Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 80 of 117
Found at i:14369627 original size:22 final size:23
Alignment explanation
Indices: 14369578--14369627 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
14369568 ACAAATAAAT
*
14369578 TAAAGTGGCCCAAAATTTAAAAG
1 TAAATTGGCCCAAAATTTAAAAG
*
14369601 GAAATTGGCCC-AAATTTGAAAA-
1 TAAATTGGCCCAAAATTT-AAAAG
14369623 TAAAT
1 TAAAT
14369628 CAGGCTCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (23 bp):
TAAATTGGCCCAAAATTTAAAAG
Found at i:14371340 original size:10 final size:10
Alignment explanation
Indices: 14371325--14371356 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
14371315 CTTCTCTCTC
14371325 TCCTTCGGCT
1 TCCTTCGGCT
14371335 TCCTTCGGCT
1 TCCTTCGGCT
14371345 TCCTTCGGCT
1 TCCTTCGGCT
14371355 TC
1 TC
14371357 TACAAAGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.00, C:0.41, G:0.19, T:0.41
Consensus pattern (10 bp):
TCCTTCGGCT
Found at i:14377160 original size:2 final size:2
Alignment explanation
Indices: 14377153--14377180 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14377143 GAAAAGTAAC
14377153 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14377181 TAGGCAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14377552 original size:169 final size:170
Alignment explanation
Indices: 14377377--14377693 Score: 381
Period size: 169 Copynumber: 1.9 Consensus size: 170
14377367 ACTCAAATTG
* * * * **
14377377 GATTTTGAAAATTATTTTTTTAGTTCAAACTTATTTTGACTCGA-TTTGTAATATTATAATATTA
1 GATTTTGAAAATGATTGTTTTAGTTCAAACTTAATTTGA-TCGAGTCTAAAATATTATAATATTA
** * **
14377441 ATAAAAATATATTT-A-TTGAATTTTAA-TTATACTAATTTTAAAATATTAATATTAAAAGTCTT
65 ATAAAAATAT-TTTAATTTGAATTGGAATTTATA-AAATACTAAAATATTAATATTAAAAGTCTT
*
14377503 CTAATATTTTAATTTTAAATACTTTATAATTCTATTCAAGCAA
128 CTAATATTATAATTTTAAATACTTTATAATTCTATTCAAGCAA
* * * * *
14377546 GATTTTGGACATGATTGTTTTAGTTCAGACTTAATTTGATCTAGTCTAAAATATTATTATATTAA
1 GATTTTGAAAATGATTGTTTTAGTTCAAACTTAATTTGATCGAGTCTAAAATATTATAATATTAA
* * * * *
14377611 TAAAAATATTTTAATTTTAATTGGAATTTTTAAAATACTAAAATATTAATATTATAATTTTTCTA
66 TAAAAATATTTTAATTTGAATTGGAATTTATAAAATACTAAAATATTAATATTAAAAGTCTTCTA
14377676 ATATTATAATTTTAAATA
131 ATATTATAATTTTAAATA
14377694 TTGTATTTTG
Statistics
Matches: 122, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
168 6 0.05
169 60 0.49
170 52 0.43
171 4 0.03
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (170 bp):
GATTTTGAAAATGATTGTTTTAGTTCAAACTTAATTTGATCGAGTCTAAAATATTATAATATTAA
TAAAAATATTTTAATTTGAATTGGAATTTATAAAATACTAAAATATTAATATTAAAAGTCTTCTA
ATATTATAATTTTAAATACTTTATAATTCTATTCAAGCAA
Found at i:14377978 original size:20 final size:20
Alignment explanation
Indices: 14377955--14378003 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
14377945 TACTAATTTT
* **
14377955 AATATTATTGTATTAATAGA
1 AATAATATTGTAAGAATAGA
*
14377975 AATAATATTTTAAGAATAGA
1 AATAATATTGTAAGAATAGA
14377995 AATAATATT
1 AATAATATT
14378004 TAAAATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (20 bp):
AATAATATTGTAAGAATAGA
Found at i:14378084 original size:30 final size:31
Alignment explanation
Indices: 14378050--14378120 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 31
14378040 TAATTTTATC
14378050 TATTGACAAAG-CTCCAAGTTGTAAAATTTA
1 TATTGACAAAGACTCCAAGTTGTAAAATTTA
* * *
14378080 TATTGAC-AAGATTTCAAGTTGTATAATTTA
1 TATTGACAAAGACTCCAAGTTGTAAAATTTA
*
14378110 TATTAACAAAG
1 TATTGACAAAG
14378121 TTCTAATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.09
30 29 0.83
31 3 0.09
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.37
Consensus pattern (31 bp):
TATTGACAAAGACTCCAAGTTGTAAAATTTA
Found at i:14379759 original size:26 final size:26
Alignment explanation
Indices: 14379705--14379757 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
14379695 GTATTTTCCT
14379705 AATTTTGAAAACAAAACAAAAATAAA
1 AATTTTGAAAACAAAACAAAAATAAA
*
14379731 AATTTTGTAAAA-AAAA-AAATATAAA
1 AATTTTG-AAAACAAAACAAAAATAAA
14379756 AA
1 AA
14379758 ATCTCAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 10 0.40
26 11 0.44
27 4 0.16
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (26 bp):
AATTTTGAAAACAAAACAAAAATAAA
Found at i:14380077 original size:15 final size:15
Alignment explanation
Indices: 14380057--14380090 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14380047 TAATATGAAT
14380057 TTAATTTGAAA-CAAA
1 TTAATTT-AAATCAAA
14380072 TTAATTTAAATCAAA
1 TTAATTTAAATCAAA
14380087 TTAA
1 TTAA
14380091 AATATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
TTAATTTAAATCAAA
Found at i:14382279 original size:15 final size:14
Alignment explanation
Indices: 14382259--14382288 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
14382249 GAAGTATTTT
14382259 AAAATGTAGCAATTC
1 AAAATGTAGC-ATTC
14382274 AAAATGTAGCATTC
1 AAAATGTAGCATTC
14382288 A
1 A
14382289 TAATTGCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (14 bp):
AAAATGTAGCATTC
Found at i:14382663 original size:16 final size:16
Alignment explanation
Indices: 14382642--14382675 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14382632 AAACCCCTGC
* *
14382642 AATTAATTTTATTTAT
1 AATTAAATTTATCTAT
14382658 AATTAAATTTATCTAT
1 AATTAAATTTATCTAT
14382674 AA
1 AA
14382676 AACAAAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTAAATTTATCTAT
Found at i:14386559 original size:21 final size:23
Alignment explanation
Indices: 14386533--14386587 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
14386523 GTATAAACAC
14386533 ATATATAAAGTAT-ATC-ATAAT
1 ATATATAAAGTATAATCTATAAT
*
14386554 ATATATTATAAATATAATCTATAAT
1 ATATA-TA-AAGTATAATCTATAAT
14386579 ATATA-AAAG
1 ATATATAAAG
14386588 CACACATGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
21 5 0.18
22 4 0.14
23 6 0.21
24 3 0.11
25 10 0.36
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (23 bp):
ATATATAAAGTATAATCTATAAT
Found at i:14386583 original size:25 final size:24
Alignment explanation
Indices: 14386536--14386583 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
14386526 TAAACACATA
14386536 TATAAAGTATATCATAATATATAT
1 TATAAAGTATATCATAATATATAT
14386560 TATAAA-TATAATCTATAATATATA
1 TATAAAGTAT-ATC-ATAATATATA
14386584 AAAGCACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.14
24 9 0.41
25 10 0.45
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (24 bp):
TATAAAGTATATCATAATATATAT
Found at i:14391130 original size:19 final size:20
Alignment explanation
Indices: 14391095--14391132 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14391085 AATTCAGCTC
14391095 AATTTAGCCATCTAAAATTG
1 AATTTAGCCATCTAAAATTG
*
14391115 AATTTGGCCA-CTAAAATT
1 AATTTAGCCATCTAAAATT
14391133 CTTCTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (20 bp):
AATTTAGCCATCTAAAATTG
Found at i:14397738 original size:14 final size:14
Alignment explanation
Indices: 14397719--14397789 Score: 74
Period size: 14 Copynumber: 4.9 Consensus size: 14
14397709 AAACCTTATT
14397719 AAATAATATATAA-A
1 AAATAATA-ATAATA
*
14397733 AAATAA-AATAACA
1 AAATAATAATAATA
14397746 ATAAGTAAATAATAATA
1 A-AA-T-AATAATAATA
14397763 ATAATAATAATAATA
1 A-AATAATAATAATA
14397778 AAATAATAATAA
1 AAATAATAATAA
14397790 GGATGAAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
12 4 0.08
13 3 0.06
14 19 0.37
15 12 0.24
16 3 0.06
17 10 0.20
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:14397761 original size:3 final size:3
Alignment explanation
Indices: 14397720--14397789 Score: 76
Period size: 3 Copynumber: 23.7 Consensus size: 3
14397710 AACCTTATTA
*
14397720 AAT AAT ATAT AA- AA- AAT AA- AAT AAC AAT AAGT AAAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA-T -AAT AAT AAT AAT
14397765 AAT AAT AAT AAT AA- AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
14397790 GGATGAAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
2 8 0.14
3 44 0.75
4 5 0.08
5 2 0.03
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:14397781 original size:26 final size:25
Alignment explanation
Indices: 14397734--14397789 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
14397724 ATATATAAAA
14397734 AATAAAATAACAATAAGTAAATAAT
1 AATAAAATAACAATAAGTAAATAAT
*
14397759 AATAATAATAATAATAA-TAAAATAAT
1 AATAA-AATAACAATAAGT-AAATAAT
14397785 AATAA
1 AATAA
14397790 GGATGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
AATAAAATAACAATAAGTAAATAAT
Found at i:14397897 original size:11 final size:11
Alignment explanation
Indices: 14397881--14397909 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
14397871 AATAATTACC
14397881 AAAAAATGCTA
1 AAAAAATGCTA
14397892 AAAAAAT-CTA
1 AAAAAATGCTA
14397902 AAAAAATG
1 AAAAAATG
14397910 ATAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.17
Consensus pattern (11 bp):
AAAAAATGCTA
Found at i:14398224 original size:30 final size:27
Alignment explanation
Indices: 14398190--14398261 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 27
14398180 TTCTTTAAAC
*
14398190 CCTAAAACTAAGACCCTAAACCTTTTGAA
1 CCTAAAACTAA-ACACTAAACCTTTT-AA
*
14398219 TCCTAAAATTGAAACACTAAACCTTTTAA
1 -CCTAAAACT-AAACACTAAACCTTTTAA
14398248 CCTTAAAACTAAAC
1 CC-TAAAACTAAAC
14398262 CTTTTAACCC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 6 0.16
29 8 0.22
30 21 0.57
31 2 0.05
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.26
Consensus pattern (27 bp):
CCTAAAACTAAACACTAAACCTTTTAA
Found at i:14405394 original size:22 final size:21
