Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 166 of 240
Found at i:51794382 original size:20 final size:20
Alignment explanation
Indices: 51794336--51794382 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
51794326 AGCTCGTTTC
*
51794336 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
51794356 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
51794376 CAGCTCA
1 CAGCTCA
51794383 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:51795823 original size:36 final size:33
Alignment explanation
Indices: 51795775--51795885 Score: 108
Period size: 30 Copynumber: 3.4 Consensus size: 33
51795765 AATATTGCAA
*
51795775 ATATCTTAGATTTCTTATGCCAATATCTTGATACCC
1 ATATCTTTGATTTCTT-T-CCAATAT-TTGATACCC
51795811 ATATCTTTGA--T-TTTCCAATATTTGATACCC
1 ATATCTTTGATTTCTTTCCAATATTTGATACCC
* *
51795841 ATATCTTTGA---CTTTCCATTATTTGATAACC
1 ATATCTTTGATTTCTTTCCAATATTTGATACCC
*
51795871 ATATATTTGACTTTC
1 ATATCTTTGA-TTTC
51795886 CATAAATACG
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
30 45 0.68
31 7 0.11
32 1 0.02
33 2 0.03
34 2 0.03
36 9 0.14
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (33 bp):
ATATCTTTGATTTCTTTCCAATATTTGATACCC
Found at i:51795838 original size:30 final size:30
Alignment explanation
Indices: 51795794--51795887 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
51795784 ATTTCTTATG
*
51795794 CCAATATCTTGATACCCATATCTTTGATTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
51795825 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
51795855 CCATTATTTGATAACCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
51795885 CCA
1 CCA
51795888 TAAATACGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 52 0.88
31 7 0.12
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:51795849 original size:15 final size:15
Alignment explanation
Indices: 51795797--51795850 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
51795787 TCTTATGCCA
51795797 ATATC-TTGATACCC
1 ATATCTTTGATACCC
**
51795811 ATATCTTTGATTTTCC
1 ATATCTTTGA-TACCC
*
51795827 A-ATATTTGATACCC
1 ATATCTTTGATACCC
51795841 ATATCTTTGA
1 ATATCTTTGA
51795851 CTTTCCATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
14 9 0.29
15 18 0.58
16 4 0.13
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.44
Consensus pattern (15 bp):
ATATCTTTGATACCC
Found at i:51795864 original size:15 final size:16
Alignment explanation
Indices: 51795809--51795889 Score: 71
Period size: 15 Copynumber: 5.3 Consensus size: 16
51795799 ATCTTGATAC
* *
51795809 CCATATCTTTGATTTT
1 CCATATATTTGACTTT
**
51795825 CCA-ATATTTGA-TAC
1 CCATATATTTGACTTT
*
51795839 CCATATCTTTGACTTT
1 CCATATATTTGACTTT
**
51795855 CCAT-TATTTGA-TAA
1 CCATATATTTGACTTT
51795869 CCATATATTTGACTTT
1 CCATATATTTGACTTT
51795885 CCATA
1 CCATA
51795890 AATACGGATG
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
14 9 0.18
15 27 0.54
16 14 0.28
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.46
Consensus pattern (16 bp):
CCATATATTTGACTTT
Found at i:51800515 original size:29 final size:29
Alignment explanation
Indices: 51800467--51800558 Score: 121
Period size: 29 Copynumber: 3.1 Consensus size: 29
51800457 TTTCTTATGT
* *
51800467 CAATATCTCGATACCCATATCTTTGATTTTC
1 CAATAT-TTGATA-CCATATCTTTGACTTTC
51800498 CAATATTTGATACCATATCTTTGACTTTC
1 CAATATTTGATACCATATCTTTGACTTTC
* *
51800527 CACTATTTGATAACCATATATTTGACTTTC
1 CAATATTTGAT-ACCATATCTTTGACTTTC
51800557 CA
1 CA
51800559 TAAATACGGA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
29 26 0.46
30 24 0.43
31 6 0.11
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (29 bp):
CAATATTTGATACCATATCTTTGACTTTC
Found at i:51801619 original size:43 final size:42
Alignment explanation
Indices: 51801534--51801648 Score: 176
Period size: 43 Copynumber: 2.7 Consensus size: 42
51801524 AAAACATCGT
**
51801534 TAAAGAACATGATCTTTAGCGGCGTTTTTCCTTAAGCGCCGC
1 TAAAGAACATGATCTTTAGCGGCGTTTTTTATTAAGCGCCGC
* *
51801576 TAAAGAACATGATCTTTAGCGACGTTTTTTATATGAGCGCCGC
1 TAAAGAACATGATCTTTAGCGGCGTTTTTTAT-TAAGCGCCGC
*
51801619 TAAAGAACATGTTCTTTAGCGGCGTTTTTT
1 TAAAGAACATGATCTTTAGCGGCGTTTTTT
51801649 TTCTAAGAAC
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 29 0.44
43 37 0.56
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (42 bp):
TAAAGAACATGATCTTTAGCGGCGTTTTTTATTAAGCGCCGC
Found at i:51801662 original size:32 final size:32
Alignment explanation
Indices: 51801621--51801681 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
51801611 AGCGCCGCTA
*
51801621 AAGAACATGTTCTTTAGCGGCGTTTTTTTTCT
1 AAGAACATGTTCTTTAGCGGCGCTTTTTTTCT
51801653 AAGAACATGTTCTTTAGCGGCGCTTTTTT
1 AAGAACATGTTCTTTAGCGGCGCTTTTTT
51801682 ACAAAAACGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (32 bp):
AAGAACATGTTCTTTAGCGGCGCTTTTTTTCT
Found at i:51807576 original size:9 final size:9
Alignment explanation
Indices: 51807550--51807746 Score: 250
Period size: 9 Copynumber: 21.8 Consensus size: 9
51807540 ATTTGCACGG
51807550 GTAAGTTAT
1 GTAAGTTAT
* *
51807559 TTAATTTAT
1 GTAAGTTAT
51807568 GTAAGTTAT
1 GTAAGTTAT
51807577 GTAAGTTAT
1 GTAAGTTAT
51807586 GTAAGTTAT
1 GTAAGTTAT
* *
51807595 TTAATTTAT
1 GTAAGTTAT
51807604 GTAAGTTAT
1 GTAAGTTAT
51807613 GTAAGTTAT
1 GTAAGTTAT
* *
51807622 TTAATTTAT
1 GTAAGTTAT
*
51807631 GTAGGTTAT
1 GTAAGTTAT
51807640 GTAAGTTAT
1 GTAAGTTAT
51807649 GTAAGTTAT
1 GTAAGTTAT
* *
51807658 TTAATTTAT
1 GTAAGTTAT
*
51807667 GTAGGTTAT
1 GTAAGTTAT
51807676 GTAAGTTAT
1 GTAAGTTAT
51807685 GTAAGTTAT
1 GTAAGTTAT
* *
51807694 TTAATTTAT
1 GTAAGTTAT
*
51807703 GCAAGTTTAT
1 GTAAG-TTAT
51807713 GTAAGTTAT
1 GTAAGTTAT
51807722 GTAAGTTAT
1 GTAAGTTAT
* *
51807731 TTAATTTAT
1 GTAAGTTAT
51807740 GTAAGTT
1 GTAAGTT
51807747 TCTATATATG
Statistics
Matches: 157, Mismatches: 30, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
9 149 0.95
10 8 0.05
ACGTcount: A:0.32, C:0.01, G:0.17, T:0.50
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:51807597 original size:36 final size:36
Alignment explanation
Indices: 51807550--51807746 Score: 295
Period size: 36 Copynumber: 5.7 Consensus size: 36
51807540 ATTTGCACGG
51807550 GTAAGTTATTTAATTTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTATGTAAGTTAT
51807586 GTAAGTTATTT-A---A--T---TTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTATGTAAGTTAT
*
51807613 GTAAGTTATTTAATTTATGTAGGTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTATGTAAGTTAT
*
51807649 GTAAGTTATTTAATTTATGTAGGTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTATGTAAGTTAT
*
51807685 GTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAG-TTATGTAAGTTAT
51807722 GTAAGTTATTTAATTTATGTAAGTT
1 GTAAGTTATTTAATTTATGTAAGTT
51807747 TCTATATATG
Statistics
Matches: 148, Mismatches: 3, Indels: 20
0.87 0.02 0.12
Matches are distributed among these distances:
27 24 0.16
28 1 0.01
30 1 0.01
31 1 0.01
32 1 0.01
33 1 0.01
35 1 0.01
36 83 0.56
37 35 0.24
ACGTcount: A:0.32, C:0.01, G:0.17, T:0.50
Consensus pattern (36 bp):
GTAAGTTATTTAATTTATGTAAGTTATGTAAGTTAT
Found at i:51807806 original size:29 final size:31
Alignment explanation
Indices: 51807768--51807872 Score: 119
Period size: 32 Copynumber: 3.4 Consensus size: 31
51807758 TTATATATTG
*
51807768 TATGTTAGTTATTATGTTATTATAT-AAG-T
1 TATGTAAGTTATTATGTTATTATATAAAGAT
51807797 TACT-TAAGTTATTATGTTATTATATAAAGTAT
1 TA-TGTAAGTTATTATGTTATTATATAAAG-AT
* *
51807829 TATGTAATTTATTATGTTATTATATGTAAG-T
1 TATGTAAGTTATTATGTTATTATAT-AAAGAT
*
51807860 TATGTAAGGTATT
1 TATGTAAGTTATT
51807873 TAATTTATGT
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.34
30 4 0.06
31 13 0.20
32 23 0.35
33 3 0.05
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.52
Consensus pattern (31 bp):
TATGTAAGTTATTATGTTATTATATAAAGAT
Found at i:51807865 original size:9 final size:9
Alignment explanation
Indices: 51807851--51807913 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
51807841 TATGTTATTA
51807851 TATGTAAGT
1 TATGTAAGT
*
51807860 TATGTAAGG
1 TATGTAAGT
* *
51807869 TATTTAATT
1 TATGTAAGT
51807878 TATGTAAGT
1 TATGTAAGT
*
51807887 TATGCAAGCT
1 TATGTAAG-T
*
51807897 TATATACAAGT
1 TATGT--AAGT
51807908 TATGTA
1 TATGTA
51807914 TTATAACATA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
9 29 0.71
10 4 0.10
11 5 0.12
12 3 0.07
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (9 bp):
TATGTAAGT
Found at i:51808094 original size:16 final size:16
Alignment explanation
Indices: 51808073--51808105 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
51808063 ACTTATAAAA
51808073 TTAATACAAATAAATT
1 TTAATACAAATAAATT
51808089 TTAATACAAATAAATT
1 TTAATACAAATAAATT
51808105 T
1 T
51808106 AGAAAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAATACAAATAAATT
Found at i:51808811 original size:56 final size:56
Alignment explanation
Indices: 51808725--51808844 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
51808715 ACAAGGGATG
51808725 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
51808781 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
51808837 ATGGGCAA
1 ATGGGCAA
51808845 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:51810205 original size:40 final size:40
Alignment explanation
Indices: 51809974--51810198 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
51809964 TCGAATGATG
* * * *
51809974 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
51810014 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51810054 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51810093 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51810133 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
51810174 -CCGGGCTATGTCCGGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
51810199 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51816517 original size:15 final size:16
Alignment explanation
Indices: 51816499--51816528 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51816489 TAATAACTAA
51816499 TATATAAT-TATATTT
1 TATATAATATATATTT
51816514 TATATAATATATATT
1 TATATAATATATATT
51816529 AATTGTTATC
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:51817433 original size:17 final size:18
Alignment explanation
Indices: 51817397--51817433 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
51817387 TTTTCAATTT
*
51817397 ATTGAATTTTTTATGCAA
1 ATTGAATTTTTTATGAAA
51817415 ATTGAATTTTTTA-GAAA
1 ATTGAATTTTTTATGAAA
51817432 AT
1 AT
