Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 68 of 141
Found at i:19932387 original size:32 final size:32
Alignment explanation
Indices: 19932346--19932413 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
19932336 GATTTGCTAT
* *
19932346 TACACATCTATTCCATTACACCTCTAATCCAA
1 TACACATCTAATCCAATACACCTCTAATCCAA
19932378 TACACATCTAATCCAATACACCTCTAATCCAA
1 TACACATCTAATCCAATACACCTCTAATCCAA
19932410 TACA
1 TACA
19932414 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (32 bp):
TACACATCTAATCCAATACACCTCTAATCCAA
Found at i:19932830 original size:29 final size:27
Alignment explanation
Indices: 19932785--19932851 Score: 64
Period size: 29 Copynumber: 2.3 Consensus size: 27
19932775 TCAATTAAGT
*
19932785 AATCTTACATTTCATCAATAAAAT-AACAA
1 AATCTTA-ATTCCATC-ATAAAATCAA-AA
*
19932814 AATCTTAATTCCAATCATCAAATCAAAA
1 AATCTTAATTCC-ATCATAAAATCAAAA
19932842 AGATCTTAAT
1 A-ATCTTAAT
19932852 ACGGAACGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 13 0.39
29 20 0.61
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.31
Consensus pattern (27 bp):
AATCTTAATTCCATCATAAAATCAAAA
Found at i:19933405 original size:42 final size:42
Alignment explanation
Indices: 19933346--19933632 Score: 263
Period size: 42 Copynumber: 6.8 Consensus size: 42
19933336 AGCTGAATCA
* * *
19933346 TAGGACCGGTCACGCCTTCTATAGTATCGATCATCAGGTGAG
1 TAGGAACGGTCCCGCCTTCTGTAGTATCGATCATCAGGTGAG
*
19933388 TAGGAACGGTCCCGCCTTCTGTAGTATCGATCGTCAGGTGAG
1 TAGGAACGGTCCCGCCTTCTGTAGTATCGATCATCAGGTGAG
* * *
19933430 TAGGAACGATCCCACCTTCTGTAGTACCGATCATCAGGTGCA-
1 TAGGAACGGTCCCGCCTTCTGTAGTATCGATCATCAGGTG-AG
* * *
19933472 TAAGAACGGTCCCGCCTTCTATAGTATCCATCATCAGGTGAG
1 TAGGAACGGTCCCGCCTTCTGTAGTATCGATCATCAGGTGAG
* * * * * * * * *
19933514 TAGGAACGGTTCTGCCTGCGGTAGTAAC-AGTCCTCGGGAGTG
1 TAGGAACGGTCCCGCCTTCTGTAGTATCGA-TCATCAGGTGAG
* * ** * * * *
19933556 TAAGATCTATCACACCTTCTGTAGTATTGATCATCAGGAGAG
1 TAGGAACGGTCCCGCCTTCTGTAGTATCGATCATCAGGTGAG
** * *
19933598 TAGGAACGGTCCCATCTTCTATAGTAGCGATCATC
1 TAGGAACGGTCCCGCCTTCTGTAGTATCGATCATC
19933633 TGACGATCCG
Statistics
Matches: 192, Mismatches: 49, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
41 2 0.01
42 188 0.98
43 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (42 bp):
TAGGAACGGTCCCGCCTTCTGTAGTATCGATCATCAGGTGAG
Found at i:19933577 original size:126 final size:126
Alignment explanation
Indices: 19933352--19933632 Score: 332
Period size: 126 Copynumber: 2.2 Consensus size: 126
19933342 ATCATAGGAC
* * * *
19933352 CGGTCACGCCTTCTATAGTATCGATCATCAGGTGAGTAGGAACGGTCCCGCCTTCTGTAGTATCG
1 CGGTCCCGCCTTCTATAGTATCGATCATCAGGTGAGTAGGAACGGTCCCGCCTGCGGTAGTAACG
* * * * *
19933417 ATCGTCAGGTGAGTAGGAACGATCCCACCTTCTGTAGTACCGATCATCAGGTGCA-TAAGAA
66 ATCCTCAGGAGAGTAAGAACGATCACACCTTCTGTAGTACCGATCATCAGGAG-AGTAAGAA
* * *
19933478 CGGTCCCGCCTTCTATAGTATCCATCATCAGGTGAGTAGGAACGGTTCTGCCTGCGGTAGTAAC-
1 CGGTCCCGCCTTCTATAGTATCGATCATCAGGTGAGTAGGAACGGTCCCGCCTGCGGTAGTAACG
* * * * ** *
19933542 AGTCCTCGGGAGTGTAAGATCTATCACACCTTCTGTAGTATTGATCATCAGGAGAGTAGGAA
66 A-TCCTCAGGAGAGTAAGAACGATCACACCTTCTGTAGTACCGATCATCAGGAGAGTAAGAA
** *
19933604 CGGTCCCATCTTCTATAGTAGCGATCATC
1 CGGTCCCGCCTTCTATAGTATCGATCATC
19933633 TGACGATCCG
Statistics
Matches: 130, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
125 2 0.02
126 128 0.98
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (126 bp):
CGGTCCCGCCTTCTATAGTATCGATCATCAGGTGAGTAGGAACGGTCCCGCCTGCGGTAGTAACG
ATCCTCAGGAGAGTAAGAACGATCACACCTTCTGTAGTACCGATCATCAGGAGAGTAAGAA
Found at i:19942690 original size:20 final size:20
Alignment explanation
Indices: 19942661--19942734 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
19942651 TGTAGTGCTA
*
19942661 GCACCGAAGTGCAAATAGAG
1 GCACCGAAGTGCAAATAGGG
* * **
19942681 ACACCAAAGTATAAATAGGG
1 GCACCGAAGTGCAAATAGGG
*
19942701 GCACCGAAGTGCAAACAGGG
1 GCACCGAAGTGCAAATAGGG
19942721 GCACCGAAGTGCAA
1 GCACCGAAGTGCAA
19942735 TCTCCTACGA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.41, C:0.22, G:0.28, T:0.09
Consensus pattern (20 bp):
GCACCGAAGTGCAAATAGGG
Found at i:19955220 original size:22 final size:22
Alignment explanation
Indices: 19955192--19955237 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
19955182 GTGTTGGGTC
19955192 CAAAGGATCTAATTTAACGTTG
1 CAAAGGATCTAATTTAACGTTG
19955214 CAAAGGATCTAATTTAACGTTG
1 CAAAGGATCTAATTTAACGTTG
19955236 CA
1 CA
19955238 TAGTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (22 bp):
CAAAGGATCTAATTTAACGTTG
Found at i:19964499 original size:26 final size:26
Alignment explanation
Indices: 19964464--19964549 Score: 88
Period size: 26 Copynumber: 3.4 Consensus size: 26
19964454 ACAGCTCTTA
* *
19964464 TGAGCGTCCCAA-TATATGGCTCTTCG
1 TGAGCTTCCCAATTA-AAGGCTCTTCG
* *
19964490 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCAATTAAAGGCTCTTCG
* *
19964516 TGAGCTTCCC-GTTAAAGGCTCTCCG
1 TGAGCTTCCCAATTAAAGGCTCTTCG
19964541 -GAGCTTCCC
1 TGAGCTTCCC
19964550 GATATGACTC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
24 9 0.17
25 12 0.23
26 29 0.56
27 2 0.04
ACGTcount: A:0.17, C:0.29, G:0.23, T:0.30
Consensus pattern (26 bp):
TGAGCTTCCCAATTAAAGGCTCTTCG
Found at i:19964549 original size:24 final size:26
Alignment explanation
Indices: 19964481--19964552 Score: 112
Period size: 26 Copynumber: 2.8 Consensus size: 26
19964471 CCCAATATAT
19964481 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
*
19964507 GGCTCTTTGTGAGCTTCCCG-TTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
*
19964532 GGCTCTCCG-GAGCTTCCCGAT
1 GGCTCTTCGTGAGCTTCCCGAT
19964553 ATGACTCACT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 10 0.24
25 13 0.31
26 19 0.45
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:19970889 original size:41 final size:40
Alignment explanation
Indices: 19970844--19970970 Score: 137
Period size: 41 Copynumber: 3.1 Consensus size: 40
19970834 TATGATTTTG
* *
19970844 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTCA
1 TGTAAGACCATGTCTGGGACA-TGGCATCGTATGTGATACA
* * *
19970885 TGTAAGACCCTGTCTGGGACAAAGGCATCGATATGTGAAAACA
1 TGTAAGACCATGTCTGGGAC-ATGGCATCG-TATGTG-ATACA
* * * *
19970928 TGTAAGACCATATCTGGGATATGGCATTGTATGTGATATA
1 TGTAAGACCATGTCTGGGACATGGCATCGTATGTGATACA
19970968 TGT
1 TGT
19970971 GTTTCTGAGC
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
40 6 0.08
41 32 0.45
42 13 0.18
43 20 0.28
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (40 bp):
TGTAAGACCATGTCTGGGACATGGCATCGTATGTGATACA
Found at i:19976930 original size:22 final size:22
Alignment explanation
Indices: 19976902--19976949 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
19976892 AAAATTCTAA
19976902 TGGTTTTGATTTAATCTCGATT
1 TGGTTTTGATTTAATCTCGATT
19976924 TGGTTTTGATTTAATCTCGATT
1 TGGTTTTGATTTAATCTCGATT
19976946 TGGT
1 TGGT
19976950 CCCGATGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.17, C:0.08, G:0.21, T:0.54
Consensus pattern (22 bp):
TGGTTTTGATTTAATCTCGATT
Found at i:19977695 original size:26 final size:25
Alignment explanation
Indices: 19977665--19977749 Score: 75
Period size: 26 Copynumber: 3.4 Consensus size: 25
19977655 CTTATGAGTG
*
19977665 TCCCGATATATGGCTCTTCGCGAGCT
1 TCCCGATATAAGGCTCTTCG-GAGCT
*
19977691 TCCCGAT-TAAAGGCTCTTTGTGAGCT
1 TCCCGATAT-AAGGCTCTTCG-GAGCT
* * *
19977717 TCTCGTTA-AAGGCTCTTCGAAGCT
1 TCCCGATATAAGGCTCTTCGGAGCT
*
19977741 TCCTGATAT
1 TCCCGATAT
19977750 GGCTCGCTTG
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
24 9 0.20
25 11 0.24
26 26 0.57
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (25 bp):
TCCCGATATAAGGCTCTTCGGAGCT
Found at i:19977731 original size:25 final size:26
Alignment explanation
Indices: 19977676--19977743 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
19977666 CCCGATATAT
19977676 GGCTCTTCGCGAGCTTCCCGATTAAA
1 GGCTCTTCGCGAGCTTCCCGATTAAA
* * *
19977702 GGCTCTTTGTGAGCTTCTCG-TTAAA
1 GGCTCTTCGCGAGCTTCCCGATTAAA
*
19977727 GGCTCTTCG-AAGCTTCC
1 GGCTCTTCGCGAGCTTCC
19977744 TGATATGGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 6 0.17
25 13 0.36
26 17 0.47
ACGTcount: A:0.16, C:0.28, G:0.24, T:0.32
Consensus pattern (26 bp):
GGCTCTTCGCGAGCTTCCCGATTAAA
Found at i:19977812 original size:24 final size:24
Alignment explanation
Indices: 19977665--19977825 Score: 89
Period size: 24 Copynumber: 6.6 Consensus size: 24
19977655 CTTATGAGTG
*
19977665 TCCCGATATATGGCTCTTCGCGAGCT
1 TCCCGTTA-ATGGCTCTTCG-GAGCT
* *
19977691 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCG-TTAATGGCTCTTCG-GAGCT
* * *
19977717 TCTCGTTAAAGGCTCTTCGAAGCT
1 TCCCGTTAATGGCTCTTCGGAGCT
* * *
19977741 TCCTGAT-ATGGCTCGCTT--GAACT
1 TCCCGTTAATGGCT--CTTCGGAGCT
* * *
19977764 TCCCGAT-A-GAGCTATTCAGAGCT
1 TCCCGTTAATG-GCTCTTCGGAGCT
*
19977787 TCCCGTTAATGGCTCTTTGGAGCT
1 TCCCGTTAATGGCTCTTCGGAGCT
* *
19977811 TCTCGTTATTGGCTC
1 TCCCGTTAATGGCTC
19977826 GCATGAGCTT
Statistics
Matches: 105, Mismatches: 22, Indels: 18
0.72 0.15 0.12
Matches are distributed among these distances:
21 2 0.02
22 1 0.01
23 28 0.27
24 32 0.30
25 17 0.16
26 23 0.22
27 2 0.02
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.34
Consensus pattern (24 bp):
TCCCGTTAATGGCTCTTCGGAGCT
Found at i:19981640 original size:30 final size:31
Alignment explanation
Indices: 19981606--19981666 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
19981596 CTTTATAATA
*
19981606 TAATAATAGTTATATA-TGTATTAATATTTT
1 TAATAATAGTTATATATTATATTAATATTTT
*
19981636 TAATAATAGTTATATATTATATTATTATTTT
1 TAATAATAGTTATATATTATATTAATATTTT
19981667 ATGTATTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (31 bp):
TAATAATAGTTATATATTATATTAATATTTT
Found at i:19981690 original size:29 final size:29
Alignment explanation
Indices: 19981633--19981740 Score: 94
Period size: 29 Copynumber: 3.7 Consensus size: 29
19981623 GTATTAATAT
* * *
19981633 TTTTAATAATAGTTATATATTATATTATTA
1 TTTTATTATTAGTAATATATTAT-TTATTA
19981663 TTTTATGTATTAGTAATAT-TTATTTATTA
1 TTTTAT-TATTAGTAATATATTATTTATTA
* * * **
19981692 TATTATTACTAG-CATATATTACACTATTA
1 TTTTATTATTAGTAATATATTA-TTTATTA
19981721 TTTTATTTATTAGTAATATA
1 TTTTA-TTATTAGTAATATA
19981741 CAAATTTAGT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
27 4 0.06
28 8 0.13
29 20 0.32
30 15 0.24
31 15 0.24
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.56
Consensus pattern (29 bp):
TTTTATTATTAGTAATATATTATTTATTA
Found at i:19986981 original size:14 final size:13
Alignment explanation
Indices: 19986962--19987030 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 13
19986952 CACAAACTAA
19986962 TCCTCTCTCAAATT
1 TCCTCTCT-AAATT
19986976 T-C-CTCTAAATT
1 TCCTCTCTAAATT
19986987 TCCTCTC--AATT
1 TCCTCTCTAAATT
*
19986998 TGCTCTC--AATT
1 TCCTCTCTAAATT
19987009 TCCTCT-TAAATT
1 TCCTCTCTAAATT
19987021 T-CTCT-TAAAT
1 TCCTCTCTAAAT
19987031 CCCTATTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
11 34 0.69
12 10 0.20
13 4 0.08
14 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.01, T:0.46
Consensus pattern (13 bp):
TCCTCTCTAAATT
Found at i:19986987 original size:11 final size:11
Alignment explanation
Indices: 19986966--19987022 Score: 69
Period size: 11 Copynumber: 5.0 Consensus size: 11
19986956 AACTAATCCT
19986966 CTCTCAAATTTC
1 CTCT-AAATTTC
19986978 CTCTAAATTTC
1 CTCTAAATTTC
* *
19986989 CTCTCAATTTG
1 CTCTAAATTTC
*
19987000 CTCTCAATTTC
1 CTCTAAATTTC
19987011 CTCTTAAATTTC
1 CTC-TAAATTTC
19987023 TCTTAAATCC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
11 29 0.73
12 11 0.28
ACGTcount: A:0.23, C:0.30, G:0.02, T:0.46
Consensus pattern (11 bp):
CTCTAAATTTC
