Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 78 of 161
Found at i:24501561 original size:81 final size:81
Alignment explanation
Indices: 24501376--24501579 Score: 200
Period size: 81 Copynumber: 2.5 Consensus size: 81
24501366 TTGGTTTACT
* * * * *
24501376 AAATTACTAAAATACCCTTGGTTTATAAAATTACTAAAATACTCTTAGTTTACAAAATTACTAAA
1 AAATTACTGAAATACCCTTAGTTTACAAAATTACTAAAATACTCTCAGTTTACAAAATTACCAAA
* *
24501441 ATACCCTCGACCTGTA
66 ATACCCTCGAACTGCA
* * * *
24501457 AAATTACTGAAGTATCCTCAGTTTACAAAATTACTGAAATA-TCCTCAGTTTGA-AAAATTACC-
1 AAATTACTGAAATACCCTTAGTTTACAAAATTACTAAAATACT-CTCAGTTT-ACAAAATTACCA
*
24501519 AAATAACCC-CTGAATTGCA
64 AAAT-ACCCTC-GAACTGCA
** * *
24501538 AAATTACTGAAATACCCTTAGTTTGGAGAATTACCAAAATAC
1 AAATTACTGAAATACCCTTAGTTTACAAAATTACTAAAATAC
24501580 CCTTATAGGG
Statistics
Matches: 98, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
80 6 0.06
81 91 0.93
82 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACTGAAATACCCTTAGTTTACAAAATTACTAAAATACTCTCAGTTTACAAAATTACCAAA
ATACCCTCGAACTGCA
Found at i:24502086 original size:27 final size:27
Alignment explanation
Indices: 24502048--24502103 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
24502038 TACTGATATG
*
24502048 GTATTGGGCT-AAGACCCACCTTGTTCT
1 GTATTGGGCTAAAG-CCCACATTGTTCT
24502075 GTATTGGGCTAAAGCCCACATTGTTCT
1 GTATTGGGCTAAAGCCCACATTGTTCT
24502102 GT
1 GT
24502104 TCTGCTACTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
GTATTGGGCTAAAGCCCACATTGTTCT
Found at i:24506397 original size:27 final size:27
Alignment explanation
Indices: 24506318--24506399 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
24506308 TTAGAATACT
* *
24506318 TTGGTTTACAAAATTACTGAAATACTC
1 TTGGTTTACAAAATTACTAAAATACCC
* * *
24506345 TTAGTTTACAAAGTTAATAAAATACCC
1 TTGGTTTACAAAATTACTAAAATACCC
*
24506372 TTGGTTTACAAAATTACTTAAATACCC
1 TTGGTTTACAAAATTACTAAAATACCC
24506399 T
1 T
24506400 CGACTTGTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (27 bp):
TTGGTTTACAAAATTACTAAAATACCC
Found at i:24506465 original size:26 final size:26
Alignment explanation
Indices: 24506381--24506532 Score: 128
Period size: 27 Copynumber: 5.7 Consensus size: 26
24506371 CTTGGTTTAC
** * *
24506381 AAAATTACTTAAATACCCTCGACTTG
1 AAAATTACCAAAATACCCTCAATTTG
* * * * *
24506407 TAAAATTATCGAAGTACCCCCGATTTG
1 -AAAATTACCAAAATACCCTCAATTTG
*
24506434 TAAAATTA-CAAAATACCCTCAGTTTG
1 -AAAATTACCAAAATACCCTCAATTTG
* *
24506460 AGAAATTACCAAAGTACCC-CTAAATTG
1 A-AAATTACCAAAATACCCTC-AATTTG
24506487 TAAAATTACCAAAATACCCTCAATTTG
1 -AAAATTACCAAAATACCCTCAATTTG
*
24506514 AAAATTACCGAAATACCCT
1 AAAATTACCAAAATACCCT
24506533 TATAGGGTAA
Statistics
Matches: 103, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.01
26 38 0.37
27 62 0.60
28 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTCAATTTG
Found at i:24506466 original size:53 final size:53
Alignment explanation
Indices: 24506381--24506531 Score: 178
Period size: 53 Copynumber: 2.8 Consensus size: 53
24506371 CTTGGTTTAC
** * * * * *
24506381 AAAATTACTTAAATACCCTCGACTTGTAAAATTATCGAAGTACCCCCGATTTGT
1 AAAATTACCAAAATACCCTCAATTTG-AAAATTACCGAAGTACCCCCAAATTGT
* * *
24506435 AAAATTA-CAAAATACCCTCAGTTTGAGAAATTACCAAAGTACCCCTAAATTGT
1 AAAATTACCAAAATACCCTCAATTTGA-AAATTACCGAAGTACCCCCAAATTGT
*
24506488 AAAATTACCAAAATACCCTCAATTTGAAAATTACCGAAATACCC
1 AAAATTACCAAAATACCCTCAATTTGAAAATTACCGAAGTACCC
24506532 TTATAGGGTA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
52 1 0.01
53 56 0.68
54 25 0.30
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.27
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTCAATTTGAAAATTACCGAAGTACCCCCAAATTGT
Found at i:24506543 original size:53 final size:53
Alignment explanation
Indices: 24506433--24506545 Score: 149
Period size: 53 Copynumber: 2.1 Consensus size: 53
24506423 CCCCCGATTT
* **
24506433 GTAAAATTACAAAATACCCTCAGTTTGAGAAATTACCAAAGTACCCCTAAATT
1 GTAAAATTACAAAATACCCTCAATTTGAGAAATTACCAAAGTACCCCTAAAGG
* *
24506486 GTAAAATTACCAAAATACCCTCAATTTGA-AAATTACCGAAA-TACCCTTATAGG
1 GTAAAATTA-CAAAATACCCTCAATTTGAGAAATTACC-AAAGTACCCCTAAAGG
24506539 GTAAAAT
1 GTAAAAT
24506546 GACTGTTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
53 32 0.60
54 21 0.40
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (53 bp):
GTAAAATTACAAAATACCCTCAATTTGAGAAATTACCAAAGTACCCCTAAAGG
Found at i:24508506 original size:27 final size:27
Alignment explanation
Indices: 24508468--24508523 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
24508458 TACTGATATG
* *
24508468 GTATTGGGCTAAGGCCCACCTTGTTCT
1 GTATTGGGCTAAAGCCCACATTGTTCT
24508495 GTATTGGGCTAAAGCCCACATTGTTCT
1 GTATTGGGCTAAAGCCCACATTGTTCT
24508522 GT
1 GT
24508524 TTTGTTACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (27 bp):
GTATTGGGCTAAAGCCCACATTGTTCT
Found at i:24510845 original size:112 final size:108
Alignment explanation
Indices: 24510650--24510870 Score: 316
Period size: 112 Copynumber: 2.0 Consensus size: 108
24510640 AAGATAAAGG
* * * *
24510650 AAGCTACATAGAAAAGCCACTACCAAGAAACGAAAAAAAAGGAAGCAATGTGGAAACAATAACAA
1 AAGCTACATAGAAAAACCACTACCAAGAAACGAAAAAAAAAGAAGCAACGTGGAAACAACAACAA
* *
24510715 GACAAAGATGTCATCCTTATCTAAAAGAAAATATGTTATCCTT
66 GACAAAGATGTCATCCTTATCCAAAAGAAAATATGTCATCCTT
* * * *
24510758 AAGCTACATGGAAAAAATCACTACCAAGAAATGAAAAAAAAAGAAGCAACGTGGAAGAAACCACA
1 AAGCTACATAG-AAAAACCACTACCAAGAAACGAAAAAAAAAGAAGCAACGT-G--GAAACAACA
24510823 ACAAGACAAAGATGTCATCCTTATCCAAAAGAAAATATGTCATCCTT
62 ACAAGACAAAGATGTCATCCTTATCCAAAAGAAAATATGTCATCCTT
24510870 A
1 A
24510871 TCAAAAAACT
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
108 10 0.10
109 35 0.35
110 1 0.01
112 53 0.54
ACGTcount: A:0.51, C:0.18, G:0.14, T:0.17
Consensus pattern (108 bp):
AAGCTACATAGAAAAACCACTACCAAGAAACGAAAAAAAAAGAAGCAACGTGGAAACAACAACAA
GACAAAGATGTCATCCTTATCCAAAAGAAAATATGTCATCCTT
Found at i:24510862 original size:25 final size:26
Alignment explanation
Indices: 24510825--24510877 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
24510815 AAACCACAAC
*
24510825 AAGACAAAGATGTCATCCTTATCCAA
1 AAGACAAAGATGTCATCCTTATCAAA
*
24510851 AAGA-AAATATGTCATCCTTATCAAA
1 AAGACAAAGATGTCATCCTTATCAAA
24510876 AA
1 AA
24510878 ACTATGCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.25
Consensus pattern (26 bp):
AAGACAAAGATGTCATCCTTATCAAA
Found at i:24510986 original size:11 final size:12
Alignment explanation
Indices: 24510955--24510989 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
24510945 TCCAAAGAAG
24510955 GCATTCAAGTTT
1 GCATTCAAGTTT
24510967 GTCATTCAAGTTT
1 G-CATTCAAGTTT
24510980 G-ATTCAAGTT
1 GCATTCAAGTT
24510990 ACTATTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.41
12 1 0.05
13 12 0.55
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (12 bp):
GCATTCAAGTTT
Found at i:24513084 original size:49 final size:50
Alignment explanation
Indices: 24513011--24513140 Score: 174
Period size: 49 Copynumber: 2.6 Consensus size: 50
24513001 TATTAAGGTT
* *
24513011 ATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAG
1 ATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGAGCACCGAG
* * * *
24513061 ATGAGAGGTCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGAGCACCGAG
*
24513110 ATGAGA-ACTCCCATGTAAGACCATATCTGGG
1 ATGAGAGA-TCCCATGTAAGACCATGTCTGGG
24513141 GTATGGTATT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
49 42 0.61
50 27 0.39
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (50 bp):
ATGAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGAGCACCGAG
Found at i:24513431 original size:20 final size:20
Alignment explanation
Indices: 24513406--24513444 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
24513396 TGAGTTATTT
24513406 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
24513426 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
24513445 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:24516129 original size:21 final size:22
Alignment explanation
Indices: 24516084--24516142 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
24516074 TAATCAAATT
24516084 TTAATTAATCATTTTTATTAAA
1 TTAATTAATCATTTTTATTAAA
*
24516106 TTAATTAA-CATTTTTTATT-CA
1 TTAATTAATCA-TTTTTATTAAA
24516127 TTAATCTTAATCATTT
1 TTAA--TTAATCATTT
24516143 AATGGCTACC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 7 0.22
22 16 0.50
23 7 0.22
24 2 0.06
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTAATCATTTTTATTAAA
Found at i:24529825 original size:17 final size:17
Alignment explanation
Indices: 24529803--24529849 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
24529793 TTTAGGTAGT
*
24529803 AGAAGAAGAAGAGAAGA
1 AGAAGAAGAAGAGAAAA
** *
24529820 AGAAGACTAAGATAAAA
1 AGAAGAAGAAGAGAAAA
24529837 AGAAGAAGAAGAG
1 AGAAGAAGAAGAG
24529850 GAGGAGAGTA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.64, C:0.02, G:0.30, T:0.04
Consensus pattern (17 bp):
AGAAGAAGAAGAGAAAA
Found at i:24552307 original size:44 final size:43
Alignment explanation
Indices: 24552218--24552345 Score: 181
Period size: 44 Copynumber: 3.0 Consensus size: 43
24552208 AAGGTAAAAC
* * *
24552218 CAACAACCCATGTTTACTTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTACCTTCTCCTCTTTTTAAATTCTTTTTT
* *
24552261 CAACAACCCGAGATTATCTTCTCCTCTTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTACCTTCTCCTC-TTTTTAAATTCTTTTTT
24552305 CAACAACCCAAGATTACCTTCT-C-CTTTTTAAATT-TTTTTT
1 CAACAACCCAAGATTACCTTCTCCTCTTTTTAAATTCTTTTTT
24552345 C
1 C
24552346 TAAGATAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
40 7 0.09
41 10 0.13
42 1 0.01
43 22 0.29
44 37 0.48
ACGTcount: A:0.23, C:0.26, G:0.03, T:0.48
Consensus pattern (43 bp):
CAACAACCCAAGATTACCTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:24554128 original size:34 final size:35
Alignment explanation
Indices: 24554070--24554137 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
