Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 29 of 66
Found at i:9923579 original size:22 final size:22
Alignment explanation
Indices: 9923540--9923583 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9923530 AAAGGAATGA
** *
9923540 CTTTGGCTACTGATTTTTGAAG
1 CTTTGGCTACCAAGTTTTGAAG
9923562 CTTTGGCTACCAAGTTTTGAAG
1 CTTTGGCTACCAAGTTTTGAAG
9923584 GATAAAGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (22 bp):
CTTTGGCTACCAAGTTTTGAAG
Found at i:9923822 original size:24 final size:25
Alignment explanation
Indices: 9923765--9923834 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
9923755 ACAAAAAAAA
* *
9923765 AAAAGAGTGGGCATAGTCCAATAAG
1 AAAAGAATGGGCATAGCCCAATAAG
*
9923790 AAAAGAATGGGCATGGCCCAAT-AG
1 AAAAGAATGGGCATAGCCCAATAAG
* *
9923814 -AAAGAAATGGGAAGAGCCCAA
1 AAAAG-AATGGGCATAGCCCAA
9923835 GGAAAGGGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 4 0.11
24 15 0.39
25 19 0.50
ACGTcount: A:0.46, C:0.14, G:0.29, T:0.11
Consensus pattern (25 bp):
AAAAGAATGGGCATAGCCCAATAAG
Found at i:9924892 original size:42 final size:42
Alignment explanation
Indices: 9924831--9924953 Score: 176
Period size: 42 Copynumber: 2.9 Consensus size: 42
9924821 ATGATAATTA
*
9924831 TGACCCAGCCATG-AGCGGTGTAGGAGTGCACATGAGCTGTGC
1 TGACCCAGCCATGTA-CGGTGTAAGAGTGCACATGAGCTGTGC
9924873 TGACCCAGCCATGTACGGTGTAAGAGTGCACATGAGCTGTGC
1 TGACCCAGCCATGTACGGTGTAAGAGTGCACATGAGCTGTGC
* * ** *
9924915 TGACCCGGCTATGTGTGGTGTATGAGTGCACATGAGCTG
1 TGACCCAGCCATGTACGGTGTAAGAGTGCACATGAGCTG
9924954 AGACAAAGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
42 73 0.99
43 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.23
Consensus pattern (42 bp):
TGACCCAGCCATGTACGGTGTAAGAGTGCACATGAGCTGTGC
Found at i:9925061 original size:2 final size:2
Alignment explanation
Indices: 9924984--9925042 Score: 82
Period size: 2 Copynumber: 29.0 Consensus size: 2
9924974 GGCCGGTGGT
* *
9924984 TA TA TA TA TG TT TA TA TA TGA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
*
9925027 TA TA TA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA
9925043 GAGGTTTGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
2 49 0.96
3 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9931398 original size:43 final size:43
Alignment explanation
Indices: 9931350--9931466 Score: 155
Period size: 43 Copynumber: 2.7 Consensus size: 43
9931340 CACCATCCTA
* ** *
9931350 TCATCACC-AGCTCATGCGCACTCCCTACTCGCACATGGCTGGG
1 TCATCACCGA-CTTATGCGCACTCCCTACTCGCACATAACCGGG
*
9931393 TCATCACCGATTTATGCGCACTCCCTACTCGCACATAACCGGG
1 TCATCACCGACTTATGCGCACTCCCTACTCGCACATAACCGGG
* *
9931436 TCATCATCGACTTGTGCGCACTCCCTACTCG
1 TCATCACCGACTTATGCGCACTCCCTACTCG
9931467 TAGATAGCCG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
43 64 0.98
44 1 0.02
ACGTcount: A:0.20, C:0.38, G:0.18, T:0.24
Consensus pattern (43 bp):
TCATCACCGACTTATGCGCACTCCCTACTCGCACATAACCGGG
Found at i:9934599 original size:20 final size:19
Alignment explanation
Indices: 9934554--9934600 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
9934544 TGAGAGGAAG
9934554 GAGAA-GAAGAAGTTGCTA
1 GAGAATGAAGAAGTTGCTA
*
9934572 GAGAAATGAAGAAGTTGCTG
1 GAG-AATGAAGAAGTTGCTA
9934592 GAAGAATGA
1 G-AGAATGA
9934601 GATTTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 2 0.08
20 18 0.72
21 2 0.08
ACGTcount: A:0.45, C:0.04, G:0.34, T:0.17
Consensus pattern (19 bp):
GAGAATGAAGAAGTTGCTA
Found at i:9935618 original size:16 final size:16
Alignment explanation
Indices: 9935593--9935624 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9935583 ATAAAAATAT
9935593 CAAAAAAATCAAAATC
1 CAAAAAAATCAAAATC
*
9935609 CAAAAGAATCAAAATC
1 CAAAAAAATCAAAATC
9935625 TAAATTTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.19, G:0.03, T:0.12
Consensus pattern (16 bp):
CAAAAAAATCAAAATC
Found at i:9937611 original size:20 final size:21
Alignment explanation
Indices: 9937587--9937641 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
9937577 GGTAGATGAG
*
9937587 CAGATCTATCTATAAATAGCT
1 CAGATCTATCGATAAATAGCT
* *
9937608 -AGATATATCGATAAATGGCT
1 CAGATCTATCGATAAATAGCT
*
9937628 CACATCTATCGATA
1 CAGATCTATCGATA
9937642 GACGACAATC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (21 bp):
CAGATCTATCGATAAATAGCT
Found at i:9952110 original size:5 final size:5
Alignment explanation
Indices: 9952102--9952127 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9952092 CTATCAAACC
9952102 TAACT TAACT TAACT TAACT TAACT T
1 TAACT TAACT TAACT TAACT TAACT T
9952128 TGGCCACACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (5 bp):
TAACT
Found at i:9952166 original size:11 final size:11
Alignment explanation
Indices: 9952150--9952177 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9952140 CACTGTAGTT
9952150 TTTAAAACAAC
1 TTTAAAACAAC
9952161 TTTAAAACAAC
1 TTTAAAACAAC
9952172 TTTAAA
1 TTTAAA
9952178 CCCAAAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:9952196 original size:22 final size:22
Alignment explanation
Indices: 9952171--9952214 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9952161 TTTAAAACAA
*
9952171 CTTTAAACCCAAAAGCTCTAAT
1 CTTTAAAACCAAAAGCTCTAAT
9952193 CTTTAAAACCAAAAGCTCTAAT
1 CTTTAAAACCAAAAGCTCTAAT
9952215 ACCAATGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.27
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTAAT
Found at i:9954490 original size:21 final size:20
Alignment explanation
Indices: 9954466--9954513 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
9954456 ATCTTACCTT
*
9954466 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
9954487 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
9954508 TTTTTC
1 TTTTTC
9954514 CACCTAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:9954513 original size:22 final size:22
Alignment explanation
Indices: 9954471--9954511 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9954461 ACCTTTTTTT
*
9954471 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
9954493 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
9954512 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:9961024 original size:42 final size:41
Alignment explanation
Indices: 9960978--9961223 Score: 191
Period size: 42 Copynumber: 5.9 Consensus size: 41
9960968 TTAATATTTG
*
9960978 TAAATAAAATATTAATATTTTAAAATAATAATGATTAAATTA
1 TAAATAAAATATTAATATTTT-AAATAATAATTATTAAATTA
* *
9961020 TAAATAAAATATTAATA-TTTAAATGATCAATTATTAATATTT
1 TAAATAAAATATTAATATTTTAAATAAT-AATTATTAA-ATTA
* * * **
9961062 TAAATAAATTATT--TATTATTAATTATTAA-TATTTAAAAAA
1 TAAATAAAATATTAATATT-TTAAATAATAATTA-TTAAATTA
** ** *
9961102 TAAAATAAAATAAAAATATATTTTCATAATAA-CATTTAAATTA
1 T-AAATAAAATATTAATAT-TTTAAATAATAATTA-TTAAATTA
* *
9961145 TAAATAAAATATTAATATTTTACAATATTAATTATTCAAGTT-
1 TAAATAAAATATTAATATTTTA-AATAATAATTATT-AAATTA
* *
9961187 TAAATAAAGTATTAATA-TTTAAATGATCAATTATTAA
1 TAAATAAAATATTAATATTTTAAATAAT-AATTATTAA
9961224 TTTTTAAGTA
Statistics
Matches: 161, Mismatches: 30, Indels: 28
0.74 0.14 0.13
Matches are distributed among these distances:
40 18 0.11
41 41 0.25
42 77 0.48
43 24 0.15
44 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (41 bp):
TAAATAAAATATTAATATTTTAAATAATAATTATTAAATTA
Found at i:9961307 original size:155 final size:153
Alignment explanation
Indices: 9960978--9961472 Score: 571
Period size: 155 Copynumber: 3.2 Consensus size: 153
9960968 TTAATATTTG
*
9960978 TAAATAAAATATTAATATTTTAAAATAATAATGATTAAATTATAAATAAAATATTAATATTTAAA
1 TAAATAAAATATTAATATTTTAAAATATTAATGATTAAATTATAAAT-AAATATTAATATTTAAA
9961043 TGATCAATTATTAATATTTTAAATAAATTATTTATTATTAATTATTAATATTTAAAAAATAAAAT
65 TGATCAATTATTAATATTTTAAAT-AA--A-TTA-TA--AATTATTAATATTTAAAAAATAAAAT
9961108 AAAATAAAAATATATTTTCATAATAACATTTAAATTA
123 -AAA-AAAAATA-A---TCATAATAACATTTAAATTA
* * *
9961145 TAAATAAAATATTAATATTTTACAATATTAATTATTCAAGTT-TAAATAAAGTATTAATATTTAA
1 TAAATAAAATATTAATATTTTAAAATATTAATGATT-AAATTATAAATAAA-TATTAATATTTAA
* * *
9961209 ATGATCAATTATTAAT-TTTTAAGTAAATTACAAATTATTAATTTTTAAAAAATAAAATAAAAAA
64 ATGATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATTTAAAAAATAAAATAAAAAA
9961273 TAAGTAATCATAATAACATTTAAATTA
129 -AA-TAATCATAATAACATTTAAATTA
* * * *
9961300 TAAATAAAATTTTAAAATTTTAAAATATTAATGATTAAATTATGAATAAATCATTAATA-TCAGA
1 TAAATAAAATATTAATATTTTAAAATATTAATGATTAAATTATAAATAAAT-ATTAATATTTA-A
* * ** *
9961364 ATTATGAATCGTTAATATTTTAAATAAATGATAAATTATTAATATTT-AAAAAT-AAAT-----A
64 ATGATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATTTAAAAAATAAAATAAAAAA
*
9961422 AATAATCATAATATCATTTAAATTA
129 AATAATCATAATAACATTTAAATTA
*
9961447 TAAATAAAATATTAATA-TCTAAAATA
