Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 122 of 427
Found at i:32272130 original size:10 final size:10
Alignment explanation
Indices: 32272088--32272130 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
32272078 TTTTATAAAA
*
32272088 TTTTATTAAT
1 TTTTAATAAT
32272098 TTTTAATAAT
1 TTTTAATAAT
* *
32272108 TTTTTACAA-
1 TTTTAATAAT
32272117 TTTTAATAAT
1 TTTTAATAAT
32272127 TTTT
1 TTTT
32272131 TTAAAATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.26
10 20 0.74
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:32272703 original size:15 final size:15
Alignment explanation
Indices: 32272673--32272717 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 15
32272663 AAAAAAGAAA
32272673 AAGAAGAAGAA-GAG
1 AAGAAGAAGAATGAG
*
32272687 AAGCAG--GAA-GAG
1 AAGAAGAAGAATGAG
32272699 AAGAAGAAGAATGAG
1 AAGAAGAAGAATGAG
32272714 AAGA
1 AAGA
32272718 GGAAAAATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 11 0.42
14 8 0.31
15 7 0.27
ACGTcount: A:0.60, C:0.02, G:0.36, T:0.02
Consensus pattern (15 bp):
AAGAAGAAGAATGAG
Found at i:32273343 original size:56 final size:56
Alignment explanation
Indices: 32273276--32273387 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
32273266 TACAAATTGC
* *
32273276 TTAACATTTGGTATACATGGCTGCTGGTTAGAAAAGATAACAATT-GATATACAAAT
1 TTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGGATA-ACAAAT
*
32273332 TTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAGTTGGATAACAAAT
1 TTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGGATAACAAAT
32273388 AGCATGATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 48 0.92
57 4 0.08
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (56 bp):
TTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGGATAACAAAT
Found at i:32273849 original size:21 final size:21
Alignment explanation
Indices: 32273816--32273864 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
32273806 GTTGGGGCAC
* *
32273816 CTTGTTGAGTTGGGGTACCCT
1 CTTGCTGACTTGGGGTACCCT
*
32273837 CTTGCTGACTTGGGGTAGCCT
1 CTTGCTGACTTGGGGTACCCT
32273858 CTTGCTG
1 CTTGCTG
32273865 GGTTCGAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.08, C:0.22, G:0.33, T:0.37
Consensus pattern (21 bp):
CTTGCTGACTTGGGGTACCCT
Found at i:32274619 original size:83 final size:84
Alignment explanation
Indices: 32274527--32274704 Score: 252
Period size: 83 Copynumber: 2.1 Consensus size: 84
32274517 AAAAAAAAAC
* *
32274527 TCATTGCATGCATATTAAAAAATAGGCAAC-AC-ACCAACAATCATTATATGCATATTAAAAAAT
1 TCATTGCATGCATATTAAAAAATAGGCAACAACTACCAACAATCATTACATACATATTAAAAAA-
32274590 AGTCAACAGCTTTCCAACAA
65 AGTCAACAGCTTTCCAACAA
* * * *
32274610 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAATCATTGCATACATATTAAAAAA
1 TCATTGCATGCATATTAAAAAATAGGCAACAAC-TACCAACAATCATTACATACATATTAAAAAA
*
32274675 AGTCAATAGCTTTCCAACAA
65 AGTCAACAGCTTTCCAACAA
*
32274695 TCACTGCATG
1 TCATTGCATG
32274705 TGATCAGCAA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
83 29 0.35
84 2 0.02
85 28 0.33
86 25 0.30
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (84 bp):
TCATTGCATGCATATTAAAAAATAGGCAACAACTACCAACAATCATTACATACATATTAAAAAAA
GTCAACAGCTTTCCAACAA
Found at i:32274621 original size:43 final size:43
Alignment explanation
Indices: 32274527--32274704 Score: 247
Period size: 43 Copynumber: 4.2 Consensus size: 43
32274517 AAAAAAAAAC
* *
32274527 TCATTGCATGCATATTAAAAAATAGGCAACA-C--ACCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
**
32274567 TCATTATATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
* *
32274610 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
* *
32274653 TCATTGCATACATATTAAAAAA-AGTCAATAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
*
32274695 TCACTGCATG
1 TCATTGCATG
32274705 TGATCAGCAA
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 28 0.23
41 1 0.01
42 25 0.21
43 67 0.55
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
Found at i:32274703 original size:85 final size:83
Alignment explanation
Indices: 32274531--32274704 Score: 242
Period size: 85 Copynumber: 2.1 Consensus size: 83
32274521 AAAAACTCAT
* *
32274531 TGCATGCATATTAAAAAATAGGCAACACACCAACAATCATTATATGCATATTAAAAAATAGTCAA
1 TGCATGCATATTAAAAAATAGGCAACACACCAACAATCATTACATACATATTAAAAAATAGTCAA
*
32274596 CAGCTTTCCAACAATCAT
66 CAGCTTTCCAACAATCAC
* * * *
32274614 TGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAATCATTGCATACATATTAAAAAA-AGT
1 TGCATGCATATTAAAAAATAGGCAAC-AC--ACCAACAATCATTACATACATATTAAAAAATAGT
*
32274678 CAATAGCTTTCCAACAATCAC
63 CAACAGCTTTCCAACAATCAC
32274699 TGCATG
1 TGCATG
32274705 TGATCAGCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
83 25 0.31
84 2 0.03
85 28 0.35
86 25 0.31
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (83 bp):
TGCATGCATATTAAAAAATAGGCAACACACCAACAATCATTACATACATATTAAAAAATAGTCAA
CAGCTTTCCAACAATCAC
Found at i:32276372 original size:15 final size:15
Alignment explanation
Indices: 32276347--32276395 Score: 80
Period size: 15 Copynumber: 3.2 Consensus size: 15
32276337 TCAGATGCAT
32276347 CACTATCACTACCAGA
1 CACT-TCACTACCAGA
32276363 CACTTCACTACCAGA
1 CACTTCACTACCAGA
*
32276378 CACATCACTACCAGA
1 CACTTCACTACCAGA
32276393 CAC
1 CAC
32276396 GTTTTCTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 28 0.88
16 4 0.12
ACGTcount: A:0.37, C:0.41, G:0.06, T:0.16
Consensus pattern (15 bp):
CACTTCACTACCAGA
Found at i:32276761 original size:62 final size:62
Alignment explanation
Indices: 32276681--32276942 Score: 418
Period size: 62 Copynumber: 4.2 Consensus size: 62
32276671 TAGGAGCCTG
* *
32276681 GATACAAACAATGACAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGTA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
32276743 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
32276805 GA-ATCAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
1 GATA-CAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
* * * * **
32276867 GATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATG-TA-TAATTTAATGGCA
32276931 GATACAAACAAT
1 GATACAAACAAT
32276943 AAAGATCAGT
Statistics
Matches: 188, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
61 1 0.01
62 163 0.87
63 2 0.01
64 22 0.12
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (62 bp):
GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
Found at i:32276931 original size:48 final size:48
Alignment explanation
Indices: 32276874--32276986 Score: 172
Period size: 48 Copynumber: 2.4 Consensus size: 48
32276864 GCAGATACAA
* *
32276874 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
1 ACAATGGCAGATACAAACAATAAACATCAATTTGATAATGACATTCAT
* *
32276922 ACAATGGCAGATACAAACAATAAAGATCAGTTTGATAATGACATTCAT
1 ACAATGGCAGATACAAACAATAAACATCAATTTGATAATGACATTCAT
* *
32276970 ACAATGACAAATACAAA
1 ACAATGGCAGATACAAA
32276987 AAATGGCAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.24
Consensus pattern (48 bp):
ACAATGGCAGATACAAACAATAAACATCAATTTGATAATGACATTCAT
Found at i:32276992 original size:64 final size:64
Alignment explanation
Indices: 32276924--32277050 Score: 218
Period size: 64 Copynumber: 2.0 Consensus size: 64
32276914 ACATTCATAC
32276924 AATGGCAGATACAAACAATAAAGATCAGTTTGATAATGACATTCATACAATGACAAATACAAAA
1 AATGGCAGATACAAACAATAAAGATCAGTTTGATAATGACATTCATACAATGACAAATACAAAA
* * * *
32276988 AATGGCAGATACACACAATAAAGATCAGTTTGATAATGGCATTCATACAATGGCAGATACAAA
1 AATGGCAGATACAAACAATAAAGATCAGTTTGATAATGACATTCATACAATGACAAATACAAA
32277051 CATATCAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (64 bp):
AATGGCAGATACAAACAATAAAGATCAGTTTGATAATGACATTCATACAATGACAAATACAAAA
Found at i:32277024 original size:112 final size:110
Alignment explanation
Indices: 32276812--32277052 Score: 329
Period size: 112 Copynumber: 2.2 Consensus size: 110
32276802 GCAGAATCAA
* * * ** * * *
32276812 ACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCAGATACAAACA
1 ACAATGGCAGATACAAACAATAAACATCAGTTTAATAATGCATAATACAATGACAAATACAAAAA
*
32276877 ATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCAT
66 ATGGCAGATACACACAATAAACATCAATTTGATAATGACATTCAT
* * *
32276922 ACAATGGCAGATACAAACAATAAAGATCAGTTTGATAATGACATTCATACAATGACAAATACAAA
1 ACAATGGCAGATACAAACAATAAACATCAGTTTAATAATG-CA-TAATACAATGACAAATACAAA
* * *
32276987 AAATGGCAGATACACACAATAAAGATCAGTTTGATAATGGCATTCAT
64 AAATGGCAGATACACACAATAAACATCAATTTGATAATGACATTCAT
32277034 ACAATGGCAGATACAAACA
1 ACAATGGCAGATACAAACA
32277053 TATCAAAATC
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
110 36 0.32
111 1 0.01
112 77 0.68
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.24
Consensus pattern (110 bp):
ACAATGGCAGATACAAACAATAAACATCAGTTTAATAATGCATAATACAATGACAAATACAAAAA
ATGGCAGATACACACAATAAACATCAATTTGATAATGACATTCAT
Found at i:32277086 original size:112 final size:112
Alignment explanation
Indices: 32276868--32277087 Score: 302
Period size: 112 Copynumber: 2.0 Consensus size: 112
32276858 TTAATGGCAG
* *
32276868 ATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGGCAGA
1 ATACAAAAAATGGCAGATACACACAATAAACATCAATTTGATAATGACATTCATACAATGGCAGA
** * *
32276933 TACAAACAATAAAGATCAGTTTGATAATGACATTCATACAATGACAA
66 TACAAACAATAAAGATCAAATTGATAATAACATTCAAACAATGACAA
* * *
32276980 ATACAAAAAATGGCAGATACACACAATAAAGATCAGTTTGATAATGGCATTCATACAATGGCAGA
1 ATACAAAAAATGGCAGATACACACAATAAACATCAATTTGATAATGACATTCATACAATGGCAGA
*
32277045 TACAAACATATCAAA-ATCAAAATTGA-AATAACCTT-AAACAATG
66 TACAAACA-AT-AAAGATC-AAATTGATAATAACATTCAAACAATG
32277088 GCAGACACAA
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
112 75 0.79
113 12 0.13
114 8 0.08
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (112 bp):
ATACAAAAAATGGCAGATACACACAATAAACATCAATTTGATAATGACATTCATACAATGGCAGA
TACAAACAATAAAGATCAAATTGATAATAACATTCAAACAATGACAA
Found at i:32277206 original size:12 final size:12
Alignment explanation
Indices: 32277189--32277228 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
32277179 CGAAATAACC
32277189 CTAAATCGAAAT
1 CTAAATCGAAAT
32277201 CTAAATCGAAAT
1 CTAAATCGAAAT
*
32277213 CAAAATC-AAATT
1 CTAAATCGAAA-T
32277225 CTAA
1 CTAA
32277229 TCCTAGATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 3 0.12
12 22 0.88
ACGTcount: A:0.53, C:0.17, G:0.05, T:0.25
Consensus pattern (12 bp):
