTAACAAGGCGAAGGCGAGGGCAAATATCATGTACATAG
TGTGTCATGATCGAGACAATTTATGGTTTCGTGTGACGGAGTCTGACAGACCGCACCAAGGTGTT
GTTGGCGGGTAATATCGTGTACACTTGCGAAATA
Found at i:4789424 original size:10 final size:10
Alignment explanation
Indices: 4789409--4789498 Score: 51
Period size: 10 Copynumber: 8.5 Consensus size: 10
4789399 CAAATCTAAC
4789409 ATTATGTAAA
1 ATTATGTAAA
4789419 ATTATGTAAA
1 ATTATGTAAA
4789429 ATTATTAAGTCCCAAA
1 ATTA-T--GT---AAA
* *
4789445 ATTTTGTTAATG
1 ATTATG-TAA-A
4789457 ATTA-GTAAA
1 ATTATGTAAA
*
4789466 ATTA--TCAA
1 ATTATGTAAA
4789474 ATTATGTAAA
1 ATTATGTAAA
*
4789484 ATTATATAAA
1 ATTATGTAAA
4789494 ATTAT
1 ATTAT
4789499 TAAGCCAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
8 7 0.11
9 4 0.06
10 34 0.54
11 4 0.06
12 3 0.05
13 3 0.05
14 1 0.02
15 1 0.02
16 6 0.10
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:4789526 original size:65 final size:65
Alignment explanation
Indices: 4789409--4789682 Score: 223
Period size: 73 Copynumber: 4.2 Consensus size: 65
4789399 CAAATCTAAC
* *
4789409 ATTATGTAAAATTATGTAAAATTATTAAGTCCCAAAATTTTGTTAATGATTA-GTAAAATTATCA
1 ATTATGTAAAATTATATAAAATTATTAAG-CCCAAAATTTTGTTAATAATTAGGTAAAATTATCA
4789473 A
65 A
* *
4789474 ATTATGTAAAATTATATAAAATTATTAAG-CCAAAATTTTTTTAATTAAATTAGGTATAATTATC
1 ATTATGTAAAATTATATAAAATTATTAAGCCCAAAATTTTGTTAA-T-AATTAGGTAAAATTATC
4789538 AA
64 AA
* * * **
4789540 ATTATGTAAAATTAT-T---A--AGT---CCAAAAATTGTGTTAATGGTTA-GTAAAATTATCAA
1 ATTATGTAAAATTATATAAAATTATTAAGCCCAAAATTTTGTTAATAATTAGGTAAAATTATCAA
* * * **
4789595 ATTATGTATAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA-GTAA
1 ATTATG------TA--AAATTATATAAAATTATTAAG-CCCAAAATTTTGTTAATAATTAGGTAA
4789659 AATTATCAA
57 AATTATCAA
4789668 ATTATGTAAAATTAT
1 ATTATGTAAAATTAT
4789683 TAAGTTCAAC
Statistics
Matches: 175, Mismatches: 12, Indels: 44
0.76 0.05 0.19
Matches are distributed among these distances:
55 18 0.10
56 3 0.02
57 1 0.01
58 12 0.07
60 2 0.01
61 2 0.01
62 1 0.01
63 21 0.12
64 2 0.01
65 40 0.23
66 27 0.15
67 3 0.02
69 2 0.01
73 41 0.23
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (65 bp):
ATTATGTAAAATTATATAAAATTATTAAGCCCAAAATTTTGTTAATAATTAGGTAAAATTATCAA
Found at i:4789543 original size:18 final size:18
Alignment explanation
Indices: 4789520--4789554 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4789510 TTTTTTAATT
*
4789520 AAATTAGGTATAATTATC
1 AAATTAGGTAAAATTATC
*
4789538 AAATTATGTAAAATTAT
1 AAATTAGGTAAAATTAT
4789555 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:4789553 original size:66 final size:64
Alignment explanation
Indices: 4789409--4789737 Score: 237
Period size: 55 Copynumber: 5.2 Consensus size: 64
4789399 CAAATCTAAC
* *
4789409 ATTATGTAAAATTATGTAAAATTATTAAGTCCCAAAATTTTGTTAATGATTAGTAAAATTATCAA
1 ATTATGTAAAATTATATAAAATTATTAAG-CCCAAAATTTTGTTAATAATTAGTAAAATTATCAA
* *
4789474 ATTATGTAAAATTATATAAAATTATTAAG-CCAAAATTTTTTTAATTAAATTAGGTATAATTATC
1 ATTATGTAAAATTATATAAAATTATTAAGCCCAAAATTTTGTTAA-T-AATTA-GTAAAATTATC
4789538 AA
63 AA
* * * **
4789540 ATTATGTAAAATTAT-T---A--AGT---CCAAAAATTGTGTTAATGGTTAGTAAAATTATCAA
1 ATTATGTAAAATTATATAAAATTATTAAGCCCAAAATTTTGTTAATAATTAGTAAAATTATCAA
* * * **
4789595 ATTATGTATAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAA
1 ATTATG------TA--AAATTATATAAAATTATTAAG-CCCAAAATTTTGTTAATAATTAGTAAA
4789660 ATTATCAA
57 ATTATCAA
* * * **
4789668 ATTATGTAAAATTAT-T--AAGT-TCAA---C--AATTGTGTTAATGGTTAGTAAAATTATCAA
1 ATTATGTAAAATTATATAAAATTATTAAGCCCAAAATTTTGTTAATAATTAGTAAAATTATCAA
4789723 ATTATGTAAAATTAT
1 ATTATGTAAAATTAT
4789738 GTTAGGGTTA
Statistics
Matches: 227, Mismatches: 15, Indels: 54
0.77 0.05 0.18
Matches are distributed among these distances:
55 63 0.28
56 3 0.01
57 1 0.00
58 12 0.05
60 2 0.01
61 5 0.02
62 4 0.02
63 21 0.09
64 3 0.01
65 40 0.18
66 27 0.12
67 3 0.01
69 2 0.01
73 41 0.18
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.40
Consensus pattern (64 bp):
ATTATGTAAAATTATATAAAATTATTAAGCCCAAAATTTTGTTAATAATTAGTAAAATTATCAA
Found at i:4789586 original size:37 final size:37
Alignment explanation
Indices: 4789545--4789664 Score: 106
Period size: 37 Copynumber: 3.3 Consensus size: 37
4789535 ATCAAATTAT
4789545 GTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
1 GTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
* * * * * * *
4789582 GTAAAATTATCAAAT-TATGTATAA-T-TATCAA--ATTA
1 GTAAAATTATTAAGTCCA---AAAATTGTGTTAATGGTTA
4789617 TGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
1 -GTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
4789655 GTAAAATTAT
1 GTAAAATTAT
4789665 CAAATTATGT
Statistics
Matches: 60, Mismatches: 14, Indels: 18
0.65 0.15 0.20
Matches are distributed among these distances:
34 3 0.05
35 4 0.07
36 18 0.30
37 28 0.47
38 4 0.07
39 3 0.05
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.39
Consensus pattern (37 bp):
GTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
Found at i:4789604 original size:73 final size:73
Alignment explanation
Indices: 4789520--4789682 Score: 308
Period size: 73 Copynumber: 2.2 Consensus size: 73
4789510 TTTTTTAATT
*
4789520 AAATTAGGTATAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTA
1 AAATTATGTATAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTA
4789585 AAATTATC
66 AAATTATC
4789593 AAATTATGTATAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTA
1 AAATTATGTATAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTA
4789658 AAATTATC
66 AAATTATC
*
4789666 AAATTATGTAAAATTAT
1 AAATTATGTATAATTAT
4789683 TAAGTTCAAC
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 88 1.00
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (73 bp):
AAATTATGTATAATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTA
AAATTATC
Found at i:4789609 original size:18 final size:18
Alignment explanation
