Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 104 of 295
Found at i:33598632 original size:17 final size:17
Alignment explanation
Indices: 33598610--33598644 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
33598600 ATTATGTTTG
33598610 ATAGAAGACTTGATGAA
1 ATAGAAGACTTGATGAA
*
33598627 ATAGAAGGCTTGATGAA
1 ATAGAAGACTTGATGAA
33598644 A
1 A
33598645 AGATTCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.06, G:0.26, T:0.23
Consensus pattern (17 bp):
ATAGAAGACTTGATGAA
Found at i:33599674 original size:32 final size:32
Alignment explanation
Indices: 33599637--33599697 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
33599627 TTGATAATTG
33599637 ATTTTCATTTGGGAAAAGCAAGTGTAATTATA
1 ATTTTCATTTGGGAAAAGCAAGTGTAATTATA
33599669 ATTTTCATTTGGGAAAAGCAAGTGTAATT
1 ATTTTCATTTGGGAAAAGCAAGTGTAATT
33599698 GCTGAAACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (32 bp):
ATTTTCATTTGGGAAAAGCAAGTGTAATTATA
Found at i:33604342 original size:26 final size:27
Alignment explanation
Indices: 33604313--33604364 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
33604303 CTATATTAGT
* *
33604313 TAAATAATAAAA-TAATACAAAGAAAA
1 TAAATAATAAAAGAAAAACAAAGAAAA
*
33604339 TAAATTATAAAAGAAAAACAAAGAAA
1 TAAATAATAAAAGAAAAACAAAGAAA
33604365 CCAAGGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.73, C:0.04, G:0.06, T:0.17
Consensus pattern (27 bp):
TAAATAATAAAAGAAAAACAAAGAAAA
Found at i:33605425 original size:12 final size:12
Alignment explanation
Indices: 33605408--33605432 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33605398 GTCGACTACT
33605408 GTTACTGTTACC
1 GTTACTGTTACC
33605420 GTTACTGTTACC
1 GTTACTGTTACC
33605432 G
1 G
33605433 ATTCGATACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:33606063 original size:148 final size:148
Alignment explanation
Indices: 33605879--33606175 Score: 594
Period size: 148 Copynumber: 2.0 Consensus size: 148
33605869 CCGTGCGTAG
33605879 ATTGTAGAAGTCAAGTATTGAACCAACCTCCAAAGCCAAACCCGACTTCAGTAAACTTTTGGTGA
1 ATTGTAGAAGTCAAGTATTGAACCAACCTCCAAAGCCAAACCCGACTTCAGTAAACTTTTGGTGA
33605944 TGTATATTTTCTTTTGGTAATGTGGCATGTACATAGGATGTTATAAAGGTTATTATGTTTTGAAT
66 TGTATATTTTCTTTTGGTAATGTGGCATGTACATAGGATGTTATAAAGGTTATTATGTTTTGAAT
33606009 ATAAATGGTTAAAATGCT
131 ATAAATGGTTAAAATGCT
33606027 ATTGTAGAAGTCAAGTATTGAACCAACCTCCAAAGCCAAACCCGACTTCAGTAAACTTTTGGTGA
1 ATTGTAGAAGTCAAGTATTGAACCAACCTCCAAAGCCAAACCCGACTTCAGTAAACTTTTGGTGA
33606092 TGTATATTTTCTTTTGGTAATGTGGCATGTACATAGGATGTTATAAAGGTTATTATGTTTTGAAT
66 TGTATATTTTCTTTTGGTAATGTGGCATGTACATAGGATGTTATAAAGGTTATTATGTTTTGAAT
33606157 ATAAATGGTTAAAATGCT
131 ATAAATGGTTAAAATGCT
33606175 A
1 A
33606176 GTAATACAAG
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 149 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (148 bp):
ATTGTAGAAGTCAAGTATTGAACCAACCTCCAAAGCCAAACCCGACTTCAGTAAACTTTTGGTGA
TGTATATTTTCTTTTGGTAATGTGGCATGTACATAGGATGTTATAAAGGTTATTATGTTTTGAAT
ATAAATGGTTAAAATGCT
Found at i:33614706 original size:28 final size:28
Alignment explanation
Indices: 33614666--33614763 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
33614656 AAACGAAATC
33614666 CGCACACACAGTGCCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
* * ** * **
33614694 CGCACACATAGTGCTCGGTTAAAGAAT-T
1 CGCACACACAGTGCCCACTGACCG-ATCT
*
33614722 CGCACACACAGTGTCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
*
33614750 CGCACACATAGTGC
1 CGCACACACAGTGC
33614764 TTGGTTAAAG
Statistics
Matches: 51, Mismatches: 17, Indels: 4
0.71 0.24 0.06
Matches are distributed among these distances:
27 2 0.04
28 47 0.92
29 2 0.04
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.18
Consensus pattern (28 bp):
CGCACACACAGTGCCCACTGACCGATCT
Found at i:33614728 original size:56 final size:56
Alignment explanation
Indices: 33614666--33614792 Score: 218
Period size: 56 Copynumber: 2.3 Consensus size: 56
33614656 AAACGAAATC
33614666 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
* *
33614722 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTTGGTTAAAGAATT
1 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
* *
33614778 CGCGCACATAGTGCC
1 CGCACACACAGTGCC
33614793 TATATTCATT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 66 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (56 bp):
CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:33614780 original size:28 final size:28
Alignment explanation
Indices: 33614693--33614791 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
33614683 CTGACCGATC
33614693 TCGCACACATAGTGCTCGGTTAAAGAAT
1 TCGCACACATAGTGCTCGGTTAAAGAAT
* ** * **
33614721 TCGCACACACAGTG-TCCACTGACCG-AT
1 TCGCACACATAGTGCT-CGGTTAAAGAAT
*
33614748 CTCGCACACATAGTGCTTGGTTAAAGAAT
1 -TCGCACACATAGTGCTCGGTTAAAGAAT
*
33614777 TCGCGCACATAGTGC
1 TCGCACACATAGTGC
33614792 CTATATTCAT
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
27 3 0.06
28 47 0.89
29 3 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGGTTAAAGAAT
Found at i:33615032 original size:40 final size:40
Alignment explanation
Indices: 33614972--33615131 Score: 275
Period size: 40 Copynumber: 4.0 Consensus size: 40
33614962 CACATCATCG
* *
33614972 GCACGAATGCCCTTCAGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
33615012 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
33615052 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
* * *
33615092 GCACAAATGCTCTTCGGGACTTAGCCCAGATATAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
33615132 TTTCCCATAC
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.19
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
Found at i:33620517 original size:28 final size:28
Alignment explanation
Indices: 33620477--33620574 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
33620467 AAACGAAATC
33620477 CGCACACACAGTGCCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
* * ** * **
33620505 CGCACACATAGTGCTCGGTTAAAGAAT-T
1 CGCACACACAGTGCCCACTGACCG-ATCT
*
33620533 CGCACACACAGTGTCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
*
33620561 CGCACACATAGTGC
1 CGCACACACAGTGC
33620575 TTGGTTAAAG
Statistics
Matches: 51, Mismatches: 17, Indels: 4
0.71 0.24 0.06
Matches are distributed among these distances:
27 2 0.04
28 47 0.92
29 2 0.04
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.18
Consensus pattern (28 bp):
CGCACACACAGTGCCCACTGACCGATCT
Found at i:33620539 original size:56 final size:56
Alignment explanation
Indices: 33620477--33620603 Score: 218
Period size: 56 Copynumber: 2.3 Consensus size: 56
33620467 AAACGAAATC
33620477 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
* *
33620533 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTTGGTTAAAGAATT
1 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
* *
33620589 CGCGCACATAGTGCC
1 CGCACACACAGTGCC
33620604 TATATTCATT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 66 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (56 bp):
CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:33620591 original size:28 final size:28
Alignment explanation
Indices: 33620504--33620602 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
33620494 CTGACCGATC
33620504 TCGCACACATAGTGCTCGGTTAAAGAAT
1 TCGCACACATAGTGCTCGGTTAAAGAAT
* ** * **
33620532 TCGCACACACAGTG-TCCACTGACCG-AT
1 TCGCACACATAGTGCT-CGGTTAAAGAAT
*
33620559 CTCGCACACATAGTGCTTGGTTAAAGAAT
1 -TCGCACACATAGTGCTCGGTTAAAGAAT
*
33620588 TCGCGCACATAGTGC
1 TCGCACACATAGTGC
33620603 CTATATTCAT
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
27 3 0.06
28 47 0.89
29 3 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGGTTAAAGAAT
Found at i:33620828 original size:40 final size:40
Alignment explanation
Indices: 33620784--33620943 Score: 275
Period size: 40 Copynumber: 4.0 Consensus size: 40
33620774 CACATCATCG
* *
33620784 GCACGAATGCCCTTCAGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
33620824 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
33620864 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
* * *
33620904 GCACAAATGCTCTTCGGGACTTAGCCCAGATATAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
33620944 TTTCCCATAC
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.19
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
Found at i:33629438 original size:24 final size:24
Alignment explanation
Indices: 33629411--33629456 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
33629401 ACTTCAGTCT
33629411 TTGAAAGTTTGTACTCAGGATTCC
1 TTGAAAGTTTGTACTCAGGATTCC
33629435 TTGAAAGTTTGTACTCAGGATT
1 TTGAAAGTTTGTACTCAGGATT
33629457 GCTTACTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (24 bp):
TTGAAAGTTTGTACTCAGGATTCC
Found at i:33629496 original size:13 final size:13
Alignment explanation
Indices: 33629478--33629505 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33629468 CTGAAAAAAG
33629478 ATGTTTTTGAAAT
1 ATGTTTTTGAAAT
33629491 ATGTTTTTGAAAT
1 ATGTTTTTGAAAT
33629504 AT
1 AT
33629506 CTCTTTGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
ATGTTTTTGAAAT
Found at i:33632161 original size:11 final size:11
Alignment explanation
Indices: 33632128--33632167 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
33632118 ATGAATATAT
33632128 TTATAAAATTA
1 TTATAAAATTA
*
33632139 TAATATAAATTA
1 TTATA-AAATTA
33632151 TTATAAAATTA
1 TTATAAAATTA
*
33632162 ATATAA
1 TTATAA
33632168 GAATATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TTATAAAATTA
Found at i:33632756 original size:14 final size:14
Alignment explanation
Indices: 33632733--33632764 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
33632723 GACGATTTTC
*
33632733 AAAAGTAAAAGAAA
1 AAAAGAAAAAGAAA
33632747 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
33632761 AAAA
1 AAAA
33632765 CTTGTTATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (14 bp):
AAAAGAAAAAGAAA
Found at i:33650571 original size:21 final size:21
Alignment explanation
Indices: 33650547--33650590 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
33650537 GGTGTTTCAT
33650547 TTAGTGGTATTAGAGCCTAAG
1 TTAGTGGTATTAGAGCCTAAG
*
33650568 TTAGTGGTGTTAGAGCCTAAG
1 TTAGTGGTATTAGAGCCTAAG
33650589 TT
1 TT
33650591 CTCTAACACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.25, C:0.09, G:0.30, T:0.36
Consensus pattern (21 bp):
TTAGTGGTATTAGAGCCTAAG
Found at i:33657629 original size:46 final size:46
Alignment explanation
Indices: 33657571--33657746 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 46
33657561 ATTCGTGTGT
*
33657571 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
*
33657617 GAGCCAGTGTAAGGCCATGTCTGGGACATAGCATC-G--ACATTGA-GA
1 GAGCCAGTGTAA-GACATGTCTGGGACAT-GCATCGGCCACATT-ATGA
* * * *
33657662 CGAGGGCCAGTATAAGACATGTTTGGGACATGCATCGGCCTCGA-GATGTA
