Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 56 of 230
Found at i:15220087 original size:13 final size:13
Alignment explanation
Indices: 15220071--15220097 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15220061 CACTTTTTTA
15220071 TTTTATTTTTAAT
1 TTTTATTTTTAAT
15220084 TTTTATTTTTAAT
1 TTTTATTTTTAAT
15220097 T
1 T
15220098 AATAAGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTAAT
Found at i:15220250 original size:96 final size:93
Alignment explanation
Indices: 15220087--15220281 Score: 270
Period size: 96 Copynumber: 2.1 Consensus size: 93
15220077 TTTTAATTTT
* * *
15220087 TATTTTTAATTAATAAGTATTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAAA
1 TATTTTTAATTAATAAGCATTTTATTTATATAAAGAAAATAATAAATATGCAATTATATAATAAA
*
15220152 AATAGATT-TGATATAATTCATTATGTTAAAAA
66 AAT--ATTAT-ATATAATT-ATCATGTT-AAAA
*
15220184 TATTTTTAATTAATAA-CACTTTTATTTATAT-AAGAAAATAATAAATATGCAATTATATAATGA
1 TATTTTTAATTAATAAGCA-TTTTATTTATATAAAGAAAATAATAAATATGCAATTATATAATAA
15220247 AAATATTATATATAATTATCATGTTAAAA
65 AAATATTATATATAATTATCATGTTAAAA
15220276 TATTTT
1 TATTTT
15220282 ATTTTTTTAA
Statistics
Matches: 91, Mismatches: 5, Indels: 9
0.87 0.05 0.09
Matches are distributed among these distances:
92 10 0.11
93 7 0.08
94 11 0.12
95 1 0.01
96 34 0.37
97 28 0.31
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.45
Consensus pattern (93 bp):
TATTTTTAATTAATAAGCATTTTATTTATATAAAGAAAATAATAAATATGCAATTATATAATAAA
AATATTATATATAATTATCATGTTAAAA
Found at i:15220285 original size:97 final size:99
Alignment explanation
Indices: 15220084--15220287 Score: 271
Period size: 97 Copynumber: 2.1 Consensus size: 99
15220074 TATTTTTAAT
* * *
15220084 TTTTATTTTTAATTAATAAGTATTTTATTTATATAAATAAAATAATAAATATGTAATTATATAAT
1 TTTTATTTTTAATTAATAAGCATTTTATTTATATAAAGAAAATAATAAATATGCAATTATATAAT
*
15220149 AAAAATAGATTTGATATAATTCATTATGTTAAAAA
66 AAAAATA-ATTTGATATAATTCATCATGTTAAAAA
15220184 ---TATTTTTAATTAATAA-CACTTTTATTTATAT-AAGAAAATAATAAATATGCAATTATATAA
1 TTTTATTTTTAATTAATAAGCA-TTTTATTTATATAAAGAAAATAATAAATATGCAATTATATAA
*
15220244 TGAAAAT-ATTAT-ATATAATT-ATCATGTTAAAATA
65 TAAAAATAATT-TGATATAATTCATCATGTTAAAA-A
15220278 TTTTATTTTT
1 TTTTATTTTT
15220288 TTAAAAGTAT
Statistics
Matches: 93, Mismatches: 5, Indels: 15
0.82 0.04 0.13
Matches are distributed among these distances:
93 11 0.12
94 12 0.13
95 1 0.01
96 34 0.37
97 35 0.38
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (99 bp):
TTTTATTTTTAATTAATAAGCATTTTATTTATATAAAGAAAATAATAAATATGCAATTATATAAT
AAAAATAATTTGATATAATTCATCATGTTAAAAA
Found at i:15221019 original size:41 final size:41
Alignment explanation
Indices: 15220959--15221076 Score: 164
Period size: 41 Copynumber: 2.9 Consensus size: 41
15220949 CTGACCTTTT
* * *
15220959 GGGGCTTTAGCAGCGTTTTTGGAAAAGCACCGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * *
15221000 GGGGCTTTAGTGGCTTTTTTGCAAAAGCGCCGCTAATGCTT
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
15221041 GGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
15221077 AAACATTTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (41 bp):
GGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:15221583 original size:15 final size:15
Alignment explanation
Indices: 15221565--15221612 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
15221555 CTATTTTAAG
*
15221565 GTTTAGTGATTATGT
1 GTTTAGGGATTATGT
15221580 GTTTAGGGATTATG-
1 GTTTAGGGATTATGT
* *
15221594 GATTATGGATTATG-
1 GTTTAGGGATTATGT
15221608 GTTTA
1 GTTTA
15221613 AGGGTTGGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (15 bp):
GTTTAGGGATTATGT
Found at i:15221641 original size:24 final size:25
Alignment explanation
Indices: 15221607--15221653 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
15221597 TATGGATTAT
15221607 GGTTTAAGGGTT-GGGGTTTAAGTA
1 GGTTTAAGGGTTAGGGGTTTAAGTA
*
15221631 GGTTTAGGGGTTAGGGGTTTAAG
1 GGTTTAAGGGTTAGGGGTTTAAG
15221654 GTTTATGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.36
Consensus pattern (25 bp):
GGTTTAAGGGTTAGGGGTTTAAGTA
Found at i:15221679 original size:7 final size:7
Alignment explanation
Indices: 15221631--15221709 Score: 52
Period size: 7 Copynumber: 11.0 Consensus size: 7
15221621 GGTTTAAGTA
15221631 GGTTTAG
1 GGTTTAG
*
15221638 GGGTTAGG
1 GGTTTA-G
*
15221646 GGTTTAA
1 GGTTTAG
*
15221653 GGTTTAT
1 GGTTTAG
* *
15221660 GTTTTAT
1 GGTTTAG
*
15221667 GATTTAG
1 GGTTTAG
15221674 GGTTTAG
1 GGTTTAG
*
15221681 GAGATT-G
1 G-GTTTAG
*
15221688 GGGTTAGG
1 GGTTTA-G
15221696 GGTTTAG
1 GGTTTAG
15221703 GGTTTAG
1 GGTTTAG
15221710 ATTAATTGGT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
6 3 0.05
7 39 0.68
8 15 0.26
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:15227352 original size:43 final size:43
Alignment explanation
Indices: 15227292--15227382 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
15227282 CTTTGAGTTC
* * *
15227292 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
15227334 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
15227377 ATTACC
1 ATTACC
15227383 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:15227845 original size:43 final size:43
Alignment explanation
Indices: 15227744--15228051 Score: 287
Period size: 43 Copynumber: 7.2 Consensus size: 43
15227734 ATGTTATGTT
* * * *
15227744 TTTAGCGGCGTTTTTG-CGAGAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGAC-AAAAGCGCCGCTAAAGGTCATGGTC
** * * *
15227786 AATAACGGCGTTTGTGACAAAAGCGTCGTTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
* ** * *
15227829 TTTAGCGGCGTTTGTGATAAAAATGCCACTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
* * *
15227872 TTTAGCAGCGTTTGTGCCAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
* * ** **
15227915 TTTAGCGGCGTTTGTGACAAAAGCGTCGCTATAGACCATGACC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
* ** *
15227958 TTTAGCAGCGTTTGTGTTAAAAGCGCCACTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
* * * * * *
15228001 TGTAGCGACGTTTTTGATAAAAGTGCTGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
*
15228044 TTTGGCGG
1 TTTAGCGG
15228052 TATTTTTTCA
Statistics
Matches: 210, Mismatches: 54, Indels: 3
0.79 0.20 0.01
Matches are distributed among these distances:
42 27 0.13
43 183 0.87
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:15227973 original size:129 final size:128
Alignment explanation
Indices: 15227739--15228051 Score: 360
Period size: 129 Copynumber: 2.4 Consensus size: 128
15227729 TTTAAATGTT
* * * ** *
15227739 ATGTT-TTTAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGGT-TTGTTCAATAACGGCGTTTGTG
1 ATGTTCTTTAGC-GCGTTTTTGCCAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
* ** ** * *
15227802 ACAAAAGCGTCGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAAAAATGCCACTAAAGGTC
65 ACAAAAGCGTCGCTAAAGACCATGACCTTTAGCAGCGTTTGTGATAAAAACGCCACTAAAGGTC
*
15227866 ATGTTCTTTAGCAGCGTTTGTGCCAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
1 ATGTTCTTTAGC-GCGTTTTTGCCAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
* * *
15227931 ACAAAAGCGTCGCTATAGACCATGACCTTTAGCAGCGTTTGTGTTAAAAGCGCCACTAAAGGTC
65 ACAAAAGCGTCGCTAAAGACCATGACCTTTAGCAGCGTTTGTGATAAAAACGCCACTAAAGGTC
* * ** * * * *
15227995 ATGGTCTGTAGCGACGTTTTTGATAAAAGTGCTGCTAAAGGTCATGGTCTTTGGCGG
1 ATGTTCTTTAGCG-CGTTTTTGCCAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
15228052 TATTTTTTCA
Statistics
Matches: 156, Mismatches: 27, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
127 5 0.03
128 33 0.21
129 118 0.76
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (128 bp):
ATGTTCTTTAGCGCGTTTTTGCCAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGA
CAAAAGCGTCGCTAAAGACCATGACCTTTAGCAGCGTTTGTGATAAAAACGCCACTAAAGGTC
Found at i:15232722 original size:12 final size:12
Alignment explanation
Indices: 15232697--15232808 Score: 50
Period size: 12 Copynumber: 8.8 Consensus size: 12
15232687 ATTTACAAGA
15232697 TAAATATTAAAT
1 TAAATATTAAAT
15232709 TAAAT-TTAATAT
1 TAAATATTAA-AT
* * *
15232721 TAAGATAATCACT
1 TAA-ATATTAAAT
*
15232734 TTAATATTAAATT
1 TAAATATTAAA-T
*
15232747 AATAAAATATTATAAGA
1 --T-AAATATTA-AA-T
*
15232764 TAAGTATTAAAT
1 TAAATATTAAAT
15232776 TAAAT-TTAATAT
1 TAAATATTAA-AT
*
15232788 TAAATTATTAAAA
1 TAAA-TATTAAAT
15232801 T-AATATTA
1 TAAATATTA
15232809 TTTTTGAAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
11 13 0.17
12 27 0.36
13 11 0.15
14 13 0.17
15 2 0.03
16 7 0.09
17 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:15232749 original size:20 final size:18
Alignment explanation
Indices: 15232699--15232794 Score: 68
Period size: 17 Copynumber: 5.7 Consensus size: 18
15232689 TTACAAGATA
15232699 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
15232716 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
*
15232736 AATATTAAATTAATA--A
1 AATATTAAATTAATATTT
*
15232752 AATATT--A-TAAGA--T
1 AATATTAAATTAATATTT
15232765 AAGTATTAAATTAA-ATTT
1 AA-TATTAAATTAATATTT
15232783 AATATTAAATTA
1 AATATTAAATTA
15232795 TTAAAATAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 22
0.72 0.03 0.24
Matches are distributed among these distances:
13 6 0.09
14 5 0.08
16 8 0.12
17 24 0.37
18 4 0.06
19 3 0.05
20 15 0.23
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:15233896 original size:43 final size:43
Alignment explanation
Indices: 15233835--15234025 Score: 185
Period size: 43 Copynumber: 4.5 Consensus size: 43
15233825 TATGCGAAAA
* * **
15233835 AAACGTCACTAAAGATCATGGTCTTTAGCGGCGCTTTT-CACAC
1 AAACGCCACTAAAAATCATGACCTTTAGCGGCGCTTTTAC-CAC
* *
15233878 AAACGCCGCTAAAAATCATGACCTTTAGCCGCGCTTTTACCAC
1 AAACGCCACTAAAAATCATGACCTTTAGCGGCGCTTTTACCAC
* * **
15233921 AAACGCCAATAAAAATCATGACCTTTAGCGGCGCTTCTATTAC
1 AAACGCCACTAAAAATCATGACCTTTAGCGGCGCTTTTACCAC
* * * * * *
15233964 AAACACCGCTATAAAA--ATAACTTTTAGCGGCACTTTT-TCAC
1 AAACGCCACTA-AAAATCATGACCTTTAGCGGCGCTTTTACCAC
15234005 AAACGCCACTAAAAA-CATGAC
1 AAACGCCACTAAAAATCATGAC
15234026 TGTTAAAAAA
Statistics
Matches: 122, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 4 0.03
41 16 0.13
42 17 0.14
43 80 0.66
44 5 0.04
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.25
Consensus pattern (43 bp):
AAACGCCACTAAAAATCATGACCTTTAGCGGCGCTTTTACCAC
Found at i:15238228 original size:12 final size:11
Alignment explanation
Indices: 15238211--15238266 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 11
15238201 AAAATAATTT
15238211 TATTTAAACTAA
1 TATTTAAA-TAA
15238223 TATTTAAAT-A
1 TATTTAAATAA
**
15238233 TATTTATTAATTC
1 TATTTA--AATAA
15238246 TATTTAAACTAA
1 TATTTAAA-TAA
15238258 TATTTAAAT
1 TATTTAAAT
15238267 GTATTTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.19
11 4 0.11
12 20 0.54
13 6 0.16
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (11 bp):
TATTTAAATAA
Found at i:15238250 original size:35 final size:35
Alignment explanation
Indices: 15238205--15238272 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
15238195 TGAATAAAAA
*
15238205 TAATTTTATTTAAACTAATATTTAAATATATTTAT
1 TAATTCTATTTAAACTAATATTTAAATATATTTAT
*
15238240 TAATTCTATTTAAACTAATATTTAAATGTATTT
1 TAATTCTATTTAAACTAATATTTAAATATATTT
15238273 TATTTAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.53
Consensus pattern (35 bp):
TAATTCTATTTAAACTAATATTTAAATATATTTAT
Found at i:15238253 original size:23 final size:25
Alignment explanation
Indices: 15238223--15238413 Score: 177
Period size: 23 Copynumber: 7.7 Consensus size: 25
15238213 TTTAAACTAA
15238223 TATTTAAA-T-ATATTTATTAATTC
1 TATTTAAACTAATATTTATTAATTC
*
15238246 TATTTAAACTAATATTTAAATGT-ATTT
1 TATTTAAACTAATATTT--AT-TAATTC
15238273 TATTTAAACTTAATA---ATTAATTC
1 TATTTAAAC-TAATATTTATTAATTC
* * *
15238296 TATTTTAACTAATATTTAAATATATTT
1 TATTTAAACTAATATTT-ATTA-ATTC
15238323 TATTTAAACT--TATTTATTAATTC
1 TATTTAAACTAATATTTATTAATTC
* *
15238346 TATTTAAACTAATATTTAAATATATTT