24554060 CAAACACCAG
* *
24554070 AAAATATTTTCCAGTAAGTCATTTTACAGAAAATT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAATT
* *
24554105 AAAACATTTTCCCG-AAATCATTTTACGGAAAAT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAT
24554138 ATTTTACTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAATT
Found at i:24554729 original size:17 final size:18
Alignment explanation
Indices: 24554700--24555118 Score: 232
Period size: 18 Copynumber: 22.9 Consensus size: 18
24554690 ACACAATAAT
24554700 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
*
24554718 GATTTTTG-AAACACGAA
1 AATTTTTGAAAACACGAA
24554735 AATTTTTTGAAAACACGGAA
1 AA-TTTTTGAAAACAC-GAA
** * *
24554755 TTTTTTTGAAAACAAGGA
1 AATTTTTGAAAACACGAA
* * *
24554773 AATTTTCG-ATACATGAGA
1 AATTTTTGAAAACACGA-A
* *
24554791 ATTTTTTG---ACACAAA
1 AATTTTTGAAAACACGAA
*
24554806 AAATTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
* *
24554824 AA-TTTCGAAAACATGAA
1 AATTTTTGAAAACACGAA
** * *
24554841 TTTTTTTTAAAACATGAA
1 AATTTTTGAAAACACGAA
** *
24554859 TTTTTTTAAAAAAACACGAGA
1 AATTTTT--GAAAACACGA-A
*
24554880 ATTTTTTGAAAACACGAAA
1 AATTTTTGAAAACACG-AA
24554899 ACATGAAAATTTTGAAAACACGAA
1 A-AT-----TTTTGAAAACACGAA
*
24554923 AATTTTTG-AAAGACGAGA
1 AATTTTTGAAAACACGA-A
* *
24554941 ATTTTTTGAAAACACGGA
1 AATTTTTGAAAACACGAA
* *
24554959 GATTTAT-AAAACACGAA
1 AATTTTTGAAAACACGAA
* *
24554976 AGTTTTTTTTTGAAAACAAGAA
1 A----ATTTTTGAAAACACGAA
* * *
24554998 AA-TTTTCAAAATACGAG
1 AATTTTTGAAAACACGAA
**
24555015 AATTTTTGAAAACATAAA
1 AATTTTTGAAAACACGAA
*
24555033 AATTTTTGAAAACATGAA
1 AATTTTTGAAAACACGAA
* *
24555051 AATTTTTG-AAACACTAG
1 AATTTTTGAAAACACGAA
24555068 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
* * * *
24555085 GATTTTT-TAAACATGAG
1 AATTTTTGAAAACACGAA
24555102 AATTTTTGAAAACACGA
1 AATTTTTGAAAACACGA
24555119 GGATTTTTTG
Statistics
Matches: 307, Mismatches: 65, Indels: 58
0.71 0.15 0.13
Matches are distributed among these distances:
15 7 0.02
16 9 0.03
17 86 0.28
18 119 0.39
19 34 0.11
20 13 0.04
21 11 0.04
22 10 0.03
23 2 0.01
24 3 0.01
25 13 0.04
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.32
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:24554742 original size:19 final size:18
Alignment explanation
Indices: 24554684--24555131 Score: 124
Period size: 17 Copynumber: 24.4 Consensus size: 18
24554674 ACACGAGAAC
24554684 TTTGAAACAC-AATAATAATT
1 TTTGAAACACGAA-AAT--TT
*
24554704 TTTGAAAACACGAAGA-TT
1 TTTG-AAACACGAAAATTT
24554722 TTTGAAACACGAAAATTT
1 TTTGAAACACGAAAATTT
* *
24554740 TTTGAAAACACGGAATTTT
1 TTTG-AAACACGAAAATTT
* *
24554759 TTTGAAAACAAGGAAA-TT
1 TTTG-AAACACGAAAATTT
* * * *
24554777 TTCGATACATGAGAATTT
1 TTTGAAACACGAAAATTT
**
24554795 TTTG--ACAC-AAAAAAT
1 TTTGAAACACGAAAATTT
24554810 TTTGAAAACACGAAAA--T
1 TTTG-AAACACGAAAATTT
* * **
24554827 TTCGAAAACATGAATTTTT
1 TTTG-AAACACGAAAATTT
* * *
24554846 TTTAAAACATG-AATTTT
1 TTTGAAACACGAAAATTT
* *
24554863 TTTAAAAAAACACGAGAATTT
1 TTT---GAAACACGAAAATTT
*
24554884 TTTGAAAACACGAAAACATGAAAAT
1 TTTG-AAACACG-AAA-AT----TT
24554909 TTTGAAAACACGAAAA-TT
1 TTTG-AAACACGAAAATTT
* *
24554927 TTTGAAAGACGAGAATTT
1 TTTGAAACACGAAAATTT
* *
24554945 TTTGAAAACACGGAGA-TT
1 TTTG-AAACACGAAAATTT
* * *
24554963 TATAAAACACGAAAGTTTTTT
1 TTTGAAACACGAAA---ATTT
*
24554984 TTTGAAAACAAGAAAA-TT
1 TTTG-AAACACGAAAATTT
** * *
24555002 TTCAAAATACGAGAA-TT
1 TTTGAAACACGAAAATTT
* *
24555019 TTTGAAA-ACATAAAAATT
1 TTTGAAACAC-GAAAATTT
*
24555037 TTTGAAAACATGAAAA-TT
1 TTTG-AAACACGAAAATTT
* *
24555055 TTTGAAACACTAGAA--T
1 TTTGAAACACGAAAATTT
*
24555071 TTTGAAAACACGAAGATTT
1 TTTG-AAACACGAAAATTT
* *
24555090 TTT-AAACATGAGAA-TT
1 TTTGAAACACGAAAATTT
**
24555106 TTTGAAAACACGAGGATTT
1 TTTG-AAACACGAAAATTT
24555125 TTTGAAA
1 TTTGAAA
24555132 TACAAACATT
Statistics
Matches: 322, Mismatches: 67, Indels: 80
0.69 0.14 0.17
Matches are distributed among these distances:
15 8 0.02
16 15 0.05
17 97 0.30
18 76 0.24
19 64 0.20
20 14 0.04
21 20 0.06
22 11 0.03
23 1 0.00
24 3 0.01
25 13 0.04
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTGAAACACGAAAATTT
Found at i:24555045 original size:75 final size:75
Alignment explanation
Indices: 24554908--24555057 Score: 185
Period size: 75 Copynumber: 2.0 Consensus size: 75
24554898 AACATGAAAA
* ** ** *
24554908 TTTTGAAAACACGAAAATTTTTGAAAGACGAGAATTTTTTGAAAACACGGAGATTTATAAAACAC
1 TTTTGAAAACAAGAAAATTTTCAAAAGACGAGAATTTTTTGAAAACACAAAAATTTATAAAACAC
*
24554973 GAAAGTTTTT
66 GAAAATTTTT
* * *
24554983 TTTTGAAAACAAGAAAATTTTCAAAATACGAGAA-TTTTTGAAAACATAAAAATTTTTGAAAACA
1 TTTTGAAAACAAGAAAATTTTCAAAAGACGAGAATTTTTTGAAAACACAAAAATTTAT-AAAACA
*
24555047 TGAAAATTTTT
65 CGAAAATTTTT
24555058 GAAACACTAG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
74 18 0.29
75 45 0.71
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (75 bp):
TTTTGAAAACAAGAAAATTTTCAAAAGACGAGAATTTTTTGAAAACACAAAAATTTATAAAACAC
GAAAATTTTT
Found at i:24555063 original size:92 final size:92
Alignment explanation
Indices: 24554895--24555064 Score: 216
Period size: 92 Copynumber: 1.8 Consensus size: 92
24554885 TTGAAAACAC
* * * * * *
24554895 GAAAACATGAAAATTTTGAAAACACGAAAATTTTTGAAAGACGAGAATTTTTTGAAAACACGGAG
1 GAAAACAAGAAAATTTTCAAAACACGAAAATTTTTGAAAGACGAAAAATTTTTGAAAACACGAAA
24554960 ATTTATAAAACACGAAAGTTTTTTTTT
66 ATTTATAAAACACGAAAGTTTTTTTTT
* * * *
24554987 GAAAACAAGAAAATTTTCAAAATACGAGAATTTTTGAAA-ACATAAAAATTTTTGAAAACATGAA
1 GAAAACAAGAAAATTTTCAAAACACGAAAATTTTTGAAAGAC-GAAAAATTTTTGAAAACACGAA
* *
24555051 AATTTTTGAAACAC
65 AATTTATAAAACAC
24555065 TAGAATTTTG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
91 2 0.03
92 63 0.97
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (92 bp):
GAAAACAAGAAAATTTTCAAAACACGAAAATTTTTGAAAGACGAAAAATTTTTGAAAACACGAAA
ATTTATAAAACACGAAAGTTTTTTTTT
Found at i:24555507 original size:13 final size:13
Alignment explanation
Indices: 24555485--24555525 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
24555475 GGGCTGCTTC
*
24555485 TTTCTTCTTCTTT
1 TTTCTGCTTCTTT
24555498 TTTCTGCTTCTTT
1 TTTCTGCTTCTTT
*
24555511 TTT-TGCTGCTTT
1 TTTCTGCTTCTTT
24555523 TTT
1 TTT
24555526 TTTTGCTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (13 bp):
TTTCTGCTTCTTT
Found at i:24555519 original size:15 final size:15
Alignment explanation
Indices: 24555488--24555532 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
24555478 CTGCTTCTTT
*
24555488 CTTCTTCTTTTTTCTG
1 CTTCTT-TTTTTGCTG
24555504 CTTCTTTTTTTGCTG
1 CTTCTTTTTTTGCTG
*
24555519 CTTTTTTTTTTGCT
1 CTTCTTTTTTTGCT
24555533 TTGTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 21 0.78
16 6 0.22
ACGTcount: A:0.00, C:0.20, G:0.09, T:0.71
Consensus pattern (15 bp):
CTTCTTTTTTTGCTG
Found at i:24555532 original size:12 final size:12
Alignment explanation
Indices: 24555495--24555542 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
24555485 TTTCTTCTTC
*
24555495 TTTTTTCTGCTT
1 TTTTTTTTGCTT
24555507 CTTTTTTTGCTGCTT
1 -TTTTTTT--TGCTT
24555522 TTTTTTTTGCTT
1 TTTTTTTTGCTT
24555534 TGTTTTTTT
1 T-TTTTTTT
24555543 TGGGCTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 6 0.19
13 13 0.42
14 7 0.23
15 5 0.16
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.77
Consensus pattern (12 bp):
TTTTTTTTGCTT
Found at i:24555539 original size:15 final size:15
Alignment explanation
Indices: 24555495--24555544 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
24555485 TTTCTTCTTC
*
24555495 TTTTTT-CTGCTTCT
1 TTTTTTGCTGCTTTT
24555509 TTTTTTGCTGCTTTT
1 TTTTTTGCTGCTTTT
24555524 TTTTTTGCT--TTGTT
1 TTTTTTGCTGCTT-TT
24555538 TTTTTTG
1 TTTTTTG
24555545 GGCTAAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
13 2 0.06
14 15 0.45
15 16 0.48
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (15 bp):
TTTTTTGCTGCTTTT
Found at i:24555586 original size:15 final size:15
Alignment explanation
Indices: 24555566--24555598 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
24555556 CCCCTTTTCC
24555566 TTTTTT-CTTTTTCTT
1 TTTTTTCCTTTTT-TT
24555581 TTTTTTCCTTTTTTT
1 TTTTTTCCTTTTTTT
24555596 TTT
1 TTT
24555599 GCTGGGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTCCTTTTTTT
Found at i:24555900 original size:30 final size:30
Alignment explanation
Indices: 24555846--24555961 Score: 144
Period size: 30 Copynumber: 3.9 Consensus size: 30
24555836 GTAATTTTTA
* *
24555846 GAAAATTTA-GGGTTAAAATGAAATTTAAT
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAT
* * *
24555875 GAAAGTTTAGGGGTCTAAGTGAAATTTAAA
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAT
* *
24555905 GAAAGTTTAAGGGTCAAAATGAAATTTAGT
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAT
* *
24555935 AAAAGTTTAGGGGTCAAAATGCAATTT
1 GAAAGTTTAGGGGTCAAAATGAAATTT
24555962 TTATTTTTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
29 8 0.11
30 65 0.89
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
GAAAGTTTAGGGGTCAAAATGAAATTTAAT
Found at i:24555961 original size:60 final size:59
Alignment explanation
Indices: 24555845--24555961 Score: 162
Period size: 60 Copynumber: 2.0 Consensus size: 59
24555835 TGTAATTTTT
* * * *
24555845 AGAAAATTTAGGGTTAAAATGAAATTTAATGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGTCAAAATGAAATTTAATAAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
24555904 AGAAAGTTTAAGGGTCAAAATGAAATTTAGTAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTT-AGGGTCAAAATGAAATTTAATAAAAGTTTAGGGGTCAAAATGAAATTT
24555962 TTATTTTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 8 0.16
60 42 0.84
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (59 bp):
AGAAAATTTAGGGTCAAAATGAAATTTAATAAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:24555994 original size:17 final size:15
Alignment explanation
Indices: 24555957--24555985 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24555947 GTCAAAATGC
