Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 173 of 352
Found at i:56545811 original size:21 final size:21
Alignment explanation
Indices: 56545785--56545832 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
56545775 GGGGTAGACT
56545785 AGGCTACATGGGAGCCCGAAG
1 AGGCTACATGGGAGCCCGAAG
56545806 AGGCTACATGGGAGCCCGAAG
1 AGGCTACATGGGAGCCCGAAG
56545827 AGGCTA
1 AGGCTA
56545833 TGCGAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.23, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGCTACATGGGAGCCCGAAG
Found at i:56547218 original size:55 final size:54
Alignment explanation
Indices: 56547109--56547364 Score: 231
Period size: 55 Copynumber: 4.8 Consensus size: 54
56547099 CATTAGGGTT
* ** * *
56547109 TAAGGATACCATGTAAGACCATGCCAAGGCATGAAAATTGCTAAGGTT-TCTAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATG-GCATTGGTAA-GTTCTATAAGG
* *
56547164 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGG
* * * *
56547219 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGG
1 -TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGG
* * * * *
56547272 CAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT-T-GAA--
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGG
* * * * *
56547322 -AAGGATACCATGCAAGACCATGACAAGTCATGGAAATGGTAAG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
56547365 GTACCCATGT
Statistics
Matches: 171, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 38 0.22
52 6 0.04
53 43 0.25
54 8 0.05
55 72 0.42
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGG
Found at i:56547316 original size:108 final size:110
Alignment explanation
Indices: 56547117--56547317 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
56547107 TTTAAGGATA
*
56547117 CCATGTAAGACCATGCCAAGGCATGAAAATTGCTAAGGTTTCTAAGGTAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGAAAATTGCTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
56547182 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
** * *
56547227 CCATGTAAGACCATGCCAAGGCATG-GCATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGAAAATTGCTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
56547289 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
56547318 TGAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.59
109 6 0.07
110 25 0.30
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGAAAATTGCTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:56548331 original size:27 final size:27
Alignment explanation
Indices: 56548283--56548441 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
56548273 GCGAGGCTGC
* *
56548283 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
56548310 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
56548336 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
56548363 CAGATAATTGTGGCATAGCTACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
56548390 CAGATATATGTGGCAGAGTCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
56548417 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
56548442 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 98 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:56548442 original size:54 final size:54
Alignment explanation
Indices: 56548298--56548444 Score: 242
Period size: 54 Copynumber: 2.7 Consensus size: 54
56548288 ATTGTGACGA
* *
56548298 AGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAG
1 AGTCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAG
* *
56548352 AGCCACCAGATCAGATAATTGTGGCATAGCTACCAGGACAGATATATGTGGCAG
1 AGTCACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAG
56548406 AGTCACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 AGTCACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
56548445 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
AGTCACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAG
Found at i:56550070 original size:26 final size:26
Alignment explanation
Indices: 56550037--56550144 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
56550027 TGAAATGCCC
*
56550037 ATCATGGAAGATTTACCTAGA-CCATT
1 ATCATGGAACATTTACCTA-ACCCATT
56550063 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
56550089 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
56550115 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
56550141 ATCA
1 ATCA
56550145 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 1 0.01
26 75 0.99
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:56550114 original size:52 final size:52
Alignment explanation
Indices: 56550037--56550144 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
56550027 TGAAATGCCC
56550037 ATCATGGAAGATTTACCTAGACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAAGATTTACCTAGACCATTATCATGGAACATTTACCTAACCCATT
*
56550089 ATCATGGAATATTTACCTA-ATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAAGATTTACCTAGA-CCATTATCATGGAACATTTACCTAACCCATT
56550141 ATCA
1 ATCA
56550145 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
51 1 0.02
52 53 0.98
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.32
Consensus pattern (52 bp):
ATCATGGAAGATTTACCTAGACCATTATCATGGAACATTTACCTAACCCATT
Found at i:56553442 original size:51 final size:50
Alignment explanation
Indices: 56553366--56553547 Score: 195
Period size: 51 Copynumber: 3.6 Consensus size: 50
56553356 GGATACCCGA
* *
56553366 TGACCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACAAAG
1 TGACCTTCACATAGTACCACACTTGT-GTCAAAGCTACCTTCTTCACAAAG
* *
56553417 TGACCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAG
1 TGACCTTCACATAGTACCACACTTGTG-TCAAAGCTA-CCTTCTTCACAAAG
** * * * * **
56553469 TGGTCTTCACATAGTACCACACTTATGACCAAGCTATC-TCTTCTTAAAG
1 TGACCTTCACATAGTACCACACTTGTGTCAAAGCTACCTTCTTCACAAAG
* * *
56553518 TGACTTTCACATAGTACCACATTTGAGTCA
1 TGACCTTCACATAGTACCACACTTGTGTCA
56553548 CTAGTGACTT
Statistics
Matches: 108, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 31 0.29
50 1 0.01
51 39 0.36
52 37 0.34
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (50 bp):
TGACCTTCACATAGTACCACACTTGTGTCAAAGCTACCTTCTTCACAAAG
Found at i:56553483 original size:52 final size:52
Alignment explanation
Indices: 56553373--56553538 Score: 195
Period size: 52 Copynumber: 3.3 Consensus size: 52
56553363 CGATGACCTG
* * *
56553373 CACATAGTACCACCCTTGT-AGTCAAAGCTA-CCTTCTTCACAAAGT-GACCTT
1 CACATAGTACCACACTTGTGA-CCAAAGCTATCTTTCTTCACAAAGTGGA-CTT
*
56553424 CACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGTCTT
1 CACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGACTT
*
56553476 CACATAGTACCACACTTATGACC-AAGCTATCTCTTCTT---AAAGT-GACTTT
1 CACATAGTACCACACTTGTGACCAAAGCTATCT-TTCTTCACAAAGTGGAC-TT
56553525 CACATAGTACCACA
1 CACATAGTACCACA
56553539 TTTGAGTCAC
Statistics
Matches: 104, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
48 2 0.02
49 21 0.20
51 35 0.34
52 45 0.43
53 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (52 bp):
CACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGACTT
Found at i:56553559 original size:34 final size:34
Alignment explanation
Indices: 56553516--56553589 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
56553506 CTCTTCTTAA
*
56553516 AGTGACTTTCACATAGTACCACATTTGAGTCACT
1 AGTGACTTTCACATAGTACCACACTTGAGTCACT
56553550 AGTGACTTTCACATAGTACCACACTTGAGTCACT
1 AGTGACTTTCACATAGTACCACACTTGAGTCACT
56553584 AGTGAC
1 AGTGAC
56553590 ATGTCACTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (34 bp):
AGTGACTTTCACATAGTACCACACTTGAGTCACT
Found at i:56560899 original size:15 final size:17
Alignment explanation
Indices: 56560863--56560901 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
56560853 ACAAGGAATC
56560863 CAAATTAAACAATAGAA
1 CAAATTAAACAATAGAA
*
56560880 AAAATTAAAC-A-AGAA
1 CAAATTAAACAATAGAA
56560895 CAAATTA
1 CAAATTA
56560902 GAATAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.50
16 1 0.05
17 9 0.45
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (17 bp):
CAAATTAAACAATAGAA
Found at i:56563643 original size:21 final size:21
Alignment explanation
Indices: 56563619--56563690 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
56563609 CCGTAAGGGT
*
56563619 TGAACTGAAGCTCATAAGAAC
1 TGAACTGAAGCTCATAAGAGC
* * * * *
56563640 TGAACGGAAACCCATAAGGGT
1 TGAACTGAAGCTCATAAGAGC
* * *
56563661 TAAACTAAAGCTCAAAAGAGC
1 TGAACTGAAGCTCATAAGAGC
56563682 TGAACTGAA
1 TGAACTGAA
56563691 ACCTAGAAAG
Statistics
Matches: 35, Mismatches: 16, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (21 bp):
TGAACTGAAGCTCATAAGAGC
Found at i:56563649 original size:42 final size:42
Alignment explanation
Indices: 56563603--56563693 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
56563593 AGTGCTAAAT
* * * *
56563603 GGAAACCCGTAAGGGTTGAACTGAAGCTCATAAGAACTGAAC
1 GGAAACCCATAAGGGTTAAACTAAAGCTCAAAAGAACTGAAC
*
56563645 GGAAACCCATAAGGGTTAAACTAAAGCTCAAAAGAGCTGAAC
1 GGAAACCCATAAGGGTTAAACTAAAGCTCAAAAGAACTGAAC
*
56563687 TGAAACC
1 GGAAACC
56563694 TAGAAAGGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (42 bp):
GGAAACCCATAAGGGTTAAACTAAAGCTCAAAAGAACTGAAC
Found at i:56563704 original size:42 final size:42
Alignment explanation
Indices: 56563603--56563705 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
56563593 AGTGCTAAAT
* * * *
56563603 GGAAACCC-GTAAGGGTTGAACTGAAGCTCATAAGAACTGAAC
1 GGAAACCCAG-AAAGGTTAAACTAAAGCTCAAAAGAACTGAAC
* * *
56563645 GGAAACCCATAAGGGTTAAACTAAAGCTCAAAAGAGCTGAAC
1 GGAAACCCAGAAAGGTTAAACTAAAGCTCAAAAGAACTGAAC
* *
56563687 TGAAACCTAGAAAGGTTAA
1 GGAAACCCAGAAAGGTTAA
56563706 TCTGAAACTC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
GGAAACCCAGAAAGGTTAAACTAAAGCTCAAAAGAACTGAAC
Found at i:56566417 original size:22 final size:22
Alignment explanation
Indices: 56566392--56566445 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
56566382 AACAAAAGAG
* *
56566392 TAACTTATAAAATATACTAATT
1 TAACTTATAAAATATAATAATA
*
56566414 TAACTTATAGAATATAATAATA
1 TAACTTATAAAATATAATAATA
*
56566436 AAACTTATAA
1 TAACTTATAA
56566446 TTAAGTAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (22 bp):
TAACTTATAAAATATAATAATA
Found at i:56569748 original size:38 final size:38
Alignment explanation
Indices: 56569706--56569787 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
56569696 GACATGTCGA
*
56569706 CCACACGGGCATGTAGATTTTAGGCCAGGCCATGTGGG
1 CCACACGGGCATGTAGATTTTAGGCCAGGCCATGTAGG
