Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 104 of 250
Found at i:33584644 original size:13 final size:13
Alignment explanation
Indices: 33584626--33584652 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33584616 GAAGTAATCG
33584626 CACACGGGCGTGT
1 CACACGGGCGTGT
33584639 CACACGGGCGTGT
1 CACACGGGCGTGT
33584652 C
1 C
33584653 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:33589632 original size:15 final size:16
Alignment explanation
Indices: 33589614--33589653 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
33589604 TTAAACTCGT
*
33589614 TTTATTTTTATTT-TC
1 TTTATTTTTATTTCTA
*
33589629 TTTACTTTTATTTCTA
1 TTTATTTTTATTTCTA
33589645 TTTATTTTT
1 TTTATTTTT
33589654 GAAGACTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTTTATTTCTA
Found at i:33597541 original size:52 final size:52
Alignment explanation
Indices: 33597463--33597566 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
33597453 TCCAATTACA
33597463 TAGGTACCTAAACCAATTCATAACACATGATCACAAGACTATAACCACACCT
1 TAGGTACCTAAACCAATTCATAACACATGATCACAAGACTATAACCACACCT
33597515 TAGGTACCTAAACCAATTCATAACACATGATCACAAGACTATAACCACACCT
1 TAGGTACCTAAACCAATTCATAACACATGATCACAAGACTATAACCACACCT
33597567 AAAAGCAACC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.42, C:0.29, G:0.08, T:0.21
Consensus pattern (52 bp):
TAGGTACCTAAACCAATTCATAACACATGATCACAAGACTATAACCACACCT
Found at i:33597602 original size:34 final size:34
Alignment explanation
Indices: 33597562--33597647 Score: 154
Period size: 34 Copynumber: 2.5 Consensus size: 34
33597552 ACTATAACCA
33597562 CACCTAAAAGCAACCAAAACATGCCAATTTGAAC
1 CACCTAAAAGCAACCAAAACATGCCAATTTGAAC
33597596 CACCTAAAAGCAACCAAAACATGCCAATTTGAAC
1 CACCTAAAAGCAACCAAAACATGCCAATTTGAAC
*
33597630 CACCTAAAACCAAACCAA
1 CACCTAAAAGC-AACCAA
33597648 GATGTCATAC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 44 0.88
35 6 0.12
ACGTcount: A:0.49, C:0.31, G:0.07, T:0.13
Consensus pattern (34 bp):
CACCTAAAAGCAACCAAAACATGCCAATTTGAAC
Found at i:33604224 original size:13 final size:13
Alignment explanation
Indices: 33604206--33604232 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33604196 AATTGAAGGT
33604206 TGTTATGAAATTA
1 TGTTATGAAATTA
33604219 TGTTATGAAATTA
1 TGTTATGAAATTA
33604232 T
1 T
33604233 AGGTATAAGG
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:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TGTTATGAAATTA
Found at i:33609979 original size:60 final size:60
Alignment explanation
Indices: 33609886--33610010 Score: 250
Period size: 60 Copynumber: 2.1 Consensus size: 60
33609876 ATGTGGTTGG
33609886 GAAAGAGGTTAGTACGAGGCGATACAGGTATGTACAGAACCTATTTGAGTATTAAATAGA
1 GAAAGAGGTTAGTACGAGGCGATACAGGTATGTACAGAACCTATTTGAGTATTAAATAGA
33609946 GAAAGAGGTTAGTACGAGGCGATACAGGTATGTACAGAACCTATTTGAGTATTAAATAGA
1 GAAAGAGGTTAGTACGAGGCGATACAGGTATGTACAGAACCTATTTGAGTATTAAATAGA
33610006 GAAAG
1 GAAAG
33610011 TTCAATGAGA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (60 bp):
GAAAGAGGTTAGTACGAGGCGATACAGGTATGTACAGAACCTATTTGAGTATTAAATAGA
Found at i:33612868 original size:46 final size:43
Alignment explanation
Indices: 33612810--33613023 Score: 205
Period size: 46 Copynumber: 4.7 Consensus size: 43
33612800 TCACTTGTGT
* * * *
33612810 GAGCTAGTGTAAGACATATCTGGGACATGTATTGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATTGG-CACA-GA-GA
*
33612856 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATAGAGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCACAGAGA
* * *
33612901 CGAGCGCTAGTGTAAGACATGTCTGGGACATGCATCGGTATCGAGACGT
1 -GAGC-C-AGTGTAAGACATGTCTGGGACATGCATTGGCA-C-AGA-GA
33612950 GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTAC-GAGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGC-ACAGAGA
* *
33612993 TGTGTCAGTGTAAGACCATGTCTGGGACATG
1 -GAGCCAGTGTAAGA-CATGTCTGGGACATG
33613024 GCATCGACAT
Statistics
Matches: 143, Mismatches: 14, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
43 1 0.01
44 14 0.10
45 17 0.12
46 55 0.38
47 33 0.23
48 22 0.15
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (43 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCACAGAGA
Found at i:33614200 original size:21 final size:20
Alignment explanation
Indices: 33614171--33614209 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
33614161 TCTTAGTGAT
33614171 CACACGGGCATGTTGCCATTC
1 CACACGGGCATG-TGCCATTC
* *
33614192 CACATGGGCGTGTGCCAT
1 CACACGGGCATGTGCCAT
33614210 GTTTCAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.18, C:0.31, G:0.28, T:0.23
Consensus pattern (20 bp):
CACACGGGCATGTGCCATTC
Found at i:33618105 original size:43 final size:42
Alignment explanation
Indices: 33618042--33618128 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 42
33618032 ACATGTATCG
* * *
33618042 CATCCATTATGAACTTGGACCACTCAACGAGCTCGGATGCTCA
1 CATCCATAACGAACTCGGACCACTCAACGAGCTCGGATGC-CA
33618085 CATCCATAACGAACTCGGACCACTCAACGAGCTCGGATGCCA
1 CATCCATAACGAACTCGGACCACTCAACGAGCTCGGATGCCA
33618127 CA
1 CA
33618129 AATATCATGA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.18
Consensus pattern (42 bp):
CATCCATAACGAACTCGGACCACTCAACGAGCTCGGATGCCA
Found at i:33618119 original size:18 final size:18
Alignment explanation
Indices: 33618058--33618121 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 18
33618048 TTATGAACTT
33618058 GGACCACTCAACGAGCTC
1 GGACCACTCAACGAGCTC
*
33618076 GGATGCTCACATCCATAACGAACTC
1 GGA--C-CAC-T-C--AACGAGCTC
33618101 GGACCACTCAACGAGCTC
1 GGACCACTCAACGAGCTC
33618119 GGA
1 GGA
33618122 TGCCACAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
18 14 0.38
20 2 0.05
21 4 0.11
22 4 0.11
23 2 0.05
25 11 0.30
ACGTcount: A:0.30, C:0.34, G:0.22, T:0.14
Consensus pattern (18 bp):
GGACCACTCAACGAGCTC
Found at i:33624380 original size:47 final size:47
Alignment explanation
Indices: 33624327--33624747 Score: 617
Period size: 47 Copynumber: 9.0 Consensus size: 47
33624317 TTAGGATTTT
** * *
33624327 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
33624374 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
33624421 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** *
33624468 ATGTGATGAATGTGAGTATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
33624515 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
33624562 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
33624609 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
33624656 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
33624703 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
33624748 TAGTGTGAAA
Statistics
Matches: 334, Mismatches: 40, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 334 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:33624523 original size:25 final size:25
Alignment explanation
Indices: 33624448--33624523 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
33624438 ATGTATATAT
33624448 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
33624473 ATGA-ATGTG-AGTAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
33624495 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
33624520 GTGA
1 GTGA
33624524 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.12, G:0.34, T:0.25
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:33624595 original size:25 final size:25
Alignment explanation
Indices: 33624561--33624640 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
33624551 CCGAATGGCC
33624561 TATGTGATGAATGTGAACATGCATA
1 TATGTGATGAATGTGAACATGCATA
* ** *
33624586 TATGTGATG-AGGCCAA-ATGGC-CA
1 TATGTGATGAATGTGAACAT-GCATA
*
33624609 -ATGTGATGAATGTGAGCATGCATA
1 TATGTGATGAATGTGAACATGCATA
33624633 TATGTGAT
1 TATGTGAT
33624641 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 8 0.20
23 8 0.20
24 9 0.22
25 16 0.39
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.30
Consensus pattern (25 bp):
TATGTGATGAATGTGAACATGCATA
Found at i:33624711 original size:25 final size:25
Alignment explanation
Indices: 33624636--33624711 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
33624626 ATGCATATAT
33624636 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
33624661 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
33624683 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
33624708 GTGA
1 GTGA
33624712 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:33624960 original size:37 final size:37
Alignment explanation
Indices: 33624910--33625061 Score: 223
Period size: 37 Copynumber: 4.1 Consensus size: 37
33624900 GGAAATATAT
* * * *
33624910 TCCGGGTGAGACCCGATGACTATGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
33624947 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
33624984 CCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
33625021 TCCGGGTAAGACCGGATAACTTCGTGTGGAGATTTCG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
33625058 TCCG
1 TCCG
33625062 AGCTAAAGGT
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:33636691 original size:26 final size:26
Alignment explanation
Indices: 33636661--33636771 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
33636651 AGCATGGCTG
* *
33636661 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGTAGAGCCA
33636687 CCAGAACAGATAATTGTGGTAGAGCCA
1 CCAGAACAGATAA-TGTGGTAGAGCCA
*
33636714 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGTAGAGCCA
* * *
33636741 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGTAGAGCCA
33636768 CCAG
1 CCAG
33636772 GGCGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 13 0.17
27 62 0.81
28 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGTAGAGCCA
Found at i:33641117 original size:21 final size:21
Alignment explanation
Indices: 33641083--33641122 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33641073 AATGGTCATG
*
33641083 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
**
33641104 GATGATTTGCGAGTCACTT
1 GATGATTTAAGAGTCACTT
33641123 GTGTTTAGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:33641693 original size:28 final size:28
Alignment explanation
Indices: 33641628--33641723 Score: 122
Period size: 28 Copynumber: 3.5 Consensus size: 28
33641618 ATTGCATGAC
* * * *
33641628 TATGAGTGTGATTGGACCTGACGGG-CA
1 TATGAATGTGATTGGGCTTGATGGGCCA
*
33641655 TATGAAAGTGATTGGGCTTGATGGGCCA
1 TATGAATGTGATTGGGCTTGATGGGCCA
*
33641683 TATGAATGTGATTGGGCTCGATGGGCCA
1 TATGAATGTGATTGGGCTTGATGGGCCA
