Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 346 of 444
Found at i:100310577 original size:51 final size:51
Alignment explanation
Indices: 100310476--100310583 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 51
100310466 CCAAGAATTG
* * * *
100310476 GTTCATATGAAATAACAGTTCTTACCAAATGACAGCTCATGCAAAGTAATA
1 GTTCATATGAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAATA
* * * * *
100310527 GTTCATATGAAATATCAGTTCATATCGAATAACAATTCATTCAAAATAATA
1 GTTCATATGAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAATA
100310578 GTTCAT
1 GTTCAT
100310584 GCTTCATCAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (51 bp):
GTTCATATGAAATAACAGTTCATACCAAATAACAACTCATGCAAAATAATA
Found at i:100314849 original size:18 final size:18
Alignment explanation
Indices: 100314826--100314873 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
100314816 ATAGTTTGGA
*
100314826 AAATTAATATAGCTCACC
1 AAATTAATATAGATCACC
* *
100314844 ATATTAATACAGATCACC
1 AAATTAATATAGATCACC
*
100314862 AAATTAACATAG
1 AAATTAATATAG
100314874 TTTTCCATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.27
Consensus pattern (18 bp):
AAATTAATATAGATCACC
Found at i:100316347 original size:19 final size:20
Alignment explanation
Indices: 100316309--100316347 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
100316299 TCACCATTCT
*
100316309 ATTGTTATTAGGCATTGAATA
1 ATTGTTATTA-GCATGGAATA
100316330 ATTGTTATT-GCATGGAAT
1 ATTGTTATTAGCATGGAAT
100316348 GTGCGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.44
Consensus pattern (20 bp):
ATTGTTATTAGCATGGAATA
Found at i:100316533 original size:48 final size:47
Alignment explanation
Indices: 100316461--100316781 Score: 331
Period size: 48 Copynumber: 6.7 Consensus size: 47
100316451 TTTGTGGGCT
* *
100316461 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCT-AATATATGAGCC
* ** * ** *
100316509 AGTGTAAGATCATGTTTGAAACATGGCATCGGCATTGT-TATGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTAATATAT--GAGCC
* ** *
100316557 AGTGTAAGACCATGTCTATGACATGGCATCGGCCTCAATATGTGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCT-AATATATGAGCC
* * ** *
100316605 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGT-TATGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTAATATAT--GAGCC
* * *
100316653 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTAAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCT-AATATATGAGCC
* *
100316701 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACTGATACATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-CTAATATAT--GAGCC
100316751 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTTTGGGACATGGCATCG
100316782 ACATTTTACC
Statistics
Matches: 221, Mismatches: 41, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
46 5 0.02
47 2 0.01
48 171 0.77
49 4 0.02
50 39 0.18
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTAATATATGAGCC
Found at i:100316622 original size:96 final size:96
Alignment explanation
Indices: 100316458--100316781 Score: 522
Period size: 96 Copynumber: 3.4 Consensus size: 96
100316448 TTATTTGTGG
* * *
100316458 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGTCAGTGTAAGATCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATG
*
100316523 TTTGAAACATGGCATCGGCATTGTTATGAGA
66 TTTGGAACATGGCATCGGCATTGTTATGAGA
**
100316554 GCTAGTGTAAGACCATGTCTATGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATG
100316619 TTTGGAACATGGCATCGGCATTGTTATGAGA
66 TTTGGAACATGGCATCGGCATTGTTATGAGA
*
100316650 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTAAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATG
* * *
100316715 TTTGGGACATGGCATCGGCACTGATACATGAGA
66 TTTGGAACATGGCATCGGCATTG-T-TATGAGA
* *
100316748 GCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
100316782 ACATTTTACC
Statistics
Matches: 212, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
96 173 0.82
97 1 0.00
98 38 0.18
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATG
TTTGGAACATGGCATCGGCATTGTTATGAGA
Found at i:100316724 original size:144 final size:146
Alignment explanation
Indices: 100316461--100316786 Score: 392
Period size: 144 Copynumber: 2.2 Consensus size: 146
100316451 TTTGTGGGCT
* * * * *
100316461 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGTCAGTGTAAGATCATGTTT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAATATATGAGTCAGTGTAAGACCATGTCT
*** * *
100316526 GAAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCATGTCTATGACATGGCATCGGC-
66 GAAACATGGCATCGGCATCAATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
* *
100316590 CTCA-ATATGTGAGCC
131 CTCATACATGAGAGCC
* * *
100316605 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATT-GT-TATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAATATATGAG-TC-AGTGTAAGACCATGT
** * * *
100316668 CTGGGACATGGCATCGGCCTCAATATGTA-AGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
64 CTGAAACATGGCATCGGCATCAATATG-AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
*
100316732 GCACTGATACATGAGAGCC
128 GCACTCATACATGAGAGCC
*
100316751 AGTGTAAGACCATGTTTGGGACATGGCATCGACATT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATT
100316787 TTACCCTTTT
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
142 6 0.04
143 2 0.01
144 99 0.64
145 4 0.03
146 43 0.28
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (146 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAATATATGAGTCAGTGTAAGACCATGTCT
GAAACATGGCATCGGCATCAATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
CTCATACATGAGAGCC
Found at i:100318484 original size:37 final size:36
Alignment explanation
Indices: 100318434--100318520 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
100318424 TGCGAAGTCT
*
100318434 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACATAGTCATCGGGTC
100318470 GTACCCGGACATAATCTCCACACATAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACATAGTCATCGGGTC
100318507 TCACCCGGAACATA
1 T-ACCCGG-ACATA
100318521 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACATAGTCATCGGGTC
Found at i:100318709 original size:51 final size:49
Alignment explanation
Indices: 100318596--100318893 Score: 411
Period size: 49 Copynumber: 5.9 Consensus size: 49
100318586 CACATACATA
100318596 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
* * *
100318645 TCACATTCCTCACATCGGCCATTAGGCCTTATCGCATATATATATACATTT
1 TCACATTCATCACATCGGCCATTAGGCCTTAT--CACATATATATACACTT
*
100318696 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
100318745 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATAT--A---T-ATACACTT
*
100318804 TCACATTCATCACATCTGCCATTAGGCCTTATCAC--ATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
* *
100318851 TCACATTCATCACATTGGCCATTAGGCCTTATCACACATATAT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
100318894 GTATATCATA
Statistics
Matches: 226, Mismatches: 9, Indels: 28
0.86 0.03 0.11
Matches are distributed among these distances:
47 41 0.18
48 1 0.00
49 88 0.39
51 47 0.21
53 6 0.03
55 1 0.00
58 1 0.00
59 41 0.18
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (49 bp):
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
Found at i:100318718 original size:100 final size:101
Alignment explanation
Indices: 100318588--100318893 Score: 449
Period size: 100 Copynumber: 3.0 Consensus size: 101
100318578 CTTTACCACA
*
100318588 CATACA-TATCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
* *
100318652 CCTCACATCGGCCATTAGGCCTTATCGCATATATAT
66 CATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
100318688 -ATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCACATT
1 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
100318752 CATCACATCGGCCATTAGGCCTTATCACATATATATACATTTT
66 CATCACATCGGCCATTAGGCCTTATCAC--ATATAT--A---T
*
100318795 CATACACTTTCACATTCATCACATCTGCCATTAGGCCTTATCAC--ATATATACACTTTCACATT
1 CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
* *
100318858 CATCACATTGGCCATTAGGCCTTATCACACATATAT
66 CATCACATCGGCCATTAGGCCTTATCACATATATAT
100318894 GTATATCATA
Statistics
Matches: 188, Mismatches: 9, Indels: 19
0.87 0.04 0.09
Matches are distributed among these distances:
99 6 0.03
100 82 0.44
102 7 0.04
104 6 0.03
106 45 0.24
107 1 0.01
108 41 0.22
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (101 bp):
CATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATCACATATATAT
Found at i:100318810 original size:108 final size:106
Alignment explanation
Indices: 100318688--100318893 Score: 349
Period size: 106 Copynumber: 1.9 Consensus size: 106
100318678 GCATATATAT
* *
100318688 ATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCACATTC
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTC
*
100318753 ATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTC
64 ATCACATCGGCCATTAGGCCTTATCACACATATATACATTTTC
*
100318796 ATACACTTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
*
100318861 CACATTGGCCATTAGGCCTTATCACACATATAT
66 CACATCGGCCATTAGGCCTTATCACACATATAT
100318894 GTATATCATA
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
106 52 0.56
108 41 0.44
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (106 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
CACATCGGCCATTAGGCCTTATCACACATATATACATTTTC
Found at i:100318839 original size:31 final size:31
Alignment explanation
Indices: 100318745--100318840 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 31
100318735 ATATACATTT
*
100318745 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCTGCCATTAGGCCTTA
* **
100318776 TCACATAT-ATATACAT-TTTCA-TA--CACTT-
1 TCACAT-TCAT-CACATCTGCCATTAGGC-CTTA
100318804 TCACATTCATCACATCTGCCATTAGGCCTTA
1 TCACATTCATCACATCTGCCATTAGGCCTTA
100318835 TCACAT
1 TCACAT
100318841 ATATACACTT
Statistics
Matches: 49, Mismatches: 7, Indels: 18
0.66 0.09 0.24
Matches are distributed among these distances:
27 5 0.10
28 12 0.24
29 5 0.10
30 5 0.10
31 17 0.35
32 5 0.10
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.34
Consensus pattern (31 bp):
TCACATTCATCACATCTGCCATTAGGCCTTA
Found at i:100318849 original size:47 final size:47
Alignment explanation
Indices: 100318796--100318892 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
100318786 ATACATTTTC
*
100318796 ATACACTTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATAT
1 ATACACTTTCACATTCATCACAT-TGGCCATTAGGCCTTATCACACAT
100318843 ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACACAT
1 ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACACAT
100318890 ATA
1 ATA
100318893 TGTATATCAT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 1 0.02
47 47 0.98
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACACAT
Found at i:100324978 original size:39 final size:39
Alignment explanation
Indices: 100324904--100325069 Score: 119
Period size: 39 Copynumber: 4.3 Consensus size: 39
100324894 TTACCAGCAC
* * *
100324904 AAGCCTGCGGGAATTTAAACCCGG-TATAATACCAGCTCG
1 AAGCCTGCGGGACTTT-AGCCCGGATATAATTCCAGCTCG
* *
100324943 AAGCCTGCGGGACTTTAGCCCGGACATATTTCCAGCAT-G
1 AAGCCTGCGGGACTTTAGCCCGGATATAATTCCAGC-TCG
* * * *
100324982 TAGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCAC-
1 AAGCCTGCGGGA-CTTTAGCCCGGATATAATTCCAGCTCG
* * * *
100325020 ATAGCCTGC-GGACCCTAAGTCCGGATATAATTCCAGCAC-
1 A-AGCCTGCGGGA-CTTTAGCCCGGATATAATTCCAGCTCG
100325059 ATAGCCTGCGG
1 A-AGCCTGCGG
100325070 ACCCTAAGTC
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
38 9 0.08
39 97 0.90
40 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATATAATTCCAGCTCG
Found at i:100325011 original size:78 final size:78
Alignment explanation
Indices: 100324924--100325087 Score: 199
Period size: 78 Copynumber: 2.1 Consensus size: 78
100324914 GAATTTAAAC
* * * * **
100324924 CCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCATGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCACATAGC
*
100324986 CTGCGGACCTTAAGT
64 CTGCGGACCCTAAGT
* * *
100325001 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
100325066 GCGGACCCTAAGT
66 GCGGACCCTAAGT
100325079 CCGGATATA
1 CCGGATATA
100325088 CATCACTGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
77 8 0.11
78 66 0.89
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:100325070 original size:39 final size:39
Alignment explanation
Indices: 100324962--100325087 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
100324952 GGACTTTAGC
* * ** *
100324962 CCGGACATATTTCCAGCATGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
100325001 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
100325040 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
100325079 CCGGATATA
1 CCGGATATA
100325088 CATCACTGAA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:100332835 original size:38 final size:40
Alignment explanation
Indices: 100332791--100332983 Score: 159
Period size: 39 Copynumber: 5.0 Consensus size: 40
100332781 TGAAACCAAT
* *
100332791 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGG-TATAA
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* * *
100332829 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* * * *
100332868 TTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATATAA
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* ** *
100332907 TTCCAGCAC-ATAGCCTGC-GGACCCTAAGTCCGGATATAA
1 TACCAGCACGA-AGCCTGCGGGACTTTAAGCCCGGATATAA
* ** *
100332946 TTCCAGCAC-ATAGCCTGC-GGACCCTAAGTCCGGATATA
1 TACCAGCACGA-AGCCTGCGGGACTTTAAGCCCGGATATA
100332984 CATCACTGAA
Statistics
Matches: 137, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 20 0.15
39 117 0.85
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
Found at i:100332906 original size:78 final size:78
Alignment explanation
Indices: 100332820--100332983 Score: 208
Period size: 78 Copynumber: 2.1 Consensus size: 78
100332810 GAATTTAAAC
* * * * *
100332820 CCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCACATAGC
*
100332882 CTGCGGACCTTAAGT
64 CTGCGGACCCTAAGT
* * *
100332897 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
100332962 GCGGACCCTAAGT
66 GCGGACCCTAAGT
100332975 CCGGATATA
1 CCGGATATA
100332984 CATCACTGAA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
77 8 0.11
78 67 0.89
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:100332966 original size:39 final size:39
Alignment explanation
Indices: 100332858--100332983 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
100332848 GGACTTTAGC
* * * *
100332858 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
100332897 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
100332936 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
100332975 CCGGATATA
1 CCGGATATA
100332984 CATCACTGAA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:100347480 original size:13 final size:13
Alignment explanation
Indices: 100347462--100347487 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100347452 ATTTTTCAAG
100347462 TCATTTTCATTTT
1 TCATTTTCATTTT
100347475 TCATTTTCATTTT
1 TCATTTTCATTTT
100347488 GGAGAAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:100351985 original size:30 final size:30
Alignment explanation
Indices: 100351951--100352011 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
100351941 TTCCCGAGCC
100351951 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
100351981 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
100352011 T
1 T
100352012 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:100355635 original size:15 final size:16
Alignment explanation
Indices: 100355606--100355635 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100355596 CAAACATGCC
100355606 TTAACACATTATCAAA
1 TTAACACATTATCAAA
100355622 TTAACACA-TATCAA
1 TTAACACATTATCAA
100355636 CAAAGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:100356817 original size:33 final size:33
Alignment explanation
Indices: 100356736--100356855 Score: 116
Period size: 33 Copynumber: 3.6 Consensus size: 33
100356726 GTACATTACC
* * *
100356736 AATCCAACCAGACACACCAAATGCTCACACA-AGCC
1 AATCCAACCA-ACACACC-AATACTCATA-AGAGCT
** * *
100356771 AATCCCTCAAACACACCGATACTCATAAGAGCT
1 AATCCAACCAACACACCAATACTCATAAGAGCT
* *
100356804 AATCCAACCAACACACCAATACTCATGAGAGTT
1 AATCCAACCAACACACCAATACTCATAAGAGCT
*
100356837 AATTCAACCAACACACCAA
1 AATCCAACCAACACACCAA
100356856 ATGGAGTGTA
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
32 1 0.01
33 55 0.79
34 7 0.10
35 7 0.10
ACGTcount: A:0.43, C:0.35, G:0.07, T:0.14
Consensus pattern (33 bp):
AATCCAACCAACACACCAATACTCATAAGAGCT
Found at i:100364329 original size:27 final size:27
Alignment explanation
Indices: 100364299--100364439 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
100364289 GTGACGAAGT
100364299 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
100364326 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
100364353 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
100364380 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
100364407 CATCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
100364434 CACCAG
1 CACCAG
100364440 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 10 0.10
27 86 0.86
28 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:100364440 original size:54 final size:54
Alignment explanation