1 TATTTAAACTAATATTT-ATTA-ATTC
15238373 TATTTAAACT--TATTTATTAATTC
1 TATTTAAACTAATATTTATTAATTC
*
15238396 TATTTAAATTAATATTTA
1 TATTTAAACTAATATTTA
15238414 AATATATCAA
Statistics
Matches: 137, Mismatches: 13, Indels: 34
0.74 0.07 0.18
Matches are distributed among these distances:
22 6 0.04
23 46 0.34
24 7 0.05
25 27 0.20
26 6 0.04
27 39 0.28
28 6 0.04
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (25 bp):
TATTTAAACTAATATTTATTAATTC
Found at i:15238259 original size:27 final size:27
Alignment explanation
Indices: 15238229--15238414 Score: 145
Period size: 27 Copynumber: 7.4 Consensus size: 27
15238219 CTAATATTTA
*
15238229 AATATATTTATTAATTCTATTTAAACT
1 AATATATTAATTAATTCTATTTAAACT
*
15238256 AATAT-TTAAATGT-ATTTTATTTAAACT
1 AATATATT-AAT-TAATTCTATTTAAACT
*
15238283 --TA-A-TAATTAATTCTATTTTAACT
1 AATATATTAATTAATTCTATTTAAACT
* *
15238306 AATAT-TTAAATATATTTTATTTAAACT
1 AATATATTAATTA-ATTCTATTTAAACT
15238333 --TAT-TT-ATTAATTCTATTTAAACT
1 AATATATTAATTAATTCTATTTAAACT
* *
15238356 AATAT-TTAAATATATTTTATTTAAACT
1 AATATATTAATTA-ATTCTATTTAAACT
*
15238383 --TAT-TT-ATTAATTCTATTTAAATT
1 AATATATTAATTAATTCTATTTAAACT
15238406 AATAT-TTAA
1 AATATATTAA
15238415 ATATATCAAA
Statistics
Matches: 129, Mismatches: 14, Indels: 33
0.73 0.08 0.19
Matches are distributed among these distances:
22 1 0.01
23 40 0.31
24 7 0.05
25 24 0.19
26 11 0.09
27 45 0.35
28 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (27 bp):
AATATATTAATTAATTCTATTTAAACT
Found at i:15238292 original size:50 final size:50
Alignment explanation
Indices: 15238223--15238420 Score: 335
Period size: 50 Copynumber: 4.0 Consensus size: 50
15238213 TTTAAACTAA
*
15238223 TATTTAAA-TATATTTATTAATTCTATTTAAACTAATATTTAAATGTATTT
1 TATTTAAACT-TATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
* * *
15238273 TATTTAAACTTAATAATTAATTCTATTTTAACTAATATTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
15238323 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
*
15238373 TATTTAAACTTATTTATTAATTCTATTTAAATTAATATTTAAATATAT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATAT
15238421 CAAATGGTTT
Statistics
Matches: 139, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
50 138 0.99
51 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.54
Consensus pattern (50 bp):
TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
Found at i:15238720 original size:15 final size:15
Alignment explanation
Indices: 15238696--15238725 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15238686 CCCTAACCCG
*
15238696 ACCCTGAATCCCTAA
1 ACCCTAAATCCCTAA
15238711 ACCCTAAATCCCTAA
1 ACCCTAAATCCCTAA
15238726 CTCTTAACCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.40, G:0.03, T:0.20
Consensus pattern (15 bp):
ACCCTAAATCCCTAA
Found at i:15238782 original size:8 final size:8
Alignment explanation
Indices: 15238766--15238805 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
15238756 CTTAAATCCC
*
15238766 AACCCTTA
1 AACCATTA
15238774 AACCATTA
1 AACCATTA
15238782 AACCATTA
1 AACCATTA
15238790 AACCATTA
1 AACCATTA
15238798 AACC-TTA
1 AACCATTA
15238805 A
1 A
15238806 CCCGAATCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 4 0.13
8 27 0.87
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (8 bp):
AACCATTA
Found at i:15238914 original size:81 final size:74
Alignment explanation
Indices: 15238815--15238987 Score: 193
Period size: 74 Copynumber: 2.2 Consensus size: 74
15238805 ACCCGAATCC
* * * *
15238815 CTAACCCCTAAACTCTAACTCAAATCCCTAAACCAATTAAATAAACTTATTTAATATATAAATTA
1 CTAAACCCTAAACCCTAACCCAAATACCT-AACC-ATT--A-AAACTTATTT-A-ATATAAATTA
15238880 AAAAACACTAATTAAT
59 AAAAACACTAATTAAT
* * * * *
15238896 CTAAACCCTAAACCCTAACCCAAATACCTTACCCTTAAACCTTATTTAATATAAATTAAAACATA
1 CTAAACCCTAAACCCTAACCCAAATACCTAACCATTAAAACTTATTTAATATAAATTAAAAAACA
15238961 CTAATTAAT
66 CTAATTAAT
*
15238970 GTAAACCCTAAACCCTAA
1 CTAAACCCTAAACCCTAA
15238988 ATTCCCAACA
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
74 41 0.50
75 1 0.01
76 9 0.11
77 1 0.01
79 2 0.02
80 3 0.04
81 25 0.30
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.28
Consensus pattern (74 bp):
CTAAACCCTAAACCCTAACCCAAATACCTAACCATTAAAACTTATTTAATATAAATTAAAAAACA
CTAATTAAT
Found at i:15239061 original size:14 final size:15
Alignment explanation
Indices: 15239042--15239074 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
15239032 CTTAAACCAA
15239042 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
15239056 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
15239071 AATC
1 AATC
15239075 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:15239495 original size:41 final size:41
Alignment explanation
Indices: 15239436--15239633 Score: 267
Period size: 41 Copynumber: 4.9 Consensus size: 41
15239426 AAATATTTTT
15239436 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTA
* *
15239477 GCGGCGCTTTTTCGAAAACGCCACTAAAG-ACCAGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACC-GAGCATTA
* *
15239518 GCGGCGC-TTTTCAAAAATGCCGCTAAAG-ACTAGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCAC-CGAGCATTA
** *
15239558 GCGTTGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTA
** *
15239599 GCGGCGCTTTTTCAAAAACATCGCTAAAGCCCCGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGA
15239634 AAGGTCAGAA
Statistics
Matches: 138, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
40 36 0.26
41 101 0.73
42 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTA
Found at i:15239576 original size:81 final size:82
Alignment explanation
Indices: 15239436--15239628 Score: 273
Period size: 81 Copynumber: 2.4 Consensus size: 82
15239426 AAATATTTTT
* *
15239436 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTAGCGGCGCTTTTTCGAAAACGCCAC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACAGAGCATTAGCGGCGCTTTTTCAAAAACGCCAC
15239501 TAAAGACCAGAGCATTA
66 TAAAGACCAGAGCATTA
* ** *
15239518 GCGGCGC-TTTTCAAAAATGCCGCTAAAG-ACTAGAGCATTAGCGTTGCTTTTTCAAAAACGCCG
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCAC-AGAGCATTAGCGGCGCTTTTTCAAAAACGCCA
* *
15239581 CTAAAGCCCCGAGCATTA
65 CTAAAGACCAGAGCATTA
**
15239599 GCGGCGCTTTTTCAAAAACATCGCTAAAGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGC
15239629 CCCGAAAGGT
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
80 2 0.02
81 70 0.72
82 25 0.26
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (82 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACAGAGCATTAGCGGCGCTTTTTCAAAAACGCCAC
TAAAGACCAGAGCATTA
Found at i:15241053 original size:300 final size:300
Alignment explanation
Indices: 15240511--15241112 Score: 1186
Period size: 300 Copynumber: 2.0 Consensus size: 300
15240501 CAAAATATGA
15240511 AAGATAAAAATACAAAAGACATAATAGTGAAATGTGAAATTAACTTTATTTATTCATCATTCAAA
1 AAGATAAAAATACAAAAGACATAATAGTGAAATGTGAAATTAACTTTATTTATTCATCATTCAAA
*
15240576 TAAATAGAAAACAGTTACATGTTTACTACAATATGAACACATTTCCAAAAAATCTCCCACTTGCC
66 TAAATAGAAAACAGTTACATGTATACTACAATATGAACACATTTCCAAAAAATCTCCCACTTGCC
15240641 TTAGTGAAATAAATGTGTCATGTTTCACATTCCCATATCCTCGACGTGTTTGTTAAAACTCCTAG
131 TTAGTGAAATAAATGTGTCATGTTTCACATTCCCATATCCTCGACGTGTTTGTTAAAACTCCTAG
15240706 TTACAAGAGTCTTAGTAAACGGATCCGTAAGGTTATCTTTAGAAGATACTTTCATCACATCTACA
196 TTACAAGAGTCTTAGTAAACGGATCCGTAAGGTTATCTTTAGAAGATACTTTCATCACATCTACA
*
15240771 ATTCTTTCGGCTGTTGCCTATCGTATCAAGTGATAATTCC
261 ATTCTTTCGGCTATTGCCTATCGTATCAAGTGATAATTCC
15240811 AAGATAAAAATACAAAAGACATAATAGTGAAATGTGAAATTAACTTTATTTATTCATCATTCAAA
1 AAGATAAAAATACAAAAGACATAATAGTGAAATGTGAAATTAACTTTATTTATTCATCATTCAAA
15240876 TAAATAGAAAACAGTTACATGTATACTACAATATGAACACATTTCCAAAAAATCTCCCACTTGCC
66 TAAATAGAAAACAGTTACATGTATACTACAATATGAACACATTTCCAAAAAATCTCCCACTTGCC
15240941 TTAGTGAAATAAATGTGTCATGTTTCACATTCCCATATCCTCGACGTGTTTGTTAAAACTCCTAG
131 TTAGTGAAATAAATGTGTCATGTTTCACATTCCCATATCCTCGACGTGTTTGTTAAAACTCCTAG
15241006 TTACAAGAGTCTTAGTAAACGGATCCGTAAGGTTATCTTTAGAAGATACTTTCATCACATCTACA
196 TTACAAGAGTCTTAGTAAACGGATCCGTAAGGTTATCTTTAGAAGATACTTTCATCACATCTACA
15241071 ATTCTTTCGGCTATTGCCTATCGTATCAAGTGATAATTCC
261 ATTCTTTCGGCTATTGCCTATCGTATCAAGTGATAATTCC
15241111 AA
1 AA
15241113 TTAATGTGTT
Statistics
Matches: 300, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
300 300 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (300 bp):
AAGATAAAAATACAAAAGACATAATAGTGAAATGTGAAATTAACTTTATTTATTCATCATTCAAA
TAAATAGAAAACAGTTACATGTATACTACAATATGAACACATTTCCAAAAAATCTCCCACTTGCC
TTAGTGAAATAAATGTGTCATGTTTCACATTCCCATATCCTCGACGTGTTTGTTAAAACTCCTAG
TTACAAGAGTCTTAGTAAACGGATCCGTAAGGTTATCTTTAGAAGATACTTTCATCACATCTACA
ATTCTTTCGGCTATTGCCTATCGTATCAAGTGATAATTCC
Found at i:15246388 original size:249 final size:246
Alignment explanation
Indices: 15245950--15246442 Score: 797
Period size: 249 Copynumber: 2.0 Consensus size: 246
15245940 AACACTTCAA
* * *
15245950 AAGAAAGTTAACATATGGAGACAAATCACTTATCTAAAACTTACCGAACGATCATAGACAAACAT
1 AAGAAAGTTAACAAATGAAGACAAATCACTTATCTAAAACTTACCGAACGATCACAGACAAACAT
* * *
15246015 GGAGCGACACGAGGCAGAGTGGGGAAAGAAAAATCAAGAAGATAAAGGGTGAAAGAGAGCAGAAA
66 GGAGCGACACGAGGCAGACTGGGAAAAGAAAAATCAAGAAGATAAAGGGTGAAAGAGAGCAAAAA
* *
15246080 TTCGGCAGCAATGAAGAGAAAAACGACAAGAGGGTGGAGGGATTTTGGGGAAAGTAAAAAAAGAG
131 TTCGACAGCAATGAAGAGAAAAACGACAAGAGGGTGGAGGGATTTTAGGGAAAGTAAAAAAA-AG
* * * *
15246145 AAAAAAACAAATATGAACAGAATATTTGATAACTACCCTAATCCCTTATTTTAG
195 -AAAAAA-AAAGATGAACAAAATATTTGATAACCACCCCAATCCCTTATTTTAG
* *
15246199 AAGAAAGTTAACAAATGAAGACAAATCACTTATCTAAAACTTACCGAACGATCGCAGACAAACGT
1 AAGAAAGTTAACAAATGAAGACAAATCACTTATCTAAAACTTACCGAACGATCACAGACAAACAT
*
15246264 GGAGCGACACGAGGCAGACTGGGAAAAGAAAAATCAAGAAGATGAAGGGTGAAAGAGAGCAAAAA
66 GGAGCGACACGAGGCAGACTGGGAAAAGAAAAATCAAGAAGATAAAGGGTGAAAGAGAGCAAAAA
* * *
15246329 TTCGACAGCAATGAAGAGTAAAACGACAAGAGTGTGGAGGGATTTTAGGGAAAGTAAAAAAAAGG
131 TTCGACAGCAATGAAGAGAAAAACGACAAGAGGGTGGAGGGATTTTAGGGAAAGTAAAAAAAAGA
15246394 AAAAAAAAGATGAACAAAATATTTGATAACCACCCCAATCCCTTATTTT
196 AAAAAAAAGATGAACAAAATATTTGATAACCACCCCAATCCCTTATTTT
15246443 TCTCCATCAA
Statistics
Matches: 226, Mismatches: 18, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
246 40 0.18
247 5 0.02
248 2 0.01
249 179 0.79
ACGTcount: A:0.47, C:0.14, G:0.23, T:0.17
Consensus pattern (246 bp):
AAGAAAGTTAACAAATGAAGACAAATCACTTATCTAAAACTTACCGAACGATCACAGACAAACAT
GGAGCGACACGAGGCAGACTGGGAAAAGAAAAATCAAGAAGATAAAGGGTGAAAGAGAGCAAAAA
TTCGACAGCAATGAAGAGAAAAACGACAAGAGGGTGGAGGGATTTTAGGGAAAGTAAAAAAAAGA
AAAAAAAAGATGAACAAAATATTTGATAACCACCCCAATCCCTTATTTTAG
Found at i:15252492 original size:20 final size:18
Alignment explanation
Indices: 15252442--15252493 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
15252432 TTACAAGATA
15252442 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
15252459 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
15252479 AATATTAAATTAATA
1 AATATTAAATTAATA
15252494 AAATATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:15252515 original size:25 final size:24
Alignment explanation
Indices: 15252487--15252552 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
15252477 TTAATATTAA
15252487 ATTAATAAAATATTATAAGATAATT
1 ATTAATAAAATATTATAAGA-AATT
* *
15252512 ATTAAATTAAAT-TTAATAATAAATT
1 ATT-AATAAAATATT-ATAAGAAATT
15252537 ATTAA-AATAATATTAT
1 ATTAATAA-AATATTAT
15252553 TTTTGAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
23 1 0.03
24 7 0.21
25 14 0.41
26 12 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
ATTAATAAAATATTATAAGAAATT
Found at i:15252551 original size:14 final size:14
Alignment explanation
Indices: 15252489--15252553 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
15252479 AATATTAAAT
*
15252489 TAATAAAATATT-A
1 TAATAAATTATTAA
*
15252502 TAAGATAATTATTAA
1 TAATA-AATTATTAA
*
15252517 -ATTAAA-T-TTAA
1 TAATAAATTATTAA
15252528 TAATAAATTATTAA
1 TAATAAATTATTAA
15252542 -AATAATATTATT