1 TAAATAAAATATTAATATTTTAAAATA
9961473 AAATAAAATA
Statistics
Matches: 294, Mismatches: 26, Indels: 37
0.82 0.07 0.10
Matches are distributed among these distances:
146 8 0.03
147 37 0.13
148 2 0.01
149 1 0.00
154 11 0.04
155 85 0.29
156 26 0.09
157 3 0.01
158 6 0.02
159 27 0.09
161 1 0.00
162 3 0.01
163 1 0.00
165 2 0.01
166 10 0.03
167 67 0.23
168 4 0.01
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (153 bp):
TAAATAAAATATTAATATTTTAAAATATTAATGATTAAATTATAAATAAATATTAATATTTAAAT
GATCAATTATTAATATTTTAAATAAATTATAAATTATTAATATTTAAAAAATAAAATAAAAAAAA
TAATCATAATAACATTTAAATTA
Found at i:9961355 original size:26 final size:25
Alignment explanation
Indices: 9961322--9961372 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
9961312 TAAAATTTTA
*
9961322 AAATATTAATGATTA-AATTATGAAT
1 AAATATTAAT-ATCAGAATTATGAAT
9961347 AAATCATTAATATCAGAATTATGAAT
1 AAAT-ATTAATATCAGAATTATGAAT
9961373 CGTTAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (25 bp):
AAATATTAATATCAGAATTATGAAT
Found at i:9961481 original size:10 final size:11
Alignment explanation
Indices: 9961466--9961499 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
9961456 TATTAATATC
9961466 TAAAATAA-AA
1 TAAAATAATAA
9961476 TAAAATAATAA
1 TAAAATAATAA
9961487 T-AAATAATAA
1 TAAAATAATAA
9961497 TAA
1 TAA
9961500 TATATAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:9961492 original size:29 final size:28
Alignment explanation
Indices: 9961412--9961492 Score: 64
Period size: 26 Copynumber: 2.9 Consensus size: 28
9961402 TTAATATTTA
*
9961412 AAAAT-AAAT-AAATAATCATAATATCATTT
1 AAAATAAAATAAAATAAT-ATAA-AT-ATCT
*
9961441 AAATTATAAATAAAAT-AT-T-AATATCT
1 AAAATA-AAATAAAATAATATAAATATCT
9961467 AAAATAAAATAAAATAATAATAAATA
1 AAAATAAAATAAAATAAT-ATAAATA
9961493 ATAATAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
25 9 0.21
26 10 0.24
27 2 0.05
28 2 0.05
29 9 0.21
31 6 0.14
32 4 0.10
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (28 bp):
AAAATAAAATAAAATAATATAAATATCT
Found at i:9968686 original size:20 final size:20
Alignment explanation
Indices: 9968661--9968708 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
9968651 TGAGACTCCG
*
9968661 ACAAACGCTACAACTAGAGC
1 ACAAACGCTACAACTAGACC
9968681 ACAAACGCTACAACTAGACC
1 ACAAACGCTACAACTAGACC
9968701 ACAAACGC
1 ACAAACGC
9968709 CCATTGCTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.46, C:0.33, G:0.12, T:0.08
Consensus pattern (20 bp):
ACAAACGCTACAACTAGACC
Found at i:9968783 original size:30 final size:29
Alignment explanation
Indices: 9968728--9968785 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
9968718 GAGGTCATTG
*
9968728 GAGACATGGTAAAGCCAAATGTGCCTATC
1 GAGACATGGTAAAGCCAAATATGCCTATC
*
9968757 GAGACTATGGT-AAGACCACATATGCCTAT
1 GAGAC-ATGGTAAAG-CCAAATATGCCTAT
9968786 AGATGGATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (29 bp):
GAGACATGGTAAAGCCAAATATGCCTATC
Found at i:9970307 original size:2 final size:2
Alignment explanation
Indices: 9970300--9970342 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
9970290 TGTCTATAGC
*
9970300 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9970342 A
1 A
9970343 CACCACCGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9970406 original size:35 final size:35
Alignment explanation
Indices: 9970367--9970580 Score: 302
Period size: 35 Copynumber: 6.0 Consensus size: 35
9970357 TACTCAGCTT
***
9970367 ATGTGCACTCCCTACACGCACAAGGCAATATCATC
1 ATGTGCACTCCCTACACGCACATTTCAATATCATC
*
9970402 ATGTGCACTTCCTACACGCACATTTCAATATATCATC
1 ATGTGCACTCCCTACACGCACATTTC-A-ATATCATC
*
9970439 ATGTGCACTCCTTACACGCACATTTCAATATCATC
1 ATGTGCACTCCCTACACGCACATTTCAATATCATC
*
9970474 ATGTGCACTCCCTACATGCACATTTCAATATCATCATC
1 ATGTGCACTCCCTACACGCACATTTC-A-AT-ATCATC
*
9970512 ATGTGCACTCCCTACACACACATTTCAATATCATC
1 ATGTGCACTCCCTACACGCACATTTCAATATCATC
* *
9970547 ATTTGCACTCCTTACACGCACATTTCAATATCAT
1 ATGTGCACTCCCTACACGCACATTTCAATATCAT
9970581 TACACGCACT
Statistics
Matches: 161, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
35 91 0.57
36 5 0.03
37 35 0.22
38 30 0.19
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (35 bp):
ATGTGCACTCCCTACACGCACATTTCAATATCATC
Found at i:9970546 original size:73 final size:73
Alignment explanation
Indices: 9970367--9970580 Score: 340
Period size: 73 Copynumber: 2.9 Consensus size: 73
9970357 TACTCAGCTT
*** *
9970367 ATGTGCACTCCCTACACGCACAAGGCAATATCATCATGTGCACTTCCTACACGCACATTTCAATA
1 ATGTGCACTCCCTACACGCACATTTCAATATCATCATGTGCACTCCCTACACGCACATTTCAATA
9970432 T-ATCATC
66 TCATCATC
* *
9970439 ATGTGCACTCCTTACACGCACATTTCAATATCATCATGTGCACTCCCTACATGCACATTTCAATA
1 ATGTGCACTCCCTACACGCACATTTCAATATCATCATGTGCACTCCCTACACGCACATTTCAATA
9970504 TCATCATC
66 TCATCATC
* * *
9970512 ATGTGCACTCCCTACACACACATTTCAATATCATCATTTGCACTCCTTACACGCACATTTCAATA
1 ATGTGCACTCCCTACACGCACATTTCAATATCATCATGTGCACTCCCTACACGCACATTTCAATA
9970577 TCAT
66 TCAT
9970581 TACACGCACT
Statistics
Matches: 130, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
72 60 0.46
73 70 0.54
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (73 bp):
ATGTGCACTCCCTACACGCACATTTCAATATCATCATGTGCACTCCCTACACGCACATTTCAATA
TCATCATC
Found at i:9970590 original size:108 final size:110
Alignment explanation
Indices: 9970396--9970593 Score: 319
Period size: 108 Copynumber: 1.8 Consensus size: 110
9970386 ACAAGGCAAT
* *
9970396 ATCATCATGTGCACTTCCTACACGCACATTTCAATATATCATCATGTGCACTCCTTACACGCACA
1 ATCATCATGTGCACTCCCTACACACACATTTCAATATATCATCATGTGCACTCCTTACACGCACA
***
9970461 TTTCAATATCATCATGTGCACTCCCTACATGCACATTTCAATATC
66 TTTCAATATCATCACACGCACTCCCTACATGCACATTTCAATATC
*
9970506 ATCATCATGTGCACTCCCTACACACACATTTC-A-ATATCATCATTTGCACTCCTTACACGCACA
1 ATCATCATGTGCACTCCCTACACACACATTTCAATATATCATCATGTGCACTCCTTACACGCACA
*
9970569 TTTCAATATCATTACACGCACTCCC
66 TTTCAATATCATCACACGCACTCCC
9970594 GCCCACATCA
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 50 0.62
109 1 0.01
110 30 0.37
ACGTcount: A:0.29, C:0.33, G:0.07, T:0.31
Consensus pattern (110 bp):
ATCATCATGTGCACTCCCTACACACACATTTCAATATATCATCATGTGCACTCCTTACACGCACA
TTTCAATATCATCACACGCACTCCCTACATGCACATTTCAATATC
Found at i:9971189 original size:20 final size:20
Alignment explanation
Indices: 9971164--9971214 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
9971154 TCTTTTTCTC
9971164 TCTCCTTTCTTTATTTCCTT
1 TCTCCTTTCTTTATTTCCTT
*
9971184 TCTCCTTTCTTTCTTTCCTT
1 TCTCCTTTCTTTATTTCCTT
9971204 TCTCCTTTCTT
1 TCTCCTTTCTT
9971215 CCAACTGATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (20 bp):
TCTCCTTTCTTTATTTCCTT
Found at i:9979493 original size:11 final size:11
Alignment explanation
Indices: 9979460--9979494 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
9979450 CCTAAGGTTC
9979460 TTGTTCTTCCT
1 TTGTTCTTCCT
9979471 TT-TTCTTCCT
1 TTGTTCTTCCT
*
9979481 TTGTTCTTGCT
1 TTGTTCTTCCT
9979492 TTG
1 TTG
9979495 GCCGGCCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.00, C:0.23, G:0.11, T:0.66
Consensus pattern (11 bp):
TTGTTCTTCCT
Found at i:9984029 original size:22 final size:22
Alignment explanation
Indices: 9984004--9984047 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9983994 TTTAAAATAA
9984004 CTTTAAAACCAAAAACTCTTAT
1 CTTTAAAACCAAAAACTCTTAT
* *
9984026 CTTTAAAATCAAAAGCTCTTAT
1 CTTTAAAACCAAAAACTCTTAT
9984048 ACCAATCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.34
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTTAT
Found at i:9988438 original size:40 final size:40
Alignment explanation
Indices: 9988394--9988470 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 40
9988384 AAAGACTGTA
*
9988394 TCTTAGGTAAAGGTTGTACTTGAACTTG-AAAAAGGCAGTG
1 TCTTA-GTAAAGGTTATACTTGAACTTGTAAAAAGGCAGTG
* ** *
9988434 TCTTAGTTAAGGTTATGTTTGATCTTGTAAAAAGGCA
1 TCTTAGTAAAGGTTATACTTGAACTTGTAAAAAGGCA
9988471 TGTTGTGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 17 0.55
40 14 0.45
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (40 bp):
TCTTAGTAAAGGTTATACTTGAACTTGTAAAAAGGCAGTG
Found at i:9988526 original size:36 final size:37
Alignment explanation
Indices: 9988442--9988527 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 37
9988432 TGTCTTAGTT
* * * *
9988442 AAGGTTATGTTTGATCTTGTAAAAAGGCATGTTGTGA
1 AAGGTTATGCTTGATCCTGTAAAAAGGCATGCTGTCA
* * *
9988479 AA-ATTACGCTTGATCCTGTTAAAAGGCATGCTG-CA
1 AAGGTTATGCTTGATCCTGTAAAAAGGCATGCTGTCA
9988514 AAGGTTATGCTTGA
1 AAGGTTATGCTTGA
9988528 CCTTGTTGAA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
35 3 0.08
36 34 0.87
37 2 0.05
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (37 bp):
AAGGTTATGCTTGATCCTGTAAAAAGGCATGCTGTCA