Alignment explanation
Indices: 14405364--14405404 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14405354 GATGGCAATA
*
14405364 ACATGAAAATAAAGAAAAAAAC
1 ACAT-AAAAAAAAGAAAAAAAC
*
14405386 ACATAAAAAAATGAAAAAA
1 ACATAAAAAAAAGAAAAAA
14405405 GAAGCTTGTG
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:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (21 bp):
ACATAAAAAAAAGAAAAAAAC
Found at i:14407181 original size:26 final size:27
Alignment explanation
Indices: 14407152--14407222 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 27
14407142 GGACATTTGT
* *
14407152 ATTTGCATGTGCATCATGGA-AAAGAC
1 ATTTACATTTGCATCATGGAGAAAGAC
* * *
14407178 ATTTTCATTTGCACCAT-AAGAAAGAC
1 ATTTACATTTGCATCATGGAGAAAGAC
*
14407204 ATTTACATTTGCATTATGG
1 ATTTACATTTGCATCATGG
14407223 CATATGCATC
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
25 1 0.03
26 34 0.97
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (27 bp):
ATTTACATTTGCATCATGGAGAAAGAC
Found at i:14407353 original size:18 final size:18
Alignment explanation
Indices: 14407330--14407377 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
14407320 ATTCACATTC
*
14407330 TTGCATTCGCATTGACAT
1 TTGCATTCACATTGACAT
*
14407348 TTGCATTCACGTTGACAT
1 TTGCATTCACATTGACAT
14407366 TTGCATTCACAT
1 TTGCATTCACAT
14407378 CATTTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (18 bp):
TTGCATTCACATTGACAT
Found at i:14407925 original size:128 final size:128
Alignment explanation
Indices: 14407691--14407926 Score: 278
Period size: 128 Copynumber: 1.8 Consensus size: 128
14407681 TTTAAGATTT
* * * ** * * *
14407691 CAAAACATTTTAAATTTTCAAAGTTTCAATGCTTTTAATGTATGAGGAGCATTTAAAGATTTTGA
1 CAAAACATTTTAAAATTTCAAAGTTTCAAAGCCTCGAATATATGAGAAGCATTCAAAGATTTTGA
** * *
14407756 AATCTCTAAGACCTCTGGGCGTAATCCTTAAAACCTCTGGGCACAATTTTTAAAACCTTCGAG
66 AATCTCTAAGACCTCTAAGCATAATCCTTAAAACCTATGGGCACAATTTTTAAAACCTTCGAG
* *
14407819 CAAAACATTTTAAAATTTCAAAGTTTCAAAGCCTCGAGTATATTAGAAGCATTCAAAGATTTTGA
1 CAAAACATTTTAAAATTTCAAAGTTTCAAAGCCTCGAATATATGAGAAGCATTCAAAGATTTTGA
* * * *
14407884 GATTTGTAAGACCT-TCAAGCATAAT-CTCTAAGACCTATGGGCA
66 AATCTCTAAGACCTCT-AAGCATAATCCT-TAAAACCTATGGGCA
14407927 AAACATTTTA
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
127 3 0.03
128 85 0.97
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (128 bp):
CAAAACATTTTAAAATTTCAAAGTTTCAAAGCCTCGAATATATGAGAAGCATTCAAAGATTTTGA
AATCTCTAAGACCTCTAAGCATAATCCTTAAAACCTATGGGCACAATTTTTAAAACCTTCGAG
Found at i:14410556 original size:16 final size:15
Alignment explanation
Indices: 14410474--14410556 Score: 55
Period size: 15 Copynumber: 5.4 Consensus size: 15
14410464 AAAATCTAAG
14410474 CCCTAAAATCCTATAAA
1 CCCTAAAATCC-A-AAA
*
14410491 CCCTAAAAACCTTAAAA
1 CCCTAAAATCC--AAAA
*
14410508 --CTCAAA-CCAAAA
1 CCCTAAAATCCAAAA
*
14410520 TCCTAAAATCCAAAA
1 CCCTAAAATCCAAAA
* *
14410535 CTCTAAAATCTAGAAA
1 CCCTAAAATCCA-AAA
14410551 CCCTAA
1 CCCTAA
14410557 TCTTAAAACC
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
12 4 0.07
14 7 0.13
15 20 0.37
16 8 0.15
17 13 0.24
18 2 0.04
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (15 bp):
CCCTAAAATCCAAAA
Found at i:14418683 original size:30 final size:30
Alignment explanation
Indices: 14418649--14418708 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
14418639 AATTTTTAAT
14418649 AAAAGAAAAGTATTTTAGAAAAATAATCTC
1 AAAAGAAAAGTATTTTAGAAAAATAATCTC
*
14418679 AAAAGAAAAGTATTTTAGAAAAATTATCTC
1 AAAAGAAAAGTATTTTAGAAAAATAATCTC
14418709 TTTTATGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (30 bp):
AAAAGAAAAGTATTTTAGAAAAATAATCTC
Found at i:14419325 original size:32 final size:31
Alignment explanation
Indices: 14419235--14419344 Score: 94
Period size: 32 Copynumber: 3.5 Consensus size: 31
14419225 GCATCACTCG
* *
14419235 CATTTGCACTTGCATGTGCATTATGAGAAAAA
1 CATTTGCATTTGCATGTGCATAATGA-AAAAA
** * * * * *
14419267 CATTCACATTCGTATTTACATAATGAAACGAA
1 CATTTGCATTTGCATGTGCATAATGAAA-AAA
*
14419299 CATTTGCATTTGCATGTGCATCATGAAAAAGA
1 CATTTGCATTTGCATGTGCATAATGAAAAA-A
*
14419331 CATTTGTATTTGCA
1 CATTTGCATTTGCA
14419345 CCATAAATAA
Statistics
Matches: 58, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
31 3 0.05
32 55 0.95
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (31 bp):
CATTTGCATTTGCATGTGCATAATGAAAAAA
Found at i:14419334 original size:26 final size:27
Alignment explanation
Indices: 14419305--14419375 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 27
14419295 CGAACATTTG
*
14419305 CATTTGCATGTGCATCATGAAA-AAGA
1 CATTTGCATTTGCATCATGAAATAAGA
* *
14419331 CATTTGTATTTGCACCAT-AAATAAGA
1 CATTTGCATTTGCATCATGAAATAAGA
*
14419357 TATTTGCATTTGCATCATG
1 CATTTGCATTTGCATCATG
14419376 GCATATGCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 3 0.08
26 34 0.92
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (27 bp):
CATTTGCATTTGCATCATGAAATAAGA
Found at i:14420079 original size:106 final size:105
Alignment explanation
Indices: 14419841--14420130 Score: 307
Period size: 105 Copynumber: 2.8 Consensus size: 105
14419831 TTTAAGACTT
* **
14419841 CAAAACATTTTAAAATTTCAACGTTTCAACACCTCTAATGTAT-AAGAAGCATTCAAAGATTTTG
1 CAAAACATTTT-AAATTTCAAAGTTTCAATGCCTCTAATGTATGAAGAAGCATTCAAAGATTTTG
* * * * * * *
14419905 AAATCTCTAAGACCTTCGAGCACGATCTTTAATACTTTTGG
65 AGATTTGTAAGACCTTCGAGCACAATCTCTAAGACTTTAGG
* * * * * *
14419946 GAAAATATTTTAAATTTTTAAAGTTTCAATGCTTTTAATATATGAAG-AGCATTCAAAGATTTTG
1 CAAAACATTTTAAA-TTTCAAAGTTTCAATGCCTCTAATGTATGAAGAAGCATTCAAAGATTTTG
* * * *
14420010 AGATTTGTAAGTCTTTCGGGCATAATCTCTAAGACCTTTAGG
65 AGATTTGTAAGACCTTCGAGCACAATCTCTAAGA-CTTTAGG
* * *
14420052 CAAAACATTTTAAATTTCCAAAGTTTCAATGCCTCTAATGTGTG-AGAAACATTCAAAGATTTCG
1 CAAAACATTTTAAATTT-CAAAGTTTCAATGCCTCTAATGTATGAAGAAGCATTCAAAGATTTTG
*
14420116 AGATTTGTAAAACCT
65 AGATTTGTAAGACCT
14420131 CTAGGCATGA
Statistics
Matches: 148, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
104 3 0.02
105 76 0.51
106 69 0.47
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (105 bp):
CAAAACATTTTAAATTTCAAAGTTTCAATGCCTCTAATGTATGAAGAAGCATTCAAAGATTTTGA
GATTTGTAAGACCTTCGAGCACAATCTCTAAGACTTTAGG
Found at i:14420966 original size:22 final size:22
Alignment explanation
Indices: 14420905--14420961 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
14420895 TAGAAAGCAA
* * *
14420905 AAAAAAAAAAAAAAAT-ACTAG
1 AAAAAAATAAAAAAATCAATCG
14420926 AAAAAAATAAAAAAATCAATCG
1 AAAAAAATAAAAAAATCAATCG
14420948 AAAAAACATAAAAA
1 AAAAAA-ATAAAAA
14420962 CTCAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 15 0.48
22 9 0.29
23 7 0.23
ACGTcount: A:0.79, C:0.07, G:0.04, T:0.11
Consensus pattern (22 bp):
AAAAAAATAAAAAAATCAATCG
Found at i:14421805 original size:26 final size:25
Alignment explanation
Indices: 14421767--14421819 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
14421757 AACCTTATTA
*
14421767 AATAATATATAATAAATAA-AATAAC
1 AATAATAAATAAT-AATAACAATAAC
14421792 AATAACTAAATAATAATAACAATAAC
1 AATAA-TAAATAATAATAACAATAAC
14421818 AA
1 AA
14421820 GAATGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.25
Consensus pattern (25 bp):
AATAATAAATAATAATAACAATAAC
Found at i:14421811 original size:20 final size:19
Alignment explanation
Indices: 14421775--14421817 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
14421765 TAAATAATAT
14421775 ATAA-TAAATAAAATAACA
1 ATAACTAAATAAAATAACA
14421793 ATAACTAAATAATAATAACA
1 ATAACTAAATAA-AATAACA
14421813 ATAAC
1 ATAAC
14421818 AAGAATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 7 0.30
20 12 0.52
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.23
Consensus pattern (19 bp):
ATAACTAAATAAAATAACA
Found at i:14422085 original size:9 final size:9
Alignment explanation
Indices: 14422051--14422087 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
14422041 AAAATAGTAA
14422051 TAATAAAAT
1 TAATAAAAT
14422060 TAA-ATAAAT
1 TAATA-AAAT
14422069 TAAT-AAAT
1 TAATAAAAT
14422077 TAATAAAAT
1 TAATAAAAT
14422086 TA
1 TA
14422088 TTAATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 9 0.36
9 16 0.64
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TAATAAAAT
Found at i:14422461 original size:22 final size:23
Alignment explanation
Indices: 14422434--14422481 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
14422424 CTAAGCTCTA
*
14422434 AAACCCTATAAA-TCTTAAAAC-C
1 AAACCCTA-AAACCCTTAAAACTC
14422456 AAACCCTAAAACCCTTAAAACTC
1 AAACCCTAAAACCCTTAAAACTC
14422479 AAA
1 AAA
14422482 TCAAAACCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 3 0.13
22 16 0.70
23 4 0.17
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (23 bp):
AAACCCTAAAACCCTTAAAACTC
Found at i:14422489 original size:29 final size:30
Alignment explanation
Indices: 14422431--14422495 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
14422421 AATCTAAGCT
* * *
14422431 CTAAAACCCTATAAATCTTAAAACCAAACC
1 CTAAAACCCTATAAAACTCAAAACAAAACC
*
14422461 CTAAAACCCT-TAAAACTCAAATCAAAACC
1 CTAAAACCCTATAAAACTCAAAACAAAACC
14422490 CTAAAA
1 CTAAAA
14422496 TCCAAAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.18
Consensus pattern (30 bp):
CTAAAACCCTATAAAACTCAAAACAAAACC
Found at i:14424317 original size:24 final size:24
Alignment explanation
Indices: 14424262--14424318 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
14424252 TTAGTTTAGT
* * *
14424262 TTAATTTTAATTATTTGCATTTTAA
1 TTAA-TTTAATTACTAGCATTTGAA
* *
