Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 155 of 410
Found at i:47191808 original size:50 final size:50
Alignment explanation
Indices: 47191698--47191975 Score: 245
Period size: 50 Copynumber: 5.5 Consensus size: 50
47191688 TTGGTACGCA
* * * * * *
47191698 TAGTAGCCTACACTTAATACTACACATGTAACC-AACAATC-CAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA-TACACG
*
47191747 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
* * * * * * * ** *
47191797 TAGTAGTCTGCACTTAGTACTACACACGTGATCGAAGTTGTCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CTATCTGATACACG
* * * *
47191848 TAGTAGCCTGCATTTAGTACTACACATGCGACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
* ** * * *
47191898 TAGTAGCCTGCACTTAATACTACACACGTGACCTAAAAATTTGTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTG--ATACACG
* *
47191950 TATTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
47191976 TCTATTCTCA
Statistics
Matches: 182, Mismatches: 42, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
49 29 0.16
50 89 0.49
51 37 0.20
52 27 0.15
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
Found at i:47191871 original size:101 final size:101
Alignment explanation
Indices: 47191747--47191928 Score: 301
Period size: 101 Copynumber: 1.8 Consensus size: 101
47191737 CCAGTACACG
* *
47191747 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGTCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
*
47191812 AGTACTACACACGTGATCGAAGTTGTCGGGTATGCA
66 AATACTACACACGTGATCGAAGTTGTCGGGTATGCA
* * * *
47191848 TAGTAGCCTGCATTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
47191913 AATACTACACACGTGA
66 AATACTACACACGTGA
47191929 CCTAAAAATT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
AATACTACACACGTGATCGAAGTTGTCGGGTATGCA
Found at i:47195537 original size:32 final size:32
Alignment explanation
Indices: 47195491--47195552 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
47195481 ACAAATTCAA
* *
47195491 GTGAAAACTCTAATATTTTTTTTCTCTAACAG
1 GTGAAAACTCTAATAGTTATTTTCTCTAACAG
*
47195523 GTGAAAACTTTAATAGTTATTTTCTCTAAC
1 GTGAAAACTCTAATAGTTATTTTCTCTAAC
47195553 TTTTTTCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (32 bp):
GTGAAAACTCTAATAGTTATTTTCTCTAACAG
Found at i:47202069 original size:27 final size:29
Alignment explanation
Indices: 47202039--47202153 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
47202029 ACGCAAGAGC
*
47202039 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
47202066 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
47202095 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* ** *
47202125 ATATATTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
47202154 GTACAATTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 43 0.54
30 29 0.36
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:47202106 original size:30 final size:29
Alignment explanation
Indices: 47202051--47202153 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
47202041 ATAGTGAATC
47202051 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
47202080 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
47202110 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
47202139 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47202154 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:47202143 original size:59 final size:60
Alignment explanation
Indices: 47202050--47202183 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
47202040 TATAGTGAAT
* * *
47202050 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
47202109 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
47202169 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
47202184 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:47209613 original size:29 final size:29
Alignment explanation
Indices: 47209581--47209712 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
47209571 ATAGTGAATC
47209581 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
47209610 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
47209640 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
47209669 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
47209698 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47209713 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:47209722 original size:59 final size:59
Alignment explanation
Indices: 47209581--47209712 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
47209571 ATAGTGAATC
47209581 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
47209640 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
47209698 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47209713 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:47214154 original size:16 final size:18
Alignment explanation
Indices: 47214135--47214169 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
47214125 TTCAATTTCA
47214135 TAATTTA-TTC-ACTATT
1 TAATTTACTTCTACTATT
47214151 TAATTTACTTCTACTATT
1 TAATTTACTTCTACTATT
47214169 T
1 T
47214170 TTAGTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 3 0.18
18 7 0.41
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATTTACTTCTACTATT
Found at i:47214996 original size:29 final size:29
Alignment explanation
Indices: 47214964--47215095 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
47214954 ATAGTGAATC
47214964 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
47214993 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
47215023 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
47215052 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
47215081 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47215096 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:47215105 original size:59 final size:59
Alignment explanation
Indices: 47214964--47215095 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
47214954 ATAGTGAATC
47214964 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
47215023 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
47215081 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47215096 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:47226709 original size:48 final size:48
Alignment explanation
Indices: 47226645--47226814 Score: 218
Period size: 48 Copynumber: 3.6 Consensus size: 48
47226635 ACATTACGAG
* * *
47226645 AGCCAATGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATACA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACA
* * * * * **
47226693 AGCCAGTGTAAGACATGTCCGGGACATGTATCAACATTGAGA-CGA-A
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACA
*
47226739 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACA
*
47226787 AGCTAGTGTAAGACATGTCTGGGACATG
1 AGCCAGTGTAAGACATGTCTGGGACATG
47226815 GCGTCAACTT
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
46 37 0.36
47 2 0.02
48 63 0.62
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (48 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACA
Found at i:47226897 original size:49 final size:49
Alignment explanation
Indices: 47226837--47226964 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 49
47226827 TGTGTGTCAT
* * *
47226837 TGTAAGACCTGTTTGGGACATGGCATCGACAC-CGATAGATGAGAGCCAG
1 TGTAAGACCTGTTTGGGACATGGCATCGAC-CTCAATACATGAAAGCCAG
* * **
47226886 TGTAAAACCTGTTTGGGACATGGCATCGGCCTCAATACATGAAAGTTAG
1 TGTAAGACCTGTTTGGGACATGGCATCGACCTCAATACATGAAAGCCAG
* *
47226935 TGTAAGACCTGTCTGGCACATGGCATCGAC
1 TGTAAGACCTGTTTGGGACATGGCATCGAC
47226965 TTTGACGTAC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 1 0.01
49 66 0.99
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
TGTAAGACCTGTTTGGGACATGGCATCGACCTCAATACATGAAAGCCAG
Found at i:47228335 original size:21 final size:21
Alignment explanation
Indices: 47228311--47228366 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
47228301 GTCAAAATGG
*
47228311 CCACACGGTTGTGTCGCCTTT
1 CCACACGGGTGTGTCGCCTTT
*
47228332 CCACACGGGCGTGTCGCCTTT
1 CCACACGGGTGTGTCGCCTTT
*
47228353 CCATACGGGTGTGT
1 CCACACGGGTGTGT
47228367 GCCCCTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.11, C:0.32, G:0.29, T:0.29
Consensus pattern (21 bp):
CCACACGGGTGTGTCGCCTTT
Found at i:47235354 original size:16 final size:17
Alignment explanation
Indices: 47235322--47235354 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
47235312 TTTAATTTAA
*
47235322 TTTTATTAAATTTTTTG
1 TTTTATTAAACTTTTTG
47235339 TTTTATT-AACTTTTTG
1 TTTTATTAAACTTTTTG
47235355 CATAATGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTTATTAAACTTTTTG
Found at i:47236206 original size:26 final size:24
Alignment explanation
Indices: 47236177--47236225 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
47236167 ATAAAAAAAG
*
47236177 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
47236203 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
47236226 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:47236245 original size:21 final size:21
Alignment explanation
Indices: 47236196--47236254 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
47236186 ATAATAAATC
*
47236196 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
47236216 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
47236238 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
47236255 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:47236331 original size:15 final size:16
Alignment explanation
Indices: 47236301--47236333 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
47236291 AAATGGTTAT
47236301 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
47236318 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
47236333 A
1 A
47236334 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:47236751 original size:15 final size:15
Alignment explanation
Indices: 47236716--47236754 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
47236706 TCAAAAACAC
* *