Found at i:9988687 original size:14 final size:15
Alignment explanation
Indices: 9988668--9988696 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9988658 ACTTAGTTCA
9988668 TACTTTATTT-TTAT
1 TACTTTATTTCTTAT
9988682 TACTTTATTTCTTAT
1 TACTTTATTTCTTAT
9988697 ATTTTTACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (15 bp):
TACTTTATTTCTTAT
Found at i:9993710 original size:21 final size:21
Alignment explanation
Indices: 9993686--9993727 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9993676 TTGATTTAAT
9993686 ATGCT-TTGAAAG-TAAATGATA
1 ATGCTCTT-AAAGTTAAA-GATA
9993707 ATGCTCTTAAAGTTAAAGATA
1 ATGCTCTTAAAGTTAAAGATA
9993728 TGTTTCTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (21 bp):
ATGCTCTTAAAGTTAAAGATA
Found at i:9995164 original size:35 final size:34
Alignment explanation
Indices: 9995125--9995225 Score: 116
Period size: 35 Copynumber: 3.0 Consensus size: 34
9995115 TTTTGGATTT
9995125 TGGTTGATCCTGTGAAAAACCATTATTAAAGGTTG
1 TGGTTGATCCTGTGAAAAACCATT-TTAAAGGTTG
* * * * *
9995160 TGGTTGAGCCTTTGAAAAGCCATTTT--GGGTTT
1 TGGTTGATCCTGTGAAAAACCATTTTAAAGGTTG
*
9995192 TGGTTGATCCCGTGAAAAACCATTGTTAAAGGTT
1 TGGTTGATCCTGTGAAAAACCATT-TTAAAGGTT
9995226 ATGGCCGAGC
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
32 24 0.45
33 2 0.04
34 2 0.04
35 25 0.47
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.36
Consensus pattern (34 bp):
TGGTTGATCCTGTGAAAAACCATTTTAAAGGTTG
Found at i:9995177 original size:68 final size:68
Alignment explanation
Indices: 9995098--9995252 Score: 195
Period size: 67 Copynumber: 2.3 Consensus size: 68
9995088 GTTCTAACTT
* * *
9995098 AGCCTTAGAAAAGTTAGTTTTGGATTTTGGTTGATCCTGTGAAAAACCATTATTAAAGGTTGTGG
1 AGCCTTTGAAAAGTTAGTTTTGGATTTTGGTTGATCCCGTGAAAAACCATTATTAAAGGTTATGG
**
9995163 TTG
66 CCG
** * *
9995166 AGCCTTTGAAAAGCCA-TTTTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTATGG
1 AGCCTTTGAAAAGTTAGTTTTGGATTTTGGTTGATCCCGTGAAAAACCATTATTAAAGGTTATGG
9995230 CCG
66 CCG
*
9995233 AGCCATTGTAAAAGCTTAGT
1 AGCCTTTG-AAAAG-TTAGT
9995253 GGAAACTTGG
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
67 52 0.72
68 18 0.25
69 1 0.01
70 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.35
Consensus pattern (68 bp):
AGCCTTTGAAAAGTTAGTTTTGGATTTTGGTTGATCCCGTGAAAAACCATTATTAAAGGTTATGG
CCG
Found at i:9995208 original size:32 final size:32
Alignment explanation
Indices: 9995115--9995215 Score: 112
Period size: 32 Copynumber: 3.1 Consensus size: 32
9995105 GAAAAGTTAG
*
9995115 TTTTGGATTTTGGTTGATCCTGTGAAAAACCA
1 TTTTGGGTTTTGGTTGATCCTGTGAAAAACCA
* * * * *
9995147 TTATTAAAGGTTGTGGTTGAGCCTTTGAAAAGCCA
1 TT-TT--GGGTTTTGGTTGATCCTGTGAAAAACCA
*
9995182 TTTTGGGTTTTGGTTGATCCCGTGAAAAACCA
1 TTTTGGGTTTTGGTTGATCCTGTGAAAAACCA
9995214 TT
1 TT
9995216 GTTAAAGGTT
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
32 26 0.48
33 2 0.04
34 2 0.04
35 24 0.44
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.39
Consensus pattern (32 bp):
TTTTGGGTTTTGGTTGATCCTGTGAAAAACCA
Found at i:9995236 original size:67 final size:68
Alignment explanation
Indices: 9995115--9995247 Score: 196
Period size: 67 Copynumber: 2.0 Consensus size: 68
9995105 GAAAAGTTAG
* * ** *
9995115 TTTTGGATTTTGGTTGATCCTGTGAAAAACCATTATTAAAGGTTGTGGTTGAGCCTTTG-AAAAG
1 TTTTGGATTTTGGTTGATCCCGTGAAAAACCATTATTAAAGGTTATGGCCGAGCCATTGTAAAAG
9995179 CCA
66 CCA
* *
9995182 TTTTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTATGGCCGAGCCATTGTAAAAG
1 TTTTGGATTTTGGTTGATCCCGTGAAAAACCATTATTAAAGGTTATGGCCGAGCCATTGTAAAAG
9995247 C
66 C
9995248 TTAGTGGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
67 52 0.90
68 6 0.10
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (68 bp):
TTTTGGATTTTGGTTGATCCCGTGAAAAACCATTATTAAAGGTTATGGCCGAGCCATTGTAAAAG
CCA
Found at i:9999485 original size:2 final size:2
Alignment explanation
Indices: 9999480--9999521 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
9999470 TGTATGTGTG
9999480 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9999522 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10009409 original size:2 final size:2
Alignment explanation
Indices: 10009404--10009443 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
10009394 GTATATAAAG
10009404 AT AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10009444 NTGTTTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10009549 original size:2 final size:2
Alignment explanation
Indices: 10009542--10009577 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10009532 GTAGATTATG
10009542 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10009578 TGTTAAGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10009675 original size:61 final size:61
Alignment explanation
Indices: 10009602--10009829 Score: 321
Period size: 61 Copynumber: 3.7 Consensus size: 61
10009592 GTATAATTGA
* * * *
10009602 TACAACCGTGCATGTGCGTAGAGGGCAATGTACATGCTGGTAATGATGTTGTCGTGATATT
1 TACAACCGTGCATGTGCGGAGAGGGCAGTGCACATGCCGGTAATGATGTTGTCGTGATATT
* *
10009663 TACAATCGTGCATGTGCGGAGAGGGCAGTGCACATGCCGGTAATGATGTTGTCGTTATATT
1 TACAACCGTGCATGTGCGGAGAGGGCAGTGCACATGCCGGTAATGATGTTGTCGTGATATT
* * * * *
10009724 TCCAATCGTGCATGTGCGGAGAGGGCAGTGCACATGCCGATAATGATGTTGTTGTGATATG
1 TACAACCGTGCATGTGCGGAGAGGGCAGTGCACATGCCGGTAATGATGTTGTCGTGATATT
* * * *
10009785 TACAACCATGCATGTGCAGAGTGGGCAGTGCACATGTCGGTAATG
1 TACAACCGTGCATGTGCGGAGAGGGCAGTGCACATGCCGGTAATG
10009830 GTGCACATGA
Statistics
Matches: 149, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 149 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (61 bp):
TACAACCGTGCATGTGCGGAGAGGGCAGTGCACATGCCGGTAATGATGTTGTCGTGATATT
Found at i:10017889 original size:14 final size:15
Alignment explanation
Indices: 10017865--10017893 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10017855 TTTTGGAGAA
10017865 ATATCCAAGGAAATG
1 ATATCCAAGGAAATG
10017880 ATAT-CAAGGAAATG
1 ATATCCAAGGAAATG
10017894 TAATCTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (15 bp):
ATATCCAAGGAAATG
Found at i:10020239 original size:2 final size:2
Alignment explanation
Indices: 10020229--10020277 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
10020219 TATAACGCTA
* * * *
10020229 AT AT GT AT AT AA AG AT AT AT GAC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
10020272 AT AT AT
1 AT AT AT
10020278 TTAAGTAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 38 0.97
3 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (2 bp):
AT
Found at i:10021505 original size:13 final size:13
Alignment explanation
Indices: 10021487--10021513 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10021477 TTTTTCATAA
10021487 ATTTTATAAAATC
1 ATTTTATAAAATC
10021500 ATTTTATAAAATC
1 ATTTTATAAAATC
10021513 A
1 A
10021514 CAATTTCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTTATAAAATC
Found at i:10024506 original size:43 final size:43
Alignment explanation
Indices: 10024445--10024557 Score: 147
Period size: 43 Copynumber: 2.6 Consensus size: 43
10024435 AATTATATTA
**
10024445 ACTCGGCTATGTGCGAGTAGGGAGTGCACATAAGTCGAG-GATG
1 ACTCGGCTATGTGCGAGTAGGGAGTGCACATAACCCG-GTGATG
* *
10024488 ACTCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATG
1 ACTCGGCTATGTGCGAGTAGGGAGTGCACATAACCCGGTGATG
* * *
10024531 ACCCAGCCATGTGCGAGTAGGGAGTGC
1 ACTCGGCTATGTGCGAGTAGGGAGTGC
10024558 GCATGAGCTG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 60 0.98
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.20
Consensus pattern (43 bp):
ACTCGGCTATGTGCGAGTAGGGAGTGCACATAACCCGGTGATG
Found at i:10032331 original size:21 final size:22
Alignment explanation
Indices: 10032306--10032346 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10032296 CCTAGATAGA
10032306 AAAATTCAA-GAAAAAAGTGTG
1 AAAATTCAAGGAAAAAAGTGTG
*
10032327 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAAAAAGTG
10032347 AAAAAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.56, C:0.07, G:0.20, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAAAAAGTGTG
Found at i:10032351 original size:21 final size:20
Alignment explanation
Indices: 10032304--10032351 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
10032294 ACCCTAGATA
10032304 GAAAAATTCAAGAAAAAAGT
1 GAAAAATTCAAGAAAAAAGT
* *
10032324 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAA-GAAAAAAGT
10032346 GAAAAA
1 GAAAAA
10032352 AAAGTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 13 0.57
22 9 0.39
ACGTcount: A:0.60, C:0.06, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGAAAAAAGT
Found at i:10032352 original size:22 final size:21
