Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 97 of 290
Found at i:29661754 original size:46 final size:46
Alignment explanation
Indices: 29661711--29661805 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
29661701 TGATGAATTG
*
29661711 AATTAAACAATTATAATTAAAGATTATAAATATTTAGAATGAATCA
1 AATTAAACAATTATAATTAAAGATTATAAATAGTTAGAATGAATCA
* *
29661757 AATTAAACAATTATCATTAAAGATTATAAATAGTTAGAATAAATCA
1 AATTAAACAATTATAATTAAAGATTATAAATAGTTAGAATGAATCA
29661803 AAT
1 AAT
29661806 ATTATTAAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (46 bp):
AATTAAACAATTATAATTAAAGATTATAAATAGTTAGAATGAATCA
Found at i:29666944 original size:9 final size:9
Alignment explanation
Indices: 29666932--29666990 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
29666922 TCCGTAAGTT
*
29666932 GTTATGTAC
1 GTTATGTAA
*
29666941 GTTATGTGA
1 GTTATGTAA
29666950 GTTATGTAA
1 GTTATGTAA
*
29666959 ATTATGTAA
1 GTTATGTAA
*
29666968 GTTATGTGA
1 GTTATGTAA
29666977 GTTATGTAA
1 GTTATGTAA
29666986 GTTAT
1 GTTAT
29666991 TTTTTAAGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:29666964 original size:27 final size:27
Alignment explanation
Indices: 29666933--29666990 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
29666923 CCGTAAGTTG
*
29666933 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATGTGAGTTATGTAAA
*
29666960 TTATGTAAGTTATGTGAGTTATGTAAG
1 TTATGTAAGTTATGTGAGTTATGTAAA
29666987 TTAT
1 TTAT
29666991 TTTTTAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATGTGAGTTATGTAAA
Found at i:29667495 original size:33 final size:33
Alignment explanation
Indices: 29667451--29667514 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
29667441 CAAACTTAAG
*
29667451 AACATAAGCATTGGAACCAGTAGCAATGAGAAA
1 AACATAAGCATTGGAACCAGTAGCAAAGAGAAA
* *
29667484 AACATACGCATTGGAACTAGTAGCAAAGAGA
1 AACATAAGCATTGGAACCAGTAGCAAAGAGA
29667515 TCCAAAGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (33 bp):
AACATAAGCATTGGAACCAGTAGCAAAGAGAAA
Found at i:29670753 original size:40 final size:40
Alignment explanation
Indices: 29670670--29670753 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
29670660 TAAATTACTT
* *
29670670 TTTTACGGCGTTTTTATCATAAACGCCGCTATTGCTTGCC
1 TTTTACGGCGTTTTTATCATAAACGCCGCTAATGCTTGAC
* * *
29670710 TTTTGCGGCGTTTTTATCATAAACTCCGCTAATGTTTGAC
1 TTTTACGGCGTTTTTATCATAAACGCCGCTAATGCTTGAC
29670750 TTTT
1 TTTT
29670754 TTTATAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (40 bp):
TTTTACGGCGTTTTTATCATAAACGCCGCTAATGCTTGAC
Found at i:29670781 original size:22 final size:20
Alignment explanation
Indices: 29670753--29670809 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
29670743 GTTTGACTTT
29670753 TTTTATAATTTTTATATTGAA
1 TTTTATAATTTTTATATT-AA
29670774 TTATTAT-ATCTTTTATATTAA
1 TT-TTATAAT-TTTTATATTAA
29670795 TTTTAAATAATTTTT
1 TTTT--ATAATTTTT
29670810 TTAAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.26
22 19 0.61
23 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTATATTAA
Found at i:29671190 original size:14 final size:14
Alignment explanation
Indices: 29671167--29671224 Score: 89
Period size: 14 Copynumber: 4.1 Consensus size: 14
29671157 ATAACCCTTA
*
29671167 AACCCATAACACAT
1 AACCCCTAACACAT
29671181 AACCCCTAACACAT
1 AACCCCTAACACAT
* *
29671195 AACCCCTAACCCCT
1 AACCCCTAACACAT
29671209 AACCCCTAACACAT
1 AACCCCTAACACAT
29671223 AA
1 AA
29671225 ACCTTAAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (14 bp):
AACCCCTAACACAT
Found at i:29671204 original size:7 final size:7
Alignment explanation
Indices: 29671180--29671218 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
29671170 CCATAACACA
29671180 TAACCCC
1 TAACCCC
* *
29671187 TAACACA
1 TAACCCC
29671194 TAACCCC
1 TAACCCC
29671201 TAACCCC
1 TAACCCC
29671208 TAACCCC
1 TAACCCC
29671215 TAAC
1 TAAC
29671219 ACATAAACCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.36, C:0.49, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:29671232 original size:7 final size:7
Alignment explanation
Indices: 29671220--29671303 Score: 78
Period size: 7 Copynumber: 11.9 Consensus size: 7
29671210 ACCCCTAACA
29671220 CATAAAC
1 CATAAAC
*
29671227 CTTAAAC
1 CATAAAC
** *
29671234 CCCAACC
1 CATAAAC
*
29671241 CTTAAAC
1 CATAAAC
29671248 CATAAAC
1 CATAAAC
*
29671255 TATAAAC
1 CATAAAC
29671262 CATAAAC
1 CATAAAC
29671269 CATAAACC
1 CATAAA-C
*
29671277 CATAATC
1 CATAAAC
*
29671284 CATAATC
1 CATAAAC
29671291 CATAAAC
1 CATAAAC
*
29671298 CTTAAA
1 CATAAA
29671304 ATAGTAACTC
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
7 57 0.90
8 6 0.10
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (7 bp):
CATAAAC
Found at i:29671240 original size:28 final size:29
Alignment explanation
Indices: 29671180--29671262 Score: 93
Period size: 28 Copynumber: 2.9 Consensus size: 29
29671170 CCATAACACA
* *
29671180 TAACCCCTAACACATAACCCCT-AACCCC
1 TAACCCCTAACACATAAACCTTAAACCCC
29671208 TAACCCCTAACACATAAACCTTAAACCCC
1 TAACCCCTAACACATAAACCTTAAACCCC
*
29671237 -AACCCTTAA-ACCATAAA-CTATAAACC
1 TAACCCCTAACA-CATAAACCT-TAAACC
29671263 ATAAACCATA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
27 3 0.06
28 40 0.82
29 6 0.12
ACGTcount: A:0.42, C:0.41, G:0.00, T:0.17
Consensus pattern (29 bp):
TAACCCCTAACACATAAACCTTAAACCCC
Found at i:29671280 original size:29 final size:28
Alignment explanation
Indices: 29671220--29671303 Score: 78
Period size: 29 Copynumber: 3.0 Consensus size: 28
29671210 ACCCCTAACA
* ** * *
29671220 CATAAACCTTAAACCCCAACCCTTAAAC
1 CATAAACCATAAACCATAAACCATAAAC
*
29671248 CATAAACTATAAACCATAAACCATAAACC
1 CATAAACCATAAACCATAAACCATAAA-C
* * *
29671277 CATAATCCATAATCCATAAACCTTAAA
1 CATAAACCATAAACCATAAACCATAAA
29671304 ATAGTAACTC
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 21 0.47
29 24 0.53
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (28 bp):
CATAAACCATAAACCATAAACCATAAAC
Found at i:29671616 original size:24 final size:24
Alignment explanation
Indices: 29671588--29671636 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
29671578 CCAAAATAAC
*
29671588 AATTAATTTTTATATAGACTTTTA
1 AATTAATTTTTATATAAACTTTTA
29671612 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
29671636 A
1 A
29671637 TAAATATACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:29672357 original size:81 final size:82
Alignment explanation
Indices: 29672258--29672454 Score: 224
Period size: 81 Copynumber: 2.5 Consensus size: 82
29672248 TTTTAGTGGT
* * *** *
29672258 GTTTTACCAAAAGCGCCGCTAATACTCTGTCTTTTAGCGGCGCTTTT-GGTAAAACGCCGCTAAT
1 GTTTTACCAAAAGCGCCGCTAATACTCTGTCTTTTACCGACG-TTTTACCAAAAACGCCGCTAAA
*
29672322 GCTCTGTCTTTTAGC-GC
65 GCTCTATCTTTTAGCAGC
* * *
29672339 GTTTTACCAAAAGTGCCGCTACTGCTCTGTCTTTTACCGACGTTTTACCAAAAACGCCGCTAAAG
1 GTTTTACCAAAAGCGCCGCTAATACTCTGTCTTTTACCGACGTTTTACCAAAAACGCCGCTAAAG
29672404 CTCTATCTTTTAGCAGC
66 CTCTATCTTTTAGCAGC
* * * *
29672421 G-TTT--CAAAAACGCCGCTATTGCTCTGTGTTTTAC
1 GTTTTACCAAAAGCGCCGCTAATACTCTGTCTTTTAC
29672455 AATTTTTGCA
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 26 0.26
80 4 0.04
81 67 0.67
82 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (82 bp):
GTTTTACCAAAAGCGCCGCTAATACTCTGTCTTTTACCGACGTTTTACCAAAAACGCCGCTAAAG
CTCTATCTTTTAGCAGC
Found at i:29672398 original size:41 final size:41
Alignment explanation
Indices: 29672258--29672453 Score: 206
Period size: 41 Copynumber: 4.9 Consensus size: 41
29672248 TTTTAGTGGT
* * *
29672258 GTTTTACCAAAAGCGCCGCTAATACTCTGTCTTTTAGCGGC
1 GTTTTACCAAAAACGCCGCTAATGCTCTGTCTTTTAGCGAC
***
29672299 GCTTTT-GGTAAAACGCCGCTAATGCTCTGTCTTTTAGCG-C
1 G-TTTTACCAAAAACGCCGCTAATGCTCTGTCTTTTAGCGAC
** * *
29672339 GTTTTACCAAAAGTGCCGCTACTGCTCTGTCTTTTACCGAC
1 GTTTTACCAAAAACGCCGCTAATGCTCTGTCTTTTAGCGAC
* *
29672380 GTTTTACCAAAAACGCCGCTAAAGCTCTATCTTTTAGC-AGC
1 GTTTTACCAAAAACGCCGCTAATGCTCTGTCTTTTAGCGA-C
* *
29672421 G-TTT--CAAAAACGCCGCTATTGCTCTGTGTTTTA
1 GTTTTACCAAAAACGCCGCTAATGCTCTGTCTTTTA
29672454 CAATTTTTGC
Statistics
Matches: 129, Mismatches: 22, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
38 25 0.19
39 4 0.03
40 32 0.25
41 64 0.50
42 4 0.03
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (41 bp):
GTTTTACCAAAAACGCCGCTAATGCTCTGTCTTTTAGCGAC
Found at i:29672494 original size:12 final size:12
Alignment explanation
Indices: 29672477--29672502 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29672467 GTTTTCTAAT
29672477 AAAACGCCGCTA
1 AAAACGCCGCTA
29672489 AAAACGCCGCTA
1 AAAACGCCGCTA
29672501 AA
1 AA
29672503 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:29674801 original size:19 final size:19
Alignment explanation
Indices: 29674774--29674812 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
29674764 TAGTTTCTTG
29674774 TATCCTATGATACTTCATA
1 TATCCTATGATACTTCATA
* *
29674793 TATCTTATGATATTTCATA
1 TATCCTATGATACTTCATA
29674812 T
1 T
29674813 TAATATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (19 bp):
TATCCTATGATACTTCATA
Found at i:29677141 original size:40 final size:40
Alignment explanation
Indices: 29677081--29677277 Score: 216
Period size: 40 Copynumber: 4.9 Consensus size: 40
29677071 TGCTCTTGAT
* * *
29677081 AGTACTTTCATACTCCTGATAGCACTATGGTGTTCCTAAC
1 AGTACTTTCATACTCTTGATAGCACTACGGTGCTCCTAAC
