Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 42 of 82
Found at i:15697353 original size:16 final size:14
Alignment explanation
Indices: 15697332--15697366 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
15697322 AATATTATTT
15697332 TATTATTTATATAATA
1 TATTATTTAT-T-ATA
15697348 TATTATTTATTATA
1 TATTATTTATTATA
15697362 TATTA
1 TATTA
15697367 ACTAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 1 0.05
16 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTATTTATTATA
Found at i:15703382 original size:14 final size:14
Alignment explanation
Indices: 15703363--15703389 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15703353 ACATGAGACT
15703363 CAAGACCCAAGAAC
1 CAAGACCCAAGAAC
15703377 CAAGACCCAAGAA
1 CAAGACCCAAGAA
15703390 TTAGGAACCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.33, G:0.15, T:0.00
Consensus pattern (14 bp):
CAAGACCCAAGAAC
Found at i:15717513 original size:21 final size:21
Alignment explanation
Indices: 15717474--15717514 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15717464 GTTCGTTGTC
*
15717474 CTTCTTCTTTTCCATTTTCTA
1 CTTCTTCTTTTCCAGTTTCTA
**
15717495 CTTCTTCTTTTTTAGTTTCT
1 CTTCTTCTTTTCCAGTTTCT
15717515 CCGATATCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.24, G:0.02, T:0.66
Consensus pattern (21 bp):
CTTCTTCTTTTCCAGTTTCTA
Found at i:15724831 original size:19 final size:18
Alignment explanation
Indices: 15724809--15724847 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
15724799 AGGGATTTCT
15724809 AAAAAAAACTAAAAAACAA
1 AAAAAAAACTAAAAAA-AA
* *
15724828 AAAAAAGATTAAAAAAAA
1 AAAAAAAACTAAAAAAAA
15724846 AA
1 AA
15724848 CAAAGCAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.85, C:0.05, G:0.03, T:0.08
Consensus pattern (18 bp):
AAAAAAAACTAAAAAAAA
Found at i:15724844 original size:31 final size:30
Alignment explanation
Indices: 15724809--15724875 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
15724799 AGGGATTTCT
15724809 AAAAAAAACTAAA-AAACAAAAAAAAGATTAA
1 AAAAAAAAC-AAAGAAACAAAAAAAAGA-TAA
* * *
15724840 AAAAAAAACAAAGCAACATAAAAGAGATAA
1 AAAAAAAACAAAGAAACAAAAAAAAGATAA
15724870 AAAAAA
1 AAAAAA
15724876 GATGGAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.79, C:0.07, G:0.06, T:0.07
Consensus pattern (30 bp):
AAAAAAAACAAAGAAACAAAAAAAAGATAA
Found at i:15728394 original size:22 final size:21
Alignment explanation
Indices: 15728342--15728395 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
15728332 TAATAACTAA
**
15728342 TCATGCAATATTTAAAAACAG
1 TCATGCAATGCTTAAAAACAG
* * *
15728363 TTACGTAATGCTTAAAAACCAG
1 TCATGCAATGCTTAAAAA-CAG
15728385 TCATGCAATGC
1 TCATGCAATGC
15728396 AATGCTGGAT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.28
Consensus pattern (21 bp):
TCATGCAATGCTTAAAAACAG
Found at i:15730258 original size:24 final size:23
Alignment explanation
Indices: 15730225--15730272 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
15730215 AGGTGTTTTT
**
15730225 ATTTATTTTATTAGTTTAGTTTA
1 ATTTATTTTAAAAGTTTAGTTTA
*
15730248 ATTTATGTTTAAAAGTTTATTTTA
1 ATTTAT-TTTAAAAGTTTAGTTTA
15730272 A
1 A
15730273 ATTAATAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.60
Consensus pattern (23 bp):
ATTTATTTTAAAAGTTTAGTTTA
Found at i:15734367 original size:22 final size:22
Alignment explanation
Indices: 15734339--15734597 Score: 176
Period size: 22 Copynumber: 11.6 Consensus size: 22
15734329 TAATATCCAA
15734339 GCAATGCCTAAAAACCAGTCAT
1 GCAATGCCTAAAAACCAGTCAT
15734361 GCAATGCCTAAAAACCAGTCAT
1 GCAATGCCTAAAAACCAGTCAT
* *
15734383 GTAATGTCCTAAAAACCAATCAT
1 GCAATG-CCTAAAAACCAGTCAT
* * **
15734406 TCAAAGCCTATCAACCAGTCAT
1 GCAATGCCTAAAAACCAGTCAT
* *
15734428 GTAATGACTAAAAACCAGTCAT
1 GCAATGCCTAAAAACCAGTCAT
* * * *
15734450 GTAATGCTTAAAAACCAGACAC
1 GCAATGCCTAAAAACCAGTCAT
* * **
15734472 GTAATGACTAAAAACTGGTCAT
1 GCAATGCCTAAAAACCAGTCAT
* * ***
15734494 GCAATACTTATCCACCAGTCACT
1 GCAATGCCTAAAAACCAGTCA-T
* ** * *
15734517 GTAATGCCTTATCAACTAGTCAC
1 GCAATGCC-TAAAAACCAGTCAT
* * * *
15734540 ACTATGACTAAAAACCAGTCAC
1 GCAATGCCTAAAAACCAGTCAT
* * * * *
15734562 GTAATGTCTAAAAATCAGTAAC
1 GCAATGCCTAAAAACCAGTCAT
15734584 GCAATGCCTAAAAA
1 GCAATGCCTAAAAA
15734598 TAGATCACTT
Statistics
Matches: 180, Mismatches: 54, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
22 141 0.78
23 28 0.16
24 11 0.06
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.23
Consensus pattern (22 bp):
GCAATGCCTAAAAACCAGTCAT
Found at i:15734466 original size:44 final size:44
Alignment explanation
Indices: 15734341--15734597 Score: 208
Period size: 44 Copynumber: 5.8 Consensus size: 44
15734331 ATATCCAAGC
*
15734341 AATGCCTAAAAACCAGTCATGCAATGCCTAAAAACCAGTCATGT
1 AATGACTAAAAACCAGTCATGCAATGCCTAAAAACCAGTCATGT
* * * * **
15734385 AATGTCCTAAAAACCAATCATTCAAAGCCTATCAACCAGTCATGT
1 AATG-ACTAAAAACCAGTCATGCAATGCCTAAAAACCAGTCATGT
* * * *
15734430 AATGACTAAAAACCAGTCATGTAATGCTTAAAAACCAGACACGT
1 AATGACTAAAAACCAGTCATGCAATGCCTAAAAACCAGTCATGT
** * * ***
15734474 AATGACTAAAAACTGGTCATGCAATACTTATCCACCAGTCACTGT
1 AATGACTAAAAACCAGTCATGCAATGCCTAAAAACCAGTCA-TGT
* ** * ** * * *
15734519 AATGCCTTATCAACTAGTCACACTATGACTAAAAACCAGTCACGT
1 AATGAC-TAAAAACCAGTCATGCAATGCCTAAAAACCAGTCATGT
* * * *
15734564 AATGTCTAAAAATCAGTAACGCAATGCCTAAAAA
1 AATGACTAAAAACCAGTCATGCAATGCCTAAAAA
15734598 TAGATCACTT
Statistics
Matches: 163, Mismatches: 47, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
44 87 0.53
45 53 0.33
46 23 0.14
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.23
Consensus pattern (44 bp):
AATGACTAAAAACCAGTCATGCAATGCCTAAAAACCAGTCATGT
Found at i:15734520 original size:89 final size:89
Alignment explanation
Indices: 15734341--15734575 Score: 233
Period size: 89 Copynumber: 2.6 Consensus size: 89
15734331 ATATCCAAGC
* * * *
15734341 AATGCCTAAAAACCAGTCATGCAATGCCTAAAAACCAGTCATGTAATGTCCTAAAAACCAATCAT
1 AATGACTAAAAACCAGTCATGCAATGCCTAAAAACCAGACACGTAATGTACTAAAAACCAATCAT
*
15734406 TCAAAGCCTATCAACCAGTCATGT
66 GCAAAGCCTATCAACCAGTCATGT
* * ***
15734430 AATGACTAAAAACCAGTCATGTAATGCTTAAAAACCAGACACGTAATG-ACTAAAAACTGGTCAT
1 AATGACTAAAAACCAGTCATGCAATGCCTAAAAACCAGACACGTAATGTACTAAAAACCAATCAT
* *
15734494 GCAATA-CTTATCCACCAGTCACTGT
66 GCAA-AGCCTATCAACCAGTCA-TGT
* ** * ** * * *
15734519 AATGCCTTATCAACTAGTCACACTATGACTAAAAACCAGTCACGTAATGT-CTAAAAA
1 AATGAC-TAAAAACCAGTCATGCAATGCCTAAAAACCAGACACGTAATGTACTAAAAA
15734576 TCAGTAACGC
Statistics
Matches: 119, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
88 28 0.24
89 52 0.44
90 39 0.33
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.23
Consensus pattern (89 bp):
AATGACTAAAAACCAGTCATGCAATGCCTAAAAACCAGACACGTAATGTACTAAAAACCAATCAT
GCAAAGCCTATCAACCAGTCATGT
Found at i:15734656 original size:36 final size:37
Alignment explanation
Indices: 15734608--15734700 Score: 129
Period size: 37 Copynumber: 2.6 Consensus size: 37
15734598 TAGATCACTT
*
15734608 AATGCCCT-AAAACTAATCTCT-AAAACCAATCATGC
1 AATGCCCTAAAAACTAATCACTAAAAACCAATCATGC
* *
15734643 AATGCCTTAAAAACTAATCACTAAAAACCAATCATGT
1 AATGCCCTAAAAACTAATCACTAAAAACCAATCATGC
15734680 AATGCCCTAAAAA-TCAATCAC
1 AATGCCCTAAAAACT-AATCAC
15734701 GCAATGCCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
35 7 0.14
36 13 0.25
37 31 0.61
ACGTcount: A:0.46, C:0.26, G:0.05, T:0.23
Consensus pattern (37 bp):
AATGCCCTAAAAACTAATCACTAAAAACCAATCATGC
Found at i:15734710 original size:22 final size:23
Alignment explanation
Indices: 15734663--15734767 Score: 79
Period size: 23 Copynumber: 4.7 Consensus size: 23
15734653 AAACTAATCA
* *
15734663 CTAAAAACCAATCATGTAATGCC
1 CTAAAAACCAATCACGCAATGCC
*
15734686 CTAAAAATCAATCACGCAATG-C
1 CTAAAAACCAATCACGCAATGCC
* * * *
15734708 CTACATACCAGTCAAGCAATGCC
1 CTAAAAACCAATCACGCAATGCC
** * *
15734731 CTATCAACTAGTCACGCAATG-C
1 CTAAAAACCAATCACGCAATGCC
* *
15734753 CTAAAACCCGATCAC
1 CTAAAAACCAATCAC
15734768 ATAATCCCCT
Statistics
Matches: 62, Mismatches: 19, Indels: 3
0.74 0.23 0.04
Matches are distributed among these distances:
22 27 0.44
23 35 0.56
ACGTcount: A:0.39, C:0.31, G:0.10, T:0.19
Consensus pattern (23 bp):
CTAAAAACCAATCACGCAATGCC
Found at i:15734746 original size:45 final size:45
Alignment explanation
Indices: 15734697--15734811 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 45
15734687 TAAAAATCAA
* *
15734697 TCACGCAATGCCTACATACCAG-TCA-AGCAATGCCCTATCAACTAG
1 TCACGCAATGCCTA-AAACCAGATCACA-CAATCCCCTATCAACTAG
* * *
15734742 TCACGCAATGCCTAAAACCCGATCACATAATCCCCTATCAATTAG
1 TCACGCAATGCCTAAAACCAGATCACACAATCCCCTATCAACTAG
*
15734787 TCATGCAATGCCTAAAACCA-ATCAC
1 TCACGCAATGCCTAAAACCAGATCAC
15734812 GCGTGCCCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
44 10 0.16
45 50 0.82
46 1 0.02
ACGTcount: A:0.36, C:0.33, G:0.10, T:0.21
Consensus pattern (45 bp):
TCACGCAATGCCTAAAACCAGATCACACAATCCCCTATCAACTAG
Found at i:15738120 original size:62 final size:62
Alignment explanation
Indices: 15738017--15738141 Score: 160
Period size: 62 Copynumber: 2.0 Consensus size: 62
15738007 TGCTTAATTG
* ** *
15738017 TCTTGTGATATTTTAAAGTAAATACATTTTCAACCGTAACTTTATCACTTTCATTTTGGTTA
1 TCTTATGATATTTTAAAGTAAATACATTTTCAACCAAAACTTTATCACTTCCATTTTGGTTA
* * * ** *
15738079 TCTTATGATATTTTAAAGTAAATGCATTTTTAGCCAAAACTTTATTGCTTCCATTTTTGTTA
1 TCTTATGATATTTTAAAGTAAATACATTTTCAACCAAAACTTTATCACTTCCATTTTGGTTA
15738141 T
1 T
15738142 ATTACTTATA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (62 bp):