Found at i:19986997 original size:22 final size:23
Alignment explanation
Indices: 19986966--19987030 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 23
19986956 AACTAATCCT
19986966 CTCTCAAATTTCCTCTAAATTTC
1 CTCTCAAATTTCCTCTAAATTTC
* *
19986989 CTCTC-AATTTGCTCTCAATTTC
1 CTCTCAAATTTCCTCTAAATTTC
*
19987011 CTCTTAAATTT-CTCTTAAAT
1 CTCTCAAATTTCCTC-TAAAT
19987031 CCCTATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 22 0.61
23 14 0.39
ACGTcount: A:0.25, C:0.28, G:0.02, T:0.46
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTAAATTTC
Found at i:19988196 original size:7 final size:7
Alignment explanation
Indices: 19988184--19988223 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
19988174 TAGTCGATTG
19988184 GTATTTA
1 GTATTTA
19988191 GTATTTA
1 GTATTTA
19988198 GTATTTA
1 GTATTTA
19988205 GTATTTA
1 GTATTTA
19988212 GTATTTA
1 GTATTTA
19988219 GTATT
1 GTATT
19988224 ATGTATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:19991747 original size:125 final size:125
Alignment explanation
Indices: 19991488--19991906 Score: 678
Period size: 125 Copynumber: 3.4 Consensus size: 125
19991478 CCCAAACATG
* * * * * *
19991488 CTACTATAGCAAAAGCGCGTCCACGAGGGTGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTATTCTCAAATAGCATCCTCC
* *
19991553 TAGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCTAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCTAGGAC
*
19991612 CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTCATAAATTATTCTCAAATAGCATCCTCC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTATTCTCAAATAGCATCCTCC
19991677 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCTAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCTAGGAC
*
19991737 CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTCATAAATTATTCTCAAATAGCATCCTCC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTATTCTCAAATAGCATCCTCC
* *
19991802 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCCAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTA-TTTTTCTAGGAC
* * * *
19991863 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCAGAAAT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAAT
19991907 CCTTCTGATA
Statistics
Matches: 277, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
124 65 0.23
125 162 0.58
126 50 0.18
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTATTCTCAAATAGCATCCTCC
TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCTAGGAC
Found at i:19997368 original size:4 final size:4
Alignment explanation
Indices: 19997359--19997383 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
19997349 GCAAAAGAAA
19997359 AAAC AAAC AAAC AAAC AAAC AAAC A
1 AAAC AAAC AAAC AAAC AAAC AAAC A
19997384 TTAATCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:19999228 original size:12 final size:13
Alignment explanation
Indices: 19999190--19999228 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
19999180 GGCCCGACTG
19999190 TATTAATTTTTTA
1 TATTAATTTTTTA
*
19999203 TATTATTATTTTTA
1 TATTAAT-TTTTTA
19999217 TA-TAATTTTTTA
1 TATTAATTTTTTA
19999229 AAAAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 9 0.39
14 8 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTAATTTTTTA
Found at i:19999392 original size:17 final size:19
Alignment explanation
Indices: 19999372--19999406 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
19999362 TTAAAATAGT
19999372 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
19999389 AACAAAAGTTATACAATA
1 AACAAAAGTTATACAATA
19999407 TCCAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:20007537 original size:13 final size:13
Alignment explanation
Indices: 20007511--20007549 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
20007501 ACCTAAGTTC
*
20007511 ATAACAGAAGCAG
1 ATAACAGAATCAG
*
20007524 ATATCAGAATCAG
1 ATAACAGAATCAG
20007537 ATAACAG-ATCAG
1 ATAACAGAATCAG
20007549 A
1 A
20007550 CGTACATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.15
Consensus pattern (13 bp):
ATAACAGAATCAG
Found at i:20012980 original size:85 final size:84
Alignment explanation
Indices: 20012881--20013087 Score: 270
Period size: 85 Copynumber: 2.4 Consensus size: 84
20012871 CGCTTACAGA
*
20012881 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTAAGAAAATAAACGCCACTAAAGATAAT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAA-AAACGCCACTAAAGATAAT
*
20012946 ATTCTTTAGCGACGCTTAGG
65 ATTCTTTAGCGACACTTAGG
* ** * * *** * *
20012966 AAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTGGGAGAAAACGCTGTTAAAGATCATG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAAAAACGCCACTAAAGATAATA
* *
20013031 TTCTTTAGTGGCACTTAGG
66 TTCTTTAGCGACACTTAGG
20013050 AAGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC
1 AA-AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC
20013088 GTGGTCAAAA
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 33 0.31
85 73 0.69
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (84 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAGAAAAAAACGCCACTAAAGATAATA
TTCTTTAGCGACACTTAGG
Found at i:20012984 original size:42 final size:42
Alignment explanation
Indices: 20012862--20013132 Score: 287
Period size: 42 Copynumber: 6.4 Consensus size: 42
20012852 ACGTCGCTAA
* * *
20012862 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGAACATGTT
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAGATCATGTT
* * * * *
20012906 CTTTAGCGGCGCTAAGAAAATAAACGCCACTAAAGATAATATT
1 CTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATCATGTT
*
20012949 CTTTAGCGACGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* * * * *
20012991 CTTTAGTGGCGCTTGGGAGAAAACGCTGTTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
20013033 CTTTAGTGGCACTTAGGAAGAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGATCATGTT
* *
20013076 CTTTAGCGGCGCGT-GGTCAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAAAGA-TCA-TGTT
*
20013118 CTTTAGCTGCGCTTA
1 CTTTAGCGGCGCTTA
20013133 TTTCACAATC
Statistics
Matches: 192, Mismatches: 29, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.01
42 110 0.57
43 68 0.35
44 12 0.06
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:20013118 original size:85 final size:81
Alignment explanation
Indices: 20012881--20013124 Score: 265
Period size: 85 Copynumber: 2.9 Consensus size: 81
20012871 CGCTTACAGA
* * *
20012881 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTAAGAAAATAAACGCCACTAAAGATAAT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCT--GGAAA-AAACGCCGCTAAAGAT-AT
* *
20012946 ATTCTTTAGCGACGCTTAGG
62 GTTCTTTAGCGACACTTAGG
* * * *
20012966 AAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTGGGAGAAAACGCTGTTAAAGATCATG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-T-GGAAAAAACGCCGCTAAAGAT-ATG
* *
20013031 TTCTTTAGTGGCACTTAGG
63 TTCTTTAGCGACACTTAGG
*
20013050 AAGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCGTGGTCAAAAACGCCGCTAAA-AGTAG
1 AA-AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TGG-AAAAAACGCCGCTAAAGA-TA-
20013114 TGTTCTTTAGC
61 TGTTCTTTAGC
20013125 TGCGCTTATT
Statistics
Matches: 134, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
84 37 0.28
85 96 0.72
86 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (81 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTGGAAAAAACGCCGCTAAAGATATGTTC
TTTAGCGACACTTAGG
Found at i:20013118 original size:127 final size:127
Alignment explanation
Indices: 20012883--20013131 Score: 301
Period size: 127 Copynumber: 2.0 Consensus size: 127
20012873 CTTACAGAAA
*
20012883 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTAAGAAAATAAACGCCACTAAAGATAATAT
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCACTAAGAAAATAAACGCCACTAAAGATAATAT
*
20012948 TCTTTAGCGACGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAG-TGGCGCTTGGGAG
66 TCTTTAGCGACGCGTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCT-GCGCTTGGGAG
* * * * * * * * *
20013010 AAAACGCTGTTAAAGATCATGTTCTTTAGTGGCACTTAGGAAGA-AAACGCCGCTAAAGATCATG
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCAC-TAAGAAAATAAACGCCACTAAAGATAATA
* *
20013074 TTCTTTAGCGGCGCGT-GGTCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCTGCGCTT
65 TTCTTTAGCGACGCGTAGG-AAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCTGCGCTT
20013132 ATTTCACAAT
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
126 4 0.04
127 93 0.89
128 7 0.07
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (127 bp):
AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCACTAAGAAAATAAACGCCACTAAAGATAATAT
TCTTTAGCGACGCGTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCTGCGCTTGGGAG
Found at i:20013604 original size:21 final size:21
Alignment explanation
Indices: 20013580--20013648 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
20013570 GCTTCTATCG
*
20013580 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
20013601 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
20013622 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
20013643 CTGCTT
1 CTGCTT
20013649 TAAGTTGTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.01, C:0.43, G:0.20, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:20018441 original size:9 final size:9
Alignment explanation
Indices: 20018424--20018976 Score: 180
Period size: 9 Copynumber: 64.2 Consensus size: 9
20018414 TAAGTATAAT
*
20018424 TAAGCTATG
1 TAAGTTATG
20018433 TAAGTTATG
1 TAAGTTATG
20018442 T-A-TTATG
1 TAAGTTATG
20018449 TAAGTTAT-
1 TAAGTTATG
*
20018457 TTA-TTATG
1 TAAGTTATG
* *
20018465 AAAATTATG
1 TAAGTTATG
*
20018474 TAAGTTGTG
1 TAAGTTATG
20018483 T-A-TTATG
1 TAAGTTATG
*
20018490 -AA--AAT-
1 TAAGTTATG
* *
20018495 TATGCTATG
1 TAAGTTATG
20018504 TAAGTTATG
1 TAAGTTATG
* *
20018513 TAAGTCATA
1 TAAGTTATG
20018522 TAAGTTATG
1 TAAGTTATG
20018531 T-A-TTATG
1 TAAGTTATG
20018538 TAAGTTATG
1 TAAGTTATG
20018547 TAAGTTAT-
1 TAAGTTATG
*
20018555 TTA-TTATG
1 TAAGTTATG
* * *
20018563 AAAATTAAG
1 TAAGTTATG
20018572 TAAGTTATG
1 TAAGTTATG
*
20018581 TAATTTATG
1 TAAGTTATG
*
20018590 -AA-TAAT-
1 TAAGTTATG
***
20018596 TAAAAAAATG
1 T-AAGTTATG
20018606 TAAGTTATG
1 TAAGTTATG
20018615 TAAG-T-TG
1 TAAGTTATG
20018622 TAAGTTATG
1 TAAGTTATG
20018631 TAAGTTATG
1 TAAGTTATG
*
20018640 TATA-ATAT-
1 TA-AGTTATG
20018648 TAA-TTAAT-
1 TAAGTT-ATG
20018656 TAAGTTATG
1 TAAGTTATG
*
20018665 TAATTTATG
1 TAAGTTATG
*
20018674 TATAATATTAATG
1 --TAA-GTT-ATG
20018687 TAAGTTATG
1 TAAGTTATG
*
20018696 TAATTTATG
1 TAAGTTATG
20018705 T-A--TAT-
1 TAAGTTATG
20018710 TAA-TTAAT-
1 TAAGTT-ATG
20018718 TAAGTTATG
1 TAAGTTATG
*
20018727 TAATTTATG
1 TAAGTTATG
* *
20018736 TATAATATTAAAG
1 --TAA-GTT-ATG
20018749 TAAGTTATG
1 TAAGTTATG
*
20018758 TAATTTATG
1 TAAGTTATG
*
20018767 -AA-TAAT-
1 TAAGTTATG
***
20018773 TAAAAAAATG
1 T-AAGTTATG
20018783 TAAGTTATG
1 TAAGTTATG
20018792 TAAG-T-TG
1 TAAGTTATG
20018799 TAAGTTATG
1 TAAGTTATG
20018808 TAAGTTATG
1 TAAGTTATG
*
20018817 TATA-ATAT-
1 TA-AGTTATG
20018825 TAA-TTAAT-
1 TAAGTT-ATG
20018833 TAAGTTATG
1 TAAGTTATG
*
20018842 TAATTTATG
1 TAAGTTATG
*
20018851 TATAATATTAATG
1 --TAA-GTT-ATG
20018864 TAAGTTATG
1 TAAGTTATG
*
20018873 TAATTTATG
1 TAAGTTATG
20018882 -AA--TAT-
1 TAAGTTATG
20018887 TAA-TTAAT-
1 TAAGTT-ATG
20018895 TAAGTTATG
1 TAAGTTATG
*
20018904 TAATTTATG
1 TAAGTTATG
*
20018913 TATAATATTAATG
1 --TAA-GTT-ATG
20018926 TAAGTTATG
1 TAAGTTATG
*
20018935 TAATTTATG
1 TAAGTTATG
20018944 -AA--TAT-
1 TAAGTTATG
20018949 TAA-TTAAT-
1 TAAGTT-ATG
20018957 TAAGTTATG
1 TAAGTTATG
*
20018966 TAATTTATG
1 TAAGTTATG