Indices: 4789582--4789627 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
4789572 TTAATGGTTA
4789582 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
*
4789600 GTATAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
4789618 GTAAAATTAT
1 GTAAAATTAT
4789628 TAAGTCCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (18 bp):
GTAAAATTATCAAATTAT
Found at i:4789663 original size:55 final size:55
Alignment explanation
Indices: 4789604--4789737 Score: 250
Period size: 55 Copynumber: 2.4 Consensus size: 55
4789594 AATTATGTAT
4789604 AATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAA
1 AATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAA
* *
4789659 AATTATCAAATTATGTAAAATTATTAAGTTCAACAATTGTGTTAATGGTTAGTAA
1 AATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAA
4789714 AATTATCAAATTATGTAAAATTAT
1 AATTATCAAATTATGTAAAATTAT
4789738 GTTAGGGTTA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 77 1.00
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (55 bp):
AATTATCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAA
Found at i:4789771 original size:29 final size:29
Alignment explanation
Indices: 4789738--4789796 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4789728 GTAAAATTAT
4789738 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
4789767 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
4789796 G
1 G
4789797 GTTTTTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (29 bp):
GTTAGGGTTAGGGTTTTTAATTAAGTTAG
Found at i:4789796 original size:18 final size:18
Alignment explanation
Indices: 4789773--4789908 Score: 102
Period size: 18 Copynumber: 8.3 Consensus size: 18
4789763 TTAGGTTAGG
4789773 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
4789791 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
4789809 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
*
4789820 GTTAGAGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
4789838 GTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
4789856 ATTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
4789867 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
4789885 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
4789903 ATTAGG
1 GTTAGG
4789909 TTAGGGTTAG
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
11 7 0.08
12 3 0.03
13 2 0.02
14 4 0.04
15 4 0.04
16 2 0.02
17 3 0.03
18 64 0.72
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:4789813 original size:47 final size:47
Alignment explanation
Indices: 4789744--4789937 Score: 352
Period size: 47 Copynumber: 4.1 Consensus size: 47
4789734 TTATGTTAGG
*
4789744 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* *
4789791 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGAGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
*
4789838 GTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
4789885 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
4789932 GTTAGG
1 GTTAGG
4789938 TTAGGGTTAG
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 142 1.00
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.46
Consensus pattern (47 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:4789871 original size:76 final size:74
Alignment explanation
Indices: 4789791--4789983 Score: 212
Period size: 76 Copynumber: 2.5 Consensus size: 74
4789781 TTTTAATTAA
*
4789791 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGAGTT-TTTA-ATTA-AGTTAGGATTTTTAAT
1 GTTAGGGTTTTTAATTAAGTTAGGTT---GTTA-A-TTAATTAGATTAGAGTTAGGATTTTTAAT
4789853 TAAATTAGGTTAGG
61 TAAATTAGGTTAGG
* * * *
4789867 GTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAGTTA-GGTTGTTAATT-AATTAGATTAGAGTTAGGATTTTTAATTAA
*
4789932 GTTAGGTTAGG
64 ATTAGGTTAGG
* *
4789943 GTTAGGGTTTTAAATTAAGTTAGAGTTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTAAGTTAG-GTTGTTAATT-AATTAG
4789984 GATTTTTATT
Statistics
Matches: 104, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
72 2 0.02
73 1 0.01
74 6 0.06
75 4 0.04
76 87 0.84
77 4 0.04
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (74 bp):
GTTAGGGTTTTTAATTAAGTTAGGTTGTTAATTAATTAGATTAGAGTTAGGATTTTTAATTAAAT
TAGGTTAGG
Found at i:4789917 original size:29 final size:29
Alignment explanation
Indices: 4789885--4789965 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
4789875 TTTTAATTAA
*
4789885 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
4789914 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
4789943 GTTAGGGTTTTAAATTAAGTTAG
1 GTTAGGGTTTTTAATTAAGTTAG
4789966 AGTTTTTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.44
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAGTTAGGTTAGG
Found at i:4789965 original size:94 final size:92
Alignment explanation
Indices: 4789768--4789991 Score: 265
Period size: 94 Copynumber: 2.4 Consensus size: 92
4789758 TTAAGTTAGG
* *
4789768 TTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGAGTTTTTA
1 TTAGAGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTA
* **
4789833 ATTAAGTTAGGATTTTTAATTAAATTAGG
66 ATTAAGTTAGGATTGTTAATT--ATTAAA
* *
4789862 TTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
1 TTAGAGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTA
*
4789927 ATTAAGTTAGG-TTAGGGTTAGGGTT-TTAAA
66 ATTAAGTTAGGATT---GTTA--ATTATTAAA
* * *
4789957 TTA-AGTTAGAGTTTTTAATTAAATTAGGATTTTTA
1 TTAGAGTTAGGGTTTTTAATTAAGTTAGGGTTTTTA
4789992 TTACATCGAA
Statistics
Matches: 115, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
93 2 0.02
94 102 0.89
95 6 0.05
96 3 0.03
98 2 0.02
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.47
Consensus pattern (92 bp):
TTAGAGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTA
ATTAAGTTAGGATTGTTAATTATTAAA
Found at i:4789970 original size:18 final size:18