24555957 AATTTTTATTTTTTA
1 AATTTTTATTTTTTA
24555972 AATTTTTATTTTTT
1 AATTTTTATTTTTT
24555986 TGAAATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
AATTTTTATTTTTTA
Found at i:24560293 original size:3 final size:3
Alignment explanation
Indices: 24560285--24560312 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
24560275 AAAAGGTTAT
24560285 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24560313 GGGGATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:24561049 original size:24 final size:25
Alignment explanation
Indices: 24561001--24561049 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
24560991 ATATATTAAT
24561001 TTTAAAATAAATGTAATCATTTTTA
1 TTTAAAATAAATGTAATCATTTTTA
24561026 TTTAAAATAAAT-TAAT-ATTATTTA
1 TTTAAAATAAATGTAATCATT-TTTA
24561050 GAAAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.13
24 8 0.35
25 12 0.52
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTAAAATAAATGTAATCATTTTTA
Found at i:24566686 original size:51 final size:51
Alignment explanation
Indices: 24566617--24566766 Score: 273
Period size: 51 Copynumber: 2.9 Consensus size: 51
24566607 CATCTACAAC
24566617 TCTCTCACTACCCTTCTTATTAAGTAATTCTACGAAATACCTATACTCTTA
1 TCTCTCACTACCCTTCTTATTAAGTAATTCTACGAAATACCTATACTCTTA
* *
24566668 TCTCTCACTACTCTTCTTATTAAGTAATTCTACGATATACCTATACTCTTA
1 TCTCTCACTACCCTTCTTATTAAGTAATTCTACGAAATACCTATACTCTTA
*
24566719 TCTCTCACTACCCTTCTTATTAAGTAATTCTATGAAATACCTATACTC
1 TCTCTCACTACCCTTCTTATTAAGTAATTCTACGAAATACCTATACTC
24566767 GTACTTTTTT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 94 1.00
ACGTcount: A:0.29, C:0.27, G:0.04, T:0.41
Consensus pattern (51 bp):
TCTCTCACTACCCTTCTTATTAAGTAATTCTACGAAATACCTATACTCTTA
Found at i:24571039 original size:56 final size:56
Alignment explanation
Indices: 24570953--24571072 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
24570943 ACAAGGGATG
24570953 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
24571009 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
24571065 ATGGGCAA
1 ATGGGCAA
24571073 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:24572336 original size:79 final size:81
Alignment explanation
Indices: 24572200--24572382 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
24572190 TCGAATGATG
* *
24572200 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
24572264 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
24572279 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
24572341 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
24572359 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
24572383 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:24572398 original size:40 final size:40
Alignment explanation
Indices: 24572201--24572384 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
24572191 CGAATGATGT
* * * *
24572201 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
24572241 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
24572281 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
24572319 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
24572360 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
24572385 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:24572406 original size:79 final size:79
Alignment explanation
Indices: 24572253--24572417 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
24572243 GGACTAAGAT
* **
24572253 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
24572318 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
24572332 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
24572395 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
24572411 CCGAAGG
1 CCGAAGG
24572418 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:24575729 original size:23 final size:19
Alignment explanation
Indices: 24575703--24575748 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
24575693 TTTATACTTA
*
24575703 TAATTAAATTAAT-TAATCT
1 TAATT-AATTAATAAAATCT
24575722 TAATTAATTAATAAAATCT
1 TAATTAATTAATAAAATCT
24575741 TAATTAAT
1 TAATTAAT
24575749 CAATCTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATTAATTAATAAAATCT
Found at i:24581097 original size:50 final size:49
Alignment explanation
Indices: 24581026--24581161 Score: 152
Period size: 49 Copynumber: 2.8 Consensus size: 49
24581016 TTATGAGAGG
* * *
24581026 TCCCACGTAAGACCATGTCTAGGATATGGCGTTGGCACCG-ATATGAGAAC-
1 TCCCATGTAAGACCATATCTAGGATATGGCATTGGCA--GTATATGA-AACA
*
24581076 TCCCATGTAATG-CCATATCTAGGATATGACATTGGCAGTATATGAAACA
1 TCCCATGTAA-GACCATATCTAGGATATGGCATTGGCAGTATATGAAACA
* * *
24581125 TCCCATGTAAGACAATATCTAGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATATCTAGGATATGGCATTGGCA
24581162 TGTTATTATC
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
48 5 0.07
49 37 0.50
50 31 0.42
51 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (49 bp):
TCCCATGTAAGACCATATCTAGGATATGGCATTGGCAGTATATGAAACA
Found at i:24581160 original size:49 final size:49
Alignment explanation
Indices: 24581017--24581161 Score: 152
Period size: 50 Copynumber: 2.9 Consensus size: 49
24581007 TGATTGAGGT
** * * *
24581017 TATGAGAGGTCCCACGTAAGACCATGTCTAGGATATGGCGTTGGCACCGA
1 TATGAGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCA-CGA
*
24581067 TATGAGAACTCCCATGTAATG-CCATATCTAGGATATGACATTGGCA-GTA
1 TATGAGAACTCCCATGTAA-GACCATATCTAGGATATGGCATTGGCACG-A
* * *
24581116 TATGA-AACATCCCATGTAAGACAATATCTAGGACATGGCTTTGGCA
1 TATGAGAAC-TCCCATGTAAGACCATATCTAGGATATGGCATTGGCA
24581162 TGTTATTATC
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
48 5 0.06
49 37 0.46
50 38 0.47
51 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (49 bp):
TATGAGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCACGA
Found at i:24584510 original size:32 final size:32
Alignment explanation
Indices: 24584473--24584550 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 32
24584463 CCAACTGTTT
* *
24584473 TGTTCACACCCAAGGGACTGTCCAACT-CCTGA
1 TGTTCACACCCAAGGGACCGTCCAACTACAT-A
*
24584505 TGTTCACACCCAAGGGACCGTCCAAGTACATA
1 TGTTCACACCCAAGGGACCGTCCAACTACATA
24584537 TGTTCACA-CCAAGG
1 TGTTCACACCCAAGG
24584551 ACTTTTTAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 6 0.14
32 34 0.81
33 2 0.05
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (32 bp):
TGTTCACACCCAAGGGACCGTCCAACTACATA
Found at i:24587624 original size:23 final size:23
Alignment explanation
Indices: 24587589--24587637 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
24587579 TAGATTCAAA
*
24587589 ACTATAGACTGTGAAAACTATAG
1 ACTATAAACTGTGAAAACTATAG
*
24587612 ACTATAAATTGTGAAAACTATAG
1 ACTATAAACTGTGAAAACTATAG
24587635 ACT
1 ACT
24587638 TTGAAAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (23 bp):
ACTATAAACTGTGAAAACTATAG
Found at i:24587652 original size:16 final size:16
Alignment explanation
Indices: 24587623--24587658 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24587613 CTATAAATTG
*
24587623 TGAAAACTATAGACTT
1 TGAAAACTATAGACTA
*
24587639 TGAAAACTCTAGACTA
1 TGAAAACTATAGACTA
24587655 TGAA
1 TGAA
24587659 GACGATAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (16 bp):
TGAAAACTATAGACTA
Found at i:24592627 original size:28 final size:27
Alignment explanation
Indices: 24592595--24592649 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
24592585 AAAAAAATTT
*
24592595 AAAATTCAA-TATGTTAATAATTTAAGTG
1 AAAATT-AATTAT-TTAATAATTAAAGTG
*
24592623 AAAATTAATTATTTTATAATTAAAGTG
1 AAAATTAATTATTTAATAATTAAAGTG
24592650 TGAATTTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (27 bp):
AAAATTAATTATTTAATAATTAAAGTG
Found at i:24595470 original size:8 final size:8
Alignment explanation
Indices: 24595447--24595494 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
24595437 TTCAATTTGC
24595447 ATTAAAT-
1 ATTAAATA
24595454 ATT-AATA
1 ATTAAATA
24595461 ATTAAATA
1 ATTAAATA
24595469 ATTTGAAA-A
1 A-TT-AAATA
24595478 ATTAAATA
1 ATTAAATA
24595486 ATTAAATA
1 ATTAAATA
24595494 A
1 A
24595495 CATTGAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 3 0.08
7 9 0.25
8 17 0.47
9 4 0.11
10 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (8 bp):
ATTAAATA
Found at i:24596860 original size:28 final size:27
Alignment explanation
Indices: 24596798--24596894 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
24596788 TAAATTGTGC
* *
24596798 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
24596825 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
*
24596853 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
24596880 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24596895 GACTTAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 39 0.60
28 26 0.40
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:24598824 original size:7 final size:7
Alignment explanation
Indices: 24598812--24598839 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
24598802 ATATAAAGTT
24598812 AATAATA
1 AATAATA
24598819 AATAATA
1 AATAATA
24598826 AATAATA
1 AATAATA
24598833 AATAATA
1 AATAATA
24598840 TAAGGTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:24607219 original size:26 final size:26
Alignment explanation
Indices: 24607190--24607270 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
24607180 ACCAGTAATT
* *
24607190 GTAACGGAGAAAAGCTGCCAATAACA
1 GTAACGCAGCAAAGCTGCCAATAACA
* * *
24607216 GTAATGCAGCAGAGCTGCCAATATCA
1 GTAACGCAGCAAAGCTGCCAATAACA
* *
24607242 GTAACGCAGCAAAGCTACCAATAATA
1 GTAACGCAGCAAAGCTGCCAATAACA
24607268 GTA
1 GTA
24607271 TTTGTGGCAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.16
Consensus pattern (26 bp):
GTAACGCAGCAAAGCTGCCAATAACA
Found at i:24607497 original size:27 final size:26
Alignment explanation
Indices: 24607465--24607739 Score: 116