1 -GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-A
*
33657712 -AGCCAGTGTAAGACATGTTTGGGACATGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
33657747 TACGAGATGA
Statistics
Matches: 110, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
45 7 0.06
46 52 0.47
47 31 0.28
48 16 0.15
49 2 0.02
50 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
Found at i:33657753 original size:46 final size:46
Alignment explanation
Indices: 33657571--33657841 Score: 212
Period size: 47 Copynumber: 5.8 Consensus size: 46
33657561 ATTCGTGTGT
* * *
33657571 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGA
* * * *
33657617 GAGCCAGTGTAAGGCCATGTCTGGGACATAGCATCGAC-ATTGAGACGA
1 GAGCCAGTGTAA-GACATGTCTGGGACAT-GCATCGGCTA-CGAGATGA
* * *
33657665 GGGCCAGTATAAGACATGTTTGGGACATGCATCGGCCT-CGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATG-A
*
33657712 -AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGA
* * * * * ** *
33657757 TAGTCAGTGTAATACCATGTCTAGAACATGGCATCAACT-TGAGAT-A
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGA
**
33657803 TGAGCCAGTGTAAGACCATGTCCAGGACATGGCATCGGC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
33657842 ACCTTACCCT
Statistics
Matches: 183, Mismatches: 30, Indels: 23
0.78 0.13 0.10
Matches are distributed among these distances:
45 3 0.02
46 73 0.40
47 79 0.43
48 27 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGA
Found at i:33657831 original size:140 final size:141
Alignment explanation
Indices: 33657576--33657841 Score: 324
Period size: 140 Copynumber: 1.9 Consensus size: 141
33657566 TGTGTGAGCT
* * *
33657576 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGGCCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTAG
* * * ***
33657641 GACATAGCATCGACATTGAGACGAGGGCCAGTATAAGACATGTTTGGGACAT-GCATCGGCCTCG
66 AACATAGCATCAACATTGAGACGAGAGCCAGTATAAGACATGTCCAGGACATGGCATCGGCCTCG
33657705 AGATGTAAGCC
131 AGATGTAAGCC
* * * * *
33657716 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAATACCATGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCTA
* * *
33657780 GAACATGGCATCAAC-TTGAGA-TATGAGCCAGTGTAAGACCATGTCCAGGACATGGCATCGGC
65 GAACATAGCATCAACATTGAGACGA-GAGCCAGTATAAGA-CATGTCCAGGACATGGCATCGGC
33657842 ACCTTACCCT
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
138 1 0.01
139 18 0.17
140 77 0.73
141 9 0.09
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTAG
AACATAGCATCAACATTGAGACGAGAGCCAGTATAAGACATGTCCAGGACATGGCATCGGCCTCG
AGATGTAAGCC
Found at i:33673314 original size:20 final size:20
Alignment explanation
Indices: 33673291--33673333 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
33673281 GTGTGGTTAC
*
33673291 ACACGTCCATGTGGCTTGGG
1 ACACGACCATGTGGCTTGGG
33673311 ACACGACCATGTGGCTTGGG
1 ACACGACCATGTGGCTTGGG
33673331 ACA
1 ACA
33673334 TAGTTCCCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.21
Consensus pattern (20 bp):
ACACGACCATGTGGCTTGGG
Found at i:33673629 original size:154 final size:153
Alignment explanation
Indices: 33673337--33673633 Score: 488
Period size: 154 Copynumber: 1.9 Consensus size: 153
33673327 TGGGACATAG
* * *
33673337 TTCCCAGCGCGTGTAACTCTCTGTTTATGACGTCATCAACACAATTAGGGTCACATGGCCAAGTT
1 TTCCCAGCGCGTGTAACTCTCTATATATGACGTCATCAACACAATTAGGGTCACATGGCCAAGTC
33673402 ACACATCCATGTGCTTAGGCCGTGTGGCGAATTAAATTCCAAAAATCAAGTGCAGACTTCACACG
66 ACACATCCATGTGCTTAGGCCGTGTGGCGAATTAAATTCCAAAAATCAAGTGCAGACTTCACACG
*
33673467 GCCTAGACACACGTCCATGTGGC
131 GACTAGACACACGTCCATGTGGC
* *
33673490 TTCCTCAGCGCGTGTAACTCTCTATATGTGACGTCATCAACATAATTAGGGTCACATGGCCAAGT
1 TTCC-CAGCGCGTGTAACTCTCTATATATGACGTCATCAACACAATTAGGGTCACATGGCCAAGT
* * *
33673555 CACACGTCTATGTGCTTAGGCCGTGTGGTGAATTAAATTCCAAAAATCAAGTGCAGACTTCACAC
65 CACACATCCATGTGCTTAGGCCGTGTGGCGAATTAAATTCCAAAAATCAAGTGCAGACTTCACAC
33673620 -GACTGAGACACACG
130 GGACT-AGACACACG
33673634 GCCGTGTCTC
Statistics
Matches: 133, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
153 7 0.05
154 126 0.95
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (153 bp):
TTCCCAGCGCGTGTAACTCTCTATATATGACGTCATCAACACAATTAGGGTCACATGGCCAAGTC
ACACATCCATGTGCTTAGGCCGTGTGGCGAATTAAATTCCAAAAATCAAGTGCAGACTTCACACG
GACTAGACACACGTCCATGTGGC
Found at i:33674226 original size:48 final size:48
Alignment explanation
Indices: 33674156--33674378 Score: 170
Period size: 48 Copynumber: 4.8 Consensus size: 48
33674146 GGTAGGATGT
* ** * * *
33674156 CAATGCCATATCCCGGATATGGTCTCACATGGGATCACATATCGATGC
1 CAATGCCATGTCCTAGAAATGGTCTTACATGGGATCACATATCAATGC
* * * ** **
33674204 CAATGCCATGTCTTAGACATGGTATTACATGGGATCGTAGGTCAATGC
1 CAATGCCATGTCCTAGAAATGGTCTTACATGGGATCACATATCAATGC
*
33674252 CAATGCCATGTCCTAGAAATGGTCTTACATGGGATCACATATCAATGT
1 CAATGCCATGTCCTAGAAATGGTCTTACATGGGATCACATATCAATGC
** * * ** * **
33674300 CAAT---A-G-CCTAGCTATGGTTTTACACGAAATTACATATTGATGC
1 CAATGCCATGTCCTAGAAATGGTCTTACATGGGATCACATATCAATGC
* *
33674343 CAAAGCCATGTTCC-AGACATGGTCTTACATGGGATC
1 CAATGCCATG-TCCTAGAAATGGTCTTACATGGGATC
33674379 TTCCATAACC
Statistics
Matches: 131, Mismatches: 38, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
43 30 0.23
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 95 0.73
49 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (48 bp):
CAATGCCATGTCCTAGAAATGGTCTTACATGGGATCACATATCAATGC
Found at i:33679699 original size:42 final size:42
Alignment explanation
Indices: 33679653--33679733 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
33679643 GAATTTTTTA
*
33679653 TTTTATCTTTTAGTAGTTTATTATAATAAGGGAACTATTCTC
1 TTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTCTC
*
33679695 TTTTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATT
1 TTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATT
33679734 TTCCCAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (42 bp):
TTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTCTC
Found at i:33684356 original size:19 final size:19
Alignment explanation
Indices: 33684309--33684356 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
33684299 GTATATATTT
33684309 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
**
33684327 TAAATCATATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
33684346 TAAGTTTTATT
1 TAAATTTTATT
33684357 CATATTCTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:33684419 original size:42 final size:42
Alignment explanation
Indices: 33684373--33684457 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
33684363 CTAGGAACAT
33684373 TTTTATTTTATCTTTTAGTAGTTGATTAGAATAAGGGAACTA
1 TTTTATTTTATCTTTTAGTAGTTGATTAGAATAAGGGAACTA
* *
33684415 TTTTATTTTATGTTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTATTTTATCTTTTAGTAGTTGATTAGAATAAGGGAACTA
33684457 T
1 T
33684458 ATTTCCAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (42 bp):
TTTTATTTTATCTTTTAGTAGTTGATTAGAATAAGGGAACTA
Found at i:33685792 original size:28 final size:28
Alignment explanation
Indices: 33685760--33685815 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
33685750 TAGTAACAGC
* *
33685760 ACAGTGTGGGCCTTAGCCCAATATAGTA
1 ACAGTGTGGGCCTAAGCCCAATACAGTA
*
33685788 ACAGTGTGGGCCTAAGTCCAATACAGTA
1 ACAGTGTGGGCCTAAGCCCAATACAGTA
33685816 TCAGAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.23
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCCCAATACAGTA
Found at i:33686100 original size:32 final size:32
Alignment explanation
Indices: 33686050--33686119 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
33686040 CACGCCTTAC
* *
33686050 AGCCATCAATAGCGGTAATTTGATCGGCACAA
1 AGCCATCAATAGCGGTAATATGACCGGCACAA
* * * *
33686082 AGCCATCAGTAGCTGTAATATGACCGGCATAC
1 AGCCATCAATAGCGGTAATATGACCGGCACAA
33686114 AGCCAT
1 AGCCAT
33686120 GGGTAAAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (32 bp):
AGCCATCAATAGCGGTAATATGACCGGCACAA
Found at i:33686233 original size:22 final size:22
Alignment explanation
Indices: 33686208--33686255 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
33686198 ATGAACAAGA
33686208 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATATTTAGGT
33686230 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATATTTAGGT
33686252 TGGC
1 TGGC
33686256 CATAATCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (22 bp):
TGGCACAAAGCCATATTTAGGT
Found at i:33686660 original size:27 final size:26
Alignment explanation
Indices: 33686623--33687247 Score: 412
Period size: 27 Copynumber: 23.2 Consensus size: 26
33686613 TTACCCTACA
* *
33686623 GGGGTA-TTCGATAATTTTACACTACA
1 GGGGTATTTCGATAATTTTACA-AACG
*
33686649 AGGGTATTTCGATAATTTTACAAACCG
1 GGGGTATTTCGATAATTTTACAAA-CG
* * * *
33686676 AGGGTATTTCGGTAATTTTATAAATCA
1 GGGGTATTTCGATAATTTTACAAA-CG
* * * *
33686703 GAGGTATTTCAATAATTTTATAATCTG
1 GGGGTATTTCGATAATTTTACAAAC-G
* * *
33686730 AGGGTATTT-TAGTAATTTTACAAATTG
1 GGGGTATTTCGA-TAATTTTACAAA-CG
* * * * **
33686757 AGGGTATTTTGGTACTTTTACAAATTA
1 GGGGTATTTCGATAATTTTACAAA-CG
**
33686784 GGGGTATTTCGATAATTTTACAAATTA
1 GGGGTATTTCGATAATTTTACAAA-CG
* *
33686811 GGGGTATTTCGGTAATTTTACAAACCA
1 GGGGTATTTCGATAATTTTACAAA-CG
* ** *
33686838 GGGGTTTTTTAATAATTTTATAAATCG
1 GGGGTATTTCGATAATTTTACAAA-CG
* *
33686865 GGGGTATTTTGGTAATTTTACAAACTG
1 GGGGTATTTCGATAATTTTACAAAC-G
* **
33686892 GGGGTATTTCGGTAATTTTACAAATTA
1 GGGGTATTTCGATAATTTTACAAA-CG
* * *
33686919 GGGGTATTTTGGTAATTTTATAAACTG
1 GGGGTATTTCGATAATTTTACAAAC-G
* * * *
33686946 AGGGTATTTCGGTAGTTTTACAAATCA
1 GGGGTATTTCGATAATTTTACAAA-CG
* * **
33686973 AGGGTATTTCGATGATTTTACAAATT
1 GGGGTATTTCGATAATTTTACAAACG
33686999 GGGGTATTTCCG-TAATTTTACAAACTG
1 GGGGTATTT-CGATAATTTTACAAAC-G
* *
33687026 GGGGTATTTCGATAATTTTACAATCTA
1 GGGGTATTTCGATAATTTTACAAAC-G
* * * *
33687053 AGGGTGTTTTGGTAATTTTACAAATCG
1 GGGGTATTTCGATAATTTTACAAA-CG
*
33687080 GGGGTATTTC-ATTAATTTTACAAGCCG
1 GGGGTATTTCGA-TAATTTTACAA-ACG
* *
33687107 AGGGTATTTCGATAATTCTACAAACTG
1 GGGGTATTTCGATAATTTTACAAAC-G
* * *
33687134 GGGGTATTTTGATAATTTTACAATCTA
1 GGGGTATTTCGATAATTTTACAAAC-G
* *
33687161 AGGGTATTTCGATAATTTTACAAATCA
1 GGGGTATTTCGATAATTTTACAAA-CG
* * *
33687188 GGGGTATTTTGGTAATTTTACAATCCG
1 GGGGTATTTCGATAATTTTACAA-ACG
* ** *
33687215 AGTATATTTCGATAATTTTACAAATCA
1 GGGGTATTTCGATAATTTTACAAA-CG
33687242 GGGGTA
1 GGGGTA
33687248 GTTTGATTAA
Statistics
Matches: 477, Mismatches: 101, Indels: 41
0.77 0.16 0.07
Matches are distributed among these distances:
26 31 0.06
27 442 0.93
28 4 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (26 bp):
GGGGTATTTCGATAATTTTACAAACG
Found at i:33686710 original size:54 final size:54
Alignment explanation
Indices: 33686624--33687247 Score: 582
Period size: 54 Copynumber: 11.6 Consensus size: 54
33686614 TACCCTACAG
* * * *
33686624 GGGTA-TTCGATAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAACCGA
1 GGGTATTTCGGTAATTTTACAAAT-CAGGGGTATTTCGATAATTTTACAAACTGA
* * * * *
33686677 GGGTATTTCGGTAATTTTATAAATCAGAGGTATTTCAATAATTTTATAATCTGA
1 GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCGATAATTTTACAAACTGA
** * * * * *
33686731 GGGTATTTTAGTAATTTTACAAAT-TGAGGGTATTTTGGTACTTTTACAAA-TTA
1 GGGTATTTCGGTAATTTTACAAATCAG-GGGTATTTCGATAATTTTACAAACTGA
* * * *
33686784 GGGGTATTTCGATAATTTTACAAATTAGGGGTATTTCGGTAATTTTACAAAC-CA
1 -GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCGATAATTTTACAAACTGA
* *** * * * * *
33686838 GGGGTTTTTTAATAATTTTATAAATCGGGGGTATTTTGGTAATTTTACAAACTGG
1 -GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCGATAATTTTACAAACTGA
* * * *
33686893 GGGTATTTCGGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTATAAACTGA
1 GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCGATAATTTTACAAACTGA
* * * *
33686947 GGGTATTTCGGTAGTTTTACAAATCAAGGGTATTTCGATGATTTTACAAATTG-
1 GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCGATAATTTTACAAACTGA
* * * *
33687000 GGGTATTTCCGTAATTTTACAAA-CTGGGGGTATTTCGATAATTTTACAATCTAA
1 GGGTATTTCGGTAATTTTACAAATC-AGGGGTATTTCGATAATTTTACAAACTGA
* * * * *
33687054 GGGTGTTTTGGTAATTTTACAAATCGGGGGTATTTC-ATTAATTTTACAAGCCGA
1 GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCGA-TAATTTTACAAACTGA
* * * * * *
33687108 GGGTATTTCGATAATTCTACAAA-CTGGGGGTATTTTGATAATTTTACAATCTAA
1 GGGTATTTCGGTAATTTTACAAATC-AGGGGTATTTCGATAATTTTACAAACTGA
* * * * *
33687162 GGGTATTTCGATAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAATCCGA
1 GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCGATAATTTTACAAACTGA
** *
33687216 GTATATTTCGATAATTTTACAAATCAGGGGTA
1 GGGTATTTCGGTAATTTTACAAATCAGGGGTA
33687248 GTTTGATTAA
Statistics
Matches: 474, Mismatches: 83, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
52 1 0.00
53 53 0.11
54 414 0.87
55 6 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCGATAATTTTACAAACTGA
Found at i:33687247 original size:81 final size:81
Alignment explanation
Indices: 33686621--33687247 Score: 546
Period size: 81 Copynumber: 7.8 Consensus size: 81
33686611 TTTTACCCTA
* * *
33686621 CAGGGGTA-TTCGATAATTTTACACTAC-AAGGGTATTTCGATAATTTTACAAA-CCGAGGGTAT
1 CAGGGGTATTTCGATAATTTTACAAT-CTGAGGGTATTTCGATAATTTTACAAATCAG-GGGTAT
* *
33686683 TTCGGTAATTTTATAAAT
64 TTCGATAATTTTACAAAT
* * * * *
33686701 CAGAGGTATTTCAATAATTTTATAATCTGAGGGTATTT-TAGTAATTTTACAAAT-TGAGGGTAT
1 CAGGGGTATTTCGATAATTTTACAATCTGAGGGTATTTCGA-TAATTTTACAAATCAG-GGGTAT
* * *
33686764 TTTGGTACTTTTACAAAT
64 TTCGATAATTTTACAAAT
* * * *
33686782 TAGGGGTATTTCGATAATTTTACAAAT-T-AGGGGTATTTCGGTAATTTTACAAACCAGGGGTTT
1 CAGGGGTATTTCGATAATTTTAC-AATCTGA-GGGTATTTCGATAATTTTACAAATCAGGGGTAT
** *
33686845 TTTAATAATTTTATAAAT
64 TTCGATAATTTTACAAAT
* * * * * * *
33686863 CGGGGGTATTTTGGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAAATTAGGGGTATTT
1 CAGGGGTATTTCGATAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTT
* * *
33686928 TGGTAATTTTATAAA-
66 CGATAATTTTACAAAT
* * * * * *
33686943 CTGAGGGTATTTCGGTAGTTTTACAAATC-AAGGGTATTTCGATGATTTTACAAAT-TGGGGTAT
1 CAG-GGGTATTTCGATAATTTTAC-AATCTGAGGGTATTTCGATAATTTTACAAATCAGGGGTAT
33687006 TTCCG-TAATTTTACAAA-
64 TT-CGATAATTTTACAAAT
* * * * * *
33687023 CTGGGGGTATTTCGATAATTTTACAATCTAAGGGTGTTTTGGTAATTTTACAAATCGGGGGTATT
1 C-AGGGGTATTTCGATAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAATCAGGGGTATT
*
33687088 TC-ATTAATTTTAC-AAG
65 TCGA-TAATTTTACAAAT
* * * * * *
33687104 CCGAGGGTATTTCGATAATTCTACAAACTGGGGGTATTTTGATAATTTTAC-AATCTAAGGGTAT
1 CAG-GGGTATTTCGATAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAATC-AGGGGTAT
33687168 TTCGATAATTTTACAAAT
64 TTCGATAATTTTACAAAT
* * * **
33687186 CAGGGGTATTTTGGTAATTTTACAATCCGAGTATATTTCGATAATTTTACAAATCAGGGGTA
1 CAGGGGTATTTCGATAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAATCAGGGGTA
33687248 GTTTGATTAA
Statistics
Matches: 449, Mismatches: 74, Indels: 47
0.79 0.13 0.08
Matches are distributed among these distances:
79 4 0.01
80 83 0.18
81 346 0.77
82 16 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
CAGGGGTATTTCGATAATTTTACAATCTGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTT
CGATAATTTTACAAAT
Found at i:33688944 original size:48 final size:48
Alignment explanation
Indices: 33688861--33689039 Score: 201
Period size: 48 Copynumber: 3.9 Consensus size: 48
33688851 CACATGGTAG
* * *
33688861 GATGCCAATGCCATAT-CCAGATATGGGCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
33688908 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * **** *
33688956 GATGCCGAT---A-G-CCCA-ACTACGGTCTTACACAAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
*
33688999 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
33689040 GCACATAACC
Statistics
Matches: 106, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
42 2 0.02
43 30 0.28
44 1 0.01
45 1 0.01
46 1 0.01
47 16 0.15
48 53 0.50
49 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:33689318 original size:14 final size:14
Alignment explanation
Indices: 33689299--33689326 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33689289 ATCGTTAGAA
33689299 ATTCGAAATTAACT
1 ATTCGAAATTAACT
33689313 ATTCGAAATTAACT
1 ATTCGAAATTAACT
33689327 TAAAACCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
ATTCGAAATTAACT
Found at i:33690079 original size:27 final size:27
Alignment explanation
Indices: 33690049--33690134 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
33690039 CTGCCAGAAA
33690049 CAGTGAATGTGGCAAAGCCACTAGTAT
1 CAGTGAATGTGGCAAAGCCACTAGTAT
*
33690076 CAGTGAATGT-G---A--CA-TAGTCAC
1 CAGTGAATGTGGCAAAGCCACTAGT-AT
33690097 CAGTGAATGTGGCAAAGCCACTAGTAT
1 CAGTGAATGTGGCAAAGCCACTAGTAT
33690124 CAGTGAATGTG
1 CAGTGAATGTG
33690135 ACATAGTCAC
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
20 4 0.08
21 13 0.27
22 1 0.02
23 1 0.02
25 1 0.02
26 1 0.02
27 24 0.49
28 4 0.08
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (27 bp):
CAGTGAATGTGGCAAAGCCACTAGTAT
Found at i:33690100 original size:21 final size:21
Alignment explanation
Indices: 33690076--33690148 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 21
33690066 CCACTAGTAT
33690076 CAGTGAATGTGACATAGTCAC
1 CAGTGAATGTGACATAGTCAC
*
33690097 CAGTGAATGTGGCAAAGCCACTAGT-AT
1 CAGTGAATGT-G---A--CA-TAGTCAC
33690124 CAGTGAATGTGACATAGTCAC
1 CAGTGAATGTGACATAGTCAC
33690145 CAGT
1 CAGT
33690149 ATAGTACTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 16
0.70 0.03 0.27
Matches are distributed among these distances:
20 4 0.10
21 17 0.40
22 1 0.02
23 1 0.02
25 1 0.02
26 1 0.02
27 13 0.31
28 4 0.10
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (21 bp):
CAGTGAATGTGACATAGTCAC
Found at i:33690103 original size:48 final size:48
Alignment explanation
Indices: 33690049--33690148 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
33690039 CTGCCAGAAA
33690049 CAGTGAATGTGGCAAAGCCACTAGTATCAGTGAATGTGACATAGTCAC
1 CAGTGAATGTGGCAAAGCCACTAGTATCAGTGAATGTGACATAGTCAC
33690097 CAGTGAATGTGGCAAAGCCACTAGTATCAGTGAATGTGACATAGTCAC
1 CAGTGAATGTGGCAAAGCCACTAGTATCAGTGAATGTGACATAGTCAC
33690145 CAGT
1 CAGT
33690149 ATAGTACTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (48 bp):
CAGTGAATGTGGCAAAGCCACTAGTATCAGTGAATGTGACATAGTCAC
Found at i:33690149 original size:27 final size:27
Alignment explanation
Indices: 33690049--33690150 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 27
33690039 CTGCCAGAAA
* *
33690049 CAGTGAATGTGGCAAAGCCACTAGTAT
1 CAGTGAATGTGACAAAGCCACCAGTAT
* *
33690076 CAGTGAATGTGACATAGTCA-C-----
1 CAGTGAATGTGACAAAGCCACCAGTAT
* *
33690097 CAGTGAATGTGGCAAAGCCACTAGTAT
1 CAGTGAATGTGACAAAGCCACCAGTAT
* *
33690124 CAGTGAATGTGACATAGTCACCAGTAT
1 CAGTGAATGTGACAAAGCCACCAGTAT
33690151 AGTACTTCCT
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
21 17 0.30
27 40 0.70
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (27 bp):
CAGTGAATGTGACAAAGCCACCAGTAT
Found at i:33696414 original size:21 final size:20
Alignment explanation
Indices: 33696386--33696424 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
33696376 CAAAACTTGT
33696386 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
33696406 ATAATCTATCATCAAACAT
1 ATAA-CTATCATCAAACAT
33696425 CAAAATACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:33698575 original size:30 final size:30
Alignment explanation
Indices: 33698528--33698587 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
33698518 TTCCCGAGCC
33698528 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* * *
33698558 TAGGGGCAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGT-GTAATTATGCAAAAGTT
33698588 CGTATTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:33702062 original size:12 final size:12
Alignment explanation
Indices: 33702045--33702069 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33702035 TAATTAATAC
33702045 AAATGAAGTTGA
1 AAATGAAGTTGA
33702057 AAATGAAGTTGA
1 AAATGAAGTTGA
33702069 A
1 A
33702070 TCAGTGCCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AAATGAAGTTGA
Found at i:33705808 original size:30 final size:30
Alignment explanation
Indices: 33705761--33705820 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
33705751 TTCCCGAGCC
33705761 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* * *
33705791 TAGGGGTAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGT-GTAATTATGCAAAAGTT
33705821 CGTATTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:33709249 original size:43 final size:43
Alignment explanation
Indices: 33709178--33709407 Score: 171
Period size: 43 Copynumber: 5.3 Consensus size: 43
33709168 GTTTATTTGA
* * *
33709178 AAAAATGCCTCTATAGAACATGAGCTTTAGCGGCGCCTTTCCC
1 AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCCTTTCCC
* * * ** * *
33709221 AAAAACGCCACTATAA-AACAAGACCTTTAGTAGCGCTTTTCCT
1 AAAAATGCCGCTA-AAGAACATGACCTTTAGCGGCGCCTTTCCC
* * *
33709264 ACAAATGCCGCTAAAGAACATGACATTTAGCGGC-ACTTCTCCC
1 AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCCTT-TCCC
* *
33709307 ACAAATGCCGCTAAAGAACATGACCTTTAGTGGCG-CTTGT-CC
1 AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCCTT-TCCC
* ** * * ** * * *
33709349 AACAAACGTTGCTATAGAACATGACCTTTAGTGATGCTTTTACT
1 AA-AAATGCCGCTAAAGAACATGACCTTTAGCGGCGCCTTTCCC
33709393 AAAAATGCCGCTAAA
1 AAAAATGCCGCTAAA
33709408 TGTCGTGTTC
Statistics
Matches: 145, Mismatches: 35, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
42 7 0.05
43 132 0.91
44 6 0.04
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCCTTTCCC
Found at i:33709332 original size:86 final size:85
Alignment explanation
Indices: 33709180--33709379 Score: 224
Period size: 86 Copynumber: 2.3 Consensus size: 85
33709170 TTATTTGAAA
* *
33709180 AAATGCCTCTATAGAACATGAGCTTTAGCGGCGCCTTTCCCAAAAACGCCACTATAAAACAAGAC