Indices: 100364299--100364442 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
100364289 GTGACGAAGT
* *
100364299 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
100364353 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
100364407 CATCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
100364443 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:100364582 original size:75 final size:75
Alignment explanation
Indices: 100364459--100364610 Score: 304
Period size: 75 Copynumber: 2.0 Consensus size: 75
100364449 TCCATAATAT
100364459 AACCCATGTCCCCATGCAACAGATATATAATCATGGCATACATCATACAGAATCAGATCGTCATG
1 AACCCATGTCCCCATGCAACAGATATATAATCATGGCATACATCATACAGAATCAGATCGTCATG
100364524 CTTTTCAGTC
66 CTTTTCAGTC
100364534 AACCCATGTCCCCATGCAACAGATATATAATCATGGCATACATCATACAGAATCAGATCGTCATG
1 AACCCATGTCCCCATGCAACAGATATATAATCATGGCATACATCATACAGAATCAGATCGTCATG
100364599 CTTTTCAGTC
66 CTTTTCAGTC
100364609 AA
1 AA
100364611 AATTAACCCT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (75 bp):
AACCCATGTCCCCATGCAACAGATATATAATCATGGCATACATCATACAGAATCAGATCGTCATG
CTTTTCAGTC
Found at i:100364647 original size:26 final size:27
Alignment explanation
Indices: 100364618--100364682 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
100364608 CAAAATTAAC
*
100364618 CCTAGGGGTATAACGGTAATTTTGC-A
1 CCTAGGGGTATAACGGTAATTTTCCAA
100364644 CCTAGGGGTATAACGGTAATTTTCCATA
1 CCTAGGGGTATAACGGTAATTTTCCA-A
100364672 CCTAGGGGTAT
1 CCTAGGGGTAT
100364683 TATAGTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 24 0.67
28 12 0.33
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (27 bp):
CCTAGGGGTATAACGGTAATTTTCCAA
Found at i:100366165 original size:26 final size:26
Alignment explanation
Indices: 100366134--100366215 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
100366124 TGAAATGCCC
100366134 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
100366160 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
100366186 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
100366212 ATCA
1 ATCA
100366216 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:100368643 original size:22 final size:22
Alignment explanation
Indices: 100368618--100368679 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
100368608 TTTGCTGATG
100368618 TTTTCTTATTATATTGTTGTTA
1 TTTTCTTATTATATTGTTGTTA
* *
100368640 TTTT-TCCA-TAGTTTTGTTGTTA
1 TTTTCT-TATTA-TATTGTTGTTA
100368662 -TTTCATTATTATATTGTT
1 TTTTC-TTATTATATTGTT
100368680 ACTCTTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
21 6 0.19
22 22 0.71
23 3 0.10
ACGTcount: A:0.18, C:0.06, G:0.10, T:0.66
Consensus pattern (22 bp):
TTTTCTTATTATATTGTTGTTA
Found at i:100373564 original size:13 final size:12
Alignment explanation
Indices: 100373544--100373576 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
100373534 ATATTAAAAA
100373544 ATAAATAAATTT
1 ATAAATAAATTT
100373556 ATCAAATAAATTT
1 AT-AAATAAATTT
100373569 ATAAATAA
1 ATAAATAA
100373577 TTAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAAATAAATTT
Found at i:100376397 original size:37 final size:39
Alignment explanation
Indices: 100376337--100376432 Score: 115
Period size: 37 Copynumber: 2.5 Consensus size: 39
100376327 TTCAAAAAAA
* **
100376337 TAAAGTTGACACCCAGTGTCTCATTGGCTA-AACCGAAG
1 TAAAGTTGACACCCAGTGCCTCATTGAATATAACCGAAG
*
100376375 TAAA-TTGACACCCAGTGCCTCATTGAATATATCCGAAG
1 TAAAGTTGACACCCAGTGCCTCATTGAATATAACCGAAG
*
100376413 TAATTATTTGACACCCAGTG
1 TAA--AGTTGACACCCAGTG
100376433 TTTCATCGAC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
37 22 0.44
38 14 0.28
40 1 0.02
41 13 0.26
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (39 bp):
TAAAGTTGACACCCAGTGCCTCATTGAATATAACCGAAG
Found at i:100376590 original size:11 final size:11
Alignment explanation
Indices: 100376574--100376622 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
100376564 ATTTAAATAA
100376574 TCAATATATAT
1 TCAATATATAT
100376585 TCAATATATAT
1 TCAATATATAT
100376596 ATCAAT-TCA-A-
1 -TCAATAT-ATAT
*
100376606 TCAATATAAAT
1 TCAATATATAT
100376617 TCAATA
1 TCAATA
100376623 AATTCATCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.18
10 2 0.06
11 19 0.58
12 6 0.18
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (11 bp):
TCAATATATAT
Found at i:100376595 original size:13 final size:12
Alignment explanation
Indices: 100376573--100376601 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
100376563 AATTTAAATA
100376573 ATCAATATATAT
1 ATCAATATATAT
100376585 -TCAATATATAT
1 ATCAATATATAT
100376596 ATCAAT
1 ATCAAT
100376602 TCAATCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (12 bp):
ATCAATATATAT
Found at i:100376603 original size:17 final size:14
Alignment explanation
Indices: 100376576--100376623 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
100376566 TTAAATAATC
*
100376576 AATATATATTCAAT
1 AATATAAATTCAAT
100376590 ATATATATCAATTCAAT
1 A-ATATA--AATTCAAT
100376607 CAATATAAATTCAAT
1 -AATATAAATTCAAT
100376622 AA
1 AA
100376624 ATTCATCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 3 0.10
15 13 0.45
17 12 0.41
18 1 0.03
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATAAATTCAAT
Found at i:100376644 original size:24 final size:24
Alignment explanation
Indices: 100376599--100376645 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
100376589 TATATATATC
100376599 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
100376623 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
100376646 TCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:100377378 original size:17 final size:18
Alignment explanation
Indices: 100377356--100377390 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
100377346 TGTTTTACTT
100377356 CTATTT-TGTTTCTTTTA
1 CTATTTCTGTTTCTTTTA
*
100377373 CTATTTCTTTTTCTTTTA
1 CTATTTCTGTTTCTTTTA
100377391 TTTAATTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.11, C:0.14, G:0.03, T:0.71
Consensus pattern (18 bp):
CTATTTCTGTTTCTTTTA
Found at i:100377422 original size:15 final size:15
Alignment explanation
Indices: 100377402--100377474 Score: 54
Period size: 15 Copynumber: 5.3 Consensus size: 15
100377392 TTAATTGTTT
100377402 TATTATTAT-ATAATA
1 TATTATTATAAT-ATA
100377417 TATTATTATAATATA
1 TATTATTATAATATA
*
100377432 TA-T-TTA-AATGT-
1 TATTATTATAATATA
*
100377443 TA--AGTA-AATATA
1 TATTATTATAATATA
*
100377455 TTTTATTATAATATA
1 TATTATTATAATATA
100377470 TATTA
1 TATTA
100377475 AATTTTACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
11 8 0.17
12 5 0.11
13 3 0.07
14 4 0.09
15 24 0.52
16 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
TATTATTATAATATA
Found at i:100392807 original size:20 final size:21
Alignment explanation
Indices: 100392767--100392807 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
100392757 ACTTGTATAA
* *
100392767 CTATTATCAAACATTCAAAAT
1 CTATCATCAAACATCCAAAAT
100392788 CTATCATCAAACA-CCAAAAT
1 CTATCATCAAACATCCAAAAT
100392808 ACTCATGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (21 bp):
CTATCATCAAACATCCAAAAT
Found at i:100397089 original size:48 final size:48
Alignment explanation
Indices: 100397036--100397128 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 48
100397026 AAAATAATTA
* *
100397036 TATAAAAATAA-T-ATAAAATGTGTAAAATTATTTAAAAATTATTAAGAT
1 TATAAAAATAATTAAAAAAATAT-TAAAATTA-TTAAAAATTATTAAGAT
*
100397084 TATAAAAATAATTAAAAAAATATTAAATTTATTAAAAATTATTAA
1 TATAAAAATAATTAAAAAAATATTAAAATTATTAAAAATTATTAA
100397129 AAAAAAGTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
48 25 0.62
49 8 0.20
50 7 0.17
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (48 bp):
TATAAAAATAATTAAAAAAATATTAAAATTATTAAAAATTATTAAGAT
Found at i:100397092 original size:29 final size:30
Alignment explanation
Indices: 100397059--100397133 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 30
100397049 TAAAATGTGT
* *
100397059 AAAATTATTTAAAAATTATTAAGA-TTA-TA
1 AAAATTATTAAAAAAATATTAA-ATTTATTA
*
100397088 AAAATAATTAAAAAAATATTAAATTTATTA
1 AAAATTATTAAAAAAATATTAAATTTATTA
100397118 AAAATTATTAAAAAAA
1 AAAATTATTAAAAAAA
100397134 AGTCCCAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 1 0.03
29 22 0.55
30 17 0.43
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (30 bp):
AAAATTATTAAAAAAATATTAAATTTATTA
Found at i:100397132 original size:11 final size:10
Alignment explanation
Indices: 100397059--100397131 Score: 71
Period size: 9 Copynumber: 7.4 Consensus size: 10
100397049 TAAAATGTGT
100397059 AAAATTATTTA
1 AAAATTA-TTA
100397070 AAAATTATT-
1 AAAATTATTA
*
100397079 AAGATTA-TA
1 AAAATTATTA
*
100397088 AAAATAATTAA
1 AAAATTATT-A
*
100397099 AAAAATATT-