Period size: 27 Copynumber: 10.2 Consensus size: 26
24607455 TATAACAGTT
24607465 ATTTTACCATATAGGGGTATTTCGATA
1 ATTTTACCAT-TAGGGGTATTTCGATA
* * * * *
24607492 ACTTTACC-TATCGATGGTATTTCGGTC
1 ATTTTACCAT-TAG-GGGTATTTCGATA
* *
24607519 ATTTTACCCTTCAGGGGTATTT-TAGTA
1 ATTTTACCATT-AGGGGTATTTCGA-TA
24607546 ATTTTACCCATTA-GGGTATTTCGATA
1 ATTTTA-CCATTAGGGGTATTTCGATA
* * * * *
24607572 ATTTTACCCA-TCGAGGGTCTTTTGGTC
1 ATTTTA-CCATTAG-GGGTATTTCGATA
* * * *
24607599 ATTTTACCCTTCGAGGGTATTT-TAGTC
1 ATTTTACCATTAG-GGGTATTTCGA-TA
* * *
24607626 ATTTTACCCTTCAGGGGTATTTTGGTA
1 ATTTTACCATT-AGGGGTATTTCGATA
* *
24607653 ATTTTACCCA-TCGAGGGTATTTCGGTA
1 ATTTTA-CCATTAG-GGGTATTTCGATA
* * *
24607680 ATTTTACCCATCAAGGGTAGTTTAG-TA
1 ATTTTA-CCATTAGGGGTA-TTTCGATA
*
24607707 ATTTTACCCATTAAGGGTATTTC-AGTA
1 ATTTTA-CCATTAGGGGTATTTCGA-TA
24607734 ATTTTA
1 ATTTTA
24607740 GAGGCCTATT
Statistics
Matches: 195, Mismatches: 35, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
25 1 0.01
26 30 0.15
27 151 0.77
28 13 0.07
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (26 bp):
ATTTTACCATTAGGGGTATTTCGATA
Found at i:24607535 original size:54 final size:54
Alignment explanation
Indices: 24607477--24607739 Score: 273
Period size: 54 Copynumber: 4.9 Consensus size: 54
24607467 TTTACCATAT
* * * * * *
24607477 AGGGGTATTTCGATAACTTTACCTATCGATGGTATTTCGGTCATTTTACCCTTC
1 AGGGGTATTTTGATAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCATC
* *
24607531 AGGGGTATTTT-AGTAATTTTACCCAT-TAGGGTATTTCGATAATTTTACCCATC
1 AGGGGTATTTTGA-TAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCATC
* * * * ** * *
24607584 -GAGGGTCTTTTGGTCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCCTTC
1 AG-GGGTATTTTGATAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCATC
*
24607638 AGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCATC
1 AGGGGTATTTTGATAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCATC
* * ** *
24607692 AAGGGTAGTTT-AGTAATTTTACCCATTAAGGGTATTTCAGTAATTTTA
1 AGGGGTATTTTGA-TAATTTTACCCATCGAGGGTATTTCGGTAATTTTA
24607740 GAGGCCTATT
Statistics
Matches: 172, Mismatches: 31, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
52 1 0.01
53 42 0.24
54 128 0.74
55 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.41
Consensus pattern (54 bp):
AGGGGTATTTTGATAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCATC
Found at i:24607688 original size:81 final size:80
Alignment explanation
Indices: 24607465--24607739 Score: 360
Period size: 81 Copynumber: 3.4 Consensus size: 80
24607455 TATAACAGTT
* * *
24607465 ATTTTA-CCATATAGGGGTATTTCGATAACTTTACCTATCGATGGTATTTCGGTCATTTTACCCT
1 ATTTTACCCAT-TAGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCT
24607529 TCAGGGGTATTTTAGTA
65 TCA-GGGTATTTTAGTA
* *
24607546 ATTTTACCCATTA-GGGTATTTCGATAATTTTACCCATCGAGGGTCTTTTGGTCATTTTACCCTT
1 ATTTTACCCATTAGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCTT
*
24607610 CGAGGGTATTTTAGTC
66 C-AGGGTATTTTAGTA
* * * *
24607626 ATTTTACCC-TTCAGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCA
1 ATTTTACCCATT-AGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCT
*
24607690 TCAAGGGTAGTTTAGTA
65 TC-AGGGTATTTTAGTA
*
24607707 ATTTTACCCATTAAGGGTATTTC-AGTAATTTTA
1 ATTTTACCCATTAGGGGTATTTCGA-TAATTTTA
24607740 GAGGCCTATT
Statistics
Matches: 170, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
79 2 0.01
80 69 0.41
81 93 0.55
82 6 0.04
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (80 bp):
ATTTTACCCATTAGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCTT
CAGGGTATTTTAGTA
Found at i:24609208 original size:81 final size:81
Alignment explanation
Indices: 24609104--24609263 Score: 302
Period size: 81 Copynumber: 2.0 Consensus size: 81
24609094 CTTAATTTTA
24609104 CCAAATTAAGTGACGACTCAAGGATGGAAATTTAAAAGAACATAAAGGGCAAAATGGTCAATTAG
1 CCAAATTAAGTGACGACTCAAGGATGGAAATTTAAAAGAACATAAAGGGCAAAATGGTCAATTAG
*
24609169 AAGATAGAGAAATCAT
66 AAGAGAGAGAAATCAT
*
24609185 CCAAATTAAGTGACGACTCAAGGATGGAATTTTAAAAGAACATAAAGGGCAAAATGGTCAATTAG
1 CCAAATTAAGTGACGACTCAAGGATGGAAATTTAAAAGAACATAAAGGGCAAAATGGTCAATTAG
24609250 AAGAGAGAGAAATC
66 AAGAGAGAGAAATC
24609264 TAGAAGGCAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.19
Consensus pattern (81 bp):
CCAAATTAAGTGACGACTCAAGGATGGAAATTTAAAAGAACATAAAGGGCAAAATGGTCAATTAG
AAGAGAGAGAAATCAT
Found at i:24612322 original size:32 final size:32
Alignment explanation
Indices: 24612281--24612342 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 32
24612271 TCAATACTCA
24612281 TAAACACCTAAATAAACACA-AAGAAATTAATT
1 TAAACACCTAAATAAACACAGAA-AAATTAATT
24612313 TAAACACCTAAATAAACACAGAAAAATTAA
1 TAAACACCTAAATAAACACAGAAAAATTAA
24612343 CTAAGTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.61, C:0.16, G:0.03, T:0.19
Consensus pattern (32 bp):
TAAACACCTAAATAAACACAGAAAAATTAATT
Found at i:24612942 original size:91 final size:91
Alignment explanation
Indices: 24612787--24612969 Score: 341
Period size: 91 Copynumber: 2.0 Consensus size: 91
24612777 TAATTTGCTA
24612787 ACTATTGCATATACATACTTACTAAATTAACAAATCACTTGAAAATTTCTCAATGTCAATTCAAA
1 ACTATTGCATATACATACTTACTAAATTAACAAATCACTTGAAAATTTCTCAATGTCAATTCAAA
*
24612852 CAATTAATCAACCTTCGTAGGCACAT
66 CAATTAATCAACCTTCATAGGCACAT
24612878 ACTATTGCATATACATACTTACTAAATTAACAAATCACTTGAAAATTTCTCAATG-CTAATTCAA
1 ACTATTGCATATACATACTTACTAAATTAACAAATCACTTGAAAATTTCTCAATGTC-AATTCAA
24612942 ACAATTAATCAACCTTCATAGGCACAT
65 ACAATTAATCAACCTTCATAGGCACAT
24612969 A
1 A
24612970 TAAGATTAAG
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
90 1 0.01
91 89 0.99
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.32
Consensus pattern (91 bp):
ACTATTGCATATACATACTTACTAAATTAACAAATCACTTGAAAATTTCTCAATGTCAATTCAAA
CAATTAATCAACCTTCATAGGCACAT
Found at i:24618681 original size:14 final size:14
Alignment explanation
Indices: 24618664--24618696 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
24618654 CCGCATTGGT
24618664 TGAACCGAATCTAG
1 TGAACCGAATCTAG
24618678 TGAACCGAATCTAG
1 TGAACCGAATCTAG
24618692 TGAAC
1 TGAAC
24618697 TGAACCAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (14 bp):
TGAACCGAATCTAG
Found at i:24622600 original size:11 final size:12
Alignment explanation
Indices: 24622584--24622616 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
24622574 GAACAGAAAC
24622584 AAAAATAAAA-T
1 AAAAATAAAATT
24622595 AAAAATAAAATT
1 AAAAATAAAATT
24622607 ACAAAATAAA
1 A-AAAATAAA
24622617 TTTCGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 2 0.10
13 8 0.40
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAAATAAAATT
Found at i:24624833 original size:25 final size:25
Alignment explanation
Indices: 24624746--24624842 Score: 85
Period size: 25 Copynumber: 3.9 Consensus size: 25
24624736 AGATACACCA
24624746 CAGCTTGTATGAGCTTACCGATTT-
1 CAGCTTGTATGAGCTTACCGATTTC
* *
24624770 CAGCTTGTGA-GATCTTACTGA-TTC
1 CAGCTTGT-ATGAGCTTACCGATTTC
* **
24624794 TCAACTCATATGAGCTTACCGATTTC
1 -CAGCTTGTATGAGCTTACCGATTTC
*
24624820 CAGCTTGTGA-GAGCATACCGATT
1 CAGCTTGT-ATGAGCTTACCGATT
24624843 CATAGCTCGT
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
23 2 0.04
24 18 0.32
25 32 0.57
26 4 0.07
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (25 bp):
CAGCTTGTATGAGCTTACCGATTTC
Found at i:24624856 original size:50 final size:49
Alignment explanation
Indices: 24624746--24624858 Score: 147
Period size: 50 Copynumber: 2.3 Consensus size: 49
24624736 AGATACACCA
* * * *
24624746 CAGCTTGTATGAGCTTACCGATTTCAGCTTGTGAGATCTTACTGATTCT
1 CAGCTCGTATGAGCTTACCGATTTCAGCTTGTGAGAGCATACCGATTCT
* *
24624795 CAACTCATATGAGCTTACCGATTTCCAGCTTGTGAGAGCATACCGATTCAT
1 CAGCTCGTATGAGCTTACCGATTT-CAGCTTGTGAGAGCATACCGATTC-T
24624846 -AGCTCGTATGAGC
1 CAGCTCGTATGAGC
24624859 ATACATGTAC
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 21 0.39
50 32 0.59
51 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (49 bp):
CAGCTCGTATGAGCTTACCGATTTCAGCTTGTGAGAGCATACCGATTCT
Found at i:24647748 original size:25 final size:25
Alignment explanation
Indices: 24647717--24647783 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
24647707 GCTGTAAACA
* *
24647717 GTAAGCTCCTCTGAGCTGAATAACG
1 GTAAGCTCATATGAGCTGAATAACG
* *
24647742 GTAAGCTCATATGAGCTGAGTATCG
1 GTAAGCTCATATGAGCTGAATAACG
* *
24647767 GTAAGCACATAAGAGCT
1 GTAAGCTCATATGAGCT
24647784 AAAATCGAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (25 bp):
GTAAGCTCATATGAGCTGAATAACG
Found at i:24655363 original size:29 final size:29
Alignment explanation
Indices: 24655326--24655533 Score: 245
Period size: 29 Copynumber: 7.2 Consensus size: 29
24655316 TATCGACCCT
*
24655326 TATCGAATATGAAAAGGGATGGTGACGAC
1 TATCAAATATGAAAAGGGATGGTGACGAC
*
24655355 TATCAAATATGAAAAGGGATGGTGATGAC
1 TATCAAATATGAAAAGGGATGGTGACGAC
* *
24655384 CATCAAATATGAAAAGGGATGGTGACAAC
1 TATCAAATATGAAAAGGGATGGTGACGAC
* ** **
24655413 TGTCGGATATGAAAAGGGATGGTTTCGAC
1 TATCAAATATGAAAAGGGATGGTGACGAC
* * * *
24655442 CATCGAATATGAAAATGAATGGTGACGAC
1 TATCAAATATGAAAAGGGATGGTGACGAC
* *
24655471 TATCAAATATGAAAGGGGATGGTGATGAC
1 TATCAAATATGAAAAGGGATGGTGACGAC
* * **
24655500 CATCGAATATGAAAAGGGATGGTTTCGAC
1 TATCAAATATGAAAAGGGATGGTGACGAC
24655529 TATCA
1 TATCA
24655534 TTTAGAACAC
Statistics
Matches: 146, Mismatches: 33, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 146 1.00
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (29 bp):
TATCAAATATGAAAAGGGATGGTGACGAC
Found at i:24655423 original size:58 final size:58
Alignment explanation
Indices: 24655327--24655533 Score: 299
Period size: 58 Copynumber: 3.6 Consensus size: 58
24655317 ATCGACCCTT
24655327 ATCGAATATGAAAAGGGATGGTGACGACTATCAAATATGAAAAGGGATGGTGATGACC
1 ATCGAATATGAAAAGGGATGGTGACGACTATCAAATATGAAAAGGGATGGTGATGACC
* * * ** *
24655385 ATCAAATATGAAAAGGGATGGTGACAACTGTCGGATATGAAAAGGGATGGT-TTCGACC