1 AAATGCCGCTATAGAACATGA-CTTTAGCGGCGACTTTCCCAAAAACGCCACTATAAAACAAGAC
* *
33709245 CTTTAGTAGCGCTTTTCCTAC
65 CTTTAGTAGCGCTTGTCCAAC
* * * * *
33709266 AAATGCCGCTAAAGAACATGACATTTAGCGGC-ACTTCTCCCACAAATGCCGCTA-AAGAACATG
1 AAATGCCGCTATAGAACATGAC-TTTAGCGGCGACTT-TCCCAAAAACGCCACTATAA-AACAAG
*
33709329 ACCTTTAGTGGCGCTTGTCCAAC
63 ACCTTTAGTAGCGCTTGTCCAAC
* **
33709352 AAACGTTGCTATAGAACATGACCTTTAG
1 AAATGCCGCTATAGAACATGA-CTTTAG
33709380 TGATGCTTTT
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
85 6 0.06
86 89 0.93
87 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (85 bp):
AAATGCCGCTATAGAACATGACTTTAGCGGCGACTTTCCCAAAAACGCCACTATAAAACAAGACC
TTTAGTAGCGCTTGTCCAAC
Found at i:33709581 original size:25 final size:25
Alignment explanation
Indices: 33709547--33709595 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
33709537 ATTCCTGTAA
33709547 CAACCAAAAACAAAAAATACAAATC
1 CAACCAAAAACAAAAAATACAAATC
*
33709572 CAACCAAAAACAAAAAATATAAAT
1 CAACCAAAAACAAAAAATACAAAT
33709596 TATACTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.69, C:0.20, G:0.00, T:0.10
Consensus pattern (25 bp):
CAACCAAAAACAAAAAATACAAATC
Found at i:33709857 original size:32 final size:32
Alignment explanation
Indices: 33709816--33709880 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
33709806 AACTTTTGGA
33709816 AAACTTAGAAAATTTCATCATGAAATAGGGTC
1 AAACTTAGAAAATTTCATCATGAAATAGGGTC
33709848 AAACTTAGAAAATTTCATCATGAAATAGGGTC
1 AAACTTAGAAAATTTCATCATGAAATAGGGTC
33709880 A
1 A
33709881 CACGCCCGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (32 bp):
AAACTTAGAAAATTTCATCATGAAATAGGGTC
Found at i:33711659 original size:28 final size:28
Alignment explanation
Indices: 33711616--33711677 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
33711606 ACCTCGCACG
* * **
33711616 CTAAGTGTTATTCTTGATGTTTTACACA
1 CTAAGTGTCATCCTTGATACTTTACACA
*
33711644 CTAAGTGTCATCCTTGATACTTTGCACA
1 CTAAGTGTCATCCTTGATACTTTACACA
33711672 CTAAGT
1 CTAAGT
33711678 TCCTGTAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (28 bp):
CTAAGTGTCATCCTTGATACTTTACACA
Found at i:33713103 original size:40 final size:40
Alignment explanation
Indices: 33713033--33713290 Score: 394
Period size: 40 Copynumber: 6.5 Consensus size: 40
33713023 AAACCCAGTA
* * ** *
33713033 CCTTCGAGATTTAG-CCGGATATAGCT-ACTCGTTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
33713072 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
33713112 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** *
33713152 CCTTCGACACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
33713192 CCTTCGGGACTTAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
33713232 CCTTCGGGACTTAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33713272 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33713291 TTGTCATCCG
Statistics
Matches: 203, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 13 0.06
40 190 0.94
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33714513 original size:24 final size:24
Alignment explanation
Indices: 33714486--33714531 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
33714476 CACCCCCCAA
33714486 TTTTCATTATT-TTATTACTAACCC
1 TTTTCATT-TTATTATTACTAACCC
* *
33714510 TTTTTATTTTATTATTTCTAAC
1 TTTTCATTTTATTATTACTAAC
33714532 ATAAAGCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTTCATTTTATTATTACTAACCC
Found at i:33721157 original size:40 final size:40
Alignment explanation
Indices: 33721087--33721264 Score: 279
Period size: 40 Copynumber: 4.5 Consensus size: 40
33721077 AAACCCAGTA
* ** *
33721087 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGTTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
33721126 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33721166 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
33721206 CCTTCGACACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33721246 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33721265 TTGTCATCCG
Statistics
Matches: 129, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.11
40 115 0.89
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33722846 original size:40 final size:40
Alignment explanation
Indices: 33722802--33722882 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
33722792 TAGCGACCCC
33722802 GAAACCACTTCCCGACTAGGGTCAATTTAGGGCTGTCACA
1 GAAACCACTTCCCGACTAGGGTCAATTTAGGGCTGTCACA
*
33722842 GAAACCACTTCCCGTCTAGGGTCAATTTAGGGCTGTCACA
1 GAAACCACTTCCCGACTAGGGTCAATTTAGGGCTGTCACA
33722882 G
1 G
33722883 TTCCATTTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
GAAACCACTTCCCGACTAGGGTCAATTTAGGGCTGTCACA
Found at i:33726935 original size:43 final size:42
Alignment explanation
Indices: 33726887--33726996 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 42
33726877 TCCTAGATAT
* *
33726887 GGTCTTACATGTTATCACATATCGATGCCACTGTCCCACACAG
1 GGTCTTACAT-TAATCACATATCGATGCCAATGTCCCACACAG
** * * *
33726930 GGTCTTACACAAAATCACA-ATACAATGCCAATGTCCCAGACAT
1 GGTCTTACA-TTAATCACATAT-CGATGCCAATGTCCCACACAG
*
33726973 GGTATTACATTAATCACATATCGA
1 GGTCTTACATTAATCACATATCGA
33726997 GTCGATGCCA
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
42 11 0.21
43 42 0.79
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (42 bp):
GGTCTTACATTAATCACATATCGATGCCAATGTCCCACACAG
Found at i:33727113 original size:50 final size:50
Alignment explanation
Indices: 33726990--33727134 Score: 152
Period size: 50 Copynumber: 2.9 Consensus size: 50
33726980 CATTAATCAC
* *
33726990 ATATCGA-GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTT
1 ATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTT
* * *
33727039 ATATCGAGGCCGACGTCATATCCCAGACATGGTCTTACACTGGCTCTCCTCT
1 ATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CT-T
* * * * * *
33727091 -TTTTG-TGCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTC
1 ATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
33727135 ACATGTATTG
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
49 7 0.09
50 66 0.84
51 5 0.06
52 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (50 bp):
ATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTT
Found at i:33729925 original size:40 final size:39
Alignment explanation
Indices: 33729860--33729945 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 39
33729850 TATATATATA
**
33729860 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* * *
33729900 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
33729939 TAGCCGA
1 TAGCCGA
33729946 TAAGTCGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 10 0.24
40 31 0.76
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:33735260 original size:37 final size:37
Alignment explanation
Indices: 33735200--33735289 Score: 153
Period size: 37 Copynumber: 2.4 Consensus size: 37
33735190 CCATCTCCGT
*
33735200 CCATTCCTACACTCCATGCGGGGTTTAAAACACCCAC
1 CCATCCCTACACTCCATGCGGGGTTTAAAACACCCAC
* *
33735237 CCATCCCTACACTCTATGTGGGGTTTAAAACACCCAC
1 CCATCCCTACACTCCATGCGGGGTTTAAAACACCCAC
33735274 CCATCCCTACACTCCA
1 CCATCCCTACACTCCA
33735290 AGTAGTATTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.27, C:0.40, G:0.11, T:0.22
Consensus pattern (37 bp):
CCATCCCTACACTCCATGCGGGGTTTAAAACACCCAC
Found at i:33743161 original size:7 final size:7
Alignment explanation
Indices: 33743145--33743223 Score: 59
Period size: 7 Copynumber: 11.3 Consensus size: 7
33743135 CACCCCTAAA
*
33743145 CTAAAGC
1 CTAAACC
33743152 CTAAACC
1 CTAAACC
*
33743159 CTAGACC
1 CTAAACC
*
33743166 CTAAATC
1 CTAAACC
*
33743173 ATAAACC
1 CTAAACC
*
33743180 CTAAACT
1 CTAAACC
**
33743187 CTAAATT
1 CTAAACC
* *
33743194 ATAAATC
1 CTAAACC
*
33743201 TTAAACC
1 CTAAACC
*
33743208 TTAAACC
1 CTAAACC
33743215 CTAAACC
1 CTAAACC
33743222 CT
1 CT
33743224 TACTTCTTAA
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 58 1.00
ACGTcount: A:0.43, C:0.30, G:0.03, T:0.24
Consensus pattern (7 bp):
CTAAACC
Found at i:33743249 original size:36 final size:35
Alignment explanation
Indices: 33743167--33743253 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
33743157 CCCTAGACCC
* *
33743167 TAAATCATAAACCCTAAACTCTAAATTATAAATCT
1 TAAACCATAAACCCTAAACCCTAAATTATAAATCT
* * * *
33743202 TAAACCTTAAACCCTAAACCCTTACTTCTTAAATCCT
1 TAAACCATAAACCCTAAACCCTAAATT-ATAAAT-CT
33743239 T-AACCATAAACCCTA
1 TAAACCATAAACCCTA
33743254 TATATATATT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
35 22 0.51
36 18 0.42
37 3 0.07
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.30
Consensus pattern (35 bp):
TAAACCATAAACCCTAAACCCTAAATTATAAATCT
Found at i:33743374 original size:22 final size:23
Alignment explanation
Indices: 33743349--33743391 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
33743339 TTATCAAAAT
*
33743349 CCCTTACCTTT-AAACCCTAATA
1 CCCTAACCTTTAAAACCCTAATA
33743371 CCCTAACCTTTAAAACCCTAA
1 CCCTAACCTTTAAAACCCTAA
33743392 ACACTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (23 bp):
CCCTAACCTTTAAAACCCTAATA
Found at i:33743390 original size:15 final size:15
Alignment explanation
Indices: 33743361--33743428 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
33743351 CTTACCTTTA
*
33743361 AACC-CTAATACCCT
1 AACCACTAAAACCCT
**
33743375 AACCTTTAAAACCCT
1 AACCACTAAAACCCT
*
33743390 AAACACTAAAACCCT
1 AACCACTAAAACCCT
* *
33743405 AACTA-TAAAACACTT
1 AACCACTAAAAC-CCT
33743420 AACC-CTAAA
1 AACCACTAAA
33743429 CCATAAACTT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
14 10 0.24
15 32 0.76
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCACTAAAACCCT
Found at i:33743398 original size:22 final size:22
Alignment explanation
Indices: 33743354--33743398 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
33743344 AAAATCCCTT
*
33743354 ACCTTTAAACCCTAATACCCTA
1 ACCTTTAAACCCTAATACACTA
33743376 ACCTTTAAAACCCTAA-ACACTA
1 ACCTTT-AAACCCTAATACACTA
33743398 A
1 A
33743399 AACCCTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.24
Consensus pattern (22 bp):
ACCTTTAAACCCTAATACACTA
Found at i:33743427 original size:29 final size:29
Alignment explanation
Indices: 33743359--33743457 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 29
33743349 CCCTTACCTT
* *
33743359 TAAACCCTAATACCCTAACCTTTAAAACCC
1 TAAACCCTAAAACCCTAA-CTTTAAAACAC
* *
33743389 TAAACACTAAAACCCTAACTATAAAACAC
1 TAAACCCTAAAACCCTAACTTTAAAACAC
* *
33743418 TTAACCCT-AAACCATAAACTTTAAAACAC
1 TAAACCCTAAAACCCT-AACTTTAAAACAC
* *
33743447 AAAACCATAAA
1 TAAACCCTAAA
33743458 CCAAAAATAA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
28 6 0.11
29 32 0.57
30 18 0.32
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (29 bp):
TAAACCCTAAAACCCTAACTTTAAAACAC
Found at i:33743434 original size:22 final size:22
Alignment explanation