14424287 TTCATTTAATTACTAGCATTTGCA
1 TTAATTTAATTACTAGCATTTGAA
14424311 TTAATTTA
1 TTAATTTA
14424319 GGTTTGTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (24 bp):
TTAATTTAATTACTAGCATTTGAA
Found at i:14426802 original size:15 final size:15
Alignment explanation
Indices: 14426762--14426809 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
14426752 TATTCAATAC
*
14426762 AAGCATTCTTTTATTT
1 AAGCATTC-TTTCTTT
14426778 CAAG-ATTCTTTCTTT
1 -AAGCATTCTTTCTTT
*
14426793 AAGCATTCTTTCCTT
1 AAGCATTCTTTCTTT
14426808 AA
1 AA
14426810 CAAATTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 3 0.11
15 18 0.64
16 4 0.14
17 3 0.11
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (15 bp):
AAGCATTCTTTCTTT
Found at i:14429817 original size:429 final size:424
Alignment explanation
Indices: 14428921--14430193 Score: 1361
Period size: 430 Copynumber: 3.0 Consensus size: 424
14428911 TTTTGAATAG
* * * *
14428921 CTTTGATCATTTGGCTTTAAAAGGCCCTGAAAGT-ATGAAGTTGAAT-AAGAAGATGGATGAAAA
1 CTTTGATCATATGGCTTTAGAAGCCCCTGAAAGTGTTG-AGTTGAATGAAG-AGATGGATGAAAA
* *
14428984 TTTTGAAACAAAAAAAGATCTTGAGAAATATAAAAAGACCCTAAGGAATACATTGAGGAGAATTT
64 TTTTG--A-AATAAAAGATCTTGAGAAATATAAAAAGACCCTAAGGAATACATTGAAGAGAA-TT
* * * * ** *
14429049 TAGCTGAA-TAGGATGAAATGCTAATTCAAGTTAGAAGAGCATTTCTTTTAAGTATACAACTTGT
125 T-GGTTAAGAAGGATGAAATGCTAATTCAAGTTAGAAGAGCACTTCTTAAAAGTATACAACATGT
* * * * * *
14429113 TGAAAAGGAAG-TGCAAGAAGAAGAAA-TGCAAGAATAAGA-CTGAGAAATGCAAATAGTAAGAA
189 TGAAAAGGAAGAT--AAGAAG-AGAAAGTGTAAGAAGAGGATC-AAGAAATACAAAGAGTAAGAA
* * * * * * * **
14429175 TGATCCCTAGAATGTCATCCCAAA-AGGAAATATTCAAAGTAACACAACCAACGCCAAAGCCAAT
250 TGACCCCAAGGATGTCAACCCAAAGA-GAAATGTTCAAAGTAGCACAACTAACGCCAAAATCAAT
* * *
14429239 ATCAAAAGAGTTACTCAAAGAGTTAAAAAAATGTCACATTTGTTGATGAGTGTA-ATATTGCATT
314 ATCAAAATAGTTACTCAAAGAGTT-AAAAAATGTCACATTTGTTGAT-AGTGTAGCT-TTGCACT
** * * * *
14429303 TTGACAATTTCATTTAGCTAAGTAAAGTGATCCAGGGAGTTTCTCTATAC
376 TCAACAACTTC-TTTAACTAAGTAAAATGATCCAGGCAGTTTCTCTATAC
* * *
14429353 CTTTGATCATATAGCTTTAGAAGCTCCTCAAAGTGTTGAGTTGAATGAAGAGATGGATGAAAATT
1 CTTTGATCATATGGCTTTAGAAGCCCCTGAAAGTGTTGAGTTGAATGAAGAGATGGATGAAAATT
* *
14429418 TTGAAATAAAAGATCTTAAGAAATATGAAAAAAAACCCTAAGGAATACATTGAAGAGAATTTGGT
66 TTGAAATAAAAGATCTTGAGAAATAT--AAAAAGACCCTAAGGAATACATTGAAGAGAATTTGGT
* * * *
14429483 TAAGGAGGATGAAATGCTAATTCAAGTTGGAAGAGCACTTCTTGAAAGTATACAACCTGTTGAAG
129 TAAGAAGGATGAAATGCTAATTCAAGTTAGAAGAGCACTTCTTAAAAGTATACAACATGTTGAA-
*
14429548 AA-AAAGCATAAGAAGAGAAAGTGTAAGAAGAGGATCAAGAAATACAAAGAGTAAGAATGACCCC
193 AAGGAAG-ATAAGAAGAGAAAGTGTAAGAAGAGGATCAAGAAATACAAAGAGTAAGAATGACCCC
* * * * ** *
14429612 AAGGATGTCAGCCCAAAGAGAAATGTTCAAATTAGCAGAACTAACACCAAAATCAATATTGATAT
257 AAGGATGTCAACCCAAAGAGAAATGTTCAAAGTAGCACAACTAACGCCAAAATCAATATCAAAAT
* * * *
14429677 AGTTACTTAAAAAGTTACAAAATGTTACATTTGTTGATATGTGTAGCTTTGCACTTCAACAACTT
322 AGTTACTCAAAGAGTTAAAAAATGTCACATTTGTTGATA-GTGTAGCTTTGCACTTCAACAACTT
** *
14429742 CTTCTAACTCAA-TAAAATGATTTATGCAGTTTCTCTATAC
386 CTT-TAACT-AAGTAAAATGATCCAGGCAGTTTCTCTATAC
* * *
14429782 CTTTCATCATATGGCTTTAGAAGCCCCTGAAAGTGTTGAGTTGAATGAAAAGATGGATGAAAACT
1 CTTTGATCATATGGCTTTAGAAGCCCCTGAAAGTGTTGAGTTGAATGAAGAGATGGATGAAAATT
* * *
14429847 TTAAAATAGAGGAAGACCTTGAGAAATATTAAAAAGGCCCTAAGGAATACATTGAAGAGAATTTG
66 TTGAAATA-A--AAGATCTTGAGAAATA-TAAAAAGACCCTAAGGAATACATTGAAGAGAATTTG
* * * * * * *
14429912 GTTGAGAATGATGAAATGCTAGTTTAAGTTAGAAAAACACTT-TTAAAAGTATACAATATGTTGA
127 GTTAAGAAGGATGAAATGCTAATTCAAGTTAGAAGAGCACTTCTTAAAAGTATACAACATGTTGA
* * * * *
14429976 AAAGGAA-TTACAGTAAAAGAAAGTGTAAAAAGAGGATCAAAAAATACAAAGAGTACA-AATAAC
192 AAAGGAAGATA-AG-AAGAGAAAGTGTAAGAAGAGGATCAAGAAATACAAAGAGTA-AGAATGAC
* * *
14430039 CCCAAGGATGTCAACCCAAAGGGAAATGTTCAAAGTAGCACAACTAATGCC--AATGCAAATACC
254 CCCAAGGATGTCAACCCAAAGAGAAATGTTCAAAGTAGCACAACTAACGCCAAAAT-C-AATATC
* *
14430102 AAAATAGCTACTCAAAGAGTTAAAAAATGTCACATTTGTTGATAAGTGTAGCCTTGCACTTCAAC
317 AAAATAGTTACTCAAAGAGTTAAAAAATGTCACATTTGTTGAT-AGTGTAGCTTTGCACTTCAAC
* *
14430167 AACTTCTTTTAAATAAGTAAAACGATC
381 AACTTC-TTTAACTAAGTAAAATGATC
14430194 TAGGGAATTT
Statistics
Matches: 709, Mismatches: 104, Indels: 58
0.81 0.12 0.07
Matches are distributed among these distances:
428 8 0.01
429 168 0.24
430 354 0.50
431 104 0.15
432 69 0.10
433 6 0.01
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (424 bp):
CTTTGATCATATGGCTTTAGAAGCCCCTGAAAGTGTTGAGTTGAATGAAGAGATGGATGAAAATT
TTGAAATAAAAGATCTTGAGAAATATAAAAAGACCCTAAGGAATACATTGAAGAGAATTTGGTTA
AGAAGGATGAAATGCTAATTCAAGTTAGAAGAGCACTTCTTAAAAGTATACAACATGTTGAAAAG
GAAGATAAGAAGAGAAAGTGTAAGAAGAGGATCAAGAAATACAAAGAGTAAGAATGACCCCAAGG
ATGTCAACCCAAAGAGAAATGTTCAAAGTAGCACAACTAACGCCAAAATCAATATCAAAATAGTT
ACTCAAAGAGTTAAAAAATGTCACATTTGTTGATAGTGTAGCTTTGCACTTCAACAACTTCTTTA
ACTAAGTAAAATGATCCAGGCAGTTTCTCTATAC
Found at i:14435725 original size:13 final size:13
Alignment explanation
Indices: 14435707--14435738 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
14435697 CCCTTTATTT
14435707 TTTTTAATTTTAA
1 TTTTTAATTTTAA
14435720 TTTTTAATTTTAA
1 TTTTTAATTTTAA
*
14435733 TCTTTA
1 TTTTTA
14435739 TCTAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTTAA
Found at i:14440956 original size:3 final size:3
Alignment explanation
Indices: 14440944--14440980 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
14440934 TATATTTACA
14440944 TAT T-T TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T
14440981 TAATAATTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:14440970 original size:19 final size:18
Alignment explanation
Indices: 14440944--14440982 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
14440934 TATATTTACA
14440944 TATTTTATTATTATTATT
1 TATTTTATTATTATTATT
14440962 TATTATTATTATTATTATT
1 TATT-TTATTATTATTATT
14440981 TA
1 TA
14440983 ATAATTTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTTATTATTATTATT
Found at i:14441263 original size:9 final size:9
Alignment explanation
Indices: 14441249--14441274 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
14441239 TTATAATAAT
14441249 GTATTATTA
1 GTATTATTA
14441258 GTATTATTA
1 GTATTATTA
14441267 GTATTATT
1 GTATTATT
14441275 TACTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (9 bp):
GTATTATTA
Found at i:14442761 original size:14 final size:14
Alignment explanation
Indices: 14442727--14442761 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
14442717 TATTAGCTTC
*
14442727 AATTTTTAAATTTT
1 AATTTTTAAATTTA
*
14442741 AACTTTTAAATTTA
1 AATTTTTAAATTTA
14442755 AATTTTT
1 AATTTTT
14442762 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTTTTAAATTTA
Found at i:14445948 original size:14 final size:15
Alignment explanation
Indices: 14445923--14446003 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
14445913 TTTTAGCAAA
14445923 ATTTTCATTTTC-TAC
1 ATTTT-ATTTTCATAC
14445938 ATTTTATTTTCATAC
1 ATTTTATTTTCATAC
* * *
14445953 ACTTTAAATTTCTTAC
1 A-TTTTATTTTCATAC
*
14445969 ATTTCATTTTC-TAC
1 ATTTTATTTTCATAC
14445983 ATTTTATTTTCATAC
1 ATTTTATTTTCATAC
*
14445998 ACTTTA
1 ATTTTA
14446004 AATTTCTTGC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
14 19 0.34
15 25 0.45
16 12 0.21
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTATTTTCATAC
Found at i:14445989 original size:45 final size:45
Alignment explanation
Indices: 14445925--14446011 Score: 174
Period size: 45 Copynumber: 1.9 Consensus size: 45
14445915 TTAGCAAAAT
14445925 TTTCATTTTCTACATTTTATTTTCATACACTTTAAATTTCTTACA
1 TTTCATTTTCTACATTTTATTTTCATACACTTTAAATTTCTTACA
14445970 TTTCATTTTCTACATTTTATTTTCATACACTTTAAATTTCTT
1 TTTCATTTTCTACATTTTATTTTCATACACTTTAAATTTCTT
14446012 GCAATGTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.57
Consensus pattern (45 bp):
TTTCATTTTCTACATTTTATTTTCATACACTTTAAATTTCTTACA
Found at i:14451031 original size:22 final size:22
Alignment explanation
Indices: 14450981--14451035 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
14450971 AATATATAAA
14450981 CTAT-TTTATTAGATTGTATTT
1 CTATATTTATTAGATTGTATTT
*
14451002 -TTTAATTTATTA-ATTGATATTT
1 CTAT-ATTTATTAGATTG-TATTT
14451024 CTATATTTATTA
1 CTATATTTATTA
14451036 CCTTTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 2 0.07
21 4 0.14
22 20 0.71
23 2 0.07
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (22 bp):
CTATATTTATTAGATTGTATTT
Found at i:14453799 original size:13 final size:13
Alignment explanation
Indices: 14453781--14453805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14453771 ATATATTTAT
14453781 TAAAATTTTGAAA
1 TAAAATTTTGAAA
14453794 TAAAATTTTGAA
1 TAAAATTTTGAA
14453806 CTGTCATCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
TAAAATTTTGAAA
Found at i:14455541 original size:12 final size:14
Alignment explanation
Indices: 14455505--14455642 Score: 67
Period size: 15 Copynumber: 9.7 Consensus size: 14
14455495 AGCTTCCTTT
*
14455505 ATATTGTTATAATC
1 ATATTATTATAATC
14455519 ATATTTATTATAATC
1 ATA-TTATTATAATC
14455534 ATATTTATTAT--T-
1 ATA-TTATTATAATC
*
14455546 -TATTATATATAAATT
1 ATATTAT-TAT-AATC
* *
14455561 AT-TTATTATTATTTG
1 ATATTATTA-TA-ATC
* *
14455576 TTATTTATTATTAT-
1 ATA-TTATTATAATC
*
14455590 TTATTATTATAATC
1 ATATTATTATAATC
14455604 ATATTTATTAT-AT-
1 ATA-TTATTATAATC
14455617 ATAATTATTATAATC
1 AT-ATTATTATAATC
14455632 ATATTTATTAT
1 ATA-TTATTAT
14455643 TTATACATTT
Statistics
Matches: 99, Mismatches: 8, Indels: 33
0.71 0.06 0.24
Matches are distributed among these distances:
10 4 0.04
11 5 0.05
13 19 0.19
14 18 0.18
15 45 0.45
16 2 0.02
17 6 0.06
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (14 bp):
ATATTATTATAATC
Found at i:14455547 original size:7 final size:7
Alignment explanation
Indices: 14455535--14455646 Score: 56
Period size: 7 Copynumber: 16.0 Consensus size: 7
14455525 ATTATAATCA
14455535 TATTTAT
1 TATTTAT
14455542 TATTTAT
1 TATTTAT
*
14455549 TATATAT
1 TATTTAT
* *
14455556 AAATTAT
1 TATTTAT
14455563 T-TATTAT
1 TAT-TTAT
*
14455570 TATTTGT
1 TATTTAT
14455577 TATTTAT
1 TATTTAT
14455584 TA-TTAT
1 TATTTAT
14455590 T-TATTAT
1 TAT-TTAT
*
14455597 TA-TAAT
1 TATTTAT
14455603 CATATTTAT
1 --TATTTAT
*
14455612 TATATA-
1 TATTTAT
*
14455618 TAATTAT
1 TATTTAT
*
14455625 TA-TAAT
1 TATTTAT
14455631 CATATTTAT
1 --TATTTAT
14455640 TATTTAT
1 TATTTAT
14455647 ACATTTATTT
Statistics
Matches: 78, Mismatches: 15, Indels: 24
0.67 0.13 0.21
Matches are distributed among these distances:
6 15 0.19
7 52 0.67
8 5 0.06
9 6 0.08
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (7 bp):
TATTTAT
Found at i:14455573 original size:10 final size:10
Alignment explanation
Indices: 14455538--14455599 Score: 62
Period size: 10 Copynumber: 6.7 Consensus size: 10
14455528 ATAATCATAT
14455538 TTATTATTTA
1 TTATTATTTA
*
14455548 TTA-TATATA
1 TTATTATTTA
*
14455557 -AATTATTTA
1 TTATTATTTA
14455566 TTATTA--T-
1 TTATTATTTA
*
14455573 TTGTTATTTA
1 TTATTATTTA
14455583 TTATTATTTA
1 TTATTATTTA
14455593 TTATTAT
1 TTATTAT
14455600 AATCATATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
9 11 0.27
10 23 0.56
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATTATTTA
Found at i:14455647 original size:28 final size:28
Alignment explanation
Indices: 14455577--14455647 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
14455567 TATTATTTGT
*
14455577 TATTTATTA-TTATTTATTATTATAATCA
1 TATTTATTATTTA-TAATTATTATAATCA
*
14455605 TATTTATTATATATAATTATTATAATCA
1 TATTTATTATTTATAATTATTATAATCA
14455633 TATTTATTATTTATA
1 TATTTATTATTTATA
14455648 CATTTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (28 bp):
TATTTATTATTTATAATTATTATAATCA
Found at i:14457164 original size:18 final size:18
Alignment explanation
Indices: 14457141--14457176 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14457131 TTATGGACAG
14457141 AAATGAGAGACCACAATT
1 AAATGAGAGACCACAATT
14457159 AAATGAGAGACCACAATT
1 AAATGAGAGACCACAATT
14457177 TATACGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (18 bp):
AAATGAGAGACCACAATT
Found at i:14464905 original size:14 final size:15
Alignment explanation
Indices: 14464874--14464908 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14464864 ATAAGATTGA
14464874 AGAAAGAGCAAGAAG
1 AGAAAGAGCAAGAAG
*
14464889 AGAAGGAGCAA-AAG
1 AGAAAGAGCAAGAAG
14464903 AGAAAG
1 AGAAAG
14464909 GAAAAAGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.60, C:0.06, G:0.34, T:0.00
Consensus pattern (15 bp):
AGAAAGAGCAAGAAG
Found at i:14476724 original size:2 final size:2
Alignment explanation
Indices: 14476719--14476751 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14476709 AAAAAAAAAA
14476719 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14476752 GGTTTTGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14478760 original size:16 final size:16
Alignment explanation
Indices: 14478732--14478778 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
14478722 TTCTTTTAAC
14478732 TTCTTTATATTGAATG
1 TTCTTTATATTGAATG
*
14478748 TTCTTGTAT-TTGAA-C
1 TTCTT-TATATTGAATG
14478763 TTCTTTATATTGAATG
1 TTCTTTATATTGAATG
14478779 CTTGCTCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 3 0.12
15 10 0.38
16 10 0.38
17 3 0.12
ACGTcount: A:0.23, C:0.09, G:0.13, T:0.55
Consensus pattern (16 bp):
TTCTTTATATTGAATG
Found at i:14480539 original size:8 final size:8
Alignment explanation
Indices: 14480526--14480567 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
14480516 TCATTTCCCT
14480526 TTTGTTTA
1 TTTGTTTA
*
14480534 TTTGTTTG
1 TTTGTTTA
*
14480542 TGT-TTTA
1 TTTGTTTA
*
14480549 TTTATTTA
1 TTTGTTTA
14480557 TTTGTTTA
1 TTTGTTTA
14480565 TTT
1 TTT
14480568 TATGGATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
7 5 0.18
8 23 0.82
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (8 bp):
TTTGTTTA
Found at i:14480552 original size:19 final size:19
Alignment explanation
Indices: 14480525--14480561 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14480515 TTCATTTCCC
* *
14480525 TTTTGTTTATTTGTTTGTG
1 TTTTATTTATTTATTTGTG
14480544 TTTTATTTATTTATTTGT
1 TTTTATTTATTTATTTGT
14480562 TTATTTTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.14, T:0.76
Consensus pattern (19 bp):
TTTTATTTATTTATTTGTG
Found at i:14484250 original size:16 final size:17
Alignment explanation
Indices: 14484220--14484252 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14484210 AGTGCCAACA
14484220 AAAAAAGGAATAAAAAT
1 AAAAAAGGAATAAAAAT
14484237 AAAAAAGGAA-AAAAAT
1 AAAAAAGGAATAAAAAT
14484253 TGAGTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
AAAAAAGGAATAAAAAT
Found at i:14485035 original size:3 final size:3
Alignment explanation
Indices: 14485029--14485053 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14485019 GAAAAAAATA
14485029 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
14485054 TAAAAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14485263 original size:22 final size:20
Alignment explanation
Indices: 14485228--14485282 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
14485218 AAAATAACCA
* *
14485228 AAAAATTATTAAATAAAAAT
1 AAAAATAATAAAATAAAAAT
14485248 AAAAATTAACTAAAATAAAAAT
1 AAAAA-TAA-TAAAATAAAAAT
14485270 AAAAATAATAAAA
1 AAAAATAATAAAA
14485283 ATTGATGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.32
21 5 0.16
22 16 0.52
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATAATAAAATAAAAAT
Found at i:14489572 original size:23 final size:23
Alignment explanation
Indices: 14489546--14489595 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
14489536 CACAGTTGAG
* * *
14489546 ATTTTAAGCCCAGTTTAGTTGGC
1 ATTTTAAGCCCAATTTAGCTAGC
*
14489569 ATTTTAAGCTCAATTTAGCTAGC
1 ATTTTAAGCCCAATTTAGCTAGC
14489592 ATTT
1 ATTT
14489596 AGATTAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (23 bp):
ATTTTAAGCCCAATTTAGCTAGC
Found at i:14489586 original size:87 final size:86
Alignment explanation
Indices: 14489430--14489683 Score: 285
Period size: 87 Copynumber: 2.9 Consensus size: 86
14489420 AAAATAAGAT
* * * * * *
14489430 TTAAGCCTAGATTAGTTAGCACAATTGAGATTTTAAGCCTAGTTTAGTTAGCACTTTATGACAAG
1 TTAAGCCTAGATTAGCTAGCACAGTTGAGATTTTAAGCCCAGTTTAGTTGGCACTTTAAGCCAA-
*
14489495 TTTAGTTGGCACCCAGATTATA
65 TTTAGTTGGCACCCAGATTAAA
*
14489517 TTAAGCCTAGATTAGCTAGCACAGTTGAGATTTTAAGCCCAGTTTAGTTGGCATTTTAAGCTCAA
1 TTAAGCCTAGATTAGCTAGCACAGTTGAGATTTTAAGCCCAGTTTAGTTGGCACTTTAAGC-CAA
* * ***
14489582 TTTAGCTAGCATTTAGATTAAA
65 TTTAGTTGGCACCCAGATTAAA
* * ** * *
14489604 TTAAGCCTAGATTAACTGGCACAGTTGAGATTTGGAGCCCA-TATTAGCTGGCACTTAAAGCCTA
1 TTAAGCCTAGATTAGCTAGCACAGTTGAGATTTTAAGCCCAGT-TTAGTTGGCACTTTAAGCC-A
*
14489668 AATTAGTTGGCACCCA
64 ATTTAGTTGGCACCCA
14489684 AGCTCAGTTT
Statistics
Matches: 138, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
86 2 0.01
87 133 0.96
88 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (86 bp):
TTAAGCCTAGATTAGCTAGCACAGTTGAGATTTTAAGCCCAGTTTAGTTGGCACTTTAAGCCAAT
TTAGTTGGCACCCAGATTAAA
Found at i:14489770 original size:23 final size:23
Alignment explanation
Indices: 14489744--14489805 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
14489734 TAGTTAAGAT
*
14489744 TTTAAGCCCAGTTTAGTTGACAC
1 TTTAAGCCTAGTTTAGTTGACAC
* * **
14489767 TTTAAGCTTAGTTTATTTGGTAC
1 TTTAAGCCTAGTTTAGTTGACAC
14489790 TTTAAGCCTAGTTTAG
1 TTTAAGCCTAGTTTAG
14489806 CTAGCATCCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (23 bp):
TTTAAGCCTAGTTTAGTTGACAC
Found at i:14489859 original size:23 final size:23
Alignment explanation
Indices: 14489824--14489936 Score: 109
Period size: 23 Copynumber: 4.9 Consensus size: 23
14489814 CAAATCAAAC
*
14489824 TAAGCCCAAATTAATTGGCACTT
1 TAAGCCCAAATTAATTGACACTT
* * *
14489847 TAAGCCTAGATTAATTGACATTT
1 TAAGCCCAAATTAATTGACACTT
* * *
14489870 TAAGCTCAAATTAGTTAACACTT
1 TAAGCCCAAATTAATTGACACTT
* ** *
14489893 TAAGCCCAAATTAACTGGTATTT
1 TAAGCCCAAATTAATTGACACTT
* *
14489916 TTAGCCCAGATTAATTGACAC
1 TAAGCCCAAATTAATTGACAC
14489937 CTGAATTTTA
Statistics
Matches: 67, Mismatches: 23, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (23 bp):
TAAGCCCAAATTAATTGACACTT
Found at i:14490468 original size:43 final size:44
Alignment explanation
Indices: 14490395--14490514 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 44
14490385 GAGCCTCTAC
*
14490395 TTAGATGAGCCAT-TTCAAATTTTCAGAAGTTGTTGAA-ACTCTGT
1 TTAGATGAGCCATGTT-AAATTTTCAAAAGTTGTT-AAGACTCTGT
* *
14490439 TTAGATGAG-C-TGTTAAAGTTTTCAAAAGTTGTTAAGTCTTTGT
1 TTAGATGAGCCATGTTAAA-TTTTCAAAAGTTGTTAAGACTCTGT
* * *
14490482 TTAGATGGGCCATTTTAAATTTTTAAAAGTTGT
1 TTAGATGAGCCATGTTAAATTTTCAAAAGTTGT
14490515 AGAGCTTCTA
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
42 6 0.09
43 30 0.46
44 23 0.35
45 6 0.09
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.42
Consensus pattern (44 bp):
TTAGATGAGCCATGTTAAATTTTCAAAAGTTGTTAAGACTCTGT
Found at i:14490952 original size:7 final size:6
Alignment explanation