1 ATCGAATATGAAAAGGGATGGTGACGACTATCAAATATGAAAAGGGATGGTGAT-GACC
* * *
24655443 ATCGAATATGAAAATGAATGGTGACGACTATCAAATATGAAAGGGGATGGTGATGACC
1 ATCGAATATGAAAAGGGATGGTGACGACTATCAAATATGAAAAGGGATGGTGATGACC
**
24655501 ATCGAATATGAAAAGGGATGGTTTCGACTATCA
1 ATCGAATATGAAAAGGGATGGTGACGACTATCA
24655534 TTTAGAACAC
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
57 1 0.01
58 126 0.98
59 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (58 bp):
ATCGAATATGAAAAGGGATGGTGACGACTATCAAATATGAAAAGGGATGGTGATGACC
Found at i:24655478 original size:87 final size:87
Alignment explanation
Indices: 24655327--24655533 Score: 279
Period size: 87 Copynumber: 2.4 Consensus size: 87
24655317 ATCGACCCTT
** * * *
24655327 ATCGAATATGAAAAGGGATGGTGACGACTATCAAATATGAAAAGGGATGGTGATGACCATCAAAT
1 ATCGAATATGAAAAGGGATGGTTTCGACCATCAAATATGAAAAGGAATGGTGACGACCATCAAAT
*
24655392 ATGAAAAGGGATGGTGACAACT
66 ATGAAAAGGGATGGTGACAACC
* * * * *
24655414 GTCGGATATGAAAAGGGATGGTTTCGACCATCGAATATGAAAATGAATGGTGACGACTATCAAAT
1 ATCGAATATGAAAAGGGATGGTTTCGACCATCAAATATGAAAAGGAATGGTGACGACCATCAAAT
* **
24655479 ATGAAAGGGGATGGTGATGACC
66 ATGAAAAGGGATGGTGACAACC
*
24655501 ATCGAATATGAAAAGGGATGGTTTCGACTATCA
1 ATCGAATATGAAAAGGGATGGTTTCGACCATCA
24655534 TTTAGAACAC
Statistics
Matches: 102, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 102 1.00
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (87 bp):
ATCGAATATGAAAAGGGATGGTTTCGACCATCAAATATGAAAAGGAATGGTGACGACCATCAAAT
ATGAAAAGGGATGGTGACAACC
Found at i:24663151 original size:17 final size:18
Alignment explanation
Indices: 24663129--24663162 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24663119 AAATTCTTTT
*
24663129 TTTTTA-GTTTTTATTTC
1 TTTTTAGGTGTTTATTTC
24663146 TTTTTAGGTGTTTATTT
1 TTTTTAGGTGTTTATTT
24663163 TTATGTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.74
Consensus pattern (18 bp):
TTTTTAGGTGTTTATTTC
Found at i:24666528 original size:24 final size:25
Alignment explanation
Indices: 24666501--24666551 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
24666491 ACTTGTCATA
* *
24666501 GAGAGAATTGATGAG-GGATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
*
24666525 GAGAGATTTGAGGAGAGAATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
24666550 GA
1 GA
24666552 TTTGAGGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.35, C:0.00, G:0.37, T:0.27
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:24667255 original size:13 final size:13
Alignment explanation
Indices: 24667214--24667260 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
24667204 GTTCGGTCTG
24667214 AAATATTTTTATT
1 AAATATTTTTATT
**
24667227 AAATCAAGTTTA-T
1 AAAT-ATTTTTATT
24667240 AAATATTTTTATT
1 AAATATTTTTATT
24667253 AAATATTT
1 AAATATTT
24667261 ACAGAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 5 0.18
13 18 0.64
14 5 0.18
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (13 bp):
AAATATTTTTATT
Found at i:24669630 original size:30 final size:31
Alignment explanation
Indices: 24669596--24669655 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
24669586 ATAGATTAAA
24669596 TATTTCATGTAGATTAT-AAAAAAATGTGGT
1 TATTTCATGTAGATTATAAAAAAAATGTGGT
*
24669626 TATTTGATGTAGATTATAAAAAAAATGTGG
1 TATTTCATGTAGATTATAAAAAAAATGTGG
24669656 CTAAGTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (31 bp):
TATTTCATGTAGATTATAAAAAAAATGTGGT
Found at i:24669665 original size:33 final size:30
Alignment explanation
Indices: 24669597--24669665 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 30
24669587 TAGATTAAAT
* *
24669597 ATTTCATGTAGATTATAAAAAAATGTGGTT
1 ATTTGATGTAGATTATAAAAAAATGTGGTA
24669627 ATTTGATGTAGATTATAAAAAAAATGTGGCTA
1 ATTTGATGTAGATTAT-AAAAAAATGTGG-TA
24669659 AGTTTGA
1 A-TTTGA
24669666 GAAATGTGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 15 0.44
31 12 0.35
32 2 0.06
33 5 0.15
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.38
Consensus pattern (30 bp):
ATTTGATGTAGATTATAAAAAAATGTGGTA
Found at i:24669769 original size:26 final size:26
Alignment explanation
Indices: 24669740--24669789 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
24669730 ATTGGATAGA
24669740 AAGGGGTCGCTAAGTGCAGATTCCCC
1 AAGGGGTCGCTAAGTGCAGATTCCCC
* *
24669766 AAGGGGTTGCTAAGTGCTGATTCC
1 AAGGGGTCGCTAAGTGCAGATTCC
24669790 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (26 bp):
AAGGGGTCGCTAAGTGCAGATTCCCC
Found at i:24669859 original size:43 final size:42
Alignment explanation
Indices: 24669766--24669961 Score: 177
Period size: 43 Copynumber: 4.6 Consensus size: 42
24669756 CAGATTCCCC
* * *
24669766 AAGGGGTTGCTAAGTGCTGATTCCTCAAAT-TATTGATT-TTA
1 AAGGGGTTGCTAAGTGCTGATTCCCCATATAT-TTGATTGTGA
*
24669807 AAGGTGGTTGCTAAGTGTTGATTCCACCATATATTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCATATATTTGATTGTGA
* * * *
24669851 AAGGGGTTGCTATA-TGCTGATTCCCCGTATCA-CTGAATAT-A
1 AAGGGGTTGCTA-AGTGCTGATTCCCCATAT-ATTTGATTGTGA
* * *
24669892 AAGGTGGTTGTTAAGTGCTGATTCCACCGTATCTTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCATATATTTGATTGTGA
* *
24669936 AAGGGGTTGCTATGTGTTGATTCCCC
1 AAGGGGTTGCTAAGTGCTGATTCCCC
24669962 GTATCACTGA
Statistics
Matches: 127, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
41 10 0.08
42 48 0.38
43 56 0.44
44 13 0.10
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (42 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCATATATTTGATTGTGA
Found at i:24669911 original size:42 final size:43
Alignment explanation
Indices: 24669766--24669996 Score: 183
Period size: 42 Copynumber: 5.5 Consensus size: 43
24669756 CAGATTCCCC
* ** * * * *
24669766 AAGG-GGTTGCTAAGTGCTGATTCC-TCAAATTATTGATTTTA
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCACTGAATGTA
* * * *
24669807 AAGGTGGTTGCTAAGTGTTGATTCCACCATAT-ATTTGATTGTGA
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCA-CTGAATGT-A
*
24669851 AAGG-GGTTGCTATA-TGCTGATTCC-CCGTATCACTGAATATA
1 AAGGTGGTTGCTA-AGTGCTGATTCCACCGTATCACTGAATGTA
* ** *
24669892 AAGGTGGTTGTTAAGTGCTGATTCCACCGTATCTTTGATTGTGA
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCACTGAATGT-A
* * *
24669936 AAGG-GGTTGCTATGTGTTGATTCC-CCGTATCACTGAAT-TT
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCACTGAATGTA
*
24669976 AAGGTGGTTGCCAAGTGCTGA
1 AAGGTGGTTGCTAAGTGCTGA
24669997 ATCTATCGAG
Statistics
Matches: 155, Mismatches: 24, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
40 4 0.03
41 24 0.15
42 58 0.37
43 58 0.37
44 11 0.07
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.36
Consensus pattern (43 bp):
AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCACTGAATGTA
Found at i:24669914 original size:85 final size:84
Alignment explanation
Indices: 24669804--24669996 Score: 305
Period size: 85 Copynumber: 2.3 Consensus size: 84
24669794 ATTATTGATT
*
24669804 TTAAAGGTGGTTGCTAAGTGTTGATTCCACCATATATTTGATTGTGAAAGGGGTTGCTATATGCT
1 TTAAAGGTGGTTGCTAAGTGCTGATTCCACCATATATTTGATTGTGAAAGGGGTTGCTATATGCT
24669869 GATTCCCCGTATCACTGAA
66 GATTCCCCGTATCACTGAA
* * * * *
24669888 TATAAAGGTGGTTGTTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGT
1 T-TAAAGGTGGTTGCTAAGTGCTGATTCCACCATATATTTGATTGTGAAAGGGGTTGCTATATGC
24669953 TGATTCCCCGTATCACTGAA
65 TGATTCCCCGTATCACTGAA
* *
24669973 TTTAAGGTGGTTGCCAAGTGCTGA
1 TTAAAGGTGGTTGCTAAGTGCTGA
24669997 ATCTATCGAG
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
84 21 0.21
85 78 0.79
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (84 bp):
TTAAAGGTGGTTGCTAAGTGCTGATTCCACCATATATTTGATTGTGAAAGGGGTTGCTATATGCT
GATTCCCCGTATCACTGAA
Found at i:24672755 original size:23 final size:23
Alignment explanation
Indices: 24672729--24672781 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
24672719 GAGTGTTTTG
24672729 GTATGAAATGGTTAAAAGCTTTA
1 GTATGAAATGGTTAAAAGCTTTA
* *
24672752 GTATGAAATGGTTAAACGTTTTA
1 GTATGAAATGGTTAAAAGCTTTA
24672775 GTATGAA
1 GTATGAA
24672782 TTGTATTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.36
Consensus pattern (23 bp):
GTATGAAATGGTTAAAAGCTTTA
Found at i:24673140 original size:89 final size:89
Alignment explanation
Indices: 24672989--24673172 Score: 305
Period size: 89 Copynumber: 2.1 Consensus size: 89
24672979 ACGGGCTACC
* *
24672989 ACACGGTCGTGTGTCACACATGGGTGATTGACATGGCCATGTGTGCTACCATTCAGGGTGATTTT
1 ACACGGTCGTGTGCCACACACGGGTGATTGACATGGCCATGTGTGCTACCATTCAGGGTGATTTT
24673054 TAGTTCACACAGCCACAATGAGTT
66 TAGTTCACACAGCCACAATGAGTT
* * *
24673078 ACACGGTCGTGTGCCACACACGGGTGGTTGACATGGCCATGTGTGCTATCGTTCAGGGTGATTTT
1 ACACGGTCGTGTGCCACACACGGGTGATTGACATGGCCATGTGTGCTACCATTCAGGGTGATTTT
* *
24673143 TAGTTCACACGGCCACAGTGAGTT
66 TAGTTCACACAGCCACAATGAGTT
24673167 ACACGG
1 ACACGG
24673173 CCATGTGACC
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (89 bp):
ACACGGTCGTGTGCCACACACGGGTGATTGACATGGCCATGTGTGCTACCATTCAGGGTGATTTT
TAGTTCACACAGCCACAATGAGTT
Found at i:24673187 original size:23 final size:23
Alignment explanation
Indices: 24673161--24673215 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
24673151 ACGGCCACAG
24673161 TGAGTTACACGGCCATGTGACCC
1 TGAGTTACACGGCCATGTGACCC
**
24673184 TGAGTTACACGGCTGTGTGACCC
1 TGAGTTACACGGCCATGTGACCC
24673207 TGAGTTACA
1 TGAGTTACA
24673216 TGGGCACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.25
Consensus pattern (23 bp):
TGAGTTACACGGCCATGTGACCC
Found at i:24677284 original size:25 final size:25
Alignment explanation
Indices: 24677256--24677330 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 25
24677246 ATTAGCATAT
24677256 GATAGTTATAATAAAATAAAATTCC
1 GATAGTTATAATAAAATAAAATTCC
** * * *
24677281 GATAACTATAAAAAAATTAGA-T--
1 GATAGTTATAATAAAATAAAATTCC
*
24677303 -ATAGTTATTATAAAATAAAATTCC
1 GATAGTTATAATAAAATAAAATTCC
24677327 GATA
1 GATA
24677331 ACTATAAAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
21 14 0.40
22 1 0.03
24 1 0.03
25 19 0.54