20018975 TA
1 TA
20018977 TAATATTAAT
Statistics
Matches: 422, Mismatches: 58, Indels: 128
0.69 0.10 0.21
Matches are distributed among these distances:
5 1 0.00
6 17 0.04
7 50 0.12
8 69 0.16
9 230 0.55
10 12 0.03
11 24 0.06
12 8 0.02
13 11 0.03
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:20018450 original size:16 final size:16
Alignment explanation
Indices: 20018429--20018548 Score: 96
Period size: 16 Copynumber: 7.9 Consensus size: 16
20018419 ATAATTAAGC
20018429 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
20018445 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
20018461 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
*
20018470 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
20018486 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
20018500 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
20018518 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
20018534 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
20018549 AGTTATTTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 11 0.14
15 2 0.03
16 45 0.56
17 1 0.01
18 12 0.15
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:20018471 original size:25 final size:25
Alignment explanation
Indices: 20018443--20018597 Score: 129
Period size: 25 Copynumber: 6.2 Consensus size: 25
20018433 TAAGTTATGT
20018443 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
20018468 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
20018493 ATTATGCTATG-TA---AGTTATGTAA
1 ATTATG-TAAGTTATTTA-TTATGAAA
* * * * *
20018516 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATTATGAAA
*
20018541 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
20018566 ATTAAGTAAGTTATGTAATTTATGAATA
1 ATTATGTAAGTTAT-TTA-TTATGAA-A
20018594 ATTA
1 ATTA
20018598 AAAAAATGTA
Statistics
Matches: 105, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
22 4 0.04
23 12 0.11
25 71 0.68
26 6 0.06
27 7 0.07
28 5 0.05
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATTTATTATGAAA
Found at i:20018575 original size:34 final size:35
Alignment explanation
Indices: 20018469--20019006 Score: 136
Period size: 34 Copynumber: 15.2 Consensus size: 35
20018459 ATTATGAAAA
* *
20018469 TTATGTAAGTTGTGTATTATGAAAATTATGCTATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTA----ATGTAAG
*
20018508 TTATGTAAGTCATAT-AAGTTATG--TATT-ATGTAAG
1 TTATGTAAGT--TATGAA-TTATGAAAATTAATGTAAG
**
20018542 TTATGTAAGTTATTTATTATGAAAATTAA-GTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * * *
20018576 TTATGTAATTTATGAATAATTAAAA-AAATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * *
20018610 TTATGTAAGTTGT-AAGTTATGTAAGTT-ATGTATA-
1 TTATGTAAGTTATGAA-TTATGAAAATTAATGTA-AG
* * * * *
20018644 ATAT-TAA-TTAATTAAGTTATG-TAATTTATGTATAATA
1 TTATGTAAGTT-ATGAA-TTATGAAAATTAATG--TAA-G
20018681 TTAATGTAAGTTATGTAATTTATGTATATTAATTAAT-TAAG
1 TT-ATGTAAGTTATG-AA-TTATG-A-A--AATTAATGTAAG
* * *
20018722 TTATGTAATTTATG---TAT-AATATTAAAGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * * *
20018753 TTATGTAATTTATGAATAATTAAAA-AAATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * *
20018787 TTATGTAAGTTGT-AAGTTATGTAAGTT-ATGTATA-
1 TTATGTAAGTTATGAA-TTATGAAAATTAATGTA-AG
* * * * *
20018821 ATAT-TAA-TTAATTAAGTTATG-TAATTTATGTATAATA
1 TTATGTAAGTT-ATGAA-TTATGAAAATTAATG--TAA-G
20018858 TTAATGTAAGTTATGTAATTTATGAATATTAATTAAT-TAAG
1 TT-ATGTAAGTTATG-AA-TTATG-A-A--AATTAATGTAAG
* *
20018899 TTATGTAATTTATG---TAT-AATATTAATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* *
20018930 TTATGTAATTTATGAA-TAT--TAATTAAT-TAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * *
20018961 TTATGTAATTTATGTATAATATTAATTAATTAAT-TAAG
1 TTATGTAAGTTATG-A-ATTATGAA--AATTAATGTAAG
20018999 TTATGTAA
1 TTATGTAA
20019007 TCGAGGATGT
Statistics
Matches: 381, Mismatches: 57, Indels: 123
0.68 0.10 0.22
Matches are distributed among these distances:
30 11 0.03
31 54 0.14
32 21 0.06
33 27 0.07
34 132 0.35
35 14 0.04
36 4 0.01
37 2 0.01
38 23 0.06
39 23 0.06
40 41 0.11
41 11 0.03
42 6 0.02
45 12 0.03
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.46
Consensus pattern (35 bp):
TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
Found at i:20018625 original size:16 final size:16
Alignment explanation
Indices: 20018604--20018636 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20018594 ATTAAAAAAA
20018604 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
20018620 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
20018636 T
1 T
20018637 ATGTATAATA
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:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:20018625 original size:50 final size:50
Alignment explanation
Indices: 20018571--20018844 Score: 136
Period size: 62 Copynumber: 4.9 Consensus size: 50
20018561 TGAAAATTAA
*
20018571 GTAAGTTATGTAATTTATGAATAAT-TAAAAAAATGTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTTATGAATAATATAAAAAAAT-TAAGTTATGTAAGTT
* * ** *
20018621 GTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAT
1 GTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAA-GT-T
* * ** *
20018673 GTATAATATTAATGTAAGTTATGTAATTTATGTATATTAATTAATTAAGTTATGTAATTTAT
1 G--TAA-GTT-ATGTAAGTTATG-AA--TA---ATATAAAAAAATTAAGTTATGTAA-GT-T
* *
20018735 GTATAATATTAAAGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTAAGTT
1 G--TAA-GTT-ATGTAAGTTATG--A---AT-AAT-A-TAAAAAAAT-TAAGTTATGTAAGTT
* * **
20018798 GTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAA
1 GTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAA
20018845 TTTATGTATA
Statistics
Matches: 183, Mismatches: 20, Indels: 42
0.75 0.08 0.17
Matches are distributed among these distances:
50 47 0.26
51 13 0.07
52 3 0.02
53 3 0.02
54 5 0.03
55 2 0.01
56 12 0.07
57 1 0.01
59 13 0.07
60 2 0.01
61 3 0.02
62 53 0.29
63 4 0.02
64 8 0.04
65 13 0.07
66 1 0.01
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.45
Consensus pattern (50 bp):
GTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAAGTT
Found at i:20018631 original size:25 final size:25
Alignment explanation
Indices: 20018500--20018641 Score: 89
Period size: 25 Copynumber: 5.6 Consensus size: 25
20018490 AAAATTATGC
*
20018500 TATGTAAGTTATGTAAGTCATATAAGT
1 TATGTAAGTTATGTAAGT--TGTAAGT
20018527 TATGT-A-TTATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAG-T-TGTAAGT
* * *
20018552 TAT-TTA-TTATGAAAATTAAGTAAGT
1 TATGTAAGTTATGTAAGTT--GTAAGT
* * **
20018577 TATGTAATTTATGAATAA-TT-AAAAA
1 TATGTAAGTTATG--TAAGTTGTAAGT
*
20018602 AATGTAAGTTATGTAAGTTGTAAGT
1 TATGTAAGTTATGTAAGTTGTAAGT
20018627 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
20018642 TAATATTAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
23 4 0.04
24 4 0.04
25 65 0.71
26 4 0.04
27 10 0.11
28 2 0.02
29 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.43
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTGTAAGT
Found at i:20018694 original size:22 final size:21
Alignment explanation
Indices: 20018660--20018759 Score: 68
Period size: 22 Copynumber: 4.8 Consensus size: 21
20018650 ATTAATTAAG
*
20018660 TTATGTAATTTATGTATAATA
1 TTATGTAAGTTATGTATAATA
20018681 TTAATGTAAGTTATG--TAAT-
1 TT-ATGTAAGTTATGTATAATA
*
20018700 TTATGTATA-TTAAT-TAATTAA-G
1 TTATGTA-AGTT-ATGT-A-TAATA
*
20018722 TTATGTAATTTATGTATAATA
1 TTATGTAAGTTATGTATAATA
*
20018743 TTAAAGTAAGTTATGTA
1 TT-ATGTAAGTTATGTA
20018760 ATTTATGAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 23
0.70 0.04 0.26
Matches are distributed among these distances:
18 7 0.11
19 5 0.08
20 7 0.11
21 8 0.13
22 36 0.57
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (21 bp):
TTATGTAAGTTATGTATAATA
Found at i:20018694 original size:31 final size:31
Alignment explanation
Indices: 20018620--20018986 Score: 413
Period size: 31 Copynumber: 12.0 Consensus size: 31
20018610 TTATGTAAGT
*
20018620 TGTAAGTTATGTAAGTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
*
20018651 TTAATTAAGTTATGTAATTTATGTATAATATTAA
1 -T--GTAAGTTATGTAATTTATGTATAATATTAA
*
20018685 TGTAAGTTATGTAATTTATGTATATTAATTAA
1 TGTAAGTTATGTAATTTATGTATAAT-ATTAA
20018717 T-TAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* * **
20018747 AGTAAGTTATGTAATTTATGAATAATTAAAAAAA
1 TGTAAGTTATGTAATTTATGTATAA-T--ATTAA
* *
20018781 TGTAAGTTATGTAA-GT-TG--TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
20018806 TGTAAGTTATGT-A--TA-ATATTA-ATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
20018832 T-TAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
20018862 TGTAAGTTATGTAATTTATGAATATTAATTAA
1 TGTAAGTTATGTAATTTATGTATAAT-ATTAA
20018894 T-TAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
20018924 TGTAAGTTATGTAATTTATGAATATTAATTAA
1 TGTAAGTTATGTAATTTATGTATAAT-ATTAA
20018956 T-TAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
20018986 T
1 T
20018987 TAATTAATTA
Statistics
Matches: 288, Mismatches: 27, Indels: 42
0.81 0.08 0.12
Matches are distributed among these distances:
23 1 0.00
24 1 0.00
25 27 0.09
26 3 0.01
28 2 0.01
29 4 0.01
30 26 0.09
31 156 0.54
32 22 0.08
33 2 0.01
34 44 0.15
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (31 bp):
TGTAAGTTATGTAATTTATGTATAATATTAA
Found at i:20018728 original size:62 final size:62
Alignment explanation
Indices: 20018620--20018986 Score: 533
Period size: 62 Copynumber: 6.0 Consensus size: 62
20018610 TTATGTAAGT
*
20018620 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATG---AATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
*
20018685 TGTAAGTTATGTAATTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
* ** * *
20018747 AGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTAA-GT-TG--TAA-GTT-A
1 TGTAAGTTATGTAATTTATGAAT-ATT-AATTAAT-TAAGTTATGTAATTTATGTATAATATTAA
20018806 TGTAAGTTATG-----TAT-AATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
20018862 TGTAAGTTATGTAATTTATGAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
20018924 TGTAAGTTATGTAATTTATGAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
20018986 T
1 T
20018987 TAATTAATTA
Statistics
Matches: 274, Mismatches: 13, Indels: 33
0.86 0.04 0.10
Matches are distributed among these distances:
50 12 0.04
51 6 0.02
52 5 0.02
53 3 0.01
54 6 0.02
55 2 0.01
56 12 0.04
59 11 0.04
60 2 0.01
61 6 0.02
62 167 0.61
63 5 0.02
64 6 0.02
65 31 0.11
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (62 bp):
TGTAAGTTATGTAATTTATGAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
Found at i:20018769 original size:177 final size:177
Alignment explanation
Indices: 20018553--20018968 Score: 743
Period size: 177 Copynumber: 2.4 Consensus size: 177
20018543 TATGTAAGTT
*
20018553 ATTTAT-TATGAAAATT-AAGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGT
1 ATTTATGTAT-AATATTAAAGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGT
20018616 AAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATA
65 AAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATA
*
20018681 TTAATGTAAGTTATGTAATTTATGTATATTAATTAATTAAGTTATGTA
130 TTAATGTAAGTTATGTAATTTATGAATATTAATTAATTAAGTTATGTA
20018729 ATTTATGTATAATATTAAAGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTA
1 ATTTATGTATAATATTAAAGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTA
20018794 AGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
66 AGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
20018859 TAATGTAAGTTATGTAATTTATGAATATTAATTAATTAAGTTATGTA
131 TAATGTAAGTTATGTAATTTATGAATATTAATTAATTAAGTTATGTA
* **