Indices: 14490918--14490957 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
14490908 TAAGCCATTG
* * *
14490918 TTTTTA TTTTCA TTTTCA TTTTTA TTTTTA CTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
14490958 AATATTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:14492202 original size:3 final size:3
Alignment explanation
Indices: 14492196--14492230 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14492186 TTTTTTTTAT
14492196 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14492231 GAGAATAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14492322 original size:14 final size:13
Alignment explanation
Indices: 14492303--14492358 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
14492293 TTTTAAAAAT
*
14492303 TAAAATAAATATCA
1 TAAAAT-AATATAA
14492317 TAAAATAATATAA
1 TAAAATAATATAA
*
14492330 TAAAA-AATA-AC
1 TAAAATAATATAA
14492341 TAAACATAATAATAA
1 TAAA-ATAAT-ATAA
14492356 TAA
1 TAA
14492359 TGATAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
11 5 0.14
12 5 0.14
13 14 0.40
14 7 0.20
15 4 0.11
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAAATAATATAA
Found at i:14492336 original size:35 final size:35
Alignment explanation
Indices: 14492296--14492371 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 35
14492286 AGTTTTATTT
* * *
14492296 TAAAAATTAAAATAAATATCATAA-AATAAT-ATAA
1 TAAAAAAT-AAATAAACATAATAATAATAATGATAA
*
14492330 TAAAAAATAACTAAACATAATAATAATAATGATAA
1 TAAAAAATAAATAAACATAATAATAATAATGATAA
14492365 TAAAAAA
1 TAAAAAA
14492372 AGAAAATCGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 12 0.33
34 13 0.36
35 11 0.31
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.26
Consensus pattern (35 bp):
TAAAAAATAAATAAACATAATAATAATAATGATAA
Found at i:14492338 original size:15 final size:15
Alignment explanation
Indices: 14492318--14492371 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
14492308 TAAATATCAT
14492318 AAAATAATATAATAA
1 AAAATAATATAATAA
*
14492333 AAAATAACTAAACATAA
1 AAAATAA-TATA-ATAA
14492350 TAATAATAATGATAATAA
1 -AA-AATAAT-ATAATAA
14492368 AAAA
1 AAAA
14492372 AGAAAATCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 7 0.22
16 5 0.16
17 6 0.19
18 7 0.22
19 7 0.22
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (15 bp):
AAAATAATATAATAA
Found at i:14492606 original size:29 final size:28
Alignment explanation
Indices: 14492574--14492636 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
14492564 GGAGTATTTA
*
14492574 TAAAAGTT-TTCAATACAATAAAAATTAAC
1 TAAAAGTTATTAAATA-AA-AAAAATTAAC
*
14492603 TAAAAATTTATTAAATAAAAAAAATTAAC
1 T-AAAAGTTATTAAATAAAAAAAATTAAC
14492632 TAAAA
1 TAAAA
14492637 TAAGAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 4 0.13
29 12 0.40
30 8 0.27
31 6 0.20
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (28 bp):
TAAAAGTTATTAAATAAAAAAAATTAAC
Found at i:14493080 original size:10 final size:10
Alignment explanation
Indices: 14493056--14493097 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
14493046 TATTTTTCTC
*
14493056 AAATAAGAAG
1 AAATAAGAAT
*
14493066 GAATAAGAAT
1 AAATAAGAAT
*
14493076 AAATAATAAT
1 AAATAAGAAT
14493086 AAA-AAGAAT
1 AAATAAGAAT
14493095 AAA
1 AAA
14493098 AAACTAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (10 bp):
AAATAAGAAT
Found at i:14498469 original size:145 final size:146
Alignment explanation
Indices: 14498239--14498506 Score: 337
Period size: 145 Copynumber: 1.8 Consensus size: 146
14498229 TCAATTTTGA
** * * *
14498239 GATTTTAAAACACTAAAAATCATGAAATATTATGAAATTGAGATTTGAAAAGTTTCATAGAAATC
1 GATTTTAAAACACTAAAAATCATGAAATATTACAAAATTAAGATCTAAAAAGTTTCATAGAAATC
* * **** * *
14498304 TGAGCTTGGTAAAGTAAAATTACG-AAATA-CTCTTATAGGAGTATTTTGATAATTTTACACTTT
66 TAAGATAAAAAAAATAAAATTACGAAAATATCCCTTATAGGAGTATTTTGATAATTTTACACTTT
14498367 TTTGAGGTACTACTGT
131 TTTGAGGTACTACTGT
14498383 GATTTTAAATACACTAAAAATCATGAAATATTACAAAATTAAGATCTAAAAAGTTTCAT-GAAAA
1 GATTTTAAA-ACACTAAAAATCATGAAATATTACAAAATTAAGATCTAAAAAGTTTCATAG-AAA
* * *
14498447 T-TCAAGATAAAAAAAATCAAATTACGAAAATATCCCTTATAGGGGTATTTTGGTAATTTT
64 TCT-AAGATAAAAAAAATAAAATTACGAAAATATCCCTTATAGGAGTATTTTGATAATTTT
14498507 GTACTTCCTC
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
144 11 0.11
145 63 0.61
146 5 0.05
147 24 0.23
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (146 bp):
GATTTTAAAACACTAAAAATCATGAAATATTACAAAATTAAGATCTAAAAAGTTTCATAGAAATC
TAAGATAAAAAAAATAAAATTACGAAAATATCCCTTATAGGAGTATTTTGATAATTTTACACTTT
TTTGAGGTACTACTGT
Found at i:14498998 original size:5 final size:5
Alignment explanation
Indices: 14498980--14499012 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
14498970 ATCTTTTGAG
14498980 ATTTT A-TTT A-TTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
14499013 TTAATCTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:14499253 original size:105 final size:105
Alignment explanation
Indices: 14499091--14499430 Score: 373
Period size: 105 Copynumber: 3.2 Consensus size: 105
14499081 AGAGGCTTTA
* * * * * *
14499091 AAACTTTGAAAATTTAAAATGTTTTGCCCA-AAGGTTTTGGAGATTATGCGTGGAGGTCTTATAA
1 AAACTTTAAAAATTTAAAATGTTTTGCCTAGAA-GTCTTGGAGATTATGCCTGAAGGTCTTACAA
*
14499155 ATCTAGACATCTTTGAATGCTCCTCTCAATCAGAGACATTG
65 ATCTAGACATCTTTGAATGCTCATCTCAATCAGAGACATTG
* ** **
14499196 AAACTTTAAAAATTTAAAATGTTTTACCTAGAAGTCTTAAAGATTATGCCCAAAGGTCTTACAAA
1 AAACTTTAAAAATTTAAAATGTTTTGCCTAGAAGTCTTGGAGATTATGCCTGAAGGTCTTACAAA
* * * * *
14499261 TATCA-ACATCTTTGAATGCTCTTC-CTAAACAGAGACGTTA
66 TCT-AGACATCTTTGAATGCTCATCTC-AATCAGAGACATTG
* * *
14499301 AAACTTTAAAAATTTAAAATGGTTTGCCTAGAGGTCTTGGAGATTATGTCTGAAGGTCTTACAAA
1 AAACTTTAAAAATTTAAAATGTTTTGCCTAGAAGTCTTGGAGATTATGCCTGAAGGTCTTACAAA
* * * * **
14499366 TCTCGAAATGTTTAAATGCTCAT-TCCAATCAGAGGTATTG
66 TCTAGACATCTTTGAATGCTCATCT-CAATCAGAGACATTG
*
14499406 AAACTTAAAAAATTTAAAATGTTTT
1 AAACTTTAAAAATTTAAAATGTTTT
14499431 TGCCCAAAGG
Statistics
Matches: 192, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
104 1 0.01
105 187 0.97
106 4 0.02
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (105 bp):
AAACTTTAAAAATTTAAAATGTTTTGCCTAGAAGTCTTGGAGATTATGCCTGAAGGTCTTACAAA
TCTAGACATCTTTGAATGCTCATCTCAATCAGAGACATTG
Found at i:14499756 original size:18 final size:18
Alignment explanation
Indices: 14499735--14499775 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
14499725 AAATGATACT
* *
14499735 AATGGAAATGTCGATATG
1 AATGCAAATGTCAATATG
*
14499753 AATGCAAATGTTAATATG
1 AATGCAAATGTCAATATG
14499771 AATGC
1 AATGC
14499776 TTGATGCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (18 bp):
AATGCAAATGTCAATATG
Found at i:14500307 original size:27 final size:28
Alignment explanation
Indices: 14500277--14500339 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
14500267 ATGAATGCAA
14500277 GTGATGCAAATACAAATGTC-TTTTTTT
1 GTGATGCAAATACAAATGTCTTTTTTTT
* **
14500304 GTGATGTAAATGTAAATGTCTTTTTTTT
1 GTGATGCAAATACAAATGTCTTTTTTTT
14500332 GTGATGCA
1 GTGATGCA
14500340 TATATGAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 17 0.55
28 14 0.45
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (28 bp):
GTGATGCAAATACAAATGTCTTTTTTTT
Found at i:14500349 original size:28 final size:27
Alignment explanation
Indices: 14500277--14500349 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 27
14500267 ATGAATGCAA
*
14500277 GTGATGCAAATACAAATGTCTTTTTTT
1 GTGATGCAAATATAAATGTCTTTTTTT
* *
14500304 GTGATGTAAATGTAAATGTCTTTTTTTT
1 GTGATGCAAATATAAATGTC-TTTTTTT
* *
14500332 GTGATGCATATATGAATG
1 GTGATGCAAATATAAATG
14500350 CAAATATCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 17 0.45
28 21 0.55
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.45
Consensus pattern (27 bp):
GTGATGCAAATATAAATGTCTTTTTTT
Found at i:14500657 original size:3 final size:3
Alignment explanation
Indices: 14500649--14500701 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
14500639 CAAAGACCTT
*
14500649 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14500697 TTA TT
1 TTA TT
14500702 TTTCTTCTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14501970 original size:19 final size:19
Alignment explanation
Indices: 14501948--14501985 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14501938 ATTTCAACAA
14501948 TTTTTTTTCTTTAGTTTTT
1 TTTTTTTTCTTTAGTTTTT
* *
14501967 TTTTTTTTTTTTGGTTTTT
1 TTTTTTTTCTTTAGTTTTT
14501986 AGTTTTGGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.87
Consensus pattern (19 bp):
TTTTTTTTCTTTAGTTTTT
Found at i:14501991 original size:19 final size:20
Alignment explanation
Indices: 14501949--14501991 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
14501939 TTTCAACAAT
*
14501949 TTTTTTTCTTTAGTTTTT-T
1 TTTTTTTCTTTAGTTTTTAG
* *
14501968 TTTTTTTTTTTGGTTTTTAG
1 TTTTTTTCTTTAGTTTTTAG
14501988 TTTT
1 TTTT
14501992 GGCATTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.05, C:0.02, G:0.09, T:0.84
Consensus pattern (20 bp):
TTTTTTTCTTTAGTTTTTAG
Found at i:14504928 original size:21 final size:21
Alignment explanation
Indices: 14504902--14504948 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
14504892 TAAACAAAAG
14504902 TCCTATCCATGTTCATCATT-T
1 TCCTATCCATGTTC-TCATTAT
* *
14504923 TCCTATCCTTTTTCTCATTAT
1 TCCTATCCATGTTCTCATTAT
14504944 TCCTA
1 TCCTA
14504949 GATCTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.17, C:0.30, G:0.02, T:0.51
Consensus pattern (21 bp):