* * *
29677121 AGTACTTTCATACTCTTGATAGCACTACTGTGCTTCTAAG
1 AGTACTTTCATACTCTTGATAGCACTACGGTGCTCCTAAC
* * * *
29677161 AGTATTTTCCTACTCCTGATAACACTACGGTGCTCCTAAC
1 AGTACTTTCATACTCTTGATAGCACTACGGTGCTCCTAAC
* ***
29677201 AGTACTTTCCTACTCTT-ATTAGCACTACGGTGCTCCTGGT
1 AGTACTTTCATACTCTTGA-TAGCACTACGGTGCTCCTAAC
* * **
29677241 AGTACTTTCGTACTCTTGTTAGCACTACAATGCTCCT
1 AGTACTTTCATACTCTTGATAGCACTACGGTGCTCCT
29677278 GATAGCATAT
Statistics
Matches: 132, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 131 0.99
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (40 bp):
AGTACTTTCATACTCTTGATAGCACTACGGTGCTCCTAAC
Found at i:29677267 original size:80 final size:80
Alignment explanation
Indices: 29677069--29677277 Score: 242
Period size: 80 Copynumber: 2.6 Consensus size: 80
29677059 ATCTTGAATA
* * * *
29677069 GGTGCTCTTGATAGTACTTTCATACTCCTGATAGCACTATGGTGTTCCTAACAGTACTTTCATAC
1 GGTGCTCCTGGTAGTACTTTCATACTCCTGATAGCACTACGGTGCTCCTAACAGTACTTTCATAC
29677134 TCTTGATAGCACTAC
66 TCTTGATAGCACTAC
* * * * * * *
29677149 TGTGCTTCTAAG-AGTATTTTCCTACTCCTGATAACACTACGGTGCTCCTAACAGTACTTTCCTA
1 GGTGCTCCT-GGTAGTACTTTCATACTCCTGATAGCACTACGGTGCTCCTAACAGTACTTTCATA
29677213 CTCTT-ATTAGCACTAC
65 CTCTTGA-TAGCACTAC
* * * **
29677229 GGTGCTCCTGGTAGTACTTTCGTACTCTTGTTAGCACTACAATGCTCCT
1 GGTGCTCCTGGTAGTACTTTCATACTCCTGATAGCACTACGGTGCTCCT
29677278 GATAGCATAT
Statistics
Matches: 105, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
79 2 0.02
80 103 0.98
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (80 bp):
GGTGCTCCTGGTAGTACTTTCATACTCCTGATAGCACTACGGTGCTCCTAACAGTACTTTCATAC
TCTTGATAGCACTAC
Found at i:29681154 original size:42 final size:42
Alignment explanation
Indices: 29681107--29681224 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
29681097 CAACGTTTCA
* * *
29681107 ATGCCATATCCCCGATATGGTCTTACATGAAAT-ATCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCA-CATACCG
* * * *
29681149 ATGCCATGTCCCTGACATGGTCTTATACGAAATCACATACCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCACATACCG
* * * *
29681191 AGGCCATATCTCAGATATGGTCTTATACGGAATC
1 ATGCCATATCCCAGATATGGTCTTACACGAAATC
29681225 TTAATAACCT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
42 62 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCACATACCG
Found at i:29682733 original size:52 final size:52
Alignment explanation
Indices: 29682672--29682787 Score: 160
Period size: 52 Copynumber: 2.2 Consensus size: 52
29682662 TGGAAAAGAA
*
29682672 GTGATATGTGCACCCGTATAAAACCATAACTGGGCTATGGCATCGGTGCAAT
1 GTGATATGTGCACCCGTATAAAACCATAACAGGGCTATGGCATCGGTGCAAT
* * * * **
29682724 GTGATATGTGCTCCCGTATAAGACCATAGCAGGGTTATGGCATCGGTGTGAT
1 GTGATATGTGCACCCGTATAAAACCATAACAGGGCTATGGCATCGGTGCAAT
29682776 GTGATAATGTGC
1 GTGAT-ATGTGC
29682788 TTTCGTATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
52 50 0.89
53 6 0.11
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (52 bp):
GTGATATGTGCACCCGTATAAAACCATAACAGGGCTATGGCATCGGTGCAAT
Found at i:29682850 original size:47 final size:46
Alignment explanation
Indices: 29682791--29682897 Score: 124
Period size: 47 Copynumber: 2.3 Consensus size: 46
29682781 AATGTGCTTT
* * * *
29682791 CGTATAATACCATGTCTTGGACATGGTATCGGTATAATATGAGCCTC
1 CGTATAAGACCATGTCTGGGACATGGCATCGGTATAATATGAG-ATC
* * * *
29682838 CGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGATC
1 CGTATAAGACCATGTCTGGGACATGGCATCGGTATAATATGAGATC
*
29682884 CGTGTAAGACCATG
1 CGTATAAGACCATG
29682898 GCTAGACTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 14 0.28
47 36 0.72
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATGTCTGGGACATGGCATCGGTATAATATGAGATC
Found at i:29691086 original size:5 final size:6
Alignment explanation
Indices: 29691046--29691088 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
29691036 GGGTGATTAT
* **
29691046 TTTTATA TTTTTA TTTCTA TTTCAA TTTTTA TTTTTA TTTTTA
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
29691089 GTTTGGACGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:29693403 original size:28 final size:28
Alignment explanation
Indices: 29693327--29693403 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
29693317 TATATATATA
* *
29693327 TATGGCACTTAGTGTGAAAAATATTAAG
1 TATGGCACTTAGTGTGAGAGATATTAAG
* * * *
29693355 AATGGCACTTGGTGTGTGAGATATTGAG
1 TATGGCACTTAGTGTGAGAGATATTAAG
* *
29693383 TATGACACTTAGTGTGCGAGA
1 TATGGCACTTAGTGTGAGAGA
29693404 CATCGAAGAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (28 bp):
TATGGCACTTAGTGTGAGAGATATTAAG
Found at i:29696171 original size:36 final size:36
Alignment explanation
Indices: 29696032--29696155 Score: 128
Period size: 37 Copynumber: 3.4 Consensus size: 36
29696022 TACATGTGGT
* * *
29696032 ACGTGTATGACCATATCTGGGCTATAGCATCGT-A-G
1 ACGTGTAAGACCATAGCT-GGCTATGGCATCGTGATG
29696067 TAGCGTGTAAGACCATAGCTCGGCTATGGCATCGTGATG
1 -A-CGTGTAAGACCATAGCT-GGCTATGGCATCGTGATG
* * *
29696106 ACATGTAAAACCATAGCTGGGCTATGGCATTGTGAT-
1 ACGTGTAAGACCATAGCT-GGCTATGGCATCGTGATG
29696142 ACGTGTAAGACCAT
1 ACGTGTAAGACCAT
29696156 GTCTAGGACA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
36 13 0.17
37 59 0.79
38 2 0.03
39 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (36 bp):
ACGTGTAAGACCATAGCTGGCTATGGCATCGTGATG
Found at i:29696189 original size:42 final size:42
Alignment explanation
Indices: 29696144--29696340 Score: 184
Period size: 42 Copynumber: 4.7 Consensus size: 42
29696134 ATTGTGATAC
**
29696144 GTGTAAGACCATGTCTAGGACATGGCATCGATATGAGATCAC
1 GTGTAAGACCATGTCTAGGACATGGCATCGATATGAGATCTT
* * * * * * *
29696186 GTGTAAGACCATATCTGGGATATGGCTTTGGTATGAGATTTT
1 GTGTAAGACCATGTCTAGGACATGGCATCGATATGAGATCTT
* * ** * *
29696228 GTGTAAGACCGTGTCTGGGATGTGGCATCGATATGTGATTTT
1 GTGTAAGACCATGTCTAGGACATGGCATCGATATGAGATCTT
* * *
29696270 GTATAAGACCATGTCTAGGACATGGCAACGATGTGAGA-CTTT
1 GTGTAAGACCATGTCTAGGACATGGCATCGATATGAGATC-TT
29696312 GTGTAAGACCATAGT-T-GGACTATGGCATC
1 GTGTAAGACCAT-GTCTAGGAC-ATGGCATC
29696341 AAGTAAACGA
Statistics
Matches: 125, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
41 4 0.03
42 119 0.95
43 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATGTCTAGGACATGGCATCGATATGAGATCTT
Found at i:29696338 original size:84 final size:85
Alignment explanation
Indices: 29696144--29696340 Score: 204
Period size: 84 Copynumber: 2.4 Consensus size: 85
29696134 ATTGTGATAC
* * *
29696144 GTGTAAGACCATGTCTAGGAC-ATGGCATCGATATGAGATCACGTGTAAGACCATATCTGGGATA
1 GTGTAAGACCATGTCTAGGACTATGGCATCGATATGAGATCACGTATAAGACCATATCTAGGACA
*** * *
29696208 TGGCTTTGGTATGAGATTTT
66 TGGCAACGATATGAGACTTT
* * * * *** *
29696228 GTGTAAGACCGTGTCTGGGA-TGTGGCATCGATATGTGATTTTGTATAAGACCATGTCTAGGACA
1 GTGTAAGACCATGTCTAGGACTATGGCATCGATATGAGATCACGTATAAGACCATATCTAGGACA
*
29696292 TGGCAACGATGTGAGACTTT
66 TGGCAACGATATGAGACTTT
29696312 GTGTAAGACCATAGT-T-GGACTATGGCATC
1 GTGTAAGACCAT-GTCTAGGACTATGGCATC
29696341 AAGTAAACGA
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
83 3 0.03
84 86 0.95
85 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (85 bp):
GTGTAAGACCATGTCTAGGACTATGGCATCGATATGAGATCACGTATAAGACCATATCTAGGACA
TGGCAACGATATGAGACTTT
Found at i:29698805 original size:40 final size:40
Alignment explanation
Indices: 29698750--29699337 Score: 1005
Period size: 40 Copynumber: 14.7 Consensus size: 40
29698740 GAGCATTGGA
29698750 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29698790 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
29698830 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29698870 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
29698910 ATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
29698950 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29698990 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
29699030 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
29699070 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29699110 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
29699150 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29699190 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
29699230 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29699270 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
29699310 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
29699338 AGGTGTTTGC
Statistics
Matches: 517, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 517 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:29706546 original size:40 final size:40
Alignment explanation
Indices: 29706491--29707081 Score: 993
Period size: 40 Copynumber: 14.7 Consensus size: 40
29706481 GAGCATTGGA
29706491 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29706531 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
29706571 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29706611 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
29706651 ATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
29706691 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29706731 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
29706771 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
