Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 458 of 770
Found at i:141216645 original size:39 final size:40
Alignment explanation
Indices: 141216550--141216750 Score: 229
Period size: 39 Copynumber: 5.1 Consensus size: 40
141216540 TCGAATGATG
* *
141216550 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
141216589 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
141216628 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
141216668 TCCGGG-TAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
141216706 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
141216746 TCCGG
1 TCCGG
141216751 TTAAACTCCG
Statistics
Matches: 141, Mismatches: 12, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
38 35 0.25
39 58 0.41
40 48 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:141216695 original size:77 final size:80
Alignment explanation
Indices: 141216550--141216729 Score: 228
Period size: 77 Copynumber: 2.3 Consensus size: 80
141216540 TCGAATGATG
* * *
141216550 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGATAAATCCGGACTAAGACCCGAAGGCATTT
141216614 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * *
141216628 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGG-GTAAG-CCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGA-TAAATCCGGACTAAGACCCGAAGGCAT
141216689 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
141216706 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
141216730 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
77 34 0.38
78 30 0.34
79 25 0.28
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGATAAATCCGGACTAAGACCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:141224891 original size:76 final size:80
Alignment explanation
Indices: 141224750--141224928 Score: 251
Period size: 76 Copynumber: 2.3 Consensus size: 80
141224740 TCGAATGATG
* *
141224750 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGT-CCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
141224815 GTGCGAGTTACTA-AA
65 GTGCGAGTTACTATAA
* * **
141224830 TCCGGGCTAAG-CCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
141224892 TGCGAGTTACTATAA
66 TGCGAGTTACTATAA
*
141224907 -CCGGGCTATGTCCGAAGGCATT
1 TCCGGGCTAAGTCCGAAGGCATT
141224929 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
76 35 0.39
77 30 0.33
78 14 0.16
80 11 0.12
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATAA
Found at i:141224944 original size:39 final size:39
Alignment explanation
Indices: 141224750--141224930 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 39
141224740 TCGAATGATG
* * *
141224750 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
141224790 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
141224830 TCCGGGCTAAG-CCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
141224867 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AA
*
141224907 -CCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
141224931 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
37 27 0.21
38 18 0.14
39 37 0.29
40 38 0.30
41 8 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:141233772 original size:40 final size:40
Alignment explanation
Indices: 141233727--141233893 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
141233717 CGGAATATAA
141233727 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
141233767 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
141233807 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
141233847 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
141233886 CCGGATAT
1 CCGGATAT
141233894 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:141233877 original size:80 final size:79
Alignment explanation
Indices: 141233743--141233893 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
141233733 ATAATCACGT
*
141233743 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
141233808 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
141233823 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
141233886 CCGGATAT
64 CCGGATAT
141233894 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:141235149 original size:56 final size:54
Alignment explanation
Indices: 141235086--141235195 Score: 134
Period size: 56 Copynumber: 2.0 Consensus size: 54
141235076 TCCCCTTTTC
141235086 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTTCTTTTCTTT
*** *
141235142 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTCTTTTCTTT
141235196 TTTTTTTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
54 14 0.29
56 30 0.62
57 4 0.08
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (54 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTCTTTTCTTT
Found at i:141239344 original size:45 final size:45
Alignment explanation
Indices: 141239288--141239375 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
141239278 GAATTATGTA
*
141239288 ATCTAAACTCATTGAATTGTGGTCTGAGTTCGTGATATATGTGAC
1 ATCTAAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGAC
* *
141239333 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTG
1 ATCTAAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTG
141239376 TCACATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (45 bp):
ATCTAAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGAC
Found at i:141240362 original size:27 final size:26
Alignment explanation
Indices: 141240328--141240400 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
141240318 CCCCTAGTTG
*
141240328 TAAAATTACCAAAGTACCCTCGGTTTA
1 TAAAATTACCAAA-TACCCTCGATTTA
* * *
141240355 TAAAATTACCCAAATATCCTTGATTTG
1 TAAAATTA-CCAAATACCCTCGATTTA
141240382 TAAAATTACCGAAATACCC
1 TAAAATTACC-AAATACCC
141240401 CTGTAGGGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 32 0.82
28 5 0.13
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (26 bp):
TAAAATTACCAAATACCCTCGATTTA
Found at i:141240415 original size:27 final size:27
Alignment explanation
Indices: 141240385--141240604 Score: 336
Period size: 27 Copynumber: 8.2 Consensus size: 27
141240375 TGATTTGTAA
141240385 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
141240412 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
141240439 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
141240466 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
141240493 AATTATCAAAATACCCCTGTA-GGTAT
1 AATTACCGAAATACCCCTGTAGGGTAG
*
141240519 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
141240546 AATTACCGAAATACCCTTGTAGGGTAGG
1 AATTACCGAAATACCCCTGTAGGGTA-G
* *
141240574 AA-TACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
141240600 AATTA
1 AATTA
141240605 TCGAGAAACC
Statistics
Matches: 176, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
26 25 0.14
27 148 0.84
28 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:141240557 original size:107 final size:108
Alignment explanation
Indices: 141240393--141240606 Score: 344
Period size: 107 Copynumber: 2.0 Consensus size: 108
141240383 AAAATTACCG
*
141240393 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTG
*
141240458 TAGGGTA-GAATTA-TCGAAATACCCCTGTAGGGTAGAATTATCA
66 TAGGGTAGGAA-TACT-GAAATACCCCTGTAAGGTAGAATTATCA
* * *
141240501 AAATACCCCTGTA-GGTATAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTG
141240565 TAGGGTAGGAATACTGAAATACCCCTGTAAGGTAGAATTATC
66 TAGGGTAGGAATACTGAAATACCCCTGTAAGGTAGAATTATC
141240607 GAGAAACCCT
Statistics
Matches: 99, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
107 82 0.83
108 17 0.17
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (108 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTG
TAGGGTAGGAATACTGAAATACCCCTGTAAGGTAGAATTATCA
Found at i:141240625 original size:54 final size:53
Alignment explanation
Indices: 141240385--141240632 Score: 299
Period size: 54 Copynumber: 4.6 Consensus size: 53
141240375 TGATTTGTAA
* *
141240385 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCC-GTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
141240439 AATTA-CTGAAATACCCCTGTAGGGTAGAATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTATC-GAAATACCCC-GTAGGGTAGAATTACT-GAAATACCCCTGTAGGGTAG
* *
141240493 AATTATCAAAATACCCCTGTA-GGTATAATTACTGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCC-GTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
* * *
141240546 AATTACCGAAATACCCTTGTAGGGTAGGAA-TACTGAAATACCCCTGTAAGGTAG
1 AATTATCGAAATACCC-CGTAGGGTA-GAATTACTGAAATACCCCTGTAGGGTAG
* *
141240600 AATTATCGAGAA-ACCCTCGTGGGGTAAAATTAC
1 AATTATCGA-AATACCC-CGTAGGGTAGAATTAC
141240633 CATTTTACCC
Statistics
Matches: 173, Mismatches: 12, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
53 49 0.28
54 119 0.69
55 5 0.03
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (53 bp):
AATTATCGAAATACCCCGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
Found at i:141240625 original size:134 final size:134
Alignment explanation
Indices: 141240385--141240631 Score: 401
Period size: 134 Copynumber: 1.8 Consensus size: 134
141240375 TGATTTGTAA
141240385 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
* *
141240450 TACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTGTAG
66 TACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGGGTAAAATTATCAAAATACCCCTGTAG
141240515 GTAT
131 GTAT
* *
141240519 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGGAA-TACTGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTA-GAATTACTGAA
*
141240583 ATACCCCTGTAAGGTAGAATTATCGAGAA-A-CCCTCGTGGGGTAAAATTA
65 ATACCCCTGTAAGGTAGAATTATCGA-AATACCCCT-GTAGGGTAAAATTA
141240632 CCATTTTACC
Statistics
Matches: 105, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
133 4 0.04
134 96 0.91
135 5 0.05
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (134 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
TACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGGGTAAAATTATCAAAATACCCCTGTAG
GTAT
Found at i:141241044 original size:6 final size:6
Alignment explanation
Indices: 141241013--141241128 Score: 76
Period size: 6 Copynumber: 18.8 Consensus size: 6
141241003 TTTCATTCAC
* * * *
141241013 ATTCTG ATTTTG ATTTTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
141241062 -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA ATTTTG ATTCTG ATTTTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
141241112 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
141241129 AGTTTTGATA
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
5 5 0.06
6 70 0.82
7 7 0.08
8 3 0.04
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:141241051 original size:31 final size:31
Alignment explanation
Indices: 141241013--141241083 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
141241003 TTTCATTCAC
*
141241013 ATTCTGATTTTGATTTTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