CTAAATCGAAAT
Found at i:32277932 original size:30 final size:30
Alignment explanation
Indices: 32277863--32277935 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 30
32277853 GGTAACTGTT
*
32277863 AGTTAGTGACTGTTTTGTCACTTTTTTATA
1 AGTTAGTGACTGTTTTGTCACTTTTTGATA
*
32277893 ACGTTAGTGACTGTTTTGTTACTTTTTGA-A
1 A-GTTAGTGACTGTTTTGTCACTTTTTGATA
32277923 AGTTAAGTGACTG
1 AGTT-AGTGACTG
32277936 AAATGAAACC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 3 0.08
30 11 0.28
31 25 0.64
ACGTcount: A:0.22, C:0.10, G:0.21, T:0.48
Consensus pattern (30 bp):
AGTTAGTGACTGTTTTGTCACTTTTTGATA
Found at i:32284238 original size:16 final size:16
Alignment explanation
Indices: 32284219--32284249 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32284209 CTTCTTCACT
32284219 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
32284235 TACTTACTTACTTAA
1 TACTCACTTACTTAA
32284250 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:32284255 original size:20 final size:20
Alignment explanation
Indices: 32284216--32284255 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
32284206 AAACTTCTTC
* *
32284216 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
32284236 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
32284256 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:32284570 original size:53 final size:54
Alignment explanation
Indices: 32284441--32284695 Score: 274
Period size: 55 Copynumber: 4.8 Consensus size: 54
32284431 ACGCGGGTAC
* ** * *
32284441 CTTACCATTGCCATAACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
32284490 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
32284543 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
32284598 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
32284651 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
32284696 AAACCCTAAT
Statistics
Matches: 173, Mismatches: 22, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
49 37 0.21
50 1 0.01
52 2 0.01
53 49 0.28
54 10 0.06
55 72 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:32284632 original size:108 final size:110
Alignment explanation
Indices: 32284488--32284688 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
32284478 ATCCTTTTGA
* *
32284488 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
32284551 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
32284596 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
32284661 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
32284689 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:32287426 original size:20 final size:19
Alignment explanation
Indices: 32287401--32287440 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
32287391 CCTTAAAGTA
32287401 AAAATGAATGTCAAATTTTT
1 AAAATGAATGTC-AATTTTT
* *
32287421 AAAATGTATTTCAATTTTT
1 AAAATGAATGTCAATTTTT
32287440 A
1 A
32287441 TTTTGGCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (19 bp):
AAAATGAATGTCAATTTTT
Found at i:32292658 original size:13 final size:13
Alignment explanation
Indices: 32292640--32292665 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32292630 CTGTGTATTC
32292640 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
32292653 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
32292666 AAAAATCCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:32306540 original size:3 final size:3
Alignment explanation
Indices: 32306532--32306593 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
32306522 CCCCTCAGCC
32306532 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32306580 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
32306594 AAATCAAGTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:32308876 original size:100 final size:97
Alignment explanation
Indices: 32308747--32308945 Score: 344
Period size: 100 Copynumber: 2.0 Consensus size: 97
32308737 GACTCGATTT
*
32308747 AAAACATTTGTAGATAAATGCTATTTTCCCTATTTGTGATTCTTAGACTCTAAAGAAGTTAGTTT
1 AAAACATTTGTAGATAAATACTATTTTCCCTATTTGTGATTCTT-GACTCTAAAGAAGTTAG-TT
*
32308812 GCTCTTCTATTATCCTAAAAAAAAAAATTGTAAAC
64 GCTCTTCAATTATCCT-AAAAAAAAAATTGTAAAC
32308847 AAAACATTTGTAGATAAATACTATTTTCCCTATTTGTGATTCTTGACTCTAAAGAAGTTAGTTGC
1 AAAACATTTGTAGATAAATACTATTTTCCCTATTTGTGATTCTTGACTCTAAAGAAGTTAGTTGC
*
32308912 TTTTCAATTATCCTAAAAAAAAAATTGTAAAC
66 TCTTCAATTATCCTAAAAAAAAAATTGTAAAC
32308944 AA
1 AA
32308946 GACAAAAATT
Statistics
Matches: 96, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
97 20 0.21
98 16 0.17
99 17 0.18
100 43 0.45
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (97 bp):
AAAACATTTGTAGATAAATACTATTTTCCCTATTTGTGATTCTTGACTCTAAAGAAGTTAGTTGC
TCTTCAATTATCCTAAAAAAAAAATTGTAAAC
Found at i:32313312 original size:26 final size:26
Alignment explanation
Indices: 32313283--32313544 Score: 276
Period size: 26 Copynumber: 10.1 Consensus size: 26
32313273 CTGGAAAAGT
* *
32313283 AGGCCTTGAGTCGGTAG-TTATTTAGC
1 AGGCCTTGAGCCGGT-GTTTATTTAAC
* *
32313309 AGGCATTGAGCCGGTGTTTTTTTAAC
1 AGGCCTTGAGCCGGTGTTTATTTAAC
* *
32313335 AGGCATTGAGCCGGTGGTTATTTAAC
1 AGGCCTTGAGCCGGTGTTTATTTAAC
*
32313361 AGGCCTTGAGCTGGTGTTTATTTAA-
1 AGGCCTTGAGCCGGTGTTTATTTAAC
**
32313386 AGGCCTTGAGCTAGTGTTTATTTAAC
1 AGGCCTTGAGCCGGTGTTTATTTAAC
* * * * *
32313412 AAGCCCTGAGTCGGTGGTTATTTAGC
1 AGGCCTTGAGCCGGTGTTTATTTAAC
* **
32313438 AGGCCTTGAGCCGGTGGTTATTTAGT
1 AGGCCTTGAGCCGGTGTTTATTTAAC
* **
32313464 AAGCCTTGAGCCGGTGTTTATTTAGT
1 AGGCCTTGAGCCGGTGTTTATTTAAC
* *
32313490 AGGCCTTGAGTCAGTGTTTATTTAAC
1 AGGCCTTGAGCCGGTGTTTATTTAAC
* * *
32313516 AGGCCTTAAGCCGGTGTATATTTATC
1 AGGCCTTGAGCCGGTGTTTATTTAAC
32313542 AGG
1 AGG
32313545 TACTATGTAC
Statistics
Matches: 201, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
25 25 0.12
26 176 0.88
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (26 bp):
AGGCCTTGAGCCGGTGTTTATTTAAC
Found at i:32315263 original size:18 final size:18
Alignment explanation
Indices: 32315240--32315277 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
32315230 TGAAAGGGTT
32315240 AGTATACGTACTAGAGTA
1 AGTATACGTACTAGAGTA
32315258 AGTATACGTACTAGAGTA
1 AGTATACGTACTAGAGTA
32315276 AG
1 AG
32315278 ACAATACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (18 bp):
AGTATACGTACTAGAGTA
Found at i:32327235 original size:85 final size:84
Alignment explanation
Indices: 32327137--32327523 Score: 463
Period size: 84 Copynumber: 4.7 Consensus size: 84
32327127 AACAATATCG
*
32327137 AATAAAATCTTGTTAAACGGCAGGAATAAATCTCGAAACAAATTTTATTTAATTCAAATTCGAAT
1 AATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAAATTTTATTTAATT-AAATTCGAAT
*
32327202 TTGGAAATAAAATAAAATAA
65 TTGGAAATAAAATCAAATAA
32327222 AATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAAATTTTATTTAATTCAAATTCGAA-
1 AATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAAATTTTATTTAATT-AAATTCGAAT
*
32327286 TT-----T---A-GAAATAA
65 TTGGAAATAAAATCAAATAA
* * *
32327297 AATAAAATCTTGTTAAACGGC-GGAAATAAATCCCGAAACAGATTTTATTTAATTATATTCTAAT
1 AATAAAATCTTGTTAAACGGCAGG-AATAAATCCCGAAACAAATTTTATTTAATTAAATTCGAAT
* * *
32327361 TTAGAAATCAAATCAAATCA
65 TTGGAAATAAAATCAAATAA
* * * * * *
32327381 AATCAAATCTTGTTAAATGGCGGGAATAAATCCCGAAACATATTTTATTTAATTATATTCTAATT
1 AATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAAATTTTATTTAATTAAATTCGAATT
* *
32327446 TGGAAACAAAATCAAATCA
66 TGGAAATAAAATCAAATAA
* * * * * *
32327465 AATAAAATCTTGTTAAACGACGGGAATAAATCCTGGAACATATTTTATTTAATTTAATT
1 AATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAAATTTTATTTAATTAAATT
32327524 TCTCGTTTTT
Statistics
Matches: 270, Mismatches: 20, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
74 9 0.03
75 58 0.21
76 1 0.00
79 1 0.00
80 1 0.00
83 1 0.00
84 134 0.50
85 65 0.24
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.33
Consensus pattern (84 bp):
AATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAAATTTTATTTAATTAAATTCGAATT
TGGAAATAAAATCAAATAA
Found at i:32327375 original size:5 final size:5
Alignment explanation
Indices: 32327365--32327389 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
32327355 TCTAATTTAG
32327365 AAATC AAATC AAATC AAATC AAATC
1 AAATC AAATC AAATC AAATC AAATC
32327390 TTGTTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATC
Found at i:32327429 original size:159 final size:159
Alignment explanation
Indices: 32327137--32327463 Score: 469
Period size: 159 Copynumber: 2.1 Consensus size: 159
32327127 AACAATATCG
*
32327137 AATAAAATCTTGTTAAACGGCAGGAATAAATCTCGAAACAAATTTTATTTAATTCAAATTCGAAT
1 AATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAAATTTTATTTAATTCAAATTCGAAT
*
32327202 TTGGAAATAAAATAAAATAAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAAATTT
66 TTAGAAATAAAATAAAATAAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAAATTT
*
32327267 TATTTAATTCAAATTCGAATTTAGAAATAA
131 TATTTAATT-AAATTCGAATTTAGAAACAA
* * *
32327297 AATAAAATCTTGTTAAACGGC-GGAAATAAATCCCGAAACAGATTTTATTTAATT-ATATTCTAA
1 AATAAAATCTTGTTAAACGGCAGG-AATAAATCCCGAAACAAATTTTATTTAATTCAAATTCGAA
* * * * * * *
32327360 TTTAGAAATCAAATCAAATCAAATCAAATCTTGTTAAATGGCGGGAATAAATCCCGAAACATATT
65 TTTAGAAATAAAATAAAATAAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAAATT
* * *
32327425 TTATTTAATTATATTCTAATTTGGAAACAA
130 TTATTTAATTAAATTCGAATTTAGAAACAA
*
32327455 AATCAAATC
1 AATAAAATC
32327464 AAATAAAATC
Statistics
Matches: 149, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
158 24 0.16
159 76 0.51
160 49 0.33
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (159 bp):
AATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAAATTTTATTTAATTCAAATTCGAAT
TTAGAAATAAAATAAAATAAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAAATTT
TATTTAATTAAATTCGAATTTAGAAACAA
Found at i:32327494 original size:243 final size:242
Alignment explanation
Indices: 32327048--32327518 Score: 619
Period size: 243 Copynumber: 1.9 Consensus size: 242
32327038 TTATATCATT
* * * *
32327048 AAATCAAAATAAAATCTATTAAACGGTGAGAATAAATCCCGAAATAGAATTATTTGATTACGTCT
1 AAATCAAAATAAAATCTATTAAACGGGGAGAATAAATCCCGAAACAGAATTATTTAATTAC-TAT
* * * *
32327113 TTGTTTGGAAACAAAACAATATCGAATAAAATCTTGTTAAACGGCAGGAATAAATCTCGAAACAA
65 TTATTTAGAAACAAAACAATATCAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAA
* *
32327178 ATTTTATTTAATTCAAATTCGAATTTGGAAATAAAATAAAATAAAATAAAATCTTGTTAAACGGC
130 ATTTTATTTAATTCAAATTCGAATTTGGAAACAAAATAAAATAAAATAAAATCTTGTTAAACGAC
32327243 AGGAATAAATCCCGAAACAAATTTTATTTAATTCAAATTCGAATTTAG
195 AGGAATAAATCCCGAAACAAATTTTATTTAATTCAAATTCGAATTTAG
* *
32327291 AAAT-AAAATAAAATCTTGTTAAACGGCGGA-AATAAATCCCGAAACAGATTTTATTTAATTA-T
1 AAATCAAAATAAAATC-TATTAAACGG-GGAGAATAAATCCCGAAACAGA-ATTATTTAATTACT
* * * *
32327353 ATTCTAATTTAGAAATCAAATCAA-ATCAAATCAAATCTTGTTAAATGGCGGGAATAAATCCCGA
63 ATT-T-ATTTAGAAA-CAAAACAATATCAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCGA
* * * * *
32327417 AACATATTTTATTTAATT-ATATTCTAATTTGGAAACAAAATCAAATCAAATAAAATCTTGTTAA
125 AACAAATTTTATTTAATTCAAATTCGAATTTGGAAACAAAATAAAATAAAATAAAATCTTGTTAA
* * * *
32327481 ACGACGGGAATAAATCCTGGAACATATTTTATTTAATT
190 ACGACAGGAATAAATCCCGAAACAAATTTTATTTAATT
32327519 TAATTTCTCG
Statistics
Matches: 197, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
242 14 0.07
243 105 0.53
244 71 0.36
245 7 0.04
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (242 bp):
AAATCAAAATAAAATCTATTAAACGGGGAGAATAAATCCCGAAACAGAATTATTTAATTACTATT
TATTTAGAAACAAAACAATATCAAATAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAAA
TTTTATTTAATTCAAATTCGAATTTGGAAACAAAATAAAATAAAATAAAATCTTGTTAAACGACA
GGAATAAATCCCGAAACAAATTTTATTTAATTCAAATTCGAATTTAG
Found at i:32327751 original size:89 final size:87
Alignment explanation
Indices: 32327609--32327856 Score: 302
Period size: 89 Copynumber: 2.8 Consensus size: 87
32327599 TTTACTTGTT
* * * * * *
32327609 TTTGGAAATAAAACAAAAT-TTGGAATAAAAT-TGTTAAACGGCGGGAATCAATCCTAAAACGGA
1 TTTGGAAATAAAACAAAATAAT-GAATAAAATCTGTTGAACGGCGAGAATAAATCCCAAAACAGA
32327672 TTTTATTTACCTTTAATTTCCCA
65 TTTTATTTACCTTTAATTTCCCA
* * *
32327695 TTTGGAAATAGAAACAAAATAATAGAATAAAATCCGTTGAACGGTGAGAATAAATCCCGAAACAG
1 TTTGGAAATA-AAACAAAATAAT-GAATAAAATCTGTTGAACGGCGAGAATAAATCCCAAAACAG
*
32327760 ATTTTATTTACCTTTAATTTCCTA
64 ATTTTATTTACCTTTAATTTCCCA
** * * *
32327784 TTTAAAAATAAAATCAAAATAATGAAATAAAATCTATTGAACGGCGAGAATAAATCCCGAAATAG
1 TTTGGAAATAAAA-CAAAATAATG-AATAAAATCTGTTGAACGGCGAGAATAAATCCCAAAACAG
32327849 ATTTTATT
64 ATTTTATT
32327857 AATTTTGGAA
Statistics
Matches: 140, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
86 10 0.07
87 9 0.06
88 14 0.10
89 107 0.76
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (87 bp):
TTTGGAAATAAAACAAAATAATGAATAAAATCTGTTGAACGGCGAGAATAAATCCCAAAACAGAT
TTTATTTACCTTTAATTTCCCA
Found at i:32327918 original size:67 final size:67
Alignment explanation
Indices: 32327799--32327929 Score: 165
Period size: 67 Copynumber: 2.0 Consensus size: 67
32327789 AAATAAAATC
* * * * * * *
32327799 AAAATAATGAAATAAAATCTATTGAACGGCGAGAATAAATCCCGAAATAGATTTTATTAATTTTG
1 AAAAAAATCAAATAAAATCTATTAAACGACGAGAAAAAATCCAGAAACAGATTTTATTAATTTTG
32327864 GA
66 GA
* *
32327866 AAAAAAATCAAATAAAATCTGTTAAACGACGAGAAAAAATCCTAG-AACAGATTTTATTAGTTTT
1 AAAAAAATCAAATAAAATCTATTAAACGACGAGAAAAAATCC-AGAAACAGATTTTATTAATTTT
32327930 AATATTCATT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
67 53 0.98
68 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (67 bp):
AAAAAAATCAAATAAAATCTATTAAACGACGAGAAAAAATCCAGAAACAGATTTTATTAATTTTG
GA
Found at i:32328040 original size:13 final size:13
Alignment explanation
Indices: 32328019--32328048 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32328009 TTATTTAATT
32328019 TTTTAAAAAAATA
1 TTTTAAAAAAATA
*
32328032 TTTTCAAAAAATA
1 TTTTAAAAAAATA
32328045 TTTT
1 TTTT
32328049 TTTCTTCGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTTAAAAAAATA
Found at i:32337404 original size:46 final size:46
Alignment explanation
Indices: 32337354--32337529 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
32337344 TGGTTGAGCA
*
32337354 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
32337400 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
32337447 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCCAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
32337493 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32337530 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 71 0.68
47 34 0.32
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:32337510 original size:93 final size:93
Alignment explanation
Indices: 32337351--32337521 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
32337341 GGATGGTTGA
* * *
32337351 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
32337416 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
32337444 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCCAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
32337509 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
32337522 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:32343166 original size:33 final size:33
Alignment explanation
Indices: 32343120--32343191 Score: 76
Period size: 32 Copynumber: 2.2 Consensus size: 33
32343110 GTACCAACCT
*
32343120 ACACAACATCAAA-CAACCCCAATCCAAGCATATAC
1 ACACAACA-CAAACCAACCACAA-CCAAG-ATATAC
* *
32343155 ACACAAC-CAAACCAGCCACAACCAAGATATCC
1 ACACAACACAAACCAACCACAACCAAGATATAC
32343187 ACACA
1 ACACA
32343192 TCAATTACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
32 10 0.30
33 9 0.27
34 7 0.21
35 7 0.21
ACGTcount: A:0.49, C:0.39, G:0.04, T:0.08
Consensus pattern (33 bp):
ACACAACACAAACCAACCACAACCAAGATATAC
Found at i:32343929 original size:42 final size:41
Alignment explanation
Indices: 32343851--32343999 Score: 158
Period size: 42 Copynumber: 3.6 Consensus size: 41
32343841 AATCATACCA
* *
32343851 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATTG
1 ATGCCATATCCCAGCTATGGTCTTACAT-GGATCTCATATCG
*
32343893 ATGCCAATAGCCCAGCTATGGTCTTACAT-GATTCTCATATCG
1 ATGCC-ATATCCCAGCTATGGTCTTACATGGA-TCTCATATCG
*** *
32343935 ATGCCATATCCCAGAC-ATGGTCTTACACAAAATCTCATAACG
1 ATGCCATATCCCAG-CTATGGTCTTACA-TGGATCTCATATCG
* *
32343977 ATGTCATATCCCAGATATGGTCT
1 ATGCCATATCCCAGCTATGGTCT
32344000 GACACGTAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
41 21 0.23
42 49 0.53
43 22 0.24
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGCTATGGTCTTACATGGATCTCATATCG
Found at i:32351422 original size:14 final size:15
Alignment explanation
Indices: 32351400--32351430 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32351390 ATCAAAATAC
*
32351400 ATAAAAAAAATTAAT
1 ATAAAAAAATTTAAT
32351415 ATAAAAAAATTTAAT
1 ATAAAAAAATTTAAT
32351430 A
1 A
32351431 CCAAAGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAAAAAAATTTAAT
Found at i:32364589 original size:26 final size:26
Alignment explanation
Indices: 32364558--32364665 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
32364548 TGAAATGCCC
*
32364558 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
32364584 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
32364610 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
32364636 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
32364662 ATCA
1 ATCA
32364666 ATTTGTACCA
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:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:32372849 original size:46 final size:44
Alignment explanation
Indices: 32372777--32372900 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 44
32372767 ATATGTGTGT
** * * *
32372777 TAGTGTAAGACATGTCCAGGATATGCATCGACCGCATT-ATGAGATC
1 TAGTGTAAGACATGTCTGGGACATGCATC-A--GCATTGACGAGAGC
32372823 TAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACGAGAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCAGCATT--GACGAGAGC
*
32372869 TAGTGTAAGACATGTTTGGGACATGCATCAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCAGC
32372901 CTCGCGGTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
43 5 0.07
45 1 0.01
46 63 0.91
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (44 bp):
TAGTGTAAGACATGTCTGGGACATGCATCAGCATTGACGAGAGC
Found at i:32373132 original size:14 final size:14
Alignment explanation
Indices: 32373113--32373142 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
32373103 GGGAGATGTA
32373113 TGGTTTATATCGAG
1 TGGTTTATATCGAG
32373127 TGGTTTATATCGAG
1 TGGTTTATATCGAG
32373141 TG
1 TG
32373143 ATAGAGCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.30, T:0.43
Consensus pattern (14 bp):
TGGTTTATATCGAG
Found at i:32376478 original size:49 final size:47
Alignment explanation
Indices: 32376361--32376822 Score: 635
Period size: 47 Copynumber: 9.7 Consensus size: 47
32376351 GATTTTACGC
* *
32376361 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
32376408 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
*
32376455 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
* *
32376504 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
32376553 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
*
32376600 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
32376649 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT
*
32376698 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
* * * * *
32376745 GATGAATGTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * *
32376792 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
32376823 TCCCGAAGGG
Statistics
Matches: 379, Mismatches: 24, Indels: 24
0.89 0.06 0.06
Matches are distributed among these distances:
46 6 0.02
47 181 0.48
48 16 0.04
49 172 0.45
50 4 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:32376485 original size:96 final size:95
Alignment explanation
Indices: 32376361--32376822 Score: 648
Period size: 96 Copynumber: 4.8 Consensus size: 95
32376351 GATTTTACGC
32376361 GATGAATGTGAA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
32376425 ATATATGTGATAAGG-CTGAATAGCCAATGT
66 ATATATGTGATAAGGCCT-AATAGCCAATGT
32376455 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
* * *
32376520 TATATATATGTGATAAGGCCTAATGGCCGATGT
63 TGTATATATGTGATAAGGCCTAATAGCCAATGT
*
32376553 GATGAATGTGAAG-GTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTG-AAG-G
* *
32376616 TGTATATATGTGATAAGGCCTAATGGCCGATGT
63 TGTATATATGTGATAAGGCCTAATAGCCAATGT
* *
32376649 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
32376714 TATATATGTGATAAGG-CTGAATAGCCAATGT