20018906 ATTTATGTATAATATTAATGTAAGTTATGTAATTTATGAAT-ATT-AATTAAT-TAAGTTATGTA
1 ATTTATGTATAATATTAAAGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTA
20018968 A
66 A
20018969 TTTATGTATA
Statistics
Matches: 233, Mismatches: 5, Indels: 6
0.95 0.02 0.02
Matches are distributed among these distances:
174 12 0.05
175 5 0.02
176 14 0.06
177 202 0.87
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.46
Consensus pattern (177 bp):
ATTTATGTATAATATTAAAGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTA
AGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
TAATGTAAGTTATGTAATTTATGAATATTAATTAATTAAGTTATGTA
Found at i:20018802 original size:16 final size:16
Alignment explanation
Indices: 20018781--20018813 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20018771 ATTAAAAAAA
20018781 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
20018797 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
20018813 T
1 T
20018814 ATGTATAATA
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:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:20018871 original size:22 final size:22
Alignment explanation
Indices: 20018839--20018936 Score: 73
Period size: 22 Copynumber: 4.6 Consensus size: 22
20018829 TAATTAAGTT
*
20018839 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
* *
20018861 ATGTAAGTTATGTA-ATTTATGA
1 ATGTAAGTTATGTATA-ATATTA
* * *
20018883 ATATTAA-TTA-AT-TAA-GTT-
1 AT-GTAAGTTATGTATAATATTA
*
20018901 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
20018923 ATGTAAGTTATGTA
1 ATGTAAGTTATGTA
20018937 ATTTATGAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
17 3 0.05
18 5 0.09
19 2 0.04
20 3 0.05
21 5 0.09
22 35 0.62
23 3 0.05
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:20019243 original size:18 final size:18
Alignment explanation
Indices: 20019221--20019263 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
20019211 AAAAATCAGA
20019221 AAAAATAACAAAAAATTT
1 AAAAATAACAAAAAATTT
* ** *
20019239 TAAAATTTCAACAAATTT
1 AAAAATAACAAAAAATTT
20019257 AAAAATA
1 AAAAATA
20019264 TTCATAAAAA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATAACAAAAAATTT
Found at i:20019586 original size:18 final size:18
Alignment explanation
Indices: 20019563--20019651 Score: 110
Period size: 18 Copynumber: 4.8 Consensus size: 18
20019553 ATATATAAAT
20019563 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
20019581 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAATGTAA--TAT--A
*
20019603 TTTTAGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
20019620 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
20019638 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
20019652 GTAAGTAATG
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
17 14 0.22
18 30 0.48
19 3 0.05
20 3 0.05
21 4 0.06
22 9 0.14
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:20019622 original size:39 final size:37
Alignment explanation
Indices: 20019546--20019651 Score: 144
Period size: 39 Copynumber: 2.8 Consensus size: 37
20019536 TTTAAGTAAT
*
20019546 GTAATATATATATAAATTTTAAGTAATGTAATATATTTAA
1 GTAATGTA-ATATAAATTTT-AGTAA-GTAATATATTTAA
20019586 GTAATGTAAGTTATAAATTTTAGTAAGTAATATATTTAA
1 GTAATGTAA--TATAAATTTTAGTAAGTAATATATTTAA
20019625 GTAATGTAATAT--ATTTTAGTAAGTAAT
1 GTAATGTAATATAAATTTTAGTAAGTAAT
20019652 GTAAGTAATG
Statistics
Matches: 63, Mismatches: 1, Indels: 9
0.86 0.01 0.12
Matches are distributed among these distances:
35 15 0.24
37 3 0.05
39 23 0.37
40 12 0.19
41 10 0.16
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (37 bp):
GTAATGTAATATAAATTTTAGTAAGTAATATATTTAA
Found at i:20019633 original size:22 final size:22
Alignment explanation
Indices: 20019534--20019660 Score: 85
Period size: 22 Copynumber: 6.0 Consensus size: 22
20019524 AGCTAATTTT
20019534 TATTTAAGTAATGTAA-T-ATA
1 TATTTAAGTAATGTAAGTAATA
* *
20019554 TATATAAATTTTAA-GTAATGTAATA
1 TAT-TTAA--GTAATGTAA-GTAATA
*
20019579 TATTTAAGTAATGTAAGTTATA
1 TATTTAAGTAATGTAAGTAATA
*
20019601 AATTT---T-A-GTAAGTAATA
1 TATTTAAGTAATGTAAGTAATA
20019618 TATTTAAGTAATGTAA-T-ATA
1 TATTTAAGTAATGTAAGTAATA
*
20019638 TTTTAGTAAGTAATGTAAGTAAT
1 TATT--TAAGTAATGTAAGTAAT
20019661 GTAATATATA
Statistics
Matches: 82, Mismatches: 9, Indels: 28
0.69 0.08 0.24
Matches are distributed among these distances:
17 13 0.16
18 1 0.01
19 1 0.01
20 10 0.12
21 5 0.06
22 32 0.39
23 8 0.10
24 6 0.07
25 6 0.07
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (22 bp):
TATTTAAGTAATGTAAGTAATA
Found at i:20019685 original size:57 final size:56
Alignment explanation
Indices: 20019538--20019698 Score: 143
Period size: 57 Copynumber: 2.8 Consensus size: 56
20019528 AATTTTTATT
20019538 TAAGTAATGTAATATATATATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAAG
1 TAAGTAATGTAATATATATAT-AATTTT-AGTAATGTAATATATTTAAGTAATGTAAG
* * * * *
20019596 TTA-TAAATTTTAGTA-AGTA-ATATATTTAAGTAATGTAATATATTTTAGTAA-GTAATG
1 TAAGT-AA-TGTAATATA-TATATA-ATTTTAGTAATGTAATATATTTAAGTAATGTAA-G
* * *
20019653 TAAGTAATGTAATATATACTGTAATTTTAGTAA-GTCATGTATTTAA
1 TAAGTAATGTAATATATA-TATAATTTTAGTAATGTAATATATTTAA
20019699 CATTCTGTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
56 21 0.26
57 39 0.48
58 14 0.17
59 7 0.09
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.43
Consensus pattern (56 bp):
TAAGTAATGTAATATATATATAATTTTAGTAATGTAATATATTTAAGTAATGTAAG
Found at i:20020294 original size:18 final size:18
Alignment explanation
Indices: 20020272--20020314 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
20020262 AAAAATCAGA
20020272 AAAAATAACAAAAAATTT
1 AAAAATAACAAAAAATTT
* ** *
20020290 TAAAATTTCAACAAATTT
1 AAAAATAACAAAAAATTT
20020308 AAAAATA
1 AAAAATA
20020315 TTCATAAAAA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATAACAAAAAATTT
Found at i:20022464 original size:24 final size:24
Alignment explanation
Indices: 20022422--20022469 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
20022412 ACCCCTAAAG
* * *
20022422 CATAACCCTTAACCCTTAAATCCC
1 CATAACCCCTAAACATTAAATCCC
20022446 CATAACCCCTAAACATTAAATCCC
1 CATAACCCCTAAACATTAAATCCC
20022470 AAACCCTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.23
Consensus pattern (24 bp):
CATAACCCCTAAACATTAAATCCC
Found at i:20022893 original size:114 final size:114
Alignment explanation
Indices: 20022672--20022908 Score: 330
Period size: 114 Copynumber: 2.1 Consensus size: 114
20022662 AATTATTTTC
* * * * *
20022672 AATCCTTGAGCATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGACAACTCAGAAAACGG
1 AATCCCTGAGCATTAGCGGCACTTTCCTAAAAACACCGCTAAAACCCCGACAACTCAGAAAACAG
* * **
20022737 CGTCGTTGGTCTTAGGTATTTTTGAAGCGCTTTCCCAAAAACGCTGCTA
66 CGTCGTTGGTCTTAGGTATTTTTGAAGCGCTTACACAAAAACGCCACTA
* *
20022786 AATCCCTGAGCATTAGCGGCACTTTTCTAAAAACACCGCTAAAACCCCGACAGCTCAGAAAACAG
1 AATCCCTGAGCATTAGCGGCACTTTCCTAAAAACACCGCTAAAACCCCGACAACTCAGAAAACAG
** * * *
20022851 CGTCGTTGGTCTTAGGTATTTTTGCGGCTCTTACATAGAAACGCCACTA
66 CGTCGTTGGTCTTAGGTATTTTTGAAGCGCTTACACAAAAACGCCACTA
20022900 AATCCCTGA
1 AATCCCTGA
20022909 CAGCTCAAAA
Statistics
Matches: 107, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
114 107 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (114 bp):
AATCCCTGAGCATTAGCGGCACTTTCCTAAAAACACCGCTAAAACCCCGACAACTCAGAAAACAG
CGTCGTTGGTCTTAGGTATTTTTGAAGCGCTTACACAAAAACGCCACTA
Found at i:20022966 original size:73 final size:73
Alignment explanation
Indices: 20022814--20022979 Score: 215
Period size: 73 Copynumber: 2.3 Consensus size: 73
20022804 GCACTTTTCT
* * * * *
20022814 AAAAACACCGCTAAAACCCCGACAGCTCAGAAAACAGCGTCGTTGGTCTTAGGTATTTTTGCGGC
1 AAAAACGCCGCTAAATCCCTGACAGCTCAAAAAACAGCATCGTTGGTCTTAGGTATTTTTGCGGC
* *
20022879 TCTTACAT
66 GCTTACAC
* * *
20022887 AGAAACGCCACTAAATCCCTGACAGCTCAAAAAACGGCATCGTTGGTCTTAGGTATTTTTGCGGC
1 AAAAACGCCGCTAAATCCCTGACAGCTCAAAAAACAGCATCGTTGGTCTTAGGTATTTTTGCGGC
* *
20022952 GCTTTCCC
66 GCTTACAC
*
20022960 AAAAACGCCGTTAAATCCCT
1 AAAAACGCCGCTAAATCCCT
20022980 AAGCATTAGC
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (73 bp):
AAAAACGCCGCTAAATCCCTGACAGCTCAAAAAACAGCATCGTTGGTCTTAGGTATTTTTGCGGC
GCTTACAC
Found at i:20023014 original size:114 final size:114
Alignment explanation
Indices: 20022874--20023183 Score: 442
Period size: 114 Copynumber: 2.7 Consensus size: 114
20022864 AGGTATTTTT
* * * * *
20022874 GCGGCTCTTACATAGAAACGCCACTAAATCCCTGACAGCTCAAAAAACGGCATCGTTGGTCTTAG
1 GCGGCGCTTACATAGAAATGCCACTAAATCCCCGACAGCTCAAAAAACGGCGTCGTTGGCCTTAG
* *
20022939 GTATTTTTGCGGCGCTTTCCCAAAAACGCCGTTAAATCCCTAAGCATTA
66 GTATTTTTGTGGCGCTTTCCCAAAAACGCCGCTAAATCCCTAAGCATTA
* * *
20022988 GCGGCGCTTACCTAGAAATGCCACTAAATCCCCGACAGCTCAGAAAACAGCGTCGTTGGCCTTAG
1 GCGGCGCTTACATAGAAATGCCACTAAATCCCCGACAGCTCAAAAAACGGCGTCGTTGGCCTTAG
* *
20023053 GTATTTTTGTGGTGCTTTCCCAAAAACGCCGCTAAATCCCTGAGCATTA
66 GTATTTTTGTGGCGCTTTCCCAAAAACGCCGCTAAATCCCTAAGCATTA
* * * * * * *
20023102 GCAGCGCTTACTTAGAAATGCCATTAAATCCCCGAAAGCTCCAAAAACGGTGTCGTTGGGCTTAG
1 GCGGCGCTTACATAGAAATGCCACTAAATCCCCGACAGCTCAAAAAACGGCGTCGTTGGCCTTAG
20023167 GT-TTTTTGTGGCGCTTT
66 GTATTTTTGTGGCGCTTT
20023184 TCTGGAAACG
Statistics
Matches: 174, Mismatches: 22, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
113 14 0.08
114 160 0.92
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (114 bp):
GCGGCGCTTACATAGAAATGCCACTAAATCCCCGACAGCTCAAAAAACGGCGTCGTTGGCCTTAG
GTATTTTTGTGGCGCTTTCCCAAAAACGCCGCTAAATCCCTAAGCATTA
Found at i:20023082 original size:187 final size:188
Alignment explanation
Indices: 20022687--20023095 Score: 581
Period size: 187 Copynumber: 2.2 Consensus size: 188
20022677 TTGAGCATTA
* * *
20022687 GCGGC-GCTTTCCTAAAAACGCCGCTAAATCCCCGACAACTCAGAAAACGGCGTCGTTGGTCTTA
1 GCGGCTGCTTTCCTAAAAACGCCGCTAAATCCCTGACAACTCAAAAAACGGCATCGTTGGTCTTA
* * **
20022751 GGTATTTTTGAAGCGCTTTCCCAAAAACGCTGCTAAATCCCTGAGCATTAGCGGCACTTTTCTAA
66 GGTATTTTTGAAGCGCTTTCCCAAAAACGCCGCTAAATCCCTAAGCATTAGCGGCACTTACCTAA
* *
20022816 AAACACCGCTAAAACCCCGACAGCTCAGAAAACAGCGTCGTTGGTCTTAGGTATTTTT
131 AAACACCACTAAAACCCCGACAGCTCAGAAAACAGCGTCGTTGGCCTTAGGTATTTTT
* * * * *
20022874 GCGGCT-CTTACATAGAAACGCCACTAAATCCCTGACAGCTCAAAAAACGGCATCGTTGGTCTTA
1 GCGGCTGCTTTCCTAAAAACGCCGCTAAATCCCTGACAACTCAAAAAACGGCATCGTTGGTCTTA
** * * *
20022938 GGTATTTTTGCGGCGCTTTCCCAAAAACGCCGTTAAATCCCTAAGCATTAGCGGCGCTTACCTAG
66 GGTATTTTTGAAGCGCTTTCCCAAAAACGCCGCTAAATCCCTAAGCATTAGCGGCACTTACCTAA
** *
20023003 AAATGCCACTAAATCCCCGACAGCTCAGAAAACAGCGTCGTTGGCCTTAGGTATTTTT
131 AAACACCACTAAAACCCCGACAGCTCAGAAAACAGCGTCGTTGGCCTTAGGTATTTTT
* *
20023061 GTGG-TGCTTTCCCAAAAACGCCGCTAAATCCCTGA
1 GCGGCTGCTTTCCTAAAAACGCCGCTAAATCCCTGA
20023096 GCATTAGCAG
Statistics
Matches: 192, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
186 1 0.01
187 191 0.99
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (188 bp):
GCGGCTGCTTTCCTAAAAACGCCGCTAAATCCCTGACAACTCAAAAAACGGCATCGTTGGTCTTA
GGTATTTTTGAAGCGCTTTCCCAAAAACGCCGCTAAATCCCTAAGCATTAGCGGCACTTACCTAA
AAACACCACTAAAACCCCGACAGCTCAGAAAACAGCGTCGTTGGCCTTAGGTATTTTT
Found at i:20026468 original size:26 final size:26
Alignment explanation
Indices: 20026439--20026492 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
20026429 CTCAGTACAA
* *
20026439 TTTCAGAAAGAAGTAACTATAGTGTT
1 TTTCAAAAAGAACTAACTATAGTGTT
**
20026465 TTTCAAAAAGTTCTAACTATAGTGTT
1 TTTCAAAAAGAACTAACTATAGTGTT
20026491 TT
1 TT
20026493 CTAAATTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (26 bp):
TTTCAAAAAGAACTAACTATAGTGTT
Found at i:20030910 original size:26 final size:25
Alignment explanation
Indices: 20030854--20030916 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 25