*
33641711 TATGAATGAGATT
1 TATGAATGTGATT
33641724 TGGTCTAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
27 20 0.33
28 40 0.67
ACGTcount: A:0.25, C:0.11, G:0.34, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGCTTGATGGGCCA
Found at i:33641738 original size:29 final size:28
Alignment explanation
Indices: 33641653--33641745 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 28
33641643 ACCTGACGGG
* * ** *
33641653 CATATGAAAGTGATTGGGCTTGATGGGC
1 CATATGAATGAGATTGGGCTAAAGGGGC
* ** *
33641681 CATATGAATGTGATTGGGCTCGATGGGC
1 CATATGAATGAGATTGGGCTAAAGGGGC
*
33641709 CATATGAATGAGATTTGGTCTAAAGGGGC
1 CATATGAATGAGA-TTGGGCTAAAGGGGC
*
33641738 CAAATGAA
1 CATATGAA
33641746 CAAGTATGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 38 0.68
29 18 0.32
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.27
Consensus pattern (28 bp):
CATATGAATGAGATTGGGCTAAAGGGGC
Found at i:33647327 original size:15 final size:15
Alignment explanation
Indices: 33647308--33647349 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
33647298 ATGACAGAGG
33647308 AATCCAAGATA-AAGA
1 AATCCAAGATACAA-A
* *
33647323 TATCCAAGGTACAAA
1 AATCCAAGATACAAA
33647338 AATCCAAGATAC
1 AATCCAAGATAC
33647350 CATATCATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.52, C:0.19, G:0.12, T:0.17
Consensus pattern (15 bp):
AATCCAAGATACAAA
Found at i:33658433 original size:21 final size:21
Alignment explanation
Indices: 33658407--33658446 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33658397 AATGGTCATG
*
33658407 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
*
33658428 GATGATTTACGAGTCACTT
1 GATGATTTAAGAGTCACTT
33658447 GTGTTTAGTT
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:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:33658991 original size:28 final size:28
Alignment explanation
Indices: 33658959--33659053 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 28
33658949 ACTATGAGTA
*
33658959 TGATTAGGCTTGACGAGCCATATGAAAG
1 TGATTGGGCTTGACGAGCCATATGAAAG
* * * *
33658987 TGATTGGGCCTGATGGGCCATATGAATG
1 TGATTGGGCTTGACGAGCCATATGAAAG
* * * * *
33659015 TGATTGGGCTCGATGGGTCATATGAATG
1 TGATTGGGCTTGACGAGCCATATGAAAG
*
33659043 AGATTGGGCTT
1 TGATTGGGCTT
33659054 AAAGGGACCA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.24, C:0.13, G:0.34, T:0.29
Consensus pattern (28 bp):
TGATTGGGCTTGACGAGCCATATGAAAG
Found at i:33660338 original size:17 final size:18
Alignment explanation
Indices: 33660305--33660338 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33660295 TTTAAAGAAG
33660305 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
33660323 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
33660339 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:33666108 original size:27 final size:27
Alignment explanation
Indices: 33666067--33666162 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
33666057 GTATGTTGTA
33666067 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAATTATCTGATCTGGTGGCTC
*
33666094 TGCCACATATT-TCTGTTCTGGTGGCTC
1 TGCCACA-ATTATCTGATCTGGTGGCTC
* *
33666121 TACCACAATTATCTGTATCTGGTGACTC
1 TGCCACAATTATCTG-ATCTGGTGGCTC
*
33666149 TGTCAC-ATTATCTG
1 TGCCACAATTATCTG
33666163 TTTTGGCAGC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
26 3 0.05
27 40 0.67
28 17 0.28
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (27 bp):
TGCCACAATTATCTGATCTGGTGGCTC
Found at i:33667893 original size:13 final size:13
Alignment explanation
Indices: 33667875--33667899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33667865 TGACTGTGTG
33667875 AAGGACACGGGCC
1 AAGGACACGGGCC
33667888 AAGGACACGGGC
1 AAGGACACGGGC
33667900 GTGTGCCAAG
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:0.32, C:0.28, G:0.40, T:0.00
Consensus pattern (13 bp):
AAGGACACGGGCC
Found at i:33669483 original size:43 final size:43
Alignment explanation
Indices: 33669334--33669492 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
33669324 TATGTGTTTT
* *
33669334 CATGTAAGACCACGCCTGGGACGTTGGCATCGACT-TATGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTA
** * * * * *
33669378 TGTGTAAGACCATGTCTGGGACATCGACATC-ATATTTGATTT
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
*
33669420 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTA
*
33669463 CATGTAAGACCACGTTTGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
33669493 TGTATAAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 28 0.30
43 39 0.42
44 25 0.27
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:33670146 original size:10 final size:10
Alignment explanation
Indices: 33670133--33670160 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
33670123 AAATGGTCAA
33670133 TTTTGGTAAG
1 TTTTGGTAAG
33670143 TTTTGGTAAG
1 TTTTGGTAAG
33670153 TTTTGGTA
1 TTTTGGTA
33670161 TGTGCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.54
Consensus pattern (10 bp):
TTTTGGTAAG
Found at i:33675831 original size:30 final size:29
Alignment explanation
Indices: 33675754--33675833 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
33675744 AATTTAGATT
** *
33675754 AAAATAATAAAATAGTCATTAAATTTTGA
1 AAAATAATAAACCAGTCACTAAATTTTGA
* *
33675783 AAAGTTAT-AACTCAGTCACTAAATTTTAGA
1 AAAATAATAAAC-CAGTCACTAAATTTT-GA
*
33675813 AAAATAATAAACCGGTCACTA
1 AAAATAATAAACCAGTCACTA
33675834 GTGACCATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
28 2 0.05
29 19 0.47
30 16 0.40
31 3 0.08
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (29 bp):
AAAATAATAAACCAGTCACTAAATTTTGA
Found at i:33675962 original size:3 final size:3
Alignment explanation
Indices: 33675956--33676010 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
33675946 TAGTAGTAGT
* * *
33675956 AGA AGA AGA AGA AGA ATA A-A AGA AGA AGA AAA AGG AG- AGA AGA A-A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
33676001 AGG AGA AGA A
1 AGA AGA AGA A
33676011 ATGGAGCAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 6 0.14
3 37 0.86
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:33675980 original size:11 final size:11
Alignment explanation
Indices: 33675956--33676011 Score: 58
Period size: 11 Copynumber: 4.7 Consensus size: 11
33675946 TAGTAGTAGT
33675956 AGAAGAAGAAGA
1 AGAAGAA-AAGA
*
33675968 AGAATAAAAGA
1 AGAAGAAAAGA
33675979 AGAAGAAAAAGGA
1 AGAAG-AAAA-GA
*
33675992 GAGAAGAAAAGG
1 -AGAAGAAAAGA
33676004 AGAAGAAA
1 AGAAGAAA
33676012 TGGAGCAGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
11 16 0.42
12 11 0.29
13 6 0.16
14 5 0.13
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (11 bp):
AGAAGAAAAGA
Found at i:33676003 original size:13 final size:14
Alignment explanation
Indices: 33675965--33676006 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
33675955 TAGAAGAAGA
*
33675965 AGAAGAATAAAAGA-
1 AGAAGAA-AAAGGAG
33675979 AGAAGAAAAAGGAG
1 AGAAGAAAAAGGAG
33675993 AGAAG-AAAAGGAG
1 AGAAGAAAAAGGAG
33676006 A
1 A
33676007 AGAAATGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (14 bp):
AGAAGAAAAAGGAG
Found at i:33676010 original size:14 final size:14
Alignment explanation
Indices: 33675962--33676010 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
33675952 TAGTAGAAGA
*
33675962 AGAAGAAGAATAA-A
1 AGAAGAAGAA-AAGG
33675976 AGAAGAAGAAAAAGG
1 AGAAGAAG-AAAAGG
33675991 AG-AGAAGAAAAGG
1 AGAAGAAGAAAAGG
33676004 AGAAGAA
1 AGAAGAA
33676011 ATGGAGCAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 8 0.26
14 19 0.61
15 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (14 bp):
AGAAGAAGAAAAGG
Found at i:33677942 original size:68 final size:68
Alignment explanation
Indices: 33677855--33678014 Score: 284
Period size: 68 Copynumber: 2.4 Consensus size: 68
33677845 GAGATACTAT
33677855 ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGA
1 ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGA
33677920 TAA
66 TAA
* *
33677923 ATGTAGCTAGGTCATATGTGTGATACGGGATGTATCTCATGTAGACAAGAGAGCTACGTGAGAGA
1 ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGA
33677988 TAA
66 TAA
* *
33677991 ATGTAGCTAGGTCGCATGAGTGAT
1 ATGTAGCTAGGTCACATGTGTGAT
33678015 TCCAAGTGAA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 87 1.00
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (68 bp):
ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGA
TAA
Found at i:33682000 original size:47 final size:49
Alignment explanation
Indices: 33681881--33682060 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 49
33681871 TGTAACCCGC
* * *
33681881 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGG--G-C-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
*
33681927 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * *
33681977 -C-TCAG-GAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
*
33682020 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
33682061 CAAATATCCC
Statistics
Matches: 114, Mismatches: 9, Indels: 19
0.80 0.06 0.13
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 3 0.03
46 61 0.54
47 29 0.25
48 4 0.04
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (49 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:33682048 original size:93 final size:93
Alignment explanation
Indices: 33681889--33682060 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
33681879 GCCCATAAGT
* * *
33681889 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
33681954 CGAGTTCGGATGCCTAGTTACATCTCAG
66 CGAGTTCGGATGCCTAGTTACATCTCAG
* * *
33681982 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
33682047 CGAGTTTGGATGCC
66 CGAGTTCGGATGCC
33682061 CAAATATCCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAG
Found at i:33682075 original size:46 final size:46
Alignment explanation
Indices: 33681932--33682075 Score: 136
Period size: 46 Copynumber: 3.1 Consensus size: 46
33681922 CGCATCCATG
* * *
33681932 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* *
33681980 AG-GAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
* *
33682025 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
33682071 AGTGA
1 AGTGA
33682076 CATGTCACTC
Statistics
Matches: 78, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
45 2 0.03
46 33 0.42
47 29 0.37
48 6 0.08
50 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:33688243 original size:68 final size:66
Alignment explanation
Indices: 33688162--33688385 Score: 227