29706811 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29706851 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
29706891 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG-TTG
*
29706932 ATATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 --ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
29706974 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29707014 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
29707054 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
29707082 AGGTGTTTGC
Statistics
Matches: 519, Mismatches: 29, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
40 480 0.92
41 2 0.00
42 3 0.01
43 34 0.07
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:29714032 original size:31 final size:31
Alignment explanation
Indices: 29713996--29714072 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
29713986 GTGTCCCAAG
29713996 CCACACGGGCGTGTGTGACCACACGACCCCA
1 CCACACGGGCGTGTGTGACCACACGACCCCA
29714027 CCACACGGGCGTGTGTGACCACACGACCCCA
1 CCACACGGGCGTGTGTGACCACACGACCCCA
*
29714058 CCACACGAGCGTGTG
1 CCACACGGGCGTGTG
29714073 ACACTTCAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.22, C:0.40, G:0.27, T:0.10
Consensus pattern (31 bp):
CCACACGGGCGTGTGTGACCACACGACCCCA
Found at i:29714994 original size:28 final size:28
Alignment explanation
Indices: 29714922--29714997 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
29714912 ATATATGTAC
* *
29714922 ATGGCACTTAGTGTGCAAAATATTAAGA
1 ATGGCACTTAGTGTGCGAGATATTAAGA
* * *
29714950 ATGGCACTTTGTGTGCGAGATATTGAGT
1 ATGGCACTTAGTGTGCGAGATATTAAGA
29714978 ATGGCACTTAGTGTGCGAGA
1 ATGGCACTTAGTGTGCGAGA
29714998 CATCGAAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAGATATTAAGA
Found at i:29717419 original size:90 final size:93
Alignment explanation
Indices: 29717254--29717426 Score: 201
Period size: 90 Copynumber: 1.9 Consensus size: 93
29717244 ACATCATATC
* * * * * * ** *
29717254 GGTATAGTGGATTACCGCATTGCATTGTACTACTTGTACGTTAGTTATGCTGTGTACCATTGACT
1 GGTATAGCGGATCACCGCATTGCACTGTACTACATGTACGTTAGCTACGCTACGTACCACTGACT
*
29717319 GAACTGGCAGTTT-TACTACAATCTATT
66 GAACTAGCAGTTTATACTACAATCTATT
*
29717346 GGTATAGCGGATCACCGCATTGCACTGT-C-GCATGTACGTTAGCTACGCTACGTACCACT-ATC
1 GGTATAGCGGATCACCGCATTGCACTGTACTACATGTACGTTAGCTACGCTACGTACCACTGA-C
*
29717408 TGATCTAGCAGTTTATACT
65 TGAACTAGCAGTTTATACT
29717427 GCATGTCTGT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
89 1 0.01
90 36 0.54
91 5 0.07
92 25 0.37
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (93 bp):
GGTATAGCGGATCACCGCATTGCACTGTACTACATGTACGTTAGCTACGCTACGTACCACTGACT
GAACTAGCAGTTTATACTACAATCTATT
Found at i:29717870 original size:18 final size:18
Alignment explanation
Indices: 29717827--29717861 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29717817 TGAGAATTTT
*
29717827 TGATACCGTGACTGAATA
1 TGATACTGTGACTGAATA
29717845 TGATACTGTGACTGAAT
1 TGATACTGTGACTGAAT
29717862 GTGTTACTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (18 bp):
TGATACTGTGACTGAATA
Found at i:29730306 original size:64 final size:64
Alignment explanation
Indices: 29730150--29730465 Score: 307
Period size: 64 Copynumber: 4.8 Consensus size: 64
29730140 ATATAGATGG
* * * *
29730150 TATGTAGCTAGGTCACATGTGTAATACGA-GATGTATACCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCACATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTACGAG--
29730213 ATTA
62 A-TA
* *
29730217 TGAGGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* *
29730282 TATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGAGATA
1 TATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* ** * * * * * * *
29730346 AATGTAGCTAGGTTGCATGTGTGGTTCCAAGTGAAGGACACCATGTAAACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
29730411 TA
63 TA
* * * * *
29730413 -AAGTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAG
1 TATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAG
29730466 ACAAAATTAT
Statistics
Matches: 209, Mismatches: 33, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
63 18 0.09
64 79 0.38
65 11 0.05
66 19 0.09
67 30 0.14
68 50 0.24
69 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:29738312 original size:18 final size:18
Alignment explanation
Indices: 29738291--29738325 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29738281 AGTTTAATTT
*
29738291 TGTTTTTTATTTATTTTA
1 TGTTATTTATTTATTTTA
*
29738309 TGTTATTTGTTTATTTT
1 TGTTATTTATTTATTTT
29738326 CCATATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (18 bp):
TGTTATTTATTTATTTTA
Found at i:29739786 original size:47 final size:46
Alignment explanation
Indices: 29739690--29739900 Score: 191
Period size: 46 Copynumber: 4.6 Consensus size: 46
29739680 TTAATTGTGT
* * * * *
29739690 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC-TACATTACGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCATAGA-AATGAGA
*
29739736 GCTAGTGTAAGACCAT-TCTAGGACATGGCATCGGCATTGAAATGAGA
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCATAGAAATGAGA
* * *
29739783 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCATAGAAATG-AGA
* * * *
29739829 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-ATACAAGATGTG-
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCATAGAA-ATGAGA
* *
29739874 TC-AGTGTAAGACCATATCTAGGACATG
1 GCTAGTGTAAGA-CATGTCTAGGACATG
29739901 GAATCGGTAT
Statistics
Matches: 138, Mismatches: 19, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
44 9 0.07
45 16 0.12
46 73 0.53
47 38 0.28
48 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCATAGAAATGAGA
Found at i:29739853 original size:93 final size:92
Alignment explanation
Indices: 29739690--29739861 Score: 217
Period size: 93 Copynumber: 1.9 Consensus size: 92
29739680 TTAATTGTGT
* * *
29739690 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACATTACGAGAGCTAGTGTAAGACCATTCT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCTACATGACGAGAGCCAGTGTAAGACCATTCT
29739755 AGGACATGGCATCGGCATTGAAATGAGA
66 AGGACAT-GCATCGGCATTGAAATGAGA
* *
29739783 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCT-CGA-GATGTA-AGCCAGTGTAAGA-CAT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAG-CTAC-ATGACG-AGAGCCAGTGTAAGACCAT
*
29739844 GTCTGGGACATGCATCGG
63 -TCTAGGACATGCATCGG
29739862 ATACAAGATG
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
92 10 0.14
93 55 0.80
94 4 0.06
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCTACATGACGAGAGCCAGTGTAAGACCATTCT
AGGACATGCATCGGCATTGAAATGAGA
Found at i:29741084 original size:21 final size:22
Alignment explanation
Indices: 29741045--29741085 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
29741035 TCGAATTGGT
29741045 CACACGAGCGTGTTGCCCCTCC
1 CACACGAGCGTGTTGCCCCTCC
*
29741067 CACACGGGCGTG-TGCCCCT
1 CACACGAGCGTGTTGCCCCT
29741086 GTGTCTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGAGCGTGTTGCCCCTCC
Found at i:29744941 original size:18 final size:18
Alignment explanation
Indices: 29744918--29744955 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
29744908 CATAAAGAGT
29744918 GGCTCCGAGACTTGGCGA
1 GGCTCCGAGACTTGGCGA
29744936 GGCTCCGAGACTTGGCGA
1 GGCTCCGAGACTTGGCGA
29744954 GG
1 GG
29744956 TTTCGGACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.26, G:0.42, T:0.16
Consensus pattern (18 bp):
GGCTCCGAGACTTGGCGA
Found at i:29748788 original size:21 final size:19
Alignment explanation
Indices: 29748751--29748790 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
29748741 TTTTTAAACC
29748751 TAAAATAAAAAATAATTTA
1 TAAAATAAAAAATAATTTA
*
29748770 TAAAATATAAATATAAATTTA
1 TAAAATA-AAAAAT-AATTTA
29748791 GAATGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAATAAAAAATAATTTA
Found at i:29749177 original size:2 final size:2
Alignment explanation
Indices: 29749170--29749194 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29749160 TTTCATCAAC
29749170 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
29749195 TATTGAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29753101 original size:26 final size:26
Alignment explanation
Indices: 29753051--29753101 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
29753041 CTAAGGATAA
* * *
29753051 AATCGTCAAAATTTTATTGGGGGTAT
1 AATCGTCAAAATTTTACTCGAGGTAT
29753077 AATCGTCAAAATTTTACTCGAGGTA
1 AATCGTCAAAATTTTACTCGAGGTA
29753102 AAATAGGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (26 bp):
AATCGTCAAAATTTTACTCGAGGTAT
Found at i:29759452 original size:16 final size:17
Alignment explanation
Indices: 29759431--29759464 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29759421 AATTTCTACA
29759431 AAAATTA-TTAATTGAG
1 AAAATTACTTAATTGAG
29759447 AAAATTATCTTAATTGAG
1 AAAATTA-CTTAATTGAG
29759465 GGGTTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAATTACTTAATTGAG
Found at i:29760622 original size:31 final size:31
Alignment explanation
Indices: 29760584--29760732 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
29760574 ACAAATGACA
*
29760584 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
29760615 AGTGAAAAGTGGTAGTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
29760646 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
29760677 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