TCTTATGATATTTTAAAGTAAATACATTTTCAACCAAAACTTTATCACTTCCATTTTGGTTA
Found at i:15739110 original size:42 final size:42
Alignment explanation
Indices: 15739049--15739142 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
15739039 TACCTCTAAG
* *
15739049 AGAAAAAGAAGCATTGCGAGTAATATTCGAAACACTCC-TAGA
1 AGAAAAAGAAGCATTGCGAGTAATATTCAAAACACCCCTTA-A
* * *
15739091 AGGAAAAGAAGGATTGCGAGTAGTATTCAAAACACCCCTTAA
1 AGAAAAAGAAGCATTGCGAGTAATATTCAAAACACCCCTTAA
15739133 AGAAAAAGAA
1 AGAAAAAGAA
15739143 TTACGAAGAG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (42 bp):
AGAAAAAGAAGCATTGCGAGTAATATTCAAAACACCCCTTAA
Found at i:15739303 original size:42 final size:42
Alignment explanation
Indices: 15739257--15739388 Score: 150
Period size: 42 Copynumber: 3.2 Consensus size: 42
15739247 AAGCTCCTAA
*
15739257 GAGAAGAAAAAACCTTACGAGTAATATTTGGAACACCT-TCAG
1 GAGAAGAAAAAACATTACGAGTAATATTTGGAACACCTCT-AG
* * **
15739299 GAGAAGAAGAAGCATTACGAGTTGTATTTGGAACACCTCTAG
1 GAGAAGAAAAAACATTACGAGTAATATTTGGAACACCTCTAG
*
15739341 GTGAAG---AAACATTACGAG-AAGTATTTGGAACACCTCTAG
1 GAGAAGAAAAAACATTACGAGTAA-TATTTGGAACACCTCTAG
15739380 GAGAA-AAAA
1 GAGAAGAAAA
15739389 CATTACAACA
Statistics
Matches: 75, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
39 33 0.44
41 1 0.01
42 40 0.53
43 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (42 bp):
GAGAAGAAAAAACATTACGAGTAATATTTGGAACACCTCTAG
Found at i:15739358 original size:39 final size:39
Alignment explanation
Indices: 15739261--15739394 Score: 162
Period size: 39 Copynumber: 3.4 Consensus size: 39
15739251 TCCTAAGAGA
* * *
15739261 AGAAAAAACCTTACGAGTAATATTTGGAACACCT-TCAGG
1 AGAAGAAACATTACGAGTAGTATTTGGAACACCTCT-AGG
*
15739300 AGAAGAAGAAGCATTACGAGTTGTATTTGGAACACCTCTAGG
1 AGAAG-A-AA-CATTACGAGTAGTATTTGGAACACCTCTAGG
* *
15739342 TGAAGAAACATTACGAGAAGTATTTGGAACACCTCTAGG
1 AGAAGAAACATTACGAGTAGTATTTGGAACACCTCTAGG
*
15739381 AGAAAAAACATTAC
1 AGAAGAAACATTAC
15739395 AACACATCAT
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
39 45 0.55
40 3 0.04
41 3 0.04
42 30 0.37
43 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (39 bp):
AGAAGAAACATTACGAGTAGTATTTGGAACACCTCTAGG
Found at i:15740203 original size:72 final size:72
Alignment explanation
Indices: 15740072--15740269 Score: 222
Period size: 73 Copynumber: 2.7 Consensus size: 72
15740062 ATTAAGAAAT
* * **
15740072 AGAACCAACTTAGTCGACCAAGATGAGAGTTAGTCGACTAAGAAGCT-ACTGCCAAAATCTG-GA
1 AGAACCAACTTAGTCGACCAAGA-AAGAGTTAGTCGACTAAG-AGCTCTCTGTTAAAATCTGCGA
**
15740135 CTTCAAGAC
64 CCACAAGAC
* *
15740144 AGAACCAACTTAGTTGACCAAGAAATGAGTTAGTCGACTAA-ATGCTCTCTGTTAGAATCTGCGA
1 AGAACCAACTTAGTCGACCAAGAAA-GAGTTAGTCGACTAAGA-GCTCTCTGTTAAAATCTGCGA
*
15740208 CCAGAAGAC
64 CCACAAGAC
* * *
15740217 ATAACTAACTTAGTCGACCAAGAAGAAAGTTAGTCGACTAAGAGCTCTCTGTT
1 AGAACCAACTTAGTCGACCAAGAA-AGAGTTAGTCGACTAAGAGCTCTCTGTT
15740270 TGTAATTTGA
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
70 1 0.01
71 4 0.04
72 47 0.44
73 53 0.50
74 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (72 bp):
AGAACCAACTTAGTCGACCAAGAAAGAGTTAGTCGACTAAGAGCTCTCTGTTAAAATCTGCGACC
ACAAGAC
Found at i:15741662 original size:44 final size:43
Alignment explanation
Indices: 15741609--15741697 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 43
15741599 AAAGCATAAG
15741609 ATTTAATTTACAGTGACACATGGGCCCACGAACGACCAAAAGT
1 ATTTAATTTACAGTGACACATGGGCCCACGAACGACCAAAAGT
*
15741652 ATNTTAATTTACAGTGACACATGGGCCCACGAATGACCAAAAGT
1 AT-TTAATTTACAGTGACACATGGGCCCACGAACGACCAAAAGT
15741696 AT
1 AT
15741698 CAAAAGCGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 2 0.05
44 42 0.95
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.22
Consensus pattern (43 bp):
ATTTAATTTACAGTGACACATGGGCCCACGAACGACCAAAAGT
Found at i:15743447 original size:20 final size:20
Alignment explanation
Indices: 15743421--15743466 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
15743411 AATCTTACAT
*
15743421 TTTTTCACTTGTTTCCCTGAA
1 TTTTACACTT-TTTCCCTGAA
*
15743442 TTTTCACACTTTTTCCTTGAA
1 TTTT-ACACTTTTTCCCTGAA
15743463 TTTT
1 TTTT
15743467 TTTTACCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTTCCCTGAA
Found at i:15743467 original size:22 final size:22
Alignment explanation
Indices: 15743426--15743466 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15743416 TACATTTTTT
15743426 CACTTGTTTCCCTGAATTTTCA
1 CACTTGTTTCCCTGAATTTTCA
*
15743448 CACTT-TTTCCTTGAATTTT
1 CACTTGTTTCCCTGAATTTT
15743467 TTTTACCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTTCCCTGAATTTTCA
Found at i:15751947 original size:17 final size:17
Alignment explanation
Indices: 15751922--15751958 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15751912 AGCAAAATAT
15751922 GCACACACTAAGGGGGA
1 GCACACACTAAGGGGGA
* *
15751939 GCACTCACTTAGGGGGA
1 GCACACACTAAGGGGGA
15751956 GCA
1 GCA
15751959 ATCCTCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.24, G:0.35, T:0.11
Consensus pattern (17 bp):
GCACACACTAAGGGGGA
Found at i:15752412 original size:72 final size:73
Alignment explanation
Indices: 15752302--15752495 Score: 198
Period size: 73 Copynumber: 2.7 Consensus size: 73
15752292 TAAGAAACAA
* * *
15752302 AACCAACTTAGTCAACCAAGATGAGAGTTAGTCGACTAAGAAGCTAT-TGCCAAAATCT-AAACT
1 AACCAACTTAGTCGACCAAGA-AAGAGTTAGTCGACTAAGAAGCTATCTGCCAAAATCTGAAACC
*
15752365 TCAAGAAAG
65 ACAAGAAAG
* * * *
15752374 AACCAACTTAGTCGACCAAGAAATGAGTTAGTCGACTAA-ATGCTCTCTGCCAGAATCTGCAACC
1 AACCAACTTAGTCGACCAAGAAA-GAGTTAGTCGACTAAGAAGCTATCTGCCAAAATCTGAAACC
* * *
15752438 AGAAGACAT
65 ACAAGAAAG
* * * *
15752447 AACCAACTTAGTTGACCAAGAAAAAAGTTAGTCAACTAAG-AGCTCTCTG
1 AACCAACTTAGTCGACCAAG-AAAGAGTTAGTCGACTAAGAAGCTATCTG
15752496 TCTGAAATTT
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
71 6 0.06
72 45 0.44
73 48 0.47
74 3 0.03
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (73 bp):
AACCAACTTAGTCGACCAAGAAAGAGTTAGTCGACTAAGAAGCTATCTGCCAAAATCTGAAACCA
CAAGAAAG
Found at i:15755368 original size:19 final size:20
Alignment explanation
Indices: 15755329--15755366 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15755319 ATATAAGAAA
15755329 ACTTGTTGTAAAGAGAATTT
1 ACTTGTTGTAAAGAGAATTT
15755349 ACTTGTT-TAAAGA-AATTT
1 ACTTGTTGTAAAGAGAATTT
15755367 TAGGGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (20 bp):
ACTTGTTGTAAAGAGAATTT
Found at i:15756501 original size:27 final size:27
Alignment explanation
Indices: 15756471--15756555 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
15756461 CCCAAGTTTC
* *
15756471 TAATGCCTAGAGACATTCCCAAATGCG
1 TAATGCCCAGAGACATTCCTAAATGCG
* * * * *
15756498 TAATGCCCAAAGACGTTCTTAAGTACG
1 TAATGCCCAGAGACATTCCTAAATGCG
* *
15756525 TAAAGCCCAGAGACATTCCTAAATGTG
1 TAATGCCCAGAGACATTCCTAAATGCG
15756552 TAAT
1 TAAT
15756556 ACATAAGGAC
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (27 bp):
TAATGCCCAGAGACATTCCTAAATGCG
Found at i:15756570 original size:27 final size:27
Alignment explanation
Indices: 15756540--15756608 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
15756530 CCCAGAGACA
* **
15756540 TTCCTAAATGTGTAATACATAAGGACG
1 TTCCTAAATGCGTAATACATAAAAACG
*
15756567 TTCCTAACTGCGTAATACATAAAAACG
1 TTCCTAAATGCGTAATACATAAAAACG
* *
15756594 TTCCCAAGTGCGTAA
1 TTCCTAAATGCGTAA
15756609 CGCTCAAGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (27 bp):
TTCCTAAATGCGTAATACATAAAAACG
Found at i:15756581 original size:54 final size:54
Alignment explanation
Indices: 15756479--15756581 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 54
15756469 TCTAATGCCT
* * * *
15756479 AGAGACATTCCCAAATGCGTAATGCCCAAAGACGTTCTTAAGTACGTAAAGCCC
1 AGAGACATTCCCAAATGCGTAATACACAAAGACGTTCCTAACTACGTAAAGCCC
* * * * *
15756533 AGAGACATTCCTAAATGTGTAATACATAAGGACGTTCCTAACTGCGTAA
1 AGAGACATTCCCAAATGCGTAATACACAAAGACGTTCCTAACTACGTAA
15756582 TACATAAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 40 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.23
Consensus pattern (54 bp):
AGAGACATTCCCAAATGCGTAATACACAAAGACGTTCCTAACTACGTAAAGCCC
Found at i:15756621 original size:27 final size:27
Alignment explanation
Indices: 15756591--15756691 Score: 68
Period size: 27 Copynumber: 3.7 Consensus size: 27
15756581 ATACATAAAA
15756591 ACGTTCCCAAGTGCGTAACGCTCAAGG
1 ACGTTCCCAAGTGCGTAACGCTCAAGG
* * *
15756618 ACGTTTCCAAAGGTGC--AACAC-CCAGG
1 ACG-TTCCCAA-GTGCGTAACGCTCAAGG
* * *
15756644 AACGTTCCTC-AGTGTGTAATGCAT-AGGG
1 -ACGTTCC-CAAGTGCGTAACGC-TCAAGG
15756672 ACGTTCCCAAGTGCGTAACG
1 ACGTTCCCAAGTGCGTAACG
15756692 TATAAAGATG
Statistics
Matches: 54, Mismatches: 11, Indels: 18
0.65 0.13 0.22
Matches are distributed among these distances:
25 3 0.06
26 10 0.19
27 29 0.54
28 8 0.15
29 4 0.07
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.21
Consensus pattern (27 bp):
ACGTTCCCAAGTGCGTAACGCTCAAGG
Found at i:15756883 original size:19 final size:18
Alignment explanation
Indices: 15756838--15756884 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
15756828 AACAACTTTA
15756838 AATTAATCAGCTTTAGAC
1 AATTAATCAGCTTTAGAC
*
15756856 AATTAAATCAGTTTTA-ATC
1 AATT-AATCAGCTTTAGA-C
15756875 AACTTAATCA
1 AA-TTAATCA
15756885 AATTGTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.20
19 18 0.72
20 2 0.08
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (18 bp):
AATTAATCAGCTTTAGAC
Found at i:15757145 original size:21 final size:19
Alignment explanation
Indices: 15757121--15757161 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
15757111 GTATAGTGTA