20030844 TAGCTCTTAT
* *
20030854 GAGCTTACCATTATTTAGGTCGGAG
1 GAGCTTACCATTATTTAGCTCAGAG
* *
20030879 GAGCTTATCGTTATTTCAGCTCAGAG
1 GAGCTTACCATTATTT-AGCTCAGAG
20030905 GAGCTTACCATT
1 GAGCTTACCATT
20030917 TACAGCTCGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (25 bp):
GAGCTTACCATTATTTAGCTCAGAG
Found at i:20031513 original size:56 final size:56
Alignment explanation
Indices: 20031446--20031634 Score: 132
Period size: 56 Copynumber: 3.2 Consensus size: 56
20031436 TGATTTGGCT
*
20031446 TGTGTTTTGGTATATTTTGCTATGTAGATATATAAATGGTCTTATCATGTTTGATG
1 TGTGGTTTGGTATATTTTGCTATGTAGATATATAAATGGTCTTATCATGTTTGATG
* * * * * * * * * *
20031502 TGTGGTTTGGTATGGTTAATGATA-GCCTACATGTTTTATTAT-GTTTTAGCCATTTGATTTGGC
1 TGTGGTTTGGTAT-ATT-TTGCTATG--TAGAT-ATATA-AATGGTCTTA-TCA--TG-TTT-GA
20031565 T-
55 TG
* * *
20031566 TGTGTTTTGGTATATTTTGCTATGTAGATATATAAATGGCCTAATCATGTTTGATG
1 TGTGGTTTGGTATATTTTGCTATGTAGATATATAAATGGTCTTATCATGTTTGATG
20031622 TGTGGTTTGGTAT
1 TGTGGTTTGGTAT
20031635 GGTTAACATG
Statistics
Matches: 94, Mismatches: 25, Indels: 28
0.64 0.17 0.19
Matches are distributed among these distances:
55 2 0.02
56 27 0.29
57 5 0.05
58 4 0.04
59 8 0.09
60 14 0.15
61 8 0.09
62 4 0.04
63 5 0.05
64 15 0.16
65 2 0.02
ACGTcount: A:0.21, C:0.07, G:0.23, T:0.49
Consensus pattern (56 bp):
TGTGGTTTGGTATATTTTGCTATGTAGATATATAAATGGTCTTATCATGTTTGATG
Found at i:20031553 original size:120 final size:120
Alignment explanation
Indices: 20031394--20031640 Score: 476
Period size: 120 Copynumber: 2.1 Consensus size: 120
20031384 ATAGTTATTT
20031394 TGGTTAATGATAGCCTACATGTTTTATTATGTTTTAGCCATTTGATTTGGCTTGTGTTTTGGTAT
1 TGGTTAATGATAGCCTACATGTTTTATTATGTTTTAGCCATTTGATTTGGCTTGTGTTTTGGTAT
* *
20031459 ATTTTGCTATGTAGATATATAAATGGTCTTATCATGTTTGATGTGTGGTTTGGTA
66 ATTTTGCTATGTAGATATATAAATGGCCTAATCATGTTTGATGTGTGGTTTGGTA
20031514 TGGTTAATGATAGCCTACATGTTTTATTATGTTTTAGCCATTTGATTTGGCTTGTGTTTTGGTAT
1 TGGTTAATGATAGCCTACATGTTTTATTATGTTTTAGCCATTTGATTTGGCTTGTGTTTTGGTAT
20031579 ATTTTGCTATGTAGATATATAAATGGCCTAATCATGTTTGATGTGTGGTTTGGTA
66 ATTTTGCTATGTAGATATATAAATGGCCTAATCATGTTTGATGTGTGGTTTGGTA
20031634 TGGTTAA
1 TGGTTAA
20031641 CATGTAAATT
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 125 1.00
ACGTcount: A:0.21, C:0.08, G:0.23, T:0.48
Consensus pattern (120 bp):
TGGTTAATGATAGCCTACATGTTTTATTATGTTTTAGCCATTTGATTTGGCTTGTGTTTTGGTAT
ATTTTGCTATGTAGATATATAAATGGCCTAATCATGTTTGATGTGTGGTTTGGTA
Found at i:20032152 original size:15 final size:15
Alignment explanation
Indices: 20032134--20032170 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
20032124 TTAGCTGTGT
20032134 GTGACACACAGCTAG
1 GTGACACACAGCTAG
*
20032149 GTGATACACAGCTAG
1 GTGACACACAGCTAG
20032164 GTGACAC
1 GTGACAC
20032171 GGCCATGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.16
Consensus pattern (15 bp):
GTGACACACAGCTAG
Found at i:20034110 original size:19 final size:20
Alignment explanation
Indices: 20034086--20034124 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
20034076 CATATGTATT
*
20034086 TTTTGC-ACATTTGAAATTC
1 TTTTGCTACATTTAAAATTC
20034105 TTTTGCTTACATTTAAAATT
1 TTTTGC-TACATTTAAAATT
20034125 TGGTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (20 bp):
TTTTGCTACATTTAAAATTC
Found at i:20034571 original size:30 final size:31
Alignment explanation
Indices: 20034512--20034575 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
20034502 ACTTAACAAG
*
20034512 CAAATGCCTCTAAAATAATAACAAAAATTAA
1 CAAATGACTCTAAAATAATAACAAAAATTAA
*
20034543 CAAATGACTTTAAAATAATAAC-AAAATTAA
1 CAAATGACTCTAAAATAATAACAAAAATTAA
20034573 CAA
1 CAA
20034576 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.23
Consensus pattern (31 bp):
CAAATGACTCTAAAATAATAACAAAAATTAA
Found at i:20036159 original size:17 final size:19
Alignment explanation
Indices: 20036132--20036166 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20036122 CAAATTGAAA
20036132 ATACATTAAAA-AATATTC
1 ATACATTAAAACAATATTC
20036150 ATAC-TTAAAACAATATT
1 ATACATTAAAACAATATT
20036167 AAGGACGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (19 bp):
ATACATTAAAACAATATTC
Found at i:20036437 original size:21 final size:22
Alignment explanation
Indices: 20036388--20036451 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 22
20036378 ATATCCAAAT
* ***
20036388 AATAACAACAAAATAGTTGCAA
1 AATAATAACAAAATAGCAACAA
*
20036410 TATAATAACAAAATA-CAACAA
1 AATAATAACAAAATAGCAACAA
**
20036431 AATAATAGTAAAATAGCAACA
1 AATAATAACAAAATAGCAACA
20036452 GAAAAAAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
21 15 0.45
22 18 0.55
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (22 bp):
AATAATAACAAAATAGCAACAA
Found at i:20036802 original size:3 final size:3
Alignment explanation
Indices: 20036794--20036836 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
20036784 GGAAATCCAC
20036794 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
20036837 TTTTCTACCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:20037405 original size:16 final size:17
Alignment explanation
Indices: 20037331--20037407 Score: 59
Period size: 16 Copynumber: 4.3 Consensus size: 17
20037321 TAAGATAACA
20037331 TTTAAATAAATATAT-GT
1 TTTAAA-AAATATATAGT
* *
20037348 TTTAAAAATTATTTAGT
1 TTTAAAAAATATATAGT
*
20037365 TTTAAAACAAAGAAATATCAGT
1 TTT--AA-AAA-ATATAT-AGT
20037387 TTTAAAAAATATATA-T
1 TTTAAAAAATATATAGT
20037403 TTTAA
1 TTTAA
20037408 GAATATTAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
16 12 0.25
17 12 0.25
18 5 0.10
19 5 0.10
20 5 0.10
21 3 0.06
22 6 0.12
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (17 bp):
TTTAAAAAATATATAGT
Found at i:20038111 original size:15 final size:14
Alignment explanation
Indices: 20038091--20038131 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 14
20038081 AAGGTTGGGT
20038091 TTTAGGGTTTATATA
1 TTTAGGGTTTAT-TA
20038106 TTTAGGGGTCTTATTA
1 TTTA-GGGT-TTATTA
20038122 TTTAGGGTTT
1 TTTAGGGTTT
20038132 GAGGGTGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 8 0.33
16 10 0.42
17 4 0.17
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (14 bp):
TTTAGGGTTTATTA
Found at i:20038703 original size:22 final size:21
Alignment explanation
Indices: 20038677--20038776 Score: 78
Period size: 22 Copynumber: 4.5 Consensus size: 21
20038667 TCAAGATAAA
20038677 TATTAAATTAAATATTAAATCT
1 TATTAAATTAAATATTAAAT-T
*
20038699 TATTAAATT-AATA-GAATATT
1 TATTAAATTAAATATTAA-ATT
* * *
20038719 TATTTACAAGATAAACAATAAATT
1 TA-TTA-AA-TTAAATATTAAATT
*
20038743 AAATTAAATTAAATATTAAATCT
1 -TATTAAATTAAATATTAAAT-T
20038766 TATTAAATTAA
1 TATTAAATTAA
20038777 TAAAATATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
20 5 0.08
21 9 0.15
22 31 0.51
23 4 0.07
24 9 0.15
25 3 0.05
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (21 bp):
TATTAAATTAAATATTAAATT
Found at i:20038746 original size:57 final size:57
Alignment explanation
Indices: 20038645--20038817 Score: 192
Period size: 67 Copynumber: 2.9 Consensus size: 57
20038635 ATCATTTTAA
* * *
20038645 TATTAAATTAATATAAGATTTA--T-CAAGATAAATATTAAATTAAATATTAAATCT
1 TATTAAATTAATAAAATATTTATTTACAAGATAAACATTAAATTAAATATTAAATCT
*
20038699 TATTAAATTAATAGAATATTTATTTACAAGATAAACAATAAATTAAATTAAATTAAATATTAAAT
1 TATTAAATTAATAAAATATTTATTTACAAGATAAAC----------ATTAAATTAAATATTAAAT
20038764 CT
56 CT
20038766 TATTAAATTAATAAAATATTTATTTACAAGATAAACATTAAATTAAAT-TTAA
1 TATTAAATTAATAAAATATTTATTTACAAGATAAACATTAAATTAAATATTAA
20038818 TATTAAGATA
Statistics
Matches: 102, Mismatches: 4, Indels: 24
0.78 0.03 0.18
Matches are distributed among these distances:
54 20 0.20
56 5 0.05
57 21 0.21
67 56 0.55
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (57 bp):
TATTAAATTAATAAAATATTTATTTACAAGATAAACATTAAATTAAATATTAAATCT
Found at i:20038752 original size:67 final size:67
Alignment explanation
Indices: 20038678--20038823 Score: 256
Period size: 67 Copynumber: 2.1 Consensus size: 67
20038668 CAAGATAAAT
*
20038678 ATTAAATTAAATATTAAATCTTATTAAATTAATAGAATATTTATTTACAAGATAAACAATAAATT
1 ATTAAATTAAATATTAAATCTTATTAAATTAATAAAATATTTATTTACAAGATAAACAATAAATT
20038743 AA
66 AA
*
20038745 ATTAAATTAAATATTAAATCTTATTAAATTAATAAAATATTTATTTACAAGATAAACATTAAATT
1 ATTAAATTAAATATTAAATCTTATTAAATTAATAAAATATTTATTTACAAGATAAACAATAAATT
20038810 AA
66 AA
20038812 ATTTAATATTAA
1 A-TTAA-ATTAA
20038824 GATAATTACT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
67 66 0.88
68 4 0.05
69 5 0.07
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (67 bp):
ATTAAATTAAATATTAAATCTTATTAAATTAATAAAATATTTATTTACAAGATAAACAATAAATT
AA
Found at i:20039289 original size:19 final size:19
Alignment explanation
Indices: 20039265--20039301 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
20039255 AAAATATCAT
20039265 ATTAATTTTAA-TTAATTTG
1 ATTAA-TTTAATTTAATTTG
20039284 ATTAATTTAATTTAATTT
1 ATTAATTTAATTTAATTT
20039302 AATTTTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTAATTTAATTTAATTTG
Found at i:20039295 original size:5 final size:5
Alignment explanation
Indices: 20039266--20039306 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
20039256 AAATATCATA
*
20039266 TTAATT TTAA- TTAAT TTGA- TTAAT TTAAT TTAAT TTAAT TT
1 TTAA-T TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TT
20039307 TATCAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
4 7 0.23
5 20 0.65
6 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (5 bp):
TTAAT
Found at i:20039306 original size:10 final size:9
Alignment explanation
Indices: 20039265--20039305 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
20039255 AAAATATCAT
20039265 ATTAATTTTA
1 ATTAA-TTTA
*
20039275 ATTAATTTG
1 ATTAATTTA
20039284 ATTAATTTA
1 ATTAATTTA
20039293 ATTTAATTTA
1 A-TTAATTTA
20039303 ATT
1 ATT
20039306 TTATCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 14 0.50
10 14 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (9 bp):
ATTAATTTA
Found at i:20047227 original size:14 final size:14
Alignment explanation
Indices: 20047208--20047234 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20047198 ATATTTTTTT
20047208 TCCATAAATTGAAA
1 TCCATAAATTGAAA
20047222 TCCATAAATTGAA
1 TCCATAAATTGAA
20047235 CCATCCATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (14 bp):
TCCATAAATTGAAA
Found at i:20047869 original size:24 final size:24
Alignment explanation
Indices: 20047824--20047869 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
20047814 TAACAGTTTT
* *
20047824 AGAAGGAGCTGGTGAAGTAGGATC
1 AGAAGGAGCTAGTGAAGCAGGATC
*
20047848 AGAAGGAGCTAGTGGAGCAGGA
1 AGAAGGAGCTAGTGAAGCAGGA
20047870 GTTGCTGCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.43, T:0.13
Consensus pattern (24 bp):
AGAAGGAGCTAGTGAAGCAGGATC
Found at i:20051804 original size:50 final size:50
Alignment explanation
Indices: 20051740--20051935 Score: 221
Period size: 50 Copynumber: 3.9 Consensus size: 50
20051730 CATTGAGATC
* *
20051740 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAG
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * * *
20051790 ACGAAAGGTCCCATGTAAGACCATGTCCGGAACATGGCGTTCGCACCGAG
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * * * * * *
20051840 ATGAGAGGTCCCCTGTAAGATCATGTATGGGACATGGCATGGGCACCGAT
1 ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * * *
20051890 ATGAGAACATCCCATGTAAAACCATGTCTAGGACATGGCTTTGGCA
1 ATGA-AAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
20051936 TGTTGTTATC
Statistics
Matches: 118, Mismatches: 27, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 87 0.74
51 31 0.26
