Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 51 of 93
Found at i:19557551 original size:184 final size:183
Alignment explanation
Indices: 19557237--19557608 Score: 717
Period size: 184 Copynumber: 2.0 Consensus size: 183
19557227 AAAGCAAAAT
* *
19557237 AAATTCCTACATATTGTAATGCAGATAACCAAAGTATAGAATTAATTTACAGTGACACGTGGGCC
1 AAATGCCTACATACTGTAATGCAGATAACCAAAGTATAGAATTAATTTACAGTGACACGTGGGCC
19557302 CACGAATGACCAAAAGTATCAAAAGAAATGAACCTACAGTTTTTGGATGTGGCAAGTTCAACTGT
66 CACGAATGACCAAAAGTATCAAAAGAAATGAACCTACAGTTTTTGGATGTGGCAAGTTCAACTGT
19557367 AATCCTCGCCGATATCAGTTATCTACAATCTATTCTGAGCCTGAAATGGGTGG
131 AATCCTCGCCGATATCAGTTATCTACAATCTATTCTGAGCCTGAAATGGGTGG
19557420 AAATGNCCTACATACTGTAATGCAGATAACCAAAGTATAGAATTAATTTACAGTGACACGTGGGC
1 AAATG-CCTACATACTGTAATGCAGATAACCAAAGTATAGAATTAATTTACAGTGACACGTGGGC
19557485 CCACGAATGACCAAAAGTATCAAAAGAAATGAACCTACAGTTTTTGGATGTGGCAAGTTCAACTG
65 CCACGAATGACCAAAAGTATCAAAAGAAATGAACCTACAGTTTTTGGATGTGGCAAGTTCAACTG
19557550 TAATCCTCGCCGATATCAGTTATCTACAATCTATTCTGAGCCTGAAATGGGTGG
130 TAATCCTCGCCGATATCAGTTATCTACAATCTATTCTGAGCCTGAAATGGGTGG
19557604 AAATG
1 AAATG
19557609 AGGGTGGTCA
Statistics
Matches: 186, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
183 4 0.02
184 182 0.98
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (183 bp):
AAATGCCTACATACTGTAATGCAGATAACCAAAGTATAGAATTAATTTACAGTGACACGTGGGCC
CACGAATGACCAAAAGTATCAAAAGAAATGAACCTACAGTTTTTGGATGTGGCAAGTTCAACTGT
AATCCTCGCCGATATCAGTTATCTACAATCTATTCTGAGCCTGAAATGGGTGG
Found at i:19580965 original size:20 final size:20
Alignment explanation
Indices: 19580931--19580970 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19580921 CTATAAATAT
*
19580931 CTCATTTCTCTAGCAACTTC
1 CTCATTTCTCCAGCAACTTC
* *
19580951 CTCATTTTTCCAGCAGCTTC
1 CTCATTTCTCCAGCAACTTC
19580971 TTGTTGTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.17, C:0.35, G:0.07, T:0.40
Consensus pattern (20 bp):
CTCATTTCTCCAGCAACTTC
Found at i:19585436 original size:12 final size:12
Alignment explanation
Indices: 19585419--19585448 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19585409 GTTCTTTCAC
19585419 TTTGACAACAAT
1 TTTGACAACAAT
*
19585431 TTTGACAACGAT
1 TTTGACAACAAT
19585443 TTTGAC
1 TTTGAC
19585449 CACCTTTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (12 bp):
TTTGACAACAAT
Found at i:19593782 original size:60 final size:59
Alignment explanation
Indices: 19593655--19593829 Score: 235
Period size: 60 Copynumber: 2.9 Consensus size: 59
19593645 CATCATCACT
* *
19593655 TACTCGTGGGAACTACCCACGCCA-CCATATGAATCGGGGCTTCAAGTCCCCCTTTACC
1 TACTCGTGGGAACTACCCACGCCACCCATATAAATCGGGGCTTCAAGTCCCCCTTTAAC
* * * * * *
19593713 TATTTGTGGGAACTACCCACGCCACCCATTATAAATCGAGGCTTTAGGTTCCCCTTTAAC
1 TACTCGTGGGAACTACCCACGCCACCCA-TATAAATCGGGGCTTCAAGTCCCCCTTTAAC
* *
19593773 TACTCGTGGGAACTACCCATGCCACCCAATATAAATCGGGGCTTCAAGTCTCCCTTT
1 TACTCGTGGGAACTACCCACGCCACCC-ATATAAATCGGGGCTTCAAGTCCCCCTTT
19593830 TTAAATCAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
58 22 0.22
59 3 0.03
60 72 0.73
61 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (59 bp):
TACTCGTGGGAACTACCCACGCCACCCATATAAATCGGGGCTTCAAGTCCCCCTTTAAC
Found at i:19594609 original size:5 final size:5
Alignment explanation
Indices: 19594595--19594662 Score: 57
Period size: 5 Copynumber: 13.0 Consensus size: 5
19594585 ATGCCCATTA
* * * *
19594595 TTTTT TTTTC ATTTC TTTTC TTCTTC ATTTC TTTTC -TTTC TTTTTC TTTTT
1 TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC -TTTTC TTTTC
19594646 TTTTC TTCTTCC TTTTC
1 TTTTC TT-TT-C TTTTC
19594663 CCTGTCGACG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.08
5 32 0.63
6 12 0.24
7 3 0.06
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:19594623 original size:16 final size:17
Alignment explanation
Indices: 19594602--19594662 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 17
19594592 TTATTTTTTT
19594602 TTCATTTCTTTTC-TTC
1 TTCATTTCTTTTCTTTC
19594618 TTCATTTCTTTTCTTTC
1 TTCATTTCTTTTCTTTC
*
19594635 TT--TTTCTTTTTTTTTC
1 TTCATTTC-TTTTCTTTC
*
19594651 TTC-TTCCTTTTC
1 TTCATTTCTTTTC
19594663 CCTGTCGACG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
15 4 0.10
16 27 0.69
17 8 0.21
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (17 bp):
TTCATTTCTTTTCTTTC
Found at i:19597068 original size:24 final size:24
Alignment explanation
Indices: 19597014--19597075 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
19597004 AATTTTCATG
* *
19597014 CTTTTGAGCACTTTTTCATAGAAC
1 CTTTTGTGCTCTTTTTCATAGAAC
*
19597038 ATTTTGTGCTCTTTTTCATAGAAC
1 CTTTTGTGCTCTTTTTCATAGAAC
19597062 CTTTTGTGCTCTTT
1 CTTTTGTGCTCTTT
19597076 CACTCTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.50
Consensus pattern (24 bp):
CTTTTGTGCTCTTTTTCATAGAAC
Found at i:19598093 original size:18 final size:19
Alignment explanation
Indices: 19598064--19598139 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 19
19598054 CAGCGAAAAA
* *
19598064 GAATTCTCGCTGAAGCGAG
1 GAATTATCGCTGCAGCGAG
19598083 GAATT-TCGCTGCAGCGAAAATG
1 GAATTATCGCTGCAGCG---A-G
*
19598105 G-ATTATCGCTGTAGCGAG
1 GAATTATCGCTGCAGCGAG
19598123 GAATT-TCGCTGCAGCGA
1 GAATTATCGCTGCAGCGA
19598140 AAATGGATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
18 23 0.48
19 9 0.19
21 4 0.08
22 12 0.25
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (19 bp):
GAATTATCGCTGCAGCGAG
Found at i:19598114 original size:40 final size:40
Alignment explanation
Indices: 19598054--19598162 Score: 164
Period size: 40 Copynumber: 2.7 Consensus size: 40
19598044 TTTCTCGTTA
* * *
19598054 CAGCGAAAAAGAATTCTCGCTGAAGCGAGGAATTTCGCTG
1 CAGCGAAAATGGATTATCGCTGAAGCGAGGAATTTCGCTG
*