15757121 TTAATATATTACTATATATAG
1 TTAATATA-TACT-TATATAG
15757142 TTAATATATACTTATATAG
1 TTAATATATACTTATATAG
15757161 T
1 T
15757162 ATATAAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.40
20 4 0.20
21 8 0.40
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
TTAATATATACTTATATAG
Found at i:15757483 original size:16 final size:16
Alignment explanation
Indices: 15757462--15757526 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
15757452 TATAAAGTAG
*
15757462 AATATATTAATAACTT
1 AATATAATAATAACTT
* *
15757478 AATATAAAAATAAGTT
1 AATATAATAATAACTT
**
15757494 AATATAATAAGTTGCATT
1 AATATAATAA-TAAC-TT
*
15757512 AATATATTAATAACT
1 AATATAATAATAACT
15757527 AAAATTTAGG
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
16 23 0.62
17 3 0.08
18 11 0.30
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (16 bp):
AATATAATAATAACTT
Found at i:15758237 original size:27 final size:27
Alignment explanation
Indices: 15758207--15758269 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
15758197 ATATTCCTAT
*
15758207 GTGCGTAACGTCCAAG-GACGTTGCAAA
1 GTGCATAACG-CCAAGAGACGTTGCAAA
* * *
15758234 GTGCATAATGCCCAGAGACGTTGCCAA
1 GTGCATAACGCCAAGAGACGTTGCAAA
15758261 GTGCATAAC
1 GTGCATAAC
15758270 ACCATGGGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.19
Consensus pattern (27 bp):
GTGCATAACGCCAAGAGACGTTGCAAA
Found at i:15758287 original size:27 final size:28
Alignment explanation
Indices: 15758257--15758375 Score: 131
Period size: 27 Copynumber: 4.4 Consensus size: 28
15758247 AGAGACGTTG
*
15758257 CCAAGTGCATAACACCAT-GGGACATTC
1 CCAAGTGCGTAACACCATAGGGACATTC
* *
15758284 CCAAGTGCGTATC-GCATAGGGACATTC
1 CCAAGTGCGTAACACCATAGGGACATTC
*
15758311 CCAAGTGCGT-A-ACCTTAGGGACATTC
1 CCAAGTGCGTAACACCATAGGGACATTC
* ** *
15758337 CTAAGTGCGTAACTTC-TAGGGACAGTC
1 CCAAGTGCGTAACACCATAGGGACATTC
15758364 CCAAGTGCGTAA
1 CCAAGTGCGTAA
15758376 TGACCTATTG
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
26 24 0.31
27 52 0.68
28 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.22
Consensus pattern (28 bp):
CCAAGTGCGTAACACCATAGGGACATTC
Found at i:15758336 original size:26 final size:26
Alignment explanation
Indices: 15758275--15758375 Score: 139
Period size: 27 Copynumber: 3.8 Consensus size: 26
15758265 ATAACACCAT
* *
15758275 GGGACATTCCCAAGTGCGTATCGCATA
1 GGGACATTCCCAAGTGCGTAAC-CTTA
15758302 GGGACATTCCCAAGTGCGTAACCTTA
1 GGGACATTCCCAAGTGCGTAACCTTA
* *
15758328 GGGACATTCCTAAGTGCGTAACTTCTA
1 GGGACATTCCCAAGTGCGTAACCT-TA
*
15758355 GGGACAGTCCCAAGTGCGTAA
1 GGGACATTCCCAAGTGCGTAA
15758376 TGACCTATTG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 25 0.37
27 42 0.63
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.23
Consensus pattern (26 bp):
GGGACATTCCCAAGTGCGTAACCTTA
Found at i:15758343 original size:53 final size:53
Alignment explanation
Indices: 15758275--15758375 Score: 150
Period size: 53 Copynumber: 1.9 Consensus size: 53
15758265 ATAACACCAT
* *
15758275 GGGACATTCCCAAGTGCGTATC-GCATAGGGACATTCCCAAGTGCGTAACCTTA
1 GGGACATTCCCAAGTGCGTAACTGC-TAGGGACAGTCCCAAGTGCGTAACCTTA
* *
15758328 GGGACATTCCTAAGTGCGTAACTTCTAGGGACAGTCCCAAGTGCGTAA
1 GGGACATTCCCAAGTGCGTAACTGCTAGGGACAGTCCCAAGTGCGTAA
15758376 TGACCTATTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 42 0.98
54 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.23
Consensus pattern (53 bp):
GGGACATTCCCAAGTGCGTAACTGCTAGGGACAGTCCCAAGTGCGTAACCTTA
Found at i:15760091 original size:10 final size:10
Alignment explanation
Indices: 15760078--15760117 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
15760068 GTAATTTAAA
15760078 AAAATAACTT
1 AAAATAACTT
*
15760088 AAAATTAAATT
1 AAAA-TAACTT
15760099 AAAATAACTT
1 AAAATAACTT
*
15760109 AAATTAACT
1 AAAATAACT
15760118 ACTCAACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATAACTT
Found at i:15761278 original size:19 final size:19
Alignment explanation
Indices: 15761254--15761291 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15761244 CCATTTTACT
15761254 TATTGGAGAATGATTTGAG
1 TATTGGAGAATGATTTGAG
*
15761273 TATTGGAGTATGATTTGAG
1 TATTGGAGAATGATTTGAG
15761292 GTTTAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (19 bp):
TATTGGAGAATGATTTGAG
Found at i:15762549 original size:13 final size:13
Alignment explanation
Indices: 15762531--15762556 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15762521 AGGAGAAATT
15762531 ATGATTTTATAAA
1 ATGATTTTATAAA
15762544 ATGATTTTATAAA
1 ATGATTTTATAAA
15762557 TTTTATGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:15781369 original size:17 final size:19
Alignment explanation
Indices: 15781342--15781377 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
15781332 GAATCCAAGT
15781342 CAAAGAAAATA-AGAAAAA
1 CAAAGAAAATAGAGAAAAA
15781360 CAAA-AAAATAGAGAAAAA
1 CAAAGAAAATAGAGAAAAA
15781378 AACTAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.78, C:0.06, G:0.11, T:0.06
Consensus pattern (19 bp):
CAAAGAAAATAGAGAAAAA
Found at i:15782599 original size:15 final size:15
Alignment explanation
Indices: 15782579--15782608 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15782569 GTAAATTTTG
15782579 TAATGATAACAAAAA
1 TAATGATAACAAAAA
*
15782594 TAATGATAATAAAAA
1 TAATGATAACAAAAA
15782609 AATAAATATG
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:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (15 bp):
TAATGATAACAAAAA
Found at i:15783223 original size:66 final size:66
Alignment explanation
Indices: 15783076--15783223 Score: 154
Period size: 66 Copynumber: 2.2 Consensus size: 66
15783066 TGATCGACAC
* * * * * * * *
15783076 GTTCTCACATTATTAAGTTTAACATCGAATAAATCATTCCTTAACGTGCTCTTCCATGACAAGTA
1 GTTCTCACATAATTGAGCTTAACATCCAATAAATCATTCCTTAACATGCTCTTACATGAAAAGCA
15783141 T
66 T
* * * * *
15783142 GCTCTCCCATGATTGAGCTTAACATCCAATAACT-ATTCTTTAACATGCTCTTACATGATAAAGC
1 GTTCTCACATAATTGAGCTTAACATCCAATAAATCATTCCTTAACATGCTCTTACATGA-AAAGC
15783206 AT
65 AT
*
15783208 GTTCTCTCATAATTGA
1 GTTCTCACATAATTGA
15783224 ACGTGTTTTC
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
65 21 0.32
66 45 0.68
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (66 bp):
GTTCTCACATAATTGAGCTTAACATCCAATAAATCATTCCTTAACATGCTCTTACATGAAAAGCA
T
Found at i:15793355 original size:4 final size:4
Alignment explanation
Indices: 15793346--15793373 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
15793336 GGAACCATCG
15793346 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
15793374 ACCTAGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:15796792 original size:6 final size:6
Alignment explanation
Indices: 15796781--15796819 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
15796771 CTTGTAACCA
* * *
15796781 CTGTCT CTGTCT CTGTAT CTGTCT CTCTCT CTCTCT CTG
1 CTGTCT CTGTCT CTGTCT CTGTCT CTGTCT CTGTCT CTG
15796820 GTAGTGAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.03, C:0.36, G:0.13, T:0.49
Consensus pattern (6 bp):
CTGTCT
Found at i:15802560 original size:2 final size:2
Alignment explanation
Indices: 15802553--15802632 Score: 142
Period size: 2 Copynumber: 39.5 Consensus size: 2
15802543 ATTGACCTAT
*
15802553 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA NA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
15802596 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15802633 CAGGTTTTCT
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 74 0.99
3 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:15810301 original size:81 final size:82
Alignment explanation
Indices: 15810208--15810417 Score: 325
Period size: 82 Copynumber: 2.6 Consensus size: 82
15810198 GTTTAAATTG
* * * * *
15810208 GACCAATCAAAATTTAATTATTGGTTATCCAATTTATTTTTAAATAA-ATCAGGGTAATTTAGAG
1 GACCAATCAAAATTTAATTATTGGTCATTCAATTTATCTTTAAATAATATCAAGATAATTTAGAG
*
15810272 ATAATATTTATATTTTT
66 ATAATATTCATATTTTT
*
15810289 GACCAATCAAAATTTAATTATTGGTCATTCAATTTATCTCTAAATAATATCAAGATAATTTAGAG
1 GACCAATCAAAATTTAATTATTGGTCATTCAATTTATCTTTAAATAATATCAAGATAATTTAGAG
15810354 ATAATATTCATATTTTT
66 ATAATATTCATATTTTT
* *
15810371 GACCAATCAAAATTTAAGTATTGGTCATTTAATTTATCTTT-AATAAT
1 GACCAATCAAAATTTAATTATTGGTCATTCAATTTATCTTTAAATAAT
15810418 TATATTAATA
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
81 49 0.42
82 69 0.58
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.43
Consensus pattern (82 bp):
GACCAATCAAAATTTAATTATTGGTCATTCAATTTATCTTTAAATAATATCAAGATAATTTAGAG
ATAATATTCATATTTTT
Found at i:15810728 original size:36 final size:35
Alignment explanation
Indices: 15810687--15810763 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
15810677 ATTCATTCAA
15810687 AGGCATTCGAAGATTCAGAAGCATTCAAAGATTGGG
1 AGGCATTCGAAGATT-AGAAGCATTCAAAGATTGGG
* * *
15810723 AGGCATTCGAAGATTGGGAGCATTCGAAGATTGGG
1 AGGCATTCGAAGATTAGAAGCATTCAAAGATTGGG
15810758 A-GCATT
1 AGGCATT
15810764 ACAGAGATCG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 5 0.13
35 18 0.47
36 15 0.39
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.23
Consensus pattern (35 bp):
AGGCATTCGAAGATTAGAAGCATTCAAAGATTGGG
Found at i:15810747 original size:17 final size:17
Alignment explanation
Indices: 15810689--15810763 Score: 105
Period size: 18 Copynumber: 4.3 Consensus size: 17
15810679 TCATTCAAAG
* *
15810689 GCATTCGAAGATTCAGAA
1 GCATTCGAAGATT-GGGA
*
15810707 GCATTCAAAGATTGGGA
1 GCATTCGAAGATTGGGA
15810724 GGCATTCGAAGATTGGGA
1 -GCATTCGAAGATTGGGA