TCCTATCCATGTTCTCATTAT
Found at i:14508108 original size:83 final size:83
Alignment explanation
Indices: 14507968--14508129 Score: 279
Period size: 83 Copynumber: 2.0 Consensus size: 83
14507958 ACAAATTCTG
* * * *
14507968 TTTTCTAAAACTTATTTTTATGCTATTTATAAAAGCACGAGAAATCTTTATCAAAAATTAATCTA
1 TTTTCTAAAACTCATTTCTATGCTATTTATAAAAGCACAAAAAATCTTTATCAAAAATTAATCTA
14508033 AATGCTTCAATACAATTT
66 AATGCTTCAATACAATTT
*
14508051 TTTTCTAAAACTCATTTCTATGCTATTTATAAAAGCACAAAAAATCTTTATCCAAAATTAATCTA
1 TTTTCTAAAACTCATTTCTATGCTATTTATAAAAGCACAAAAAATCTTTATCAAAAATTAATCTA
14508116 AATGCTTCAATACA
66 AATGCTTCAATACA
14508130 TTTGCAGTAT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 74 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (83 bp):
TTTTCTAAAACTCATTTCTATGCTATTTATAAAAGCACAAAAAATCTTTATCAAAAATTAATCTA
AATGCTTCAATACAATTT
Found at i:14509290 original size:29 final size:29
Alignment explanation
Indices: 14509243--14509360 Score: 123
Period size: 29 Copynumber: 3.9 Consensus size: 29
14509233 CAATCTTGAC
*
14509243 AAAATAATGCCA-TGTTCCCTACGCCATGG
1 AAAACAATGCCATTG-TCCCTACGCCATGG
14509272 AAAACAATGCCATTGTCCCTACGCCATGG
1 AAAACAATGCCATTGTCCCTACGCCATGG
* *
14509301 AAAACAATGCCATT-TACTCTATCAAGCAAATGG
1 AAAACAATGCCATTGT-CCCTA-C--GC-CATGG
* *
14509334 AAAAAAATGCCATGGTCCCTACGCCAT
1 AAAACAATGCCATTGTCCCTACGCCAT
14509361 TCTATAGAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
28 1 0.01
29 45 0.60
30 5 0.07
32 3 0.04
33 20 0.27
34 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (29 bp):
AAAACAATGCCATTGTCCCTACGCCATGG
Found at i:14512250 original size:18 final size:17
Alignment explanation
Indices: 14512209--14512256 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
14512199 AATTGTAGAT
14512209 AATAAAATTATTAAATGA
1 AATAAAATT-TTAAATGA
14512227 AA-AAAATTTCTAAAAT-A
1 AATAAAATTT-T-AAATGA
14512244 AATAAAATTTTAA
1 AATAAAATTTTAA
14512257 TTAACCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.11
17 11 0.41
18 13 0.48
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAAAATTTTAAATGA
Found at i:14514462 original size:15 final size:16
Alignment explanation
Indices: 14514433--14514465 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14514423 AAAGCATATT
14514433 TTTGAATTTTATAAAA
1 TTTGAATTTTATAAAA
*
14514449 TTTG-ATTTTTTAAAA
1 TTTGAATTTTATAAAA
14514464 TT
1 TT
14514466 AAATATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TTTGAATTTTATAAAA
Found at i:14514601 original size:19 final size:18
Alignment explanation
Indices: 14514547--14514609 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 18
14514537 AATCTTTTAA
14514547 TTTTTTAAATTTTAG--T
1 TTTTTTAAATTTTAGATT
* *
14514563 TTTTTGAAAGTTTTATATT
1 TTTTTTAAA-TTTTAGATT
14514582 TTTTTTAAATTTTAGCATT
1 TTTTTTAAATTTTAG-ATT
*
14514601 TTATTTAAA
1 TTTTTTAAA
14514610 AAATATTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.21
17 5 0.13
18 5 0.13
19 20 0.53
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (18 bp):
TTTTTTAAATTTTAGATT
Found at i:14514633 original size:15 final size:15
Alignment explanation
Indices: 14514584--14514638 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
14514574 TTTATATTTT
*
14514584 TTTTAAATTTT-AGCA
1 TTTT-AATTTTAAGAA
* *
14514599 TTTT-ATTTAAAAAA
1 TTTTAATTTTAAGAA
14514613 TATTTAATTTTAAGAA
1 T-TTTAATTTTAAGAA
14514629 TTTTAATTTT
1 TTTTAATTTT
14514639 TTAAAAGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 4 0.12
14 3 0.09
15 16 0.50
16 9 0.28
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (15 bp):
TTTTAATTTTAAGAA
Found at i:14515808 original size:20 final size:20
Alignment explanation
Indices: 14515785--14515846 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
14515775 TCATAACAAC
14515785 AAAGTCAACATCACATCAAT
1 AAAGTCAACATCACATCAAT
*
14515805 AAAGTCGATA-ATCACAT-TAT
1 AAAGTC-A-ACATCACATCAAT
*
14515825 CAAGTCAACAATCACATCAAT
1 AAAGTCAAC-ATCACATCAAT
14515846 A
1 A
14515847 TTTTAATGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 20 0.61
21 10 0.30
22 1 0.03
ACGTcount: A:0.48, C:0.23, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAGTCAACATCACATCAAT
Found at i:14541872 original size:18 final size:18
Alignment explanation
Indices: 14541846--14541880 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14541836 CTTCATTAAG
14541846 CTTGATTTTTTGTTGTTT
1 CTTGATTTTTTGTTGTTT
* *
14541864 CTTGTTTTTTTTTTGTT
1 CTTGATTTTTTGTTGTT
14541881 GATTTAGGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.06, G:0.14, T:0.77
Consensus pattern (18 bp):
CTTGATTTTTTGTTGTTT
Found at i:14547890 original size:2 final size:2
Alignment explanation
Indices: 14547841--14547878 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
14547831 ATGCCTCAAG
* *
14547841 AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14547879 GAAAAGATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:14549022 original size:11 final size:11
Alignment explanation
Indices: 14549006--14549039 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
14548996 CTTAATTTTT
14549006 ATTTTTATATA
1 ATTTTTATATA
*
14549017 ATTTTTATTTTA
1 ATTTTTA-TATA
14549029 ATTTTTATATA
1 ATTTTTATATA
14549040 TAGCCATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTTTTATATA
Found at i:14550184 original size:20 final size:20
Alignment explanation
Indices: 14550137--14550173 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
14550127 TTAAAACTAT
*
14550137 ATATATTTGAGATAGAAATA
1 ATATTTTTGAGATAGAAATA
14550157 ATATTTTTG-GATAGAAA
1 ATATTTTTGAGATAGAAA
14550174 ATAGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (20 bp):
ATATTTTTGAGATAGAAATA
Found at i:14550355 original size:18 final size:18
Alignment explanation
Indices: 14550332--14550368 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14550322 TTTAATATTT
14550332 TATAAAATATAT-ATAAAA
1 TATAAAAT-TATGATAAAA
14550350 TATAAAATTATGATAAAA
1 TATAAAATTATGATAAAA
14550368 T
1 T
14550369 TTCATCCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
TATAAAATTATGATAAAA
Found at i:14557882 original size:157 final size:158
Alignment explanation
Indices: 14557527--14558125 Score: 792
Period size: 157 Copynumber: 3.8 Consensus size: 158
14557517 GATGAGATCA
* *
14557527 ACTTTGTGAAAGGTGAAAACCATTATGTATTTTGTTTTGTGATTCTAGTTGTGTATTTTGATTGT
1 ACTTTGTG-AAGGTGAAAACTATTATGTATTTTGTTTTGTGATTCTAGTTGTGTATTGTGATTGT
* ** * ** *
14557592 TAATGAAGTAGATAGCGTAGTAATTGAAATACTAAACATTGTGGGATGAATGGTATGGAACTATA
65 TGATGAAGTAGATAGTATAGTAATTGAAAGACTAAACATTGTAAGATGAATGGTATTGAACTATA
* * * *
14557657 TAGTGTTTTGTGCTTATTGAGATGTAATA
130 TAGTGTTTTGTACTTATTGAAATGCAATG
* ** *
14557686 ACTTTGTGAACGTGAAAACTATTGCGTATTTTGTTTTGTGATTCTGGTTGTGTATTGTGATTGTT
1 ACTTTGTGAAGGTGAAAACTATTATGTATTTTGTTTTGTGATTCTAGTTGTGTATTGTGATTGTT
* * * *
14557751 GATGAAGTAGATAGTATAGTAATTAAAAAACTAAACATTG-CAGATGAATGATATTGAACTATAT
66 GATGAAGTAGATAGTATAGTAATTGAAAGACTAAACATTGTAAGATGAATGGTATTGAACTATAT
* * *
14557815 AGTATTTTGCACTTATTGACATGCAATG
131 AGTGTTTTGTACTTATTGAAATGCAATG
* * *
14557843 ACTTTGTGAAGGTGAAAACTATTAAGTATTTTGTTTTGTGATTCTAGTTGTGTATTGTAATTATT
1 ACTTTGTGAAGGTGAAAACTATTATGTATTTTGTTTTGTGATTCTAGTTGTGTATTGTGATTGTT
* * *
14557908 GATGAAGTAGATAGTGTAGTAATTGAAAGACT-AACATTGTAAGATGTATGGTATTGAACTATTT
66 GATGAAGTAGATAGTATAGTAATTGAAAGACTAAACATTGTAAGATGAATGGTATTGAACTATAT
14557972 AGTGTTTTGTACTTATTGAAATGCAATG
131 AGTGTTTTGTACTTATTGAAATGCAATG
* * ** *
14558000 ACTTTGT-AATAGTGAAAACTATTATGTATTTTGCTTTGCAAGTT-TGGTTGTGTATTGTGATTG
1 ACTTTGTGAA-GGTGAAAACTATTATGTATTTTGTTTTGTGA-TTCTAGTTGTGTATTGTGATTG
* * * *
14558063 TTGATGAAGTAGATAGTATAATAATTGAAAGCCTAAACATTGTAGGATGAATGCTATTGAACT
64 TTGATGAAGTAGATAGTATAGTAATTGAAAGACTAAACATTGTAAGATGAATGGTATTGAACT
14558126 GTGTCATTAG
Statistics
Matches: 385, Mismatches: 51, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
156 9 0.02
157 255 0.66
158 113 0.29
159 8 0.02
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.41
Consensus pattern (158 bp):
ACTTTGTGAAGGTGAAAACTATTATGTATTTTGTTTTGTGATTCTAGTTGTGTATTGTGATTGTT
GATGAAGTAGATAGTATAGTAATTGAAAGACTAAACATTGTAAGATGAATGGTATTGAACTATAT
AGTGTTTTGTACTTATTGAAATGCAATG
Found at i:14558284 original size:18 final size:19
Alignment explanation
Indices: 14558260--14558309 Score: 77
Period size: 18 Copynumber: 2.7 Consensus size: 19
14558250 TCCACTAGCA
14558260 TGGATTGGAGCTATTAAAG
1 TGGATTGGAGCTATTAAAG
14558279 -GGATTGGAGCTATTAAAG
1 TGGATTGGAGCTATTAAAG
*
14558297 TGG-TTGAAGCTAT
1 TGGATTGGAGCTAT
14558310 GTGCACTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 27 0.93
19 2 0.07
ACGTcount: A:0.30, C:0.06, G:0.32, T:0.32
Consensus pattern (19 bp):
TGGATTGGAGCTATTAAAG
Found at i:14559525 original size:6 final size:6
Alignment explanation
Indices: 14559511--14559545 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
14559501 AAAAATTGAG
*
14559511 ATATCT ATATTT ATATCT ATATCT ATATCAT ATAT
1 ATATCT ATATCT ATATCT ATATCT ATATC-T ATAT
14559546 TAAAGTTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (6 bp):
ATATCT
Found at i:14559672 original size:22 final size:19
Alignment explanation
Indices: 14559612--14559675 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
14559602 GCAATAAATT
14559612 TTTTTATTTTAGTT-TTTTTA
1 TTTTT-TTTTA-TTATTTTTA
* *
14559632 TTTTTTTTTATTCTATTTA
1 TTTTTTTTTATTATTTTTA
14559651 TTTTTTTGTTGAATTATTTTTA
1 TTTTTTT-TT--ATTATTTTTA
14559673 TTT
1 TTT