Alignment explanation
Indices: 10032305--10032352 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
10032295 CCCTAGATAG
*
10032305 AAAAATTCAAGAAAAAAGTGT
1 AAAAATTCAAGAAAAAAGTGA
* *
10032326 GAAAATTCAAGGAAACAAGTGA
1 AAAAATTCAA-GAAAAAAGTGA
10032348 AAAAA
1 AAAAA
10032353 AAGTAAGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.62, C:0.06, G:0.17, T:0.15
Consensus pattern (21 bp):
AAAAATTCAAGAAAAAAGTGA
Found at i:10038336 original size:35 final size:35
Alignment explanation
Indices: 10038292--10038401 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
10038282 GTTAGTTTTG
* *
10038292 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAA
1 GGTTGTGGTTGATCCCATGAAAAACCATTGTTAAA
* ** **
10038327 GGTTGTGGTTGAGCCTTTGAAAAGTCATT-TT--A
1 GGTTGTGGTTGATCCCATGAAAAACCATTGTTAAA
* *
10038359 GGTTTTGGTTGATCCCATAAAAAACCATTGTTAAA
1 GGTTGTGGTTGATCCCATGAAAAACCATTGTTAAA
*
10038394 AGTTGTGG
1 GGTTGTGG
10038402 CTGAGCCATT
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
32 23 0.40
33 2 0.04
34 2 0.04
35 30 0.53
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (35 bp):
GGTTGTGGTTGATCCCATGAAAAACCATTGTTAAA
Found at i:10038382 original size:67 final size:68
Alignment explanation
Indices: 10038270--10038418 Score: 210
Period size: 67 Copynumber: 2.2 Consensus size: 68
10038260 GTTCTAACTT
* * * * * *
10038270 AGCCTTAGAAAAGTTAGTTTTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGG
1 AGCCTTTGAAAAGTCAGTTTTAGGTTTTGGTTGATCCCATAAAAAACCATTGTTAAAAGTTGTGG
*
10038335 TTG
66 CTG
10038338 AGCCTTTGAAAAGTCA-TTTTAGGTTTTGGTTGATCCCATAAAAAACCATTGTTAAAAGTTGTGG
1 AGCCTTTGAAAAGTCAGTTTTAGGTTTTGGTTGATCCCATAAAAAACCATTGTTAAAAGTTGTGG
10038402 CTG
66 CTG
*
10038405 AGCCATTGTAAAAG
1 AGCCTTTG-AAAAG
10038419 CTTGGTGGAA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
67 53 0.74
68 19 0.26
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (68 bp):
AGCCTTTGAAAAGTCAGTTTTAGGTTTTGGTTGATCCCATAAAAAACCATTGTTAAAAGTTGTGG
CTG
Found at i:10039647 original size:28 final size:25
Alignment explanation
Indices: 10039616--10039666 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
10039606 AACATTTTGA
10039616 AGAGCCAAAAAGAAAGAAAACAATCAAG
1 AGAG-CAAAAAGAAA-AAAA-AATCAAG
*
10039644 AGAGCAAAAAGCAAAAAAAATCA
1 AGAGCAAAAAGAAAAAAAAATCA
10039667 TATTTTTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 4 0.18
27 9 0.41
28 4 0.18
ACGTcount: A:0.67, C:0.14, G:0.16, T:0.04
Consensus pattern (25 bp):
AGAGCAAAAAGAAAAAAAAATCAAG
Found at i:10039997 original size:36 final size:36
Alignment explanation
Indices: 10039956--10040042 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 36
10039946 TGTCTTGGTT
*
10039956 AAGGTTACGCCTGA-TCCTATAAAAAGACATGTTGTG
1 AAGGTTACGCCTGACT-CTATAAAAAGACATGTTGTA
*** * *
10039992 AAGGTTACATATGACTCTATTAAAATACATGTTGTA
1 AAGGTTACGCCTGACTCTATAAAAAGACATGTTGTA
*
10040028 AAGATTACGCCTGAC
1 AAGGTTACGCCTGAC
10040043 CTTGTTGAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
36 39 0.98
37 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (36 bp):
AAGGTTACGCCTGACTCTATAAAAAGACATGTTGTA
Found at i:10045008 original size:9 final size:9
Alignment explanation
Indices: 10044994--10045023 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
10044984 AATTATATAA
10044994 TTTTATTTT
1 TTTTATTTT
10045003 TTTTATTTT
1 TTTTATTTT
10045012 TTATTATTTT
1 TT-TTATTTT
10045022 TT
1 TT
10045024 ATTAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTATTTT
Found at i:10045015 original size:16 final size:17
Alignment explanation
Indices: 10044994--10045026 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10044984 AATTATATAA
10044994 TTTTATT-TTTTTTATT
1 TTTTATTATTTTTTATT
10045010 TTTTATTATTTTTTATT
1 TTTTATTATTTTTTATT
10045027 AATTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTATTATTTTTTATT
Found at i:10045024 original size:10 final size:10
Alignment explanation
Indices: 10044996--10045027 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
10044986 TTATATAATT
10044996 TTATTTTTT-
1 TTATTTTTTA
10045005 TTATTTTTTA
1 TTATTTTTTA
10045015 TTATTTTTTA
1 TTATTTTTTA
10045025 TTA
1 TTA
10045028 ATTAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTATTTTTTA
Found at i:10045685 original size:29 final size:29
Alignment explanation
Indices: 10045639--10045694 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
10045629 ATTTAAGAAA
** **
10045639 ATTCAAATAAATTTTTATTCTTTTATTAC
1 ATTCAAATAAATCCTTATAATTTTATTAC
*
10045668 ATTCAATTAAATCCTTATAATTTTATT
1 ATTCAAATAAATCCTTATAATTTTATT
10045695 TGTGTCAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.54
Consensus pattern (29 bp):
ATTCAAATAAATCCTTATAATTTTATTAC
Found at i:10046055 original size:23 final size:22
Alignment explanation
Indices: 10046012--10046055 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
10046002 CTTATTAAAT
**
10046012 TTTTTTAAAATAATTTAAAAAC
1 TTTTTTAAAATAATACAAAAAC
*
10046034 TTTTTTAAATATAATACCAAAA
1 TTTTTTAAA-ATAATACAAAAA
10046056 TGTAACTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTTTAAAATAATACAAAAAC
Found at i:10061337 original size:29 final size:30
Alignment explanation
Indices: 10061305--10061371 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 30
10061295 AAATATTTAT
10061305 AATATCCACAATAGCTAAACAAGATATA-C
1 AATATCCACAATAGCTAAACAAGATATATC
* * *
10061334 AATATCCACAATAGTTAAGCAAGATATATT
1 AATATCCACAATAGCTAAACAAGATATATC
10061364 AATATCCA
1 AATATCCA
10061372 TAAAAACTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 26 0.76
30 8 0.24
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.25
Consensus pattern (30 bp):
AATATCCACAATAGCTAAACAAGATATATC
Found at i:10069573 original size:11 final size:11
Alignment explanation
Indices: 10069559--10069595 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
10069549 AATAATATTT
*
10069559 TATTAATAAAA
1 TATTATTAAAA
10069570 TATTATTAAAA
1 TATTATTAAAA
*
10069581 TAATATTAAAA
1 TATTATTAAAA
10069592 TATT
1 TATT
10069596 TCTGTTGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTATTAAAA
Found at i:10079360 original size:231 final size:231
Alignment explanation
Indices: 10078967--10079419 Score: 653
Period size: 231 Copynumber: 2.0 Consensus size: 231
10078957 AGCTTGACTC
*
10078967 TATAAAATACTTGCCATGTCATTCATGAGATTGACAATATGCTTGCATACTAGGAAAGCCCCAAA
1 TATAAAATACTTGACATGTCATTCATGAGATTGACAATATGCTTGCATACTAGGAAAGCCCCAAA
* ** * *
10079032 AAATCGTAAAAAGTCGGTAGTGTACTTAATATTACAACTTAGTTGAATTAAGCCTCGAACTAGAT
66 AAATCGTAAAAAGTCGATAGTGTACCAAATAGTACAACTTAGTTGAATTAAGCCTCAAACTAGAT
* * * *
10079097 CAAATGAAGATTTTAAGGTGAAATTTAAAATTTTAAAACCCCAAAATGACTTAAAATGATGATTT
131 CAAATGAAGATCTTAAGATAAAATTAAAAATTTTAAAACCCCAAAATGACTTAAAATGATGATTT
*
10079162 GGAGTTCGAGGGCTGAATTGGTGTCAAGCCCGACCT
196 GGAGTTCGAGGGCTGAATTGGAGTCAAGCCCGACCT
* * * *
10079198 TATAAAGTACTTGACATGTCTTTCATGTGATTGACAATATGCTTGCATACTTA-GAAAGCCCCGA
1 TATAAAATACTTGACATGTCATTCATGAGATTGACAATATGCTTGCATAC-TAGGAAAGCCCCAA
* * * *
10079262 AAAATCGTCAAAAGTCGATATTGTACCAAATGGTACTA-TTAAGTTGAATTAAGCCTCAAACTAG
65 AAAATCGTAAAAAGTCGATAGTGTACCAAATAGTACAACTT-AGTTGAATTAAGCCTCAAACTAG
*
10079326 -TCTAAAT-AGAGATCTTAAGATAAAATTAAAAATTTTAAAACCCCAGAATGACTTAAAATGATG
129 ATC-AAATGA-AGATCTTAAGATAAAATTAAAAATTTTAAAACCCCAAAATGACTTAAAATGATG
*
10079389 ATTTGGGGTTCGAGGGCTGAATTGGAGTCAA
192 ATTTGGAGTTCGAGGGCTGAATTGGAGTCAA
10079420 TTTGGAATTT
Statistics
Matches: 197, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
230 5 0.03
231 190 0.96
232 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (231 bp):
TATAAAATACTTGACATGTCATTCATGAGATTGACAATATGCTTGCATACTAGGAAAGCCCCAAA
AAATCGTAAAAAGTCGATAGTGTACCAAATAGTACAACTTAGTTGAATTAAGCCTCAAACTAGAT
CAAATGAAGATCTTAAGATAAAATTAAAAATTTTAAAACCCCAAAATGACTTAAAATGATGATTT
GGAGTTCGAGGGCTGAATTGGAGTCAAGCCCGACCT
Found at i:10091162 original size:26 final size:26
Alignment explanation
Indices: 10091103--10091158 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
10091093 GGGAAGACTA
*
10091103 AAAGAAGAGAGAAAAAGAAGCCCAAAC
1 AAAGTAGA-AGAAAAAGAAGCCCAAAC
* *
10091130 ATAGTAGAAGAAAAAG-AGCCCAAAG
1 AAAGTAGAAGAAAAAGAAGCCCAAAC
10091155 AAAG
1 AAAG
10091159 GTAGTTAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 11 0.44
26 8 0.32
27 6 0.24
ACGTcount: A:0.61, C:0.12, G:0.23, T:0.04
Consensus pattern (26 bp):
AAAGTAGAAGAAAAAGAAGCCCAAAC
Found at i:10101379 original size:2 final size:2
Alignment explanation
Indices: 10101372--10101396 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10101362 GAAAACTATA
10101372 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 T