15810742 GCATTCGAAGATTGGGA
1 GCATTCGAAGATTGGGA
15810759 GCATT
1 GCATT
15810764 ACAGAGATCG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
17 24 0.46
18 28 0.54
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (17 bp):
GCATTCGAAGATTGGGA
Found at i:15810833 original size:29 final size:29
Alignment explanation
Indices: 15810799--15810878 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 29
15810789 TTTTGAAGTG
*
15810799 AAGATCGAGCAACAACGAAGTTCATGATC
1 AAGATCAAGCAACAACGAAGTTCATGATC
* * *
15810828 AAGATCAAGCGACAACAAAGTTCGTGATC
1 AAGATCAAGCAACAACGAAGTTCATGATC
* *
15810857 AAGATCAAGCAGCAGCGAAGTT
1 AAGATCAAGCAACAACGAAGTT
15810879 TGTCAACGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (29 bp):
AAGATCAAGCAACAACGAAGTTCATGATC
Found at i:15810904 original size:42 final size:42
Alignment explanation
Indices: 15810840--15810920 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
15810830 GATCAAGCGA
* *
15810840 CAACAAAGTTCGTGATCAAGATCAAGCAGCAGCGAAGTTTGT
1 CAACAAAGTTCGTGATCAAGATCAAGCAACAGCAAAGTTTGT
*
15810882 CAACGAAGTTCGTGATCAAGATCAAGCAACAGCAAAGTT
1 CAACAAAGTTCGTGATCAAGATCAAGCAACAGCAAAGTT
15810921 CATGATCAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (42 bp):
CAACAAAGTTCGTGATCAAGATCAAGCAACAGCAAAGTTTGT
Found at i:15810947 original size:51 final size:51
Alignment explanation
Indices: 15810889--15811005 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
15810879 TGTCAACGAA
**
15810889 GTTCGTGATCAAGATCAAGCAACAGCAA-AGTTCATG-A-TCAAGATATCAAGT
1 GTTCGTGATCAAGATCAAG--ACAGCAAGACCT-ATGAAGTCAAGATATCAAGT
* * *
15810940 GTTCGTGATCAAGATCAAGTCATCAAGACCTATGAAGTGAAGATATCAAGT
1 GTTCGTGATCAAGATCAAGACAGCAAGACCTATGAAGTCAAGATATCAAGT
15810991 GTTCGTGATCAAGAT
1 GTTCGTGATCAAGAT
15811006 TAAGTCGTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
49 8 0.14
50 3 0.05
51 47 0.81
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (51 bp):
GTTCGTGATCAAGATCAAGACAGCAAGACCTATGAAGTCAAGATATCAAGT
Found at i:15821939 original size:40 final size:40
Alignment explanation
Indices: 15821843--15822051 Score: 137
Period size: 36 Copynumber: 5.5 Consensus size: 40
15821833 TTCTAAATTG
* * ** *
15821843 TGTGCTATTATAAAAAGCACCTTCCAATAATCAAC--A-A
1 TGTGCTATTATAAAGAGCACCCTCCAAGGATTAACAAATA
* *
15821880 -GTGCTACTATAAA-AGGCACCCTCCAAGGA-TAACAAATTG
1 TGTGCTATTATAAAGA-GCACCCTCCAAGGATTAACAAA-TA
* * *
15821919 TGTGTTATTATAAAGAGCACCCT-GAATGA-T--C-AATA
1 TGTGCTATTATAAAGAGCACCCTCCAAGGATTAACAAATA
* * * *
15821954 AGTGCAATTAT-AAGAAGCACCCTCTAAGGATT-A-AGA-A
1 TGTGCTATTATAAAG-AGCACCCTCCAAGGATTAACAAATA
15821991 -GTGCTATTATAAAGAGCA-CCTCCAAGGATTAACAAATTA
1 TGTGCTATTATAAAGAGCACCCTCCAAGGATTAACAAA-TA
15822030 TGTGCTATTATAAAGAGCACCC
1 TGTGCTATTATAAAGAGCACCC
15822052 CTCATAAATC
Statistics
Matches: 133, Mismatches: 20, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
34 3 0.02
35 32 0.24
36 43 0.32
37 9 0.07
38 1 0.01
39 6 0.05
40 36 0.27
41 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (40 bp):
TGTGCTATTATAAAGAGCACCCTCCAAGGATTAACAAATA
Found at i:15821983 original size:75 final size:76
Alignment explanation
Indices: 15821837--15821984 Score: 192
Period size: 75 Copynumber: 2.0 Consensus size: 76
15821827 TAGTAATTCT
* *
15821837 AAATTGTGTGCTATTATAAAAAGCACCTTCCAATAATCAACAAGTGCTACTATAAAAGGCACCCT
1 AAATTGTGTGCTATTATAAAAAGCACCCTCCAATAATCAACAAGTGCAACTATAAAAGGCACCCT
15821902 CCAAGGATAAC
66 CCAAGGATAAC
* * * * * *
15821913 AAATTGTGTGTTATTATAAAGAGCACCCT-GAATGATCAATAAGTGCAATTATAAGAA-GCACCC
1 AAATTGTGTGCTATTATAAAAAGCACCCTCCAATAATCAACAAGTGCAACTATAA-AAGGCACCC
*
15821976 TCTAAGGAT
65 TCCAAGGAT
15821985 TAAGAAGTGC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
75 34 0.55
76 28 0.45
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (76 bp):
AAATTGTGTGCTATTATAAAAAGCACCCTCCAATAATCAACAAGTGCAACTATAAAAGGCACCCT
CCAAGGATAAC
Found at i:15823335 original size:80 final size:80
Alignment explanation
Indices: 15823231--15823455 Score: 339
Period size: 79 Copynumber: 2.8 Consensus size: 80
15823221 ATTTAAATTG
* *
15823231 GACCAATCAAAATTTAATTATTGGTCATATAATTTGTCTCTAAATAAATCAAGATAATTTAGAGA
1 GACCAATCAAAATTTAATTATTGGTCATCTAATTTATCTCTAAAT-AATCAAGATAATTTAGAGA
*
15823296 TAATGTTCATA-TTTT
65 TAATATTCATATTTTT
* *
15823311 GACCAATCAAAATTTAGTTATTGGTCATCCAATTTATCTCTAAAT-ATCAAGATAATTTAGAGAT
1 GACCAATCAAAATTTAATTATTGGTCATCTAATTTATCTCTAAATAATCAAGATAATTTAGAGAT
15823375 AATATTCATATTTTT
66 AATATTCATATTTTT
* * * *
15823390 GACCAATCAAAATTTAAATATTGGTCACCTAATTTATCTCT-AATAATTATGATAATTTAGAGAT
1 GACCAATCAAAATTTAATTATTGGTCATCTAATTTATCTCTAAATAATCAAGATAATTTAGAGAT
15823454 AA
66 AA
15823456 AAATCAAATT
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
78 31 0.23
79 60 0.45
80 41 0.31
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (80 bp):
GACCAATCAAAATTTAATTATTGGTCATCTAATTTATCTCTAAATAATCAAGATAATTTAGAGAT
AATATTCATATTTTT
Found at i:15823424 original size:79 final size:79
Alignment explanation
Indices: 15823203--15823455 Score: 336
Period size: 79 Copynumber: 3.2 Consensus size: 79
15823193 TTATCCCTTG
* * * **
15823203 AGATAATTT-GAAGATAATATTTA-AATTGGACCAATCAAAATTTAATTATTGGTCATATAATTT
1 AGATAATTTAG-AGATAATATTCATATTTTGACCAATCAAAATTTAATTATTGGTCACCTAATTT
*
15823266 GTCTCTAAATAAATCA
65 ATCTCTAAAT-AATCA
* *
15823282 AGATAATTTAGAGATAATGTTCATATTTTGACCAATCAAAATTTAGTTATTGGTCATCC-AATTT
1 AGATAATTTAGAGATAATATTCATATTTTGACCAATCAAAATTTAATTATTGGTCA-CCTAATTT
15823346 ATCTCTAAAT-ATCA
65 ATCTCTAAATAATCA
*
15823360 AGATAATTTAGAGATAATATTCATATTTTTGACCAATCAAAATTTAAATATTGGTCACCTAATTT
1 AGATAATTTAGAGATAATATTCATA-TTTTGACCAATCAAAATTTAATTATTGGTCACCTAATTT
*
15823425 ATCTCT-AATAATTA
65 ATCTCTAAATAATCA
*
15823439 TGATAATTTAGAGATAA
1 AGATAATTTAGAGATAA
15823456 AAATCAAATT
Statistics
Matches: 155, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
78 33 0.21
79 78 0.50
80 44 0.28
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (79 bp):
AGATAATTTAGAGATAATATTCATATTTTGACCAATCAAAATTTAATTATTGGTCACCTAATTTA
TCTCTAAATAATCA
Found at i:15823749 original size:18 final size:18
Alignment explanation
Indices: 15823728--15823779 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
15823718 ATTCGAAAGC
*
15823728 ATTCGAAGATTGAGAGGT
1 ATTCAAAGATTGAGAGGT
15823746 ATTCAAAGATTGAGAGGT
1 ATTCAAAGATTGAGAGGT
15823764 ATTCAAAGATTGAGAG
1 ATTCAAAGATTGAGAG
15823780 CATTAGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.38, C:0.06, G:0.29, T:0.27
Consensus pattern (18 bp):
ATTCAAAGATTGAGAGGT
Found at i:15823755 original size:36 final size:36
Alignment explanation
Indices: 15823710--15823779 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
15823700 ATTTAGAGAC
* *
15823710 ATTCGAAGATTCGA-AAGCATTCGAAGATTGAGAGGT
1 ATTCAAAGATT-GAGAAGCATTCAAAGATTGAGAGGT
* *
15823746 ATTCAAAGATTGAGAGGTATTCAAAGATTGAGAG
1 ATTCAAAGATTGAGAAGCATTCAAAGATTGAGAG
15823780 CATTAGGGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 2 0.07
36 27 0.93
ACGTcount: A:0.39, C:0.09, G:0.27, T:0.26
Consensus pattern (36 bp):
ATTCAAAGATTGAGAAGCATTCAAAGATTGAGAGGT
Found at i:15823926 original size:29 final size:29
Alignment explanation
Indices: 15823835--15823927 Score: 141
Period size: 29 Copynumber: 3.2 Consensus size: 29
15823825 ATGCAACAAG
15823835 GAAGTTCGTGATCAAGATCAAGCGGCAAC
1 GAAGTTCGTGATCAAGATCAAGCGGCAAC
* *
15823864 GAAATTCGTGATCAAGATCAAACGGCAAC
1 GAAGTTCGTGATCAAGATCAAGCGGCAAC
* * *
15823893 AAAGTTCGTGATCAAGATCAAGCGGTAGC
1 GAAGTTCGTGATCAAGATCAAGCGGCAAC
15823922 GAAGTT
1 GAAGTT
15823928 TGTCAGTGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (29 bp):
GAAGTTCGTGATCAAGATCAAGCGGCAAC
Found at i:15824055 original size:103 final size:103
Alignment explanation
Indices: 15823932--15824157 Score: 326
Period size: 103 Copynumber: 2.2 Consensus size: 103
15823922 GAAGTTTGTC
* * *
15823932 AGTGAAGTTCATGATTAAGATCAAGTTGTCAAGACCCTTCAAGCGAAGATATCAAGTGTTCATAA
1 AGTGAAGTTCGTGATCAAGATCAAGTCGTCAAGACCCTTCAAGCGAAGATATCAAGTGTTCATAA
* *
15823997 TCAAGATTAAGTCGTTAAGACTCTTGAAGCGAAGATCA
66 TCAAAATTAAGTCGTTAAGACCCTTGAAGCGAAGATCA
* * * * *
15824035 AGTGAAGTTTGTGATCAAGATCACGTCGTCAAGACCCTTGAAGCGAAGATATCAAGTGTTCGTGA
1 AGTGAAGTTCGTGATCAAGATCAAGTCGTCAAGACCCTTCAAGCGAAGATATCAAGTGTTCATAA
* *
15824100 TCAAAATTAAGTTGTTAAGACCCTTGAAGTGAAGATCA
66 TCAAAATTAAGTCGTTAAGACCCTTGAAGCGAAGATCA
**
15824138 AGCAAAGTTCGTGATCAAGA
1 AGTGAAGTTCGTGATCAAGA
15824158 CTAAGTTCGA
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (103 bp):
AGTGAAGTTCGTGATCAAGATCAAGTCGTCAAGACCCTTCAAGCGAAGATATCAAGTGTTCATAA
TCAAAATTAAGTCGTTAAGACCCTTGAAGCGAAGATCA
Found at i:15824069 original size:52 final size:51
Alignment explanation
Indices: 15823936--15824163 Score: 212
Period size: 51 Copynumber: 4.4 Consensus size: 51
15823926 TTTGTCAGTG
* * * * * *
15823936 AAGTTCATGATTAAGATCAAGTTGTCAAGACCCTTCAAGCGAAGATATCAAGT
1 AAGTTCGTGATCAAGATTAAGTCGTTAAGACCCTTGAAGCGAAG--ATCAAGT
* * *
15823989 --GTTCATAATCAAGATTAAGTCGTTAAGACTCTTGAAGCGAAGATCAAGT
1 AAGTTCGTGATCAAGATTAAGTCGTTAAGACCCTTGAAGCGAAGATCAAGT
* * * *
15824038 GAAGTTTGTGATCAAGATCACGTCGTCAAGACCCTTGAAGCGAAGATATCAAGT
1 -AAGTTCGTGATCAAGATTAAGTCGTTAAGACCCTTGAAGCGAAG--ATCAAGT
* * * *
15824092 --GTTCGTGATCAAAATTAAGTTGTTAAGACCCTTGAAGTGAAGATCAAGCA
1 AAGTTCGTGATCAAGATTAAGTCGTTAAGACCCTTGAAGCGAAGATCAAG-T
*
15824142 AAGTTCGTGATCAAGACTAAGT
1 AAGTTCGTGATCAAGATTAAGT
15824164 TCGAGTTCAT
Statistics
Matches: 143, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
49 13 0.09
51 70 0.49
52 53 0.37