47236716 TTATAAATTTTAAAT
1 TTATAAAATTAAAAT
47236731 TT-TAAAATTAAAAT
1 TTATAAAATTAAAAT
47236745 TTATAAAATT
1 TTATAAAATT
47236755 GTCATCTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTATAAAATTAAAAT
Found at i:47242046 original size:23 final size:22
Alignment explanation
Indices: 47242011--47242056 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
47242001 TTTGATAATA
*
47242011 TGTTTTGATATAACAAATTAAAG
1 TGTTTTGAAATAA-AAATTAAAG
* *
47242034 TGTTTTTAAATAAAAGTTAAAG
1 TGTTTTGAAATAAAAATTAAAG
47242056 T
1 T
47242057 TGAACAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (22 bp):
TGTTTTGAAATAAAAATTAAAG
Found at i:47252103 original size:2 final size:2
Alignment explanation
Indices: 47252096--47252127 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
47252086 AAATGAATTA
47252096 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47252128 GTTATTATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47252609 original size:25 final size:25
Alignment explanation
Indices: 47252581--47252628 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
47252571 AATGATGGTA
*
47252581 CATGATATAT-TGATATATTGAAATG
1 CATGATATATGT-ATATAATGAAATG
47252606 CATGATATATGTATATAATGAAA
1 CATGATATATGTATATAATGAAA
47252629 CGGTAAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.38
Consensus pattern (25 bp):
CATGATATATGTATATAATGAAATG
Found at i:47255007 original size:33 final size:33
Alignment explanation
Indices: 47254968--47255033 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
47254958 AAAGTAAAAC
47254968 ACAATTATACATTTGTAAATAATCTTGATTAAA
1 ACAATTATACATTTGTAAATAATCTTGATTAAA
47255001 ACAATTATACATTTGTAAATAATCTTGATTAAA
1 ACAATTATACATTTGTAAATAATCTTGATTAAA
47255034 CTAGATGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (33 bp):
ACAATTATACATTTGTAAATAATCTTGATTAAA
Found at i:47260983 original size:88 final size:88
Alignment explanation
Indices: 47260834--47261012 Score: 322
Period size: 88 Copynumber: 2.0 Consensus size: 88
47260824 TTTTTTTATG
* *
47260834 GAATTACGAACTCGTTTAGATTATCTACTGGCGTAAGTTGTCCTTCTCACAATGTAAATGTTCTT
1 GAATTACGAACTCGTTTAGATTATCTACTGACGTAAGTTATCCTTCTCACAATGTAAATGTTCTT
*
47260899 ACGATGGCACTTATCATCAGTTT
66 ACGATGCCACTTATCATCAGTTT
*
47260922 GAATTACGAACTCGTTTAGATTATTTACTGACGTAAGTTATCCTTCTCACAATGTAAATGTTCTT
1 GAATTACGAACTCGTTTAGATTATCTACTGACGTAAGTTATCCTTCTCACAATGTAAATGTTCTT
47260987 ACGATGCCACTTATCATCAGTTT
66 ACGATGCCACTTATCATCAGTTT
47261010 GAA
1 GAA
47261013 CTTATACAAT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (88 bp):
GAATTACGAACTCGTTTAGATTATCTACTGACGTAAGTTATCCTTCTCACAATGTAAATGTTCTT
ACGATGCCACTTATCATCAGTTT
Found at i:47266980 original size:48 final size:48
Alignment explanation
Indices: 47266904--47267719 Score: 1182
Period size: 48 Copynumber: 16.8 Consensus size: 48
47266894 GTTACAACAC
* *
47266904 TCACATTAGCCATTCGGCTTTACCACATATTCTTATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
* * *
47266952 TCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
* * *
47267000 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
* * *
47267048 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
* *
47267096 TCACATTAGCCATTCGACTCTACCACATATACATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
*
47267144 TCACATTAGCCATTCGGATTTACGACATATACATATCTCATACATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTAC--C----AC--A--T-ATACATATCTCATACATATT
47267203 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
* * * * *
47267251 TCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
* *
47267299 TCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
* *
47267347 TCACATTAGACATTCGGCTTTACGACATATACATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
*
47267395 TCACATTAGCCATTCGGGTTTACCACATATACATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
* * * * *
47267443 TCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
* *
47267491 TCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
*
47267539 TCACATTAGCCATTCGGCTTTACCACATATATATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
* * * * * *
47267587 TCACATTCGCCATTTGGCTTTACCACATCTACATATCACACATATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
47267635 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
1 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
*
47267683 TCACATTAGCCATTCGGCTTTACCACATACACATATC
1 TCACATTAGCCATTCGGCTTTACCACATATACATATC
47267720 ACACATATAG
Statistics
Matches: 694, Mismatches: 63, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
48 642 0.93
49 1 0.00
50 1 0.00
51 1 0.00
53 2 0.00
54 2 0.00
56 1 0.00
57 1 0.00
58 1 0.00
59 42 0.06
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
Found at i:47267149 original size:59 final size:59
Alignment explanation
Indices: 47267076--47267256 Score: 206
Period size: 59 Copynumber: 3.3 Consensus size: 59
47267066 TTTACCACAT
* *
47267076 ATACATATCACACATATATTTCACATTAGCCATTCGACTCTACCACATATACATA--TC
1 ATACATATCTCACATATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTC
*
47267133 -T-C--A--T-AC--ATATTTCACATTAGCCATTCGGA-TTTACGACATATACATATCTC
1 ATACATATCTCACATATATTTCACATTAGCCATTC-GACTTTACCACATATACATATCTC
* * *
47267183 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
1 ATACATATCTCACATATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTC
*
47267242 ATACATATTTCACAT
1 ATACATATCTCACAT
47267257 TCGCCATTCG
Statistics
Matches: 102, Mismatches: 9, Indels: 24
0.76 0.07 0.18
Matches are distributed among these distances:
48 35 0.34
49 2 0.02
50 4 0.04
51 1 0.01
52 1 0.01
53 1 0.01
54 1 0.01
55 1 0.01
56 2 0.02
57 1 0.01
58 1 0.01
59 52 0.51
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (59 bp):
ATACATATCTCACATATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTC
Found at i:47267188 original size:11 final size:11
Alignment explanation
Indices: 47267172--47267201 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
47267162 TTTACGACAT
47267172 ATACATATCTC
1 ATACATATCTC
47267183 ATACATATCTC
1 ATACATATCTC
47267194 ATACATAT
1 ATACATAT
47267202 TTCACATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (11 bp):
ATACATATCTC
Found at i:47271266 original size:40 final size:40
Alignment explanation
Indices: 47271221--47271358 Score: 222
Period size: 40 Copynumber: 3.5 Consensus size: 40
47271211 CCAGCATGAT
* * * *
47271221 TGCTCTTCGGGACCTGGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
47271261 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
*
47271301 TGCTCTTCGGGACTTAGTCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
*
47271341 TGCTCTTCGGAACTTAGT
1 TGCTCTTCGGGACTTAGT
47271359 GCTCTTCGGA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
Found at i:47271363 original size:17 final size:17
Alignment explanation
Indices: 47271341--47271375 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
47271331 CTAGCACGAA
47271341 TGCTCTTCGGAACTTAG
1 TGCTCTTCGGAACTTAG
47271358 TGCTCTTCGGAACTTAG
1 TGCTCTTCGGAACTTAG
47271375 T
1 T
47271376 CCGGATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (17 bp):
TGCTCTTCGGAACTTAG
Found at i:47271389 original size:57 final size:57
Alignment explanation
Indices: 47271301--47271415 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
47271291 CTAGCACGAA
* *
47271301 TGCTCTTCGGGACTTAGTCCGAATACATCACTAGCACGAATGCTCTTCGGAACTTAG
1 TGCTCTTCGGAACTTAGTCCGAATACATCACTAGCACAAATGCTCTTCGGAACTTAG
*
47271358 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACAAATGCTCTTCGGAACTTAG
1 TGCTCTTCGGAACTTAGTCCGAATACATCACTAGCACAAATGCTCTTCGGAACTTAG
47271415 T
1 T
47271416 CCGGATACAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (57 bp):
TGCTCTTCGGAACTTAGTCCGAATACATCACTAGCACAAATGCTCTTCGGAACTTAG
Found at i:47274289 original size:40 final size:40
Alignment explanation
Indices: 47274244--47274410 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
47274234 CGGAATATAA
*
47274244 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
47274284 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
47274324 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
47274364 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
47274403 CCGGATAT
1 CCGGATAT
47274411 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47274394 original size:80 final size:79
Alignment explanation
Indices: 47274260--47274410 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
47274250 TTAATCACGT
*
47274260 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
47274325 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
47274340 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
47274403 CCGGATAT
64 CCGGATAT
47274411 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:47282296 original size:40 final size:39
Alignment explanation
Indices: 47282251--47282416 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
47282241 CGGAATATAA
47282251 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
47282291 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
47282330 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
47282370 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
47282409 CCGGATAT
1 CCGGATAT
47282417 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:47282373 original size:79 final size:79
Alignment explanation
Indices: 47282267--47282416 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
47282257 ATAATCACGT
*
47282267 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
47282330 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
47282346 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
47282411 GGATAT
66 GGATAT
47282417 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:47283307 original size:27 final size:26
Alignment explanation
Indices: 47283286--47283562 Score: 223
Period size: 27 Copynumber: 10.3 Consensus size: 26
47283276 CTAGTTTACC
47283286 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCC-TAGTTTGTA