51817434 ATTAGTTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.49
Consensus pattern (18 bp):
ATTGAATTTTTTATGAAA
Found at i:51823256 original size:39 final size:39
Alignment explanation
Indices: 51823188--51823262 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
51823178 CTAAAGGTCG
*
51823188 AGCATTAACGGCGATTGTTGAAAAACGCCGCTAAAATTA
1 AGCATTAACGGCGATTGTTGAAAAACGCCGCAAAAATTA
* * * * *
51823227 AGCATTAGCGGCGTTTTTTGGAAAGCGCCGCAAAAA
1 AGCATTAACGGCGATTGTTGAAAAACGCCGCAAAAA
51823263 GCCTAAACCC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (39 bp):
AGCATTAACGGCGATTGTTGAAAAACGCCGCAAAAATTA
Found at i:51823456 original size:86 final size:82
Alignment explanation
Indices: 51823299--51823526 Score: 282
Period size: 86 Copynumber: 2.7 Consensus size: 82
51823289 GAGTTTTTGG
* *
51823299 GGCCT-TTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCGGGCATTTAGCGGCGTTTTTGAAA
1 GGCCTGTTAGCGGCGTTTTTAAAGAAACGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAA
*
51823363 ATGCGCCGCTAATGCTT
66 ATGCGCCGCTAATGCTC
* *
51823380 GGTCCT-TTAGCAGTGTTCGTTTTTATAGAAACGCCGCTAATGCTCGGGCCTTTAGCGGTGTTTT
1 GG-CCTGTTAGC-G-G--CGTTTTTAAAGAAACGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTT
*
51823444 TGACGAA-GCGCCGCTAATGCTC
61 TGA-AAATGCGCCGCTAATGCTC
* * * * *
51823466 GGGCTGTTAGCGGCGTTTTTAAAGAATCGCTGTTAATGCTGGGGCCTTTAGCGGCGTTTTT
1 GGCCTGTTAGCGGCGTTTTTAAAGAAACGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTT
51823527 AAAGAAACAC
Statistics
Matches: 127, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
81 2 0.02
82 50 0.39
83 1 0.01
84 2 0.02
85 3 0.02
86 67 0.53
87 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (82 bp):
GGCCTGTTAGCGGCGTTTTTAAAGAAACGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAA
ATGCGCCGCTAATGCTC
Found at i:51823530 original size:41 final size:41
Alignment explanation
Indices: 51823298--51823532 Score: 285
Period size: 41 Copynumber: 5.6 Consensus size: 41
51823288 TGAGTTTTTG
51823298 GGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTC
* * *
51823339 GGGCATTTAGCGGCGTTTTTGAAA-ATGCGCCGCTAATGCTT
1 GGGCCTTTAGCGGCGTTTTT-AAAGAAGCGCCGCTAATGCTC
* * *
51823380 GGTCCTTTAGCAGTGTTCGTTTTTATAGAAACGCCGCTAATGCTC
1 GGGCCTTTAGC-G-G--CGTTTTTAAAGAAGCGCCGCTAATGCTC
* * *
51823425 GGGCCTTTAGCGGTGTTTTTGACGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTC
* * * *
51823466 GGG-CTGTTAGCGGCGTTTTTAAAGAATCGCTGTTAATGCTG
1 GGGCCT-TTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTC
51823507 GGGCCTTTAGCGGCGTTTTTAAAGAA
1 GGGCCTTTAGCGGCGTTTTTAAAGAA
51823533 ACACTGCAAA
Statistics
Matches: 164, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
40 2 0.01
41 120 0.73
42 6 0.04
43 2 0.01
44 3 0.02
45 31 0.19
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.31
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTC
Found at i:51824094 original size:21 final size:21
Alignment explanation
Indices: 51824061--51824104 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
51824051 TGTTAGGGAT
* * *
51824061 TTAGGGGTGAGGGGTTTGGTG
1 TTAGGAGTGAGGGATTTAGTG
*
51824082 TTAGGAGTTAGGGATTTAGTG
1 TTAGGAGTGAGGGATTTAGTG
51824103 TT
1 TT
51824105 TAAGGAGTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (21 bp):
TTAGGAGTGAGGGATTTAGTG
Found at i:51824798 original size:16 final size:16
Alignment explanation
Indices: 51824777--51824809 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
51824767 ACTTAGTAAT
51824777 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
51824793 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
51824809 T
1 T
51824810 TGTATTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (16 bp):
TAAAAGATACAATTAA
Found at i:51824907 original size:15 final size:16
Alignment explanation
Indices: 51824887--51824922 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
51824877 GATATTTTAG
*
51824887 AATATAAATGTAAA-T
1 AATATAAATATAAATT
51824902 AATATAAATATAAATT
1 AATATAAATATAAATT
51824918 AATAT
1 AATAT
51824923 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
AATATAAATATAAATT
Found at i:51832887 original size:15 final size:15
Alignment explanation
Indices: 51832867--51832900 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
51832857 TGAACGACGG
51832867 AATTCAAAGTTATTT
1 AATTCAAAGTTATTT
51832882 AATTCAAAGTTATTT
1 AATTCAAAGTTATTT
51832897 AATT
1 AATT
51832901 TACGTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (15 bp):
AATTCAAAGTTATTT
Found at i:51833307 original size:66 final size:66
Alignment explanation
Indices: 51833201--51833353 Score: 297
Period size: 66 Copynumber: 2.3 Consensus size: 66
51833191 GACACTTTTT
*
51833201 TAACTTTTATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAAAATTAAG
1 TAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAAAATTAAG
51833266 A
66 A
51833267 TAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAAAATTAAG
1 TAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAAAATTAAG
51833332 A
66 A
51833333 TAACTTATATAATATTAAGAT
1 TAACTTATATAATATTAAGAT
51833354 TACTTATATA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 86 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (66 bp):
TAACTTATATAATATTAAGATAAAATTTCTAACCACACATCAATTTCTAATTACATAAAATTAAG
A
Found at i:51833349 original size:20 final size:20
Alignment explanation
Indices: 51833321--51833431 Score: 115
Period size: 20 Copynumber: 5.8 Consensus size: 20
51833311 TTCTAATTAC
*
51833321 ATAAAATTAAGATAACTTAT
1 ATAATATTAAGATAACTTAT
*
51833341 ATAATATTAAGATTACTTAT
1 ATAATATTAAGATAACTTAT
* *
51833361 ATAGTATTAAGACAA-TT-T
1 ATAATATTAAGATAACTTAT
* *
51833379 CT-AT-TT-ACATAACTTAT
1 ATAATATTAAGATAACTTAT
51833396 ATAATTATTAAGATAACTTAT
1 ATAA-TATTAAGATAACTTAT
*
51833417 ATAATATTAATATAA
1 ATAATATTAAGATAA
51833432 AATTTCTAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
15 4 0.05
16 4 0.05
17 3 0.04
18 3 0.04
19 3 0.04
20 42 0.58
21 14 0.19
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (20 bp):
ATAATATTAAGATAACTTAT
Found at i:51833404 original size:21 final size:21
Alignment explanation
Indices: 51833380--51833431 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
51833370 AGACAATTTC
*
51833380 TATTTACATAACTTATATAAT
1 TATTAACATAACTTATATAAT
*
51833401 TATTAAGATAACTTATATAA-
1 TATTAACATAACTTATATAAT
*
51833421 TATTAATATAA
1 TATTAACATAA
51833432 AATTTCTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (21 bp):
TATTAACATAACTTATATAAT
Found at i:51833444 original size:55 final size:53
Alignment explanation
Indices: 51833332--51833449 Score: 148
Period size: 55 Copynumber: 2.2 Consensus size: 53
51833322 TAAAATTAAG
* * *
51833332 ATAACTTATATAATATTAAGATTACTTATATAGTATTAAGACAATTTCTATTTAC
1 ATAACTTATATAATATTAAGATAACTTATATAATATTAAGAAAATTTCTA--TAC
*
51833387 ATAACTTATATAATTATTAAGATAACTTATATAATATTAATATAAAATTTCTA-AC
1 ATAACTTATATAA-TATTAAGATAACTTATATAATATT-A-AGAAAATTTCTATAC
51833442 ATAACTTA
1 ATAACTTA
51833450 CATAGGTTAC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
55 23 0.41
56 22 0.39
57 1 0.02
58 10 0.18
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.42
Consensus pattern (53 bp):
ATAACTTATATAATATTAAGATAACTTATATAATATTAAGAAAATTTCTATAC
Found at i:51833492 original size:25 final size:25
Alignment explanation
Indices: 51833464--51833517 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
51833454 GGTTACATTC
*
51833464 TACACAACTTACATAAC-ATACATAA
1 TACACAACTGACATAACTA-ACATAA
* *
51833489 TACATAACTGGCATAACTAACATAA
1 TACACAACTGACATAACTAACATAA
51833514 TACA
1 TACA
51833518 TAGCTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.50, C:0.22, G:0.04, T:0.24
Consensus pattern (25 bp):
TACACAACTGACATAACTAACATAA
Found at i:51833563 original size:9 final size:8
Alignment explanation
Indices: 51833549--51833743 Score: 66
Period size: 9 Copynumber: 23.5 Consensus size: 8
51833539 TAACTTATAT
51833549 ATAACTCAC
1 ATAACT-AC
51833558 ATAACTTAC
1 ATAAC-TAC
*
51833567 ATAGCTTAC
1 ATAAC-TAC
*
51833576 AT-TCTAC
1 ATAACTAC
*
51833583 ACAACTTAC
1 ATAAC-TAC
*
51833592 ATGACATAC
1 ATAAC-TAC
51833601 ATAA-TAC
1 ATAACTAC
51833608 ATAACTGAC
1 ATAACT-AC
51833617 ATAACTAAC
1 ATAACT-AC
51833626 ATAA-TAC
1 ATAACTAC
*
51833633 ATAGCTTAC
1 ATAAC-TAC
*
51833642 ATGA-TAC
1 ATAACTAC
*
51833649 ACAACTTAC
1 ATAAC-TAC
*
51833658 ATAGCTTAC
1 ATAAC-TAC
*
51833667 ATAA-TAA
1 ATAACTAC
51833674 ATAACTAAC
1 ATAACT-AC
*
51833683 ATAAAATAC
1 AT-AACTAC
51833692 --AACTTAC
1 ATAAC-TAC
*
51833699 ATAGCTTAC
1 ATAAC-TAC
51833708 ATAA-TAC
1 ATAACTAC
*
51833715 GTAACTTAC
1 ATAAC-TAC
*
51833724 ATAACTTAT
1 ATAAC-TAC
51833733 ATAA-TAC
1 ATAACTAC
51833740 ATAA
1 ATAA
51833744 ATTTCCAGGC
Statistics
Matches: 142, Mismatches: 27, Indels: 36
0.69 0.13 0.18
Matches are distributed among these distances:
6 2 0.01
7 42 0.30
8 5 0.04
9 89 0.63
10 4 0.03
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.29
Consensus pattern (8 bp):
ATAACTAC
Found at i:51833608 original size:25 final size:25
Alignment explanation
Indices: 51833556--51833645 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
51833546 TATATAACTC
* **
51833556 ACATAACTTACAT-AGCTTACATTCT
1 ACATAACTTACATGA-CTAACATAAT
*
51833581 ACACAACTTACATGAC-ATACATAAT
1 ACATAACTTACATGACTA-ACATAAT
* *
51833606 ACATAACTGACATAACTAACATAAT
1 ACATAACTTACATGACTAACATAAT
*
51833631 ACATAGCTTACATGA
1 ACATAACTTACATGA
51833646 TACACAACTT
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
25 50 0.96
26 2 0.04
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (25 bp):
ACATAACTTACATGACTAACATAAT
Found at i:51833634 original size:16 final size:16
Alignment explanation
Indices: 51833549--51833727 Score: 80
Period size: 16 Copynumber: 10.8 Consensus size: 16
51833539 TAACTTATAT
*
51833549 ATAACTCACATAACTTAC
1 ATAACTTACATAA--TAC
* **
51833567 ATAGCTTACATTCTAC
1 ATAACTTACATAATAC
*
51833583 ACAACTTACATGACATAC
1 ATAACTTACAT-A-ATAC
51833601 ATAA--TACATAACTGAC
1 ATAACTTACATAA-T-AC
*
51833617 ATAACTAACATAATAC
1 ATAACTTACATAATAC
* *
51833633 ATAGCTTACATGATAC
1 ATAACTTACATAATAC
* *
51833649 ACAACTTACATAGCTTAC
1 ATAACTTACATA--ATAC
*
51833667 ATAA--TAAATAACTAAC
1 ATAACTTACATAA-T-AC
** *
51833683 ATAAAATACA-ACTTAC
1 ATAACTTACATA-ATAC
*
51833699 ATAGCTTACATAATAC
1 ATAACTTACATAATAC
*
51833715 GTAACTTACATAA
1 ATAACTTACATAA
51833728 CTTATATAAT
Statistics
Matches: 119, Mismatches: 28, Indels: 30
0.67 0.16 0.17