** * * *
56569744 CCACACGGGTGTGTGGATTTTGGGTCAGGCCATGTAGG
1 CCACACGGGCATGTAGATTTTAGGCCAGGCCATGTAGG
56569782 CCACAC
1 CCACAC
56569788 CGACAAGACC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.24, G:0.34, T:0.22
Consensus pattern (38 bp):
CCACACGGGCATGTAGATTTTAGGCCAGGCCATGTAGG
Found at i:56593470 original size:27 final size:28
Alignment explanation
Indices: 56593423--56593477 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
56593413 TTTAATGTTT
* *
56593423 AAAATTTGATAGTTTATATAAA-TTAAA
1 AAAATTTAATAGTTTAAATAAACTTAAA
56593450 AAAATTTAATA-TTTAAAATAAACTTAAA
1 AAAATTTAATAGTTT-AAATAAACTTAAA
56593478 TTAAGTATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.12
27 16 0.67
28 5 0.21
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (28 bp):
AAAATTTAATAGTTTAAATAAACTTAAA
Found at i:56600360 original size:40 final size:41
Alignment explanation
Indices: 56600311--56600417 Score: 121
Period size: 40 Copynumber: 2.6 Consensus size: 41
56600301 GGCTTGGAGC
*
56600311 AATTCTAACTTGTTTGAAAATCATTTTG-A-TGTGTTAAAAT
1 AATTTTAACTTGTTTGAAAATCATTTTGAATTG-GTTAAAAT
*
56600351 AATTTTAACTTGATTG-AAATCATTTTGAATTGGTTAAAAT
1 AATTTTAACTTGTTTGAAAATCATTTTGAATTGGTTAAAAT
* * * *
56600391 CATTTTCACTTGATTTTAAAATTATTT
1 AATTTTAACTTG-TTTGAAAATCATTT
56600418 CAAAATTTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 11 0.20
40 33 0.59
41 4 0.07
42 8 0.14
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (41 bp):
AATTTTAACTTGTTTGAAAATCATTTTGAATTGGTTAAAAT
Found at i:56600375 original size:20 final size:20
Alignment explanation
Indices: 56600316--56600405 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
56600306 GGAGCAATTC
*
56600316 TAACTTGTTTGAAAATCATTT
1 TAACTTGATT-AAAATCATTT
* *
56600337 TGA-TGTG-TTAAAATAATTT
1 TAACT-TGATTAAAATCATTT
*
56600356 TAACTTGATTGAAATCATTT
1 TAACTTGATTAAAATCATTT
*
56600376 TGAA-TTGGTTAAAATCATTT
1 T-AACTTGATTAAAATCATTT
*
56600396 TCACTTGATT
1 TAACTTGATT
56600406 TTAAAATTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
19 14 0.25
20 35 0.64
21 6 0.11
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (20 bp):
TAACTTGATTAAAATCATTT
Found at i:56603237 original size:46 final size:47
Alignment explanation
Indices: 56603172--56603385 Score: 283
Period size: 46 Copynumber: 4.6 Consensus size: 47
56603162 TTATCTTCGA
* * * * * *
56603172 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
56603218 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
* *
56603264 CACGTTGCCATGGTATCTTTCAACCATGGTTTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
* * **
56603310 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
*
56603356 CATGTTGCCATGGTATCTCTCAACCATGGT
1 CATGTTGCCATGGTATCTTTCAACCATGGT
56603386 ATCTCTCAAA
Statistics
Matches: 151, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 5 0.03
46 146 0.97
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.41
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGT
Found at i:56603384 original size:16 final size:16
Alignment explanation
Indices: 56603363--56603394 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56603353 CGTCATGTTG
56603363 CCATGGTATCTCTCAA
1 CCATGGTATCTCTCAA
56603379 CCATGGTATCTCTCAA
1 CCATGGTATCTCTCAA
56603395 ATCGTGGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.31
Consensus pattern (16 bp):
CCATGGTATCTCTCAA
Found at i:56606574 original size:44 final size:43
Alignment explanation
Indices: 56606519--56606799 Score: 221
Period size: 44 Copynumber: 6.4 Consensus size: 43
56606509 TGTTTTTATC
* *
56606519 CTGCTCTACTGCAACTTTAGAGAGATAAGGACTGTGACTTCGAT
1 CTGCTCCACTGCAACTTCAGAGAGATAA-GACTGTGACTTCGAT
* * *
56606563 CTGTTCCACTGCAACTTCAGGGAGATAAGATCTGCTAACTTC-AGT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGA-CTG-TGACTTCGA-T
* * *
56606608 CTGCTCCACTACAACTTCAGGGAGATAAGAATTGTGACTTCGAT
1 CTGCTCCACTGCAACTTCAGAGAGATAAG-ACTGTGACTTCGAT
*
56606652 CTGCTCCACTGCAACTTCA-AG-G-TAAGATCTGCTAACTTC-AGT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGA-CTG-TGACTTCGA-T
* * * * * * **
56606694 CTGCTCCAATTCAACTTTAGGGAGATAAGACTTGGGTAATTTTAT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGAC-TGTG-ACTTCGAT
* * *
56606739 CCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGCGACTTCGAT
1 -CTGCTCCACTGCAACTTCAGAGAGATAA-GACTGTGACTTCGAT
* *
56606784 CTGTTCCATTGCAACT
1 CTGCTCCACTGCAACT
56606800 CTAGCAAGAC
Statistics
Matches: 187, Mismatches: 34, Indels: 32
0.74 0.13 0.13
Matches are distributed among these distances:
40 1 0.01
41 7 0.04
42 24 0.13
43 4 0.02
44 68 0.36
45 53 0.28
46 28 0.15
47 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAGACTGTGACTTCGAT
Found at i:56606670 original size:89 final size:88
Alignment explanation
Indices: 56606519--56606768 Score: 306
Period size: 89 Copynumber: 2.8 Consensus size: 88
56606509 TGTTTTTATC
* * * * * *
56606519 CTGCTCTACTGCAACTTTAGAGAGATAAGGACTGTGACTTCGATCTGTTCCACTGCAACTTCAGG
1 CTGCTCCACTACAACTTTAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCA-G
56606584 GAGATAAGATCTGCTAACTTCAGT
65 GAGATAAGATCTGCTAACTTCAGT
*
56606608 CTGCTCCACTACAACTTCAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCA--
1 CTGCTCCACTACAACTTTAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCAGG
*
56606671 AGGTAAGATCTGCTAACTTCAGT
66 AGATAAGATCTGCTAACTTCAGT
* * * * * ** *
56606694 CTGCTCCAATTCAACTTTAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCA
1 CTGCTCCACTACAACTTTAGGGAGATAAGAATTGTG-ACTTCGAT-CTGCTCCACTGCAACTTCA
56606759 GAGAGATAAG
64 G-GAGATAAG
56606769 GATTGCGACT
Statistics
Matches: 138, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
86 53 0.38
87 5 0.04
88 18 0.13
89 56 0.41
91 6 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (88 bp):
CTGCTCCACTACAACTTTAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCAGG
AGATAAGATCTGCTAACTTCAGT
Found at i:56606716 original size:86 final size:87
Alignment explanation
Indices: 56606530--56606723 Score: 291
Period size: 86 Copynumber: 2.2 Consensus size: 87
56606520 TGCTCTACTG
* * *
56606530 CAACTTTAGAGAGATAAGGACTGTGACTTCGATCTGTTCCACTGCAACTTCAGGGAGATAAGATC
1 CAACTTTAGGGAGATAAGAACTGTGACTTCGATCTGCTCCACTGCAACTTCA--GAGATAAGATC
*
56606595 TGCTAACTTCAGTCTGCTCCACTA
64 TGCTAACTTCAGTCTGCTCCAATA
* * *
56606619 CAACTTCAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCA-AGGTAAGATCTG
1 CAACTTTAGGGAGATAAGAACTGTGACTTCGATCTGCTCCACTGCAACTTCAGAGATAAGATCTG
*
56606683 CTAACTTCAGTCTGCTCCAATT
66 CTAACTTCAGTCTGCTCCAATA
56606705 CAACTTTAGGGAGATAAGA
1 CAACTTTAGGGAGATAAGA
56606724 CTTGGGTAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
86 49 0.51
89 47 0.49
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (87 bp):
CAACTTTAGGGAGATAAGAACTGTGACTTCGATCTGCTCCACTGCAACTTCAGAGATAAGATCTG
CTAACTTCAGTCTGCTCCAATA
Found at i:56606768 original size:132 final size:134
Alignment explanation
Indices: 56606608--56606854 Score: 347
Period size: 132 Copynumber: 1.9 Consensus size: 134
56606598 TAACTTCAGT
* *
56606608 CTGCTCCACTACAACTTCAGGGAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACT-T-CA
1 CTGCTCCACTACAACTTCAGAGAGATAAGAATTGCGACTTCGATCTGCTCCACTGCAACTCTACA
** *
56606671 AGGTAAGATCTGCTAACTTCAGTCTGCTCCAAT-TCAACTTTAGGGAGATAAGACTTGGGTAATT
66 AGACAAGATCTGCTAACTTCAGTCTGCTCCAATGT-AACTTTAGGAAGATAAGACTTGGGTAATT
56606735 TTATC
130 TTATC
* * * * *
56606740 CTGCTCTACTGCAACTTCAGAGAGATAAGGATTGCGACTTCGATCTGTTCCATTGCAACTCTAGC
1 CTGCTCCACTACAACTTCAGAGAGATAAGAATTGCGACTTCGATCTGCTCCACTGCAACTCTA-C
* *
56606805 AAGACAAGATCTGCTATCTTCAGTTTGCTCCAATGTAACTTTAGGAAGAT
65 AAGACAAGATCTGCTAACTTCAGTCTGCTCCAATGTAACTTTAGGAAGAT
56606855 GAGATTTCCT
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
132 53 0.54
133 1 0.01
135 44 0.44
136 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (134 bp):
CTGCTCCACTACAACTTCAGAGAGATAAGAATTGCGACTTCGATCTGCTCCACTGCAACTCTACA
AGACAAGATCTGCTAACTTCAGTCTGCTCCAATGTAACTTTAGGAAGATAAGACTTGGGTAATTT
TATC
Found at i:56606897 original size:135 final size:134
Alignment explanation
Indices: 56606619--56606897 Score: 311
Period size: 135 Copynumber: 2.1 Consensus size: 134
56606609 TGCTCCACTA
* **
56606619 CAACTTCAG-G-GAGATAAGAATTGTGACTTCGATCTGCTCCACTGCAACTTCAAGGTAAGATCT
1 CAACTTCAGAGAGAGATAAGAATTGCGACTTCGATCTGCTCCACTGCAACTTCAAGACAAGATCT
* ** * * * **
56606682 GCTAACTTCAGTCTGCTCCAATTCAACTTTAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCT
66 GCTAACTTCAGTCTGCTCCAATTCAACTTTAGGAAGATAAGACTTGCCTAACTTCAACCCACTCT
56606747 ACTG
131 ACTG
* * *
56606751 CAACTTC--AGAGAGATAAGGATTGCGACTTCGATCTGTTCCATTGCAACTCTAGCAAGACAAGA
1 CAACTTCAGAGAGAGATAAGAATTGCGACTTCGATCTGCTCCACTGCAACT-T--CAAGACAAGA
* * * *
56606814 TCTGCTATCTTCAGTTTGCTCCAATGT-AACTTTAGGAAGATGAGA-TTTCCT-ACTTCAACCCA
63 TCTGCTAACTTCAGTCTGCTCCAAT-TCAACTTTAGGAAGATAAGACTTGCCTAACTTCAACCCA
56606876 CTCTACTG
127 CTCTACTG
56606884 CAACTTCAGAGAGA
1 CAACTTCAGAGAGA
56606898 TGAGGTTTGC
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
131 1 0.01
132 42 0.35
133 22 0.18
134 3 0.02
135 52 0.43
136 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (134 bp):
CAACTTCAGAGAGAGATAAGAATTGCGACTTCGATCTGCTCCACTGCAACTTCAAGACAAGATCT
GCTAACTTCAGTCTGCTCCAATTCAACTTTAGGAAGATAAGACTTGCCTAACTTCAACCCACTCT
ACTG
Found at i:56619540 original size:27 final size:27
Alignment explanation
Indices: 56619509--56619714 Score: 263
Period size: 27 Copynumber: 7.6 Consensus size: 27
56619499 AAATATTTTA
**
56619509 GGGTATTTCAGTAATTTTACAAATC-AG
1 GGGTATTTTGGTAATTTTACAAA-CAAG
*
56619536 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACAAG
* *
56619563 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACAAG
*
56619590 GGGTATTTTGGTAAGTTTACAAACAAG
1 GGGTATTTTGGTAATTTTACAAACAAG
* * *
56619617 TGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACAAG
* *
56619644 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACAAG
**
56619671 GGGTATTTTGGTAATTTTGTAAACCAA-
1 GGGTATTTTGGTAATTTTACAAA-CAAG
56619698 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
56619715 GGTAAACTAA
Statistics
Matches: 157, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 154 0.98
28 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACAAG
Found at i:56619648 original size:81 final size:81
Alignment explanation
Indices: 56619509--56619714 Score: 290
Period size: 81 Copynumber: 2.5 Consensus size: 81
56619499 AAATATTTTA