Alignment explanation
Indices: 4789943--4789983 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4789933 TTAGGTTAGG
*
4789943 GTTAGGGTTTTAAATTAA
1 GTTAGAGTTTTAAATTAA
*
4789961 GTTAGAGTTTTTAATTAA
1 GTTAGAGTTTTAAATTAA
*
4789979 ATTAG
1 GTTAG
4789984 GATTTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (18 bp):
GTTAGAGTTTTAAATTAA
Found at i:4789984 original size:76 final size:76
Alignment explanation
Indices: 4789838--4789984 Score: 258
Period size: 76 Copynumber: 1.9 Consensus size: 76
4789828 TTTTAATTAA
* *
4789838 GTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAA
1 GTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAAGTTAGAGTTTTTAATTAA
4789903 ATTAGGTTAGG
66 ATTAGGTTAGG
* *
4789914 GTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTAAATTAAGTTAGAGTTTTTAATTAA
1 GTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAAGTTAGAGTTTTTAATTAA
4789979 ATTAGG
66 ATTAGG
4789985 ATTTTTATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (76 bp):
GTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAAATTAAGTTAGAGTTTTTAATTAA
ATTAGGTTAGG
Found at i:4789989 original size:18 final size:18
Alignment explanation
Indices: 4789944--4789991 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
4789934 TAGGTTAGGG
* * *
4789944 TTAGGGTTTTAAATTAAG
1 TTAGGATTTTTAATTAAA
4789962 TTA-GAGTTTTTAATTAAA
1 TTAGGA-TTTTTAATTAAA
4789980 TTAGGATTTTTA
1 TTAGGATTTTTA
4789992 TTACATCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 22 0.88
19 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (18 bp):
TTAGGATTTTTAATTAAA
Found at i:4790055 original size:25 final size:25
Alignment explanation
Indices: 4789987--4790055 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
4789977 AAATTAGGAT
4789987 TTTTATTACATC-GAATAGAACTTATA
1 TTTTATTACATCAG-ATA-AACTTATA
* * * *
4790013 TTTTATTATATTAAATAAACTTCTA
1 TTTTATTACATCAGATAAACTTATA
4790038 TTTTATTACATCAGATAA
1 TTTTATTACATCAGATAA
4790056 TAAATTTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
25 22 0.63
26 13 0.37
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.46
Consensus pattern (25 bp):
TTTTATTACATCAGATAAACTTATA
Found at i:4791258 original size:25 final size:24
Alignment explanation
Indices: 4791221--4791272 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
4791211 ATTATTATAA
* *
4791221 AAAATTATAAAA-TAAAAATTAATT
1 AAAATTACAAAATTAAAAAAT-ATT
4791245 AAAATTACATAAATTAAAAAATATT
1 AAAATTACA-AAATTAAAAAATATT
4791270 AAA
1 AAA
4791273 TAATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 9 0.38
26 7 0.29
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATTACAAAATTAAAAAATATT
Found at i:4791270 original size:19 final size:20
Alignment explanation
Indices: 4791248--4791286 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4791238 ATTAATTAAA
*
4791248 ATTACATAA-ATTAAAAAAT
1 ATTAAATAATATTAAAAAAT
*
4791267 ATTAAATAATATTTAAAAAT
1 ATTAAATAATATTAAAAAAT
4791287 TAAATTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTAAATAATATTAAAAAAT
Found at i:4791387 original size:10 final size:10
Alignment explanation
Indices: 4791368--4791433 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
4791358 GCCATTGATG
4791368 AAAATATAAA
1 AAAATATAAA
*
4791378 AAAATTTAAA
1 AAAATATAAA
* * *
4791388 ATTATTTTAAA
1 A-AAATATAAA
4791399 AAAATATAAA
1 AAAATATAAA
4791409 AAAATATAAA
1 AAAATATAAA
** *
4791419 ATTATTTAAA
1 AAAATATAAA
4791429 AAAAT
1 AAAAT
4791434 GAAATTGAGG
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
10 36 0.82
11 8 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAATATAAA
Found at i:4791403 original size:31 final size:30
Alignment explanation
Indices: 4791368--4791433 Score: 114
Period size: 31 Copynumber: 2.2 Consensus size: 30
4791358 GCCATTGATG
*
4791368 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATATAAAATTA-TTTAAA
4791399 AAAATATAAAAAAATATAAAATTATTTAAA
1 AAAATATAAAAAAATATAAAATTATTTAAA
4791429 AAAAT
1 AAAAT
4791434 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 11 0.32
31 23 0.68
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAATATAAAAAAATATAAAATTATTTAAA
Found at i:4791496 original size:22 final size:22
Alignment explanation
Indices: 4791471--4791521 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
4791461 ATGGGTTTGG
4791471 GAGAATTTTGGAAGGAAATTGA
1 GAGAATTTTGGAAGGAAATTGA
4791493 GAGAATTTTGGAAGGAAATTGA
1 GAGAATTTTGGAAGGAAATTGA
4791515 GAGAATT
1 GAGAATT
4791522 AGAGAGGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.27
Consensus pattern (22 bp):
GAGAATTTTGGAAGGAAATTGA
Found at i:4792795 original size:22 final size:22
Alignment explanation
Indices: 4792770--4792811 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4792760 TATTCAATTA
4792770 TATTTTTTAAAATATTTTTTTT
1 TATTTTTTAAAATATTTTTTTT
* *
4792792 TATTTTTTAGATTATTTTTT
1 TATTTTTTAAAATATTTTTT
4792812 ATTTTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (22 bp):
TATTTTTTAAAATATTTTTTTT
Found at i:4792865 original size:20 final size:20
Alignment explanation
Indices: 4792828--4792870 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4792818 ATAAAATTTT
4792828 AAAATATATATACATTTAATA
1 AAAATATATATACATTT-ATA
**
4792849 AAAAT-TATATATTTTTATA
1 AAAATATATATACATTTATA
4792868 AAA
1 AAA
4792871 TAAATAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 9 0.45
21 5 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATATATATACATTTATA
Found at i:4797069 original size:20 final size:20
Alignment explanation
Indices: 4797027--4797069 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4797017 TGTTAAAAAT
** *
4797027 TAGGATTTAAATAGTTTATA
1 TAGGATTTAAATAAATTAAA
*
4797047 TAGGCTTTAAATAAATTAAA
1 TAGGATTTAAATAAATTAAA
4797067 TAG
1 TAG
4797070 AAATTAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (20 bp):