47283313 AAATTACCAAAATATCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTAGTTTGTA
*
47283340 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTAGTTTGTA
*
47283367 AAATTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATA-CCCTAG-TTTGTA
** ***
47283394 AAATTACTGAAATACCCTCAACCTGTA
1 AAATTACCAAAATACCCT-AGTTTGTA
*** * *
47283421 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTAG-TTTGTA
* ** *
47283448 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCTAG-TTTGTA
* * * *
47283475 AAATTACCTAAATATCCTCGATTTATA
1 AAATTACCAAAATACCCTAG-TTTGTA
* *
47283502 AAATTATCAAAATACCCTCAGTTTGCA
1 AAATTACCAAAATACCCT-AGTTTGTA
** *
47283529 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTAG-TTTGTA
47283556 AAATTAC
1 AAATTAC
47283563 TGAAATACTC
Statistics
Matches: 207, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.03
27 197 0.95
28 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (26 bp):
AAATTACCAAAATACCCTAGTTTGTA
Found at i:47283351 original size:54 final size:54
Alignment explanation
Indices: 47283286--47283788 Score: 331
Period size: 54 Copynumber: 9.3 Consensus size: 54
47283276 CTAGTTTACC
* *
47283286 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATATCCCTAG-TTTGTA
1 AAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATA-CCCTCGATTTGTA
* *
47283340 AAATTATCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-AGTTTGTAAAATTACCAAAATACCCTC-GATTTGTA
** *** *** *
47283394 AAATTACTGAAATACCCTCAACCTGTAAAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
* * * * * *
47283448 AAATTACCAAAGTACCC-CCGATTTATAAAATTACCTAAATATCCTCGATTTATA
1 AAATTACCAAAATACCCTCAG-TTTGTAAAATTACCAAAATACCCTCGATTTGTA
* * **
47283502 AAATTATCAAAATACCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
** ** * **** **
47283556 AAATTACTGAAATACTCCT--GTAAGATAGAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATAC-CCTCAGTTTG-TAAAATTACCAAAATACCCTCGATTTGTA
* **** * * * * *** *
47283610 GAATTACCGTTTTACACTCAATTTATAGAATTACCATTTTACCCTCGATTTAT-
1 AAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
** ** ** ***
47283663 AAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAATA
1 AAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
* *
47283717 AAATTACCAAAATACCC-CTGGTTTGTAAAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-AGTTTGTAAAATTACCAAAATACCCTC-GATTTGTA
* *
47283771 AAATTAACGAAATACCCT
1 AAATTACCAAAATACCCT
47283789 TGTAGGGTAA
Statistics
Matches: 344, Mismatches: 90, Indels: 29
0.74 0.19 0.06
Matches are distributed among these distances:
53 48 0.14
54 288 0.84
55 8 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
Found at i:47283421 original size:81 final size:79
Alignment explanation
Indices: 47283286--47283570 Score: 295
Period size: 81 Copynumber: 3.5 Consensus size: 79
47283276 CTAGTTTACC
* ** *
47283286 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATATCCCT-AGTTTGTAAAATTATCAA
1 AAATTACCAAAATACCCTGA-TTTGTAAAATTACTGAAATA-CCCTCAATTTGTAAAATTATCAA
47283350 AATACCCCTAGTTTGTA
64 AATA-CCCTAGTTTGTA
* ** **
47283367 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCAACCTGTAAAATTATTGAA
1 AAATTACCAAAATA-CCCTGATTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTATCAAA
* *
47283432 ATACCCTCGACTTGTA
65 ATACCCTAG-TTTGTA
* * * * * *
47283448 AAATTACCAAAGTACCCCCGATTTATAAAATTACCT-AAATATCCTCGATTTATAAAATTATCAA
1 AAATTACCAAAATA-CCCTGATTTGTAAAATTA-CTGAAATACCCTCAATTTGTAAAATTATCAA
*
47283512 AATACCCTCAGTTTGCA
64 AATACCCT-AGTTTGTA
**
47283529 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATAC
1 AAATTACCAAAATACCCT-GATTTGTAAAATTACTGAAATAC
47283571 TCCTGTAAGA
Statistics
Matches: 166, Mismatches: 31, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
80 14 0.08
81 144 0.87
82 8 0.05
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (79 bp):
AAATTACCAAAATACCCTGATTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTATCAAAA
TACCCTAGTTTGTA
Found at i:47283563 original size:27 final size:27
Alignment explanation
Indices: 47283307--47283788 Score: 220
Period size: 27 Copynumber: 17.9 Consensus size: 27
47283297 ATACCCTTAG
** *
47283307 TTTGTAAAATTACCAAAATATCCCTAG-
1 TTTGTAAAATTACTGAAATA-CCCTCGA
* *
47283334 TTTGTAAAATTA-TCAAAATACCC-CTA
1 TTTGTAAAATTACT-GAAATACCCTCGA
**
47283360 GTTTGTAAAATTACCAAAATACCC-CTGA
1 -TTTGTAAAATTACTGAAATACCCTC-GA
* *
47283388 TTTGTGAAATTACTGAAATACCCTCAA
1 TTTGTAAAATTACTGAAATACCCTCGA
** *
47283415 CCTGTAAAATTATTGAAATACCCTCGA
1 TTTGTAAAATTACTGAAATACCCTCGA
* * *
47283442 CTTGTAAAATTAC-CAAAGTACCCCCGA
1 TTTGTAAAATTACTGAAA-TACCCTCGA
* *
47283469 TTTATAAAATTACCT-AAATATCCTCGA
1 TTTGTAAAATTA-CTGAAATACCCTCGA
* *
47283496 TTTATAAAATTA-TCAAAATACCCTC-A
1 TTTGTAAAATTACT-GAAATACCCTCGA
*
47283522 GTTTGCAAAATTACTGAAATACCCTCGA
1 -TTTGTAAAATTACTGAAATACCCTCGA
47283550 TTTGTAAAATTACTGAAATACTCCT-G-
1 TTTGTAAAATTACTGAAATAC-CCTCGA
** * * ***
47283576 TAAGATAGAATTACCGTTTTACCCTCGA
1 TTTG-TAAAATTACTGAAATACCCTCGA
** * * *** * *
47283604 TTTACAGAATTACCGTTTTACACTCAA
1 TTTGTAAAATTACTGAAATACCCTCGA
* * * **
47283631 TTTATAGAATTAC-CATTTTACCCTCGA
1 TTTGTAAAATTACTGA-AATACCCTCGA
* * *
47283658 TTTAT-AAATTACTGAAATACCCTTGG
1 TTTGTAAAATTACTGAAATACCCTCGA
** **
47283684 TTTACAAAATTACCAAAATACCCTCGA
1 TTTGTAAAATTACTGAAATACCCTCGA
*** ** *
47283711 TCAATAAAATTACCAAAATACCC-CTGG
1 TTTGTAAAATTACTGAAATACCCTC-GA
**
47283738 TTTGTAAAATTACCAAAATACCC-CTGA
1 TTTGTAAAATTACTGAAATACCCTC-GA
*
47283765 TTTGTGAAATTAAC-GAAATACCCT
1 TTTGTAAAATT-ACTGAAATACCCT
47283789 TGTAGGGTAA
Statistics
Matches: 365, Mismatches: 66, Indels: 47
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.00
26 30 0.08
27 320 0.88
28 14 0.04
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACTGAAATACCCTCGA
Found at i:47283857 original size:27 final size:27
Alignment explanation
Indices: 47283772--47283972 Score: 291
Period size: 27 Copynumber: 7.6 Consensus size: 27
47283762 TGATTTGTGA
* *
47283772 AATTAACGAAATACCCTTGTAGGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
47283798 AATTACCGAAATACCCCTGTA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
47283824 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
47283851 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
47283878 AATTACCGAAATACCCCTGTA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
47283904 AATTACCGAAATACTTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
47283931 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
47283958 AATTACTGAGATACC
1 AATTACCGAAATACC
47283973 TTCTGGGGTA
Statistics
Matches: 159, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
25 4 0.03
26 63 0.40
27 92 0.58
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:47283895 original size:80 final size:80
Alignment explanation
Indices: 47283718--47283972 Score: 309
Period size: 80 Copynumber: 3.2 Consensus size: 80
47283708 CGATCAATAA
* ** * * ** *
47283718 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGAT-TTGT-GAAATTAACGA
1 AATTACCGAAATACCCCT-GTAGGTAGAATTACCGAAATACCCCT-ATAGGGTAG-AATTACCGA
*
47283781 AATACCCTTGTAGGGTA-
63 AATACCCCTGTAGGGTAG
47283798 AATTACCGAAATACCCCTGTAGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAAT
1 AATTACCGAAATACCCCTGTAGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAAT
47283863 ACCCCTGTAGGGTAG
66 ACCCCTGTAGGGTAG
** * **
47283878 AATTACCGAAATACCCCTGTAGGTAGAATTACCGAAATACTTCTGTAGGGTAGAATTACTAAAAT
1 AATTACCGAAATACCCCTGTAGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAAT
*
47283943 ACCCCTGTAGGGTGG
66 ACCCCTGTAGGGTAG
* *
47283958 AATTACTGAGATACC
1 AATTACCGAAATACC
47283973 TTCTGGGGTA
Statistics
Matches: 155, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
78 2 0.01
79 48 0.31
80 105 0.68
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (80 bp):
AATTACCGAAATACCCCTGTAGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAAT
ACCCCTGTAGGGTAG
Found at i:47283982 original size:53 final size:53
Alignment explanation
Indices: 47283718--47283990 Score: 277
Period size: 53 Copynumber: 5.1 Consensus size: 53
47283708 CGATCAATAA
* ** * * **
47283718 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTGATTTGT-G
1 AATTACCGAAATACCCCT-GTAGGGTAGAATTACCGAAATACCCCTG-TGGGTAG
* * *
47283771 AAATTAACGAAATACCCTTGTAGGGTA-AATTACCGAAATACCCCTGTAGGTAG
1 -AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTGGGTAG
*
47283824 AATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGT-GGGTAG
**
47283878 AATTACCGAAATACCCCTGTA-GGTAGAATTACCGAAATACTTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGT-GGGTAG
** * * * * *
47283931 AATTACTAAAATACCCCTGTAGGGTGGAATTACTGAGATACCTTCTG-GGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACC-CCTGTGGGTAG
47283984 AATTACC
1 AATTACC
47283991 ATTTTGCCCC
Statistics
Matches: 190, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
52 26 0.14
53 101 0.53
54 59 0.31
55 4 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (53 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTGGGTAG
Found at i:47284469 original size:22 final size:22
Alignment explanation
Indices: 47284417--47284481 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
47284407 TTAAAGCCTT
* *
47284417 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTATGTGCCAAC
* * *
47284439 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTATGTGCCAAC
47284461 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTATGTGCCAA
47284482 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:47284670 original size:27 final size:27
Alignment explanation
Indices: 47284640--47284741 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
47284630 ATTCTGTTAA
* *
47284640 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
*
47284667 GTGGCTATGCCACAAATGTCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
47284694 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * * *
47284721 GTGACTCTGTCTCAATATCTG
1 GTGGCTATGCCACAATATCTG