** * * * *
56619509 GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT-G
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAG
56619573 ATAATTTTACAAACCAG
66 -TAATTTTACAAACCAG
* *
56619590 GGGTATTTTGGTAAGTTTACAAA-CAAGTGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTA
1 GGGTATTTTGGTAATTTTACAAACCAAG-GGTATTTTGGTAATTTTACAAACAAAGGGTATTTTA
56619654 GTAATTTTACAAACCAG
65 GTAATTTTACAAACCAG
**
56619671 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTT
56619715 GGTAAACTAA
Statistics
Matches: 112, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
80 3 0.03
81 104 0.93
82 5 0.04
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAG
TAATTTTACAAACCAG
Found at i:56619729 original size:26 final size:27
Alignment explanation
Indices: 56619619--56619730 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 27
56619609 CAAACAAGTG
** * *
56619619 GTATTTTGGTAATTTTATAAACAAAGG
1 GTATTTTGGTAATTTGGTAAACCAAGA
* *** * *
56619646 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTGGTAAACCAAGA
* *
56619673 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTGGTAAACCAAGA
*
56619700 GTATTTTGGTAATTTGGTAAACTAA-A
1 GTATTTTGGTAATTTGGTAAACCAAGA
56619726 GTATT
1 GTATT
56619731 CTAAATAGGG
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 5 0.07
27 69 0.93
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (27 bp):
GTATTTTGGTAATTTGGTAAACCAAGA
Found at i:56621368 original size:46 final size:46
Alignment explanation
Indices: 56621295--56621418 Score: 203
Period size: 46 Copynumber: 2.7 Consensus size: 46
56621285 GGCTATTACA
* * * *
56621295 GTATCTTTCAACCATGATCATATACATTTCATATCATGTTGCTATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
*
56621341 GTATCTTTCAACTATGGTCTTACACATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
56621387 GTATCTTTCAACCATGGTCTTACACATTTCAT
1 GTATCTTTCAACCATGGTCTTACACATTTCAT
56621419 TTCAGAGAGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
Found at i:56623276 original size:11 final size:11
Alignment explanation
Indices: 56623260--56623291 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
56623250 CTTTATATAC
56623260 TAATAAAATAA
1 TAATAAAATAA
56623271 TAATAAAATAA
1 TAATAAAATAA
56623282 TAATAAAATA
1 TAATAAAATA
56623292 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:56623308 original size:11 final size:11
Alignment explanation
Indices: 56623263--56623320 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
56623253 TATATACTAA
*
56623263 TAAAATAATAA
1 TAAAATAATAT
*
56623274 TAAAATAATAA
1 TAAAATAATAT
*
56623285 TAAAATATTTTAT
1 TAAAATA--ATAT
*
56623298 TAAAATATTAT
1 TAAAATAATAT
56623309 TAAAATAATAT
1 TAAAATAATAT
56623320 T
1 T
56623321 TAACTAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
11 33 0.79
13 9 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:56623344 original size:11 final size:11
Alignment explanation
Indices: 56623262--56623345 Score: 52
Period size: 11 Copynumber: 7.7 Consensus size: 11
56623252 TTATATACTA
*
56623262 ATAAAATAATA
1 ATAAAATAATT
*
56623273 ATAAAATAATA
1 ATAAAATAATT
*
56623284 ATAAAATATTTT
1 ATAAAATA-ATT
56623296 ATTAAAAT-ATT
1 A-TAAAATAATT
56623307 ATTAAAATAA-T
1 A-TAAAATAATT
* *
56623318 ATTTAACTAA-T
1 A-TAAAATAATT
56623329 -T-AAATAATT
1 ATAAAATAATT
56623338 ATAAAATA
1 ATAAAATA
56623346 TCAAAATATC
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
8 5 0.08
9 2 0.03
10 1 0.02
11 44 0.72
12 3 0.05
13 6 0.10
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (11 bp):
ATAAAATAATT
Found at i:56628210 original size:40 final size:40
Alignment explanation
Indices: 56628127--56628312 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
56628117 TTGAATGATG
* * * *
56628127 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
*
56628167 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56628207 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56628247 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56628288 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56628313 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.90
41 12 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56632790 original size:11 final size:11
Alignment explanation
Indices: 56632774--56632802 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
56632764 ATGCTAGTGC
56632774 ATTATAATTTT
1 ATTATAATTTT
56632785 ATTATAATTTT
1 ATTATAATTTT
56632796 ATTATAA
1 ATTATAA
56632803 CTTATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTATAATTTT
Found at i:56636371 original size:19 final size:20
Alignment explanation
Indices: 56636333--56636371 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
56636323 AATAAATAGT
* *
56636333 TAATAATATATATTTTTAAA
1 TAATAATATAAATTTATAAA
56636353 TAATAA-ATAAATTTATAAA
1 TAATAATATAAATTTATAAA
56636372 AAATTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATAATATAAATTTATAAA
Found at i:56639989 original size:18 final size:18
Alignment explanation
Indices: 56639966--56640003 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
56639956 AATATATATT
56639966 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
56639984 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
56640002 AA
1 AA
56640004 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:56639996 original size:13 final size:13
Alignment explanation
Indices: 56639980--56640004 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56639970 CAAGTACCCA
56639980 ACCCAACCCAATT
1 ACCCAACCCAATT
56639993 ACCCAACCCAAT
1 ACCCAACCCAAT
56640005 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:56640042 original size:5 final size:6
Alignment explanation
Indices: 56640029--56640081 Score: 70
Period size: 6 Copynumber: 8.5 Consensus size: 6
56640019 ATAATTTAAT
* *
56640029 AAATAA AAATAA AAATCTAA AACTAA AACTAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
56640079 AAA
1 AAA
56640082 ACATATAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 38 0.88
8 5 0.12
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:56651672 original size:101 final size:101
Alignment explanation
Indices: 56651541--56651754 Score: 331
Period size: 101 Copynumber: 2.1 Consensus size: 101
56651531 CCATAGCCTT
* * *
56651541 ACCATGGTCTTACAATCGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCC
1 ACCATGGTCTTACAATCATAGTGCCATAACCCAATTATGATCTTATCATCAAAATGCCATAGCCC
**
56651606 TGCTATGATCTTACATATAAACACTGCCATGGTCCA
66 AACTATGATCTTACATATAAACACTGCCATGGTCCA
* * *
56651642 ACCATGGTCTTAC-GTCCATAGTGCTATAACCCAATTATGATCTTATCATCAAAATGTCATAGCC
1 ACCATGGTCTTACAAT-CATAGTGCCATAACCCAATTATGATCTTATCATCAAAATGCCATAGCC
*
56651706 CAACTATGGTCTTACATATAAACACTGCCATGGTCCA
65 CAACTATGATCTTACATATAAACACTGCCATGGTCCA
56651743 ACCATGGTCTTA
1 ACCATGGTCTTA
56651755 TGTTTGAATA
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 1 0.01
101 102 0.99
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (101 bp):
ACCATGGTCTTACAATCATAGTGCCATAACCCAATTATGATCTTATCATCAAAATGCCATAGCCC
AACTATGATCTTACATATAAACACTGCCATGGTCCA
Found at i:56652867 original size:139 final size:139
Alignment explanation
Indices: 56652705--56653316 Score: 870
Period size: 139 Copynumber: 4.4 Consensus size: 139
56652695 ACAGTCCTTA
* *
56652705 AAACAACATATTTTTTTGCTGCATTAATACACCAAATAACAGTCCTTAAAACAACATATTTTTCT
1 AAACAACA-ATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCT
* * *
56652770 GCTGCATTAATACACCAAACATCAGTCCTTAAAACACCATAAATATAGTCACTTAGACAACATTA
65 GCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATAAATACAGTCACTTAGACAACATTA
56652835 ATTGACATCT
130 ATTGACATCT
* *
56652845 AAACAACAATTTTTCTGCTGCATTAATACACTAAACAACAGTCCTTAAAACAACATATTTTTTTG
1 AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCTG
* * * * * *
56652910 TTGCATTAATACACCAAATAACAGTCCTTAAAATAGCATAAATATAGTCACTTAGGCAACATTAA
66 CTGCATTAATACACCAAACAACAGTCCTTAAAACAACATAAATACAGTCACTTAGACAACATTAA
** *
56652975 TTGACGCCA
131 TTGACATCT
* * * * *
56652984 AAACAACAATTTTTCTTCTGCAGTAATACACCAAACAGCTGCCCTTAAAACAACATATTTTTCTG
1 AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCTG
* * * *
56653049 CTACATTAATACACCAAACAGCAGTCCTTCAAACAAAATAAATACAGTCACTTAGACAACATTAA
66 CTGCATTAATACACCAAACAACAGTCCTTAAAACAACATAAATACAGTCACTTAGACAACATTAA
56653114 TTGACATCT
131 TTGACATCT
** * * * * **
56653123 AAACAATGATTTTTCTGCTGCATTAATACATCAAAGAGCAGTCCTTAAAACAATATATTTTTCCA
1 AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCTG
*
56653188 CTGCATTAATACACCAAACAACAATCCTTAAAACAACATAAATACAGTCACTTAGACAACATTAA
66 CTGCATTAATACACCAAACAACAGTCCTTAAAACAACATAAATACAGTCACTTAGACAACATTAA
56653253 TTGACGA-CT
131 TTGAC-ATCT
*
56653262 AAAAAACAATTTTTCTGCTGCATTAATACACCAAA-AA-AGTCCTTAAAACAACATA
1 AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATA
56653317 AATACACCAC
Statistics
Matches: 416, Mismatches: 55, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
137 17 0.04
138 1 0.00
139 389 0.94
140 9 0.02
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (139 bp):
AAACAACAATTTTTCTGCTGCATTAATACACCAAACAACAGTCCTTAAAACAACATATTTTTCTG
CTGCATTAATACACCAAACAACAGTCCTTAAAACAACATAAATACAGTCACTTAGACAACATTAA
TTGACATCT
Found at i:56652881 original size:91 final size:92
Alignment explanation
Indices: 56652630--56652902 Score: 297
Period size: 91 Copynumber: 2.9 Consensus size: 92
56652620 ATAAATTTAC
* ** * *
56652630 AGTCACTTAGATAACATTAATTGATGTCTAAACAAC-ATTTTTTTGCTGCATTAAAACACCAAAC
1 AGTCACTTAGACAACATTAATTGACATCTAAACAACAATTTTTCTGCTGCATTAATACACCAAAC
** *
56652694 AACAGTCCTTAAAACAACATATTTTTT
66 AACAGTCCTTAAAACAACATATAATAT
* * * *
56652721 TGCTGCA-TTAATACACCA--AA-TAACAGTCCTTAAAACAACATATTTTTCTGCTGCATTAATA
1 AG-T-CACTT-AGACAACATTAATTGACA-T-C-T-AAACAACA-ATTTTTCTGCTGCATTAATA
* *
56652782 CACCAAACATCAGTCCTTAAAACACCATA-AATAT
58 CACCAAACAACAGTCCTTAAAACAACATATAATAT
*
56652816 AGTCACTTAGACAACATTAATTGACATCTAAACAACAATTTTTCTGCTGCATTAATACACTAAAC
1 AGTCACTTAGACAACATTAATTGACATCTAAACAACAATTTTTCTGCTGCATTAATACACCAAAC
56652881 AACAGTCCTTAAAACAACATAT
66 AACAGTCCTTAAAACAACATAT
56652903 TTTTTTGTTG
Statistics
Matches: 147, Mismatches: 21, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
90 2 0.01
91 50 0.34
92 12 0.08
93 17 0.12
94 11 0.07
95 6 0.04
96 49 0.33
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (92 bp):
AGTCACTTAGACAACATTAATTGACATCTAAACAACAATTTTTCTGCTGCATTAATACACCAAAC
AACAGTCCTTAAAACAACATATAATAT
Found at i:56652942 original size:48 final size:48