19598094 CAGCGAAAATGGATTATCGCTGTAGCGAGGAATTTCGCTG
1 CAGCGAAAATGGATTATCGCTGAAGCGAGGAATTTCGCTG
* *
19598134 CAGCGAAAATGGATTATTGCTGCAGCGAG
1 CAGCGAAAATGGATTATCGCTGAAGCGAG
19598163 AAACTCTTGG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.22
Consensus pattern (40 bp):
CAGCGAAAATGGATTATCGCTGAAGCGAGGAATTTCGCTG
Found at i:19598120 original size:22 final size:22
Alignment explanation
Indices: 19598088--19598161 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
19598078 GCGAGGAATT
19598088 TCGCTGCAGCGAAAATGGATTA
1 TCGCTGCAGCGAAAATGGATTA
*
19598110 TCGCTGTAGCG---A-GGAATT-
1 TCGCTGCAGCGAAAATGG-ATTA
19598128 TCGCTGCAGCGAAAATGGATTA
1 TCGCTGCAGCGAAAATGGATTA
*
19598150 TTGCTGCAGCGA
1 TCGCTGCAGCGA
19598162 GAAACTCTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
18 12 0.28
19 4 0.09
21 4 0.09
22 23 0.53
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (22 bp):
TCGCTGCAGCGAAAATGGATTA
Found at i:19612509 original size:22 final size:22
Alignment explanation
Indices: 19612471--19612512 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19612461 ACTTCCATCA
19612471 AACACTTTCTAAGTTTACATGT
1 AACACTTTCTAAGTTTACATGT
*
19612493 AACACTATTCTTA-TTTACAT
1 AACACT-TTCTAAGTTTACAT
19612513 ATTGCCACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (22 bp):
AACACTTTCTAAGTTTACATGT
Found at i:19612554 original size:20 final size:19
Alignment explanation
Indices: 19612525--19612562 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
19612515 TGCCACCAAA
*
19612525 CATAACATCAATATCCATT
1 CATAACATCAACATCCATT
19612544 CATACACATCAACATCCAT
1 CATA-ACATCAACATCCAT
19612563 AACCTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CATAACATCAACATCCATT
Found at i:19620297 original size:36 final size:36
Alignment explanation
Indices: 19620238--19620335 Score: 88
Period size: 36 Copynumber: 2.7 Consensus size: 36
19620228 AGGCATCATG
* ***
19620238 GGGTTATCGCTTGATCTTGTGAAAAAATCAATGAAA
1 GGGTTATCACTTGATCCCATGAAAAAATCAATGAAA
* ** * ** *
19620274 GGTTTATTGCTTGATCCCATGAAAAAGTCCTTGTAA
1 GGGTTATCACTTGATCCCATGAAAAAATCAATGAAA
*
19620310 GGGTTATCACTTGATCCCATTAAAAA
1 GGGTTATCACTTGATCCCATGAAAAA
19620336 GCAAGAATGC
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (36 bp):
GGGTTATCACTTGATCCCATGAAAAAATCAATGAAA
Found at i:19622370 original size:29 final size:29
Alignment explanation
Indices: 19622328--19622498 Score: 179
Period size: 28 Copynumber: 5.8 Consensus size: 29
19622318 CAGCTTTAAC
*
19622328 ATGTTTGTCTTAATTTAGACAAGAAAACT
1 ATGTTTGTCTTAATTTAGACAAGAAAAAT
* *
19622357 -TGTTTGCTCTTAATTTTGACAAG-AATAT
1 ATGTTTG-TCTTAATTTAGACAAGAAAAAT
*
19622385 ATGTTTGTCTTAATTTAAGACAACAAAAAT
1 ATGTTTGTCTTAATTT-AGACAAGAAAAAT
* *
19622415 ATATTTTGTCTTAATCTAGACAAGAAAACAT
1 AT-GTTTGTCTTAATTTAGACAAGAAAA-AT
*
19622446 A--TTTGTCTCAATTTAGACAAGATAAAAT
1 ATGTTTGTCTTAATTTAGACAAGA-AAAAT
* *
19622474 ATTTTTGTCTTAATTAAAGACAAGA
1 ATGTTTGTCTTAATT-TAGACAAGA
19622499 GTTGTCTTAA
Statistics
Matches: 119, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
28 40 0.34
29 29 0.24
30 27 0.23
31 23 0.19
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
ATGTTTGTCTTAATTTAGACAAGAAAAAT
Found at i:19622451 original size:59 final size:57
Alignment explanation
Indices: 19622325--19622487 Score: 202
Period size: 59 Copynumber: 2.8 Consensus size: 57
19622315 TGGCAGCTTT
* * * *
19622325 AACATGTTTGTCTTAATTTAGACAAGAAAACT-TGTTTGCTCTTAATTTTGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTG-TCTTAATCTAGACAAGAA
* * *
19622382 TATATGTTTGTCTTAATTTAAGACAACAAAAATATATTTTGTCTTAATCTAGACAAGAA
1 AACATGTTTGTCTTAATTT-AGACAAGAAAAATAT-TTTTGTCTTAATCTAGACAAGAA
* *
19622441 AACATATTTGTCTCAATTTAGACAAGATAAAATATTTTTGTCTTAAT
1 AACATGTTTGTCTTAATTTAGACAAGA-AAAATATTTTTGTCTTAAT
19622488 TAAAGACAAG
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
57 17 0.19
58 30 0.33
59 39 0.43
60 4 0.04
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (57 bp):
AACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTGTCTTAATCTAGACAAGAA
Found at i:19627606 original size:63 final size:62
Alignment explanation
Indices: 19627522--19627644 Score: 201
Period size: 63 Copynumber: 2.0 Consensus size: 62
19627512 GGTCTCATCT
* * *
19627522 TTGCATGCATAGCATTTATTAAATCGTATAAAATAAATCTATCACATGCATACTGCTTTGCA
1 TTGCATGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACATGCAAACTACTTTGCA
*
19627584 TTGCATAGCATAGCATTTATTAAATTGCATAAAATAAATCTATCACATGCAAACTACTTTG
1 TTGCAT-GCATAGCATTTATTAAATCGCATAAAATAAATCTATCACATGCAAACTACTTTG
19627645 GATGATTATG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
62 6 0.11
63 50 0.89
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (62 bp):
TTGCATGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACATGCAAACTACTTTGCA
Found at i:19628308 original size:51 final size:51
Alignment explanation
Indices: 19628230--19628336 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 51
19628220 AGAATTAAAT
* *
19628230 TTTTA-TTACAAATTAAAAAGTATAACATTTTTAATTTGTGGTCCTAAACA
1 TTTTACTTACAAATTAAAAAGTAAAACATTTTTAATTTGTGCTCCTAAACA
* *
19628280 TTTTACTTACAAATTACAAATTAAAACATTTTTAATTTGTGCTCCTAAACA
1 TTTTACTTACAAATTAAAAAGTAAAACATTTTTAATTTGTGCTCCTAAACA
19628331 TTTTAC
1 TTTTAC
19628337 ACAACCTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 5 0.10
51 47 0.90
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (51 bp):
TTTTACTTACAAATTAAAAAGTAAAACATTTTTAATTTGTGCTCCTAAACA
Found at i:19643215 original size:2 final size:2
Alignment explanation
Indices: 19643210--19643242 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19643200 AAATCCACTA
19643210 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
19643243 NAATTTCTTC