54 7 0.05
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (51 bp):
AAGTTCGTGATCAAGATTAAGTCGTTAAGACCCTTGAAGCGAAGATCAAGT
Found at i:15824155 original size:17 final size:18
Alignment explanation
Indices: 15824133--15824166 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15824123 TTGAAGTGAA
15824133 GATCAAG-CAAAGTTCGT
1 GATCAAGACAAAGTTCGT
*
15824150 GATCAAGACTAAGTTCG
1 GATCAAGACAAAGTTCG
15824167 AGTTCATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (18 bp):
GATCAAGACAAAGTTCGT
Found at i:15839592 original size:76 final size:76
Alignment explanation
Indices: 15839401--15839593 Score: 255
Period size: 76 Copynumber: 2.5 Consensus size: 76
15839391 CAACCTTTTT
* * * * *
15839401 TAACCATGACGTGTAACATGTTTTTGTATGTGGCATGTAACAACAATATTTTTTTTCAACATGGC
1 TAACCATGGCGTGTAACATGTTTTTGTATATGGCTTGTAATAACAATATTTTTTTTCAACATAGC
15839466 GTGTAACAACC
66 GTGTAACAACC
* * * * * *
15839477 TAACCATGGTGTGTAATATATTTTTATACATGG-TGTGTAATAACAGT-TATTTTTTTCAACATA
1 TAACCATGGCGTGTAACATGTTTTTGTATATGGCT-TGTAATAACAATAT-TTTTTTTCAACATA
15839540 GCGTGTAACAACC
64 GCGTGTAACAACC
15839553 TAACCATGGCGTGTAACATGTTTTTGTATATGGCTTGTAAT
1 TAACCATGGCGTGTAACATGTTTTTGTATATGGCTTGTAAT
15839594 TTCATTAAAG
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
75 1 0.01
76 96 0.98
77 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (76 bp):
TAACCATGGCGTGTAACATGTTTTTGTATATGGCTTGTAATAACAATATTTTTTTTCAACATAGC
GTGTAACAACC
Found at i:15841215 original size:29 final size:28
Alignment explanation
Indices: 15841135--15841293 Score: 124
Period size: 28 Copynumber: 5.5 Consensus size: 28
15841125 CAGCTTTAAC
* * *
15841135 ATGTTTATCTTAATTTAAACACG-AAAC
1 ATGTTTGTCTTAATTTAAACAAGAAAAT
* *
15841162 ATGTTTGGTCTTAATTTATATAAGAAAAT
1 ATGTTT-GTCTTAATTTAAACAAGAAAAT
*
15841191 ATGTTTCTCTTAATTTAAGACAAGAAAAAT
1 ATGTTTGTCTTAATTTAA-ACAAG-AAAAT
* * * *
15841221 ATTTTTTGTCTT-ACTTAGACAAGAAAAC
1 A-TGTTTGTCTTAATTTAAACAAGAAAAT
* *
15841249 ATATTTGTCTCAATTTAAACAAGATAAAAT
1 ATGTTTGTCTTAATTTAAACAAG--AAAAT
* *
15841279 ATTTTTATCTTAATT
1 ATGTTTGTCTTAATT
15841294 AAATATAAGA
Statistics
Matches: 103, Mismatches: 21, Indels: 13
0.75 0.15 0.09
Matches are distributed among these distances:
27 14 0.14
28 37 0.36
29 18 0.17
30 26 0.25
31 8 0.08
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.42
Consensus pattern (28 bp):
ATGTTTGTCTTAATTTAAACAAGAAAAT
Found at i:15841487 original size:18 final size:18
Alignment explanation
Indices: 15841445--15841478 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15841435 AAAATAATAA
15841445 AATAAG-AGTTATTATTT
1 AATAAGAAGTTATTATTT
15841462 AATAAGAAGTT-TTATTT
1 AATAAGAAGTTATTATTT
15841479 TATCAAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (18 bp):
AATAAGAAGTTATTATTT
Found at i:15845414 original size:26 final size:26
Alignment explanation
Indices: 15845378--15845452 Score: 132
Period size: 26 Copynumber: 2.9 Consensus size: 26
15845368 TAGAATAACT
*
15845378 AGAACAAGTGAAGCGTTACTTCACGC
1 AGAACAAGTGAAGCGCTACTTCACGC
15845404 AGAACAAGTGAAGCGCTACTTCACGC
1 AGAACAAGTGAAGCGCTACTTCACGC
*
15845430 AAAACAAGTGAAGCGCTACTTCA
1 AGAACAAGTGAAGCGCTACTTCA
15845453 AGTATTACTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.17
Consensus pattern (26 bp):
AGAACAAGTGAAGCGCTACTTCACGC
Found at i:15845764 original size:29 final size:28
Alignment explanation
Indices: 15845732--15845801 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
15845722 CTCGTATACT
*
15845732 TATTCATGTACAGCTTATTCTCTTGTACC
1 TATTC-TGTACAGCTTATTCTCTCGTACC
* *
15845761 TATTCTCATACAGCTTCTTCTCTCGTACC
1 TATTCT-GTACAGCTTATTCTCTCGTACC
15845790 TATTCTTGTACA
1 TATTC-TGTACA
15845802 CCTCTTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 33 0.94
30 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.44
Consensus pattern (28 bp):
TATTCTGTACAGCTTATTCTCTCGTACC
Found at i:15846031 original size:15 final size:15
Alignment explanation
Indices: 15846013--15846042 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15846003 CATTCTCAAC
15846013 CTAAATTCTCTCTCT
1 CTAAATTCTCTCTCT
15846028 CTAAATTCTCTCTCT
1 CTAAATTCTCTCTCT
15846043 AATTATCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (15 bp):
CTAAATTCTCTCTCT
Found at i:15847091 original size:87 final size:86
Alignment explanation
Indices: 15846990--15847149 Score: 243
Period size: 87 Copynumber: 1.8 Consensus size: 86
15846980 ATAGATTTTC
* * * *
15846990 GTTTTGTGTGTATTTGAAACTGAAA-TGTGAGTAAATT-GTTTTGTTGTGTTTTGAGTTTATTAG
1 GTTTTGTGTGTATTTGAAACT-AAAGTATGAATAAATTAGTTTTG-TGTGTTTTGAGTTTACTAA
15847053 TTTGTGTTTGAAAACAACAGATT
64 TTTGTGTTTGAAAACAACAGATT
15847076 GTTTATGTGTGTATTTGAAACTAAAGTATGAATAAATTAGTTTTGTGTGTTTTGAGTTTACTAAT
1 GTTT-TGTGTGTATTTGAAACTAAAGTATGAATAAATTAGTTTTGTGTGTTTTGAGTTTACTAAT
15847141 TTGTGTTTG
65 TTGTGTTTG
15847150 GAAATGACAA
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
86 7 0.10
87 54 0.81
88 6 0.09
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (86 bp):
GTTTTGTGTGTATTTGAAACTAAAGTATGAATAAATTAGTTTTGTGTGTTTTGAGTTTACTAATT
TGTGTTTGAAAACAACAGATT
Found at i:15850136 original size:18 final size:18
Alignment explanation
Indices: 15850113--15850151 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
15850103 TAATATTTCT
* *
15850113 TTAATAATTTGTGATTCA
1 TTAATAATTTCTGATTAA
15850131 TTAATAATTTCTGATTAA
1 TTAATAATTTCTGATTAA
15850149 TTA
1 TTA
15850152 TTTTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (18 bp):
TTAATAATTTCTGATTAA
Found at i:15850703 original size:71 final size:72
Alignment explanation
Indices: 15850614--15850764 Score: 207
Period size: 72 Copynumber: 2.1 Consensus size: 72
15850604 TTAGTTAAGT
* * * *
15850614 AGAAATAGGTGAGCAAAAAATAGCTGTTGAA-AATATTAAATTCATATTA-CTGTTAGTTGATTG
1 AGAAATAGGTAAGAAAAAAATAACTGTTGAAGAATATTAAATACATATTATC-GTTAGTTGATTG
15850677 GAAATAGG
65 GAAATAGG
* * *
15850685 AGAAATAGGTAAGAAAAAAATAACTGTTGAAGATTATTAAATAGATATTATCGTTAGTTTATTGG
1 AGAAATAGGTAAGAAAAAAATAACTGTTGAAGAATATTAAATACATATTATCGTTAGTTGATTGG
15850750 AAATAGG
66 AAATAGG
*
15850757 AGACATAG
1 AGAAATAG
15850765 TTGAGAATTA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
71 28 0.40
72 41 0.59
73 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.30
Consensus pattern (72 bp):
AGAAATAGGTAAGAAAAAAATAACTGTTGAAGAATATTAAATACATATTATCGTTAGTTGATTGG
AAATAGG
Found at i:15852142 original size:26 final size:26
Alignment explanation
Indices: 15852113--15852180 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 26
15852103 ATTTAAAATC
* *
15852113 AATAATTATAAAAACAATTATAACAA
1 AATAATAATAAAAACAAATATAACAA
* * *
15852139 AATAATAATAACATCAAATATAATAA
1 AATAATAATAAAAACAAATATAACAA
* *
15852165 AAT-TTAATATAAACAA
1 AATAATAATAAAAACAA
15852181 CATACATAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
25 9 0.27
26 24 0.73
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (26 bp):
AATAATAATAAAAACAAATATAACAA
Found at i:15853283 original size:19 final size:20
Alignment explanation
Indices: 15853256--15853301 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
15853246 AAAAGACAAG
*
15853256 ATAAAATTTTTA-AAATAAA
1 ATAATATTTTTATAAATAAA
*
15853275 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATAAATAAA
15853294 ATAATATT
1 ATAATATT
15853302 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATAAATAAA
Found at i:15854895 original size:17 final size:19
Alignment explanation
Indices: 15854863--15854906 Score: 67
Period size: 17 Copynumber: 2.5 Consensus size: 19
15854853 TTTATGAGAA
15854863 AAATATGAATTTATAAAAT
1 AAATATGAATTTATAAAAT
15854882 AAATA-GAA-TTATAAAAT
1 AAATATGAATTTATAAAAT
15854899 AAAT-TGAA
1 AAATATGAA
15854907 ATTTTTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 16 0.67
18 3 0.12
19 5 0.21
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (19 bp):
AAATATGAATTTATAAAAT
Found at i:15856430 original size:2 final size:2
Alignment explanation
Indices: 15856423--15856452 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15856413 ATCGAGGTAC
15856423 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15856453 TCGGATTTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15867902 original size:38 final size:38
Alignment explanation
Indices: 15867851--15867964 Score: 219
Period size: 38 Copynumber: 3.0 Consensus size: 38
15867841 TTAAAAAAAT
*
15867851 CCTTACCCTTTAGCTTTAGTAAGTACGGTCATGCTGCA
1 CCTTACCCTTTAGCTTTAGTAAGTACGGTCATGTTGCA
15867889 CCTTACCCTTTAGCTTTAGTAAGTACGGTCATGTTGCA
1 CCTTACCCTTTAGCTTTAGTAAGTACGGTCATGTTGCA
15867927 CCTTACCCTTTAGCTTTAGTAAGTACGGTCATGTTGCA
1 CCTTACCCTTTAGCTTTAGTAAGTACGGTCATGTTGCA
15867965 TAGCACAACA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (38 bp):
CCTTACCCTTTAGCTTTAGTAAGTACGGTCATGTTGCA
Found at i:15872468 original size:15 final size:15
Alignment explanation
Indices: 15872448--15872494 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
15872438 TCTTTACTTA
*
15872448 TTTCATGCTAGGCTC
1 TTTCATGCTAGGTTC
15872463 TTTCATGCTAGGTTC
1 TTTCATGCTAGGTTC
*
15872478 TTTCGTGCTAGGTTC
1 TTTCATGCTAGGTTC
15872493 TT
1 TT
15872495 CCATAATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (15 bp):
TTTCATGCTAGGTTC
Found at i:15877578 original size:2 final size:2
Alignment explanation
Indices: 15877571--15877610 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15877561 AAATAGTAAT
15877571 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15877611 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15880624 original size:11 final size:11