10101397 AAGGTATGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:10128554 original size:13 final size:14
Alignment explanation
Indices: 10128536--10128564 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10128526 TTTTTTTTTC
10128536 TTTCTTCTTC-TCT
1 TTTCTTCTTCTTCT
10128549 TTTCTTCTTCTTCT
1 TTTCTTCTTCTTCT
10128563 TT
1 TT
10128565 AGCTGACACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTCTTCTTCTTCT
Found at i:10128558 original size:16 final size:17
Alignment explanation
Indices: 10128531--10128562 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10128521 TTTTCTTTTT
10128531 TTTTCTTTCTTCTTCTC
1 TTTTCTTTCTTCTTCTC
10128548 TTTTC-TTCTTCTTCT
1 TTTTCTTTCTTCTTCT
10128563 TTAGCTGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTCTTTCTTCTTCTC
Found at i:10135574 original size:26 final size:26
Alignment explanation
Indices: 10135545--10135602 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
10135535 TAAAAATTTT
*
10135545 CATTTTGTCCTCA-AGTGGCAAATGAC
1 CATTTTGTCCCCATA-TGGCAAATGAC
10135571 CATTTTGTCCCCATATGGCAAATGAC
1 CATTTTGTCCCCATATGGCAAATGAC
10135597 CATTTT
1 CATTTT
10135603 ACCCCTAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 29 0.97
27 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (26 bp):
CATTTTGTCCCCATATGGCAAATGAC
Found at i:10139400 original size:34 final size:35
Alignment explanation
Indices: 10139328--10139401 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
10139318 TCTTCCTAAA
* *
10139328 AAAATCAGCTCTTTCTCTCCCTTAAAATTGGCAAC
1 AAAACCAGCTCTTTCTCTCCCTTAAAATTGACAAC
* *
10139363 AAAACCAGCTC-TTCTTTCCCTTTAAAA-TGACAGC
1 AAAACCAGCTCTTTCTCTCCC-TTAAAATTGACAAC
10139397 AAAAC
1 AAAAC
10139402 TCTCCTCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 18 0.53
35 16 0.47
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.28
Consensus pattern (35 bp):
AAAACCAGCTCTTTCTCTCCCTTAAAATTGACAAC
Found at i:10139653 original size:13 final size:13
Alignment explanation
Indices: 10139635--10139676 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10139625 TTGTTACTTT
10139635 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
*
10139648 TTTC-TTTTTCTC
1 TTTCTTTTTTTTC
*
10139660 TTTTCTTTTTCTTC
1 -TTTCTTTTTTTTC
10139674 TTT
1 TTT
10139677 GGCCGACACT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 7 0.29
13 11 0.46
14 6 0.25
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:10139657 original size:6 final size:6
Alignment explanation
Indices: 10139633--10139672 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
10139623 GCTTGTTACT
*
10139633 TTTTTC TTTTTT TTCTTTC TTTTTC TCTTTTC TTTTTC TT
1 TTTTTC TTTTTC TT-TTTC TTTTTC T-TTTTC TTTTTC TT
10139673 CTTTGGCCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 19 0.63
7 11 0.37
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:10139657 original size:19 final size:19
Alignment explanation
Indices: 10139633--10139672 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10139623 GCTTGTTACT
*
10139633 TTTTTCT-TTTTTTTCTTTC
1 TTTTTCTCTTTTCTT-TTTC
10139652 TTTTTCTCTTTTCTTTTTC
1 TTTTTCTCTTTTCTTTTTC
10139671 TT
1 TT
10139673 CTTTGGCCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTCTCTTTTCTTTTTC
Found at i:10139764 original size:24 final size:23
Alignment explanation
Indices: 10139695--10139765 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
10139685 CTCTCTAGAT
10139695 TTTTCCTTCCTTTTTCTCTCC-TC
1 TTTTCCTT-CTTTTTCTCTCCTTC
* *
10139718 TTTTCATCTCTTTTATTTCTCCTTAC
1 TTTTCCT-TCTTTT-TCTCTCCTT-C
10139744 -TTTCCTTCTTTTTCTCATCCTT
1 TTTTCCTTCTTTTTCTC-TCCTT
10139766 TGTTGGCCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
23 14 0.36
24 18 0.46
25 6 0.15
26 1 0.03
ACGTcount: A:0.06, C:0.32, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTCCTTCTTTTTCTCTCCTTC
Found at i:10140132 original size:20 final size:20
Alignment explanation
Indices: 10140107--10140152 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
10140097 TTTTGACCCC
10140107 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
10140127 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
10140147 ATTTGA
1 ATTTGA
10140153 GATTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:10140255 original size:28 final size:28
Alignment explanation
Indices: 10140197--10140249 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
10140187 TTTGGAGTAT
*
10140197 AGGGGTAAAATGGTAATTTTGCCACCCC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
10140225 AGGGGCAAAATTGTAATTTT-CCACC
1 AGGGGCAAAATGGTAATTTTGCCACC
10140250 ATCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:10142937 original size:12 final size:12
Alignment explanation
Indices: 10142920--10142956 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10142910 TCATTTACTA
10142920 TTATTATTATTT
1 TTATTATTATTT
10142932 TTATTATTATTT
1 TTATTATTATTT
10142944 ATT-TTATT-TTT
1 -TTATTATTATTT
10142955 TT
1 TT
10142957 GAAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.08
11 3 0.12
12 17 0.71
13 2 0.08
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:10142938 original size:15 final size:16
Alignment explanation
Indices: 10142918--10142948 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10142908 ATTCATTTAC
10142918 TATTATTA-TTATTTT
1 TATTATTATTTATTTT
10142933 TATTATTATTTATTTT
1 TATTATTATTTATTTT
10142949 ATTTTTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTATTATTTATTTT
Found at i:10168373 original size:27 final size:26
Alignment explanation
Indices: 10168325--10168390 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
10168315 TTGCCTTTCC
*
10168325 TTCTTTATTTTTTTCTTTTTTTAATT
1 TTCTTTATTTTTTTCATTTTTTAATT
*
10168351 TTCTTTATTTGTTTTGATTTTTTAATT
1 TTCTTTATTT-TTTTCATTTTTTAATT
10168378 TGT-TTT-TTTTTTT
1 T-TCTTTATTTTTTT
10168391 GTTTTTCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 4 0.11
26 13 0.36
27 18 0.50
28 1 0.03
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.80
Consensus pattern (26 bp):
TTCTTTATTTTTTTCATTTTTTAATT
Found at i:10168380 original size:18 final size:19
Alignment explanation
Indices: 10168343--10168383 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
10168333 TTTTTTCTTT
*
10168343 TTTTAATTTTCTTTATTTG
1 TTTTAATTTTCTTAATTTG
*
10168362 TTTTGATTTT-TTAATTTG
1 TTTTAATTTTCTTAATTTG
10168380 TTTT
1 TTTT
10168384 TTTTTTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (19 bp):
TTTTAATTTTCTTAATTTG
Found at i:10168395 original size:8 final size:8
Alignment explanation
Indices: 10168328--10168396 Score: 59
Period size: 8 Copynumber: 8.1 Consensus size: 8
10168318 CCTTTCCTTC
10168328 TTTATTTT
1 TTTATTTT
*
10168336 TTTCTTTT
1 TTTATTTT
10168344 TTTAATTTT
1 TTT-ATTTT
10168353 CTTTATTTGT
1 -TTTATTT-T
10168363 TTTGATTTT
1 TTT-ATTTT
*
10168372 TTAATTTGT
1 TTTATTT-T
10168381 TTT-TTTT
1 TTTATTTT
*
10168388 TTTGTTTT
1 TTTATTTT
10168396 T
1 T
10168397 CTAAGAAAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
7 4 0.08
8 22 0.43
9 17 0.33
10 8 0.16
ACGTcount: A:0.10, C:0.03, G:0.06, T:0.81
Consensus pattern (8 bp):
TTTATTTT
Found at i:10168802 original size:27 final size:27
Alignment explanation
Indices: 10168733--10168795 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
10168723 TCATACATAA
*
10168733 TTTGG-AGAAT-ATTTCTTGAAAATAT
1 TTTGGAAGAATAATTGCTTGAAAATAT
10168758 TTTGGAAGAATAATTGCTTGAAAATGA-
1 TTTGGAAGAATAATTGCTTGAAAAT-AT
10168785 TTTGGAAGAAT
1 TTTGGAAGAAT
10168796 GCTTGCTAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
25 5 0.15
26 5 0.15
27 23 0.68
28 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (27 bp):
TTTGGAAGAATAATTGCTTGAAAATAT
Found at i:10178407 original size:205 final size:207
Alignment explanation
Indices: 10178052--10178464 Score: 697
Period size: 205 Copynumber: 2.0 Consensus size: 207
10178042 AGAAGCAACC
*
10178052 ATTGTACATTCTATCCAGAATCATCAAAGCTACATCAAAATGCTAAAAAAACTAGAAACTTCCAA
1 ATTGTACATTCTATCCAGAA-CATCAAAGCTACATCAAAATGCTAAAAAAACTACAAACTTCCAA
* * * *
10178117 GCCGTAGTACAATGAAATTTAAATATTGCCCACTAGTGCCACTGTTCTTAAAGCAGCAAAATCTA
65 GCCATAGGACAATGAAATTTAAATATTGCCCACCAGTGCCACTGTTCTTAAAGCAGCAAAACCTA
10178182 TTATAAGTAATTTGCTTTGGCTTAATAAGATTAAACAGAAA-GTTGCACTTACAGCTAGTGTCCA
130 TTATAAGTAATTTGCTTTGGCTTAATAAGATTAAACA-AAAGGTTGCACTTACAGCTAGTGTCCA
10178246 AACAACCAAAGAGA
194 AACAACCAAAGAGA
* * *
10178260 ATTGTACGTTCTATCCAG-A-ATCAAAGCTACTTCAAAATGCTGAAAAAACTACAAACTTCCAAG
1 ATTGTACATTCTATCCAGAACATCAAAGCTACATCAAAATGCTAAAAAAACTACAAACTTCCAAG
10178323 CCATAGGACAATGAAATTTAAATATTGCCCACCAGTGCCACTGTTCTTAAAGCAGCAAAACCTAT
66 CCATAGGACAATGAAATTTAAATATTGCCCACCAGTGCCACTGTTCTTAAAGCAGCAAAACCTAT
* *