141241044 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
141241075 ATTCTGATT
1 ATTCTGATT
141241084 CTGTCACCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:141241069 original size:25 final size:24
Alignment explanation
Indices: 141241039--141241128 Score: 92
Period size: 25 Copynumber: 3.7 Consensus size: 24
141241029 TGTTACCTGA
*
141241039 TACTGATTCTGATTTTGATTCTGT
1 TACTGATTCTGATTCTGATTCTGT
*
141241063 TACCTGATACTGATTCTGATTCTGT
1 TA-CTGATTCTGATTCTGATTCTGT
* * * *
141241088 CACCTAATTTTGATTCTGATTTTGAT
1 TA-CTGATTCTGATTCTGATTCTG-T
141241114 T-CTGATTCTGATTCT
1 TACTGATTCTGATTCT
141241129 AGTTTTGATA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 14 0.26
25 39 0.72
26 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (24 bp):
TACTGATTCTGATTCTGATTCTGT
Found at i:141241111 original size:12 final size:12
Alignment explanation
Indices: 141241094--141241137 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
141241084 CTGTCACCTA
141241094 ATTTTGATTCTG
1 ATTTTGATTCTG
141241106 ATTTTGATTCTG
1 ATTTTGATTCTG
*
141241118 ATTCTGATTCT-
1 ATTTTGATTCTG
141241129 AGTTTTGAT
1 A-TTTTGAT
141241138 AATGTTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 1 0.03
12 28 0.97
ACGTcount: A:0.18, C:0.09, G:0.16, T:0.57
Consensus pattern (12 bp):
ATTTTGATTCTG
Found at i:141241137 original size:18 final size:18
Alignment explanation
Indices: 141241094--141241137 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
141241084 CTGTCACCTA
*
141241094 ATTTTGATTCTGATTTTG
1 ATTTTGATTCTGATTTAG
*
141241112 ATTCTGATTCTGATTCTAG
1 ATTTTGATTCTGATT-TAG
141241131 -TTTTGAT
1 ATTTTGAT
141241138 AATGTTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.18, C:0.09, G:0.16, T:0.57
Consensus pattern (18 bp):
ATTTTGATTCTGATTTAG
Found at i:141242515 original size:26 final size:26
Alignment explanation
Indices: 141242464--141242515 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
141242454 GCATACAAAA
* * *
141242464 TTGCTTATGCTTTAATATGGTTATGG
1 TTGCTTATGCGTTAATAAGGTGATGG
141242490 TTGCTTATG-GTTAATAAGTGTGATGG
1 TTGCTTATGCGTTAATAAG-GTGATGG
141242516 ATGGCATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.21, C:0.06, G:0.27, T:0.46
Consensus pattern (26 bp):
TTGCTTATGCGTTAATAAGGTGATGG
Found at i:141262061 original size:27 final size:29
Alignment explanation
Indices: 141262031--141262145 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
141262021 ACGCAAGAGC
*
141262031 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
141262058 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
141262087 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* **
141262117 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
141262146 GTACAATTTT
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 44 0.54
30 29 0.36
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:141262098 original size:30 final size:29
Alignment explanation
Indices: 141262043--141262145 Score: 197
Period size: 29 Copynumber: 3.5 Consensus size: 29
141262033 ATAGTGAATC
141262043 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
141262072 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
141262102 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
141262131 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
141262146 GTACAATTTT
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 44 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:141262135 original size:59 final size:60
Alignment explanation
Indices: 141262042--141262175 Score: 216
Period size: 59 Copynumber: 2.2 Consensus size: 60
141262032 TATAGTGAAT
* * *
141262042 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* *
141262101 TCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
141262161 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
141262176 CAATCTTGTC
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 48 0.71
60 20 0.29
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.34
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:141268246 original size:18 final size:18
Alignment explanation
Indices: 141268209--141268243 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
141268199 TTATTTTGAG
*
141268209 ATAATATTGATAGGGATT
1 ATAATATTGATAGGAATT
141268227 ATAA-ATTGATAGGAATT
1 ATAATATTGATAGGAATT
141268244 TATTTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (18 bp):
ATAATATTGATAGGAATT
Found at i:141272508 original size:29 final size:29
Alignment explanation
Indices: 141272476--141272611 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
141272466 ATACCCTTCG
** * *
141272476 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
141272505 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
141272534 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
141272563 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
141272592 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
141272612 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:141272603 original size:58 final size:58
Alignment explanation
Indices: 141272451--141272610 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
141272441 AATTTAAGCC
* *** * * ** * *
141272451 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
141272509 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
141272567 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
141272611 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:141273444 original size:143 final size:141
Alignment explanation
Indices: 141273254--141273548 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
141273244 AAATTCTATA
141273254 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
141273319 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
141273384 GAAGACAACAT
131 GAAAACAACAT
141273395 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
141273460 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
141273525 AGGAAAACAACAT
129 AGGAAAACAACAT
141273538 GCATGGCCGAA
1 GCATGGCCGAA
141273549 ATTTAACTCA
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 19 0.13
143 132 0.87
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:141280489 original size:28 final size:28
Alignment explanation
Indices: 141280429--141280558 Score: 152
Period size: 28 Copynumber: 4.6 Consensus size: 28
141280419 CCTTCGAGCT
** * *
141280429 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATA-TTTTCCAGCA
* * *
141280458 TGCACACATAGTGTCATATTTTCCAGCA
1 CGCACACTTAGTGCCATATTTTCCAGCA
* *
141280486 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
*
141280515 CGCACACTTAGTGCCATATATTCCAGCA
1 CGCACACTTAGTGCCATATTTTCCAGCA
141280543 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
141280559 ATCTCGTCAC
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
28 49 0.56
29 39 0.44
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:141280510 original size:57 final size:57
Alignment explanation
Indices: 141280400--141280557 Score: 172
Period size: 57 Copynumber: 2.8 Consensus size: 57
141280390 AATTTAAGCC
* ** * * ** * *
141280400 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATA-TATTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
141280458 TGCACACATAGTGTCATATTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
141280515 CGCACACTTAGTGCCATATATTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTCCAGCACGCACACTTAGTGCC
141280558 AATCTCGTCA
Statistics
Matches: 82, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
57 67 0.82
58 15 0.18
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.27
Consensus pattern (57 bp):
CGCACACATAGTGCCATATATTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:141286439 original size:15 final size:15
Alignment explanation
Indices: 141286419--141286448 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
141286409 CAACACTTGT
141286419 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
141286434 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
141286449 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:141286923 original size:19 final size:19
Alignment explanation
Indices: 141286899--141286944 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
141286889 GGGTTGTTGG
141286899 AGCAATCGGATTCGGAGCT
1 AGCAATCGGATTCGGAGCT
141286918 AGCAATCGGATTCGGAGCT
1 AGCAATCGGATTCGGAGCT
*
141286937 AGCTATCG
1 AGCAATCG
141286945 ATTTTGGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (19 bp):
AGCAATCGGATTCGGAGCT
Found at i:141290272 original size:39 final size:39
Alignment explanation
Indices: 141290227--141290308 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
141290217 ATTCAAGACA
141290227 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
141290266 CTGGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
141290305 CTGG
1 CTGG
141290309 TAATATAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.26
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:141309940 original size:21 final size:20
Alignment explanation
Indices: 141309912--141309951 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
141309902 CTAACCAACT
141309912 AATAAATAATAATGATAATG
1 AATAAATAATAATGATAATG
*
141309932 AATAGAATAATAATGCTAAT
1 AATA-AATAATAATGATAAT
141309952 ATTAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (20 bp):
AATAAATAATAATGATAATG
Found at i:141312046 original size:10 final size:10
Alignment explanation
Indices: 141312031--141312058 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
141312021 CCTTTAAAAA
141312031 TTTGGCATAC
1 TTTGGCATAC
141312041 TTTGGCATAC
1 TTTGGCATAC
141312051 TTTGGCAT
1 TTTGGCAT
141312059 CTACGAAAGG
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:0.18, G:0.21, T:0.43
Consensus pattern (10 bp):
TTTGGCATAC
Found at i:141314557 original size:20 final size:20
Alignment explanation
Indices: 141314523--141314572 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
141314513 AGGGACTAAA
* * *
141314523 ATGAAAAGTTGTAAAGTTTG
1 ATGAAAAATTCTAAAATTTG
*
141314543 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
141314563 ATGAATAAAT
1 ATGAA-AAAT
141314573 CTGCTGGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:141315928 original size:28 final size:28
Alignment explanation
Indices: 141315882--141315950 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
141315872 TTTAAAACCC
* *
141315882 TAGGGGT-ATATCGGTAATTTTTCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
141315909 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
141315937 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
141315951 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:141323224 original size:71 final size:71
Alignment explanation
Indices: 141323140--141323303 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
141323130 CGATTTGTCT