Indices: 33743390--33743435 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
33743380 TTAAAACCCT
*
33743390 AAACACTAAAACCCTAACTATA
1 AAACACTAAAACCCTAACCATA
*
33743412 AAACACT-TAACCCTAAACCATA
1 AAACACTAAAACCCT-AACCATA
33743434 AA
1 AA
33743436 CTTTAAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.17
Consensus pattern (22 bp):
AAACACTAAAACCCTAACCATA
Found at i:33743435 original size:7 final size:7
Alignment explanation
Indices: 33743420--33743498 Score: 52
Period size: 7 Copynumber: 11.0 Consensus size: 7
33743410 TAAAACACTT
*
33743420 AACCCTA
1 AACCATA
33743427 AACCATA
1 AACCATA
**
33743434 AACTTTAA
1 AACCAT-A
33743442 AACACA-A
1 AAC-CATA
33743449 AACCATA
1 AACCATA
*
33743456 AACCAAA
1 AACCATA
**
33743463 AATAATA
1 AACCATA
*
33743470 AACCCTA
1 AACCATA
33743477 AACCATAA
1 AACCAT-A
*
33743485 AACCCTA
1 AACCATA
33743492 AACCATA
1 AACCATA
33743499 TACTTTAAAC
Statistics
Matches: 53, Mismatches: 15, Indels: 8
0.70 0.20 0.11
Matches are distributed among these distances:
6 2 0.04
7 41 0.77
8 10 0.19
ACGTcount: A:0.57, C:0.28, G:0.00, T:0.15
Consensus pattern (7 bp):
AACCATA
Found at i:33743458 original size:29 final size:29
Alignment explanation
Indices: 33743405--33743494 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 29
33743395 CTAAAACCCT
** *
33743405 AACTATAAAACACTTAACCCTAAACCATA
1 AACTATAAAACACAAAACCATAAACCATA
*
33743434 AACTTTAAAACACAAAACCATAAACCA-A
1 AACTATAAAACACAAAACCATAAACCATA
* * * *
33743462 AAATA-ATAAACCCTAAACCATAAAACCCTA
1 AACTATA-AAACACAAAACCAT-AAACCATA
33743492 AAC
1 AAC
33743495 CATATACTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
27 1 0.02
28 16 0.33
29 28 0.58
30 3 0.06
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.17
Consensus pattern (29 bp):
AACTATAAAACACAAAACCATAAACCATA
Found at i:33743507 original size:22 final size:22
Alignment explanation
Indices: 33743424--33743507 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 22
33743414 ACACTTAACC
33743424 CTAAACCATAAACTTTAAAACA
1 CTAAACCATAAACTTTAAAACA
* ** *
33743446 CAAAACCATAAAC-CAAAAATA
1 CTAAACCATAAACTTTAAAACA
* * ** *
33743467 ATAAACCCTAAACCATAAAACC
1 CTAAACCATAAACTTTAAAACA
*
33743489 CTAAACCATATACTTTAAA
1 CTAAACCATAAACTTTAAA
33743508 CATTAAATTC
Statistics
Matches: 45, Mismatches: 16, Indels: 2
0.71 0.25 0.03
Matches are distributed among these distances:
21 15 0.33
22 30 0.67
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (22 bp):
CTAAACCATAAACTTTAAAACA
Found at i:33743625 original size:41 final size:40
Alignment explanation
Indices: 33743565--33743682 Score: 130
Period size: 41 Copynumber: 2.9 Consensus size: 40
33743555 TTAAACTACT
* *
33743565 TGACCTTTTGTAGCATTTTTATCATAAACGTCGCTAATGCC
1 TGACCTTTTGTGGCGTTTTTATCATAAACGTCGCTAATG-C
*
33743606 TGACCTTTTGTGGCGTTTTTCTCATAAACG-CTGCTAATGC
1 TGACCTTTTGTGGCGTTTTTATCATAAACGTC-GCTAATGC
* ** * *
33743646 TCAACCTTTTACGGTGTTTTTATCATAATCGTCGCTA
1 T-GACCTTTTGTGGCGTTTTTATCATAAACGTCGCTA
33743683 TAGCTCTAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
40 3 0.05
41 61 0.94
42 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (40 bp):
TGACCTTTTGTGGCGTTTTTATCATAAACGTCGCTAATGC
Found at i:33744409 original size:27 final size:27
Alignment explanation
Indices: 33744379--33744430 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
33744369 AGTGTGCCAC
33744379 AAAGGCTTCT-TTATCATAGATCACTAT
1 AAAGG-TTCTCTTATCATAGATCACTAT
*
33744406 AAAGGTTTTCTTATCATAGATCACT
1 AAAGGTTCTCTTATCATAGATCACT
33744431 GCAGATGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (27 bp):
AAAGGTTCTCTTATCATAGATCACTAT
Found at i:33750874 original size:61 final size:60
Alignment explanation
Indices: 33750805--33750981 Score: 239
Period size: 61 Copynumber: 2.9 Consensus size: 60
33750795 AATTAATCAC
* **
33750805 ATTAATATTAAATTAATAAAATATTATCAAGATAAATATTTAATTTTTTTTAATATCTCA
1 ATTAATATTAAATTAATAAAATATTATCAAGATAAATATTAAATTTAATTTAATATCTCA
* * *
33750865 TATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTTAATTTAAAATTTCA
1 -ATTAATATTAAATTAATAAAATATTATCAAGATAAATATTAAATTTAATTTAATATCTCA
* * * *
33750926 AGTAATGTTAATTTAATAAAATACTAT-ATAGATAAATATTAAATTTAATTTAATAT
1 ATTAATATTAAATTAATAAAATATTATCA-AGATAAATATTAAATTTAATTTAATAT
33750982 TAAATTTGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
60 49 0.48
61 54 0.52
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (60 bp):
ATTAATATTAAATTAATAAAATATTATCAAGATAAATATTAAATTTAATTTAATATCTCA
Found at i:33753663 original size:212 final size:212
Alignment explanation
Indices: 33753293--33753705 Score: 745
Period size: 212 Copynumber: 1.9 Consensus size: 212
33753283 GTTCTATTAG
*
33753293 TTGGAGGTCCCTGAGTTGATAATATACCTTAATTAATGTTAGTGGACATTTATGTCCAAAATTAG
1 TTGGAGGTCCCTAAGTTGATAATATACCTTAATTAATGTTAGTGGACATTTATGTCCAAAATTAG
*
33753358 CATGGTTATTATATGTTTAAATAAAGGTTATTTTTGTAAATGGCTTATTAAGTTAATAATAATAA
66 CATGGTTATTATATCTTTAAATAAAGGTTATTTTTGTAAATGGCTTATTAAGTTAATAATAATAA
* *
33753423 AAACAAAATCAAAATCACATTATTCAATCCATCTCTTGCCGAAATTAAGAAATAAAAATCAGCCA
131 AAACAAAATCAAAATCACATTATTCAATCCATCTCTTGCCGAAATTAAGAAAGAAAAATCAACCA
33753488 TAGCTATGAAATTTATA
196 TAGCTATGAAATTTATA
* *
33753505 TTGGAGGTCCCTAAGTTGATAATATACCTTAATTAATGTTAGTGGACATTTATGTTCATAATTAG
1 TTGGAGGTCCCTAAGTTGATAATATACCTTAATTAATGTTAGTGGACATTTATGTCCAAAATTAG
*
33753570 CATGGTTATTATATCTTTAAATAAATGTTATTTTTGTAAATGGCTTATTAAGTTAATAATAATAA
66 CATGGTTATTATATCTTTAAATAAAGGTTATTTTTGTAAATGGCTTATTAAGTTAATAATAATAA
* *
33753635 AAACAAAATCAAAATCACATTTTTCAATCCATCTCTTGCCGAAATTGAGAAAGAAAAATCAACCA
131 AAACAAAATCAAAATCACATTATTCAATCCATCTCTTGCCGAAATTAAGAAAGAAAAATCAACCA
33753700 TAGCTA
196 TAGCTA
33753706 GGTTTTACAT
Statistics
Matches: 192, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
212 192 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (212 bp):
TTGGAGGTCCCTAAGTTGATAATATACCTTAATTAATGTTAGTGGACATTTATGTCCAAAATTAG
CATGGTTATTATATCTTTAAATAAAGGTTATTTTTGTAAATGGCTTATTAAGTTAATAATAATAA
AAACAAAATCAAAATCACATTATTCAATCCATCTCTTGCCGAAATTAAGAAAGAAAAATCAACCA
TAGCTATGAAATTTATA
Found at i:33755734 original size:55 final size:54
Alignment explanation
Indices: 33755604--33755736 Score: 133
Period size: 55 Copynumber: 2.4 Consensus size: 54
33755594 AAGATAACAA
* * *** * *
33755604 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGATAACTACGACAAGGCAAAGAAACCAT
** * **
33755658 GTAAGACCATG-TGAGGACATGGCATTGATAAACTACGATAAGGCAAAGATCCCAT
1 GTAAGACCATGCCAAGG-CATGGCATTGAT-AACTACGACAAGGCAAAGAAACCAT
33755713 GTAAGACCATGCCAAGGCATGGCA
1 GTAAGACCATGCCAAGGCATGGCA
33755737 ATGGTGAGTT
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
53 3 0.05
54 22 0.35
55 34 0.55
56 3 0.05
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (54 bp):
GTAAGACCATGCCAAGGCATGGCATTGATAACTACGACAAGGCAAAGAAACCAT
Found at i:33763983 original size:53 final size:53
Alignment explanation
Indices: 33763905--33764009 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
33763895 ATAAACTACG
* * * *
33763905 ATAAGACAAAGATCCCATGTAAGACCATGCCAAGGCATGACAATGGTGAGTTC
1 ATAAGACAAAGATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTTC
* * * *
33763958 ATAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 ATAAGACAAAGATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTT
33764010 TAAAAAGGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (53 bp):
ATAAGACAAAGATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTTC
Found at i:33765510 original size:22 final size:23
Alignment explanation
Indices: 33765458--33765511 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
33765448 ATTGGAGACC
*
33765458 GTTCAGCTCAATAGAGGTTACTA
1 GTTCAGCTCAATAGAGCTTACTA
*
33765481 TTTCAGCTCAATAGAGCTTACT-
1 GTTCAGCTCAATAGAGCTTACTA
33765503 GTTCAGCTC
1 GTTCAGCTC
33765512 GAAGGAGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (23 bp):
GTTCAGCTCAATAGAGCTTACTA
Found at i:33767443 original size:56 final size:56
Alignment explanation
Indices: 33767369--33767578 Score: 348
Period size: 56 Copynumber: 3.8 Consensus size: 56
33767359 TTTTTGTGAT
* * *
33767369 TAAGATCACGTTTAATACGTTGGCATTGATATGTGATTCCGATATATGTGTGCGAG
1 TAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGATATATGTGTGCGAG
* * *
33767425 TAAGACAACATTTAATACGTTGGTATCGATATGTGATTCTGATATATGTGTGCGAG
1 TAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGATATATGTGTGCGAG
*
33767481 TAAGACCACATTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAG
1 TAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGATATATGTGTGCGAG
*
33767537 TAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCGA
1 TAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGA
33767579 GTTTAATATG
Statistics
Matches: 144, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 144 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (56 bp):
TAAGACCACATTTAATACGTTGGCATCGATATGTGATTCCGATATATGTGTGCGAG
Found at i:33767592 original size:33 final size:33
Alignment explanation
Indices: 33767546--33767608 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
33767536 GTAAGACCAC
33767546 GTTTAATACGTTGGCATCGATATGTGATTCCGA
1 GTTTAATACGTTGGCATCGATATGTGATTCCGA
*
33767579 GTTTAATATGTTGGCATCGATATGTGATTC
1 GTTTAATACGTTGGCATCGATATGTGATTC
33767609 TGATATATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.40
Consensus pattern (33 bp):
GTTTAATACGTTGGCATCGATATGTGATTCCGA
Found at i:33767642 original size:89 final size:89
Alignment explanation
Indices: 33767491--33767667 Score: 327
Period size: 89 Copynumber: 2.0 Consensus size: 89
33767481 TAAGACCACA
33767491 TTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACG
1 TTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACG
*
33767556 TTGGCATCGATATGTGATTCCGAG
66 TTAGCATCGATATGTGATTCCGAG
*
33767580 TTTAATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACG
1 TTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACG
*
33767645 TTAGCTTCGATATGTGATTCCGA
66 TTAGCATCGATATGTGATTCCGA
33767668 TATATGTGTG
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 85 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (89 bp):
TTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACG
TTAGCATCGATATGTGATTCCGAG
Found at i:33767670 original size:56 final size:56
Alignment explanation
Indices: 33767579--33767713 Score: 216
Period size: 56 Copynumber: 2.4 Consensus size: 56
33767569 GTGATTCCGA
* *
33767579 GTTTAATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCAC
1 GTTTAATACGTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCAC
* * *
33767635 GTTTAATACGTTAGCTTCGATATGTGATTCCGATATATGTGTGCGTGTAAGACCAC
1 GTTTAATACGTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCAC
*
33767691 GTCTAATACGTTGGCATCGATAT
1 GTTTAATACGTTGGCATCGATAT
33767714 ATGTGGTCAC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (56 bp):
GTTTAATACGTTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCAC
Found at i:33767698 original size:145 final size:145
Alignment explanation
Indices: 33767435--33767713 Score: 486
Period size: 145 Copynumber: 1.9 Consensus size: 145
33767425 TAAGACAACA
*
33767435 TTTAATACGTTGGTATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACATTTAATACG
1 TTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACATTTAATACG
* * *
33767500 TTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCG
66 TTAGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTCTAATACGTTGGCATCG
33767565 ATATGTGATTCCGAG
131 ATATGTGATTCCGAG
* *
33767580 TTTAATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACG
1 TTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACATTTAATACG
* *
33767645 TTAGCTTCGATATGTGATTCCGATATATGTGTGCGTGTAAGACCACGTCTAATACGTTGGCATCG
66 TTAGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTCTAATACGTTGGCATCG
33767710 ATAT
131 ATAT
33767714 ATGTGGTCAC
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
145 126 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (145 bp):
TTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACATTTAATACG
TTAGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGACCACGTCTAATACGTTGGCATCG
ATATGTGATTCCGAG
Found at i:33768274 original size:26 final size:26
Alignment explanation
Indices: 33768245--33768298 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
33768235 TTATGGAATG
33768245 ATCCATGAATATATGTATATAAGTTT
1 ATCCATGAATATATGTATATAAGTTT
*
33768271 ATCCATGAATATATGTATATGAGTTT
1 ATCCATGAATATATGTATATAAGTTT
33768297 AT
1 AT
33768299 GTATATTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (26 bp):
ATCCATGAATATATGTATATAAGTTT
Found at i:33768744 original size:61 final size:61
Alignment explanation
Indices: 33768649--33768776 Score: 256
Period size: 61 Copynumber: 2.1 Consensus size: 61
33768639 GGCATGTATA
33768649 GGCTTGTTTTATATATATTTGGTTTTGAAATTTGTATATGTATTTAAAGCCATGCGAAAAT
1 GGCTTGTTTTATATATATTTGGTTTTGAAATTTGTATATGTATTTAAAGCCATGCGAAAAT
33768710 GGCTTGTTTTATATATATTTGGTTTTGAAATTTGTATATGTATTTAAAGCCATGCGAAAAT
1 GGCTTGTTTTATATATATTTGGTTTTGAAATTTGTATATGTATTTAAAGCCATGCGAAAAT
33768771 GGCTTG
1 GGCTTG
33768777 CTTATTATGC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (61 bp):
GGCTTGTTTTATATATATTTGGTTTTGAAATTTGTATATGTATTTAAAGCCATGCGAAAAT
Found at i:33769344 original size:14 final size:14
Alignment explanation
Indices: 33769325--33769354 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
33769315 ATGTCGCAAC
33769325 TAAACTCAATGTAT
1 TAAACTCAATGTAT
33769339 TAAACTCAATGTAT
1 TAAACTCAATGTAT
33769353 TA
1 TA
33769355 CTTACAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (14 bp):
TAAACTCAATGTAT
Found at i:33775339 original size:19 final size:18
Alignment explanation
Indices: 33775317--33775388 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 18
33775307 TGTGTAAAAA
33775317 TTATTATATATTATATCTT
1 TTATTAT-TATTATATCTT
*
33775336 TTATTATTCATTATATTATTT
1 TTATTATT-ATTATA-T-CTT
*
33775357 TTATT-TTACTATATCATT
1 TTATTATTATTATATC-TT
33775375 TTATTATTAATTAT
1 TTATTATT-ATTAT
33775389 TTATTATGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
18 9 0.21
19 20 0.47
20 7 0.16
21 7 0.16
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTATTATTATATCTT
Found at i:33775391 original size:27 final size:26
Alignment explanation
Indices: 33775319--33775390 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
33775309 TGTAAAAATT
* *
33775319 ATTATA-TATTATATCTTTTATTATTC
1 ATTATATTATTAT-TATTTTACTATTC
*
33775345 ATTATATTATTTTTATTTTACTATATC
1 ATTATATTATTATTATTTTACTAT-TC
*
33775372 ATTTTATTATTAATTATTT
1 ATTATATTATT-ATTATTT
33775391 ATTATGTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 15 0.39
27 17 0.45
28 6 0.16
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (26 bp):
ATTATATTATTATTATTTTACTATTC
Found at i:33776669 original size:25 final size:25
Alignment explanation
Indices: 33776639--33776731 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 25
33776629 CTTTCTCGAG
*
33776639 CATATAACAGGAAGCTTATGT-GAGC
1 CATATAACAGGAAGCTCAT-TAGAGC
* * *
33776664 CATATAACGGGAAGCTTATTCGAGC
1 CATATAACAGGAAGCTCATTAGAGC
** *
33776689 GGTATAACAAGAAGCTCATTAGAGC
1 CATATAACAGGAAGCTCATTAGAGC
*
33776714 CATA-ATCAGGAAGCTCAT
1 CATATAACAGGAAGCTCAT
33776732 GCGAGCCAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
24 13 0.23
25 43 0.77
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (25 bp):
CATATAACAGGAAGCTCATTAGAGC
Found at i:33783448 original size:27 final size:27
Alignment explanation
Indices: 33783418--33783520 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
33783408 ATTACCAAAG
* * *
33783418 TACCCCCAATTTACAGAATGACCGTTC
1 TACCCTCAATTTACAGAATTACCGTTT
* * *
33783445 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCGTTT
** *
33783472 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCGTTT
*
33783499 TACCCTCAATTTACAAAATTAC
1 TACCCTCAATTTACAGAATTAC
33783521 TAAAATACCC
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCGTTT
Found at i:33783530 original size:54 final size:54
Alignment explanation
Indices: 33783400--33783530 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 54
33783390 AATACTTTAG
* * *** *
33783400 TTTACCAAATTACCAAAGTACCCCCAATTTACAGAATGACCGTTCTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTTGATTTACAGAATGACCGTTCTACCCTCAA
* * *** * * *
33783454 TTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCAA
1 TTTACAAAATTACCAAAATACCCTTGATTTACAGAATGACCGTTCTACCCTCAA
*
33783508 TTTACAAAATTACTAAAATACCC
1 TTTACAAAATTACCAAAATACCC
33783531 CTGGTTTGTA
Statistics
Matches: 58, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.34
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCTTGATTTACAGAATGACCGTTCTACCCTCAA
Found at i:33783570 original size:28 final size:27
Alignment explanation
Indices: 33783513--33783865 Score: 150
Period size: 27 Copynumber: 13.0 Consensus size: 27
33783503 CTCAATTTAC
*
33783513 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
33783540 AAAATTACTAAAATACCTCCTGATTTGT
1 AAAATTACTAAAATACC-CCTGATTTGT
* *
33783568 AAAATTACTGAAATA-CCCTCGACTTGT
1 AAAATTACTAAAATACCCCT-GATTTGT
* * * *
33783595 AAAAATTACCAAAGTA-CCCTCAATTTAT
1 -AAAATTACTAAAATACCCCT-GATTTGT
* * **** *
33783623 AGAATTATTGTTTTA-CCCTCGATTTAT
1 AAAATTACTAAAATACCCCT-GATTTGT
* * *** **
33783650 AGAATTATTATTTTACCCCTGATTTAC
1 AAAATTACTAAAATACCCCTGATTTGT
* ***
33783677 AAAATTACCATTTTA-CCCTCGATTATG-
1 AAAATTACTAAAATACCCCT-GATT-TGT
* **
33783704 -AAATTACTGAAATACCCCT-ATAGGGT
1 AAAATTACTAAAATACCCCTGAT-TTGT
* * *
33783730 AGAATTACCAAAACACCCCT-AGTTTGT
1 AAAATTACTAAAATACCCCTGA-TTTGT
* * *
33783757 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
* ** *
33783784 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACTAAAATACCCCT-GATTTGT
* **
33783811 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTAAAATACCCCTGATTTGT
* *
33783838 AAAATTA-TAGAAATACCCTTAATTTGT
1 AAAATTACTA-AAATACCCCTGATTTGT
33783865 A
1 A
33783866 GATTTACCAA
Statistics
Matches: 256, Mismatches: 55, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
25 3 0.01
26 20 0.08
27 179 0.70
28 54 0.21
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGATTTGT
Found at i:33783842 original size:81 final size:80
Alignment explanation
Indices: 33783663--33783844 Score: 197
Period size: 81 Copynumber: 2.3 Consensus size: 80
33783653 ATTATTATTT
*** * *
33783663 TACCCCTGATTTACAAAATTACCATTTTACCCTCGATTATGAAATTACTGAAATACCCCTATAGG
1 TACCCCTGATTTACAAAATTACCAAAATACCCTCGATTATGAAATTACCGAAATACCCCAATAGG
*
33783728 GTAGAATTACCAAAA
66 GTAAAATTACCAAAA
* ** * * *
33783743 CACCCCT-AGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAAT
1 TACCCCTGA-TTTACAAAATTACCAAAATACC-CTCGATTATGAAATTACCGAAATACCC-CAAT
**
33783807 -TTGTAAAATTACCAAAA
63 AGGGTAAAATTACCAAAA
33783824 TACCCCTGATTTACAAAATTA
1 TACCCCTGATTTACAAAATTA
33783845 TAGAAATACC
Statistics
Matches: 81, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
79 1 0.01
80 23 0.28
81 53 0.65
82 4 0.05
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (80 bp):
TACCCCTGATTTACAAAATTACCAAAATACCCTCGATTATGAAATTACCGAAATACCCCAATAGG
GTAAAATTACCAAAA
Found at i:33783843 original size:54 final size:54
Alignment explanation
Indices: 33783507--33783882 Score: 199
Period size: 54 Copynumber: 6.9 Consensus size: 54
33783497 TTTACCCTCA
* ** * *
33783507 ATTTACAAAATTACTAAAATACCC-CTGGTTTGTAAAATTACTAAAATACCTCCTG
1 ATTTATAAAATTACCGAAATACCCTC-GATTTGTAAAATTACCAAAATACC-CCTG
* * * * *
33783562 ATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAATTACCAAAGTA-CCCTCA
1 ATTTATAAAATTACCGAAATACCCTCGATTTGT-AAAATTACCAAAATACCCCT-G
* ** *** * * ** ***
33783617 ATTTATAGAATTATTGTTTTACCCTCGATTTATAGAATTATTATTTTACCCCTG
1 ATTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTG
* ** **
33783671 ATTTACAAAATTACC-ATTTTACCCTCGATTATG--AAATTACTGAAATACCCCT-
1 ATTTATAAAATTACCGA-AATACCCTCGATT-TGTAAAATTACCAAAATACCCCTG
*** * * * * *
33783723 ATAGGGTAGAATTACCAAAACACCC-CTAGTTTGTAAAATTACCAAAATACCACTG
1 AT-TTATAAAATTACCGAAATACCCTCGA-TTTGTAAAATTACCAAAATACCCCTG
* * * *
33783778 GTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
1 ATTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTG
* ** ** * * *
33783832 ATTTACAAAATTATAGAAATACCCTTAATTTGTAGATTTACCAAAACACCC
1 ATTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCC
33783883 TTGTAGGATG
Statistics
Matches: 242, Mismatches: 66, Indels: 27
0.72 0.20 0.08
Matches are distributed among these distances:
52 6 0.02
53 27 0.11
54 135 0.56
55 60 0.25
56 14 0.06
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (54 bp):
ATTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTG
Found at i:33784635 original size:25 final size:25
Alignment explanation
Indices: 33784607--33784654 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33784597 TTATAATATG
* * *
33784607 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
33784632 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
33784655 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:33784695 original size:9 final size:10
Alignment explanation
Indices: 33784683--33784739 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
33784673 TACGTGGGAT
33784683 ATGATAT-AC
1 ATGATATGAC
*
33784692 ATGAT-TGAT
1 ATGATATGAC
33784701 ATGATATGCAC
1 ATGATATG-AC
*
33784712 ATGATATG-T
1 ATGATATGAC
33784721 ATGATATGCAC
1 ATGATATG-AC
33784732 ATGATATG
1 ATGATATG
33784740 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:33784715 original size:20 final size:20
Alignment explanation
Indices: 33784682--33784756 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
33784672 ATACGTGGGA