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:19643290 original size:22 final size:22
Alignment explanation
Indices: 19643265--19643312 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
19643255 TGATTAATTG
19643265 TTATAATTA-CTATTATCTTATT
1 TTATAATTATCTATTAT-TTATT
* * *
19643287 TTATTATTATTTATTATTTTTT
1 TTATAATTATCTATTATTTATT
19643309 TTAT
1 TTAT
19643313 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (22 bp):
TTATAATTATCTATTATTTATT
Found at i:19643299 original size:10 final size:9
Alignment explanation
Indices: 19643285--19643325 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
19643275 TATTATCTTA
19643285 TTTTATTAT
1 TTTTATTAT
19643294 TATTTATTAT
1 T-TTTATTAT
*
19643304 TTTTTTTAT
1 TTTTATTAT
19643313 TTTTATT-T
1 TTTTATTAT
19643321 TTTTA
1 TTTTA
19643326 CCTTTCTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 6 0.21
9 14 0.48
10 9 0.31
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTATTAT
Found at i:19643313 original size:22 final size:23
Alignment explanation
Indices: 19643275--19643320 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
19643265 TTATAATTAC
19643275 TATTATCTTATTTTATTATTATT
1 TATTATCTTATTTTATTATTATT
* *
19643298 TATTAT-TTTTTTTATTTTTATT
1 TATTATCTTATTTTATTATTATT
19643320 T
1 T
19643321 TTTTACCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (23 bp):
TATTATCTTATTTTATTATTATT
Found at i:19643492 original size:2 final size:2
Alignment explanation
Indices: 19643485--19643512 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19643475 CTTCTTTCCT
19643485 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19643513 ACACCGCTGA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:19644753 original size:18 final size:19
Alignment explanation
Indices: 19644714--19644754 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
19644704 TTAATATTTT
*
19644714 AATATTATTTTATTCATAA
1 AATAATATTTTATTCATAA
19644733 AATAATATTTTATTC-TAA
1 AATAATATTTTATTCATAA
19644751 AATA
1 AATA
19644755 TCCTTCTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
AATAATATTTTATTCATAA
Found at i:19649614 original size:2 final size:2
Alignment explanation
Indices: 19649604--19649634 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
19649594 ACATATATTT
*
19649604 TA TA CA 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 T
19649635 TCAAAATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:19651377 original size:18 final size:19
Alignment explanation
Indices: 19651343--19651378 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19651333 ATTTTTACAT
19651343 TATTTTATTCATAAAATAA
1 TATTTTATTCATAAAATAA
19651362 TATTTTATTC-TAAAATA
1 TATTTTATTCATAAAATA
19651379 TTCTTCTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTTATTCATAAAATAA
Found at i:19657177 original size:151 final size:150
Alignment explanation
Indices: 19656965--19657262 Score: 524
Period size: 151 Copynumber: 2.0 Consensus size: 150
19656955 TAATCTCATG
* * *
19656965 GACTTCATCCAATTAGACTTATAACTCATTATAATTAATATCTTATTGATGAAGGAAAACCTCTA
1 GACTTCATCCAATTAGACTTATAACTAATTATAATTAATATCTTATTGATAAAAGAAAACCTCTA
19657030 ATCATTCAACATGAATGATACTATTGCATGATTGGAATCAAGCCTCAACCAATCCCAATTGGCTG
66 ATCATTCAACATGAATGATACTATTGCATGATTGGAATCAAGCCTCAACCAATCCCAATTGGCTG
19657095 TAGGGCTCATTCCAACANTCT
131 TAGGGCTCATTCCAACA-TCT
* *
19657116 GACTTCATCCAATTAGACTTATAACTAATTATAATTGATGTCTTATTGATAAAAGAAAACCTCTA
1 GACTTCATCCAATTAGACTTATAACTAATTATAATTAATATCTTATTGATAAAAGAAAACCTCTA
* *
19657181 ATCATTCGATATGAATGATACTATTGCATGATTGGAATCAAGCCTCAACCAATCCCAATTGGCTG
66 ATCATTCAACATGAATGATACTATTGCATGATTGGAATCAAGCCTCAACCAATCCCAATTGGCTG
19657246 TAGGGCTCATTCCAACA
131 TAGGGCTCATTCCAACA
19657263 ATATAATGGG
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
151 140 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (150 bp):
GACTTCATCCAATTAGACTTATAACTAATTATAATTAATATCTTATTGATAAAAGAAAACCTCTA
ATCATTCAACATGAATGATACTATTGCATGATTGGAATCAAGCCTCAACCAATCCCAATTGGCTG
TAGGGCTCATTCCAACATCT
Found at i:19660847 original size:28 final size:29
Alignment explanation
Indices: 19660806--19660865 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
19660796 GTCTATGGGC
* *
19660806 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
* *
19660834 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
19660864 AA
1 AA
19660866 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:19669829 original size:13 final size:13
Alignment explanation
Indices: 19669799--19669836 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
19669789 TAAACTCAAA
19669799 ATTTT-TTTTGTTT
1 ATTTTATTTT-TTT
*
19669812 TTTTTATTTTTTT
1 ATTTTATTTTTTT
19669825 ATTTTATTTTTT
1 ATTTTATTTTTT
19669837 AATTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.87
Consensus pattern (13 bp):
ATTTTATTTTTTT
Found at i:19674999 original size:32 final size:32
Alignment explanation
Indices: 19674963--19675111 Score: 131
Period size: 35 Copynumber: 4.5 Consensus size: 32
19674953 TTTACCGAGA
*
19674963 TCAACCAAAACCCAAAGTGATTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* * **
19674995 TCAACCACAACCTTTCACAA-TGGCTTTTCACGGGC
1 TCAACCAAAACC---CA-AAGTGGTTTTTCAAAGGC
19675030 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* * * *
19675062 TCAACCACAACCTACAACAATGGTTTTTC-ACGAGA
1 TCAACCAAAACC--CAA-AGTGGTTTTTCAAAG-GC
19675097 TCAACCAAAACCCAA
1 TCAACCAAAACCCAA
19675112 CAACTAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
31 2 0.02
32 36 0.38
33 3 0.03
34 5 0.05
35 46 0.49
36 2 0.02
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.21
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
Found at i:19675015 original size:67 final size:67
Alignment explanation