10178388 TATCAGTAATTTGCTTTGGCTTAATAAGATTAAACAAAAGGTTGTACTTACAGCTAGTGTCCAAA
131 TATAAGTAATTTGCTTTGGCTTAATAAGATTAAACAAAAGGTTGCACTTACAGCTAGTGTCCAAA
10178453 CAACCAAAGAGA
196 CAACCAAAGAGA
10178465 CTTTGATGGC
Statistics
Matches: 194, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
204 3 0.02
205 173 0.89
207 1 0.01
208 17 0.09
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.27
Consensus pattern (207 bp):
ATTGTACATTCTATCCAGAACATCAAAGCTACATCAAAATGCTAAAAAAACTACAAACTTCCAAG
CCATAGGACAATGAAATTTAAATATTGCCCACCAGTGCCACTGTTCTTAAAGCAGCAAAACCTAT
TATAAGTAATTTGCTTTGGCTTAATAAGATTAAACAAAAGGTTGCACTTACAGCTAGTGTCCAAA
CAACCAAAGAGA
Found at i:10179986 original size:126 final size:126
Alignment explanation
Indices: 10179759--10180007 Score: 428
Period size: 126 Copynumber: 2.0 Consensus size: 126
10179749 AGATGATGGA
* *
10179759 AGATTGTTTTCTCTGATTGTTAATTGTATTAGTAGAAAGATGGTTCTTTCAATGAAATATACTAC
1 AGATTGTTTTCTCAGATTGTTAATTGTATTAGTAGAAAGATGATTCTTTCAATGAAATATACTAC
* *
10179824 GACAGTTAAAAAGTTATGGGAGTTATTGCATTAGTGTTTTTCAAGTACAAAGAATATGAAG
66 AACAGTTAAAAAGTTATGGGAGTTATTGCATGAGTGTTTTTCAAGTACAAAGAATATGAAG
*
10179885 AGATTGTTTTCTCAGATTGTTAATTGTATT-GATAGAAAGATGATTCTTTCAATGCAATATACTA
1 AGATTGTTTTCTCAGATTGTTAATTGTATTAG-TAGAAAGATGATTCTTTCAATGAAATATACTA
*
10179949 CAACAGTTAAGAAGTTATGGGAGTTATTGCATGAGTGTTTTTCAAGTACAAAGAATATG
65 CAACAGTTAAAAAGTTATGGGAGTTATTGCATGAGTGTTTTTCAAGTACAAAGAATATG
10180008 GTTTATCACA
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
125 1 0.01
126 115 0.99
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (126 bp):
AGATTGTTTTCTCAGATTGTTAATTGTATTAGTAGAAAGATGATTCTTTCAATGAAATATACTAC
AACAGTTAAAAAGTTATGGGAGTTATTGCATGAGTGTTTTTCAAGTACAAAGAATATGAAG
Found at i:10197501 original size:14 final size:15
Alignment explanation
Indices: 10197472--10197509 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
10197462 AATCCACTCT
10197472 AATTATAAAAATAAAA
1 AATT-TAAAAATAAAA
10197488 AATTTAAAAA-AAAA
1 AATTTAAAAATAAAA
*
10197502 AACTTAAA
1 AATTTAAA
10197510 TAGTGCTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.52
15 6 0.29
16 4 0.19
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
AATTTAAAAATAAAA
Found at i:10198171 original size:17 final size:16
Alignment explanation
Indices: 10198134--10198165 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10198124 AAAGATATCG
*
10198134 AACAAAAAAAATCAAA
1 AACAAAAAAAACCAAA
10198150 AACAAAAAAAACCAAA
1 AACAAAAAAAACCAAA
10198166 GGACAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.16, G:0.00, T:0.03
Consensus pattern (16 bp):
AACAAAAAAAACCAAA
Found at i:10200199 original size:30 final size:29
Alignment explanation
Indices: 10200158--10200214 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
10200148 TAAATTTCAT
*
10200158 ATTATATATTCAATACTTAAATTTTTCAAA
1 ATTATAAATTCAATACTT-AATTTTTCAAA
10200188 ATTATAAATTCAATACTTAATTTTTCA
1 ATTATAAATTCAATACTTAATTTTTCA
10200215 GTGTTGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (29 bp):
ATTATAAATTCAATACTTAATTTTTCAAA
Found at i:10203866 original size:28 final size:28
Alignment explanation
Indices: 10203835--10203888 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
10203825 TATTACAAAC
10203835 AAATAAATTACA-CTAAATATAAATAAGT
1 AAATAAATTACATC-AAATATAAATAAGT
*
10203863 AAATACATTACATCAAATATAAATAA
1 AAATAAATTACATCAAATATAAATAA
10203889 AATTTCAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (28 bp):
AAATAAATTACATCAAATATAAATAAGT
Found at i:10206820 original size:32 final size:32
Alignment explanation
Indices: 10206784--10206902 Score: 107
Period size: 32 Copynumber: 3.6 Consensus size: 32
10206774 TTTTACACTA
* *
10206784 GTTTTTCACGAGCTAAACTAAAACTCAAAGTG
1 GTTTTTCACGAGCTCAACCAAAACTCAAAGTG
* *
10206816 GTTTTTCA-AAGGCTCAACCACAACCTTTCACAA-TG
1 GTTTTTCACGA-GCTCAACCA-AAAC--TCA-AAGTG
*
10206851 GTTTTTCACGGGCTCAACCAAAACTCAAAGTG
1 GTTTTTCACGAGCTCAACCAAAACTCAAAGTG
* **
10206883 GTTTTTTAAAAGCTCAACCA
1 GTTTTTCACGAGCTCAACCA
10206903 CAACCTACAA
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
31 3 0.04
32 36 0.52
33 3 0.04
34 3 0.04
35 22 0.32
36 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (32 bp):
GTTTTTCACGAGCTCAACCAAAACTCAAAGTG
Found at i:10206874 original size:67 final size:67
Alignment explanation
Indices: 10206770--10206941 Score: 213
Period size: 67 Copynumber: 2.6 Consensus size: 67
10206760 GCTCAGTCAA
* * * * * * *
10206770 AACCTTTTACACTAGTTTTTCACGAGCTAAACTAAAACTCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACTCAAAGTGGTTTTTCAAAAGCTCAACC
10206835 AC
66 AC
*
10206837 AACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACTCAAAGTGGTTTTTTAAAAGCTCAACC
1 AACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACTCAAAGTGGTTTTTCAAAAGCTCAACC
10206902 AC
66 AC
* * *
10206904 AACC-TACAACAATGGTTTTT-ATTGGGATCAACCAAAAC
1 AACCTTTC-ACAATGGTTTTTCA-CGGGCTCAACCAAAAC
10206942 CCAACAACCA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
66 3 0.03
67 89 0.97
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACTCAAAGTGGTTTTTCAAAAGCTCAACC
AC
Found at i:10206920 original size:35 final size:34
Alignment explanation
Indices: 10206814--10206923 Score: 118
Period size: 35 Copynumber: 3.2 Consensus size: 34
10206804 AAACTCAAAG
10206814 TGGTTTTTCAAAGGCTCAACCACAACCTTTC-ACAA
1 TGGTTTTTCAAAGGCTCAACCACAACC--TCAACAA
** * *
10206849 TGGTTTTTCACGGGCTCAACCA-AAACTCAA-AG
1 TGGTTTTTCAAAGGCTCAACCACAACCTCAACAA
* *
10206881 TGGTTTTTTAAAAGCTCAACCACAACCTACAACAA
1 TGGTTTTTCAAAGGCTCAACCACAACCT-CAACAA
10206916 TGGTTTTT
1 TGGTTTTT
10206924 ATTGGGATCA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
32 21 0.34
33 5 0.08
34 6 0.10
35 29 0.48
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (34 bp):
TGGTTTTTCAAAGGCTCAACCACAACCTCAACAA
Found at i:10207878 original size:180 final size:179
Alignment explanation
Indices: 10207564--10207924 Score: 641
Period size: 180 Copynumber: 2.0 Consensus size: 179
10207554 CTTGTTATTC
*
10207564 AATTATATCTTGTGATTTTATCCCTCTTTTTCTTTCAAAAATACTCTTTGAAGAGTTAATAAATT
1 AATTATATCTTGTGATTTTATCCCTCTTTTTCTTTCAAAAATACTCTTTGAAAAGTTAATAAATT
* *
10207629 AATTTCATATATTAATTTCTTACACACTCAAGTAAAGGTATTAGACACACATAAATGGGAATGTT
66 AATTTCATATATTAATTTCCTACACACTCAAGTAAAGGTATTAGACACACATAAATGAGAATGTT
*
10207694 TTATTGTCATCAAAAACTAATGGAGTCAACAGTTGAGGGACAATCAACA
131 TTATTGTCATCAAAAACTAATGGAGCCAACAGTTGAGGGACAATCAACA
*
10207743 AATTATATCTTGTTGATTTTATCGCTCTTTTTCTTTCAAAAATACTCTTTGAAAAGTTAATAAAT
1 AATTATATCTTG-TGATTTTATCCCTCTTTTTCTTTCAAAAATACTCTTTGAAAAGTTAATAAAT
* *
10207808 TAATTTCTTATATTAATTTCCTGCACACTCAAGTAAAGGTATTAGACACACATAAATGAGAATGT
65 TAATTTCATATATTAATTTCCTACACACTCAAGTAAAGGTATTAGACACACATAAATGAGAATGT
*
10207873 TTTATTGTCATCAAAAACTAATGGAGCCAACCGTTGAGGGACAATCAACA
130 TTTATTGTCATCAAAAACTAATGGAGCCAACAGTTGAGGGACAATCAACA
10207923 AA
1 AA
10207925 CAGACCACCT
Statistics
Matches: 173, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
179 12 0.07
180 161 0.93
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (179 bp):
AATTATATCTTGTGATTTTATCCCTCTTTTTCTTTCAAAAATACTCTTTGAAAAGTTAATAAATT
AATTTCATATATTAATTTCCTACACACTCAAGTAAAGGTATTAGACACACATAAATGAGAATGTT
TTATTGTCATCAAAAACTAATGGAGCCAACAGTTGAGGGACAATCAACA
Found at i:10215952 original size:73 final size:70
Alignment explanation
Indices: 10215827--10216030 Score: 221
Period size: 73 Copynumber: 2.8 Consensus size: 70
10215817 GAAGATGGTT
* * * * *
10215827 GGTTCAGAAACAGAGACAACTTAATCGACTAAGAAGTGTCGTTAGTCTACTAAGTGCTTACTGCT
1 GGTTCAGAAACAGA-ACGACTTAATCGACTAAGAA-TTTTGTTAGTCGACTAAGTGCTCACTGCT
10215892 AGAAACC
64 AGAAACC
10215899 GAGTTCAGAAACAGAACCGACTTAATCGACTAAGAGATTTTGTTAGTCGACTAAGTGCTCACTGC
1 G-GTTCAGAAACAGAA-CGACTTAATCGACTAAGA-ATTTTGTTAGTCGACTAAGTGCTCACTGC
* *
10215964 TAGAGACT
63 TAGAAACC
* * * * *
10215972 GGATCCAGAGAA-AGAAACGACTTAATCGACTGAGAAGTATGTTAGTCGACTAAGAGCTC
1 GG-TTCAGA-AACAG-AACGACTTAATCGACTAAGAATTTTGTTAGTCGACTAAGTGCTC
10216031 TCTGTCAGAA
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
72 24 0.21
73 85 0.75
74 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.24
Consensus pattern (70 bp):
GGTTCAGAAACAGAACGACTTAATCGACTAAGAATTTTGTTAGTCGACTAAGTGCTCACTGCTAG
AAACC
Found at i:10220362 original size:85 final size:84
Alignment explanation
Indices: 10220210--10220379 Score: 268
Period size: 85 Copynumber: 2.0 Consensus size: 84
10220200 GCACATCAGC
* * *
10220210 AAAGAGCTTTGCAAGTCAAAAAAGTGGTCAGCAAGTCAAATTTGGAGATGAGAAATCTTAAAAAA
1 AAAGAGCTCTGCAAGTCAAAAAAGTGGTCAGCAAGTCAAATTAGGAGATGACAAATCTTAAAAAA
*
10220275 CTAAATATATTGAAAAAAA
66 CTAAATATAGTGAAAAAAA
* *
10220294 AAAGTAGCTCTGCAAGTCAAAAAAGTGGTCAGTAAGTCATATTAGGAGATGACAAATCTTAAAAA