TAGGATTTAAATAAATTAAA
Found at i:4810258 original size:12 final size:12
Alignment explanation
Indices: 4810241--4810268 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4810231 TTATTCAATC
4810241 CCATATCATTTT
1 CCATATCATTTT
4810253 CCATATCATTTT
1 CCATATCATTTT
4810265 CCAT
1 CCAT
4810269 TTATTATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.46
Consensus pattern (12 bp):
CCATATCATTTT
Found at i:4811320 original size:41 final size:41
Alignment explanation
Indices: 4811258--4811337 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
4811248 AAAGATTACC
* *
4811258 TATCTAAAATTCAATTCATCTATACAGTAACTCTGTAAACA
1 TATCTAAAATTCAATTAATCTATACAGCAACTCTGTAAACA
*
4811299 TATCTAAAATTTAATTAATCTATACAGCAACTCTGTAAA
1 TATCTAAAATTCAATTAATCTATACAGCAACTCTGTAAA
4811338 TATTGGGCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (41 bp):
TATCTAAAATTCAATTAATCTATACAGCAACTCTGTAAACA
Found at i:4814390 original size:107 final size:106
Alignment explanation
Indices: 4814198--4814411 Score: 349
Period size: 107 Copynumber: 2.0 Consensus size: 106
4814188 CCAAAACCCA
* *
4814198 TACTTTGAAACTTTAAGAGGGTATTTGGCTATTTGGCTAAACGAGAAATCGAAACCCAGCACATT
1 TACTTTGAAACTTTAAAAGGATATTTGGCTATTTGGCTAAACGAGAAATCGAAACCCAGCACATT
4814263 AGGGCACGCTTTCTCGAATTTCCAAACGCAAAATATTGCCT
66 AGGGCACGCTTTCTCGAATTTCCAAACGCAAAATATTGCCT
*
4814304 TACTTTGAAACTTTAAAAGGATATTTGGCTATTTGG-TCGAACGAAGAAATCGAAACCCAGCACA
1 TACTTTGAAACTTTAAAAGGATATTTGGCTATTTGGCT-AAACG-AGAAATCGAAACCCAGCACA
* * *
4814368 TTAGGGCATGTTTTTTCGAATTTCCAAACGCAAAATATTGCCT
64 TTAGGGCACGCTTTCTCGAATTTCCAAACGCAAAATATTGCCT
4814411 T
1 T
4814412 TATTATTTTT
Statistics
Matches: 100, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
105 1 0.01
106 38 0.38
107 61 0.61
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (106 bp):
TACTTTGAAACTTTAAAAGGATATTTGGCTATTTGGCTAAACGAGAAATCGAAACCCAGCACATT
AGGGCACGCTTTCTCGAATTTCCAAACGCAAAATATTGCCT
Found at i:4815029 original size:3 final size:3
Alignment explanation
Indices: 4815014--4815092 Score: 72
Period size: 3 Copynumber: 26.7 Consensus size: 3
4815004 AAAAGGTATT
* * ** * **
4815014 TAA TAA TAT TAA TAA TGA TGC TAA TAA TAA TAA TAA TAA TAA TAG TTT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4815062 TAA TAA TAA TATA TAA TAA TAA -AA -AA TAA TA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA
4815093 GCACATATTA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
2 4 0.06
3 56 0.89
4 3 0.05
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:4815160 original size:16 final size:17
Alignment explanation
Indices: 4815126--4815193 Score: 56
Period size: 16 Copynumber: 4.2 Consensus size: 17
4815116 ACACACATAT
*
4815126 ATATAAAGATAAATGAAA
1 ATATAAATATAAAT-AAA
4815144 ATATAAATA-AAATAAA
1 ATATAAATATAAATAAA
* *
4815160 A-ATTAATAGTTAA-AAA
1 ATATAAATA-TAAATAAA
4815176 A-ATAAATA-AAATAAA
1 ATATAAATATAAATAAA
4815191 ATA
1 ATA
4815194 AAAAAACGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 2 0.05
15 10 0.24
16 15 0.37
17 6 0.15
18 8 0.20
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (17 bp):
ATATAAATATAAATAAA
Found at i:4820474 original size:21 final size:22
Alignment explanation
Indices: 4820434--4820474 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4820424 CCATGATATT
* *
4820434 AACACAATAATACGAGAATTCA
1 AACAAAATAATACAAGAATTCA
4820456 AACAAAATAA-ACAAGAATT
1 AACAAAATAATACAAGAATT
4820475 ATTTATTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.61, C:0.15, G:0.07, T:0.17
Consensus pattern (22 bp):
AACAAAATAATACAAGAATTCA
Found at i:4822001 original size:16 final size:18
Alignment explanation
Indices: 4821980--4822016 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4821970 TTAATTTTAA
4821980 ATTT-AAAAAA-TAACAC
1 ATTTAAAAAAACTAACAC
4821996 ATTTAAAAAAACTAACAC
1 ATTTAAAAAAACTAACAC
4822014 ATT
1 ATT
4822017 ATCGGGCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 6 0.32
18 9 0.47
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (18 bp):
ATTTAAAAAAACTAACAC
Found at i:4823091 original size:8 final size:8
Alignment explanation
Indices: 4823078--4823105 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4823068 TTTGGATTTG
4823078 AATTTTAA
1 AATTTTAA
4823086 AATTTTAA
1 AATTTTAA
4823094 AATTTTAA
1 AATTTTAA
4823102 AATT
1 AATT
4823106 AAAATTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AATTTTAA
Found at i:4823137 original size:16 final size:16
Alignment explanation
Indices: 4823085--4823143 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
4823075 TTGAATTTTA
*
4823085 AAATTTTAAAATT-TT
1 AAATTTTAAAATTCAT
*
4823100 AAA-ATTAAAATTCAT
1 AAATTTTAAAATTCAT
** *
4823115 ATTTTTTTAAATTCAT
1 AAATTTTAAAATTCAT
4823131 AAATTTTAAAATT
1 AAATTTTAAAATT
4823144 TTATTTGTGA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
14 8 0.24
15 5 0.15
16 20 0.61
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATTTTAAAATTCAT
Found at i:4823226 original size:21 final size:22
Alignment explanation
Indices: 4823185--4823227 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4823175 AATTTAAAAT
*
4823185 TAATTCAAATTTATTATTTCAA
1 TAATTCAAATTTATGATTTCAA
4823207 TAATTCAAATTTA-GATTTCAA
1 TAATTCAAATTTATGATTTCAA
4823228 CTAGCTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (22 bp):
TAATTCAAATTTATGATTTCAA
Found at i:4845828 original size:57 final size:57
Alignment explanation
Indices: 4845751--4845866 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
4845741 ATGAAAATTG
*
4845751 GGAGTCGCCACCAATATTTTATTAAGGTGTGATTGGATCACCTAAAAAAACGGCTTT
1 GGAGTCGCCACCAATATTTTATTAAGGTGTGATTGGATCACCTAAAAAAACAGCTTT
* *
4845808 GGAGTCGCCACCAATCTTTTATTAAGGTGTTATTGGATCACCTAAAAAAACAGCTTT
1 GGAGTCGCCACCAATATTTTATTAAGGTGTGATTGGATCACCTAAAAAAACAGCTTT
4845865 GG
1 GG
4845867 TCTACAAGTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (57 bp):