33784682 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
33784699 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
33784720 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
33784740 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
33784757 GTAATCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:33784717 original size:11 final size:11
Alignment explanation
Indices: 33784701--33784756 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
33784691 CATGATTGAT
33784701 ATGATATGCAC
1 ATGATATGCAC
*
33784712 ATGATATG--T
1 ATGATATGCAC
33784721 ATGATATGCAC
1 ATGATATGCAC
*
33784732 ATGATATG--T
1 ATGATATGCAC
*
33784741 ATGAAATGCAC
1 ATGATATGCAC
33784752 ATGAT
1 ATGAT
33784757 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:33784834 original size:25 final size:25
Alignment explanation
Indices: 33784806--33784899 Score: 102
Period size: 26 Copynumber: 3.7 Consensus size: 25
33784796 GAGGAAGTGC
33784806 AAAAGGGCTATGCCCCAGTTTATTG
1 AAAAGGGCTATGCCCCAGTTTATTG
**
33784831 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGC-TATGCCCCAGTTTATTG
* *
33784857 AAAAGGGCTTTGCACCAG-TTATT-
1 AAAAGGGCTATGCCCCAGTTTATTG
*
33784880 AAAAGAGGCTAGGCCTCCAG
1 AAAAG-GGCTATGCC-CCAG
33784900 ATATATGATA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
23 5 0.09
24 9 0.16
25 20 0.35
26 23 0.40
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGTTTATTG
Found at i:33784848 original size:26 final size:26
Alignment explanation
Indices: 33784806--33784889 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
33784796 GAGGAAGTGC
33784806 AAAAGGGC-TATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
33784831 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
33784857 AAAAGGGCTT-TGCACCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
33784880 AAAAGAGGCT
1 AAAAG-GGCT
33784890 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 7 0.13
25 15 0.29
26 25 0.48
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:33785081 original size:42 final size:42
Alignment explanation
Indices: 33785022--33785113 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
33785012 TAGTCTCCCC
* ** *
33785022 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
33785064 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
33785106 AAATGGGC
1 AAATGGGC
33785114 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:33787146 original size:44 final size:44
Alignment explanation
Indices: 33787062--33787146 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
33787052 TGGACCAATG
* * ** *
33787062 TAATAAATAGTCTTTAGTATTGACATTGAACGTCATTATGTATT
1 TAATAAATAGCCCTTAGTATTGACATTGAACAACACTATGTATT
33787106 TAATAAATAGCCCTTAGTATTGACATTGAACAACACTATGT
1 TAATAAATAGCCCTTAGTATTGACATTGAACAACACTATGT
33787147 GTTAAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (44 bp):
TAATAAATAGCCCTTAGTATTGACATTGAACAACACTATGTATT
Found at i:33788032 original size:37 final size:38
Alignment explanation
Indices: 33787991--33788491 Score: 620
Period size: 37 Copynumber: 13.4 Consensus size: 38
33787981 TAGAAATGCA
33787991 GTGAT-TTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
1 GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
*
33788028 GTGAT-TTCGGGCTATGTGCCTAGTAGGCTTTGTGCCG
1 GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* * **
33788065 GTGTTATTCGGGCTATGTGCTTAGCAGGCTTTGTGCTA
1 GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* *
33788103 GTGAT-TTTGGGCCATGTGCCTAGCAGGCTTTGTGCCG
1 GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
*
33788140 GTGAT-TTTGGGCTATGTGCCTAGCAGGCTTTGTGCCG
1 GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* * *
33788177 GTGTTATTCGGGCTATGTGCTTAGCAGGCTTTGTGCTG
1 GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* *
33788215 GTGAT-TTTGGGCCATGTGCCTAGCAGGCTTTGTGCCG
1 GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* *
33788252 GTGAT-TTTGGGCTATGTGCCTGGCAGGCTTTGTGCCG
1 GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* * *
33788289 GTGTTATTCGGGCTATGTGCTTAGCAGGCTTTGTGCTG
1 GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* *
33788327 GTGAT-TTTGGGCCATGTGCCTAGCAGGCTTTGTGCCG
1 GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
** ** ***
33788364 GTGATATTCAAGCTCCGTGCCTAGCAGGCTTTGTGTTA
1 GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* * **
33788402 GTGATATTCGGGCTCTGTGCCTAGCAGGCTCTGTGCTA
1 GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
* * * * * *
33788440 GAGATATTTGGGCTCTGTGTCTAGTAGGCTTTGCGCCG
1 GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
33788478 GTGATATTCGGGCT
1 GTGATATTCGGGCT
33788492 CTATACCTAT
Statistics
Matches: 402, Mismatches: 58, Indels: 7
0.86 0.12 0.01
Matches are distributed among these distances:
37 207 0.51
38 195 0.49
ACGTcount: A:0.12, C:0.19, G:0.34, T:0.35
Consensus pattern (38 bp):
GTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
Found at i:33788120 original size:75 final size:75
Alignment explanation
Indices: 33787996--33788482 Score: 581
Period size: 75 Copynumber: 6.5 Consensus size: 75
33787986 ATGCAGTGAT
* * *
33787996 TTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGATTTCGGGCTATGTGCCTAGTAGGCTTTGT
1 TTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGT
33788061 GCCGGTGTTA
66 GCCGGTGTTA
* **
33788071 TTCGGGCTATGTGCTTAGCAGGCTTTGTGCTAGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGT
1 TTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGT
33788136 GCCGGTGATT-
66 GCCGGTG-TTA
* *
33788146 TT-GGGCTATGTGCCTAGCAGGCTTTGTGCCGGTG-TTATTCGGGCTATGTGCTTAGCAGGCTTT
1 TTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGATT-TT-GGGCCATGTGCCTAGCAGGCTTT
*
33788209 GTGCTGGTGATT-
64 GTGCCGGTG-TTA
* * *
33788221 TT-GGGCCATGTGCCTAGCAGGCTTTGTGCCGGTGATTTTGGGCTATGTGCCTGGCAGGCTTTGT
1 TTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGT
33788285 GCCGGTGTTA
66 GCCGGTGTTA
* *
33788295 TTCGGGCTATGTGCTTAGCAGGCTTTGTGCTGGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGT
1 TTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGT
*
33788360 GCCGGTGATA
66 GCCGGTGTTA
** ** *** * *
33788370 TTCAAGCTCCGTGCCTAGCAGGCTTTGTGTTAGTGATATTCGGGCTC-TGTGCCTAGCAGGCTCT
1 TTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGAT-TTTGGGC-CATGTGCCTAGCAGGCTTT
** * *
33788434 GTGCTAGAGATA
64 GTGCCGGTGTTA
* * * * *
33788446 TTTGGGCTCTGTGTCTAGTAGGCTTTGCGCCGGTGAT
1 TTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGAT
33788483 ATTCGGGCTC
Statistics
Matches: 360, Mismatches: 44, Indels: 15
0.86 0.11 0.04
Matches are distributed among these distances:
73 4 0.01
74 62 0.17
75 231 0.64
76 62 0.17
77 1 0.00
ACGTcount: A:0.12, C:0.20, G:0.34, T:0.35
Consensus pattern (75 bp):
TTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGT
GCCGGTGTTA
Found at i:33788187 original size:112 final size:112
Alignment explanation
Indices: 33787990--33788491 Score: 754
Period size: 112 Copynumber: 4.5 Consensus size: 112
33787980 ATAGAAATGC
* * *
33787990 AGTGATTTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGATTTCGGGCTATGTGCCTAGTAGG
1 AGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGTGCCGGTGATTTCGGGCTATGTGCCTAGCAGG
33788055 CTTTGTGCCGGTGTTATTCGGGCTATGTGCTTAGCAGGCTTTGTGCT
66 CTTTGTGCCGGTGTTATTCGGGCTATGTGCTTAGCAGGCTTTGTGCT
*
33788102 AGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGTGCCGGTGATTTTGGGCTATGTGCCTAGCAGG
1 AGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGTGCCGGTGATTTCGGGCTATGTGCCTAGCAGG
33788167 CTTTGTGCCGGTGTTATTCGGGCTATGTGCTTAGCAGGCTTTGTGCT
66 CTTTGTGCCGGTGTTATTCGGGCTATGTGCTTAGCAGGCTTTGTGCT
* * *
33788214 GGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGTGCCGGTGATTTTGGGCTATGTGCCTGGCAGG
1 AGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGTGCCGGTGATTTCGGGCTATGTGCCTAGCAGG
33788279 CTTTGTGCCGGTGTTATTCGGGCTATGTGCTTAGCAGGCTTTGTGCT
66 CTTTGTGCCGGTGTTATTCGGGCTATGTGCTTAGCAGGCTTTGTGCT
* ** **
33788326 GGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGTGCCGGTGATATTCAAGCTCCGTGCCTAGCAG
1 AGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGTGCCGGTGAT-TTCGGGCTATGTGCCTAGCAG
*** * * * *
33788391 GCTTTGTGTTAGTGATATTCGGGCTCTGTGCCTAGCAGGCTCTGTGCT
65 GCTTTGTGCCGGTGTTATTCGGGCTATGTGCTTAGCAGGCTTTGTGCT
* * * *
33788439 AGAGATATTTGGGCTC-TGTGTCTAGTAGGCTTTGCGCCGGTGATATTCGGGCT
1 AGTGAT-TTTGGGC-CATGTGCCTAGCAGGCTTTGTGCCGGTGAT-TTCGGGCT
33788492 CTATACCTAT
Statistics
Matches: 361, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
112 261 0.72
113 60 0.17
114 39 0.11
115 1 0.00
ACGTcount: A:0.12, C:0.19, G:0.34, T:0.35
Consensus pattern (112 bp):
AGTGATTTTGGGCCATGTGCCTAGCAGGCTTTGTGCCGGTGATTTCGGGCTATGTGCCTAGCAGG
CTTTGTGCCGGTGTTATTCGGGCTATGTGCTTAGCAGGCTTTGTGCT
Found at i:33797374 original size:29 final size:29
Alignment explanation
Indices: 33797305--33797407 Score: 122
Period size: 29 Copynumber: 3.6 Consensus size: 29
33797295 TTCACATACC
* * * *
33797305 TGTATCTGGCTCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
33797333 T-TCAT-TGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
33797361 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
33797390 TTTATATGGCCCATTAGG
1 TGTATATGGCCCATTAGG
33797408 ACCAGTCACA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
27 14 0.22
28 11 0.17
29 40 0.62
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:33812718 original size:42 final size:43
Alignment explanation
Indices: 33812636--33812725 Score: 164
Period size: 42 Copynumber: 2.1 Consensus size: 43
33812626 AAAGAAAAAG
*
33812636 GGAGAAAGGAAACGTTTGAAAGAAAAAAAATAAAAATTCGGTA
1 GGAGAAAGGAAACGTTCGAAAGAAAAAAAATAAAAATTCGGTA
33812679 GGAGAAAGGAAACGTTCGAAAG-AAAAAAATAAAAATTCGGTA
1 GGAGAAAGGAAACGTTCGAAAGAAAAAAAATAAAAATTCGGTA
33812721 GGAGA
1 GGAGA
33812726 GAGAAGAACA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 25 0.54
43 21 0.46
ACGTcount: A:0.54, C:0.06, G:0.26, T:0.14
Consensus pattern (43 bp):
GGAGAAAGGAAACGTTCGAAAGAAAAAAAATAAAAATTCGGTA
Found at i:33819158 original size:43 final size:42
Alignment explanation
Indices: 33819109--33819221 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 42
33819099 GTTTGTCGAG
*
33819109 ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATTG-T
1 ATGTGATTA-ATGTAAGACCATGTCTGGGACATTGACATCGTT
*
33819151 ATTGTGATTAAGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTAA-TGTAAGACCATGTCTGGGACATTGACATCGTT
* **
33819195 ATATGATTTTGTGTAAGACCATGTCTG
1 ATGTGA-TTAATGTAAGACCATGTCTG
33819222 TAACACCCCT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.03
43 56 0.90
44 4 0.06
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (42 bp):
ATGTGATTAATGTAAGACCATGTCTGGGACATTGACATCGTT
Found at i:33822350 original size:30 final size:30
Alignment explanation