Indices: 19674936--19675111 Score: 275
Period size: 67 Copynumber: 2.6 Consensus size: 67
19674926 GCTTAGCCAA
19674936 AACCTTTCACAATGGTTTTT-ACCGAGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCA-CGAGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAAC
19675000 CAC
65 CAC
* * * *
19675003 AACCTTTCACAATGGCTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCACGAGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACC
19675068 AC
66 AC
*
19675070 AACC-TACAACAATGGTTTTTCACGAGATCAACCAAAACCCAA
1 AACCTTTC-ACAATGGTTTTTCACGAGATCAACCAAAACCCAA
19675112 CAACTAATTT
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
66 2 0.02
67 96 0.97
68 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.23
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCACGAGATCAACCAAAACCCAAAGTGATTTTTCAAAGGCTCAACC
AC
Found at i:19675031 original size:35 final size:33
Alignment explanation
Indices: 19674932--19675108 Score: 130
Period size: 35 Copynumber: 5.2 Consensus size: 33
19674922 TCAGGCTTAG
* *
19674932 CCAAAACCTTTCACAATGGTTTTT-ACCGAGATCAA
1 CCAAAACC--TCACAATGGTTTTTCA-CGGGCTCAA
* **
19674967 CCAAAACC-CA-AAGTGATTTTTCAAAGGCTCAA
1 CCAAAACCTCACAA-TGGTTTTTCACGGGCTCAA
* *
19674999 CCACAACCTTTCACAATGGCTTTTCACGGGCTCAA
1 CCAAAACC--TCACAATGGTTTTTCACGGGCTCAA
**
19675034 CCAAAACC-CA-AAGTGGTTTTTCAAAGGCTCAA
1 CCAAAACCTCACAA-TGGTTTTTCACGGGCTCAA
* * *
19675066 CCACAACCTACAACAATGGTTTTTCACGAGATCAA
1 CCAAAACCT-C-ACAATGGTTTTTCACGGGCTCAA
19675101 CCAAAACC
1 CCAAAACC
19675109 CAACAACTAA
Statistics
Matches: 111, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
31 4 0.04
32 46 0.41
33 1 0.01
34 1 0.01
35 55 0.50
36 4 0.04
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (33 bp):
CCAAAACCTCACAATGGTTTTTCACGGGCTCAA
Found at i:19689983 original size:14 final size:15
Alignment explanation
Indices: 19689951--19689984 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
19689941 CCTCCAAATC
*
19689951 TAAAAACGTGAAGTT
1 TAAAAACGTGAAGTA
19689966 TAAAAACGTG-AGTA
1 TAAAAACGTGAAGTA
19689980 TAAAA
1 TAAAA
19689985 CTCAGTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.24
Consensus pattern (15 bp):
TAAAAACGTGAAGTA
Found at i:19692465 original size:74 final size:74
Alignment explanation
Indices: 19692333--19692507 Score: 181
Period size: 74 Copynumber: 2.4 Consensus size: 74
19692323 AGGTATTACA
* * * * * *
19692333 CTTCGACACT-AAGCGTGATTTGAACCTTTATCGGTCATTTCAGGGTCGTGCATTATTTAACTCT
1 CTTCGACACTGAA-CGTGATTTGAACCTTTATCGATCACTTAAAGGTCGTACATGATTTAACTCT
** *
19692397 TTGCTAGTTG
65 TCACAAGTTG
* * * * *
19692407 CTTCGACACTGAACATGATTTGAACCTTTGTCGATCACTTAAAGGTTGTACGTGATTTATCTCTT
1 CTTCGACACTGAACGTGATTTGAACCTTTATCGATCACTTAAAGGTCGTACATGATTTAACTCTT
19692472 CACAAGTTG
66 CACAAGTTG
** *
19692481 CTTTAACACTGAGCGTGATTTGAACCT
1 CTTCGACACTGAACGTGATTTGAACCT
19692508 ACGCCAGTTA
Statistics
Matches: 82, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
74 80 0.98
75 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (74 bp):
CTTCGACACTGAACGTGATTTGAACCTTTATCGATCACTTAAAGGTCGTACATGATTTAACTCTT
CACAAGTTG
Found at i:19693052 original size:22 final size:22
Alignment explanation
Indices: 19693000--19693075 Score: 89
Period size: 22 Copynumber: 3.2 Consensus size: 22
19692990 TGATCATTAG
*
19693000 TTATGCTCACCTTATGATTAAACTC
1 TTATGCTTACCTTATGATT--AC-C
*
19693025 TATTATGCTTACCTTATGCTTACC
1 --TTATGCTTACCTTATGATTACC
19693049 TTATGCTTACCTTATGATTACC
1 TTATGCTTACCTTATGATTACC
19693071 TTATG
1 TTATG
19693076 ATTAAACTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
22 26 0.57
24 1 0.02
25 2 0.04
27 17 0.37
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (22 bp):
TTATGCTTACCTTATGATTACC
Found at i:19693079 original size:11 final size:11
Alignment explanation
Indices: 19693027--19693075 Score: 89
Period size: 11 Copynumber: 4.5 Consensus size: 11
19693017 TTAAACTCTA
19693027 TTATGCTTACC
1 TTATGCTTACC
19693038 TTATGCTTACC
1 TTATGCTTACC
19693049 TTATGCTTACC
1 TTATGCTTACC
*
19693060 TTATGATTACC
1 TTATGCTTACC
19693071 TTATG
1 TTATG
19693076 ATTAAACTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.47
Consensus pattern (11 bp):
TTATGCTTACC
Found at i:19698048 original size:27 final size:27
Alignment explanation
Indices: 19697982--19698048 Score: 93
Period size: 25 Copynumber: 2.6 Consensus size: 27
19697972 ACCTATTTAT
*
19697982 TTTTTATTTCCTATTGGGCCATGCCCA
1 TTTTTATTTTCTATTGGGCCATGCCCA
* *
19698009 --CTTATTTTCTATTGGGTCATGCCCA
1 TTTTTATTTTCTATTGGGCCATGCCCA
19698034 TTTTTATTTTCTATT
1 TTTTTATTTTCTATT
19698049 TCTTTTCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 22 0.65
27 12 0.35
ACGTcount: A:0.15, C:0.21, G:0.12, T:0.52
Consensus pattern (27 bp):
TTTTTATTTTCTATTGGGCCATGCCCA
Found at i:19698077 original size:16 final size:16
Alignment explanation
Indices: 19698035--19698074 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
19698025 TCATGCCCAT
*
19698035 TTTTATTTTCTATTTC
1 TTTTCTTTTCTATTTC
*
19698051 TTTTCTTTTCTTTTTC
1 TTTTCTTTTCTATTTC
19698067 -TTTCTTTT
1 TTTTCTTTT
19698075 TCTCTCTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTTTTCTATTTC
Found at i:19698279 original size:24 final size:25
Alignment explanation
Indices: 19698247--19698293 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
19698237 CTCAAATTTC
19698247 CAGCAACAAAACT-TCTCAATTTTGA
1 CAGCAACAAAACTATC-CAATTTTGA
*
19698272 CAGC-ACAAAGCTATCCAATTTT
1 CAGCAACAAAACTATCCAATTTT
19698294 CTTGCACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.28
Consensus pattern (25 bp):
CAGCAACAAAACTATCCAATTTTGA
Found at i:19698326 original size:34 final size:34
Alignment explanation
Indices: 19698288--19698362 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