Alignment explanation
Indices: 56652659--56652810 Score: 245
Period size: 48 Copynumber: 3.2 Consensus size: 48
56652649 ATTGATGTCT
*
56652659 AAACAAC--ATTTTTTTGCTGCATTAAAACACCAAACAACAGTCCTTA
1 AAACAACATATTTTTTTGCTGCATTAATACACCAAACAACAGTCCTTA
*
56652705 AAACAACATATTTTTTTGCTGCATTAATACACCAAATAACAGTCCTTA
1 AAACAACATATTTTTTTGCTGCATTAATACACCAAACAACAGTCCTTA
* *
56652753 AAACAACATATTTTTCTGCTGCATTAATACACCAAACATCAGTCCTTA
1 AAACAACATATTTTTTTGCTGCATTAATACACCAAACAACAGTCCTTA
*
56652801 AAACACCATA
1 AAACAACATA
56652811 AATATAGTCA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
46 7 0.07
48 91 0.93
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.30
Consensus pattern (48 bp):
AAACAACATATTTTTTTGCTGCATTAATACACCAAACAACAGTCCTTA
Found at i:56653059 original size:48 final size:47
Alignment explanation
Indices: 56652983--56653084 Score: 141
Period size: 48 Copynumber: 2.1 Consensus size: 47
56652973 AATTGACGCC
* * *
56652983 AAAACAACAATTTTTCTTCTGCAGTAATACACCAAACAGCTGCCCTT
1 AAAACAACAATTTTTCTGCTACAGTAATACACCAAACAGCAGCCCTT
* *
56653030 AAAACAACATATTTTTCTGCTACATTAATACACCAAACAGCAGTCCTT
1 AAAACAACA-ATTTTTCTGCTACAGTAATACACCAAACAGCAGCCCTT
*
56653078 CAAACAA
1 AAAACAA
56653085 AATAAATACA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 9 0.19
48 39 0.81
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.26
Consensus pattern (47 bp):
AAAACAACAATTTTTCTGCTACAGTAATACACCAAACAGCAGCCCTT
Found at i:56653193 original size:48 final size:47
Alignment explanation
Indices: 56653123--56653223 Score: 130
Period size: 48 Copynumber: 2.1 Consensus size: 47
56653113 ATTGACATCT
** * * * *
56653123 AAACAATGATTTTTCTGCTGCATTAATACATCAAAGAGCAGTCCTTA
1 AAACAATGATTTTTCCACTGCATTAATACACCAAACAACAATCCTTA
*
56653170 AAACAATATATTTTTCCACTGCATTAATACACCAAACAACAATCCTTA
1 AAACAAT-GATTTTTCCACTGCATTAATACACCAAACAACAATCCTTA
56653218 AAACAA
1 AAACAA
56653224 CATAAATACA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 7 0.15
48 39 0.85
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.29
Consensus pattern (47 bp):
AAACAATGATTTTTCCACTGCATTAATACACCAAACAACAATCCTTA
Found at i:56657478 original size:17 final size:17
Alignment explanation
Indices: 56657456--56657488 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56657446 TGTTTTTACA
56657456 CATAATTTAGCGTTAGG
1 CATAATTTAGCGTTAGG
*
56657473 CATAATTTAGTGTTAG
1 CATAATTTAGCGTTAG
56657489 CTGACCTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (17 bp):
CATAATTTAGCGTTAGG
Found at i:56661174 original size:14 final size:13
Alignment explanation
Indices: 56661148--56661232 Score: 52
Period size: 13 Copynumber: 6.5 Consensus size: 13
56661138 TATCCGATGT
56661148 TCTATTTCATATA
1 TCTATTTCATATA
56661161 TCTATTTCCATATA
1 TCTATTT-CATATA
* * *
56661175 ACCAATTCATATA
1 TCTATTTCATATA
* *
56661188 -CCATTTTCGTATA
1 TCTA-TTTCATATA
*
56661201 ACTGA-TTCATATAA
1 TCT-ATTTCATAT-A
56661215 TC-ATTTCATATA
1 TCTATTTCATATA
56661227 T-TATTT
1 TCTATTT
56661233 TTCATATAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
12 10 0.18
13 33 0.58
14 13 0.23
15 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (13 bp):
TCTATTTCATATA
Found at i:56661200 original size:26 final size:27
Alignment explanation
Indices: 56661153--56661226 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
56661143 GATGTTCTAT
*
56661153 TTCATATATCTATTTCCATATAACCAA
1 TTCATATATCCATTTCCATATAACCAA
* * **
56661180 TTCATATA-CCATTTTCGTATAACTGA
1 TTCATATATCCATTTCCATATAACCAA
56661206 TTCATATAAT-CATTT-CATATA
1 TTCATAT-ATCCATTTCCATATA
56661227 TTATTTTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 25 0.64
27 14 0.36
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.43
Consensus pattern (27 bp):
TTCATATATCCATTTCCATATAACCAA
Found at i:56661253 original size:40 final size:39
Alignment explanation
Indices: 56661152--56661278 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
56661142 CGATGTTCTA
* * **
56661152 TTTCATATATCTATTTCCATATAACCAATTCATATACCA-T
1 TTTCATATAACTATTT--ATATAACCATTTCATATATTATT
* * *
56661192 TTTCGTATAACTGATTCATATAATCATTTCATATATTATT
1 TTTCATATAACT-ATTTATATAACCATTTCATATATTATT
* *
56661232 TTTCATATAACCTATTTATATAACCATTACCTATATTATT
1 TTTCATATAA-CTATTTATATAACCATTTCATATATTATT
56661272 TTTCATA
1 TTTCATA
56661279 AACATTATAA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 17 0.24
40 50 0.69
41 5 0.07
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.47
Consensus pattern (39 bp):
TTTCATATAACTATTTATATAACCATTTCATATATTATT
Found at i:56661409 original size:13 final size:13
Alignment explanation
Indices: 56661393--56661452 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
56661383 ATCTATTTTC
56661393 CATATAATTGATT
1 CATATAATTGATT
**
56661406 CATATAA-CCATTT
1 CATATAATTGA-TT
*
56661419 CATATATCATT-TTT
1 CATATA--ATTGATT
56661433 CATATAATTGATT
1 CATATAATTGATT
56661446 CATATAA
1 CATATAA
56661453 CGACTACCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
12 4 0.11
13 24 0.65
14 8 0.22
15 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.45
Consensus pattern (13 bp):
CATATAATTGATT
Found at i:56661439 original size:40 final size:40
Alignment explanation
Indices: 56661374--56661478 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
56661364 CCAATGTTCT
* *
56661374 ATTTCATTTATCTATTTTCCATATAATTGATTCATATAACC
1 ATTTCATATATC-ATTTTTCATATAATTGATTCATATAACC
*
56661415 ATTTCATATATCATTTTTCATATAATTGATTCATATAACG
1 ATTTCATATATCATTTTTCATATAATTGATTCATATAACC
* * *
56661455 ACTACCTATATCATTTTTCATATA
1 ATTTCATATATCATTTTTCATATA
56661479 CATATTTATC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 47 0.81
41 11 0.19
ACGTcount: A:0.33, C:0.16, G:0.03, T:0.48
Consensus pattern (40 bp):
ATTTCATATATCATTTTTCATATAATTGATTCATATAACC
Found at i:56666695 original size:3 final size:3
Alignment explanation
Indices: 56666687--56666718 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
56666677 ATTAAAGATA
*
56666687 TGG TGG TGG TGG TGG TGG TGG TGG TAG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
56666719 ATGGATGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.62, T:0.34
Consensus pattern (3 bp):
TGG
Found at i:56668073 original size:8 final size:8
Alignment explanation
Indices: 56668046--56668101 Score: 67
Period size: 8 Copynumber: 7.0 Consensus size: 8
56668036 AACTGCAAAG
56668046 GCTGAAAA
1 GCTGAAAA
**
56668054 GCCAAAAA
1 GCTGAAAA
*
56668062 GCTGAAAG
1 GCTGAAAA
56668070 GCTGAAAA
1 GCTGAAAA
* *
56668078 GCCGAAAG
1 GCTGAAAA
56668086 GCTGAAAA
1 GCTGAAAA
56668094 GCTGAAAA
1 GCTGAAAA
56668102 AGTGGGTTGA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.48, C:0.16, G:0.27, T:0.09
Consensus pattern (8 bp):
GCTGAAAA
Found at i:56668074 original size:24 final size:24
Alignment explanation
Indices: 56668042--56668101 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
56668032 GTGAAACTGC
56668042 AAAGGCTGAAAAGCCAAAAAGCTG
1 AAAGGCTGAAAAGCCAAAAAGCTG
* *
56668066 AAAGGCTGAAAAGCCGAAAGGCTG
1 AAAGGCTGAAAAGCCAAAAAGCTG
*
56668090 AAAAGCTGAAAA
1 AAAGGCTGAAAA
56668102 AGTGGGTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.50, C:0.15, G:0.27, T:0.08
Consensus pattern (24 bp):
AAAGGCTGAAAAGCCAAAAAGCTG
Found at i:56671674 original size:131 final size:131
Alignment explanation
Indices: 56671293--56671677 Score: 334
Period size: 131 Copynumber: 2.9 Consensus size: 131
56671283 CATTCATTCA
* * * * * * *
56671293 AAAAATTCTTTAAAACGAAGGCGA-GATTTGATATTTGGCAATTTGCGGAATCGTGCCCTAACGT
1 AAAAATCCTTTAAAACGAAGGCGATG-TTCGATGTTTGGCTATTTG-AGAATCGAGCCCTATCGT
* * * **
56671357 GCTGGGTTGCAATTTCTCGTTTGCTT-AAAATAATCAAAAATCCCTTCAAAATTTCACTCAGGTC
64 GCTGGGTTGCGATTTCTCGTTTG-TTCAAAACAATCGAAAATCCCTTCGGAATTTCACTCAGGTC
56671421 TTCT
128 TTCT
** ** * ** * * *
56671425 AAAAATCCTTTAAAACGAAGGTAATACTCGGTGTTT-AATAATTCAGGAATC-ATGCCTTATCGT
1 AAAAATCCTTTAAAACGAAGGCGATGTTCGATGTTTGGCTATTTGA-GAATCGA-GCCCTATCGT
* * * * * * * *
56671488 ACTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGG-TTTTCATTCATGT-
64 GCTGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAA-AATCCCTTCGGAATTTCACTCAGGTC
*
56671551 TTATT
128 TT-CT
56671556 AAAAA-CCTTTCAAAACGAAGGCGATGTTCGATGTTTGGCTATTTGAGAATCGAGCCCTATCGTG
1 AAAAATCCTTT-AAAACGAAGGCGATGTTCGATGTTTGGCTATTTGAGAATCGAGCCCTATCGTG
* * * *
56671620 CTGGGTTGCGCTTTTTCATTTGTTCAAAACAATCGAAGATCCCTTCGGAATTTCACTC
65 CTGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAAAATCCCTTCGGAATTTCACTC
56671678 GTATTTCCTA
Statistics
Matches: 191, Mismatches: 52, Indels: 21
0.72 0.20 0.08
Matches are distributed among these distances:
130 16 0.08
131 136 0.71
132 39 0.20
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (131 bp):
AAAAATCCTTTAAAACGAAGGCGATGTTCGATGTTTGGCTATTTGAGAATCGAGCCCTATCGTGC
TGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAAAATCCCTTCGGAATTTCACTCAGGTCTTC
T
Found at i:56676323 original size:26 final size:26
Alignment explanation
Indices: 56676294--56676349 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
56676284 TGATACAAAT
*
56676294 TGATAATGGGTTATGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56676320 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56676346 TGAT
1 TGAT
56676350 GGGAATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.39
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56677988 original size:27 final size:26
Alignment explanation
Indices: 56677948--56678052 Score: 138
Period size: 27 Copynumber: 3.9 Consensus size: 26
56677938 AGGAAGCGTC
*
56677948 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
56677975 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
56678002 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* * *
56678029 CTGGTGACTCCGTCACAATATCTG
1 CTGGTGGCTCTGCCACAATATCTG
56678053 GCAGCCTCGT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 62 0.89
28 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:56686013 original size:4 final size:4
Alignment explanation
Indices: 56686006--56686039 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
56685996 GACATTTATG
56686006 CATT CATT CATT CATT CATT CATT CATT GCATT C
1 CATT CATT CATT CATT CATT CATT CATT -CATT C
56686040 CTATAATCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.24, C:0.26, G:0.03, T:0.47
Consensus pattern (4 bp):
CATT
Found at i:56693479 original size:44 final size:41
Alignment explanation