1 AAAG-AGCTCTGCAAGTCAAAAAAGTGGTCAGCAAGTCAAATTAGGAGATGACAAATCTTAAAAA
*
10220359 ACTAAATATAGTGAACAAAA
65 ACTAAATATAGTGAAAAAAA
10220379 A
1 A
10220380 GGAAACAAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
84 4 0.05
85 74 0.95
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.22
Consensus pattern (84 bp):
AAAGAGCTCTGCAAGTCAAAAAAGTGGTCAGCAAGTCAAATTAGGAGATGACAAATCTTAAAAAA
CTAAATATAGTGAAAAAAA
Found at i:10224889 original size:30 final size:30
Alignment explanation
Indices: 10224849--10224906 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
10224839 AGTTAAGCCT
*
10224849 TTATACTTTTATTTTGAACT-AAATAAACCC
1 TTATAATTTTATTTT-AACTCAAATAAACCC
*
10224879 TTATAATTTTATTTTAAGTCAAATAAAC
1 TTATAATTTTATTTTAACTCAAATAAAC
10224907 TTTTATGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (30 bp):
TTATAATTTTATTTTAACTCAAATAAACCC
Found at i:10225553 original size:12 final size:11
Alignment explanation
Indices: 10225533--10225575 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
10225523 ACATAGAAAA
10225533 AAAAAAGAGAT
1 AAAAAAGAGAT
10225544 AAAAAGAGAGA-
1 AAAAA-AGAGAT
*
10225555 AAAAAATAGAT
1 AAAAAAGAGAT
10225566 AAAAATAGAG
1 AAAAA-AGAG
10225576 TCGTATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 4 0.15
11 15 0.56
12 8 0.30
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (11 bp):
AAAAAAGAGAT
Found at i:10225560 original size:22 final size:22
Alignment explanation
Indices: 10225532--10225575 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10225522 GACATAGAAA
10225532 AAAAAAAGAGATAAAAAGAGAG
1 AAAAAAAGAGATAAAAAGAGAG
* *
10225554 AAAAAAATAGATAAAAATAGAG
1 AAAAAAAGAGATAAAAAGAGAG
10225576 TCGTATGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (22 bp):
AAAAAAAGAGATAAAAAGAGAG
Found at i:10228693 original size:108 final size:108
Alignment explanation
Indices: 10228503--10228709 Score: 279
Period size: 108 Copynumber: 1.9 Consensus size: 108
10228493 AAAAGCAATT
* * * **
10228503 TTACTCTTCATGTAACATTTGCCATTCTTATTTTTCTGCATTTCGTTCTAGCATTATGTTTGACC
1 TTACTCTTCATATAACATTTGCCATTCTCATTTTTCTGCATTTCGTTCTAGCATCATGTTCAACC
*
10228568 TCATGTCAATAGCTGATGTATGCCTTACAGACTGGGAAATAAG
66 TCATGTCAATAGATGATGTATGCCTTACAGACTGGGAAATAAG
* * * * * *
10228611 TTACTCTTCGTATAAGATTTTCCATTCTCATTTTTCTGTATTTCTTTGTAGCATCATGTTCAACC
1 TTACTCTTCATATAACATTTGCCATTCTCATTTTTCTGCATTTCGTTCTAGCATCATGTTCAACC
* * *
10228676 TCTTGTCAATGGATGATGTATGCCTTATAGACTG
66 TCATGTCAATAGATGATGTATGCCTTACAGACTG
10228710 AAAATAAATT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
108 84 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (108 bp):
TTACTCTTCATATAACATTTGCCATTCTCATTTTTCTGCATTTCGTTCTAGCATCATGTTCAACC
TCATGTCAATAGATGATGTATGCCTTACAGACTGGGAAATAAG
Found at i:10232130 original size:2 final size:2
Alignment explanation
Indices: 10232125--10232160 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10232115 TCAGTAAAGG
10232125 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10232161 CTGCTGTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10232235 original size:2 final size:2
Alignment explanation
Indices: 10232228--10232263 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10232218 NNNNNNNNNN
10232228 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10232264 CTGCTGACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10233793 original size:21 final size:20
Alignment explanation
Indices: 10233769--10233823 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
10233759 TCGATTAATT
*
10233769 TTTACATAATATTTAAAAAA
1 TTTAAATAATATTTAAAAAA
*
10233789 GTTTATAA-ATTATTTTAAAAAA
1 -TTTA-AATAATA-TTTAAAAAA
10233811 TTTAAATAA-ATTT
1 TTTAAATAATATTT
10233824 TTACTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
19 3 0.11
20 3 0.11
21 12 0.43
22 10 0.36
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TTTAAATAATATTTAAAAAA
Found at i:10246876 original size:16 final size:17
Alignment explanation
Indices: 10246855--10246888 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10246845 TCACACAATG
10246855 GTTAAAT-ATATAAATA
1 GTTAAATAATATAAATA
*
10246871 GTTAAATAATATTAATA
1 GTTAAATAATATAAATA
10246888 G
1 G
10246889 AAAGAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
GTTAAATAATATAAATA
Found at i:10247064 original size:21 final size:22
Alignment explanation
Indices: 10247040--10247087 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
10247030 AAGTAAAAAC
*
10247040 AAAAGAACAAA-ATAGA-AGAGA
1 AAAAGAA-AAAGAAAGAGAGAGA
10247061 AAAAGAAAAAGAAAGAGAGAGA
1 AAAAGAAAAAGAAAGAGAGAGA
10247083 AAAAG
1 AAAAG
10247088 GTGTGAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 3 0.12
21 11 0.46
22 10 0.42
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAAGAAAGAGAGAGA
Found at i:10248297 original size:40 final size:40
Alignment explanation
Indices: 10248253--10248340 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
10248243 AAACTCTACT
*
10248253 TTTTCAAGAGGAGCAAGCACAACCTCATAACGTCATTGCC
1 TTTTCAAGAGGAGCAAGCACAACCTCACAACGTCATTGCC
* *
10248293 TTTTCAAGAGGAGCAAGTACAACCTCACGACGTCATTGCC
1 TTTTCAAGAGGAGCAAGCACAACCTCACAACGTCATTGCC
10248333 TTTTCAAG
1 TTTTCAAG
10248341 GTTAAAGCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (40 bp):
TTTTCAAGAGGAGCAAGCACAACCTCACAACGTCATTGCC
Found at i:10249831 original size:15 final size:15
Alignment explanation
Indices: 10249811--10249839 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10249801 AAACATGTAA
10249811 AGTCAATTAATAACT
1 AGTCAATTAATAACT
10249826 AGTCAATTAATAAC
1 AGTCAATTAATAAC
10249840 AACCACGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (15 bp):
AGTCAATTAATAACT
Found at i:10251109 original size:135 final size:135
Alignment explanation
Indices: 10250867--10251138 Score: 517
Period size: 135 Copynumber: 2.0 Consensus size: 135
10250857 ACCTTAACTA
* *
10250867 AATTCTCATAAAAAAGTCTGTTCATTCCTAGAAGGTTTAACCAACCTTGATTTTTAAGATTATAT
1 AATTCTCATAAAAAAGTCTATTCATTCCTAGAAGGTTTAACCAACCTTGATCTTTAAGATTATAT
10250932 TCATAAGGAAACTCCAGTGTTCTAAGGTAGTGAAAGTCAATGGACTTCATAGGGATTACTTGAAG
66 TCATAAGGAAACTCCAGTGTTCTAAGGTAGTGAAAGTCAATGGACTTCATAGGGATTACTTGAAG
10250997 AAAGG
131 AAAGG
10251002 AATTCTCATAAAAAAGTCTATTCATTCCTAGAAGGTTTAACCAACCTTGATCTTTAAGATTATAT
1 AATTCTCATAAAAAAGTCTATTCATTCCTAGAAGGTTTAACCAACCTTGATCTTTAAGATTATAT
*
10251067 TCATAAGGAAACTCTAGTGTTCTAAGGTAGTGAAAGTCAATGGACTTCATAGGGATTACTTGAAG
66 TCATAAGGAAACTCCAGTGTTCTAAGGTAGTGAAAGTCAATGGACTTCATAGGGATTACTTGAAG
10251132 AAAGG
131 AAAGG
10251137 AA
1 AA
10251139 AATGAGTACT
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
135 134 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (135 bp):
AATTCTCATAAAAAAGTCTATTCATTCCTAGAAGGTTTAACCAACCTTGATCTTTAAGATTATAT
TCATAAGGAAACTCCAGTGTTCTAAGGTAGTGAAAGTCAATGGACTTCATAGGGATTACTTGAAG
AAAGG
Found at i:10255222 original size:25 final size:25
Alignment explanation
Indices: 10255167--10255216 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10255157 ATGTGGTTGC
10255167 AACCACATATATCAACTCGTGGCCT
1 AACCACATATATCAACTCGTGGCCT
10255192 AACCACATATATCAACTCGTGGCCT
1 AACCACATATATCAACTCGTGGCCT
10255217 TGCCACGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (25 bp):
AACCACATATATCAACTCGTGGCCT
Found at i:10256736 original size:14 final size:13
Alignment explanation
Indices: 10256697--10256764 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 13
10256687 GTCGATCCCT
10256697 TCTTTCTT-TTTC
1 TCTTTCTTCTTTC
*
10256709 TC-CTC-TCTTTTC
1 TCTTTCTTC-TTTC
10256721 TCTTGTCTTCTTTC
1 TCTT-TCTTCTTTC
*
10256735 TCTTTTTCTTCCTTC
1 TC--TTTCTTCTTTC
10256750 TCTTTCCTTCTTTC
1 TCTTT-CTTCTTTC
10256764 T
1 T
10256765 TCTCGGGTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
10 1 0.02
11 2 0.05
12 8 0.18
13 3 0.07
14 16 0.36
15 12 0.27
16 2 0.05
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.66
Consensus pattern (13 bp):
TCTTTCTTCTTTC
Found at i:10256766 original size:17 final size:15
Alignment explanation
Indices: 10256726--10256768 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
10256716 TTTTCTCTTG
*
10256726 TCTTCTTTCTCTTTT
1 TCTTCCTTCTCTTTT
10256741 TCTTCCTTCTCTTTCCT
1 TCTTCCTTCTCTTT--T
*
10256758 TCTTTCTTCTC
1 TCTTCCTTCTC
10256769 GGGTGAAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.54
17 11 0.46
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCTTCCTTCTCTTTT
Found at i:10282595 original size:58 final size:57
Alignment explanation
Indices: 10282505--10282624 Score: 213
Period size: 58 Copynumber: 2.1 Consensus size: 57
10282495 CATAATCATC
*
10282505 CAAAGTAGTTTGCATGTGATAGATTTATTTTATGCAATTTAATAAATACTATGCAATG