19698278 AAAGCTATCC
*
19698288 AATTTTCTTGCACAAACTACCAGCAAACAGCTCT
1 AATTTTCTTGCACAAACTACCAGCAAACAGCTCA
* * * **
19698322 AATTTTTTTGTACAAATTGGCAGCAAACAGCTCA
1 AATTTTCTTGCACAAACTACCAGCAAACAGCTCA
19698356 AATTTTC
1 AATTTTC
19698363 AGCAGTCAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (34 bp):
AATTTTCTTGCACAAACTACCAGCAAACAGCTCA
Found at i:19699907 original size:30 final size:30
Alignment explanation
Indices: 19699855--19699911 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
19699845 CATTTGCAAT
* *
19699855 CATGGGCAAGCTAGCTCAATGGTGGACAAG
1 CATGGGCAAGCCAACTCAATGGTGGACAAG
**
19699885 CATGGGCAAGCCAACTTGATGGTGGAC
1 CATGGGCAAGCCAACTCAATGGTGGAC
19699912 GATCAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.21, G:0.33, T:0.18
Consensus pattern (30 bp):
CATGGGCAAGCCAACTCAATGGTGGACAAG
Found at i:19703871 original size:29 final size:28
Alignment explanation
Indices: 19703826--19703989 Score: 175
Period size: 29 Copynumber: 5.6 Consensus size: 28
19703816 TGGCAGCTTT
*
19703826 AATATGTTTGTTTTAATTTAGACAAGAA
1 AATATGTTTGTCTTAATTTAGACAAGAA
* *
19703854 AACATGTTTGATTTTAATTTAGACAAGAA
1 AATATGTTTG-TCTTAATTTAGACAAGAA
19703883 AATATGTTTGTCTTAATTTAAGACAAGAAA
1 AATATGTTTGTCTTAATTT-AGACAAG-AA
* * *
19703913 AATATTTTTTATCTTAATCTAGACAAGAA
1 AATA-TGTTTGTCTTAATTTAGACAAGAA
* * * *
19703942 AATATATTTATCTCAACTTAGACAAGATAA
1 AATATGTTTGTCTTAATTTAGACAAG--AA
*
19703972 AATATTTTTGTCTTAATT
1 AATATGTTTGTCTTAATT
19703990 AAAGACAAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
28 35 0.30
29 40 0.34
30 29 0.25
31 12 0.10
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (28 bp):
AATATGTTTGTCTTAATTTAGACAAGAA
Found at i:19703945 original size:59 final size:58
Alignment explanation
Indices: 19703826--19703988 Score: 195
Period size: 59 Copynumber: 2.8 Consensus size: 58
19703816 TGGCAGCTTT
* * * * * *
19703826 AATATGTTTGTTTTAATTTAGACAAG-AAAACATGTTTGATTTTAATTTAGACAAGAA
1 AATATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTTATCTTAATCTAGACAAGAA
19703883 AATATGTTTGTCTTAATTTAAGACAAGAAAAATATTTTTTATCTTAATCTAGACAAGAA
1 AATATGTTTGTCTTAATTT-AGACAAGAAAAATATTTTTTATCTTAATCTAGACAAGAA
* * * * *
19703942 AATATATTTATCTCAACTTAGACAAGATAAAATA-TTTTTGTCTTAAT
1 AATATGTTTGTCTTAATTTAGACAAGA-AAAATATTTTTTATCTTAAT
19703989 TAAAGACAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
57 18 0.20
58 27 0.29
59 47 0.51
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.40
Consensus pattern (58 bp):
AATATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTTATCTTAATCTAGACAAGAA
Found at i:19704167 original size:17 final size:17
Alignment explanation
Indices: 19704147--19704179 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19704137 ATAATTATAA
19704147 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
19704164 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
19704180 TAATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:19712836 original size:2 final size:2
Alignment explanation
Indices: 19712829--19712854 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19712819 TTCTGATTTC
19712829 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
19712855 TTTCACCCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:19713734 original size:18 final size:18
Alignment explanation
Indices: 19713711--19713775 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 18
19713701 GGCTGGGGGC
19713711 AAGATGATGATGAAGAGG
1 AAGATGATGATGAAGAGG
*
19713729 AAGATG-TCGATGCAGAAGTGG
1 AAGATGAT-GAT---GAAGAGG
* *
19713750 AAGAAGATGATGAAGATG
1 AAGATGATGATGAAGAGG
*
19713768 AATATGAT
1 AAGATGAT
19713776 AAGCAGGTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 1 0.03
18 20 0.56
21 14 0.39
22 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.34, T:0.20
Consensus pattern (18 bp):
AAGATGATGATGAAGAGG
Found at i:19713761 original size:21 final size:21
Alignment explanation
Indices: 19713711--19713762 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
19713701 GGCTGGGGGC
19713711 AAGATGATGATGAAGAGGAAG
1 AAGATGATGATGAAGAGGAAG
* *
19713732 ATG-TCGATGCA-GAAGTGGAAG
1 AAGAT-GATG-ATGAAGAGGAAG
19713753 AAGATGATGA
1 AAGATGATGA
19713763 AGATGAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 7
0.71 0.09 0.20
Matches are distributed among these distances:
20 2 0.08
21 21 0.84
22 2 0.08
ACGTcount: A:0.42, C:0.04, G:0.37, T:0.17
Consensus pattern (21 bp):
AAGATGATGATGAAGAGGAAG
Found at i:19715433 original size:27 final size:27
Alignment explanation
Indices: 19715316--19715506 Score: 157
Period size: 27 Copynumber: 6.9 Consensus size: 27
19715306 TTTTTATTGA
*
19715316 GATGTGTAACAATTAAATTTTCCAACAT
1 GATGTGTAACAACTAAATTTT-CAACAT
** * * * **
19715344 GACATATAATAATTAAATCCTCAACAT
1 GATGTGTAACAACTAAATTTTCAACAT
* * *
19715371 AATGTATAACAACTATATTTTTCAACAT
1 GATGTGTAACAACTA-AATTTTCAACAT
* * *
19715399 TATATGTAATAACTAAATTTTCAACAT
1 GATGTGTAACAACTAAATTTTCAACAT
*
19715426 GATGTGTAACAACTAAATCTTCAACAT
1 GATGTGTAACAACTAAATTTTCAACAT
* * * *
19715453 GACGTATAACAACTATATTTTTCAATAT
1 GATGTGTAACAACTA-AATTTTCAACAT
* *
19715481 GGTATGTAACAACTAAAATTTTCAAC
1 GATGTGTAACAACT-AAATTTTCAAC
19715507 TAAATCTTTA
Statistics
Matches: 126, Mismatches: 34, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
27 63 0.50
28 62 0.49
29 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (27 bp):
GATGTGTAACAACTAAATTTTCAACAT
Found at i:19715444 original size:82 final size:82
Alignment explanation
Indices: 19715320--19715506 Score: 239
Period size: 82 Copynumber: 2.3 Consensus size: 82
19715310 TATTGAGATG
* * * *
19715320 TGTAACAATTAAATTTTCCAACATGACATATAATAATTAAATCCTCAACATAATGTATAACAACT