Matches are distributed among these distances:
14 1 0.01
15 3 0.03
16 81 0.68
17 4 0.03
18 30 0.25
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.28
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:51833650 original size:66 final size:65
Alignment explanation
Indices: 51833549--51833743 Score: 205
Period size: 66 Copynumber: 2.9 Consensus size: 65
51833539 TAACTTATAT
* ** *
51833549 ATAACTCACATAACTTACATAGCTTACATTCTACACAACTTACATGACATACATAATACATAACT
1 ATAACTAACATAA--TACATAGCTTACATAATACACAACTTACAT-ACTTACATAATACATAACT
*
51833614 GAC
63 AAC
* *
51833617 ATAACTAACATAATACATAGCTTACATGATACACAACTTACATAGCTTACATAATAAATAACTAA
1 ATAACTAACATAATACATAGCTTACATAATACACAACTTACATA-CTTACATAATACATAACTAA
51833682 C
65 C
* * ** *
51833683 ATAA-AATACA-ACTTACATAGCTTACATAATACGTAACTTACATAACTTATATAATACATAA
1 ATAACTA-ACATA-ATACATAGCTTACATAATACACAACTTACAT-ACTTACATAATACATAA
51833744 ATTTCCAGGC
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
65 3 0.03
66 94 0.85
67 1 0.01
68 12 0.11
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.29
Consensus pattern (65 bp):
ATAACTAACATAATACATAGCTTACATAATACACAACTTACATACTTACATAATACATAACTAAC
Found at i:51833679 original size:25 final size:25
Alignment explanation
Indices: 51833605--51833685 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
51833595 ACATACATAA
* *
51833605 TACATAACTGACATAACTAACATAA--
1 TACATAGCTTACATAA-TAA-ATAACT
* * *
51833630 TACATAGCTTACATGATACACAACT
1 TACATAGCTTACATAATAAATAACT
51833655 TACATAGCTTACATAATAAATAACT
1 TACATAGCTTACATAATAAATAACT
*
51833680 AACATA
1 TACATA
51833686 AAATACAACT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
23 3 0.07
24 2 0.04
25 40 0.89
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (25 bp):
TACATAGCTTACATAATAAATAACT
Found at i:51833694 original size:41 final size:41
Alignment explanation
Indices: 51833649--51833727 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
51833639 TACATGATAC
51833649 ACAACTTACATAGCTTACATAATAAATAACTAACATAAAAT
1 ACAACTTACATAGCTTACATAATAAATAACTAACATAAAAT
** *
51833690 ACAACTTACATAGCTTACATAATACGTAACTTACATAA
1 ACAACTTACATAGCTTACATAATAAATAACTAACATAA
51833728 CTTATATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (41 bp):
ACAACTTACATAGCTTACATAATAAATAACTAACATAAAAT
Found at i:51833709 original size:25 final size:26
Alignment explanation
Indices: 51833674--51833736 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
51833664 TACATAATAA
*
51833674 ATAACTAACATAAAATAC-AACTTAC
1 ATAACTTACATAAAATACGAACTTAC
*
51833699 ATAGCTTACAT--AATACGTAACTTAC
1 ATAACTTACATAAAATACG-AACTTAC
*
51833724 ATAACTTATATAA
1 ATAACTTACATAA
51833737 TACATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
23 5 0.17
25 25 0.83
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.30
Consensus pattern (26 bp):
ATAACTTACATAAAATACGAACTTAC
Found at i:51833737 original size:25 final size:25
Alignment explanation
Indices: 51833692--51833739 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
51833682 CATAAAATAC
*
51833692 AACTTACATAGCTTACATAATACGT
1 AACTTACATAACTTACATAATACGT
*
51833717 AACTTACATAACTTATATAATAC
1 AACTTACATAACTTACATAATAC
51833740 ATAAATTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACGT
Found at i:51839203 original size:66 final size:66
Alignment explanation
Indices: 51839097--51839258 Score: 200
Period size: 66 Copynumber: 2.5 Consensus size: 66
51839087 CAAATTACAC
* ** * *
51839097 AACTTAAAGCGGAGGCAGCATTGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCTAGCT
1 AACTTAAAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAACT
51839161 AA
65 AA
* * *
51839163 AACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAACTG
1 AACTTAAAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAACTA
*
51839228 T
66 A
* * *
51839229 AGCTTAAAGCAGAGGCTGCAGCGAGGGAAG
1 AACTTAAAGCAGAGGCAGCAGCGAGAGAAG
51839259 TAGAGGCTGC
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
66 78 0.95
67 4 0.05
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (66 bp):
AACTTAAAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAACTA
A
Found at i:51839265 original size:21 final size:21
Alignment explanation
Indices: 51839235--51839284 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
51839225 CTGTAGCTTA
51839235 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
51839256 AAGTAGAGGCTGCAGTGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
51839277 AAGCAGAG
1 AAGCAGAG
51839285 CAGCGTAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.46, T:0.08
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:51839678 original size:43 final size:43
Alignment explanation
Indices: 51839621--51839824 Score: 214
Period size: 43 Copynumber: 4.7 Consensus size: 43
51839611 CGTTTTTAAA
* *
51839621 AAAAACGCCACTAAAGGTCATGGTC-TTATGCGGCGTTTGTGGG
1 AAAAGCGCCACTAAAGGTCATGGTCTTTA-GCGGCATTTGTGGG
* ** * * ** * **
51839664 AAAAGCGCCGCTAAAGACCAGGGTGTTTAGTAGCGTTTGTTTG
1 AAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCATTTGTGGG
* **
51839707 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCATTTGTCAG
1 AAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCATTTGTGGG
*
51839750 ATAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCATTTGTCGGG
1 AAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCATTTGT-GGG
* *
51839794 -AAAGCGCAACTAAAGGTTATGGTCTTTAGCG
1 AAAAGCGCCACTAAAGGTCATGGTCTTTAGCG
51839825 ATGTTTTTTT
Statistics
Matches: 133, Mismatches: 26, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
43 129 0.97
44 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCATTTGTGGG
Found at i:51843418 original size:19 final size:19
Alignment explanation
Indices: 51843394--51843435 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
51843384 ATAGAATACG
51843394 ACATAACA-ATAATATATAA
1 ACATAACAGA-AATATATAA
*
51843413 ACATAACAGAGATATATAA
1 ACATAACAGAAATATATAA
51843432 ACAT
1 ACAT
51843436 GTAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (19 bp):
ACATAACAGAAATATATAA
Found at i:51844175 original size:28 final size:28
Alignment explanation
Indices: 51844143--51844200 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
51844133 ATTCTCAATC
* *
51844143 TTCAATCCCCATTTTTC-AATTTTATATT
1 TTCAATCCCCAATCTTCAAATTTTA-ATT
*
51844171 TTCAATCTCCAATCTTCAAATTTTAATT
1 TTCAATCCCCAATCTTCAAATTTTAATT
51844199 TT
1 TT
51844201 TAATATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.52
Consensus pattern (28 bp):
TTCAATCCCCAATCTTCAAATTTTAATT
Found at i:51844766 original size:26 final size:26
Alignment explanation
Indices: 51844718--51844767 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
51844708 ATCGCACGTG
* *
51844718 TTTAATTTTTAATTTTGTGTTGTTGA
1 TTTAATTTTTAATTTTATATTGTTGA
51844744 TTTAATTATTTAA-TTTATATTGTT
1 TTTAATT-TTTAATTTTATATTGTT
51844768 TCATGACTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (26 bp):
TTTAATTTTTAATTTTATATTGTTGA
Found at i:51845236 original size:21 final size:21
Alignment explanation
Indices: 51845208--51845262 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
51845198 AACAGCGGTG
*
51845208 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
* * *
51845229 GTGGTGAGATTGGGTGCTGTA
1 GCGGTGAGATTAGGTACTGTA
*
51845250 GCAGTGAGATTAG
1 GCGGTGAGATTAG
51845263 AAACAACGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.07, G:0.40, T:0.31
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:51849273 original size:23 final size:23
Alignment explanation
Indices: 51849242--51849305 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 23
51849232 CATAAGCACT
51849242 AAACTAAAT-AACTTAATTCAACTC
1 AAAC-AAATAAAC-TAATTCAACTC
51849266 AAACAAATAAACTAATTCAACTC
1 AAACAAATAAACTAATTCAACTC
*
51849289 -AACAAACTAATCTAATT
1 AAACAAA-TAAACTAATT
51849306 AGCCCGTACA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 6 0.16
23 24 0.65
24 7 0.19
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (23 bp):
AAACAAATAAACTAATTCAACTC
Found at i:51853186 original size:16 final size:14
Alignment explanation
Indices: 51853153--51853184 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
51853143 TAATCAAAAC
51853153 TATACTAGAATATA
1 TATACTAGAATATA
51853167 TATACTAGAATATA
1 TATACTAGAATATA
51853181 TATA
1 TATA
51853185 TATAACCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (14 bp):
TATACTAGAATATA
Found at i:51854060 original size:31 final size:31
Alignment explanation
Indices: 51853996--51854061 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
51853986 TTTTAAGAAT
* ** *
51853996 GCCATACGGCCACAGTCTGTCACACGGCTTA
1 GCCATACGGCCACAATCTGTCACACAACCTA
* *
51854027 GCCATACTGCCACAATCTGTCACATAACCTA
1 GCCATACGGCCACAATCTGTCACACAACCTA
51854058 GCCA
1 GCCA
51854062 CACAGTCGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.36, G:0.17, T:0.20
Consensus pattern (31 bp):
GCCATACGGCCACAATCTGTCACACAACCTA
Found at i:51867254 original size:17 final size:17
Alignment explanation
Indices: 51867212--51867256 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
51867202 TTTCCTTTCC
51867212 TCTCTCTTTATCTCTTCT
1 TCTCTCTTT-TCTCTTCT
*
51867230 TCTTTCTTTTCTC-TCT
1 TCTCTCTTTTCTCTTCT
51867246 TCTCCTCTTTT
1 TCT-CTCTTTT
51867257 TATAACTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 10 0.42
18 8 0.33
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.64
Consensus pattern (17 bp):
TCTCTCTTTTCTCTTCT
Found at i:51869103 original size:63 final size:63
Alignment explanation
Indices: 51868955--51869109 Score: 150
Period size: 63 Copynumber: 2.5 Consensus size: 63
51868945 AAACACATGG
* * * * * * *
51868955 GCATGTGTCTAAGCCGTGTAACTCACTGACTTCGTATTAGAGTCACATAGGCATGACACACGT
1 GCATATGTCCAAGCCATATAACTCACTGACTTCGTATTAGAGTCACAGAGGCAAGACACACGA
* * * * * * *
51869018 GCATGTTTCCAGGCCGTGTAACTCACTGGCTTCGTATTATAGTCACACGA-GCAAGACACACGA
1 GCATATGTCCAAGCCATATAACTCACTGACTTCGTATTAGAGTCACA-GAGGCAAGACACACGA
* *
51869081 GCGTATGTCCAAGCCATATAACTAACTGA
1 GCATATGTCCAAGCCATATAACTCACTGA
51869110 TTTTAGATTT
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
63 74 0.99
64 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (63 bp):
GCATATGTCCAAGCCATATAACTCACTGACTTCGTATTAGAGTCACAGAGGCAAGACACACGA
Found at i:51876102 original size:20 final size:20
Alignment explanation
Indices: 51876077--51876114 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51876067 CGTGCTCATA
*