Period size: 68 Copynumber: 3.3 Consensus size: 66
33688152 CATCATGTGT
* * *
33688162 ACAAGA-AGGCTACGAGATACTATATAGTAGCTAGGTCATATGTGTGATACGGGATGTATCCCAT
1 ACAAGAGA-GCTACGAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
33688226 GTAG
63 GTAG
* *
33688230 ACAATAGAGCTACGTGAGAGATAAATGTAGCTAGGTTACATGTGTGATACGGGATGTATCCCATG
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
33688295 TAG
64 TAG
* * * * * * *
33688298 ACAAGAGAACTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGAAGGA-CAC
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGTGTGA-T--ACGGGATGTATC-C
33688362 CATGTAG
60 CATGTAG
33688369 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
33688386 TAAATCGGCT
Statistics
Matches: 134, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
68 92 0.69
69 10 0.07
70 6 0.04
71 26 0.19
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTA
G
Found at i:33688419 original size:66 final size:67
Alignment explanation
Indices: 33688290--33688419 Score: 165
Period size: 66 Copynumber: 1.9 Consensus size: 67
33688280 GGGATGTATC
*
33688290 CCATGTAGACAAGAGAACTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAACTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
33688355 AGGACA
62 AGGACA
* * *
33688361 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAACTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
33688420 TCCACCATGT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.17
68 1 0.02
71 20 0.37
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAGAACTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:33693393 original size:15 final size:15
Alignment explanation
Indices: 33693373--33693403 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33693363 CCAACCTTCA
33693373 AATTTTACCTCAATT
1 AATTTTACCTCAATT
33693388 AATTTTACCTCAATT
1 AATTTTACCTCAATT
33693403 A
1 A
33693404 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:33695654 original size:11 final size:11
Alignment explanation
Indices: 33695638--33695664 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
33695628 TAGAAATTAG
33695638 TTTGTGAAACT
1 TTTGTGAAACT
33695649 TTTGTGAAACT
1 TTTGTGAAACT
33695660 TTTGT
1 TTTGT
33695665 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:33697191 original size:93 final size:92
Alignment explanation
Indices: 33697059--33697253 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
33697049 TTGATTTTAG
* *
33697059 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
33697123 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
33697151 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
33697216 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
33697244 CAAATTCATA
1 TAAATTCATA
33697254 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:33697311 original size:17 final size:17
Alignment explanation
Indices: 33697286--33697319 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33697276 ATAATTTTAA
*
33697286 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
33697303 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
33697320 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:33697321 original size:15 final size:16
Alignment explanation
Indices: 33697286--33697324 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
33697276 ATAATTTTAA
*
33697286 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
33697303 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
33697318 ATTTAAT
1 ATTTAAT
33697325 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:33697328 original size:17 final size:18
Alignment explanation
Indices: 33697290--33697329 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
33697280 TTTTAAATTT
*
33697290 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
33697308 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
33697324 TATTAA
1 TATTAA
33697330 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:33697444 original size:15 final size:15
Alignment explanation
Indices: 33697409--33697543 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
33697399 TTAAGAATTT
*
33697409 TATTAAATTAT-ATA
1 TATTTAATTATAATA
33697423 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
33697437 TATTTAATAATAAT-
1 TATTTAATTATAATA
33697451 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
33697465 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
*
33697480 TATTATGATTTGAGTAAATTCA
1 TATT-T-AATT-A-T-AA-T-A
*
33697502 TATTAAATTAT-ATA
1 TATTTAATTATAATA
33697516 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
33697530 TATTTAATAATAAT
1 TATTTAATTATAAT
33697544 TATGTTTAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 33
0.68 0.08 0.24
Matches are distributed among these distances:
12 3 0.03
13 21 0.23
14 17 0.18
15 32 0.34
16 3 0.03
17 2 0.02
18 3 0.03
19 2 0.02
20 4 0.04
21 1 0.01
22 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:33697451 original size:120 final size:119
Alignment explanation
Indices: 33697285--33697503 Score: 345
Period size: 120 Copynumber: 1.8 Consensus size: 119
33697275 AATAATTTTA
* *
33697285 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATATTAATTAT-TTGAAATTT-TCTTT
1 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTT--AATTTATATTT
*
33697348 TATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
64 TACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
*
33697404 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTTAATTTATATTT
1 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATAATAATTATGTTAATTTATATTT
33697468 TACAGTATCATATATTATGATTTGAGTAAATTCATA
64 TACAGTATCATATATTATGATTTGAGTAAATTCATA
33697504 TTAAATTATA
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
119 23 0.25
120 64 0.70
121 5 0.05
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
Found at i:33697532 original size:16 final size:16
Alignment explanation
Indices: 33697511--33697552 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
33697501 ATATTAAATT
*
33697511 ATATATTTTAATTATA
1 ATATATTTTAATAATA
33697527 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
33697542 AT-TATGTTTAA
1 ATATAT-TTTAA
33697553 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:33697660 original size:154 final size:156
Alignment explanation
Indices: 33697502--33697799 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
33697492 AGTAAATTCA
*
33697502 TATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
33697567 TTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
66 TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
33697630 AAATTTATGCTAATTATTAAGAATTT
131 AAATTTATGCTAATTATTAAGAATTT
33697656 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
*
33697721 TTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAA
66 TTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAA
*
33697786 CAAATTTCTGCTAA
130 CAAATTTATGCTAA
33697800 GGGTATTCTA
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 76 0.55
155 2 0.01
157 60 0.43
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (156 bp):
TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
AAATTTATGCTAATTATTAAGAATTT
Found at i:33697680 original size:18 final size:17
Alignment explanation
Indices: 33697652--33697686 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33697642 ATTATTAAGA
*
33697652 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33697669 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33697687 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33697940 original size:16 final size:16
Alignment explanation
Indices: 33697919--33697957 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
33697909 TTGATTTGCT
*
33697919 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
33697935 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
33697951 ATTACAC
1 ATTACAC
33697958 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:33697958 original size:16 final size:16
Alignment explanation
Indices: 33697932--33697988 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
33697922 ACACAGCTTT
* *
33697932 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
33697948 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
33697964 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
33697980 TCCAATACA
1 TCCAATACA
33697989 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:33699602 original size:18 final size:18
Alignment explanation
Indices: 33699579--33699615 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33699569 CGTAATGTCC
*
33699579 CTTAATTGGACCCTAAGG
1 CTTAATTAGACCCTAAGG
*
33699597 CTTAATTAGACCCTGAGG
1 CTTAATTAGACCCTAAGG
33699615 C
1 C
33699616 CCAATACGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (18 bp):
CTTAATTAGACCCTAAGG
Found at i:33705017 original size:31 final size:29
Alignment explanation
Indices: 33704927--33705022 Score: 95
Period size: 29 Copynumber: 3.2 Consensus size: 29
33704917 TTCGATAATG
*
33704927 TTAGTGACTATTTTGTTATTTTCTTC-AAGT
1 TTAGTGACTGTTTTGTTA-TTT-TTCAAAGT
* ** * *
33704957 CTAGTGACTGAGTTGTAAGTTTTCAAAGT
1 TTAGTGACTGTTTTGTTATTTTTCAAAGT
33704986 TTAGTGACTGTTTTGTTATTTTAATCAAAGT
1 TTAGTGACTGTTTTGTTATTTT--TCAAAGT
33705017 TTAGTG
1 TTAGTG
33705023 TCTATTGGTG
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
28 3 0.06
29 23 0.44
30 13 0.25
31 13 0.25
ACGTcount: A:0.24, C:0.08, G:0.19, T:0.49
Consensus pattern (29 bp):
TTAGTGACTGTTTTGTTATTTTTCAAAGT
Found at i:33705402 original size:43 final size:43
Alignment explanation
Indices: 33705337--33705486 Score: 228
Period size: 43 Copynumber: 3.5 Consensus size: 43
33705327 TTATTTTAAA
*
33705337 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAGAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
33705380 AAACGCTGCTAGAGGTCTTGACCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAGAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
* *
33705423 AAACGCCGCTAGTGGTCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAGAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
* *
33705466 AAACGCCACTAAAGGTCATGA
1 AAACGCCGCTAGAGGTCATGA
33705487 AATTTTTTAA
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 94 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAGAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:33710062 original size:7 final size:7
Alignment explanation