141323140 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
141323205 CTTTCA
66 CTTTCA
141323211 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
141323276 CTTTCA
66 CTTTCA
141323282 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
141323304 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:141323341 original size:71 final size:70
Alignment explanation
Indices: 141323140--141323337 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
141323130 CGATTTGTCT
* * * *
141323140 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
141323205 CTTTCA
65 CTTTCA
* * * *
141323211 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
141323276 CTTTCA
65 CTTTCA
* *
141323282 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
141323338 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:141330784 original size:71 final size:71
Alignment explanation
Indices: 141330700--141330863 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
141330690 CGATTTGTCT
141330700 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
141330765 CTTTCA
66 CTTTCA
141330771 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
141330836 CTTTCA
66 CTTTCA
141330842 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
141330864 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:141330901 original size:71 final size:70
Alignment explanation
Indices: 141330700--141330897 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
141330690 CGATTTGTCT
* * * *
141330700 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
141330765 CTTTCA
65 CTTTCA
* * * *
141330771 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
141330836 CTTTCA
65 CTTTCA
* *
141330842 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
141330898 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:141334238 original size:28 final size:28
Alignment explanation
Indices: 141334188--141334256 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
141334178 ATTTAAAACC
* *
141334188 TTAGGGGT-ATATCGGTAATTTTGCTCT
1 TTAGGGGTAATTTCAGTAATTTTGCTCT
141334215 TTAGGGGTAATTTCAGTAATTTTGCTCT
1 TTAGGGGTAATTTCAGTAATTTTGCTCT
141334243 TTAGGGGTAATTTC
1 TTAGGGGTAATTTC
141334257 GTGATCTACG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.45
Consensus pattern (28 bp):
TTAGGGGTAATTTCAGTAATTTTGCTCT
Found at i:141338529 original size:39 final size:40
Alignment explanation
Indices: 141338357--141338533 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
141338347 CCAAGGCCAA
* * * * * *
141338357 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
141338396 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
141338436 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
141338476 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
141338515 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
141338534 CATTCAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 39 0.33
40 77 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:141346377 original size:40 final size:40
Alignment explanation
Indices: 141346318--141346486 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
141346308 CGGGACTTTA
* * *
141346318 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
141346358 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
141346398 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
141346438 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
141346478 CCCGGATAT
1 CCCGGATAT
141346487 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:141349220 original size:40 final size:40
Alignment explanation
Indices: 141349165--141349353 Score: 263
Period size: 40 Copynumber: 4.7 Consensus size: 40
141349155 ATGATAACCA
* * *
141349165 GGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* * *
141349205 GGCTAAGTCCCGAAGGCATTTGTGCGGGTTATTATATCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
141349245 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTACATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
141349285 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
141349325 GGC-AATGTCCCGAAGGCATTCGAGCGAGT
1 GGCTAA-GTCCCGAAGGCATTTGTGCGAGT
141349354 AGCTACATCC
Statistics
Matches: 133, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 2 0.02
40 131 0.98
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:141349376 original size:80 final size:80
Alignment explanation
Indices: 141349165--141349380 Score: 251
Period size: 80 Copynumber: 2.7 Consensus size: 80
141349155 ATGATAACCA
* * * * * * *
141349165 GGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCAATTGAGCGAGTTACTACATCCGGGCTAAATCCCGAAGGCAATTGTGC
* * *
141349230 GGGTTATTATATCTG
66 GAGTTACTATATCCG
* *
141349245 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCAATTGTGC
1 GGCTAAGTCCCGAAGGCAATTGAGCGAGTTACTACATCCGGGCTAAATCCCGAAGGCAATTGTGC
141349310 GAGTTACTATATCCG
66 GAGTTACTATATCCG
*
141349325 GGC-AATGTCCCGAAGGC-ATTCGAGCGAG-TAGCTACATCC-GGTTAAAATCCCGAAGG
1 GGCTAA-GTCCCGAAGGCAATT-GAGCGAGTTA-CTACATCCGGGCT-AAATCCCGAAGG
141349381 TACTTGGCTT
Statistics
Matches: 120, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
79 10 0.08
80 110 0.92
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCAATTGAGCGAGTTACTACATCCGGGCTAAATCCCGAAGGCAATTGTGC
GAGTTACTATATCCG
Found at i:141349378 original size:120 final size:120
Alignment explanation
Indices: 141349165--141349380 Score: 276
Period size: 120 Copynumber: 1.8 Consensus size: 120
141349155 ATGATAACCA
* * * *
141349165 GGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCAATTGCGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGC
* * * * *
141349230 GGGTTATTATATCTGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTACATCCG
66 GAGTTACTACATCTCGGCTAAATCCCGAAGGCAATTGTGCGAGTTACTACATCCG
* *
141349285 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATATCCGGGC-AATGTCCCGAAGGCATTCGAG
1 GGCTAAGTCCCGAAGGCAATTGCGCGAGTGACTATATCCGGGCTAA-GTCCCGAAGGCATTCGAG
*
141349349 CGAG-TAGCTACATC-CGGTTAAAATCCCGAAGG
65 CGAGTTA-CTACATCTCGGCT-AAATCCCGAAGG
141349381 TACTTGGCTT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
119 7 0.09
120 74 0.91
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (120 bp):
GGCTAAGTCCCGAAGGCAATTGCGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGC
GAGTTACTACATCTCGGCTAAATCCCGAAGGCAATTGTGCGAGTTACTACATCCG
Found at i:141353330 original size:29 final size:28
Alignment explanation
Indices: 141353288--141353348 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
141353278 ACATGGCTTG
*
141353288 GAATTGATTCAGGCC-AGATGGGCGATAT
1 GAATTGATTCAGGCCTA-ATGGGCCATAT
*
141353316 GAATGTGATTTAGGCCTAATGGGCCATAT
1 GAAT-TGATTCAGGCCTAATGGGCCATAT
141353345 GAAT
1 GAAT
141353349 AAGATTATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 24 0.83
30 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.28
Consensus pattern (28 bp):
GAATTGATTCAGGCCTAATGGGCCATAT
Found at i:141353372 original size:28 final size:29
Alignment explanation
Indices: 141353305--141353373 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
141353295 TTCAGGCCAG
* **
141353305 ATGGGCGATATGAATGTGATTTAGGCCTA
1 ATGGGCCATATGAATAAGATTTAGGCCTA
*
141353334 ATGGGCCATATGAATAAGA-TTATGCCTA
1 ATGGGCCATATGAATAAGATTTAGGCCTA
* *
141353362 GTGGGCTATATG
1 ATGGGCCATATG
141353374 CATGTATGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 18 0.53
29 16 0.47
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (29 bp):
ATGGGCCATATGAATAAGATTTAGGCCTA
Found at i:141357217 original size:40 final size:39
Alignment explanation
Indices: 141357112--141357328 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 39
141357102 CGGATGATAA
*
141357112 CCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTTACTATAT
*
141357152 CCGGGCTAAGTCCGAAGGCATTTGTGCTAGTTACTATAA
1 CCGGGCTAAGTCCGAAGGCATTTGTGCTAGTTACTATAT
*
141357191 CCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTTACTATAT
141357231 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTTACTATAT
* * *
141357271 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTGCTATAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTTACTATAT
* *
141357311 GC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGT-CCGAAGG
141357329 TACTTGGGTT
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 53 0.32
40 112 0.68
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:141357296 original size:80 final size:80
Alignment explanation
Indices: 141357108--141357328 Score: 349
Period size: 79 Copynumber: 2.8 Consensus size: 80
141357098 TATTCGGATG
141357108 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGT-CCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
141357172 TTTGTGCTAGTTACT
66 TTTGTGCTAGTTACT
141357187 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
141357252 TTTGTGCTAGTTACT
66 TTTGTGCTAGTTACT
* * * * * * *
141357267 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTCCGAGTTGCTATATGC-GGCTAAATCCCGAAGG
1 ATAACCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGG
141357329 TACTTGGGTT
Statistics
Matches: 133, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
79 71 0.53
80 62 0.47
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (80 bp):
ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTTACT
Found at i:141360891 original size:55 final size:55
Alignment explanation
Indices: 141360793--141360916 Score: 140
Period size: 55 Copynumber: 2.3 Consensus size: 55
141360783 CGAGCCTACC
* * * *
141360793 AAAACAACACAGGCATACGACACACCCGTGTGGAAGAATCGTGGGCAAACCTGAT
1 AAAACAACACGGGCATACGACACACCCGCGTGGAACAACCGTGGGCAAACCTGAT
* * * * * *
141360848 AAAACAACACGGGCATTCGACACGCCCGCGTGGAACACCCGTGGTCGAACCTGTT
1 AAAACAACACGGGCATACGACACACCCGCGTGGAACAACCGTGGGCAAACCTGAT
**
141360903 AAATTAACACGGGC
1 AAAACAACACGGGC
141360917 GTGGGGCTTG
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.34, C:0.28, G:0.24, T:0.14
Consensus pattern (55 bp):
AAAACAACACGGGCATACGACACACCCGCGTGGAACAACCGTGGGCAAACCTGAT
Found at i:141366470 original size:44 final size:44
Alignment explanation
Indices: 141366405--141366488 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
141366395 ATTGATACTC
* *
141366405 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGATGGA
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGATGGA
* * *
141366449 AAAGTCCATGTTTATAACATGGCATTTAAGGAGGAATTGA
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGA
141366489 CGATTAAGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGATGGA
Found at i:141366655 original size:10 final size:10
Alignment explanation
Indices: 141366640--141366666 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
141366630 AGACAACAAT
141366640 ACCATGTAAG
1 ACCATGTAAG
141366650 ACCATGTAAG
1 ACCATGTAAG
141366660 ACCATGT
1 ACCATGT
