Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 33 of 186
Found at i:9903962 original size:6 final size:6
Alignment explanation
Indices: 9903951--9903981 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
9903941 CAAATATTGT
*
9903951 GGCAGG GGCAGG GGCAGG GACAGG GGCAGG G
1 GGCAGG GGCAGG GGCAGG GGCAGG GGCAGG G
9903982 TCGGTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.16, G:0.65, T:0.00
Consensus pattern (6 bp):
GGCAGG
Found at i:9910493 original size:4 final size:4
Alignment explanation
Indices: 9910484--9910586 Score: 59
Period size: 4 Copynumber: 24.5 Consensus size: 4
9910474 NNNNNNNNNN
* * *
9910484 AGGG AGGG AGGG AGGG AGGG AGAGG -GTG AGAG AGAG AGGG AGAGAG AGGG
1 AGGG AGGG AGGG AGGG AGGG AG-GG AGGG AGGG AGGG AGGG AG-G-G AGGG
* * *
9910534 AGAG AGAG AGGG -GGG AGAGAG AGAG AGGG AGAGG -GGG AGAGAG AGGG
1 AGGG AGGG AGGG AGGG AG-G-G AGGG AGGG AG-GG AGGG AG-G-G AGGG
9910581 AGGG AG
1 AGGG AG
9910587 AGAGAGAGTG
Statistics
Matches: 81, Mismatches: 7, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
3 6 0.07
4 57 0.70
5 9 0.11
6 9 0.11
ACGTcount: A:0.34, C:0.00, G:0.65, T:0.01
Consensus pattern (4 bp):
AGGG
Found at i:9910516 original size:10 final size:10
Alignment explanation
Indices: 9910491--9910594 Score: 94
Period size: 10 Copynumber: 10.9 Consensus size: 10
9910481 NNNAGGGAGG
9910491 GAGGGAG-G-
1 GAGGGAGAGA
*
9910499 GAGGGAGAGG
1 GAGGGAGAGA
* *
9910509 GTGAGAGAGA
1 GAGGGAGAGA
9910519 GAGGGAGAGA
1 GAGGGAGAGA
9910529 GAGGGAGAGA
1 GAGGGAGAGA
*
9910539 GAGAGG-G-GG
1 GAG-GGAGAGA
*
9910548 GAGAGAGAGA
1 GAGGGAGAGA
9910558 GAGGGAGAG-
1 GAGGGAGAGA
9910567 G-GGGAGAGA
1 GAGGGAGAGA
*
9910576 GAGGGAGGGA
1 GAGGGAGAGA
*
9910586 GAGAGAGAG
1 GAGGGAGAG
9910595 TGATCTAGAT
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
8 15 0.19
9 8 0.10
10 52 0.68
11 2 0.03
ACGTcount: A:0.36, C:0.00, G:0.63, T:0.01
Consensus pattern (10 bp):
GAGGGAGAGA
Found at i:9910518 original size:2 final size:2
Alignment explanation
Indices: 9910511--9910594 Score: 80
Period size: 2 Copynumber: 42.5 Consensus size: 2
9910501 GGGAGAGGGT
* * * *
9910511 GA GA GA GA GA GG GA GA GA GA GG GA GA GA GA GA G- GG GG GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * *
9910552 GA GA GA GA GG GA GA GG GG GA GA GA GA GG GA GG GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
9910594 G
1 G
9910595 TGATCTAGAT
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
1 1 0.01
2 67 0.99
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9910520 original size:14 final size:14
Alignment explanation
Indices: 9910491--9910592 Score: 93
Period size: 14 Copynumber: 7.2 Consensus size: 14
9910481 NNNAGGGAGG
* *
9910491 GAGGGAGGGAGGGA
1 GAGGGAGAGAGAGA
*
9910505 GAGGGTGAGAGAGA
1 GAGGGAGAGAGAGA
9910519 GAGGGAGAGAGAG-
1 GAGGGAGAGAGAGA
*
9910532 G-GAGAGAGAGAG-
1 GAGGGAGAGAGAGA
*
9910544 GGGGGAGAGAGAGA
1 GAGGGAGAGAGAGA
9910558 GAGGGAGAGGGGGAGAGA
1 GAGGGAGA----GAGAGA
*
9910576 GAGGGAGGGAGAGA
1 GAGGGAGAGAGAGA
9910590 GAG
1 GAG
9910593 AGTGATCTAG
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
12 11 0.15
13 11 0.15
14 39 0.53
18 13 0.18
ACGTcount: A:0.35, C:0.00, G:0.64, T:0.01
Consensus pattern (14 bp):
GAGGGAGAGAGAGA
Found at i:9910587 original size:12 final size:12
Alignment explanation
Indices: 9910484--9910590 Score: 109
Period size: 12 Copynumber: 9.2 Consensus size: 12
9910474 NNNNNNNNNN
*
9910484 AGGGAGGGAGGG
1 AGGGAGGGAGAG
9910496 AGGGAGGGAGAG
1 AGGGAGGGAGAG
*
9910508 -GGTGAGAGAGAG
1 AGG-GAGGGAGAG
9910520 AGGGA--GAGAG
1 AGGGAGGGAGAG
*
9910530 AGGGAGAGAGAG
1 AGGGAGGGAGAG
9910542 AGGG-GGGAGAG
1 AGGGAGGGAGAG
9910553 AGAGAGAGGGAGAG
1 AG-G-GAGGGAGAG
*
9910567 -GGG-GAGAGAG
1 AGGGAGGGAGAG
9910577 AGGGAGGGAGAG
1 AGGGAGGGAGAG
9910589 AG
1 AG
9910591 AGAGTGATCT
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
10 16 0.20
11 14 0.17
12 40 0.49
13 4 0.05
14 7 0.09
ACGTcount: A:0.35, C:0.00, G:0.64, T:0.01
Consensus pattern (12 bp):
AGGGAGGGAGAG
Found at i:9911934 original size:5 final size:6
Alignment explanation
Indices: 9911918--9911942 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9911908 AATAAAAATG
9911918 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
9911943 CTTATATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:9914346 original size:22 final size:23
Alignment explanation
Indices: 9914321--9914372 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
9914311 AATTTCATCC
9914321 TCAATATAC-AAGCCAAAA-CATA
1 TCAA-ATACTAAGCCAAAATCATA
*
9914343 TCAAATCCTAAGCCAAAATCATA
1 TCAAATACTAAGCCAAAATCATA
*
9914366 CCAAATA
1 TCAAATA
9914373 TGAGTTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 13 0.52
23 9 0.36
ACGTcount: A:0.52, C:0.25, G:0.04, T:0.19
Consensus pattern (23 bp):
TCAAATACTAAGCCAAAATCATA
Found at i:9923432 original size:24 final size:24
Alignment explanation
Indices: 9923396--9923449 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
9923386 TCTTTTTAAA
* * *
9923396 ATATATAGTATTTATTAGTATAAT
1 ATATTTAGAATTTATTAGCATAAT
9923420 ATATTTAGAATTTATTAGCATAAT
1 ATATTTAGAATTTATTAGCATAAT
9923444 ATATTT
1 ATATTT
9923450 GACATTGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (24 bp):
ATATTTAGAATTTATTAGCATAAT
Found at i:9931895 original size:40 final size:40
Alignment explanation
Indices: 9931850--9931943 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
9931840 CGGTTTTTGT
*
9931850 TGGCACTTAGTGTGCGATACGACATAGCTCCAGCTGTATA
1 TGGCACTTAGTGTGCGATACGACATAGCTCCAGCTATATA
* * *
9931890 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATACGACATAGCTCCAGCTATATA
*
9931930 TGGCACTTAATGTG
1 TGGCACTTAGTGTG
9931944 GAATTTGAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATACGACATAGCTCCAGCTATATA
Found at i:9931957 original size:40 final size:40
Alignment explanation
Indices: 9931886--9932008 Score: 158
Period size: 40 Copynumber: 3.0 Consensus size: 40
9931876 GCTCCAGCTG
* * *
9931886 TATATGGCACTTAGTGTGCG-ATTCGACATAGCTTCGGCTA
1 TATATGGCACTTAATGTG-GAATTTGAGATAGCTTCGGCTA
9931926 TATATGGCACTTAATGTGGAATTTGAGATAGCTTCGGCTA
1 TATATGGCACTTAATGTGGAATTTGAGATAGCTTCGGCTA
* * *
9931966 TGTACGACACACTTAATGTGGAATTTGAGATAGCTTCGGCTA
1 TATATG--GCACTTAATGTGGAATTTGAGATAGCTTCGGCTA
9932008 T
1 T
9932009 GTACGACACT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 39 0.53
42 34 0.46
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (40 bp):
TATATGGCACTTAATGTGGAATTTGAGATAGCTTCGGCTA
Found at i:9931988 original size:42 final size:42
Alignment explanation
Indices: 9931933--9932017 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
9931923 CTATATATGG
9931933 CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
1 CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
9931975 CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
1 CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
9932017 C
1 C
9932018 TTAGTGTGCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
Found at i:9935998 original size:23 final size:25
Alignment explanation
Indices: 9935967--9936038 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 25
9935957 TGAGTTGCCA
* **
9935967 TATATCAGGAAGTTCA-AGCGAGCC
1 TATATCAGGAAGCTCACAAAGAGCC
9935991 -ATATCAGGAAGCTCACAAAGAGCC
1 TATATCAGGAAGCTCACAAAGAGCC
* *
9936015 TATATCAGGATGCTCATAAAGAGC
1 TATATCAGGAAGCTCACAAAGAGC
9936039 TGCGGTATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 14 0.34
24 6 0.15
25 21 0.51
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (25 bp):
TATATCAGGAAGCTCACAAAGAGCC
Found at i:9936101 original size:64 final size:64
Alignment explanation
Indices: 9936015--9936142 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 64
9936005 ACAAAGAGCC
* * * * * * * * * *
9936015 TATATCAGGATGCTCATAAAGAGCTGCGGTATGTTCGCAATACATGCAGGATCAATACTGATCA
1 TATAACAGGACGCTCACAAAGAGCTGCAGTATATCCGCAACACATGCAGAACCAATACCGATCA
9936079 TATAACAGGACGCTCACAAAGAGCTGCAGTATATCCGCAACACATGCAGAACCAATACCGATCA
1 TATAACAGGACGCTCACAAAGAGCTGCAGTATATCCGCAACACATGCAGAACCAATACCGATCA
9936143 AGGTGCTCAC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (64 bp):
TATAACAGGACGCTCACAAAGAGCTGCAGTATATCCGCAACACATGCAGAACCAATACCGATCA
Found at i:9937644 original size:5 final size:6
Alignment explanation
Indices: 9937629--9937669 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
9937619 ATTATATGTT
*
9937629 TTTTTA TTTTTA TTTTTA TTTTTAGA TTTTTA TTGTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
9937670 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 25 0.81
8 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:9937657 original size:20 final size:21
Alignment explanation
Indices: 9937634--9937683 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
9937624 ATGTTTTTTT
* *
9937634 ATTTTTATTTTTATTT-TTAG
1 ATTTTTATTGTTATTTATTAA
9937654 ATTTTTATTGTTATTTATTAA
1 ATTTTTATTGTTATTTATTAA
9937675 ATTATTTAT
1 ATT-TTTAT
9937684 AATTTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 15 0.58
21 6 0.23
22 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (21 bp):
ATTTTTATTGTTATTTATTAA
Found at i:9940154 original size:46 final size:46
Alignment explanation
Indices: 9940104--9940203 Score: 155
Period size: 46 Copynumber: 2.2 Consensus size: 46
9940094 AGCCGGATCG
*
9940104 GTAAGCTCCAATGGGCTAAAATAGAAAGCTCTTACAAGCTGAATCA
1 GTAAGCTCCAATGAGCTAAAATAGAAAGCTCTTACAAGCTGAATCA
** * *
9940150 GTAAGCTATAATGAGCTAAAATAGTAAGCTCTTACGAGCTGAATCA
1 GTAAGCTCCAATGAGCTAAAATAGAAAGCTCTTACAAGCTGAATCA
9940196 GTAAGCTC
1 GTAAGCTC
9940204 ATACGAGCTG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (46 bp):
GTAAGCTCCAATGAGCTAAAATAGAAAGCTCTTACAAGCTGAATCA
Found at i:9940155 original size:23 final size:23
Alignment explanation
Indices: 9940129--9940213 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
9940119 CTAAAATAGA
*
9940129 AAGCTCTTACAAGCTGAATCAGT
1 AAGCTCTTACGAGCTGAATCAGT
* * * *
9940152 AAGCTATAATGAGCTAAAAT-AGT
1 AAGCTCTTACGAGCT-GAATCAGT
9940175 AAGCTCTTACGAGCTGAATCAGT
1 AAGCTCTTACGAGCTGAATCAGT
*
9940198 AAGCTCATACGAGCTG
1 AAGCTCTTACGAGCTG
9940214 TGGTGAGTCC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
22 3 0.06
23 44 0.88
24 3 0.06
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (23 bp):
AAGCTCTTACGAGCTGAATCAGT
Found at i:9952273 original size:25 final size:25
Alignment explanation
Indices: 9952245--9952293 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
9952235 AGGGATCACA
9952245 CGATAGGTACACTTGCCTACCCTCG
1 CGATAGGTACACTTGCCTACCCTCG
9952270 CGATAGGTACACTTGCCTACCCTC
1 CGATAGGTACACTTGCCTACCCTC
9952294 ATGATAATAG
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:0.20, C:0.37, G:0.18, T:0.24
Consensus pattern (25 bp):
CGATAGGTACACTTGCCTACCCTCG
Found at i:9952299 original size:25 final size:25