Indices: 56693368--56693490 Score: 130
Period size: 40 Copynumber: 3.0 Consensus size: 41
56693358 AAATATTATG
* *
56693368 CTTAAAAAAGGAA-ATCAA-GATGAAAACCCGAAAAGGGCAT
1 CTTAAAAAA-AAAGATCAAGGATGAAAACCCGAAAAGGGCGT
56693408 CTTAAAAAAAAAGATCAAGG-TGAAAACCCGAAAAGGGCGT
1 CTTAAAAAAAAAGATCAAGGATGAAAACCCGAAAAGGGCGT
* *
56693448 CTTGATTAACACAAAAGAT-TAGGATGAAAACCCG-AAAGGGCGT
1 CTT-A--AA-AAAAAAGATCAAGGATGAAAACCCGAAAAGGGCGT
56693491 TCTAATGAAG
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
39 2 0.03
40 36 0.50
41 2 0.03
43 14 0.19
44 18 0.25
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (41 bp):
CTTAAAAAAAAAGATCAAGGATGAAAACCCGAAAAGGGCGT
Found at i:56694598 original size:15 final size:15
Alignment explanation
Indices: 56694578--56694606 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56694568 GCTGAGGTAT
56694578 TTTCAATTTCTATTC
1 TTTCAATTTCTATTC
56694593 TTTCAATTTCTATT
1 TTTCAATTTCTATT
56694607 TTAATTCATG
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:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTCAATTTCTATTC
Found at i:56694642 original size:178 final size:178
Alignment explanation
Indices: 56694444--56695380 Score: 1138
Period size: 178 Copynumber: 5.2 Consensus size: 178
56694434 TATGTTTCAA
* *
56694444 AAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGAACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* *
56694509 AATTTCTGCTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
66 TATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
56694574 GTATTTTCAATTTCTATTCTTTCAATTTCTATTTTAATTCATGTTTTC
131 GTATTTTCAATTTCTGTTCTTTCAATTTCTATTTTAATTCATGTTTTC
56694622 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
** *
56694687 TATTTCTGCTTTTCAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCAGGAAACGCTGAG
66 TATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* *
56694752 GTATTTTCAATTTTTGTTCTTTCAATTTCTGTTTTAATTCATGTTTTC
131 GTATTTTCAATTTCTGTTCTTTCAATTTCTATTTTAATTCATGTTTTC
*
56694800 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCTATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
56694865 TATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
66 TATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
56694930 GTATTTTCAATTTCTGTTCTTCCAATTTCTATTTTAATTCATGTTTTC
131 GTATTTTCAATTTCTGTTCTTTCAATTTCTATTTTAATTCATGTTTTC
* * *
56694978 GAAAATCAACTCATATTGCGAGAGTTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* *
56695043 TGTTTTTTTCCAAT-CTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
66 ----TATTT-C--TGC-----TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * * ** * ** *
56695107 GGCACATGCCGAGGTATTTTCAAATTCTG-TCTTTCAAACTCTGTTTTTAATTTTTACTTTTC
119 GG-ACACGCTGAGGTATTTTCAATTTCTGTTCTTTCAATTTCT-ATTTTAATTCAT-GTTTTC
* * * *
56695169 AAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGG-CTCGCATGTCGAGGTATTTTCA
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC---T-GAGGTAATTTCA
* * *
56695232 ATTTCTGTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTC-
61 ATTTC------T-ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * ** *
56695296 GGCTCAC-ATGATGG---GGT--A----T-TTC---CAATTTCTGTTTTAATTCATGTTTTC
119 GG-ACACGCTGA-GGTATTTTCAATTTCTGTTCTTTCAATTTCTATTTTAATTCATGTTTTC
56695344 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
56695381 TTTAATTTCT
Statistics
Matches: 679, Mismatches: 54, Indels: 56
0.86 0.07 0.07
Matches are distributed among these distances:
174 31 0.05
175 10 0.01
176 9 0.01
177 6 0.01
178 402 0.59
180 3 0.00
182 4 0.01
183 1 0.00
184 2 0.00
185 1 0.00
186 1 0.00
188 2 0.00
189 62 0.09
190 77 0.11
191 11 0.02
192 30 0.04
193 1 0.00
194 18 0.03
196 5 0.01
197 3 0.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (178 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTATTTTCAATTTCTGTTCTTTCAATTTCTATTTTAATTCATGTTTTC
Found at i:56694729 original size:79 final size:79
Alignment explanation
Indices: 56694617--56694764 Score: 260
Period size: 79 Copynumber: 1.9 Consensus size: 79
56694607 TTAATTCATG
* *
56694617 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGAAACGCTGAGGTAATTTCA
56694682 ATTTCTATTTCTGC
66 ATTTCTATTTCTGC
* *
56694696 TTTTCAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCAGGAAACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGAAACGCTGAGGTAATTTCA
56694761 ATTT
66 ATTT
56694765 TTGTTCTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 65 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (79 bp):
TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGAAACGCTGAGGTAATTTCA
ATTTCTATTTCTGC
Found at i:56694926 original size:79 final size:79
Alignment explanation
Indices: 56694795--56694944 Score: 282
Period size: 79 Copynumber: 1.9 Consensus size: 79
56694785 TTAATTCATG
*
56694795 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
56694860 ATTTCTATTTCTGC
66 ATTTCTATTTCTGC
*
56694874 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
56694939 ATTTCT
66 ATTTCT
56694945 GTTCTTCCAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (79 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTCTATTTCTGC
Found at i:56695045 original size:99 final size:98
Alignment explanation
Indices: 56694853--56695255 Score: 418
Period size: 99 Copynumber: 4.1 Consensus size: 98
56694843 ACGCTGAGGT
*
56694853 AATTTCTATTTCTATTTC-TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AATTTCTATTT-TAATTCATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
56694917 AGGACACGCTGAGGTATTTTCAATTTCTGTTCTTCC
64 AGGACACGCTGAGGTATTTTCAATTTCTGTTCTT-C
* *
56694953 AATTTCTATTTTAATTCATGTTTTCGAAAATCAACTCATATTGCGAGAGTTGAGTTGAGCCTCAG
1 AATTTCTATTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
56695018 GACACGCTGAGGTATTTTCAATTTCTGTT-TT-
66 GACACGCTGAGGTATTTTCAATTTCTGTTCTTC
* * * *
56695049 --TTTCCAATCT-A-T-AT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 AATTTCTATTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * *
56695108 GCACATGCCGAGGTATTTTCAAATTCTG-TCTTTC
66 G-ACACGCTGAGGTATTTTCAATTTCTGTTC-TTC
** * ** * *
56695142 AAACTCTGTTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AATTTCT-ATTTTAATTCAT-GTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * *
56695207 -TGG-CTCGCATGTCGAGGTATTTTCAATTTCTGTT-TTT
63 CAGGACACGC---T-GAGGTATTTTCAATTTCTGTTCTTC
*
56695244 AATTTCTGTTTT
1 AATTTCTATTTT
56695256 TCAAAAATCA
Statistics
Matches: 255, Mismatches: 29, Indels: 37
0.79 0.09 0.12
Matches are distributed among these distances:
90 44 0.17
91 25 0.10
92 3 0.01
93 1 0.00
94 7 0.03
95 2 0.01
96 2 0.01
97 1 0.00
98 3 0.01
99 81 0.32
100 13 0.05
101 16 0.06
102 38 0.15
103 18 0.07
104 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (98 bp):
AATTTCTATTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GACACGCTGAGGTATTTTCAATTTCTGTTCTTC
Found at i:56695189 original size:102 final size:101
Alignment explanation
Indices: 56695063--56695330 Score: 285
Period size: 88 Copynumber: 2.8 Consensus size: 101
56695053 CAATCTATAT
*
56695063 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GCACATGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCGCACATGCCGAGGTATTTT
56695127 CAAATTCTGTCTTTCAAACTCTGTTTTTAATTTTTAC
66 CAAATTCTGT-TTTCAAACTCTGTTTTTAATTTTTAC
* * * *
56695164 TTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGCATGTCGAGGTATTT
1 TTTTCAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCGCACATGCCGAGGTATTT
* **
56695229 TC-AA-------TT-----TCTGTTTTTAATTTCTGT
65 TCAAATTCTGTTTTCAAACTCTGTTTTTAATTTTTAC
* * ** * *
56695253 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGCTCACATGATGGGGTATTTC
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCGCACATGCCGAGGTATTTT
*
56695318 CAATTTCTGTTTT
66 CAAATTCTGTTTT
56695331 AATTCATGTT
Statistics
Matches: 141, Mismatches: 16, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
88 49 0.35
89 26 0.18
94 2 0.01
96 2 0.01
101 10 0.07
102 35 0.25
103 17 0.12
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (101 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCGCACATGCCGAGGTATTTT
CAAATTCTGTTTTCAAACTCTGTTTTTAATTTTTAC
Found at i:56695247 original size:13 final size:13
Alignment explanation
Indices: 56695226--56695256 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
56695216 TGTCGAGGTA
*
56695226 TTTTCAATTTCTG
1 TTTTTAATTTCTG
56695239 TTTTTAATTTCTG
1 TTTTTAATTTCTG
56695252 TTTTT
1 TTTTT
56695257 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:56695300 original size:88 final size:87
Alignment explanation
Indices: 56695146--56695376 Score: 324
Period size: 88 Copynumber: 2.6 Consensus size: 87
56695136 TCTTTCAAAC
* * * *
56695146 TCTGTTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC
1 TCTGTTTTTAATTTCT-GTTTTCAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGC
* *
56695211 TCGCATG-TCGAGGTATTTTCAATT
64 TCACATGAT-GAGGTATTTCCAATT
56695235 TCTGTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGCT
1 TCTGTTTTTAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGCT
*
56695300 CACATGATGGGGTATTTCCAATT
65 CACATGATGAGGTATTTCCAATT
*
56695323 TCTG-TTTTAA-TTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TCTGTTTTTAATTTC-TGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
56695377 GCCTTTTAAT
Statistics
Matches: 131, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
86 40 0.31
87 8 0.06
88 57 0.44
89 26 0.20
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (87 bp):
TCTGTTTTTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGCTC
ACATGATGAGGTATTTCCAATT
Found at i:56697548 original size:20 final size:21
Alignment explanation
Indices: 56697525--56697566 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
56697515 GTTATATACG
*
56697525 TATATAGTATGTGTATT-TTA
1 TATATAGTATGTATATTATTA
*
56697545 TATATATTATGTATATTATTA
1 TATATAGTATGTATATTATTA
56697566 T
1 T
56697567 TTTTACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (21 bp):
TATATAGTATGTATATTATTA
Found at i:56697645 original size:21 final size:21
Alignment explanation
Indices: 56697616--56697655 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
56697606 ATTCATGTAT
*
56697616 TTTATTATATATGTATATATC
1 TTTAATATATATGTATATATC
*
56697637 TTTAATATATATTTATATA
1 TTTAATATATATGTATATA
56697656 AGTATATCTT
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:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAATATATATGTATATATC
Found at i:56697755 original size:24 final size:25
Alignment explanation
Indices: 56697728--56697778 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
56697718 ATGTGTGTAC
56697728 ATATTATGTAAATGTTTTA-ATATT
1 ATATTATGTAAATGTTTTATATATT
**
56697752 ATATTATGTGTATGTTTTATATATT
1 ATATTATGTAAATGTTTTATATATT
56697777 AT
1 AT
56697779 GAACATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (25 bp):
ATATTATGTAAATGTTTTATATATT
Found at i:56699485 original size:56 final size:55
Alignment explanation
Indices: 56699380--56699485 Score: 124
Period size: 56 Copynumber: 1.9 Consensus size: 55
56699370 CCTCTTTGGT
* * **
56699380 CTCAAGGCGCCCTTTGCGGGTTTTCACCTTAGCCTCTCCTTTTTTTTAAGGAAGGC
1 CTCAAAGCGCCCTTTGCGGGTTTTCACCTTAGCCTCTCC-TCTCCTTAAGGAAGGC
* *
56699436 CTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCCTCTTTCC-CTCCTTAAG
1 CTCAAAGCGCCCTTTGCGGGTTTTCACCTTAGCCTC--TCCTCTCCTTAAG
56699486 TGTAATACCT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
56 39 0.93
58 3 0.07
ACGTcount: A:0.13, C:0.31, G:0.20, T:0.36
Consensus pattern (55 bp):
CTCAAAGCGCCCTTTGCGGGTTTTCACCTTAGCCTCTCCTCTCCTTAAGGAAGGC
Found at i:56706896 original size:28 final size:28
Alignment explanation
Indices: 56706827--56706882 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
56706817 TTAATGTTTT
*
56706827 AAATCTTTTAATATAATTTAATATAAAA
1 AAATCTTTTAAAATAATTTAATATAAAA
56706855 AAATCTTTTAAAATAATTTAATATAAAA
1 AAATCTTTTAAAATAATTTAATATAAAA
56706883 TATTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (28 bp):
AAATCTTTTAAAATAATTTAATATAAAA
Found at i:56706963 original size:23 final size:25
Alignment explanation
Indices: 56706911--56706969 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 25
56706901 GAAAATATGA
*
56706911 AATAAAATATTCTAATATAATTTAT
1 AATAAAATATTCAAATATAATTTAT
56706936 AATAAAATATT-AAAT-TAATTTGAT
1 AATAAAATATTCAAATATAATTT-AT
56706960 -ATAAAATATT
1 AATAAAATATT
56706970 TGATATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 16 0.50
24 5 0.16
25 11 0.34
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
AATAAAATATTCAAATATAATTTAT
Found at i:56706990 original size:21 final size:21
Alignment explanation
Indices: 56706966--56707021 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
56706956 TGATATAAAA
*
56706966 TATTTGATATTTAAATATTAT
1 TATTTGATATTAAAATATTAT
**
56706987 TATTTTGATAGAAAAATATTAT
1 TA-TTTGATATTAAAATATTAT
* *
56707009 TCTTTAATATTAA
1 TATTTGATATTAA
56707022 CTTGACGTGG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
TATTTGATATTAAAATATTAT
Found at i:56710430 original size:28 final size:28
Alignment explanation
Indices: 56710390--56710446 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
56710380 CTCTTTTTTA
56710390 TTTTTTTGAATTTTTAT-AATTTTATAAT
1 TTTTTTTGAATTTTTATAAATTTTA-AAT
*
56710418 TTTTTTTGTATTTTTATAAATTTTAAAT
1 TTTTTTTGAATTTTTATAAATTTTAAAT
56710446 T
1 T
56710447 ATTTATCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (28 bp):
TTTTTTTGAATTTTTATAAATTTTAAAT
Found at i:56710901 original size:31 final size:34
Alignment explanation
Indices: 56710866--56710929 Score: 98
Period size: 31 Copynumber: 2.0 Consensus size: 34
56710856 TAACATTATA
*
56710866 AAAATATAGAGA-TAAAT-TTATA-TTAAAAATT
1 AAAATATAGAGATTAAATCTTAAATTTAAAAATT
56710897 AAAATATAGAGATTAAATCTTAAATTTAAAAAT
1 AAAATATAGAGATTAAATCTTAAATTTAAAAAT
56710930 AATAGAAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 12 0.41
32 5 0.17
33 4 0.14
34 8 0.28
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (34 bp):
AAAATATAGAGATTAAATCTTAAATTTAAAAATT
Found at i:56714232 original size:58 final size:58
Alignment explanation
Indices: 56714167--56714285 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
56714157 GTTCCTAGCT
56714167 CAAATATTTCCCCTTTTTTCTTTTCCTTTTTCTTGAAACAAGATAGTCTATGAGTTTG
1 CAAATATTTCCCCTTTTTTCTTTTCCTTTTTCTTGAAACAAGATAGTCTATGAGTTTG
56714225 CAAATATTTCCCCTTTTTTCTTTTCCTTTTTCTTGAAACAAGATAGTCTATGAGTTTG
1 CAAATATTTCCCCTTTTTTCTTTTCCTTTTTCTTGAAACAAGATAGTCTATGAGTTTG
56714283 CAA
1 CAA
56714286 GGTAAAAAGG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.47
Consensus pattern (58 bp):
CAAATATTTCCCCTTTTTTCTTTTCCTTTTTCTTGAAACAAGATAGTCTATGAGTTTG
Found at i:56723612 original size:12 final size:11
Alignment explanation
Indices: 56723591--56723617 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
56723581 AAAAAATTCA
56723591 AAAATATTTTT
1 AAAATATTTTT
56723602 AAAATATTTTT
1 AAAATATTTTT
56723613 AAAAT
1 AAAAT
56723618 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:56723647 original size:30 final size:30
Alignment explanation
Indices: 56723581--56723648 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
56723571 TTAGATTTTA
* *
56723581 AAAAAATTCAAAAATATTTTTAAAATATTT
1 AAAAAATTCAAAAATAATTATAAAATATTT
** *
56723611 TTAAAATTTAAAAATAATTATAAAA-ATTAT
1 AAAAAATTCAAAAATAATTATAAAATATT-T
56723641 AAAAAATT
1 AAAAAATT
56723649 ATTTTAATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 3 0.10
30 27 0.90
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAAAATTCAAAAATAATTATAAAATATTT
Found at i:56723648 original size:19 final size:19
Alignment explanation
Indices: 56723602--56723650 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
56723592 AAATATTTTT
* * *
56723602 AAAATATTTTTAAAATTTA
1 AAAATAATTATAAAAATTA
56723621 AAAATAATTATAAAAATTA
1 AAAATAATTATAAAAATTA
56723640 TAAAA-AATTAT
1 -AAAATAATTAT
56723651 TTTAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATAATTATAAAAATTA
Found at i:56728826 original size:26 final size:26
Alignment explanation
Indices: 56728797--56728904 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
56728787 TGGTACAAAT
56728797 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
56728823 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56728849 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56728875 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56728901 TGAT
1 TGAT
56728905 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56737644 original size:46 final size:47
Alignment explanation
Indices: 56737495--56737706 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 47
56737485 TTATTTGTGT
* * *
56737495 GCCAGTGTAAGACATGTCTGGGACATGCTTCAACCACATA-ATG-AGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCA-AGATGTAGA
* * * ** **
56737541 GCCAGTGTAAGACTATGTCTTGGACATGGCATCGGCATTGAGA-CAAGA
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCCTCAAGATGTAGA
* *
56737589 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATGTAGA
* * *
56737635 GCCAATGTAAGACATGTCTGGGACATGCATTAG-CTACAAAATGT---
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CAAGATGTAGA
*
56737679 GTCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
56737707 GCATTAACAC
Statistics
Matches: 136, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.07
45 17 0.12
46 62 0.46
47 26 0.19
48 21 0.15
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATGTAGA
Found at i:56737744 original size:48 final size:47
Alignment explanation
Indices: 56737640--56737858 Score: 162
Period size: 48 Copynumber: 4.6 Consensus size: 47
56737630 TGTAAGCCAA
*
56737640 TGTAAGA-CATGTCTGGGACAT-GCATTAGCTAC-A-AAATGTG-TCAG
1 TGTAAGACCATGTCTGGGACATGGCATTAGC-ACGATAAAGGTGCT-AG
*
56737684 TGTAAGACCATGTCTGGGACATGGCATTAACACGTATAAAGGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATTAGCACG-ATAAAGGTGCTAG
* * * * ** *
56737732 TGTAAGACCATGTCTGGGACATGACATCAGTATGGATATGTGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATTAGCA-CGATA-AAG-GTGCTAG
* * * *** *
56737782 TGTAAGACCATGTCTGGGACATGTCGTTAGCCTCGATTTCGATAG-TCAG
1 TGTAAGACCATGTCTGGGACATGGCATTAG-CACGATAAAGGT-GCT-AG
*
56737831 TGTAAGACCATGTATGGGACATGGCATT
1 TGTAAGACCATGTCTGGGACATGGCATT
56737859 GACTTGATGG
Statistics
Matches: 139, Mismatches: 24, Indels: 19
0.76 0.13 0.10
Matches are distributed among these distances:
44 7 0.05
45 16 0.12
46 7 0.05
47 1 0.01
48 40 0.29
49 32 0.23
50 36 0.26
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATTAGCACGATAAAGGTGCTAG
Found at i:56747396 original size:39 final size:40
Alignment explanation
Indices: 56747351--56747461 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
56747341 CGGGGTTTAG
* * *
56747351 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
56747390 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
56747430 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
56747462 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:56747421 original size:40 final size:40
Alignment explanation
Indices: 56747374--56747518 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
56747364 CTCGCACAAG
* * * * *
56747374 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
56747414 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
56747454 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
56747495 GCCTTTGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
56747519 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:56748748 original size:38 final size:38
Alignment explanation
Indices: 56748706--56748781 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
56748696 CAAGAACTCC
56748706 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
56748744 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
56748782 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:56763108 original size:39 final size:40
Alignment explanation
Indices: 56763063--56763230 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
56763053 CGGGGTTTAG
* * *
56763063 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
56763102 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
56763142 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
56763182 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
56763223 CCGGATAT
1 CCGGATAT
56763231 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:56763213 original size:41 final size:40
Alignment explanation
Indices: 56763086--56763230 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
56763076 CTCGCACAAG
* * * * *
56763086 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
56763126 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
56763166 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
56763207 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