47284742 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.80
28 6 0.09
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:47284915 original size:6 final size:6
Alignment explanation
Indices: 47284900--47284996 Score: 83
Period size: 6 Copynumber: 15.8 Consensus size: 6
47284890 ATTCTGTTAC
* * *
47284900 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
47284949 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
47284997 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:47284972 original size:37 final size:31
Alignment explanation
Indices: 47284890--47284987 Score: 160
Period size: 31 Copynumber: 3.2 Consensus size: 31
47284880 CTGATTTTTT
*
47284890 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
47284921 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * *
47284952 ATTCTGTCACCTAATTCTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
47284983 ATTCT
1 ATTCT
47284988 AGTTCTGATA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:47289347 original size:21 final size:21
Alignment explanation
Indices: 47289321--47289381 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
47289311 GTCATAGTGG
*
47289321 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCGTGTTGCCCTT
47289342 CCACACAGGCGTGTTAG-CCTT
1 CCACACAGGCGTGTT-GCCCTT
47289363 CCACACAGGCGTG-TGCCCT
1 CCACACAGGCGTGTTGCCCT
47289382 GTTTCAAGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 31 0.84
22 1 0.03
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (21 bp):
CCACACAGGCGTGTTGCCCTT
Found at i:47292513 original size:49 final size:49
Alignment explanation
Indices: 47292445--47292567 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
47292435 TACATATATG
*
47292445 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
47292494 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
47292543 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
47292568 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:47292713 original size:37 final size:37
Alignment explanation
Indices: 47292670--47292747 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
47292660 GTTCCGGGCG
47292670 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
47292707 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
47292744 AGAC
1 AGAC
47292748 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:47294830 original size:29 final size:29
Alignment explanation
Indices: 47294759--47295066 Score: 487
Period size: 29 Copynumber: 10.7 Consensus size: 29
47294749 CGAATGATTA
* * *
47294759 GAGGCACTGTGTGTGC-AAATTCCATTAACC
1 GAGGCACTGTGTGTGCGAGA-T-CAGTAATC
*
47294789 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
47294818 GAGGCAC--TGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
47294845 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
47294874 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
47294903 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
47294932 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
47294961 GAGGCACTGTGTGTGCGAGATCAGTAATC
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
* * *
47294990 GAGGCACTATGTGTGCGAAATCAGTAATT
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
* *
47295019 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAGATCAGTAATC
*
47295048 GAGGCACTGTGTGTACGAG
1 GAGGCACTGTGTGTGCGAG
47295067 TTTTTCAACA
Statistics
Matches: 265, Mismatches: 10, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
27 27 0.10
29 220 0.83
30 16 0.06
31 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (29 bp):
GAGGCACTGTGTGTGCGAGATCAGTAATC
Found at i:47295648 original size:40 final size:41
Alignment explanation
Indices: 47295550--47295648 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
47295540 TTCGAATGGT
* ** * *
47295550 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
47295591 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGC-AAATCACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCTAAATCACTA-A
47295632 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
47295649 GAACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 20 0.40
41 27 0.54
42 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.24
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCTAAATCACTAA
Found at i:47298816 original size:49 final size:49
Alignment explanation
Indices: 47298748--47298870 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
47298738 TACATATATG
*
47298748 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
47298797 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
47298846 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
47298871 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:47299016 original size:37 final size:37
Alignment explanation
Indices: 47298973--47299050 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
47298963 GTTCCGGGCG
47298973 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
47299010 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
47299047 AGAC
1 AGAC
47299051 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:47309244 original size:39 final size:40
Alignment explanation
Indices: 47309139--47309361 Score: 205
Period size: 40 Copynumber: 5.6 Consensus size: 40
47309129 AATGATGTCT
* *
47309139 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCC
* *
47309179 GGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
47309219 GGGCTAAG-CCCGAAGTCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
47309258 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTGCGAGTTACTAAATT-C
1 GGGCTAAGTCCCGAAGGCA-TT-T----GTGCGAGTTACT-AATTCC
*
47309304 GGGTTAAGTCCCGAAGGCATTTGTGCGAG--A-TAA--CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
47309339 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
47309362 AACGAGTAGC
Statistics
Matches: 157, Mismatches: 13, Indels: 31
0.78 0.06 0.15
Matches are distributed among these distances:
35 22 0.14
36 2 0.01
37 1 0.01
38 1 0.01
39 34 0.22
40 47 0.30
41 11 0.07
42 1 0.01
44 1 0.01
45 2 0.01
46 32 0.20
47 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:47309272 original size:79 final size:81
Alignment explanation
Indices: 47309139--47309359 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 81
47309129 AATGATGTCT
* * *
47309139 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATTGC
47309201 -GTGCGAGTTACT-AATTCC
63 AGTGCGAGTTACTAAATT-C
* *
47309219 GGGCTAAG-CCCGAAGTCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGCTAAGTCCCGAAGGCA--T-TG
47309283 CGAGTGCGAGTTACTAAATTC
62 C-AGTGCGAGTTACTAAATTC
* *
47309304 GGGTTAAGTCCCGAAGGCATTTGTGCGAG-A-T-AA-CCGGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATT
47309360 TGAACGAGTA
Statistics
Matches: 121, Mismatches: 9, Indels: 24
0.79 0.06 0.16
Matches are distributed among these distances:
78 2 0.02
79 34 0.28
80 16 0.13
81 20 0.17
82 3 0.02
83 2 0.02
84 1 0.01
85 20 0.17
86 23 0.19
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTGCAGT
GCGAGTTACTAAATTC
Found at i:47309307 original size:46 final size:46
Alignment explanation
Indices: 47309201--47309332 Score: 179
Period size: 46 Copynumber: 3.0 Consensus size: 46
47309191 GAAGGCATTC
* * *
47309201 GTGCGAGTTACTAATTCCGGGCTAAG-CCCGAAGTCA-TT-T----
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
47309240 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
*
47309286 GTGCGAGTTACTAAATTCGGGTTAAGTCCCGAAGGCATTTGTGCGA
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
47309332 G
1 G
47309333 ATAACCGGGC
Statistics
Matches: 82, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
39 24 0.29
40 9 0.11
41 2 0.02
42 1 0.01
46 46 0.56
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (46 bp):
GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
Found at i:47315227 original size:10 final size:10
Alignment explanation
Indices: 47315212--47315263 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
47315202 TTTTCCAAGA
47315212 CAATAGTCAC
1 CAATAGTCAC
47315222 CAATAGTCAC
1 CAATAGTCAC
*
47315232 TC-ATATTCAAGC
1 -CAATAGTC-A-C
47315244 CAATAGTCAC
1 CAATAGTCAC
*
47315254 CCATAGTCAC
1 CAATAGTCAC
47315264 TCATACATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 25 0.71
11 4 0.11
12 6 0.17
ACGTcount: A:0.37, C:0.31, G:0.10, T:0.23
Consensus pattern (10 bp):
CAATAGTCAC
Found at i:47315248 original size:32 final size:32
Alignment explanation
Indices: 47315207--47315268 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
47315197 GGCTATTTTC
47315207 CAAGACAATAGTCACCAATAGTCACTCATATT
1 CAAGACAATAGTCACCAATAGTCACTCATATT
* *
47315239 CAAGCCAATAGTCACCCATAGTCACTCATA
1 CAAGACAATAGTCACCAATAGTCACTCATA
47315269 CATTCAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.23
Consensus pattern (32 bp):
CAAGACAATAGTCACCAATAGTCACTCATATT
Found at i:47322769 original size:13 final size:13
Alignment explanation
Indices: 47322751--47322775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47322741 CTGAGCACAT
47322751 GCCCGTGTCCCTA
1 GCCCGTGTCCCTA
47322764 GCCCGTGTCCCT
1 GCCCGTGTCCCT
47322776 TACACAGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.48, G:0.24, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTA
Found at i:47325198 original size:40 final size:40
Alignment explanation
Indices: 47325136--47325390 Score: 317
Period size: 40 Copynumber: 6.5 Consensus size: 40
47325126 AAACCAAGTA
* * ** * *
47325136 CCTTCGGGATTTA-ACCGGATATAGCCACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
47325175 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47325215 CCTTC-GGACTTAGCCCGGATATAGT-AGTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47325253 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47325292 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTTGCA-ACAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA-AATG
* * *
47325332 CCTTTGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