1 TAATAA-ATTATT
15252554 TTTGAAATAG
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
11 4 0.10
12 6 0.15
13 12 0.29
14 18 0.44
15 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
TAATAAATTATTAA
Found at i:15255983 original size:43 final size:43
Alignment explanation
Indices: 15255935--15256070 Score: 193
Period size: 43 Copynumber: 3.2 Consensus size: 43
15255925 TTTTAGAAAT
* *
15255935 AAACGCTGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGACGCTTTTCCCAC
* * *
15255978 AAACGCCGCTATAGATCAGGAGC-TTTAGCGACGCTTATCTCAC
1 AAACGCCGCTATAGATCATGA-CTTTTAGCGACGCTTTTCCCAC
* *
15256021 AAACGCCGCTATAGGTCATGACTTTTAGCAACGCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGACGCTTTTCCCAC
15256064 AAACGCC
1 AAACGCC
15256071 ACTAAAAACA
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.01
43 79 0.98
44 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACTTTTAGCGACGCTTTTCCCAC
Found at i:15258950 original size:281 final size:276
Alignment explanation
Indices: 15258319--15258951 Score: 824
Period size: 282 Copynumber: 2.2 Consensus size: 276
15258309 TAAAGATATA
* *
15258319 ATAAAAGGTCTCAGACATCCAAGGAAGGATAAAAGTAGCACAAGCTCTCAAGCCCGGCGAAAAGC
1 ATAAAAGGTCTCAGACATCCAAGGAAGGA-AGAAGCAGCACAAGCTCTCAAGCCC-GCG----GC
15258384 GAAAGCTCTCAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAAC
60 GAAAGCTCTCAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAAC
** *
15258449 CCATACACATGAAATATATTATCATTTGACTCAATTTTATGAATATCGTTTATCAATGGAACTGA
125 CCATACACAACAAATATATTATCATTTGACTCAATTTTAAGAATATCGTTTATCAATGGAACTGA
* *
15258514 AAAAAAAGGGAAAAATATACAACCAGATTTCTGAGAAAATAATTGGATTTTCAAGCGCAAATAAT
190 AAAAAAAGGGAAAAATATACAACCAGATTTCTGAGAAAATAACTGGATTTTCAAGCACAAATAAT
15258579 GAAAAACAACTATATACAAGTC
255 GAAAAACAACTATATACAAGTC
*
15258601 ATAAAAGGTCTCAAACATCCAAGGAAGGAATGAAGCAGCACAAGCTCTCAAGCCCGGCGAAAGGC
1 ATAAAAGGTCTCAGACATCCAAGGAAGGAA-GAAGCAGCACAAGCTCTCAAGCCC-GC----GGC
* ***
15258666 GAAAGCTCTTAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTTGGA-TTATCATCATAAAC
60 GAAAGCTCTCAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAAC
* * * *
15258730 CCATACACAACAAATATATTTTCCTTTGACTGAATTTTAAGAATATCGTTTATCAATTGAACTGA
125 CCATACACAACAAATATATTATCATTTGACTCAATTTTAAGAATATCGTTTATCAATGGAACTG-
* * * * * * *
15258795 AAAAAAAAAGAAGGAAAAAATGTACAGCCAGATTTCTGAGGAAGTGACTGGGTTTTCAATCACAA
189 -AAAAAAAAG--GG-AAAAATATACAACCAGATTTCTGAGAAAATAACTGGATTTTCAAGCACAA
*
15258860 ATAATG-AAAACAACAATCATATAGAAGTC
250 ATAATGAAAAACAAC--T-ATATACAAGTC
*
15258889 ATAAAAGGTCTCAGACATCCAAGGAAGGAAGGAAGCAGCACAAGCTCGCAAG-CC-CGGCGAAAG
1 ATAAAAGGTCTCAGACATCCAAGGAAGGAA-GAAGCAGCACAAGCTCTCAAGCCCGCGGCGAAAG
15258952 GCGAAAGCCC
Statistics
Matches: 311, Mismatches: 27, Indels: 27
0.85 0.07 0.07
Matches are distributed among these distances:
281 80 0.26
282 101 0.32
283 9 0.03
285 11 0.04
286 48 0.15
287 3 0.01
288 59 0.19
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (276 bp):
ATAAAAGGTCTCAGACATCCAAGGAAGGAAGAAGCAGCACAAGCTCTCAAGCCCGCGGCGAAAGC
TCTCAGGCGGCCACTGCGAATGTTTTGAGAAACAAGCCTTACAACTTATCATCATAAACCCATAC
ACAACAAATATATTATCATTTGACTCAATTTTAAGAATATCGTTTATCAATGGAACTGAAAAAAA
AGGGAAAAATATACAACCAGATTTCTGAGAAAATAACTGGATTTTCAAGCACAAATAATGAAAAA
CAACTATATACAAGTC
Found at i:15259672 original size:76 final size:77
Alignment explanation
Indices: 15259580--15259737 Score: 205
Period size: 76 Copynumber: 2.1 Consensus size: 77
15259570 ATAAATTGAT
* *
15259580 TTTTTTGCGGCGTTTTTATGAAAACACCGCTAAATGTTTTGCTACATAAAAT-G-ACTA-TTTTT
1 TTTTTTGCGGCGTTTTTATAAAAACACCGCTAAATGTTCTGCTACATAAAATGGCACTATTTTTT
15259642 AAAGTAAAATTA
66 AAAGTAAAATTA
* * * * *
15259654 TTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTAAATGTTCTGCTATATGAAATGGCGCTATTTT
1 TTTTTTGCGGCG--TTTTTATAAAAACACCGCTAAATGTTCTGCTACATAAAATGGCACTA-TTT
15259719 TTTAAAGTAAAATTA
63 TTTAAAGTAAAATTA
15259734 TTTT
1 TTTT
15259738 ACTATCAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
74 11 0.15
76 35 0.49
77 1 0.01
78 3 0.04
80 21 0.30
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (77 bp):
TTTTTTGCGGCGTTTTTATAAAAACACCGCTAAATGTTCTGCTACATAAAATGGCACTATTTTTT
AAAGTAAAATTA
Found at i:15260393 original size:21 final size:22
Alignment explanation
Indices: 15260369--15260420 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
15260359 GACCCCGAAT
* *
15260369 CTCTAAACCCTAAATCACTAA-
1 CTCTAAACCCCAAACCACTAAC
*
15260390 CTCTTAACCCCAAACCACTAAC
1 CTCTAAACCCCAAACCACTAAC
15260412 CTCTAAACC
1 CTCTAAACC
15260421 TTATTTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.21
Consensus pattern (22 bp):
CTCTAAACCCCAAACCACTAAC
Found at i:15260517 original size:89 final size:89
Alignment explanation
Indices: 15260402--15260564 Score: 254
Period size: 89 Copynumber: 1.8 Consensus size: 89
15260392 CTTAACCCCA
* * **
15260402 AACCACTAACCTCTAAACCTTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAATTATAA
1 AACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
15260467 ACCCTAACCCGACCCCAAGTCCCT
66 ACCCTAACCCGACCCCAAGTCCCT
* * * *
15260491 AACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTAATCTAAACCCTAA
1 AACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
15260556 ACCCTAACC
66 ACCCTAACC
15260565 TAACACTAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 66 1.00
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.26
Consensus pattern (89 bp):
AACCACTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
ACCCTAACCCGACCCCAAGTCCCT
Found at i:15260595 original size:89 final size:89
Alignment explanation
Indices: 15260401--15260587 Score: 232
Period size: 89 Copynumber: 2.1 Consensus size: 89
15260391 TCTTAACCCC
* * **
15260401 AAACCACTAACCTCTAAACCTTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAATTATA
1 AAACC-CTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATA
* * *
15260466 AACCCTAACCCGACCCCAAGTCCCT
65 AACCCTAACCCAACACCAAGTCCAT
* * * *
15260491 AACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTAATCTAAACCCTAA
1 AAACCCTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
* * *
15260556 ACCCTAACCTAACACTAA-TCTAT
66 ACCCTAACCCAACACCAAGTCCAT
15260579 AAACCCTAA
1 AAACCCTAA
15260588 ATCCCTAACT
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
88 11 0.13
89 67 0.82
90 4 0.05
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.26
Consensus pattern (89 bp):
AAACCCTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAA
ACCCTAACCCAACACCAAGTCCAT
Found at i:15260604 original size:14 final size:14
Alignment explanation
Indices: 15260580--15260626 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
15260570 CTAATCTATA
*
15260580 AACCCTAAATCCCT
1 AACCCTTAATCCCT
* *
15260594 AACTCTTAATCTCT
1 AACCCTTAATCCCT
*
15260608 AACCCTTAACCCCT
1 AACCCTTAATCCCT
15260622 AACCC
1 AACCC
15260627 ATAACCTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.32, C:0.43, G:0.00, T:0.26
Consensus pattern (14 bp):
AACCCTTAATCCCT
Found at i:15260611 original size:28 final size:28
Alignment explanation
Indices: 15260563--15260645 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
15260553 TAAACCCTAA
*
15260563 CCTAACACTAATCTATAAACCCTAAATC
1 CCTAACACTAATCTATAAACCCTAAACC
* * *
15260591 CCTAACTCTTAATCTCT-AACCCTTAACC
1 CCTAACAC-TAATCTATAAACCCTAAACC
* * *
15260619 CCTAACCCATAACCTATAAACCTTAAA
1 CCTAACAC-TAATCTATAAACCCTAAA
15260646 TCACAACCCT
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
28 29 0.67
29 14 0.33
ACGTcount: A:0.39, C:0.35, G:0.00, T:0.27
Consensus pattern (28 bp):
CCTAACACTAATCTATAAACCCTAAACC
Found at i:15261223 original size:40 final size:40
Alignment explanation
Indices: 15261160--15261266 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
15261150 TTCCAAAAAA
*
15261160 CGCTAATGCT-AATTTTTAGCGGCGCTTTACTGGAAA-CGC
1 CGCTAATGCTCGATTTTTAGCGGCGCTTTAC-GGAAATCGC
* * *
15261199 CGCTAATGCTCGATCTTTAGCGGCGTTTTACGTAAATCGC
1 CGCTAATGCTCGATTTTTAGCGGCGCTTTACGGAAATCGC
* *
15261239 TGCTAATGCTCGATTTTTAGTGGC-CTTT
1 CGCTAATGCTCGATTTTTAGCGGCGCTTT
15261267 TTTGTCCAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 17 0.29
40 41 0.71
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (40 bp):
CGCTAATGCTCGATTTTTAGCGGCGCTTTACGGAAATCGC
Found at i:15263759 original size:21 final size:21
Alignment explanation
Indices: 15263705--15263759 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
15263695 TGCAGAGGAG
* *
15263705 ACACGACCATGTGGTCAAGGC
1 ACACGTCCATGTGGTCAAGAC
* *
15263726 ACACGTTCTTGTGGT-ATAGAC
1 ACACGTCCATGTGGTCA-AGAC
15263747 ACACGTCCATGTG
1 ACACGTCCATGTG
15263760 CGCAACCCGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (21 bp):
ACACGTCCATGTGGTCAAGAC
Found at i:15264781 original size:16 final size:16
Alignment explanation
Indices: 15264760--15264804 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
15264750 TGAAAATATT
15264760 TATATTTTATATTTTA
1 TATATTTTATATTTTA
*
15264776 TATATTTT-TAAGTTTA
1 TATATTTTAT-ATTTTA
*
15264792 TATATTATATATT
1 TATATTTTATATT
15264805 ATAAACTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TATATTTTATATTTTA
Found at i:15264815 original size:30 final size:30
Alignment explanation
Indices: 15264758--15264815 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15264748 GGTGAAAATA
* * * *
15264758 TTTATATTTTATATTTTATATATTTTTAAG
1 TTTATATATTATATATTATAAACTTTTAAG
15264788 TTTATATATTATATATTATAAACTTTTA
1 TTTATATATTATATATTATAAACTTTTA
15264816 TATATATTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTATATATTATATATTATAAACTTTTAAG
Found at i:15269807 original size:26 final size:26
Alignment explanation
Indices: 15269665--15269816 Score: 80
Period size: 26 Copynumber: 5.9 Consensus size: 26
15269655 AAACAATTTT
* * *
15269665 AAACAATTTAAAATAAACATTACATG
1 AAACAATTTAAAATAAATAATATATG
* * * * * **
15269691 AAATAGTTTAAAAGAAATGACACCT-
1 AAACAATTTAAAATAAATAATATATG
* *
15269716 AAA-AATCTAAAATAAATAATATACATA
1 AAACAATTTAAAATAAATAATAT--ATG
* *
15269743 AAACAGTTTAAGAT-AA-AATA-ATAG
1 AAACAATTTAAAATAAATAATATAT-G
**
15269767 AAAGCAATTCGAAATAAATAATATATG
1 AAA-CAATTTAAAATAAATAATATATG
*
15269794 AAACAATTTAAAATAGATAATAT
1 AAACAATTTAAAATAAATAATAT
15269817 CAAACAGTTT
Statistics
Matches: 91, Mismatches: 26, Indels: 18
0.67 0.19 0.13
Matches are distributed among these distances:
23 2 0.02
24 16 0.18
25 10 0.11
26 41 0.45
27 13 0.14
28 9 0.10
ACGTcount: A:0.59, C:0.08, G:0.07, T:0.26
Consensus pattern (26 bp):
AAACAATTTAAAATAAATAATATATG
Found at i:15269821 original size:24 final size:22
Alignment explanation
Indices: 15269782--15269828 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
15269772 AATTCGAAAT
*
15269782 AAATAATATATGAAACAATTTA
1 AAATAATATATCAAACAATTTA
*
15269804 AAATAGATAATATCAAACAGTTTA
1 AAATA-AT-ATATCAAACAATTTA
15269828 A
1 A
15269829 TATGAACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 2 0.10
24 14 0.67
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (22 bp):
AAATAATATATCAAACAATTTA
Found at i:15270903 original size:17 final size:17
Alignment explanation
Indices: 15270883--15270915 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15270873 TTAATTTTAT
15270883 TTTATTTGTTTTTTTTG
1 TTTATTTGTTTTTTTTG
15270900 TTTATTTGTTTTTTTT
1 TTTATTTGTTTTTTTT
15270916 TCTAATGGGC
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:0.06, C:0.00, G:0.09, T:0.85
Consensus pattern (17 bp):
TTTATTTGTTTTTTTTG
Found at i:15279203 original size:32 final size:33
Alignment explanation
Indices: 15279167--15279233 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 33
15279157 GGATTGATTT
15279167 ATATTTCATATATCATTATATT-AATTACTTAA
1 ATATTTCATATATCATTATATTAAATTACTTAA
* *
15279199 ATATTTCATGTATCATTATATTAAATTATTTAA
1 ATATTTCATATATCATTATATTAAATTACTTAA
15279232 AT
1 AT
15279234 CTTATTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 21 0.66
33 11 0.34
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.51