141366667 TTGGAACATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (10 bp):
ACCATGTAAG
Found at i:141366719 original size:47 final size:47
Alignment explanation
Indices: 141366650--141366758 Score: 182
Period size: 47 Copynumber: 2.3 Consensus size: 47
141366640 ACCATGTAAG
*
141366650 ACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGGAT
1 ACCATGTAAGACCATGTTTGGAACATGGAATTTGGTAAGACAAGGAT
* *
141366697 ACCATGTAAGACCATGTTTGGAATATGGAATTTGGTAAGATAAGGAT
1 ACCATGTAAGACCATGTTTGGAACATGGAATTTGGTAAGACAAGGAT
*
141366744 ATCATGTAAGACCAT
1 ACCATGTAAGACCAT
141366759 TCCAAGGCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (47 bp):
ACCATGTAAGACCATGTTTGGAACATGGAATTTGGTAAGACAAGGAT
Found at i:141366866 original size:55 final size:54
Alignment explanation
Indices: 141366738--141366934 Score: 238
Period size: 55 Copynumber: 3.6 Consensus size: 54
141366728 TTGGTAAGAT
* * * *
141366738 AAGGATATCATGTAAGACCAT-TCCAAGGCATGGCATTGATAAGTTTTATAAGGC
1 AAGGATACCATGTAAGACCATGT-CAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
141366792 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGTTGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
141366847 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
*
141366900 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
141366935 ATGGTAAGTT
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
52 4 0.03
53 33 0.27
54 40 0.32
55 43 0.35
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:141366920 original size:53 final size:53
Alignment explanation
Indices: 141366738--141366946 Score: 231
Period size: 53 Copynumber: 3.9 Consensus size: 53
141366728 TTGGTAAGAT
* * * * *
141366738 AAGGATATCATGTAAGACCATTCCAAGGCATGGCATTGATAAGTTTTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG-TTCATAAGGC
* * * * *
141366792 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGTTGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
141366847 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * *
141366900 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCA
141366947 AAAAGGAAAA
Statistics
Matches: 132, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.03
53 45 0.34
54 38 0.29
55 41 0.31
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:141370082 original size:45 final size:45
Alignment explanation
Indices: 141370029--141370116 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
141370019 CATGTGAGCT
* *
141370029 AGTGTAAGACCATCTCTGGGACATGGCATCGGCTTGATATGTGTC
1 AGTGTAAGACCATCTCTGGGACATGGCATCGACTCGATATGTGTC
* *
141370074 AGTGTAAGACCATGTTTGGGACATGGCATCGACTCGATATGTG
1 AGTGTAAGACCATCTCTGGGACATGGCATCGACTCGATATGTG
141370117 ATTAAATGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (45 bp):
AGTGTAAGACCATCTCTGGGACATGGCATCGACTCGATATGTGTC
Found at i:141370148 original size:47 final size:44
Alignment explanation
Indices: 141370031--141370149 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 44
141370021 TGTGAGCTAG
* * * * *
141370031 TGTAAGACCATCTCTGGGACATGGCATCGGCTTGATATGTGTCAG
1 TGTAAGACCATGTC-GGGACATGGCATCGACTCGATATGTGTAAA
*
141370076 TGTAAGACCATGTTTGGGACATGGCATCGACTCGATATGTGATTAAA
1 TGTAAGACCATG-TCGGGACATGGCATCGACTCGATATGTG--TAAA
*
141370123 TGTAAGACCATGTCAGGACATTGGCAT
1 TGTAAGACCATGTCGGGACA-TGGCAT
141370150 TGTATTGTGA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
45 35 0.56
46 7 0.11
47 20 0.32
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (44 bp):
TGTAAGACCATGTCGGGACATGGCATCGACTCGATATGTGTAAA
Found at i:141375953 original size:47 final size:47
Alignment explanation
Indices: 141375883--141376319 Score: 671
Period size: 47 Copynumber: 9.3 Consensus size: 47
141375873 ATGATATACA
* *
141375883 TATATGTGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
141375930 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * *
141375977 CATATGTGTGATACGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
141376024 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
141376071 CATATGTGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
141376118 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
141376165 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
141376212 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
141376259 TATATATGTGATAAGG-CTGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG
*
141376306 TATAAATGTG-TAAG
1 TATATATGTGATAAG
141376320 TCCCGAAGGG
Statistics
Matches: 359, Mismatches: 30, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
46 6 0.02
47 353 0.98
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:141376045 original size:94 final size:94
Alignment explanation
Indices: 141375884--141376319 Score: 766
Period size: 94 Copynumber: 4.6 Consensus size: 94
141375874 TGATATACAT
*
141375884 ATATGTGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
141375949 AATGGCCAATGTGATGAATGTGAAAGTGC
66 AATGGCCGATGTGATGAATGTGAAAGTGC
*
141375978 ATATGTGTGATACGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
141376043 AATGGCCGATGTGATGAATGTGAAAGTGC
66 AATGGCCGATGTGATGAATGTGAAAGTGC
*
141376072 ATATGTGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
141376137 AATGGCCGATGTGATGAATGTGAAAGTGC
66 AATGGCCGATGTGATGAATGTGAAAGTGC
*
141376166 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
141376231 AATGGCCGATGTGATGAATGTGAAAGTGT
66 AATGGCCGATGTGATGAATGTGAAAGTGC
* * * * *
141376260 ATATATGTGATAAGGCTGAGTGGCCAATGTGATGGATGTGAAAGTGTATAAATGTG-TAAG
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
141376320 TCCCGAAGGG
Statistics
Matches: 328, Mismatches: 14, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
93 4 0.01
94 324 0.99
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGC
Found at i:141381143 original size:38 final size:39
Alignment explanation
Indices: 141381093--141381254 Score: 265
Period size: 38 Copynumber: 4.2 Consensus size: 39
141381083 GCGATGATTG
141381093 TTGTGCGAGCTATGATA-CCGGGCTAAGCCCGAAGGCAA
1 TTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAA
141381131 TTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAA
1 TTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAA
141381170 TTGTGCGAGCTATGATA-CCGGGCTAAGCCCGAAGGCAA
1 TTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAA
* * * *
141381208 TTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCAT
1 TTGTGCGAGCTATGATATCCGGGCTAAG-CCCGAAGGCAA
141381248 TTGTGCG
1 TTGTGCG
141381255 GGTTACCATA
Statistics
Matches: 117, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
38 53 0.45
39 47 0.40
40 17 0.15
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAA
Found at i:141381224 original size:77 final size:78
Alignment explanation
Indices: 141381093--141381254 Score: 281
Period size: 77 Copynumber: 2.1 Consensus size: 78
141381083 GCGATGATTG
141381093 TTGTGCGAGCTATGATACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAA
1 TTGTGCGAGCTATGATACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAA
141381158 G-CCCGAAGGCAA
66 GTCCCGAAGGCAA
* * *
141381170 TTGTGCGAGCTATGATACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAA
1 TTGTGCGAGCTATGATACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAA
*
141381235 GTCCCGAAGGCAT
66 GTCCCGAAGGCAA
141381248 TTGTGCG
1 TTGTGCG
141381255 GGTTACCATA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 63 0.79
78 17 0.21
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (78 bp):
TTGTGCGAGCTATGATACCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAA
GTCCCGAAGGCAA
Found at i:141381270 original size:40 final size:39
Alignment explanation
Indices: 141381093--141381284 Score: 253
Period size: 38 Copynumber: 4.9 Consensus size: 39
141381083 GCGATGATTG
141381093 TTGTGCGAGCTATGAT-ACCGGGCTAAGCCCGAAGGCAA
1 TTGTGCGAGCTATGATAACCGGGCTAAGCCCGAAGGCAA
*
141381131 TTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAA
1 TTGTGCGAGCTATGATAACCGGGCTAAGCCCGAAGGCAA
141381170 TTGTGCGAGCTATGAT-ACCGGGCTAAGCCCGAAGGCAA
1 TTGTGCGAGCTATGATAACCGGGCTAAGCCCGAAGGCAA
* * * * *
141381208 TTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCAT
1 TTGTGCGAGCTATGATAACCGGGCTAAG-CCCGAAGGCAA
* * ** *
141381248 TTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TTGTGCGAGCTATGATAACCGGGCTAAG-CCCGAAGG
141381285 TGTTTTGAAC
Statistics
Matches: 137, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
38 51 0.37
39 46 0.34
40 40 0.29
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TTGTGCGAGCTATGATAACCGGGCTAAGCCCGAAGGCAA
Found at i:141388694 original size:39 final size:37
Alignment explanation
Indices: 141388640--141388779 Score: 152
Period size: 39 Copynumber: 3.9 Consensus size: 37
141388630 AAGCCGATTG
141388640 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGA--TA
141388679 TGATATCCGGGCTAAGCCCGAAGGCAATTGT--GATA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGATA
* * *
141388714 TGATA-CC-GG-TAAG-CCGAATGC-ATTGTGC-TTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGATA
* *
141388745 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
141388780 GGTTACCATA
Statistics
Matches: 87, Mismatches: 5, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
30 5 0.06
31 13 0.15
32 6 0.07
33 4 0.05
34 6 0.07
35 7 0.08
36 7 0.08
37 8 0.09
39 31 0.36
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (37 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGATA
Found at i:141393221 original size:20 final size:20
Alignment explanation
Indices: 141393198--141393235 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
141393188 CACATCCAAA
*
141393198 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
141393218 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
141393236 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:141399552 original size:28 final size:28
Alignment explanation
Indices: 141399506--141399574 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
141399496 TTTAAAACCC
*
141399506 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
141399533 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
141399561 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
141399575 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:141401718 original size:26 final size:26
Alignment explanation
Indices: 141401680--141401789 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
141401670 CATGAAATTC
*
141401680 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
141401706 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
141401732 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
* *
141401758 TTATCATTGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
141401784 TTATCA
1 TTATCA
141401790 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:141408487 original size:28 final size:27
Alignment explanation
Indices: 141408455--141408556 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