47325372 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47325391 TTATCATCCG
Statistics
Matches: 193, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
38 17 0.09
39 87 0.45
40 88 0.46
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47325235 original size:39 final size:40
Alignment explanation
Indices: 47325136--47325390 Score: 303
Period size: 39 Copynumber: 6.5 Consensus size: 40
47325126 AAACCAAGTA
* * * * *
47325136 CCTTCGGGATTTA-ACCGGATATAGCCA-CTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAGCTCGCACAAATG
*
47325175 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
47325215 CCTTC-GGACTTAGCCCGGATATAGTAG-TCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
*
47325253 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
* *
47325292 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTTGCA-ACAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAGCTCGCACA-AATG
* *
47325332 CCTTTGGGACTTAGCCCGGA-ATTAGTCA-CTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-AGCTCGCACAAATG
47325372 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47325391 TTATCATCCG
Statistics
Matches: 196, Mismatches: 11, Indels: 17
0.88 0.05 0.08
Matches are distributed among these distances:
38 17 0.09
39 91 0.46
40 86 0.44
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
Found at i:47327491 original size:43 final size:43
Alignment explanation
Indices: 47327406--47327496 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 43
47327396 GTTACATGAA
* * * * * *
47327406 TCACATCCATTATGAATTTGGAACTTTCAATGAGTTCAGATGC
1 TCACATCCATAATGAACTCGGAACTCTCAACGAGCTCAGATGC
* *
47327449 TCACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGC
1 TCACATCCATAATGAACTCGGAACTCTCAACGAGCTCAGATGC
47327492 -CACAT
1 TCACAT
47327497 ATCTTACAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 5 0.12
43 35 0.88
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
TCACATCCATAATGAACTCGGAACTCTCAACGAGCTCAGATGC
Found at i:47331375 original size:19 final size:19
Alignment explanation
Indices: 47331338--47331376 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47331328 TTATTGCCAT
*
47331338 TTTGTTATTTATCTATTTA
1 TTTGTTATATATCTATTTA
47331357 TTTGTATATATATCT-TTTA
1 TTTGT-TATATATCTATTTA
47331376 T
1 T
47331377 ATACTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTGTTATATATCTATTTA
Found at i:47331406 original size:15 final size:15
Alignment explanation
Indices: 47331389--47331420 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47331379 ACTTTCAAAA
47331389 TTTATATTATTATTAT
1 TTTA-ATTATTATTAT
47331405 TTTAATTATTATTAT
1 TTTAATTATTATTAT
47331420 T
1 T
47331421 ACCTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTAATTATTATTAT
Found at i:47331428 original size:21 final size:17
Alignment explanation
Indices: 47331389--47331442 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
47331379 ACTTTCAAAA
47331389 TTTA-TATTATTATTAT
1 TTTATTATTATTATTAT
47331405 TTTAATTATTATTATTACCTT
1 TTT-ATTATTATTATTA---T
47331426 TTTATT-TTATT-TTAT
1 TTTATTATTATTATTAT
47331441 TT
1 TT
47331443 AATGTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
15 3 0.09
16 3 0.09
17 1 0.03
18 14 0.42
19 5 0.15
20 3 0.09
21 4 0.12
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTATTATTATTATTAT
Found at i:47331556 original size:4 final size:4
Alignment explanation
Indices: 47331547--47331576 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
47331537 ATTAGCTTGA
47331547 TTAT TTAT TTAT TTAT TTAT TTAT CTTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT -TTAT T
47331577 GATTATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:47334249 original size:24 final size:25
Alignment explanation
Indices: 47334221--47334284 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
47334211 TCAACCAAAT
* * *
47334221 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
47334245 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
47334270 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
47334285 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:47334430 original size:94 final size:94
Alignment explanation
Indices: 47334313--47334497 Score: 352
Period size: 94 Copynumber: 2.0 Consensus size: 94
47334303 ATTAACACTC
* *
47334313 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
47334378 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
47334407 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
47334472 GGCAATTTACTTAATTCAAATAGCAT
66 GGCAATTTACTTAATTCAAATAGCAT
47334498 TATTTATGCA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:47338055 original size:19 final size:20
Alignment explanation
Indices: 47338018--47338057 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
47338008 TTTTTCTACA
* *
47338018 TTCATCTCATGCATTTGCAT
1 TTCATCGCATGCATATGCAT
47338038 TTCATCGCAT-CATATGCAT
1 TTCATCGCATGCATATGCAT
47338057 T
1 T
47338058 AAATGTCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (20 bp):
TTCATCGCATGCATATGCAT
Found at i:47340339 original size:19 final size:19
Alignment explanation
Indices: 47340302--47340340 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47340292 TTATTGCGAT
*
47340302 TTTGTTATTTATCTATTTA
1 TTTGTTATATATCTATTTA
47340321 TTTGTATATATATCT-TTTA
1 TTTGT-TATATATCTATTTA
47340340 T
1 T
47340341 ATACTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTGTTATATATCTATTTA
Found at i:47340365 original size:3 final size:3
Alignment explanation
Indices: 47340357--47340393 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
47340347 TCAAAATTTA
47340357 TAT TAT TA- TAT T-T TAAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TA
47340394 CCTTTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 25 0.81
4 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:47340592 original size:18 final size:17
Alignment explanation
Indices: 47340569--47340603 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47340559 TTATTTATTG
47340569 TTATTTATATTATCGCAT
1 TTATTTATATTAT-GCAT
*
47340587 TTATTTATGTTATGCAT
1 TTATTTATATTATGCAT
47340604 ACTAGCACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (17 bp):
TTATTTATATTATGCAT
Found at i:47351222 original size:93 final size:93
Alignment explanation
Indices: 47351110--47351281 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47351100 GCCCATAAGT
* *
47351110 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47351175 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
47351203 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47351268 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
47351282 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47351277 original size:46 final size:46
Alignment explanation
Indices: 47351102--47351277 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
47351092 TGTAACCCGC
* * *
47351102 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
47351148 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
47351198 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
47351241 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47351278 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:47353699 original size:29 final size:29
Alignment explanation
Indices: 47353660--47353747 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
47353650 CAAAGATAAC
*
47353660 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
47353689 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
47353718 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
47353748 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:47353718 original size:15 final size:15
Alignment explanation
Indices: 47353660--47353738 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
47353650 CAAAGATAAC
*
47353660 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
47353674 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
47353689 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
47353703 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
47353718 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
47353733 AAGAAA
1 AAGAAA
47353739 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:47353747 original size:15 final size:15
Alignment explanation
Indices: 47353671--47353747 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
47353661 AGAAAACCGA
47353671 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
47353686 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
47353700 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
47353714 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
47353730 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47353745 ATA
1 ATA
47353748 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47356807 original size:93 final size:93
Alignment explanation
Indices: 47356695--47356866 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47356685 GCCCATAAGT
* *
47356695 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47356760 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
47356788 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47356853 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
47356867 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47356862 original size:46 final size:46
Alignment explanation
Indices: 47356687--47356862 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
47356677 TGTAACCCGC
* * *
47356687 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
47356733 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
47356783 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
47356826 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47356863 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:47363766 original size:40 final size:40
Alignment explanation
Indices: 47363721--47363888 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