65 TATATATGTGATAAGGCCT-AATAGCCAATGT
* * * * * * * *
32376745 GATGAATGTGAAG-GTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
*
32376809 ATAAATGTGATAAG
66 ATATATGTGATAAG
32376823 TCCCGAAGGG
Statistics
Matches: 337, Mismatches: 21, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
94 64 0.19
95 9 0.03
96 172 0.51
97 12 0.04
98 76 0.23
99 4 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (95 bp):
GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
ATATATGTGATAAGGCCTAATAGCCAATGT
Found at i:32376543 original size:145 final size:145
Alignment explanation
Indices: 32376361--32376822 Score: 792
Period size: 145 Copynumber: 3.2 Consensus size: 145
32376351 GATTTTACGC
*
32376361 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
32376424 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
66 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
32376489 CCTAATGGCCGATGT
131 CCTAATGGCCGATGT
32376504 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
*
32376569 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
66 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
32376634 CCTAATGGCCGATGT
131 CCTAATGGCCGATGT
*
32376649 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
* *
32376714 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTG-AAG-GTGTATATATGTGACAGGG
66 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
* * * *
32376777 CCGAGTGGCCAACGT
131 CCTAATGGCCGATGT
*
32376792 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
32376823 TCCCGAAGGG
Statistics
Matches: 306, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 57 0.19
144 5 0.02
145 233 0.76
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (145 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
CCTAATGGCCGATGT
Found at i:32378875 original size:40 final size:40
Alignment explanation
Indices: 32378746--32378947 Score: 224
Period size: 40 Copynumber: 5.0 Consensus size: 40
32378736 CTCGACGATG
* *
32378746 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTG--ATAT
* * * * *
32378788 ATCCGGGTTAAGTCCCGTAGAGCATTCGTGCTGGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATAT
* * *
32378828 ATTCGGGCTAAATCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATAT
* * *
32378868 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATAT
* * * * *
32378908 ATCCGGACCAGGTTCCGAAGAGCAGTCATGCTGGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATAT
32378948 GTATTCGGGC
Statistics
Matches: 137, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 104 0.76
42 33 0.24
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATAT
Found at i:32378989 original size:43 final size:43
Alignment explanation
Indices: 32378940--32379375 Score: 800
Period size: 43 Copynumber: 10.1 Consensus size: 43
32378930 CAGTCATGCT
32378940 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
32378983 AGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
32379026 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
32379069 AGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
32379112 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
32379155 AGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
32379198 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
32379241 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
32379284 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
* * **
32379327 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
32379370 GGTGAT
1 GGTGAT
32379376 TCGAGCAAGG
Statistics
Matches: 381, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 381 1.00
ACGTcount: A:0.13, C:0.22, G:0.32, T:0.33
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
Found at i:32383232 original size:49 final size:47
Alignment explanation
Indices: 32383115--32383576 Score: 635
Period size: 47 Copynumber: 9.7 Consensus size: 47
32383105 GATTTTACGC
* *
32383115 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
32383162 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
*
32383209 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
* *
32383258 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
32383307 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
*
32383354 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT
*
32383403 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT
*
32383452 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT
* * * * *
32383499 GATGAATGTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * *
32383546 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
32383577 TCCCGAAGGG
Statistics
Matches: 379, Mismatches: 24, Indels: 24
0.89 0.06 0.06
Matches are distributed among these distances:
46 6 0.02
47 181 0.48
48 16 0.04
49 172 0.45
50 4 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:32383239 original size:96 final size:95
Alignment explanation
Indices: 32383115--32383576 Score: 648
Period size: 96 Copynumber: 4.8 Consensus size: 95
32383105 GATTTTACGC
32383115 GATGAATGTGAA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
32383179 ATATATGTGATAAGG-CTGAATAGCCAATGT
66 ATATATGTGATAAGGCCT-AATAGCCAATGT
32383209 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
* * *
32383274 TATATATATGTGATAAGGCCTAATGGCCGATGT
63 TGTATATATGTGATAAGGCCTAATAGCCAATGT
*
32383307 GATGAATGTGAAG-GTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTG-AAG-G
* *
32383370 TGTATATATGTGATAAGGCCTAATGGCCGATGT
63 TGTATATATGTGATAAGGCCTAATAGCCAATGT
* *
32383403 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
32383468 TATATATGTGATAAGG-CTGAATAGCCAATGT
65 TATATATGTGATAAGGCCT-AATAGCCAATGT
* * * * * * * *
32383499 GATGAATGTGAAG-GTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
*
32383563 ATAAATGTGATAAG
66 ATATATGTGATAAG
32383577 TCCCGAAGGG
Statistics
Matches: 337, Mismatches: 21, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
94 64 0.19
95 9 0.03
96 172 0.51
97 12 0.04
98 76 0.23
99 4 0.01
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (95 bp):
GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT
ATATATGTGATAAGGCCTAATAGCCAATGT
Found at i:32383297 original size:145 final size:145
Alignment explanation
Indices: 32383115--32383576 Score: 792
Period size: 145 Copynumber: 3.2 Consensus size: 145
32383105 GATTTTACGC
*
32383115 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
32383178 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
66 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
32383243 CCTAATGGCCGATGT
131 CCTAATGGCCGATGT
32383258 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
*
32383323 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
66 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
32383388 CCTAATGGCCGATGT
131 CCTAATGGCCGATGT
*
32383403 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
* *
32383468 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTG-AAG-GTGTATATATGTGACAGGG
66 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
* * * *
32383531 CCGAGTGGCCAACGT
131 CCTAATGGCCGATGT
*
32383546 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
32383577 TCCCGAAGGG
Statistics
Matches: 306, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 57 0.19
144 5 0.02
145 233 0.76
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30
Consensus pattern (145 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
CCTAATGGCCGATGT
Found at i:32385816 original size:12 final size:12
Alignment explanation
Indices: 32385799--32385823 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32385789 CCTGATGGAT
32385799 AAGTTGGTAACC
1 AAGTTGGTAACC
32385811 AAGTTGGTAACC
1 AAGTTGGTAACC
32385823 A
1 A
32385824 TAGTATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (12 bp):
AAGTTGGTAACC
Found at i:32391389 original size:42 final size:40
Alignment explanation
Indices: 32391278--32391391 Score: 111
Period size: 43 Copynumber: 2.7 Consensus size: 40
32391268 TATCATACAA
* * **
32391278 ATGTCATATCCCAGATATGGTCTTACATGGGATTCTGCATCG
1 ATGTCATATCCCAGATATGGTCTTACA--CGAATCCCCATCG
* * * *
32391320 ATGCCAAGAGCCCAGCTATGGTCTTACACGAATCCCCATATCG
1 ATGTC-ATATCCCAGATATGGTCTTACACGAATCCCC--ATCG
32391363 ATGTCATATCCCAGATATGGTCTTACACG
1 ATGTCATATCCCAGATATGGTCTTACACG
32391392 TAACATCAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
41 5 0.09
42 25 0.44
43 27 0.47
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (40 bp):
ATGTCATATCCCAGATATGGTCTTACACGAATCCCCATCG
Found at i:32393222 original size:34 final size:34
Alignment explanation
Indices: 32393182--32393256 Score: 150
Period size: 34 Copynumber: 2.2 Consensus size: 34
32393172 AGGTTTGAGA
32393182 GATGAATGACCGAATGAGCTATAGGTTATGTATG
1 GATGAATGACCGAATGAGCTATAGGTTATGTATG
32393216 GATGAATGACCGAATGAGCTATAGGTTATGTATG
1 GATGAATGACCGAATGAGCTATAGGTTATGTATG
32393250 GATGAAT
1 GATGAAT
32393257 TTTATGCATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (34 bp):
GATGAATGACCGAATGAGCTATAGGTTATGTATG
Found at i:32394426 original size:48 final size:48
Alignment explanation
Indices: 32394357--32394940 Score: 952
Period size: 48 Copynumber: 12.0 Consensus size: 48
32394347 AGACAAATAT
* *
32394357 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
32394405 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
32394453 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
32394501 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAG
* *
32394551 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
32394599 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
32394647 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATGTGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
32394695 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAG
*
32394745 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAG
*
32394795 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
32394843 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
32394891 ATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATATAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
32394939 AT
1 AT
32394941 GTGTGTATAT
Statistics