141408445 ACTTGTAATA
141408455 GGGCTACGGCCCAGATTGATACTGATAT
1 GGGCTA-GGCCCAGATTGATACTGATAT
* *
141408483 GGGCTAGGCCTAGTATACTCTGATACTG-TAAG
1 GGGCTAGGCCCAG---A-T-TGATACTGAT-AT
* *
141408515 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTA-GGCCCAGATTGATACTGATAT
141408543 GGGCTAAGGCCCAG
1 GGGCT-AGGCCCAG
141408557 TTAACTCTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
27 6 0.10
28 25 0.42
29 3 0.05
30 2 0.03
31 2 0.03
32 15 0.25
33 6 0.10
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTGATACTGATAT
Found at i:141414775 original size:43 final size:41
Alignment explanation
Indices: 141414629--141414783 Score: 127
Period size: 43 Copynumber: 3.6 Consensus size: 41
141414619 ATATCGTACA
* *
141414629 ATGCCAACGTCGCAGACGTGGTCTTACAT-GTAATCACATGTCG
1 ATGCCAACGTC-CAGACATGGTCTTAC-TCG-AATCACATATCG
* *
141414672 ATGCC-ACTGTTCCAGACAGGGTCTTACACGAATCACA-ATTACG
1 ATGCCAAC-G-TCCAGACATGGTCTTACTCGAATCACATA-T-CG
* * *
141414715 ATGCCGATGTCCCAGACATGGTCTCACTCGAAATCACATATCG
1 ATGCCAACGT-CCAGACATGGTCTTACTCG-AATCACATATCG
*
141414758 ATGCCAACGTCCAAGACATGATCTTA
1 ATGCCAACGTCC-AGACATGGTCTTA
141414784 TGCGAGAACA
Statistics
Matches: 90, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
42 13 0.14
43 65 0.72
44 11 0.12
45 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (41 bp):
ATGCCAACGTCCAGACATGGTCTTACTCGAATCACATATCG
Found at i:141421688 original size:43 final size:43
Alignment explanation
Indices: 141421619--141421716 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
141421609 TCCCAAACAG
* * *
141421619 GGTCTTACACAAATCACAATTACGATGTCGATAT-CTCAGACAT
1 GGTCTTACTCAAATCACAATTACGATGCCAATATCCT-AGACAT
* *
141421662 GGTCTTACTCGAAATCAC-A-TATCGATGCCAATGTCCTAGACGT
1 GGTCTTACTC-AAATCACAATTA-CGATGCCAATATCCTAGACAT
141421705 GGTCTTACTCAA
1 GGTCTTACTCAA
141421717 GAACACATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
42 4 0.09
43 34 0.72
44 9 0.19
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
GGTCTTACTCAAATCACAATTACGATGCCAATATCCTAGACAT
Found at i:141424970 original size:16 final size:17
Alignment explanation
Indices: 141424939--141424971 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
141424929 TTTATAAGTA
141424939 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
141424956 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
141424972 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:141425317 original size:46 final size:46
Alignment explanation
Indices: 141425267--141425516 Score: 315
Period size: 46 Copynumber: 5.4 Consensus size: 46
141425257 TGCCATAATG
* * *
141425267 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCTGTCACGTTGCCATGGTA
* * **
141425313 TCTTTCAACGATGGTCTTATTCATTTTATGTCACCCTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCTGTCACGTTGCCATGGTA
* * * *
141425359 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCTGTCACGTTGCCATGGTA
*
141425405 TCTTTCAACCATGGTCTTATTCA-TTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTC-TGTCACGTTGCCATGGTA
** * *
141425451 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTC-TGTCACGTTGCCATGGTA
*
141425497 TCTTTCAACAATGGTCTTAT
1 TCTTTCAACCATGGTCTTAT
141425517 CAGGTTGCCA
Statistics
Matches: 179, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 3 0.02
46 176 0.98
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTTCTGTCACGTTGCCATGGTA
Found at i:141425419 original size:92 final size:92
Alignment explanation
Indices: 141425267--141425516 Score: 365
Period size: 92 Copynumber: 2.7 Consensus size: 92
141425257 TGCCATAATG
* * *
141425267 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACGATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACAATGGTCTTA
* *
141425332 TTCATTTTATGTCACCCTGCCATGGTA
66 TTCATTTCATATCACCCTGCCATGGTA
* * * *
141425359 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTTCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACAATGGTCTTA
**
141425424 TTCATTTCATATCACGTTGCCATGGTA
66 TTCATTTCATATCACCCTGCCATGGTA
* * * *
141425451 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACAATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACAATGGTCTTA
141425516 T
66 T
141425517 CAGGTTGCCA
Statistics
Matches: 140, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 140 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACAATGGTCTTA
TTCATTTCATATCACCCTGCCATGGTA
Found at i:141425515 original size:138 final size:138
Alignment explanation
Indices: 141425267--141425516 Score: 367
Period size: 138 Copynumber: 1.8 Consensus size: 138
141425257 TGCCATAATG
* * * *
141425267 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACGATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTTCTATCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
** * * *
141425332 TTCATTTTATGTCACCCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTT
66 CACATTTCATATCACCCTGCCATGGTATCTTTCAACAATGGTCTTATTCATTTCCCGTCATGTTT
141425397 CCATGGTA
131 CCATGGTA
*
141425405 TCTTTCAACCATGGTCTTATTCA-TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGTCTTACTCATTTTC-TATCACGTTGCCATGGTATCTTTCAACCATGGTCTT
***
141425469 ACACATTTCATATCAGGTTGCCATGGTATCTTTCAACAATGGTCTTAT
65 ACACATTTCATATCACCCTGCCATGGTATCTTTCAACAATGGTCTTAT
141425517 CAGGTTGCCA
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
137 4 0.04
138 94 0.96
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (138 bp):
TCTTTCAACCATGGTCTTACTCATTTTCTATCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCATATCACCCTGCCATGGTATCTTTCAACAATGGTCTTATTCATTTCCCGTCATGTTT
CCATGGTA
Found at i:141425525 original size:35 final size:35
Alignment explanation
Indices: 141425479--141425550 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
141425469 ACACATTTCA
141425479 TATCAGGTTGCCATGGTATCTTTCAACAATGGTCT
1 TATCAGGTTGCCATGGTATCTTTCAACAATGGTCT
*
141425514 TATCAGGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCAGGTTGCCATGGTATCTTTCAACAATGGTCT
141425549 TA
1 TA
141425551 CACATTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (35 bp):
TATCAGGTTGCCATGGTATCTTTCAACAATGGTCT
Found at i:141427865 original size:27 final size:28
Alignment explanation
Indices: 141427803--141427872 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
141427793 AAACTTGTAC
*
141427803 AGCACTAAGTGTGCTAGTTTAATCATAT
1 AGCACTAAGTGTGCGAGTTTAATCATAT
* *
141427831 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTAATCATAT
141427858 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
141427873 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAATCATAT
Found at i:141427883 original size:27 final size:27
Alignment explanation
Indices: 141427803--141427884 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
141427793 AAACTTGTAC
* * * *
141427803 AGCACTAAGTGTGCTAGTTTAATCATAT
1 AGCACTAAGTGTGCGAGCTCACT-ATAT
* * *
141427831 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
141427858 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
141427885 GCTTTTGAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.02
27 26 0.55
28 20 0.43
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:141433443 original size:27 final size:26
Alignment explanation
Indices: 141433399--141433450 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
141433389 CTCGCTGCAA
*
141433399 TCTGGTGGCCTCGCCACATATATCTGC
1 TCTGGTGACCTCGCCACA-ATATCTGC
* *
141433426 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
141433451 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGC
Found at i:141433490 original size:2 final size:2
Alignment explanation
Indices: 141433483--141433508 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
141433473 GCTTCGCCAC
141433483 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
141433509 CTATTTTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:141448158 original size:28 final size:29
Alignment explanation
Indices: 141448059--141448218 Score: 157
Period size: 29 Copynumber: 5.6 Consensus size: 29
141448049 GTGACGAGAT
*
141448059 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
*
141448088 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
*
141448117 TGGCACTAAGTGTGCAAGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* ** * ***
141448145 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* * *
141448174 TGGCACTATGTGTGCG-GCT-TAAAT-TGCG
1 TGGCACTAAGTGTGCGAGCTGGAAATAT--A
141448202 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
141448219 AATCGAGTAT
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 2 0.02
28 40 0.36
29 67 0.61
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:141448177 original size:57 final size:58
Alignment explanation
Indices: 141448055--141448188 Score: 155
Period size: 57 Copynumber: 2.3 Consensus size: 58
141448045 TACGGTGACG
** * * *
141448055 AGAT-TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAA
1 AGATATGGCACTAAGTGTGCAAGCTGGAAATATACGGCACTAAGTGTGCGAGCTCGAA
* **
141448112 ATATATGGCACTAAGTGTGCAAGCTGGAAA-ATACGGCACTGGGTGTGCGAGCTCGAA
1 AGATATGGCACTAAGTGTGCAAGCTGGAAATATACGGCACTAAGTGTGCGAGCTCGAA
* * *
141448169 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
141448189 GGCTTAAATT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 41 0.64
58 23 0.36
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCAAGCTGGAAATATACGGCACTAAGTGTGCGAGCTCGAA
Found at i:141456173 original size:29 final size:28
Alignment explanation
Indices: 141456131--141456231 Score: 94
Period size: 29 Copynumber: 3.5 Consensus size: 28
141456121 TGACGAGATC
*
141456131 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGAGCTGGAAA-ATAT
* *
141456160 GGCACTAAGTGTGCAAGCTGGACAAATAC
1 GGCACTAAGTGTGCGAGCTGGA-AAATAT
** * **
141456189 GGCACTGGGTGTGCGAGCTCGAAGGGTAT
1 GGCACTAAGTGTGCGAGCTGGAA-AATAT
*
141456218 GGCACTATGTGTGC
1 GGCACTAAGTGTGC
141456232 AGGCTTAAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
28 1 0.02
29 55 0.95
30 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.23
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGCTGGAAAATAT
Found at i:141459449 original size:27 final size:27
Alignment explanation
Indices: 141459320--141459478 Score: 108
Period size: 27 Copynumber: 5.9 Consensus size: 27
141459310 ACCCTATAGG
** * *
141459320 GGTATTTTGGTAATTTTACAAAAT-AGG
1 GGTATTTCAGTAATTTCAC-AAATCAGA
* * * **
141459347 GGTATTTAAGTAATTTTACAAGTTGGGA
1 GGTATTTCAGTAATTTCACAA-ATCAGA
* *
141459375 GGTATTTC-GATAATTTCAAAAATCAAA
1 GGTATTTCAG-TAATTTCACAAATCAGA
*
141459402 CGTATTTC-GATAATTTCACAAATCAGA
1 GGTATTTCAG-TAATTTCACAAATCAGA
* ** *
141459429 GGTATTTCAGTAATTTTACAACCCAGG
1 GGTATTTCAGTAATTTCACAAATCAGA
*
141459456 GGTATTTTAGTAATTTCACAAAT
1 GGTATTTCAGTAATTTCACAAAT
141459479 TGAGGATCTT
Statistics
Matches: 104, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
26 2 0.02
27 84 0.81
28 18 0.17