GGAGTCGCCACCAATATTTTATTAAGGTGTGATTGGATCACCTAAAAAAACAGCTTT
Found at i:4846865 original size:21 final size:22
Alignment explanation
Indices: 4846815--4846866 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
4846805 AATTATAAAG
*
4846815 TATATAAAAAATATATTTGCAT
1 TATATAAAAAATATAGTTGCAT
*
4846837 T-TAAAAAAAATAT-GTT-CAT
1 TATATAAAAAATATAGTTGCAT
4846856 ATATATAAAAA
1 -TATATAAAAA
4846867 TTAGTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
21 18 0.72
22 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (22 bp):
TATATAAAAAATATAGTTGCAT
Found at i:4847020 original size:21 final size:21
Alignment explanation
Indices: 4846981--4847021 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4846971 TATACTACAA
* *
4846981 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
4847002 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
4847022 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:4848866 original size:43 final size:43
Alignment explanation
Indices: 4848818--4848910 Score: 161
Period size: 43 Copynumber: 2.2 Consensus size: 43
4848808 GATCTGAAAT
*
4848818 CTTCAATCTATTCCACTGTTGTTC-AGGGAAGTAGAATTACTGG
1 CTTCAATCTATTCCACTGTTG-CCGAGGGAAGTAGAATTACTGG
4848861 CTTCAATCTATTCCACTGTTGCCGAGGGAAGTAGAATTACTGG
1 CTTCAATCTATTCCACTGTTGCCGAGGGAAGTAGAATTACTGG
4848904 CTTCAAT
1 CTTCAAT
4848911 GTACTCCATT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 1 0.02
43 47 0.98
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (43 bp):
CTTCAATCTATTCCACTGTTGCCGAGGGAAGTAGAATTACTGG
Found at i:4848891 original size:132 final size:132
Alignment explanation
Indices: 4847797--4848879 Score: 1698
Period size: 132 Copynumber: 8.2 Consensus size: 132
4847787 GAGAGATATG
* *
4847797 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCAACTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* * * *
4847862 CCACTGCTGCTTAGTGAGATAATACCTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
4847927 GA
131 GA
* * ** *
4847929 ATTACTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCTTCCATCTTCGATATGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* *
4847994 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
4848059 GA
131 GA
* * ** *
4848061 ATTACTGGCTTCAATGTACTCCACTATAACTACAGGGAGGTAAAATCTTCCATCTTCGATATGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* *
4848126 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTTTCCACGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
4848191 GA
131 GA
* * *
4848193 ATTACTGGCTTCAATGTACTCCACTGTGACCACAGGGAGGTAAAATTCGCCAACTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
*
4848258 CCACTACTGCTTAGGGAGATAATACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
4848323 GA
131 GA
* * * *
4848325 ATTACTGGCTTCAATGTACTCCACTATAACCATAGGGAGGTAAAATCCGCCATCTTTGATTTGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* * *
4848390 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTGTACCACTGTTGTCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
4848455 GA
131 GA
** * *
4848457 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGATTTAAAATCTGACATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
*
4848522 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCATTGTTGTCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
4848587 GA
131 GA
* * * *
4848589 ATTACTGGCTTCAATGCACTCCACTGTAACCACAGGGAGGTAAAATCTGCCCTTTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* *
4848654 CCATTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCTACTGTTGTCCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
4848719 GA
131 GA
* * *
4848721 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGAAGGTAAAATCCGCCATCTTCGATTTGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
* * * * *
4848786 CCACTACTGCTAAAGGAGATATGATCTGAAATCTTCAATCTATTCCACTGTTGTTCAGGGAAGTA
66 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
4848851 GA
131 GA
* *
4848853 ATTACTGGCTTCAATCTATTCCACTGT
1 ATTACTGGCTTCAATGTACTCCACTGT
4848880 TGCCGAGGGA
Statistics
Matches: 876, Mismatches: 75, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 876 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (132 bp):
ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
GA
Found at i:4848898 original size:175 final size:175
Alignment explanation
Indices: 4848686--4849054 Score: 605
Period size: 175 Copynumber: 2.1 Consensus size: 175
4848676 GACCTGAAAT
*
4848686 CTTCAATCTATTCTACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAAC
1 CTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAAC
* *
4848751 CACAGGAAGGTAAAATCCGCCATCTTCGATTTGCTCCACTACTGCTAAAGGAGATATGATCTGAA
66 CACAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTAAAGGAGATAAGATCTGAA
* *
4848816 ATCTTCAATCTATTCCACTGTTGTTCAGGGAAGTAGAATTACTGG
131 ATCTTCAATCTATTCCACTGTTGTCCAGAGAAGTAGAATTACTGG
*
4848861 CTTCAATCTATTCCACTGTTG-CCGAGGGAAGTAGAATTACTGGCTTCAATGTACTCCATTATAA
1 CTTCAATCTATTCCACTGTTGTCC-AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAA
* * * *
4848925 CCATAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA
65 CCACAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTAAAGGAGATAAGATCTGA
*
4848990 AATCTTCAATCTATTCTACTGTTGTCCAGAGAAGTAGAATTACTGG
130 AATCTTCAATCTATTCCACTGTTGTCCAGAGAAGTAGAATTACTGG
* *
4849036 CTTCAATGTACTCCACTGT
1 CTTCAATCTATTCCACTGT
4849055 AACCATAGGG
Statistics
Matches: 180, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
174 2 0.01
175 178 0.99
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (175 bp):
CTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAAC
CACAGGAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTAAAGGAGATAAGATCTGAA
ATCTTCAATCTATTCCACTGTTGTCCAGAGAAGTAGAATTACTGG
Found at i:4851386 original size:18 final size:17