Consensus pattern (33 bp):
ATATTTCATATATCATTATATTAAATTACTTAA
Found at i:15279251 original size:31 final size:32
Alignment explanation
Indices: 15279171--15279262 Score: 100
Period size: 32 Copynumber: 2.9 Consensus size: 32
15279161 TGATTTATAT
* * *
15279171 TTCATATATCATTATATTAATTACTTAAATAT
1 TTCATGTATCATTATATTAATTATTTAAATAC
15279203 TTCATGTATCATTATATTAAATTATTTAAAT-C
1 TTCATGTATCATTATATT-AATTATTTAAATAC
* *
15279235 TT-ATTTATTATTATATTTAATT-TTTAAA
1 TTCATGTATCATTATA-TTAATTATTTAAA
15279263 ATATGTTATA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
30 6 0.11
31 15 0.28
32 21 0.40
33 11 0.21
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.54
Consensus pattern (32 bp):
TTCATGTATCATTATATTAATTATTTAAATAC
Found at i:15292059 original size:41 final size:41
Alignment explanation
Indices: 15292014--15292115 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 41
15292004 ATTATTCCTA
* * * * * *
15292014 AATTGCACATATGTGCTCCTGTTTGTACTTTAATATCCTTG
1 AATTGCACATACGTGCCCCTGTTTATACTTCAATACCCCTG
* **
15292055 AATTGAACATACGTGCCCCTGTTTATACTTCGGTACCCCTG
1 AATTGCACATACGTGCCCCTGTTTATACTTCAATACCCCTG
15292096 AATTGCACATACGTGCCCCT
1 AATTGCACATACGTGCCCCT
15292116 ACTTGTACTC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTATACTTCAATACCCCTG
Found at i:15292131 original size:41 final size:41
Alignment explanation
Indices: 15292053--15292139 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
15292043 TTAATATCCT
**
15292053 TGAATTGAACATACGTGCCCCTGTTTATACTTCGGTACCCC
1 TGAATTGAACATACGTGCCCCTACTTATACTTCGGTACCCC
* *
15292094 TGAATTGCACATACGTGCCCCTACTTGTAC-TCTGGTACCCC
1 TGAATTGAACATACGTGCCCCTACTTATACTTC-GGTACCCC
15292135 TGAAT
1 TGAAT
15292140 GCATTTTTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 2 0.05
41 39 0.95
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (41 bp):
TGAATTGAACATACGTGCCCCTACTTATACTTCGGTACCCC
Found at i:15306847 original size:30 final size:30
Alignment explanation
Indices: 15306804--15306885 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
15306794 AGTTTTTATT
15306804 ATTATTTTATTTAATATTAATA-TAATATA
1 ATTATTTTATTTAATATTAATATTAATATA
15306833 ATTATTTCTATTTAATATTAATATTAATATA
1 ATTATTT-TATTTAATATTAATATTAATATA
* * *
15306864 A-AATTTAATTTATTATT-ATATT
1 ATTATTTTATTTAATATTAATATT
15306886 CTTTTTGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
28 5 0.10
29 16 0.33
30 19 0.40
31 8 0.17
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTATTTTATTTAATATTAATATTAATATA
Found at i:15308050 original size:32 final size:31
Alignment explanation
Indices: 15308000--15308066 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
15307990 TATTTAAATT
* * *
15308000 AATTTTTCTATTATTAAA-TAGATTAATTAA
1 AATTTTTCTATTAATAAATTAAATAAATTAA
15308030 AATTTTATACTATTAATAAATTAAATAAATTAA
1 AATTTT-T-CTATTAATAAATTAAATAAATTAA
15308063 AATT
1 AATT
15308067 AGAATTGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 6 0.19
31 1 0.03
32 10 0.32
33 14 0.45
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (31 bp):
AATTTTTCTATTAATAAATTAAATAAATTAA
Found at i:15312804 original size:22 final size:23
Alignment explanation
Indices: 15312762--15312806 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
15312752 AAATTAAATA
*
15312762 TCTAAGATTACAAAATCATATCT
1 TCTAAAATTACAAAATCATATCT
*
15312785 TCTAAAATTAC-ATATCATATCT
1 TCTAAAATTACAAAATCATATCT
15312807 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (23 bp):
TCTAAAATTACAAAATCATATCT
Found at i:15312817 original size:19 final size:19
Alignment explanation
Indices: 15312759--15312859 Score: 103
Period size: 19 Copynumber: 5.0 Consensus size: 19
15312749 TACAAATTAA
*
15312759 ATATCTAAGATTACAAAATC
1 ATATCTAAGATTAC-ATATC
*
15312779 ATATCTTCTAAAATTACATATC
1 ATA---TCTAAGATTACATATC
*
15312801 ATATCTAAGATTGCATATATC
1 ATATCTAAGATT--ACATATC
*
15312822 ATATCTAAGATTGCATATC
1 ATATCTAAGATTACATATC
*
15312841 TTATCTAAGATTACATATC
1 ATATCTAAGATTACATATC
15312860 CTCGAAGATT
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
19 30 0.44
20 3 0.04
21 18 0.26
22 7 0.10
23 10 0.15
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (19 bp):
ATATCTAAGATTACATATC
Found at i:15312822 original size:21 final size:21
Alignment explanation
Indices: 15312796--15312858 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
15312786 CTAAAATTAC
15312796 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
15312817 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
* *
15312836 ATATCTTATCTAAGATTACAT
1 ATATCATATCTAAGATTGCAT
15312857 AT
1 AT
15312859 CCTCGAAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.45
21 21 0.55
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:15312840 original size:40 final size:41
Alignment explanation
Indices: 15312759--15312858 Score: 123
Period size: 40 Copynumber: 2.4 Consensus size: 41
15312749 TACAAATTAA
*
15312759 ATATCTAAGATTACA-AAATCATATCTTCTAAAATTACATATC
1 ATATCTAAGATTACATATATCATA--TTCTAAAATTACATATC
* * *
15312801 ATATCTAAGATTGCATATATCATA-TCTAAGATTGCATATC
1 ATATCTAAGATTACATATATCATATTCTAAAATTACATATC
*
15312841 TTATCTAAGATTACATAT
1 ATATCTAAGATTACATAT
15312859 CCTCGAAGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
40 30 0.59
42 14 0.27
43 7 0.14
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (41 bp):
ATATCTAAGATTACATATATCATATTCTAAAATTACATATC
Found at i:15313543 original size:50 final size:50
Alignment explanation
Indices: 15313428--15313670 Score: 281
Period size: 50 Copynumber: 4.8 Consensus size: 50
15313418 GATAATAACA
* * **
15313428 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATATCAG
* * * *
15313479 TGCCCATGCCATGTCCCATACATGGTCTTAC-GGGAGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGG-GACCTCTCATATCAG
* * * *
15313529 TGTCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAG
* * * * *
15313579 TGCCAACGCCATGTTCCAAACATGGTATTACATGGGACCTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAG
* **
15313629 TGCCAACGTCATGTCCCAGACATGGTCTTACTTGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
15313671 TTACCCAAAT
Statistics
Matches: 167, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
50 135 0.81
51 32 0.19
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCAG
Found at i:15313618 original size:100 final size:100
Alignment explanation
Indices: 15313428--15313670 Score: 317
Period size: 100 Copynumber: 2.4 Consensus size: 100
15313418 GATAATAACA
* ** * *
15313428 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCAGTGCCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATATCAGTGCCAACGCCATGT
* * *
15313493 CCCATACATGGTCTTACGGGAGACCTCTCATCTCAG
65 CCCAAACATGGTATTACGGGAGACCTCTCATATCAG
* * * *
15313529 TGTCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGTC
* *
15313594 CCAAACATGGTATTACATGG-GACCTCTCATATCGG
66 CCAAACATGGTATTAC-GGGAGACCTCTCATATCAG
* *
15313629 TGCCAACGTCATGTCCCAGACATGGTCTTACTTGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15313671 TTACCCAAAT
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
100 87 0.70
101 37 0.30
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGTC
CCAAACATGGTATTACGGGAGACCTCTCATATCAG
Found at i:15330453 original size:2 final size:2
Alignment explanation
Indices: 15330446--15330480 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15330436 AATAGAGATT
15330446 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15330481 TAAATACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:15334296 original size:30 final size:29
Alignment explanation
Indices: 15334232--15334323 Score: 112
Period size: 29 Copynumber: 3.1 Consensus size: 29
15334222 GTGTGTTAAA
* * *
15334232 CGATGGTTGTAACCATCCTTTTTTATATT
1 CGATGGTCGTAACCATCCTTTTTCATAAT
* *
15334261 CGATGGTCGAAACCATCATTTTTCATTAAT
1 CGATGGTCGTAACCATCCTTTTTCA-TAAT
* *
15334291 CGATGGTCGTTACCATCCCTTTTCATAAT
1 CGATGGTCGTAACCATCCTTTTTCATAAT
15334320 CGAT
1 CGAT
15334324 AGCCGAGGCT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 29 0.55
30 24 0.45
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (29 bp):
CGATGGTCGTAACCATCCTTTTTCATAAT
Found at i:15334337 original size:29 final size:29
Alignment explanation
Indices: 15334305--15334489 Score: 178
Period size: 29 Copynumber: 6.4 Consensus size: 29
15334295 GGTCGTTACC
* **
15334305 ATCCCTTTTCATAATCGATAGCCGAGGCT
1 ATCCCTTTTCATATTCGATAGCCGAAACT
* * *
15334334 ATCCCTTTCCACATTCGATAGCC-AAAGTT
1 ATCCCTTTTCATATTCGATAGCCGAAA-CT
*
15334363 ATCCCTTTTCAT-TTCGATAGACGAAACT
1 ATCCCTTTTCATATTCGATAGCCGAAACT
* *
15334391 ATCCCTTTTCACATTTGATAGCC-AAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAA-CT
* * * ** *
15334420 ATCCTTTTTCATATTCGATGGTCGTCACC
1 ATCCCTTTTCATATTCGATAGCCGAAACT
* *
15334449 ATCCCTTTTCATAATCGATAGACGAAACT
1 ATCCCTTTTCATATTCGATAGCCGAAACT
15334478 ATCCCTTTTCAT
1 ATCCCTTTTCAT
15334490 TATCTGAGGT
Statistics
Matches: 123, Mismatches: 28, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
28 25 0.20
29 97 0.79
30 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATAGCCGAAACT
Found at i:15345875 original size:27 final size:27
Alignment explanation
Indices: 15345787--15345884 Score: 74
Period size: 27 Copynumber: 3.7 Consensus size: 27
15345777 AAATCGATCA
* * * *
15345787 TTTAACCTAGAGGGGCAACATAGTCAT
1 TTTACCCTACAGGGGCATCATGGTCAT
*** * *
15345814 TTTACCCTTTGGGGGTAT-ATCGGTCAA
1 TTTACCCTACAGGGGCATCAT-GGTCAT
*
15345841 TTT-GCCTACAGGGGCATCATGGTCAT
1 TTTACCCTACAGGGGCATCATGGTCAT
*
15345867 TTTACCCTACATGGGCAT
1 TTTACCCTACAGGGGCAT
15345885 TACAATCATT
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
26 19 0.37
27 33 0.63
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (27 bp):
TTTACCCTACAGGGGCATCATGGTCAT
Found at i:15347460 original size:24 final size:24
Alignment explanation
Indices: 15347414--15347460 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15347404 TTAAATTTCC
* *
15347414 TTGATTTTCTCCCAAATCTCCTCA
1 TTGATTTGCTCCCAAAACTCCTCA
15347438 TTGATTTGCTCCACAAAAC-CCTC
1 TTGATTTGCTCC-CAAAACTCCTC
15347461 CAAGACCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.36
Consensus pattern (24 bp):
TTGATTTGCTCCCAAAACTCCTCA
Found at i:15352855 original size:15 final size:17
Alignment explanation
Indices: 15352835--15352875 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
15352825 TTTACATGTG
*
15352835 AAACTATAGAGTT-T-A
1 AAACTATAGAATTATGA
15352850 AAACTATAGAATTATGA
1 AAACTATAGAATTATGA
15352867 AAACTATAG
1 AAACTATAG
15352876 GTTGTGAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.52
16 1 0.04
17 10 0.43
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.29
Consensus pattern (17 bp):
AAACTATAGAATTATGA
Found at i:15360070 original size:17 final size:17
Alignment explanation
Indices: 15360048--15360091 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 17
15360038 ATGAATGGTC
15360048 AATAAATGTGCGACATT
1 AATAAATGTGCGACATT
15360065 AATAAACTTATGTGCGACATT
1 AAT-AA---ATGTGCGACATT
15360086 AATAAA
1 AATAAA
15360092 CTTACTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
17 4 0.17
18 2 0.09
20 2 0.09
21 15 0.65
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (17 bp):
AATAAATGTGCGACATT
Found at i:15360079 original size:21 final size:21
Alignment explanation
Indices: 15360053--15360095 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
15360043 TGGTCAATAA
15360053 ATGTGCGACATTAATAAACTT
1 ATGTGCGACATTAATAAACTT
15360074 ATGTGCGACATTAATAAACTT
1 ATGTGCGACATTAATAAACTT
15360095 A
1 A
15360096 CTCATTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
ATGTGCGACATTAATAAACTT
Found at i:15362660 original size:29 final size:29
Alignment explanation
Indices: 15362628--15362816 Score: 143
Period size: 29 Copynumber: 6.5 Consensus size: 29
15362618 GATCGTCACC
* * **
15362628 ATCCCTTTTCATAATCGATGGTTAAAGCT
1 ATCCCTTTTCATATTCGATAGCCAAAGCT