Alignment explanation
Indices: 9952243--9952299 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
9952233 TTAGGGATCA
9952243 CACGATAGGTACACTTGCCTACCCT
1 CACGATAGGTACACTTGCCTACCCT
*
9952268 CGCGATAGGTACACTTGCCTACCCT
1 CACGATAGGTACACTTGCCTACCCT
*
9952293 CATGATA
1 CACGATA
9952300 ATAGTTAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (25 bp):
CACGATAGGTACACTTGCCTACCCT
Found at i:9980469 original size:54 final size:54
Alignment explanation
Indices: 9980387--9980541 Score: 224
Period size: 53 Copynumber: 2.9 Consensus size: 54
9980377 AGGGAAGGAA
*
9980387 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTGTAAAAAAAAAT-AAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACT-CAAAAAAAAATGAAAAGG
* * *
9980441 GCCAAAGTGTAAACCCGCAAAGGGCACTTTGAGAC-CAAATAAAAATGGAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTCAAAAAAAAATGAAAAGG
*
9980494 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAATAATAAAAA
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTCAA-AA-AAAAA
9980542 AGGGAAAAAG
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
52 9 0.10
53 38 0.42
54 37 0.41
55 1 0.01
56 5 0.06
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.14
Consensus pattern (54 bp):
GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTCAAAAAAAAATGAAAAGG
Found at i:9982106 original size:44 final size:43
Alignment explanation
Indices: 9982065--9982165 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
9982055 ATCAGCAATG
**
9982065 GAGCAGATTGAAGCCCCAAGCCTTATCTTTCTGAGGTAGCAAGA
1 GAGCAGATTGAAG-AACAAGCCTTATCTTTCTGAGGTAGCAAGA
* ** * *
9982109 GAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTGGCAAGA
1 GAGCAGATTGAAGAACAAGCCTTATCTTTCTGAGGTAGCAAGA
*
9982152 AAGCAGATTGAAGA
1 GAGCAGATTGAAGA
9982166 TTGAAGATCT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
43 36 0.75
44 12 0.25
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (43 bp):
GAGCAGATTGAAGAACAAGCCTTATCTTTCTGAGGTAGCAAGA
Found at i:9982150 original size:43 final size:45
Alignment explanation
Indices: 9982086--9982189 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 45
9982076 AGCCCCAAGC
* *
9982086 CTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATG-AG-T
1 CTTATCTTTCTGAGGTAGCAAGAAAGCAGATTGAAGAATGAAGAT
* *
9982129 CTTATCTTTCTGAGGTGGCAAGAAAGCAGATTGAAGATTGAAGAT
1 CTTATCTTTCTGAGGTAGCAAGAAAGCAGATTGAAGAATGAAGAT
**
9982174 CTTATCTCCCTGAGGT
1 CTTATCTTTCTGAGGT
9982190 TACAACGGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 36 0.68
44 2 0.04
45 15 0.28
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (45 bp):
CTTATCTTTCTGAGGTAGCAAGAAAGCAGATTGAAGAATGAAGAT
Found at i:9982384 original size:176 final size:174
Alignment explanation
Indices: 9981642--9982427 Score: 792
Period size: 176 Copynumber: 4.5 Consensus size: 174
9981632 TGGTGAAAAC
* * *
9981642 TGAAGATCTCATCTCCCTGAAGTTGCAGCAGAGCAGATC-AAAGATGGTGAATCTTATCTCCATG
1 TGAAGATCTTATCTCCCTGAAGTTGCAGCAGAG-TGATCGAAA-ATGGCGAATCTTATCTCCATG
* * * *
9981706 TAAT-GGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTTTGAGGTAACAATAGAGCAGGTTG
64 T-ATCAGCAATGGAGCAGATTTTACCA-CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
* * * *
9981770 AAGAATTGAGTCTTATCTCCCTAAGGTTGCAATG-AAGCAGACTGAA-AA
127 AAGAA-TGAGTCTTATCTTCCTGAGGTAGCAA-GAAAGCAGACTGAAGAT
* * ** * *
9981818 TCACAGAT-TTA-CCCCCT-AAGTAACAGTAGAGTAGATCGAATATGGCGAATCTTATCTCCATG
1 TGA-AGATCTTATCTCCCTGAAGTTGCAGCAGAGT-GATCGAAAATGGCGAATCTTATCTCCATG
* * *
9981880 TATCGGTAATGGAGCA-AATTTA--A-AGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
64 TATCAGCAATGGAGCAGATTTTACCACAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
* * * * *
9981941 GAGTAAGTCTTATCTTCTTGAGGTAGTAAGAAAACAGACT-AAGAAT
129 GAATGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAG-AT
* * * * * *
9981987 TGAAGATTTTATCTCCCTAAAGTTGCAGCGGAGCAGATTATTGAAGATGGC-AAGTCTTATCTCT
1 TGAAGATCTTATCTCCCTGAAGTTGCAGC--AG-AG-TGATCGAAAATGGCGAA-TCTTATCTCC
** * *
9982051 ATGTATCAGCAATGGAGCAGATTGAAGCCCCAAGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGG
61 ATGTATCAGCAATGGAGCAGATTTTA-CCAC-AGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
* * *
9982116 TTGAAGAATGAGTCTTATCTTTCTGAGGTGGCAAGAAAGCAGATTGAAGAT
124 TTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAGAT
* * * * *
9982167 TGAAGATCTTATCTCCCTGAGGTTACAACGGAGTGGATCGAAAATGGTGAATCTTATCTCCATGT
1 TGAAGATCTTATCTCCCTGAAGTTGCAGCAGAGT-GATCGAAAATGGCGAATCTTATCTCCATGT
** *
9982232 ATCAGCAATATAGTAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
65 ATCAGCAATGGAGCAGATTTTACCAC-AGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
* * *
9982297 GAATGAGTTTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGTT
129 GAATGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAGAT
* * * *
9982343 TGAAAATCTTATTTCCCTGAAGTTGCAGCAGAGCTGATCGAAGAA-GGCAAATCTTATATCCATG
1 TGAAGATCTTATCTCCCTGAAGTTGCAGCAGAG-TGATCGAA-AATGGCGAATCTTATCTCCATG
*
9982407 TA-CAGGTAATGGAGCAGATTT
64 TATCA-GCAATGGAGCAGATTT
9982428 AAGCCAGTCC
Statistics
Matches: 498, Mismatches: 85, Indels: 54
0.78 0.13 0.08
Matches are distributed among these distances:
167 3 0.01
168 32 0.06
169 43 0.09
170 5 0.01
171 8 0.02
173 11 0.02
174 85 0.17
175 13 0.03
176 149 0.30
177 48 0.10
178 3 0.01
180 95 0.19
181 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (174 bp):
TGAAGATCTTATCTCCCTGAAGTTGCAGCAGAGTGATCGAAAATGGCGAATCTTATCTCCATGTA
TCAGCAATGGAGCAGATTTTACCACAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
ATGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAGAT
Found at i:9988055 original size:27 final size:27
Alignment explanation
Indices: 9988018--9988086 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
9988008 GTCATACATA
* * *
9988018 TCATAGAGGTATATCAGTCATTTTACC
1 TCATAGGGGTATAACAGTCACTTTACC
9988045 TCATAGGGGTATAACAGTCACTTTACC
1 TCATAGGGGTATAACAGTCACTTTACC
9988072 TCATAGGGGTATAAC
1 TCATAGGGGTATAAC
9988087 GATCATTCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (27 bp):
TCATAGGGGTATAACAGTCACTTTACC
Found at i:9988677 original size:20 final size:20
Alignment explanation
Indices: 9988652--9988692 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
9988642 TTAACACTTA
9988652 ATTCCCAACTAATAATTATT
1 ATTCCCAACTAATAATTATT
9988672 ATTCCCAACTAATAATTATT
1 ATTCCCAACTAATAATTATT
9988692 A
1 A
9988693 CCTGCCTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTCCCAACTAATAATTATT
Found at i:9995698 original size:27 final size:27
Alignment explanation
Indices: 9995647--9995719 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
9995637 GTCATACATA
* * *
9995647 TCATAGGGGTATATCAATCATTTTACC
1 TCATAGGGGTATAACAGTCACTTTACC
*
9995674 TCATAGGGGTATAACAGTTACTTTACC
1 TCATAGGGGTATAACAGTCACTTTACC
* *
9995701 T-TTAGGAGTATAACAGTCA
1 TCATAGGGGTATAACAGTCA
9995720 TTTCATCAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 15 0.38
27 24 0.62
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (27 bp):
TCATAGGGGTATAACAGTCACTTTACC
Found at i:9999486 original size:23 final size:23
Alignment explanation
Indices: 9999452--9999600 Score: 120
Period size: 23 Copynumber: 6.5 Consensus size: 23
9999442 GAGCTGATGG
*
9999452 ACAGTAAACTCTAATGAGCTGAA
1 ACAGTAAGCTCTAATGAGCTGAA
* * *
9999475 ACGGTAAGCTCTATTGAGTTGAA
1 ACAGTAAGCTCTAATGAGCTGAA
*** * *
9999498 TTGGTAAGCTCCAATAAGCTGAA
1 ACAGTAAGCTCTAATGAGCTGAA
* * *
9999521 ATAGTAAGCTCTTACGAGCTGAA
1 ACAGTAAGCTCTAATGAGCTGAA
* *
9999544 TCCA-TAAGCTCCAATGAGCTGAA
1 -ACAGTAAGCTCTAATGAGCTGAA
* * *
9999567 ACAATAAGCTCTTACGAGCTGAA
1 ACAGTAAGCTCTAATGAGCTGAA
*
9999590 TCAGTAAGCTC
1 ACAGTAAGCTC
9999601 ATAGAGCTGT
Statistics
Matches: 97, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
22 2 0.02
23 94 0.97
24 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (23 bp):
ACAGTAAGCTCTAATGAGCTGAA
Found at i:9999520 original size:46 final size:46
Alignment explanation
Indices: 9999502--9999600 Score: 155
Period size: 46 Copynumber: 2.2 Consensus size: 46
9999492 GTTGAATTGG
*
9999502 TAAGCTCCAATAAGCTGAAATAGTAAGCTCTTACGAGCTGAATCCA
1 TAAGCTCCAATAAGCTGAAACAGTAAGCTCTTACGAGCTGAATCCA
* *
9999548 TAAGCTCCAATGAGCTGAAACAATAAGCTCTTACGAGCTGAAT-CA
1 TAAGCTCCAATAAGCTGAAACAGTAAGCTCTTACGAGCTGAATCCA
9999593 GTAAGCTC
1 -TAAGCTC
9999601 ATAGAGCTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
45 2 0.04
46 47 0.96
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.23
Consensus pattern (46 bp):
TAAGCTCCAATAAGCTGAAACAGTAAGCTCTTACGAGCTGAATCCA
Found at i:10005225 original size:32 final size:30
Alignment explanation
Indices: 10005167--10005264 Score: 89
Period size: 30 Copynumber: 3.3 Consensus size: 30
10005157 TAAGATTATT
10005167 TTTATATTAATT--TTAATATTTA-AAATACAA
1 TTTATATTAATTACTTAA-ATTTATAAAT--AA
*
10005197 TTTATA-TATTTTACTTAAATTTATAAATAA
1 TTTATATTA-ATTACTTAAATTTATAAATAA
* *
10005227 TTTATATTAATTACTTAAAATTATTTAA-AA
1 TTTATATTAATTACTTAAATTTA-TAAATAA
10005257 TTTATATT
1 TTTATATT
10005265 TCATATACAT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
29 2 0.03
30 38 0.66
31 10 0.17
32 8 0.14
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTATATTAATTACTTAAATTTATAAATAA
Found at i:10007987 original size:2 final size:2
Alignment explanation
Indices: 10007971--10008006 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
10007961 TTTATATTAG
*
10007971 TA TA CA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10008007 TTCTAAACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10009295 original size:131 final size:131
Alignment explanation
Indices: 10009054--10009302 Score: 383
Period size: 131 Copynumber: 1.9 Consensus size: 131
10009044 TAATCATTCA
* * * * * *
10009054 AAAATTCTTCGAAACGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
*
10009119 TGGGTTGCAATATCGTGTTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
66 TGGGTTGCAATATCGCGTTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
10009184 T
131 T
*
10009185 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCTTGCCCTAACGTGT
1 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
* * *
10009250 TGGGTTGCAATTTCGCGTTTGCTC-AAAGTAATCGAGTATCCCTTCAAAATTTC
66 TGGGTTGCAATATCGCGTTTGCTCGAAA-TAATCGAATATCACTTCAAAATTTC
10009303 CTTTCATATC
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
130 3 0.03
131 103 0.97
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (131 bp):
AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
TGGGTTGCAATATCGCGTTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
T
Found at i:10020294 original size:180 final size:174
Alignment explanation
Indices: 10019918--10020581 Score: 695
Period size: 180 Copynumber: 3.7 Consensus size: 174
10019908 ATTCACCATT
* * * *
10019918 TTCAATCTACAGTCTGCTTCTTTGCTACCTCAAGAAGATAAGACTCCCTTTTTAACCTGCTCTCT