Matches: 509, Mismatches: 23, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
48 366 0.72
49 8 0.02
50 135 0.27
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:32394619 original size:146 final size:144
Alignment explanation
Indices: 32394357--32394940 Score: 952
Period size: 146 Copynumber: 4.0 Consensus size: 144
32394347 AGACAAATAT
* *
32394357 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAAATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAATGAGATATGTATATGTGGTAA
* *
32394422 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
66 AGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
*
32394487 GAAATGTGTATGAG
131 GAAATATGTATGAG
*
32394501 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT-GA-ATGAGATATGTATATGTGGT
*
32394566 AAAGCCGAATGGCTAGTGCGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
64 AAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
32394631 GTGAAATATGTATGAG
129 GTGAAATATGTATGAG
* *
32394647 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATGTGAATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAATGAGATATGTATATGTGGTAA
* *
32394712 AGCCGAATGGCTAGTGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGT
66 AGCCGAATGGCTAGTGTGAAATAT-GA-ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
*
32394777 GTGAAATATATATATGAG
129 GTG-AA-ATATGTATGAG
*
32394795 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAATGAGATATGTATATGTGGTAA
* * *
32394860 AGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCTGAATGGCTAGTGT
66 AGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
* *
32394925 GAAATATATAGGAG
131 GAAATATGTATGAG
32394939 AT
1 AT
32394941 GTGTGTATAT
Statistics
Matches: 415, Mismatches: 19, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
144 98 0.24
145 4 0.01
146 213 0.51
147 2 0.00
148 98 0.24
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (144 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
GAAATATGTATGAG
Found at i:32395135 original size:37 final size:37
Alignment explanation
Indices: 32395085--32395183 Score: 153
Period size: 37 Copynumber: 2.7 Consensus size: 37
32395075 ATATATTCCG
32395085 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
* * *
32395122 GGTAAGACCCGATGACTACGTATGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
* *
32395159 GGTAAGACCCAATAACTACGTGTGG
1 GGTAAGACCCGATGACTACGTGTGG
32395184 GGACTATTCG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
Found at i:32401023 original size:45 final size:45
Alignment explanation
Indices: 32400923--32401059 Score: 156
Period size: 45 Copynumber: 3.1 Consensus size: 45
32400913 TGGACTTTTC
* * *
32400923 TCAAATCACCGGCATT-TCGTCTGTTAGGCTCG-AGGCCCG-ATA
1 TCAATTCACCGGCATTATAGTCTGCTAGGCTCGAAGGCCCGAATA
*
32400965 TCAATTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
1 TCAATTCACCGGCATTATAGTCTGCTAGGCTCGAAGGCCCGAATA
* * * *
32401010 -GAATCTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATAA
1 TCAAT-TCACCGGCATTATAGTCTGCTAGGCTCGAAGGCCCGAAT-A
32401056 TCAA
1 TCAA
32401060 GTCAACAAGT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
42 15 0.19
43 13 0.16
44 10 0.13
45 38 0.48
46 1 0.01
47 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (45 bp):
TCAATTCACCGGCATTATAGTCTGCTAGGCTCGAAGGCCCGAATA
Found at i:32401427 original size:43 final size:43
Alignment explanation
Indices: 32401366--32401574 Score: 332
Period size: 43 Copynumber: 4.9 Consensus size: 43
32401356 ACATATCATT
* * *
32401366 TCACCGGCATTACGCCTGCTAGGCACGAAGGCTCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
32401409 TCACCGACA-TGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACT-AAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
32401452 TCACCGGTA-TGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACT-AAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
32401495 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCTGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
32401538 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAA
32401575 ATATAATACC
Statistics
Matches: 156, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
42 1 0.01
43 154 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.33, G:0.24, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:32405102 original size:40 final size:40
Alignment explanation
Indices: 32405047--32405270 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
32405037 TATTCGGATG
32405047 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
32405087 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
32405130 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
32405170 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
32405210 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
32405250 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
32405271 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 114 0.69
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:32405190 original size:83 final size:80
Alignment explanation
Indices: 32405051--32405270 Score: 302
Period size: 83 Copynumber: 2.7 Consensus size: 80
32405041 CGGATGATAT
* **
32405051 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
32405116 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
32405134 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
32405199 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
32405214 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
32405271 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.35
81 2 0.02
83 64 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:32413209 original size:40 final size:40
Alignment explanation
Indices: 32413154--32413377 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
32413144 TATTCGGATG
32413154 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
32413194 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
32413237 ACACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * * ** * *
32413277 ATATCCGGGCTTCGTCCCAAAGGTATTCATGCCAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
32413317 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
32413357 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
32413378 ACACTTGGGT
Statistics
Matches: 154, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 13 0.08
40 104 0.68
41 1 0.01
43 36 0.23
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:32413397 original size:123 final size:122
Alignment explanation
Indices: 32413154--32413380 Score: 298
Period size: 123 Copynumber: 1.9 Consensus size: 122
32413144 TATTCGGATG
* ** * *
32413154 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCAAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
32413219 TTTGTGCGAGTAGTTGCTACACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTTGTGC-AGTAGTTGCTACACCCGGGCTAAATCCCGAAGACATTTGTGCAAGTGACT
** * *
32413277 ATATCCGGGCTTCGTCCCAAAGGTATTCATGCCAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCAAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
32413342 TTTGTGC-G-AGTTGCTATATCC-GGCTAAATCCCGAAGACA
66 TTTGTGCAGTAGTTGCTACACCCGGGCTAAATCCCGAAGACA
32413381 CTTGGGTTTG
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
119 16 0.18
120 11 0.12
121 1 0.01
123 63 0.69
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (122 bp):
ATATCCGGGCTAAGTCCCAAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCAGTAGTTGCTACACCCGGGCTAAATCCCGAAGACATTTGTGCAAGTGACT
Found at i:32414844 original size:17 final size:17
Alignment explanation
Indices: 32414822--32414858 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
32414812 AAATTAATAG
32414822 TAAAATATTCTAAGTCC
1 TAAAATATTCTAAGTCC
32414839 TAAAATATTCTAAGTCC
1 TAAAATATTCTAAGTCC
32414856 TAA
1 TAA
32414859 TGTCATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (17 bp):
TAAAATATTCTAAGTCC
Found at i:32415024 original size:15 final size:16
Alignment explanation
Indices: 32414997--32415026 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32414987 TATAACAATT
32414997 AATATATATTATATAA
1 AATATATATTATATAA
32415013 AATATA-ATTATATA
1 AATATATATTATATA
32415027 TTAGTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:32415027 original size:22 final size:21
Alignment explanation
Indices: 32414987--32415029 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
32414977 ATACAAAGTT
32414987 TATAACAATTAATATATATTA
1 TATAACAATTAATATATATTA
32415008 TATAA-AATATAATTATATATTA
1 TATAACAAT-TAA-TATATATTA
32415030 GTTATTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 3 0.15
21 8 0.40
22 9 0.45
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TATAACAATTAATATATATTA
Found at i:32426483 original size:24 final size:23
Alignment explanation
Indices: 32426456--32426500 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
32426446 ATGCAAGAAT
*
32426456 TAAACTAAAAGAAAGTAAAAAAAA
1 TAAAATAAAAGAAA-TAAAAAAAA
*
32426480 TAAAATAAAAGGAATAAAAAA
1 TAAAATAAAAGAAATAAAAAA
32426501 TAAAGAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (23 bp):
TAAAATAAAAGAAATAAAAAAAA
Found at i:32434886 original size:26 final size:26
Alignment explanation
Indices: 32434850--32434903 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
32434840 TAATGCATAG
32434850 TAAGTTCGTATAACATGAAATAAACT
1 TAAGTTCGTATAACATGAAATAAACT
32434876 TAAGTTCGTATAACATGAAATAAACT
1 TAAGTTCGTATAACATGAAATAAACT
32434902 TA
1 TA
32434904 CCAATCACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (26 bp):
TAAGTTCGTATAACATGAAATAAACT
Found at i:32445799 original size:2 final size:2
Alignment explanation
Indices: 32445794--32445821 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32445784 TATATATATA
32445794 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
32445822 CATATGGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:32453132 original size:21 final size:21
Alignment explanation
Indices: 32453107--32453149 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
32453097 TTAAAGAGAG
32453107 GGGAACTAAGAAGCAAATCTA
1 GGGAACTAAGAAGCAAATCTA
32453128 GGGAACTAAGAAGCAAATCTA
1 GGGAACTAAGAAGCAAATCTA
32453149 G
1 G
32453150 TATTTTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.26, T:0.14