1 CAAAGTAGTATGCATGTGATAGATTTATTTTATGCAATTTAATAAATACTATGC-ATG
*
10282563 CAAAGTAGTATGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGCATG
1 CAAAGTAGTATGCATGTGATAGATTTATTTTATGCAATTTAATAAATACTATGCATG
10282620 CAAAG
1 CAAAG
10282625 ATGAGACCCT
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 8 0.13
58 52 0.87
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.38
Consensus pattern (57 bp):
CAAAGTAGTATGCATGTGATAGATTTATTTTATGCAATTTAATAAATACTATGCATG
Found at i:10314460 original size:42 final size:42
Alignment explanation
Indices: 10314360--10314486 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 42
10314350 TCATAACAAA
*
10314360 ATTAATATTTTAAATTTAAAAATTAAAATTATTAAAATTTTAATCAT
1 ATTAATATTTTAAA-TT-AAAA-TAAAA-TATTAATA-TTTAATCAT
* *
10314407 AGTAATA-TTTAAATTATAAATAAAATATTAATATTTAAT-TT
1 ATTAATATTTTAAATTA-AAATAAAATATTAATATTTAATCAT
*
10314448 ATTAATATTTTAAA-TAAATTATAAATTATTAATATTTAA
1 ATTAATATTTTAAATTAAA--ATAAAATATTAATATTTAA
10314487 AAATAAAAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
40 2 0.03
41 9 0.13
42 30 0.42
43 7 0.10
44 6 0.08
45 5 0.07
46 6 0.08
47 6 0.08
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (42 bp):
ATTAATATTTTAAATTAAAATAAAATATTAATATTTAATCAT
Found at i:10314480 original size:27 final size:26
Alignment explanation
Indices: 10314446--10314520 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
10314436 AATATTTAAT
*
10314446 TTATTAATATTTTAAATAAATTATAAA
1 TTATTAATATTTTAAATAAA-AATAAA
*
10314473 TTATTAATATTTAAAAATAAAAATAAA
1 TTATTAATATTT-TAAATAAAAATAAA
* *
10314500 TAATT-ATATATTATAATAAAA
1 TTATTAATATTTTA-AATAAAA
10314521 TGTATTGTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.02
26 12 0.29
27 21 0.51
28 7 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
TTATTAATATTTTAAATAAAAATAAA
Found at i:10314956 original size:19 final size:20
Alignment explanation
Indices: 10314928--10314972 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
10314918 TGAAGTTCTT
*
10314928 AACTTTTTTTAATT-AAGTCC
1 AACTTTTTTGAATTGAA-TCC
10314948 AACTTTTTTGAATTGAATCC
1 AACTTTTTTGAATTGAATCC
10314968 AACTT
1 AACTT
10314973 AATTAACCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.47
Consensus pattern (20 bp):
AACTTTTTTGAATTGAATCC
Found at i:10315134 original size:20 final size:20
Alignment explanation
Indices: 10315109--10315149 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
10315099 ATATTCATAA
10315109 ATCTTTTGA-AAATAAAAAAT
1 ATCTTTT-ACAAATAAAAAAT
*
10315129 ATCTTTTACAAATAATAAAT
1 ATCTTTTACAAATAAAAAAT
10315149 A
1 A
10315150 CTTAATACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (20 bp):
ATCTTTTACAAATAAAAAAT
Found at i:10315640 original size:2 final size:2
Alignment explanation
Indices: 10315633--10315661 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10315623 TGAAAATAAA
10315633 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10315662 ATACTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10315976 original size:75 final size:76
Alignment explanation
Indices: 10315891--10316040 Score: 207
Period size: 75 Copynumber: 2.0 Consensus size: 76
10315881 ATTACACCAT
10315891 ATCATCATAATCACT-ACATACATAACATAAAATAACAA-CTAACATT-TTCATTAATATTAATT
1 ATCATCATAATCA-TAACATACATAACATAAAATAACAATCTAACATTCTT-ATTAATATTAATT
*
10315953 AATGAACCATTAA
64 AATCAACCATTAA
** * **
10315966 ATCATCATAATCATAACATATGTAACATAAAATAACAATTTAGTATTCTTATTAATATTAATTAA
1 ATCATCATAATCATAACATACATAACATAAAATAACAATCTAACATTCTTATTAATATTAATTAA
10316031 TCAACCATTA
66 TCAACCATTA
10316041 GATATGATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
74 1 0.02
75 34 0.52
76 29 0.44
77 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (76 bp):
ATCATCATAATCATAACATACATAACATAAAATAACAATCTAACATTCTTATTAATATTAATTAA
TCAACCATTAA
Found at i:10327598 original size:3 final size:3
Alignment explanation
Indices: 10327592--10327646 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
10327582 GACTGCTCCC
* * *
10327592 CAT CAT CAT CAT CAA CAT CAT CAT CAT AAT CAT CAT CCT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
10327640 CAT CAT C
1 CAT CAT C
10327647 CTCTACATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:10328237 original size:17 final size:16
Alignment explanation
Indices: 10328211--10328244 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
10328201 CAGCAAGGGG
*
10328211 GAAGGGAAAGGGAAGT
1 GAAGGGAAAGGCAAGT
10328227 GAAGTGGAAAGGCAAGT
1 GAAG-GGAAAGGCAAGT
10328244 G
1 G
10328245 TTTGAATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.41, C:0.03, G:0.47, T:0.09
Consensus pattern (16 bp):
GAAGGGAAAGGCAAGT
Found at i:10328396 original size:3 final size:3
Alignment explanation
Indices: 10328378--10328412 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
10328368 CAATGAGATT
10328378 TTA TT- TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10328413 GTAATCTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:10329522 original size:18 final size:19
Alignment explanation
Indices: 10329496--10329532 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10329486 TGCTAATGTG
10329496 ATATATTAACAT-ATTATA
1 ATATATTAACATAATTATA
*
10329514 ATATGTTAACATAATTATA
1 ATATATTAACATAATTATA
10329533 TAAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (19 bp):
ATATATTAACATAATTATA
Found at i:10330244 original size:2 final size:2
Alignment explanation
Indices: 10330237--10330312 Score: 81
Period size: 2 Copynumber: 39.5 Consensus size: 2
10330227 GGTTAGTTAG
* *
10330237 AT AT AT AT AT AT AT AT AT AT AN A- AT AT AT -T GT -T AGT -T AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A-T
10330277 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10330313 AAGCTAATTT
Statistics
Matches: 66, Mismatches: 1, Indels: 14
0.81 0.01 0.17
Matches are distributed among these distances:
1 5 0.08
2 58 0.88
3 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10330300 original size:36 final size:39
Alignment explanation
Indices: 10330219--10330305 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 39
10330209 TTATACTAAA
10330219 ATAT-TATTGGTTAGTTAGATATATATATATATATATAT
1 ATATATATTGGTTAGTTAGATATATATATATATATATAT
*
10330257 ANAATATATT-GTTAGTTAGTATATATATATATATTATATAT
1 A-TATATATTGGTTAGTTAG-ATATATATATATA-TATATAT
10330298 ATATATAT
1 ATATATAT
10330306 ATATATAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
38 1 0.02
39 11 0.26
40 23 0.53
41 8 0.19
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.49
Consensus pattern (39 bp):
ATATATATTGGTTAGTTAGATATATATATATATATATAT
Found at i:10330703 original size:10 final size:10
Alignment explanation
Indices: 10330688--10330748 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 10
10330678 AGTATTATGC
10330688 ATATATGTAT
1 ATATATGTAT
10330698 ATATATGTAT
1 ATATATGTAT
*
10330708 AGTATACTATAAT
1 A-TATA-TGT-AT
*
10330721 ATAGTATAGTGT
1 ATA-TAT-GTAT
10330733 ATATATGTAT
1 ATATATGTAT
*
10330743 GTATAT
1 ATATAT
10330749 CTTAAAGGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
10 19 0.46
11 7 0.17
12 9 0.22
13 6 0.15
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (10 bp):
ATATATGTAT
Found at i:10331470 original size:23 final size:21
Alignment explanation
Indices: 10331427--10331470 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10331417 TAAAGAAAAG
*
10331427 CACACAATAAAATATTACTAA
1 CACACAATAAAATACTACTAA
*
10331448 CACACAATTAAAATGACTCCTAA
1 CACACAA-TAAAAT-ACTACTAA
10331471 ATTGCAAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.52, C:0.23, G:0.02, T:0.23
Consensus pattern (21 bp):
CACACAATAAAATACTACTAA
Found at i:10356293 original size:28 final size:29
Alignment explanation
Indices: 10356261--10356337 Score: 97
Period size: 28 Copynumber: 2.7 Consensus size: 29
10356251 ACTTAACATC
10356261 TTTGTCTTAATTTAAACAAGAAAAT-ATG
1 TTTGTCTTAATTTAAACAAGAAAATCATG
* *
10356289 TTTGTCTTAATTCAGACAA-AAAATCATG
1 TTTGTCTTAATTTAAACAAGAAAATCATG
*
10356317 GTTGTCTTAA-TTAAGACAAGA
1 TTTGTCTTAATTTAA-ACAAGA
10356338 GTTGTCTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 7 0.17
28 33 0.80
29 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (29 bp):
TTTGTCTTAATTTAAACAAGAAAATCATG
Found at i:10356343 original size:21 final size:21
Alignment explanation
Indices: 10356317--10356357 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10356307 AAAAATCATG
10356317 GTTGTCTTAA-TTAAGACAAGA
1 GTTGTCTTAATTTAA-ACAAGA
10356338 GTTGTCTTAATTTAAACAAG
1 GTTGTCTTAATTTAAACAAG
10356358 TAAATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (21 bp):
GTTGTCTTAATTTAAACAAGA
Done.