Alignment explanation
Indices: 4851353--4851391 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
4851343 TTGTATAAAT
4851353 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
4851371 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
4851388 TGTG
1 TGTG
4851392 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:4852660 original size:13 final size:12
Alignment explanation
Indices: 4852642--4852683 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
4852632 CATTGGCCTC
4852642 TCTTTTTGCTTTT
1 TCTTTTT-CTTTT
4852655 TCTTTTTCTTTT
1 TCTTTTTCTTTT
*
4852667 T-TCTTT-TTTT
1 TCTTTTTCTTTT
4852677 TCTTTTT
1 TCTTTTT
4852684 TTGCTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 5 0.19
11 8 0.31
12 6 0.23
13 7 0.27
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.83
Consensus pattern (12 bp):
TCTTTTTCTTTT
Found at i:4852677 original size:9 final size:9
Alignment explanation
Indices: 4852644--4852702 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
4852634 TTGGCCTCTC
*
4852644 TTTTTGCTT
1 TTTTTTCTT
4852653 TTTCTTT-TT
1 TTT-TTTCTT
4852662 CTTTTTTCTT
1 -TTTTTTCTT
4852672 TTTTTTCTT
1 TTTTTTCTT
*
4852681 TTTTTGCTT
1 TTTTTTCTT
*
4852690 TTTTTTGTT
1 TTTTTTCTT
4852699 TTTT
1 TTTT
4852703 GAATCTGAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 36 0.84
10 7 0.16
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:4852692 original size:7 final size:6
Alignment explanation
Indices: 4852642--4852683 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
4852632 CATTGGCCTC
*
4852642 TCTTTT TGCTTTT TCTTTT TCTTTT T-TCTT T-TTTT TCTTTT T
1 TCTTTT T-CTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
4852684 TTGCTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 8 0.25
6 18 0.56
7 6 0.19
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.83
Consensus pattern (6 bp):
TCTTTT
Found at i:4857554 original size:22 final size:21
Alignment explanation
Indices: 4857495--4857538 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4857485 AATAAATATA
*
4857495 TACATATAGATAAAAAATAAT
1 TACATATAAATAAAAAATAAT
4857516 TACATATAAATAAAAAATAAT
1 TACATATAAATAAAAAATAAT
4857537 TA
1 TA
4857539 TATTATACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (21 bp):
TACATATAAATAAAAAATAAT
Found at i:4857590 original size:21 final size:21
Alignment explanation
Indices: 4857551--4857591 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4857541 TTATACTACA
* *
4857551 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
4857572 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
4857592 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:4857627 original size:17 final size:18
Alignment explanation
Indices: 4857598--4857634 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
4857588 ATATTTTTTT
4857598 AAAAATAATTAAATATAA
1 AAAAATAATTAAATATAA
4857616 AAAAATAA-TAAATATAA
1 AAAAATAATTAAATATAA
4857633 AA
1 AA
4857635 CTAATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATAATTAAATATAA
Found at i:4857634 original size:15 final size:15
Alignment explanation
Indices: 4857597--4857652 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
4857587 TATATTTTTT
4857597 TAAAAATAATTAAATA
1 TAAAAATAA-TAAATA
4857613 TAAAAAAATAATAAATA
1 T--AAAAATAATAAATA
* *
4857630 TAAAACTAATTAATA
1 TAAAAATAATAAATA
4857645 -AAAAATAA
1 TAAAAATAA
4857653 AGAAAATGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 7 0.20
15 12 0.34
16 1 0.03
17 7 0.20
18 8 0.23
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAAAATAATAAATA
Found at i:4857908 original size:22 final size:21
Alignment explanation
Indices: 4857873--4857975 Score: 83
Period size: 19 Copynumber: 5.1 Consensus size: 21
4857863 AAAGGGTATC
* *
4857873 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
4857894 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
4857917 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
4857936 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
4857955 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
4857974 TA
1 TA
4857976 TATATTATAT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
19 44 0.60
21 3 0.04
22 15 0.21
23 11 0.15
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:4857916 original size:23 final size:22
Alignment explanation
Indices: 4857873--4857930 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
4857863 AAAGGGTATC
* *
4857873 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
4857894 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
4857917 TACATATCATATCT
1 TACAAATCATATCT
4857931 AAGATTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:4857933 original size:19 final size:19
Alignment explanation
Indices: 4857886--4858019 Score: 160
Period size: 19 Copynumber: 6.8 Consensus size: 19
4857876 AAATTAAATC
*
4857886 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
4857906 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
4857928 TCTAAGATTATATATCATA
1 TCTAAGATTACATATCATA
*
4857947 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
4857966 TCTAAGATTATATATTATA
1 TCTAAGATTACATATCATA
* *
4857985 TCTAAGATTGCATATTATA
1 TCTAAGATTACATATCATA
*
4858004 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
4858020 CCTGAAGATT
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
19 83 0.82
22 7 0.07
23 11 0.11
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:4857961 original size:38 final size:38
Alignment explanation
Indices: 4857909--4858012 Score: 181
Period size: 38 Copynumber: 2.7 Consensus size: 38
4857899 AATCATATCT
*
4857909 TCTAAGATTACATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
4857947 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
4857985 TCTAAGATTGCATATTATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