Consensus pattern (21 bp):
GGGAACTAAGAAGCAAATCTA
Found at i:32453676 original size:23 final size:23
Alignment explanation
Indices: 32453649--32453764 Score: 110
Period size: 23 Copynumber: 5.0 Consensus size: 23
32453639 AATTTGCTTA
*
32453649 GTATACTTGGTTGTGTTCGGAGG
1 GTATACTTGGTTGTGTTTGGAGG
* *
32453672 CTATACATATGGTTATGTTTGGAGG
1 GTATAC-T-TGGTTGTGTTTGGAGG
* *
32453697 GTATATTTGGTTGTGTTAGGAGG
1 GTATACTTGGTTGTGTTTGGAGG
* * *
32453720 GTACA-TATGGTTGTATTTGGTGG
1 GTATACT-TGGTTGTGTTTGGAGG
*
32453743 GTA-AATTGGTTGTGTTTGGAGG
1 GTATACTTGGTTGTGTTTGGAGG
32453765 CTATGTTTGG
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
22 16 0.21
23 40 0.53
24 2 0.03
25 18 0.24
ACGTcount: A:0.18, C:0.04, G:0.36, T:0.41
Consensus pattern (23 bp):
GTATACTTGGTTGTGTTTGGAGG
Found at i:32453745 original size:46 final size:47
Alignment explanation
Indices: 32453649--32453765 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 47
32453639 AATTTGCTTA
* * *
32453649 GTATACTTGGTTGTGTTCGGAGGCTATACATATGGTTATGTTTGGAGG
1 GTATAATTGGTTGTGTTAGGAGGC-ATACATATGGTTATATTTGGAGG
* * * *
32453697 GTATATTTGGTTGTGTTAGGAGG-GTACATATGGTTGTATTTGGTGG
1 GTATAATTGGTTGTGTTAGGAGGCATACATATGGTTATATTTGGAGG
*
32453743 GTA-AATTGGTTGTGTTTGGAGGC
1 GTATAATTGGTTGTGTTAGGAGGC
32453766 TATGTTTGGT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 17 0.28
46 22 0.37
48 21 0.35
ACGTcount: A:0.18, C:0.05, G:0.36, T:0.41
Consensus pattern (47 bp):
GTATAATTGGTTGTGTTAGGAGGCATACATATGGTTATATTTGGAGG
Found at i:32458531 original size:30 final size:30
Alignment explanation
Indices: 32458497--32458557 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
32458487 TCCTTAACTC
32458497 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
32458527 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
32458557 A
1 A
32458558 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:32462272 original size:28 final size:28
Alignment explanation
Indices: 32462226--32462294 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
32462216 TTTAAAACCC
*
32462226 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
32462253 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
32462281 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
32462295 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:32464158 original size:19 final size:18
Alignment explanation
Indices: 32464121--32464164 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
32464111 ATACATACAG
32464121 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
32464138 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
32464157 TACTAATT
1 TAATAATT
32464165 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:32464748 original size:21 final size:21
Alignment explanation
Indices: 32464724--32464764 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32464714 TCATCAGATC
*
32464724 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
32464745 TACAGGTTGAGGAATCGGGG
1 TACACCTTGAGGAATCGGGG
32464765 AGGTGGGGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:32472298 original size:40 final size:40
Alignment explanation
Indices: 32472214--32472397 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
32472204 TCGAATGATG
* *
32472214 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
32472253 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
32472294 TCC-GG-TAAGTCCCGAAGGCATTTGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
32472332 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
32472371 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
32472398 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
37 1 0.01
38 32 0.25
39 4 0.03
40 79 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:32472350 original size:78 final size:81
Alignment explanation
Indices: 32472215--32472397 Score: 243
Period size: 78 Copynumber: 2.3 Consensus size: 81
32472205 CGAATGATGT
* *
32472215 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
*
32472279 GTGCGAGTTACTA-ATT
66 GTGCGAGTTACTATA-A
* **
32472295 CC-GG-TAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCATT
32472356 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTATAA
*
32472373 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
32472398 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
77 1 0.01
78 58 0.64
79 12 0.13
80 20 0.22
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATAA
Found at i:32480392 original size:29 final size:29
Alignment explanation
Indices: 32480350--32480407 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
32480340 ATTAAATCCG
32480350 GGTTAAGTCCCGAAGGCATTTGTGCGAGT
1 GGTTAAGTCCCGAAGGCATTTGTGCGAGT
32480379 GGTTAAGTCCCGAAGGCATTTGTGCGAGT
1 GGTTAAGTCCCGAAGGCATTTGTGCGAGT
32480408 TACTATAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
GGTTAAGTCCCGAAGGCATTTGTGCGAGT
Found at i:32480447 original size:69 final size:69
Alignment explanation
Indices: 32480319--32480447 Score: 188
Period size: 69 Copynumber: 1.9 Consensus size: 69
32480309 GGACTAAGAT
* * **
32480319 CCGAAGGCATTGGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTGGTTA
1 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGGTTA
32480384 AGTC
66 AGTC
* *
32480388 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 CCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGT
32480448 AGCTATATCC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
69 51 0.96
70 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (69 bp):
CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGGTTA
AGTC
Found at i:32482775 original size:20 final size:20
Alignment explanation
Indices: 32482752--32482789 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32482742 AAATTTAGAA
*
32482752 AAAATTACTAAATCTCTTGC
1 AAAATTACAAAATCTCTTGC
*
32482772 AAAATTACAAAATTTCTT
1 AAAATTACAAAATCTCTT
32482790 ACAGCTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAATTACAAAATCTCTTGC
Found at i:32482857 original size:20 final size:20
Alignment explanation
Indices: 32482832--32482869 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32482822 ACTTTGAATA
32482832 TCTTATAAAATTATTAAACT
1 TCTTATAAAATTATTAAACT
* *
32482852 TCTTATAAGATTGTTAAA
1 TCTTATAAAATTATTAAA
32482870 TTTTTTACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (20 bp):
TCTTATAAAATTATTAAACT
Found at i:32483329 original size:22 final size:22
Alignment explanation
Indices: 32483295--32483346 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
32483285 TTTAAATAAT
32483295 AAAAATA-ATATTTTAATTTTA
1 AAAAATATATATTTTAATTTTA
* * *
32483316 GAATATATATATTTTATTTTTA
1 AAAAATATATATTTTAATTTTA
32483338 AAAAATATA
1 AAAAATATA
32483347 ATTATATGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAAATATATATTTTAATTTTA
Found at i:32483479 original size:35 final size:35
Alignment explanation
Indices: 32483439--32483511 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
32483429 TAGTTAATTA
* *
32483439 ACTAAATTATATAGTATATATTATAAATTATTTAT
1 ACTAAAGTATATAATATATATTATAAATTATTTAT
* *
32483474 ACTAAAGTATATAATATTTATTATTAATTATTTAT
1 ACTAAAGTATATAATATATATTATAAATTATTTAT
32483509 ACT
1 ACT
32483512 TGGTAAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (35 bp):
ACTAAAGTATATAATATATATTATAAATTATTTAT
Found at i:32485527 original size:23 final size:23
Alignment explanation
Indices: 32485497--32485544 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
32485487 ATTAAAAGTT
32485497 TTTAGAAAAAGAATTGAGAATGA
1 TTTAGAAAAAGAATTGAGAATGA
*
32485520 TTTAGAAAAATAATTGAGAATGA
1 TTTAGAAAAAGAATTGAGAATGA
32485543 TT
1 TT
32485545 AAAGGCTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (23 bp):
TTTAGAAAAAGAATTGAGAATGA
Found at i:32488185 original size:107 final size:107
Alignment explanation
Indices: 32487999--32488214 Score: 371
Period size: 107 Copynumber: 2.0 Consensus size: 107
32487989 TATTCGGTTA
* *
32487999 TTTGGTCAAACGATAAACCGAAACCCAGCACATTAGGGCACGATTTCTCGAGTTTCCAAACATAA
1 TTTGGTCAAACGATAAACCGAAACCCAGCACATTAGGGCACAATTTCTCGAGTTTCCAAACACAA
32488064 AATATTGCCTCATTTTTTAATTTAAGAAAACATGGATGAAAT
66 AATATTGCCTCATTTTTTAATTTAAGAAAACATGGATGAAAT
* * *
32488106 TTTGGTCAAACGGA-AAATCGAATCCCAGCACGTTAGGGCACAATTTCTCGAGTTTCCAAACACA
1 TTTGGTCAAAC-GATAAACCGAAACCCAGCACATTAGGGCACAATTTCTCGAGTTTCCAAACACA
32488170 AAATATTGCCTCATTTTTTAATTTAAGAAAACATGGATGAAAT
65 AAATATTGCCTCATTTTTTAATTTAAGAAAACATGGATGAAAT
32488213 TT
1 TT
32488215 CAAAAGGATA
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
107 101 0.98
108 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (107 bp):
TTTGGTCAAACGATAAACCGAAACCCAGCACATTAGGGCACAATTTCTCGAGTTTCCAAACACAA
AATATTGCCTCATTTTTTAATTTAAGAAAACATGGATGAAAT
Found at i:32490762 original size:20 final size:19
Alignment explanation
Indices: 32490703--32490775 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
32490693 TACCTTAAGG
*
32490703 AAGGTATCGATACTTCAAT
1 AAGGTATCGATACTTCAGT
* *
32490722 CAAAGTATCGATA-TTATAGT
1 -AAGGTATCGATACTT-CAGT
32490742 AACGGTATCGATACTTCAGT
1 AA-GGTATCGATACTTCAGT
*
32490762 ATAGGTATTGATAC
1 A-AGGTATCGATAC
32490776 ATTTTGAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 4 0.09
20 36 0.84
21 3 0.07
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (19 bp):
AAGGTATCGATACTTCAGT
Found at i:32494073 original size:49 final size:50
Alignment explanation
Indices: 32494001--32494178 Score: 259
Period size: 52 Copynumber: 3.5 Consensus size: 50
32493991 ACTAGTGACT
* *
32494001 CAAGTGTGGTACTATTTGAAGGCCACTTTGAGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
32494050 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGC-TTGGTCA
* * *
32494102 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTC-A
* *
32494153 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
32494179 CAGGTATCCG
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
49 33 0.28
50 4 0.03
51 39 0.33
52 42 0.36
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
Found at i:32494113 original size:52 final size:51
Alignment explanation
Indices: 32494001--32494178 Score: 263
Period size: 51 Copynumber: 3.5 Consensus size: 51
32493991 ACTAGTGACT
* *