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (25 bp):
GATAGTTATAATAAAATAAAATTCC
Found at i:24677317 original size:46 final size:45
Alignment explanation
Indices: 24677257--24677347 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 45
24677247 TTAGCATATG
24677257 ATAGTTATAATAAAATAAAATTCCGATAACTATAAAAAAATTAGAT
1 ATAGTTATAATAAAATAAAATTCCGATAACTAT-AAAAAATTAGAT
*
24677303 ATAGTTATTATAAAATAAAATTCCGATAACTATAAAAAATTAGAT
1 ATAGTTATAATAAAATAAAATTCCGATAACTATAAAAAATTAGAT
24677348 TTATTAGTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 12 0.27
46 32 0.73
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.32
Consensus pattern (45 bp):
ATAGTTATAATAAAATAAAATTCCGATAACTATAAAAAATTAGAT
Found at i:24677336 original size:22 final size:22
Alignment explanation
Indices: 24677266--24677339 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
24677256 GATAGTTATA
24677266 ATAAAATAAAATTCCGATAACT
1 ATAAAATAAAATTCCGATAACT
* *
24677288 AT-AAA-AAAATT-AGATATAGTTATT
1 ATAAAATAAAATTCCG--ATA---ACT
24677312 ATAAAATAAAATTCCGATAACT
1 ATAAAATAAAATTCCGATAACT
24677334 ATAAAA
1 ATAAAA
24677340 AATTAGATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 16
0.67 0.07 0.27
Matches are distributed among these distances:
19 1 0.03
20 6 0.15
21 6 0.15
22 10 0.25
24 4 0.10
25 6 0.15
26 6 0.15
27 1 0.03
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (22 bp):
ATAAAATAAAATTCCGATAACT
Found at i:24682983 original size:13 final size:13
Alignment explanation
Indices: 24682965--24682991 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24682955 AGTCATGTTC
24682965 TTGTGTTTAATCT
1 TTGTGTTTAATCT
24682978 TTGTGTTTAATCT
1 TTGTGTTTAATCT
24682991 T
1 T
24682992 CATGGAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.63
Consensus pattern (13 bp):
TTGTGTTTAATCT
Found at i:24683929 original size:19 final size:19
Alignment explanation
Indices: 24683907--24683952 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
24683897 TTATATTATA
24683907 TAATTAAATGATTAGGAAT
1 TAATTAAATGATTAGGAAT
24683926 TAATTAAATGATTAGGAAT
1 TAATTAAATGATTAGGAAT
*
24683945 TAAATAAA
1 TAATTAAA
24683953 CAACATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (19 bp):
TAATTAAATGATTAGGAAT
Found at i:24687422 original size:27 final size:27
Alignment explanation
Indices: 24687392--24687569 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24687382 ATATTGAGTC
* * * *
24687392 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24687419 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24687446 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24687474 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24687501 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24687528 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24687555 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24687570 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24687531 original size:82 final size:81
Alignment explanation
Indices: 24687413--24687568 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24687403 TGCTATATAA
* *
24687413 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24687478 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24687495 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24687559 CACTTAGTGC
65 CACTTAGTGC
24687569 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24695485 original size:27 final size:27
Alignment explanation
Indices: 24695455--24695632 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24695445 ATATTGAGTC
* * * *
24695455 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24695482 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24695509 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24695537 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24695564 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24695591 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24695618 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24695633 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24695594 original size:82 final size:81
Alignment explanation
Indices: 24695476--24695631 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24695466 TGCTATATAA
* *
24695476 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24695541 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24695558 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24695622 CACTTAGTGC
65 CACTTAGTGC
24695632 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24700348 original size:25 final size:25
Alignment explanation
Indices: 24700320--24700380 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
24700310 AGGTTTAAGT
* * *
24700320 TTTATAGTTTATATATGTTTTATGA
1 TTTAGAGTTTATATATGTTCTATAA
*
24700345 TTTAGGGTTTATATATGTTCTATAA
1 TTTAGAGTTTATATATGTTCTATAA
*
24700370 TTTAGGGTTTA
1 TTTAGAGTTTA
24700381 AGGAATATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.02, G:0.16, T:0.56
Consensus pattern (25 bp):
TTTAGAGTTTATATATGTTCTATAA
Found at i:24700457 original size:21 final size:22
Alignment explanation
Indices: 24700396--24700458 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 22
24700386 TATTGCCGAG
* *
24700396 TTAAGGGTTTAGGGATTATGGT
1 TTAAGTGTTTAGGGATTAAGGT
* * * *
24700418 GTAA-TATTTGGGGTTTAAGGT
1 TTAAGTGTTTAGGGATTAAGGT
24700439 TTAAGTGTTTAGGG-TTAAGG
1 TTAAGTGTTTAGGGATTAAGG
24700459 GTTAGGGGTT
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (22 bp):
TTAAGTGTTTAGGGATTAAGGT
Found at i:24700647 original size:14 final size:14
Alignment explanation
Indices: 24700628--24700669 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
24700618 TCCAAGTCAA
24700628 TTTAGGGTTAAGGG
1 TTTAGGGTTAAGGG
*
24700642 TTTAGGGTTAAGAG
1 TTTAGGGTTAAGGG
24700656 TTTAGGGTTTAAGG
1 TTTAGGG-TTAAGG
24700670 TCTAATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (14 bp):
TTTAGGGTTAAGGG
Found at i:24702203 original size:109 final size:109
Alignment explanation
Indices: 24702012--24702229 Score: 427
Period size: 109 Copynumber: 2.0 Consensus size: 109
24702002 ATTTATTTTG
24702012 GGAATGGTTTCATTGGTTAGGAACTGATGTTATTTTGTTTGTGTTCAGGGTTTCTTTCCATTCCA
1 GGAATGGTTTCATTGGTTAGGAACTGATGTTATTTTGTTTGTGTTCAGGGTTTCTTTCCATTCCA
*
24702077 TTTCATTGCTTTCATTTCTTTTTTCTGCATCGTTCTGAAGGTAT
66 TTTCATTGCTTTCATTTCTGTTTTCTGCATCGTTCTGAAGGTAT
24702121 GGAATGGTTTCATTGGTTAGGAACTGATGTTATTTTGTTTGTGTTCAGGGTTTCTTTCCATTCCA
1 GGAATGGTTTCATTGGTTAGGAACTGATGTTATTTTGTTTGTGTTCAGGGTTTCTTTCCATTCCA
24702186 TTTCATTGCTTTCATTTCTGTTTTCTGCATCGTTCTGAAGGTAT
66 TTTCATTGCTTTCATTTCTGTTTTCTGCATCGTTCTGAAGGTAT
24702230 ACAACTCATG
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.16, C:0.15, G:0.21, T:0.49
Consensus pattern (109 bp):
GGAATGGTTTCATTGGTTAGGAACTGATGTTATTTTGTTTGTGTTCAGGGTTTCTTTCCATTCCA
TTTCATTGCTTTCATTTCTGTTTTCTGCATCGTTCTGAAGGTAT
Found at i:24703361 original size:23 final size:22
Alignment explanation
Indices: 24703304--24703392 Score: 112
Period size: 23 Copynumber: 4.0 Consensus size: 22
24703294 AACTTATTAA
24703304 TATATATTTTAAAA-TT-ATA-
1 TATATATTTTAAAATTTAATAT
24703323 TATATATCTTTAAAATTTAATAT
1 TATATAT-TTTAAAATTTAATAT
*
24703346 GTATATATTTTAAAATTTAATTT
1 -TATATATTTTAAAATTTAATAT
24703369 ATATATATTTTGAAAATTTAATAT
1 -TATATATTTT-AAAATTTAATAT
24703393 AAACTTATAT
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
19 7 0.11
20 7 0.11
21 2 0.03
22 3 0.05
23 24 0.39
24 18 0.30
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (22 bp):
TATATATTTTAAAATTTAATAT
Found at i:24703413 original size:10 final size:12
Alignment explanation
Indices: 24703389--24703416 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
24703379 TGAAAATTTA
24703389 ATATAAACTTAT
1 ATATAAACTTAT
24703401 ATATAAACTTAT
1 ATATAAACTTAT
24703413 ATAT
1 ATAT
24703417 GACTTTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATAAACTTAT
Found at i:24703497 original size:23 final size:23
Alignment explanation
Indices: 24703407--24703497 Score: 94
Period size: 23 Copynumber: 3.8 Consensus size: 23
24703397 TTATATATAA
* *
24703407 ACTTATATATGACTTTCATAACTC
1 ACTTATA-ATAACTTACATAACTC
*
24703431 ACTTATAATAACTTACACAA-TAC
1 ACTTATAATAACTTACATAACT-C
* *
24703454 ATTTATTTAATAACTTTCATAACTC
1 ACTTA--TAATAACTTACATAACTC
24703479 ACTTATAATAACTTACATA
1 ACTTATAATAACTTACATA
24703498 TTTATATACA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
22 1 0.02
23 28 0.51
24 7 0.13
25 18 0.33
26 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.01, T:0.40
Consensus pattern (23 bp):
ACTTATAATAACTTACATAACTC
Found at i:24703614 original size:14 final size:14
Alignment explanation
Indices: 24703595--24703667 Score: 50
Period size: 12 Copynumber: 5.5 Consensus size: 14
24703585 TTATCAATAA
24703595 TATATATCATAACT
1 TATATATCATAACT
24703609 TATATAT-A-AACT
1 TATATATCATAACT
*
24703621 TACATAATACATAACT
1 TATAT-AT-CATAACT
* *
24703637 TAAATAACAT-AC-
1 TATATATCATAACT
*
24703649 AATATAT-A-AACT
1 TATATATCATAACT
24703661 TATATAT
1 TATATAT
24703668 AAACTTGCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
11 3 0.07
12 18 0.39
13 5 0.11
14 10 0.22
15 2 0.04
16 8 0.17
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (14 bp):
TATATATCATAACT
Found at i:24703725 original size:9 final size:9
Alignment explanation
Indices: 24703669--24704128 Score: 338
Period size: 9 Copynumber: 52.2 Consensus size: 9
24703659 CTTATATATA
*
24703669 AACTTGCAT
1 AACTTACAT
*
24703678 AACTTATAT
1 AACTTACAT
*
24703687 AA-TAACAT
1 AACTTACAT
24703695 AA--TACAT
1 AACTTACAT
* *
24703702 AGCCTACAT
1 AACTTACAT
* *
24703711 AGCTTACAC
1 AACTTACAT
24703720 AACTTACAT
1 AACTTACAT
* *
24703729 AAATTAAAT
1 AACTTACAT
24703738 AACTTACAT
1 AACTTACAT
24703747 AACTTACAT
1 AACTTACAT
* *
24703756 AAATAACAT
1 AACTTACAT
* *
24703765 AAATTAAAT
1 AACTTACAT
24703774 AACTTACAT
1 AACTTACAT