47363711 CGGAATACAA
47363721 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
47363761 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
47363801 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
47363841 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
47363881 CCGGATAT
1 CCGGATAT
47363889 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:47369502 original size:27 final size:27
Alignment explanation
Indices: 47369456--47369550 Score: 111
Period size: 27 Copynumber: 3.6 Consensus size: 27
47369446 CGAAGTCTAA
* *
47369456 GTCGGTCA-TTTACCCTACAAGGGTAT
1 GTCGGTAATTTTACACTACAAGGGTAT
*
47369482 GTCGGTCATTTTACACTACAAGGGTAT
1 GTCGGTAATTTTACACTACAAGGGTAT
* **
47369509 TTTTGTAATTTTACACTACAAGGGTAT
1 GTCGGTAATTTTACACTACAAGGGTAT
* *
47369536 TTCGATAATTTTACA
1 GTCGGTAATTTTACA
47369551 AATTGGGTGT
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 8 0.13
27 52 0.87
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (27 bp):
GTCGGTAATTTTACACTACAAGGGTAT
Found at i:47369604 original size:27 final size:27
Alignment explanation
Indices: 47369475--47369963 Score: 503
Period size: 27 Copynumber: 18.3 Consensus size: 27
47369465 TTACCCTACA
* * * *
47369475 AGGGTATGTCGGTCATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CG
** * *
47369502 AGGGTATTTTTGTAATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CG
* *
47369529 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
47369556 -GGTGT-TTT-GATAATTTTACAAATCG
1 AGG-GTATTTCGGTAATTTTACAAATCG
* *
47369581 AGGGCATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
47369608 AGGTTATTTCGGTAATTTTACAAATCT
1 AGGGTATTTCGGTAATTTTACAAATCG
*
47369635 AGGGTATTT-GGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
47369661 AGGGTATTT-GGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
47369687 AGGGTGTTTTGTTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
47369714 AGGGTGTTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
47369741 AGGGTGTTTCGGTAATTTCACAAAT-T
1 AGGGTATTTCGGTAATTTTACAAATCG
47369767 AGGGGTATTTCGGTAATTTTACAAATCG
1 A-GGGTATTTCGGTAATTTTACAAATCG
* *
47369795 AGGGTATTTCAGTAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * ** *
47369822 GGGGTATTCCGGTACGTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
47369849 AGAGTATTTCAGTAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
47369875 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
47369902 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
47369928 AAGGTATTTAGGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
47369955 AGGGTATTT
1 AGGGTATTT
47369964 TAGTCATTTC
Statistics
Matches: 391, Mismatches: 61, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
25 17 0.04
26 103 0.26
27 268 0.69
28 3 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:47371221 original size:26 final size:26
Alignment explanation
Indices: 47371188--47371260 Score: 112
Period size: 25 Copynumber: 2.8 Consensus size: 26
47371178 CCTCTTTTAA
*
47371188 TAACTGGGGCAAAGCCCTTTTTTGAT
1 TAACTGGGGCAAAGCCCTTTTTCGAT
*
47371214 TAACTGGGGCAAAGCCC-TTTTCGGT
1 TAACTGGGGCAAAGCCCTTTTTCGAT
*
47371239 AAACTGGGGCAAAGCCCTTTTT
1 TAACTGGGGCAAAGCCCTTTTT
47371261 GCATTTCCTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 22 0.51
26 21 0.49
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (26 bp):
TAACTGGGGCAAAGCCCTTTTTCGAT
Found at i:47379247 original size:40 final size:39
Alignment explanation
Indices: 47379202--47379409 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
47379192 CGGAATACAA
*
47379202 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47379242 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47379282 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
47379322 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
47379362 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
47379402 CCGGATAT
1 CCGGATAT
47379410 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:47379342 original size:80 final size:80
Alignment explanation
Indices: 47379202--47379408 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
47379192 CGGAATACAA
* * *
47379202 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
47379266 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
47379282 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
47379346 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
47379362 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
47379409 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:47387254 original size:40 final size:39
Alignment explanation
Indices: 47387209--47387416 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
47387199 CGGAATACAA
*
47387209 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47387249 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47387289 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
47387329 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
47387369 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
47387409 CCGGATAT
1 CCGGATAT
47387417 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:47387349 original size:80 final size:80
Alignment explanation
Indices: 47387209--47387415 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
47387199 CGGAATACAA
* * *
47387209 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
47387273 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
47387289 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
47387353 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
47387369 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
47387416 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:47390530 original size:25 final size:26
Alignment explanation
Indices: 47390502--47390574 Score: 114
Period size: 25 Copynumber: 2.9 Consensus size: 26
47390492 CCTCTTTTAA
47390502 TAACTGGGGCAAAGCCCTTTTTGA-T
1 TAACTGGGGCAAAGCCCTTTTTGAGT
*
47390527 TAACTGGGGCAAAGCCC-TTTTCAGT
1 TAACTGGGGCAAAGCCCTTTTTGAGT
*
47390552 AAACTGGGGCAAAGCCCTTTTTG
1 TAACTGGGGCAAAGCCCTTTTTG
47390575 CACTTCCTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 5 0.12
25 34 0.79
26 4 0.09
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (26 bp):
TAACTGGGGCAAAGCCCTTTTTGAGT
Found at i:47390664 original size:10 final size:10
Alignment explanation
Indices: 47390640--47390686 Score: 78
Period size: 10 Copynumber: 4.7 Consensus size: 10
47390630 CATCTCATAA
47390640 CATATCATGT
1 CATATCATGT
47390650 GCATATCATGT
1 -CATATCATGT
47390661 CATATCATGT
1 CATATCATGT
47390671 CATATCATGT
1 CATATCATGT
47390681 -ATATCA
1 CATATCA
47390687 AAATCTCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.17
10 20 0.56
11 10 0.28
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:47390664 original size:21 final size:21
Alignment explanation
Indices: 47390620--47390686 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
47390610 TATAATGAAT
* * **
47390620 ATATCTTGTGCATCTCATAAC
1 ATATCATGTGCATATCATGTC
47390641 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATGTC
47390662 ATATCATGT-CATATCATGT-
1 ATATCATGTGCATATCATGTC
47390681 ATATCA
1 ATATCA
47390687 AAATCTCATG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.14
20 10 0.24
21 26 0.62
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.39
Consensus pattern (21 bp):
ATATCATGTGCATATCATGTC
Found at i:47394220 original size:42 final size:43
Alignment explanation
Indices: 47394159--47394267 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 43
47394149 TTTAAGATTA
* *
47394159 CGTGTAAGACCATATCTGGGATA-TGACATCGATATGAGAATT
1 CGTGTAAGACCATAACTGGGATATTGACATCGATACGAGAATT
* * * *
47394201 CGTGTAAGGCCATAACTGGGCTATTGGCATCGATACGAG-ATC
1 CGTGTAAGACCATAACTGGGATATTGACATCGATACGAGAATT
* * *
47394243 CTATGTAAAACCATATCTGGGATAT
1 C-GTGTAAGACCATAACTGGGATAT
47394268 GGAATTGGTA
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 23 0.43
43 31 0.57
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCATAACTGGGATATTGACATCGATACGAGAATT
Found at i:47398377 original size:47 final size:47
Alignment explanation
Indices: 47398279--47398402 Score: 122
Period size: 47 Copynumber: 2.6 Consensus size: 47
47398269 ATCGATGAGT
* * ** **
47398279 ACCTCTACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGGAGT
1 ACCTATACCATGGCCCGTAGCCAAATCAAGCTAACTTATCCCAAAAC
* * * *
47398326 ACCTATACCGTGGCCTGTAGCCAAATCAAGCTAACTTCTCTCAAAAC
1 ACCTATACCATGGCCCGTAGCCAAATCAAGCTAACTTATCCCAAAAC
* * * *
47398373 ACCTATATCATGACCCATATCCAAATCAAG
1 ACCTATACCATGGCCCGTAGCCAAATCAAG
47398403 GTATTAGTCG
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.23
Consensus pattern (47 bp):
ACCTATACCATGGCCCGTAGCCAAATCAAGCTAACTTATCCCAAAAC
Found at i:47409862 original size:16 final size:17
Alignment explanation
Indices: 47409827--47409872 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
47409817 ATGTATAAAA
* *
47409827 AAATATAAATAAACATG
1 AAATATAAATAAAAACG
47409844 AAA-ATAAATAAAAACG
1 AAATATAAATAAAAACG
*
47409860 AAATAAAAATAAA
1 AAATATAAATAAA
47409873 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (17 bp):
AAATATAAATAAAAACG
Found at i:47409879 original size:10 final size:10
Alignment explanation
Indices: 47409844--47409879 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
47409834 AATAAACATG
47409844 AAAATAAATA
1 AAAATAAATA
*
47409854 AAAACGAAATA
1 AAAA-TAAATA
47409865 AAAATAAATA
1 AAAATAAATA
47409875 AAAAT
1 AAAAT
47409880 TATACAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (10 bp):
AAAATAAATA
Found at i:47410670 original size:151 final size:150
Alignment explanation
Indices: 47410478--47410890 Score: 483
Period size: 151 Copynumber: 2.7 Consensus size: 150
47410468 CTATTTCGAA
* * * *
47410478 ATAGTTTAAAAAAATTAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTTAAAAAA
1 ATAGTTGAAAAAAA-TAAAATTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATAACTAAAAAAA
* * *