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:20054168 original size:29 final size:31
Alignment explanation
Indices: 20054130--20054188 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
20054120 GGAGGTGGGA
*
20054130 TGGGAAGGGAATAAAAGTTTT-AGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTGAGGGAAAAG
* *
20054160 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTGAGGGAAAA
20054189 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGAGGGAAAAG
Found at i:20054358 original size:21 final size:21
Alignment explanation
Indices: 20054324--20054364 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20054314 GGGGGAAAGT
*
20054324 GGGAAGGAGTAAAAGTTTTGA
1 GGGAAGGAGTAAAAGGTTTGA
20054345 GGGAA-GAGTAAAAAGGTTTG
1 GGGAAGGAGT-AAAAGGTTTG
20054365 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.22
Consensus pattern (21 bp):
GGGAAGGAGTAAAAGGTTTGA
Found at i:20054416 original size:9 final size:9
Alignment explanation
Indices: 20054402--20054438 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
20054392 TATAGTTTGA
20054402 TATTCGAAT
1 TATTCGAAT
20054411 TATTCGAAT
1 TATTCGAAT
*
20054420 TATTCGAGT
1 TATTCGAAT
20054429 TATTCGAAT
1 TATTCGAAT
20054438 T
1 T
20054439 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:20054508 original size:9 final size:9
Alignment explanation
Indices: 20054492--20054522 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
20054482 TCGAGTTGAT
20054492 TCGAATAAC
1 TCGAATAAC
*
20054501 TTGAATAAC
1 TCGAATAAC
20054510 TCGAATAAC
1 TCGAATAAC
20054519 TCGA
1 TCGA
20054523 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:20054708 original size:4 final size:4
Alignment explanation
Indices: 20054699--20054744 Score: 74
Period size: 4 Copynumber: 11.2 Consensus size: 4
20054689 GTGATAAACA
*
20054699 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AATAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT -ACAT ACAT ACAT A
20054745 AACATTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
4 36 0.92
5 3 0.08
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:20054827 original size:22 final size:19
Alignment explanation
Indices: 20054815--20054861 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
20054805 CATGACATAT
20054815 GTAATATACAAACATAATA
1 GTAATATACAAACATAATA
* *
20054834 GTAATATA-ACACATAACA
1 GTAATATACAAACATAATA
20054852 --AATATACAAA
1 GTAATATACAAA
20054862 TATACATACA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 6 0.25
17 2 0.08
18 8 0.33
19 8 0.33
ACGTcount: A:0.60, C:0.13, G:0.04, T:0.23
Consensus pattern (19 bp):
GTAATATACAAACATAATA
Found at i:20054849 original size:18 final size:18
Alignment explanation
Indices: 20054764--20054849 Score: 59
Period size: 18 Copynumber: 4.4 Consensus size: 18
20054754 AAACAGTCAT
20054764 ACACATAATAGTAATATA
1 ACACATAATAGTAATATA
* *
20054782 CCATATAATA-TACATACATTA
1 ACACATAATAGTA-AT--A-TA
20054803 A-ACATGACATATGTAATATA
1 ACACAT-A-ATA-GTAATATA
*
20054823 CAAACATAATAGTAATATA
1 -ACACATAATAGTAATATA
20054842 ACACATAA
1 ACACATAA
20054850 CAAATATACA
Statistics
Matches: 53, Mismatches: 5, Indels: 20
0.68 0.06 0.26
Matches are distributed among these distances:
17 2 0.04
18 17 0.32
19 8 0.15
20 9 0.17
21 6 0.11
22 7 0.13
23 2 0.04
24 2 0.04
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (18 bp):
ACACATAATAGTAATATA
Found at i:20054865 original size:43 final size:43
Alignment explanation
Indices: 20054817--20054905 Score: 128
Period size: 43 Copynumber: 2.0 Consensus size: 43
20054807 TGACATATGT
20054817 AATATACAAACATAATAGTA-ATATAAC-ACATAACAAATATACA
1 AATATACAAACATAATA-TATATATAACAACAT-ACAAATATACA
*
20054860 AATATACATACATAATATATATATAACATACATACAAATATACA
1 AATATACAAACATAATATATATATAACA-ACATACAAATATACA
20054904 AA
1 AA
20054906 CATAACATAC
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
42 2 0.05
43 23 0.55
44 13 0.31
45 4 0.10
ACGTcount: A:0.60, C:0.13, G:0.01, T:0.26
Consensus pattern (43 bp):
AATATACAAACATAATATATATATAACAACATACAAATATACA
Found at i:20054874 original size:25 final size:24
Alignment explanation
Indices: 20054836--20054919 Score: 79
Period size: 25 Copynumber: 3.6 Consensus size: 24
20054826 ACATAATAGT
*
20054836 AATATA-ACACATAACAAATATACA
1 AATATACATACAT-ACAAATATACA
*
20054860 AATATACATACAT---AATATATA
1 AATATACATACATACAAATATACA
*
20054881 TATA-ACATACATACAAATATACA
1 AATATACATACATACAAATATACA
*
20054904 AACATAACATACATAC
1 AATAT-ACATACATAC
20054920 TTAACAGTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
20 8 0.17
21 10 0.21
23 9 0.19
24 6 0.12
25 15 0.31
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (24 bp):
AATATACATACATACAAATATACA
Found at i:20054882 original size:60 final size:60
Alignment explanation
Indices: 20054766--20054919 Score: 134
Period size: 60 Copynumber: 2.5 Consensus size: 60
20054756 ACAGTCATAC
* * * * * *
20054766 ACATAATAGTAATATACCATATAATATACATACATTAAACATGACATATGTAATATACAA
1 ACATAATAGTAATATAACACATAACAAACATACAATAAACATGACATATATAATATACAA
* * *
20054826 ACATAATAGTAATATAACACATAACAAATATACAAATATACAT-ACATA-ATATATATA-TA
1 ACATAATAGTAATATAACACATAACAAACATAC-AATAAACATGACATATATA-ATATACAA
** * *
20054885 ACATACATACAAATATACAAACATAACATACATAC
1 ACATA-ATAGTAATATA-ACACATAACAAACATAC
20054920 TTAACAGTAA
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
59 8 0.11
60 47 0.62
61 21 0.28
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (60 bp):
ACATAATAGTAATATAACACATAACAAACATACAATAAACATGACATATATAATATACAA
Found at i:20055670 original size:21 final size:21
Alignment explanation
Indices: 20055618--20055677 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
20055608 AGAGTTTTGA
* *
20055618 GTTTAGAGTTCATGGTTTACT
1 GTTTAGTGTTTATGGTTTACT
* *
20055639 G-TTCGTGGTTTATGGTTTAGT
1 GTTTAGT-GTTTATGGTTTACT
20055660 GTTTAGTGTTTAGTGGTT
1 GTTTAGTGTTTA-TGGTT
20055678 AGAAGCATAG
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.10
21 19 0.61
22 9 0.29
ACGTcount: A:0.13, C:0.05, G:0.30, T:0.52
Consensus pattern (21 bp):
GTTTAGTGTTTATGGTTTACT
Found at i:20055710 original size:22 final size:22
Alignment explanation
Indices: 20055685--20055736 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
20055675 GTTAGAAGCA
**
20055685 TAGGGTTTA-GGGGTTATGGGCT
1 TAGGGTTTAGGGGGTCGT-GGCT
*
20055707 TAGGGTCTAGGGGGTCGTGGCT
1 TAGGGTTTAGGGGGTCGTGGCT
20055729 TAGGGTTT
1 TAGGGTTT
20055737 TGGATTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.12, C:0.08, G:0.46, T:0.35
Consensus pattern (22 bp):
TAGGGTTTAGGGGGTCGTGGCT
Found at i:20055767 original size:23 final size:22
Alignment explanation
Indices: 20055735--20055797 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
20055725 GGCTTAGGGT
*
20055735 TTTGGATTTAAGGGTTTATAGG
1 TTTGGGTTTAAGGGTTTATAGG
*
20055757 TTATGGGTTT-AGTGGTTTATTGG
1 TT-TGGGTTTAAG-GGTTTATAGG
20055780 TTTAGGGTTTAA-GGTTTA
1 TTT-GGGTTTAAGGGTTTA
20055798 AAGTTTAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 11 0.31
23 23 0.66
24 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (22 bp):
TTTGGGTTTAAGGGTTTATAGG
Found at i:20055781 original size:16 final size:15
Alignment explanation
Indices: 20055757--20055790 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
20055747 GGTTTATAGG
20055757 TTATGGGTTTAGTGGT
1 TTATGGGTTTAG-GGT
*
20055773 TTATTGGTTTAGGGT
1 TTATGGGTTTAGGGT
20055788 TTA
1 TTA
20055791 AGGTTTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (15 bp):
TTATGGGTTTAGGGT
Found at i:20055797 original size:14 final size:14
Alignment explanation
Indices: 20055762--20055999 Score: 71
Period size: 14 Copynumber: 17.0 Consensus size: 14
20055752 ATAGGTTATG
*
20055762 GGTTTAGTGGTTTATT
1 GGTTTAG-GGTTTA-A
20055778 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
**
20055792 GGTTTAAAGTTTAA
1 GGTTTAGGGTTTAA
*
20055806 AGTTTAGGG-TTAA
1 GGTTTAGGGTTTAA
20055819 --TTTAGGGTTTACA
1 GGTTTAGGGTTTA-A
* *
20055832 -GTTTAAGGTGT-A
1 GGTTTAGGGTTTAA
* * *
20055844 TGTTTAGCGTATAA
1 GGTTTAGGGTTTAA
* * *
20055858 AGTTTAAGGTTTAT
1 GGTTTAGGGTTTAA
* **
20055872 GATTTAATG-TTAA
1 GGTTTAGGGTTTAA
* *
20055885 GAGTTTAGTGTTTAC
1 G-GTTTAGGGTTTAA
*
20055900 GGTGTA-GGTTTATA
1 GGTTTAGGGTTTA-A
* *
20055914 -GTCTAGGGTTTAT
1 GGTTTAGGGTTTAA
**
20055927 TATTTAGGGTTTAGAA
1 GGTTTAGGGTTT--AA
*
20055943 GG-TTAGAGTTTAA
1 GGTTTAGGGTTTAA
* * *
20055956 GGGTTACGAGTTTAG
1 GGTTTA-GGGTTTAA
* * *
20055971 GGTTTAAAGGCTTAT
1 GGTTT-AGGGTTTAA
20055986 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
20056000 ATTTTATTTT
Statistics
Matches: 164, Mismatches: 43, Indels: 32
0.69 0.18 0.13
Matches are distributed among these distances:
11 7 0.04
12 4 0.02
13 30 0.18
14 76 0.46
15 38 0.23
16 9 0.05
ACGTcount: A:0.25, C:0.03, G:0.29, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:20055829 original size:7 final size:7
Alignment explanation
Indices: 20055645--20055816 Score: 51
Period size: 7 Copynumber: 23.6 Consensus size: 7
20055635 TACTGTTCGT
*
20055645 GGTTTAT
1 GGTTTAG
20055652 GGTTTAG
1 GGTTTAG
*
20055659 TGTTTAG
1 GGTTTAG
*
20055666 TGTTTAG
1 GGTTTAG
20055673 TGG-TTAG
1 -GGTTTAG
* **
20055680 AAGCATAG
1 -GGTTTAG
20055688 GGTTTAG
1 GGTTTAG
*
20055695 GGGTTATG
1 GGTTTA-G
*
20055703 GGCTTAG
1 GGTTTAG
*
20055710 GGTCTAG
1 GGTTTAG
** *
20055717 GGGGTCG
1 GGTTTAG
*
20055724 TGGCTTAG
1 -GGTTTAG
*
20055732 GGTTTTG
1 GGTTTAG
*
20055739 GATTTAAG
1 GGTTT-AG
*
20055747 GGTTTATA
1 GGTTTA-G
20055755 GG-TTATG
1 GGTTTA-G
20055762 GGTTTAG
1 GGTTTAG
*
20055769 TGGTTTATT
1 -GGTTTA-G
20055778 GGTTTAG
1 GGTTTAG
*
20055785 GGTTTAA
1 GGTTTAG
*
20055792 GGTTTAA
1 GGTTTAG
* *
20055799 AGTTTAA
1 GGTTTAG
*
20055806 AGTTTAG
1 GGTTTAG
20055813 GGTT
1 GGTT
20055817 AATTTAGGGT
Statistics
Matches: 124, Mismatches: 32, Indels: 18
0.71 0.18 0.10
Matches are distributed among these distances:
7 88 0.71
8 36 0.29
ACGTcount: A:0.19, C:0.03, G:0.36, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:20055970 original size:22 final size:21
Alignment explanation
Indices: 20055945--20055999 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
20055935 GTTTAGAAGG
* *
20055945 TTAGAGTTTAAGGGTTACGAGT
1 TTAGGGTTTAAGGCTTACG-GT
*
20055967 TTAGGGTTTAAAGGCTTATGGT
1 TTAGGGTTT-AAGGCTTACGGT
20055989 TTAGGGTTTAA
1 TTAGGGTTTAA
20056000 ATTTTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 19 0.66
23 8 0.28
ACGTcount: A:0.25, C:0.04, G:0.31, T:0.40
Consensus pattern (21 bp):
TTAGGGTTTAAGGCTTACGGT
Found at i:20056427 original size:115 final size:116
Alignment explanation
Indices: 20056173--20056583 Score: 513
Period size: 115 Copynumber: 3.6 Consensus size: 116
20056163 AGCATAATGG
* * * *
20056173 TGTCG-TTTTATCTGCGTTTTTAGTGGCGTTTTTGCTAAAACACTGCAAAAGGATATGTATTAGT
1 TGTCGTTTTTATCTACGTTTTTAGTGGCGTTTTTACTAAAACACCGCAAAAGGATATGTGTTAGT
* *
20056237 GGCGTTTTTACAAAAAATGCCGCAATTATGTTTTTAGTCTTTGGTAAACGT
66 GGCGTTTTTACAAAAAACGCCGCAATTATGTTATTAGTCTTTGGTAAACGT
* ** *
20056288 TGTCGTTTTTATCTACGTTTTTAGTGGCGTTTTTACCAAAATGCCGTAAAAGGATATGTGTTAGT
1 TGTCGTTTTTATCTACGTTTTTAGTGGCGTTTTTACTAAAACACCGCAAAAGGATATGTGTTAGT
** * *
20056353 GGCGTTTTTA-GGAAAACGCCGCAATTGTATTATTAGTCTTTGGTAAACGT
66 GGCGTTTTTACAAAAAACGCCGCAATTATGTTATTAGTCTTTGGTAAACGT
* * * * * *
20056403 TGTCGTTTTTATCTACATTATTAGTGGC-TTTTTACTAAAACGCCGCGAAAGGTTATGTGGTAGT
1 TGTCGTTTTTATCTACGTTTTTAGTGGCGTTTTTACTAAAACACCGCAAAAGGATATGTGTTAGT
* * * * * *
20056467 GGCGTTTTTACAAAAAACGTCGCAATTATGTTATAATTGTTCGCTAAACGT
66 GGCGTTTTTACAAAAAACGCCGCAATTATGTTATTAGTCTTTGGTAAACGT
* * * ** *
20056518 TGTCATTTTTATCTACGTTTTTAGTGGTGTTTGTACTAAAACACCGGTAAAGGATATGTTTTAGT
