Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 49 of 208
Found at i:13622968 original size:51 final size:50
Alignment explanation
Indices: 13622908--13623128 Score: 221
Period size: 51 Copynumber: 4.4 Consensus size: 50
13622898 GATGAACACG
*
13622908 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGTGACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA-AAATAATTGTCACA
* * *** *
13622959 TGTGTAGTACTAAGTGAAGGCTACTATGTGTA-CTGAAAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAAAATAATT-GTCACA
* * * * **
13623010 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAA-ACTTGATCATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAATAATTG-TCACA
* * *
13623060 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATAGTAACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAA-AATAATTGTCACA
* *
13623111 TGGGTGGTACTATGTGAA
1 TGTGTAGTACTATGTGAA
13623129 AACCCCCAAA
Statistics
Matches: 139, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
49 1 0.01
50 46 0.33
51 88 0.63
52 4 0.03
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAATAATTGTCACA
Found at i:13623072 original size:50 final size:49
Alignment explanation
Indices: 13622904--13623091 Score: 234
Period size: 51 Copynumber: 3.7 Consensus size: 49
13622894 TATCGATGAA
* *
13622904 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-TAAA-ACTTGT
* * * * *
13622955 GACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACTG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAA-C-TT-GT
*
13623006 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTG-T
*
13623056 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
13623092 TCGAATGATA
Statistics
Matches: 117, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
48 1 0.01
49 4 0.03
50 39 0.33
51 69 0.59
52 4 0.03
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (49 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGT
Found at i:13623121 original size:101 final size:102
Alignment explanation
Indices: 13622911--13623128 Score: 237
Period size: 101 Copynumber: 2.1 Consensus size: 102
13622901 GAACACGTGT
* * *
13622911 GTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGTGACATGTGTAGTACTAAGTGA
1 GTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATTGTCACATGTGTAGTACTAAGTGA
* * * * * * *
13622976 AGGCTACTATGTGTACTGAAAAGCTTTGGTCACGTGT
66 AGGCTACTACGTGTACTGAAAAGATATAGTAACATGG
* ** *
13623013 GTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCATGTGTGTAGTACTATGTG
1 GTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATTG-TCACATGTGTAGTACTAAGTG
*
13623076 AAGGCTACTACGTGTA-TCG-AATGATAATAGTAACATGG
65 AAGGCTACTACGTGTACT-GAAAAGAT-ATAGTAACATGG
*
13623114 GTGGTACTATGTGAA
1 GTAGTACTATGTGAA
13623129 AACCCCCAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
100 9 0.09
101 58 0.60
102 30 0.31
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (102 bp):
GTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATTGTCACATGTGTAGTACTAAGTGA
AGGCTACTACGTGTACTGAAAAGATATAGTAACATGG
Found at i:13627110 original size:56 final size:60
Alignment explanation
Indices: 13626982--13627111 Score: 151
Period size: 61 Copynumber: 2.2 Consensus size: 60
13626972 TCTGTTGCCT
*
13626982 TATTCAAAAGAACTTCTATTTTATTAAATAGAACAAAATATAAAAATAATTTACTATTAAAA
1 TATT-AAAA-AACTTCTATTTTATTAAATAGAACAAAATATAAAAATAATTTACTATCAAAA
* * * *
13627044 TATTCAAAAAACTTTTATTTTATTAAAT-GAA-ACAATATAAAAATAGTTT-GTA-CAAATA
1 TATT-AAAAAACTTCTATTTTATTAAATAGAACAAAATATAAAAATAATTTACTATCAAA-A
13627102 TATTAAAAAA
1 TATTAAAAAA
13627112 AATCAATGTA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
57 9 0.15
58 7 0.11
59 16 0.26
60 3 0.05
61 18 0.29
62 9 0.15
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (60 bp):
TATTAAAAAACTTCTATTTTATTAAATAGAACAAAATATAAAAATAATTTACTATCAAAA
Found at i:13629612 original size:10 final size:10
Alignment explanation
Indices: 13629597--13629621 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13629587 TATTTATATT
13629597 TTTTCTATAA
1 TTTTCTATAA
13629607 TTTTCTATAA
1 TTTTCTATAA
13629617 TTTTC
1 TTTTC
13629622 AATTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTCTATAA
Found at i:13631731 original size:27 final size:27
Alignment explanation
Indices: 13631709--13631799 Score: 110
Period size: 27 Copynumber: 3.4 Consensus size: 27
13631699 AGGGGTATAA
13631709 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
13631736 TAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * * *
13631763 CGGTCATTTTACCTTACGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
**
13631790 TGGTCATTTT
1 CAGTCATTTT
13631800 CTTGACCTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:13632047 original size:10 final size:10
Alignment explanation
Indices: 13632016--13632056 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
13632006 GGGCCCATGA
13632016 GCCCATTA-G
1 GCCCATTACG
*
13632025 GCCCA-CACG
1 GCCCATTACG
*
13632034 GCCCATTTCG
1 GCCCATTACG
13632044 GCCCATTACG
1 GCCCATTACG
13632054 GCC
1 GCC
13632057 TAAGCTCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 1 0.04
9 11 0.42
10 14 0.54
ACGTcount: A:0.17, C:0.44, G:0.22, T:0.17
Consensus pattern (10 bp):
GCCCATTACG
Found at i:13636727 original size:18 final size:19
Alignment explanation
Indices: 13636701--13636738 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
13636691 ATTCAATTTA
* *
13636701 TTTGGTTATT-ATTATCAT
1 TTTGATTATTGATTAACAT
13636719 TTTGATTATTGATTAACAT
1 TTTGATTATTGATTAACAT
13636738 T
1 T
13636739 ACTAAGTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (19 bp):
TTTGATTATTGATTAACAT
Found at i:13677861 original size:25 final size:25
Alignment explanation
Indices: 13677808--13677881 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
13677798 GTTACTGATT
** ** *
13677808 TCAGCTCATATGAGCTTACCAATAT
1 TCAGCTCGCATGAGCTTACCGTTAA
13677833 TCAGCTCGCATGAGCTTACCGTTAA
1 TCAGCTCGCATGAGCTTACCGTTAA
*
13677858 TCAGCTCGGA-GAAGCTTACCGTTA
1 TCAGCTCGCATG-AGCTTACCGTTA
13677882 TTAAGCTCAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (25 bp):
TCAGCTCGCATGAGCTTACCGTTAA
Found at i:13677900 original size:25 final size:24
Alignment explanation
Indices: 13677845--13677894 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
13677835 AGCTCGCATG
*
13677845 AGCTTACCGTTAATCAGCTCGGAGA
1 AGCTTACCGTTAATAAGCTC-GAGA
*
13677870 AGCTTACCGTTATTAAGCTC-AGA
1 AGCTTACCGTTAATAAGCTCGAGA
13677893 AG
1 AG
13677895 TGCTTATCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
25 18 0.78
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AGCTTACCGTTAATAAGCTCGAGA
Found at i:13684515 original size:24 final size:24
Alignment explanation
Indices: 13684482--13684534 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
13684472 CCATTTTCTG
*
13684482 ATGCTGCTGAGGAGCCCACTCAAA
1 ATGCTACTGAGGAGCCCACTCAAA
* * *
13684506 ATGCTACTGAGTAGCCTACTCAAC
1 ATGCTACTGAGGAGCCCACTCAAA
13684530 ATGCT
1 ATGCT
13684535 GCTAAAGAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (24 bp):
ATGCTACTGAGGAGCCCACTCAAA
Found at i:13684545 original size:24 final size:23
Alignment explanation
Indices: 13684482--13684546 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
13684472 CCATTTTCTG
*
13684482 ATGCTGCTGAGGAGCCCACTCAAA
1 ATGCTGCT-AAGAGCCCACTCAAA
* * * *
13684506 ATGCTACTGAGTAGCCTACTCAAC
1 ATGCTGCTAAG-AGCCCACTCAAA
13684530 ATGCTGCTAAAGAGCCC
1 ATGCTGCT-AAGAGCCC
13684547 GAAAAGGTGA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
23 1 0.03
24 28 0.90
25 2 0.06
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (23 bp):
ATGCTGCTAAGAGCCCACTCAAA
Found at i:13688421 original size:31 final size:30
Alignment explanation
Indices: 13688369--13688535 Score: 88
Period size: 30 Copynumber: 5.6 Consensus size: 30
13688359 ATCAGTTAAA
* *
13688369 GAAAATGGATAGCTTCGGCTATCAAAATAAT
1 GAAAAGGGATAGCCTCGGCTATC-AAATAAT
* *
13688400 GAAAAGGGATAGCCT-GAGCTATCGAATTAT
1 GAAAAGGGATAGCCTCG-GCTATCAAATAAT
* *** * *
13688430 GAAAAGGGATGGTGACGAC-ATC-AACAAT
1 GAAAAGGGATAGCCTCGGCTATCAAATAAT
* *** * * * *
13688458 GAAAAAGGATAGTGACGACCATCGAACAAT
1 GAAAAGGGATAGCCTCGGCTATCAAATAAT
* ** *
13688488 GAAAAGGGATAGCTTCGGCTATTGAATTAT
1 GAAAAGGGATAGCCTCGGCTATCAAATAAT
*
13688518 GAAAAGGGATAGCTTCGG
1 GAAAAGGGATAGCCTCGG
13688536 GATGGTGATG
Statistics
Matches: 110, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
28 21 0.19
29 6 0.05
30 63 0.57
31 20 0.18
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (30 bp):
GAAAAGGGATAGCCTCGGCTATCAAATAAT
Found at i:13688434 original size:30 final size:31
Alignment explanation
Indices: 13688397--13688531 Score: 122
Period size: 30 Copynumber: 4.5 Consensus size: 31
13688387 CTATCAAAAT
*
13688397 AATGAAAAGGGATAGCCTGA-G-CTATCGAAT
1 AATGAAAAGGGATAG-CTGACGACTATCGAAC
* *
13688427 TATGAAAAGGGAT-GGTGACGAC-ATC-AAC
1 AATGAAAAGGGATAGCTGACGACTATCGAAC
* *
13688455 AATGAAAAAGGATAG-TGACGACCATCGAAC
1 AATGAAAAGGGATAGCTGACGACTATCGAAC
* * * *
13688485 AATGAAAAGGGATAGCT-TCGGCTATTGAAT
1 AATGAAAAGGGATAGCTGACGACTATCGAAC
*
13688515 TATGAAAAGGGATAGCT
1 AATGAAAAGGGATAGCT
13688532 TCGGGATGGT
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
28 23 0.26
29 9 0.10
30 54 0.62
31 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.20
Consensus pattern (31 bp):
AATGAAAAGGGATAGCTGACGACTATCGAAC
Found at i:13688519 original size:88 final size:89
Alignment explanation
Indices: 13688397--13688627 Score: 232
Period size: 100 Copynumber: 2.5 Consensus size: 89
13688387 CTATCAAAAT
* *
13688397 AATGAAAAGGGATAGCCT-GAGCTATCGAATTATGAAAAGGGATGGTGACGA-CATCAACAATGA
1 AATGAAAAGGGATAGCTTCG-GCTATTGAATTATGAAAAGGGATGGTGACGACCATCAACAATGA
* *
13688460 AAAAGGATAGTGACGACCATCGAAC
65 AAAAGGATAGTGACAACCATCAAAC
*
13688485 AATGAAAAGGGATAGCTTCGGCTATTGAATTATGAAAAGGGATAGCTTCGGGATGGTGATGACCA