29760708 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
29760733 AAGTGACAAG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:29760859 original size:42 final size:43
Alignment explanation
Indices: 29760804--29760918 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 43
29760794 TATGTGATTC
* *
29760804 GTGTAAGAGCATAGCTGAGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGAGCTATGGCATCGATTATATGAAGAT
* *
29760846 GTGTAAGACCATAGCTTG-GCCATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGC-TGAGCTATGGCATCGATTATATGAAGAT
* *
29760888 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGAGCTATGGCATCGA
29760919 GAAAACGAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
41 3 0.05
42 56 0.90
43 3 0.05
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGAGCTATGGCATCGATTATATGAAGAT
Found at i:29764419 original size:23 final size:22
Alignment explanation
Indices: 29764386--29764428 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
29764376 ATTTATAGGA
29764386 AAAAAAATTTACCGTTAGCCATT
1 AAAAAAATTTACCGTT-GCCATT
*
29764409 AAAAAATTTTACCGTTGCCA
1 AAAAAAATTTACCGTTGCCA
29764429 ATGTTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (22 bp):
AAAAAAATTTACCGTTGCCATT
Found at i:29764466 original size:14 final size:14
Alignment explanation
Indices: 29764447--29764481 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
29764437 AAAGCCATTG
29764447 GGGAAATGGCCGTT
1 GGGAAATGGCCGTT
29764461 GGGAAATGGCCGTT
1 GGGAAATGGCCGTT
29764475 GGAGAAA
1 GG-GAAA
29764482 AGCTTGCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.29, C:0.11, G:0.43, T:0.17
Consensus pattern (14 bp):
GGGAAATGGCCGTT
Found at i:29766973 original size:12 final size:12
Alignment explanation
Indices: 29766956--29766983 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
29766946 AAATTAAATA
29766956 ATATGTTATAAT
1 ATATGTTATAAT
29766968 ATATGTTATAAT
1 ATATGTTATAAT
29766980 ATAT
1 ATAT
29766984 ATATCATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
ATATGTTATAAT
Found at i:29772189 original size:42 final size:42
Alignment explanation
Indices: 29772142--29772266 Score: 173
Period size: 42 Copynumber: 3.0 Consensus size: 42
29772132 ATAGTGATAT
*
29772142 TCGGGCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATA
1 TCGGGCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
*
29772184 TCGGGCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATG
1 TCGGGCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
* * * *
29772226 TCAGGC-CTATTACCTAGCAGG-TTCTATTCCGGTGTATTATA
1 TCGGGCTTTATTGCCTAGCAGGCTT-TATGCCGGTGTATTATA
29772267 CTAGGCTTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 2 0.03
41 28 0.37
42 45 0.60
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.38
Consensus pattern (42 bp):
TCGGGCTTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
Found at i:29772283 original size:41 final size:41
Alignment explanation
Indices: 29772149--29772285 Score: 170
Period size: 41 Copynumber: 3.3 Consensus size: 41
29772139 TATTCGGGCT
* *
29772149 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCGGGC
1 TTATTGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGC
*
29772190 TTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATGTCAGGC
1 -TTATTGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGC
* * *
29772232 CTATTACCTAGCAGG-TTCTATTCCGGTGTATTATA-CTAGGC
1 TTATTGCCTAGCAGGCTT-TATGCCGGTGTATTATATC-AGGC
*
29772273 TTATCGCCTAGCA
1 TTATTGCCTAGCA
29772286 AATTTTATGT
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.04
41 42 0.51
42 38 0.46
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.36
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTATGCCGGTGTATTATATCAGGC
Found at i:29774360 original size:27 final size:28
Alignment explanation
Indices: 29774299--29774393 Score: 106
Period size: 27 Copynumber: 3.4 Consensus size: 28
29774289 AAGAAGCGTC
* *
29774299 CTGGTGGCTATGCCACAAATTATCTG-AT
1 CTGGTGGCTCTACCAC-AATTATCTGTAT
*
29774327 ATGGTGGCTCTACCAC-ATATATCTGT-T
1 CTGGTGGCTCTACCACAAT-TATCTGTAT
*
29774354 CTTGTGGCTCTACCACAATTATCTGTAT
1 CTGGTGGCTCTACCACAATTATCTGTAT
*
29774382 CTGGTGACTCTA
1 CTGGTGGCTCTA
29774394 TTACATTATA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
26 2 0.04
27 28 0.50
28 26 0.46
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (28 bp):
CTGGTGGCTCTACCACAATTATCTGTAT
Found at i:29774401 original size:27 final size:26
Alignment explanation
Indices: 29774299--29774411 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 26
29774289 AAGAAGCGTC
* * *
29774299 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTACCAC--ATTATCTGTT
*
29774327 ATGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTACCACAT-TATCTGTT
*
29774354 CTTGTGGCTCTACCACAATTATCTGTAT
1 CTGGTGGCTCTACCAC-ATTATCTGT-T
* ** *
29774382 CTGGTGACTCTATTACATTATATGTT
1 CTGGTGGCTCTACCACATTATCTGTT
29774408 CTGG
1 CTGG
29774412 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.10
27 36 0.51
28 28 0.39
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTACCACATTATCTGTT
Found at i:29781159 original size:16 final size:16
Alignment explanation
Indices: 29781134--29781174 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
29781124 CTAGATCGGC
29781134 AAAAGCCGAAAAGCTG
1 AAAAGCCGAAAAGCTG
* *
29781150 AAATGCCGAAATGCTG
1 AAAAGCCGAAAAGCTG
29781166 AAAAGCCGA
1 AAAAGCCGA
29781175 TATTTTGGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.46, C:0.20, G:0.24, T:0.10
Consensus pattern (16 bp):
AAAAGCCGAAAAGCTG
Found at i:29781619 original size:28 final size:28
Alignment explanation
Indices: 29781587--29781681 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
29781577 AGGAAGCGTC
*
29781587 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
* *
29781615 CTGGTGGCTCTGCCACATA-TATCTGTT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
* * *
29781642 CTAGTGACTCTGCCAC-GATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATTATCTG-AT
*
29781670 CTGGTGACTCTG
1 CTGGTGGCTCTG
29781682 TCATATTATC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
26 1 0.02
27 27 0.47
28 29 0.51
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAAATTATCTGAT
Found at i:29781652 original size:27 final size:26
Alignment explanation
Indices: 29781587--29781699 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
29781577 AGGAAGCGTC
* * *
29781587 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGACTCTGCCAC--ATTATCTGTT
*
29781615 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACAT-TATCTGTT
*
29781642 CTAGTGACTCTGCCACGATTATCTGTAT
1 CTGGTGACTCTGCCAC-ATTATCTGT-T
* *
29781670 CTGGTGACTCTGTCATATTATCTGTT
1 CTGGTGACTCTGCCACATTATCTGTT
29781696 CTGG
1 CTGG
29781700 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.09
27 37 0.49
28 31 0.41
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTGTT
Found at i:29788505 original size:12 final size:12
Alignment explanation
Indices: 29788488--29788513 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29788478 AAATTAAATA
29788488 ATATGTTATAAT
1 ATATGTTATAAT
29788500 ATATGTTATAAT
1 ATATGTTATAAT
29788512 AT
1 AT
29788514 TTATATCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATATGTTATAAT
Found at i:29789637 original size:41 final size:42
Alignment explanation
Indices: 29789417--29789641 Score: 296
Period size: 42 Copynumber: 5.4 Consensus size: 42
29789407 GTGATATTCG
*
29789417 GGCTTTATTGCCTAGCAGGCTTTGTGCCAGTGTATTATATCA
1 GGCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCA
* * *
29789459 GGCATTATTGCCTAGCAGGCTTTGTGCCGATGTATTATATCG
1 GGCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCA
* *
29789501 GGCTTTAATGCCTAGCAGGCTTTGTGCCGGTGTATTATATCG
1 GGCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCA
* * *
29789543 GGCTTTATTGCCTAGCAGGCTTTATGCCGATGTATTATGTCA
1 GGCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCA
* *
29789585 GGC-CTATTGCCTAGCAGG-TTCTATGCCGGTGTATTATA-CTA
1 GGCTTTATTGCCTAGCAGGCTT-TGTGCCGGTGTATTATATC-A
*
29789626 GGC-TTAATGCCTAGCA
1 GGCTTTATTGCCTAGCA
29789642 AATTTTATGT
Statistics
Matches: 164, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 3 0.02
41 44 0.27
42 117 0.71
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (42 bp):
GGCTTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCA
Found at i:29794431 original size:46 final size:46
Alignment explanation
Indices: 29794371--29794547 Score: 266
Period size: 46 Copynumber: 3.8 Consensus size: 46
29794361 TTTGACATGA
* * * * *
29794371 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCACGC
*
29794417 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGC
*
29794463 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGC
*
29794509 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
29794548 ATTAGGTTTC
Statistics
Matches: 122, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 4 0.03
46 118 0.97
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGC
Found at i:29794571 original size:27 final size:27
Alignment explanation
Indices: 29794533--29794587 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
29794523 TCAACCATGG
* *
29794533 TCTTACACATTTCATATTAGGTTTCCA
1 TCTTACACATTTCATATCAGGTTGCCA
29794560 TCTTACACATTTCATATCAGGTTGCCA