Indices: 33710050--33710106 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
33710040 ACTAACTAAT
33710050 CTAAACC
1 CTAAACC
33710057 CTAAACTC
1 CTAAAC-C
*
33710065 CTAATCC
1 CTAAACC
33710072 CTAAACC
1 CTAAACC
*
33710079 TTAAACC
1 CTAAACC
* *
33710086 TTAAAAC
1 CTAAACC
* *
33710093 ATAAGCC
1 CTAAACC
33710100 CTAAACC
1 CTAAACC
33710107 ATGAACCCCT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
7 34 0.85
8 6 0.15
ACGTcount: A:0.42, C:0.35, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:33710121 original size:7 final size:7
Alignment explanation
Indices: 33710110--33710148 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
33710100 CTAAACCATG
33710110 AACCCCT
1 AACCCCT
* *
33710117 CACCCTT
1 AACCCCT
33710124 AACCCCT
1 AACCCCT
33710131 AACCCCT
1 AACCCCT
33710138 AACCCCCT
1 AA-CCCCT
33710146 AAC
1 AAC
33710149 ACTTAAATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.28, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
AACCCCT
Found at i:33710788 original size:40 final size:41
Alignment explanation
Indices: 33710637--33710813 Score: 252
Period size: 41 Copynumber: 4.4 Consensus size: 41
33710627 ATTATATGAC
* * *
33710637 TTTTAGCGACGTTTTATCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
33710678 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTATGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
33710719 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTC-GG-
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * *
33710758 TTTTAGCGGCGTTTTAACAAAAAACTCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGGT
33710799 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
33710814 TGGTTAAACG
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
39 15 0.12
40 21 0.17
41 88 0.71
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:33711256 original size:17 final size:18
Alignment explanation
Indices: 33711234--33711269 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
33711224 CTTGTGGATT
33711234 TAATGCTCTAAATC-AAA
1 TAATGCTCTAAATCTAAA
33711251 TAATGCTCTAAATCTAAA
1 TAATGCTCTAAATCTAAA
33711269 T
1 T
33711270 CTTTTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
TAATGCTCTAAATCTAAA
Found at i:33715744 original size:8 final size:8
Alignment explanation
Indices: 33715733--33715760 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
33715723 TTAAAGCGAT
33715733 AAATGCCG
1 AAATGCCG
33715741 AAATGCCG
1 AAATGCCG
33715749 AAATGCCG
1 AAATGCCG
33715757 AAAT
1 AAAT
33715761 TCTAGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (8 bp):
AAATGCCG
Found at i:33716227 original size:25 final size:25
Alignment explanation
Indices: 33716181--33716228 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
33716171 TTATAATATG
* * * *
33716181 AAAATGACCGTTTTGCCGCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
33716206 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
33716229 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:33716335 original size:20 final size:20
Alignment explanation
Indices: 33716265--33716335 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
33716255 ATTTTGATAA
33716265 ACACGATATGTATGATATGC
1 ACACGATATGTATGATATGC
* *
33716285 ACATGACATGTATGATATGC
1 ACACGATATGTATGATATGC
*
33716305 ACATGATATGTATGATATGC
1 ACACGATATGTATGATATGC
*
33716325 ACACGAGATGT
1 ACACGATATGT
33716336 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (20 bp):
ACACGATATGTATGATATGC
Found at i:33716436 original size:23 final size:24
Alignment explanation
Indices: 33716381--33716500 Score: 174
Period size: 24 Copynumber: 5.0 Consensus size: 24
33716371 GAGGAAGTGC
33716381 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33716405 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33716429 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33716452 AAAGAAGGGCTT-TGCCCCAGTTATT
1 -AA-AAGGGCTTATGCCCCAGTTATT
*
33716477 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
33716501 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
23 27 0.30
24 32 0.36
25 22 0.25
26 8 0.09
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:33716451 original size:47 final size:48
Alignment explanation
Indices: 33716382--33716479 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 48
33716372 AGGAAGTGCA
33716382 AAAGGGCTTATGCCCCAGTTATT-AA-AAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGAAGGGCTT-TGCCCCAGTTATT
33716429 AAAGGGCTTATGCCCCAGTTATTAAAGAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGAAGGGCTTTGCCCCAGTTATT
33716477 AAA
1 AAA
33716480 AGAGGCTAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
47 23 0.47
48 18 0.37
49 8 0.16
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (48 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGAAGGGCTTTGCCCCAGTTATT
Found at i:33716500 original size:25 final size:23
Alignment explanation
Indices: 33716382--33716479 Score: 153
Period size: 23 Copynumber: 4.1 Consensus size: 23
33716372 AGGAAGTGCA
33716382 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
33716405 AAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
33716429 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
33716452 AAAGAAGGGCTT-TGCCCCAGTTATT
1 --A-AAGGGCTTATGCCCCAGTTATT
33716477 AAA
1 AAA
33716480 AGAGGCTAGG
Statistics
Matches: 71, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
22 2 0.03
23 24 0.34
24 23 0.32
25 14 0.20
26 8 0.11
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:33716728 original size:31 final size:31
Alignment explanation
Indices: 33716693--33716756 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
33716683 CGTTTACAGT
33716693 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* *
33716724 AAAGGCTTCGGCCCAGTATTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
33716755 AA
1 AA
33716757 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:33718512 original size:48 final size:48
Alignment explanation
Indices: 33718451--33719553 Score: 952
Period size: 48 Copynumber: 22.9 Consensus size: 48
33718441 ATATACACAC
* * *
33718451 ATCTCCTACATATTTCACACTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33718499 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
33718547 ATCTCACACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
33718595 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
33718643 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
33718691 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33718739 ATCTCAT-TCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATAT-ATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
33718787 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * **
33718835 ATCTCATTTATACTTCACACTAGCCGCTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
33718883 ATCTCAT-TCATACTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATAT-ATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
33718931 ATCTCATACATATTTCACAGTAGCCCTTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * ** * ** * * *
33718979 ATCTCATACATATTTCGGCTTTACCACATATACATATCTCGTA-CATATTTCACATT
1 ATCTCATATATATTTC-ACACTAGC-CAT-T-C--GGCT-TTACCACATAT-ACA-T
* *** * * * *
33719035 AGC-CAT-TCGGCTTTGCCACACATA--CATATC-TC-ATA-CATATTTCACACT
1 ATCTCATAT-ATATTT--CACAC-TAGCCAT-TCGGCTTTACCACATAT-ACA-T
* *** ** * * * *
33719083 AGC-CAT-TCGGCTTT-ACCACATATACATATC-TCATT--CATATTTCACATT
1 ATCTCATAT-ATATTTCA-CAC-TAGCCAT-TCGGCTTTACCACATAT-ACA-T
* *** ** * * * *
33719131 AGC-CAT-TCGGCTTT-ACCACATATACATATC-TC-ATA-CATATTTCACAT
1 ATCTCATAT-ATATTTCA-CAC-TAGCCAT-TCGGCTTTACCACATAT-ACAT
* *** ** * *
33719178 -TAGTCAT-TCGGCTTT-ACCACATATACATATC-TCATT--CACATATACAT
1 AT-CTCATAT-ATATTTCA-CAC-TAGCCAT-TCGGCTTTACCACATATACAT
* * *
33719225 ATCTCAT-TCATACTTCACACTGGCCATTCGGCTTTACCACATTTACAT
1 ATCTCATAT-ATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
33719273 ATCTCAT-TCGTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATAT-ATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33719321 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
33719369 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
33719417 ATCTCATACATATTTCACATTAGCCATTCAGCTTTAACACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
33719465 TTCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
33719513 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACA
33719554 CACAATTATA
Statistics
Matches: 944, Mismatches: 80, Indels: 62
0.87 0.07 0.06
Matches are distributed among these distances:
45 3 0.00
46 13 0.01
47 18 0.02
48 866 0.92
49 7 0.01
50 4 0.00
51 1 0.00
52 1 0.00
53 1 0.00
54 12 0.01
55 11 0.01
56 4 0.00
57 3 0.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:33718558 original size:96 final size:96
Alignment explanation
Indices: 33718451--33719212 Score: 1208
Period size: 96 Copynumber: 8.1 Consensus size: 96
33718441 ATATACACAC
* * *
33718451 ATCTCCTACATATTTCACACTAGTCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
33718516 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
* *
33718547 ATCTCACACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
33718612 CATTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
33718643 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
33718708 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
*
33718739 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
33718804 CATTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
** * ** * *
33718835 ATCTCATTTATACTTCACACTAGCCGCTCGGCTTTACCACATATACATATCTCATTCATACTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
33718900 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
* *
33718931 ATCTCATACATATTTCACAGTAGCCCTTCGGCTTTACCACATATACATATCTCATAC--A--T--
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
33718990 -A-T-----TTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
* * * *
33719014 ATCTCGTACATATTTCACATTAGCCATTCGGCTTTGCCACACATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
33719079 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
* *
33719110 ATCTCATTCATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
33719175 CATTAGTCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
33719206 ATCTCAT
1 ATCTCAT
33719213 TCACATATAC
Statistics
Matches: 617, Mismatches: 36, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