1 AATGAAAAGGGATAGCTTCGGCTATTGAATTATG--AA---A-A-----GGGATGGTGACGACCA
* * *
13688550 TCAACAATGAAAAGGGTTAGTGACAACCATCAAAT
55 TCAACAATGAAAAAGGATAGTGACAACCATCAAAC
* ** *
13688585 AATGAAAAAGGATAGCTTCGGCTATTGAGCTATGAATAGGGAT
1 AATGAAAAGGGATAGCTTCGGCTATTGAATTATGAAAAGGGAT
13688628 AGCTTTGGCT
Statistics
Matches: 118, Mismatches: 12, Indels: 25
0.76 0.08 0.16
Matches are distributed among these distances:
88 30 0.25
89 6 0.05
90 2 0.02
93 1 0.01
94 2 0.02
98 2 0.02
99 12 0.10
100 63 0.53
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.21
Consensus pattern (89 bp):
AATGAAAAGGGATAGCTTCGGCTATTGAATTATGAAAAGGGATGGTGACGACCATCAACAATGAA
AAAGGATAGTGACAACCATCAAAC
Found at i:13688607 original size:100 final size:99
Alignment explanation
Indices: 13688435--13688632 Score: 297
Period size: 100 Copynumber: 2.0 Consensus size: 99
13688425 ATTATGAAAA
* * *
13688435 GGGATGGTGACGACATCAACAATGAAAAAGGATAGTGACGACCATCGAACAATGAAAAGGGATAG
1 GGGATGGTGACGACATCAACAATGAAAAAGGATAGTGACAACCATCAAACAATGAAAAAGGATAG
*
13688500 CTTCGGCTATTGAATTATGAAAAGGGATAGCTTC
66 CTTCGGCTATTGAACTATGAAAAGGGATAGCTTC
* * * *
13688534 GGGATGGTGATGACCATCAACAATGAAAAGGGTTAGTGACAACCATCAAATAATGAAAAAGGATA
1 GGGATGGTGACGA-CATCAACAATGAAAAAGGATAGTGACAACCATCAAACAATGAAAAAGGATA
* *
13688599 GCTTCGGCTATTGAGCTATGAATAGGGATAGCTT
65 GCTTCGGCTATTGAACTATGAAAAGGGATAGCTT
13688633 TGGCTATCGA
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
99 12 0.14
100 76 0.86
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.22
Consensus pattern (99 bp):
GGGATGGTGACGACATCAACAATGAAAAAGGATAGTGACAACCATCAAACAATGAAAAAGGATAG
CTTCGGCTATTGAACTATGAAAAGGGATAGCTTC
Found at i:13688620 original size:30 final size:30
Alignment explanation
Indices: 13688586--13688652 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
13688576 CCATCAAATA
*
13688586 ATGAAAAAGGATAGCTTCGGCTATTGAGCT
1 ATGAAAAAGGATAGCTTCGGCTATCGAGCT
* * * *
13688616 ATGAATAGGGATAGCTTTGGCTATCGAGTT
1 ATGAAAAAGGATAGCTTCGGCTATCGAGCT
13688646 ATGAAAA
1 ATGAAAA
13688653 GGGTTGGGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAAAAAGGATAGCTTCGGCTATCGAGCT
Found at i:13695928 original size:22 final size:21
Alignment explanation
Indices: 13695903--13695946 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
13695893 TGATAAAATT
13695903 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
13695925 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
13695946 T
1 T
13695947 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:13715731 original size:29 final size:29
Alignment explanation
Indices: 13715697--13715796 Score: 119
Period size: 29 Copynumber: 3.4 Consensus size: 29
13715687 GATGGTCGTC
**
13715697 ACCATCCCTTTTCATATTTGATGGTCAAA
1 ACCATCCCTTTTCATATTCAATGGTCAAA
* *
13715726 ATCATCCCTTTTTCATATTCAATGGTCGAA
1 ACCATCCC-TTTTCATATTCAATGGTCAAA
* * *
13715756 GCCATCCCTTTTCATATTCAATGGTCGAC
1 ACCATCCCTTTTCATATTCAATGGTCAAA
13715785 ACCATCCTCTTT
1 ACCATCC-CTTT
13715797 CTTTAATCGA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
29 33 0.54
30 28 0.46
ACGTcount: A:0.24, C:0.28, G:0.10, T:0.38
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCAATGGTCAAA
Found at i:13715797 original size:29 final size:29
Alignment explanation
Indices: 13715658--13715796 Score: 136
Period size: 30 Copynumber: 4.7 Consensus size: 29
13715648 GTGCTAAACG
* * * * *
13715658 ATGGTCGAAACCATCCATTTTCTTTAATCG
1 ATGGTCGACACCATCCCTTTTC-ATATTCA
* **
13715688 ATGGTCGTCACCATCCCTTTTCATATTTG
1 ATGGTCGACACCATCCCTTTTCATATTCA
* * *
13715717 ATGGTCAAAATCATCCCTTTTTCATATTCA
1 ATGGTCGACACCATCCC-TTTTCATATTCA
13715747 ATGGTCGA-AGCCATCCCTTTTCATATTCA
1 ATGGTCGACA-CCATCCCTTTTCATATTCA
13715776 ATGGTCGACACCATCCTCTTT
1 ATGGTCGACACCATCC-CTTT
13715797 CTTTAATCGA
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
29 44 0.48
30 47 0.52
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (29 bp):
ATGGTCGACACCATCCCTTTTCATATTCA
Found at i:13721020 original size:50 final size:50
Alignment explanation
Indices: 13720958--13721291 Score: 294
Period size: 51 Copynumber: 6.6 Consensus size: 50
13720948 TCGATACACG
* **
13720958 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACAATTCACA
* ** *
13721008 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACAATTCACA
* * * *
13721058 TAGTAGCCTTCACAGAATACTACACACGTGACCAAAGCTTTTA-AGTACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACAATTCACA
* * * * *** * *
13721109 TAGCAGCCTTCACTTAGTACTGCACATGTGACCATCATTTATCGATTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTA-CAATTCACA
* * * * *
13721160 TAGTAGCCTTCACACAGTACTAGACATGTGACCAAAGCTTCT-CAATACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACAATTCACA
** * * *** *
13721211 TTTTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCAATTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTA-CAATTCACA
*
13721262 TAGTAGCCTTCACACAGTACTACACACGTG
1 TAGTAGCCTTCACATAGTACTACACACGTG
13721292 TTCATCGATA
Statistics
Matches: 228, Mismatches: 48, Indels: 15
0.78 0.16 0.05
Matches are distributed among these distances:
49 6 0.03
50 81 0.36
51 133 0.58
52 6 0.03
53 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
TAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACAATTCACA
Found at i:13721171 original size:102 final size:102
Alignment explanation
Indices: 13720948--13721291 Score: 444
Period size: 102 Copynumber: 3.4 Consensus size: 102
13720938 CTTTTATCAT
* * * * *
13720948 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACATAG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTA-AGTACACATAG
* * * ***
13721011 TAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
13721049 -CGGTTCACGTAGTAGCCTTCACAGAATACTACACACGTGACCAAAGCTTTTAAGTACACATAGC
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTAAGTACACATAGT
*
13721113 AGCCTTCACTTAGTACTGCACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * **
13721150 TCGATTCACGTAGTAGCCTTCACACAGTACTAGACATGTGACCAAAGCTTCTCAA-TACACATTT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT-TTAAGTACACATAG
13721214 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
*
13721252 TCAATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
13721292 TTCATCGATA
Statistics
Matches: 211, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
100 37 0.18
101 42 0.20
102 129 0.61
103 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTAAGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:13724397 original size:42 final size:43
Alignment explanation
Indices: 13724314--13724430 Score: 112
Period size: 42 Copynumber: 2.7 Consensus size: 43
13724304 CTTTGTTTTC
* * * **
13724314 TCAATGCCATAGTCCAACTATGATCTTACACATATTTACATA-
1 TCAATGCCATAGCCCAGCTATGGTCTTACACATATGCACATAT
13724356 TCAATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 TCAATGCCATAGCCCAGCTATGGTCTTACACA-TATGCACATAT
* *
13724399 TACACTGATGCCATATCCCAGATATGGTCTTA
1 T-CA---ATGCCATAGCCCAGCTATGGTCTTA
13724431 TACGAAAATC
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
42 34 0.55
43 3 0.05
44 2 0.03
47 23 0.37
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.30
Consensus pattern (43 bp):
TCAATGCCATAGCCCAGCTATGGTCTTACACATATGCACATAT
Found at i:13724458 original size:47 final size:47
Alignment explanation
Indices: 13724359--13724459 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
13724349 TTACATATCA
* ** *
13724359 ATGCCATAGCCCAGCTATGGTCTTACACAGTAGCACATATTACACTG
1 ATGCCATAGCCCAGATATGGTCTTACACAAAAGCACATATCACACTG
* * *
13724406 ATGCCATATCCCAGATATGGTCTTATACGAAAATCACATATCACA-TG
1 ATGCCATAGCCCAGATATGGTCTTACAC-AAAAGCACATATCACACTG
*
13724453 TTGCCAT
1 ATGCCAT
13724460 GGTCCAACCA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
47 33 0.73
48 12 0.27
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (47 bp):
ATGCCATAGCCCAGATATGGTCTTACACAAAAGCACATATCACACTG
Found at i:13724550 original size:12 final size:12
Alignment explanation
Indices: 13724533--13724559 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13724523 GCCTTACTTC
13724533 ATACCAAATCAT
1 ATACCAAATCAT
13724545 ATACCAAATCAT
1 ATACCAAATCAT
13724557 ATA
1 ATA
13724560 ATTTCTAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (12 bp):
ATACCAAATCAT
Found at i:13731420 original size:14 final size:14
Alignment explanation
Indices: 13731403--13731450 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
13731393 GATTGAGATA
13731403 AAAACTAAACCCTG
1 AAAACTAAACCCTG
* * * *
13731417 AAAACAAAGAACATA
1 AAAACTAA-ACCCTG
13731432 AAAACTAAACCCTG
1 AAAACTAAACCCTG
13731446 AAAAC
1 AAAAC
13731451 AAAGAACCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.60, C:0.23, G:0.06, T:0.10
Consensus pattern (14 bp):
AAAACTAAACCCTG
Found at i:13731433 original size:29 final size:30
Alignment explanation
Indices: 13731400--13731472 Score: 121
Period size: 29 Copynumber: 2.4 Consensus size: 30
13731390 AAAGATTGAG
13731400 ATAAAAACTAAACCCTGAAAACAAAGAA-C
1 ATAAAAACTAAACCCTGAAAACAAAGAACC
13731429 ATAAAAACTAAACCCTGAAAACAAAGAACC
1 ATAAAAACTAAACCCTGAAAACAAAGAACC
*
13731459 CTAAAAACATAAAC
1 ATAAAAAC-TAAAC
13731473 ACAAAATTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 28 0.68
30 8 0.20
31 5 0.12
ACGTcount: A:0.62, C:0.22, G:0.05, T:0.11
Consensus pattern (30 bp):
ATAAAAACTAAACCCTGAAAACAAAGAACC
Found at i:13731460 original size:16 final size:16
Alignment explanation
Indices: 13731410--13731467 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
13731400 ATAAAAACTA
*
13731410 AACCCTGAAAACAAAG
1 AACCCTAAAAACAAAG
* *
13731426 AA-CATAAAAAC-TA-
1 AACCCTAAAAACAAAG
*
13731439 AACCCTGAAAACAAAG
1 AACCCTAAAAACAAAG
13731455 AACCCTAAAAACA
1 AACCCTAAAAACA
13731468 TAAACACAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
13 2 0.06
14 8 0.25
15 8 0.25