1 TCTTACACATTTCATATCAGGTTGCCA
29794587 T
1 T
29794588 GGTATCGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.24, G:0.09, T:0.42
Consensus pattern (27 bp):
TCTTACACATTTCATATCAGGTTGCCA
Found at i:29796671 original size:17 final size:17
Alignment explanation
Indices: 29796638--29796672 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
29796628 TTTATTTCTC
* *
29796638 TCCTTTTTTTTCTTTTT
1 TCCTTTTTTTCCCTTTT
29796655 TCCTTTTTTTCCCTTTT
1 TCCTTTTTTTCCCTTTT
29796672 T
1 T
29796673 TTATATATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TCCTTTTTTTCCCTTTT
Found at i:29797915 original size:24 final size:24
Alignment explanation
Indices: 29797888--29797933 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
29797878 CATAAAACAC
29797888 ATAAAAATGGTCATTTTATTCATT
1 ATAAAAATGGTCATTTTATTCATT
29797912 ATAAAAATGGTCATTTTATTCA
1 ATAAAAATGGTCATTTTATTCA
29797934 CAATGTCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (24 bp):
ATAAAAATGGTCATTTTATTCATT
Found at i:29803337 original size:25 final size:25
Alignment explanation
Indices: 29803303--29803353 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
29803293 TGTGCTGGAG
29803303 TTCTTCACTTTGCTTATTGTTTCTT
1 TTCTTCACTTTGCTTATTGTTTCTT
29803328 TTCTTCACTTTGCTTATTGTTTCTT
1 TTCTTCACTTTGCTTATTGTTTCTT
29803353 T
1 T
29803354 CTAATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.08, C:0.20, G:0.08, T:0.65
Consensus pattern (25 bp):
TTCTTCACTTTGCTTATTGTTTCTT
Found at i:29815097 original size:16 final size:16
Alignment explanation
Indices: 29815076--29815143 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
29815066 TTTGGTTCTC
29815076 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
29815092 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
29815107 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
29815124 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
29815140 TGTA
1 TGTA
29815144 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:29815115 original size:32 final size:32
Alignment explanation
Indices: 29815076--29815143 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
29815066 TTTGGTTCTC
29815076 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
29815108 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
29815140 TGTA
1 TGTA
29815144 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:29815467 original size:157 final size:157
Alignment explanation
Indices: 29815273--29815582 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
29815263 CCCTTAGCAT
*
29815273 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
29815338 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
29815403 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
29815430 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
29815495 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
29815560 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
29815583 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:29815579 original size:82 final size:81
Alignment explanation
Indices: 29815336--29815585 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
29815326 TATTATTATC
* * *
29815336 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
29815401 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
29815418 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
29815472 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
29815493 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
29815558 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
29815575 AATAATTAATA
1 AATAATAAATA
29815586 TTCTTATATG
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:29815590 original size:16 final size:18
Alignment explanation
Indices: 29815569--29815603 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
29815559 ATTTAATAAA
29815569 ATTCTTA-AT-AATTAAT
1 ATTCTTATATGAATTAAT
29815585 ATTCTTATATGAATTAAT
1 ATTCTTATATGAATTAAT
29815603 A
1 A
29815604 GTACATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 2 0.12
18 8 0.47
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTCTTATATGAATTAAT
Found at i:29821339 original size:17 final size:17
Alignment explanation
Indices: 29821317--29821355 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
29821307 ACTAAACCGA
*
29821317 CCACTAACTCCATCACC
1 CCACTAACTCCACCACC
29821334 CCACTAACTCCACCACC
1 CCACTAACTCCACCACC
29821351 CCACT
1 CCACT
29821356 TGCCACTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.56, G:0.00, T:0.15
Consensus pattern (17 bp):
CCACTAACTCCACCACC
Found at i:29821361 original size:24 final size:24
Alignment explanation
Indices: 29821334--29821379 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
29821324 CTCCATCACC
29821334 CCACTAACTCCACCACCCCACTTG
1 CCACTAACTCCACCACCCCACTTG
* *
29821358 CCACTAACTCTATCACCCCACT
1 CCACTAACTCCACCACCCCACT
29821380 AAATCACCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.52, G:0.02, T:0.20
Consensus pattern (24 bp):
CCACTAACTCCACCACCCCACTTG
Found at i:29821387 original size:13 final size:13
Alignment explanation
Indices: 29821369--29821436 Score: 55
Period size: 13 Copynumber: 5.0 Consensus size: 13
29821359 CACTAACTCT
29821369 ATCACCCCACTAA
1 ATCACCCCACTAA
29821382 ATCACCCCACTAA
1 ATCACCCCACTAA
**** **
29821395 ACTTGCAATTAACTTC
1 A--T-CACCCCACTAA
29821411 ATCACCCCACTAA
1 ATCACCCCACTAA
29821424 ATCACCCCACTAA
1 ATCACCCCACTAA
29821437 CTCCATTACC
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
13 32 0.80
14 1 0.03
15 1 0.03
16 6 0.15
ACGTcount: A:0.37, C:0.41, G:0.01, T:0.21
Consensus pattern (13 bp):
ATCACCCCACTAA
Found at i:29821415 original size:42 final size:42
Alignment explanation
Indices: 29821301--29821436 Score: 143
Period size: 42 Copynumber: 3.3 Consensus size: 42
29821291 ATCCAATTAG
* * * *
29821301 CACCCCACTAAAC-CGACCACTAACTCCATCACCCCACTAACT
1 CACCCCACTAAACTTG-CAACTAACTTCATCACCCCACTAAAT
* *** *
29821343 C-CACCACCCCACTTGCCACTAAC-TCTATCACCCCACTAAAT
1 CACCCCACTAAACTTGCAACTAACTTC-ATCACCCCACTAAAT
*
29821384 CACCCCACTAAACTTGCAATTAACTTCATCACCCCACTAAAT
1 CACCCCACTAAACTTGCAACTAACTTCATCACCCCACTAAAT
29821426 CACCCCACTAA
1 CACCCCACTAA
29821437 CTCCATTACC
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
40 1 0.01
41 30 0.39
42 44 0.57
43 2 0.03
ACGTcount: A:0.33, C:0.46, G:0.02, T:0.18
Consensus pattern (42 bp):
CACCCCACTAAACTTGCAACTAACTTCATCACCCCACTAAAT
Found at i:29822010 original size:21 final size:21
Alignment explanation
Indices: 29821963--29822010 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
29821953 TCTTTTATGA
29821963 ATATTTTTTAAATATTATATT
1 ATATTTTTTAAATATTATATT
*
29821984 ATTATTTTTGTATATATTAT-TT
1 A-TATTTTT-TAAATATTATATT
29822006 ATATT
1 ATATT
29822011 AAGCTATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.21
22 10 0.42
23 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
ATATTTTTTAAATATTATATT
Found at i:29823060 original size:13 final size:13
Alignment explanation
Indices: 29823042--29823067 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29823032 ATTTTATTCT
29823042 TTCTGAAAGAAAG
1 TTCTGAAAGAAAG
29823055 TTCTGAAAGAAAG
1 TTCTGAAAGAAAG
29823068 AATCTCAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
TTCTGAAAGAAAG
Found at i:29825097 original size:13 final size:13
Alignment explanation
Indices: 29825079--29825104 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29825069 GTATCTGGAT
29825079 GTTGCTTTCCTAA
1 GTTGCTTTCCTAA
29825092 GTTGCTTTCCTAA
1 GTTGCTTTCCTAA
29825105 ATGTCATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTGCTTTCCTAA
Found at i:29848357 original size:29 final size:30
Alignment explanation
Indices: 29848325--29848412 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 30
29848315 TAATTTAATG
*
29848325 TGTAATTGTATATATG-AATTTTAATTTGA
1 TGTAATTATATATATGAAATTTTAATTTGA
* *
29848354 TGTAATTATATATGTGAAATTCTAATTGTGA
1 TGTAATTATATATATGAAATTTTAATT-TGA
* *
29848385 T-TCAAATATATATTTGAAATTTTAATTT
1 TGT-AATTATATATATGAAATTTTAATTT
29848413 TGATTTATTC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 14 0.28
30 11 0.22
31 25 0.50
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.50
Consensus pattern (30 bp):
TGTAATTATATATATGAAATTTTAATTTGA
Found at i:29848606 original size:29 final size:30
Alignment explanation
Indices: 29848549--29848607 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
29848539 GAATTGAATC
*
29848549 AAATCAAAATTTCATGTATAAAATCACACA
1 AAATCAAAATTTCATATATAAAATCACACA
* *
29848579 AAATCAAAATTT-ATATATACAATTACACA
1 AAATCAAAATTTCATATATAAAATCACACA
29848608 TTACACCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTTCATATATAAAATCACACA
Found at i:29850757 original size:34 final size:34
Alignment explanation
Indices: 29850714--29850781 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
29850704 ATCCATTCAC
* *
29850714 TAAGTCATACAAAACTTTGTCATCTATTTCCTTA
1 TAAGTCATACAAAACATTGTCATCAATTTCCTTA
*
29850748 TAAGTCATACAAAGCATTGTCATCAATTTCCTTA
1 TAAGTCATACAAAACATTGTCATCAATTTCCTTA
29850782 CACACCTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (34 bp):
TAAGTCATACAAAACATTGTCATCAATTTCCTTA
Found at i:29871600 original size:12 final size:12