47410543 TAAATTTTTTTTTTCAAAATCTAAACTCTCTCTTTTTTAAAAAAAAAACAAAACACTATTTTTCT
65 AAAATTTTTTTTTTCAAAATCTAAACTTTCTCTTTTTTAAAAAAAAAA-AAAACACTATTTTTCA
*
47410608 TACAA-ATTAAAGCTTTTATTTTG
129 TA-AAGATT-AAGCTTTTACTTTG
47410631 -TAGTTGAAAAAAATAAAATTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATAACTAAAAAAAA
1 ATAGTTGAAAAAAATAAAATTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATAACT-AAAAAAA
*
47410695 AACAGATTTTTATTTTTCAAAATCTAAACTTTCTCCTTTTTT-------AAAAAAATACTATTTT
65 AA-A-ATTTTT-TTTTTCAAAATCTAAACTTTCT-CTTTTTTAAAAAAAAAAAAAACACTATTTT
47410753 TCATAAAGATTAAGCTTTTACTTTG
126 TCATAAAGATTAAGCTTTTACTTTG
* *
47410778 AAATAGTTGGAAAAAAATCAAAACTTTT-TTTTAAAAATTTAAACTTTCATTTAAAATAACTAAA
1 --ATAGTT-GAAAAAAAT-AAAA-TTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATAACTAAA
*
47410842 AAAACAAAGA-TTTTTTGTT-AAAATCTAAACTTTCTC-TTTTTAAAAAAAA
61 AAAA-AAA-ATTTTTTTTTTCAAAATCTAAACTTTCTCTTTTTTAAAAAAAA
47410891 TCAAAATTTT
Statistics
Matches: 228, Mismatches: 12, Indels: 40
0.81 0.04 0.14
Matches are distributed among these distances:
146 5 0.02
147 16 0.07
148 35 0.15
149 7 0.03
150 9 0.04
151 60 0.26
152 56 0.25
153 6 0.03
154 6 0.03
155 21 0.09
156 7 0.03
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.41
Consensus pattern (150 bp):
ATAGTTGAAAAAAATAAAATTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATAACTAAAAAAAA
AAATTTTTTTTTTCAAAATCTAAACTTTCTCTTTTTTAAAAAAAAAAAAAACACTATTTTTCATA
AAGATTAAGCTTTTACTTTG
Found at i:47411762 original size:15 final size:15
Alignment explanation
Indices: 47411742--47411771 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47411732 AGATGCAATG
47411742 AAAAGTGAATGGACC
1 AAAAGTGAATGGACC
47411757 AAAAGTGAATGGACC
1 AAAAGTGAATGGACC
47411772 TCCACACCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.27, T:0.13
Consensus pattern (15 bp):
AAAAGTGAATGGACC
Found at i:47411828 original size:42 final size:42
Alignment explanation
Indices: 47411757--47412007 Score: 376
Period size: 42 Copynumber: 6.0 Consensus size: 42
47411747 TGAATGGACC
*
47411757 AAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAATG
1 AAAAGTGAATGGACCTCCACACCTAGGTCTCTAAATGCAATG
** *
47411799 AAAAGTGAATGGACCTTTACACATAGGTCTCTAAATGCAATG
1 AAAAGTGAATGGACCTCCACACCTAGGTCTCTAAATGCAATG
** *
47411841 AAAAGTGAATGGACCTTTACACATAGGTCTCTAAATGCAATG
1 AAAAGTGAATGGACCTCCACACCTAGGTCTCTAAATGCAATG
* *
47411883 AAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGTAATG
1 AAAAGTGAATGGACCTCCACACCTAGGTCTCTAAATGCAATG
* *
47411925 ATAAGTGAATGTACCTCCACACCTAGGTCTCTAAATGCAATG
1 AAAAGTGAATGGACCTCCACACCTAGGTCTCTAAATGCAATG
* * *
47411967 AAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAAT
1 AAAAGTGAATGGACCTCCACACCTAGGTCTCTAAATGCAAT
47412008 TAATGTTTTC
Statistics
Matches: 191, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 191 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (42 bp):
AAAAGTGAATGGACCTCCACACCTAGGTCTCTAAATGCAATG
Found at i:47412445 original size:11 final size:11
Alignment explanation
Indices: 47412421--47412458 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
47412411 ATTTTTTTGG
*
47412421 TTTCTTTCTTT
1 TTTCTCTCTTT
47412432 TTTCTCTCTATT
1 TTTCTCTCT-TT
47412444 TTT-TCTCTTT
1 TTTCTCTCTTT
47412454 TTTCT
1 TTTCT
47412459 ATTTAAGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 5 0.21
11 14 0.58
12 5 0.21
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTCTCTTT
Found at i:47413042 original size:34 final size:31
Alignment explanation
Indices: 47413004--47413068 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 31
47412994 GCTCTTACTC
47413004 CTTTCTATTTCTTTTCTTTTTTATTTTTTATTCA
1 CTTTC-ATTT-TTTTCTTTTTT-TTTTTTATTCA
* *
47413038 CTTTCCTTTTTTTCTTTTTTTTTTTTTTTCA
1 CTTTCATTTTTTTCTTTTTTTTTTTTATTCA
47413069 GAATGAGATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 10 0.34
32 11 0.38
33 3 0.10
34 5 0.17
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (31 bp):
CTTTCATTTTTTTCTTTTTTTTTTTTATTCA
Found at i:47417438 original size:28 final size:28
Alignment explanation
Indices: 47417392--47417448 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
47417382 AATCCCACTG
47417392 AGTAAAAGGTCTCAAATAGTGGAAGACA
1 AGTAAAAGGTCTCAAATAGTGGAAGACA
* * *
47417420 AGTAAAAGGTCTTAGATAGTGGAGGACA
1 AGTAAAAGGTCTCAAATAGTGGAAGACA
47417448 A
1 A
47417449 ATCAAAGGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (28 bp):
AGTAAAAGGTCTCAAATAGTGGAAGACA
Found at i:47417455 original size:28 final size:28
Alignment explanation
Indices: 47417394--47417456 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
47417384 TCCCACTGAG
*
47417394 TAAAAGGTCTCAAATAGTGGAAGACAAG
1 TAAAAGGTCTCAAATAGTGGAAGACAAA
* * *
47417422 TAAAAGGTCTTAGATAGTGGAGGACAAA
1 TAAAAGGTCTCAAATAGTGGAAGACAAA
*
47417450 TCAAAGG
1 TAAAAGG
47417457 AGGTTCCACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.19
Consensus pattern (28 bp):
TAAAAGGTCTCAAATAGTGGAAGACAAA
Found at i:47420967 original size:18 final size:18
Alignment explanation
Indices: 47420946--47420993 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
47420936 TCTTCTCTGT
*
47420946 CTTTCTCTTCTTCAACAA
1 CTTTCTCTTCTGCAACAA
* *
47420964 CTTTTTCTTCAGCAACAA
1 CTTTCTCTTCTGCAACAA
47420982 -TTTCCTCTTCTG
1 CTTT-CTCTTCTG
47420994 TAGCAGCAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.19, C:0.31, G:0.04, T:0.46
Consensus pattern (18 bp):
CTTTCTCTTCTGCAACAA
Found at i:47422840 original size:21 final size:20
Alignment explanation
Indices: 47422814--47422852 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
47422804 GGACTAAACT
*
47422814 GAAAACTTTGAAAACTTTTGG
1 GAAAACTTAGAAAA-TTTTGG
47422835 GAAAACTTAGAAAATTTT
1 GAAAACTTAGAAAATTTT
47422853 ATAATGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (20 bp):
GAAAACTTAGAAAATTTTGG
Found at i:47430330 original size:27 final size:27
Alignment explanation
Indices: 47430300--47430384 Score: 69
Period size: 27 Copynumber: 3.4 Consensus size: 27
47430290 TTGAGTTAAG
*
47430300 TCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAGCTCGTGAGATGTAACTAGGCA
*
47430327 TCCGAGCTCGT-TGA-GT---T--G-A
1 TCCGAGCTCGTGAGATGTAACTAGGCA
* *
47430346 GTCCGAGTTTGTGAGATGTAACTAGGCA
1 -TCCGAGCTCGTGAGATGTAACTAGGCA
47430374 TCCGAGCTCGT
1 TCCGAGCTCGT
47430385 TAAGTTGAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 18
0.63 0.10 0.27
Matches are distributed among these distances:
19 1 0.02
20 10 0.24
21 2 0.05
22 3 0.07
25 3 0.07
26 2 0.05
27 20 0.48
28 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (27 bp):
TCCGAGCTCGTGAGATGTAACTAGGCA
Found at i:47430360 original size:47 final size:47
Alignment explanation
Indices: 47430286--47430404 Score: 202
Period size: 47 Copynumber: 2.5 Consensus size: 47
47430276 GAGTTTCGAA
*
47430286 CTCGTTGAGTTAAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
*
47430333 CTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
* *
47430380 CTCGTTAAGTTGAGTCTGAGTTCGT
1 CTCGTTGAGTTGAGTCCGAGTTCGT
47430405 TTATGACCGG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
Found at i:47436809 original size:40 final size:40
Alignment explanation
Indices: 47436764--47436931 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
47436754 CGGAATATAA
47436764 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
47436804 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
47436844 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
47436884 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
47436924 CCGGATAT
1 CCGGATAT
47436932 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47436914 original size:80 final size:80
Alignment explanation
Indices: 47436780--47436929 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
47436770 ATAACCACGT
* *
47436780 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
47436845 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
47436860 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
47436923 CCCGGAT
64 CCCGGAT
47436930 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:47440322 original size:20 final size:20
Alignment explanation
Indices: 47440297--47440336 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
47440287 AGTTACAGTA
47440297 GTTGACACATATAGTGTCTC
1 GTTGACACATATAGTGTCTC
47440317 GTTGACACATATAGTGTCTC
1 GTTGACACATATAGTGTCTC
47440337 ATCGACACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (20 bp):
GTTGACACATATAGTGTCTC
Found at i:47440343 original size:20 final size:20
Alignment explanation
Indices: 47440300--47440345 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
47440290 TACAGTAGTT
* *
47440300 GACACATATAGTGTCTCGTT
1 GACACATATAGTGTCTCATC
47440320 GACACATATAGTGTCTCATC
1 GACACATATAGTGTCTCATC
47440340 GACACA
1 GACACA
47440346 CAGTCAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (20 bp):
GACACATATAGTGTCTCATC
Found at i:47441233 original size:14 final size:15
Alignment explanation
Indices: 47441197--47441233 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
47441187 TTTCTTTTAT
*
47441197 TTATTATAACTATTA
1 TTATTATATCTATTA
47441212 -TATTATATC-ATTA
1 TTATTATATCTATTA
47441225 TTATTATAT
1 TTATTATAT
47441234 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:47441250 original size:21 final size:21
Alignment explanation
Indices: 47441199--47441261 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
47441189 TCTTTTATTT
* *
47441199 ATTATAACTATTATA--TTAT
1 ATTATAATTATTATATTTTAA
* *
47441218 ATCATTATTATTATATTTTAA
1 ATTATAATTATTATATTTTAA
47441239 ATTATAATTATTAT-TTCTTAA
1 ATTATAATTATTATATT-TTAA
47441260 AT
1 AT
47441262 ATTAAGTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 21 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATAATTATTATATTTTAA
Found at i:47447924 original size:14 final size:14
Alignment explanation
Indices: 47447887--47447924 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
47447877 ATTTCTTTTA
*
47447887 TTTATTATAACTAT
1 TTTATTATATCTAT
47447901 TTTATTATATC-AT