16 14 0.44
ACGTcount: A:0.60, C:0.24, G:0.07, T:0.09
Consensus pattern (16 bp):
AACCCTAAAAACAAAG
Found at i:13731597 original size:24 final size:24
Alignment explanation
Indices: 13731569--13731620 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13731559 TTAGTAAGTC
* *
13731569 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
13731593 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
13731617 AAAT
1 AAAT
13731621 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:13748891 original size:18 final size:17
Alignment explanation
Indices: 13748868--13748901 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13748858 CAAGAAGTAG
13748868 TTTTCTAGTTGATCTAAA
1 TTTTCTAGTTGA-CTAAA
*
13748886 TTTTCTTGTTGACTAA
1 TTTTCTAGTTGACTAA
13748902 GAAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTTTCTAGTTGACTAAA
Found at i:13751588 original size:5 final size:5
Alignment explanation
Indices: 13751578--13751603 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13751568 TGAGCATTCG
13751578 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
13751604 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:13752411 original size:30 final size:31
Alignment explanation
Indices: 13752355--13752414 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
13752345 GGAGGTGGGA
*
13752355 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGAGAATAAAACTTTTAGGGGAAAAG
* *
13752386 TGGGAAG-GAGTAAAACTTTTGGGGGAAAA
1 TGGGAAGAGAATAAAACTTTTAGGGGAAAA
13752415 TAAAAAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGAGAATAAAACTTTTAGGGGAAAAG
Found at i:13752645 original size:9 final size:9
Alignment explanation
Indices: 13752628--13752664 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
13752618 TATAGTTTGA
13752628 TATTCGAAT
1 TATTCGAAT
*
13752637 TATTTGAAT
1 TATTCGAAT
*
13752646 TATTCGAGT
1 TATTCGAAT
13752655 TATTCGAAT
1 TATTCGAAT
13752664 T
1 T
13752665 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:13754507 original size:14 final size:15
Alignment explanation
Indices: 13754480--13754509 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
13754470 CTACCATTTC
13754480 ACTATTTATGTTGTT
1 ACTATTTATGTTGTT
13754495 ACTATTT-TGTTGTT
1 ACTATTTATGTTGTT
13754509 A
1 A
13754510 TTGTTTGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (15 bp):
ACTATTTATGTTGTT
Found at i:13758878 original size:32 final size:32
Alignment explanation
Indices: 13758837--13758904 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
13758827 TTTGATTCAA
13758837 TATCCATACCTACGTGAATAATTTAGAATTTC
1 TATCCATACCTACGTGAATAATTTAGAATTTC
13758869 TATCCATACCTACGTGAATAATTTAGAATTTC
1 TATCCATACCTACGTGAATAATTTAGAATTTC
13758901 TATC
1 TATC
13758905 TAGTGGTCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (32 bp):
TATCCATACCTACGTGAATAATTTAGAATTTC
Found at i:13771971 original size:21 final size:21
Alignment explanation
Indices: 13771947--13771986 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13771937 TTCCATTTCT
13771947 TTTTCTTACACATTTCATTCC
1 TTTTCTTACACATTTCATTCC
* *
13771968 TTTTCTTACCCGTTTCATT
1 TTTTCTTACACATTTCATT
13771987 TGCATGGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.28, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTCTTACACATTTCATTCC
Found at i:13773266 original size:12 final size:11
Alignment explanation
Indices: 13773239--13773273 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
13773229 CTTTTCTTGT
13773239 TTTATTTTTAA
1 TTTATTTTTAA
13773250 TTTATTTTTAA
1 TTTATTTTTAA
13773261 TATTA-TTTTAA
1 T-TTATTTTTAA
13773272 TT
1 TT
13773274 ATAAACTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 19 0.83
12 3 0.13
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTATTTTTAA
Found at i:13779041 original size:27 final size:27
Alignment explanation
Indices: 13779004--13779602 Score: 642
Period size: 27 Copynumber: 22.1 Consensus size: 27
13778994 AGTGGTCGAT
* * *
13779004 AAATGATCGAAATACCCTCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
13779031 AAATGGCCGAAATACCCTCGTAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* *** *
13779058 AAATGACTGAAATACCCTTGTAGCGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
13779085 AAATGACTGAAATACCCCCGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
13779112 AAATGACCGAAAAACCCATATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** *
13779139 AAATGACCAAAATACCCTAATAGGGAA
1 AAATGACCGAAATACCCCCATAGGGTA
*
13779166 AAATGTCCGAAATACCCCCAGT-GGGTA
1 AAATGACCGAAATACCCCCA-TAGGGTA
** *
13779193 AAATGACCGAAATACTGCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
13779220 AAAAGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
13779247 AAATAACCAAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
13779274 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
13779301 GAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
13779328 AAATGATCGAAATACCCTTCATAAGGTA
1 AAATGACCGAAATACCC-CCATAGGGTA
**
13779356 AAATGACCGAAATACCCTAATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
13779383 GAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
13779410 AAATGACTGAAATACCCCTATAGAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
13779437 GAATGACCAAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
13779464 AAATGATCGAAATACCCCCATAAAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
13779491 AAATGACCGAAAGACCCCCATATGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
13779518 AAGTAACTGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
13779545 GAATGACTGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
13779572 AAATGATCGAAATACCCCCATAGGGTT
1 AAATGACCGAAATACCCCCATAGGGTA
13779599 AAAT
1 AAAT
13779603 AACTGTTATA
Statistics
Matches: 479, Mismatches: 90, Indels: 6
0.83 0.16 0.01
Matches are distributed among these distances:
26 1 0.00
27 453 0.95
28 25 0.05
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:13782442 original size:19 final size:19
Alignment explanation
Indices: 13782418--13782454 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13782408 CCCCTTCATC
13782418 TTCTT-AAACCTCTCTAAAT
1 TTCTTAAAACCTCT-TAAAT
13782437 TTCTTAAAACCTCTTAAA
1 TTCTTAAAACCTCTTAAA
13782455 CCTTAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (19 bp):
TTCTTAAAACCTCTTAAAT
Found at i:13798788 original size:16 final size:17
Alignment explanation
Indices: 13798767--13798799 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13798757 TTGTTTTGTT
13798767 ATATGTTCTG-TATATG
1 ATATGTTCTGATATATG
*
13798783 ATATGTTTTGATATATG
1 ATATGTTCTGATATATG
13798800 CTAGAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (17 bp):
ATATGTTCTGATATATG
Found at i:13813080 original size:20 final size:21
Alignment explanation
Indices: 13813055--13813096 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13813045 TGGAATGATT
13813055 AATTTAA-TCAATTTAGGTTG
1 AATTTAATTCAATTTAGGTTG
**
13813075 AATTTAATTCGTTTTAGGTTG
1 AATTTAATTCAATTTAGGTTG
13813096 A
1 A
13813097 TTGCATTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.48
Consensus pattern (21 bp):
AATTTAATTCAATTTAGGTTG
Found at i:13816062 original size:15 final size:15
Alignment explanation
Indices: 13816042--13816076 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
13816032 AGGTGTAGAA
13816042 GCCCAAATTTGCTGG
1 GCCCAAATTTGCTGG
13816057 GCCCAAATTTGCTGG
1 GCCCAAATTTGCTGG
13816072 GCCCA
1 GCCCA
13816077 TTGTCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.20, C:0.31, G:0.26, T:0.23
Consensus pattern (15 bp):
GCCCAAATTTGCTGG
Found at i:13816352 original size:16 final size:16
Alignment explanation
Indices: 13816313--13816352 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
13816303 ACGCAACAAC
*
13816313 AAAGAAAAAATAAAAT
1 AAAGAAAAAACAAAAT
*
13816329 AAAAAAAAAACAAAAT
1 AAAGAAAAAACAAAAT
*
13816345 AGAGAAAA
1 AAAGAAAA
13816353 GCATTGGTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.82, C:0.03, G:0.07, T:0.07
Consensus pattern (16 bp):
AAAGAAAAAACAAAAT
Found at i:13820935 original size:39 final size:39
Alignment explanation
Indices: 13820892--13820993 Score: 168
Period size: 39 Copynumber: 2.6 Consensus size: 39
13820882 TCGTAGGAGC
* * *
13820892 GCCTTGGGTCACAGCAGGCAGTGGGCCTTTCACAGGAAT
1 GCCTTGGGTCATAGCAGGCAGTGGGCATTTCACAAGAAT
*
13820931 GCCTTGGGTCATAGCAGGCAGTGGGCATTTCACAAGACT
1 GCCTTGGGTCATAGCAGGCAGTGGGCATTTCACAAGAAT
13820970 GCCTTGGGTCATAGCAGGCAGTGG
1 GCCTTGGGTCATAGCAGGCAGTGG
13820994 CCAAAACACA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.21, C:0.24, G:0.34, T:0.22
Consensus pattern (39 bp):
GCCTTGGGTCATAGCAGGCAGTGGGCATTTCACAAGAAT
Found at i:13822249 original size:25 final size:25
Alignment explanation
Indices: 13822220--13822269 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13822210 GATCGGATTG
13822220 AGTATCCATCTTTTTCAGATTTTGT
1 AGTATCCATCTTTTTCAGATTTTGT
13822245 AGTATCCATCTTTTTCAGATTTTGT
1 AGTATCCATCTTTTTCAGATTTTGT
13822270 TAAAGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.12, T:0.52
Consensus pattern (25 bp):
AGTATCCATCTTTTTCAGATTTTGT
Found at i:13822671 original size:65 final size:65
Alignment explanation
Indices: 13822567--13822696 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
13822557 TTTCACACGC
13822567 GTACTTTGAGGACATGAAAGTAGAATAGAATTACTGCTTTGATAAATGACTTGGGTGAGTGGATT
1 GTACTTTGAGGACATGAAAGTAGAATAGAATTACTGCTTTGATAAATGACTTGGGTGAGTGGATT
13822632 GTACTTTGAGGACATGAAAGTAGAATAGAATTACTGCTTTGATAAATGACTTGGGTGAGTGGATT
1 GTACTTTGAGGACATGAAAGTAGAATAGAATTACTGCTTTGATAAATGACTTGGGTGAGTGGATT
13822697 ATGGATGATG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (65 bp):
GTACTTTGAGGACATGAAAGTAGAATAGAATTACTGCTTTGATAAATGACTTGGGTGAGTGGATT
Found at i:13824511 original size:45 final size:45
Alignment explanation