1 AAAATTATTA
*
100397108 AAATTTATTA
1 AAAATTATTA
100397118 AAAATTATTA
1 AAAATTATTA
100397128 AAAA
1 AAAA
100397132 AAAGTCCCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
8 1 0.02
9 18 0.36
10 16 0.32
11 15 0.30
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (10 bp):
AAAATTATTA
Found at i:100397561 original size:9 final size:9
Alignment explanation
Indices: 100397549--100397599 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
100397539 GTTTTTTATA
100397549 AATTTTAAT
1 AATTTTAAT
*
100397558 AATTTATTAT
1 AATTT-TAAT
100397568 AATTATTAAT
1 AATT-TTAAT
*
100397578 AATTTAAAT
1 AATTTTAAT
*
100397587 -ATTTTTAT
1 AATTTTAAT
100397595 AATTT
1 AATTT
100397600 ACTTTATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 6 0.18
9 13 0.38
10 14 0.41
11 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
AATTTTAAT
Found at i:100397569 original size:20 final size:20
Alignment explanation
Indices: 100397544--100397624 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
100397534 ACTATGTTTT
100397544 TTATAAATTTTAATAATTTA
1 TTATAAATTTTAATAATTTA
100397564 TTAT-AATTATTAATAATTTA
1 TTATAAATT-TTAATAATTTA
* *
100397584 --A-ATATTTTTATAATTTA
1 TTATAAATTTTAATAATTTA
*
100397601 CTTTATAAATTCTAATAA-TTA
1 --TTATAAATTTTAATAATTTA
100397622 TTA
1 TTA
100397625 AAACTATGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
17 10 0.20
18 4 0.08
19 7 0.14
20 15 0.31
21 4 0.08
22 9 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATAAATTTTAATAATTTA
Found at i:100397737 original size:20 final size:19
Alignment explanation
Indices: 100397712--100397795 Score: 66
Period size: 20 Copynumber: 4.4 Consensus size: 19
100397702 TTTGGACGTG
100397712 AATTTTAATAATTATTAAAT
1 AATTTTAATAATT-TTAAAT
* *
100397732 AATTTT-ATCATTTTTTAAT
1 AATTTTAAT-AATTTTAAAT
** *
100397751 AAACTTAAT-ATTTT-TAT
1 AATTTTAATAATTTTAAAT
100397768 AATTATTAATCAATTTTAAAT
1 AATT-TTAAT-AATTTTAAAT
100397789 AATTTTA
1 AATTTTA
100397796 TATATTTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
17 4 0.08
18 9 0.18
19 11 0.22
20 19 0.39
21 6 0.12
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTTTAATAATTTTAAAT
Found at i:100397829 original size:10 final size:10
Alignment explanation
Indices: 100397756--100397832 Score: 57
Period size: 10 Copynumber: 7.5 Consensus size: 10
100397746 TTAATAAACT
100397756 TAATATTTTTA
1 TAAT-TTTTTA
* *
100397767 TAATTATTAA
1 TAATTTTTTA
**
100397777 TCAATTTTAAA
1 T-AATTTTTTA
*
100397788 TAATTTTATA
1 TAATTTTTTA
*
100397798 T-ATTTTTTG
1 TAATTTTTTA
100397807 TAATTTTTCTA
1 TAATTTTT-TA
*
100397818 TAATTCTTTA
1 TAATTTTTTA
100397828 TAATT
1 TAATT
100397833 ATCTAAACAA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
9 7 0.13
10 27 0.50
11 20 0.37
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:100398963 original size:25 final size:25
Alignment explanation
Indices: 100398901--100398952 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
100398891 AAAAAGTTTA
** *
100398901 AAGTATTAGCTTTCACATTTTAAGG
1 AAGTATTAATTTTCACATTATAAGG
100398926 AAGTATTAATTTTCACATTATAAGG
1 AAGTATTAATTTTCACATTATAAGG
100398951 AA
1 AA
100398953 TTCTAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (25 bp):
AAGTATTAATTTTCACATTATAAGG
Found at i:100399679 original size:21 final size:20
Alignment explanation
Indices: 100399653--100399712 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
100399643 TTTAGATAAT
100399653 TATAAAAATTATAAAAAAACA
1 TATAAAAATTATAAAAAAA-A
* *
100399674 TATAAAAATAATTTAAAAATAA
1 TATAAAAAT--TATAAAAAAAA
*
100399696 T-TAAGAATTATAAAAAA
1 TATAAAAATTATAAAAAA
100399713 TTATTAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 7 0.22
21 15 0.47
22 2 0.06
23 8 0.25
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (20 bp):
TATAAAAATTATAAAAAAAA
Found at i:100399713 original size:20 final size:19
Alignment explanation
Indices: 100399657--100399724 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
100399647 GATAATTATA
100399657 AAAATTATAAAAAA-ACATAT
1 AAAATTATAAAAAATA-AT-T
* *
100399677 AAAAATAATTTAAAAATAATT
1 -AAAATTA-TAAAAAATAATT
*
100399698 AAGAATTATAAAAAATTATT
1 AA-AATTATAAAAAATAATT
100399718 AAAATTA
1 AAAATTA
100399725 AAATTTATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 5 0.13
20 14 0.36
21 11 0.28
22 8 0.21
23 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (19 bp):
AAAATTATAAAAAATAATT
Found at i:100405947 original size:76 final size:76
Alignment explanation
Indices: 100405821--100406049 Score: 422
Period size: 76 Copynumber: 3.0 Consensus size: 76
100405811 GAAAAGACAC
* *
100405821 AAAGGATACCAATTCATAATATTTTTTTAGATGATACAACCAATAGCTTTGTGTCTCTTTTTTAC
1 AAAGGATACGAATTCATAATATTTTTTTAGATGATACAACCAATAGCTTTGTGTCTCTTTTGTAC
100405886 TAGTATTAATT
66 TAGTATTAATT
100405897 AAAGGATACGAATTCATAATATTTTTTTAGATGATACAACCAATAGCTTTGTGTCTCTTTTGTAC
1 AAAGGATACGAATTCATAATATTTTTTTAGATGATACAACCAATAGCTTTGTGTCTCTTTTGTAC
100405962 TAGTATTAATT
66 TAGTATTAATT
* *
100405973 AAAGGATACGAATTCATAATATTTTTTTAGATGATACAACCAATAGCTTCGTTTCTCTTTTGTAC
1 AAAGGATACGAATTCATAATATTTTTTTAGATGATACAACCAATAGCTTTGTGTCTCTTTTGTAC
100406038 TAGTATTAATT
66 TAGTATTAATT
100406049 A
1 A
100406050 GTTCCCAATA
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 149 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (76 bp):
AAAGGATACGAATTCATAATATTTTTTTAGATGATACAACCAATAGCTTTGTGTCTCTTTTGTAC
TAGTATTAATT
Found at i:100407784 original size:77 final size:75
Alignment explanation
Indices: 100407643--100407786 Score: 175
Period size: 77 Copynumber: 1.9 Consensus size: 75
100407633 GGGGATATAT
* * *
100407643 TGATTTGGCTTCAGGCCATGATATAGCACTTCGGGTGCGAGTTATACTGGTTTGGCTTCAGGCCA
1 TGATTTGGCTTCAGGCCATGATATAGCACTTCGGGT-CAAGTTATACTGATTTGGCTACAGGCCA
100407708 TGCATATTGGC
65 TGCATATTGGC
* * *
100407719 TGATTTGGCTTCAGGCCATGATATCAGTACTTCGGAGAT-AAGTTA-CCTTGATTTGGCTACGGG
1 TGATTTGGCTTCAGGCCATGATAT-AGCACTTCGG-G-TCAAGTTATAC-TGATTTGGCTACAGG
100407782 CCATG
62 CCATG
100407787 GTATAGGTAC
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
76 25 0.43
77 31 0.53
78 1 0.02
79 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (75 bp):
TGATTTGGCTTCAGGCCATGATATAGCACTTCGGGTCAAGTTATACTGATTTGGCTACAGGCCAT
GCATATTGGC
Found at i:100408004 original size:14 final size:14
Alignment explanation
Indices: 100407985--100408032 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
100407975 GTTTGTTAAC
*
100407985 TATTGTAAGCTACA
1 TATTGTAAGTTACA
**
100407999 TATTGTTTGTTA-A
1 TATTGTAAGTTACA
100408012 CTATTGTAAGTTACA
1 -TATTGTAAGTTACA
100408027 TATTGT
1 TATTGT
100408033 TGTATTCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (14 bp):
TATTGTAAGTTACA
Found at i:100408007 original size:28 final size:28
Alignment explanation
Indices: 100407975--100408033 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
100407965 AATTTGAAAG
100407975 GTTTGTTAACTATTGTAAGCTACATATT
1 GTTTGTTAACTATTGTAAGCTACATATT
*
100408003 GTTTGTTAACTATTGTAAGTTACATATT
1 GTTTGTTAACTATTGTAAGCTACATATT
100408031 GTT
1 GTT
100408034 GTATTCAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.49
Consensus pattern (28 bp):
GTTTGTTAACTATTGTAAGCTACATATT
Found at i:100412899 original size:12 final size:11
Alignment explanation
Indices: 100412872--100412910 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
100412862 TTAACAATTT
*
100412872 TAATTTTTTTA
1 TAATTTTTTAA
*
100412883 TAATTTATTTCA
1 TAATTT-TTTAA
100412895 TAATTTTTTAA
1 TAATTTTTTAA
100412906 TAATT
1 TAATT
100412911 ATTAAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
TAATTTTTTAA
Found at i:100415572 original size:14 final size:16
Alignment explanation
Indices: 100415555--100415591 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
100415545 ATTTCTTAAA
100415555 ATTAA-ATAAAA-TAT
1 ATTAATATAAAAGTAT
100415569 ATTAAATATAAAAGTAT
1 ATT-AATATAAAAGTAT
100415586 ATTAAT
1 ATTAAT
100415592 TTAGTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.15
15 2 0.10
16 9 0.45
17 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTAATATAAAAGTAT
Found at i:100424478 original size:9 final size:9
Alignment explanation
Indices: 100424464--100424502 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
100424454 ATAAGTATAA
100424464 AATTAACCG
1 AATTAACCG
*
100424473 AATTAACTG
1 AATTAACCG
*
100424482 AATTACCCG
1 AATTAACCG
*
100424491 AATTAACAG
1 AATTAACCG
100424500 AAT
1 AAT
100424503 CAACTTTCTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:100424491 original size:18 final size:18
Alignment explanation
Indices: 100424464--100424502 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
100424454 ATAAGTATAA
*
100424464 AATTAACCGAATTAACTG