1 TTCAATCT-CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCCATTTTCAACCTGCTCTCT
* * *
10019983 TG-TCACCTCAAAGAAATAAGGCTAGTGGTAAAATCTACTCCATTGCCGATACAT-GAAGATAGG
65 TGCT-ACCTCAGAGAAATAAGGCTAGTGGTAAAATCTGCTCCATTGCCGATACATGGAA-ATAAG
10020046 ATTCACCATTCTC-GATCTGCTCCGCTGCAACTTCAGGGAGATAAAATC
128 ATTCACCA-TCTCAGATCTGCTCCGCTGCAAC-TCAGGGAGATAAAATC
* * * * *
10020094 TTCAATTCCCATTCTGCTTCCTTGCTACCTCAGGAAAATAAAACT-TATTCTTCAACCTGCTCTC
1 TTCAA-TCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCCATT-TTCAACCTGCTCTC
* * * * *
10020158 TTACTACGTCAGAGAAATAAGGTTTGGTGGTAAAATCTGCTCCATTGTCGATACATGGAAATAAG
64 TTGCTACCTCAGAGAAATAAGG-CTAGTGGTAAAATCTGCTCCATTGCCGATACATGGAAATAAG
*
10020223 ATTCACCATCTGCAAAGATCTACTCCGCTGCAATCTCAGGGAGATAAAATC
128 ATTCACCATCT-C--AGATCTGCTCCGCTGCAA-CTCAGGGAGATAAAATC
* * *
10020274 TTCAATTCTCAGTTTGCTTCCTTACTACCTCAGGAAGATAAGACT-CATCTTTCAACTTGCTCTC
1 TTCAA-TCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCCAT-TTTCAACCTGCTCTC
* * * * * *
10020338 TTGCTACCTCAGAGAGATAAGGCCAATAGCTAAAATTTGCTCCATTGCCGATACATGGAGATAAG
64 TTGCTACCTCAGAGAAATAAGGCTAGT-GGTAAAATCTGCTCCATTGCCGATACATGGAAATAAG
* * *
10020403 ATTCGCCATCCTCA-ATCTGCTCCG-T--AACTACCTAGGGAAATAAGATC
128 ATTCACCAT-CTCAGATCTGCTCCGCTGCAACT--C-AGGGAGATAAAATC
* * * *
10020450 TGT-AATCTTCGGTCTGCTTTCTTGCTACCTCAGGAAGATAATACTACAATTTTCAACCTGCTCT
1 T-TCAATC-TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CCATTTTCAACCTGCTCT
* *
10020514 CTTGCTACCTCAGAGAGATAAGGTCAATAGT--TAAAATCTGCTCCATTGCCGATACATGGAGAT
63 CTTGCTACCTCAGAGAAATAAGG-C--TAGTGGTAAAATCTGCTCCATTGCCGATACATGGAAAT
10020577 AAGAT
125 AAGAT
10020582 CTGTAAATTC
Statistics
Matches: 414, Mismatches: 51, Indels: 45
0.81 0.10 0.09
Matches are distributed among these distances:
173 2 0.00
174 2 0.00
175 5 0.01
176 117 0.28
177 127 0.31
178 7 0.02
179 1 0.00
180 149 0.36
181 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (174 bp):
TTCAATCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCCATTTTCAACCTGCTCTCTT
GCTACCTCAGAGAAATAAGGCTAGTGGTAAAATCTGCTCCATTGCCGATACATGGAAATAAGATT
CACCATCTCAGATCTGCTCCGCTGCAACTCAGGGAGATAAAATC
Found at i:10020532 original size:177 final size:174
Alignment explanation
Indices: 10019918--10020581 Score: 696
Period size: 177 Copynumber: 3.7 Consensus size: 174
10019908 ATTCACCATT
* * * *
10019918 TTCAA-TCTACAGTCTGCTTCTTTGCTACCTCAAGAAGATAAGACTCCCTTTTTAACCTGCTCTC
1 TTCAATTCT-CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CATTTTCAACCTGCTCTC
* * * * * *
10019982 TTG-TCACCTCAAAGAAATAAGGCTAGTGGTAAAATCTACTCCATTGCCGATACATGAAGATAGG
64 TTGCT-ACCTCAGAGAAATAAGGCCAATGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAG
*
10020046 ATTCACCATTCTCGATCTGCTCCGCTGCAACT-TC-AGGGAGATAAAATC
128 ATTCACCA-TCTCAATCTGCTCCGCT--AACTATCTAGGGAGATAAAATC
* * * * *
10020094 TTCAATTCCCATTCTGCTTCCTTGCTACCTCAGGAAAATAAAACTTATTCTTCAACCTGCTCTCT
1 TTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATT-TTCAACCTGCTCTCT
* * **** * *
10020159 TACTACGTCAGAGAAATAAGGTTTGGTGGTAAAATCTGCTCCATTGTCGATACATGGAAATAAGA
65 TGCTACCTCAGAGAAATAAGG-CCAATGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGA
* * *
10020224 TTCACCATCTGCAAAGATCTACTCCGCT-GCAATCTCAGGGAGATAAAATC
129 TTCACCATCT-C--A-ATCTGCTCCGCTAACTATCT-AGGGAGATAAAATC
* * *
10020274 TTCAATTCTCAGTTTGCTTCCTTACTACCTCAGGAAGATAAGACTCATCTTTCAACTTGCTCTCT
1 TTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAT-TTTCAACCTGCTCTCT
* * *
10020339 TGCTACCTCAGAGAGATAAGGCCAATAGCTAAAATTTGCTCCATTGCCGATACATGGAGATAAGA
65 TGCTACCTCAGAGAAATAAGGCCAAT-GGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGA
* * * *
10020404 TTCGCCATCCTCAATCTGCTCCG-TAACTACCTAGGGAAATAAGATC
129 TTCACCAT-CTCAATCTGCTCCGCTAACTATCTAGGGAGATAAAATC
* * *
10020450 TGT-AA-TCTTCGGTCTGCTTTCTTGCTACCTCAGGAAGATAATACTACAATTTTCAACCTGCTC
1 T-TCAATTC-TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-C-ATTTTCAACCTGCTC
* * *
10020513 TCTTGCTACCTCAGAGAGATAAGGTCAATAGTTAAAATCTGCTCCATTGCCGATACATGGAGATA
62 TCTTGCTACCTCAGAGAAATAAGGCCAAT-GGTAAAATCTGCTCCATTGCCGATACATGGAGATA
10020578 AGAT
126 AGAT
10020582 CTGTAAATTC
Statistics
Matches: 411, Mismatches: 58, Indels: 37
0.81 0.11 0.07
Matches are distributed among these distances:
175 4 0.01
176 117 0.28
177 141 0.34
178 5 0.01
179 1 0.00
180 140 0.34
181 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (174 bp):
TTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTTTCAACCTGCTCTCTT
GCTACCTCAGAGAAATAAGGCCAATGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATT
CACCATCTCAATCTGCTCCGCTAACTATCTAGGGAGATAAAATC
Found at i:10020664 original size:44 final size:45
Alignment explanation
Indices: 10020548--10020670 Score: 112
Period size: 44 Copynumber: 2.8 Consensus size: 45
10020538 CAATAGTTAA
* * *
10020548 AATCTGCTCCATTGCCGATACATGGAGATAAGATCTGTAAATTCC
1 AATCTGCTCCATTGCTGATACATGGAGATAAGATCTCTAAAGTCC
* * **
10020593 AGTCTGCTTCC-TTGCT-ACCT-CAGGGAGATAAGA-CTACTATCGT-C
1 AATCTGC-TCCATTGCTGA--TACATGGAGATAAGATCT-CTAAAGTCC
10020637 AATCTGCTCCATTGCTGATACATGGAGATAAGAT
1 AATCTGCTCCATTGCTGATACATGGAGATAAGAT
10020671 TTGTCTTTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
43 4 0.07
44 27 0.44
45 26 0.43
46 4 0.07
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
AATCTGCTCCATTGCTGATACATGGAGATAAGATCTCTAAAGTCC
Found at i:10020900 original size:234 final size:235
Alignment explanation
Indices: 10020447--10020908 Score: 515
Period size: 234 Copynumber: 2.0 Consensus size: 235
10020437 GGGAAATAAG
* * * * * *
10020447 ATCTGTAATCTTCGGTCTGCTTTCTTGCTACCTCAGGAAGATAATACTACAATTTTCAACCTGCT
1 ATCTGTAATCTTCAGTCCGCTTTCTTACTACCTCAGAAAGATAAGACTACAATTTTCAACCTGCC
*
10020512 CTCTTGCTACCTCAGAGAGATAAGGTCAATAGTTAAAATCTGCTCCATTGCCGATACATGGAGAT
66 CTCTTGCTACCTCAGAGAGATAAGGTCAATAGGTAAAATCTGCTCCATTGCCGATACATGGAGAT
*** *
10020577 AAGATCTGTAAATTCCAGTCTGCTTCCTTGCTACCTCAGGGAGATAAGACTACTATCGTCAATCT
131 AAGATCACCAAATTCCAGTCTGCTTCC-TGCTACCTCAGGGAGATAAGACTACAATCGTCAATCT
* * * *
10020642 GCTCCATTGCTGATACATGGAGATAAGATTTGTCTTTTCCA
195 GCTCCACTGCTAATACAGGGAGATAAGACTTGTCTTTTCCA
* *
10020683 ATCTTTAATCTTCAGTCCGCTTTCTTACTGCCTCAGAAAGATAAGACT-C-ATTCTTCAACCTGC
1 ATCTGTAATCTTCAGTCCGCTTTCTTACTACCTCAGAAAGATAAGACTACAATT-TTCAACCTGC
*** *
10020746 CCTCTTGCTACCTCAGAGAGATAAGGTTGGT-GGTAAAATCTGCTCTATTGCCGATACATGGAGA
65 CCTCTTGCTACCTCAGAGAGATAAGGTCAATAGGTAAAATCTGCTCCATTGCCGATACATGGAGA
** ** * * * * *
10020810 TAAGATTCACCATCTTTGA-TCTGC-TCC-GCTACTGCTTAGGGTGATAAGATCTTCAATCTTTA
130 TAAGA-TCACCAAATTCCAGTCTGCTTCCTGCTAC--CTCAGGGAGATAAGA-CTACAATCGTCA
* **
10020872 GTCTGCTCCACTGC-AACTTTAGGGAGATAAGACTTGT
191 ATCTGCTCCACTGCTAA-TACAGGGAGATAAGACTTGT
10020909 ATATTGAGAC
Statistics
Matches: 187, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
231 5 0.03
233 17 0.09
234 80 0.43
235 44 0.24
236 41 0.22
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (235 bp):
ATCTGTAATCTTCAGTCCGCTTTCTTACTACCTCAGAAAGATAAGACTACAATTTTCAACCTGCC
CTCTTGCTACCTCAGAGAGATAAGGTCAATAGGTAAAATCTGCTCCATTGCCGATACATGGAGAT
AAGATCACCAAATTCCAGTCTGCTTCCTGCTACCTCAGGGAGATAAGACTACAATCGTCAATCTG
CTCCACTGCTAATACAGGGAGATAAGACTTGTCTTTTCCA
Found at i:10021193 original size:64 final size:64
Alignment explanation
Indices: 10021090--10021280 Score: 301
Period size: 64 Copynumber: 3.0 Consensus size: 64
10021080 TGTATCATGT
* * * *
10021090 TTATGCCAAATAATTAGGATGTTATGATCAAAATAAATCAAATGCTCCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
* *
10021154 TTATGTCAACTAATTAGAATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
* * *
10021218 TTATGTCAAATAATTAGGATGCTGTGATTAAAATGAATCAAATGCACCTAATTAGATGTGATG
1 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATG
10021281 AATGATATAT
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 116 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (64 bp):
TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
Found at i:10023133 original size:9 final size:9
Alignment explanation
Indices: 10023112--10023152 Score: 66
Period size: 9 Copynumber: 4.6 Consensus size: 9
10023102 ATTAGCAACC
10023112 TTTTTCTTT-
1 TTTTT-TTTG
10023121 TTTTTTTTG
1 TTTTTTTTG
10023130 TTTTTTTTG
1 TTTTTTTTG
10023139 TTTTTTTTG
1 TTTTTTTTG
10023148 TTTTT
1 TTTTT
10023153 GGAATTTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 3 0.10
9 28 0.90
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.90
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:10033990 original size:44 final size:44
Alignment explanation
Indices: 10033927--10034461 Score: 700
Period size: 44 Copynumber: 12.2 Consensus size: 44
10033917 GGCGAATCCT
* *
10033927 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* ** *
10033971 GCAGATTTGGCATCTCTGTATCGATAGGGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* **
10034015 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATTAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
10034059 GC-GTATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAG-ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
10034103 GCAGATTTGTCGTCTCTAT-TTCGGCAGAGAGCAGATC-AAGGATA
1 GCAGATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAA-GATA
* *
10034147 ACAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
10034191 GCAGATTTGGCGTCTCTATATTGGCGGAGAGCAGATCGAGGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
*
10034235 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
10034279 GCAGATTTGGCATCTCTGTGTTGACATAGAACAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
10034323 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAAATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
10034367 GCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGAT-
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
10034410 GACGGATTTGGCATCTCTGTATGGGCAGAGAGCAGATCAAAAATA
1 G-CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
*
10034455 ACAGATT
1 GCAGATT
10034462 GGTGTTCCCG
Statistics
Matches: 429, Mismatches: 54, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
43 6 0.01
44 418 0.97
45 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (44 bp):
GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
Found at i:10037024 original size:485 final size:485
Alignment explanation
Indices: 10036115--10037085 Score: 1942
Period size: 485 Copynumber: 2.0 Consensus size: 485
10036105 TATTATTATA
10036115 CATATACATATTGTTATAACAAAGTTAATGTATTTGCATGTATATAATGATTCTTGGCTTTGTTC
1 CATATACATATTGTTATAACAAAGTTAATGTATTTGCATGTATATAATGATTCTTGGCTTTGTTC
10036180 ATGTATTTTGGAATATATATTTTTATTATTCTAACATGTTTTGTACATATATTTTATGTAAAGTT
66 ATGTATTTTGGAATATATATTTTTATTATTCTAACATGTTTTGTACATATATTTTATGTAAAGTT
10036245 TAAATTATTTTTATACTTATTTATATTAATATACATATTATATATATATATTTCTAAACCTATAC
131 TAAATTATTTTTATACTTATTTATATTAATATACATATTATATATATATATTTCTAAACCTATAC