Indices: 13824479--13824668 Score: 274
Period size: 45 Copynumber: 4.2 Consensus size: 45
13824469 CCAGACCAGA
13824479 AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
1 AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
* * * * * *
13824524 ATCGAATAAGACCATGACTTAAATACT-TTATGGCATTACGATTTT
1 AACGAGTAAGACCATGACTGAAAGA-TGTTATGGCATCACGATTCT
*
13824569 AACGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCT
1 AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
* *
13824614 ATCGAGTAAGACCATGACTGAAAAATGTTATGGCATCACGATTCT
1 AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
*
13824659 ATCGAGTAAG
1 AACGAGTAAG
13824669 CTGAAAGACA
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
45 126 0.99
46 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (45 bp):
AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
Found at i:13831056 original size:24 final size:27
Alignment explanation
Indices: 13831014--13831062 Score: 77
Period size: 24 Copynumber: 1.9 Consensus size: 27
13831004 ACATCAATCA
13831014 ATTCACATTATAAATAACA-TAATAAT
1 ATTCACATTATAAATAACATTAATAAT
13831040 ATTCA-ATT-TAAATAACATTAATA
1 ATTCACATTATAAATAACATTAATA
13831063 TGATAACCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
25 8 0.36
26 5 0.23
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (27 bp):
ATTCACATTATAAATAACATTAATAAT
Found at i:13834519 original size:41 final size:41
Alignment explanation
Indices: 13834458--13834741 Score: 338
Period size: 41 Copynumber: 6.9 Consensus size: 41
13834448 TTCTTACCTT
* * * *
13834458 TCGGGGCTTTAGCAGTGTTTTCGAAAAAGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
13834499 TCGGGGCTTTGGCGGCGTTTTTGAAAATGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
13834540 TCGGGGGTTTTAGTGTCGTTTTTGAAAAAGCGCCGCTAATGC
1 TC-GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
13834582 TCGGTGTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
** * * *
13834623 TCGGGG-TTGTAGCGGTATTTTT-AAAAAGCGTCGCTAGTGT
1 TCGGGGCTT-TAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * *
13834663 TTGGGGTTTTAGCAGCGTTTTTTAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
13834704 TAGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
13834742 AAACTTTTTA
Statistics
Matches: 207, Mismatches: 32, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
40 32 0.15
41 139 0.67
42 36 0.17
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.31
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:13834614 original size:83 final size:81
Alignment explanation
Indices: 13834458--13834741 Score: 345
Period size: 83 Copynumber: 3.5 Consensus size: 81
13834448 TTCTTACCTT
* * * * * * *
13834458 TCGGGGCTTTAGCAGTGTTTTCGAAAAAGCACCGCTAATGCTCGGGGCTTTGGCGGCGTTTTTGA
1 TCGGGGTTTTAGC-GCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTTA
*
13834523 AAATGCGCCGCTAATGC
65 AAAAGCGCCGCTAATGC
* *
13834540 TCGGGGGTTTTAGTGTCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTGTTTTAGCGGCGTTTTTT
1 TC-GGGGTTTTAGCG-CGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTT
13834605 AAAAAGCGCCGCTAATGC
64 AAAAAGCGCCGCTAATGC
* * * * * * *
13834623 TCGGGGTTGTAGCG-GTATTTTTAAAAAGCGTCGCTAGTGTTTGGGGTTTTAGCAGCGTTTTTTA
1 TCGGGGTTTTAGCGCGT-TTTTGAAAAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTTA
13834687 AAAAGCGCCGCTAATGC
65 AAAAGCGCCGCTAATGC
* *
13834704 TAGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TCGGGGTTTTAGC-GCGTTTTTGAAAAAGCGCCGCTAA
13834742 AAACTTTTTA
Statistics
Matches: 172, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
80 2 0.01
81 67 0.39
82 31 0.18
83 72 0.42
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.31
Consensus pattern (81 bp):
TCGGGGTTTTAGCGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTTAA
AAAGCGCCGCTAATGC
Found at i:13835127 original size:14 final size:14
Alignment explanation
Indices: 13835101--13835144 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
13835091 GTTTAGGGAG
13835101 TATGGATTTAGGGGT
1 TATGGA-TTAGGGGT
*
13835116 TATGGATTAGGGAT
1 TATGGATTAGGGGT
* *
13835130 TATGGTTTAAGGGT
1 TATGGATTAGGGGT
13835144 T
1 T
13835145 GGGATTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.41
Consensus pattern (14 bp):
TATGGATTAGGGGT
Found at i:13835142 original size:15 final size:14
Alignment explanation
Indices: 13835090--13835138 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
13835080 ACTATTTTAA
*
13835090 GGTTTAGGGAGTAT
1 GGTTTAGGGATTAT
*
13835104 GGATTTAGGGGTTAT
1 GG-TTTAGGGATTAT
*
13835119 GGATTAGGGATTAT
1 GGTTTAGGGATTAT
13835133 GGTTTA
1 GGTTTA
13835139 AGGGTTGGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:13835159 original size:21 final size:21
Alignment explanation
Indices: 13835085--13835165 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
13835075 GAGTTACTAT
13835085 TTTAAGGTTTAGGGAGTAT-GGA
1 TTTAAGGTTTAGGG-GT-TGGGA
* * * *
13835107 TTTAGGGGTTATGGATTAGGGA
1 TTTAAGGTTTAGGGGTT-GGGA
* *
13835129 -TTATGGTTTAAGGGTTGGGA
1 TTTAAGGTTTAGGGGTTGGGA
13835149 TTTAAGGTTTAGGGGTT
1 TTTAAGGTTTAGGGGTT
13835166 AAGGGTTTAA
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
20 5 0.11
21 27 0.59
22 14 0.30
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.40
Consensus pattern (21 bp):
TTTAAGGTTTAGGGGTTGGGA
Found at i:13835617 original size:7 final size:7
Alignment explanation
Indices: 13835599--13835664 Score: 62
Period size: 7 Copynumber: 9.3 Consensus size: 7
13835589 TGGGATTTTT
13835599 GGTTTAG
1 GGTTTAG
* *
13835606 AGTTTAA
1 GGTTTAG
13835613 GGTTTAG
1 GGTTTAG
13835620 GGTTTAG
1 GGTTTAG
*
13835627 GGTTTAA
1 GGTTTAG
*
13835634 GATTTAG
1 GGTTTAG
13835641 GGTTTTTAG
1 GG--TTTAG
*
13835650 GTTTTAG
1 GGTTTAG
13835657 GG-TTAG
1 GGTTTAG
13835663 GG
1 GG
13835665 GTCAAAATTT
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
6 6 0.13
7 35 0.74
9 6 0.13
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:13835623 original size:21 final size:21
Alignment explanation
Indices: 13835599--13835645 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
13835589 TGGGATTTTT
*
13835599 GGTTTAGAGTTTAAGGTTTAG
1 GGTTTAGAGTTTAAGATTTAG
*
13835620 GGTTTAGGGTTTAAGATTTAG
1 GGTTTAGAGTTTAAGATTTAG
13835641 GGTTT
1 GGTTT
13835646 TTAGGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (21 bp):
GGTTTAGAGTTTAAGATTTAG
Found at i:13835776 original size:7 final size:7
Alignment explanation
Indices: 13835766--13835810 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
13835756 GGTGTTATGA
13835766 GTTACGG
1 GTTACGG
*
13835773 GTTACAG
1 GTTACGG
*
13835780 GTTACAG
1 GTTACGG
13835787 GTTACGG
1 GTTACGG
*
13835794 GTCACGG
1 GTTACGG
*
13835801 GTCACGG
1 GTTACGG
13835808 GTT
1 GTT
13835811 TAGGGTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.27
Consensus pattern (7 bp):
GTTACGG
Found at i:13838013 original size:50 final size:50
Alignment explanation
Indices: 13837898--13838140 Score: 405
Period size: 50 Copynumber: 4.8 Consensus size: 50
13837888 GATAATAACA
* ** *
13837898 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* **
13837949 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
13837999 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
13838049 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
13838099 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
13838141 TTACCCAAAT
Statistics
Matches: 180, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 147 0.82
51 33 0.18
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:13842482 original size:22 final size:22
Alignment explanation
Indices: 13842457--13842539 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 22
13842447 CCTAAACCCA
13842457 TCATGTTTTATTCTGTAAATAT
1 TCATGTTTTATTCTGTAAATAT
* *
13842479 TCATGTTTTATTCAT-TGATTAAT
1 TCATGTTTTATTC-TGTAAAT-AT
** **
13842502 TGTTGTAAATATTCTGTAAATAT
1 TCATGT-TTTATTCTGTAAATAT
13842525 TCATGTTTTATTCTG
1 TCATGTTTTATTCTG
13842540 AACTCATTTG
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
22 23 0.51
23 14 0.31
24 8 0.18
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (22 bp):
TCATGTTTTATTCTGTAAATAT
Found at i:13842661 original size:105 final size:105
Alignment explanation
Indices: 13842541--13842750 Score: 384
Period size: 105 Copynumber: 2.0 Consensus size: 105
13842531 TTTATTCTGA
*
13842541 ACTCATTTGCAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTTTATTCTGTAAATAT
1 ACTCATTTACAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTTTATTCTGTAAATAT
13842606 TCTGTAACTATTTAGGGATTCTGCCTCTTTTTACCTTTGT
66 TCTGTAACTATTTAGGGATTCTGCCTCTTTTTACCTTTGT
* *
13842646 ACTCATTTATAGAGGAGAAATTTCCTAAACCCACCAATGTTATTTATGTTTTATTCTGTAAATAT
1 ACTCATTTACAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTTTATTCTGTAAATAT
*
13842711 TCTGTAACTATTTAGGGATTCTGCCTCTTTTTACTTTTGT
66 TCTGTAACTATTTAGGGATTCTGCCTCTTTTTACCTTTGT
13842751 GTAAAGGTAT
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 101 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (105 bp):
ACTCATTTACAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTTTATTCTGTAAATAT
TCTGTAACTATTTAGGGATTCTGCCTCTTTTTACCTTTGT
Found at i:13844273 original size:30 final size:31
Alignment explanation
Indices: 13844221--13844280 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
13844211 TTAATTTATT
13844221 TTAAAGTTCAAATTTACATAACTTACATAAA
1 TTAAAGTTCAAATTTACATAACTTACATAAA
13844252 TTAAAGTTCAAATTT-CATAACTTACATAA
1 TTAAAGTTCAAATTTACATAACTTACATAA
13844281 TTTACATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (31 bp):
TTAAAGTTCAAATTTACATAACTTACATAAA
Found at i:13844533 original size:264 final size:267
Alignment explanation
Indices: 13844073--13844557 Score: 852
Period size: 264 Copynumber: 1.8 Consensus size: 267
13844063 TTTTTTAAAT