56763231 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:56764459 original size:38 final size:38
Alignment explanation
Indices: 56764417--56764492 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
56764407 CAAGAACTCC
56764417 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
56764455 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
56764493 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:56766595 original size:28 final size:27
Alignment explanation
Indices: 56766523--56766596 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 27
56766513 ATTATTAAAC
*
56766523 TAATATAATATAATATAATAATATTATTT
1 TAATATAA-ATAA-ATATTAATATTATTT
**
56766552 TATATATACTTAAATATTAAGTATGTA-TT
1 TA-ATATAAATAAATATTAA-TAT-TATTT
56766581 TAATATAAATAAATAT
1 TAATATAAATAAATAT
56766597 ATGTATATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 18 0.49
29 12 0.32
30 7 0.19
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (27 bp):
TAATATAAATAAATATTAATATTATTT
Found at i:56766732 original size:23 final size:23
Alignment explanation
Indices: 56766705--56766751 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
56766695 AACTTTCATC
56766705 CTTTATTCGATTTAATCCTTATA
1 CTTTATTCGATTTAATCCTTATA
56766728 CTTTATTCGATTTAATCCTTATA
1 CTTTATTCGATTTAATCCTTATA
56766751 C
1 C
56766752 CTAATTAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.04, T:0.51
Consensus pattern (23 bp):
CTTTATTCGATTTAATCCTTATA
Found at i:56767283 original size:58 final size:58
Alignment explanation
Indices: 56767219--56767347 Score: 159
Period size: 58 Copynumber: 2.2 Consensus size: 58
56767209 CTTCACGAAT
* * * **
56767219 CCTTTGGGCTCTTAACAAAGTTGAGGTATATCTTCATTATTCAAGCCCCTCTGTGAAC
1 CCTTTGGGCTCTCAACAAAGATGAGGCATATCTTCAACATTCAAGCCCCTCTGTGAAC
* * * ** *
56767277 CTTTTGGGCTCTCAATAGAGATGAGGCATATCTTCAACATTGGAGCCCCTTTGTGAAC
1 CCTTTGGGCTCTCAACAAAGATGAGGCATATCTTCAACATTCAAGCCCCTCTGTGAAC
56767335 CCTTTGGGCTCTC
1 CCTTTGGGCTCTC
56767348 GGTAGAGGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (58 bp):
CCTTTGGGCTCTCAACAAAGATGAGGCATATCTTCAACATTCAAGCCCCTCTGTGAAC
Found at i:56768948 original size:14 final size:14
Alignment explanation
Indices: 56768929--56768960 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
56768919 TAATTATTTA
*
56768929 ATATCTATATATCT
1 ATATCTATATATAT
56768943 ATATCTATATATAT
1 ATATCTATATATAT
56768957 ATAT
1 ATAT
56768961 TATGGTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATCTATATATAT
Found at i:56769479 original size:59 final size:59
Alignment explanation
Indices: 56769408--56769589 Score: 188
Period size: 67 Copynumber: 2.9 Consensus size: 59
56769398 GTTGCAACTA
*
56769408 TATTCTGAAATTAAAAAAAAATTGATAATTAAACTAAATTTAAGAAATAATTAGGCCGC
1 TATTCTGAAATTAAAAAAAAATTGATAATTAAATTAAATTTAAGAAATAATTAGGCCGC
* * *
56769467 TATTCTGAAATTAAAAAATATATATTGTATTGATAACTAAATTAAATTTAATAAATAATTAGGCG
1 TATTCTGAAATT-AAAAA-A-A-A----ATTGATAATTAAATTAAATTTAAGAAATAATTAGGCC
56769532 GC
58 GC
* * * *
56769534 TATTCTAAAACT-AAAAAAAGTTGTCATAATTAAATTAAATTTAAG-AATAACTAGGC
1 TATTCTGAAATTAAAAAAAAATTG--ATAATTAAATTAAATTTAAGAAATAATTAGGC
56769590 GGGATTTTTT
Statistics
Matches: 103, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
58 3 0.03
59 22 0.21
60 23 0.22
61 1 0.01
62 2 0.02
63 2 0.02
64 1 0.01
65 4 0.04
67 45 0.44
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.34
Consensus pattern (59 bp):
TATTCTGAAATTAAAAAAAAATTGATAATTAAATTAAATTTAAGAAATAATTAGGCCGC
Found at i:56771036 original size:103 final size:103
Alignment explanation
Indices: 56770900--56771103 Score: 254
Period size: 103 Copynumber: 2.0 Consensus size: 103
56770890 ATTTTGGCCT
* *
56770900 TTATTAATGCTTTTTCCTAAGGGAGCTATCATTTTGGTTAAAA-TAATTTAAACTCAATGGTCTC
1 TTATTAATGCTTTTTCATAAGGGAGCTACCATTTTGGTTAAAATTAATTT-AACTCAATGGTCTC
* *
56770964 -TCTTTGCTTTTGGCAACA-CATAGTGATAGCTTTAGCCA
65 TTCTTTGCTTTTGGCAA-AGCATAATGATAACTTTAGCCA
* ** *
56771002 TTATTATATGCTTTTTCAT-GGGTGAGCTACCATTTTGGTTAAAATTGCTTTAACTTAATGGTCT
1 TTATTA-ATGCTTTTTCATAAGG-GAGCTACCATTTTGGTTAAAATTAATTTAACTCAATGGTCT
56771066 CTTATCTTTGCTTTTGGCAAAGCATAATGATAACTTTA
64 C-T-TCTTTGCTTTTGGCAAAGCATAATGATAACTTTA
56771104 ACTGAGGCCA
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
102 8 0.09
103 44 0.51
104 4 0.05
105 1 0.01
106 30 0.34
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (103 bp):
TTATTAATGCTTTTTCATAAGGGAGCTACCATTTTGGTTAAAATTAATTTAACTCAATGGTCTCT
TCTTTGCTTTTGGCAAAGCATAATGATAACTTTAGCCA
Found at i:56773550 original size:22 final size:22
Alignment explanation
Indices: 56773525--56773568 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
56773515 TAGTTATATA
56773525 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
56773547 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
56773569 TATTTAATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:56773604 original size:13 final size:14
Alignment explanation
Indices: 56773588--56773629 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
56773578 TTTCAATTTT
56773588 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
56773601 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
56773616 ATTTTAAATAATAT
1 ATTTT-AATAATAT
56773630 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:56773614 original size:16 final size:16
Alignment explanation
Indices: 56773592--56773628 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
56773582 AATTTTATTT
56773592 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
56773609 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
56773624 TAATA
1 TAATA
56773629 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:56774198 original size:14 final size:13
Alignment explanation
Indices: 56774179--56774217 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
56774169 CCAGAAAAAT
56774179 AAATCATTTTCCAG
1 AAATCATTTTCC-G
*
56774193 AAATCATTTTTCG
1 AAATCATTTTCCG
56774206 AAAGTCATTTTC
1 AAA-TCATTTTC
56774218 AGTGAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:56774568 original size:59 final size:59
Alignment explanation
Indices: 56774453--56774570 Score: 134
Period size: 59 Copynumber: 2.0 Consensus size: 59
56774443 TTTTAATAGG
* ****
56774453 ATTATTATTAAATATAATTTAATAAAAATAAAAAATAATTTAATAATATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAAAAAATAATATAATAATAAAAATAATATA
*
56774512 ATTATTATTAAAATATGAA-TTAATAAAAAT-AAAAAT-ATATAATATTAGAAAATAATATA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAAAAAATAATATAATAATA-AAAATAATATA
56774571 TAACCTACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
58 9 0.18
59 22 0.44
60 17 0.34
61 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAAAAAATAATATAATAATAAAAATAATATA
Found at i:56782972 original size:46 final size:46
Alignment explanation
Indices: 56782862--56783033 Score: 145
Period size: 46 Copynumber: 3.7 Consensus size: 46
56782852 ACATTATGAG
* * *
56782862 AGCCAGTGTAAGACCATGTCCGGGACATGGCATCGGCATTAAGACGA
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCAACGGCATGAAGACGA
* * *
56782909 AGGCTAGTGTAAGACATGTCTGGGACAT-TCAACGGCCTCGAA-ACGTA
1 A-GCCAGTGTAAGACATGTCTGGGACATGGCAACGGCAT-GAAGACG-A
* * * *
56782956 AGCCAGTGTAAGACATGTCTAGGACAT-GCATCGGATATG-AGATGA
1 AGCCAGTGTAAGACATGTCTGGGACATGGCAACGG-CATGAAGACGA
* *
56783001 TTGTCAGTGTAAGACCATGTCTGGGACATGGCA
1 -AGCCAGTGTAAGA-CATGTCTGGGACATGGCA
56783034 TCGACTTGAG
Statistics
Matches: 101, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.02
46 53 0.52
47 32 0.32
48 14 0.14
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCAACGGCATGAAGACGA
Found at i:56783061 original size:47 final size:47
Alignment explanation
Indices: 56782956--56783083 Score: 138
Period size: 47 Copynumber: 2.7 Consensus size: 47
56782946 TCGAAACGTA
56782956 AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGATATGAGATGAT
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GATATGAGATGAT
* * *
56783002 TGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGAT-AT
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA-TATGAGATGAT
* * * *
56783048 GAGCCAGTATAAGACCGTGTCTAAGATATGGCATCG
1 -AGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
56783084 GCACCTTACC
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
46 13 0.19
47 49 0.72
48 6 0.09
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGATATGAGATGAT
Found at i:56784242 original size:21 final size:21
Alignment explanation
Indices: 56784213--56784252 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
56784203 TTGAATTGGC
56784213 CACACGGGCGTGTGCCCCTTT
1 CACACGGGCGTGTGCCCCTTT
*
56784234 CACATGGGCGTGTGCCCCT
1 CACACGGGCGTGTGCCCCT
56784253 ACGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTGCCCCTTT
Found at i:56787706 original size:14 final size:14
Alignment explanation
Indices: 56787689--56787717 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56787679 CGAATCAATT
56787689 GTTTAGAATAGGAA
1 GTTTAGAATAGGAA
56787703 GTTTAGAATAGGAA
1 GTTTAGAATAGGAA
56787717 G
1 G
56787718 AATCTAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (14 bp):
GTTTAGAATAGGAA
Found at i:56789278 original size:20 final size:21
Alignment explanation
Indices: 56789245--56789283 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
56789235 GAACCAAAAA
56789245 AAAAAAAAGGAAAA-AAAACC
1 AAAAAAAAGGAAAAGAAAACC
* *
56789265 AAAAAATAGTAAAAGAAAA
1 AAAAAAAAGGAAAAGAAAA
56789284 TTAAATTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.79, C:0.05, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAAAAAAGGAAAAGAAAACC
Found at i:56792571 original size:24 final size:24
Alignment explanation
Indices: 56792540--56792588 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
56792530 AAATATTGAT
56792540 TTTACTAGATTATCAACTCTATAA
1 TTTACTAGATTATCAACTCTATAA
*
56792564 TTTACTAGATTATTAACTCTATAA
1 TTTACTAGATTATCAACTCTATAA
56792588 T
1 T
56792589 GTGATGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.04, T:0.45
Consensus pattern (24 bp):
TTTACTAGATTATCAACTCTATAA
Found at i:56800599 original size:13 final size:13
Alignment explanation
Indices: 56800577--56800610 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
56800567 CTACATTAAA
*
56800577 AGTTTTATGCATC
1 AGTTTCATGCATC
*
56800590 AGTTTCATGCATT
1 AGTTTCATGCATC
56800603 AGTTTCAT
1 AGTTTCAT
56800611 ATTTATTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (13 bp):
AGTTTCATGCATC