51876077 AACAATTGGGTCAATGACTT
1 AACAATTGAGTCAATGACTT
*
51876097 AACAATTGAGTCCATGAC
1 AACAATTGAGTCAATGAC
51876115 CTAAAAATGA
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:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (20 bp):
AACAATTGAGTCAATGACTT
Found at i:51876149 original size:29 final size:29
Alignment explanation
Indices: 51876116--51876173 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
51876106 GTCCATGACC
* *
51876116 TAAAAATGAACAACATACCTGCGTGCTCA
1 TAAAAATGAACAACATACCTACATGCTCA
51876145 TAAAAATGAACAACATACCTACATGCTCA
1 TAAAAATGAACAACATACCTACATGCTCA
51876174 ACAGTCGCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.21
Consensus pattern (29 bp):
TAAAAATGAACAACATACCTACATGCTCA
Found at i:51876770 original size:25 final size:25
Alignment explanation
Indices: 51876742--51876795 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
51876732 TGTAGTGGCA
*
51876742 AGGTGGCGACACAGGTGTGGCAAGG
1 AGGTGGCGACACAGGTGTGGCAAAG
* *
51876767 AGGTGGCGTCACAGGTGTGGTAAAG
1 AGGTGGCGACACAGGTGTGGCAAAG
51876792 AGGT
1 AGGT
51876796 CAGAGGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.13, G:0.46, T:0.17
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGGCAAAG
Found at i:51877725 original size:27 final size:27
Alignment explanation
Indices: 51877687--51878017 Score: 358
Period size: 27 Copynumber: 12.3 Consensus size: 27
51877677 CAGAAAGGTT
* *
51877687 GTAAAATGACCGAAATACCCTTGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* *
51877714 GTAAAATTACCGAAATATCTTCGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* * * *
51877741 ATAAAATGATCAAAATACCCTCGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* * * *
51877768 GTAAAATTGCTGAAATACCTTTGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* *
51877795 GTAAAATGA-CGAAAATACCCTCGAAAG
1 GTAAAATTACCG-AAATACCCTCGAAGG
51877822 GTAAAATTACCGAAATACCCTCGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* * * *
51877849 GTAAAATTATCAAAATATCCTCAAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* *
51877876 GTAAAATTACTGAAATACCCTTGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* * *
51877903 GTAAAATAACTGAAATACCCTCGAAGC
1 GTAAAATTACCGAAATACCCTCGAAGG
* **
51877930 GTAAAATGATTGAAATACCCTCGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* * *
51877957 GTAAAATGACCTAAATACCCTTGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* *
51877984 GTAAAATTATCGAAATACCCTCAAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
*
51878011 TTAAAAT
1 GTAAAAT
51878018 GACTGTTATA
Statistics
Matches: 250, Mismatches: 52, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
26 1 0.00
27 247 0.99
28 2 0.01
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTCGAAGG
Found at i:51877770 original size:54 final size:54
Alignment explanation
Indices: 51877687--51878020 Score: 398
Period size: 54 Copynumber: 6.2 Consensus size: 54
51877677 CAGAAAGGTT
* * * *
51877687 GTAAAATGACCGAAATACCCTTGAAGGGTAAAATTACCGAAATATCTTCGAAGG
1 GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
* * * * * *
51877741 ATAAAATGATCAAAATACCCTCGAAGGGTAAAATTGCTGAAATACCTTTGAAGG
1 GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
* *
51877795 GTAAAATGACGAAAATACCCTCGAAAGGTAAAATTACCGAAATACCCTCGAAGG
1 GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
* * * * * *
51877849 GTAAAATTATCAAAATATCCTCAAAGGGTAAAATTACTGAAATACCCTTGAAGG
1 GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
* ** * * **
51877903 GTAAAATAACTGAAATACCCTCGAAGCGTAAAATGATTGAAATACCCTCGAAGG
1 GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
* * * *
51877957 GTAAAATGACCTAAATACCCTTGAAGGGTAAAATTATCGAAATACCCTCAAAGG
1 GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
*
51878011 TTAAAATGAC
1 GTAAAATGAC
51878021 TGTTATACCT
Statistics
Matches: 237, Mismatches: 43, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 237 1.00
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (54 bp):
GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
Found at i:51878920 original size:30 final size:31
Alignment explanation
Indices: 51878886--51878943 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
51878876 TTCTAACACT
*
51878886 ACGTTTCCGCAACTCAATT-TTTAAAATATC
1 ACGTTTCCGCAAATCAATTGTTTAAAATATC
* *
51878916 ACGTTTTCGCAAATCAATTGTTTTAAAT
1 ACGTTTCCGCAAATCAATTGTTTAAAAT
51878944 TAAGCTTCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.40
Consensus pattern (31 bp):
ACGTTTCCGCAAATCAATTGTTTAAAATATC
Found at i:51895253 original size:26 final size:26
Alignment explanation
Indices: 51895220--51895272 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
51895210 GTAACTAAAT
51895220 AAAACTTTAGGCACCTGCTCTGAAAA
1 AAAACTTTAGGCACCTGCTCTGAAAA
51895246 AAAACTTTAGGCACCTGCTCTGAAAA
1 AAAACTTTAGGCACCTGCTCTGAAAA
51895272 A
1 A
51895273 GTTGCATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAACTTTAGGCACCTGCTCTGAAAA
Found at i:51895468 original size:176 final size:178
Alignment explanation
Indices: 51895269--51895643 Score: 458
Period size: 176 Copynumber: 2.1 Consensus size: 178
51895259 CCTGCTCTGA
* * * * *
51895269 AAAAGTTGCATAATTTAAGTACCTAAAATGGTAATAGATTAAAAATGTCACGTGTCAGAATTTGA
1 AAAAGTTGCATAGTTTAAGTACCTAAAATGGTAACAAATTAAAAACGTCACGTATCAGAATTTGA
* * *
51895334 TTGGTTT-TAATTTTGTTTTTAA-AGAAAGTTAACAATTGGTACCTAAAGTGATAACAGAAGAAA
66 TTGGTTTGAAAATTT-TTTTTAACA-AAAGTTAACAATTGATACCTAAAGTGATAACAGAAGAAA
* *
51895397 A-TTTCAGGTACCTACTTTAAT-AAAAAAAAA-GTT-AGGTACTTAAATAGG
129 ACTTT-AGGTACCTACTTTAATAAAAAAAAAACGTTCA-GTACCTAAATAAG
* * * * *
51895445 AAAAGTTACATAGTTTAAGTACCTAAAGTGGTAACAAATTAAAACCGTCATGTATCATAATTTGA
1 AAAAGTTGCATAGTTTAAGTACCTAAAATGGTAACAAATTAAAAACGTCACGTATCAGAATTTGA
* * * * * *
51895510 TTGGTTTGAAAATTTTTTTTAACAAGAGTTAATAGTTTATACCTAAAGTGATAATAGAATAAAAC
66 TTGGTTTGAAAATTTTTTTTAACAAAAGTTAACAATTGATACCTAAAGTGATAACAGAAGAAAAC
* *
51895575 TTTAGGTACCTACTTTGATAAAAAAAAAACTTTCAGTACCTAAATAAG
131 TTTAGGTACCTACTTTAATAAAAAAAAAACGTTCAGTACCTAAATAAG
51895623 AAAAGTTGCATAG-TTAAGTAC
1 AAAAGTTGCATAGTTTAAGTAC
51895644 TTATTTTGAT
Statistics
Matches: 169, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
176 117 0.69
177 26 0.15
178 25 0.15
179 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (178 bp):
AAAAGTTGCATAGTTTAAGTACCTAAAATGGTAACAAATTAAAAACGTCACGTATCAGAATTTGA
TTGGTTTGAAAATTTTTTTTAACAAAAGTTAACAATTGATACCTAAAGTGATAACAGAAGAAAAC
TTTAGGTACCTACTTTAATAAAAAAAAAACGTTCAGTACCTAAATAAG
Found at i:51897580 original size:22 final size:23
Alignment explanation
Indices: 51897517--51897594 Score: 72
Period size: 22 Copynumber: 3.4 Consensus size: 23
51897507 GCACCAATGA
*
51897517 ACAGAGAGCACTAAAGTGCT-AT
1 ACAGAGAGCACAAAAGTGCTAAT
*
51897539 ACATAGAGCACAAATA-TGCTAAT
1 ACAGAGAGCACAAA-AGTGCTAAT
* *
51897562 -CAGAGAGCACCAACGTGCTAAT
1 ACAGAGAGCACAAAAGTGCTAAT
51897584 AATCAGAGAGC
1 -A-CAGAGAGC
51897595 GCACTAAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
22 34 0.76
23 3 0.07
25 8 0.18
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.17
Consensus pattern (23 bp):
ACAGAGAGCACAAAAGTGCTAAT
Found at i:51899266 original size:13 final size:13
Alignment explanation
Indices: 51899248--51899310 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
51899238 TCTTCATTCT
51899248 TTTTGAAAAGTAC
1 TTTTGAAAAGTAC
51899261 TTTTGAAAAGTAC
1 TTTTGAAAAGTAC
* * *
51899274 TGTGGAAAAGTGC
1 TTTTGAAAAGTAC
* **
51899287 TTTTGAGAAGTGT
1 TTTTGAAAAGTAC
51899300 TTTTGAAAAGT
1 TTTTGAAAAGT
51899311 TTGGTTTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTAC
Found at i:51904689 original size:43 final size:42
Alignment explanation
Indices: 51904620--51904783 Score: 145
Period size: 43 Copynumber: 3.9 Consensus size: 42
51904610 AAACACATAT
* * * *
51904620 ATCACATA-CAATGCC-ATATCCCAGATATGGTCTTACATGTT
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACA-GTA
** * * **
51904661 ATCACATATCGATGCCTCTGTCCCAGATAGGGTCTTACACAA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACAGTA
* *
51904703 ATCATATA-CGGTGCCAATGTCCCAGACATGGTCTTACACGTA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACA-GTA
* * * *
51904745 ATCTCATATTGATGCCAATGTCCTAGACACGGTCTTACA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACA
51904784 CAAAATCACA
Statistics
Matches: 98, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 33 0.34
42 20 0.20
43 45 0.46
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACAGTA
Found at i:51905228 original size:68 final size:68
Alignment explanation
Indices: 51905146--51905280 Score: 216
Period size: 68 Copynumber: 2.0 Consensus size: 68
51905136 ATTCAGATAG
* * *
51905146 CTACATTTATTAAATAAAACAACATAAATGCTAGTGCATTGAACAGTGAATTTAACACATTCGAA
1 CTACATTTACTAAATAAAACAACATAAATGATAGTGCATTGAACAGTGAATCTAACACATTCGAA
51905211 CAA
66 CAA
* * *
51905214 CTACATTTACTAAATAAAACAACATAAATGATGGTGCTTTGATCAGTGAATCTAACACATTCGAA
1 CTACATTTACTAAATAAAACAACATAAATGATAGTGCATTGAACAGTGAATCTAACACATTCGAA
51905279 CA
66 CA
51905281 GCTTAATTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (68 bp):
CTACATTTACTAAATAAAACAACATAAATGATAGTGCATTGAACAGTGAATCTAACACATTCGAA
CAA
Found at i:51908807 original size:24 final size:24
Alignment explanation
Indices: 51908779--51908826 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
51908769 GAGTGTTTCT
51908779 ACCAAATATTAACAATTACAAGTC
1 ACCAAATATTAACAATTACAAGTC
51908803 ACCAAATATTAACAATTACAAGTC
1 ACCAAATATTAACAATTACAAGTC
51908827 TAATCCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.21, G:0.04, T:0.25
Consensus pattern (24 bp):
ACCAAATATTAACAATTACAAGTC
Found at i:51915621 original size:27 final size:27
Alignment explanation
Indices: 51915565--51915733 Score: 182
Period size: 27 Copynumber: 6.2 Consensus size: 27
51915555 CCTAGCAGTC
* * * *
51915565 ATTTTACCCTAACGGGGGTATTACGGTA
1 ATTTTACCCT-TCGAGGGTATTTCGATA
*
51915593 ATTTTACCCTTCGGGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
51915620 ATTTTACCCATCGAGGGTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
51915647 ATTTTACCCATT-GAGGGTATTTCAATA
1 ATTTTACCC-TTCGAGGGTATTTCGATA
*
51915674 ATTTTACCCTTC-AGGGGTATTTCGGTA
1 ATTTTACCCTTCGA-GGGTATTTCGATA
*
51915701 ATTTTA-CCTATCGAGGGTATTTCGGTA
1 ATTTTACCCT-TCGAGGGTATTTCGATA
*
51915728 TTTTTA
1 ATTTTA
51915734 GGTCCATTAC
Statistics
Matches: 126, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.05
27 108 0.86
28 12 0.10