1 TGTAACAACTAAATTTT-CAACATGACATATAACAACTAAATCCTCAACATAACGTATAACAACT
*
19715385 ATATTTTTCAACATTATA
65 ATATTTTTCAACATGATA
* ** * * *
19715403 TGTAATAACTAAATTTTCAACATGATGTGTAACAACTAAATCTTCAACATGACGTATAACAACTA
1 TGTAACAACTAAATTTTCAACATGACATATAACAACTAAATCCTCAACATAACGTATAACAACTA
* *
19715468 TATTTTTCAATATGGTA
66 TATTTTTCAACATGATA
19715485 TGTAACAACTAAAATTTTCAAC
1 TGTAACAACT-AAATTTTCAAC
19715507 TAAATCTTTA
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
82 63 0.71
83 26 0.29
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (82 bp):
TGTAACAACTAAATTTTCAACATGACATATAACAACTAAATCCTCAACATAACGTATAACAACTA
TATTTTTCAACATGATA
Found at i:19715475 original size:55 final size:54
Alignment explanation
Indices: 19715316--19715506 Score: 193
Period size: 55 Copynumber: 3.5 Consensus size: 54
19715306 TTTTTATTGA
* * **
19715316 GATGTGTAACAATTAAATTTTCCAACATGACATATAATAATTAAATCCTCAACAT
1 GATGTGTAACAACTAAATTTT-CAACATGACATATAATAACTAAATTTTCAACAT
* * * * * *
19715371 AATGTATAACAACTATATTTTTCAACATTATATGTAATAACTAAATTTTCAACAT
1 GATGTGTAACAACTA-AATTTTCAACATGACATATAATAACTAAATTTTCAACAT
* * * * *
19715426 GATGTGTAACAACTAAATCTTCAACATGACGTATAACAACTATATTTTTCAATAT
1 GATGTGTAACAACTAAATTTTCAACATGACATATAATAACTA-AATTTTCAACAT
* *
19715481 GGTATGTAACAACTAAAATTTTCAAC
1 GATGTGTAACAACT-AAATTTTCAAC
19715507 TAAATCTTTA
Statistics
Matches: 109, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
54 20 0.18
55 74 0.68
56 15 0.14
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (54 bp):
GATGTGTAACAACTAAATTTTCAACATGACATATAATAACTAAATTTTCAACAT
Found at i:19715596 original size:55 final size:55
Alignment explanation
Indices: 19715539--19715674 Score: 148
Period size: 55 Copynumber: 2.5 Consensus size: 55
19715529 ATAGCTACAT
*
19715539 TTTTCAACATGACATGTAATAACTA-AATTTTCAACATAAAGTGCAACAACTAAA
1 TTTTCAACATGACATGTAACAACTATAATTTTCAACATAAAGTGCAACAACTAAA
* * * * * * * *
19715593 TTTTCATCATGACGTGTAACAATTATATTTTTCAATATGACGTGTAACAACTAAA
1 TTTTCAACATGACATGTAACAACTATAATTTTCAACATAAAGTGCAACAACTAAA
* ** *
19715648 TTTTCAATATGATGTGTAGCAACTATA
1 TTTTCAACATGACATGTAACAACTATA
19715675 TTGTGTAATA
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
54 21 0.31
55 46 0.69
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (55 bp):
TTTTCAACATGACATGTAACAACTATAATTTTCAACATAAAGTGCAACAACTAAA
Found at i:19715664 original size:27 final size:27
Alignment explanation
Indices: 19715503--19715672 Score: 146
Period size: 27 Copynumber: 6.2 Consensus size: 27
19715493 CTAAAATTTT
* *
19715503 CAACTAAATCTTT-AATATGGCGTGCAA
1 CAACTAAAT-TTTCAATATGACGTGTAA
* * * * *
19715530 TAGCTACATTTTTCAACATGACATGTAA
1 CAACTA-AATTTTCAATATGACGTGTAA
* * * * *
19715558 TAACTAAATTTTCAACATAAAGTGCAA
1 CAACTAAATTTTCAATATGACGTGTAA
19715585 CAACTAAATTTTC-ATCATGACGTGTAA
1 CAACTAAATTTTCAAT-ATGACGTGTAA
* *
19715612 CAATTATATTTTTCAATATGACGTGTAA
1 CAACTA-AATTTTCAATATGACGTGTAA
* *
19715640 CAACTAAATTTTCAATATGATGTGTAG
1 CAACTAAATTTTCAATATGACGTGTAA
19715667 CAACTA
1 CAACTA
19715673 TATTGTGTAA
Statistics
Matches: 114, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
26 1 0.01
27 72 0.63
28 39 0.34
29 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (27 bp):
CAACTAAATTTTCAATATGACGTGTAA
Found at i:19715693 original size:125 final size:126
Alignment explanation
Indices: 19715553--19715780 Score: 325
Period size: 125 Copynumber: 1.8 Consensus size: 126
19715543 CAACATGACA
* * *
19715553 TGTAATAACTAAATTTTCAACATAAAGTGCAACAACTAAATTTTC-ATCATGACGTGTAACAATT
1 TGTAATAACTAAATTTTCAACATAAAGTACAACAACTAAATCTTCAAT-ATGACGTATAACAATT
* * *
19715617 ATATTTTTCAATATGACGTGTAACAACT-AAATTTTCAATATGATGTGTAGCAACTATATTG
65 ATAATTTTCAACATGACATGTAACAACTAAAATTTTCAATATGATGTGTAGCAACTATATTG
* * * *
19715678 TGTAATAACTAAATTTTCAATATGATGTATAACAACTAAATCTTCAATATGACGTATAACAATTA
1 TGTAATAACTAAATTTTCAACATAAAGTACAACAACTAAATCTTCAATATGACGTATAACAATTA
**
19715743 TAATTTTCAACATGGTATGTAACAACTAAAATTTTCAA
66 TAATTTTCAACATGACATGTAACAACTAAAATTTTCAA
19715781 CTAAATCTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
125 77 0.87
126 12 0.13
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (126 bp):
TGTAATAACTAAATTTTCAACATAAAGTACAACAACTAAATCTTCAATATGACGTATAACAATTA
TAATTTTCAACATGACATGTAACAACTAAAATTTTCAATATGATGTGTAGCAACTATATTG
Found at i:19715695 original size:43 final size:43
Alignment explanation
Indices: 19715634--19715715 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
19715624 TCAATATGAC
* *
19715634 GTGTAACAACTAAATTTTCAATATGATGTGTAGCAACTATATT
1 GTGTAACAACTAAATTTTCAATATGATGTATAACAACTATATT
*
19715677 GTGTAATAACTAAATTTTCAATATGATGTATAACAACTA
1 GTGTAACAACTAAATTTTCAATATGATGTATAACAACTA
19715716 AATCTTCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (43 bp):
GTGTAACAACTAAATTTTCAATATGATGTATAACAACTATATT
Found at i:19715718 original size:27 final size:27
Alignment explanation
Indices: 19715684--19715780 Score: 113
Period size: 27 Copynumber: 3.5 Consensus size: 27
19715674 ATTGTGTAAT
19715684 AACTAAATTTTCAATATGATGTATAAC
1 AACTAAATTTTCAATATGATGTATAAC
* *
19715711 AACTAAATCTTCAATATGACGTATAAC
1 AACTAAATTTTCAATATGATGTATAAC
* * * * *
19715738 AATTATAATTTTCAACATGGTATGTAAC
1 AACTA-AATTTTCAATATGATGTATAAC
19715766 AACTAAAATTTTCAA
1 AACT-AAATTTTCAA
19715781 CTAAATCTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 29 0.50
28 28 0.48
29 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.35
Consensus pattern (27 bp):
AACTAAATTTTCAATATGATGTATAAC
Found at i:19715809 original size:27 final size:27
Alignment explanation
Indices: 19715778--19715947 Score: 128
Period size: 27 Copynumber: 6.2 Consensus size: 27
19715768 CTAAAATTTT
*
19715778 CAACTAAATCTTTAACATGGCGTGTAA