32494001 CAAGTGTGGTACTATTTGAAGGCCACTTTGAGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
32494050 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* *
32494102 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-A
* *
32494153 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
32494179 CAGGTATCCG
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
49 33 0.28
50 2 0.02
51 42 0.35
52 42 0.35
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:32498452 original size:18 final size:18
Alignment explanation
Indices: 32498426--32498465 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
32498416 TCATCTTGAT
32498426 TTCACCATTTAACCCATC
1 TTCACCATTTAACCCATC
*
32498444 TTCATCATTTAACCCATC
1 TTCACCATTTAACCCATC
32498462 TTCA
1 TTCA
32498466 AAACAGATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.35, G:0.00, T:0.38
Consensus pattern (18 bp):
TTCACCATTTAACCCATC
Found at i:32506060 original size:30 final size:29
Alignment explanation
Indices: 32506026--32506097 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
32506016 CTGGCATTTT
32506026 TATCAAAATAACCCAAATAATTTAATTAAG
1 TATCAAAATAACCC-AATAATTTAATTAAG
* * **
32506056 TATCAAAATGACCCACTTTTTTAATTAAG
1 TATCAAAATAACCCAATAATTTAATTAAG
* *
32506085 CACCAAAATAACC
1 TATCAAAATAACC
32506098 TGAAATCTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
29 22 0.63
30 13 0.37
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.29
Consensus pattern (29 bp):
TATCAAAATAACCCAATAATTTAATTAAG
Found at i:32506361 original size:18 final size:17
Alignment explanation
Indices: 32506340--32506383 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
32506330 TTTTTTTTTA
32506340 CTTTTTTTTAACTTTTGT
1 CTTTTTTTTAA-TTTTGT
*
32506358 CTTTTTCTTTAATTTTTT
1 CTTTTT-TTTAATTTTGT
32506376 CTTTTTTT
1 CTTTTTTT
32506384 AAGTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 17 0.71
19 5 0.21
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.77
Consensus pattern (17 bp):
CTTTTTTTTAATTTTGT
Found at i:32506514 original size:21 final size:23
Alignment explanation
Indices: 32506481--32506524 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 23
32506471 AATGTTTTAT
32506481 AATATATATTTTTTTAAA-TATTA
1 AATATATA-TTTTTTAAATTATTA
32506504 AATAT-TA-TTTTTAAATTATTA
1 AATATATATTTTTTAAATTATTA
32506525 TTTTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 8 0.40
21 5 0.25
22 2 0.10
23 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATATATATTTTTTAAATTATTA
Found at i:32506525 original size:14 final size:14
Alignment explanation
Indices: 32506501--32506534 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
32506491 TTTTTAAATA
32506501 TTAAA-TATTATTT
1 TTAAATTATTATTT
32506514 TTAAATTATTATTT
1 TTAAATTATTATTT
32506528 TTAAATT
1 TTAAATT
32506535 TTAAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTAAATTATTATTT
Found at i:32506527 original size:36 final size:36
Alignment explanation
Indices: 32506487--32506773 Score: 158
Period size: 36 Copynumber: 8.1 Consensus size: 36
32506477 TTATAATATA
*
32506487 TATTTTTTTAAATATTAAATATTATTTTTAAATTAT
1 TATTTTTTTAAATTTTAAATATTATTTTTAAATTAT
32506523 TA--TTTTTAAATTTTAAATATATATTTTTGAAATTA-
1 TATTTTTTTAAATTTTAAATAT-TATTTTT-AAATTAT
* * * * *
32506558 T-GTCTTATAAATTTTAAAAATATAATTTTGAAATTAAAT
1 TATTTTTTTAAATTTT--AAATATTATTTTTAAATT--AT
*
32506597 T-TTCTAAATTTTAAATTTTAAATA-TATTTTTAAA--AA
1 TATT-T---TTTTAAATTTTAAATATTATTTTTAAATTAT
* *** * *
32506633 TATATTTTTAAAAAAATAAA-A-TAATTTCAAA--AT
1 TAT-TTTTTTAAATTTTAAATATTATTTTTAAATTAT
* *
32506666 TATATTTTTAAAATTTAAATATATATTTTTTAAATTA-
1 TATTTTTTTAAATTTTAAATAT-TA-TTTTTAAATTAT
* * *
32506703 T-TTCTTATAAATTTTAAAAATATATTTTTAAA--AT
1 TATTTTTTTAAATTTTAAATAT-TATTTTTAAATTAT
*
32506737 TATTTTTTAAAATTTTAAATATTATTTTTAAA-TAT
1 TATTTTTTTAAATTTTAAATATTATTTTTAAATTAT
32506772 TA
1 TA
32506774 AATATATTTT
Statistics
Matches: 194, Mismatches: 33, Indels: 49
0.70 0.12 0.18
Matches are distributed among these distances:
32 12 0.06
33 15 0.08
34 38 0.20
35 38 0.20
36 49 0.25
37 8 0.04
38 9 0.05
39 2 0.01
40 8 0.04
41 5 0.03
43 10 0.05
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (36 bp):
TATTTTTTTAAATTTTAAATATTATTTTTAAATTAT
Found at i:32506536 original size:21 final size:22
Alignment explanation
Indices: 32506512--32506556 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
32506502 TAAATATTAT
32506512 TTTTAAAT-TATTATTTTT-AAA
1 TTTTAAATATA-TATTTTTGAAA
32506533 TTTTAAATATATATTTTTGAAA
1 TTTTAAATATATATTTTTGAAA
32506555 TT
1 TT
32506557 ATGTCTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTAAATATATATTTTTGAAA
Found at i:32506584 original size:14 final size:14
Alignment explanation
Indices: 32506567--32506651 Score: 59
Period size: 14 Copynumber: 6.1 Consensus size: 14
32506557 ATGTCTTATA
32506567 AATTTTAAAAATAT
1 AATTTTAAAAATAT
* *
32506581 AATTTTGAAATTA-
1 AATTTTAAAAATAT
* * *
32506594 AATTTTCTAAATTTT
1 AATTTT-AAAAATAT
32506609 AAATTTT--AAATAT
1 -AATTTTAAAAATAT
*
32506622 ATTTTTAAAAATAT
1 AATTTTAAAAATAT
* *
32506636 ATTTTTAAAAAAAT
1 AATTTTAAAAATAT
32506650 AA
1 AA
32506652 AATAATTTCA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
12 5 0.09
13 10 0.18
14 36 0.63
16 6 0.11
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (14 bp):
AATTTTAAAAATAT
Found at i:32506680 original size:14 final size:14
Alignment explanation
Indices: 32506616--32506646 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
32506606 TTTAAATTTT
32506616 AAATATATTTTTAA
1 AAATATATTTTTAA
32506630 AAATATATTTTTAA
1 AAATATATTTTTAA
32506644 AAA
1 AAA
32506647 AATAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATATATTTTTAA
Found at i:32506691 original size:21 final size:20
Alignment explanation
Indices: 32506662--32506701 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
32506652 AATAATTTCA
32506662 AAATTATATTTTTAAAATTT
1 AAATTATATTTTTAAAATTT
*
32506682 AAATATATATTTTTTAAATT
1 AAAT-TATATTTTTAAAATT
32506702 ATTTCTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATTATATTTTTAAAATTT
Found at i:32506731 original size:14 final size:13
Alignment explanation
Indices: 32506714--32506748 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
32506704 TTCTTATAAA
32506714 TTTTAAAAATATAT
1 TTTTAAAAATAT-T
*
32506728 TTTTAAAATTATT
1 TTTTAAAAATATT
32506741 TTTTAAAA
1 TTTTAAAA
32506749 TTTTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTAAAAATATT
Found at i:32506765 original size:13 final size:12
Alignment explanation
Indices: 32506679--32506773 Score: 65
Period size: 13 Copynumber: 7.8 Consensus size: 12
32506669 ATTTTTAAAA
32506679 TTTAAATATATATT
1 TTTAAA-AT-TATT
*
32506693 TTTTAAATTATT
1 TTTAAAATTATT
*
32506705 TCTTATAA--ATT
1 T-TTAAAATTATT
*
32506716 TTAAAAATATATT
1 TTTAAAAT-TATT
32506729 TTTAAAATTATT
1 TTTAAAATTATT
*
32506741 TTTTAAA--A-T
1 TTTAAAATTATT
32506750 TTTAAATATTATT
1 TTTAAA-ATTATT
32506763 TTTAAATATTA
1 TTTAAA-ATTA
32506774 AATATATTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
9 6 0.09
10 6 0.09
11 4 0.06
12 16 0.25
13 28 0.43
14 5 0.08
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTAAAATTATT
Found at i:32506775 original size:145 final size:143
Alignment explanation
Indices: 32506516--32506786 Score: 375
Period size: 145 Copynumber: 1.9 Consensus size: 143
32506506 TATTATTTTT
*
32506516 AAATTATTATTTTTAAATTTTAAATATATATTTTTGAAATTATGTCTTATAAATTTTAAAAATAT
1 AAATTATTATTTTTAAAATTTAAATATATATTTTTGAAATTATGTCTTATAAATTTTAAAAATAT
* * * *
32506581 AATTTTGAAATTAAATTTTCTAAATTTTAAATTTTAAATATATTTTTAAAAATATATTTTTAAAA
66 AATTTTAAAATT-AATTTTCTAAATTTTAAATATTAAATATAATATT--AAATATATTTTTAAAA
32506646 AAATAAAATAATTTCA
128 AAATAAAATAATTTCA
* *
32506662 AAATTA-TATTTTTAAAATTTAAATATATATTTTTTAAATTATTTCTTATAAATTTTAAAAATAT
1 AAATTATTATTTTTAAAATTTAAATATATATTTTTGAAATTATGTCTTATAAATTTTAAAAATAT
* * ** *
32506726 ATTTTTAAAATT-ATTTTTTAAAATTTTAAATATTATTTTTAAATATTAAATATATTTTTAA
66 AATTTTAAAATTAATTTTCT-AAATTTTAAATATTAAATAT-AATATTAAATATATTTTTAA
32506787 TAATATTTAA
Statistics
Matches: 111, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
143 20 0.18
144 16 0.14
145 69 0.62
146 6 0.05
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (143 bp):
AAATTATTATTTTTAAAATTTAAATATATATTTTTGAAATTATGTCTTATAAATTTTAAAAATAT
AATTTTAAAATTAATTTTCTAAATTTTAAATATTAAATATAATATTAAATATATTTTTAAAAAAA
TAAAATAATTTCA
Found at i:32506796 original size:22 final size:22
Alignment explanation
Indices: 32506729--32506797 Score: 85
Period size: 21 Copynumber: 3.3 Consensus size: 22
32506719 AAAATATATT
32506729 TTTAAA-ATTATTTTTTAAAAT-
1 TTTAAATATTA-TTTTTAAAATA
32506750 TTTAAATATTATTTTT-AAATA
1 TTTAAATATTATTTTTAAAATA
32506771 -TTAAATA-TATTTTTAATAATA
1 TTTAAATATTATTTTTAA-AATA
32506792 TTTAAA
1 TTTAAA
32506798 CATTTAAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.16
20 12 0.28
21 15 0.35
22 9 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAAATATTATTTTTAAAATA
Found at i:32506871 original size:11 final size:12
Alignment explanation
Indices: 32506849--32506888 Score: 55
Period size: 11 Copynumber: 3.2 Consensus size: 12
32506839 AAAAAGGTTT
32506849 AAATATATTTAA
1 AAATATATTTAA
32506861 AAATA-ATTTAA
1 AAATATATTTAA
32506872 AAATCATAATTTAA
1 AAAT-AT-ATTTAA
32506886 AAA
1 AAA
32506889 ATTCTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.40
12 6 0.24
14 9 0.36
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (12 bp):
AAATATATTTAA
Found at i:32507086 original size:14 final size:14
Alignment explanation
Indices: 32507042--32507096 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
32507032 ATTTCTCTGA
*
32507042 CATTTGTTTT-TTT
1 CATTTATTTTATTT
32507055 C-TTTATCTTTATTT
1 CATTTAT-TTTATTT
32507069 -ATTTATTTTATTT
1 CATTTATTTTATTT
32507082 CATTTCATTTTATTT
1 CATTT-ATTTTATTT
32507097 TTTATTATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 4 0.11
13 11 0.31
14 12 0.33
15 9 0.25
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (14 bp):
CATTTATTTTATTT
Found at i:32507156 original size:23 final size:22
Alignment explanation
Indices: 32507124--32507192 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
32507114 AAAAAACTTG
*
32507124 AAATGTATATTTGAAATATTTT
1 AAATATATATTTGAAATATTTT
**
32507146 ATAATATATATTTTTTTAA-ATTTT