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:51916946 original size:25 final size:25
Alignment explanation
Indices: 51916909--51916962 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
51916899 TGAACCTCTA
51916909 ACCTCCTTACCACACCTATGACGCC
1 ACCTCCTTACCACACCTATGACGCC
* * * *
51916934 ACCTCCTTGCCACACTTGTGTCGCC
1 ACCTCCTTACCACACCTATGACGCC
51916959 ACCT
1 ACCT
51916963 TGCCACTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.46, G:0.11, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTATGACGCC
Found at i:51921889 original size:21 final size:19
Alignment explanation
Indices: 51921860--51921899 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
51921850 TTCATAAATA
51921860 ATTCAAAATAGTTTTCCAAAC
1 ATTCAAAATA--TTTCCAAAC
*
51921881 ATTCCAAATATTTCCAAAC
1 ATTCAAAATATTTCCAAAC
51921900 CCATTCCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.33
Consensus pattern (19 bp):
ATTCAAAATATTTCCAAAC
Found at i:51922750 original size:27 final size:27
Alignment explanation
Indices: 51922707--51922771 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
51922697 AACAGAGCTG
51922707 CCAGT-ACAGTATATGTGGCAAAGCCA
1 CCAGTAACAGTATATGTGGCAAAGCCA
* *
51922733 CCAGTAACAGTGAT-TGTGGTAGAGCCA
1 CCAGTAACAGT-ATATGTGGCAAAGCCA
* *
51922760 CTAGAAACAGTA
1 CCAGTAACAGTA
51922772 CTTCATAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.18
27 25 0.76
28 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCAAAGCCA
Found at i:51922922 original size:27 final size:27
Alignment explanation
Indices: 51922879--51923117 Score: 193
Period size: 27 Copynumber: 8.8 Consensus size: 27
51922869 CCTAGCATTC
* *
51922879 ATTTTACCCTAACG-GGGTATTACGATA
1 ATTTTACCC-ATCGAGGGTATTTCGATA
* * *
51922906 ATTTTACCCTTCGGGGGGTATTTC-AGGA
1 ATTTTACCCATC-GAGGGTATTTCGA-TA
* * *
51922934 ATTTTTCCCTTC-AGGGGTATTTCGGTA
1 ATTTTACCCATCGA-GGGTATTTCGATA
*
51922961 ATTTTTCCCATCGAGGGTATTTC-AGTA
1 ATTTTACCCATCGAGGGTATTTCGA-TA
* *
51922988 ATTTTACCCATCAAGGGTATTTAGATA
1 ATTTTACCCATCGAGGGTATTTCGATA
* *
51923015 ATTTTACCCATCGAAGGTATTT-TAGTA
1 ATTTTACCCATCGAGGGTATTTCGA-TA
* *
51923042 ATTTTACCCATC-AGGGGTACTTCGAAA
1 ATTTTACCCATCGA-GGGTATTTCGATA
* * * *
51923069 ATTTTACCCTTCGAGAGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTCGATA
*
51923096 ATTTTACCCATCGAGAGTATTT
1 ATTTTACCCATCGAGGGTATTT
51923118 TGGTAAATGC
Statistics
Matches: 173, Mismatches: 27, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
26 3 0.02
27 146 0.84
28 24 0.14
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCGATA
Found at i:51923006 original size:54 final size:54
Alignment explanation
Indices: 51922893--51923117 Score: 252
Period size: 54 Copynumber: 4.1 Consensus size: 54
51922883 TACCCTAACG
* * * * * * *
51922893 GGGTATTACGATAATTTTACCCTTCGGGGGGTATTTCAGGAATTTTTCCCTTCAG
1 GGGTATTTCGATAATTTTACCCATC-GAGGGTATTTCAGTAATTTTACCCATCAA
* *
51922948 GGGTATTTCGGTAATTTTTCCCATCGAGGGTATTTCAGTAATTTTACCCATCAA
1 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATCAA
* * * *
51923002 GGGTATTTAGATAATTTTACCCATCGAAGGTATTTTAGTAATTTTACCCATCAG
1 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATCAA
* * * * ** *
51923056 GGGTACTTCGAAAATTTTACCCTTCGAGAGTATTTTGGTAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATCAA
*
51923110 GAGTATTT
1 GGGTATTT
51923118 TGGTAAATGC
Statistics
Matches: 144, Mismatches: 26, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
54 123 0.85
55 21 0.15
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATCAA
Found at i:51924331 original size:25 final size:25
Alignment explanation
Indices: 51924293--51924346 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
51924283 TGAACCTCTG
*
51924293 ACCTCCTTATCACACCTGTGACACC
1 ACCTCCTTACCACACCTGTGACACC
* * *
51924318 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCCTTACCACACCTGTGACACC
51924343 ACCT
1 ACCT
51924347 TGCCACTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.46, G:0.11, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTGTGACACC
Found at i:51928942 original size:3 final size:3
Alignment explanation
Indices: 51928934--51928986 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
51928924 AAACTTTAGG
* * * * *
51928934 TTA TTA TTA TTA TTA TTA TTA TCA TCA TCA TCA TTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
51928982 TTA TT
1 TTA TT
51928987 CTTAAATTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:51929088 original size:17 final size:17
Alignment explanation
Indices: 51929064--51929103 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
51929054 CCGTTATCCT
* *
51929064 TATTATTTTTTTGTTTA
1 TATTATTTTATTCTTTA
*
51929081 TTTTATTTTATTCTTTA
1 TATTATTTTATTCTTTA
51929098 TATTAT
1 TATTAT
51929104 CATTCATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (17 bp):
TATTATTTTATTCTTTA
Found at i:51931880 original size:14 final size:14
Alignment explanation
Indices: 51931841--51931881 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
51931831 GTGGAGGCAA
51931841 AAAAAACAAAAAAAT
1 AAAAAAC-AAAAAAT
*
51931856 AAAGAACAAAAAAT
1 AAAAAACAAAAAAT
*
51931870 AAAAAATAAAAA
1 AAAAAACAAAAA
51931882 CCTCTACCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.85, C:0.05, G:0.02, T:0.07
Consensus pattern (14 bp):
AAAAAACAAAAAAT
Found at i:51932293 original size:5 final size:5
Alignment explanation
Indices: 51932277--51932319 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
51932267 ATGAACAGAA
*
51932277 AAAAG -AAA- AAAAG AAAAG AAAAG AAAAA AAAGAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA-AG AAAAG AAAA
51932320 AGGAGAGCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 6 0.18
5 23 0.70
6 4 0.12
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:51932312 original size:21 final size:20
Alignment explanation
Indices: 51932273--51932320 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
51932263 AACAATGAAC
51932273 AGAAAAAAGAAAAAAAGAAA
1 AGAAAAAAGAAAAAAAGAAA
51932293 AGAAAAGAA-AAAAAAGAGAAA
1 AGAAAA-AAGAAAAAA-AGAAA
51932314 AGAAAAA
1 AGAAAAA
51932321 GGAGAGCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (20 bp):
AGAAAAAAGAAAAAAAGAAA
Found at i:51932326 original size:16 final size:16
Alignment explanation
Indices: 51932277--51932320 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
51932267 ATGAACAGAA
*
51932277 AAAAGAAAAAAAGAAAAG
1 AAAAG-AAAAAA-AAGAG
51932295 AAAAGAAAAAAAAGAG
1 AAAAGAAAAAAAAGAG
51932311 AAAAGAAAAA
1 AAAAGAAAAA
51932321 GGAGAGCCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 14 0.56
17 6 0.24
18 5 0.20
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAGAG
Found at i:51933276 original size:44 final size:44
Alignment explanation
Indices: 51933208--51934099 Score: 224
Period size: 44 Copynumber: 19.5 Consensus size: 44
51933198 TCATGGCGAA
51933208 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
* * ** * *
51933252 TCTTATC-CCCTTGAAGTTGTAGTGG-GATAGATTGAAGATTATGGCGAA
1 TCTTATCTCCC-TGAAGTTGCAGTGGAG-CAGATTGAAG-CCA---CTAG
* * *
51933300 TATTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCACTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
* * ** *
51933344 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGC-GG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CTAG
* * * * * * *
51933388 ATCTTATTTCCCTGAACTTGCAGTAGAACAGATTAAAGCTATAAATTACAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC----CACT--AG
** * * * * * *
51933439 ATCTTATCTGTCTGAATTTGCAGTAGAGCAGA-TCATAGCTACAAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACTAG
* * * * * * *
51933484 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAGCTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACTAG
* * * ** * *
51933528 CCTTATCTCCCTGAAGTTGCAGT-AAGGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGATTGAAGCCACTAG
* *** *
51933572 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAATTTACTAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
* * * * * * * *
51933616 TCCTATCTCCCTGAAGATACAGTGGAGCGGATTAAAACGA-TGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT-AG
* * * * * * * ** *
51933660 CCCTATAC-CTCTGAAGTTACAGAAGGTCGGATCAAATCTATTAAAGTTACAAG
1 TCTTAT-CTCCCTGAAGTT---GCA-GT-GGAGC--A--GATTGAAGCCACTAG
* * * ** * *
51933713 TCTTAACTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CTAG
* * * * * *
51933758 TCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-------CACTAG
* * * * * * *
51933809 TCTTATCTCTCTGAAGTTGCAGTAGAGTA-AATCATA-TCA--AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACTAG
* * * * * *** * *
51933850 CCTTATCTTCCTGAAGTTGCAGTGGAGTAGGTTAAAAATAAATCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAGCCACT-AG
* * * *
51933896 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGAGATACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-C----CACTAG
* * * ** * *
51933945 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAATTCACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
* * * * ** * *
51933989 CCTTATCTCCCTTAAGTTGCAGTGGAGTAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
* * *
51934033 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
*
51934077 TCCTATCTCCCTGAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGT
51934100 AAAGCGGATT
Statistics
Matches: 643, Mismatches: 151, Indels: 108
0.71 0.17 0.12
Matches are distributed among these distances:
41 27 0.04
42 2 0.00
43 10 0.02
44 326 0.51
45 72 0.11
46 31 0.05
47 3 0.00
48 38 0.06
49 45 0.07
50 8 0.01
51 58 0.09
52 3 0.00
53 20 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
Found at i:51933332 original size:92 final size:91
Alignment explanation
Indices: 51933167--51933368 Score: 323
Period size: 92 Copynumber: 2.2 Consensus size: 91
51933157 AGATCCTATA
* * *
51933167 CCCCTGAAGTTACAGTGGGATATATTGAAGATCATGGCGAATCTTATCTCCCTGAAGTTGCAGTG
1 CCCCTGAAGTTGCAGTGGGATAGATTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGCAGTG
51933232 GAGCAGATTGAAGCCACTAGTCTTAT
66 GAGCAGATTGAAGCCACTAGTCTTAT
* * *
51933258 CCCCTTGAAGTTGTAGTGGGATAGATTGAAGATTATGGCGAATATTATCTCCCTGAAGTTGTAGT
1 CCCC-TGAAGTTGCAGTGGGATAGATTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGCAGT
*
51933323 GGAGTAGATTGAAGCCACTAGTCTTAT
65 GGAGCAGATTGAAGCCACTAGTCTTAT
51933350 CTCCCTGAAGTTGCAGTGG
1 C-CCCTGAAGTTGCAGTGG
51933369 AGCAAACTGA
Statistics
Matches: 101, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
91 4 0.04
92 94 0.93