14559676 ATATACATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 2 0.05
19 17 0.46
20 7 0.19
22 11 0.30
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTTTTTTTATTATTTTTA
Found at i:14563233 original size:63 final size:60
Alignment explanation
Indices: 14563166--14563293 Score: 141
Period size: 61 Copynumber: 2.1 Consensus size: 60
14563156 TTTGGGATAA
* * * *
14563166 AAAAACATTTTAAATAATTCCTT-TTAAAAAAATGAAGATGATTATTTAAGGCATTTTTAGTCC
1 AAAAACATCTTAAAT-AGT-CTTCTTAAAAAAATGAAGA-GATTATTAAAGGCATTTTT-GTAC
* * * *
14563229 AAAAACGTCTTAAATAGTCTTCTTTAAAAAATGAGGAGATTATTAAAGGTATTTTTGTAC
1 AAAAACATCTTAAATAGTCTTCTTAAAAAAATGAAGAGATTATTAAAGGCATTTTTGTAC
14563289 AAAAA
1 AAAAA
14563294 TGCCTTAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
60 8 0.14
61 20 0.36
62 15 0.27
63 13 0.23
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.36
Consensus pattern (60 bp):
AAAAACATCTTAAATAGTCTTCTTAAAAAAATGAAGAGATTATTAAAGGCATTTTTGTAC
Found at i:14563318 original size:61 final size:62
Alignment explanation
Indices: 14563175--14563308 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 62
14563165 AAAAAACATT
* * * *
14563175 TTAAATAATTCCTT-TTAAAAAAATGAAGATGATTATTTAAGGCATTTTTAGTCCAAAAACGTC
1 TTAAATAA-T-CTTCTTTAAAAAATGAAGATGATTATTAAAGGCATTTTTAGTACAAAAACGCC
* * * *
14563238 TTAAATAGTCTTCTTTAAAAAATGAGGA-GATTATTAAAGGTATTTTT-GTACAAAAATGCC
1 TTAAATAATCTTCTTTAAAAAATGAAGATGATTATTAAAGGCATTTTTAGTACAAAAACGCC
14563298 TTAAATAATCT
1 TTAAATAATCT
14563309 ATTTGTAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
60 20 0.33
61 20 0.33
62 14 0.23
63 7 0.11
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (62 bp):
TTAAATAATCTTCTTTAAAAAATGAAGATGATTATTAAAGGCATTTTTAGTACAAAAACGCC
Found at i:14563382 original size:64 final size:62
Alignment explanation
Indices: 14563266--14563385 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 62
14563256 AAAATGAGGA
*
14563266 GATTATTAAAGGTATTTTTGTACAAAAATGCCTTAAATAATCTATTTGTAAAACTACAAAAG
1 GATTATTAAAGGTATTTTTGTACAAAAATGCCTTAAATAATCTATTTATAAAACTACAAAAG
* * * *
14563328 GATTATTTAAGGTGTTTTATGTATAGAAATGCCTTTAAATAATCCT-TTTATAAAACTA
1 GATTATTAAAGGTATTTT-TGTACAAAAATGCC-TTAAATAAT-CTATTTATAAAACTA
14563386 TTAACCCTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
62 16 0.32
63 12 0.24
64 20 0.40
65 2 0.04
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (62 bp):
GATTATTAAAGGTATTTTTGTACAAAAATGCCTTAAATAATCTATTTATAAAACTACAAAAG
Found at i:14565054 original size:21 final size:22
Alignment explanation
Indices: 14565024--14565064 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14565014 TATTTTGGTA
*
14565024 TTATTATT-AAGTTTATTTTTT
1 TTATTATTAAAGTTCATTTTTT
*
14565045 TTATTTTTAAAGTTCATTTT
1 TTATTATTAAAGTTCATTTT
14565065 AAAAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (22 bp):
TTATTATTAAAGTTCATTTTTT
Found at i:14566191 original size:12 final size:11
Alignment explanation
Indices: 14566190--14566245 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 11
14566180 TTTTTTGGTA
14566190 TTTTGTATTAT
1 TTTTGTATTAT
14566201 TTTTGGTATTAT
1 TTTT-GTATTAT
14566213 TTTTGTATTTTAT
1 TTTTGTA--TTAT
14566226 ATTTTGTATT-T
1 -TTTTGTATTAT
14566237 TTTTGTATT
1 TTTTGTATT
14566246 TCGTATTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.22
11 8 0.20
12 13 0.32
13 4 0.10
14 7 0.17
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (11 bp):
TTTTGTATTAT
Found at i:14566644 original size:49 final size:49
Alignment explanation
Indices: 14566523--14566883 Score: 486
Period size: 49 Copynumber: 7.5 Consensus size: 49
14566513 ATTTAAAATC
* * * * *
14566523 TGAAATAGACTCCTCTCAGTAGAGGCTCAACGACTTTAAAA-ATCATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* *
14566571 TG-AAAA-GCTCCTCTCAACAGAGGCTCAACAACATTAAAATCTCATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* *
14566618 TAAAAAAGGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATC-CATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* *
14566666 TGAAAAAGGCTCTTCTCAGCAGAGGCTTAACAACTTTAAAATCTCATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
14566715 TG-AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATC-CATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* * * * *
14566761 TGAAAACGACTCCTCTCAACAGAGGCTCAACAACTTTAAAAATTTAATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCT
*
14566811 TGAAAAA-GCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
1 TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCT
*
14566860 TGAAAAGGGCTCCTCTCAGCAGAG
1 TGAAAAAGGCTCCTCTCAGCAGAG
14566884 ATTGTTGGTA
Statistics
Matches: 274, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
46 35 0.13
47 46 0.17
48 81 0.30
49 87 0.32
50 25 0.09
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (49 bp):
TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
Found at i:14566647 original size:95 final size:94
Alignment explanation
Indices: 14566532--14566883 Score: 483
Period size: 95 Copynumber: 3.7 Consensus size: 94
14566522 CTGAAATAGA
* *
14566532 CTCCTCTCAGTAGAGGCTCAACGACTTTAAAAAT-CATCTTGAAAA-GCTCCTCTCAACAGAGGC
1 CTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCCATCTTGAAAAGGCTCCTCTCAACAGAGGC
*
14566595 TCAACAACATTAAAATCTCATCTTAAAAAAGG
65 TCAACAACTTTAAAATCTCATCTT-AAAAA-G
* * *
14566627 CTCCTCTCAGTAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAAGGCTCTTCTCAGCAGAGGC
1 CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCCATCTTG-AAAAGGCTCCTCTCAACAGAGGC
* *
14566692 TTAACAACTTTAAAATCTCATCTTGAAAAG
65 TCAACAACTTTAAAATCTCATCTTAAAAAG
*
14566722 CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCCATCTTGAAAACGACTCCTCTCAACAGAGGC
1 CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCCATCTTGAAAA-GGCTCCTCTCAACAGAGGC
* *
14566787 TCAACAACTTTAAAAATTTAATCTTGAAAAAG
65 TCAACAACTTT-AAAATCTCATCTT-AAAAAG
* *
14566819 CTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGGCTCCTCTCAGCAGAG
1 CTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATC-CATCTTGAAAA-GGCTCCTCTCAACAGAG
14566884 ATTGTTGGTA
Statistics
Matches: 231, Mismatches: 18, Indels: 12
0.89 0.07 0.05
Matches are distributed among these distances:
94 9 0.04
95 101 0.44
96 19 0.08
97 70 0.30
98 6 0.03
99 26 0.11
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (94 bp):
CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAGGCTCCTCTCAACAGAGGCT
CAACAACTTTAAAATCTCATCTTAAAAAG
Found at i:14566738 original size:144 final size:144
Alignment explanation
Indices: 14566519--14566883 Score: 513
Period size: 144 Copynumber: 2.5 Consensus size: 144
14566509 AGAAATTTAA
* * * * *
14566519 AATC-TGAAATAGACTCCTCTCAGTAGAGGCTCAACGACTTTAAAA-ATCATCTTGAAAAGCTCC
1 AATCTTGAAAAAG-CTCTTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGCTCC
* * **
14566582 TCTCAACAGAGGCTCAACAACATTAAAATCTCATCTTAAAAAAGGCTCCTCTCAGTAGAGGCTCA
65 TCTCAGCAGAGGCTCAACAACATTAAAATC-CATCTTAAAAAAGACTCCTCTCAACAGAGGCTCA
14566647 ACAACTTT-AAAA-TC
129 ACAACTTTAAAAATTC
* *
14566661 CATCTTGAAAAAGGCTCTTCTCAGCAGAGGCTTAACAACTTTAAAATCTCATCTTGAAAAGCTCC
1 AATCTTGAAAAA-GCTCTTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGCTCC
* * *
14566726 TCTCAGCAGAGGCTCAACAACTTTAAAATCCATCTTGAAAACGACTCCTCTCAACAGAGGCTCAA
65 TCTCAGCAGAGGCTCAACAACATTAAAATCCATCTTAAAAAAGACTCCTCTCAACAGAGGCTCAA
*
14566791 CAACTTTAAAAATTT
130 CAACTTTAAAAATTC
14566806 AATCTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGGCT
1 AATCTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAA--GCT
14566871 CCTCTCAGCAGAG
63 CCTCTCAGCAGAG
14566884 ATTGTTGGTA
Statistics
Matches: 198, Mismatches: 17, Indels: 11
0.88 0.08 0.05
Matches are distributed among these distances:
142 3 0.02
143 71 0.36
144 78 0.39
145 30 0.15
147 16 0.08
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (144 bp):
AATCTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGCTCCT
CTCAGCAGAGGCTCAACAACATTAAAATCCATCTTAAAAAAGACTCCTCTCAACAGAGGCTCAAC
AACTTTAAAAATTC
Found at i:14567198 original size:182 final size:183
Alignment explanation
Indices: 14566891--14567229 Score: 626
Period size: 182 Copynumber: 1.9 Consensus size: 183
14566881 GAGATTGTTG
*
14566891 GTAGAGGCTCAACAACTTTAAAAATTTCATATGTTCTTCAAATCGAGTTCTTATCTTTGAACAAG
1 GTAGAGGCTCAACAACTTTAAAAATTTCATATGTTCTTCAAATCGAGTTCTTATCTTTGAAAAAG
*
14566956 TAAATTTTTCTCTTTTGAAATCTTTTGTTTGATTAAGAAATGGAAAGTCTCTGTCCTCATT-TTC
66 TAAAATTTTCTCTTTTGAAATCTTTTGTTTGATTAAGAAATGGAAAGTCTCTGTCCTCATTATTC
*
14567020 ATGGATGCATGGACTGAGTGCTTTAAAAATCTCATCTTGAAAAGCTCCTCTCA
131 ATGGATGCATGGACCGAGTGCTTTAAAAATCTCATCTTGAAAAGCTCCTCTCA
*
14567073 GTAGAGGCTCAACAACTTTAAAAATTTCATATGTTCTTTAAATCGAGTTCTTATCTTTGAAAAAG
1 GTAGAGGCTCAACAACTTTAAAAATTTCATATGTTCTTCAAATCGAGTTCTTATCTTTGAAAAAG
14567138 TAAAATTTTCTCTTTTGAAATCTTTTGTTTGATTAAGAAATGGAAAGTCTCTGTCCTCATTATTC
66 TAAAATTTTCTCTTTTGAAATCTTTTGTTTGATTAAGAAATGGAAAGTCTCTGTCCTCATTATTC
*
14567203 ATGGATGCATGGACCGAGTGTTTTAAA
131 ATGGATGCATGGACCGAGTGCTTTAAA
14567230 TGAAATGTAT
Statistics
Matches: 151, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
182 123 0.81
183 28 0.19
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (183 bp):
GTAGAGGCTCAACAACTTTAAAAATTTCATATGTTCTTCAAATCGAGTTCTTATCTTTGAAAAAG
TAAAATTTTCTCTTTTGAAATCTTTTGTTTGATTAAGAAATGGAAAGTCTCTGTCCTCATTATTC
ATGGATGCATGGACCGAGTGCTTTAAAAATCTCATCTTGAAAAGCTCCTCTCA
Found at i:14578158 original size:11 final size:11
Alignment explanation
Indices: 14578142--14578172 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