4858013 GCATATCCCT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:4860100 original size:89 final size:89
Alignment explanation
Indices: 4859964--4860139 Score: 262
Period size: 89 Copynumber: 2.0 Consensus size: 89
4859954 ACTAATCTTA
* *
4859964 ACCCCAAACCCCTAACCACTAACCCCTAAACCTTATTTAATAAATAAATTAAAAAACACTGATTA
1 ACCCCAAACCCCTAACCACTAACCCCTAAACATTATTTAATAAATAAATTAAAAAACACTAATTA
*
4860029 ATCTAAATCATAAACCCTAACCCG
66 ATCTAAACCATAAACCCTAACCCG
* * * * * *
4860053 ACCCCGAATCCCTAACCCCTAACCCCTAAACATTATTTATTATATAAATTAAAATACACTAATTA
1 ACCCCAAACCCCTAACCACTAACCCCTAAACATTATTTAATAAATAAATTAAAAAACACTAATTA
*
4860118 ATCTAAACCCTAAACCCTAACC
66 ATCTAAACCATAAACCCTAACC
4860140 TCACACTGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 77 1.00
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (89 bp):
ACCCCAAACCCCTAACCACTAACCCCTAAACATTATTTAATAAATAAATTAAAAAACACTAATTA
ATCTAAACCATAAACCCTAACCCG
Found at i:4860151 original size:89 final size:89
Alignment explanation
Indices: 4859973--4860163 Score: 258
Period size: 89 Copynumber: 2.1 Consensus size: 89
4859963 AACCCCAAAC
* * * *
4859973 CCCTAACCACTAACCCCTAAACCTTATTTAATAAATAAATTAAAAAACACTGATTAATCTAAATC
1 CCCTAACCCCTAACCCCTAAACATTATTTAATAAATAAATTAAAAAACACTAATTAATCTAAACC
*
4860038 ATAAACCCTAACCCGACCCCGAAT
66 ATAAACCCTAACCCGACACCGAAT
* * *
4860062 CCCTAACCCCTAACCCCTAAACATTATTTATTATATAAATTAAAATACACTAATTAATCTAAACC
1 CCCTAACCCCTAACCCCTAAACATTATTTAATAAATAAATTAAAAAACACTAATTAATCTAAACC
* *
4860127 CTAAACCCTAACCTC-ACACTGAAT
66 ATAAACCCTAACC-CGACACCGAAT
* *
4860151 CCATAAACCCTAA
1 CCCTAACCCCTAA
4860164 ATCCCTAACT
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 88 0.99
90 1 0.01
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.25
Consensus pattern (89 bp):
CCCTAACCCCTAACCCCTAAACATTATTTAATAAATAAATTAAAAAACACTAATTAATCTAAACC
ATAAACCCTAACCCGACACCGAAT
Found at i:4860255 original size:14 final size:15
Alignment explanation
Indices: 4860233--4860266 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4860223 CTTAAATCAG
*
4860233 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
4860247 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
4860262 AATCT
1 AATCT
4860267 ATAAACCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:4860741 original size:41 final size:41
Alignment explanation
Indices: 4860674--4860865 Score: 271
Period size: 41 Copynumber: 4.7 Consensus size: 41
4860664 AAATGTTTTT
* * *
4860674 GCGGCGCTTTTTCAAAAACGCTGCTAAAGATCTGAGAATTA
1 GCGGTGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
4860715 GAGGTGCTTTTTCAAAAGCGCCGCTAAAGATCTGAGCATTA
1 GCGGTGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
4860756 GCGGCGCTTTTTCAAAAATGCCGCTAAAGATCTGAGCACTA
1 GCGGTGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
4860797 GCGGCT-CTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGG-TGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
4860838 GCGGTGCTTTTTTAAAAA-GTCGCTAAAG
1 GCGGTGCTTTTTCAAAAACGCCGCTAAAG
4860866 CCCCGAAAGG
Statistics
Matches: 134, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
40 10 0.07
41 124 0.93
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GCGGTGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:4861157 original size:75 final size:75
Alignment explanation
Indices: 4861034--4861185 Score: 304
Period size: 75 Copynumber: 2.0 Consensus size: 75
4861024 GCTTCTAGCT
4861034 AGAAGCGTTTTTCTGAAATTTTCCTGAAAATGTATTTAGCTAGAATTGTTTTATCAAAATCAGCC
1 AGAAGCGTTTTTCTGAAATTTTCCTGAAAATGTATTTAGCTAGAATTGTTTTATCAAAATCAGCC
4861099 CATTCCAATA
66 CATTCCAATA
4861109 AGAAGCGTTTTTCTGAAATTTTCCTGAAAATGTATTTAGCTAGAATTGTTTTATCAAAATCAGCC
1 AGAAGCGTTTTTCTGAAATTTTCCTGAAAATGTATTTAGCTAGAATTGTTTTATCAAAATCAGCC
4861174 CATTCCAATA
66 CATTCCAATA
4861184 AG
1 AG
4861186 TTTTAAAAAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (75 bp):
AGAAGCGTTTTTCTGAAATTTTCCTGAAAATGTATTTAGCTAGAATTGTTTTATCAAAATCAGCC
CATTCCAATA
Found at i:4865628 original size:17 final size:17
Alignment explanation
Indices: 4865606--4865640 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4865596 TTATATATTA
4865606 TAATAAATATAAAAAAT
1 TAATAAATATAAAAAAT
* *
4865623 TAATAATTATTAAAAAT
1 TAATAAATATAAAAAAT
4865640 T
1 T
4865641 TCAAAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAATAAATATAAAAAAT
Found at i:4866250 original size:22 final size:21
Alignment explanation
Indices: 4866224--4866278 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
4866214 ATATCCAAAC
*
4866224 AATAACAACAAAATAGTAGCA
1 AATAACAACAAAATAGCAGCA
* * *
4866245 ATATAATAGCAAAATGGCAGCA
1 A-ATAACAACAAAATAGCAGCA
*
4866267 AACAACAACAAA
1 AATAACAACAAA
4866279 CAACAATAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.60, C:0.16, G:0.11, T:0.13
Consensus pattern (21 bp):
AATAACAACAAAATAGCAGCA
Found at i:4868963 original size:20 final size:20
Alignment explanation
Indices: 4868940--4868988 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
4868930 CGACACCAGG
4868940 ATAAAGGTATCAATACTATA
1 ATAAAGGTATCAATACTATA
* ** * *
4868960 ATAAATGTATTGATACTTTG
1 ATAAAGGTATCAATACTATA
4868980 ATAAAGGTA
1 ATAAAGGTA
4868989 ATTTGAGAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (20 bp):
ATAAAGGTATCAATACTATA
Found at i:4869044 original size:20 final size:20
Alignment explanation
Indices: 4869006--4869052 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
4868996 AAAAGTATCG
* ** *
4869006 ATACTTTAAGCAATGTACAT
1 ATACTTTAACCAAAATACAA
4869026 ATACTTTAACCAAAATACAA
1 ATACTTTAACCAAAATACAA
4869046 ATACTTT
1 ATACTTT
4869053 TAGTAAACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.45, C:0.17, G:0.04, T:0.34
Consensus pattern (20 bp):
ATACTTTAACCAAAATACAA
Found at i:4869503 original size:22 final size:21
Alignment explanation