Alignment explanation
Indices: 15880608--15880641 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
15880598 AAATAATATT
15880608 TTAATTAATAA
1 TTAATTAATAA
15880619 TTAATTAATAAA
1 TTAATTAAT-AA
15880631 TT-ATTAATAA
1 TTAATTAATAA
15880641 T
1 T
15880642 AAAAGTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 15 0.68
12 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAATTAATAA
Found at i:15880675 original size:30 final size:28
Alignment explanation
Indices: 15880640--15880698 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
15880630 ATTATTAATA
* *
15880640 ATAAAAGTTTATTTAATTTAAAATAAAAAT
1 ATAAAAATTTA-TTAA-ATAAAATAAAAAT
*
15880670 ATAAAAATTTATTAAATACAATAAAAAT
1 ATAAAAATTTATTAAATAAAATAAAAAT
15880698 A
1 A
15880699 AAATTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
29 4 0.15
30 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (28 bp):
ATAAAAATTTATTAAATAAAATAAAAAT
Found at i:15889224 original size:18 final size:19
Alignment explanation
Indices: 15889189--15889225 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
15889179 TAGCATTAAA
15889189 TTTAAAATCATTTAATTTT
1 TTTAAAATCATTTAATTTT
*
15889208 TTTAAAAT-ATTTTATTTT
1 TTTAAAATCATTTAATTTT
15889226 AATCATCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTAAAATCATTTAATTTT
Found at i:15892801 original size:15 final size:15
Alignment explanation
Indices: 15892783--15892820 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
15892773 TATATATATA
15892783 TTATAATTAATAA-TT
1 TTATAATT-ATAATTT
15892798 TTATAAGTTATAATTT
1 TTATAA-TTATAATTT
15892814 TTATAAT
1 TTATAAT
15892821 GTTAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATAATTATAATTT
Found at i:15892869 original size:17 final size:17
Alignment explanation
Indices: 15892839--15892879 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
15892829 AAATAAAAAG
*
15892839 TAAA-TATATTTATATT
1 TAAAGTATATATATATT
15892855 TAAAGTATATATATATT
1 TAAAGTATATATATATT
*
15892872 AAAAGTAT
1 TAAAGTAT
15892880 TTTAATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
TAAAGTATATATATATT
Found at i:15893410 original size:15 final size:16
Alignment explanation
Indices: 15893390--15893431 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
15893380 AATGTATATA
15893390 TTATAA-TTAATAA-TT
1 TTATAAGTT-ATAATTT
15893405 TTATAAGTTATAATTT
1 TTATAAGTTATAATTT
15893421 TTATAACGTTA
1 TTATAA-GTTA
15893432 ACACAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.42
16 10 0.42
17 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (16 bp):
TTATAAGTTATAATTT
Found at i:15899516 original size:28 final size:30
Alignment explanation
Indices: 15899457--15899554 Score: 114
Period size: 31 Copynumber: 3.3 Consensus size: 30
15899447 TAGACATTAA
*
15899457 AGTGTAAC-AAAATA--TTTTTGAACAT-G
1 AGTGTAACAAAAATATTTTTTTCAACATGG
15899483 ACGTGTAACAAAAATATTTTTTTCAACATGG
1 A-GTGTAACAAAAATATTTTTTTCAACATGG
* * *
15899514 TGTGTAACAACAATTTTTTTTTTCAACATGG
1 AGTGTAACAA-AAATATTTTTTTCAACATGG
15899545 AGTGTAACAA
1 AGTGTAACAA
15899555 CCTTTTTTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
26 1 0.02
27 7 0.11
28 6 0.10
30 19 0.31
31 28 0.46
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (30 bp):
AGTGTAACAAAAATATTTTTTTCAACATGG
Found at i:15899598 original size:81 final size:80
Alignment explanation
Indices: 15899508--15899768 Score: 319
Period size: 81 Copynumber: 3.2 Consensus size: 80
15899498 ATTTTTTTCA
*
15899508 ACATGGTGTGTAACAACAATTTTTTTTTTCAACATGG-AGTGTAACAACCTTTTTTATCTATGAT
1 ACATGGTGTGTAACAACAATATTTTTTTTCAACATGGCA-TGTAACAACCTTTTTTATC-ATGAT
*
15899572 ATGTTACATGTTTTTGT
64 ATGTAACATGTTTTTGT
** * *
15899589 GTATGGTGTGTAACAACAATATTTTTTTTCAACATGGCATGTAACAACCTTTTTTAATCATGGTG
1 ACATGGTGTGTAACAACAATATTTTTTTTCAACATGGCATGTAACAACCTTTTTT-ATCATGATA
15899654 TGTAACATGTTTTTGT
65 TGTAACATGTTTTTGT
*** * * *
15899670 ACATAACGTGTAACAACAGTAATATTTTTTCAACATGGCATGTAACAACCTTTTTTAACCATTG-
1 ACATGGTGTGTAACAACAAT-ATTTTTTTTCAACATGGCATGTAACAACCTTTTTT-ATCA-TGA
*
15899734 TATGTAACATGTTTCTGT
63 TATGTAACATGTTTTTGT
**
15899752 ACATGGCATGTAACAAC
1 ACATGGTGTGTAACAAC
15899769 CTTTTTTAAT
Statistics
Matches: 157, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
81 83 0.53
82 72 0.46
83 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (80 bp):
ACATGGTGTGTAACAACAATATTTTTTTTCAACATGGCATGTAACAACCTTTTTTATCATGATAT
GTAACATGTTTTTGT
Found at i:15899723 original size:24 final size:24
Alignment explanation
Indices: 15899696--15899773 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
15899686 CAGTAATATT
15899696 TTTTCAACATGGCATGTAACAACC
1 TTTTCAACATGGCATGTAACAACC
* * * **
15899720 TTTTTTAACCATTGTATGTAAC-ATG
1 -TTTTCAA-CATGGCATGTAACAACC
**
15899745 TTTCTGTACATGGCATGTAACAACC
1 TTT-TCAACATGGCATGTAACAACC
15899770 TTTT
1 TTTT
15899774 TTAATTATGA
Statistics
Matches: 39, Mismatches: 11, Indels: 7
0.68 0.19 0.12
Matches are distributed among these distances:
24 15 0.38
25 13 0.33
26 11 0.28
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (24 bp):
TTTTCAACATGGCATGTAACAACC
Found at i:15899723 original size:26 final size:25
Alignment explanation
Indices: 15899694--15899777 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 25
15899684 AACAGTAATA
15899694 TTTTTTCAACATGGCATGTAACAACC
1 TTTTTT-AACATGGCATGTAACAACC
* * **
15899720 TTTTTTAACCATTGTATGTAAC-ATG
1 TTTTTTAA-CATGGCATGTAACAACC
*
15899745 TTTCTGT-ACATGGCATGTAACAACC
1 TTT-TTTAACATGGCATGTAACAACC
15899770 TTTTTTAA
1 TTTTTTAA
15899778 TTATGACGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
24 13 0.30
25 12 0.27
26 19 0.43
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.42
Consensus pattern (25 bp):
TTTTTTAACATGGCATGTAACAACC
Found at i:15899790 original size:50 final size:50
Alignment explanation
Indices: 15899702--15899808 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 50
15899692 TATTTTTTCA
*
15899702 ACATGGCATGTAACAACCTTTTTTAACCATTGTATGTAACATGTTTCTGT
1 ACATGGCATGTAACAACCTTTTTTAACCATTGTATGTAACACGTTTCTGT
** *
15899752 ACATGGCATGTAACAACCTTTTTTAATTA-TG-ACGTGTAACACGTTTTTGT
1 ACATGGCATGTAACAACCTTTTTTAACCATTGTA--TGTAACACGTTTCTGT
15899802 ACATGGC
1 ACATGGC
15899809 GCGTAATATC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
48 1 0.02
49 2 0.04
50 48 0.94
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (50 bp):
ACATGGCATGTAACAACCTTTTTTAACCATTGTATGTAACACGTTTCTGT
Found at i:15906563 original size:60 final size:60
Alignment explanation
Indices: 15906470--15906633 Score: 222
Period size: 60 Copynumber: 2.8 Consensus size: 60
15906460 ATAGGAGACA
* * *
15906470 AAACAAAAAGTTTTTCGCTGCAGCGAGATTGAATCTCGTTGCAGCAAAATTGTGACCCAG
1 AAACAAAAAGTTTCTCGCTGCAGCGAGAATGAATTTCGTTGCAGCAAAATTGTGACCCAG
* * * *
15906530 AAACAAAAAGTTTCTCACTACAGCGAGAATGAATTTCGCTGCAGCGAAATTGTGACCCAG
1 AAACAAAAAGTTTCTCGCTGCAGCGAGAATGAATTTCGTTGCAGCAAAATTGTGACCCAG
* * * *
15906590 AAATAGAAAGTTTCTCGCTGTAGC-AGAATGAATTTCATTGCAGC
1 AAACAAAAAGTTTCTCGCTGCAGCGAGAATGAATTTCGTTGCAGC
15906634 GAGAAGCTAC
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 18 0.20
60 72 0.80
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (60 bp):
AAACAAAAAGTTTCTCGCTGCAGCGAGAATGAATTTCGTTGCAGCAAAATTGTGACCCAG
Found at i:15906985 original size:19 final size:19
Alignment explanation
Indices: 15906961--15907025 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
15906951 ACCCGACTCA
15906961 TGCACATCCCCCCACATCG
1 TGCACATCCCCCCACATCG
* **
15906980 TGCACATAGCCGACACCATCG
1 TGCACAT-CCCCCCA-CATCG
**
15907001 TGTGCATCCCCCCACATCG
1 TGCACATCCCCCCACATCG
15907020 TGCACA
1 TGCACA
15907026 ATTAGTGCCA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 16 0.47
20 8 0.24
21 10 0.29
ACGTcount: A:0.23, C:0.45, G:0.15, T:0.17
Consensus pattern (19 bp):
TGCACATCCCCCCACATCG
Found at i:15907047 original size:38 final size:39
Alignment explanation
Indices: 15906958--15907063 Score: 128
Period size: 38 Copynumber: 2.7 Consensus size: 39
15906948 CACACCCGAC
*
15906958 TCATGCACATCCCCCCACATCGTGCAC-ATAGCCGACACCA
1 TCATGTACATCCCCCCACATCGTGCACAATAGCCG--ACCA
* * *
15906998 TCGTGTGCATCCCCCCACATCGTGCACAATTAG-TG-CCA
1 TCATGTACATCCCCCCACATCGTGCACAA-TAGCCGACCA
15907036 TCATGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
15907064 CGGGCACTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
38 29 0.50
40 24 0.41
41 2 0.03
42 3 0.05
ACGTcount: A:0.25, C:0.42, G:0.14, T:0.20
Consensus pattern (39 bp):
TCATGTACATCCCCCCACATCGTGCACAATAGCCGACCA
Found at i:15909577 original size:29 final size:30
Alignment explanation
Indices: 15909545--15909617 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
15909535 AGGTTATACT
15909545 TGATCCTTGAAAAGA-CAAAAGGTTACGCC
1 TGATCCTTGAAAAGAGCAAAAGGTTACGCC
* * *
15909574 TGATCCTTGAAAA-AGCAATAGGTTATGCT
1 TGATCCTTGAAAAGAGCAAAAGGTTACGCC
*
15909603 TGCTCCTGTGAAAAG
1 TGATCCT-TGAAAAG
15909618 GCATTGTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 30 0.81
30 6 0.16
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (30 bp):
TGATCCTTGAAAAGAGCAAAAGGTTACGCC
Found at i:15909633 original size:34 final size:34
Alignment explanation
Indices: 15909594--15909658 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
15909584 AAAAGCAATA
*
15909594 GGTTATGCTTGCTCCTGTGAAAAGGCATTGTATG
1 GGTTATGCTTGCTCCTATGAAAAGGCATTGTATG
15909628 GGTTATGCTTGCTCCTATGAAAAGGCATTGT
1 GGTTATGCTTGCTCCTATGAAAAGGCATTGT