14578132 ATTTTTGCTT
14578142 TTTATTTTTTA
1 TTTATTTTTTA
*
14578153 TTTATTTATTA
1 TTTATTTTTTA
14578164 TTTATTTTT
1 TTTATTTTT
14578173 ACCTTTGTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:14579364 original size:20 final size:21
Alignment explanation
Indices: 14579335--14579374 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14579325 TATTTTGGTA
*
14579335 TTATTATT-AAGTTTATTTTT
1 TTATTATTAAAGTTCATTTTT
*
14579355 TTATTTTTAAAGTTCATTTT
1 TTATTATTAAAGTTCATTTT
14579375 AAAAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (21 bp):
TTATTATTAAAGTTCATTTTT
Found at i:14580091 original size:19 final size:18
Alignment explanation
Indices: 14580067--14580110 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
14580057 TGAAACTATT
**
14580067 TTTTTTTGTATTCTGACTC
1 TTTTTTTGTAAACTGAC-C
*
14580086 TTTTTTTTTAAACTGACC
1 TTTTTTTGTAAACTGACC
14580104 TTTTTTT
1 TTTTTTT
14580111 TTCTTCTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (18 bp):
TTTTTTTGTAAACTGACC
Found at i:14580511 original size:21 final size:21
Alignment explanation
Indices: 14580461--14580511 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
14580451 CTTTTCGTTC
* **
14580461 TATTTTTGTGTATTTTTTTTTT
1 TATTTTT-TGTATTGTTTTTAG
*
14580483 TATATTTTGTATTGTTTTTAG
1 TATTTTTTGTATTGTTTTTAG
14580504 TATTTTTT
1 TATTTTTT
14580512 TTATATTTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (21 bp):
TATTTTTTGTATTGTTTTTAG
Found at i:14580532 original size:37 final size:34
Alignment explanation
Indices: 14580461--14580558 Score: 112
Period size: 37 Copynumber: 2.8 Consensus size: 34
14580451 CTTTTCGTTC
*
14580461 TATTTTTGTGTA-TTTTTTT-T-TTTATATTTTG
1 TATTTTTTTGTATTTTTTTTATATTTATATTTTG
14580492 TATTGTTTTTAGTATTTTTTTTATATTTCATATTTTG
1 TATT-TTTTT-GTATTTTTTTTATATTT-ATATTTTG
14580529 TATTTTTTTGTATTTAATATTTTATATTTA
1 TATTTTTTTGTATTT--T-TTTTATATTTA
14580559 ATAATATTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
31 4 0.07
32 4 0.07
33 3 0.05
34 7 0.12
35 7 0.12
36 8 0.14
37 14 0.25
38 10 0.18
ACGTcount: A:0.19, C:0.01, G:0.07, T:0.72
Consensus pattern (34 bp):
TATTTTTTTGTATTTTTTTTATATTTATATTTTG
Found at i:14580537 original size:25 final size:25
Alignment explanation
Indices: 14580498--14580557 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
14580488 TTTGTATTGT
*
14580498 TTTTAGTATTTTTTTTATATTTCATA
1 TTTT-GTATTTTTTTTATATTTAATA
*
14580524 TTTTGTA-TTTTTTTGTATTTAATA
1 TTTTGTATTTTTTTTATATTTAATA
*
14580548 TTTTATATTT
1 TTTTGTATTT
14580558 AATAATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 21 0.70
25 5 0.17
26 4 0.13
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.72
Consensus pattern (25 bp):
TTTTGTATTTTTTTTATATTTAATA
Found at i:14584471 original size:21 final size:21
Alignment explanation
Indices: 14584414--14584483 Score: 90
Period size: 20 Copynumber: 3.4 Consensus size: 21
14584404 TTTTAAAATT
14584414 TCACTTTTAGGTATAAAATAA
1 TCACTTTTAGGTATAAAATAA
*
14584435 TTA-TTTTAGGTATAAAATAA
1 TCACTTTTAGGTATAAAATAA
* * *
14584455 TCACTTTCAGATATAAAAT-T
1 TCACTTTTAGGTATAAAATAA
14584475 TCACTTTTA
1 TCACTTTTA
14584484 AGTTTTATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (21 bp):
TCACTTTTAGGTATAAAATAA
Found at i:14584900 original size:18 final size:18
Alignment explanation
Indices: 14584851--14584900 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
14584841 AATTTTGATA
*
14584851 AAATAAGATTACA-AAGG
1 AAATAAGATTAAACAAGG
*
14584868 AAA-AA-ATTAACACAAGT
1 AAATAAGATTAA-ACAAGG
14584885 AAATAAGATTAAACAA
1 AAATAAGATTAAACAA
14584901 ATCTTATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 4 0.15
16 3 0.11
17 9 0.33
18 6 0.22
19 5 0.19
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (18 bp):
AAATAAGATTAAACAAGG
Found at i:14585223 original size:9 final size:9
Alignment explanation
Indices: 14585209--14585235 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
14585199 GTAAGTGCTA
14585209 ACTTTTACC
1 ACTTTTACC
14585218 ACTTTTACC
1 ACTTTTACC
14585227 ACTTTTACC
1 ACTTTTACC
14585236 TAATGTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (9 bp):
ACTTTTACC
Found at i:14593570 original size:103 final size:103
Alignment explanation
Indices: 14593391--14593599 Score: 418
Period size: 103 Copynumber: 2.0 Consensus size: 103
14593381 TCTATTACTA
14593391 ATCATGCTTCAAAATTTTAGGCCATTATGAATACCTTTATTATCATTCTTAATTCAAAAAATTCA
1 ATCATGCTTCAAAATTTTAGGCCATTATGAATACCTTTATTATCATTCTTAATTCAAAAAATTCA
14593456 TATTTATTAAGAATAAGAGCTTTGAGGACTTCTTCACC
66 TATTTATTAAGAATAAGAGCTTTGAGGACTTCTTCACC
14593494 ATCATGCTTCAAAATTTTAGGCCATTATGAATACCTTTATTATCATTCTTAATTCAAAAAATTCA
1 ATCATGCTTCAAAATTTTAGGCCATTATGAATACCTTTATTATCATTCTTAATTCAAAAAATTCA
14593559 TATTTATTAAGAATAAGAGCTTTGAGGACTTCTTCACC
66 TATTTATTAAGAATAAGAGCTTTGAGGACTTCTTCACC
14593597 ATC
1 ATC
14593600 TTGGAGTCTA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (103 bp):
ATCATGCTTCAAAATTTTAGGCCATTATGAATACCTTTATTATCATTCTTAATTCAAAAAATTCA
TATTTATTAAGAATAAGAGCTTTGAGGACTTCTTCACC
Found at i:14604536 original size:97 final size:96
Alignment explanation
Indices: 14604377--14604644 Score: 342
Period size: 97 Copynumber: 2.8 Consensus size: 96
14604367 ATTTTAAATT
* * * *
14604377 AATCCT-CCAAACTATTGAAAGATTTTAATTTTTGAATTAAATATTACCAAACTATTGGAAGATT
1 AATCCTACCAAACTATTGAAAGATTTAAATCTTTGAATTAAATCTTATCAAACTATTGGAAGATT
*
14604441 TAATGATTTTTATAAAAAAAATAAAATTTTC
66 TAATGATTTTTACAAAAAAAATAAAATTTTC
* * *
14604472 AATCCTACCAAACTATT-AGAGGATTTAAAATCTTTGAATTAAATCTTATCAAATTATTAGAAGA
1 AATCCTACCAAACTATTGA-AAGATTT-AAATCTTTGAATTAAATCTTATCAAACTATTGGAAGA
* *
14604536 TTTAATGAGTTTTACAAAAAAAATAACATTTTC
64 TTTAATGATTTTTACAAAAAAAATAAAATTTTC
* * * *** * *
14604569 AATTCTACCAAAATAGTGAAAGATTTAAATCTCAAAATTAAATCCTATTAAACTATTGGAAGATT
1 AATCCTACCAAACTATTGAAAGATTTAAATCTTTGAATTAAATCTTATCAAACTATTGGAAGATT
14604634 TAATGATTTTT
66 TAATGATTTTT
14604645 CTTAAGATGA
Statistics
Matches: 147, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
95 7 0.05
96 58 0.39
97 81 0.55
98 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.37
Consensus pattern (96 bp):
AATCCTACCAAACTATTGAAAGATTTAAATCTTTGAATTAAATCTTATCAAACTATTGGAAGATT
TAATGATTTTTACAAAAAAAATAAAATTTTC
Found at i:14615886 original size:42 final size:41
Alignment explanation
Indices: 14615818--14616052 Score: 187
Period size: 41 Copynumber: 5.7 Consensus size: 41
14615808 CCTCGGGTAT
*
14615818 AGCCCTTAATTTTTT-AAGTTATGTGCCTTCATGTT-AAAG
1 AGCCTTTAATTTTTTAAAGTTATGTGCCTTCATGTTGAAAG
* * ** *
14615857 AAACCTTTAATTTTTTTTAAGTTGA-GTGCCTTTGTCTTG-AAG
1 -AGCCTTTAA-TTTTTTAAAGTT-ATGTGCCTTCATGTTGAAAG
* * * * * *
14615899 AATCCCTTAATTTTTAAAAGTTGCT-TGCTTTCATGTTGAATG
1 -AGCCTTTAATTTTTTAAAGTT-ATGTGCCTTCATGTTGAAAG
*
14615941 AGTCTTTAATTTTTTAAAGTTATGTGCCTTCATGTTGAAAG
1 AGCCTTTAATTTTTTAAAGTTATGTGCCTTCATGTTGAAAG
* * **
14615982 AGCCTTTAATTTTTTTAAAGTTATATGCATTTGTGTTGAAAG
1 AGCCTTTAA-TTTTTTAAAGTTATGTGCCTTCATGTTGAAAG
* *
14616024 AG-CTCTTAA-TTTTTAAAGTTGTATGCCTT
1 AGCCT-TTAATTTTTTAAAGTTATGTGCCTT
14616053 TGTGTTATGG
Statistics
Matches: 157, Mismatches: 29, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
40 26 0.17
41 68 0.43
42 62 0.39
43 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (41 bp):
AGCCTTTAATTTTTTAAAGTTATGTGCCTTCATGTTGAAAG
Found at i:14616049 original size:40 final size:42
Alignment explanation
Indices: 14615823--14616058 Score: 163
Period size: 42 Copynumber: 5.7 Consensus size: 42
14615813 GGTATAGCCC
* * *
14615823 TTAATTTTTT-AAGTTATGTGCCTTCATGTT-AAAGAAAC-CT
1 TTAATTTTTTAAAGTTATATGCCTTTATGTTGAAAG-AGCTCT
* * * * * *
14615863 TTAATTTTTTTTAAGTTGA-GTGCCTTTGTCTTG-AAGA-ATCCC
1 TTAA-TTTTTTAAAGTT-ATATGCCTTTATGTTGAAAGAGCT-CT
* * *
14615905 TTAATTTTTAAAAGTTGCT-TG-CTTTCATGTTGAATGAG-TCT
1 TTAATTTTTTAAAGTT-ATATGCCTTT-ATGTTGAAAGAGCTCT
* *
14615946 TTAATTTTTTAAAGTTATGTGCCTTCATGTTGAAAGAGC-CT
1 TTAATTTTTTAAAGTTATATGCCTTTATGTTGAAAGAGCTCT
* *
14615987 TTAATTTTTTTAAAGTTATATGCATTTGTGTTGAAAGAGCTC-
1 TTAA-TTTTTTAAAGTTATATGCCTTTATGTTGAAAGAGCTCT
* *
14616029 TTAA-TTTTTAAAGTTGTATGCCTTTGTGTT
1 TTAATTTTTTAAAGTTATATGCCTTTATGTT
14616059 ATGGTAGCCT
Statistics
Matches: 159, Mismatches: 22, Indels: 30
0.75 0.10 0.14
Matches are distributed among these distances:
40 33 0.21
41 59 0.37
42 65 0.41
43 2 0.01
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (42 bp):
TTAATTTTTTAAAGTTATATGCCTTTATGTTGAAAGAGCTCT
Found at i:14616446 original size:14 final size:15
Alignment explanation
Indices: 14616429--14616466 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
14616419 TTTTGTTTTA
14616429 TATCTTT-TTATATT
1 TATCTTTATTATATT
*
14616443 TATCTTTATTATTTT
1 TATCTTTATTATATT
14616458 TAT-TTTATT
1 TATCTTTATT
14616467 TCTTGGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (15 bp):
TATCTTTATTATATT
Found at i:14624557 original size:55 final size:55
Alignment explanation
Indices: 14624496--14624603 Score: 144
Period size: 55 Copynumber: 2.0 Consensus size: 55
14624486 CGTTCTTATA
* * *
14624496 GGTATGTATGTTTAAGTAGACTAGAGGAGAATGAGATGATCTACATAAATATGGT
1 GGTATGTATATTTAAGTAGACTAAAGGAGAATGAGATGATCCACATAAATATGGT
* * * * *
14624551 GGTATGTATATTTGAGTGGACTAAAGGAGACTGAGATGGTCCACATAAGTATG
1 GGTATGTATATTTAAGTAGACTAAAGGAGAATGAGATGATCCACATAAATATG
14624604 ATGAATGGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (55 bp):
GGTATGTATATTTAAGTAGACTAAAGGAGAATGAGATGATCCACATAAATATGGT
Done.