*
15362657 ATCCCTTTTCATATTCGATAGCCGAAGCT
1 ATCCCTTTTCATATTCGATAGCCAAAGCT
* * * * *
15362686 ATCCCTTTTCATATTTGATGGTCATCA-CC
1 ATCCCTTTTCATATTCGATAGCCA-AAGCT
* * * *
15362715 ATCCCTTTTCATAGTT-GATGGTCATCA-CC
1 ATCCCTTTTCATA-TTCGATAGCCA-AAGCT
*
15362744 ATCCCTTTTCATAATT-GATAGCCGAAGCT
1 ATCCCTTTTCAT-ATTCGATAGCCAAAGCT
** *
15362773 ATCCCTTTTCATATTCGATAGCTGAAGGT
1 ATCCCTTTTCATATTCGATAGCCAAAGCT
*
15362802 ATCTCTTTTCATATT
1 ATCCCTTTTCATATT
15362817 TGATGACCGT
Statistics
Matches: 136, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.03
29 128 0.94
30 4 0.03
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATAGCCAAAGCT
Found at i:15362706 original size:58 final size:58
Alignment explanation
Indices: 15362628--15362821 Score: 189
Period size: 58 Copynumber: 3.3 Consensus size: 58
15362618 GATCGTCACC
* *
15362628 ATCCCTTTTCATAATCGATGGTTAAAGCTATCCCTTTTCATATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTGATGGTCAAAGCTATCCCTTTTCATATTCGATAGCCGAAGCT
* * * * * *
15362686 ATCCCTTTTCATATTTGATGGTCATCA-CCATCCCTTTTCATAGTT-GATGGTC-ATCA-CC
1 ATCCCTTTTCATAATTGATGGTCA-AAGCTATCCCTTTTCATA-TTCGATAGCCGA--AGCT
* * * * *
15362744 ATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTTTTCATATTCGATAGCTGAAGGT
1 ATCCCTTTTCATAATTGATGGTCAAAGCTATCCCTTTTCATATTCGATAGCCGAAGCT
* *
15362802 ATCTCTTTTCATATTTGATG
1 ATCCCTTTTCATAATTGATG
15362822 ACCGTCGATA
Statistics
Matches: 106, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
57 5 0.05
58 96 0.91
59 5 0.05
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (58 bp):
ATCCCTTTTCATAATTGATGGTCAAAGCTATCCCTTTTCATATTCGATAGCCGAAGCT
Found at i:15362735 original size:87 final size:87
Alignment explanation
Indices: 15362564--15362787 Score: 272
Period size: 87 Copynumber: 2.6 Consensus size: 87
15362554 ATGATGGTTG
* * * * * * * * *
15362564 TAACCATACCTTTTCATATTCAATGGTCGAAACCATCCATTTTCATTAATTGATGATCGTCACCA
1 TAACCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCA-TATTTGATGATCATCACCA
*
15362629 TCCCTTTTCATAATCGATGGTTA
65 TCCCTTTTCATAATCGATGGTCA
* *
15362652 -AAGCTATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGGTCATCACCA
1 TAA-CCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGATCATCACCA
* *
15362716 TCCCTTTTCATAGTTGATGGTCA
65 TCCCTTTTCATAATCGATGGTCA
*
15362739 TCACCATCCCTTTTCATAATT-GATAGCCGAAGCTATCCCTTTTCATATT
1 TAACCATCCCTTTTCAT-ATTCGATAGCCGAAGCTATCCCTTTTCATATT
15362788 CGATAGCTGA
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
87 79 0.68
88 38 0.32
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.38
Consensus pattern (87 bp):
TAACCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGATCATCACCAT
CCCTTTTCATAATCGATGGTCA
Found at i:15368702 original size:124 final size:124
Alignment explanation
Indices: 15368481--15368730 Score: 482
Period size: 124 Copynumber: 2.0 Consensus size: 124
15368471 AATGGTGTAA
15368481 TAATAAATTTTAATTTAATGATTTTTGGTTAAATGGAAGAACAATTAGGTTCAAGTGGTTGGACC
1 TAATAAATTTTAATTTAATGATTTTTGGTTAAATGGAAGAACAATTAGGTTCAAGTGGTTGGACC
15368546 CATTTAGAAAATGAGGTATTAGAACCTCGTTTCTATAAATTGAGATATTTACGGAGTGT
66 CATTTAGAAAATGAGGTATTAGAACCTCGTTTCTATAAATTGAGATATTTACGGAGTGT
15368605 TAATAAATTTTAATTTAATGATTTTTGGTTAAATGGAAGAACAATTAGGTTCAAGTGGTTGGACC
1 TAATAAATTTTAATTTAATGATTTTTGGTTAAATGGAAGAACAATTAGGTTCAAGTGGTTGGACC
* *
15368670 CATTTAGAAAATGAGGTATTAGGACCTTGTTTCTATAAATTGAGATATTTACGGAGTGT
66 CATTTAGAAAATGAGGTATTAGAACCTCGTTTCTATAAATTGAGATATTTACGGAGTGT
15368729 TA
1 TA
15368731 CTAAGGTTGT
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (124 bp):
TAATAAATTTTAATTTAATGATTTTTGGTTAAATGGAAGAACAATTAGGTTCAAGTGGTTGGACC
CATTTAGAAAATGAGGTATTAGAACCTCGTTTCTATAAATTGAGATATTTACGGAGTGT
Found at i:15376990 original size:3 final size:3
Alignment explanation
Indices: 15376977--15377009 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
15376967 TTGATGTTGT
*
15376977 TGC TGC AGC TGC TGC TGC TGC TGC TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
15377010 AGTGGAGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.03, C:0.33, G:0.33, T:0.30
Consensus pattern (3 bp):
TGC
Found at i:15377090 original size:6 final size:6
Alignment explanation
Indices: 15377043--15377121 Score: 77
Period size: 6 Copynumber: 13.2 Consensus size: 6
15377033 CTGTGGCTTT
* * * *
15377043 GACTGT GACTGC GACTGT GACTGA GACTCA GACTGA GACTGA GACTGA
1 GACTGA GACTGA GACTGA GACTGA GACTGA GACTGA GACTGA GACTGA
* * * * *
15377091 GGCTGA GGCTGA GGCTGA GGCTGA GGCTGA G
1 GACTGA GACTGA GACTGA GACTGA GACTGA G
15377122 GCTGCTGCTG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (6 bp):
GACTGA
Found at i:15377122 original size:6 final size:6
Alignment explanation
Indices: 15377075--15377125 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
15377065 GAGACTCAGA
* *
15377075 CTGAGA CTGAGA CTGAGG CTGAGG CTGAGG CTGAGG CTGAGG CTGAGG
1 CTGAGG CTGAGG CTGAGG CTGAGG CTGAGG CTGAGG CTGAGG CTGAGG
15377123 CTG
1 CTG
15377126 CTGCTGGTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.20, C:0.18, G:0.45, T:0.18
Consensus pattern (6 bp):
CTGAGG
Found at i:15384817 original size:124 final size:123
Alignment explanation
Indices: 15384594--15384999 Score: 604
Period size: 120 Copynumber: 3.3 Consensus size: 123
15384584 TTTATTAAGA
* * * *
15384594 AAATCGCTCCCACGTGGACGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTTGAGTTGACG
1 AAATCGCTCCCACGTAGACGCGCTTTTGCTACAGTAGGTCCTG-AAAAATAATTTCGAGTTGACG
* *
15384659 TTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTTTG
65 TTTCTGAGCAAATAGTATAAAAAACGCTTTAAGCAGGATGCTTTAT-AGAAGAATTTTTG
* *
15384719 AAATCGCTCCTACGTAGACGCGCTTTTGCTACAGTTA-GTCCTGAAAAGTAATTTCGAGTTGACG
1 AAATCGCTCCCACGTAGACGCGCTTTTGCTACAG-TAGGTCCTGAAAAATAATTTCGAGTTGACG
*
15384783 TTTCTGAGCAAATAGTATAAAAAACGCTTTAAGCAAGATGC--T-TAGAAGAATTTTTG
65 TTTCTGAGCAAATAGTATAAAAAACGCTTTAAGCAGGATGCTTTATAGAAGAATTTTTG
* * * * *
15384839 AAATCGCTCCCACATAGACGCACTTTTGCTATAGTAGGTCCTAAAAAATAATTTCGAGTTGATGT
1 AAATCGCTCCCACGTAGACGCGCTTTTGCTACAGTAGGTCCTGAAAAATAATTTCGAGTTGACGT
15384904 TTCTGAGCAAATAGTATAAAAAACGCTTTAAGCAGGATGCTTTATCAGAAGAATTTTTG
66 TTCTGAGCAAATAGTATAAAAAACGCTTTAAGCAGGATGCTTTAT-AGAAGAATTTTTG
* *
15384963 AAATCGCTTCCACGTGGACGCGCTTTTGCTACAGTAG
1 AAATCGCTCCCACGTAGACGCGCTTTTGCTACAGTAG
15385000 CATGTTTGGG
Statistics
Matches: 253, Mismatches: 22, Indels: 13
0.88 0.08 0.05
Matches are distributed among these distances:
119 2 0.01
120 107 0.42
121 1 0.00
122 2 0.01
123 1 0.00
124 102 0.40
125 36 0.14
126 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (123 bp):
AAATCGCTCCCACGTAGACGCGCTTTTGCTACAGTAGGTCCTGAAAAATAATTTCGAGTTGACGT
TTCTGAGCAAATAGTATAAAAAACGCTTTAAGCAGGATGCTTTATAGAAGAATTTTTG
Found at i:15387540 original size:18 final size:18
Alignment explanation
Indices: 15387499--15387541 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
15387489 GACTAGAAAA
* * *
15387499 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
*
15387517 AAGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
15387535 AGGATAC
1 AGGATAC
15387542 GCACCTGGCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:15388070 original size:17 final size:18
Alignment explanation
Indices: 15388056--15388139 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 18
15388046 ATAATCTTCG
15388056 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
15388074 TATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
*
15388093 TATGATATATGCAATCTTAGA
1 -A-G-GATATGCAATCTTAGA
* *
15388114 TATGATATGTAATCTTAGA
1 -AGGATATGCAATCTTAGA
15388133 A-GATATG
1 AGGATATG
15388140 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
17 6 0.11
18 1 0.02
19 33 0.58
21 17 0.30
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:15388082 original size:19 final size:19
Alignment explanation
Indices: 15388058--15388132 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
15388048 AATCTTCGAG
15388058 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15388077 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15388096 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
15388117 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
15388133 AGATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.64
21 19 0.36
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:15388104 original size:21 final size:21
Alignment explanation
Indices: 15388059--15388121 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
15388049 ATCTTCGAGG
15388059 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
15388078 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
15388099 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
15388120 AT
1 AT
15388122 GTAATCTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:15388151 original size:23 final size:22
Alignment explanation
Indices: 15388071--15388155 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
15388061 ATGCAATCTT
*
15388071 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
15388092 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
15388111 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
15388133 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
15388156 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:15388165 original size:22 final size:23
Alignment explanation
Indices: 15388121--15388165 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15388111 AGATATGATA
*
15388121 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
15388144 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
15388166 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:15388364 original size:20 final size:22
Alignment explanation
Indices: 15388339--15388379 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
15388329 TGTTTTCTTT
*
15388339 TTTTTTTTCTT-TTT-CGATTA
1 TTTTTTTACTTATTTACGATTA
15388359 TTTTTTTACTTATTTACGATT
1 TTTTTTTACTTATTTACGATT
15388380 TAGAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.71
Consensus pattern (22 bp):
TTTTTTTACTTATTTACGATTA
Found at i:15388673 original size:46 final size:45
Alignment explanation
Indices: 15388623--15388772 Score: 143
Period size: 46 Copynumber: 3.3 Consensus size: 45
15388613 TTATTATTAC
*
15388623 TATATATA-CATACGCATTTTTTTATAATAATATACATACGCATTTT
1 TATATATAGCATACGCATTTTTTTAT-ATAATATA-ATATGCATTTT
**
15388669 TATATATAGCAT--GCAGGCGTTTTTATATAATAT-ATATGCATTTT
1 TATATATAGCATACGCA--TTTTTTTATATAATATAATATGCATTTT
* *
15388713 TTTATATAGTATGCACGCATTTTTTTATATAATATATATATGC-TTTT
1 TATATATAGCAT--ACGCATTTTTTTATATAATATA-ATATGCATTTT
15388760 T-T-TATAGCATACG
1 TATATATAGCATACG
15388773 TCTACCTATA
Statistics
Matches: 87, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
43 3 0.03
44 20 0.23
45 10 0.11
46 30 0.34
47 15 0.17
48 9 0.10
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (45 bp):
TATATATAGCATACGCATTTTTTTATATAATATAATATGCATTTT
Found at i:15388711 original size:44 final size:45
Alignment explanation
Indices: 15388641--15388751 Score: 134
Period size: 44 Copynumber: 2.4 Consensus size: 45
15388631 CATACGCATT
* *
15388641 TTTTTATAATAATATACATACGCATTTTTATATATAGCATGCAGGC-G
1 TTTTTAT-ATAATAT--ATATGCATTTTTATATATAGCATGCACGCAG
* * *
15388688 TTTTTATATAATATATATGCATTTTTTTATATAGTATGCACGCATT
1 TTTTTATATAATATATATGCATTTTTATATATAGCATGCACGCA-G
15388734 TTTTTATATAATATATAT
1 TTTTTATATAATATATAT
15388752 ATGCTTTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
44 25 0.44
46 25 0.44
47 7 0.12
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (45 bp):
TTTTTATATAATATATATGCATTTTTATATATAGCATGCACGCAG
Found at i:15388714 original size:23 final size:23
Alignment explanation
Indices: 15388688--15388765 Score: 95
Period size: 23 Copynumber: 3.3 Consensus size: 23
15388678 CATGCAGGCG
15388688 TTTTTATATAATATATATGCATT
1 TTTTTATATAATATATATGCATT
* ** *