15909659 TGTTAAGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (34 bp):
GGTTATGCTTGCTCCTATGAAAAGGCATTGTATG
Found at i:15912435 original size:28 final size:29
Alignment explanation
Indices: 15912370--15912436 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
15912360 GCAGTGTTGT
*
15912370 CAAGAGGTTACGCCTGATACTTGAAAAGG
1 CAAGAGGTTACACCTGATACTTGAAAAGG
*
15912399 CAAGAGGTTACACCTGATCCTTG-AAAGG
1 CAAGAGGTTACACCTGATACTTGAAAAGG
*
15912427 CAAGGGGTTA
1 CAAGAGGTTA
15912437 TGCTTGCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 14 0.40
29 21 0.60
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (29 bp):
CAAGAGGTTACACCTGATACTTGAAAAGG
Found at i:15912471 original size:34 final size:34
Alignment explanation
Indices: 15912431--15912496 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
15912421 GAAAGGCAAG
* *
15912431 GGGTTATGCTTGCTCTCGTGAAAAGGCATTGTAT
1 GGGTTATACTTGCACTCGTGAAAAGGCATTGTAT
* *
15912465 GGGTTATACTTGCACTTGTGAAATGGCATTGT
1 GGGTTATACTTGCACTCGTGAAAAGGCATTGT
15912497 TATAACGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (34 bp):
GGGTTATACTTGCACTCGTGAAAAGGCATTGTAT
Found at i:15919262 original size:22 final size:22
Alignment explanation
Indices: 15919234--15919288 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
15919224 ATAAATTTTT
15919234 TTAGGCATTGCGTCACTGGATA
1 TTAGGCATTGCGTCACTGGATA
* * *
15919256 TTAGGCAATGTGTGACTGGATA
1 TTAGGCATTGCGTCACTGGATA
15919278 TTAGGCATTGC
1 TTAGGCATTGC
15919289 ATGATTGGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.33
Consensus pattern (22 bp):
TTAGGCATTGCGTCACTGGATA
Found at i:15919445 original size:273 final size:274
Alignment explanation
Indices: 15918924--15919465 Score: 815
Period size: 273 Copynumber: 2.0 Consensus size: 274
15918914 TGAAAGTAGC
* * *
15918924 AAAATCAATTAGTAGTTAGGCAAGTCATGAATATTTTTTAGGCATTGCTTCACTAGGTATTAGGT
1 AAAATCAATTAGTAGTTAGGCAAGTCATAAATATTTTTTAGGCATTGCGTCACTAGGTATTAGGC
* * * * *
15918989 AATGTGTGATTGGATATTAGGCATTGCATGATTGGTTGTTATATATTATGCGAGTTAAGCATTGC
66 AATGTGTGACTGGATATTAGGCATTGCATGATTGGTTGTAATATATTAAGCAACTTAAGCATTGC
* * * * * *
15919054 ATGACTGATTCTTAGGAATTGCGTAGCTTATTTATTTGGTATTACGTGACTGAATATTAGATAAT
131 ATGACTGATTATTAGGAATTGCGTACCTGATTTATTTAGCATTACGTGACTGAATATTAGACAAT
* * *
15919119 GTGTGACTAGATAGGAGGCACTGCGAGATTAGATTTTAGGAAGTGCGTGACTTGTGCATTGCTTG
196 GTGGGACTAGATAGGAGGCACTGCGAGACTAGATTTTAGGAAGTGCATGACTTGTGCATTGCTTG
15919184 ATGAGGTTTAGGCG
261 ATGAGGTTTAGGCG
*
15919198 AAAATCAATTAGTTA-TTAGGCAA-TATATAAAT-TTTTTTAGGCATTGCGTCACT-GGATATTA
1 AAAATCAATTAG-TAGTTAGGCAAGT-CATAAATATTTTTTAGGCATTGCGTCACTAGG-TATTA
*
15919259 GGCAATGTGTGACTGGATATTAGGCATTGCATGATTGGTTGTAATGTATTAAGCAACTTAAGCAT
63 GGCAATGTGTGACTGGATATTAGGCATTGCATGATTGGTTGTAATATATTAAGCAACTTAAGCAT
* *
15919324 TGCATGATTGATTATTAGGAATTGTGTAACCTGA-TTATTTAGCATTACGTGACTGAATATTAGA
128 TGCATGACTGATTATTAGGAATTGCGT-ACCTGATTTATTTAGCATTACGTGACTGAATATTAGA
*
15919388 CAATGTGGGACTAGATAGGAGGCATTGCGAGACTAGATTTTAGGAAGTGCATGACTTGTGCATTG
192 CAATGTGGGACTAGATAGGAGGCACTGCGAGACTAGATTTTAGGAAGTGCATGACTTGTGCATTG
15919453 CTTGATGAGGTTT
257 CTTGATGAGGTTT
15919466 TAGGAATTGC
Statistics
Matches: 242, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
272 2 0.01
273 209 0.86
274 29 0.12
275 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (274 bp):
AAAATCAATTAGTAGTTAGGCAAGTCATAAATATTTTTTAGGCATTGCGTCACTAGGTATTAGGC
AATGTGTGACTGGATATTAGGCATTGCATGATTGGTTGTAATATATTAAGCAACTTAAGCATTGC
ATGACTGATTATTAGGAATTGCGTACCTGATTTATTTAGCATTACGTGACTGAATATTAGACAAT
GTGGGACTAGATAGGAGGCACTGCGAGACTAGATTTTAGGAAGTGCATGACTTGTGCATTGCTTG
ATGAGGTTTAGGCG
Found at i:15919518 original size:22 final size:22
Alignment explanation
Indices: 15919471--15919521 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
15919461 GGTTTTAGGA
* *
15919471 ATTGCTTGACTAGTTTGTAAGT
1 ATTGCGTGACTAGTTTGTAAGC
*
15919493 ATTGCGTGACTAGTTT-TTAGCC
1 ATTGCGTGACTAGTTTGTAAG-C
15919515 ATTGCGT
1 ATTGCGT
15919522 TGCTTTATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.43
Consensus pattern (22 bp):
ATTGCGTGACTAGTTTGTAAGC
Found at i:15921366 original size:42 final size:42
Alignment explanation
Indices: 15921302--15921386 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
15921292 CAGTATAGAA
* * *
15921302 CATGCCACAACTGTTGTGTTAGAAGGGGTTCAGTGCGATGAC
1 CATGCCACAACTATTGTCTTAGAAGAGGTTCAGTGCGATGAC
* *
15921344 CATGCCACAACTATTGTCTTAGAAGATGTTGAGTGCGATGAC
1 CATGCCACAACTATTGTCTTAGAAGAGGTTCAGTGCGATGAC
15921386 C
1 C
15921387 TTATTTATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (42 bp):
CATGCCACAACTATTGTCTTAGAAGAGGTTCAGTGCGATGAC
Found at i:15923509 original size:32 final size:32
Alignment explanation
Indices: 15923468--15923531 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
15923458 AGCCAAAAAT
*
15923468 AGTGGCTCCTTAGATAGTTGTGGTCTGTTGTA
1 AGTGGCTCCTTAAATAGTTGTGGTCTGTTGTA
15923500 AGTGGCTCCTTAAATAGTTGTGGTCTGTTGTA
1 AGTGGCTCCTTAAATAGTTGTGGTCTGTTGTA
15923532 TCCACATTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.30, T:0.41
Consensus pattern (32 bp):
AGTGGCTCCTTAAATAGTTGTGGTCTGTTGTA
Found at i:15926400 original size:22 final size:22
Alignment explanation
Indices: 15926375--15926453 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 22
15926365 TGCAATTGCC
15926375 ACACCCCATTCACACAATGACT
1 ACACCCCATTCACACAATGACT
** *
15926397 ACACCCCATTCACGTAATGCCT
1 ACACCCCATTCACACAATGACT
15926419 A-A----A-TCACACAATGACT
1 ACACCCCATTCACACAATGACT
* *
15926435 ACACCCCACTCACGCAATG
1 ACACCCCATTCACACAATG
15926454 CTATATAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
16 11 0.25
17 2 0.05
21 2 0.05
22 29 0.66
ACGTcount: A:0.35, C:0.39, G:0.08, T:0.18
Consensus pattern (22 bp):
ACACCCCATTCACACAATGACT
Found at i:15933327 original size:74 final size:73
Alignment explanation
Indices: 15933218--15933405 Score: 218
Period size: 74 Copynumber: 2.6 Consensus size: 73
15933208 CTCTTAGTTG
* * * *
15933218 ACTAACATACTTCTTAGTCGACTAAGTTTTCTTTGTCTTCTAATCCCAGTTTCTGGTAGTGAGCA
1 ACTAACATGCTTCTTAGTTGACTAAGTTTTCTTTGTCTTCTAATCCAAGTTTCTGGCAGTGAGCA
* *
15933283 CTTGGTCA
66 CTTAGCCA
* * **
15933291 ACTAACAATGCTTCTTAGTTGATTAAGTTATT-TTTGTCTTCTGATTGAAGTTTCTGGCAGTGAG
1 ACTAAC-ATGCTTCTTAGTTGACTAAGTT-TTCTTTGTCTTCTAATCCAAGTTTCTGGCAGTGAG
15933355 CACTTAGCCA
64 CACTTAGCCA
* * *
15933365 ACTAACCATGCTTCTTGGTTGACTAAGTCTTCTCTGT-TTCT
1 ACTAA-CATGCTTCTTAGTTGACTAAGTTTTCTTTGTCTTCT
15933406 GGACTAGCCA
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
73 12 0.12
74 82 0.85
75 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (73 bp):
ACTAACATGCTTCTTAGTTGACTAAGTTTTCTTTGTCTTCTAATCCAAGTTTCTGGCAGTGAGCA
CTTAGCCA
Found at i:15940354 original size:32 final size:31
Alignment explanation
Indices: 15940310--15940408 Score: 92
Period size: 32 Copynumber: 3.0 Consensus size: 31
15940300 ACAACCTTTT
15940310 ACAATGGTTTTTCAGAGAATCAACCAAAACCCA
1 ACAATGG-TTTTCAGAG-ATCAACCAAAACCCA
* * * *
15940343 A-AATGGCTTTTCAAAGGCTCAACCACAACCTTTA
1 ACAATGG-TTTTCAGA-GATCAACCAAAACC--CA
15940377 ACAATGGTTTTCACGAGATCAACCAAAACCCA
1 ACAATGGTTTTCA-GAGATCAACCAAAACCCA
15940409 TAACTAACTT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
32 24 0.46
33 2 0.04
34 20 0.38
35 6 0.12
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.22
Consensus pattern (31 bp):
ACAATGGTTTTCAGAGATCAACCAAAACCCA
Found at i:15940373 original size:67 final size:66
Alignment explanation
Indices: 15940277--15940408 Score: 205
Period size: 67 Copynumber: 2.0 Consensus size: 66
15940267 CAAGCTTTAC
* *
15940277 AATGGCTTTTCACAAGCTCAGCCACAACCTTTTACAATGGTTTTTCA-GAGAATCAACCAAAACC
1 AATGGCTTTTCACAAGCTCAACCACAACCTTTAACAATGG-TTTTCACGAG-ATCAACCAAAACC
15940341 CAA
64 CAA
15940344 AATGGCTTTTCA-AAGGCTCAACCACAACCTTTAACAATGGTTTTCACGAGATCAACCAAAACCC
1 AATGGCTTTTCACAA-GCTCAACCACAACCTTTAACAATGGTTTTCACGAGATCAACCAAAACCC
15940408 A
65 A
15940409 TAACTAACTT
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
66 23 0.38
67 38 0.62
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.24
Consensus pattern (66 bp):
AATGGCTTTTCACAAGCTCAACCACAACCTTTAACAATGGTTTTCACGAGATCAACCAAAACCCA
A
Found at i:15940399 original size:34 final size:34
Alignment explanation
Indices: 15940271--15940406 Score: 111
Period size: 35 Copynumber: 4.0 Consensus size: 34
15940261 TTCCACCAAG
* * *
15940271 CTTT-ACAATGGCTTTTCACAAGCTCAGCCACAAC
1 CTTTAACAATGGCTTTTCA-AAGATCAACCAAAAC
* * *
15940305 CTTTTACAATGGTTTTTCAGAGAATCAACCAAAAC
1 CTTTAACAATGGCTTTTCAAAG-ATCAACCAAAAC
* * *
15940340 C--CAA-AATGGCTTTTCAAAGGCTCAACCACAAC
1 CTTTAACAATGGCTTTTCAAA-GATCAACCAAAAC
*
15940372 CTTTAACAATGG-TTTTCACGAGATCAACCAAAAC
1 CTTTAACAATGGCTTTTCA-AAGATCAACCAAAAC
15940406 C
1 C
15940407 CATAACTAAC
Statistics
Matches: 80, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
32 23 0.29
33 2 0.03
34 26 0.32
35 29 0.36
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (34 bp):
CTTTAACAATGGCTTTTCAAAGATCAACCAAAAC
Found at i:15952199 original size:23 final size:23
Alignment explanation
Indices: 15952172--15952239 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
15952162 TTCTATTGAC
*
15952172 CCTATGAACCAGTGACGCAATGA
1 CCTATGAACCAGTCACGCAATGA
*
15952195 CCTATGAACCAGTCACGCAATAA
1 CCTATGAACCAGTCACGCAATGA
* *
15952218 CCTATCAACCAGTTACGCAATG
1 CCTATGAACCAGTCACGCAATG
15952240 TCAAAAACCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.19
Consensus pattern (23 bp):
CCTATGAACCAGTCACGCAATGA