Alignment explanation
Indices: 29871583--29871608 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29871573 CTCTCAACAA
29871583 AACTTAGAGAAT
1 AACTTAGAGAAT
29871595 AACTTAGAGAAT
1 AACTTAGAGAAT
29871607 AA
1 AA
29871609 GCCACTAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (12 bp):
AACTTAGAGAAT
Found at i:29872823 original size:44 final size:44
Alignment explanation
Indices: 29872760--29872849 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
29872750 TCACGTTGTG
29872760 TTGTCGCAACATCAGGTTGATTCTTATCATAACGTTGTAGCAAT
1 TTGTCGCAACATCAGGTTGATTCTTATCATAACGTTGTAGCAAT
29872804 TTGTCGCAACATCAGGTTGATTCTTATCATAACGTTGTAGCAAT
1 TTGTCGCAACATCAGGTTGATTCTTATCATAACGTTGTAGCAAT
29872848 TT
1 TT
29872850 TAAATTTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (44 bp):
TTGTCGCAACATCAGGTTGATTCTTATCATAACGTTGTAGCAAT
Found at i:29877470 original size:11 final size:11
Alignment explanation
Indices: 29877445--29877477 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
29877435 TTCAAAAAAA
29877445 AAAAGAAAATT
1 AAAAGAAAATT
29877456 -AAAGAAAATT
1 AAAAGAAAATT
29877466 AAAAGATAAATT
1 AAAAGA-AAATT
29877478 GAGTTTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 5 0.25
12 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (11 bp):
AAAAGAAAATT
Found at i:29879588 original size:55 final size:55
Alignment explanation
Indices: 29879504--29879631 Score: 211
Period size: 55 Copynumber: 2.3 Consensus size: 55
29879494 TGAGCTTTAC
* * * *
29879504 GATAAGGGTTTTAGTGCTCTTTTATTTTGCCGACAAAAATTCAGGTTCTCTATTT
1 GATAAGGGTTTTAGTGTTCTTCTATTTTGCCGACAAAAATTCAGGATCTCTATTA
*
29879559 GATAAGGGTTTTAGTGTTCTTCTATTTTGCTGACAAAAATTCAGGATCTCTATTA
1 GATAAGGGTTTTAGTGTTCTTCTATTTTGCCGACAAAAATTCAGGATCTCTATTA
29879614 GATAAGGGTTTTAGTGTT
1 GATAAGGGTTTTAGTGTT
29879632 TTTTTTTATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 68 1.00
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (55 bp):
GATAAGGGTTTTAGTGTTCTTCTATTTTGCCGACAAAAATTCAGGATCTCTATTA
Found at i:29882931 original size:28 final size:29
Alignment explanation
Indices: 29882876--29882932 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
29882866 TACAAGGGTT
*
29882876 TTCACATGGCCAAGCACATGCCCGTGTCC
1 TTCACACGGCCAAGCACATGCCCGTGTCC
* * *
29882905 TTCACACGGCCTAG-ACATGTCTGTGTCC
1 TTCACACGGCCAAGCACATGCCCGTGTCC
29882933 CTGGCCCATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.19, C:0.35, G:0.21, T:0.25
Consensus pattern (29 bp):
TTCACACGGCCAAGCACATGCCCGTGTCC
Found at i:29885679 original size:11 final size:11
Alignment explanation
Indices: 29885665--29885691 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
29885655 ATTTTGTATA
29885665 ATATTTAATTT
1 ATATTTAATTT
29885676 ATATTTAATTT
1 ATATTTAATTT
29885687 ATATT
1 ATATT
29885692 AATACATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATATTTAATTT
Found at i:29886207 original size:21 final size:22
Alignment explanation
Indices: 29886172--29886213 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
29886162 TAGTTTTCAA
29886172 ATTGTTTCCATATTGTTTTGTAT
1 ATTGTTT-CATATTGTTTTGTAT
29886195 ATTGTTT-ATATTGTTTTGT
1 ATTGTTTCATATTGTTTTGT
29886214 TATAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.17, C:0.05, G:0.14, T:0.64
Consensus pattern (22 bp):
ATTGTTTCATATTGTTTTGTAT
Found at i:29886223 original size:21 final size:21
Alignment explanation
Indices: 29886181--29886224 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
29886171 AATTGTTTCC
**
29886181 ATATTGTTTTGTATATTGTTT
1 ATATTGTTTTGTATATAATTT
29886202 ATATTGTTTTGT-TATAAATTT
1 ATATTGTTTTGTATAT-AATTT
29886223 AT
1 AT
29886225 TTTCATACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (21 bp):
ATATTGTTTTGTATATAATTT
Found at i:29893273 original size:4 final size:4
Alignment explanation
Indices: 29893264--29893297 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
29893254 AAGTTTTATT
29893264 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
29893298 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:29893305 original size:22 final size:22
Alignment explanation
Indices: 29893247--29893306 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
29893237 AAGTGGCCCA
*
29893247 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
29893271 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
29893292 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
29893307 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:29894948 original size:132 final size:132
Alignment explanation
Indices: 29894691--29894967 Score: 297
Period size: 132 Copynumber: 2.1 Consensus size: 132
29894681 ACAATTTCCT
* * ** * * *
29894691 TTAAAACGAAGGCGATATTCGATACTTGGTAATTCGTGGAATCGTGCCCTAATGTGTTAGGTTGC
1 TTAAAACGAAGGCGATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACGTGCTAGGTTGC
* ** * * * *
29894756 AATTCCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCACGGCTATTAAAAAAT
66 AATTCCTCGTCTGCTCAAAACAATCAAAGATCCCTTTAAAATTTCACCCACAGCTATT-AAAAAT
29894821 CCC
130 CCC
* *
29894824 TT-AAACGAAGGTC-ATATGCGATATTTGGGAATTCACGGAATCGTACCCTAACGTGCTGGGTTG
1 TTAAAACGAAGG-CGATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACGTGCTAGGTTG
* * * * * * * *
29894887 CAATTTCTTGTCTGCTTAAAACAATCAAATATCCCTTTAAAATTTCACTCATATCTTTTAAAAAT
65 CAATTCCTCGTCTGCTCAAAACAATCAAAGATCCCTTTAAAATTTCACCCACAGCTATTAAAAAT
*
29894952 CCT
130 CCC
29894955 TTAAAACGAAGGC
1 TTAAAACGAAGGC
29894968 AATACTCGGG
Statistics
Matches: 117, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
131 11 0.09
132 103 0.88
133 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (132 bp):
TTAAAACGAAGGCGATATGCGATACTTGGGAATTCACGGAATCGTACCCTAACGTGCTAGGTTGC
AATTCCTCGTCTGCTCAAAACAATCAAAGATCCCTTTAAAATTTCACCCACAGCTATTAAAAATC
CC
Found at i:29895039 original size:131 final size:132
Alignment explanation
Indices: 29894860--29895099 Score: 281
Period size: 131 Copynumber: 1.8 Consensus size: 132
29894850 GGGAATTCAC
* *
29894860 GGAATCGTACCCTAACGTGCTGGGTTGCAATTTCTTGTCTGCTTAAAACAATCAAATATCCCTTT
1 GGAATCATACCCTAACGTGCTGGGTTGCAATTTCTTATCTGCTTAAAACAATCAAATATCCCTTT
29894925 A-AAATTTCACTCATATCTT-TTAAAAATCCTTT-AAAACGAAGGCAATACTCGGGGTTTGACAA
66 AGAAATTTCACTCATAT-TTATTAAAAA-CCTTTCAAAACGAAGGCAATACTCGGGGTTTGACAA
29894987 TTCG
129 TTCG
* * * ** * ** *
29894991 GGAATCATGCCCTATCGTGTTGGGTTGTGATTTCTTATTTG-TTCAAAACAATTGAATATTCCTT
1 GGAATCATACCCTAACGTGCTGGGTTGCAATTTCTTATCTGCTT-AAAACAATCAAATATCCCTT
*** * *
29895055 TAGGTTTTTTACTCATGTTTATTAAAAACCTTTCAAAACGAAGGC
65 TAGAAATTTCACTCATATTTATTAAAAACCTTTCAAAACGAAGGC
29895100 GACTCTAGAT
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
130 2 0.02
131 59 0.66
132 28 0.31
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (132 bp):
GGAATCATACCCTAACGTGCTGGGTTGCAATTTCTTATCTGCTTAAAACAATCAAATATCCCTTT
AGAAATTTCACTCATATTTATTAAAAACCTTTCAAAACGAAGGCAATACTCGGGGTTTGACAATT
CG
Found at i:29899431 original size:22 final size:22
Alignment explanation
Indices: 29899403--29899485 Score: 122
Period size: 22 Copynumber: 4.0 Consensus size: 22
29899393 GAATCTGAAG
29899403 ACAAAAGGGGAAATGGCTATCT
1 ACAAAAGGGGAAATGGCTATCT
*
29899425 ACAAAAGGGGAAATGG-----G
1 ACAAAAGGGGAAATGGCTATCT
29899442 ACAAAAGGGGAAATGGCTATCT
1 ACAAAAGGGGAAATGGCTATCT
29899464 ACAAAAGGGGAAATGGCTATCT
1 ACAAAAGGGGAAATGGCTATCT
29899486 CTATTTGAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
17 16 0.30
22 38 0.70
ACGTcount: A:0.42, C:0.12, G:0.30, T:0.16
Consensus pattern (22 bp):
ACAAAAGGGGAAATGGCTATCT
Found at i:29899447 original size:17 final size:17
Alignment explanation
Indices: 29899425--29899457 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
29899415 ATGGCTATCT
29899425 ACAAAAGGGGAAATGGG
1 ACAAAAGGGGAAATGGG
29899442 ACAAAAGGGGAAATGG
1 ACAAAAGGGGAAATGG
29899458 CTATCTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.39, T:0.06
Consensus pattern (17 bp):
ACAAAAGGGGAAATGGG
Found at i:29899456 original size:39 final size:39
Alignment explanation
Indices: 29899402--29899479 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
29899392 AGAATCTGAA
29899402 GACAAAAGGGGAAATGGCTATCTACAAAAGGGGAAATGG
1 GACAAAAGGGGAAATGGCTATCTACAAAAGGGGAAATGG
29899441 GACAAAAGGGGAAATGGCTATCTACAAAAGGGGAAATGG
1 GACAAAAGGGGAAATGGCTATCTACAAAAGGGGAAATGG
29899480 CTATCTCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.10, G:0.33, T:0.13
Consensus pattern (39 bp):
GACAAAAGGGGAAATGGCTATCTACAAAAGGGGAAATGG
Found at i:29910790 original size:39 final size:39
Alignment explanation
Indices: 29910747--29910825 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
29910737 TGAAATCGTG
29910747 GTAAGATAGTAAAAGCAAATGTAACATGAATGTCTTGGT
1 GTAAGATAGTAAAAGCAAATGTAACATGAATGTCTTGGT
* *
29910786 GTAAGATAGTAAATGCAAATTTAACATGAATGTCTTGGT
1 GTAAGATAGTAAAAGCAAATGTAACATGAATGTCTTGGT
29910825 G
1 G
29910826 ATATTTATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (39 bp):
GTAAGATAGTAAAAGCAAATGTAACATGAATGTCTTGGT
Found at i:29912565 original size:15 final size:17
Alignment explanation
Indices: 29912547--29912578 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
29912537 TAGCATAATT
29912547 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
29912562 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