93 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (91 bp):
CCCCTGAAGTTGCAGTGGGATAGATTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGCAGTG
GAGCAGATTGAAGCCACTAGTCTTAT
Found at i:51933380 original size:92 final size:92
Alignment explanation
Indices: 51933167--51933426 Score: 300
Period size: 92 Copynumber: 2.9 Consensus size: 92
51933157 AGATCCTATA
* * * *
51933167 CCCC-TGAAGTTACAGTGGGATATATTGAAGATCATGGCGAATCTTATCTCCCTGAAGTTGCAGT
1 CCCCTTGAAGTTGCAGTGGGATAGACTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGCAGT
51933231 GGAGCAGATTGAAGCCACTAGTCTTAT
66 GGAGCAGATTGAAGCCACTAGTCTTAT
* * * *
51933258 CCCCTTGAAGTTGTAGTGGGATAGATTGAAGATTATGGCGAATATTATCTCCCTGAAGTTGTAGT
1 CCCCTTGAAGTTGCAGTGGGATAGACTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGCAGT
*
51933323 GGAGTAGATTGAAGCCACTAGTCTTAT
66 GGAGCAGATTGAAGCCACTAGTCTTAT
* * * *
51933350 CTCCC-TGAAGTTGCAGTGGAGCA-A-ACTGAAGAT-A--GCGGATCTTATTTCCCTGAACTTGC
1 C-CCCTTGAAGTTGCAGTGG-G-ATAGACTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGC
* * *
51933409 AGTAGAACAGATTAAAGC
63 AGTGGAGCAGATTGAAGC
51933427 TATAAATTAC
Statistics
Matches: 147, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
89 34 0.23
91 5 0.03
92 102 0.69
93 5 0.03
94 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (92 bp):
CCCCTTGAAGTTGCAGTGGGATAGACTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGCAGT
GGAGCAGATTGAAGCCACTAGTCTTAT
Found at i:51934056 original size:88 final size:91
Alignment explanation
Indices: 51933714--51934059 Score: 257
Period size: 93 Copynumber: 3.8 Consensus size: 91
51933704 AGTTACAAGT
* * * * * *
51933714 CTTAACTCCCTGAAGTTGTAGTGGAGCAGACT-GA-AGATAGCGAATCTTATTTCCCTAAAGTTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGACAGATA-CAAATCTTATCTCCCTGAAGTTG
** ** *
51933777 CAGTGGAACAGATTGAAGCTATAAATTACAAAT
65 CAGTGGAGTAGATT-AA-AAAT-AA--AC-AAC
* * * * *
51933810 CTTATCTCTCTGAAGTTGCAGT--AG-AG--TAAATCATAT-CAAACCTTATCTTCCTGAAGTTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGA-CAGATACAAATCTTATCTCCCTGAAGTTG
* *
51933869 CAGTGGAGTAGGTTAAAAATAAATCAAT
65 CAGTGGAGTAGATTAAAAATAAA-CAAC
*
51933897 CTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGAGATACAAATCTTATCTCCCTGAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--AGAC-AGATACAAATCTTATCTCCCTGAAGT
* **
51933962 TACAGTGGAGTAGATT--AAATTCACAAAC
63 TGCAGTGGAGTAGATTAAAAATAAAC-AAC
* * * *
51933990 CTTATCTCCCTTAAGTTGCAGTGGAGTAGGTT-GA-AGATACCAATCTTATCTCCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGACAGATACAAATCTTATCTCCCTGAAGTTGC
51934053 AGTGGAG
66 AGTGGAG
51934060 CAAATTGAAG
Statistics
Matches: 204, Mismatches: 32, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
87 24 0.12
88 35 0.17
89 4 0.02
90 6 0.03
91 3 0.01
92 32 0.16
93 38 0.19
94 10 0.05
95 33 0.16
96 19 0.09
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (91 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGACAGATACAAATCTTATCTCCCTGAAGTTGC
AGTGGAGTAGATTAAAAATAAACAAC
Found at i:51934067 original size:137 final size:135
Alignment explanation
Indices: 51933714--51934070 Score: 421
Period size: 137 Copynumber: 2.6 Consensus size: 135
51933704 AGTTACAAGT
* * * ** * *
51933714 CTTAACTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATA-CCAATCTTATTTCCCTGAAGTTGCA
* * * * *
51933779 GTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAAATCAT
65 GTGGAGCAGATTGAAGC-AGAAATTACAAATCTTATCTCCCTGAAGTTACAGTAGAGTAAATCAA
51933844 ATCAAAC
129 ATCAAAC
* * * *
51933851 CTTATCTTCCTGAAGTTGCAGTGGAGTAGGTTAAAAATAAATCAATCTTATTTCCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGAT--ACCAATCTTATTTCCCTGAAGTTGC
* * * *
51933916 AGTGGAGCAGATTGAAG-ACGAGA-TACAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTA
64 AGTGGAGCAGATTGAAGCA-GAAATTACAAATCTTATCTCCCTGAAGTTACAGTAGAGTAAATCA
51933979 AATTCACAAAC
128 AA-T--CAAAC
* *
51933990 CTTATCTCCCTTAAGTTGCAGTGGAGTAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATACCAATCTTATTTCCCTGAAGTTGCAG
*
51934055 TGGAGCAAATTGAAGC
66 TGGAGCAGATTGAAGC
51934071 TACTAATCCT
Statistics
Matches: 186, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
136 37 0.20
137 72 0.39
138 37 0.20
139 40 0.22
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (135 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATACCAATCTTATTTCCCTGAAGTTGCAG
TGGAGCAGATTGAAGCAGAAATTACAAATCTTATCTCCCTGAAGTTACAGTAGAGTAAATCAAAT
CAAAC
Found at i:51934123 original size:44 final size:44
Alignment explanation
Indices: 51934031--51934144 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 44
51934021 TGAAGATACC
* ** * * * *
51934031 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACT
1 AATCCTATCTCCCTGAAGTTGCAGTAAAGCAAATTAAAACGACG
**
51934075 AATCCTATCTCCCTGAAGTTGCAGTAAAGCGGATTAAAACGACG
1 AATCCTATCTCCCTGAAGTTGCAGTAAAGCAAATTAAAACGACG
* *
51934119 AATCCTATAC-CTCTGAGGTTGCAGTA
1 AATCCTAT-CTCCCTGAAGTTGCAGTA
51934145 GGTCGGATTA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 57 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTAAAGCAAATTAAAACGACG
Found at i:51934537 original size:45 final size:45
Alignment explanation
Indices: 51934464--51934628 Score: 176
Period size: 45 Copynumber: 3.7 Consensus size: 45
51934454 GCAACAAACC
* * *
51934464 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAAGATA
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGATA
* * * **
51934509 ACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTGAAG-GC
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGATA
*
51934553 ACAAGTCTTATCTCCCTGAA-TATGA-AGTGGAGCAGACTGAAA-ATA
1 ACAAATCTTATCTCCCTGAAGT-T-ACAGTGGAGCAGACT-AAAGATA
* *
51934598 ACAAATTTTATTTCCCTGAAGTTACAGTGGA
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGA
51934629 ATAGATTAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 32 0.33
45 63 0.65
46 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (45 bp):
ACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGATA
Found at i:51934614 original size:89 final size:89
Alignment explanation
Indices: 51934463--51934628 Score: 264
Period size: 89 Copynumber: 1.9 Consensus size: 89
51934453 AGCAACAAAC
* *
51934463 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAAGATAACAAATCTTATCTCCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTAAAGATAACAAATCTTATCTCCCTGA
51934528 AGTTACAGTGGAGCAAATTGAAGG
66 AGTTACAGTGGAGCAAATTGAAGG
* *
51934552 CACAAGTCTTATCTCCCTGAA-TATGAAGTGGAGCAGACTGAAA-ATAACAAATTTTATTTCCCT
1 CACAAGTCTTATCTCCCTGAAGT-TGAAGTGGAGCAGACT-AAAGATAACAAATCTTATCTCCCT
51934615 GAAGTTACAGTGGA
64 GAAGTTACAGTGGA
51934629 ATAGATTAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
88 1 0.01
89 67 0.94
90 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (89 bp):
CACAAGTCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTAAAGATAACAAATCTTATCTCCCTGA
AGTTACAGTGGAGCAAATTGAAGG
Found at i:51934866 original size:23 final size:23
Alignment explanation
Indices: 51934822--51934865 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
51934812 CTAATTTACA
51934822 AATAAAAATTACAAACCCAAAAC
1 AATAAAAATTACAAACCCAAAAC
*
51934845 AATAAAAATTAC-ATCCCAAAA
1 AATAAAAATTACAAACCCAAAA
51934866 ATTAAAGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.64, C:0.20, G:0.00, T:0.16
Consensus pattern (23 bp):
AATAAAAATTACAAACCCAAAAC
Found at i:51936120 original size:3 final size:3
Alignment explanation
Indices: 51936112--51936152 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
51936102 AAACTTTAGG
* * *
51936112 TTA TTA TTA TTA TTA TCA TCA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
51936153 CTTAAATTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:51939199 original size:16 final size:17
Alignment explanation
Indices: 51939178--51939210 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
51939168 GTTAACTTAA
51939178 ATGAT-CTAAATGCAAG
1 ATGATCCTAAATGCAAG
51939194 ATGATCCCTAAATGCAA
1 ATGAT-CCTAAATGCAA
51939211 TGTATGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (17 bp):
ATGATCCTAAATGCAAG
Found at i:51942186 original size:27 final size:26
Alignment explanation
Indices: 51942094--51942191 Score: 115
Period size: 28 Copynumber: 3.6 Consensus size: 26
51942084 GTCAGAAAAG
* *
51942094 GGAAAGCCTTTGTGTCAAATCTCGAA
1 GGAAAGCCTTTGTGGCAAATCTTGAA
* *
51942120 TGGAAAAGCCTTTGTGGAAAATCTTAAAA
1 -GG-AAAGCCTTTGTGGCAAATCTT-GAA
51942149 GGAATAGCCTTTGTGGCAAATCTTGAA
1 GGAA-AGCCTTTGTGGCAAATCTTGAA
*
51942176 GGAAAGCCCTTGTGGC
1 GGAAAGCCTTTGTGGC
51942192 TACCATCTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
26 11 0.18
27 10 0.16
28 38 0.62
29 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (26 bp):
GGAAAGCCTTTGTGGCAAATCTTGAA
Found at i:51948090 original size:10 final size:10
Alignment explanation
Indices: 51948075--51948163 Score: 50
Period size: 10 Copynumber: 9.3 Consensus size: 10
51948065 AACGGAAAGT
51948075 ATTTTTAATA
1 ATTTTTAATA
51948085 ATTTTT-ATCA
1 ATTTTTAAT-A
*
51948095 A--TTTAATTG
1 ATTTTTAA-TA
51948104 A-TTTTAATA
1 ATTTTTAATA
51948113 ATTTATT-ATA
1 ATTT-TTAATA
51948123 A-TTTTAATA
1 ATTTTTAATA
*
51948132 AATTTTAA-A
1 ATTTTTAATA
*
51948141 TATTTTTTAT-
1 -ATTTTTAATA
*
51948151 ATTTGTAATA
1 ATTTTTAATA
51948161 ATT
1 ATT
51948164 ATTTGAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
8 5 0.08
9 20 0.32
10 35 0.56
11 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:51948126 original size:19 final size:19
Alignment explanation
Indices: 51948082--51948132 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
51948072 AGTATTTTTA
*
51948082 ATAATTTTTATCAATTTAAT
1 ATAATTTTAAT-AATTTAAT
* *
51948102 -TGATTTTAATAATTTATT
1 ATAATTTTAATAATTTAAT
51948120 ATAATTTTAATAA
1 ATAATTTTAATAA
51948133 ATTTTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
ATAATTTTAATAATTTAAT
Found at i:51948128 original size:29 final size:28
Alignment explanation
Indices: 51948077--51948150 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
51948067 CGGAAAGTAT
**
51948077 TTTTAATAATTTTTATCAATTTAATTGA
1 TTTTAATAATTTTTATCAATTTAATAAA
51948105 TTTTAATAATTTATTAT-AATTTTAATAAA
1 TTTTAATAATTT-TTATCAA-TTTAATAAA
*
51948134 TTTTAAATATTTTTTAT
1 TTTT-AATAATTTTTAT
51948151 ATTTGTAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
28 14 0.35
29 19 0.47
30 7 0.17
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (28 bp):
TTTTAATAATTTTTATCAATTTAATAAA