24703783 AA--TACAT
1 AACTTACAT
*
24703790 AACCTT-CCT
1 AA-CTTACAT
24703799 AACTTACAT
1 AACTTACAT
* *
24703808 TATTTACAT
1 AACTTACAT
24703817 AA--TACAT
1 AACTTACAT
24703824 AACTTAGTACAT
1 AAC-T--TACAT
24703836 AACTTACAT
1 AACTTACAT
* *
24703845 AATTTTTTCTAAAT
1 AA----CT-TACAT
24703859 AACTTACAT
1 AACTTACAT
24703868 AACTTACAT
1 AACTTACAT
24703877 AACTTACAT
1 AACTTACAT
* *
24703886 AAATTATAT
1 AACTTACAT
24703895 AACTTACAT
1 AACTTACAT
24703904 AACTTACAT
1 AACTTACAT
*
24703913 AACTTAAAT
1 AACTTACAT
24703922 AACTTACAT
1 AACTTACAT
24703931 AA--TACAT
1 AACTTACAT
*
24703938 AACCTT-CCT
1 AA-CTTACAT
24703947 AACTTACAT
1 AACTTACAT
* *
24703956 TATTTACAT
1 AACTTACAT
24703965 AA--TACAT
1 AACTTACAT
* *
24703972 AGCCTACAT
1 AACTTACAT
24703981 AACTTACAT
1 AACTTACAT
*
24703990 AGCTTACAT
1 AACTTACAT
24703999 AACTTACAT
1 AACTTACAT
*
24704008 TACTTACAGT
1 AACTTACA-T
24704018 -ACTTACAT
1 AACTTACAT
24704026 AA--TACAT
1 AACTTACAT
24704033 AA--TACAT
1 AACTTACAT
24704040 AACTTACAT
1 AACTTACAT
*
24704049 AA--TACAC
1 AACTTACAT
*
24704056 AACCTACAT
1 AACTTACAT
*
24704065 AACTCACAT
1 AACTTACAT
*
24704074 AA--TACAC
1 AACTTACAT
24704081 AACTTACAT
1 AACTTACAT
24704090 AACTTACAT
1 AACTTACAT
24704099 AA--TACAT
1 AACTTACAT
24704106 AACTTAGTACAT
1 AAC-T--TACAT
24704118 AACTTACAT
1 AACTTACAT
24704127 AA
1 AA
24704129 TACATAAAAA
Statistics
Matches: 363, Mismatches: 53, Indels: 70
0.75 0.11 0.14
Matches are distributed among these distances:
7 64 0.18
8 13 0.04
9 257 0.71
10 4 0.01
11 2 0.01
12 16 0.04
13 1 0.00
14 6 0.02
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:24703790 original size:157 final size:156
Alignment explanation
Indices: 24703617--24704140 Score: 362
Period size: 157 Copynumber: 3.5 Consensus size: 156
24703607 CTTATATATA
* *
24703617 AACTTACATAATACATAA-CTTAAATAACATACAATATATAAACTTATATATAAACTT-G-CATA
1 AACTTACATAATACATAACCTT-AATAACATACAATATATAAA-TAATACAT-AACTTAGACATA
* * * *
24703679 ACTTATATAATAACATAATACATAGCCTACATAGCTTACACAACTTACATAAATTAAATAACTTA
63 ACTTACATAAT-ACATAATAAATAACCTACATAACTTACACAACTTACATAAATTAAATAACTTA
24703744 CATAACTTACATAAATAACATAAATTAAAT
127 CATAACTTACATAAATAACATAAATTAAAT
** * * * *
24703774 AACTTACATAATACATAACCTTCCTAACTTACATTATTTACATAATACATAACTTAGTACATAAC
1 AACTTACATAATACATAACCTTAATAACATACAATATATAAATAATACATAACTTAG-ACATAAC
*** ** * * *
24703839 TTACATAATTTTTTCTAAATAACTTACATAACTTACATAACTTACATAAATTATATAACTTACAT
65 TTACATAATACATAATAAATAACCTACATAACTTACACAACTTACATAAATTAAATAACTTACAT
24703904 AACTTAC----ATAAC-----TTAAAT
130 AACTTACATAAATAACATAAATTAAAT
** * * * * * *
24703922 AACTTACATAATACATAACCTTCCTAACTTACATTATTTACATAATACATAGCCT--ACATAACT
1 AACTTACATAATACATAACCTTAATAACATACAATATATAAATAATACATAACTTAGACATAACT
* * * * ** *
24703985 TACAT-A-GC-T--TACATAACTTACATTACTTACAGTACTTACAT-AA-TACATAA--TACATA
66 TACATAATACATAATAAATAACCTACATAACTTACACAACTTACATAAATTAAATAACTTACATA
* ** *
24704041 ACTTACAT-AAT-ACACAACCTACAT
131 ACTTACATAAATAACATAAATTAAAT
* * * *
24704065 AACTCACATAATACACAA-C-T--T-ACAT--AA-CT-TACATAATACATAACTTAGTACATAAC
1 AACTTACATAATACATAACCTTAATAACATACAATATATAAATAATACATAACTTAG-ACATAAC
24704121 TTACATAATACATAA-AAATA
65 TTACATAATACATAATAAATA
24704141 TATCAACATA
Statistics
Matches: 307, Mismatches: 40, Indels: 56
0.76 0.10 0.14
Matches are distributed among these distances:
134 15 0.05
135 1 0.00
136 13 0.04
137 13 0.04
138 12 0.04
139 6 0.02
140 29 0.09
141 5 0.02
142 2 0.01
143 20 0.07
144 1 0.00
145 13 0.04
148 59 0.19
153 5 0.02
155 5 0.02
156 7 0.02
157 84 0.27
158 17 0.06
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.33
Consensus pattern (156 bp):
AACTTACATAATACATAACCTTAATAACATACAATATATAAATAATACATAACTTAGACATAACT
TACATAATACATAATAAATAACCTACATAACTTACACAACTTACATAAATTAAATAACTTACATA
ACTTACATAAATAACATAAATTAAAT
Found at i:24704046 original size:41 final size:40
Alignment explanation
Indices: 24703863--24704126 Score: 132
Period size: 43 Copynumber: 6.3 Consensus size: 40
24703853 CTAAATAACT
* * *
24703863 TACATAACTTACATAACTTACATAAATTATATAACTTACATAA
1 TACATAACTTACATTACTTACATACA-TACATAA--TACATAA
* * * *
24703906 CTTACATAACTTAAATAACTTACATA-ATACATAACCTTCCTAA
1 --TACATAACTTACATTACTTACATACATACATAA--TACATAA
* * * * *
24703949 CTTACATTATTTACA-TA-ATACATAGCCTACATAACTTACATAGCT
1 --TACATAACTTACATTACTTACATA-CATACATAA--TACATA--A
*
24703994 TACATAACTTACATTACTTACAGTACTTACATAATACATAA
1 TACATAACTTACATTACTTACA-TACATACATAATACATAA
*
24704035 TACATAACTTACATAATAC--ACA-ACCTACATAACTCACATAA
1 TACATAACTTACAT--TACTTACATACATACATAA-T-ACATAA
* * * *
24704076 TACACAACTTACATAACTTACATA-ATACAT-A-ACTTAG
1 TACATAACTTACATTACTTACATACATACATAATACATAA
24704113 TACATAACTTACAT
1 TACATAACTTACAT
24704127 AATACATAAA
Statistics
Matches: 178, Mismatches: 27, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
37 17 0.10
39 11 0.06
40 2 0.01
41 50 0.28
42 2 0.01
43 56 0.31
44 3 0.02
45 35 0.20
46 2 0.01
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.32
Consensus pattern (40 bp):
TACATAACTTACATTACTTACATACATACATAATACATAA
Found at i:24704628 original size:22 final size:22
Alignment explanation
Indices: 24704600--24704647 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
24704590 CCGAAAACTC
* *
24704600 GTTGACATTGTTGTTAGAGTTT
1 GTTGACAATGCTGTTAGAGTTT
24704622 GTTGACAATGCTGTTAGAGTTT
1 GTTGACAATGCTGTTAGAGTTT
24704644 -TTGA
1 GTTGA
24704648 GAGAAATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.21, C:0.06, G:0.27, T:0.46
Consensus pattern (22 bp):
GTTGACAATGCTGTTAGAGTTT
Found at i:24709452 original size:21 final size:21
Alignment explanation
Indices: 24709426--24709497 Score: 117
Period size: 21 Copynumber: 3.4 Consensus size: 21
24709416 CTACAACTAA
24709426 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
*
24709447 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCGGCAGCGAGGG
* *
24709468 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGGG
24709489 AAGCAGAGG
1 AAGCAGAGG
24709498 TTTAAAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.33, C:0.18, G:0.47, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGGG
Found at i:24710002 original size:43 final size:44
Alignment explanation
Indices: 24709920--24710002 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
24709910 TTATAGCGGC
* ** *
24709920 GTTTGTAGAATAAAACGCCGCTAAAGAACATTTCTTTTAGCAGT
1 GTTTGTAGAAGAAAACGCCGCTAAAGAACATGACCTTTAGCAGT
*
24709964 GTTTGT-GAAGAAAGCGCCGCTAAAGAACATGACCTTTAG
1 GTTTGTAGAAGAAAACGCCGCTAAAGAACATGACCTTTAG
24710003 TGGCGTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 28 0.82
44 6 0.18
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (44 bp):
GTTTGTAGAAGAAAACGCCGCTAAAGAACATGACCTTTAGCAGT
Found at i:24710029 original size:9 final size:9
Alignment explanation
Indices: 24710015--24710041 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
24710005 GCGTTTATTT
24710015 CTGTAAACG
1 CTGTAAACG
24710024 CTGTAAACG
1 CTGTAAACG
24710033 CTGTAAACG
1 CTGTAAACG
24710042 TTAGTGACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (9 bp):
CTGTAAACG
Found at i:24710156 original size:22 final size:22
Alignment explanation
Indices: 24710113--24710156 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24710103 TAATGGCGCT
* **
24710113 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAACCTA
24710135 AAAAAACGCCGCTAAAAACCTA
1 AAAAAACGCCGCTAAAAACCTA
24710157 TTTTGCTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:24710654 original size:5 final size:5
Alignment explanation
Indices: 24710644--24710732 Score: 178
Period size: 5 Copynumber: 17.8 Consensus size: 5
24710634 GATGTTACAT
24710644 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
24710694 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT
24710733 GCATGGTTCT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 84 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:24719369 original size:29 final size:29
Alignment explanation
Indices: 24719334--24719475 Score: 124
Period size: 29 Copynumber: 4.9 Consensus size: 29
24719324 TCATCGAACA
* * * *
24719334 ATGAAAAGGGATAGCT-TCGACTATCGATT
1 ATGAAAAGGGAT-GGTGACGACCATCAATT
* *
24719363 ATGAAAAGGGATGGTGACGACCACCAACT
1 ATGAAAAGGGATGGTGACGACCATCAATT
*
24719392 ATGAAAAGGGATGGTGACGACCATCGATT
1 ATGAAAAGGGATGGTGACGACCATCAATT
** ** **
24719421 AATGAAAAGGGATGGTTTCGAATATCAAAC
1 -ATGAAAAGGGATGGTGACGACCATCAATT
* *
24719451 ATGAAAAGGGATGGTTATGACCATC
1 ATGAAAAGGGATGGTGACGACCATC
24719476 GTTTAGCACA
Statistics
Matches: 91, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
28 2 0.02
29 67 0.74
30 22 0.24
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAATT
Found at i:24719428 original size:30 final size:29
Alignment explanation
Indices: 24719334--24719436 Score: 127
Period size: 29 Copynumber: 3.5 Consensus size: 29
24719324 TCATCGAACA
* * *
24719334 ATGAAAAGGGATAGCT-TCGACTATCGATT
1 ATGAAAAGGGAT-GGTGACGACCATCGATT
* * *
24719363 ATGAAAAGGGATGGTGACGACCACCAACT
1 ATGAAAAGGGATGGTGACGACCATCGATT
24719392 ATGAAAAGGGATGGTGACGACCATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGATT
24719421 AATGAAAAGGGATGGT
1 -ATGAAAAGGGATGGT
24719437 TTCGAATATC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 2 0.03
29 46 0.73
30 15 0.24
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCGATT
Found at i:24719455 original size:59 final size:57
Alignment explanation
Indices: 24719334--24719476 Score: 153
Period size: 59 Copynumber: 2.4 Consensus size: 57
24719324 TCATCGAACA
* * * * *
24719334 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCACCAACT
1 ATGAAAAGGGAT-GGTACGACCATCGATTATGAAAAGGGATGGTGACGAACACAAACT
** *
24719392 ATGAAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATGGTTTCGAATATCAAAC-
1 ATGAAAAGGGATGGT-ACGACCATCGATT-ATGAAAAGGGATGGTGACGAACA-CAAACT
*
24719451 ATGAAAAGGGATGGTTATGACCATCG
1 ATGAAAAGGGATGG-TACGACCATCG