13844073 TTTATGCTATTTTAATCACGAAAAACATTTTTGTTTTGTTTTCTTTTATTTTTAATTTACCTAAT
1 TTTATGCTATTTTAATCACGAAAAACATTTTTGTTTTGTTTTCTTTTATTTTTAATTTACCTAAT
*
13844138 TAAATAAATTGTATTCAAATTTATATTTTAAATAGTTTATTTAATTTGAATGACGGAAAAAATTT
66 TAAATAAAATGTATTCAAATTTATATTTTAAATAGTTTATTTAATTTGAATGACGGAAAAAATTT
13844203 TCAAACTTTTAATTTATTTTAAAGTTCAAATTTACATAACTTACATAAATTAAAGTTCAAATTTC
131 TCAAACTTTTAATTTATTTTAAAGTTCAAATTTACATAACTTACATAAATTAAAGTTCAAATTTC
*
13844268 ATAACTTACATAATTTACATAACTTATATAATTTCAGAATGTTTTCATTCTTCTTTATCTTTTTT
196 ATAACTTACATAAATTACATAACTTATATAATTTCAGAATGTTTTCATTCTTCTTTATCTTTTTT
13844333 TACTTAC
261 TACTTAC
* *
13844340 TTTATGCTATTTTAATCATG-AAAATA-TTTTGTTTTGTTTTCTTTTATTTTTAATTTACCTAAT
1 TTTATGCTATTTTAATCACGAAAAACATTTTTGTTTTGTTTTCTTTTATTTTTAATTTACCTAAT
* * **
13844403 TAAATAAAATGTATTCAAA-TTATATTTTAAATATTTTATTTAATTTGAATGAGGGAAAATTTTT
66 TAAATAAAATGTATTCAAATTTATATTTTAAATAGTTTATTTAATTTGAATGACGGAAAAAATTT
13844467 TCAAACTTTTAATTTATTTTAAAGTT-AATATTTACATAACTTACATAAATTAAAGTTCAAATTT
131 TCAAACTTTTAATTTATTTTAAAGTTCAA-ATTTACATAACTTACATAAATTAAAGTTCAAATTT
*
13844531 CATAACTTGCATAAATTACATAACTTA
195 CATAACTTACATAAATTACATAACTTA
13844558 CTTAATACAA
Statistics
Matches: 208, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
263 2 0.01
264 127 0.61
265 55 0.26
266 5 0.02
267 19 0.09
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (267 bp):
TTTATGCTATTTTAATCACGAAAAACATTTTTGTTTTGTTTTCTTTTATTTTTAATTTACCTAAT
TAAATAAAATGTATTCAAATTTATATTTTAAATAGTTTATTTAATTTGAATGACGGAAAAAATTT
TCAAACTTTTAATTTATTTTAAAGTTCAAATTTACATAACTTACATAAATTAAAGTTCAAATTTC
ATAACTTACATAAATTACATAACTTATATAATTTCAGAATGTTTTCATTCTTCTTTATCTTTTTT
TACTTAC
Found at i:13844537 original size:30 final size:30
Alignment explanation
Indices: 13844485--13844634 Score: 108
Period size: 30 Copynumber: 4.8 Consensus size: 30
13844475 TTAATTTATT
13844485 TTAAAGTT-AATATTTACATAACTTACATAAA
1 TTAAAGTTCAA-ATTT-CATAACTTACATAAA
*
13844516 TTAAAGTTCAAATTTCATAACTTGCATAAA
1 TTAAAGTTCAAATTTCATAACTTACATAAA
* * * * *
13844546 TTACATAACTTACTTAA-TACAAAACTTATATAATA
1 TT--A-AAGTT-C-AAATTTCATAACTTACATAA-A
* * *
13844581 TT-AAGATCAAATTTCATAACTTGCATAAT
1 TTAAAGTTCAAATTTCATAACTTACATAAA
* *
13844610 TTTAAGATCAAATTTCATAACTTAC
1 TTAAAGTTCAAATTTCATAACTTAC
13844635 GTAATTTATA
Statistics
Matches: 94, Mismatches: 16, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
29 4 0.04
30 50 0.53
31 15 0.16
32 3 0.03
33 4 0.04
34 13 0.14
35 5 0.05
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (30 bp):
TTAAAGTTCAAATTTCATAACTTACATAAA
Found at i:13844640 original size:30 final size:30
Alignment explanation
Indices: 13844568--13844641 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
13844558 CTTAATACAA
* *
13844568 AACTTATATAATATTAAGATCAAATTTCAT
1 AACTTACATAATTTTAAGATCAAATTTCAT
*
13844598 AACTTGCATAATTTTAAGATCAAATTTCAT
1 AACTTACATAATTTTAAGATCAAATTTCAT
*
13844628 AACTTACGTAATTT
1 AACTTACATAATTT
13844642 ATATAACTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTACATAATTTTAAGATCAAATTTCAT
Found at i:13844941 original size:21 final size:21
Alignment explanation
Indices: 13844891--13844930 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13844881 TTTATAATTA
*
13844891 AAGCAGACGCAGCAGCGAGGC
1 AAGCAGAGGCAGCAGCGAGGC
*
13844912 AAGCAGAGGCAGCATCGAG
1 AAGCAGAGGCAGCAGCGAG
13844931 AGAAGCTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.25, G:0.38, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGC
Found at i:13845411 original size:58 final size:57
Alignment explanation
Indices: 13845324--13845439 Score: 169
Period size: 58 Copynumber: 2.0 Consensus size: 57
13845314 ATTAAAAAAC
* * * * * *
13845324 GCCGCTAAAGTCGTGTTCTTTAGCTGCGTTTGTGGGAGAAGCGCTGCTAAAAGTCAT
1 GCCGCTAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGAGCCGCTAAAAGTCAT
13845381 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGAGCCGCTAAAAGTCAT
1 GCCGCT-AAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGAGCCGCTAAAAGTCAT
13845439 G
1 G
13845440 ATCTATAGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 6 0.12
58 46 0.88
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (57 bp):
GCCGCTAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGAGCCGCTAAAAGTCAT
Found at i:13845442 original size:43 final size:43
Alignment explanation
Indices: 13845381--13845526 Score: 222
Period size: 43 Copynumber: 3.4 Consensus size: 43
13845371 TAAAAGTCAT
13845381 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGA
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGA
* * * *
13845424 GCCGCTAAAAGTCATGATCTATAGCAGCGTTTGTAGGAAAAGC
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGA
*
13845467 GCCGCTAAAAGTCATGATCTATAGTGGCGTTTGTGGGAGAAGTA
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAG-A
*
13845511 -CCGCTAAAGGTCATGA
1 GCCGCTAAAAGTCATGA
13845527 CCTTTAGTGG
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 92 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGA
Found at i:13847393 original size:43 final size:43
Alignment explanation
Indices: 13847282--13847492 Score: 158
Period size: 43 Copynumber: 4.9 Consensus size: 43
13847272 ATAGAACACA
* * * * *
13847282 ACCTTTAGCGGCGCTTTTATAAAAAAACGTCACTAAAGAACATG
1 ACCTTTAGCGGCGCTTTTAT-CACAAACGCCGCTAAAAAACATG
* *
13847326 ACCTTTAGCAGCGC-TTTACCCACAAACGCCGCTAAAAAACATG
1 ACCTTTAGCGGCGCTTTTA-TCACAAACGCCGCTAAAAAACATG
* * * * * *
13847369 ACCTTTAGTGGCACTTTTATCACAAACTCCGCTATAGAGA-ATA
1 ACCTTTAGCGGCGCTTTTATCACAAACGCCGCTA-AAAAACATG
* ** * * *
13847412 ACTTTTAGTAGCTTTCTTTT-TCACAAATGCCGCTAAAGAACATG
1 ACCTTTAGCGGC--GCTTTTATCACAAACGCCGCTAAAAAACATG
* **
13847456 ATCTTTAGCGGCGCTTTTATCACAAACGTTGCTAAAA
1 ACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAA
13847493 GTACTGTTCT
Statistics
Matches: 127, Mismatches: 33, Indels: 15
0.73 0.19 0.09
Matches are distributed among these distances:
42 5 0.04
43 74 0.58
44 43 0.34
45 5 0.04
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAAAACATG
Found at i:13849739 original size:40 final size:40
Alignment explanation
Indices: 13849649--13849748 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
13849639 GCGTTTGGAC
* **
13849649 AAAAAACGCCGCTAAAGCTCGAGCATTAGCGGCGCTTCTAG
1 AAAAAACGCTGCTAAAAAT-GAGCATTAGCGGCGCTTCTAG
* * * * *
13849690 -GAAAGCGCTGCTAAAAATGAGCATTAGCGGCGTTTTTCG
1 AAAAAACGCTGCTAAAAATGAGCATTAGCGGCGCTTCTAG
*
13849729 AAAAAACGCTGCAAAAAATG
1 AAAAAACGCTGCTAAAAATG
13849749 TAAGCCCAAC
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
39 18 0.38
40 29 0.62
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (40 bp):
AAAAAACGCTGCTAAAAATGAGCATTAGCGGCGCTTCTAG
Found at i:13849853 original size:41 final size:41
Alignment explanation
Indices: 13849785--13849974 Score: 251
Period size: 41 Copynumber: 4.6 Consensus size: 41
13849775 CTTTTAGGGC
*
13849785 TTTAGCGGCGTTTTTTAAAAAAGCGCCGCTAATGCTCAGAGC-
1 TTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATGCTC-GAGCT
*
13849827 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCG-GACT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGAG-CT
* * *
13849868 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATTCTCGGGCT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGAGCT
13849909 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCG-GTCT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGAG-CT
* *
13849950 TTTAGCGGCATTTTTTCAAAAAGCG
1 TTTAGCGGC-GTTTTTGAAAAAGCG
13849975 TCGCAAAAAC
Statistics
Matches: 136, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
39 1 0.01
40 3 0.02
41 108 0.79
42 24 0.18
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGAGCT
Found at i:13854292 original size:43 final size:43
Alignment explanation
Indices: 13854232--13854322 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
13854222 CTTTGAGTTC
* * *
13854232 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
13854274 ATTACCAAGATTTACTTGATTAAGAAAATGCATTCTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
13854317 ATTACC
1 ATTACC
13854323 TTGCATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:13854722 original size:43 final size:42
Alignment explanation
Indices: 13854588--13854900 Score: 283
Period size: 43 Copynumber: 7.3 Consensus size: 42
13854578 AAGATATGTT
* * * *
13854588 TTTAGCGGCGTTTGTCTGAGAAGCGCCGTTAAAGGTT-TGTTC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTTATGGTC
** * * * * * * *
13854630 AATAGCAGCGTTCGTACGAAAATGCGTCGCTAAA-GATCTGTTC
1 TTTAGCGGCGTTTGT-GGAAAA-GCGCCGCTAAAGGTTATGGTC
* * *
13854673 TATAGCGGCGTTTGTAGGAAAAGCGACGCTAAAGGTTATGGAC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTTATGGTC
* * *
13854716 TTTAGCGGCGTTTGTGGGAAAGGCGCCGCTAAAGATCATGGTC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTTATGGTC
* *
13854759 TTTAGCGGCGTTTGTGGAAAAAGCGACGCTAAAGGTCT-TAGTC
1 TTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGT-TATGGTC
* * *
13854802 TTTAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGATCATGGTC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTTATGGTC
*
13854845 TTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCT-TGGTC
1 TTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGT-TATGGTC
13854888 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
13854901 TTTGCAGCGC
Statistics
Matches: 224, Mismatches: 38, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
42 31 0.14
43 191 0.85
44 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTTATGGTC
Found at i:13854783 original size:86 final size:86
Alignment explanation
Indices: 13854647--13854900 Score: 379
Period size: 86 Copynumber: 3.0 Consensus size: 86
13854637 GCGTTCGTAC
* * *
13854647 GAAAATGCGTCGCTAAAGATC-TGTTCTATAGCGGCGTTTGTAGG-AAAAGCGACGCTAAAGGT-
1 GAAAA-GCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGT-GGAAAAAGCGACGCTAAAGGTC