Found at i:51948145 original size:19 final size:19
Alignment explanation
Indices: 51948104--51948146 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
51948094 AATTTAATTG
* *
51948104 ATTTTAATAATTTATTATA
1 ATTTTAATAAATTATTAAA
51948123 ATTTTAATAAATT-TTAAA
1 ATTTTAATAAATTATTAAA
51948141 TATTTT
1 -ATTTT
51948147 TTATATTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTAATAAATTATTAAA
Found at i:51948151 original size:29 final size:27
Alignment explanation
Indices: 51948077--51948161 Score: 80
Period size: 29 Copynumber: 3.0 Consensus size: 27
51948067 CGGAAAGTAT
* * **
51948077 TTTTAATAATTTTTATCAATTTAATTGA
1 TTTTAATATTTTTTAT-ATTTTAATAAA
*
51948105 TTTTAATAATTTATTATAATTTTAATAAA
1 TTTTAAT-ATTTTTTAT-ATTTTAATAAA
51948134 TTTTAAATATTTTTTATATTTGTAATAA
1 TTTT-AATATTTTTTATATTT-TAATAA
51948162 TTATTTGAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 11 0.23
29 33 0.70
30 3 0.06
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTAATATTTTTTATATTTTAATAAA
Found at i:51957043 original size:47 final size:47
Alignment explanation
Indices: 51956985--51957472 Score: 795
Period size: 47 Copynumber: 10.5 Consensus size: 47
51956975 ATTCAGCCAA
*
51956985 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
51957032 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
51957079 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
51957126 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGAT-AATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
51957172 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
51957219 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
51957266 GAAAGTGTATATATGTGATAAGG-CTAAT-G-CGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
51957310 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
51957357 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * * * * * * *
51957404 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
51957451 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
51957473 TCCCGAAGGG
Statistics
Matches: 423, Mismatches: 14, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
44 38 0.09
45 6 0.01
46 52 0.12
47 327 0.77
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:51957238 original size:140 final size:140
Alignment explanation
Indices: 51956985--51957472 Score: 793
Period size: 140 Copynumber: 3.5 Consensus size: 140
51956975 ATTCAGCCAA
51956985 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
51957050 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
65 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
51957115 GTGATGAATGT
130 GTGATGAATGT
*
51957126 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGAT-AATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
51957190 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
65 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
51957255 GTGATGAATGT
130 GTGATGAATGT
*
51957266 GAAAGTGTATATATGTGATAAGG-CTAATG-CGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 GAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATGTGTGAT
* *
51957329 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
66 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATG
51957394 TGATGAATGT
131 TGATGAATGT
* * * * * * * * **
51957404 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
51957469 TAAG
65 TAAG
51957473 TCCCGAAGGG
Statistics
Matches: 327, Mismatches: 16, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
137 9 0.03
138 118 0.36
139 8 0.02
140 121 0.37
141 71 0.22
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (140 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATGTGTGAT
AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATG
TGATGAATGT
Found at i:51957327 original size:25 final size:25
Alignment explanation
Indices: 51957297--51957375 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
51957287 GGCTAATGCG
51957297 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
51957322 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
51957344 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
51957369 ATGTGAT
1 ATGTGAT
51957376 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:51957633 original size:37 final size:37
Alignment explanation
Indices: 51957591--51957669 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
51957581 CCGAGCTCTA
* *
51957591 AAGACCCGATGACTACGTGTGG-GAATTTTATCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATATCCGGGT
** *
51957628 AAGACCCGATAACTTTGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATATCCGGGT
51957665 AAGAC
1 AAGAC
51957670 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATATCCGGGT
Found at i:51963997 original size:16 final size:15
Alignment explanation
Indices: 51963967--51964001 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
51963957 TTCTATTGTC
51963967 TATATTTTTTATAGA
1 TATATTTTTTATAGA
*
51963982 TATATTTTTATCTAGA
1 TATATTTTT-TATAGA
51963998 TATA
1 TATA
51964002 CAAGATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TATATTTTTTATAGA
Found at i:51964338 original size:20 final size:21
Alignment explanation
Indices: 51964313--51964356 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
51964303 TTACACGAGG
*
51964313 AAATTGTTATTTCTAATT-AA
1 AAATTGGTATTTCTAATTCAA
51964333 AAATTGGTATTTCTAATTCAA
1 AAATTGGTATTTCTAATTCAA
51964354 AAA
1 AAA
51964357 AAAAATAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (21 bp):
AAATTGGTATTTCTAATTCAA
Found at i:51972308 original size:7 final size:8
Alignment explanation
Indices: 51972288--51972312 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
51972278 ATCATTAAAT
51972288 ATTTTTAA
1 ATTTTTAA
51972296 ATTTTTAA
1 ATTTTTAA
51972304 ATTTTTAA
1 ATTTTTAA
51972312 A
1 A
51972313 AATTATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTTTAA
Found at i:51973630 original size:24 final size:24
Alignment explanation
Indices: 51973579--51973630 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
51973569 CACATAGTTG
* *
51973579 TGTGGTAGGCCGTGTGCCATGCCG
1 TGTGGTAGGCCGTGTGCCAGGCCC
* **
51973603 TGTGGTAGGCTGTGTGTGAGGCCC
1 TGTGGTAGGCCGTGTGCCAGGCCC
51973627 TGTG
1 TGTG
51973631 TGACACACGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.08, C:0.19, G:0.44, T:0.29
Consensus pattern (24 bp):
TGTGGTAGGCCGTGTGCCAGGCCC
Found at i:51981876 original size:19 final size:20
Alignment explanation
Indices: 51981852--51981889 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
51981842 CAAATCTGCA
*
51981852 CAAAAC-ATTAAATTTAAGG
1 CAAAACTATAAAATTTAAGG
51981871 CAAAACTATAAAATTTAAG
1 CAAAACTATAAAATTTAAG
51981890 AAATAGGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (20 bp):
CAAAACTATAAAATTTAAGG
Found at i:51984134 original size:35 final size:35
Alignment explanation
Indices: 51984088--51984157 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
51984078 AGTTTAGCAG
51984088 CAAAATCACAAATTTCAACAACAATAACATGCATA
1 CAAAATCACAAATTTCAACAACAATAACATGCATA
51984123 CAAAATCACAAATTTCAACAACAATAACATGCATA
1 CAAAATCACAAATTTCAACAACAATAACATGCATA
51984158 GACTAGATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (35 bp):
CAAAATCACAAATTTCAACAACAATAACATGCATA
Found at i:51996082 original size:39 final size:39
Alignment explanation
Indices: 51995675--51996085 Score: 459
Period size: 39 Copynumber: 10.5 Consensus size: 39
51995665 TATAATCAAT
* * * *
51995675 GGCACGTAAGTGCAAATCACGGGTACCAAAGTACAACAGG
1 GGCACGTATGTGC-ATTCAGGGGTACCGAAGTACAACAGG
* * *
51995715 GGCATGT-TGGTGCAGTT-AGGGGTATCGAAGTACAATAGG
1 GGCACGTAT-GTGCA-TTCAGGGGTACCGAAGTACAACAGG
* * * * *
51995754 GGCGCGTAGGTGCATTCAGGGGTACCAAAATACAACATG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
* * *
51995793 GGCACGTATGTGTATTTAGGGGTATCGAAGTACAACAGG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
* *
51995832 GGCACATATGTGCATTTAGGGGTACCGAAGTACAACAGG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
* **
51995871 GGCATGTGGGTGCATTCAGGGGTACCGAAGTACAACAGG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
* * * * *
51995910 GGCACATATCTACA-TCTAGAGGTATCGAAGTACAACAGG
1 GGCACGTATGTGCATTC-AGGGGTACCGAAGTACAACAGG
* * *
51995949 GGCACATATGTGCATTCAAGGGTACCAAAGTACAACAGG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
* *
51995988 GGCACGTATGTGCATTTAGGGGTACCGAAGTACAATAGG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
* ** *
51996027 GGAAAATATGTGCATTCAGGGGTACCGAACTACAACAGG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
51996066 GGCACGTATGTGCATTCAGG
1 GGCACGTATGTGCATTCAGG
51996086 TTTAATTACA
Statistics
Matches: 306, Mismatches: 59, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
38 4 0.01
39 289 0.94
40 13 0.04
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.20
Consensus pattern (39 bp):
GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
Found at i:52001827 original size:40 final size:40
Alignment explanation
Indices: 52001745--52002006 Score: 255
Period size: 40 Copynumber: 6.6 Consensus size: 40
52001735 TTGAATGCTG
* * * *
52001745 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGA-T-ATTAAA
* * * *
52001784 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGATATTAAA
* * *
52001824 TCCGAGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
* *
52001864 TCCGGGGTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
* * *
52001904 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
* * * * *
52001944 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
* *
52001983 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
52002007 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 45 0.23
40 143 0.72
41 9 0.05
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
Found at i:52001884 original size:80 final size:80
Alignment explanation
Indices: 52001797--52002006 Score: 296
Period size: 80 Copynumber: 2.6 Consensus size: 80
52001787 GGACTAAGAT
* *
52001797 CCGAAGGCCTTTGTGCGAGATACTAAATCCGAGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
1 CCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
52001862 AATCCGGGGTAAGTC
66 AATCCGGGGTAAGTC
* * * *
52001877 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
* *
52001942 AATCCGGGTTATGTC
66 AATCCGGGGTAAGTC
* * * * *
52001957 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
52002007 TGAACGAGGA
Statistics
Matches: 114, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 35 0.31