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (27 bp):
GGTATTTCAGTAATTTCACAAATCAGA
Found at i:141461539 original size:14 final size:13
Alignment explanation
Indices: 141461519--141461550 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
141461509 AATATTTGAT
141461519 TTGTTCTTAATTA
1 TTGTTCTTAATTA
141461532 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
141461546 TTGTT
1 TTGTT
141461551 TTGATATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:141473029 original size:29 final size:29
Alignment explanation
Indices: 141472972--141473073 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
141472962 TACCTATATC
* * *
141472972 TGGCCCACTAAGCCC-AATCATAT-TCATA
1 TGGCCCATTAGGCCCAAATCACATGT-ATA
*
141473000 TGGCCCATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACATGTATA
*
141473029 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATGTATA
* *
141473058 TGGCTCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
141473074 GTCACATTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 13 0.20
29 50 0.78
30 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATGTATA
Found at i:141473069 original size:58 final size:57
Alignment explanation
Indices: 141472963--141473073 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
141472953 AATTTCACAT
* *
141472963 ACCTATATCTGGCCCACTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCACTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * * * *
141473020 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCTCGTTAGGCCCA
1 ACCTATATATGGCCCACTAAGCCC-AATCACATTCATATGGCCCATTAGGCCCA
141473074 GTCACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 20 0.44
58 25 0.56
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (57 bp):
ACCTATATATGGCCCACTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:141474453 original size:16 final size:16
Alignment explanation
Indices: 141474432--141474462 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
141474422 GAAAATTCAG
141474432 GATTTCGGGATTTTTA
1 GATTTCGGGATTTTTA
141474448 GATTTCGGGATTTTT
1 GATTTCGGGATTTTT
141474463 GGGGCGTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.26, T:0.52
Consensus pattern (16 bp):
GATTTCGGGATTTTTA
Found at i:141478452 original size:39 final size:39
Alignment explanation
Indices: 141478422--141478577 Score: 164
Period size: 39 Copynumber: 4.1 Consensus size: 39
141478412 AGGAGTATCG
*
141478422 AAGTACAACAGGGGCACGTAAGTGTGATCAGGGGTACCA
1 AAGTACAACAGGGGCACGTAAGTGAGATCAGGGGTACCA
* *
141478461 AAGTACAGCAGGGGCATGTAAGTGCA-ATCAGGGGTACCA
1 AAGTACAACAGGGGCACGTAAGTG-AGATCAGGGGTACCA
* *
141478500 AAATACAACA-AGGCACGTAAGTGAGATCAGGGGTA-CA
1 AAGTACAACAGGGGCACGTAAGTGAGATCAGGGGTACCA
* * * *
141478537 GAACTAGAACA-GGGCATGTAAGT-A-CT-AGGGGTACCA
1 -AAGTACAACAGGGGCACGTAAGTGAGATCAGGGGTACCA
141478573 AAGTA
1 AAGTA
141478578 AAAAAGGGAA
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
35 11 0.11
36 3 0.03
37 4 0.04
38 39 0.39
39 43 0.43
ACGTcount: A:0.37, C:0.17, G:0.31, T:0.15
Consensus pattern (39 bp):
AAGTACAACAGGGGCACGTAAGTGAGATCAGGGGTACCA
Found at i:141478550 original size:77 final size:74
Alignment explanation
Indices: 141478425--141478574 Score: 187
Period size: 77 Copynumber: 2.0 Consensus size: 74
141478415 AGTATCGAAG
* * * *
141478425 TACAACAGGGGCACGTAAGTGTGATCAGGGGTACCAAAGTACAGCAGGGGCATGTAAGTGCAATC
1 TACAACAGAGGCACGTAAGTGAGATCAGGGGTACCAAACTACAACA-GGGCATGTAAGT--AAT-
141478490 AGGGGTACCAAAA
62 AGGGGTACCAAAA
* *
141478503 TACAACA-AGGCACGTAAGTGAGATCAGGGGTA-CAGAACTAGAACAGGGCATGTAAGTACTAGG
1 TACAACAGAGGCACGTAAGTGAGATCAGGGGTACCA-AACTACAACAGGGCATGTAAGTAATAGG
141478566 GGTACCAAA
65 GGTACCAAA
141478575 GTAAAAAAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
73 12 0.18
74 2 0.03
76 14 0.22
77 30 0.46
78 7 0.11
ACGTcount: A:0.37, C:0.17, G:0.31, T:0.15
Consensus pattern (74 bp):
TACAACAGAGGCACGTAAGTGAGATCAGGGGTACCAAACTACAACAGGGCATGTAAGTAATAGGG
GTACCAAAA
Found at i:141481241 original size:27 final size:27
Alignment explanation
Indices: 141481211--141481364 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
141481201 ATAGTGAATC
141481211 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
141481238 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
141481266 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
141481293 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
141481322 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
141481351 TGCACACTTAGTGC
1 CGCACACTTAGTGC
141481365 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 40 0.37
28 27 0.25
29 40 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:141481258 original size:29 final size:28
Alignment explanation
Indices: 141481211--141481364 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 28
141481201 ATAGTGAATC
141481211 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
141481238 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
141481266 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
141481293 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
**
141481322 CGCACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
141481351 TGCACACTTAGTGC
1 CGCACACTTAGTGC
141481365 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.26
29 42 0.39
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:141481282 original size:55 final size:55
Alignment explanation
Indices: 141481211--141481314 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
141481201 ATAGTGAATC
141481211 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
141481266 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
141481315 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:141490543 original size:40 final size:40
Alignment explanation
Indices: 141490437--141490620 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 40
141490427 TGCTGGAAAT
* * * * * **
141490437 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
141490477 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
141490517 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * * *
141490555 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGTGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
141490596 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
141490621 GTTTGAACGA
Statistics
Matches: 114, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 28 0.25
40 85 0.75
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:141498575 original size:40 final size:38
Alignment explanation
Indices: 141498526--141498669 Score: 137
Period size: 40 Copynumber: 3.7 Consensus size: 38
141498516 TGCTGGAAAT
* * *
141498526 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTCG
*
141498565 CTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCAT
1 -TATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AGTC-G
* * *
141498606 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAATCG
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTCG
* * *
141498644 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
141498670 CTTGGTGCGG
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 26 0.30
40 58 0.67
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTCG
Found at i:141498696 original size:79 final size:81
Alignment explanation
Indices: 141498527--141498709 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 81
141498517 GCTGGAAATT
* * *
141498527 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCA
*
141498592 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * *
141498608 -TATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCTAATCGCT-ATATCCGGGCTAAGACCCGAAGGC
* * * *
141498670 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* *
141498686 ATAACCGGGCTATGTCCCGAAGGC
1 ATAACCGGGCTAAGACCCGAAGGC
141498710 GTTGAACGAG
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
78 2 0.02
79 54 0.64
80 28 0.33
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:141508785 original size:80 final size:72
Alignment explanation
Indices: 141508396--141508882 Score: 356
Period size: 72 Copynumber: 6.5 Consensus size: 72
141508386 GTTTTCCAAG
* * * *** *
141508396 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGTAATTTCAATTTCT
141508461 G--TTTCA
65 GTTTTTCA
* * * * * * *
141508467 AAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGGCACGCTGAGGTAATTTCAATTCCT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGTAATTTCAATTTCT
* ** *
141508532 ATTAAATCT
65 GTT-TTTCA
* * * * * * *
141508541 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGCGG-CACGCTAAGGTATTTTCAAATTA
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC-T-CGGACATGCTGAGGTAATTTCAATTTC
*
141508605 T-ATTTTCA
64 TGTTTTTCA
* * * * * * **
141508613 AAAGTTAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGTTTAGGTAATGGCAATTTCT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGTAATTTCAATTTCT
* *
141508678 -ATTGTCAAAAAAA
65 GTTTTTC------A
** * * *
141508691 AAAATCAGTTCATATTGCAAGAAGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG---ACATGCTGAGGTAATTTCAATTT
141508756 CTGTTTCTGTTTGTC-
63 CTG----T-TTT-TCA
*
141508771 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGTAATTTCAATTTCT
141508836 GTTTTTCA
65 GTTTTTCA
141508844 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG
141508883 GGCACGCTGA
Statistics
Matches: 332, Mismatches: 59, Indels: 49
0.75 0.13 0.11
Matches are distributed among these distances:
70 1 0.00
71 57 0.17
72 58 0.17
73 40 0.12
74 55 0.17
75 3 0.01
76 1 0.00
77 2 0.01
78 57 0.17
80 52 0.16
81 2 0.01
86 2 0.01
87 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (72 bp):
AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGACATGCTGAGGTAATTTCAATTTCTG
TTTTTCA
Found at i:141509114 original size:140 final size:141
Alignment explanation
Indices: 141508931--141509189 Score: 423
Period size: 140 Copynumber: 1.8 Consensus size: 141
141508921 CAAAAAAATA
* *
141508931 AATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAGTTTCTACTTTTTCAAAATCAGCTCAT
1 AATCAACTCATATGGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCAT
** * *
141508996 ATTGCGAG-AGGTGAGTTGAGCCTCAGGTCACGCTGAGGTA-TTTTCAATTTCTGTTTTCAATTT
66 ATTGCGAGAAACT-AGTTGAGCCTCAAGACACGCTGAGGTATTTTTCAATTTCTGTTTTCAATTT
141509059 ATGCTGTTCAAG
130 ATGCTGTTCAAG
*
141509071 AATCAACTCATATGGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCAT
1 AATCAACTCATATGGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCAT
*
141509136 ATTGCGAGAAACTAGTTGAGCCTCAAGACATGCTGAGGTATTTTTCAATTTCTG
66 ATTGCGAGAAACTAGTTGAGCCTCAAGACACGCTGAGGTATTTTTCAATTTCTG
141509190 CCTTTCAAAA
Statistics
Matches: 109, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
140 94 0.86
141 15 0.14
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (141 bp):
AATCAACTCATATGGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCAT
ATTGCGAGAAACTAGTTGAGCCTCAAGACACGCTGAGGTATTTTTCAATTTCTGTTTTCAATTTA
TGCTGTTCAAG
Found at i:141509302 original size:77 final size:78
Alignment explanation
Indices: 141509167--141509394 Score: 284
Period size: 77 Copynumber: 2.9 Consensus size: 78
141509157 CTCAAGACAT
*
141509167 GCTGAGGTATTTTTCAATTTCTGCCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 GCTGAGGTATTTTTCAATTTCTGTCTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
141509232 GAGCCTTGGCTCACGC
63 GAGCCTTGGATCACAC
*
141509248 GCTGAGCTA-TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 GCTGAGGTATTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
141509312 -CTTCAGATCACAC
66 CCTT-GGATCACAC
* * * * * *
141509325 ACTGAGGTATTTTTTCAATTTATATTTTTC--AAAAATCAACTTATATTGCGAGATGTGAGTTGA
1 GCTGAGGTA-TTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
141509388 GCCTTGG
65 GCCTTGG
141509395 GTTCACATGT
Statistics
Matches: 130, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
76 3 0.02
77 82 0.63
78 3 0.02
79 16 0.12
80 18 0.14
81 8 0.06
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (78 bp):
GCTGAGGTATTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTTGGATCACAC
Found at i:141509719 original size:81 final size:76
Alignment explanation
Indices: 141509608--141509878 Score: 246
Period size: 77 Copynumber: 3.5 Consensus size: 76
141509598 CTACTTTTTC
* ** * *
141509608 AAAATCAGCTCATATTGCGAGAAACT-AGTTGAGCCTCAAGACATGCTGAGGTATTTTTCAATTT
1 AAAATCAACTCATATTGCGAG-AGGTGAGTTGAGCCTCAACACACGCTGAGGTATTTTTCAATTT
141509672 CTGCCTTTCAAAAAAAA
65 CTGCCTTTC-----AAA
* * *
141509689 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTA-TTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAACACACGCTGAGGTATTTTTCAAT
*
141509752 TTCTGTCTTTCAAA
63 TTCTGCCTTTCAAA
* *
141509766 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-CACACGCTGAGGTA-TTTTTCAAT
* ***
141509831 TTATATTTTTC--A
63 TTCTGCCTTTCAAA
* *
141509843 AAAATCAACTTATATTGCGAGATGTGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
141509879 TGGGTTCACA
Statistics
Matches: 161, Mismatches: 20, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
74 1 0.01
76 1 0.01
77 82 0.51
79 16 0.10
80 2 0.01
81 29 0.18
82 19 0.12
83 10 0.06
84 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (76 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACACGCTGAGGTATTTTTCAATTTC
TGCCTTTCAAA
Found at i:141509791 original size:77 final size:78
Alignment explanation
Indices: 141509686--141509881 Score: 256
Period size: 77 Copynumber: 2.5 Consensus size: 78
141509676 CTTTCAAAAA
* * *
141509686 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA-TTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATCACACACTGAGCTATTTTTCA
* *
141509750 ATTTCTGTCTTTC
66 ATTTATATCTTTC
* *
141509763 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGATCACACACTGAGCTA-TTTTT
*
141509827 CAATTTATATTTTTC
64 CAATTTATATCTTTC
* *
141509842 --AAAAATCAACTTATATTGCGAGATGTGAGTTGAGCCTTGG
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
141509882 GTTCACATGT
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
76 3 0.03
77 82 0.79
78 3 0.03
79 16 0.15
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (78 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATCACACACTGAGCTATTTTTCA
ATTTATATCTTTC
Found at i:141511110 original size:16 final size:16
Alignment explanation
Indices: 141511089--141511119 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
141511079 GTGCTCTCCC
141511089 CTCCCCTCTCTCCTTT
1 CTCCCCTCTCTCCTTT
141511105 CTCCCCTCTCTCCTT
1 CTCCCCTCTCTCCTT
141511120 CTCTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (16 bp):
CTCCCCTCTCTCCTTT
Found at i:141511683 original size:22 final size:22
Alignment explanation
Indices: 141511636--141511684 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
141511626 ACTATATTAA
* *
141511636 ATGTATTATTTATATATCTTGC
1 ATGTATAATTTATATATCATGC
141511658 -TGTATAATTGTATATAT-ATGC
1 ATGTATAATT-TATATATCATGC
141511679 ATGTAT
1 ATGTAT
141511685 GTATATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (22 bp):
ATGTATAATTTATATATCATGC
Found at i:141512289 original size:18 final size:19
Alignment explanation
Indices: 141512258--141512294 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
141512248 ATATCACATA
141512258 TATATTTCTAATATTATAT
1 TATATTTCTAATATTATAT
*
141512277 TATATTT-TCATATTATAT
1 TATATTTCTAATATTATAT
141512295 CATGTACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATTTCTAATATTATAT
Found at i:141513294 original size:11 final size:11
Alignment explanation
Indices: 141513280--141513329 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
141513270 AGCCAAAAAG
141513280 AAAAAAAAAC-
1 AAAAAAAAACA
* *
141513290 AAAAAGAAAGA
1 AAAAAAAAACA
*
141513301 AAGAAAAAACA
1 AAAAAAAAACA
141513312 AAAAAAAAACA
1 AAAAAAAAACA
141513323 ACAAAAA
1 A-AAAAA
141513330 GATATTGTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 8 0.25
11 19 0.59
12 5 0.16
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:141513301 original size:20 final size:21
Alignment explanation
Indices: 141513276--141513315 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
141513266 AGGCAGCCAA
141513276 AAAGAAA-AAAAAACAAAAAG
1 AAAGAAAGAAAAAACAAAAAG
141513296 AAAGAAAGAAAAAACAAAAA
1 AAAGAAAGAAAAAACAAAAA
141513316 AAAAACAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (21 bp):
AAAGAAAGAAAAAACAAAAAG
Found at i:141513328 original size:21 final size:21
Alignment explanation
Indices: 141513274--141513329 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
141513264 AAAGGCAGCC
141513274 AAAAAGAAAAAAAAACAAAAAG
1 AAAAA-AAAAAAAAACAAAAAG
* *
141513296 AAAGAAAGAAAAAACAAAAA-
1 AAAAAAAAAAAAAACAAAAAG
* *
141513316 AAAAACAACAAAAA
1 AAAAAAAAAAAAAA
141513330 GATATTGTAG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 10 0.36
21 14 0.50
22 4 0.14
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAAAACAAAAAG
Found at i:141515255 original size:26 final size:26
Alignment explanation
Indices: 141515226--141515335 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
141515216 TGATACAAAT
141515226 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
141515252 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
141515278 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
141515304 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
141515330 TGATAA
1 TGATAA
141515336 GAATTCATGT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:141516910 original size:21 final size:21
Alignment explanation
Indices: 141516884--141516923 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
141516874 CATGTTTGAC
141516884 TGTTGTTATTA-CTGCATGCCA
1 TGTTGTTATTATCTG-ATGCCA
141516905 TGTTGTTATTATCTGATGC
1 TGTTGTTATTATCTGATGC
141516924 ATGGGACTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.47
Consensus pattern (21 bp):
TGTTGTTATTATCTGATGCCA
Found at i:141517363 original size:136 final size:136
Alignment explanation
Indices: 141517119--141517403 Score: 543
Period size: 136 Copynumber: 2.1 Consensus size: 136
141517109 GAGTAGTCTC
141517119 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
141517184 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
141517249 CTGTTA
131 CTGTTA
*
141517255 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATTGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
141517320 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
141517385 CTGTTA
131 CTGTTA
**
141517391 CCTGAATGGGCTT
1 CCCAAATGGGCTT
141517404 AGGCCCAATG
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 146 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:141518261 original size:64 final size:64
Alignment explanation
Indices: 141518160--141518283 Score: 212
Period size: 64 Copynumber: 1.9 Consensus size: 64
141518150 CATTCATAGT
* * *
141518160 ACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCATC
1 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCATC
*
141518224 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTGTTTGGCATAAG
1 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAG
141518284 GATATATACA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (64 bp):
ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCATC
Found at i:141518897 original size:177 final size:178
Alignment explanation
Indices: 141518623--141519297 Score: 1025
Period size: 178 Copynumber: 3.8 Consensus size: 178
141518613 TAGCTACTAA
* *
141518623 TCTTATATTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCAGC
1 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCGGC
*
141518688 TATGGAACAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
66 TATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
* * *
141518753 CTACCCTTATCTCTCTGAGGTAGAAAGAGAGCAGGTTGAAGATAAAAG
131 CCAGCCTTATCTCTCTGAGGTAGAAAGAGAGCAGGTTGAAGATACAAG
* * *
141518801 CCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TTATAGATCTTATCTCTATGTATCGGC
1 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCGGC
* * * *
141518865 TATGGAGCACATC-AGAAATGGTGAGTCTTATCTCCATGTATTGGCTATGGAGCAAATTTTAGCC
66 TATGGAGCAGATCGA-AAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
*
141518929 ACCAGCCTTATCTCTCTGATGTA-ACAAGAGAGCAGGTTGAAGATACAAG
130 ACCAGCCTTATCTCTCTGAGGTAGA-AAGAGAGCAGGTTGAAGATACAAG
* *
141518978 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCGAC
1 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCGGC
* **
141519043 TATGGAGCAGATCGAAAATGGCGGGTCTTATCTCCATGTATCGGCTATAAAGCAGATTTTAGCCA
66 TATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
* * * * *
141519108 CCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTAGAAAATACAGG
131 CCAGCCTTATCTCTCTGAGGTAGAAAGAGAGCAGGTTGAAGATACAAG
* * *
141519156 TCTTATCTTCCTGAAGTTGTAGGAAGCAAACTGAAAAGTTACAGATCTTATCTCCATGTATTGGC
1 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCGGC
*
141519221 TATGGAGCAGATC-AGAAATGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCC
66 TATGGAGCAGATCGA-AAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
* *
141519285 ACTAGTCTTATCT
130 ACCAGCCTTATCT
141519298 TCCTAAAGTT
Statistics
Matches: 448, Mismatches: 43, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
176 2 0.00
177 161 0.36
178 284 0.63
179 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (178 bp):
TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCGGC
TATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
CCAGCCTTATCTCTCTGAGGTAGAAAGAGAGCAGGTTGAAGATACAAG
Found at i:141519060 original size:46 final size:46
Alignment explanation
Indices: 141519001--141519099 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 46
141518991 AAGTTGCAGG
* *
141519001 AAGCAGA-CTGAAAATTTACAGATCTTATCTCCATGTATCGACTATG
1 AAGCAGATCTGAAAA-TGACAGATCTTATCTCCATGTATCGACTATA