15388711 TTTTTATATAGTATGCACGCATT
1 TTTTTATATAATATATATGCATT
15388734 TTTTTATATAATATATATATGC-TT
1 TTTTTATAT-A-ATATATATGCATT
15388758 TTTTTATA
1 TTTTTATA
15388766 GCATACGTCT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
23 28 0.62
24 11 0.24
25 6 0.13
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (23 bp):
TTTTTATATAATATATATGCATT
Found at i:15389008 original size:32 final size:33
Alignment explanation
Indices: 15388962--15389023 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
15388952 ATGATTTACC
* * *
15388962 AATATATACTTATAC-ATCTTTTTTATTTTGTA
1 AATATATACATATACAAACTTTTCTATTTTGTA
15388994 AATATATACATATACAAACTTTTCTATTTT
1 AATATATACATATACAAACTTTTCTATTTT
15389024 TATCTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.52
Consensus pattern (33 bp):
AATATATACATATACAAACTTTTCTATTTTGTA
Found at i:15389262 original size:19 final size:20
Alignment explanation
Indices: 15389221--15389262 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
15389211 ATTTCTATGC
* *
15389221 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
15389241 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
15389260 CAT
1 CAT
15389263 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:15395221 original size:132 final size:132
Alignment explanation
Indices: 15394971--15395382 Score: 655
Period size: 132 Copynumber: 3.1 Consensus size: 132
15394961 GTGAAACACT
* * * *
15394971 AAGCCTTGTCT-CTTGAGCAACAGCGGAGTAGGTTGAGGATCGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * *
15395035 TAGTGGAGTAGATCGAGGACGATAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
15395100 CC
131 CC
* *
15395102 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATTTTATCTCCCTAAGTAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* *
15395167 TAGTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
15395232 CC
131 CC
*
15395234 AAGCATTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
* * * * *
15395299 TAATGGAGCAGATCGAAGACGGCAAATCATATCTTTCCAAAATAGTGGGAAGCAGATTTAAGCCA
66 TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
15395364 CC
131 CC
*
15395366 AAGCCTTATCTCCCTGA
1 AAGCCTTGTCTCCCTGA
15395383 AGTTGCAGTG
Statistics
Matches: 257, Mismatches: 23, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
131 11 0.04
132 246 0.96
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
TAGTGGAGAAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
CC
Found at i:15395565 original size:45 final size:44
Alignment explanation
Indices: 15395453--15396392 Score: 375
Period size: 44 Copynumber: 21.6 Consensus size: 44
15395443 TCGCATCTAG
* *
15395453 TCTTATCTC-CTTGAAGTTGCAGTGGAGCAGACTAAG-TAAGCAAG
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGACTAAGATGA-CAAA
15395497 TCTTATC-CTCTTGAAGTTGCAGT-GAGGCAGACTGAAGATGACAAA
1 TCTTATCTCTC-TGAAGTTGCAGTGGA-GCAGACT-AAGATGACAAA
* * * **
15395542 TCTTATCTCTCTGAGGTTACAGTGGAGCAGATTAAAGCCGAC-AA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACT-AAGATGACAAA
* * * * * *
15395586 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGATGACAAA
* * * * *
15395630 TCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T-CG-T-ATCTAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGATGA-CAAA
* * * * *
15395670 TCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAGCAAG-CAAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAG-ATGACAAA
* * *
15395714 TCTTGTC-CTCCTGAGGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTATCTCT-CTGAAGTTGCAGTGGA-GCAGACT-AAGATGACAAA
* ** *
15395759 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAA-AGTCGA-TAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGA-T-GACAAA
* ** * * *****
15395803 TCCTATCT-TCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGAA
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGACTAAGATGACAAA
* * * *
15395847 TCTTATCTATCTGAAGTTGCAG-AGAGCAGA-T-CGCAT--CAAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAG-ATGACAAA
**
15395887 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGTTAAA
1 TCTTATCTCT-CTGAAGTTGCAGTGGA-GCAGACT-AAGATGACAAA
* * * *
15395932 TCTTATCTCCCTGAATTTGCAGTGGAGCA-AGTTAA-A-GCCGATAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-CTAAGATGAC-A-AA
* * ** * * **** *
15395976 TCCTATCT-TCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTAGA
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGACTAAGATGACAAA
* * * *
15396020 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCAT--CTAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAG-ATGACAAA
* * *
15396060 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-TAATCAAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGATGA-CAAA
* *
15396104 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCGAA
1 TCTTATCTCT-CTGAAGTTGCAGTGGA-GCAGACT-AAGATGACAAA
* * * *
15396149 TCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAA-ATAAACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGAT-GACAAA
* ** * * ** *
15396193 TCCTGCCTC-CTTGAAGTTGCAGTGGAGCAGATTAAAACCACAGA
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGACTAAGATGACAAA
* * * * * *
15396237 TCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCACAT--CAAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGATGACAAA
*
15396278 TCTTATCTC-CTTGAAGTTGCAGTGGAGCAGACTCAAGA-AAGCAAA
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGACT-AAGATGA-CAAA
* * * * * * *
15396323 CCTTATCCCCCTGAAATTGCAGTGGGGCATACTAA-ATAAACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGAT-GACAAA
* * * *
15396367 TCCTGTCTCCCT-AAGTTGTAGTGGAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAG
15396393 TGGATTAGAG
Statistics
Matches: 674, Mismatches: 151, Indels: 143
0.70 0.16 0.15
Matches are distributed among these distances:
39 2 0.00
40 65 0.10
41 47 0.07
42 10 0.01
43 55 0.08
44 318 0.47
45 160 0.24
46 17 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGATGACAAA
Found at i:15395674 original size:173 final size:173
Alignment explanation
Indices: 15395538--15395994 Score: 432
Period size: 173 Copynumber: 2.6 Consensus size: 173
15395528 CTGAAGATGA
* *
15395538 CAAATCTTAT-CTCTCTGAGGTTACAGTG-GAGCAGATTAAAGCCGAC-AATCTTATCTCCCTGA
1 CAAATCTTATCCTC-CTGAGGTTACAGTGAG-GCAGACTAAAGACGACAAATCTTATCTCCCTGA
*
15395600 AGTTGCAGTGGAGC-GGATTAAAATC-ACAGATCTTATC-TCTCTGAAGTTGCAGAGAGTAGATC
64 AGTTGCAGTGGAGCAGG-TTAAAATCGACA-ATCCTATCTTC-CTGAAGTTGCAGAGAGTAGATC
15395662 GTATCTAGTCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAGCAAG
126 GTATCTAGTCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAGCAAG
* * * * * *
15395710 CAAGTCTTGTCCTCCTGAGGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAATCTTATCCTCCTGAGGTTACAGTGAGGCAGACTAAAGACGACAAATCTTATCTCCCTGAAG
* * * * ***
15395775 TTGCAGTGGAGCAGGTTAAAGTCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 TTGCAGTGGAGCAGGTTAAAATCGACAATCCTATCTTCCTGAAGTTGCAG-AGAGTAGA-TCGTA
* * ** * * *
15395840 CCTTGAATCTTATCTATCTGAAGTTGC-A-GAGAGCAGA-T-CGC-AT
129 TC-T-AGTCTTATCTCCCTGAAGTTACAATG-GAGCAGACTAAGCAAG
* * * * * ** *
15395883 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGTTAAATCTTATCTCCCTGAAT
1 CAAATCTTATCCTCCTGAGGTTACAGTGAGGCAGACTAAAGACGACAAATCTTATCTCCCTGAAG
* ** *
15395948 TTGCAGTGGAGCAAGTTAAAGCCGATAATCCTATCTTCCTGAAGTTG
66 TTGCAGTGGAGCAGGTTAAAATCGACAATCCTATCTTCCTGAAGTTG
15395995 TAGTGGAGTG
Statistics
Matches: 244, Mismatches: 30, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
172 32 0.13
173 166 0.68
174 14 0.06
175 5 0.02
176 9 0.04
177 18 0.07
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (173 bp):
CAAATCTTATCCTCCTGAGGTTACAGTGAGGCAGACTAAAGACGACAAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGGTTAAAATCGACAATCCTATCTTCCTGAAGTTGCAGAGAGTAGATCGTATC
TAGTCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAGCAAG
Found at i:15395895 original size:390 final size:391
Alignment explanation
Indices: 15395493--15396347 Score: 1168
Period size: 390 Copynumber: 2.2 Consensus size: 391
15395483 ACTAAGTAAG
* *
15395493 CAAGTCTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCTCTGAGG
1 CAAGTCTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAG
*
15395558 TTACAGTGGAGC-AGATTAAAGCCGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
66 TTACAGTGGAGCAAG-TTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
* * *
15395622 ATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGTAGATCGTATCTAGTCTTATCTCCCTGAAGT
130 ACCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGT
* *
15395687 TACAATGGAGCAGACTAAGCAAGCAAGTCTTGTCCTCCTGAGGTTGCAGTGAGGCAGACTGAAGA
195 TACAATGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGA
** ** * * *
15395752 TGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTCGA-TAATCCTATCTTCC-T
260 TGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA-TAAACAAATCCT-GCCTCCTT
** ** *
15395815 GAAGTTGCAGTGGAGTGGATTAAAACC-TTGAATCTTATCTATCTGAAGTTGCAG-AGAGCAGAT
323 GAAGTTGCAGTGGAGCAGATTAAAACCACAG-ATCTTATCTATCTGAAGTTACAGTAGAGCAGAT
*
15395878 CGCAT
387 CACAT
* ** *
15395883 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGTTAAATCTTATCTCCCTGAAT
1 CAAGTCTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAG
* * * * *
15395948 TTGCAGTGGAGCAAGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGTAGTGGAGTGGATTAAAA
66 TTACAGTGGAGCAAGTTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
**
15396013 CCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTT
131 CCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTT
* * * *
15396078 GCAGTGGAGCAGACTAAGTAATCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
196 ACAATGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
* * *
15396143 GGCGAATCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAACAAATCCTGCCTCCTTGAA
261 GGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAATCCTGCCTCCTTGAA
* *
15396208 GTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACA
326 GTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTATCTGAAGTTACAGTAGAGCAGATCACA
15396273 T
391 T
* * * *
15396274 CAAGTCTTAT-CTCCTTGAAGTTGCAGTG-GAGCAGACTCAAGA-AAGCAAACCTTATCCCCCTG
1 CAAGTCTTATCCT-CTTGAAGTTGCAGTGAG-GCAGACTGAAGATGA-CAAATCTTATCTCCCTG
* *
15396336 AAATTGCAGTGG
63 AAGTTACAGTGG
15396348 GGCATACTAA
Statistics
Matches: 408, Mismatches: 49, Indels: 15
0.86 0.10 0.03
Matches are distributed among these distances:
389 6 0.01
390 327 0.80
391 75 0.18
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (391 bp):
CAAGTCTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAG
TTACAGTGGAGCAAGTTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
CCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTT
ACAATGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
GGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAACAAATCCTGCCTCCTTGAA
GTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTATCTGAAGTTACAGTAGAGCAGATCACA
T
Found at i:15395919 original size:217 final size:215
Alignment explanation
Indices: 15395349--15395919 Score: 824
Period size: 217 Copynumber: 2.6 Consensus size: 215
15395339 AATAGTGGGA
* *
15395349 AGCAGATTTAAGCC-ACCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGA
1 AGCAGATTAAAGCCGA-CAATCC-TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTT-GA
15395413 TCTTATCTCTCTGAAGTTGCAGAGAGTAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTGG
63 TCTTATCTCTCTGAAGTTGCAGAGAGTAGATCGCATCTAGTCTTATCTCC-TGAAGTTGCAGTGG
* *
15395478 AGCAGACTAAGTAAGCAAGTCTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAAT
127 AGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAAT
* *
15395543 CTTATCTCTCTGAGGTTACAGTGG
192 CTTATCTCCCTGAAGTTACAGTGG
* *
15395567 AGCAGATTAAAGCCGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAC-AGAT
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-C-CTTGAT