1 AATTAACCGAATTAACAG
*
100424482 AATTACCCGAATTAACAG
1 AATTAACCGAATTAACAG
100424500 AAT
1 AAT
100424503 CAACTTTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (18 bp):
AATTAACCGAATTAACAG
Found at i:100425063 original size:37 final size:37
Alignment explanation
Indices: 100425013--100425083 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
100425003 TGATTAAATA
*
100425013 TTGAATCACTACATGATTAAAAA-TATTACATAAGCCT
1 TTGAATCACTACATAATTAAAAACT-TTACATAAGCCT
100425050 TTGAATCACTACATAATTAAAAACTTTACATAAG
1 TTGAATCACTACATAATTAAAAACTTTACATAAG
100425084 TCTTGAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
37 31 0.97
38 1 0.03
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACTTTACATAAGCCT
Found at i:100429080 original size:29 final size:29
Alignment explanation
Indices: 100429048--100429179 Score: 142
Period size: 29 Copynumber: 4.6 Consensus size: 29
100429038 ATAGTGAATC
*
100429048 CGCACACTTAGTGCCATATATTTTCAGCT
1 CGCACACTTAGTGCCATATATTTTCAACT
* *
100429077 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCCATATATTTTCAACT
**
100429106 CGCACACTTAGTG-C-TATATAATCAAACT
1 CGCACACTTAGTGCCATATATTTTC-AACT
** * * *
100429134 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCCATA-TATTTTCAACT
100429164 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
100429180 ATCTTGTCAC
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
27 7 0.08
28 16 0.19
29 41 0.48
30 19 0.22
31 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTTCAACT
Found at i:100429125 original size:58 final size:58
Alignment explanation
Indices: 100429047--100429179 Score: 162
Period size: 58 Copynumber: 2.3 Consensus size: 58
100429037 TATAGTGAAT
* * * * *
100429047 CCGCACACTTAGTGCCATATATTTTC-AGCTCGCACACTTAGTGCTATA-TATTTTCAGC
1 CCGCACACTTAGTGCCATATA--ATCAAACTCGCACACTTAGTGCTATACAATTTTAAAC
* * *
100429105 TCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCCATATAATCAAACTCGCACACTTAGTGCTATACAATTTTAAAC
100429163 CCGCACACTTAGTGCCA
1 CCGCACACTTAGTGCCA
100429180 ATCTTGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
56 2 0.03
57 20 0.32
58 41 0.65
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (58 bp):
CCGCACACTTAGTGCCATATAATCAAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:100432454 original size:23 final size:23
Alignment explanation
Indices: 100432424--100432473 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
100432414 CTATATGGGA
100432424 TTACAAAATGAGTTTTCGTAAAC
1 TTACAAAATGAGTTTTCGTAAAC
100432447 TTACAAAATGAGTTTTCGTAAAC
1 TTACAAAATGAGTTTTCGTAAAC
100432470 TTAC
1 TTAC
100432474 CCTTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (23 bp):
TTACAAAATGAGTTTTCGTAAAC
Found at i:100435326 original size:25 final size:22
Alignment explanation
Indices: 100435278--100435328 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
100435268 ATATGTATGA
*
100435278 AATA-TTAATATATGAATACTT
1 AATATTTAATATATGAATAATT
100435299 AATATTTAAGTATATGATATAATAT
1 AATATTTAA-TATATGA-ATAAT-T
100435324 AATAT
1 AATAT
100435329 GTTATTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 4 0.16
22 4 0.16
23 7 0.28
24 4 0.16
25 6 0.24
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (22 bp):
AATATTTAATATATGAATAATT
Found at i:100441025 original size:30 final size:30
Alignment explanation
Indices: 100440960--100441025 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
100440950 AATTTTAAAA
100440960 TTTTAAAATTTTAATATATATATTTAATAT
1 TTTTAAAATTTTAATATATATATTTAATAT
*
100440990 ATTTAAAATTTTAATATACT-TA-TTATATAT
1 TTTTAAAATTTTAATATA-TATATTTA-ATAT
100441020 TTTTAA
1 TTTTAA
100441026 TAGGTAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 3 0.09
30 28 0.88
31 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTTAAAATTTTAATATATATATTTAATAT
Found at i:100441026 original size:39 final size:38
Alignment explanation
Indices: 100440953--100441027 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
100440943 TATAACTAAT
*
100440953 TTTAAAATTTTAAAATTTTAATATATATATTTAATATA
1 TTTAAAATTTTAAAATCTTAATATATATATTTAATATA
* * *
100440991 TTTAAAATTTTAATATACTTATTATATATTTTTAATA
1 TTTAAAATTTTAAAAT-CTTAATATATATATTTAATA
100441028 GGTAAATGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 15 0.47
39 17 0.53
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (38 bp):
TTTAAAATTTTAAAATCTTAATATATATATTTAATATA
Found at i:100441658 original size:18 final size:18
Alignment explanation
Indices: 100441635--100441670 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
100441625 TTAGGGTCTT
*
100441635 GACATATGTATGACACAG
1 GACATATATATGACACAG
*
100441653 GACATATATATGGCACAG
1 GACATATATATGACACAG
100441671 ATCCCATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (18 bp):
GACATATATATGACACAG
Found at i:100441835 original size:2 final size:2
Alignment explanation
Indices: 100441828--100441856 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
100441818 TACATTATTT
100441828 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100441857 TGATCATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:100442411 original size:27 final size:27
Alignment explanation
Indices: 100442359--100442411 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
100442349 TTAATTTAGT
* *
100442359 TTTAATAAAATCTATATTTCATGTATA
1 TTTAATAAAATCCATAATTCATGTATA
*
100442386 TTTAATTATAATCCATAATTCA-GTAT
1 TTTAA-TAAAATCCATAATTCATGTAT
100442412 TTAAAAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (27 bp):
TTTAATAAAATCCATAATTCATGTATA
Found at i:100442931 original size:18 final size:18
Alignment explanation
Indices: 100442905--100442940 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
100442895 CTTTACACCA
*
100442905 CATTATGGATGAACCACT
1 CATTATGGATAAACCACT
*
100442923 CATTGTGGATAAACCACT
1 CATTATGGATAAACCACT
100442941 AGTAATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (18 bp):
CATTATGGATAAACCACT
Found at i:100443290 original size:34 final size:34
Alignment explanation
Indices: 100443194--100443290 Score: 99
Period size: 34 Copynumber: 2.8 Consensus size: 34
100443184 GTCAAGCCCA
* ** *
100443194 AACAGATCAATACAGTAGCATTTAATTATGTTTTT
1 AACAGATCAATACAATAGCAAATAA-TATGTTTAT
* *
100443229 AACAGAACAATACGATAGC-AATCAATATGTTTAT
1 AACAGATCAATACAATAGCAAAT-AATATGTTTAT
100443263 AACA-ATTCAATACAATAGCAAATAATAT
1 AACAGA-TCAATACAATAGCAAATAATAT
100443291 ACTTTTAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
33 1 0.02
34 29 0.57
35 21 0.41
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (34 bp):
AACAGATCAATACAATAGCAAATAATATGTTTAT
Found at i:100443624 original size:28 final size:28
Alignment explanation
Indices: 100443561--100443632 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
100443551 AATATTTTAA
**
100443561 GTAAAATTGTAAAATTTGTAAAGTAGGG
1 GTAAAATTGTAAAATTTGTAAAACAGGG
* *
100443589 GACAAAATTGTAAAATTT-TAAAAACATGG
1 G-TAAAATTGTAAAATTTGT-AAAACAGGG
100443618 GTAAAATTGTAAAAT
1 GTAAAATTGTAAAAT
100443633 CTAAAAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 15 0.41
29 22 0.59
ACGTcount: A:0.49, C:0.03, G:0.18, T:0.31
Consensus pattern (28 bp):
GTAAAATTGTAAAATTTGTAAAACAGGG
Found at i:100443651 original size:28 final size:28
Alignment explanation
Indices: 100443563--100443671 Score: 101
Period size: 28 Copynumber: 3.8 Consensus size: 28
100443553 TATTTTAAGT
** *
100443563 AAAATTGTAAAATTTGTAAAGTAGGGGAC
1 AAAATTGTAAAATTTAAAAAATAGGGG-C
* * * *
100443592 AAAATTGTAAAATTTTAAAAACATGGGT
1 AAAATTGTAAAATTTAAAAAATAGGGGC
*
100443620 AAAATTGTAAAATCTAAAAAATAGGGGC
1 AAAATTGTAAAATTTAAAAAATAGGGGC
* * *
100443648 AAAACTATAAATTTTGAAAAAATA
1 AAAATTGTAAAATTT-AAAAAATA
100443672 AGGAACACAT
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
28 34 0.53
29 30 0.47
ACGTcount: A:0.52, C:0.05, G:0.16, T:0.28
Consensus pattern (28 bp):
AAAATTGTAAAATTTAAAAAATAGGGGC
Found at i:100443669 original size:57 final size:57
Alignment explanation
Indices: 100443561--100443668 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
100443551 AATATTTTAA
* ** * * *
100443561 GTAAAATTGTAAAATTTGTAAAGTAGGGGACAAAATTGTAAAATTTTAAAAACATGG
1 GTAAAATTGTAAAATCTAAAAAATAGGGGACAAAACTATAAAATTTTAAAAACATGG
100443618 GTAAAATTGTAAAATCTAAAAAATAGGGG-CAAAACTAT-AAATTTTGAAAAA
1 GTAAAATTGTAAAATCTAAAAAATAGGGGACAAAACTATAAAATTTT-AAAAA
100443669 ATAAGGAACA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
55 7 0.16
56 12 0.27
57 25 0.57
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.28
Consensus pattern (57 bp):
GTAAAATTGTAAAATCTAAAAAATAGGGGACAAAACTATAAAATTTTAAAAACATGG
Found at i:100444343 original size:14 final size:14
Alignment explanation