83 74 0.12
85 1 0.00
87 1 0.00
88 1 0.00
89 1 0.00
90 1 0.00
91 1 0.00
92 1 0.00
94 1 0.00
96 535 0.87
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (96 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACAT
Found at i:33718612 original size:144 final size:144
Alignment explanation
Indices: 33718451--33719212 Score: 1208
Period size: 144 Copynumber: 5.4 Consensus size: 144
33718441 ATATACACAC
* * *
33718451 ATCTCCTACATATTTCACACTAGTCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
33718516 CACTAGCCATTCGGCTTTACCACATATACATATCTCACACATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
33718581 TACCACATATACAT
131 TACCACATATACAT
*
33718595 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
33718660 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
33718725 TACCACATATACAT
131 TACCACATATACAT
*
33718739 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* ** * **
33718804 CATTAGCCATTCGGCTTTACCACATATACATATCTCATTTATACTTCACACTAGCCGCTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
33718869 TACCACATATACAT
131 TACCACATATACAT
* *
33718883 ATCTCATTCATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
33718948 CAGTAGCCCTTCGGCTTTACCACATATACATATCTCATAC--A--T---A-T-----TTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
33719000 TACCACATATACAT
131 TACCACATATACAT
* * * *
33719014 ATCTCGTACATATTTCACATTAGCCATTCGGCTTTGCCACACATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
33719079 CACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
33719144 TACCACATATACAT
131 TACCACATATACAT
* *
33719158 ATCTCATACATATTTCACATTAGTCATTCGGCTTTACCACATATACATATCTCAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT
33719213 TCACATATAC
Statistics
Matches: 572, Mismatches: 33, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
131 117 0.20
133 1 0.00
135 1 0.00
136 1 0.00
137 1 0.00
138 1 0.00
139 1 0.00
140 1 0.00
142 1 0.00
144 447 0.78
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (144 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
TACCACATATACAT
Found at i:33718999 original size:35 final size:35
Alignment explanation
Indices: 33718957--33719029 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
33718947 ACAGTAGCCC
33718957 TTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCGGCTTTACCACATATACATATCTCATACATAT
*
33718992 TTCGGCTTTACCACATATACATATCTCGTACATAT
1 TTCGGCTTTACCACATATACATATCTCATACATAT
33719027 TTC
1 TTC
33719030 ACATTAGCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (35 bp):
TTCGGCTTTACCACATATACATATCTCATACATAT
Found at i:33719047 original size:179 final size:179
Alignment explanation
Indices: 33718813--33719553 Score: 780
Period size: 179 Copynumber: 3.9 Consensus size: 179
33718803 ACATTAGCCA
** * *
33718813 TTCGGCTTTACCACATATACATATCTCATTTATACTTCACACTAGCCGCTCGGCTTTACCACATA
1 TTCGGCTTTACCACATATACATATCTCATACATACTTCACACTAGCCACTCGGCTTTACCACACA
*
33718878 TACATATCTCATTCATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
66 TACATATCTCATACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
*
33718943 TTTCACAGTAGCCCTTCGGCTTTACCACATATACATATCTCATACATAT
131 TTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* * * * *
33718992 TTCGGCTTTACCACATATACATATCTCGTACATATTTCACATTAGCCATTCGGCTTTGCCACACA
1 TTCGGCTTTACCACATATACATATCTCATACATACTTCACACTAGCCACTCGGCTTTACCACACA
* *
33719057 TACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATA
66 TACATATCTCATACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
*
33719122 TTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGT
131 TTTCACAGTAGCCATTCGGCTTTACCACATATACATA--TC-T-C--A--T-ACA-TA-T
33719182 CATTCGGCTTTACCACATATACATATCTCATTCACATATACATATCTCATTCATACTTCACACTG
1 --TTCGGCTTTACCACATATACATATCTCA-T-AC--ATAC---T-TCA--C--AC-T---A---
* ** * * *
33719247 GCCATTCGGCTTTACCACATTTACATATCTCATTCGTATTTCACACTAGCCATTCGGCTTTACCA
45 GCCACTCGGCTTTACCACACATACATATCTCATACATACTTCACACTAGCCATTCGGCTTTACCA
* *
33719312 CATATACATATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
110 CATATACATATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATA
33719377 CATATTTCACATT
175 C--A--T---A-T
* * * * *
33719390 AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTAAC
1 -----TTCGGCTTTACCACATATACATATCTCATACATACTTCACACTAGCCACTCGGCTTTACC
* * * *
33719455 ACATATACATTTCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCAT
61 ACACATACATATCTCATACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT
* *
33719520 ATATATTTCACATTAGCCATTCGGCTTTACCACA
126 ACATATTTCACAGTAGCCATTCGGCTTTACCACA
33719554 CACAATTATA
Statistics
Matches: 485, Mismatches: 36, Indels: 69
0.82 0.06 0.12
Matches are distributed among these distances:
179 153 0.32
181 2 0.00
182 1 0.00
183 1 0.00
185 1 0.00
187 1 0.00
188 3 0.01
189 2 0.00
190 1 0.00
192 134 0.28
193 1 0.00
194 2 0.00
195 1 0.00
196 3 0.01
198 1 0.00
199 2 0.00
200 3 0.01
201 1 0.00
202 3 0.01
203 4 0.01
204 3 0.01
205 4 0.01
207 4 0.01
208 4 0.01
209 4 0.01
210 1 0.00
211 145 0.30
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (179 bp):
TTCGGCTTTACCACATATACATATCTCATACATACTTCACACTAGCCACTCGGCTTTACCACACA
TACATATCTCATACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
TTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
Found at i:33719048 original size:83 final size:83
Alignment explanation
Indices: 33718909--33719077 Score: 293
Period size: 83 Copynumber: 2.0 Consensus size: 83
33718899 ACACTAGCCA
* *
33718909 TTCGGCTTTACCACATATACATATCTCATACATATTTCACAGTAGCCCTTCGGCTTTACCACATA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACACA
33718974 TACATATCTCATACATAT
66 TACATATCTCATACATAT
* * *
33718992 TTCGGCTTTACCACATATACATATCTCGTACATATTTCACATTAGCCATTCGGCTTTGCCACACA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACACA
33719057 TACATATCTCATACATAT
66 TACATATCTCATACATAT
33719075 TTC
1 TTC
33719078 ACACTAGCCA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.36
Consensus pattern (83 bp):
TTCGGCTTTACCACATATACATATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACACA
TACATATCTCATACATAT
Found at i:33719219 original size:19 final size:19
Alignment explanation
Indices: 33719195--33719234 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
33719185 TCGGCTTTAC
33719195 CACATATACATATCTCATT
1 CACATATACATATCTCATT
33719214 CACATATACATATCTCATT
1 CACATATACATATCTCATT
33719233 CA
1 CA
33719235 TACTTCACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.35
Consensus pattern (19 bp):
CACATATACATATCTCATT
Found at i:33719219 original size:67 final size:67
Alignment explanation
Indices: 33719147--33719281 Score: 216
Period size: 67 Copynumber: 2.0 Consensus size: 67
33719137 TCGGCTTTAC
* * *
33719147 CACATATACATATCTCATACATATTTCACATTAGTCATTCGGCTTTACCACATATACATATCTCA
1 CACATATACATATCTCATACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
33719212 TT
66 TT
* * *
33719214 CACATATACATATCTCATTCATACTTCACACTGGCCATTCGGCTTTACCACATTTACATATCTCA
1 CACATATACATATCTCATACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
33719279 TT
66 TT
33719281 C
1 C
33719282 GTATTTCACA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.30, C:0.28, G:0.05, T:0.36
Consensus pattern (67 bp):
CACATATACATATCTCATACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
TT
Found at i:33719230 original size:115 final size:115
Alignment explanation
Indices: 33719099--33719327 Score: 386
Period size: 115 Copynumber: 2.0 Consensus size: 115
33719089 TCGGCTTTAC
* *
33719099 CACATATACATATCTCATTCATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 CACATATACATATCTCATTCATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
33719164 TACATATTTCACATTAGTCATTCGGCTTTACCACATATACATATCTCATT
66 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
* *
33719214 CACATATACATATCTCATTCATACTTCACACTGGCCATTCGGCTTTACCACATTTACATATCTCA
1 CACATATACATATCTCATTCATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
33719279 TTCGTATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT
66 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT
33719328 ATATATTTCA
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
115 106 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (115 bp):
CACATATACATATCTCATTCATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
Found at i:33719253 original size:163 final size:163
Alignment explanation
Indices: 33719051--33719375 Score: 560
Period size: 163 Copynumber: 2.0 Consensus size: 163
33719041 TCGGCTTTGC
*
33719051 CACACATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 CACACATACATATCTCATACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
33719116 TTCATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
66 TTCATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
*
33719181 TCATTCGGCTTTACCACATATACATATCTCATT
131 CCATTCGGCTTTACCACATATACATATCTCATT
* * * *
33719214 CACATATACATATCTCATTCATACTTCACACTGGCCATTCGGCTTTACCACATTTACATATCTCA
1 CACACATACATATCTCATACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
33719279 TTCGTATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACACTAG
66 TTCATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
33719344 CCATTCGGCTTTACCACATATACATATCTCAT
131 CCATTCGGCTTTACCACATATACATATCTCAT
33719376 ACATATTTCA
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
163 152 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.35
Consensus pattern (163 bp):
CACACATACATATCTCATACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
TTCATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
CCATTCGGCTTTACCACATATACATATCTCATT
Found at i:33719460 original size:259 final size:259
Alignment explanation
Indices: 33718992--33719555 Score: 851
Period size: 259 Copynumber: 2.3 Consensus size: 259
33718982 TCATACATAT
* * *
33718992 TTCGGCTTTACCACATATACATATCTCGTACATATTTCACATTAGCCATTCGGCTTTGCCACACA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACA
*
33719057 TACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTCATA
66 TACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
*
33719122 TTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGTCATTC
131 TTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTC
* *
33719187 GGCTTTACCACATATACATATCTCATTCACATATACATATCTCATTCATACTTCACACTGGCCA
196 AGCTTTAACACATATACATATCTCATTCACATATACATATCTCATTCATACTTCACACTGGCCA
* * * *