1 CAACTAAATCTTTAACATGACGTGTAA
* * * *
19715805 CAACTACATTTTTCAACATGGCATGTAA
1 CAACTAAATCTTT-AACATGACGTGTAA
* *
19715833 CAACTAAAT-TTTCAACATAATGTGTAA
1 CAACTAAATCTTT-AACATGACGTGTAA
* * *
19715860 CAACTAAATCTTCATCATGAAGTGTAA
1 CAACTAAATCTTTAACATGACGTGTAA
* * * *
19715887 CAATTATATTTTTTAATATGACGTGTAA
1 CAACTA-AATCTTTAACATGACGTGTAA
* * * *
19715915 CAATTAAAT-TTTCAATATGATGTGTAG
1 CAACTAAATCTTT-AACATGACGTGTAA
19715942 CAACTA
1 CAACTA
19715948 TATTGTGTAA
Statistics
Matches: 116, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
26 3 0.03
27 69 0.59
28 44 0.38
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (27 bp):
CAACTAAATCTTTAACATGACGTGTAA
Found at i:19715819 original size:68 final size:67
Alignment explanation
Indices: 19715710--19715848 Score: 197
Period size: 68 Copynumber: 2.1 Consensus size: 67
19715700 TGATGTATAA
* * * *
19715710 CAACTAAATCTTCAATATGACGTATAACAATTATAATTTTCAACATGGTATGTAACAACTAAAAT
1 CAACTAAATCTTCAACATGACGTATAACAACTACAATTTTCAACATGGCATGTAACAACT-AAAT
19715775 TTT
65 TTT
* * * *
19715778 CAACTAAATCTTTAACATGGCGTGTAACAACTACATTTTTCAACATGGCATGTAACAACTAAATT
1 CAACTAAATCTTCAACATGACGTATAACAACTACAATTTTCAACATGGCATGTAACAACTAAATT
19715843 TT
66 TT
19715845 CAAC
1 CAAC
19715849 ATAATGTGTA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
67 11 0.17
68 52 0.83
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (67 bp):
CAACTAAATCTTCAACATGACGTATAACAACTACAATTTTCAACATGGCATGTAACAACTAAATT
TT
Found at i:19715894 original size:275 final size:275
Alignment explanation
Indices: 19715403--19716054 Score: 1047
Period size: 275 Copynumber: 2.4 Consensus size: 275
19715393 CAACATTATA
* *
19715403 TGTAATAACTAAATTTTCAACATGATGTGTAACAACTAAATCTTCAACATGACGTATAACAACTA
1 TGTAATAACTAAATTTTCAACATGATGTGTAACAACTAAATCTTCAATATGACGTATAACAATTA
* * *
19715468 TATTTTTCAATATGGTATGTAACAACTAAAATTTTCAACTAAATCTTTAATATGGCGTGCAATAG
66 TATTTTTCAATATGGTATGTAACAACTAAAATTTTCAACTAAATCTTTAACATGGCGTGCAACAA
* *
19715533 CTACATTTTTCAACATGACATGTAATAACTAAATTTTCAACATAAAGTGCAACAACTAAATTTTC
131 CTACATTTTTCAACATGACATGTAACAACTAAATTTTCAACATAAAGTGCAACAACTAAATCTTC
*
19715598 ATCATGACGTGTAACAATTATATTTTTCAATATGACGTGTAACAACTAAATTTTCAATATGATGT
196 ATCATGAAGTGTAACAATTATATTTTTCAATATGACGTGTAACAACTAAATTTTCAATATGATGT
19715663 GTAGCAACTATATTG
261 GTAGCAACTATATTG
* *
19715678 TGTAATAACTAAATTTTCAATATGATGTATAACAACTAAATCTTCAATATGACGTATAACAATTA
1 TGTAATAACTAAATTTTCAACATGATGTGTAACAACTAAATCTTCAATATGACGTATAACAATTA
* * *
19715743 TAATTTTCAACATGGTATGTAACAACTAAAATTTTCAACTAAATCTTTAACATGGCGTGTAACAA
66 TATTTTTCAATATGGTATGTAACAACTAAAATTTTCAACTAAATCTTTAACATGGCGTGCAACAA
* * *
19715808 CTACATTTTTCAACATGGCATGTAACAACTAAATTTTCAACATAATGTGTAACAACTAAATCTTC
131 CTACATTTTTCAACATGACATGTAACAACTAAATTTTCAACATAAAGTGCAACAACTAAATCTTC
* *
19715873 ATCATGAAGTGTAACAATTATATTTTTTAATATGACGTGTAACAATTAAATTTTCAATATGATGT
196 ATCATGAAGTGTAACAATTATATTTTTCAATATGACGTGTAACAACTAAATTTTCAATATGATGT
19715938 GTAGCAACTATATTG
261 GTAGCAACTATATTG
* * * * *
19715953 TGTAACAACTAAATTTTCAACATAATATGTAACAACTAAATCTT-TATCATGACGTGTAACAATT
1 TGTAATAACTAAATTTTCAACATGATGTGTAACAACTAAATCTTCAAT-ATGACGTATAACAATT
***
19716017 ATATTTTTCAATATGACGTGTAACAACT-AAATTTTCAA
65 ATATTTTTCAATATGGTATGTAACAACTAAAATTTTCAA
19716055 TATGATGTGT
Statistics
Matches: 346, Mismatches: 30, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
274 12 0.03
275 334 0.97
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (275 bp):
TGTAATAACTAAATTTTCAACATGATGTGTAACAACTAAATCTTCAATATGACGTATAACAATTA
TATTTTTCAATATGGTATGTAACAACTAAAATTTTCAACTAAATCTTTAACATGGCGTGCAACAA
CTACATTTTTCAACATGACATGTAACAACTAAATTTTCAACATAAAGTGCAACAACTAAATCTTC
ATCATGAAGTGTAACAATTATATTTTTCAATATGACGTGTAACAACTAAATTTTCAATATGATGT
GTAGCAACTATATTG
Found at i:19715970 original size:43 final size:43
Alignment explanation
Indices: 19715909--19715990 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
19715899 TTAATATGAC
* * * * *
19715909 GTGTAACAATTAAATTTTCAATATGATGTGTAGCAACTATATT
1 GTGTAACAACTAAATTTTCAACATAATATGTAACAACTATATT
19715952 GTGTAACAACTAAATTTTCAACATAATATGTAACAACTA
1 GTGTAACAACTAAATTTTCAACATAATATGTAACAACTA
19715991 AATCTTTATC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.35
Consensus pattern (43 bp):
GTGTAACAACTAAATTTTCAACATAATATGTAACAACTATATT
Found at i:19715983 original size:27 final size:27
Alignment explanation
Indices: 19715952--19716072 Score: 127
Period size: 27 Copynumber: 4.4 Consensus size: 27
19715942 CAACTATATT
* *
19715952 GTGTAACAACTAAATTTTCAACATAAT
1 GTGTAACAACTAAATTTTCAACATGAC
* *
19715979 ATGTAACAACTAAATCTTT-ATCATGAC
1 GTGTAACAACTAAAT-TTTCAACATGAC
* * *
19716006 GTGTAACAATTATATTTTTCAATATGAC
1 GTGTAACAACTA-AATTTTCAACATGAC
* *
19716034 GTGTAACAACTAAATTTTCAATATGAT
1 GTGTAACAACTAAATTTTCAACATGAC
*
19716061 GTGTAGCAACTA
1 GTGTAACAACTA
19716073 TATTGTGTAA
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
27 56 0.72
28 22 0.28
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (27 bp):
GTGTAACAACTAAATTTTCAACATGAC
Found at i:19715984 original size:125 final size:125
Alignment explanation
Indices: 19715828--19716094 Score: 480
Period size: 125 Copynumber: 2.1 Consensus size: 125
19715818 CAACATGGCA
*
19715828 TGTAACAACTAAATTTTCAACATAATGTGTAACAACTAAATCTTCATCATGAAGTGTAACAATTA
1 TGTAACAACTAAATTTTCAACATAATATGTAACAACTAAATCTTCATCATGAAGTGTAACAATTA
* *
19715893 TATTTTTTAATATGACGTGTAACAATTAAATTTTCAATATGATGTGTAGCAACTATATTG
66 TATTTTTCAATATGACGTGTAACAACTAAATTTTCAATATGATGTGTAGCAACTATATTG
* *
19715953 TGTAACAACTAAATTTTCAACATAATATGTAACAACTAAATCTTTATCATGACGTGTAACAATTA
1 TGTAACAACTAAATTTTCAACATAATATGTAACAACTAAATCTTCATCATGAAGTGTAACAATTA
19716018 TATTTTTCAATATGACGTGTAACAACTAAATTTTCAATATGATGTGTAGCAACTATATTG