1 TGTCGTTTTTATCTACGTTTTTAGTGGCGTTTTTACTAAAACACCGCAAAAGGATATGTGTTAGT
20056583 G
66 G
20056584 CGGTAATTAC
Statistics
Matches: 250, Mismatches: 43, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
114 40 0.16
115 119 0.48
116 91 0.36
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (116 bp):
TGTCGTTTTTATCTACGTTTTTAGTGGCGTTTTTACTAAAACACCGCAAAAGGATATGTGTTAGT
GGCGTTTTTACAAAAAACGCCGCAATTATGTTATTAGTCTTTGGTAAACGT
Found at i:20056838 original size:24 final size:24
Alignment explanation
Indices: 20056811--20056867 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
20056801 TTTTATTTCC
*
20056811 CCCCAATTCCT-TTTCCCACAATTT
1 CCCCAATTCCTATTTCCCA-AAATT
*
20056835 CCCCAATT-TTATTTCCCAAAATT
1 CCCCAATTCCTATTTCCCAAAATT
*
20056858 CCCAAATTCC
1 CCCCAATTCC
20056868 CAAATTCCCC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.26, C:0.39, G:0.00, T:0.35
Consensus pattern (24 bp):
CCCCAATTCCTATTTCCCAAAATT
Found at i:20056866 original size:8 final size:8
Alignment explanation
Indices: 20056847--20056876 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
20056837 CCAATTTTAT
20056847 TTCCCAAAA
1 TTCCC-AAA
20056856 TTCCCAAA
1 TTCCCAAA
20056864 TTCCCAAA
1 TTCCCAAA
20056872 TTCCC
1 TTCCC
20056877 CCTATCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.27
Consensus pattern (8 bp):
TTCCCAAA
Found at i:20059954 original size:21 final size:20
Alignment explanation
Indices: 20059930--20060024 Score: 77
Period size: 21 Copynumber: 4.5 Consensus size: 20
20059920 CTACAACTTA
**
20059930 AAGCAGATGCAGCAGCGAGGG
1 AAGCAGA-GCAGCAGCGAGAC
20059951 AAGCAGAGGCAGCAGCGAGAC
1 AAGCAGA-GCAGCAGCGAGAC
*
20059972 AAGCAGAGGCTA-CAGCAAGAC
1 AAGCAGA-GC-AGCAGCGAGAC
**
20059993 AAGCAGAGACTA-CAGCGAGGG
1 AAGCAGAG-C-AGCAGCGAGAC
20060014 AAGCAGAGCAG
1 AAGCAGAGCAG
20060025 AGCAAAAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.02
20 2 0.03
21 60 0.94
22 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.37, T:0.03
Consensus pattern (20 bp):
AAGCAGAGCAGCAGCGAGAC
Found at i:20060462 original size:84 final size:85
Alignment explanation
Indices: 20060358--20060517 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 85
20060348 TTTGTGGGAG
* * * *
20060358 AAGCGCCGCTAAAAGTCATGATCTATAGTGACGTTTATGGG-GTAAGCGTCGCTAAAAGTCATGA
1 AAGCGCCGCTAAAAGTCATGACCTATAGCGACGTTTATGGGAG-AAGCGCCGCTAAAAGTCATAA
*
20060422 TCTATAGCGGCGCTTTTATAC
65 CCTATAGCGGCGCTTTTATAC
** *
20060443 AAGCGCC-CTAAAAGTCATGACCTATAGCGGTGTTTGTGGGAGAAGCGCCGCTAAAAGTCATAAC
1 AAGCGCCGCTAAAAGTCATGACCTATAGCGACGTTTATGGGAGAAGCGCCGCTAAAAGTCATAAC
20060507 CTATAGCGGCG
66 CTATAGCGGCG
20060518 TTTGTCGGAG
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
84 58 0.88
85 8 0.12
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (85 bp):
AAGCGCCGCTAAAAGTCATGACCTATAGCGACGTTTATGGGAGAAGCGCCGCTAAAAGTCATAAC
CTATAGCGGCGCTTTTATAC
Found at i:20060503 original size:43 final size:43
Alignment explanation
Indices: 20060342--20060563 Score: 227
Period size: 43 Copynumber: 5.2 Consensus size: 43
20060332 TTCTTTAGCG
* *
20060342 GCGGTGTTTGTGGGAGAAGCGCCGCTAAAAGTCATGATCTATA
1 GCGGCGTTTGTGGGAGAAGCGCCGCTAAAAGTCATGACCTATA
* * * * *
20060385 GTGACGTTTATGGG-GTAAGCGTCGCTAAAAGTCATGATCTATA
1 GCGGCGTTTGTGGGAG-AAGCGCCGCTAAAAGTCATGACCTATA
** *
20060428 GCGGCGCTTT-T-ATACAAGCGCC-CTAAAAGTCATGACCTATA
1 GCGGCG-TTTGTGGGAGAAGCGCCGCTAAAAGTCATGACCTATA
* *
20060469 GCGGTGTTTGTGGGAGAAGCGCCGCTAAAAGTCATAACCTATA
1 GCGGCGTTTGTGGGAGAAGCGCCGCTAAAAGTCATGACCTATA
* * * * * * *
20060512 GCGGCGTTTGTCGGAGAAGCGTCGCTAAAGGTTATTACTTTTA
1 GCGGCGTTTGTGGGAGAAGCGCCGCTAAAAGTCATGACCTATA
20060555 GCGGCGTTT
1 GCGGCGTTT
20060564 ATTTCTAAAA
Statistics
Matches: 148, Mismatches: 25, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
40 3 0.02
41 24 0.16
42 15 0.10
43 103 0.70
44 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
GCGGCGTTTGTGGGAGAAGCGCCGCTAAAAGTCATGACCTATA
Found at i:20060767 original size:49 final size:49
Alignment explanation
Indices: 20060695--20061018 Score: 422
Period size: 49 Copynumber: 6.6 Consensus size: 49
20060685 TCGTGTAGTG
*
20060695 ATACATGCATAACAGTACATAACATACATAACATAACAATAAACGTAAC
1 ATACATACATAACAGTACATAACATACATAACATAACAATAAACGTAAC
*
20060744 ATACATGCATAACAGTACATAACATACATAACAT-ACAATAAACGTAAC
1 ATACATACATAACAGTACATAACATACATAACATAACAATAAACGTAAC
* *
20060792 ATACAAACAAAACAGTACATAACATACATAACATAACAATAAACGTAAC
1 ATACATACATAACAGTACATAACATACATAACATAACAATAAACGTAAC
* * * *
20060841 ATACAAACATAACAGTTCATAACATACATAACATAATAGTAAACGTAAC
1 ATACATACATAACAGTACATAACATACATAACATAACAATAAACGTAAC
* * *
20060890 ATACATGCATAACAGTACATAACATACATAACATAACAGTAAAAGTAAC
1 ATACATACATAACAGTACATAACATACATAACATAACAATAAACGTAAC
* * * ** * *
20060939 ATACGTACATAATAGTACATTACATACATAACAGT-TTAA-AAACATAGC
1 ATACATACATAACAGTACATAACATACATAACA-TAACAATAAACGTAAC
20060987 ATACATACATAAACAGTA-ATTAAACATACATA
1 ATACATACAT-AACAGTACA-T-AACATACATA
20061019 GCAAACATAC
Statistics
Matches: 245, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
48 61 0.25
49 174 0.71
50 10 0.04
ACGTcount: A:0.53, C:0.19, G:0.06, T:0.22
Consensus pattern (49 bp):
ATACATACATAACAGTACATAACATACATAACATAACAATAAACGTAAC
Found at i:20060907 original size:146 final size:147
Alignment explanation
Indices: 20060702--20060971 Score: 443
Period size: 146 Copynumber: 1.8 Consensus size: 147
20060692 GTGATACATG
20060702 CATAACAGTACATAACATACATAACATAACAATAAACGTAACATACATGCATAACAGTACATAAC
1 CATAACAGTACATAACATACATAACATAACAATAAACGTAACATACATGCATAACAGTACATAAC
*
20060767 ATACATAACAT-ACAATAAACGTAACATACAAACAAAACAGTACATAACATACATAACATAACAA
66 ATACATAACATAACAATAAAAGTAACATACAAACAAAACAGTACATAACATACATAACATAACAA
20060831 TAAACGTAACATACAAA
131 TAAACGTAACATACAAA
* * *
20060848 CATAACAGTTCATAACATACATAACATAATAGTAAACGTAACATACATGCATAACAGTACATAAC
1 CATAACAGTACATAACATACATAACATAACAATAAACGTAACATACATGCATAACAGTACATAAC
* ** * * *
20060913 ATACATAACATAACAGTAAAAGTAACATACGTACATAATAGTACATTACATACATAACA
66 ATACATAACATAACAATAAAAGTAACATACAAACAAAACAGTACATAACATACATAACA
20060972 GTTTAAAAAC
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
146 73 0.65
147 40 0.35
ACGTcount: A:0.54, C:0.20, G:0.06, T:0.21
Consensus pattern (147 bp):
CATAACAGTACATAACATACATAACATAACAATAAACGTAACATACATGCATAACAGTACATAAC
ATACATAACATAACAATAAAAGTAACATACAAACAAAACAGTACATAACATACATAACATAACAA
TAAACGTAACATACAAA
Found at i:20060990 original size:146 final size:146
Alignment explanation
Indices: 20060702--20061018 Score: 433
Period size: 146 Copynumber: 2.2 Consensus size: 146
20060692 GTGATACATG
20060702 CATAACAGTACATAACATACATAACATAACAATAAACGTAACATACATGCATAACAGTACATAAC
1 CATAACAGTACATAACATACATAACATAACAATAAACGTAACATACATGCATAACAGTACATAAC
*
20060767 ATACATAACATACAATAAACGTAACATACAAACAAAACAGTACATAACATACATAACATAACAAT
66 ATACATAACATACAATAAAAGTAACATACAAACAAAACAGTACATAACATACATAACATAACAAT
*
20060832 AAACGTAACATACAAA
131 AAACATAACATACAAA
* * *
20060848 CATAACAGTTCATAACATACATAACATAATAGTAAACGTAACATACATGCATAACAGTACATAAC
1 CATAACAGTACATAACATACATAACATAACAATAAACGTAACATACATGCATAACAGTACATAAC
* ** * * * **
20060913 ATACATAACATAACAGTAAAAGTAACATACGTACATAATAGTACATTACATACATAACAGT-TTA
66 ATACATAACAT-ACAATAAAAGTAACATACAAACAAAACAGTACATAACATACATAACA-TAACA
* *
20060977 A-AAACATAGCATACATA
129 ATAAACATAACATACAAA
20060994 CATAAACAGTA-ATTAAACATACATA
1 CAT-AACAGTACA-T-AACATACATA
20061019 GCAAACATAC
Statistics
Matches: 150, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
146 90 0.60
147 49 0.33
148 11 0.07
ACGTcount: A:0.54, C:0.19, G:0.06, T:0.21
Consensus pattern (146 bp):
CATAACAGTACATAACATACATAACATAACAATAAACGTAACATACATGCATAACAGTACATAAC
ATACATAACATACAATAAAAGTAACATACAAACAAAACAGTACATAACATACATAACATAACAAT
AAACATAACATACAAA
Found at i:20063303 original size:20 final size:22
Alignment explanation
Indices: 20063259--20063304 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
20063249 ATCTTTTTGT
20063259 TTAAAAATTGATTCAATTCTATTA
1 TTAAAAATTGATTCAA-T-TATTA
20063283 TTAAAAATTGATTCATATTATT
1 TTAAAAATTGATTCA-ATTATT
20063305 GACATAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.19
24 16 0.76
25 1 0.05
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (22 bp):
TTAAAAATTGATTCAATTATTA
Found at i:20063931 original size:24 final size:25
Alignment explanation
Indices: 20063895--20063941 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
20063885 AATATAATAG
*
20063895 CAAAACAATAAAAA-AAAATAGTGA
1 CAAAACAACAAAAAGAAAATAGTGA
* *
20063919 CAAAACAGCAAAAAGATAATAGT
1 CAAAACAACAAAAAGAAAATAGT
20063942 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.66, C:0.11, G:0.11, T:0.13
Consensus pattern (25 bp):
CAAAACAACAAAAAGAAAATAGTGA
Found at i:20064266 original size:18 final size:18
Alignment explanation
Indices: 20064243--20064283 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
20064233 TTCTTTTTAT
*
20064243 AAAATTTAA-AAAATTAA
1 AAAATTTAACAAAAATAA
20064260 CAAAA-TTAACAAAAATAA
1 -AAAATTTAACAAAAATAA
20064278 AAAATT
1 AAAATT
20064284 ATAGAAAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATTTAACAAAAATAA
Found at i:20068452 original size:24 final size:24
Alignment explanation
Indices: 20068437--20068514 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
20068427 AGTTGCATAA
*
20068437 TCAGATTCAGACACAGATGCATGT
1 TCAGATTCAAACACAGATGCATGT
*
20068461 TCAGATTCAAACATAGATGCATGT
1 TCAGATTCAAACACAGATGCATGT
*
20068485 TCAGATTCAAATACA-ATTGCATGT
1 TCAGATTCAAACACAGA-TGCATGT
*
20068509 TTAGAT
1 TCAGAT
20068515 CCTACCCCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.02
24 47 0.98
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (24 bp):
TCAGATTCAAACACAGATGCATGT
Found at i:20072116 original size:275 final size:271
Alignment explanation
Indices: 20071629--20072179 Score: 1012
Period size: 275 Copynumber: 2.0 Consensus size: 271
20071619 TGGGAGGACC
* *
20071629 AAATTGTAAAGAAAACAAAACTTTCTTTCTTTCTCTCTTCTTCTCGCGTTGATGCATGGAAAAAT
1 AAATTGTAAAGAAAACAAAACTTTCTTTCTTTCTCTCTTCTTCTCACATTGATGCATGGAAAAAT
* *
20071694 GGTGGGATGGTGGCTTTCATTTTTCTTTCCACATATACATATACTAAATAAAATAATAAAATATC
66 GGTGGGATGGTGGCTTCCATCTTTCTTTCCACATATACATATACTAAATAAAATAATAAAATATC
20071759 ATTAAGAAAAAAAATCAAATCAAAATATAATAAATTAATATTTATTTATTTATTTATTTAATCTA
131 ATTAAGAAAAAAAATCAAATCAAAATATAATAAATTAATATTTATTTATTTATTTATTTAATCTA
20071824 AAATATCTCTAACATCATCATTATTTTCTAGATTTCTCTCTCTTCTAATTAACCATTTTGCCCTT
196 AAATATCTCTAACATCATCATTATTTTCTAGATTTCTCTCTCTTCTAATTAACCATTTTGCCCTT
20071889 TAGATATTTTA
261 TAGATATTTTA
*
20071900 AAATTGTAAAGAAAGCAAAACTTTCTTTCTTTCTCTCTTCTTCTCACATTGATGCATGGAAAAAT
1 AAATTGTAAAGAAAACAAAACTTTCTTTCTTTCTCTCTTCTTCTCACATTGATGCATGGAAAAAT
*
20071965 GGTGGGATGGTGGCTTCCATCTTTCTTTCCACTTATATATATATACACTAAATAAAATAATAAAA
66 GGTGGGATGGTGGCTTCCATCTTTCTTTCCAC--ATATACATAT--ACTAAATAAAATAATAAAA
20072030 TATCATTAAGAAAAAAAATCAAATCAAAATATAATAAATTAATATTTATTTATTTATTTATTTAA
127 TATCATTAAGAAAAAAAATCAAATCAAAATATAATAAATTAATATTTATTTATTTATTTATTTAA
20072095 TCTAAAATATCTCTAACATCATCATTATTTTCTAGATTTCTCTCTCTTCTAATTAACCATTTTGC
192 TCTAAAATATCTCTAACATCATCATTATTTTCTAGATTTCTCTCTCTTCTAATTAACCATTTTGC
20072160 CCTTTAGATATTTTA
257 CCTTTAGATATTTTA
20072175 AAATT
1 AAATT
20072180 CCATCCTTGA
Statistics
Matches: 270, Mismatches: 6, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
271 92 0.34
273 9 0.03
275 169 0.63
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (271 bp):
AAATTGTAAAGAAAACAAAACTTTCTTTCTTTCTCTCTTCTTCTCACATTGATGCATGGAAAAAT
GGTGGGATGGTGGCTTCCATCTTTCTTTCCACATATACATATACTAAATAAAATAATAAAATATC
ATTAAGAAAAAAAATCAAATCAAAATATAATAAATTAATATTTATTTATTTATTTATTTAATCTA
AAATATCTCTAACATCATCATTATTTTCTAGATTTCTCTCTCTTCTAATTAACCATTTTGCCCTT