10036310 ATTTTACATTTACATTTTCTTTACACAAAAGCGTGTTTTTTTTAATCTATTGTTTAATTTATTAT
196 ATTTTACATTTACATTTTCTTTACACAAAAGCGTGTTTTTTTTAATCTATTGTTTAATTTATTAT
10036375 AAAATTAATTTAGCCCTATGAATATTATCTTTTCTATGTAATTTTACATGTAATTATTTTCAAAA
261 AAAATTAATTTAGCCCTATGAATATTATCTTTTCTATGTAATTTTACATGTAATTATTTTCAAAA
10036440 GTTATATATACATATTGATATTATTACTTTAATAGGTTTTCCTACTTACAACATTTTTGCGATAT
326 GTTATATATACATATTGATATTATTACTTTAATAGGTTTTCCTACTTACAACATTTTTGCGATAT
10036505 GAGTTATCAAGTATTTTCTTTATGTATGTATATGGAAAAATTTTAGAAACCTCATTTTTTTTTGC
391 GAGTTATCAAGTATTTTCTTTATGTATGTATATGGAAAAATTTTAGAAACCTCATTTTTTTTTGC
10036570 AATCACAAAATTATTATTTTTGGATGTTCC
456 AATCACAAAATTATTATTTTTGGATGTTCC
10036600 CATATACATATTGTTATAACAAAGTTAATGTATTTGCATGTATATAATGATTCTTGGCTTTGTTC
1 CATATACATATTGTTATAACAAAGTTAATGTATTTGCATGTATATAATGATTCTTGGCTTTGTTC
10036665 ATGTATTTTGGAATATATATTTTTATTATTCTAACATGTTTTGTACATATATTTTATGTAAAGTT
66 ATGTATTTTGGAATATATATTTTTATTATTCTAACATGTTTTGTACATATATTTTATGTAAAGTT
10036730 TAAATTATTTTTATACTTATTTATATTAATATACATATTATATATATATATTTCTAAACCTATAC
131 TAAATTATTTTTATACTTATTTATATTAATATACATATTATATATATATATTTCTAAACCTATAC
10036795 ATTTTACATTTACATTTTCTTTACACAAAAGCGTGTTTTTTTTAATCTATTGTTTAATTTATTAT
196 ATTTTACATTTACATTTTCTTTACACAAAAGCGTGTTTTTTTTAATCTATTGTTTAATTTATTAT
10036860 AAAATTAATTTAGCCCTATGAATATTATCTTTTCTATGTAATTTTACATGTAATTATTTTCAAAA
261 AAAATTAATTTAGCCCTATGAATATTATCTTTTCTATGTAATTTTACATGTAATTATTTTCAAAA
10036925 GTTATATATACATATTGATATTATTACTTTAATAGGTTTTCCTACTTACAACATTTTTGCGATAT
326 GTTATATATACATATTGATATTATTACTTTAATAGGTTTTCCTACTTACAACATTTTTGCGATAT
10036990 GAGTTATCAAGTATTTTCTTTATGTATGTATATGGAAAAATTTTAGAAACCTCATTTTTTTTTGC
391 GAGTTATCAAGTATTTTCTTTATGTATGTATATGGAAAAATTTTAGAAACCTCATTTTTTTTTGC
10037055 AATCACAAAATTATTATTTTTGGATGTTCC
456 AATCACAAAATTATTATTTTTGGATGTTCC
10037085 C
1 C
10037086 TTGTATTAAA
Statistics
Matches: 486, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
485 486 1.00
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (485 bp):
CATATACATATTGTTATAACAAAGTTAATGTATTTGCATGTATATAATGATTCTTGGCTTTGTTC
ATGTATTTTGGAATATATATTTTTATTATTCTAACATGTTTTGTACATATATTTTATGTAAAGTT
TAAATTATTTTTATACTTATTTATATTAATATACATATTATATATATATATTTCTAAACCTATAC
ATTTTACATTTACATTTTCTTTACACAAAAGCGTGTTTTTTTTAATCTATTGTTTAATTTATTAT
AAAATTAATTTAGCCCTATGAATATTATCTTTTCTATGTAATTTTACATGTAATTATTTTCAAAA
GTTATATATACATATTGATATTATTACTTTAATAGGTTTTCCTACTTACAACATTTTTGCGATAT
GAGTTATCAAGTATTTTCTTTATGTATGTATATGGAAAAATTTTAGAAACCTCATTTTTTTTTGC
AATCACAAAATTATTATTTTTGGATGTTCC
Found at i:10038011 original size:131 final size:131
Alignment explanation
Indices: 10037833--10038081 Score: 410
Period size: 131 Copynumber: 1.9 Consensus size: 131
10037823 TAATCATTCA
* * *
10037833 AAAATTCTTCAAAACGAAGATGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACATGT
* * *
10037898 TGGGTTGCAATTTCGTGTTTGCTCGAAA-TAATCGAATATCACTTCCAAATTTCACTCATGTCTT
66 TGGGTTGCAATTTCATGTTTGCTC-AAAGTAACCGAATATCACTTCAAAATTTCACTCATGTCTT
10037962 TT
130 TT
10037964 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACATGT
1 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACATGT
* *
10038029 TGGGTTGCAATTTCATGTTTGCTCAAAGTAACCGAGTATCCCTTCAAAATTTC
66 TGGGTTGCAATTTCATGTTTGCTCAAAGTAACCGAATATCACTTCAAAATTTC
10038082 CTTTCATATC
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
130 3 0.03
131 106 0.97
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.33
Consensus pattern (131 bp):
AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACATGT
TGGGTTGCAATTTCATGTTTGCTCAAAGTAACCGAATATCACTTCAAAATTTCACTCATGTCTTT
T
Found at i:10038474 original size:130 final size:130
Alignment explanation
Indices: 10038239--10038477 Score: 302
Period size: 130 Copynumber: 1.8 Consensus size: 130
10038229 AAAATACTTA
* * *
10038239 AAAACGAATGCGATGTTCAATATTTCGCGATTTGAGAATTGTGCCCTATCGTGCTGGGTTGCGCT
1 AAAACGAAGGCGATGTTCAATATTTCGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
* * * * *
10038304 TTTTCATTGGTTCGAAACAATTGAACATCCCTTTGGAATTTCACTCACATTTCCTAAAATCTTTC
66 TTTTCATTGGTCCAAAACAATCGAACATCCCTTCGAAATTTCACTCACATTTCCTAAAATCTTTC
* * * * *
10038369 AAAATGAAGGCGATGTTCGATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGTTGGGTTGCGCT
1 AAAACGAAGGCGATGTTCAATATTTCGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
* * *
10038434 TTCTT-ATTTGTCCAAAATAATCGAATATCTCC-TCGAAATTTCAC
66 TT-TTCATTGGTCCAAAACAATCGAACATC-CCTTCGAAATTTCAC
10038478 ACGTATTTTA
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
130 87 0.96
131 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (130 bp):
AAAACGAAGGCGATGTTCAATATTTCGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
TTTTCATTGGTCCAAAACAATCGAACATCCCTTCGAAATTTCACTCACATTTCCTAAAATCTTTC
Found at i:10039336 original size:31 final size:30
Alignment explanation
Indices: 10039301--10039393 Score: 82
Period size: 31 Copynumber: 3.1 Consensus size: 30
10039291 AGTATAAATG
10039301 TGAAAATATGAATGATTAAAGGGTATGGAAA
1 TGAAAAT-TGAATGATTAAAGGGTATGGAAA
** * *
10039332 TGAAAACTTGACCGATTATAGGGTAT-GATA
1 TGAAAA-TTGAATGATTAAAGGGTATGGAAA
* * *
10039362 TGCAAATGTGAATGA-TACAGGGTATGAAAA
1 TGAAAAT-TGAATGATTAAAGGGTATGGAAA
10039392 TG
1 TG
10039394 TAATAGTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
29 10 0.20
30 17 0.35
31 21 0.43
32 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.27
Consensus pattern (30 bp):
TGAAAATTGAATGATTAAAGGGTATGGAAA
Found at i:10046402 original size:18 final size:18
Alignment explanation
Indices: 10046376--10046430 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
10046366 CTTGGCCTAT
10046376 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
* *
10046394 TGCAATAACAGCAAACAG
1 TGCAGTAACAGTAAACAG
* *
10046412 TGCTGTAACAGTAAGCAG
1 TGCAGTAACAGTAAACAG
10046430 T
1 T
10046431 ATGCAAGTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:10049835 original size:21 final size:21
Alignment explanation
Indices: 10049805--10049844 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10049795 ATTGCTTTTA
*
10049805 ATGTCACGACACAGCCTTATG
1 ATGTCACGACACACCCTTATG
*
10049826 ATGTCGCGACACACCCTTA
1 ATGTCACGACACACCCTTA
10049845 AAGACACCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (21 bp):
ATGTCACGACACACCCTTATG
Found at i:10050348 original size:131 final size:131
Alignment explanation
Indices: 10050187--10050451 Score: 512
Period size: 131 Copynumber: 2.0 Consensus size: 131
10050177 TGTGATCAAA
*
10050187 CTCTGTGAGGATTCTACATTCATTTCCAATACAAACCAAAATTCTTCTAAACTTTATACTCTTGA
1 CTCTATGAGGATTCTACATTCATTTCCAATACAAACCAAAATTCTTCTAAACTTTATACTCTTGA
10050252 ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
66 ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
10050317 C
131 C
*
10050318 CTCTATGAGGATTCTACATTCATTTCCAATACAAACCAAACTTCTTCTAAACTTTATACTCTTGA
1 CTCTATGAGGATTCTACATTCATTTCCAATACAAACCAAAATTCTTCTAAACTTTATACTCTTGA
10050383 ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
66 ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
10050448 C
131 C
10050449 CTC
1 CTC
10050452 CTGTAGGGGA
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 132 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (131 bp):
CTCTATGAGGATTCTACATTCATTTCCAATACAAACCAAAATTCTTCTAAACTTTATACTCTTGA
ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
C
Found at i:10053161 original size:50 final size:50
Alignment explanation
Indices: 10053074--10053175 Score: 136
Period size: 50 Copynumber: 2.0 Consensus size: 50
10053064 CATGGTTTGA
* *
10053074 ATTTTGTCATTGTTTAAGTAATGAAAGCGTATGAA-TTTATACCTTAGAT
1 ATTTTATCATTGTTTAAGTAATGAAAGCGTATGAATTTTATACATTAGAT
* *
10053123 ATTTTATCATTGTTTGAAGTAATGAAAGTGTA-GAAATTTTATAGATTAGAT
1 ATTTTATCATTGTTT-AAGTAATGAAAGCGTATG-AATTTTATACATTAGAT
10053174 AT
1 AT
10053176 AAAGTATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
49 15 0.33
50 17 0.37
51 14 0.30
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (50 bp):
ATTTTATCATTGTTTAAGTAATGAAAGCGTATGAATTTTATACATTAGAT
Found at i:10053961 original size:15 final size:15
Alignment explanation
Indices: 10053916--10054023 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
10053906 CCAATATCTC
10053916 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
10053931 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
10053946 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
10053961 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
10053976 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
10053991 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
10054006 GATACCCATATCTTT
1 GATACCCATATCTTT
10054021 GAT
1 GAT
10054024 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:10054030 original size:30 final size:30
Alignment explanation
Indices: 10053906--10054029 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
10053896 TTTTATTATG
*
10053906 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
10053937 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10053967 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
10053997 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10054027 CCA
1 CCA
10054030 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:10057652 original size:30 final size:30
Alignment explanation
Indices: 10057602--10057725 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
10057592 TTTTATTATG
*
10057602 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
10057633 CCAATATTTGATACTCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10057663 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
10057693 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10057723 CCA
1 CCA
10057726 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:10059176 original size:18 final size:18
Alignment explanation
Indices: 10059147--10059199 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
10059137 GTTCAAAAAA
10059147 TTATACATTTTTTAATTAAT
1 TTATA-ATTTTTTAATT-AT
* *
10059167 TTAT-ATTTTTAAAATAT
1 TTATAATTTTTTAATTAT
*
10059184 TTTTAATTTTTTAATT
1 TTATAATTTTTTAATT
10059200 TATGTCCATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 5 0.19
18 18 0.67
20 4 0.15
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATAATTTTTTAATTAT
Found at i:10059977 original size:14 final size:15
Alignment explanation
Indices: 10059953--10059986 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10059943 TTTATATATT
10059953 TTTATAAATTTTGAA
1 TTTATAAATTTTGAA
10059968 TTTA-AAATTTTGAA
1 TTTATAAATTTTGAA
*
10059982 GTTAT
1 TTTAT
10059987 TTGTTGCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (15 bp):
TTTATAAATTTTGAA
Found at i:10060457 original size:12 final size:12
Alignment explanation
Indices: 10060442--10060467 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10060432 AAAATAATTA
10060442 TTTTATTATAAT