Indices: 4869466--4869507 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4869456 AGATTTGAAG
4869466 AAAAAAATTGTATTTTTGGGC
1 AAAAAAATTGTATTTTTGGGC
4869487 AAAAAAATTGTATTTTTGGGC
1 AAAAAAATTGTATTTTTGGGC
4869508 TTAAGTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (21 bp):
AAAAAAATTGTATTTTTGGGC
Found at i:4870966 original size:19 final size:19
Alignment explanation
Indices: 4870910--4870966 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
4870900 AAGTTAATAA
*
4870910 CAAATTTGATTACGGTGGA
1 CAAATTTGATTACGGTGGG
4870929 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
*
4870948 CAAATTTGATTACAGTGGG
1 CAAATTTGATTACGGTGGG
4870967 TGACAGTGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACGGTGGG
Found at i:4872098 original size:11 final size:12
Alignment explanation
Indices: 4872082--4872152 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 12
4872072 AATAAACACC
4872082 AAAAAAT-TTTT
1 AAAAAATATTTT
4872093 AAAAAAAGTATTTT
1 -AAAAAA-TATTTT
4872107 -AAAAATATTTT
1 AAAAAATATTTT
4872118 --AAAA-A---T
1 AAAAAATATTTT
4872124 AAAAAA-ATTTT
1 AAAAAATATTTT
4872135 AAAAAAGTATTTT
1 AAAAAA-TATTTT
4872148 AAAAA
1 AAAAA
4872153 TAAAAAAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
6 1 0.02
8 5 0.10
9 1 0.02
10 4 0.08
11 13 0.26
12 11 0.22
13 11 0.22
14 4 0.08
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
AAAAAATATTTT
Found at i:4872136 original size:28 final size:28
Alignment explanation
Indices: 4872102--4872174 Score: 101
Period size: 30 Copynumber: 2.5 Consensus size: 28
4872092 TAAAAAAAGT
4872102 ATTTTAAAAATATTTTAAAAATAAAAAA
1 ATTTTAAAAATATTTTAAAAATAAAAAA
4872130 ATTTTAAAAAAGTATTTTAAAAATAAAAAA
1 ATTTT-AAAAA-TATTTTAAAAATAAAAAA
* **
4872160 AATAAAAAAATATTT
1 ATTTTAAAAATATTT
4872175 ATTATATTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 10 0.25
29 10 0.25
30 20 0.50
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (28 bp):
ATTTTAAAAATATTTTAAAAATAAAAAA
Found at i:4872140 original size:41 final size:39
Alignment explanation
Indices: 4872082--4872175 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 39
4872072 AATAAACACC
* **
4872082 AAAAAATTTTTAAAAAAAGTATTTTAAAAATATTTTAAAAAT
1 AAAAAAATTTT-AAAAAAGTATTTTAAAAATA--AAAAAAAT
4872124 AAAAAAATTTTAAAAAAGTATTTTAAAAATAAAAAAAAT
1 AAAAAAATTTTAAAAAAGTATTTTAAAAATAAAAAAAAT
4872163 AAAAAAATATTTA
1 AAAAAAAT-TTTA
4872176 TTATATTCGG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
39 14 0.29
40 4 0.08
41 20 0.42
42 10 0.21
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (39 bp):
AAAAAAATTTTAAAAAAGTATTTTAAAAATAAAAAAAAT
Found at i:4888396 original size:12 final size:12
Alignment explanation
Indices: 4888379--4888406 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4888369 AAATGTGTTT
4888379 AAAAAAATTTAA
1 AAAAAAATTTAA
4888391 AAAAAAATTTAA
1 AAAAAAATTTAA
4888403 AAAA
1 AAAA
4888407 TATATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAAAATTTAA
Found at i:4889948 original size:34 final size:35
Alignment explanation
Indices: 4889858--4889949 Score: 123
Period size: 34 Copynumber: 2.6 Consensus size: 35
4889848 AGTACATCGA
* * *
4889858 TAATCCAACCGAAACATACCAGATGCTCATAAGAGC
1 TAATCCATCTGAAACACACCA-ATGCTCATAAGAGC
* *
4889894 TAATCTATCTAAAACACACCAATGCTCATAAGAGC
1 TAATCCATCTGAAACACACCAATGCTCATAAGAGC
4889929 T-ATCCATCTGAAACACACCAA
1 TAATCCATCTGAAACACACCAA
4889950 AACAAATAGT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
34 18 0.37
35 15 0.31
36 16 0.33
ACGTcount: A:0.42, C:0.28, G:0.10, T:0.20
Consensus pattern (35 bp):
TAATCCATCTGAAACACACCAATGCTCATAAGAGC
Found at i:4909657 original size:5 final size:5
Alignment explanation
Indices: 4909642--4909682 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
4909632 AGACAACCCA
4909642 ATTTT ATTTTT ATTTT ATTTT ATTTT A-TTT ATATTT ATTTT
1 ATTTT A-TTTT ATTTT ATTTT ATTTT ATTTT AT-TTT ATTTT
4909683 CTTGCATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.12
5 19 0.58
6 10 0.30
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:4910158 original size:127 final size:127
Alignment explanation
Indices: 4909914--4910160 Score: 345
Period size: 127 Copynumber: 1.9 Consensus size: 127
4909904 TAAAAATGTG
*
4909914 TTGGGCTGAGTAACCGAAGTGAGGTGCTTGGTTGTCATATCTCTTCGCGTCAAAAGGTTCAATAT
1 TTGGGCTGAGTAACCGAAGTGAGGTGCTTGGTTGTCATATCTCTTCGCATCAAAAGGTTCAATAT
* * * * *
4909979 ATTCTTAAGAAAAAACAAAGAAAAAAAAAGAACATATATAAATATAATAAATTAAGAGTATA
66 ATTCTTAAGAAAAAACAAAGAAAAAAAAAGAACAAAAAGAAATAAAAAAAATTAAGAGTATA
** * * *
4910041 TTGGGCTGAGTAATTGAGGTGGGGTGCTTGGTTGTCATCTCTCTTCGCATCAAAAGGTTCAATAT
1 TTGGGCTGAGTAACCGAAGTGAGGTGCTTGGTTGTCATATCTCTTCGCATCAAAAGGTTCAATAT
* *
4910106 ATTTTTAAGAAAAAA-AAAGAAAAAGAAAAGAGA-AAAAAGAAGTAAAAAAAATTAA
66 ATTCTTAAGAAAAAACAAAGAAAAA-AAAAGA-ACAAAAAGAAATAAAAAAAATTAA
4910161 TAATAAAGAA
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
126 9 0.09
127 95 0.90
128 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.27
Consensus pattern (127 bp):
TTGGGCTGAGTAACCGAAGTGAGGTGCTTGGTTGTCATATCTCTTCGCATCAAAAGGTTCAATAT
ATTCTTAAGAAAAAACAAAGAAAAAAAAAGAACAAAAAGAAATAAAAAAAATTAAGAGTATA
Found at i:4914981 original size:17 final size:18
Alignment explanation
Indices: 4914959--4914995 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
4914949 AACAAAATCG
4914959 TAGAAC-GGTATCGATAC
1 TAGAACAGGTATCGATAC
4914976 TAGAACATGGTATCGATAC
1 TAGAACA-GGTATCGATAC
4914995 T
1 T
4914996 TGTAAGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (18 bp):
TAGAACAGGTATCGATAC
Found at i:4915843 original size:2 final size:2
Alignment explanation
Indices: 4915838--4915862 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4915828 CCACTAGTTT
4915838 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
4915863 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Done.