80 79 0.69
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
AATCCGGGGTAAGTC
Found at i:52002026 original size:79 final size:80
Alignment explanation
Indices: 52001797--52002041 Score: 235
Period size: 80 Copynumber: 3.1 Consensus size: 80
52001787 GGACTAAGAT
* * * * * * ** * *
52001797 CCGAAGGCCTTTGTGCGAGATACTAAATCCGAGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
*
52001861 AAATCCGGGGTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
52001877 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
52001942 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
52001957 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
52002021 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
52002035 CCGAAGG
1 CCGAAGG
52002042 TACGTGATTT
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 81 0.57
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:52005408 original size:40 final size:41
Alignment explanation
Indices: 52005319--52005463 Score: 202
Period size: 41 Copynumber: 3.6 Consensus size: 41
52005309 CGCTGACTCA
*
52005319 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCTC
* * * * * * * *
52005360 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCTC
52005400 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCTC
52005441 AAAAGCCCTTCGAGACCAAGCTC
1 AAAAGCCCTTCGAGACCAAGCTC
52005464 AAAATTTAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 31 0.36
41 55 0.64
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCTC
Found at i:52009875 original size:10 final size:10
Alignment explanation
Indices: 52009860--52009892 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
52009850 ATTCCAAAAA
52009860 TAATATTATT
1 TAATATTATT
52009870 TAATA-TATT
1 TAATATTATT
*
52009879 TAATATAATT
1 TAATATTATT
52009889 TAAT
1 TAAT
52009893 TGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TAATATTATT
Found at i:52027196 original size:28 final size:28
Alignment explanation
Indices: 52027155--52027272 Score: 157
Period size: 28 Copynumber: 4.2 Consensus size: 28
52027145 CCAAACAGTA
* *
52027155 ACAGT-ATGGTGTGGGCCTTAGCCCATT
1 ACAGTAATAGTGTGGGCCTTAGCCCAAT
*
52027182 ACAGTAATAGTGTGGGCCTTAGCCCATT
1 ACAGTAATAGTGTGGGCCTTAGCCCAAT
*
52027210 ATAGTAATAGTGTGGGCCTTAGCCCAAT
1 ACAGTAATAGTGTGGGCCTTAGCCCAAT
* * * *
52027238 ACAGTAACAGTGTAGGCCTTAACCGAAT
1 ACAGTAATAGTGTGGGCCTTAGCCCAAT
52027266 ACAGTAA
1 ACAGTAA
52027273 CCAGTGCAGT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 5 0.06
28 77 0.94
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (28 bp):
ACAGTAATAGTGTGGGCCTTAGCCCAAT
Found at i:52027273 original size:28 final size:28
Alignment explanation
Indices: 52027122--52027278 Score: 154
Period size: 28 Copynumber: 5.4 Consensus size: 28
52027112 ATACGTCATG
* *
52027122 CAGTAACAGTTTGGGCCTGAGTCCCAA-A
1 CAGTAACAGTGTGGGCCTTAG-CCCAATA
*
52027150 CAGTAACAGTATGGTGTGGGCCTTAGCCCATTA
1 CAGTAAC---A--GTGTGGGCCTTAGCCCAATA
* *
52027183 CAGTAATAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* *
52027211 TAGTAATAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* * *
52027239 CAGTAACAGTGTAGGCCTTAACCGAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
52027267 CAGTAACCAGTG
1 CAGTAA-CAGTG
52027279 CAGTGTAGTA
Statistics
Matches: 111, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
28 82 0.74
29 5 0.05
30 1 0.01
31 1 0.01
32 4 0.04
33 18 0.16
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:52027628 original size:27 final size:27
Alignment explanation
Indices: 52027609--52027805 Score: 258
Period size: 27 Copynumber: 7.3 Consensus size: 27
52027599 GGTATAACAG
52027609 TCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
52027636 TCATTTTACCCTTTGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
52027663 TCATTTTACGCTTCGGGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
52027690 TCATTTTACCCTT-TAGGGGTATTT-TA
1 TCATTTTACCCTTCGA-GGGTATTTCGA
*
52027716 GTCATTTTACCCTTTGAGGGTATTTC-A
1 -TCATTTTACCCTTCGAGGGTATTTCGA
52027743 GTCATTTTACCCTTCGAGGGTATTTCGA
1 -TCATTTTACCCTTCGAGGGTATTTCGA
* *
52027771 TCATTTTACCC-TCCAGGGGTATTTCGG
1 TCATTTTACCCTTCGA-GGGTATTTCGA
52027798 TCATTTTA
1 TCATTTTA
52027806 GGCCCATTAT
Statistics
Matches: 152, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.03
27 146 0.96
28 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCGA
Found at i:52028398 original size:19 final size:19
Alignment explanation
Indices: 52028374--52028422 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
52028364 TGAGAGTTTC
*
52028374 TTTTATATTTCTTCTTCTG
1 TTTTATATTTCCTCTTCTG
*
52028393 TTTTATTAGTTCCTCTTCTG
1 TTTTA-TATTTCCTCTTCTG
*
52028413 TTTAATATTT
1 TTTTATATTT
52028423 TTAAGCTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.14, C:0.14, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTATATTTCCTCTTCTG
Found at i:52032199 original size:72 final size:72
Alignment explanation
Indices: 52032099--52032269 Score: 256
Period size: 72 Copynumber: 2.4 Consensus size: 72
52032089 AACAACAATG
* * *
52032099 CTAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTAGATATTGAATTTATGTTCTATTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
*
52032163 ATTTATG
66 ATTTATA
* * * *
52032170 TTTAATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
52032235 ATTTATA
66 ATTTATA
52032242 CTAAAT-TAGTTTTATCAATAGTTGTTTA
1 CTAAATCTAGTTTTATCAATAGTTGTTTA
52032270 AATATGATTT
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
71 24 0.27
72 64 0.73
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
ATTTATA
Found at i:52034331 original size:13 final size:13
Alignment explanation
Indices: 52034310--52034349 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
52034300 ACACTCAAAT
52034310 TTCTCAAAAGTAA
1 TTCTCAAAAGTAA
* * *
52034323 TTCTGAAAAGCAC
1 TTCTCAAAAGTAA
52034336 TTCTCAAAAGTAA
1 TTCTCAAAAGTAA
52034349 T
1 T
52034350 AAAGAACTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (13 bp):
TTCTCAAAAGTAA
Found at i:52036165 original size:28 final size:28
Alignment explanation
Indices: 52036133--52036236 Score: 172
Period size: 28 Copynumber: 3.7 Consensus size: 28
52036123 AGTACAACGA
** *
52036133 GGGCCTTAGCCCAATTTAGTAGCAGTGT
1 GGGCCTTAGCCCAATACAGTATCAGTGT
*
52036161 GGGCCTTAGCCCAATACAGTATCAATGT
1 GGGCCTTAGCCCAATACAGTATCAGTGT
52036189 GGGCCTTAGCCCAATACAGTATCAGTGT
1 GGGCCTTAGCCCAATACAGTATCAGTGT
52036217 GGGCCTTAGCCCAATACAGT
1 GGGCCTTAGCCCAATACAGT
52036237 GACATTATAG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAGTATCAGTGT
Found at i:52036696 original size:55 final size:55
Alignment explanation
Indices: 52036610--52036837 Score: 286
Period size: 54 Copynumber: 4.2 Consensus size: 55
52036600 GGTATAAAAA
* *
52036610 TCATTTTA-CCTTATGGGGGTATTTC-AGTCATTTTACCCTTTGGGGGTATTTCGG
1 TCATTTTACCCTTATGGGGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTTGG
* * *
52036664 TCATTTTACCCTTTTGGGGGTATTTCGATCATTTTACCCTATGGGGGAATTTTGA
1 TCATTTTACCCTTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGG
* * * *
52036719 TCATTTTACCC-TATGGGGGAATTTTGATCATTTTACCATAT-GGGGTATTTTTG
1 TCATTTTACCCTTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGG
* * * *
52036772 TCATTTTA-GCTTATGAGGGTATTTCAATCATTTTACACTATGGGGGTATTTTGG
1 TCATTTTACCCTTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGG
*
52036826 TCATCTTACCCT
1 TCATTTTACCCT
52036838 ATACAGGTAT
Statistics
Matches: 147, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
52 1 0.01
53 41 0.28
54 52 0.35
55 52 0.35
56 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (55 bp):
TCATTTTACCCTTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGG
Found at i:52036738 original size:27 final size:27
Alignment explanation
Indices: 52036609--52036839 Score: 252
Period size: 27 Copynumber: 8.6 Consensus size: 27
52036599 GGGTATAAAA
* *
52036609 ATCATTTTACCTTATGGGGGTA-TTTC
1 ATCATTTTACCCTATGGGGGTATTTTG
* *
52036635 AGTCATTTTACCCTTTGGGGGTATTTCG
1 A-TCATTTTACCCTATGGGGGTATTTTG
* * *
52036663 GTCATTTTACCCTTTTGGGGGTATTTCG
1 ATCATTTTACCC-TATGGGGGTATTTTG
*
52036691 ATCATTTTACCCTATGGGGGAATTTTG
1 ATCATTTTACCCTATGGGGGTATTTTG
*
52036718 ATCATTTTACCCTATGGGGGAATTTTG
1 ATCATTTTACCCTATGGGGGTATTTTG
*
52036745 ATCATTTTACCATAT-GGGGTATTTTTG
1 ATCATTTTACCCTATGGGGGTA-TTTTG
* * * **
52036772 -TCATTTTAGCTTATGAGGGTATTTCA
1 ATCATTTTACCCTATGGGGGTATTTTG
*
52036798 ATCATTTTACACTATGGGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTTG
* *
52036825 GTCATCTTACCCTAT
1 ATCATTTTACCCTAT
52036840 ACAGGTATTT
Statistics
Matches: 174, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
26 21 0.12
27 125 0.72
28 28 0.16
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
ATCATTTTACCCTATGGGGGTATTTTG
Found at i:52041127 original size:43 final size:43
Alignment explanation
Indices: 52041065--52041213 Score: 192
Period size: 43 Copynumber: 3.5 Consensus size: 43
52041055 AAAAAACACT
* * *
52041065 GCTAAAGATCATGTTCTTTAGCGGTGCTTTACACACAAACGCC
1 GCTAAAGAACATGATCTTTAGCGGCGCTTTACACACAAACGCC
* * *
52041108 GCTAAAGAATATGACCTTTAGCGGCGCTTTACCCACAAACGCC
1 GCTAAAGAACATGATCTTTAGCGGCGCTTTACACACAAACGCC
* * * *
52041151 GCTAAGGAACATGATCTTTAGTGACGCTTTTA-TCACAAACGCC
1 GCTAAAGAACATGATCTTTAGCGGCGC-TTTACACACAAACGCC
52041194 GCTAAAGAACATGATCTTTA
1 GCTAAAGAACATGATCTTTA
52041214 AAATCCAATT
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 88 0.96
44 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
GCTAAAGAACATGATCTTTAGCGGCGCTTTACACACAAACGCC
Found at i:52043365 original size:31 final size:31
Alignment explanation
Indices: 52043322--52043401 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
52043312 CATGGTTGAT
* * *
52043322 TTAGCAGTAAAAATCAATAGAATGTACCATC
1 TTAGCAGCAAAAACCAATAGAAGGTACCATC
*
52043353 TTAGCAGCAAAAACCAATAGAAGGTGCCATC
1 TTAGCAGCAAAAACCAATAGAAGGTACCATC
*
52043384 TTAGCTGCAAAAACCAAT
1 TTAGCAGCAAAAACCAAT
52043402 TAAAATCCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (31 bp):
TTAGCAGCAAAAACCAATAGAAGGTACCATC
Found at i:52044584 original size:17 final size:18
Alignment explanation
Indices: 52044562--52044595 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52044552 TTATTCAAAT
52044562 AATTTAT-TTCAATTTTA
1 AATTTATGTTCAATTTTA
*
52044579 AATTTATGTTCTATTTT
1 AATTTATGTTCAATTTT
52044596 TAAGTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (18 bp):
AATTTATGTTCAATTTTA
Done.