*
13854709 TATGGACTTTAGCGGCGTTTGTGG
64 T-TGGTCTTTAGCGGCGTTTGTGG
*
13854733 GAAAGGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGAAAAAGCGACGCTAAAGGTCTT
1 GAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGAAAAAGCGACGCTAAAGGTCTT
*
13854798 AGTCTTTAGCGGCGTTTGTGG
66 GGTCTTTAGCGGCGTTTGTGG
* * *
13854819 GAAAAGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCTT
1 GAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGAAAAAGCGACGCTAAAGGTCTT
13854884 GGTCTTTAGCGGCGTTT
66 GGTCTTTAGCGGCGTTT
13854901 TTTGCAGCGC
Statistics
Matches: 154, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
85 16 0.10
86 137 0.89
87 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (86 bp):
GAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGAAAAAGCGACGCTAAAGGTCTT
GGTCTTTAGCGGCGTTTGTGG
Found at i:13857028 original size:16 final size:16
Alignment explanation
Indices: 13857007--13857039 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13856997 TTCGCTGTAT
*
13857007 TGGAATATAGGCGTAA
1 TGGAATAGAGGCGTAA
13857023 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
13857039 T
1 T
13857040 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:13857293 original size:18 final size:17
Alignment explanation
Indices: 13857272--13857306 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13857262 TTATTATTAA
*
13857272 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13857290 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13857307 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13857470 original size:120 final size:120
Alignment explanation
Indices: 13857252--13857864 Score: 985
Period size: 120 Copynumber: 5.1 Consensus size: 120
13857242 TTAATCATAT
* *
13857252 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
* * *
13857317 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * *
13857372 TTTAACATAATTATTATTAAATACATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
* * *
13857437 CAATATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
13857492 TTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATCTT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
* *
13857557 AAATATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
13857612 TTTAAAATAATAATTATTAAATATAATTTAA-TAAAAAACTATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATA-TATAATTTAATAAAATTCTTAATAT
13857676 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 T-AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
13857733 TCTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
13857798 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
13857853 TCTAAAATAATT
1 TTTAAAATAATT
13857865 GATTTTGTGG
Statistics
Matches: 466, Mismatches: 24, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
119 6 0.01
120 347 0.74
121 108 0.23
122 5 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:13857533 original size:18 final size:17
Alignment explanation
Indices: 13857510--13857546 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
13857500 AATTATTATT
13857510 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
13857526 AAATATATGATTTAATA
1 AAATATATGATTTAATA
13857543 AAAT
1 AAAT
13857547 TCTTAATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:13857626 original size:13 final size:12
Alignment explanation
Indices: 13857602--13857642 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
13857592 TATAATAGTA
13857602 TAAAATATAATT
1 TAAAATATAATT
13857614 TAAAATAATAATT
1 TAAAAT-ATAATT
*
13857627 ATTAAATATAATT
1 -TAAAATATAATT
13857640 TAA
1 TAA
13857643 TAAAAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:13857678 original size:18 final size:17
Alignment explanation
Indices: 13857635--13857688 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
13857625 TTATTAAATA
**
13857635 TAATTTAATAAAAAACT
1 TAATTTAATAAAATTCT
13857652 ATAATTTAATAAAATTCT
1 -TAATTTAATAAAATTCT
*
13857670 TAATATTAA-AATATTCT
1 TAAT-TTAATAAAATTCT
13857687 TA
1 TA
13857689 TATGAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 13 0.41
18 19 0.59
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATTTAATAAAATTCT
Found at i:13857790 original size:241 final size:240
Alignment explanation
Indices: 13857258--13857863 Score: 980
Period size: 241 Copynumber: 2.5 Consensus size: 240
13857248 ATATTTTAAC
* *
13857258 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* * * *
13857323 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATAATTATTA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTA
* * * *
13857388 TTAAATACATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
131 TTAAATACAATTTAATTAAAAAATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGA
* * * *
13857453 ATTTACTAAAATTATAATATATGATACTATAAAATATAATTTGAA
196 ATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
* *
13857498 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATCTTAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* *
13857563 TCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAATTTAAAATAATAATTA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTA
* *
13857628 TTAAATATAATTTAA-TAAAAAACTATAATTTAATAAAATTCTTAATATTAAAATATTCTTATAT
131 TTAAATACAATTTAATTAAAAAA-TATAATTTAATAAAATTCTTAATAAT-AAATATTCTTATAT
13857692 GAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
194 GAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
* *
13857739 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
*
13857804 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATAAT
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAAT
13857864 TGATTTTGTG
Statistics
Matches: 337, Mismatches: 27, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
239 6 0.02
240 157 0.47
241 174 0.52
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (240 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTA
TTAAATACAATTTAATTAAAAAATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGA
ATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
Found at i:13859611 original size:13 final size:13
Alignment explanation
Indices: 13859595--13859645 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
13859585 TAGACCAAGC
13859595 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
13859608 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
** * *
13859621 TTTTTTACAGCAC
1 TTTTCAAAAGCAT
13859634 TTTTCAAAAGCA
1 TTTTCAAAAGCA
13859646 ATGAGAAACT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:13862488 original size:40 final size:40
Alignment explanation
Indices: 13862444--13862548 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 40
13862434 TATTTTATAA
* * *
13862444 TTTTTATATACATATATATATGTGTGTCTA-TATACATATT
1 TTTTTATATACATATATATATATATGCCTATTATACAT-TT
** * *
13862484 TTTTTATAT-TTTATAATTTATATATGCCTATTGTACATTT
1 TTTTTATATACATAT-ATATATATATGCCTATTATACATTT
*
13862524 TTTTAATATACATATATATATATAT
1 TTTTTATATACATATATATATATAT
13862549 ATATATATCC
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
39 3 0.06
40 39 0.76
41 9 0.18
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (40 bp):
TTTTTATATACATATATATATATATGCCTATTATACATTT
Found at i:13864292 original size:18 final size:18
Alignment explanation
Indices: 13864265--13864309 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
13864255 TAATTTATAG
13864265 TTTTTGTATTTCATTTTTA
1 TTTTT-TATTTCATTTTTA
13864284 TTTTTTATTTCATTTTTA
1 TTTTTTATTTCATTTTTA
*
13864302 TTTGTTAT
1 TTTTTTAT
13864310 AATTTGATCC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTTTTATTTCATTTTTA
Found at i:13864678 original size:15 final size:16
Alignment explanation
Indices: 13864655--13864697 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
13864645 ACTAATTAAT
13864655 CTAAACCCTAAATC-C
1 CTAAACCCTAAATCTC
*
13864670 CTAACCCCT--ATCTC
1 CTAAACCCTAAATCTC
13864684 CTAAACCCTAAATC
1 CTAAACCCTAAATC
13864698 ATAAAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 3 0.13
14 9 0.39
15 8 0.35
16 3 0.13
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (16 bp):
CTAAACCCTAAATCTC
Found at i:13864765 original size:14 final size:15
Alignment explanation
Indices: 13864736--13864768 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
13864726 TTTAATCCCT
13864736 AACCCCTAAACATTA
1 AACCCCTAAACATTA
*
13864751 AACCCC-AACCATTA
1 AACCCCTAAACATTA
13864765 AACC
1 AACC
13864769 ATAAATCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.15
Consensus pattern (15 bp):
AACCCCTAAACATTA
Found at i:13865189 original size:40 final size:40
Alignment explanation
Indices: 13865141--13865618 Score: 456
Period size: 40 Copynumber: 12.1 Consensus size: 40
13865131 AATGTTTTTT
* *
13865141 GCGGCGTTTTTGATAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* * * *
13865181 GCGTCGTTTTTCTAAAAGCGACGCTAATGCTCCATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
*
13865221 GCGGCGTTTTTCAAAAAGCGCCGCTAATGGTCGA-CATATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATC-TATA
* * * *
13865261 GTGACGTTTTTCAAAAAGCACCACTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
*** * * *
13865301 AAAGCGATTTTCAAAAAGCGCCACTAATGCTCCATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
*
13865341 GCGGCGTTTTTCAAAAAGCGCCGCTAATGGTCGA-CATATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATC-TATA
* *
13865381 GCGACGTTTTTCAAAAAGCGCCGCTAATACTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* *
13865421 GAGGCGATTTTCAAAAA-CTGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGC-GCCGCTAATGCTCGATCTATA
* *
13865461 GCAGCGTTTTTCAAAAAGCGCCTCTAATGC-C-A-CTA-A
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* *** * * ** ** * * *
13865497 --AGC--TCAACAAAAAACGACGACGTTGTGCTTAATTTTTT
1 GCGGCGTTTTTCAAAAAGCGCCG-C-TAATGCTCGATCTATA