29912579 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:29915134 original size:146 final size:147
Alignment explanation
Indices: 29914869--29915159 Score: 539
Period size: 146 Copynumber: 2.0 Consensus size: 147
29914859 TAAGGGTCTA
*
29914869 AGCCATTGGAAGATGATCAAGGTAAGGAAAGTACGGTTTTGATGGAAGCCAATCCGAGAGACTAT
1 AGCCATTGGAAAATGATCAAGGTAAGGAAAGTACGGTTTTGATGGAAGCCAATCCGAGAGACTAT
29914934 GTTCAACTAGCACAATTTGAACAATTGGAGTTAAAAGCTTGAGAATACGCACAACCAAAGTTGTC
66 GTTCAACTAGCACAATTTGAACAATTGGAGTTAAAAGCTTGAGAATACGCACAACCAAAGTTGTC
*
29914999 AATCGATGAACCATCTG
131 AATCGAGGAACCATCTG
*
29915016 AGCCATTGGAAAATGATCAAGGTAAGGAAAGTATGGTTTTGATGGAAG-CAATCCGAGAGACTAT
1 AGCCATTGGAAAATGATCAAGGTAAGGAAAGTACGGTTTTGATGGAAGCCAATCCGAGAGACTAT
*
29915080 GTTCAACTAGCACAATTTGAACAATTGGAGTTAGAAGCTTGAGAATACGCACAACCAAAGTTGTC
66 GTTCAACTAGCACAATTTGAACAATTGGAGTTAAAAGCTTGAGAATACGCACAACCAAAGTTGTC
29915145 AATCGAGGAACCATC
131 AATCGAGGAACCATC
29915160 CAAACTTGAA
Statistics
Matches: 140, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
146 94 0.67
147 46 0.33
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (147 bp):
AGCCATTGGAAAATGATCAAGGTAAGGAAAGTACGGTTTTGATGGAAGCCAATCCGAGAGACTAT
GTTCAACTAGCACAATTTGAACAATTGGAGTTAAAAGCTTGAGAATACGCACAACCAAAGTTGTC
AATCGAGGAACCATCTG
Found at i:29916694 original size:28 final size:28
Alignment explanation
Indices: 29916660--29916716 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
29916650 ATTGCTTACG
29916660 AAGAATGCATGATGAAATTTAATGTAGC
1 AAGAATGCATGATGAAATTTAATGTAGC
29916688 AAGAATGCATGATGAAATTTAATGTAGC
1 AAGAATGCATGATGAAATTTAATGTAGC
29916716 A
1 A
29916717 GAGTCCTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (28 bp):
AAGAATGCATGATGAAATTTAATGTAGC
Found at i:29916841 original size:48 final size:48
Alignment explanation
Indices: 29916786--29917004 Score: 248
Period size: 48 Copynumber: 4.6 Consensus size: 48
29916776 GTGTGCTAGC
*
29916786 GTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAGT
1 GTAAGACCATGTTTGGGACATGGCATCGGCCATGATATGAGAGCCAGT
* *
29916834 GTAAGACCATGTTTGGAACATGGCATCGGCAATG-TAATGAGAGCCAGT
1 GTAAGACCATGTTTGGGACATGGCATCGGCCATGAT-ATGAGAGCCAGT
* * * * *
29916882 GTAAGACTATGTTTGGGACATTG-ATC-GACATTGATATGTGCA-CTAGT
1 GTAAGACCATGTTTGGGACATGGCATCGGCCA-TGATATGAG-AGCCAGT
* * * * *
29916929 GTAAAACCATGTCTGGGACATGGCATTGGCCAGGATATGAGAGCTAGT
1 GTAAGACCATGTTTGGGACATGGCATCGGCCATGATATGAGAGCCAGT
* *
29916977 GTAAAACCATGTTTGGAACATGGCATCG
1 GTAAGACCATGTTTGGGACATGGCATCG
29917005 ACAATTCACC
Statistics
Matches: 143, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
46 2 0.01
47 34 0.24
48 104 0.73
49 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (48 bp):
GTAAGACCATGTTTGGGACATGGCATCGGCCATGATATGAGAGCCAGT
Found at i:29916950 original size:95 final size:96
Alignment explanation
Indices: 29916786--29917007 Score: 236
Period size: 95 Copynumber: 2.3 Consensus size: 96
29916776 GTGTGCTAGC
* * * * * * * *
29916786 GTAAGACCATGTCTGGGACATGGCATCGGCCA-TGATATGAG-AGCCAGTGTAAGACCATGTTTG
1 GTAAAACCATGTTTGGAACATGGCATC-GACATTGATATGTGCA-CTAGTGTAAAACCATGTCTG
*
29916849 GAACATGGCATCGGCAATG-TAATGAGAGCCAGT
64 GAACATGGCATCGGCAAGGAT-ATGAGAGCCAGT
* * * * *
29916882 GTAAGACTATGTTTGGGACATTG-ATCGACATTGATATGTGCACTAGTGTAAAACCATGTCTGGG
1 GTAAAACCATGTTTGGAACATGGCATCGACATTGATATGTGCACTAGTGTAAAACCATGTCTGGA
* * *
29916946 ACATGGCATTGGCCAGGATATGAGAGCTAGT
66 ACATGGCATCGGCAAGGATATGAGAGCCAGT
29916977 GTAAAACCATGTTTGGAACATGGCATCGACA
1 GTAAAACCATGTTTGGAACATGGCATCGACA
29917008 ATTCACCCTC
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
94 3 0.03
95 73 0.70
96 29 0.28
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (96 bp):
GTAAAACCATGTTTGGAACATGGCATCGACATTGATATGTGCACTAGTGTAAAACCATGTCTGGA
ACATGGCATCGGCAAGGATATGAGAGCCAGT
Found at i:29918356 original size:10 final size:10
Alignment explanation
Indices: 29918341--29918371 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
29918331 CGATTCTTTT
*
29918341 TATTTTATTA
1 TATTTTGTTA
29918351 TATTTTGTTA
1 TATTTTGTTA
29918361 TATTTTGTTA
1 TATTTTGTTA
29918371 T
1 T
29918372 CATATGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (10 bp):
TATTTTGTTA
Found at i:29923105 original size:9 final size:9
Alignment explanation
Indices: 29923091--29923117 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
29923081 TGACTTCGAC
29923091 GGAGTTAAA
1 GGAGTTAAA
29923100 GGAGTTAAA
1 GGAGTTAAA
29923109 GGAGTTAAA
1 GGAGTTAAA
29923118 AGTACAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (9 bp):
GGAGTTAAA
Found at i:29924822 original size:26 final size:26
Alignment explanation
Indices: 29924791--29924843 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
29924781 TGGAAGAAAG
29924791 TCCTTAGATTTGGTAGGAAAGAAAAA
1 TCCTTAGATTTGGTAGGAAAGAAAAA
29924817 TCCTTAGATTTGGTAGGAAAGAAAAA
1 TCCTTAGATTTGGTAGGAAAGAAAAA
29924843 T
1 T
29924844 TAAGTTCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.28
Consensus pattern (26 bp):
TCCTTAGATTTGGTAGGAAAGAAAAA
Found at i:29926499 original size:48 final size:48
Alignment explanation
Indices: 29926443--29926756 Score: 391
Period size: 48 Copynumber: 6.5 Consensus size: 48
29926433 GTGTGCTAGC
* *
29926443 GTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGT
1 GTAAGACCATGTCTGGAACATGGCATCGGCCATGATATGAGAGCCAGT
* * * *
29926491 GTAAGACCATGTTTGGAACATGACATCGGCAATG-TAATGAGAGTCAGT
1 GTAAGACCATGTCTGGAACATGGCATCGGCCATGAT-ATGAGAGCCAGT
* * * * *
29926539 GTAAGACCATGTCTGGAACATTGCATCGG-TATTGATATGTGCGCTAGT
1 GTAAGACCATGTCTGGAACATGGCATCGGCCA-TGATATGAGAGCCAGT
*
29926587 GTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAGT
1 GTAAGACCATGTCTGGAACATGGCATCGGCCATGATATGAGAGCCAGT
* * * *
29926635 GTAAGACCATGTTTGGAACATGGCATCGACAATG-TAATGAGAGACAGT
1 GTAAGACCATGTCTGGAACATGGCATCGGCCATGAT-ATGAGAGCCAGT
* * * *
29926683 GTAAGACCATGTCTGGGACATGGCATCGACCTTGATATGAGAGCTAGT
1 GTAAGACCATGTCTGGAACATGGCATCGGCCATGATATGAGAGCCAGT
*
29926731 GTAAGACCATGTTTGGAACATGGCAT
1 GTAAGACCATGTCTGGAACATGGCAT
29926757 TGGCAATTCA
Statistics
Matches: 227, Mismatches: 33, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
47 3 0.01
48 221 0.97
49 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
GTAAGACCATGTCTGGAACATGGCATCGGCCATGATATGAGAGCCAGT
Found at i:29926687 original size:144 final size:144
Alignment explanation
Indices: 29926427--29926756 Score: 525
Period size: 144 Copynumber: 2.3 Consensus size: 144
29926417 GACATTTGGG
* *
29926427 TGATATGTGTGCTAGCGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* *
29926492 TAAGACCATGTTTGGAACATGACATCGGCAATGTAATGAGAGTCAGTGTAAGACCATGTCTGGAA
66 TAAGACCATGTTTGGAACATGACATCGACAATGTAATGAGAGACAGTGTAAGACCATGTCTGGAA
* **
29926557 CATTGCATCGGTAT
131 CATGGCATCGACAT
* *
29926571 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCCAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* *
29926636 TAAGACCATGTTTGGAACATGGCATCGACAATGTAATGAGAGACAGTGTAAGACCATGTCTGGGA
66 TAAGACCATGTTTGGAACATGACATCGACAATGTAATGAGAGACAGTGTAAGACCATGTCTGGAA
*
29926701 CATGGCATCGACCT
131 CATGGCATCGACAT
* * *
29926715 TGATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCAT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
29926757 TGGCAATTCA
Statistics
Matches: 171, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
144 171 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (144 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
TAAGACCATGTTTGGAACATGACATCGACAATGTAATGAGAGACAGTGTAAGACCATGTCTGGAA
CATGGCATCGACAT
Found at i:29933511 original size:9 final size:9
Alignment explanation
Indices: 29933497--29933522 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
29933487 CCAAGTATTA
29933497 CATCAAATT
1 CATCAAATT
29933506 CATCAAATT
1 CATCAAATT
29933515 CATCAAAT
1 CATCAAAT
29933523 GGTAACAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (9 bp):
CATCAAATT
Found at i:29939077 original size:23 final size:22
Alignment explanation
Indices: 29939036--29939078 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
29939026 CTTTAGCCAT
*
29939036 TTTTATTTTTATTGCAATTTAA
1 TTTTATTTTTATTACAATTTAA
*
29939058 TTTTGTTTTTATTACTAATTT
1 TTTTATTTTTATTAC-AATTT
29939079 TCCTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTATTACAATTTAA
Found at i:29944326 original size:3 final size:3
Alignment explanation
Indices: 29944303--29944356 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
29944293 ATTCCTTTAC
* * *
29944303 ATT ATT -TT AATT ATT -TT ATT ATT ACT ATT ATT ATT CTT ATT ATC
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
29944347 ATT ATT ATT A
1 ATT ATT ATT A
29944357 ATCTTATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 4 0.10
3 36 0.86
4 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:29951922 original size:49 final size:48
Alignment explanation
Indices: 29951808--29952073 Score: 234
Period size: 47 Copynumber: 5.6 Consensus size: 48
29951798 GGTAGAATGC
* * *
29951808 CGATGTCATGTCTCAGACATGGTCTTACACTGGCTCAT-ATCTCAA-GT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCAAGGT
*
29951855 CGATGCCATATCCCAGACATGGTCTTACACTGACTATCATCATCAAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATC-TCAAGGT
* * *