1 TTTTATTATAAT
10060454 TTTTATTATAAT
1 TTTTATTATAAT
10060466 TT
1 TT
10060468 AATTTCTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTATTATAAT
Found at i:10062144 original size:25 final size:26
Alignment explanation
Indices: 10062096--10062148 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
10062086 GTTCAAAGTG
10062096 GCGGGCAAAAAATATAAAAGAATTGA
1 GCGGGCAAAAAATATAAAAGAATTGA
10062122 GCGGGCAAAAAATATAAAA-AATTGA
1 GCGGGCAAAAAATATAAAAGAATTGA
10062147 GC
1 GC
10062149 ATCCATCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.53, C:0.09, G:0.23, T:0.15
Consensus pattern (26 bp):
GCGGGCAAAAAATATAAAAGAATTGA
Found at i:10066978 original size:2 final size:2
Alignment explanation
Indices: 10066973--10067129 Score: 314
Period size: 2 Copynumber: 78.5 Consensus size: 2
10066963 TACATATATA
10066973 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10067015 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10067057 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10067099 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
10067130 CTCAATTCAA
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 155 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:10071892 original size:15 final size:15
Alignment explanation
Indices: 10071868--10071898 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10071858 TTTCATAATT
*
10071868 TTTTTTAAATTTTTA
1 TTTTTAAAATTTTTA
10071883 TTTTTAAAATTTTTA
1 TTTTTAAAATTTTTA
10071898 T
1 T
10071899 AAATTACGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTAAAATTTTTA
Found at i:10072500 original size:30 final size:31
Alignment explanation
Indices: 10072453--10072528 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
10072443 TACTGGGGAA
*
10072453 ACTTAAA-AAAAATTTTTAACA-A-CCCAATG
1 ACTTAAATAAAAACTTTTAA-ATAGCCCAATG
**
10072482 ACTTAAATAAAAACTTTTAAATAGTTCAATG
1 ACTTAAATAAAAACTTTTAAATAGCCCAATG
*
10072513 ACTTAAATGAAAACTT
1 ACTTAAATAAAAACTT
10072529 ATCAATAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
29 8 0.20
30 12 0.30
31 20 0.50
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTTAAATAGCCCAATG
Found at i:10072512 original size:31 final size:31
Alignment explanation
Indices: 10072477--10072560 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
10072467 TTTAACAACC
10072477 CAATGACTTAAATAAAAACTTTTAAATAGTT
1 CAATGACTTAAATAAAAACTTTTAAATAGTT
* * *
10072508 CAATGACTTAAATGAAAACTTATCAATAGTT
1 CAATGACTTAAATAAAAACTTTTAAATAGTT
* * *
10072539 CAGTGA-TTAAATTATAACTTTT
1 CAATGACTTAAATAAAAACTTTT
10072561 TTTAGTTAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 13 0.28
31 33 0.72
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTTAAATAGTT
Found at i:10076301 original size:2 final size:2
Alignment explanation
Indices: 10076294--10076331 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10076284 AAACACCCTC
10076294 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10076332 TTCTTGGCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10081566 original size:21 final size:21
Alignment explanation
Indices: 10081540--10081579 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
10081530 CAATCTATTA
10081540 TGTTTGTAGGTTTATAAAAAT
1 TGTTTGTAGGTTTATAAAAAT
10081561 TGTTTGTAGGTTTATAAAA
1 TGTTTGTAGGTTTATAAAA
10081580 TATGTATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (21 bp):
TGTTTGTAGGTTTATAAAAAT
Found at i:10085245 original size:744 final size:744
Alignment explanation
Indices: 10083819--10086799 Score: 5692
Period size: 744 Copynumber: 4.0 Consensus size: 744
10083809 AGTTTCGTTA
10083819 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
1 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
10083884 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
66 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
10083949 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
131 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
10084014 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
196 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
* *
10084079 CTAAAAGGTAAAGATATAGATGCGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
261 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
10084144 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
326 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
* *
10084209 CTGAGTGGATAATGGACAATGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTTA
391 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
10084274 AATAAATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
456 AATAAATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
* *
10084339 ACAATAGTGGAATTCATAACCCAATAAAGGGTAAATGATATCCTCTCATCGGCATTACATGATAG
521 ACAATAGTGGAATTCATAACCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
* *
10084404 TTGATAAGTAAAACATGGCTATCAGTCATTTGTCTTTGTGGTAAATGATTAAATTACTATTTGAT
586 TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
10084469 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTATCATGAGATAAAATAGAATTATATTGGG
651 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTATCATGAGATAAAATAGAATTATATTGGG
10084534 AGAACAAATTTATCCTAAAGAGATTAAGG
716 AGAACAAATTTATCCTAAAGAGATTAAGG
10084563 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
1 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
10084628 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
66 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
10084693 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
131 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
* *
10084758 AGACTAATATGTCGTCATCATATCTAATGAGAGATACCTTGTTTTAGGTATCAAAGTGATAACTA
196 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
10084823 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
261 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
*
10084888 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTATGGCATACTTTAATC
326 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
*
10084953 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTTA
391 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
10085018 AATAAATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
456 AATAAATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
* *
10085083 ACAATAGTGGAATTCATAACCCAATAAAGGGTAAATGATATCCTCTCATCGGCATTACATGATAG
521 ACAATAGTGGAATTCATAACCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
* *
10085148 TTGATAAGTAAAACATGGCTATCAGTCATTTGTCTTTGTGGTAAATGATTAAATTACTATTTGAT
586 TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
10085213 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTATCATGAGATAAAATAGAATTATATTGGG
651 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTATCATGAGATAAAATAGAATTATATTGGG
10085278 AGAACAAATTTATCCTAAAGAGATTAAGG
716 AGAACAAATTTATCCTAAAGAGATTAAGG
10085307 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
1 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
10085372 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
66 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
10085437 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
131 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
10085502 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
196 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
10085567 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
261 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
*
10085632 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTTATAGTGTGGCATACTTTAATC
326 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
10085697 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
391 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
*
10085762 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
456 AATAAATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
*
10085827 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
521 ACAATAGTGGAATTCATAACCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
*
10085892 TTGATAAGTAAAACATGGCCATTAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
586 TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
10085957 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTATCATGAGATAAAATAGAATTATATTGGG
651 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTATCATGAGATAAAATAGAATTATATTGGG
10086022 AGAACAAATTTATCCTAAAGAGATTAAGG
716 AGAACAAATTTATCCTAAAGAGATTAAGG
10086051 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
1 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
10086116 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
66 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
10086181 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
131 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
10086246 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
196 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
10086311 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
261 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
* *
10086376 ATAGATTTTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACATTAATC
326 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
* *
10086441 CTGAGTGGATAATGGACAACGTATGCAGAACTATCTACGTTAGTGTAAATGAAAGCCTGAGTTCA
391 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
*
10086506 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
456 AATAAATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
*
10086571 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
521 ACAATAGTGGAATTCATAACCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
*
10086636 TTGATAAGTAAAACATGGCCATTAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
586 TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
* *
10086701 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTTGG
651 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTATCATGAGATAAAATAGAATTATATTGGG
*
10086766 AGAACAAATTTATCCTAAAAAGATTAAGG
716 AGAACAAATTTATCCTAAAGAGATTAAGG
10086795 ATATC
1 ATATC
10086800 CTATGAGGGT
Statistics
Matches: 2211, Mismatches: 26, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
744 2211 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (744 bp):
ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
AATAAATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
ACAATAGTGGAATTCATAACCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTATCATGAGATAAAATAGAATTATATTGGG
AGAACAAATTTATCCTAAAGAGATTAAGG
Found at i:10091218 original size:9 final size:9
Alignment explanation
Indices: 10091204--10091231 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10091194 TGATTTGGCA
10091204 TGTAGAAGT
1 TGTAGAAGT
10091213 TGTAGAAGT
1 TGTAGAAGT
10091222 TGTAGAAGT
1 TGTAGAAGT