24719477 TTTAGCACAC
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
57 2 0.03
58 23 0.32
59 42 0.58
60 5 0.07
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (57 bp):
ATGAAAAGGGATGGTACGACCATCGATTATGAAAAGGGATGGTGACGAACACAAACT
Found at i:24725731 original size:16 final size:17
Alignment explanation
Indices: 24725710--24725744 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
24725700 AAATATTAAG
*
24725710 TGCAAAAGTCT-AATTT
1 TGCAAAAGTATGAATTT
24725726 TGCAAAAGTATGAATTT
1 TGCAAAAGTATGAATTT
24725743 TG
1 TG
24725745 GATTGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (17 bp):
TGCAAAAGTATGAATTT
Found at i:24735757 original size:31 final size:31
Alignment explanation
Indices: 24735722--24735784 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
24735712 TATGGGTATC
24735722 AATCATTCAT-TTTTGCATATTCATACCTTGT
1 AATCATTCATATTTT-CATATTCATACCTTGT
* *
24735753 AATCATTCGTATTTTCATTTTCATACCTTGT
1 AATCATTCATATTTTCATATTCATACCTTGT
24735784 A
1 A
24735785 TACTGTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.49
Consensus pattern (31 bp):
AATCATTCATATTTTCATATTCATACCTTGT
Found at i:24738150 original size:27 final size:27
Alignment explanation
Indices: 24738119--24738178 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
24738109 CCAACATTAG
24738119 CCAAAATACCTATAAATGCCATTATAA
1 CCAAAATACCTATAAATGCCATTATAA
* *
24738146 CCAAAATACCTATACATGTCATTATAA
1 CCAAAATACCTATAAATGCCATTATAA
24738173 CCAAAA
1 CCAAAA
24738179 CAACAACTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.48, C:0.23, G:0.03, T:0.25
Consensus pattern (27 bp):
CCAAAATACCTATAAATGCCATTATAA
Found at i:24739628 original size:13 final size:13
Alignment explanation
Indices: 24739607--24739636 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24739597 TGGCTTCATA
24739607 AATGAAGAAGATG
1 AATGAAGAAGATG
*
24739620 AATGTAGAAGATG
1 AATGAAGAAGATG
24739633 AATG
1 AATG
24739637 CCTTTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (13 bp):
AATGAAGAAGATG
Found at i:24742148 original size:27 final size:28
Alignment explanation
Indices: 24742039--24742161 Score: 158
Period size: 28 Copynumber: 4.4 Consensus size: 28
24742029 GAGATTGGCG
* * * *
24742039 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
24742068 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
24742096 CTAAGTGTGCGAGTTTGATTATATAGCG
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
24742124 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
24742151 CTGAGTGTGCG
1 CTAAGTGTGCG
24742162 GACTTAATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
27 22 0.27
28 46 0.55
29 15 0.18
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:24742150 original size:55 final size:57
Alignment explanation
Indices: 24742039--24742161 Score: 160
Period size: 55 Copynumber: 2.2 Consensus size: 57
24742029 GAGATTGGCG
* * * *
24742039 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
* * *
24742096 CTAAGTGTGCGAGTTT-GATTATATAGCGCTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
*
24742151 CTGAGTGTGCG
1 CTAAGTGTGCG
24742162 GACTTAATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 23 0.40
56 20 0.34
57 15 0.26
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (57 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
Found at i:24743472 original size:69 final size:69
Alignment explanation
Indices: 24743361--24743499 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
24743351 AGTTTCTATA
24743361 GAAACAAACGGCATCAGTATTGAAGCTTTGTGCAGGGAGTTATCCAAATCGTAATGCATGAAGGT
1 GAAACAAACGGCATCAGTATTGAAGCTTTGTGCAGGGAGTTATCCAAATCGTAATGCATGAAGGT
24743426 CAGT
66 CAGT
* *
24743430 GAAACAAACGTCATCAGTATTGAATCTTTGTGCAGGGAGTTATCCAAATCGTAATGCATGAAGGT
1 GAAACAAACGGCATCAGTATTGAAGCTTTGTGCAGGGAGTTATCCAAATCGTAATGCATGAAGGT
24743495 CAGT
66 CAGT
24743499 G
1 G
24743500 CAGTCGCACC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (69 bp):
GAAACAAACGGCATCAGTATTGAAGCTTTGTGCAGGGAGTTATCCAAATCGTAATGCATGAAGGT
CAGT
Found at i:24746089 original size:20 final size:21
Alignment explanation
Indices: 24746054--24746092 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
24746044 CAGCTCGTTG
24746054 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
24746075 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
24746093 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:24746500 original size:13 final size:13
Alignment explanation
Indices: 24746482--24746507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24746472 TGTGTCCTAA
24746482 TATGAATTAAATT
1 TATGAATTAAATT
24746495 TATGAATTAAATT
1 TATGAATTAAATT
24746508 GCTTTCAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:24760595 original size:22 final size:23
Alignment explanation
Indices: 24760547--24760595 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
24760537 TATTGGTATG
24760547 ATTAATGTGTCCTAATAAGTCGT
1 ATTAATGTGTCCTAATAAGTCGT
* *
24760570 -TTAATGTGTCTTAATAGGT-GT
1 ATTAATGTGTCCTAATAAGTCGT
24760591 ATTAA
1 ATTAA
24760596 AGAAGCTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (23 bp):
ATTAATGTGTCCTAATAAGTCGT
Found at i:24762786 original size:33 final size:34
Alignment explanation
Indices: 24762730--24762798 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 34
24762720 AGGAGGCTTA
* *
24762730 CTTTTAGGAGCAAGAAAATAAAGTTCAGTTTTAC
1 CTTTTAGGAGCAAGAAAACAAAGTTCAGTATTAC
* * *
24762764 CTTTTA-GAGCAGGGAAACAAAGTTCGGTATTAC
1 CTTTTAGGAGCAAGAAAACAAAGTTCAGTATTAC
24762797 CT
1 CT
24762799 GGCTCGATCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (34 bp):
CTTTTAGGAGCAAGAAAACAAAGTTCAGTATTAC
Found at i:24763841 original size:16 final size:15
Alignment explanation
Indices: 24763816--24763845 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24763806 ATTTCTTGTC
24763816 TTTCTTTTCTTTTTA
1 TTTCTTTTCTTTTTA
24763831 TTTCTTTTTCTTTTT
1 TTTC-TTTTCTTTTT
24763846 TCATCTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTCTTTTCTTTTTA
Found at i:24767093 original size:24 final size:24
Alignment explanation
Indices: 24767069--24767115 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
24767059 AAAATACTTC
24767069 TAAAAAAAACTCAAGAGAGAATTCT
1 TAAAAAAAACTCAA-AGAGAATTCT
** *
24767094 TGGAGAAAACTCAAAGAGAATT
1 TAAAAAAAACTCAAAGAGAATT
24767116 TTTCAATCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (24 bp):
TAAAAAAAACTCAAAGAGAATTCT
Found at i:24773726 original size:15 final size:15
Alignment explanation
Indices: 24773706--24773760 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
24773696 ACTCTCCTCA
*
24773706 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
24773721 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
24773736 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
24773750 TTCTTTT-TCTC
1 TTCTTTTCTCTC
24773761 GATCAATAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:24775835 original size:17 final size:17
Alignment explanation
Indices: 24775801--24775835 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24775791 TTCTTTTTCT
*
24775801 TTTTTTTTAATTCCGAA
1 TTTTTTTTAATACCGAA
*
24775818 TTTTTTTTAATACTGAA
1 TTTTTTTTAATACCGAA
24775835 T
1 T
24775836 ACACAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (17 bp):
TTTTTTTTAATACCGAA
Found at i:24778531 original size:19 final size:20
Alignment explanation
Indices: 24778507--24778544 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
24778497 TGAGTTGATT
24778507 GGAGCTGAAA-TGAGCTAAG
1 GGAGCTGAAATTGAGCTAAG
24778526 GGAGCTGAAATTGAGCTAA
1 GGAGCTGAAATTGAGCTAA
24778545 AATCAGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.18
Consensus pattern (20 bp):
GGAGCTGAAATTGAGCTAAG
Found at i:24779675 original size:27 final size:27
Alignment explanation
Indices: 24779628--24779679 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
24779618 TTTTCTCTTC
*
24779628 TTTCTTTTTCAATCTTTTCTTTTTCAG
1 TTTCTTTTTCAATCTTCTCTTTTTCAG
*
24779655 TTTCTTTTTCGATGC-TCTCTTTTTC
1 TTTCTTTTTCAAT-CTTCTCTTTTTC
24779680 TTTTGCTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.08, C:0.21, G:0.06, T:0.65
Consensus pattern (27 bp):
TTTCTTTTTCAATCTTCTCTTTTTCAG
Found at i:24782173 original size:157 final size:156
Alignment explanation
Indices: 24781885--24782175 Score: 376
Period size: 158 Copynumber: 1.9 Consensus size: 156
24781875 CGATACCAAA
* * * *
24781885 TGATGTGATCCGGCTCGATTGATTGAGTCGATTCACTTGTTTGCCCGATCGTTGATGAGAAGTTT
1 TGATGTGATCCGGCTCGATTGATGGAGTCGATTCACTTGTTTGCCCGATCGTCGACGAGAAGTAT
* * * *
24781950 TCGTTCGATGTTGTATGAAGATAGAGTTATGGAGATGTTTAAGCGGAAGTAGATAAATTGGTTTC
66 TCGTTCGATGTCGAATGAAGATAGAGTTATGGAGATGTTTAAGCGGAAGTAGATAAATAGGGTTC
24782015 AAAAGATAGCTTTTGGGAATGGATAG
131 AAAAGATAGCTTTTGGGAATGGATAG
*
24782041 TGATGTGATCCGGCTCGGTTGATGGAGTCGAGTTCACTTAAG-TTGCCCGATCGTCGACGAGAAG
1 TGATGTGATCCGGCTCGATTGATGGAGTCGA-TTCACTT--GTTTGCCCGATCGTCGACGAGAAG
* * * *
24782105 TATTGGTT-GATGTCGAATGGAGATA-ACTTTATGGAGTTGTTTTAAGCGGAAGTA-ATTAAA-A
63 TATTCGTTCGATGTCGAATGAAGATAGA-GTTATGGAGATG-TTTAAGCGGAAGTAGA-TAAATA
24782166 GGGTTCAAAA
125 GGGTTCAAAA
24782176 ATGGCTTGGT
Statistics
Matches: 116, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
156 30 0.26
157 41 0.35
158 44 0.38
159 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (156 bp):
TGATGTGATCCGGCTCGATTGATGGAGTCGATTCACTTGTTTGCCCGATCGTCGACGAGAAGTAT
TCGTTCGATGTCGAATGAAGATAGAGTTATGGAGATGTTTAAGCGGAAGTAGATAAATAGGGTTC
AAAAGATAGCTTTTGGGAATGGATAG
Found at i:24785972 original size:20 final size:19
Alignment explanation
Indices: 24785945--24785982 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
24785935 AATGGTCAAA
24785945 ATTGAGCTCAAATGAGCTG
1 ATTGAGCTCAAATGAGCTG
*
24785964 ATTGCAGCTGAAATGAGCT
1 ATTG-AGCTCAAATGAGCT
24785983 AAGGGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
ATTGAGCTCAAATGAGCTG
Done.