Found at i:56803578 original size:22 final size:24
Alignment explanation
Indices: 56803553--56803607 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
56803543 TGTTTGTATG
* *
56803553 ATATTTTATAATA-G-TTTTTTTT
1 ATATTTTATAAAATGATTTTTTAT
* *
56803575 ATATTTAAAAAAATGATTTTTTAT
1 ATATTTTATAAAATGATTTTTTAT
56803599 ATATTTTAT
1 ATATTTTAT
56803608 TAGATTTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 10 0.40
23 1 0.04
24 14 0.56
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (24 bp):
ATATTTTATAAAATGATTTTTTAT
Found at i:56803783 original size:113 final size:114
Alignment explanation
Indices: 56803666--56803876 Score: 273
Period size: 114 Copynumber: 1.9 Consensus size: 114
56803656 TATATCAATT
* * * * *
56803666 TTTTTCGTATTTAAGGGGAAGGATA-TTTTT-TTGTTGTGTTTTTTTAGTTTTAGGTTTGTATTG
1 TTTTTCGTATTTAAGGGAAAGGATATTTTTTATTGTTGTGTTTTATTAGCTTTAAGTTAGTATT-
56803729 AAAGTATAATTAATTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAG
65 AAAGTATAATTAATTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAG
*** * * *
56803779 TTTTTCGTATTTACTTGAAATGTTATTTTTTATTGTTGTGTTTTATTAGCTTTAAGTTAGTATTT
1 TTTTTCGTATTTAAGGGAAAGGATATTTTTTATTGTTGTGTTTTATTAGCTTTAAGTTAGTATTA
* * *
56803844 AGGTTTAATTAATTTTTTTTATTAATGTTTTTG
66 AAGTATAATTAATTTGTTTTATTAATGTTTTTG
56803877 AAGAATGTTA
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
113 19 0.23
114 35 0.43
115 28 0.34
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.59
Consensus pattern (114 bp):
TTTTTCGTATTTAAGGGAAAGGATATTTTTTATTGTTGTGTTTTATTAGCTTTAAGTTAGTATTA
AAGTATAATTAATTTGTTTTATTAATGTTTTTGTGGTATCTTATATTAG
Found at i:56804083 original size:136 final size:137
Alignment explanation
Indices: 56803898--56804336 Score: 659
Period size: 137 Copynumber: 3.2 Consensus size: 137
56803888 ATTCCACAAT
* *
56803898 ATTTTTTGTATTTAAGGTATGACCATATTTTTTTATAATTGGTTATTTGAGTTTATTTAATATTT
1 ATTTTTTGTATTTAAGGTATGAGCATA-TTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTT
*
56803963 GGGGAACTT-TGTTTATTAATATAATTGATATGTT-TATTAATTTATTTATTATTTCGTATTCAA
65 GGGGAA-TTGTGTTTATTAATATAATTGATATGTTATATTAATTTATTTATTATTTCGTATTTAA
56804026 GTTATATTG
129 GTTATATTG
* *
56804035 ATTTTTCT-TATTTAAGATATGAGCGTATTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTT
1 ATTTTT-TGTATTTAAGGTATGAGCATATTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTT
* * *
56804099 GAGGAATTGTATTTATTAATATAATTGATATGTTATACTAATTTATTTATTATTTCGTATTTAAG
65 GGGGAATTGTGTTTATTAATATAATTGATATGTTATATTAATTTATTTATTATTTCGTATTTAAG
*
56804164 TTATATCG
130 TTATATTG
* * * *
56804172 ATTTTTTGTATTTAAGGTATGAACATATATTTTATAATTGGTTATTTGAGTTTTTTTAATGTTTA
1 ATTTTTTGTATTTAAGGTATGAGCATATTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTTG
56804237 GGGAATTGTGTTTATTAATATAATTGATATGTTATATTAATTTATTAATTTATTATTTCGTATTT
66 GGGAATTGTGTTTATTAATATAATTGATATGTTATATTAA--T-TT-ATTTATTATTTCGTATTT
56804302 AAGTTATATTAG
127 AAGTTATATT-G
*
56804314 TTTTTTTGTATTTAAGGTATGAG
1 ATTTTTTGTATTTAAGGTATGAG
56804337 TACACTTATC
Statistics
Matches: 272, Mismatches: 21, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
135 2 0.01
136 66 0.24
137 151 0.56
138 1 0.00
139 1 0.00
140 2 0.01
141 27 0.10
142 22 0.08
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.55
Consensus pattern (137 bp):
ATTTTTTGTATTTAAGGTATGAGCATATTTTTTATAATTGGTTATTTGAGTTTATTTAATGTTTG
GGGAATTGTGTTTATTAATATAATTGATATGTTATATTAATTTATTTATTATTTCGTATTTAAGT
TATATTG
Found at i:56804282 original size:65 final size:65
Alignment explanation
Indices: 56804076--56804282 Score: 140
Period size: 65 Copynumber: 3.1 Consensus size: 65
56804066 TTATAATTGG
* *
56804076 TTATTTGAGTTTATTTAATGTTT-GAGGAATTGTATTTATTAATATAATTGATATGTTATACTAA
1 TTATTTGAGTTTTTTTAATGTTTAG-GGAATTGTATTTATTAATATAATTGATATGTTATATTAA
56804140 T
65 T
* ** * *
56804141 TTATTT-ATTATTTCGTATTTAA-GTTATATCG-ATT-TTTTGTATTTAAGGTATGAACAT-ATA
1 TTATTTGA--GTTT--T-TTTAATGTT-TAGGGAATTGTATT-TA-TTAA--TAT-AA-TTGATA
* **
56804201 TTTTATAATT-GG
54 TGTTAT-ATTAAT
*
56804213 TTATTTGAGTTTTTTTAATGTTTAGGGAATTGTGTTTATTAATATAATTGATATGTTATATTAAT
1 TTATTTGAGTTTTTTTAATGTTTAGGGAATTGTATTTATTAATATAATTGATATGTTATATTAAT
56804278 TTATT
1 TTATT
56804283 AATTTATTAT
Statistics
Matches: 104, Mismatches: 18, Indels: 40
0.64 0.11 0.25
Matches are distributed among these distances:
64 5 0.05
65 21 0.20
66 6 0.06
67 3 0.03
68 20 0.19
69 20 0.19
70 3 0.03
71 6 0.06
72 16 0.15
73 4 0.04
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (65 bp):
TTATTTGAGTTTTTTTAATGTTTAGGGAATTGTATTTATTAATATAATTGATATGTTATATTAAT
Found at i:56807618 original size:42 final size:42
Alignment explanation
Indices: 56807555--56807711 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 42
56807545 CTTCGTTTTC
** * *
56807555 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
56807598 T-GATGCCATAGCCCAGCTATGGTCATACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
56807639 TCGATGCCATAGCCCAGCTATTGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
* *
56807680 TCTCACGATGCCATATCCCAGATATGGTCTTA
1 --T--CGATGCCATAGCCCAGCTATGGTCTTA
56807712 TATAGTAGCA
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
41 8 0.08
42 61 0.64
43 3 0.03
45 24 0.25
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:56807710 original size:45 final size:47
Alignment explanation
Indices: 56807640--56807758 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 47
56807630 ATTCATATAT
* * * * * *
56807640 CGATGCCATAGCCCAGCTATTGTCTTACA-CGAATCACATATCTCA-
1 CGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACAC
* * *
56807685 CGATGCCATATCCCAGATATGGTCTTATATAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACAC
56807732 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
56807759 TACGGGAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 25 0.40
46 11 0.17
47 27 0.43
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACATAGAAGCACATATCACAC
Found at i:56807818 original size:31 final size:31
Alignment explanation
Indices: 56807783--56807962 Score: 290
Period size: 31 Copynumber: 5.8 Consensus size: 31
56807773 GTCATCACTT
*
56807783 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
56807814 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
56807845 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
56807876 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
56807907 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
56807938 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
56807963 TGTCATTTGT
Statistics
Matches: 140, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
30 3 0.02
31 135 0.96
32 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:56808101 original size:50 final size:51
Alignment explanation
Indices: 56807938--56808117 Score: 283
Period size: 51 Copynumber: 3.5 Consensus size: 51
56807928 CACTGATCAG
* *
56807938 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTACCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
56807989 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTACCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
56808040 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTACCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
56808090 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTACCACTTATCACTTGT
56808118 TGCCATGGTC
Statistics
Matches: 123, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
50 45 0.37
51 78 0.63
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTACCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:56814798 original size:62 final size:62
Alignment explanation
Indices: 56814732--56814857 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
56814722 GATTCTAGAA
*
56814732 AAGGAAAAAGAAAAGTATGTTGTCTGATATGCACAAATACTTTTTCTTACAAGTTTATATAT
1 AAGGAAAAAGAAAAGTATGTTGTCTGATATGCACAAATACTTTTTCTTACAAGTCTATATAT
56814794 AAGGAAAAAGAAAAGTATGTTGTCTGATATGCACAAATACTTTTTCTTACAAGTCTATATAT
1 AAGGAAAAAGAAAAGTATGTTGTCTGATATGCACAAATACTTTTTCTTACAAGTCTATATAT
56814856 AA
1 AA
56814858 TTATATCTAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (62 bp):
AAGGAAAAAGAAAAGTATGTTGTCTGATATGCACAAATACTTTTTCTTACAAGTCTATATAT
Found at i:56817054 original size:56 final size:56
Alignment explanation
Indices: 56816963--56817074 Score: 163
Period size: 56 Copynumber: 2.0 Consensus size: 56
56816953 TTTTACATGT
* *
56816963 AATCACAAATCGATGCCACTGTCCCAAACAGGGTCTTACTCGCACACATATATCGA
1 AATCACAAATCGATGCCAATGTACCAAACAGGGTCTTACTCGCACACATATATCGA
* **
56817019 AATCACATATCGATGCCAATGTATTAAAC-GTGGTCTTACTCGCACACATATATCGA
1 AATCACAAATCGATGCCAATGTACCAAACAG-GGTCTTACTCGCACACATATATCGA
56817075 TGCCATGGTC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
55 1 0.02
56 49 0.98
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (56 bp):
AATCACAAATCGATGCCAATGTACCAAACAGGGTCTTACTCGCACACATATATCGA
Found at i:56818017 original size:18 final size:18
Alignment explanation
Indices: 56817990--56818024 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56817980 TATGTTTTAT
56817990 CATTTCATAAATATAACA
1 CATTTCATAAATATAACA
* *
56818008 CATTTTATAATTATAAC
1 CATTTCATAAATATAAC
56818025 CTTAATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (18 bp):
CATTTCATAAATATAACA
Found at i:56822116 original size:35 final size:35
Alignment explanation
Indices: 56821934--56822098 Score: 206
Period size: 35 Copynumber: 4.7 Consensus size: 35
56821924 TCCTCATTGA
** * *
56821934 AATACCATACCTAAATTTTACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTAT-GGAT
* * * * **
56821969 AATGCTATTCCTATGTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
56822004 AATACCATACCTACGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
56822039 AATACCATACCTACGTTTCACAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
56822074 GATACCATACCTACGTTTCACAACT
1 AATACCATACCTACGTTTCACAACT
56822099 TTGCAATGGA
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
34 3 0.03
35 108 0.97
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:56823194 original size:21 final size:21
Alignment explanation
Indices: 56823170--56823211 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
56823160 TTTTTTATTT
56823170 AATTGACT-AACCAAACGTTAA
1 AATT-ACTCAACCAAACGTTAA
* *
56823191 AATTTCTCAACCAAACTTTAA
1 AATTACTCAACCAAACGTTAA
56823212 TACTAACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (21 bp):
AATTACTCAACCAAACGTTAA
Done.