33719251 TTCGGCTTTACCACATTTACATATCTCATTCGTATTTCACACTAGCCATTCGGCTTTACCACATA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACA
*
33719316 TACATATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
66 TACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
33719381 TTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTC
131 TTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTC
*
33719446 AGCTTTAACACATATAC--A--T--TT--C---T-CATA---CA-T-AT--TTCACACTAGCCA
196 AGCTTTAACACATATACATATCTCATTCACATATACATATCTCATTCATACTTCACACTGGCCA
* * *
33719491 TTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACACA
1 TTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACA
33719556 CAATTATATT
Statistics
Matches: 285, Mismatches: 20, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
240 70 0.25
242 2 0.01
243 1 0.00
244 2 0.01
247 4 0.01
248 1 0.00
251 1 0.00
253 2 0.01
255 1 0.00
257 1 0.00
259 200 0.70
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (259 bp):
TTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACA
TACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
TTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTC
AGCTTTAACACATATACATATCTCATTCACATATACATATCTCATTCATACTTCACACTGGCCA
Found at i:33722900 original size:40 final size:40
Alignment explanation
Indices: 33722820--33723173 Score: 556
Period size: 40 Copynumber: 9.0 Consensus size: 40
33722810 GAATGCACAT
* * *
33722820 CACCAGCATGATTGCTCTTC-GGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
33722859 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
33722899 CACCAGCACGAATG--C-TC-GGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
33722935 CACCAGCACGAATGCTCTTCGGGACTTACCCCGGATCTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
33722975 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
33723015 CATCAGCCCGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
33723055 CATCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
33723095 CATCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
33723135 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
33723174 TAACTCTCAA
Statistics
Matches: 293, Mismatches: 17, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
36 33 0.11
37 2 0.01
38 2 0.01
39 20 0.07
40 236 0.81
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:33725397 original size:39 final size:40
Alignment explanation
Indices: 33725341--33725523 Score: 241
Period size: 39 Copynumber: 4.7 Consensus size: 40
33725331 AGTGACCATA
*
33725341 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
33725381 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
33725420 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
33725459 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
33725498 AACC-GGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
33725524 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 94 0.72
40 36 0.28
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:33725530 original size:39 final size:39
Alignment explanation
Indices: 33725304--33725523 Score: 220
Period size: 39 Copynumber: 5.6 Consensus size: 39
33725294 TGAATGATGT
* * * *
33725304 CCGGGCTAAGT-CCGAAGG--TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
33725342 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
33725382 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-A
33725421 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33725459 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33725500 CC-GGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
33725524 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
38 9 0.06
39 101 0.63
40 42 0.26
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33725530 original size:79 final size:77
Alignment explanation
Indices: 33725354--33725546 Score: 230
Period size: 78 Copynumber: 2.5 Consensus size: 77
33725344 GGACTAAGAT
* * *
33725354 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGATACTAA
*
33725419 TTCCGGGCTAAGC
65 TACCGGGCTAAGC
*
33725432 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAGATACTA
*
33725496 ATAACC-GGCTATGTC
64 AT-ACCGGGCTAAG-C
** *
33725511 CCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGTGCGAGTA-CTAAATCCGGGTTAA
33725547 ATTCGAAGGT
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
78 51 0.50
79 50 0.50
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGTACTAAATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGATACTAAT
ACCGGGCTAAGC
Found at i:33725542 original size:118 final size:117
Alignment explanation
Indices: 33725303--33725529 Score: 264
Period size: 118 Copynumber: 1.9 Consensus size: 117
33725293 TTGAATGATG
* * *
33725303 TCCGGGCTAAGTCCGAAGGTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 TCCGGGCTAAGCCCGAAGGTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGT
* **
33725368 GCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
66 GCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAAT
* * * **
33725420 TCCGGGCTAAGCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAAT
1 TCCGGGCTAAGCCCGAAGG--TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAAT
* *
33725483 TGTGCGAGTTACT-ATAACC-GGCTATGTCCCGAAGGCATTTGAACGAG
63 TGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAG
33725530 TAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
117 27 0.29
118 58 0.63
119 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (117 bp):
TCCGGGCTAAGCCCGAAGGTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGT
GCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAAT
Found at i:33727823 original size:48 final size:48
Alignment explanation
Indices: 33727765--33728285 Score: 907
Period size: 48 Copynumber: 10.9 Consensus size: 48
33727755 ATATACACAC
* * *
33727765 ATCTCCTACATATTTCACACTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
33727813 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
33727861 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
33727909 ATCTCATTCATATTTCACACTAGCCATTCGGATTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
33727957 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
33728005 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
33728053 ATCTCATTCATACTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
33728101 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
33728149 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
33728197 ATCTCATACATATTTCACACTAGCCATTCGGGTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
33728245 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
33728286 CACATATATA
Statistics
Matches: 449, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 449 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:33745442 original size:30 final size:31
Alignment explanation
Indices: 33745418--33745476 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
33745408 GTAAATACTC
* *
33745418 AAAATTTGAGGGATTAA-AGTGTAAATATAA
1 AAAATTTGAAGGACTAATAGTGTAAATATAA
*
33745448 AAAATTTGAAGGACTAATAGTGCAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
33745477 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.49, C:0.03, G:0.19, T:0.29
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATAA
Found at i:33748514 original size:46 final size:46
Alignment explanation
Indices: 33748464--33748730 Score: 374
Period size: 46 Copynumber: 5.8 Consensus size: 46
33748454 ATTGCGATTC
*
33748464 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* * *
33748510 AAATGTGTAAGACCACGATTGAAAGATACCATGGCAACATGATATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
33748556 AAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
33748602 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-TG
* * * *
33748649 AAATGAATGAGACCATGGTTGAAAGATACCATGGCAACCTGACA-G
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* * *
33748694 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 -AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
33748731 TCATTTCGAA
Statistics
Matches: 202, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 159 0.79
47 42 0.21
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
Found at i:33748965 original size:102 final size:102
Alignment explanation
Indices: 33748789--33748993 Score: 401
Period size: 102 Copynumber: 2.0 Consensus size: 102
33748779 GTTAAACAAC
*
33748789 TAATATTCAGGTAATATGTACCAGATGACAAATGGTGATATGAATTGGTTATATAAAATGGTTGT
1 TAATATTCAGGTAATATATACCAGATGACAAATGGTGATATGAATTGGTTATATAAAATGGTTGT
33748854 GTGAAATGTTTACAGGAATTGGTCATATGGAAATATA
66 GTGAAATGTTTACAGGAATTGGTCATATGGAAATATA
33748891 TAATATTCAGGTAATATATACCAGATGACAAATGGTGATATGAATTGGTTATATAAAATGGTTGT
1 TAATATTCAGGTAATATATACCAGATGACAAATGGTGATATGAATTGGTTATATAAAATGGTTGT
33748956 GTGAAATGTTTACAGGAATTGGTCATATGGAAATATA
66 GTGAAATGTTTACAGGAATTGGTCATATGGAAATATA
33748993 T
1 T
33748994 GTACAAAATA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.35
Consensus pattern (102 bp):
TAATATTCAGGTAATATATACCAGATGACAAATGGTGATATGAATTGGTTATATAAAATGGTTGT
GTGAAATGTTTACAGGAATTGGTCATATGGAAATATA
Found at i:33749339 original size:24 final size:23
Alignment explanation
Indices: 33749308--33749354 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
33749298 ATTACATGAT
*
33749308 TATTCTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTGGGTTGGA
33749331 TATTACTGGTGTGTTTGGGTTGGA
1 TATT-CTGGTGTGTTTGGGTTGGA
33749355 ATCTATGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.11, C:0.04, G:0.36, T:0.49
Consensus pattern (23 bp):
TATTCTGGTGTGTTTGGGTTGGA
Found at i:33751598 original size:8 final size:8
Alignment explanation
Indices: 33751587--33751611 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33751577 TTTAATAAGA
33751587 TATTTTAT
1 TATTTTAT
33751595 TATTTTAT
1 TATTTTAT
33751603 TATTTTAT
1 TATTTTAT
33751611 T
1 T
33751612 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:33756200 original size:27 final size:26
Alignment explanation
Indices: 33756162--33756247 Score: 127
Period size: 27 Copynumber: 3.2 Consensus size: 26
33756152 GGAAGAAGTA
33756162 TTCTGGTGGCTCTGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
*
33756189 TTCTGGTGGCTCTGCCACAATATTTG
1 TTCTGGTGGCTCTGCCACAATATCTG
* *
33756215 TATCTGGTGACTCTGTCACAATATCTG
1 T-TCTGGTGGCTCTGCCACAATATCTG
33756242 TTCTGG
1 TTCTGG