1 A-AATATATA--TTTGAAATATTTT
32507170 AAATATATATTTGAAATTATTTT
1 AAATATATATTTGAAA-TATTTT
32507193 TCTAAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
21 5 0.14
22 1 0.03
23 20 0.54
24 6 0.16
25 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (22 bp):
AAATATATATTTGAAATATTTT
Found at i:32507236 original size:20 final size:19
Alignment explanation
Indices: 32507213--32507269 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 19
32507203 AAATATTAGT
32507213 TTTAAATTATTGTTTAAAAA
1 TTTAAATTATT-TTTAAAAA
*
32507233 TTTAAATATTATTTTTAAATA
1 TTT-AA-ATTATTTTTAAAAA
32507254 -TTAAATATATTTTTAA
1 TTTAAAT-TATTTTTAA
32507270 TAATATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 2 0.06
19 11 0.33
20 5 0.15
21 9 0.27
22 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTAAATTATTTTTAAAAA
Found at i:32507249 original size:33 final size:32
Alignment explanation
Indices: 32507157--32507252 Score: 122
Period size: 33 Copynumber: 2.9 Consensus size: 32
32507147 TAATATATAT
*
32507157 TTTTTTAAATTTTAAATA-TATATTTGAAATTA
1 TTTTTTAAATTTTAAATATTAT-TTTTAAATTA
*
32507189 TTTTTCTAAATTTTAAATATTAGTTTTAAATTA
1 TTTTT-TAAATTTTAAATATTATTTTTAAATTA
* *
32507222 TTGTTTAAAAATTTAAATATTATTTTTAAAT
1 TT-TTTTAAATTTTAAATATTATTTTTAAAT
32507253 ATTAAATATA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 5 0.09
33 46 0.82
34 5 0.09
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (32 bp):
TTTTTTAAATTTTAAATATTATTTTTAAATTA
Found at i:32507251 original size:21 final size:21
Alignment explanation
Indices: 32507218--32507278 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
32507208 TTAGTTTTAA
32507218 ATTATTGTTTAAAAATTTAAAT
1 ATTATT-TTTAAAAATTTAAAT
*
32507240 ATTATTTTTAAATA-TTAAAT
1 ATTATTTTTAAAAATTTAAAT
* *
32507260 A-TATTTTTAATAATATAAA
1 ATTATTTTTAAAAATTTAAA
32507279 ACATTTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 10 0.29
20 11 0.32
21 7 0.21
22 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTATTTTTAAAAATTTAAAT
Found at i:32507263 original size:22 final size:22
Alignment explanation
Indices: 32507218--32507279 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
32507208 TTAGTTTTAA
*
32507218 ATTATTGTTTAAAAATTTAAAT
1 ATTATTGTTTAAAAATTAAAAT
*
32507240 ATTATT-TTTAAATATT-AAAT
1 ATTATTGTTTAAAAATTAAAAT
*
32507260 A-TATT-TTTAATAATATAAAA
1 ATTATTGTTTAAAAAT-TAAAA
32507280 CATTTAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 11 0.31
20 6 0.17
21 12 0.34
22 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTATTGTTTAAAAATTAAAAT
Found at i:32507389 original size:32 final size:32
Alignment explanation
Indices: 32507322--32507396 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
32507312 TTTATTATTA
*
32507322 ATTTTATAATATTTTAAATGTATATTTTAATTT
1 ATTTTATAAT-TTTTAAATGTATATTTTAAATT
* *
32507355 ATTTTATAATTTTTTATTGTGAT-TTTTAAATT
1 ATTTTATAATTTTTAAATGT-ATATTTTAAATT
32507387 ATTTTA-AATT
1 ATTTTATAATT
32507397 ATGATTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 4 0.11
32 22 0.58
33 12 0.32
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (32 bp):
ATTTTATAATTTTTAAATGTATATTTTAAATT
Found at i:32507401 original size:24 final size:24
Alignment explanation
Indices: 32507282--32507433 Score: 93
Period size: 24 Copynumber: 6.2 Consensus size: 24
32507272 ATATAAAACA
* *
32507282 TTTAAA-TATTTTAAAATATGACCT
1 TTTAAATTATTTTAAATTATGA-TT
* * *
32507306 TTCAAATTTATTATTAATTTTATAATAT
1 TTTAAA-TTATT-TTAA-ATTATGAT-T
*
32507334 TTTAAATGTATATTTTAATT-T-A-T
1 TTTAAAT-TAT-TTTAAATTATGATT
*
32507357 TTTATAATT-TTTT--ATTGTGATT
1 TTTA-AATTATTTTAAATTATGATT
32507379 TTTAAATTATTTTAAATTATGATT
1 TTTAAATTATTTTAAATTATGATT
* *
32507403 TTTAAATTATTTAAAATATATTATT
1 TTTAAATTATTTTAAAT-TATGATT
32507428 TTTAAA
1 TTTAAA
32507434 GATATGACCT
Statistics
Matches: 102, Mismatches: 11, Indels: 29
0.72 0.08 0.20
Matches are distributed among these distances:
19 3 0.03
20 1 0.01
21 8 0.08
22 10 0.10
23 6 0.06
24 32 0.31
25 13 0.13
26 5 0.05
27 7 0.07
28 16 0.16
29 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (24 bp):
TTTAAATTATTTTAAATTATGATT
Found at i:32507427 original size:55 final size:55
Alignment explanation
Indices: 32507323--32507427 Score: 126
Period size: 55 Copynumber: 1.9 Consensus size: 55
32507313 TTATTATTAA
* * * *
32507323 TTTTATAATATTTTAAATGTATATTTTAATTTATTTTATAATTTTTTATTGTGAT
1 TTTTATAATATTTTAAATGTATATTTTAAATTATTTTAAAATATATTATTGTGAT
32507378 TTTTA-AATTATTTTAAAT-TATGATTTTTAAATTA-TTTAAAATATATTATT
1 TTTTATAA-TATTTTAAATGTAT-A-TTTTAAATTATTTTAAAATATATTATT
32507428 TTTAAAGATA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
54 5 0.12
55 29 0.67
56 9 0.21
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (55 bp):
TTTTATAATATTTTAAATGTATATTTTAAATTATTTTAAAATATATTATTGTGAT
Found at i:32507486 original size:22 final size:22
Alignment explanation
Indices: 32507461--32507502 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
32507451 TTATTATTTG
32507461 TTTTATAATA-TTTTAAATATAT
1 TTTTA-AATATTTTTAAATATAT
32507483 TTTTAAATATTTTTAAATAT
1 TTTTAAATATTTTTAAATAT
32507503 TAAATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTAAATATTTTTAAATATAT
Found at i:32507492 original size:10 final size:10
Alignment explanation
Indices: 32507461--32507503 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
32507451 TTATTATTTG
32507461 TTTTATAATAT
1 TTTTA-AATAT
*
32507472 TTTAAATATAT
1 TTTTAA-ATAT
32507483 TTTTAAATAT
1 TTTTAAATAT
32507493 TTTTAAATAT
1 TTTTAAATAT
32507503 T
1 T
32507504 AAATATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 16 0.55
11 13 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTTAAATAT
Found at i:32507534 original size:29 final size:30
Alignment explanation
Indices: 32507470--32507553 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 30
32507460 GTTTTATAAT
*
32507470 ATTTTAAATAT-ATTTTTAAATATTTTTAA
1 ATTTTAAATATAATTTTTAAATATTATTAA
*
32507499 ATATTAAATATAATTTTTATAA-ATTATT-A
1 ATTTTAAATATAATTTTTA-AATATTATTAA
*
32507528 ATTTTAAA-ATTAATTTTAAAGATATT
1 ATTTTAAATA-TAATTTTTAA-ATATT
32507554 CAAACTGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
28 2 0.04
29 27 0.59
30 15 0.33
31 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (30 bp):
ATTTTAAATATAATTTTTAAATATTATTAA
Found at i:32507675 original size:17 final size:17
Alignment explanation
Indices: 32507653--32507722 Score: 61
Period size: 17 Copynumber: 4.0 Consensus size: 17
32507643 TAACATTTTC
32507653 TTTTAACATATTTAAAA
1 TTTTAACATATTTAAAA
* *
32507670 TTTTAATATATTTAAATC
1 TTTTAACATATTTAAA-A
* * *
32507688 TTTTTACGGTTTTTAAAA
1 TTTTAAC-ATATTTAAAA
32507706 TTTTAA-ATATATTAAAA
1 TTTTAACATAT-TTAAAA
32507723 AATTATTTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
16 2 0.05
17 21 0.52
18 10 0.25
19 7 0.17
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTTAACATATTTAAAA
Found at i:32507880 original size:20 final size:20
Alignment explanation
Indices: 32507842--32507882 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
32507832 AACATTTTTT
* * *
32507842 AATATATTTAATTTTTTAAA
1 AATATATTAAATATATTAAA
32507862 AATATATTAAATATATTAAA
1 AATATATTAAATATATTAAA
32507882 A
1 A
32507883 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATATTAAATATATTAAA
Found at i:32507925 original size:70 final size:71
Alignment explanation
Indices: 32507781--32507931 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
32507771 TTTAAAATAT
* * * * *
32507781 ATTTTTTAAAAATATATTGAATATATTATAATTTTAATATTGGTTATACTTAACATTTTTTAATA
1 ATTTTTTAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATA
32507846 TATTTA
66 TATTTA
32507852 ATTTTTTAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACA-TTTTTAATA
1 ATTTTTTAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATA
32507916 TATTTA
66 TATTTA
32507922 ATTTCTTTAA
1 ATTT-TTTAA
32507932 GTTTTTAAAC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 19 0.26
71 55 0.74
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (71 bp):
ATTTTTTAAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATA
TATTTA
Found at i:32508047 original size:40 final size:40
Alignment explanation
Indices: 32508003--32508078 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
32507993 TATTAAGTAC
*
32508003 ATAAATTTATGAATGTGTACTAAAATTAAAAAATTAAAAT
1 ATAAATTTATAAATGTGTACTAAAATTAAAAAATTAAAAT
*
32508043 ATAAATTTATAAATGTGTATTAAAATTAAAAAATTA
1 ATAAATTTATAAATGTGTACTAAAATTAAAAAATTA
32508079 TAATCAACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.37
Consensus pattern (40 bp):
ATAAATTTATAAATGTGTACTAAAATTAAAAAATTAAAAT
Found at i:32508068 original size:20 final size:20
Alignment explanation
Indices: 32508005--32508069 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
32507995 TTAAGTACAT
* *
32508005 AAATTTATGAATGTGTACTA
1 AAATTTATAAATGTGTAATA
* * **
32508025 AAATTAAAAAAT-TAAAATA
1 AAATTTATAAATGTGTAATA
*
32508044 TAAATTTATAAATGTGTATTA
1 -AAATTTATAAATGTGTAATA
32508065 AAATT
1 AAATT
32508070 AAAAAATTAT
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 4 0.12
20 24 0.75
21 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (20 bp):
AAATTTATAAATGTGTAATA
Found at i:32508076 original size:20 final size:20
Alignment explanation
Indices: 32508014--32508076 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
32508004 TAAATTTATG
*
32508014 AATGTGTACTAAAATTAAAA
1 AATGTGTAATAAAATTAAAA
** * *
32508034 AAT-TAAAATATAAATTTATA
1 AATGTGTAATA-AAATTAAAA
*
32508054 AATGTGTATTAAAATTAAAA
1 AATGTGTAATAAAATTAAAA
32508074 AAT
1 AAT
32508077 TATAATCAAC
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
19 4 0.13
20 23 0.74
21 4 0.13
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (20 bp):
AATGTGTAATAAAATTAAAA
Found at i:32508562 original size:20 final size:19
Alignment explanation
Indices: 32508509--32508562 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
32508499 ATGATCTTAC
32508509 AATATATATTTTTAACTTTT
1 AATATATATTTTT-ACTTTT
*
32508529 AATTTA-ATTTTTTACTTTTT
1 AATATATA-TTTTTAC-TTTT
*
32508549 AATATATATATTTA
1 AATATATATTTTTA
32508563 AATAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.11
20 24 0.86
21 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (19 bp):
AATATATATTTTTACTTTT
Done.