10091231 T
1 T
10091232 AACTTTGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (9 bp):
TGTAGAAGT
Found at i:10092383 original size:47 final size:49
Alignment explanation
Indices: 10092272--10092384 Score: 142
Period size: 49 Copynumber: 2.3 Consensus size: 49
10092262 AGGTGGAAGA
* *
10092272 ATGTGGCAATTTATTTGCAAAACTGGTGGCTTTGTCCATAAATATTATT
1 ATGTGGCAGTTTATCTGCAAAACTGGTGGCTTTGTCCATAAATATTATT
* * *
10092321 ATGTGGCAGTATATCTGCAAAAGTGGTTGC-TTGTCCAT-AAT-TTGATT
1 ATGTGGCAGTTTATCTGCAAAACTGGTGGCTTTGTCCATAAATATT-ATT
*
10092368 ATGTGACAGTTTATCTG
1 ATGTGGCAGTTTATCTG
10092385 TATTACCATG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 2 0.04
47 21 0.38
48 8 0.14
49 25 0.45
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (49 bp):
ATGTGGCAGTTTATCTGCAAAACTGGTGGCTTTGTCCATAAATATTATT
Found at i:10094248 original size:15 final size:15
Alignment explanation
Indices: 10094212--10094249 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10094202 CATAAAGTCA
*
10094212 TTTCAACCCTTCACT
1 TTTCAAGCCTTCACT
10094227 TTTCAAGCCTTC-CAT
1 TTTCAAGCCTTCAC-T
10094242 TTTCAAGC
1 TTTCAAGC
10094250 ACCTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.21, C:0.34, G:0.05, T:0.39
Consensus pattern (15 bp):
TTTCAAGCCTTCACT
Found at i:10095896 original size:11 final size:11
Alignment explanation
Indices: 10095880--10095904 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10095870 ATCTTTATTA
10095880 TTTAGAACTTG
1 TTTAGAACTTG
10095891 TTTAGAACTTG
1 TTTAGAACTTG
10095902 TTT
1 TTT
10095905 TCAAAGTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTAGAACTTG
Found at i:10098495 original size:12 final size:12
Alignment explanation
Indices: 10098478--10098518 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
10098468 CTTCACACAC
10098478 CCGTGTGCTAGG
1 CCGTGTGCTAGG
10098490 CCGTGTGCTAGG
1 CCGTGTGCTAGG
* *
10098502 TCGTGTGCTAGT
1 CCGTGTGCTAGG
10098514 CCGTG
1 CCGTG
10098519 CCAAAACTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.07, C:0.24, G:0.39, T:0.29
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:10107855 original size:45 final size:45
Alignment explanation
Indices: 10107791--10107880 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
10107781 TTTACCATTG
10107791 CAAGACAATACATTGTTTGACGAGATTAACAATAATAACCCAGAT
1 CAAGACAATACATTGTTTGACGAGATTAACAATAATAACCCAGAT
* * *
10107836 CAAGATAATCCATTGTTTGATGAGATTAACAATAATAACCCAGAT
1 CAAGACAATACATTGTTTGACGAGATTAACAATAATAACCCAGAT
10107881 GGCTTACCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (45 bp):
CAAGACAATACATTGTTTGACGAGATTAACAATAATAACCCAGAT
Found at i:10109956 original size:36 final size:36
Alignment explanation
Indices: 10109916--10109986 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
10109906 TTGTGAACCA
* * *
10109916 TGTTAACTTGGTGAATTATATTATTATTGCGAACTG
1 TGTTAACTTAGTGAATTATATTAATATGGCGAACTG
* * *
10109952 TGTTAATTTAGTGATTTGTATTAATATGGCGAACT
1 TGTTAACTTAGTGAATTATATTAATATGGCGAACT
10109987 ATATTAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (36 bp):
TGTTAACTTAGTGAATTATATTAATATGGCGAACTG
Found at i:10110715 original size:34 final size:35
Alignment explanation
Indices: 10110643--10110740 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 35
10110633 TGTGGTGTGA
* * *
10110643 ATGAATTATTATATTGAATGAACTGTTA-TATTGT
1 ATGAACTATTATATTGAATGAATTGTTATTATTGC
10110677 ATGAACTATTATATTGAATGAATTGTTATTA-TGC
1 ATGAACTATTATATTGAATGAATTGTTATTATTGC
* *
10110711 ATGAACTGTTAT-TTTATATGAATTGTTATT
1 ATGAACTATTATATTGA-ATGAATTGTTATT
10110741 TTATGCGAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
33 3 0.05
34 52 0.91
35 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (35 bp):
ATGAACTATTATATTGAATGAATTGTTATTATTGC
Found at i:10110723 original size:17 final size:17
Alignment explanation
Indices: 10110640--10110722 Score: 96
Period size: 17 Copynumber: 4.9 Consensus size: 17
10110630 CGATGTGGTG
* *
10110640 TGAATGAATTATTATAT
1 TGAATGAACTGTTATAT
10110657 TGAATGAACTGTTATAT
1 TGAATGAACTGTTATAT
* *
10110674 TGTATGAACTATTATAT
1 TGAATGAACTGTTATAT
*
10110691 TGAATGAATTGTTAT-T
1 TGAATGAACTGTTATAT
*
10110707 ATGCATGAACTGTTAT
1 -TGAATGAACTGTTAT
10110723 TTTATATGAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
16 1 0.02
17 55 0.98
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.45
Consensus pattern (17 bp):
TGAATGAACTGTTATAT
Found at i:10110731 original size:17 final size:17
Alignment explanation
Indices: 10110660--10110744 Score: 73
Period size: 17 Copynumber: 5.0 Consensus size: 17
10110650 ATTATATTGA
* *
10110660 ATGAACTGTTATATTGT
1 ATGAACTGTTATTTTAT
* *
10110677 ATGAACTATTATATTGA-
1 ATGAACTGTTAT-TTTAT
* * **
10110694 ATGAATTGTTATTATGC
1 ATGAACTGTTATTTTAT
10110711 ATGAACTGTTATTTTAT
1 ATGAACTGTTATTTTAT
*
10110728 ATGAATTGTTATTTTAT
1 ATGAACTGTTATTTTAT
10110745 GCGAACTACC
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
16 1 0.02
17 50 0.96
18 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (17 bp):
ATGAACTGTTATTTTAT
Found at i:10114338 original size:20 final size:18
Alignment explanation
Indices: 10114296--10114339 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
10114286 TTTTAGGTTT
*
10114296 TTTGGGCTGGGCTATTGG
1 TTTGGGCTGGGCTATTAG
*
10114314 TTTGGGCTTGGGTTGATTAG
1 TTTGGGC-TGGGCT-ATTAG
10114334 TTTGGG
1 TTTGGG
10114340 TTTATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 5 0.23
20 10 0.45
ACGTcount: A:0.07, C:0.07, G:0.43, T:0.43
Consensus pattern (18 bp):
TTTGGGCTGGGCTATTAG
Found at i:10116174 original size:15 final size:15
Alignment explanation
Indices: 10116150--10116179 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10116140 AAAAATTAGA
10116150 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
10116165 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
10116180 ATTTAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:10116479 original size:126 final size:126
Alignment explanation
Indices: 10116268--10116510 Score: 398
Period size: 126 Copynumber: 1.9 Consensus size: 126
10116258 TTCTACGTGG
* *
10116268 ACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAAATAGTG
1 ACGCTCTTTTGCTACAGTAATCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAAATAATG
* *
10116333 TCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTATTGAAAGAAGCTTCCATATGA
66 TCAAAAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTAATGAAAGAAGCTTCCATATGA
*
10116394 ACGCTCTTTTGCTACAGTAATCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAAATAATG
1 ACGCTCTTTTGCTACAGTAATCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAAATAAT-
* * *
10116459 GT-AAAAACACTTCAAGCAGGATGCATTTTCAGCAAAATTAATGGAAGAAGCT
65 GTCAAAAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTAATGAAAGAAGCT
10116511 ATAAATTAAG
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
126 106 0.98
127 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (126 bp):
ACGCTCTTTTGCTACAGTAATCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAAATAATG
TCAAAAACACTTCAAGCAGGATGCATTGTCAGCAAAAGTAATGAAAGAAGCTTCCATATGA
Found at i:10119865 original size:116 final size:116
Alignment explanation
Indices: 10119689--10121231 Score: 2996
Period size: 116 Copynumber: 13.3 Consensus size: 116
10119679 TTTATATTTT
* * **
10119689 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTTATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
10119754 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
10119805 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
10119870 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
10119921 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
10119986 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
10120037 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
10120102 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
10120153 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
10120218 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
10120269 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
10120334 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
10120385 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTCCCATTTTTTTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
10120450 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
10120501 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
10120566 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
10120617 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
10120682 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
10120733 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
10120798 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
10120849 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
10120914 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
10120965 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
10121030 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
10121081 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
10121146 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
10121197 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
10121232 TGTACAAATA
Statistics
Matches: 1413, Mismatches: 14, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 1413 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:10121642 original size:18 final size:18
Alignment explanation
Indices: 10121616--10121655 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10121606 GACTAGACAA
*
10121616 AGGAAACATATAAGGGCT
1 AGGAAACATAAAAGGGCT
*
10121634 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
10121652 AGGA
1 AGGA
10121656 GGCATCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.30, T:0.15
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:10121750 original size:30 final size:30
Alignment explanation
Indices: 10121705--10121761 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10121695 TGAACTGTTG
10121705 GGCCCGGTGACTGTGTAGGTC-CTGTTGCTA
1 GGCCCGGTGACTGTGTAGG-CACTGTTGCTA
* *
10121735 GGCCGGGTGATTGTGTAGGCACTGTTG
1 GGCCCGGTGACTGTGTAGGCACTGTTG
10121762 ATGGGCCTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.11, C:0.19, G:0.40, T:0.30
Consensus pattern (30 bp):
GGCCCGGTGACTGTGTAGGCACTGTTGCTA
Found at i:10122276 original size:7 final size:7
Alignment explanation
Indices: 10122266--10122292 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10122256 GTTAAATAAA
10122266 AAATACT
1 AAATACT
10122273 AAATACT
1 AAATACT
10122280 AAATACT
1 AAATACT
10122287 AAATAC
1 AAATAC
10122293 GAACCACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:10122277 original size:14 final size:14
Alignment explanation
Indices: 10122258--10122291 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10122248 AAATATTAGT