* * *
15395631 CTTATCTCTCTGAAGTTGCAGAGAGTAGATCGTATCTAGTCTTATCTCCCTGAAGTTACAATGGA
64 CTTATCTCTCTGAAGTTGCAGAGAGTAGATCGCATCTAGTCTTATCT-CCTGAAGTTGCAGTGGA
* * *
15395696 GCAGACTAAGCAAGCAAGTCTTGTCCTCCTGAGGTTGCAGTGAGGCAGACTGAAGATGGCAAATC
128 GCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATC
*
15395761 TTATCTCCCTGAAGTTGCAGTGG
193 TTATCTCCCTGAAGTTACAGTGG
* * * * *
15395784 AGCAGGTTAAAGTCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGAATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTG-ATC
* * *
15395849 TTATCTATCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTTATCCTCCTGAAGTTGCAGT-GAG
65 TTATCTCTCTGAAGTTGCAGAGAGTAGATCGCATCTAGTCTTAT-CTCCTGAAGTTGCAGTGGA-
15395913 GCAGACT
128 GCAGACT
15395920 GAAGATGTTA
Statistics
Matches: 317, Mismatches: 28, Indels: 17
0.88 0.08 0.05
Matches are distributed among these distances:
215 1 0.00
216 4 0.01
217 288 0.91
218 22 0.07
219 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (215 bp):
AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGATCT
TATCTCTCTGAAGTTGCAGAGAGTAGATCGCATCTAGTCTTATCTCCTGAAGTTGCAGTGGAGCA
GACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTA
TCTCCCTGAAGTTACAGTGG
Found at i:15395991 original size:217 final size:215
Alignment explanation
Indices: 15395370--15396259 Score: 805
Period size: 217 Copynumber: 4.1 Consensus size: 215
15395360 GCCACCAAGC
*
15395370 CTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-TGAATCTTATCTCTCTGAAGTTGCAG
* * * *
15395435 AGAGTAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
65 AGAGCAGATCGCATCAAGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* * *
15395500 TATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATC-TCTCTGAGGTTACAG
129 TATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTTC-CTGAAGTTGCAG
* * *
15395564 TGGAGCAGATTAAAGCCGACAAT
193 TGGAGCAGGTTAAAGACGATAAT
*
15395587 CTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAG-ATCTTATCTCTCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-C-CTGAATCTTATCTCTCTGAAGTTGCA
* * * * * *
15395651 GAGAGTAGATCGTATCTAGTCTTATCTCCCTGAAGTTACAATGGAGCAGACTAAGCAAGCAAGTC
64 GAGAGCAGATCGCATCAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATC
* * * *
15395716 TTGTCCTCCTGAGGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAG
128 TTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTTCCTGAAGTTGCAG
*
15395781 TGGAGCAGGTTAAAGTCGATAAT
193 TGGAGCAGGTTAAAGACGATAAT
* * * *
15395804 CCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGAATCTTATCTATCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-TGAATCTTATCTCTCTGAAGTTGCAG
* *
15395869 AGAGCAGATCGCATCAAGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGTTAAA
65 AGAGCAGATCGCATCAAGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGCAAG-CAAA
* * * * *
15395932 TCTTAT-CTCCCTGAATTTGCAGTG-GAGCA-AGTTAA-A-GCCGATAATCCTATCTTCCTGAAG
126 TCTTATCCT-CCTGAAGTTGCAGTGAG-GCAGACTGAAGATGAC-A-AATCTTATCTTCCTGAAG
* * **
15395992 TTGTAGTGGAG-TGGATTAAA-ACCTTAGAT
187 TTGCAGTGGAGCAGG-TTAAAGACGATA-AT
* * * *** * * *
15396021 CTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATCT-AGTCTTATCTCCCTGAAGTTGCAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTGAATCTTATCTCTCTGAAGTTGCAG-
* * * *
15396083 GGAGCAGACTAAGTAATCAAGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGC
65 AGAGCAGA-T-CG-CATCAAGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGCA-AGC
* * * * * * *
15396146 GAATCTTAT-CTCCCTGAAGTTGCAGTGGGGCATACT-AA-ATAAACAAATCCT-GCCTCCTTGA
123 AAATCTTATCCT-CCTGAAGTTGCAGTGAGGCAGACTGAAGAT-GACAAATCTTATCTTCC-TGA
* * *
15396207 AGTTGCAGTGGAGCAGATTAAA-ACCACAGAT
185 AGTTGCAGTGGAGCAGGTTAAAGACGATA-AT
* *
15396238 CTTATCTCTCTGAAGTTACAGT
1 CTTATCTCCCTGAAGTTGCAGT
15396260 AGAGTAGATC
Statistics
Matches: 573, Mismatches: 72, Indels: 55
0.82 0.10 0.08
Matches are distributed among these distances:
213 21 0.04
214 8 0.01
215 7 0.01
216 21 0.04
217 475 0.83
218 39 0.07
219 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (215 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTGAATCTTATCTCTCTGAAGTTGCAGA
GAGCAGATCGCATCAAGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCTTA
TCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTTCCTGAAGTTGCAGTGG
AGCAGGTTAAAGACGATAAT
Found at i:15396002 original size:173 final size:173
Alignment explanation
Indices: 15395710--15396127 Score: 634
Period size: 173 Copynumber: 2.4 Consensus size: 173
15395700 ACTAAGCAAG
* *
15395710 CAAGTCTTGTCCTCCTGAGGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
* *
15395775 TTGCAGTGGAGCAGGTTAAAGTCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 TTGCAGTGGAGCAAGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
15395840 CCTT-GAATCTTATCTATCTGAAGTTGCAGAGAGCAGATCGCAT
131 CCTTAG-ATCTTATCTATCTGAAGTTGCAGAGAGCAGATCGCAT
** *
15395883 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGTTAAATCTTATCTCCCTGAAT
1 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
*
15395948 TTGCAGTGGAGCAAGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGTAGTGGAGTGGATTAAAA
66 TTGCAGTGGAGCAAGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
*
15396013 CCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAT
131 CCTTAGATCTTATCTATCTGAAGTTGCAGAGAGCAGATCGCAT
* *
15396056 CTAGTCTTAT-CTCCCTGAAGTTGCAGTG-GAGCAGACT-AAGTAAT--CAAGTCTTATC-CTCC
1 CAAGTCTTATCCT-CCTGAAGTTGCAGTGAG-GCAGACTGAAG--ATGGCAAATCTTATCTC-CC
15396115 TGAAGTTGCAGTG
61 TGAAGTTGCAGTG
15396128 AGGCAGACTG
Statistics
Matches: 226, Mismatches: 13, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
171 1 0.00
172 29 0.13
173 193 0.85
174 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (173 bp):
CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAAGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
CCTTAGATCTTATCTATCTGAAGTTGCAGAGAGCAGATCGCAT
Found at i:15396170 original size:89 final size:88
Alignment explanation
Indices: 15395453--15396357 Score: 315
Period size: 89 Copynumber: 10.4 Consensus size: 88
15395443 TCGCATCTAG
* *
15395453 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCT-CTTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA-TAATCAAGTCTTATCCTCCTTGAAGTTGC
* *
15395517 AGT-GAGGCAGACTGAAG-ATGACAAA
65 AGTGGA-GCAGACTCAAGAAAG-C-AA
* * * * ** * *
15395542 TCTTATCTCTCTGAGGTTACAGTGGAGCAGATTAA-AGCCGACAATCTTAT-CTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATAATC-A-AGTCTTATCCTCCTTGAAGTTG
* *
15395605 CAGTGGAGCGGA-TTAA-AATCA-CAGA
64 CAGTGGAGCAGACTCAAGAA--AGCA-A
* * * ** * * *
15395630 TCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-TCGT-ATCTAGTCTTAT-CTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATAATCAAGTCTTATCCTCCTTGAAGTTGCA
* *
15395691 ATGGAGCAGACT-AAGCAAGCAA
66 GTGGAGCAGACTCAAGAAAGCAA
* * * * *
15395713 GTCTTGTC-CTCCTGAGGTTGCAGT-GAGGCAGACTGAA-GATGGCAAATCTTAT-CTCCCTGAA
1 -TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AATAAT--CAAGTCTTATCCTCCTTGAA
** * ** *
15395774 GTTGCAGTGGAGCAGGTTAAAG-TCGATAA
60 GTTGCAGTGGAGCAGACTCAAGAAAG-CAA
* * ** * * *
15395803 TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAA-AACCTTGAA-TCTTAT-CT-ATCTGAAGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATAA---TCAAGTCTTATCCTCCT-TGAAGT
* * *
15395864 TGCAG-AGAGCAGA-TC--G-CATCAA
62 TGCAGTGGAGCAGACTCAAGAAAGCAA
* * * * * *
15395886 GTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGTTAAATCTTAT-CTCCCTGAAT
1 -TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AATA-ATCAAGTCTTATCCTCCTTGAAG
* * ** *
15395948 TTGCAGTGGAGCA-AGTTAA-AGCCGATAA
61 TTGCAGTGGAGCAGACTCAAGA-AAG-CAA
* * * ** * * *
15395976 TCCTATCTTCCTGAAGTTGTAGTGGAGTGGATTAA-AACCTTAGATCTTAT-CT-CTCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATAATC-AAG-TCTTATCCTCCT-TGAAGTT
* * * *
15396038 GCAG-AGAGCAGA-TC--G-CATCTAG
63 GCAGTGGAGCAGACTCAAGAAAGC-AA
15396060 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAGTCTTATCCTCC-TGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA-TAATCAAGTCTTATCCTCCTTGAAGTTGC
* **
15396124 AGT-GAGGCAGACTGAAGATGGCGAA
65 AGTGGA-GCAGACTCAAGAAAGC-AA
* * * * * *
15396149 TCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAACAAATCCT-GCCTCCTTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AATAATCAAGTCTTATCCTCCTTGAAGTTGC
*
15396213 AGTGGAGCAGA-TTAA-AACCA-CAGA
65 AGTGGAGCAGACTCAAGAA--AGCA-A
* * * * * *
15396237 TCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCA-CATCAAGTCTTAT-CTCCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATAATCAAGTCTTATCCTCCTTGAAGTTGCA
15396299 GTGGAGCAGACTCAAGAAAGCAAA
66 GTGGAGCAGACTCAAGAAAGC-AA
* * * * *
15396323 CCTTATCCCCCTGAAATTGCAGTGGGGCATACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
15396358 ATAAACAAAT
Statistics
Matches: 603, Mismatches: 139, Indels: 150
0.68 0.16 0.17
Matches are distributed among these distances:
83 7 0.01
84 130 0.22
85 69 0.11
86 44 0.07
87 34 0.06
88 108 0.18
89 193 0.32
90 17 0.03
91 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATAATCAAGTCTTATCCTCCTTGAAGTTGCA
GTGGAGCAGACTCAAGAAAGCAA
Found at i:15396743 original size:17 final size:17
Alignment explanation
Indices: 15396691--15396743 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
15396681 TATGGAAACA
* *
15396691 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
*
15396708 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
15396727 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
15396744 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:15396743 original size:22 final size:23
Alignment explanation
Indices: 15396715--15396759 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
15396705 ATGCAATCTT
15396715 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
15396737 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
15396760 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:15396769 original size:22 final size:23
Alignment explanation
Indices: 15396725--15396769 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15396715 AGATATGATA
*
15396725 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
15396748 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
15396770 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:15396965 original size:19 final size:22
Alignment explanation
Indices: 15396940--15396980 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
15396930 TGGCTTACTG
*
15396940 TTTTTTTTCTT-TTT-CGATTA
1 TTTTTTTACTTATTTACGATTA
15396960 TTTTTTTACTTATTTACGATT
1 TTTTTTTACTTATTTACGATT
15396981 TTAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.71
Consensus pattern (22 bp):
TTTTTTTACTTATTTACGATTA
Found at i:15397254 original size:23 final size:23
Alignment explanation
Indices: 15397228--15397358 Score: 89
Period size: 23 Copynumber: 5.8 Consensus size: 23
15397218 CTATATATAC
*
15397228 ATATGCATTTTTTTTATAATAAT
1 ATATGCATTTTTTATATAATAAT
*
15397251 ATATACGCA-TTTTTATAT-ATAGT
1 ATAT--GCATTTTTTATATAATAAT
* *
15397274 ATGCAGGC-GTTTTTATATAAT-AT
1 AT--ATGCATTTTTTATATAATAAT
*
15397297 ATATGCATTTTTT-TAT-ATAGT
1 ATATGCATTTTTTATATAATAAT
*
15397318 ATGCACGCATTTTTTATATAAT-AT
1 AT--ATGCATTTTTTATATAATAAT
*
15397342 ATATGC-TTTTTTTTATA
1 ATATGCATTTTTTATATA
15397359 GTATACGTCT
Statistics
Matches: 85, Mismatches: 11, Indels: 26
0.70 0.09 0.21
Matches are distributed among these distances:
20 2 0.02
21 19 0.22
22 8 0.09
23 34 0.40
24 16 0.19
25 6 0.07
ACGTcount: A:0.31, C:0.08, G:0.09, T:0.52
Consensus pattern (23 bp):
ATATGCATTTTTTATATAATAAT
Found at i:15397277 original size:44 final size:44
Alignment explanation
Indices: 15397237--15397362 Score: 168
Period size: 44 Copynumber: 2.9 Consensus size: 44
15397227 CATATGCATT
*
15397237 TTTTTTATAATAATATATACGCATTTTTATATATAGTATGCAGGC-
1 TTTTTTAT-ATAATATATATGCATTTTTATATATAGTATGCA-GCA
* *