Found at i:15957187 original size:56 final size:57
Alignment explanation
Indices: 15957119--15957246 Score: 145
Period size: 56 Copynumber: 2.3 Consensus size: 57
15957109 ATAGAATTCC
*
15957119 GTTGGAATAGCATTTCCC-ACAAAAAATTCCATT-AGAAATTTCCAACAGAATTTTTT
1 GTTGGAAAAGCATTTCCCAACAAAAAATTCCATTGA-AAATTTCCAACAGAATTTTTT
** ** * *
15957175 GTTGGAAAAGCA-TTCCCAACGGAAAATTCTGTTGAAAATTTTCAACAGACTTTTTT
1 GTTGGAAAAGCATTTCCCAACAAAAAATTCCATTGAAAATTTCCAACAGAATTTTTT
**
15957231 GTCCGAAAAGCATTTC
1 GTTGGAAAAGCATTTC
15957247 TAACATTCCG
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
55 5 0.08
56 51 0.85
57 4 0.07
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (57 bp):
GTTGGAAAAGCATTTCCCAACAAAAAATTCCATTGAAAATTTCCAACAGAATTTTTT
Found at i:15963476 original size:71 final size:70
Alignment explanation
Indices: 15963324--15963639 Score: 269
Period size: 71 Copynumber: 4.4 Consensus size: 70
15963314 ATCTTTTGTC
* * ** * * * * *
15963324 TTGGAAGCACAACGCTGTAGCGCTGTCCCAGTCCCAATCAAGCTTCCAAGGCAAAAGCTTGTGCA
1 TTGGAAGCACAGCGCTGCAGCATTGTCCCAATCCTAA-CAAGC-TCCAA-GCAGAAGCTTGGGCG
*
15963389 CTGCAGCA
63 CTGCAGCG
* * * * *
15963397 TTGGAAGCATAGCGCTGTAGCATTATCCCAATCCTAACAAACTCCTAAGCAGAAGCTTGGGTGCT
1 TTGGAAGCACAGCGCTGCAGCATTGTCCCAATCCTAACAAGCTCC-AAGCAGAAGCTTGGGCGCT
15963462 GCAGCG
65 GCAGCG
* * * * *
15963468 TTGGAAGCACAGCGTTGCA--ATGCTGTCTCAGTCCCAATCAAGCTTCCAAGGCAGAAGCTTGTG
1 TTGGAAGCACAGCGCTGCAGCAT--TGTCCCAATCCTAA-CAAGC-TCCAA-GCAGAAGCTTGGG
*
15963531 CGCTGCAGTG
61 CGCTGCAGCG
* * * *
15963541 CTGGAAGCACAGCGCTGCAG-AGTTGTACCAATCCTAGCATGCTCCCAAGCAGAAGCTTGGGCGC
1 TTGGAAGCACAGCGCTGCAGCA-TTGTCCCAATCCTAACAAGCT-CCAAGCAGAAGCTTGGGCGC
*
15963605 TTCAGCG
64 TGCAGCG
*
15963612 TTGGAAGCACAACGCTGCAGCATTGTCC
1 TTGGAAGCACAGCGCTGCAGCATTGTCC
15963640 AGCTCCTAAT
Statistics
Matches: 195, Mismatches: 38, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
69 2 0.01
71 91 0.47
72 21 0.11
73 79 0.41
74 1 0.01
75 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.21
Consensus pattern (70 bp):
TTGGAAGCACAGCGCTGCAGCATTGTCCCAATCCTAACAAGCTCCAAGCAGAAGCTTGGGCGCTG
CAGCG
Found at i:15963651 original size:144 final size:143
Alignment explanation
Indices: 15963324--15963656 Score: 402
Period size: 144 Copynumber: 2.3 Consensus size: 143
15963314 ATCTTTTGTC
* **
15963324 TTGGAAGCACAACGCTGTAGCGCTGTCCCAGTCCCAATCAAGCTTCCAAGGCAAAAGCTTGTGCA
1 TTGGAAGCACAACGCTGCAGCATTGT-CCAGTCCCAATCAAGCTTCCAAGGCAAAAGCTTGTGCA
* * * * *
15963389 CTGCAGCATTGGAAGCATAGCGCTGTAGCATTATCCCAATCCTAACAAACTCCTAAGCAGAAGCT
65 CTGCAGCACTGGAAGCACAGCGCTGCAGCATTATACCAATCCTAACAAACTCCCAAGCAGAAGCT
*
15963454 TGGGTGCTGCAGCG
130 TGGGCGCTGCAGCG
* * *
15963468 TTGGAAGCACAGCGTTGCA--ATGCTGTCTCAGTCCCAATCAAGCTTCCAAGGCAGAAGCTTGTG
1 TTGGAAGCACAACGCTGCAGCAT--TGTC-CAGTCCCAATCAAGCTTCCAAGGCAAAAGCTTGTG
* ** * * **
15963531 CGCTGCAGTGCTGGAAGCACAGCGCTGCAG-AGTTGTACCAATCCTAGCATGCTCCCAAGCAGAA
63 CACTGCAGCACTGGAAGCACAGCGCTGCAGCA-TTATACCAATCCTAACAAACTCCCAAGCAGAA
*
15963595 GCTTGGGCGCTTCAGCG
127 GCTTGGGCGCTGCAGCG
*
15963612 TTGGAAGCACAACGCTGCAGCATTGTCCAGCTCCTAATCAAGCTT
1 TTGGAAGCACAACGCTGCAGCATTGTCCAG-TCCCAATCAAGCTT
15963657 AACGCTGCAG
Statistics
Matches: 159, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
143 5 0.03
144 152 0.96
146 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (143 bp):
TTGGAAGCACAACGCTGCAGCATTGTCCAGTCCCAATCAAGCTTCCAAGGCAAAAGCTTGTGCAC
TGCAGCACTGGAAGCACAGCGCTGCAGCATTATACCAATCCTAACAAACTCCCAAGCAGAAGCTT
GGGCGCTGCAGCG
Found at i:15965813 original size:19 final size:20
Alignment explanation
Indices: 15965789--15965828 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
15965779 CCATTTGACT
15965789 TATTGGAATATGATTT-AAG
1 TATTGGAATATGATTTGAAG
*
15965808 TATTGGAGTATGATTTGAAG
1 TATTGGAATATGATTTGAAG
15965828 T
1 T
15965829 TTAGAAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (20 bp):
TATTGGAATATGATTTGAAG
Found at i:15966936 original size:13 final size:13
Alignment explanation
Indices: 15966918--15966942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15966908 GGAAAATGGG
15966918 ATTTTATAAAATA
1 ATTTTATAAAATA
15966931 ATTTTATAAAAT
1 ATTTTATAAAAT
15966943 TTTTGAAAAT
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:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:15968469 original size:27 final size:28
Alignment explanation
Indices: 15968428--15968480 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
15968418 ATATATTTAG
15968428 ATAATCATAATATA-TTAGATATTATTGT
1 ATAATCATAATATATTTA-ATATTATTGT
15968456 ATAAT-ATAATATATTTAATATTATT
1 ATAATCATAATATATTTAATATTATT
15968481 AAGTTGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (28 bp):
ATAATCATAATATATTTAATATTATTGT
Found at i:15968717 original size:22 final size:21
Alignment explanation
Indices: 15968666--15968718 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
15968656 AACTTGAAGT
* *
15968666 TTATTATAAGTTAAGTAATGC
1 TTATTATAAATTAAATAATGC
15968687 TTATGTATAAATTAAATATATG-
1 TTAT-TATAAATTAAATA-ATGC
15968709 TATATTATAA
1 T-TATTATAA
15968719 GTTTAATCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 4 0.15
22 17 0.63
23 6 0.22
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (21 bp):
TTATTATAAATTAAATAATGC
Found at i:15970593 original size:22 final size:22
Alignment explanation
Indices: 15970524--15970593 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
15970514 AACTAGCAGT
* * * *
15970524 AAATCAATCACAAAGCAGTAGG
1 AAATCACTCATAAAACAGTAGC
* * *
15970546 AAATCTCTCATAAAATAGCA-C
1 AAATCACTCATAAAACAGTAGC
*
15970567 TAAATCACTCATAAACCAGTAGC
1 -AAATCACTCATAAAACAGTAGC
15970590 AAAT
1 AAAT
15970594 TAACAGTAGA
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.20
Consensus pattern (22 bp):
AAATCACTCATAAAACAGTAGC
Found at i:15971129 original size:84 final size:83
Alignment explanation
Indices: 15971028--15971197 Score: 313
Period size: 84 Copynumber: 2.0 Consensus size: 83
15971018 GTCTACTACC
15971028 TTACACGTGAGCGGTTTCTTTTGTCTTCGGCCTTACTTGAGTTAAAATCTTCTATTTCTTATACC
1 TTACACGTGAGCGGTTTCTTTTGTCTTCGGCCTTACTTGAGTTAAAATCTTCTATTTCTTATACC
15971093 TTTTTTTATTGATTTTCTT
66 -TTTTTTATTGATTTTCTT
* *
15971112 TTACATGTGAGCGGTTTCTTTTGTCTTCGGCGTTACTTGAGTTAAAATCTTCTATTTCTTATACC
1 TTACACGTGAGCGGTTTCTTTTGTCTTCGGCCTTACTTGAGTTAAAATCTTCTATTTCTTATACC
15971177 TTTTTTATTGATTTTCTT
66 TTTTTTATTGATTTTCTT
15971195 TTA
1 TTA
15971198 TACTTCTTAT
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
83 21 0.25
84 63 0.75
ACGTcount: A:0.17, C:0.16, G:0.14, T:0.53
Consensus pattern (83 bp):
TTACACGTGAGCGGTTTCTTTTGTCTTCGGCCTTACTTGAGTTAAAATCTTCTATTTCTTATACC
TTTTTTATTGATTTTCTT
Found at i:15980822 original size:22 final size:22
Alignment explanation
Indices: 15980796--15980843 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
15980786 GAAAAATGGA
15980796 TGCTGATATGTTTATGATATTT
1 TGCTGATATGTTTATGATATTT
*
15980818 TGCTGATATGTTTATGGTATTT
1 TGCTGATATGTTTATGATATTT
15980840 TGCT
1 TGCT
15980844 ACTGATGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.06, G:0.21, T:0.54
Consensus pattern (22 bp):
TGCTGATATGTTTATGATATTT
Found at i:15989869 original size:19 final size:19
Alignment explanation
Indices: 15989845--15989881 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
15989835 CTTCTAAACC
15989845 TCAAATCATACTCCAATAT
1 TCAAATCATACTCCAATAT
15989864 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
15989882 AGTCAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (19 bp):
TCAAATCATACTCCAATAT
Found at i:15990683 original size:18 final size:18
Alignment explanation
Indices: 15990660--15990694 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15990650 ATATTTCTTT
*
15990660 AATAATTTTTTATTCATA
1 AATAATTTTTGATTCATA
15990678 AATAATTTTTGATTCAT
1 AATAATTTTTGATTCAT
15990695 TATTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (18 bp):
AATAATTTTTGATTCATA
Found at i:15990853 original size:17 final size:17
Alignment explanation
Indices: 15990831--15990865 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15990821 ATTTATTATG
15990831 AAGTACTAAAAATATTT
1 AAGTACTAAAAATATTT
15990848 AAGTACTAAAAATATTT
1 AAGTACTAAAAATATTT
15990865 A
1 A
15990866 GCTATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (17 bp):
AAGTACTAAAAATATTT
Found at i:15992204 original size:20 final size:20
Alignment explanation
Indices: 15992179--15992216 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15992169 AAATATCGTC
*
15992179 TTCTCCAGCAGCTTCTTCAT
1 TTCTCCAGCAACTTCTTCAT
15992199 TTCTCCAGCAACTTCTTC
1 TTCTCCAGCAACTTCTTC
15992217 TTCTTCTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.37, G:0.08, T:0.39
Consensus pattern (20 bp):
TTCTCCAGCAACTTCTTCAT
Found at i:16003230 original size:44 final size:43
Alignment explanation
Indices: 16003169--16003301 Score: 187
Period size: 43 Copynumber: 3.1 Consensus size: 43
16003159 ACCAACAATA
*
16003169 ATGATGACCTAGCTATGTGTATGTGGGGGAGTGCACATGAGCTG
1 ATGATGACCTAGCTATGTGTA-GTGAGGGAGTGCACATGAGCTG
* * *
16003213 ATGATGACCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCTAGCTATGTGTAGTGAGGGAGTGCACATGAGCTG
* *
16003256 ATGATGACCTAGCTATGTGTGAGT-AAGGAGTGTACATGAGCTG
1 ATGATGACCTAGCTATGTGT-AGTGAGGGAGTGCACATGAGCTG
16003299 ATG
1 ATG
16003302 TGGTGGGATG
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
43 58 0.73
44 22 0.28
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.26
Consensus pattern (43 bp):
ATGATGACCTAGCTATGTGTAGTGAGGGAGTGCACATGAGCTG
Done.