10122258 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
10122272 TAAATACTAAATAC
1 TAAATAAAAAATAC
10122286 TAAATA
1 TAAATA
10122292 CGAACCACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:10123414 original size:15 final size:15
Alignment explanation
Indices: 10123394--10123424 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10123384 TTTTTATTTT
10123394 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
10123409 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
10123424 A
1 A
10123425 GCTTTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:10123470 original size:22 final size:22
Alignment explanation
Indices: 10123440--10123483 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10123430 TTTGAAAAAA
**
10123440 TTAACGAGAGTTTTGAGAAGAAT
1 TTAACGAGAAATTTGAG-AGAAT
10123463 TTAA-GAGAAATTTGAGAGAAT
1 TTAACGAGAAATTTGAGAGAAT
10123484 ATTGAAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (22 bp):
TTAACGAGAAATTTGAGAGAAT
Found at i:10128503 original size:28 final size:27
Alignment explanation
Indices: 10128451--10128503 Score: 63
Period size: 26 Copynumber: 1.9 Consensus size: 27
10128441 TTTTGAATAG
* *
10128451 TTTTGAATAAAATTAGAATATTTTAAA
1 TTTTGAATAAAATAAGAATAATTTAAA
10128478 TTTT-AATAAAATGAAGAAATAATTTA
1 TTTTGAATAAAAT-AAG-AATAATTTA
10128504 TTTCAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 8 0.36
27 6 0.27
28 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (27 bp):
TTTTGAATAAAATAAGAATAATTTAAA
Found at i:10128654 original size:6 final size:6
Alignment explanation
Indices: 10128643--10128673 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
10128633 CCATAATGAT
10128643 TAATTA TAATTA TAATTA TAATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA TAATTA T
10128674 TTAGATGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:10130609 original size:14 final size:14
Alignment explanation
Indices: 10130590--10130619 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10130580 GTTTTATCCT
10130590 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
10130604 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
10130618 TT
1 TT
10130620 GTGAAGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:10143761 original size:22 final size:20
Alignment explanation
Indices: 10143736--10143795 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 20
10143726 TTGTTTGTAG
10143736 GAAAAAACTTAAATTTTTACAT
1 GAAAAAACTT--ATTTTTACAT
*
10143758 GAAAAAACTTGTTTTTACAT
1 GAAAAAACTTATTTTTACAT
*
10143778 GGAAAATAATTTATTTTT
1 -GAAAA-AACTTATTTTT
10143796 TAATTTCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 9 0.27
21 5 0.15
22 19 0.58
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (20 bp):
GAAAAAACTTATTTTTACAT
Found at i:10144056 original size:22 final size:22
Alignment explanation
Indices: 10143976--10144057 Score: 59
Period size: 22 Copynumber: 4.0 Consensus size: 22
10143966 AAAAGAAAAA
* *
10143976 ACTTGAGGTTTTACAAGGAATT
1 ACTTGAGTTTTTACAATGAATT
*
10143998 ACATGAGTTTTTAC-ATGAA--
1 ACTTGAGTTTTTACAATGAATT
* * **
10144017 AATT-A--TTTTCCAGCGAATT
1 ACTTGAGTTTTTACAATGAATT
10144036 ACTTGAGTTTTTACAATGAATT
1 ACTTGAGTTTTTACAATGAATT
10144058 GAGTTGAAAG
Statistics
Matches: 42, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
16 5 0.12
17 3 0.07
18 1 0.02
19 5 0.12
20 1 0.02
21 4 0.10
22 23 0.55
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (22 bp):
ACTTGAGTTTTTACAATGAATT
Found at i:10149518 original size:17 final size:17
Alignment explanation
Indices: 10149478--10149525 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
10149468 CATTGATATG
*
10149478 CATATAATATATATACA
1 CATATAATATATACACA
*
10149495 CACATAATATATACACA
1 CATATAATATATACACA
10149512 -ATTATAATAATATA
1 CA-TATAAT-ATATA
10149526 AAATTAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 20 0.77
18 5 0.19
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (17 bp):
CATATAATATATACACA
Found at i:10152210 original size:15 final size:16
Alignment explanation
Indices: 10152170--10152211 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
10152160 CTCCCCTCTC
**
10152170 TTTAAAATTTTTAAAA
1 TTTAAAATTACTAAAA
*
10152186 TTTTAAATTACTAAAA
1 TTTAAAATTACTAAAA
10152202 -TTAAAATTAC
1 TTTAAAATTAC
10152212 ACTTCGATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAAAATTACTAAAA
Found at i:10158333 original size:7 final size:7
Alignment explanation
Indices: 10158323--10158352 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
10158313 TTCTCTTTTC
10158323 TTTTCTT
1 TTTTCTT
10158330 TTTTCTT
1 TTTTCTT
10158337 TTTTCTT
1 TTTTCTT
*
10158344 TTTTATT
1 TTTTCTT
10158351 TT
1 TT
10158353 CGTCTCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTCTT
Found at i:10162900 original size:121 final size:121
Alignment explanation
Indices: 10162698--10162915 Score: 411
Period size: 121 Copynumber: 1.8 Consensus size: 121
10162688 TGGTGTTTTG
10162698 CTGATGAGAATGCAGAAAAATAAAGAGAAATATGAATAATTCCACTTTAGTCCTAGCTTTATTAA
1 CTGATGAGAATGCAGAAAAATAAAGAGAAATATGAATAATTCCACTTTAGTCCTAGCTTTATTAA
10162763 GTAAATTTTGCAATTTTCTAATTTTGCCCTTATTTTCTTGGTGATTTCATGCTCTT
66 GTAAATTTTGCAATTTTCTAATTTTGCCCTTATTTTCTTGGTGATTTCATGCTCTT
*
10162819 CTGATGAGAATGCAGAAAAATAAAGAGAAATCT-AGATAATTCCACTTTAGTCCTAGCTTTATTA
1 CTGATGAGAATGCAGAAAAATAAAGAGAAATATGA-ATAATTCCACTTTAGTCCTAGCTTTATTA
10162883 AGTAAATTTTGCAATTTTCTAATTTTGCCCTTA
65 AGTAAATTTTGCAATTTTCTAATTTTGCCCTTA
10162916 ATTCCCCTTA
Statistics
Matches: 95, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
120 1 0.01
121 94 0.99
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (121 bp):
CTGATGAGAATGCAGAAAAATAAAGAGAAATATGAATAATTCCACTTTAGTCCTAGCTTTATTAA
GTAAATTTTGCAATTTTCTAATTTTGCCCTTATTTTCTTGGTGATTTCATGCTCTT
Found at i:10165263 original size:18 final size:18
Alignment explanation
Indices: 10165225--10165276 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
10165215 TGGTTCAAGC
* *
10165225 TTTCAATCTCATATCTCAA
1 TTTCAAT-TCACATTTCAA
10165244 TTTCAATTCACATTTCAA
1 TTTCAATTCACATTTCAA
*
10165262 TTCTTAATTC-CATTT
1 TT-TCAATTCACATTT
10165277 TTTTTTCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTCAATTCACATTTCAA
Found at i:10166501 original size:18 final size:17
Alignment explanation
Indices: 10166402--10166510 Score: 56
Period size: 16 Copynumber: 6.7 Consensus size: 17
10166392 ACTAATTTCT
*
10166402 TTTCAA-TCAATATACA
1 TTTCAATTCAATTTACA
* *
10166418 TTTCAAAT-AA-TCACA
1 TTTCAATTCAATTTACA
*
10166433 -TTCAATTCAATTT-GA
1 TTTCAATTCAATTTACA
* *
10166448 -TTCAATTCCAA-TCACT
1 TTTCAATT-CAATTTACA
10166464 TTTCCAA-TCAATTTACA
1 TTT-CAATTCAATTTACA
*
10166481 TTTTAATTTCAATTT-CAA
1 TTTCAA-TTCAATTTAC-A
10166499 TTTCAATTCAAT
1 TTTCAATTCAAT
10166511 AACAATTCAC
Statistics
Matches: 70, Mismatches: 12, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
14 6 0.09
15 14 0.20
16 17 0.24
17 17 0.24
18 16 0.23
ACGTcount: A:0.37, C:0.19, G:0.01, T:0.43
Consensus pattern (17 bp):
TTTCAATTCAATTTACA
Found at i:10171967 original size:11 final size:11
Alignment explanation
Indices: 10171953--10171993 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
10171943 TGTTTTCTCC
10171953 CTATTTTGCTA
1 CTATTTTGCTA
*
10171964 CTATTTTACTA
1 CTATTTTGCTA
* *
10171975 TTATGTTGCTA
1 CTATTTTGCTA
10171986 CTATTTTG
1 CTATTTTG
10171994 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:10172092 original size:30 final size:30
Alignment explanation
Indices: 10172033--10172094 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
10172023 TATTTTATTA
* *
10172033 TTAATTTTTTTATTATTTTAAAGATATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
10172063 TTAATTTTGTTATTATTTTAGAA-ACATTTG
1 TTAATTTTGTTATTATTTTA-AAGACATTTG
10172093 TT
1 TT
10172095 TGTTAAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:10172235 original size:12 final size:12
Alignment explanation
Indices: 10172214--10172247 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10172204 ATATTATTTT
*
10172214 AAAATTATATAA
1 AAAATAATATAA
10172226 AAAATAATATAA
1 AAAATAATATAA
*
10172238 AAATTAATAT
1 AAAATAATAT
10172248 GAGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:10175429 original size:32 final size:32
Alignment explanation
Indices: 10175388--10175449 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
10175378 ATTAGAGTGG
10175388 CTAAATTGAGAAAAAAAATAGAGTAACAAAGA
1 CTAAATTGAGAAAAAAAATAGAGTAACAAAGA
*
10175420 CTAAATTGAGAAAAAAATTAGAGTAACAAA
1 CTAAATTGAGAAAAAAAATAGAGTAACAAA
10175450 AATAGGACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.61, C:0.06, G:0.15, T:0.18
Consensus pattern (32 bp):
CTAAATTGAGAAAAAAAATAGAGTAACAAAGA
Found at i:10179611 original size:7 final size:7
Alignment explanation
Indices: 10179595--10179705 Score: 73
Period size: 7 Copynumber: 15.9 Consensus size: 7
10179585 AGGGTGTAAG
10179595 GGTTTAA
1 GGTTTAA
*
10179602 GGTTTCA
1 GGTTTAA
*
10179609 GGTTTTA
1 GGTTTAA
*
10179616 GGTTTAT
1 GGTTTAA
*
10179623 GGTTTAG
1 GGTTTAA
10179630 GGTTTAA
1 GGTTTAA
**
10179637 ATTTTAA
1 GGTTTAA
*
10179644 GGTTTGA
1 GGTTTAA
* *
10179651 GTTTTGA
1 GGTTTAA
* *
10179658 TGTTTGA
1 GGTTTAA
10179665 GGTTTAA
1 GGTTTAA
10179672 GGTTT-A
1 GGTTTAA
*
10179678 GGCTTCAA
1 GG-TTTAA
10179686 GGTTT-A
1 GGTTTAA
*
10179692 GCCTTTAA
1 G-GTTTAA
10179700 GGTTTA
1 GGTTTA
10179706 GGGTATAAGA
Statistics
Matches: 80, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
6 5 0.06
7 70 0.88
8 5 0.06
ACGTcount: A:0.21, C:0.05, G:0.28, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:10179867 original size:7 final size:7
Alignment explanation
Indices: 10179837--10179898 Score: 52
Period size: 7 Copynumber: 8.9 Consensus size: 7
10179827 GTGCATAGAA
*
10179837 TTAGGGA
1 TTAGGGT
*
10179844 TTATGGT
1 TTAGGGT
**
10179851 TTAGAAT
1 TTAGGGT
10179858 TTAGGGT
1 TTAGGGT
*
10179865 TTAAGGT
1 TTAGGGT
10179872 TTAGGGT
1 TTAGGGT
**
10179879 TTAGTCT
1 TTAGGGT
*
10179886 ATAGGGT
1 TTAGGGT
10179893 TTAGGG
1 TTAGGG
10179899 GTAAAATTTG
Statistics
Matches: 40, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.23, C:0.02, G:0.34, T:0.42
Consensus pattern (7 bp):
TTAGGGT
Found at i:10179882 original size:21 final size:21
Alignment explanation
Indices: 10179832--10179875 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10179822 TTAGGGTGCA
*
10179832 TAGAA-TTAGGGATTATGGTT
1 TAGAATTTAGGGATTAAGGTT
*
10179852 TAGAATTTAGGGTTTAAGGTT
1 TAGAATTTAGGGATTAAGGTT
10179873 TAG
1 TAG
10179876 GGTTTAGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (21 bp):
TAGAATTTAGGGATTAAGGTT
Found at i:10181117 original size:16 final size:15
Alignment explanation
Indices: 10181096--10181129 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10181086 GGAACGCAGA
*
10181096 TTTCTGTTGTTAAGGC