* * * * *
141519047 GAGCAGATC-GAAAATGGCGGGTCTTATCTCCATGTATCGGCTATA
1 AAGCAGATCTGAAAATGACAGATCTTATCTCCATGTATCGACTATA
141519092 AAGCAGAT
1 AAGCAGAT
141519100 TTTAGCCACC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
45 32 0.73
46 11 0.25
47 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (46 bp):
AAGCAGATCTGAAAATGACAGATCTTATCTCCATGTATCGACTATA
Found at i:141519307 original size:134 final size:134
Alignment explanation
Indices: 141519155--141519420 Score: 372
Period size: 134 Copynumber: 2.0 Consensus size: 134
141519145 GAAAATACAG
* ** * *
141519155 GTCTTATCTTCCTGAAGTTGTAGGAAGCAAACTGAA-AAGTTACAGATCTTATCTCCATGTATTG
1 GTCTTATCTTCCTAAAGTTACAGGAAGCAAACTGAAGAA-TTACAAATCTTATCTCCATGTATCG
* * * *
141519219 GCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGC
65 GCTATAGAGCAGATCAAAAAAGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAAC
141519284 CACTA
130 CACTA
* *
141519289 GTCTTATCTTCCTAAAGTTACAGGAAGCAGATTGAAGAATTACAAATCTTATCTCCATGTATCGG
1 GTCTTATCTTCCTAAAGTTACAGGAAGCAAACTGAAGAATTACAAATCTTATCTCCATGTATCGG
* * * * *
141519354 CTATAGAGTAGATCAAAAAAGGCGGGTTTTATCTCCATGTATCGGCTATGGAGTAGATTTTAACC
66 CTATAGAGCAGATCAAAAAAGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAACC
141519419 AC
131 AC
141519421 CGGCCTTATC
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
134 113 0.98
135 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (134 bp):
GTCTTATCTTCCTAAAGTTACAGGAAGCAAACTGAAGAATTACAAATCTTATCTCCATGTATCGG
CTATAGAGCAGATCAAAAAAGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAACC
ACTA
Found at i:141519326 original size:355 final size:357
Alignment explanation
Indices: 141518621--141519342 Score: 1085
Period size: 355 Copynumber: 2.0 Consensus size: 357
141518611 TTTAGCTACT
*
141518621 AATCTTATATTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCA
1 AATCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCA
**
141518686 GCTATGGAACAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGC
66 GCTATGGAACAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATAAAGCAGATTTTAGC
* * * *
141518751 CACTACCCTTATCTCTCTGAGGTAGAAAGAGAGCAGGTTGAAGATAAAAGCCTTATCTTCCTGAA
131 CACCACCCTCATCTCTCTGAGGTAGAAAGAGAGCAGGTAGAAAATAAAAGCCTTATCTTCCTGAA
* * *
141518816 GTTGCAGGAAGCAGACTGAAAATTATAGATCTTATCTCTATGTATCGGCTATGGAGCACATCAGA
196 GTTGCAGGAAGCAAACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCACATCAGA
* **
141518881 AATGGTGAGTCTTATCTCCATGTATTGGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCT
261 AATGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCT
* * *
141518946 GATGTAACAAGAGAGCAGGTTGAAG-A-TACA
326 AAAGTAACAAGAGAGCAGATTGAAGAATTACA
* *
141518976 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATC-
1 AATCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCA
* *
141519040 GACTATGGAGCAGATCGAAAATGGCGGGTCTTATCTCCATGTATCGGCTATAAAGCAGATTTTAG
66 G-CTATGGAACAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATAAAGCAGATTTTAG
* * * * *
141519105 CCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTAGAAAATACAGGTCTTATCTTCCTGA
130 CCACCACCCTCATCTCTCTGAGGTAGAAAGAGAGCAGGTAGAAAATAAAAGCCTTATCTTCCTGA
* * *
141519170 AGTTGTAGGAAGCAAACTGAAAAGTTACAGATCTTATCTCCATGTATTGGCTATGGAGCAGATCA
195 AGTTGCAGGAAGCAAACTGAAAA-TTACAGATCTTATCTCCATGTATCGGCTATGGAGCACATCA
* * *
141519235 GAAATGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACTAGTCTTATCT-T
259 GAAATGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCT
* *
141519299 CCTAAAGTTACAGGA-AGCAGATTGAAGAATTACA
324 -CTAAAGTAACAAGAGAGCAGATTGAAGAATTACA
141519333 AATCTTATCT
1 AATCTTATCT
141519343 CCATGTATCG
Statistics
Matches: 328, Mismatches: 34, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
354 1 0.00
355 209 0.64
356 105 0.32
357 13 0.04
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (357 bp):
AATCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAAGTTACAGATCTTATCTCCATGTATCA
GCTATGGAACAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATAAAGCAGATTTTAGC
CACCACCCTCATCTCTCTGAGGTAGAAAGAGAGCAGGTAGAAAATAAAAGCCTTATCTTCCTGAA
GTTGCAGGAAGCAAACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCACATCAGA
AATGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCT
AAAGTAACAAGAGAGCAGATTGAAGAATTACA
Found at i:141519345 original size:312 final size:311
Alignment explanation
Indices: 141518976--141519596 Score: 940
Period size: 312 Copynumber: 2.0 Consensus size: 311
141518966 TGAAGATACA
* * *
141518976 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTAAAGTTACAGGAAGCAGACTGAAAATTTACAAATCTTATCTCCATGTATCG
* * * *
141519041 ACTATGGAGCAGATCGAAAATGGCGGGTCTTATCTCCATGTATCGGCTATAAAGCAGATTTTAGC
66 ACTATAGAGCAGATCAAAAAAGGCGGGTCTTATCTCCATGTATCGGCTATAAAGCAGATTTTAAC
141519106 CACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTAGAAAATAC-AGGTCTTATCTTCCTGA
131 CACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTAGAAAATACTA-GTCTTATCTTCCTGA
* * * **
141519170 AGTTGTAGGAAGCAAACTGAAAAGTTACAGATCTTATCTCCATGTATTGGCTATGGAGCAGATCA
195 AGTTGCAAGAAGCAAACTGAAAA-TTACAGATCTTATCTCCATATATCAGCTATGGAGCAGATCA
*
141519235 GAAATGGCGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACT
259 GAAATGGCAAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACT
*
141519288 AGTCTTATCTTCCTAAAGTTACAGGAAGCAGATTGAAGAA-TTACAAATCTTATCTCCATGTATC
1 AGTCTTATCTTCCTAAAGTTACAGGAAGCAGACTGAA-AATTTACAAATCTTATCTCCATGTATC
* * * ** *
141519352 GGCTATAGAGTAGATCAAAAAAGGCGGGTTTTATCTCCATGTATCGGCTATGGAGTAGATTTTAA
65 GACTATAGAGCAGATCAAAAAAGGCGGGTCTTATCTCCATGTATCGGCTATAAAGCAGATTTTAA
* * * * *
141519417 CCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACTAGTCTTATCTTCTTGA
130 CCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTAGAAAATACTAGTCTTATCTTCCTGA
* * *
141519482 AGTTGCAAGAAGCAGACTGAAAATTACGGATCTTATCTCCATATATCAGCTATGGAGTAGATCAG
195 AGTTGCAAGAAGCAAACTGAAAATTACAGATCTTATCTCCATATATCAGCTATGGAGCAGATCAG
*
141519547 AAATGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
260 AAATGGCAAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCA
141519597 TTAACCTCAT
Statistics
Matches: 278, Mismatches: 29, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
311 85 0.31
312 190 0.68
313 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (311 bp):
AGTCTTATCTTCCTAAAGTTACAGGAAGCAGACTGAAAATTTACAAATCTTATCTCCATGTATCG
ACTATAGAGCAGATCAAAAAAGGCGGGTCTTATCTCCATGTATCGGCTATAAAGCAGATTTTAAC
CACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTAGAAAATACTAGTCTTATCTTCCTGAA
GTTGCAAGAAGCAAACTGAAAATTACAGATCTTATCTCCATATATCAGCTATGGAGCAGATCAGA
AATGGCAAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACT
Found at i:141519634 original size:177 final size:178
Alignment explanation
Indices: 141519285--141519664 Score: 435
Period size: 177 Copynumber: 2.1 Consensus size: 178
141519275 GATTTTAGCC
* * * * * *
141519285 ACTAGTCTTATCTTCCTAAAGTTACAGGAAGCAGATTGAAGAATTACAAATCTTATCTCCATGTA
1 ACTAGTCTTATCTTCTTGAAGTTGCAAGAAGCAGACTGAAGAATTACAAATCTTATCTCCATATA
* ** * *
141519350 TCGGCTATAGAGTAGATCAAAAAAGGCGGGTTTTATCTCCATGTATCGGCTATGGAGTAGATTTT
66 TCAGCTATAGAGTAGATCAAAAAAGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
** * * ** *
141519415 AACCACCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA-T
131 AACCACCAACCTCATCTCCCTGAAATAGCAAGAGAACAGGTTGAA-ATT
**
141519463 ACTAGTCTTATCTTCTTGAAGTTGCAAGAAGCAGACTGAA-AATTACGGATCTTATCTCCATATA
1 ACTAGTCTTATCTTCTTGAAGTTGCAAGAAGCAGACTGAAGAATTACAAATCTTATCTCCATATA
* * *
141519527 TCAGCTATGGAGTAGATCAGAAATGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
66 TCAGCTATAGAGTAGATCAAAAAAGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
* ** * *
141519592 AGCCATTAACCTCATCTCCCTGAAATTGC-AGTGGAACAGGTTGAAATT
131 AACCACCAACCTCATCTCCCTGAAATAGCAAG-AGAACAGGTTGAAATT
**
141519640 AC-AAACATTATCTTCTTGAAGTTGC
1 ACTAGTC-TTATCTTCTTGAAGTTGC
141519665 TGTAGGACTA
Statistics
Matches: 169, Mismatches: 30, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
176 5 0.03
177 129 0.76
178 35 0.21
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (178 bp):
ACTAGTCTTATCTTCTTGAAGTTGCAAGAAGCAGACTGAAGAATTACAAATCTTATCTCCATATA
TCAGCTATAGAGTAGATCAAAAAAGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
AACCACCAACCTCATCTCCCTGAAATAGCAAGAGAACAGGTTGAAATT
Found at i:141519891 original size:17 final size:17
Alignment explanation
Indices: 141519869--141519903 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
141519859 ATTAAACCGA
141519869 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
141519886 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
141519903 C
1 C
141519904 TACTTGCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.54, G:0.00, T:0.17
Consensus pattern (17 bp):
CCACTAACTCCATCACC
Found at i:141519939 original size:13 final size:13
Alignment explanation
Indices: 141519921--141519946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
141519911 CACTAATTCC
141519921 ATCACCCCACTAA
1 ATCACCCCACTAA
141519934 ATCACCCCACTAA
1 ATCACCCCACTAA
141519947 CCCCATTACC
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:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (13 bp):
ATCACCCCACTAA
Found at i:141520515 original size:18 final size:18
Alignment explanation
Indices: 141520492--141520581 Score: 62
Period size: 18 Copynumber: 5.1 Consensus size: 18
141520482 TTTTAAATAT
141520492 TATATTATTATTTTTATA
1 TATATTATTATTTTTATA
*
141520510 TATATTATT-TATATTA-A
1 TATATTATTAT-TTTTATA
** * * *
141520527 GCTATTTTTA-TTTTGTG
1 TATATTATTATTTTTATA
*
141520544 TATATTATTTATTTGTATA
1 TATATTA-TTATTTTTATA
141520563 TATA-TATTATTTTGTATA
1 TATATTATTATTTT-TATA
141520581 T
1 T
141520582 CATTTATACT
Statistics
Matches: 52, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
16 3 0.06
17 18 0.35
18 23 0.44
19 8 0.15
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.63
Consensus pattern (18 bp):
TATATTATTATTTTTATA
Found at i:141520524 original size:21 final size:22
Alignment explanation
Indices: 141520479--141520521 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
141520469 TTTTATGAAC
141520479 ATTTTTTAAATATTATATTATT
1 ATTTTTTAAATATTATATTATT
*
141520501 ATTTTTATATATATTAT-TTAT
1 ATTTTT-TAAATATTATATTAT
141520522 ATTAAGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTTTTAAATATTATATTATT
Found at i:141520549 original size:17 final size:17
Alignment explanation
Indices: 141520529--141520586 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
141520519 TATATTAAGC
*
141520529 TATTTTTATTTTGTGTA
1 TATTTTTATTTTGTATA
141520546 TATTATTTA-TTTGTATA
1 TATT-TTTATTTTGTATA
*
141520563 TATATATTATTTTGTATA
1 TAT-TTTTATTTTGTATA
141520581 TCATTT
1 T-ATTT
141520587 ATACTGTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 17 0.50
18 15 0.44
19 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.66
Consensus pattern (17 bp):
TATTTTTATTTTGTATA
Done.