Indices: 33822307--33822363 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
33822297 ACGGCCATGA
*
33822307 CACACGGGCGTGTGGTCTGCCCGTGTGCCT
1 CACACGGGCGTGTGGTCTACCCGTGTGCCT
* * *
33822337 CACATGGGTGTGTGGTTTACCCGTGTG
1 CACACGGGCGTGTGGTCTACCCGTGTG
33822364 GAAGTGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.09, C:0.26, G:0.37, T:0.28
Consensus pattern (30 bp):
CACACGGGCGTGTGGTCTACCCGTGTGCCT
Found at i:33828794 original size:47 final size:47
Alignment explanation
Indices: 33828705--33828795 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 47
33828695 AATCGATAAG
* *
33828705 TACCTATACAGTGGCCCGTAGCCAAATCAAGGTAACTCCTCACAAAA
1 TACCTATACAGTGGCCCGTAACCAAATCAAGGTAACTACTCACAAAA
**
33828752 TACCTATACCA-TGGCCCGTAACCAAATCAAGGTATTTACTCACA
1 TACCTATA-CAGTGGCCCGTAACCAAATCAAGGTAACTACTCACA
33828796 CCCAAAATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 37 0.95
48 2 0.05
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (47 bp):
TACCTATACAGTGGCCCGTAACCAAATCAAGGTAACTACTCACAAAA
Found at i:33834867 original size:43 final size:43
Alignment explanation
Indices: 33834791--33834915 Score: 173
Period size: 43 Copynumber: 3.0 Consensus size: 43
33834781 GTTAAATCCT
* * * *
33834791 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCATGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
33834832 GCAGGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
33834875 GCAGGCTTAGTGACGGTGATGTGTATTTGGGCCTTCGTGCC
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCC
33834916 AGTGATGTGT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 15 0.20
42 2 0.03
43 57 0.77
ACGTcount: A:0.14, C:0.22, G:0.32, T:0.31
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:33834928 original size:27 final size:27
Alignment explanation
Indices: 33834890--33834942 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
33834880 CTTAGTGACG
* *
33834890 GTGATGTGTATTTGGGCCTTCGTGCCA
1 GTGATGTGTATTCGGGCATTCGTGCCA
33834917 GTGATGTGTATTCGGGCATTCGTGCC
1 GTGATGTGTATTCGGGCATTCGTGCC
33834943 TAGCAGGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.11, C:0.19, G:0.34, T:0.36
Consensus pattern (27 bp):
GTGATGTGTATTCGGGCATTCGTGCCA
Found at i:33834929 original size:70 final size:70
Alignment explanation
Indices: 33834841--33834985 Score: 213
Period size: 70 Copynumber: 2.1 Consensus size: 70
33834831 AGCAGGCTTA
* * *
33834841 GTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTAGCAGGCTT-AGTGAC-GGTGATGTGTATTTG
1 GTGCCAGTGATGTGTATTCGAGCATTCGTGCCTAGCAGGCTTCA-TG-CTGGTGATGTGTATTCG
33834904 GGCCTTC
64 GGCCTTC
*
33834911 GTGCCAGTGATGTGTATTCGGGCATTCGTGCCTAGCAGGCTTCATGCTGGTGATGTGTATTCGGG
1 GTGCCAGTGATGTGTATTCGAGCATTCGTGCCTAGCAGGCTTCATGCTGGTGATGTGTATTCGGG
*
33834976 CTTTC
66 CCTTC
33834981 GTGCC
1 GTGCC
33834986 TAGCAGGCGT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
69 1 0.01
70 66 0.97
71 1 0.01
ACGTcount: A:0.12, C:0.21, G:0.34, T:0.33
Consensus pattern (70 bp):
GTGCCAGTGATGTGTATTCGAGCATTCGTGCCTAGCAGGCTTCATGCTGGTGATGTGTATTCGGG
CCTTC
Found at i:33835006 original size:43 final size:43
Alignment explanation
Indices: 33834912--33835006 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
33834902 TGGGCCTTCG
* * *
33834912 TGCCAGTGATGTGTATTCGGGCATTCGTGCCTAGCAGGCTTCA
1 TGCCGGTGATGTGTATTCGGGCATTCGTGCCTAGCAGGCGTAA
* *
33834955 TGCTGGTGATGTGTATTCGGGCTTTCGTGCCTAGCAGGCGTAA
1 TGCCGGTGATGTGTATTCGGGCATTCGTGCCTAGCAGGCGTAA
33834998 TGCCGGTGA
1 TGCCGGTGA
33835007 AATGATATGT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.31
Consensus pattern (43 bp):
TGCCGGTGATGTGTATTCGGGCATTCGTGCCTAGCAGGCGTAA
Found at i:33836548 original size:28 final size:28
Alignment explanation
Indices: 33836508--33836566 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
33836498 TTTATGAAAC
33836508 ATGGTAGTTGCAACTAAACGTAATAACT
1 ATGGTAGTTGCAACTAAACGTAATAACT
33836536 ATGGTAGTTGCAACTAAACGTAATAACT
1 ATGGTAGTTGCAACTAAACGTAATAACT
33836564 ATG
1 ATG
33836567 TTATATTACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (28 bp):
ATGGTAGTTGCAACTAAACGTAATAACT
Found at i:33840849 original size:14 final size:14
Alignment explanation
Indices: 33840810--33840855 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
33840800 CCAAAAAAGT
33840810 AAATCATTTTCCA-G
1 AAATCATTTT-CAGG
33840824 AAATCATTTTCAGG
1 AAATCATTTTCAGG
*
33840838 AAGTCATTTTCAGTG
1 AAATCATTTTCAG-G
33840853 AAA
1 AAA
33840856 CAAACGGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 2 0.07
14 23 0.82
15 3 0.11
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (14 bp):
AAATCATTTTCAGG
Found at i:33856442 original size:37 final size:37
Alignment explanation
Indices: 33856387--33856526 Score: 226
Period size: 37 Copynumber: 3.8 Consensus size: 37
33856377 CGAATAGTCC
* * * * *
33856387 CCACGCGTAGTTATCGGGTGTTATCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
33856424 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
33856461 CCACACATAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
33856498 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
33856527 ATATATTTCC
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:33856725 original size:48 final size:48
Alignment explanation
Indices: 33856667--33857350 Score: 1233
Period size: 48 Copynumber: 14.2 Consensus size: 48
33856657 ATATACACAC
*
33856667 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33856715 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
33856763 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
33856811 ATCTTATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33856859 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
33856907 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
33856955 ATCTTATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33857003 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
33857051 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
33857099 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33857147 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
33857195 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
33857243 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33857291 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33857339 ATCTCATACATA
1 ATCTCATACATA
33857351 CACATATACA
Statistics
Matches: 611, Mismatches: 25, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 611 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:33857367 original size:71 final size:71
Alignment explanation
Indices: 33857280--33857411 Score: 228
Period size: 71 Copynumber: 1.9 Consensus size: 71
33857270 TCGGCTTTAC
*
33857280 CACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 CACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCA
33857345 TACATA
66 TACATA
* * *
33857351 CACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACACATATATAT
1 CACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATAT
33857412 ATTTATCTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.34
Consensus pattern (71 bp):
CACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCA
TACATA
Found at i:33861037 original size:2 final size:2
Alignment explanation
Indices: 33861030--33861054 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33861020 TTCAGAATCT
33861030 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
33861055 AGTAAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33865672 original size:37 final size:37
Alignment explanation
Indices: 33865614--33865753 Score: 210
Period size: 37 Copynumber: 3.8 Consensus size: 37
33865604 CGAATAGTCC
* * *
33865614 CCACGCGTAGTTATCAGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCAGGTCTTACCCGGACATAATCT
33865651 CCACACGTAGTCATC-GAGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCAG-GTCTTACCCGGACATAATCT
* *
33865688 CCACACGTAGTCATCGGGTCTTACTCGGACATAATCT
1 CCACACGTAGTCATCAGGTCTTACCCGGACATAATCT
*
33865725 CCACATGTAGTCATCAGGTCTTACCCGGA
1 CCACACGTAGTCATCAGGTCTTACCCGGA
33865754 ATATATTTCC
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
36 1 0.01
37 92 0.98
38 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCAGGTCTTACCCGGACATAATCT
Found at i:33865952 original size:48 final size:48
Alignment explanation
Indices: 33865894--33866375 Score: 802
Period size: 48 Copynumber: 10.0 Consensus size: 48
33865884 ATATACACAC
* *
33865894 ATCTCCTACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33865942 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
33865990 ATCTTATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
33866038 ATATCATTCATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
33866086 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
33866134 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
33866182 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33866230 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
33866278 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * * *
33866326 ATCTCATATATATTTCACATTAGCCATTCAGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
33866374 AT
1 AT
33866376 ATTTATCTTG
Statistics
Matches: 409, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 409 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:33873826 original size:28 final size:27
Alignment explanation
Indices: 33873759--33873828 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
33873749 AGAATATGAT
* *
33873759 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
33873786 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
33873814 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
33873829 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:33873844 original size:55 final size:53
Alignment explanation
Indices: 33873704--33873855 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
33873694 TAAATTGTAC
* *
33873704 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
33873757 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
33873812 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
33873856 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:33873860 original size:27 final size:27
Alignment explanation
Indices: 33873705--33873860 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
33873695 AAATTGTACA
* *
33873705 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
33873732 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
33873759 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
33873786 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
33873814 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
33873841 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
33873861 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Done.