1 TTTCTGTTGCTAA-GC
10181112 TTTCTGTTGCTAAGC
1 TTTCTGTTGCTAAGC
10181127 TTT
1 TTT
10181130 TGATTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.12, C:0.15, G:0.21, T:0.53
Consensus pattern (15 bp):
TTTCTGTTGCTAAGC
Found at i:10182782 original size:24 final size:24
Alignment explanation
Indices: 10182752--10182804 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
10182742 CTATGTTATA
10182752 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
**
10182776 ATATTTGTGTCTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
10182800 ATATT
1 ATATT
10182805 ATAAAACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:10183808 original size:40 final size:40
Alignment explanation
Indices: 10183753--10183837 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
10183743 AAATTAAAAT
10183753 TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
1 TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
10183793 TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
1 TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
10183833 TAAAA
1 TAAAA
10183838 AAGTAAATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (40 bp):
TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
Found at i:10183885 original size:18 final size:20
Alignment explanation
Indices: 10183848--10183886 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10183838 AAGTAAATTT
10183848 AATTCATAAAAATATATATA
1 AATTCATAAAAATATATATA
*
10183868 AATTCA-AAACATAT-TATA
1 AATTCATAAAAATATATATA
10183886 A
1 A
10183887 CCAAAACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTCATAAAAATATATATA
Found at i:10184018 original size:9 final size:9
Alignment explanation
Indices: 10184000--10184076 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
10183990 GTTTAAATTT
10184000 CATAACTTA
1 CATAACTTA
*
10184009 CATAATTTA
1 CATAACTTA
* *
10184018 CATACCTCA
1 CATAACTTA
* *
10184027 CATACCTCA
1 CATAACTTA
10184036 CATAACTTA
1 CATAACTTA
*
10184045 CATAACTCA
1 CATAACTTA
10184054 CATAACTTA
1 CATAACTTA
10184063 CATAACTTA
1 CATAACTTA
10184072 CATAA
1 CATAA
10184077 TACATAAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (9 bp):
CATAACTTA
Found at i:10189176 original size:13 final size:14
Alignment explanation
Indices: 10189160--10189188 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10189150 TTTTAAATAT
10189160 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
10189173 TTATAATGGTTTAA
1 TTATAATGGTTTAA
10189187 TT
1 TT
10189189 CGTTGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:10192587 original size:10 final size:10
Alignment explanation
Indices: 10192552--10192593 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
10192542 ATTTTTTAAA
10192552 TTTTA-AATT
1 TTTTATAATT
* *
10192561 TCTTATAAAT
1 TTTTATAATT
*
10192571 TTCTATAATT
1 TTTTATAATT
10192581 TTTTATAATT
1 TTTTATAATT
10192591 TTT
1 TTT
10192594 ATTTAGTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:10194995 original size:22 final size:22
Alignment explanation
Indices: 10194969--10195025 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
10194959 AAAAAATACA
*
10194969 TAAAATTATTAAATGT-TAATTT
1 TAAAATTATTAAATATAT-ATTT
*
10194991 TAAAATAATATAAATATATATTT
1 TAAAATTAT-TAAATATATATTT
10195014 TAAAA-TATTAAA
1 TAAAATTATTAAA
10195026 AAATAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 4 0.13
22 10 0.33
23 15 0.50
24 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TAAAATTATTAAATATATATTT
Found at i:10205681 original size:15 final size:16
Alignment explanation
Indices: 10205651--10205697 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
10205641 TAGATACTTT
10205651 TTTTAAAAATTAATAA
1 TTTTAAAAATTAATAA
*
10205667 TTTTAGAAA-TAATAA
1 TTTTAAAAATTAATAA
*
10205682 ATTTAACAAATGTAAT
1 TTTTAA-AAAT-TAAT
10205698 TCTTCTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 11 0.44
18 4 0.16
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (16 bp):
TTTTAAAAATTAATAA
Found at i:10210419 original size:18 final size:19
Alignment explanation
Indices: 10210396--10210431 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10210386 TTATTTTACC
10210396 TAATTAA-TATAAAAATAA
1 TAATTAATTATAAAAATAA
10210414 TAATTAATTATAAAAATA
1 TAATTAATTATAAAAATA
10210432 GTATGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAATTAATTATAAAAATAA
Found at i:10211957 original size:27 final size:26
Alignment explanation
Indices: 10211892--10211957 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
10211882 TTATGTATAA
* **
10211892 GAAATTTTAAAATAGGTAATATAGGC
1 GAAAGTTTAAAATAAATAATATAGGC
*
10211918 GAAAGTTTGAAATAAATAATATACGG-
1 GAAAGTTTAAAATAAATAATATA-GGC
10211944 GAAAAGTTTAAAAT
1 G-AAAGTTTAAAAT
10211958 GAAAAAGAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 20 0.61
27 13 0.39
ACGTcount: A:0.50, C:0.03, G:0.18, T:0.29
Consensus pattern (26 bp):
GAAAGTTTAAAATAAATAATATAGGC
Found at i:10211989 original size:26 final size:26
Alignment explanation
Indices: 10211960--10212043 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
10211950 TTTAAAATGA
*
10211960 AAAAGAGTTTAAAATGAATAATATGT
1 AAAAGAGTTTAAAATAAATAATATGT
* * * *
10211986 AAAATAATTTAAGATAAATAATATAT
1 AAAAGAGTTTAAAATAAATAATATGT
*
10212012 ATAAATGAGTTTAAAATAAATATTATGT
1 A-AAA-GAGTTTAAAATAAATAATATGT
10212040 AAAA
1 AAAA
10212044 AGAAACTTAA
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
26 22 0.48
27 6 0.13
28 18 0.39
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (26 bp):
AAAAGAGTTTAAAATAAATAATATGT
Found at i:10216410 original size:46 final size:46
Alignment explanation
Indices: 10216359--10216622 Score: 449
Period size: 46 Copynumber: 5.7 Consensus size: 46
10216349 AGTGTGCTCT
10216359 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
10216405 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
10216451 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
10216497 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
***
10216543 CTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
10216589 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
10216623 CACTATGGTA
Statistics
Matches: 209, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 1 0.00
46 208 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:10218620 original size:10 final size:10
Alignment explanation
Indices: 10218605--10218654 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
10218595 TAAATTTAGG
10218605 ATTTATTTTT
1 ATTTATTTTT
*
10218615 ATTTATCTTT
1 ATTTATTTTT
*
10218625 ATTTA-TCTT
1 ATTTATTTTT
*
10218634 ATTTTATTTGT
1 A-TTTATTTTT
10218645 ATTTATTTTT
1 ATTTATTTTT
10218655 TAGAATTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 3 0.09
10 26 0.81
11 3 0.09
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:10224843 original size:21 final size:20
Alignment explanation
Indices: 10224822--10224876 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 20
10224812 CCAATTTTTA
*
10224822 TTATTCTTTATTA--TTATT
1 TTATTATTTATTACTTTATT
10224840 TTATTATTTATTACTTTATT
1 TTATTATTTATTACTTTATT
10224860 TTA-T-TTTATTA-TTTATT
1 TTATTATTTATTACTTTATT
10224877 ACTTTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.18
18 19 0.56
19 1 0.03
20 8 0.24
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATTATTTATTACTTTATT
Found at i:10224845 original size:8 final size:8
Alignment explanation
Indices: 10224832--10224884 Score: 56
Period size: 8 Copynumber: 6.6 Consensus size: 8
10224822 TTATTCTTTA
10224832 TTATTATT
1 TTATTATT
10224840 TTATTA-T
1 TTATTATT
10224847 TTATTACTT
1 TTATTA-TT
*
10224856 TATTTTATT
1 T-TATTATT
10224865 TTATTA-T
1 TTATTATT
*
10224872 TTATTACT
1 TTATTATT
10224880 TTATT
1 TTATT
10224885 TTGTTTGGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
7 14 0.36
8 16 0.41
9 5 0.13
10 4 0.10
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (8 bp):
TTATTATT
Found at i:10224850 original size:25 final size:25
Alignment explanation
Indices: 10224822--10224886 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
10224812 CCAATTTTTA
10224822 TTATT-CTTTATTATTATTTTATTAT
1 TTATTACTTTATT-TTATTTTATTAT
10224847 TTATTACTTTATTTTATTTTATTAT
1 TTATTACTTTATTTTATTTTATTAT
10224872 TTATTACTTTATTTT
1 TTATTACTTTATTTT
10224887 GTTTGGGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 32 0.82
26 7 0.18
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (25 bp):
TTATTACTTTATTTTATTTTATTAT
Found at i:10224858 original size:12 final size:12
Alignment explanation
Indices: 10224843--10224885 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
10224833 TATTATTTTA
10224843 TTATTTATTACT
1 TTATTTATTACT
*
10224855 TTATTTTATT-TT
1 TTA-TTTATTACT
10224867 ATTATTTATTACT
1 -TTATTTATTACT
10224880 TTATTT
1 TTATTT
10224886 TGTTTGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTATTACT
Found at i:10224859 original size:33 final size:33
Alignment explanation
Indices: 10224822--10224884 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
10224812 CCAATTTTTA
10224822 TTATTCTT-TATTATTATTTTATTA-TTTATTACT
1 TTATT-TTATATTATTA-TTTATTACTTTATTACT
*
10224855 TTATTTTATTTTATTATTTATTACTTTATT
1 TTATTTTATATTATTATTTATTACTTTATT
10224885 TTGTTTGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (33 bp):
TTATTTTATATTATTATTTATTACTTTATTACT
Found at i:10226165 original size:96 final size:96
Alignment explanation
Indices: 10226001--10226250 Score: 446
Period size: 96 Copynumber: 2.6 Consensus size: 96
10225991 ATTTTTAAGA
* * **
10226001 TATGTTGGGCTGAGCAACCAGGGTAAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAACGGTTCG
1 TATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAACGGTTCG
10226066 ATATGTTCTTAAGAAAAATAAAAATTAGGAG
66 ATATGTTCTTAAGAAAAATAAAAATTAGGAG
10226097 TATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAACGGTTCG
1 TATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAACGGTTCG
10226162 ATATGTTCTTAAGAAAAATAAAAATTAGGAG
66 ATATGTTCTTAAGAAAAATAAAAATTAGGAG
* *
10226193 TATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATATCCCTTCGCGTCAAA
1 TATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAA
10226251 ATATTCAATA
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 148 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (96 bp):
TATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAACGGTTCG
ATATGTTCTTAAGAAAAATAAAAATTAGGAG
Found at i:10228783 original size:21 final size:21
Alignment explanation
Indices: 10228742--10228783 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10228732 ATATTGCCAT
* *
10228742 GTATCGATACTAGATACCAAA
1 GTATCGATACTAGAAAACAAA
10228763 GTATCGATACTTA-AAAACAAA
1 GTATCGATAC-TAGAAAACAAA
10228784 TATGGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.24
Consensus pattern (21 bp):
GTATCGATACTAGAAAACAAA
Done.