* * * *
13865535 GCGGTGTTTTTCAAATAGCGCCGCTAATGGTCGACCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
*
13865575 GTGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
13865615 GCGG
1 GCGG
13865619 TGTGTTTTAT
Statistics
Matches: 346, Mismatches: 76, Indels: 32
0.76 0.17 0.07
Matches are distributed among these distances:
32 10 0.03
33 1 0.00
34 7 0.02
36 2 0.01
37 4 0.01
38 1 0.00
39 4 0.01
40 303 0.88
41 4 0.01
42 10 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:13865358 original size:120 final size:120
Alignment explanation
Indices: 13865145--13865489 Score: 505
Period size: 120 Copynumber: 2.9 Consensus size: 120
13865135 TTTTTTGCGG
* * ** * * *
13865145 CGTTTTTGATAAAGCGCCGCTAATGCTCGATCTAT-AGCGTCGTTTTTCTAAAAGCGACGCTAAT
1 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAAAAG-CGATTTTCAAAAAGCGCCGCTAAT
*
13865209 GCTCCATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGGTCGACATATAGTGA
65 GCTCCATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGGTCGACATATAGCGA
* * *
13865265 CGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAAAAGCGATTTTCAAAAAGCGCCACTAATG
1 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAAAAGCGATTTTCAAAAAGCGCCGCTAATG
13865330 CTCCATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGGTCGACATATAGCGA
66 CTCCATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGGTCGACATATAGCGA
* * *
13865385 CGTTTTTCAAAAAGCGCCGCTAATACTCGATCTATAGAGGCGATTTTCAAAAA-CTGCCGCTAAT
1 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAAAAGCGATTTTCAAAAAGC-GCCGCTAAT
* * *
13865449 GCTCGATCTATAGCAGCGTTTTTCAAAAAGCGCCTCTAATG
65 GCTCCATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATG
13865490 CCACTAAAGC
Statistics
Matches: 203, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
119 1 0.00
120 200 0.99
121 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (120 bp):
CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAAAAGCGATTTTCAAAAAGCGCCGCTAATG
CTCCATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATGGTCGACATATAGCGA
Found at i:13866876 original size:13 final size:13
Alignment explanation
Indices: 13866858--13866882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13866848 ATTACGGAGC
13866858 ATTATCGTACAAA
1 ATTATCGTACAAA
13866871 ATTATCGTACAA
1 ATTATCGTACAA
13866883 TTAGAAACAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
ATTATCGTACAAA
Found at i:13870350 original size:21 final size:21
Alignment explanation
Indices: 13870305--13870352 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
13870295 AAAATCACAC
*
13870305 ATTATATAAAAAATCAGTAAT
1 ATTATATAAAAAATCAATAAT
*
13870326 -TTATACTAAAAAA-CAATATT
1 ATTATA-TAAAAAATCAATAAT
13870346 ATTATAT
1 ATTATAT
13870353 CACACATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (21 bp):
ATTATATAAAAAATCAATAAT
Found at i:13870740 original size:19 final size:19
Alignment explanation
Indices: 13870709--13870776 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 19
13870699 AAAAATATAA
13870709 ATTTTGAAATTTATATAAA-T
1 ATTTTG-AATTTATA-AAATT
13870729 ATTTTGAATTTA-AAAATT
1 ATTTTGAATTTATAAAATT
13870747 ATTTTGAAGTTT-TAAAAATT
1 ATTTTGAA-TTTAT-AAAATT
13870767 ATTTTGAATT
1 ATTTTGAATT
13870777 ATTTTGTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.07
18 10 0.23
19 11 0.25
20 20 0.45
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTTTGAATTTATAAAATT
Found at i:13876576 original size:13 final size:13
Alignment explanation
Indices: 13876558--13876582 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13876548 TCAAGGCAAA
13876558 TAATGCTATCAAC
1 TAATGCTATCAAC
13876571 TAATGCTATCAA
1 TAATGCTATCAA
13876583 TACTTGATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
TAATGCTATCAAC
Found at i:13878898 original size:6 final size:6
Alignment explanation
Indices: 13878884--13878937 Score: 99
Period size: 6 Copynumber: 9.0 Consensus size: 6
13878874 AACGGAAGAG
*
13878884 AGTGGA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA
1 AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA AGTGAA
13878932 AGTGAA
1 AGTGAA
13878938 GAGGCAGCTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.48, C:0.00, G:0.35, T:0.17
Consensus pattern (6 bp):
AGTGAA
Found at i:13882927 original size:16 final size:16
Alignment explanation
Indices: 13882908--13882939 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13882898 TAATTATCAC
13882908 ATGAATTAAATTAATT
1 ATGAATTAAATTAATT
*
13882924 ATGAATTAATTTAATT
1 ATGAATTAAATTAATT
13882940 TGATAGTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATGAATTAAATTAATT
Found at i:13883496 original size:287 final size:286
Alignment explanation
Indices: 13882892--13883420 Score: 916
Period size: 287 Copynumber: 1.8 Consensus size: 286
13882882 CCGAATCCAT
*
13882892 TTTATTTAATTATCACATGAATTAAATTAATTATGAATTAATTTAATTTGATAGTTAAATATTAA
1 TTTATTTAATTATAACATGAATTAAATTAATTATGAATTAATTTAATTTGATAGTTAAATATTAA
*
13882957 ACACATTTTATGTACAAACTTGTTGTACACAAATAGAAAATATAGATATAGTTAATATATGAACT
66 ACACATTTTATGTACAAACTTGTTGTACACAAATAGAAAATATAGATATAATTAATATATGAACT
13883022 TGATTCATACAAAATATTAATTTTATATATTTTACCGAATTTATTAATATAAACAGTTAATTATA
131 TGATTCATACAAAATATTAATTTTATATATTTTACCGAATTTATTAATATAAACAGTTAATTATA
*
13883087 AAAAACATAAAAATTAATATTATTTTGGAAAAAATATAATTAATATTTAACTCTATAGTTGAAAC
196 AAAAACATAAAAATTAATATTATTTTGGAAAAAATATAATTAATATTTAACTCTATAGTTCAAAC
* * *
13883152 GAATCGAATCCAAATACATTTGGTAT
261 AAATCGAATCCAAATACATTTCGTAA
* * *
13883178 TTTATTTAGTTATCACATGAATTAAATTAATTGTTGAATTAATTTAATTTGATAGTTAAATATTA
1 TTTATTTAATTATAACATGAATTAAATTAATT-ATGAATTAATTTAATTTGATAGTTAAATATTA
*
13883243 AACACATTTTATGTACAAACTTGTTGTACACAAATAGAGAATATAGATATAATTAATATATGAAC
65 AACACATTTTATGTACAAACTTGTTGTACACAAATAGAAAATATAGATATAATTAATATATGAAC
*
13883308 TTGATTCATACAAAATATTAATTTTATATATTTTACTGAATTTATTAATATAAACAGTTAATTAT
130 TTGATTCATACAAAATATTAATTTTATATATTTTACCGAATTTATTAATATAAACAGTTAATTAT
* * *
13883373 AAAAAA-ATGAAAATTAATATTCTTTTGGAAAGAATATAATTAATATTT
195 AAAAAACATAAAAATTAATATTATTTTGGAAAAAATATAATTAATATTT
13883421 GAATTTGATT
Statistics
Matches: 234, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
286 70 0.30
287 164 0.70
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.41
Consensus pattern (286 bp):
TTTATTTAATTATAACATGAATTAAATTAATTATGAATTAATTTAATTTGATAGTTAAATATTAA
ACACATTTTATGTACAAACTTGTTGTACACAAATAGAAAATATAGATATAATTAATATATGAACT
TGATTCATACAAAATATTAATTTTATATATTTTACCGAATTTATTAATATAAACAGTTAATTATA
AAAAACATAAAAATTAATATTATTTTGGAAAAAATATAATTAATATTTAACTCTATAGTTCAAAC
AAATCGAATCCAAATACATTTCGTAA
Found at i:13891854 original size:13 final size:13
Alignment explanation
Indices: 13891839--13891884 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
13891829 CAACCCAATT
*
13891839 TTTATTTTTTATT
1 TTTATTTTTTATC
*
13891852 TTTATTTTTTAAC
1 TTTATTTTTTATC
*
13891865 TTTATTTATTA-C
1 TTTATTTTTTATC
13891877 TTTATTTT
1 TTTATTTT
13891885 ATTTTGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 8 0.28
13 21 0.72
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTTTATC
Found at i:13896786 original size:2 final size:2
Alignment explanation
Indices: 13896779--13896808 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
13896769 GAAGACATAC
13896779 TA TA TA TA TA TA TA TA TA TA TA CTA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T
13896809 TATGTACAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13903114 original size:20 final size:20
Alignment explanation
Indices: 13903089--13903128 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13903079 TCGTTCTTTA
13903089 ATTGATATATAATAAAATAG
1 ATTGATATATAATAAAATAG
*
13903109 ATTGATATATAGTAAAATAG
1 ATTGATATATAATAAAATAG
13903129 CCAAGACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (20 bp):
ATTGATATATAATAAAATAG
Found at i:13908859 original size:9 final size:9
Alignment explanation
Indices: 13908845--13908872 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13908835 AACTAAATAT
13908845 AACAAAATG
1 AACAAAATG
13908854 AACAAAATG
1 AACAAAATG
13908863 AACAAAATG
1 AACAAAATG
13908872 A
1 A
13908873 GCTTGCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.68, C:0.11, G:0.11, T:0.11
Consensus pattern (9 bp):
AACAAAATG
Found at i:13917642 original size:30 final size:31
Alignment explanation
Indices: 13917598--13917657 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 31
13917588 TTCTTATGCC
13917598 AATATTTCGATACCCATATCTTTGACTTTCT
1 AATATTTCGATACCCATATCTTTGACTTTCT
13917629 AATATTT-GATACCCATATCTTTGACTTTC
1 AATATTTCGATACCCATATCTTTGACTTTC
13917658 CATAATAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.45
Consensus pattern (31 bp):
AATATTTCGATACCCATATCTTTGACTTTCT
Found at i:13919010 original size:28 final size:28
Alignment explanation
Indices: 13918978--13919065 Score: 133
Period size: 28 Copynumber: 3.1 Consensus size: 28
13918968 GCTAAAACAA
13918978 GTTAGGAGTATTTGTATGTAGTTTAAAG
1 GTTAGGAGTATTTGTATGTAGTTTAAAG
13919006 GTTAGGAGTATTTGTATGTAGTTTAAAG
1 GTTAGGAGTATTTGTATGTAGTTTAAAG
*
13919034 GTGGAGAAGAG-ATTTGTATGTAGTTTAAAG
1 GT-TAG--GAGTATTTGTATGTAGTTTAAAG
13919064 GT
1 GT
13919066 GGATAAGAGA
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
28 30 0.54
29 2 0.04
30 21 0.38
31 3 0.05
ACGTcount: A:0.30, C:0.00, G:0.31, T:0.40
Consensus pattern (28 bp):
GTTAGGAGTATTTGTATGTAGTTTAAAG
Found at i:13919051 original size:30 final size:30
Alignment explanation
Indices: 13918987--13919079 Score: 138
Period size: 30 Copynumber: 3.2 Consensus size: 30
13918977 AGTTAGGAGT
*
13918987 ATTTGTATGTAGTTTAAAGGT-TAG--GAG
1 ATTTGTATGTAGTTTAAAGGTGGAGAAGAG
13919014 TATTTGTATGTAGTTTAAAGGTGGAGAAGAG
1 -ATTTGTATGTAGTTTAAAGGTGGAGAAGAG
*
13919045 ATTTGTATGTAGTTTAAAGGTGGATAAGAG
1 ATTTGTATGTAGTTTAAAGGTGGAGAAGAG