15397282 GTTTTTATATAATATATATGCATTTTTTTATATAGTATGCACGCA
1 TTTTTTATATAATATATATGCATTTTTATATATAGTATGCA-GCA
*
15397327 TTTTTTATATAATATATATGC-TTTTT-TTTATAGTAT
1 TTTTTTATATAATATATATGCATTTTTATATATAGTAT
15397363 ACGTCTACCT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
43 9 0.12
44 38 0.51
45 27 0.36
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (44 bp):
TTTTTTATATAATATATATGCATTTTTATATATAGTATGCAGCA
Found at i:15397600 original size:32 final size:33
Alignment explanation
Indices: 15397554--15397615 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
15397544 ATGATTTACC
* * *
15397554 AATATATACTTATAC-ATCTTTTTTATTTTGTA
1 AATATATACATATACAAACTTTTCTATTTTGTA
15397586 AATATATACATATACAAACTTTTCTATTTT
1 AATATATACATATACAAACTTTTCTATTTT
15397616 TATCTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.52
Consensus pattern (33 bp):
AATATATACATATACAAACTTTTCTATTTTGTA
Found at i:15397854 original size:19 final size:20
Alignment explanation
Indices: 15397813--15397854 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
15397803 ATTTCTATGC
* *
15397813 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
15397833 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
15397852 CAT
1 CAT
15397855 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:15398853 original size:20 final size:20
Alignment explanation
Indices: 15398816--15398853 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15398806 ATTATTTTTA
*
15398816 AAAATCTATGTAATAATTGT
1 AAAATCTATATAATAATTGT
15398836 AAAATCTAATATAA-AATT
1 AAAATCT-ATATAATAATT
15398854 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAATCTATATAATAATTGT
Found at i:15399865 original size:11 final size:12
Alignment explanation
Indices: 15399851--15399902 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 12
15399841 TTAAATATAG
15399851 ATTTGAGA-GAA
1 ATTTGAGAGGAA
15399862 ATTTG-GAAGGAA
1 ATTTGAG-AGGAA
*
15399874 A-TTGAGA-GCA
1 ATTTGAGAGGAA
15399884 ATTTGAGAGGAA
1 ATTTGAGAGGAA
15399896 A-TTGAGA
1 ATTTGAGA
15399903 AATGATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
10 4 0.12
11 22 0.65
12 8 0.24
ACGTcount: A:0.42, C:0.02, G:0.31, T:0.25
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:15399878 original size:22 final size:22
Alignment explanation
Indices: 15399853--15399902 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
15399843 AAATATAGAT
15399853 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
*
15399875 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
15399897 TTGAGA
1 TTGAGA
15399903 AATGATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.32, T:0.24
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:15401443 original size:32 final size:32
Alignment explanation
Indices: 15401397--15401468 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
15401387 ATTTAAACCT
* * *
15401397 TTCATGTATTATTATATTAAATTATTTAAATA
1 TTCATTTATAATTATATTAAATCATTTAAATA
15401429 TTCATTTATAATTATATTAAATCATTTAAATA
1 TTCATTTATAATTATATTAAATCATTTAAATA
15401461 TT-ATTTAT
1 TTCATTTAT
15401469 TATATTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
31 6 0.16
32 31 0.84
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.54
Consensus pattern (32 bp):
TTCATTTATAATTATATTAAATCATTTAAATA
Found at i:15401487 original size:28 final size:26
Alignment explanation
Indices: 15401405--15401537 Score: 85
Period size: 28 Copynumber: 4.7 Consensus size: 26
15401395 CTTTCATGTA
15401405 TTATTATATTAAATTATTTAAATATTCATTT
1 TTATTATATTAAA-T-TTTAAA-A-T-ATTT
*
15401436 ATAATTATATTAAATCATTT-AAATATTAT
1 -TTATTATATTAAAT--TTTAAAATATT-T
15401465 TTATTATATTAAAATTTTAAAATA-TT
1 TTATTATATT-AAATTTTAAAATATTT
15401491 TTATATATCATT-AATTTTACAAATAATTT
1 TTAT-TAT-ATTAAATTTTA-AAAT-ATTT
*
15401520 ATATTA-ATTAAAATTTTA
1 TTATTATATT-AAATTTTA
15401538 TTTCATATGT
Statistics
Matches: 87, Mismatches: 3, Indels: 26
0.75 0.03 0.22
Matches are distributed among these distances:
26 15 0.17
27 11 0.13
28 30 0.34
29 11 0.13
30 1 0.01
31 3 0.03
32 16 0.18
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (26 bp):
TTATTATATTAAATTTTAAAATATTT
Found at i:15401569 original size:54 final size:54
Alignment explanation
Indices: 15401437--15401569 Score: 121
Period size: 54 Copynumber: 2.4 Consensus size: 54
15401427 TATTCATTTA
* * *
15401437 TAATTATATTAAATCATTTAAAT-ATTATTTATTATATTAAAATTTTAAAATATT
1 TAATTATATT-AATTATTTAAATAATTATATATTATATTAAAATTTTAAAATATG
* * **
15401491 TTATATATCATTAATT-TTACAAATAATT-TATATTA-ATTAAAATTTTATTTCATATG
1 TAAT-TAT-ATTAATTATT-TAAATAATTATATATTATATTAAAATTTTA--AAATATG
15401547 TAATTATATTAATTATTTAAATA
1 TAATTATATTAATTATTTAAATA
15401570 TCATATAACT
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
54 29 0.46
55 21 0.33
56 13 0.21
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (54 bp):
TAATTATATTAATTATTTAAATAATTATATATTATATTAAAATTTTAAAATATG
Found at i:15408181 original size:20 final size:20
Alignment explanation
Indices: 15408156--15408199 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15408146 TTGTACGGGA
* *
15408156 TTTGCAATTCGGTGCCTCTG
1 TTTGCAATACGGTGCCCCTG
*
15408176 TTTGCACTACGGTGCCCCTG
1 TTTGCAATACGGTGCCCCTG
15408196 TTTG
1 TTTG
15408200 TACATTTGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.27, G:0.25, T:0.39
Consensus pattern (20 bp):
TTTGCAATACGGTGCCCCTG
Found at i:15411336 original size:38 final size:37
Alignment explanation
Indices: 15411251--15411336 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
15411241 TTTTCCTTTG
*
15411251 GATGTTCCGATGAGTGCTAGGAACAACCTTTACTTCG
1 GATGTTCCGATGAGTGCTAGGAACAACCTTTACTTCA
* * * * ** *
15411288 GTTGTACCGATGAGTGTTGGGCGCAATCTTTTACTTCA
1 GATGTTCCGATGAGTGCTAGGAACAA-CCTTTACTTCA
15411326 GATGTTCCGAT
1 GATGTTCCGAT
15411337 TAGGCACTGA
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
37 20 0.53
38 18 0.47
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (37 bp):
GATGTTCCGATGAGTGCTAGGAACAACCTTTACTTCA
Found at i:15423874 original size:22 final size:23
Alignment explanation
Indices: 15423849--15423893 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
15423839 GATTTGAAGA
*
15423849 TGAAGTTAAATCT-AAATTTTTC
1 TGAAGATAAATCTGAAATTTTTC
15423871 TGAAGATAAATCTGAAATTTTTC
1 TGAAGATAAATCTGAAATTTTTC
15423894 CTATCCTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (23 bp):
TGAAGATAAATCTGAAATTTTTC
Found at i:15427228 original size:123 final size:123
Alignment explanation
Indices: 15427009--15427254 Score: 492
Period size: 123 Copynumber: 2.0 Consensus size: 123
15426999 AGTGCTTTAG
15427009 TAAGAAAATTAGCAATCTGTCATTTTCTAAGAATATAGTTGAGTTGGACAATGTTGTTATTAACC
1 TAAGAAAATTAGCAATCTGTCATTTTCTAAGAATATAGTTGAGTTGGACAATGTTGTTATTAACC
15427074 TTCTCTGAAATGAAGTGTCAATCAATTTCACTGCGTTTTGTCCTGTCATGGTGTACAA
66 TTCTCTGAAATGAAGTGTCAATCAATTTCACTGCGTTTTGTCCTGTCATGGTGTACAA
15427132 TAAGAAAATTAGCAATCTGTCATTTTCTAAGAATATAGTTGAGTTGGACAATGTTGTTATTAACC
1 TAAGAAAATTAGCAATCTGTCATTTTCTAAGAATATAGTTGAGTTGGACAATGTTGTTATTAACC
15427197 TTCTCTGAAATGAAGTGTCAATCAATTTCACTGCGTTTTGTCCTGTCATGGTGTACAA
66 TTCTCTGAAATGAAGTGTCAATCAATTTCACTGCGTTTTGTCCTGTCATGGTGTACAA
15427255 GATTTTTAGC
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 123 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (123 bp):
TAAGAAAATTAGCAATCTGTCATTTTCTAAGAATATAGTTGAGTTGGACAATGTTGTTATTAACC
TTCTCTGAAATGAAGTGTCAATCAATTTCACTGCGTTTTGTCCTGTCATGGTGTACAA
Found at i:15431479 original size:38 final size:38
Alignment explanation
Indices: 15431428--15431507 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
15431418 TTTTCTAAAG
* *
15431428 ATAAATCTGAAATTACTTACAAATATCCACATACTTGT
1 ATAAATATGAAATTACTTACAAATATCCACATACCTGT
*
15431466 ATAAATATGAAATTACTTACAAATATTCACATACCTGT
1 ATAAATATGAAATTACTTACAAATATCCACATACCTGT
15431504 ATAA
1 ATAA
15431508 GGTTATGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (38 bp):
ATAAATATGAAATTACTTACAAATATCCACATACCTGT
Found at i:15436660 original size:4 final size:4
Alignment explanation
Indices: 15436651--15436677 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15436641 GTAGAGAGAC
15436651 TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAA
15436678 AATTTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:15441318 original size:3 final size:3
Alignment explanation
Indices: 15441310--15441356 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
15441300 TTTATAATGC
* **
15441310 TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TCC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
15441357 ATATAGGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:15443406 original size:124 final size:124
Alignment explanation
Indices: 15443186--15443531 Score: 620
Period size: 124 Copynumber: 2.8 Consensus size: 124
15443176 TTATTTCGAG
* * *
15443186 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGTTATCTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
15443251 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
*
15443310 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTATACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
15443375 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
15443434 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
15443499 AAATCGCGCCCTCGTGTATGCGATTTTGCTACA
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACA
15443532 ATAGCAAGTT
Statistics
Matches: 212, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
124 212 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:15447588 original size:19 final size:19
Alignment explanation
Indices: 15447535--15447591 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
15447525 TCATCTTTCA
15447535 ATAAAAATATATA-AGAATTT
1 ATAAAAATATATATA-AA-TT
* *
15447555 ATAATAATACATATAAATT
1 ATAAAAATATATATAAATT
*
15447574 ATAAAAATATTTATAAAT
1 ATAAAAATATATATAAAT
15447592 AAATGAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 17 0.55
20 13 0.42
21 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAAAATATATATAAATT
Found at i:15448373 original size:6 final size:6
Alignment explanation
Indices: 15448362--15448391 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
15448352 TTGTCAAATT
15448362 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
15448392 ATAAACATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:15452369 original size:21 final size:22
Alignment explanation
Indices: 15452336--15452376 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15452326 TATATATATA
*
15452336 TTTACATTATTTTATTATGTTT
1 TTTACATTATTTTATCATGTTT
*
15452358 TTTA-ATTCTTTTATCATGT
1 TTTACATTATTTTATCATGT
15452377 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTACATTATTTTATCATGTTT
Found at i:15456693 original size:27 final size:27
Alignment explanation
Indices: 15456653--15456708 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
15456643 AGGAAGGTTG
*
15456653 CACAGTCGGTTCGTTAACTTACTTCGT
1 CACAGTCGGCTCGTTAACTTACTTCGT
15456680 CACAGTCGGCTCGTTAACTTACTTCGT
1 CACAGTCGGCTCGTTAACTTACTTCGT
15456707 CA
1 CA
15456709 GTAGTTGTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.34
Consensus pattern (27 bp):
CACAGTCGGCTCGTTAACTTACTTCGT
Found at i:15460832 original size:3 final size:3
Alignment explanation
Indices: 15460826--15460873 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
15460816 AAAGAAGACT
15460826 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
15460874 GACTATAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:15461681 original size:12 final size:12
Alignment explanation
Indices: 15461664--15461696 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
15461654 GTTTAGTTTG
15461664 ATTAAATAAATT
1 ATTAAATAAATT
15461676 ATTAAA-AAATT
1 ATTAAATAAATT
*
15461687 ATAAAATAAA
1 ATTAAATAAA
15461697 AAATACCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATTAAATAAATT
Done.