29951904 CGACGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATACTC--GTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTAT--CAT-CTCAAG-GT
* *
29951954 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-AT-ATCTCGTA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTC-AAGGT
* * *
29952000 CGATG-CATGTCTCAGACAT-GTCTTACACT-AGCT-TACGTCTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTAT-CATCTCAAGGT
*
29952046 CAATG-CATGTCCCAGACATGGTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
29952074 TTGGCTCATA
Statistics
Matches: 185, Mismatches: 16, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
43 1 0.01
44 12 0.06
45 17 0.09
46 33 0.18
47 42 0.23
48 5 0.03
49 36 0.19
50 32 0.17
51 6 0.03
52 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCAAGGT
Found at i:29951982 original size:99 final size:94
Alignment explanation
Indices: 29951814--29952073 Score: 300
Period size: 99 Copynumber: 2.8 Consensus size: 94
29951804 ATGCCGATGT
* * * *
29951814 CATGTCTCAGACATGGTCTTACACT-G-GCTCATATCTCAAGTCGATGCCATATCCCAGACATGG
1 CATGTCTCAGACATGGTCTTACACTAGCTCTCACATCTCGAGTCGATGCCATGTCCCAGACATGG
*
29951877 TCTTACACTGACTATCATCATC-AAGGTCGACG
66 TCTTACACTGAC-AT-ATC-TCGAA-GCCGACG
* * *
29951909 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATACTCGTGCCGATGCCATGTCCCAGACAT
1 -CATGTCTCAGACATGGTCTTACACTAGCTCTCACAT-CTCGAGTCGATGCCATGTCCCAGACAT
* *
29951974 GGTCTTACACTGACATATCTCGTAGCCGATG
64 GGTCTTACACTGACATATCTCGAAGCCGACG
* *
29952005 CATGTCTCAGACAT-GTCTTACACTAGCT-T-ACGTCTCGAGGTCAATG-CATGTCCCAGACATG
1 CATGTCTCAGACATGGTCTTACACTAGCTCTCACATCTCGA-GTCGATGCCATGTCCCAGACATG
29952066 GTCTTACA
65 GTCTTACA
29952074 TTGGCTCATA
Statistics
Matches: 144, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
91 27 0.19
92 8 0.06
93 1 0.01
94 14 0.10
95 13 0.09
96 31 0.22
97 5 0.03
98 8 0.06
99 37 0.26
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (94 bp):
CATGTCTCAGACATGGTCTTACACTAGCTCTCACATCTCGAGTCGATGCCATGTCCCAGACATGG
TCTTACACTGACATATCTCGAAGCCGACG
Found at i:29957950 original size:27 final size:26
Alignment explanation
Indices: 29957906--29957957 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
29957896 CTCGCTGCAA
*
29957906 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
29957933 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
29957958 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:29968658 original size:16 final size:16
Alignment explanation
Indices: 29968637--29968668 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29968627 ATGGGCCGAA
29968637 AATGGGCCAACAGGCC
1 AATGGGCCAACAGGCC
*
29968653 AATGGGCCAACGGGCC
1 AATGGGCCAACAGGCC
29968669 CACTTTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.31, G:0.34, T:0.06
Consensus pattern (16 bp):
AATGGGCCAACAGGCC
Found at i:29968967 original size:27 final size:26
Alignment explanation
Indices: 29968923--29968974 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
29968913 CTCGCTGTAA
*
29968923 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
29968950 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
29968975 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:29972192 original size:3 final size:3
Alignment explanation
Indices: 29972184--29972222 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
29972174 TTTAATTCTT
* * *
29972184 TTA TTA TTA CTA TTA TTA TTC TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
29972223 ATCTTATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:29974356 original size:29 final size:29
Alignment explanation
Indices: 29974323--29974384 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
29974313 ATTGCGGACA
29974323 ATGTACATCTTAAGTGTGGGGAGGTTATG
1 ATGTACATCTTAAGTGTGGGGAGGTTATG
29974352 ATGTACATCTTAAGTGTGGGGAGGTTATG
1 ATGTACATCTTAAGTGTGGGGAGGTTATG
29974381 ATGT
1 ATGT
29974385 TATGATAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.24, C:0.06, G:0.34, T:0.35
Consensus pattern (29 bp):
ATGTACATCTTAAGTGTGGGGAGGTTATG
Found at i:29979980 original size:46 final size:48
Alignment explanation
Indices: 29979726--29980045 Score: 270
Period size: 46 Copynumber: 6.8 Consensus size: 48
29979716 GAGGTAGAAT
*
29979726 GCCGA-GCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCGAA
** * * * *
29979772 GTTGATGCCATATCCCAGACATGGTCTTACA-TTGATTATCATCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTAT-ATC-TCGAA
* * * * * *
29979821 GCGGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATACTTG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ATAT-CTCGAA
* *
29979871 GCCGATGCCATGTCCCAGACATGGTCTTACTCTGAC--ATATCTC-ATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCGA-A
* *
29979917 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTATGTCTCGAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCGAA
* * *
29979963 GCCGATG-CATATCCCAGACAT-GTCTTACACTAGCTCT-CATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TATATCTCGAA
* * *
29980008 TGCCAATGCCATGTCCCAGACAAGGTCTTATACTGGCT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
29980046 CATGATGACC
Statistics
Matches: 219, Mismatches: 38, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
44 11 0.05
45 18 0.08
46 66 0.30
47 41 0.19
48 14 0.06
49 28 0.13
50 34 0.16
51 5 0.02
52 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATATCTCGAA
Found at i:29981384 original size:23 final size:23
Alignment explanation
Indices: 29981358--29981402 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
29981348 CCTAGAGCTA
*
29981358 TAATTAGTGATGAAGGATCTATT
1 TAATTAGTAATGAAGGATCTATT
*
29981381 TAATTAGTAATGAATGATCTAT
1 TAATTAGTAATGAAGGATCTAT
29981403 CTTTGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
TAATTAGTAATGAAGGATCTATT
Found at i:29995908 original size:56 final size:54
Alignment explanation
Indices: 29995841--29995978 Score: 161
Period size: 56 Copynumber: 2.5 Consensus size: 54
29995831 CATGACATAG
*
29995841 CACGCCTCTCAACAGGGCTACATATGAGCACCCGGACCTAGCATGCATCAC-ATTA
1 CACGCCTCTCAACAGGGCTACATA--AGCACCCGGACCTAGCATGCACCACAATTA
* * * *
29995896 CCACGCCTCTCAACAGGGCTACATAAGCTCTCGGACCTAGCGTGTACCACATAATTA
1 -CACGCCTCTCAACAGGGCTACATAAGCACCCGGACCTAGCATGCACCAC--AATTA
* *
29995953 CATGCCTCTCAACGGGGCTACATAAG
1 CACGCCTCTCAACAGGGCTACATAAG
29995979 ATCTTAGACC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
54 20 0.28
56 48 0.67
57 4 0.06
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (54 bp):
CACGCCTCTCAACAGGGCTACATAAGCACCCGGACCTAGCATGCACCACAATTA
Found at i:29997262 original size:68 final size:68
Alignment explanation
Indices: 29997153--29997279 Score: 254
Period size: 68 Copynumber: 1.9 Consensus size: 68
29997143 GTAATTGGAC
29997153 ACTTTACCACATGCATAATCTTTTATTCTAAATCTCATAATGATCAAAATCTAAATATTCCTTAT
1 ACTTTACCACATGCATAATCTTTTATTCTAAATCTCATAATGATCAAAATCTAAATATTCCTTAT
29997218 GAG
66 GAG
29997221 ACTTTACCACATGCATAATCTTTTATTCTAAATCTCATAATGATCAAAATCTAAATATT
1 ACTTTACCACATGCATAATCTTTTATTCTAAATCTCATAATGATCAAAATCTAAATATT
29997280 TTAGCGTCAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.39
Consensus pattern (68 bp):
ACTTTACCACATGCATAATCTTTTATTCTAAATCTCATAATGATCAAAATCTAAATATTCCTTAT
GAG
Found at i:30010484 original size:28 final size:28
Alignment explanation
Indices: 30010452--30010536 Score: 143
Period size: 28 Copynumber: 3.0 Consensus size: 28
30010442 GGAAAGAAAT
*
30010452 TTCAATTAATCAACCTAGAGTCAGTTGC
1 TTCAATTAATCAACCTAGAGTTAGTTGC
* *
30010480 TTCAATTAATCATCCTAGAGTTAATTGC
1 TTCAATTAATCAACCTAGAGTTAGTTGC
30010508 TTCAATTAATCAACCTAGAGTTAGTTGC
1 TTCAATTAATCAACCTAGAGTTAGTTGC
30010536 T
1 T
30010537 CTTACTCTCG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (28 bp):
TTCAATTAATCAACCTAGAGTTAGTTGC
Found at i:30010613 original size:42 final size:42
Alignment explanation
Indices: 30010554--30010638 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
30010544 TCGTAAGAGA
30010554 TATTACAATAATTTAGGGATTTTAACGTATCAAGATACCAAG
1 TATTACAATAATTTAGGGATTTTAACGTATCAAGATACCAAG
30010596 TATTACAATAATTTAGGGATTTTAACGTATCAAGATACCAAG
1 TATTACAATAATTTAGGGATTTTAACGTATCAAGATACCAAG
30010638 T
1 T
30010639 GAATAAATCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (42 bp):
TATTACAATAATTTAGGGATTTTAACGTATCAAGATACCAAG
Found at i:30010652 original size:42 final size:42
Alignment explanation
Indices: 30010557--30010652 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
30010547 TAAGAGATAT
*
30010557 TACAATAATTTAGGGATTTTAACGTATCAAGATACCAAGTAT
1 TACAATAATTTAGGGATTTTAACGTATCAAGATACCAAGTAA
30010599 TACAATAATTTAGGGATTTTAACGTATCAAGATACCAAGTGAA
1 TACAATAATTTAGGGATTTTAACGTATCAAGATACCAAGT-AA
*
30010642 TA-AATCATTTA
1 TACAATAATTTA
30010653 ATTCAAATTC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
42 48 0.94
43 3 0.06
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (42 bp):
TACAATAATTTAGGGATTTTAACGTATCAAGATACCAAGTAA
Found at i:30011823 original size:20 final size:20
Alignment explanation
Indices: 30011786--30011823 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30011776 CACTTAGACA
*
30011786 AATTTTTTAGAATGTTTTGT
1 AATTTTTTACAATGTTTTGT
30011806 AATTTTTTAACAAT-TTTT
1 AATTTTTT-ACAATGTTTT
30011824 AAGGACCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (20 bp):
AATTTTTTACAATGTTTTGT
Done.