Indices: 100444324--100444350 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
100444314 AAAATAAAAG
100444324 ATAAAGAGAAGAGT
1 ATAAAGAGAAGAGT
100444338 ATAAAGAGAAGAG
1 ATAAAGAGAAGAG
100444351 AGGAAAATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.30, T:0.11
Consensus pattern (14 bp):
ATAAAGAGAAGAGT
Found at i:100445961 original size:2 final size:2
Alignment explanation
Indices: 100445917--100445945 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
100445907 ATGTGTATGT
100445917 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100445946 TCATTTAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:100446080 original size:21 final size:22
Alignment explanation
Indices: 100446040--100446090 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
100446030 TGTATATACG
* *
100446040 TATATTTTATGTACATTATGTA
1 TATATTTTATATACATTATGCA
* *
100446062 TATATTTTA-ATATATTATGCG
1 TATATTTTATATACATTATGCA
100446083 TATATTTT
1 TATATTTT
100446091 GTTTTGTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.57
Consensus pattern (22 bp):
TATATTTTATATACATTATGCA
Found at i:100446703 original size:20 final size:23
Alignment explanation
Indices: 100446669--100446709 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
100446659 TACTAACGTA
100446669 TATATATACTATGTA-ATTTTAT
1 TATATATACTATGTACATTTTAT
100446691 TATAT-TACT-TGTACATTTT
1 TATATATACTATGTACATTTT
100446710 TATATACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (23 bp):
TATATATACTATGTACATTTTAT
Found at i:100446715 original size:21 final size:21
Alignment explanation
Indices: 100446667--100446715 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
100446657 ATTACTAACG
100446667 TATATATATACTATGTAATTT
1 TATATATATACTATGTAATTT
100446688 TAT-TATATTACT-TGTACATTT
1 TATATATA-TACTATGTA-ATTT
100446709 T-TATATA
1 TATATATA
100446716 CCATGCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (21 bp):
TATATATATACTATGTAATTT
Found at i:100458773 original size:43 final size:43
Alignment explanation
Indices: 100458711--100458924 Score: 189
Period size: 43 Copynumber: 5.0 Consensus size: 43
100458701 CTAGAATCAG
* *
100458711 TGAATTCACCAGACCTTAACCCCCTAAGCAGTAGGGTAACAGGT
1 TGAATTGA-CAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGT
* * * *
100458755 TGAATTTATAGATCTTAA-CCCCTAAGCAGTAGGGAAACAGAT
1 TGAATTGACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGT
* * * ** * * * *
100458797 CGGAAGTGA-TGGGCTTCAACCCCCTAAGTAGTAGAGTAACAAGC
1 -TGAATTGACAGATCTT-AACCCCCTAAGCAGTAGGGTAACAGGT
** * **
100458841 CAAATTGACAGACCTTAAGTCCCTAAGCAGTAGGGTAACAGGT
1 TGAATTGACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGT
* *
100458884 TGAATTCACAGATCTTAACCCCCTAAGCAGTAGGGAAACAG
1 TGAATTGACAGATCTTAACCCCCTAAGCAGTAGGGTAACAG
100458925 ATCAAAGGTG
Statistics
Matches: 130, Mismatches: 36, Indels: 9
0.74 0.21 0.05
Matches are distributed among these distances:
42 26 0.20
43 75 0.58
44 29 0.22
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (43 bp):
TGAATTGACAGATCTTAACCCCCTAAGCAGTAGGGTAACAGGT
Found at i:100461025 original size:2 final size:2
Alignment explanation
Indices: 100460972--100461010 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
100460962 ATTTGTATGT
100460972 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100461011 CATTTAGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:100461144 original size:21 final size:22
Alignment explanation
Indices: 100461104--100461154 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
100461094 TGTATATACG
* *
100461104 TATATTTTATGTACATTATGTA
1 TATATTTTATATACATTATGCA
* *
100461126 TATATTTTA-ATATATTATGCG
1 TATATTTTATATACATTATGCA
100461147 TATATTTT
1 TATATTTT
100461155 GTTTTGTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.57
Consensus pattern (22 bp):
TATATTTTATATACATTATGCA
Found at i:100461767 original size:20 final size:23
Alignment explanation
Indices: 100461733--100461773 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
100461723 TACTAACGTA
100461733 TATATATACTATGTA-ATTTTAT
1 TATATATACTATGTACATTTTAT
100461755 TATAT-TACT-TGTACATTTT
1 TATATATACTATGTACATTTT
100461774 TATATACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (23 bp):
TATATATACTATGTACATTTTAT
Found at i:100461779 original size:21 final size:21
Alignment explanation
Indices: 100461731--100461779 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
100461721 ATTACTAACG
100461731 TATATATATACTATGTAATTT
1 TATATATATACTATGTAATTT
100461752 TAT-TATATTACT-TGTACATTT
1 TATATATA-TACTATGTA-ATTT
100461773 T-TATATA
1 TATATATA
100461780 CCATGCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (21 bp):
TATATATATACTATGTAATTT
Found at i:100464138 original size:10 final size:10
Alignment explanation
Indices: 100464123--100464166 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
100464113 CAAGAAACAA
100464123 TAAATTTTTT
1 TAAATTTTTT
*
100464133 TAAATTTTTA
1 TAAATTTTTT
*
100464143 AATAATTTTTT
1 TA-AATTTTTT
100464154 TAAATTCTTTT
1 TAAATT-TTTT
100464165 TA
1 TA
100464167 CAATATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
10 14 0.50
11 14 0.50
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (10 bp):
TAAATTTTTT
Found at i:100464276 original size:22 final size:21
Alignment explanation
Indices: 100464235--100464273 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
100464225 AAATTCTAAC
*
100464235 AAATTTTATATATATTTTTAA
1 AAATTTGATATATATTTTTAA
100464256 AAATTTGAT-TATATTTTT
1 AAATTTGATATATATTTTT
100464274 TTATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (21 bp):
AAATTTGATATATATTTTTAA
Found at i:100475382 original size:28 final size:27
Alignment explanation
Indices: 100475342--100475468 Score: 114
Period size: 28 Copynumber: 4.6 Consensus size: 27
100475332 AAAAATTTTC
* *
100475342 TCGCACACTTAGTGTTCAATAACCGATT
1 TCGCACACTTAGTGCTCAA-AACCAATT
*
100475370 TCGCACACTTAGTGCTCGGAAATCCAATT
1 TCGCACACTTAGTGCTC--AAAACCAATT
* * * *
100475399 T-GCACACTTAATGTTTAAAACCAACT
1 TCGCACACTTAGTGCTCAAAACCAATT
* * *
100475425 T-GCACACTCAGTGCTCAATGACCGATT
1 TCGCACACTTAGTGCTCAA-AACCAATT
100475452 TCGCACACTTAGTGCTC
1 TCGCACACTTAGTGCTC
100475469 GGTATCAAAT
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
26 22 0.28
27 6 0.08
28 42 0.53
29 7 0.09
30 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (27 bp):
TCGCACACTTAGTGCTCAAAACCAATT
Found at i:100487719 original size:43 final size:42
Alignment explanation
Indices: 100487648--100487743 Score: 106
Period size: 43 Copynumber: 2.2 Consensus size: 42
100487638 GTAGTCAAAT
*
100487648 ATCGATGCCATTGTCCCAGACAGCGTCTTACACG-TAATCTCTA
1 ATCGATGCCAGTGTCCCAGACAGCGTCTTACACGAT-ATCTC-A
* * *
100487691 ATCGATGCCAGTGTCCTAGATA-CGGTCTTACATGATATCTCA
1 ATCGATGCCAGTGTCCCAGACAGC-GTCTTACACGATATCTCA
100487733 AGTCGATGCCA
1 A-TCGATGCCA
100487744 ACGTTCCAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
42 3 0.07
43 42 0.91
44 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (42 bp):
ATCGATGCCAGTGTCCCAGACAGCGTCTTACACGATATCTCA
Found at i:100490776 original size:23 final size:23
Alignment explanation
Indices: 100490750--100490799 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
100490740 CAGTCTTTTC
100490750 AAAGAAATTTTTTCTTCCCTTTA
1 AAAGAAATTTTTTCTTCCCTTTA
100490773 AAAGAAATTTTTTCTTCCCTTTA
1 AAAGAAATTTTTTCTTCCCTTTA
100490796 AAAG
1 AAAG
100490800 GATAACCCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (23 bp):
AAAGAAATTTTTTCTTCCCTTTA
Found at i:100491856 original size:18 final size:18
Alignment explanation
Indices: 100491833--100491869 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
100491823 CATGCAAATG
100491833 TATAAAAATAAAAAATAA
1 TATAAAAATAAAAAATAA
*
100491851 TATAAAAATAACAAATAA
1 TATAAAAATAAAAAATAA
100491869 T
1 T
100491870 TTACGAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
TATAAAAATAAAAAATAA
Found at i:100492257 original size:11 final size:12
Alignment explanation
Indices: 100492236--100492344 Score: 50
Period size: 11 Copynumber: 9.0 Consensus size: 12
100492226 ATAAATAGTT
*
100492236 TATAATAAAATGA
1 TATAAT-AAATAA
100492249 TAT-ATAAATAA
1 TATAATAAATAA
100492260 TATAATAAA-AA
1 TATAATAAATAA
*
100492271 -AAAATAATATAA
1 TATAATAA-ATAA
*
100492283 TATGTAATAATTTACA
1 TA--TAATAA-ATA-A
* *
100492299 TATAA-ATATAG
1 TATAATAAATAA
*
100492310 TAAAATAAATAA
1 TATAATAAATAA
100492322 TAT-ATAAAGT-A
1 TATAATAAA-TAA
*
100492333 TTTAATAAATAA
1 TATAATAAATAA
100492345 ATTATGCAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
10 6 0.08
11 24 0.33
12 24 0.33
13 5 0.07
14 3 0.04
15 8 0.11
16 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (12 bp):
TATAATAAATAA
Found at i:100493571 original size:15 final size:16