33756248 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
26 13 0.24
27 41 0.76
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:33757565 original size:12 final size:12
Alignment explanation
Indices: 33757528--33757557 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
33757518 GAGAGCAGCT
33757528 CGTGGAAGAGGC
1 CGTGGAAGAGGC
33757540 CGTGGAAGAGGC
1 CGTGGAAGAGGC
33757552 CGTGGA
1 CGTGGA
33757558 CGTGGCCGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.50, T:0.10
Consensus pattern (12 bp):
CGTGGAAGAGGC
Found at i:33764003 original size:27 final size:26
Alignment explanation
Indices: 33763963--33764041 Score: 95
Period size: 27 Copynumber: 3.0 Consensus size: 26
33763953 GAAGTATTCT
33763963 GGTGGCTCTGCCACAAATATCTGTTCG
1 GGTGGCTCTGCCAC-AATATCTGTTCG
* * *
33763990 GGTGGCTCTACCACAATATTTGTATCT
1 GGTGGCTCTGCCACAATATCTGT-TCG
* *
33764017 GGTGACTCTGTCACAATATCTGTTC
1 GGTGGCTCTGCCACAATATCTGTTC
33764042 TGGTAGCCGT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.23
27 34 0.77
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
GGTGGCTCTGCCACAATATCTGTTCG
Found at i:33766952 original size:25 final size:25
Alignment explanation
Indices: 33766910--33766958 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
33766900 ATTTATTATT
* *
33766910 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
33766935 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
33766959 GGTCCTCTAG
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:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:33770353 original size:15 final size:15
Alignment explanation
Indices: 33770330--33770361 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33770320 TGGAAGGATT
33770330 ATGGCTTTCTCCAAA
1 ATGGCTTTCTCCAAA
*
33770345 ATGGTTTTCTCCAAA
1 ATGGCTTTCTCCAAA
33770360 AT
1 AT
33770362 TGATAAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (15 bp):
ATGGCTTTCTCCAAA
Found at i:33770421 original size:11 final size:12
Alignment explanation
Indices: 33770400--33770434 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
33770390 GTAGGTTTCA
33770400 AAAAATGGAAAT
1 AAAAATGGAAAT
*
33770412 AAAAATGAAAAT
1 AAAAATGGAAAT
*
33770424 AGAAATGGAAA
1 AAAAATGGAAA
33770435 CTTGCAATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (12 bp):
AAAAATGGAAAT
Found at i:33773072 original size:20 final size:21
Alignment explanation
Indices: 33773047--33773086 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33773037 CACTTGAAAC
*
33773047 AGGGC-ACATACTCGTGTGGA
1 AGGGCAACATACCCGTGTGGA
*
33773067 AGGGCAACATGCCCGTGTGG
1 AGGGCAACATACCCGTGTGG
33773087 CCTTGTTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.23, G:0.38, T:0.17
Consensus pattern (21 bp):
AGGGCAACATACCCGTGTGGA
Found at i:33775181 original size:38 final size:38
Alignment explanation
Indices: 33775139--33775282 Score: 209
Period size: 38 Copynumber: 3.8 Consensus size: 38
33775129 ACTTTAAGCT
* *
33775139 CGGATATAATACCAGCACTAGGCCTGCAGGATTTAACC
1 CGGATATAATACCAGCACGAAGCCTGCAGGATTTAACC
*
33775177 CGGATATAATACCAGCACGAAGCCTGCGGGATTTAACC
1 CGGATATAATACCAGCACGAAGCCTGCAGGATTTAACC
*
33775215 CGGATATAATACCAGCACGAAGCCTGCGGGATTTAACC
1 CGGATATAATACCAGCACGAAGCCTGCAGGATTTAACC
* * *
33775253 CGGATATATTTCCAGCA-TATAGCCTGCAGG
1 CGGATATAATACCAGCACGA-AGCCTGCAGG
33775283 TCTTTAAGCC
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
37 1 0.01
38 97 0.99
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.21
Consensus pattern (38 bp):
CGGATATAATACCAGCACGAAGCCTGCAGGATTTAACC
Found at i:33775225 original size:76 final size:78
Alignment explanation
Indices: 33775122--33775298 Score: 234
Period size: 76 Copynumber: 2.3 Consensus size: 78
33775112 AATACAAAAT
* * *
33775122 CTGCGGGACTTTAAGCTCGGATATAATACCAGCACTAGGCCTGCAGGATTTAACCCGGATATAAT
1 CTGCGGGACTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAAT
33775187 ACCAGCACGAAGC
66 ACCAGCACGAAGC
* *
33775200 CTGCGGGA-TTTAA-CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 CTGCGGGACTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAAT
* *
33775263 TCCAGCA-TATAGC
66 ACCAGCACGA-AGC
* * *
33775276 CTGCAGGTCTTTAAGCCCAGATA
1 CTGCGGGACTTTAAGCCCGGATA
33775299 CACATCAAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
75 1 0.01
76 60 0.70
77 10 0.12
78 15 0.17
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (78 bp):
CTGCGGGACTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAAT
ACCAGCACGAAGC
Found at i:33783490 original size:49 final size:49
Alignment explanation
Indices: 33783427--33783559 Score: 153
Period size: 49 Copynumber: 2.7 Consensus size: 49
33783417 GTACATTAAA
* * *
33783427 GTCGATGCCGTGTCCCAGACAGGTCTTATACTGACTTTCATATATCGAG-
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GT
* * *
33783476 G-CTGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCGGT
1 GTC-GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGT
** *
33783525 GTCGATGCCATGTCCTTGATAGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGAC
33783560 ACACAACAAG
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.03
49 67 0.96
50 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGT
Found at i:33783549 original size:98 final size:93
Alignment explanation
Indices: 33783427--33783600 Score: 222
Period size: 93 Copynumber: 1.8 Consensus size: 93
33783417 GTACATTAAA
* * * * * *
33783427 GTCGATGCCGTGTCCCAGACAGGTCTTATACTGACTTTCATATATCGAGGCTGATGCCATGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGAC--ACACA-A-C-AAGCTGACGCCATGTCCC
33783492 AAACAGGTCTTACACTGGCTCTCATCTATCGGT
61 AAACAGGTCTTACACTGGCTCTCATCTATCGGT
** *
33783525 GTCGATGCCATGTCCTTGATAGGTCTTACACTGACACACAACAAGCTGACGCCATGTCCCAAACA
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACACACAACAAGCTGACGCCATGTCCCAAACA
33783590 GGTCTTACACT
66 GGTCTTACACT
33783601 AGCTTGTATA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
93 32 0.48
94 1 0.01
95 1 0.01
96 3 0.04
98 30 0.45
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACACACAACAAGCTGACGCCATGTCCCAAACA
GGTCTTACACTGGCTCTCATCTATCGGT
Found at i:33786064 original size:27 final size:26
Alignment explanation
Indices: 33786027--33786137 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 26
33786017 AGCATGGCTG
* *
33786027 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
33786053 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
33786081 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
33786108 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
33786135 CCA
1 CCA
33786138 AAACGCTTCC
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 5 0.06
27 55 0.71
28 17 0.22
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:33786091 original size:54 final size:54
Alignment explanation
Indices: 33786027--33786137 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
33786017 AGCATGGCTG
*
33786027 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
33786081 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
33786135 CCA
1 CCA
33786138 AAACGCTTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:33787797 original size:26 final size:26
Alignment explanation
Indices: 33787759--33787868 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
33787749 CATGAAATTC
*
33787759 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
33787785 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
33787811 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
33787837 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
33787863 TTATCA
1 TTATCA
33787869 ATTTGCATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:33789840 original size:40 final size:40
Alignment explanation
Indices: 33789763--33789940 Score: 297
Period size: 40 Copynumber: 4.5 Consensus size: 40
33789753 AAACCAAGTA
* *
33789763 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
33789802 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33789842 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33789882 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33789922 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33789941 TTATCATCCA
Statistics
Matches: 131, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.11
40 117 0.89
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33797833 original size:40 final size:40
Alignment explanation
Indices: 33797756--33797933 Score: 306
Period size: 40 Copynumber: 4.5 Consensus size: 40
33797746 AAACCAAGTA
* *
33797756 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
33797795 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33797835 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33797875 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33797915 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33797934 TTATCATCCG
Statistics
Matches: 133, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 14 0.11
40 119 0.89
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33808591 original size:17 final size:17
Alignment explanation
Indices: 33808553--33808591 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
33808543 TTAGAATTGG
*
33808553 GTTGAGAAAATAATTTA
1 GTTGAGAAAATAAATTA
* *
33808570 ATTGAGAAATTAAATTA
1 GTTGAGAAAATAAATTA
33808587 GTTGA
1 GTTGA
33808592 TTTAATTACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (17 bp):
GTTGAGAAAATAAATTA
Found at i:33814897 original size:13 final size:13
Alignment explanation
Indices: 33814881--33814905 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33814871 CAATTTTTTA
33814881 TTTTTAATTAATC
1 TTTTTAATTAATC
33814894 TTTTTAATTAAT
1 TTTTTAATTAAT
33814906 TTCTCTTTTA
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:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATC
Found at i:33815055 original size:14 final size:15
Alignment explanation
Indices: 33815036--33815068 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
33815026 ACATCAGCTA
*
33815036 ATTTTTTTTTAT-AT
1 ATTTTTCTTTATAAT
33815050 ATTTTTCTTTATAAT
1 ATTTTTCTTTATAAT
33815065 ATTT
1 ATTT
33815069 GTATGTCAAC
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:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTTCTTTATAAT
Found at i:33817021 original size:50 final size:49
Alignment explanation
Indices: 33816844--33817088 Score: 274
Period size: 49 Copynumber: 4.9 Consensus size: 49
33816834 TCTATTGTGA
* * *