1 TTTATTATATCTAT
47447914 TATTATTATAT
1 T-TTATTATAT
47447925 TTTAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTATTATATCTAT
Found at i:47447928 original size:24 final size:24
Alignment explanation
Indices: 47447888--47447944 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
47447878 TTTCTTTTAT
*
47447888 TTATTATAACTATTTT-ATTATATCA
1 TTATTATTACTATTTTAATTATA--A
47447913 TTATTATTA-TATTTTAAATTATAA
1 TTATTATTACTATTTT-AATTATAA
47447937 TTATTATT
1 TTATTATT
47447945 TCTTAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 15 0.52
25 8 0.28
26 6 0.21
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
TTATTATTACTATTTTAATTATAA
Found at i:47451828 original size:52 final size:52
Alignment explanation
Indices: 47451663--47451878 Score: 152
Period size: 52 Copynumber: 4.1 Consensus size: 52
47451653 GAAGTAGTTG
* * *
47451663 AAAAAGAATCAAAATTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACT
1 AAAAAAAATCAAAATTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAATT
** * * ** * * *
47451715 AAAAAAAAT-AGATTTTTATTTTTTTTAAAGGTTAAATCTTTTACTTTGAAATAGTT
1 AAAAAAAATCA-A-AATT-TTGTTTTAAAAATTTAAA-C-TTTCCTTTAAAATAATT
* *
47451771 GAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAATT
1 AAAAAAAATCAAAATTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAATT
* * * ** *
47451823 TAAAAAAAT--AGATTTT-TTTGTTAAAATCAAAACTTTCTCTTTAAAAAAAATT
1 AAAAAAAATCAAAATTTTGTTT-TAAAAATTTAAACTTTC-CTTT-AAAATAATT
47451875 AAAA
1 AAAA
47451879 CTTTCTCTTT
Statistics
Matches: 124, Mismatches: 31, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
49 3 0.02
50 19 0.15
51 5 0.04
52 42 0.34
53 3 0.02
54 28 0.23
55 2 0.02
56 21 0.17
57 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (52 bp):
AAAAAAAATCAAAATTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAATT
Found at i:47451840 original size:109 final size:109
Alignment explanation
Indices: 47451622--47451839 Score: 348
Period size: 108 Copynumber: 2.0 Consensus size: 109
47451612 AAAAAAATAC
* * *
47451622 TATTTTTCTTAAAGATTAAAGCTTTTATTTTGAAGTAGTTGAAAAAGAATCAAAATTTTGTTTTA
1 TATTTTTCTTAAAGATTAAAGCTTTTACTTTGAAATAGTTGAAAAAGAATCAAAACTTTGTTTTA
*
47451687 AAAATTTAAACTTTCCTTTAAAATGACTAAAAAAAATAGATTTT
66 AAAATTTAAACTTTCCTTTAAAATAACTAAAAAAAATAGATTTT
* * *
47451731 TATTTTTTTTAAAGGTTAAATCTTTTACTTTGAAATAGTTGAAAAA-AATCAAAACTTTGTTTTA
1 TATTTTTCTTAAAGATTAAAGCTTTTACTTTGAAATAGTTGAAAAAGAATCAAAACTTTGTTTTA
* *
47451795 AAAATTTAAACTTTCCTTTAAAATAATTTAAAAAAATAGATTTT
66 AAAATTTAAACTTTCCTTTAAAATAACTAAAAAAAATAGATTTT
47451839 T
1 T
47451840 TTGTTAAAAT
Statistics
Matches: 100, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
108 59 0.59
109 41 0.41
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (109 bp):
TATTTTTCTTAAAGATTAAAGCTTTTACTTTGAAATAGTTGAAAAAGAATCAAAACTTTGTTTTA
AAAATTTAAACTTTCCTTTAAAATAACTAAAAAAAATAGATTTT
Found at i:47451872 original size:24 final size:25
Alignment explanation
Indices: 47451845--47451907 Score: 110
Period size: 24 Copynumber: 2.6 Consensus size: 25
47451835 TTTTTTTGTT
47451845 AAAATCAAAACTTTCTCTTT-AAAA
1 AAAATCAAAACTTTCTCTTTAAAAA
*
47451869 AAAATTAAAACTTTCTCTTTAAAAA
1 AAAATCAAAACTTTCTCTTTAAAAA
47451894 AAAATCAAAACTTT
1 AAAATCAAAACTTT
47451908 TTCTAAAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 19 0.53
25 17 0.47
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (25 bp):
AAAATCAAAACTTTCTCTTTAAAAA
Found at i:47453211 original size:54 final size:54
Alignment explanation
Indices: 47453129--47453237 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
47453119 CATGGGCTTC
47453129 ATCCCATTAGTACTTTAAACAACTTGTATGCTATTCGTACCAATACGAAGGAAA
1 ATCCCATTAGTACTTTAAACAACTTGTATGCTATTCGTACCAATACGAAGGAAA
47453183 ATCCCATTAGTACTTTAAACAACTTGTATGCTATTCGTACCAATACGAAGGAAA
1 ATCCCATTAGTACTTTAAACAACTTGTATGCTATTCGTACCAATACGAAGGAAA
47453237 A
1 A
47453238 CCTTTGGTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (54 bp):
ATCCCATTAGTACTTTAAACAACTTGTATGCTATTCGTACCAATACGAAGGAAA
Found at i:47456741 original size:134 final size:134
Alignment explanation
Indices: 47456501--47456772 Score: 481
Period size: 134 Copynumber: 2.0 Consensus size: 134
47456491 TTTTTTCTTT
* * *
47456501 ACATATACAGTCCTTGAAGAGACAATACTCTTTACTCACTACTTTGTTACTTGTTGACGACTGTG
1 ACATATAAAGTACTTGAAGAAACAATACTCTTTACTCACTACTTTGTTACTTGTTGACGACTGTG
*
47456566 TACACTTGCACATCATTCAATTACTTTCGGGACAAGTTTTTGACGCTGTTGTTAGGGATTGTGTT
66 TACACTTGCACATCATTCAATTACTTTCAGGACAAGTTTTTGACGCTGTTGTTAGGGATTGTGTT
47456631 TTAA
131 TTAA
* * *
47456635 ACATATAAAGTACTTGCAGAAACGATACTCTTTACTCACTACTTTGTTACTTGTTGATGACTGTG
1 ACATATAAAGTACTTGAAGAAACAATACTCTTTACTCACTACTTTGTTACTTGTTGACGACTGTG
47456700 TACACTTGCACATCATTCAATTACTTTCAGGACAAGTTTTTGACGCTGTTGTTAGGGATTGTGTT
66 TACACTTGCACATCATTCAATTACTTTCAGGACAAGTTTTTGACGCTGTTGTTAGGGATTGTGTT
47456765 TTAA
131 TTAA
47456769 ACAT
1 ACAT
47456773 TATTTGTGAA
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
134 131 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.38
Consensus pattern (134 bp):
ACATATAAAGTACTTGAAGAAACAATACTCTTTACTCACTACTTTGTTACTTGTTGACGACTGTG
TACACTTGCACATCATTCAATTACTTTCAGGACAAGTTTTTGACGCTGTTGTTAGGGATTGTGTT
TTAA
Found at i:47461002 original size:27 final size:26
Alignment explanation
Indices: 47460980--47461483 Score: 224
Period size: 27 Copynumber: 18.7 Consensus size: 26
47460970 CTAGTTTACC
47460980 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCC-TAGTTTGTA
47461007 AAATTACCAAAATATCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTAGTTTGTA
*
47461034 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATA-CCCTAGTTTGTA
*
47461061 AAATTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATA-CCCTAG-TTTGTA
** ***
47461088 AAATTACTGAAATACCCTCAACCTGTA
1 AAATTACCAAAATACCCT-AGTTTGTA
*** * *
47461115 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTAG-TTTGTA
* ** *
47461142 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCTAG-TTTGTA
* * * *
47461169 AAATTACCTAAATATCCTCGATTTATA
1 AAATTACCAAAATACCCTAG-TTTGTA
* *
47461196 AAATTATCAAAATACCCTCAGTTTGCA
1 AAATTACCAAAATACCCT-AGTTTGTA
** *
47461223 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTAG-TTTGTA
** **
47461250 AAATTACTGAAATACTCCT-GTAAGATA
1 AAATTACCAAAATAC-CCTAGTTTG-TA
* **** * *
47461277 GAATTACCGTTTTACCCTCGATT-TA
1 AAATTACCAAAATACCCTAGTTTGTA
**** * * *
47461302 CAGAATTACCGTTTTACACTCAATTTATA
1 -A-AATTACCAAAATACCCT-AGTTTGTA
* *** * *
47461331 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTAG-TTTGTA
** * **
47461358 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCC-TAGTTTGTA
* ***
47461385 AAATTACCAAAATACCCTCGATCAATA
1 AAATTACCAAAATACCCTAG-TTTGTA
*
47461412 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTAGTTTGTA
*
47461439 AAATTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATA-CCCTAG-TTTGTA
* *
47461466 AAATTAACGAAATACCCT
1 AAATTACCAAAATACCCT
47461484 TGTAGGGTAG
Statistics
Matches: 381, Mismatches: 77, Indels: 39
0.77 0.15 0.08
Matches are distributed among these distances:
25 2 0.01
26 18 0.05
27 343 0.90
28 16 0.04
29 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (26 bp):
AAATTACCAAAATACCCTAGTTTGTA
Found at i:47461056 original size:54 final size:54
Alignment explanation
Indices: 47460980--47461482 Score: 329
Period size: 54 Copynumber: 9.3 Consensus size: 54
47460970 CTAGTTTACC
* *
47460980 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATATCCCTAG-TTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCCTCGATTTGTA
* *
47461034 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTC-GATTTGTA
** *** *** *
47461088 AAATTACTGAAATA-CCCTCAACCTGTAAAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
* * * * * *
47461142 AAATTACCAAAGTACCCC-CGATTTATAAAATTACCTAAATATCCTCGATTTATA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCTCGATTTGTA
* * **
47461196 AAATTATCAAAATA-CCCTCAGTTTGCAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
** * ** * **** **
47461250 AAATTACTGAAATACTCCT-GTAAGATAGAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCCTAGTTTG-TAAAATTACCAAAATACCCTCGATTTGTA
* **** * * * * *** *
47461304 GAATTACCGTTTTA-CACTCAATTTATAGAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
** * * ** ***
47461358 AAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
* *
47461412 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTC-GATTTGTA
* *
47461466 AAATTAACGAAATACCC
1 AAATTACCAAAATACCC
47461483 TTGTAGGGTA
Statistics
Matches: 343, Mismatches: 92, Indels: 28
0.74 0.20 0.06
Matches are distributed among these distances:
53 17 0.05
54 315 0.92
55 11 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
Found at i:47461115 original size:81 final size:79
Alignment explanation
Indices: 47460980--47461264 Score: 295
Period size: 81 Copynumber: 3.5 Consensus size: 79
47460970 CTAGTTTACC
* ** *
47460980 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATATCCCT-AGTTTGTAAAATTATCAA
1 AAATTACCAAAATACCCTGA-TTTGTAAAATTACTGAAATA-CCCTCAATTTGTAAAATTATCAA
47461044 AATACCCCTAGTTTGTA
64 AATA-CCCTAGTTTGTA
* ** **
47461061 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCAACCTGTAAAATTATTGAA
1 AAATTACCAAAATA-CCCTGATTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTATCAAA
* *
47461126 ATACCCTCGACTTGTA
65 ATACCCTAG-TTTGTA
* * * * * *
47461142 AAATTACCAAAGTACCCCCGATTTATAAAATTACCT-AAATATCCTCGATTTATAAAATTATCAA
1 AAATTACCAAAATA-CCCTGATTTGTAAAATTA-CTGAAATACCCTCAATTTGTAAAATTATCAA
*
47461206 AATACCCTCAGTTTGCA
64 AATACCCT-AGTTTGTA
**
47461223 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATAC
1 AAATTACCAAAATACCCT-GATTTGTAAAATTACTGAAATAC
47461265 TCCTGTAAGA
Statistics
Matches: 166, Mismatches: 31, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
80 14 0.08
81 144 0.87
82 8 0.05
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (79 bp):
AAATTACCAAAATACCCTGATTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTATCAAAA
TACCCTAGTTTGTA
Done.