Alignment explanation
Indices: 100493551--100493580 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100493541 TGTAAAGGAC
100493551 TTTTTA-TTATTTTTG
1 TTTTTATTTATTTTTG
100493566 TTTTTATTTATTTTT
1 TTTTTATTTATTTTT
100493581 CTGTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTTATTTATTTTTG
Found at i:100493577 original size:19 final size:18
Alignment explanation
Indices: 100493551--100493588 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
100493541 TGTAAAGGAC
100493551 TTTTTA-TTA-TTTT-TG
1 TTTTTATTTATTTTTCTG
100493566 TTTTTATTTATTTTTCTG
1 TTTTTATTTATTTTTCTG
100493584 TTTTT
1 TTTTT
100493589 TTCTTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 3 0.15
17 4 0.20
18 7 0.35
ACGTcount: A:0.11, C:0.03, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTTATTTATTTTTCTG
Found at i:100493978 original size:44 final size:44
Alignment explanation
Indices: 100493919--100494584 Score: 911
Period size: 44 Copynumber: 15.1 Consensus size: 44
100493909 CAAATGTCTG
* * **
100493919 ATCTGCTATCTTCGATCTGCTCTTTGTCAATACAGAGACATCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * *
100493963 ATCTGCTATCCTCGATCTGCTCTCTATCAATACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * *
100494007 ATCTGCTATAC-TCGATCTGTTTTCTGTCAATACAGAGATGCCAA
1 ATCTGTTAT-CTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
100494051 ATCTGCTATCCTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
100494095 ATCTGTCATCTTTGATCTGCTCTCTGTCAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
100494139 ATCTGTTATCTTCGATCTGCTCTCTGACAATATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
100494183 ATCTGTTATCTTCGATCTGTTCTCTGACAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
*
100494227 ATCTGTTATCTTCGATCTGCTCTCTGTTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
100494271 ATCTGTTATCTTCGAGCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
100494315 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAAATACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
100494359 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
100494403 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * *
100494447 ATCTGTTATCTTCAATCTGCTCTCTGACAATACAAAGACGTCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* ***
100494491 ATCTGTTATCTTCAATCTGCTCTCTAAAAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * * * *
100494535 ATCAGCTATCTTTGATCTGCTCTTTGTCAATACAGAGATGCCAG
1 ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
100494579 ATCTGT
1 ATCTGT
100494585 CACCAGTGAT
Statistics
Matches: 560, Mismatches: 60, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
43 1 0.00
44 558 1.00
45 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
Found at i:100495485 original size:13 final size:13
Alignment explanation
Indices: 100495467--100495493 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100495457 TGGCCTCTCC
100495467 ATTTTTATTTTTT
1 ATTTTTATTTTTT
100495480 ATTTTTATTTTTT
1 ATTTTTATTTTTT
100495493 A
1 A
100495494 GAAGTCTCAA
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:100506227 original size:18 final size:18
Alignment explanation
Indices: 100506204--100506240 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
100506194 CATGCAAATG
100506204 TATAAAAACAAAAAATAA
1 TATAAAAACAAAAAATAA
* *
100506222 TATAAAAATAACAAATAA
1 TATAAAAACAAAAAATAA
100506240 T
1 T
100506241 TTACGAGATA
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:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (18 bp):
TATAAAAACAAAAAATAA
Found at i:100506637 original size:12 final size:12
Alignment explanation
Indices: 100506606--100506717 Score: 61
Period size: 12 Copynumber: 9.0 Consensus size: 12
100506596 ATAAATAGTT
*
100506606 TATAATAAAATGA
1 TATAAT-AAATAA
100506619 TAT-ATAAATAA
1 TATAATAAATAA
100506630 TATAATAAATAA
1 TATAATAAATAA
*
100506642 TAAAAATAATATAA
1 T-ATAATAA-ATAA
*
100506656 TATGTAATAATTTACA
1 TA--TAATAA-ATA-A
* *
100506672 TATAA-ATATAG
1 TATAATAAATAA
*
100506683 TAAAATAAATAA
1 TATAATAAATAA
100506695 TAT-ATAAAGT-A
1 TATAATAAA-TAA
*
100506706 TTTAATAAATAA
1 TATAATAAATAA
100506718 ATTATGCGAA
Statistics
Matches: 77, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
11 21 0.27
12 26 0.34
13 11 0.14
14 8 0.10
15 8 0.10
16 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (12 bp):
TATAATAAATAA
Found at i:100506648 original size:21 final size:23
Alignment explanation
Indices: 100506606--100506657 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
100506596 ATAAATAGTT
*
100506606 TATAATAAAATGATATATAAATAA
1 TATAAT-AAATGATATAAAAATAA
100506630 TATAATAAAT-A-ATAAAAATAA
1 TATAATAAATGATATAAAAATAA
100506651 TATAATA
1 TATAATA
100506658 TGTAATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 16 0.59
22 1 0.04
23 4 0.15
24 6 0.22
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TATAATAAATGATATAAAAATAA
Found at i:100507922 original size:15 final size:16
Alignment explanation
Indices: 100507902--100507931 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100507892 TGTAAAGGAC
100507902 TTTTTA-TTATTTTTG
1 TTTTTATTTATTTTTG
100507917 TTTTTATTTATTTTT
1 TTTTTATTTATTTTT
100507932 CTGTTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTTATTTATTTTTG
Found at i:100507928 original size:19 final size:18
Alignment explanation
Indices: 100507902--100507939 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
100507892 TGTAAAGGAC
100507902 TTTTTA-TTA-TTTT-TG
1 TTTTTATTTATTTTTCTG
100507917 TTTTTATTTATTTTTCTG
1 TTTTTATTTATTTTTCTG
100507935 TTTTT
1 TTTTT
100507940 TCTTTTTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 3 0.15
17 4 0.20
18 7 0.35
ACGTcount: A:0.11, C:0.03, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTTATTTATTTTTCTG
Found at i:100511298 original size:43 final size:43
Alignment explanation
Indices: 100511219--100511335 Score: 114
Period size: 43 Copynumber: 2.7 Consensus size: 43
100511209 TAAGCTCGTA
* * **
100511219 CAATGCCAATGTCCCAGAC-GTGGTCTTATATGTAATCAA-ATAT
1 CAATGCCATTGTCCCAGACAG-GGTCTTACACATAATCAATA-AT
**
100511262 CAATGCCATTGTCCCAGACAGGGTCTTACACATAATCTCTAAT
1 CAATGCCATTGTCCCAGACAGGGTCTTACACATAATCAATAAT
* *
100511305 CGATGCCAGTT-TCCCAGACACGGTCTTACAC
1 CAATGCCA-TTGTCCCAGACAGGGTCTTACAC
100511336 GATATCTCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 59 0.94
44 4 0.06
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
CAATGCCATTGTCCCAGACAGGGTCTTACACATAATCAATAAT
Found at i:100511343 original size:43 final size:42
Alignment explanation
Indices: 100511264--100511384 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 42
100511254 TCAAATATCA
*
100511264 ATGCCATTGTCCCAGACAGGGTCTTACAC-ATAATCTCTAA-TCG
1 ATGCCATT-TCCCAGACACGGTCTTACACGAT-ATCTC-AAGTCG
100511307 ATGCCAGTTTCCCAGACACGGTCTTACACGATATCTCAAGTCG
1 ATGCCA-TTTCCCAGACACGGTCTTACACGATATCTCAAGTCG
* ** *
100511350 ATGCCAATATCCCAGACGTGGTCTGACACGATATC
1 ATGCC-ATTTCCCAGACACGGTCTTACACGATATC
100511385 ACATATCGGA
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
42 2 0.03
43 62 0.90
44 5 0.07
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCATTTCCCAGACACGGTCTTACACGATATCTCAAGTCG
Found at i:100512001 original size:15 final size:15
Alignment explanation
Indices: 100511978--100512017 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
100511968 ATTCAAATAA
* *
100511978 AAAATATATTAACCC
1 AAAACATATCAACCC
100511993 AAAACATATCAACCC
1 AAAACATATCAACCC
100512008 AAAACATATC
1 AAAACATATC
100512018 TTTCATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAACATATCAACCC
Found at i:100514180 original size:24 final size:24
Alignment explanation
Indices: 100514152--100514200 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
100514142 TTTTAAGGAA
*
100514152 TTATTTTTGATACTAATAAATAAG
1 TTATTTTTAATACTAATAAATAAG
*
100514176 TTATTTTTAATTCTAATAAATAAG
1 TTATTTTTAATACTAATAAATAAG
100514200 T
1 T
100514201 CAAAAGCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (24 bp):
TTATTTTTAATACTAATAAATAAG
Found at i:100514668 original size:47 final size:47
Alignment explanation
Indices: 100514596--100514689 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
100514586 CACTCAAAAG
* * * * * * *
100514596 AAGACAATAAGCAAGCTTACGAAATCTATTGTGCATAATTTTAATCT
1 AAGACAAGAAACAAGCTAACAAAATCTATTATGCATAAATTCAATCT
100514643 AAGACAAGAAACAAGCTAACAAAATCTATTATGCATAAATTCAATCT
1 AAGACAAGAAACAAGCTAACAAAATCTATTATGCATAAATTCAATCT
100514690 TTACATTGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.28
Consensus pattern (47 bp):
AAGACAAGAAACAAGCTAACAAAATCTATTATGCATAAATTCAATCT
Found at i:100518048 original size:29 final size:30