33816844 GGTCACGTGTATAGTACTAAGTGCAAGCTACTACGTGTACCAGATTATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*** * ** *
33816893 GGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * **
33816943 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
33816993 AGGTCACGCGTGTAGTACCAAGTGCAGGCTACTACGTGTATCAGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
33817043 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
33817089 GCTTTGGCTA
Statistics
Matches: 160, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
49 76 0.47
50 48 0.30
51 36 0.22
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:33821443 original size:30 final size:28
Alignment explanation
Indices: 33821377--33821445 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
33821367 GCTTCAAGGG
* *
33821377 ACACACGGCCATGTACCAAGGCCACGTC
1 ACACACGGTCGTGTACCAAGGCCACGTC
* *
33821405 ACAAACGGTCGTGTACCAAGGCCATGTGTC
1 ACACACGGTCGTGTACCAAGGCCA--CGTC
33821435 ACACACGGTCG
1 ACACACGGTCG
33821446 AGCCATACGC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 21 0.62
30 13 0.38
ACGTcount: A:0.28, C:0.33, G:0.25, T:0.14
Consensus pattern (28 bp):
ACACACGGTCGTGTACCAAGGCCACGTC
Found at i:33822817 original size:42 final size:43
Alignment explanation
Indices: 33822769--33822918 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 43
33822759 TATCCTAGAA
* * *
33822769 ATGGTCTTACATGTTATCACATATCGATGCC-ATGTCCCAGAG
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* * * * * * *
33822811 AGGGTCTTATACGAAATCATATAACGATACCAATGTCCCAAAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* *
33822854 ATGGTTTTACACGTAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCCAGAC
* *
33822897 ATGGTCTTACATGTTATCACAT
1 ATGGTCTTACACGTAATCACAT
33822919 CTCGTAATCC
Statistics
Matches: 83, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
42 24 0.29
43 59 0.71
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:33825031 original size:26 final size:26
Alignment explanation
Indices: 33824993--33825045 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
33824983 AAACTCTTCT
33824993 AAAAGAAACTC-AAGAGAAATTATTG
1 AAAAGAAACTCAAAGAGAAATTATTG
*
33825018 AAAAGAAAACTCAAAGAGAATTTATTG
1 AAAAG-AAACTCAAAGAGAAATTATTG
33825045 A
1 A
33825046 CTCAAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 5 0.20
26 6 0.24
27 14 0.56
ACGTcount: A:0.57, C:0.08, G:0.15, T:0.21
Consensus pattern (26 bp):
AAAAGAAACTCAAAGAGAAATTATTG
Found at i:33828712 original size:48 final size:48
Alignment explanation
Indices: 33828640--33828813 Score: 208
Period size: 48 Copynumber: 3.6 Consensus size: 48
33828630 GTAAATTGCT
* * * * *
33828640 GATGCCATATCCCAAACATTGTCTTACACTGGCTCACATGTCGAGGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAGGCC
* * * * * *
33828688 GATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAGGCC
*
33828736 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-GAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATG--TCGAGGCC
33828784 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
33828814 AGCACACCTA
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
48 105 0.99
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGTCGAGGCC
Found at i:33828804 original size:96 final size:96
Alignment explanation
Indices: 33828640--33828816 Score: 259
Period size: 96 Copynumber: 1.8 Consensus size: 96
33828630 GTAAATTGCT
* *
33828640 GATGCCATATCCCAAACATTGTCTTACACTGGCTCACATGTCGAGGGCGATGCCATGTCCCAGAC
1 GATGCCATATCCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGAC
*
33828705 ATGGTCTTATACTAGCTCTCGTCTCAATGCC
66 ATGGTCTTACACTAGCTCTCGTCTCAATGCC
* * * *
33828736 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-GAAT-GTGGCCGATGCCATGTCCCAG
1 GATGCCATATCCCAAACATGGTCTTACACTGGCTCACATG--TCGAGGCCGATGCCATGTCCCAG
33828799 ACATGGTCTTACACTAGC
64 ACATGGTCTTACACTAGC
33828817 ACACCTATCA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
95 1 0.01
96 70 0.97
97 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (96 bp):
GATGCCATATCCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCGTCTCAATGCC
Found at i:33829118 original size:7 final size:7
Alignment explanation
Indices: 33829106--33829150 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
33829096 AATTTATTTA
33829106 TTTAGGG
1 TTTAGGG
33829113 TTTAGGG
1 TTTAGGG
**
33829120 TTTATAG
1 TTTAGGG
33829127 TTTAGGG
1 TTTAGGG
33829134 TTTAGGG
1 TTTAGGG
33829141 TTTAGGG
1 TTTAGGG
33829148 TTT
1 TTT
33829151 GTAGTAACCT
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:0.16, C:0.00, G:0.36, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:33829129 original size:14 final size:14
Alignment explanation
Indices: 33829112--33829155 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
33829102 TTTATTTAGG
33829112 GTTTAGGGTTTATA
1 GTTTAGGGTTTATA
**
33829126 GTTTAGGGTTTAGG
1 GTTTAGGGTTTATA
*
33829140 GTTTAGGGTTTGTA
1 GTTTAGGGTTTATA
33829154 GT
1 GT
33829156 AACCTTAAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTATA
Found at i:33832562 original size:39 final size:39
Alignment explanation
Indices: 33832508--33832801 Score: 437
Period size: 39 Copynumber: 7.8 Consensus size: 39
33832498 AAGACACTGA
33832508 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
33832547 AAATGTATCCGGGCT-AA-------A-G-TTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
33832576 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
33832615 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
33832654 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
33832693 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
33832732 AAATTTATCCGGGCCAAAGTCCCACAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
33832771 AAATGTATCTGGGTTAAAGTCCCGCAGGCTT
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTT
33832802 TGTGATGATA
Statistics
Matches: 231, Mismatches: 14, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
29 25 0.11
30 3 0.01
31 1 0.00
37 1 0.00
38 3 0.01
39 198 0.86
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:33832579 original size:29 final size:29
Alignment explanation
Indices: 33832537--33832595 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
33832527 TCCCGCAGGC
33832537 TTCGTGCTGGAAATGTATCCGGGCTAAAG
1 TTCGTGCTGGAAATGTATCCGGGCTAAAG
33832566 TTCGTGCTGGAAATGTATCCGGGCTAAAG
1 TTCGTGCTGGAAATGTATCCGGGCTAAAG
33832595 T
1 T
33832596 CCCGCAGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (29 bp):
TTCGTGCTGGAAATGTATCCGGGCTAAAG
Found at i:33836077 original size:30 final size:30
Alignment explanation
Indices: 33836016--33836079 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
33836006 GGGGTAGACC
* *
33836016 TGTGTCACACACGGCCTAGACCCACCTCCG
1 TGTGTCACACACGGCCTAGACACAACTCCG
33836046 TGTGTCACACACGGCCTAGACACATAC-CCG
1 TGTGTCACACACGGCCTAGACACA-ACTCCG
33836076 TGTG
1 TGTG
33836080 GACAAAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.22, C:0.38, G:0.22, T:0.19
Consensus pattern (30 bp):
TGTGTCACACACGGCCTAGACACAACTCCG
Found at i:33836992 original size:48 final size:48
Alignment explanation
Indices: 33836856--33837122 Score: 201
Period size: 48 Copynumber: 5.6 Consensus size: 48
33836846 AAGAGGGTAA
* * *
33836856 AATGCCAATTCCATGTCCCAGACATCGTCTTACACTGGCTCATATGTC--
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-TGTCTT
* * * * *
33836904 GAGGCCGATGCCATGT-CCAAACATGGCCTTACACTAGCTCTTGTCTT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTCTT
* * *
33836951 AATGCCGATGCCATGTCCCAAATATGGTCTTACACTGGCTC---TCAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTCTT
* * * * *** * *
33836996 AACGTGGTCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATC
1 AA--T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTCTT
*
33837047 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC---TCAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTCTT
*
33837092 AATGTGGCCAATGCCATGTCCCAGACATGGT
1 AA--T-GCCGATGCCATGTCCCAGACATGGT
33837123 TTTATACTAG
Statistics
Matches: 176, Mismatches: 31, Indels: 24
0.76 0.13 0.10
Matches are distributed among these distances:
45 12 0.07
46 1 0.01
47 36 0.20
48 123 0.70
49 1 0.01
51 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTCTT
Found at i:33837065 original size:96 final size:95
Alignment explanation
Indices: 33836856--33837143 Score: 344
Period size: 96 Copynumber: 3.0 Consensus size: 95
33836846 AAGAGGGTAA
* * * ** *
33836856 AATGCCAATTCCATGTCCCAGACATCGTCTTACACTGGCTCAT-ATGTCGAGGCCGATGCCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAACGTGGCCGATGCCATGT
* * * *** * *
33836920 CCAAACATGGCCTTACACTAGCTCTTGTCTT
65 CCAGACATGGTCTTACACTAGCACACATATC
* * *
33836951 AATGCCGATGCCATGTCCCAAATATGGTCTTACACTGGCTCTCATAACGTGGTCGATGCCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCCATGTC
33837016 CTAGACATGGTCTTACACTAGCACACATATC
66 C-AGACATGGTCTTACACTAGCACACATATC
* *
33837047 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCAATGCCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCCATGT-
* * *
33837112 CCAGACATGGTTTTATACTAGCACACCTATC
65 CCAGACATGGTCTTACACTAGCACACATATC
33837143 A
1 A
33837144 CCCAAATGTC
Statistics
Matches: 165, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
94 1 0.01
95 55 0.33
96 107 0.65
97 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (95 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCCATGTC
CAGACATGGTCTTACACTAGCACACATATC
Found at i:33838641 original size:53 final size:52
Alignment explanation
Indices: 33838565--33838773 Score: 226
Period size: 53 Copynumber: 4.0 Consensus size: 52
33838555 TTTTTATGAG
* * * * * *
33838565 AAAAATGTCTTCATTCTTTGAAACCATCCATGGTCATGCATTTGAATGGGAA
1 AAAAATGTATTCATGCATTGAAACCATCCATGCTCATGTATTTGAATGAGAA
* *
33838617 AAAAACTGTTTTCATGCATTGAAACCATCCATTCTCATGTATTTGAATGAGAAA
1 AAAAA-TGTATTCATGCATTGAAACCATCCATGCTCATGTATTTGAATGAG-AA
* *
33838671 AAAAATGTATTCATGCACTGAAACCATCCATGCTTATGTATTTGAATGAGAA
1 AAAAATGTATTCATGCATTGAAACCATCCATGCTCATGTATTTGAATGAGAA
** * * * *
33838723 AAAGGTCTA-T-ATGCATTGAAACCCTCTATGCT-TTAGTATTTGAATGAGAA
1 AAAAATGTATTCATGCATTGAAACCATCCATGCTCAT-GTATTTGAATGAGAA
33838773 A
1 A
33838774 TACATCTCTA
Statistics
Matches: 136, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 35 0.26
51 1 0.01
52 13 0.10
53 79 0.58
54 7 0.05
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (52 bp):
AAAAATGTATTCATGCATTGAAACCATCCATGCTCATGTATTTGAATGAGAA
Done.