TAGATATTTTA
Found at i:20073085 original size:12 final size:12
Alignment explanation
Indices: 20073065--20073099 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
20073055 ACCCACAAAC
20073065 TAATGAAAATAA
1 TAATGAAAATAA
*
20073077 TAATTAAAATAA
1 TAATGAAAATAA
20073089 TAATGGAAAAT
1 TAAT-GAAAAT
20073100 TATCAAAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (12 bp):
TAATGAAAATAA
Found at i:20085900 original size:34 final size:34
Alignment explanation
Indices: 20085857--20085921 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
20085847 TGATAGAATA
20085857 TTGGAAGGTTGTTTTGAGTAAAAGCATAAATAAT
1 TTGGAAGGTTGTTTTGAGTAAAAGCATAAATAAT
* *
20085891 TTGGAAGGTTTTTTTGAGTAAAATCATAAAT
1 TTGGAAGGTTGTTTTGAGTAAAAGCATAAAT
20085922 CTGAATGTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (34 bp):
TTGGAAGGTTGTTTTGAGTAAAAGCATAAATAAT
Found at i:20088170 original size:25 final size:25
Alignment explanation
Indices: 20088122--20088170 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
20088112 CTCTTCGTAG
* *
20088122 CTTCCCAATATTGGCTTATTTGAAT
1 CTTCCCAATATTGGCTCATATGAAT
* *
20088147 CTTCCCGATATTGGCTCGTATGAA
1 CTTCCCAATATTGGCTCATATGAA
20088171 CTTACCGTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (25 bp):
CTTCCCAATATTGGCTCATATGAAT
Found at i:20095204 original size:17 final size:17
Alignment explanation
Indices: 20095178--20095214 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
20095168 ATGCACTGAT
*
20095178 ATGAATATGTAATGACA
1 ATGAAAATGTAATGACA
20095195 ATGAAAATGTAATGACA
1 ATGAAAATGTAATGACA
20095212 ATG
1 ATG
20095215 TACACTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (17 bp):
ATGAAAATGTAATGACA
Found at i:20101033 original size:229 final size:230
Alignment explanation
Indices: 20100624--20101047 Score: 697
Period size: 229 Copynumber: 1.8 Consensus size: 230
20100614 TGCCTCGTAT
* * *
20100624 TCAAGTATGATAAAATCAGCTGAAAAAATGAATGCATCCATACGAACTAAAATATCTTTCATTTA
1 TCAAGTATGATAAAATCAGCCGAAAAAATAAATGCATCCACACGAACTAAAATATCTTTCATTTA
* *
20100689 CCCTTCAAGTTGAGCTAAAGATCAATCTGCAAGTTGCAATGTCACTGTAATGAGTTTCATATGAC
66 CCCTTCAAGTTGAGCTAAAAATCAATCTGCAAGTTGCAATGTCACTGTAATGAGTTTCATATAAC
* * *
20100754 CAATTCCCAACTTTCTAAAAGTAGATAGTGGCATGAGACTGATTCTAGCTCCC-AATTGCATAAA
131 CAATTCCCAACTTTCTAAAAGTAGATAATGGCATGAGACTGATGCTAGCTCCCAAATCGCATAAA
20100818 GCTTTTCCCAAATAATGATTTCCAATCGAACATAG
196 GCTTTTCCCAAATAATGATTTCCAATCGAACATAG
* ** *
20100853 TCAAGTATGATAAAATCAGCCGGAAAAATAAATTTATCCACACGAACTAAAATATCTTTCATTTT
1 TCAAGTATGATAAAATCAGCCGAAAAAATAAATGCATCCACACGAACTAAAATATCTTTCATTTA
* * *
20100918 CCCTTCAAGTTGAGCTAAAAATCGATCTGCAAGTTGTAATGTCACTGTAATGGGTTTCATATAAC
66 CCCTTCAAGTTGAGCTAAAAATCAATCTGCAAGTTGCAATGTCACTGTAATGAGTTTCATATAAC
*
20100983 CAATTCCCAACTTTCTAAAAGTAGATAATGGCATGAGATTGATGCTAGCTCCCAAATCGCATAAA
131 CAATTCCCAACTTTCTAAAAGTAGATAATGGCATGAGACTGATGCTAGCTCCCAAATCGCATAAA
20101048 ATGGTAAAGC
Statistics
Matches: 178, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
229 168 0.94
230 10 0.06
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (230 bp):
TCAAGTATGATAAAATCAGCCGAAAAAATAAATGCATCCACACGAACTAAAATATCTTTCATTTA
CCCTTCAAGTTGAGCTAAAAATCAATCTGCAAGTTGCAATGTCACTGTAATGAGTTTCATATAAC
CAATTCCCAACTTTCTAAAAGTAGATAATGGCATGAGACTGATGCTAGCTCCCAAATCGCATAAA
GCTTTTCCCAAATAATGATTTCCAATCGAACATAG
Found at i:20104769 original size:13 final size:13
Alignment explanation
Indices: 20104751--20104777 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20104741 GATGATAGAG
20104751 AAATGGTAGAGAA
1 AAATGGTAGAGAA
20104764 AAATGGTAGAGAA
1 AAATGGTAGAGAA
20104777 A
1 A
20104778 GAAAACCAGA
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:0.56, C:0.00, G:0.30, T:0.15
Consensus pattern (13 bp):
AAATGGTAGAGAA
Found at i:20109812 original size:93 final size:94
Alignment explanation
Indices: 20109621--20109824 Score: 220
Period size: 93 Copynumber: 2.2 Consensus size: 94
20109611 ATAAAGTAGC
* * *
20109621 AATCTTATCTCCCT-AAAGTTGCAGTAGAGTAAGATGAAGCTACAAATCTTATACCCCTGAAATT
1 AATCTTATCTCCCTGAAAG-TGCAGTAAAGCAAGATGAAGCTACAAATCCTATACCCCTGAAATT
* **
20109685 GTAGTCGGTTGGAATGAAGCTATAATAATG
65 GTAGTCGGTTGGAATGAAGCTACAATAACA
* * *
20109715 AATCTTATCTCCCTGAAA-TGCAGTAAAGCAAGATGAAGTTATAAATCCTATA-CCCTTAAATT-
1 AATCTTATCTCCCTGAAAGTGCAGTAAAGCAAGATGAAGCTACAAATCCTATACCCCTGAAATTG
* **
20109777 TA-TAACGGGTTGGAATGCAGCTACAATGGCA
66 TAGT--C-GGTTGGAATGAAGCTACAATAACA
*
20109808 AATCTTATCTCTCTGAA
1 AATCTTATCTCCCTGAA
20109825 TTTGTAGTGG
Statistics
Matches: 93, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
90 1 0.01
91 2 0.02
92 10 0.11
93 63 0.68
94 14 0.15
95 3 0.03
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (94 bp):
AATCTTATCTCCCTGAAAGTGCAGTAAAGCAAGATGAAGCTACAAATCCTATACCCCTGAAATTG
TAGTCGGTTGGAATGAAGCTACAATAACA
Found at i:20110055 original size:186 final size:185
Alignment explanation
Indices: 20109741--20110224 Score: 655
Period size: 186 Copynumber: 2.6 Consensus size: 185
20109731 AATGCAGTAA
* * * * * * *
20109741 AGCAAGATGAAGTTATAAATCCTATACCCTTAAATTTATAACGGGTTGGAATGCAGCTACAATGG
1 AGCAAGATGAAGCTACAAATCATATACCCTTAAAGTTGTAATGGGTTGGAATGAAGCTACAATGG
* * * * *
20109806 CAAATCTTATCTCTCTGAATTTGTAGTGGGGCAAGATAAAGTTACAACATTAAATATGGTTTTCT
66 CAAATCTTATCTCCCTAAAGTTGCAGT-GGGCAAGATAAAGCTACAACATTAAATATGGTTTTCT
* * * * *
20109871 TGAAGTTGCAGTGAAATGGATAAAGTAGCAATATTATCTCCTTAAAGTTGTAATGG
130 TGAAGTTGCAGTGAAATAGATAAAGCAACAATATTATCTCCCTAAAGTTGCAATGG
* * * *
20109927 AGCAAGATGAAGCTACAAATCATATACCCCTAAAGCTGTAGTGGGTTGGAATAAAGCTACAATGG
1 AGCAAGATGAAGCTACAAATCATATACCCTTAAAGTTGTAATGGGTTGGAATGAAGCTACAATGG
*
20109992 CAAATCTTATCTCCCTAAAGTTGCAGTGAGGCAAGATAAAGCTACAACATTAAATTTGGTTTTCT
66 CAAATCTTATCTCCCTAAAGTTGCAGTG-GGCAAGATAAAGCTACAACATTAAATATGGTTTTCT
*
20110057 TGAAGTTGCAGTGAAATAGATAAAGCAACAATCTTATCTCCCTAAAGTTGCAATGG
130 TGAAGTTGCAGTGAAATAGATAAAGCAACAATATTATCTCCCTAAAGTTGCAATGG
* * * * *
20110113 AGTAAGATGAAGCTACAAAT-ACTATACCCTTAAAGTTGCATTGGGTTGGAGTGAAGCTACAATA
1 AGCAAGATGAAGCTACAAATCA-TATACCCTTAAAGTTGTAATGGGTTGGAATGAAGCTACAATG
* *
20110177 GCGAATCTTGTCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTACAA
65 GCAAATCTTATCTCCCTAAAGTTGCAGTGG-GCAAGATAAAGCTACAA
20110225 ATCCCGTATC
Statistics
Matches: 262, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
185 3 0.01
186 259 0.99
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (185 bp):
AGCAAGATGAAGCTACAAATCATATACCCTTAAAGTTGTAATGGGTTGGAATGAAGCTACAATGG
CAAATCTTATCTCCCTAAAGTTGCAGTGGGCAAGATAAAGCTACAACATTAAATATGGTTTTCTT
GAAGTTGCAGTGAAATAGATAAAGCAACAATATTATCTCCCTAAAGTTGCAATGG
Found at i:20110417 original size:237 final size:237
Alignment explanation
Indices: 20110145--20110702 Score: 801
Period size: 237 Copynumber: 2.4 Consensus size: 237
20110135 TATACCCTTA
* * * * *
20110145 AAGTTGCATTGGGTTGGAGTGAAGCTACAATAGCGAATCTTGTCTCCCTAAAGTTGCAGTGGAGC
1 AAGTTGCAGTAGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGC
* *
20110210 AAGATAAAGCTACAAATCCCGTATCCCTGAAGATATAGTAGATCAGATTGAAACTACAATAGCAA
66 AAGATAAAGCTACAAATCCCGTATCCCTGAAGATACAATAGATCAGATTGAAACTACAATAGCAA
* * *
20110275 ATCTCATCTCCACAAAGACGCAATAGTGCAAGATAAAGCTACAATATTAAATCTAGTTTTCTTGA
131 ATCTCATCTCCACAAAGACACAATAGGGCAAGATAAAGCTACAACATTAAATCTAGTTTTCTTGA
* * *
20110340 AGTTGCAATGAAACATATAAAGCAGCAATTCCAATCCCCCTG
196 AGCTGCAATGAAACAGATAAAGCAACAATTCCAATCCCCCTG
* *
20110382 AAGTTGCAGTAGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCACTGAAGTTGTAGTGGAGC
1 AAGTTGCAGTAGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGC
* * * *
20110447 AAGATAAAGTTACAAATCTCGTATCCTTGAAGATGCAATAGATCAGATTGAAACTACAATAGCAA
66 AAGATAAAGCTACAAATCCCGTATCCCTGAAGATACAATAGATCAGATTGAAACTACAATAGCAA
* * * * * * *
20110512 ATCTCATCTCTACGAAGATACAATGGGGTAAGATAAAGCTACAACATTAAATTTGGTTTTCTTGA
131 ATCTCATCTCCACAAAGACACAATAGGGCAAGATAAAGCTACAACATTAAATCTAGTTTTCTTGA
* * *
20110577 AGCTGCAGTGAAACAGATAAAGCAACAATTCTAGTCCCCCTG
196 AGCTGCAATGAAACAGATAAAGCAACAATTCCAATCCCCCTG
* * * *
20110619 AAGTAGCAGTAGGTTGAAATGAAGCTACAATAGCGAATCTTATCTCCTTAAAATTGTAGTGGAGC
1 AAGTTGCAGTAGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGC
* *
20110684 AAGATGAAGCTGCAAATCC
66 AAGATAAAGCTACAAATCC
20110703 TATACTCTTG
Statistics
Matches: 282, Mismatches: 39, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
237 282 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (237 bp):
AAGTTGCAGTAGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGC
AAGATAAAGCTACAAATCCCGTATCCCTGAAGATACAATAGATCAGATTGAAACTACAATAGCAA
ATCTCATCTCCACAAAGACACAATAGGGCAAGATAAAGCTACAACATTAAATCTAGTTTTCTTGA
AGCTGCAATGAAACAGATAAAGCAACAATTCCAATCCCCCTG
Found at i:20112757 original size:11 final size:11
Alignment explanation
Indices: 20112729--20112767 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
20112719 TTCTCTTTTT
*
20112729 TTTAATTTTCA
1 TTTAAATTTCA
20112740 CTTTAAATTTCA
1 -TTTAAATTTCA
20112752 TTTAAATTTCAA
1 TTTAAATTTC-A
20112764 TTTA
1 TTTA
20112768 GTCCTCTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTAAATTTCA
Found at i:20114135 original size:31 final size:30
Alignment explanation
Indices: 20114087--20114149 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
20114077 ACTTTATATT
*
20114087 AATTTATTAAATTAAATTAAAAATGTTACTA
1 AATTTATTAAATAAAATTAAAAATGTTA-TA
* *
20114118 AATTTATTATAA-AAAATTATAAATTTTATA
1 AATTTATTA-AATAAAATTAAAAATGTTATA
20114148 AA
1 AA
20114150 AAAATCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 4 0.14
31 22 0.79
32 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (30 bp):
AATTTATTAAATAAAATTAAAAATGTTATA
Found at i:20114642 original size:51 final size:51
Alignment explanation
Indices: 20114584--20114685 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
20114574 TAGTTGACAA
*
20114584 AGTACAATATTATTTAATTACATAAACAATATAATGGTTTTGTTTTTTTAT
1 AGTACAATATTATTTAATTACATAAACAATATAATGGTTTTGCTTTTTTAT
20114635 AGTACAATATTATTTAATTACATAAACAATATAATGGTTTTGCTTTTTTAT
1 AGTACAATATTATTTAATTACATAAACAATATAATGGTTTTGCTTTTTTAT
20114686 TTAGTGGATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (51 bp):
AGTACAATATTATTTAATTACATAAACAATATAATGGTTTTGCTTTTTTAT
Found at i:20122935 original size:6 final size:6
Alignment explanation
Indices: 20122926--20122959 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
20122916 TTATTTTCTT
20122926 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
20122960 CTATTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:20124705 original size:60 final size:60
Alignment explanation
Indices: 20124612--20124731 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
20124602 AAAGACCCTA
20124612 TACTTAAGTGTTTGTTCTAGTGTAATACCTATATTTTCAAAATGTCCAATTTAATTTTTG
1 TACTTAAGTGTTTGTTCTAGTGTAATACCTATATTTTCAAAATGTCCAATTTAATTTTTG
20124672 TACTTAAGTGTTTGTTCTAGTGTAATACCTATATTTTCAAAATGTCCAATTTAATTTTTG
1 TACTTAAGTGTTTGTTCTAGTGTAATACCTATATTTTCAAAATGTCCAATTTAATTTTTG
20124732 AGTGCAATAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (60 bp):
TACTTAAGTGTTTGTTCTAGTGTAATACCTATATTTTCAAAATGTCCAATTTAATTTTTG
Found at i:20124742 original size:42 final size:42
Alignment explanation
Indices: 20124690--20124773 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
20124680 TGTTTGTTCT
* * *
20124690 AGTGTAATACCTATATTTTCAAAATGTCCAATTTAATTTTTG
1 AGTGCAATACCTATATTTTCAAAATGTACAATTTAATATTTG
20124732 AGTGCAATACCTATATTTTCAAAATGTACAATTTAATATTTG
1 AGTGCAATACCTATATTTTCAAAATGTACAATTTAATATTTG
20124774 TACTTTGCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.43
Consensus pattern (42 bp):
AGTGCAATACCTATATTTTCAAAATGTACAATTTAATATTTG
Done.