Alignment explanation
Indices: 100517990--100518056 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
100517980 ATGTATAGCA
100517990 AGAAACTCAATTTCTAAAAAGAATTTTTGT
1 AGAAACTCAATTTCTAAAAAGAATTTTTGT
100518020 AGAAACTCAATTTCTAAAAAGAA-TTTTGT
1 AGAAACTCAATTTCTAAAAAGAATTTTTGT
*
100518049 AGTAACTC
1 AGAAACTC
100518057 TATGTAGATC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 13 0.36
30 23 0.64
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (30 bp):
AGAAACTCAATTTCTAAAAAGAATTTTTGT
Found at i:100521225 original size:80 final size:80
Alignment explanation
Indices: 100521141--100521289 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
100521131 TATGGTAACC
* * * *
100521141 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
100521205 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
100521221 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
100521286 CCGG
66 CCGG
100521290 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:100521231 original size:40 final size:38
Alignment explanation
Indices: 100521182--100521289 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
100521172 ATCACGATTT
*
100521182 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
100521222 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
100521262 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
100521290 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:100529243 original size:80 final size:80
Alignment explanation
Indices: 100529159--100529307 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
100529149 TATGGTAACC
* * * *
100529159 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
100529223 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
100529239 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
100529304 CCGG
66 CCGG
100529308 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:100529249 original size:40 final size:38
Alignment explanation
Indices: 100529200--100529307 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
100529190 ATCACGATTT
*
100529200 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
100529240 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
100529280 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
100529308 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:100534705 original size:30 final size:30
Alignment explanation
Indices: 100534669--100534736 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
100534659 ATGTATAGCA
100534669 AGAAACTCAATTTCTAAAAAGAATTTTTGT
1 AGAAACTCAATTTCTAAAAAGAATTTTTGT
100534699 AGAAACTCAATTTCTAAAAAGAATTTTTGT
1 AGAAACTCAATTTCTAAAAAGAATTTTTGT
*
100534729 AGTAACTC
1 AGAAACTC
100534737 TATGTAGATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (30 bp):
AGAAACTCAATTTCTAAAAAGAATTTTTGT
Found at i:100537902 original size:80 final size:80
Alignment explanation
Indices: 100537818--100537966 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
100537808 TATGGTAACC
* * * *
100537818 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
100537882 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
100537898 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
100537963 CCGG
66 CCGG
100537967 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:100537908 original size:40 final size:38
Alignment explanation
Indices: 100537859--100537966 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
100537849 ATCACGATTT
*
100537859 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
100537899 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
100537939 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
100537967 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:100545921 original size:80 final size:80
Alignment explanation
Indices: 100545837--100545985 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
100545827 TATGGTAACC
* * * *
100545837 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
100545901 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
100545917 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
100545982 CCGG
66 CCGG
100545986 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:100545927 original size:40 final size:38
Alignment explanation
Indices: 100545878--100545985 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
100545868 ATCACGATTT
*
100545878 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
100545918 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
100545958 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
100545986 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:100547836 original size:5 final size:5
Alignment explanation
Indices: 100547826--100547850 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
100547816 TGGCTCATTT
100547826 CTGTC CTGTC CTGTC CTGTC CTGTC
1 CTGTC CTGTC CTGTC CTGTC CTGTC
100547851 AACCCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTC
Found at i:100553479 original size:30 final size:30
Alignment explanation
Indices: 100553433--100553490 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
100553423 TAAGCACTTC
* * *
100553433 CACAAGGGTAATCCACACGTCCGTGTGTGA
1 CACAAGGGTAAGCCACACGCCCATGTGTGA
*
100553463 CACACGGGTAAGCCACACGCCCATGTGT
1 CACAAGGGTAAGCCACACGCCCATGTGT
100553491 CATGGCTGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (30 bp):
CACAAGGGTAAGCCACACGCCCATGTGTGA
Found at i:100557498 original size:43 final size:42
Alignment explanation
Indices: 100557450--100557576 Score: 148
Period size: 43 Copynumber: 3.0 Consensus size: 42
100557440 AAAATTGATT
*
100557450 TTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGACC
1 TTTAGCGACGCTTTTTCCACAAACGCCGCTAAA-ATCATGACC
* **
100557493 TTTAGCGACGCTTTTTCTACAAACGCCGCTAAAAATCACAACC
1 TTTAGCGACGCTTTTTCCACAAACGCCGCT-AAAATCATGACC
* * *
100557536 TTTAGCAATGC-TTTTCTCAAAAACGCCGCTAAAAGTCATGA
1 TTTAGCGACGCTTTTTC-CACAAACGCCGCTAAAA-TCATGA
100557577 AATTCAAAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 9 0.13
43 59 0.83
44 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (42 bp):
TTTAGCGACGCTTTTTCCACAAACGCCGCTAAAATCATGACC
Found at i:100559669 original size:9 final size:9
Alignment explanation
Indices: 100559655--100559682 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
100559645 ATGGCAATCA
100559655 AGCATCATC
1 AGCATCATC
100559664 AGCATCATC
1 AGCATCATC
100559673 AGCATCATC
1 AGCATCATC
100559682 A
1 A
100559683 TTTTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.32, G:0.11, T:0.21
Consensus pattern (9 bp):
AGCATCATC
Found at i:100561641 original size:9 final size:9
Alignment explanation
Indices: 100561638--100561672 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
100561628 TTTTTTTTTT
*
100561638 TTTTTTATA
1 TTTTTTCTA
100561647 TTTTTTCTA
1 TTTTTTCTA
100561656 TTTTTTCTA
1 TTTTTTCTA
100561665 TTTTTTCT
1 TTTTTTCT
100561673 TTTAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTCTA
Found at i:100561652 original size:18 final size:18
Alignment explanation
Indices: 100561629--100561675 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
100561619 TTGTTTAATT
100561629 TTTTTTTTTTTTTTTATA
1 TTTTTTTTTTTTTTTATA
* * *
100561647 TTTTTTCTATTTTTTCTA
1 TTTTTTTTTTTTTTTATA
100561665 TTTTTTCTTTT
1 TTTTTT-TTTT
100561676 AAATTTTTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTATA
Found at i:100561676 original size:32 final size:29
Alignment explanation
Indices: 100561626--100561684 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 29
100561616 CTATTGTTTA
*
100561626 ATTTTTTTTTTTTTTTTTATATTTTTTCT
1 ATTTTTTTTTTTTTTTTTAAATTTTTTCT
100561655 ATTTTTTCTATTTTTTCTTTTAAATTTTTT
1 ATTTTTT-T-TTTTTT-TTTTAAATTTTTT
100561685 GTGCTGAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.27
30 1 0.04
31 6 0.23
32 12 0.46
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (29 bp):
ATTTTTTTTTTTTTTTTTAAATTTTTTCT
Found at i:100561766 original size:7 final size:7
Alignment explanation
Indices: 100561754--100561781 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
100561744 ATATAGACTA
100561754 AAATATT
1 AAATATT
100561761 AAATATT
1 AAATATT
100561768 AAATATT
1 AAATATT
100561775 AAATATT
1 AAATATT
100561782 TAAGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Found at i:100561802 original size:15 final size:15
Alignment explanation
Indices: 100561784--100561812 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
100561774 TAAATATTTA
100561784 AGTTTTTTATTTTTT
1 AGTTTTTTATTTTTT
100561799 AGTTTTTTATTTTT
1 AGTTTTTTATTTTT
100561813 AAATTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (15 bp):
AGTTTTTTATTTTTT
Done.