13919075 ATTTG
1 ATTTG
13919080 GATTACCCCC
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
28 21 0.35
29 2 0.03
30 34 0.57
31 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.30, T:0.39
Consensus pattern (30 bp):
ATTTGTATGTAGTTTAAAGGTGGAGAAGAG
Found at i:13920117 original size:18 final size:17
Alignment explanation
Indices: 13920090--13920126 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
13920080 TAATAAATAC
*
13920090 AAAAAAAAAATATTTTA
1 AAAAAAAAAAAATTTTA
13920107 AAAATAAAAAAAATTTTA
1 AAAA-AAAAAAAATTTTA
13920125 AA
1 AA
13920127 GTATTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAAAAAAAAATTTTA
Found at i:13920154 original size:28 final size:27
Alignment explanation
Indices: 13920081--13920155 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
13920071 CCCGATTTTT
13920081 AATAAATACAAAAAA-AAAATATTTTAAA
1 AATAAA-A-AAAAAATAAAATATTTTAAA
** *
13920109 AATAAAAAAAATTTTAAAGTATTTTAAA
1 AATAAAAAAAA-AATAAAATATTTTAAA
*
13920137 ATTAAAAATAAAAATAAAA
1 AATAAAAA-AAAAATAAAA
13920156 AATATATATT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
26 4 0.11
27 1 0.03
28 29 0.78
29 3 0.08
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (27 bp):
AATAAAAAAAAAATAAAATATTTTAAA
Found at i:13920205 original size:6 final size:5
Alignment explanation
Indices: 13920176--13920206 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
13920166 TATTATATTT
13920176 GGGCC GGGCC GGGCC GGGCC GGGCCC GGGCC
1 GGGCC GGGCC GGGCC GGGCC GGG-CC GGGCC
13920207 AAAAAAGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
GGGCC
Found at i:13923582 original size:12 final size:12
Alignment explanation
Indices: 13923565--13923596 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
13923555 ATTATGACAT
13923565 AAAAAATTAATA
1 AAAAAATTAATA
*
13923577 AAAAAATTGATA
1 AAAAAATTAATA
13923589 AAAAAATT
1 AAAAAATT
13923597 TAAGAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (12 bp):
AAAAAATTAATA
Found at i:13923792 original size:15 final size:15
Alignment explanation
Indices: 13923737--13923793 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
13923727 TTTATATTAC
13923737 AAAATATTTATTATT
1 AAAATATTTATTATT
** *
13923752 AATGTATTTATAATTGT
1 AAAATATTTATTA-T-T
13923769 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
13923786 AAAATATT
1 AAAATATT
13923794 AATATTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 17 0.53
16 2 0.06
17 2 0.06
18 2 0.06
19 9 0.28
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:13935991 original size:40 final size:39
Alignment explanation
Indices: 13935947--13936042 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 39
13935937 TGCAGGCAAG
13935947 GGCACAAATGTG-AAATCAG-GGACACCGAAGTGCAAACAGA
1 GGCACAAA-GTGCAAA-CAGAGG-CACCGAAGTGCAAACAGA
* *
13935987 GGCACCAAAGTGCAAAGAGAGGCACCGAAGTGCAAATAGA
1 GGCA-CAAAGTGCAAACAGAGGCACCGAAGTGCAAACAGA
*
13936027 GGCACTGAAGTGCAAA
1 GGCAC-AAAGTGCAAA
13936043 TCCTATACAT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
39 1 0.02
40 39 0.80
41 9 0.18
ACGTcount: A:0.42, C:0.20, G:0.29, T:0.09
Consensus pattern (39 bp):
GGCACAAAGTGCAAACAGAGGCACCGAAGTGCAAACAGA
Found at i:13936043 original size:20 final size:20
Alignment explanation
Indices: 13935969--13936043 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
13935959 AAATCAGGGA
*
13935969 CACCGAAGTGCAAACAGAGG
1 CACCGAAGTGCAAATAGAGG
* *
13935989 CACCAAAGTGCAAAGAGAGG
1 CACCGAAGTGCAAATAGAGG
13936009 CACCGAAGTGCAAATAGAGG
1 CACCGAAGTGCAAATAGAGG
*
13936029 CACTGAAGTGCAAAT
1 CACCGAAGTGCAAAT
13936044 CCTATACATA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.41, C:0.21, G:0.28, T:0.09
Consensus pattern (20 bp):
CACCGAAGTGCAAATAGAGG
Found at i:13936342 original size:2 final size:2
Alignment explanation
Indices: 13936335--13936361 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13936325 AGTAGTAACA
13936335 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13936362 GATAGATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13936366 original size:4 final size:4
Alignment explanation
Indices: 13936359--13936385 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
13936349 ATATATATAT
13936359 ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATA
13936386 TGTACAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:13941581 original size:27 final size:27
Alignment explanation
Indices: 13941528--13941581 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
13941518 ACGATTTTCA
*
13941528 CAATTTAGCTACATTTTTGCACTGATT
1 CAATTTAGCTACATTTTTCCACTGATT
13941555 CAATTTAGTCCTA-ATTTTTCCAC-GATT
1 CAATTTAG--CTACATTTTTCCACTGATT
13941582 TAAAGAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 12 0.50
28 9 0.38
29 3 0.12
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.44
Consensus pattern (27 bp):
CAATTTAGCTACATTTTTCCACTGATT
Found at i:13944627 original size:29 final size:29
Alignment explanation
Indices: 13944590--13944692 Score: 98
Period size: 29 Copynumber: 3.4 Consensus size: 29
13944580 TGAGCTTTTT
* * *
13944590 TGGCTATCTCTGGTATAAAGAAGTCTTTG
1 TGGCGATCTCTGTTATAAAGAAGCCTTTG
*
13944619 TGGTGATCTCTGTTATAAGGAAGTAAAGCCTTTG
1 TGGCGATCTCTGTTAT-A--AAG--AAGCCTTTG
*
13944653 TGGCGATCTCTGTTATAAGGAAGCCTTTG
1 TGGCGATCTCTGTTATAAAGAAGCCTTTG
* *
13944682 TGACTATCTCT
1 TGGCGATCTCT
13944693 TAATGAATGC
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
29 31 0.51
30 1 0.02
31 2 0.03
32 3 0.05
33 1 0.02
34 23 0.38
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (29 bp):
TGGCGATCTCTGTTATAAAGAAGCCTTTG
Found at i:13946801 original size:16 final size:17
Alignment explanation
Indices: 13946780--13946824 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
13946770 ATAAAACAAT
*
13946780 TTAAAATAAT-TTAATA
1 TTAAAATAATAATAATA
13946796 TTAAAATAATAAAATAATA
1 TTAAAATAAT--AATAATA
13946815 TTAAAATAAT
1 TTAAAATAAT
13946825 CAAAACAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 10 0.40
19 15 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAATAATAATAATA
Found at i:13946813 original size:19 final size:20
Alignment explanation
Indices: 13946791--13946834 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
13946781 TAAAATAATT
13946791 TAATATTAAAATAAT-AAAA
1 TAATATTAAAATAATCAAAA
13946810 TAATATTAAAATAATCAAAA
1 TAATATTAAAATAATCAAAA
*
13946830 CAATA
1 TAATA
13946835 ATCTTTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATATTAAAATAATCAAAA
Found at i:13947808 original size:19 final size:18
Alignment explanation
Indices: 13947784--13947818 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13947774 AACAAATAAT
*
13947784 TTAAAATTTATAAAAAAA
1 TTAAAAATTATAAAAAAA
13947802 TTAAAAATTATAAAAAA
1 TTAAAAATTATAAAAAA
13947819 GTACAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAAATTATAAAAAAA
Found at i:13952913 original size:9 final size:9
Alignment explanation
Indices: 13952899--13952929 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13952889 GTTAAACGAA
13952899 TCGAGTTAT
1 TCGAGTTAT
*
13952908 TCGAGTTAA
1 TCGAGTTAT
13952917 TCGAGTTAT
1 TCGAGTTAT
13952926 TCGA
1 TCGA
13952930 ATCAACTCGA
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:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:13952999 original size:9 final size:9
Alignment explanation
Indices: 13952982--13953018 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
13952972 TGAGTTTTCG
13952982 AATTCGAAT
1 AATTCGAAT
*
13952991 AACTCGAAT
1 AATTCGAAT
13953000 AATTCGAAT
1 AATTCGAAT
13953009 AATTCGAAT
1 AATTCGAAT
13953018 A
1 A
13953019 TCAAACTATA
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:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13953284 original size:29 final size:31
Alignment explanation
Indices: 13953237--13953295 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
13953227 AAACCTTTTA
*
13953237 TTTTCGCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCGCCCAAAACTTTTACTCCCTTCCCAC
* *
13953267 TTTTC-CCCTAAACTTTTATTCCCTTCCCA
1 TTTTCGCCCAAAACTTTTACTCCCTTCCCA
13953296 TCTCACCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.19, C:0.39, G:0.02, T:0.41
Consensus pattern (31 bp):
TTTTCGCCCAAAACTTTTACTCCCTTCCCAC
Found at i:13955129 original size:29 final size:29
Alignment explanation
Indices: 13955066--13955138 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 29
13955056 TATAAAGGCT
* * **
13955066 TATTCTTGTAAATTTATAAAAAATTGGTC
1 TATTTTTGTAAATTTATAAAAAAATGACC
13955095 TATTTTTGTAATATTT-TAAAAAAATGACC
1 TATTTTTGTAA-ATTTATAAAAAAATGACC
* *
13955124 T-CTTTTGAAAATTTA
1 TATTTTTGTAAATTTA
13955139 GTCTGAGCAC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
27 4 0.11
28 7 0.19
29 21 0.58
30 4 0.11
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (29 bp):
TATTTTTGTAAATTTATAAAAAAATGACC
Found at i:13968531 original size:40 final size:40
Alignment explanation
Indices: 13968476--13968557 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
13968466 CTTAAACTCA
13968476 CTTTTCTAGTCAACAACACGATGGAGCAAACAAATTGGTG
1 CTTTTCTAGTCAACAACACGATGGAGCAAACAAATTGGTG
13968516 CTTTTCTAGTCAACAACACGATGGAGCAAACAAATTGGTG
1 CTTTTCTAGTCAACAACACGATGGAGCAAACAAATTGGTG
13968556 CT
1 CT
13968558 AACTTACTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (40 bp):
CTTTTCTAGTCAACAACACGATGGAGCAAACAAATTGGTG
Found at i:13975196 original size:36 final size:36
Alignment explanation
Indices: 13975156--13975226 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
13975146 GGAGCACATC
* *
13975156 AGTCAGAATAGATCCGAAAGACTGCTGAACTGAATT
1 AGTCAGAATAGATCCAAAAGACTACTGAACTGAATT
13975192 AGTCAGAATAGATCCAAAAGACTACTGAACTGAAT
1 AGTCAGAATAGATCCAAAAGACTACTGAACTGAAT
13975227 AGAGTTTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (36 bp):
AGTCAGAATAGATCCAAAAGACTACTGAACTGAATT
Done.