66 TATTTTTCAATATGACGTGTAACAACTAAATTTTCAATATGATGTGTAGCAACTATATTG
*
19716078 TGTAACAATTAAATTTT
1 TGTAACAACTAAATTTT
19716095 NNNNNNNNNN
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
125 136 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.38
Consensus pattern (125 bp):
TGTAACAACTAAATTTTCAACATAATATGTAACAACTAAATCTTCATCATGAAGTGTAACAATTA
TATTTTTCAATATGACGTGTAACAACTAAATTTTCAATATGATGTGTAGCAACTATATTG
Found at i:19716025 original size:98 final size:98
Alignment explanation
Indices: 19715845--19716045 Score: 257
Period size: 98 Copynumber: 2.1 Consensus size: 98
19715835 ACTAAATTTT
* * * * *
19715845 CAAC-ATAATGTGTAACAACTAAATCTTCATCATGAAGTGTAACAATTATATTTTTTAATATGAC
1 CAACTATAATGTGTAACAACTAAATCTTCAACATGAAATGTAACAACTATAATCTTTAATATGAC
* *
19715909 GTGTAACAATTAAATTTTCAATATGATGTGTAG
66 GTGTAACAATTAAATTTTCAATATGACGTGTAA
* *
19715942 CAACTATATTGTGTAACAACTAAATTTTCAACAT-AATATGTAACAACTA-AATCTTT-ATCATG
1 CAACTATAATGTGTAACAACTAAATCTTCAACATGAA-ATGTAACAACTATAATCTTTAAT-ATG
*
19716004 ACGTGTAACAATTATATTTTTCAATATGACGTGTAA
64 ACGTGTAACAATTA-AATTTTCAATATGACGTGTAA
19716040 CAACTA
1 CAACTA
19716046 AATTTTCAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
96 2 0.02
97 28 0.31
98 60 0.67
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.36
Consensus pattern (98 bp):
CAACTATAATGTGTAACAACTAAATCTTCAACATGAAATGTAACAACTATAATCTTTAATATGAC
GTGTAACAATTAAATTTTCAATATGACGTGTAA
Found at i:19720079 original size:45 final size:45
Alignment explanation
Indices: 19720024--19720112 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
19720014 TTTTTTTAAC
*
19720024 ATGGGGTGTAACAACCTAACAAT-GACTTGTTACAGGTTTTTGTAT
1 ATGGCGTGTAACAACCTAACAATAG-CTTGTTACAGGTTTTTGTAT
* * *
19720069 ATGGCGTGTAATAAGCTAACCATAGCTTGTTACAGGTTTTTGTA
1 ATGGCGTGTAACAACCTAACAATAGCTTGTTACAGGTTTTTGTA
19720113 CTTGGCTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 38 0.97
46 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (45 bp):
ATGGCGTGTAACAACCTAACAATAGCTTGTTACAGGTTTTTGTAT
Found at i:19720230 original size:45 final size:45
Alignment explanation
Indices: 19720131--19720240 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 45
19720121 ATCACATATA
* * * *
19720131 TTTGTACATAGCGTGTAATACGCTAACCATGGCTTGTCACAGGTT
1 TTTGTACATTGCGTGTAACAAGCTAACCATAGCTTGTCACAGGTT
* ** *
19720176 TTTATACATTGCGTGTAACAAGCTAATTATAGCTTTTCACAGGTT
1 TTTGTACATTGCGTGTAACAAGCTAACCATAGCTTGTCACAGGTT
* *
19720221 TTTGTACATTACTTGTAACA
1 TTTGTACATTGCGTGTAACA
19720241 TATTTTTGTA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (45 bp):
TTTGTACATTGCGTGTAACAAGCTAACCATAGCTTGTCACAGGTT
Found at i:19720246 original size:24 final size:24
Alignment explanation
Indices: 19720219--19720311 Score: 77
Period size: 24 Copynumber: 4.0 Consensus size: 24
19720209 TTTTCACAGG
* *
19720219 TTTTTGTACATTACTTGTAACATA
1 TTTTTGTACATAACATGTAACATA
19720243 TTTTTGTACATAACATGTAACA-A
1 TTTTTGTACATAACATGTAACATA
** * * *
19720266 --ACT-AACCATAACTTGTCACATA
1 TTTTTGTA-CATAACATGTAACATA
*
19720288 TTTTTGTACATAACATATAACATA
1 TTTTTGTACATAACATGTAACATA
19720312 CTAACCATGG
Statistics
Matches: 51, Mismatches: 13, Indels: 10
0.69 0.18 0.14
Matches are distributed among these distances:
20 1 0.02
21 13 0.25
22 1 0.02
23 1 0.02
24 34 0.67
25 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (24 bp):
TTTTTGTACATAACATGTAACATA
Found at i:19720326 original size:45 final size:45
Alignment explanation
Indices: 19720231--19720344 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
19720221 TTTGTACATT
* *
19720231 ACTTGTAACATATTTTTGTACATAACATGTAACAAACTAACCATA
1 ACTTGTCACATATTTTTGTACATAACATATAACAAACTAACCATA
* *
19720276 ACTTGTCACATATTTTTGTACATAACATATAACATACTAACCATG
1 ACTTGTCACATATTTTTGTACATAACATATAACAAACTAACCATA
* ** *
19720321 GCTTGTCACAGGTTTTTATACATA
1 ACTTGTCACATATTTTTGTACATA
19720345 GCGTGTCACA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (45 bp):
ACTTGTCACATATTTTTGTACATAACATATAACAAACTAACCATA
Found at i:19720360 original size:24 final size:24
Alignment explanation
Indices: 19720324--19720373 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
19720314 AACCATGGCT
* *
19720324 TGTCACAGGTTTTTATACATAGCG
1 TGTCACAGATTTTTATACATAACG
* *
19720348 TGTCACATATTTTTGTACATAACG
1 TGTCACAGATTTTTATACATAACG
19720372 TG
1 TG
19720374 CAACACGCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (24 bp):
TGTCACAGATTTTTATACATAACG
Found at i:19720406 original size:69 final size:69
Alignment explanation
Indices: 19720279--19720412 Score: 178
Period size: 69 Copynumber: 1.9 Consensus size: 69
19720269 AACCATAACT
* * * **
19720279 TGTCACATATTTTTGTACATAACATATAACATACTAACCATGGCTTGTCACAGGTTTTTATACAT
1 TGTCACATATTTTTGTACATAACATACAACACACTAACCATGACTTGTCACAAATTTTTATACAT
19720344 AGCG
66 AGCG
* * * * *
19720348 TGTCACATATTTTTGTACATAACGTGCAACACGCTAACCATGATTTGTCACAAATTTTTGTACAT
1 TGTCACATATTTTTGTACATAACATACAACACACTAACCATGACTTGTCACAAATTTTTATACAT
19720413 GACGTATAAC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 55 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (69 bp):
TGTCACATATTTTTGTACATAACATACAACACACTAACCATGACTTGTCACAAATTTTTATACAT
AGCG
Found at i:19720421 original size:114 final size:115
Alignment explanation
Indices: 19720029--19720424 Score: 399
Period size: 114 Copynumber: 3.5 Consensus size: 115
19720019 TTAACATGGG
* * ** * * * *
19720029 GTGTAACAAC-CTAACAATGACTTGTTACAGGTTTTTGTATATGGCGTGTAATA-AGCTAACCAT
1 GTGTAAC-ACGCTAACCATGACTTGTCACAAATTTTTGTACATGACGTATAACATAGCTAACCAT
* * * * * *
19720092 AGCTTGTTACAGGTTTTTGTACTTGGCTTATCACATATATTTGTACATAGC
65 AGCTTGTCACAGGTTTTTGTACATAGCTTGTCACATATTTTTGTACATAAC
* * ** * * **
19720143 GTGTAATACGCTAACCATGGCTTGTCACAGGTTTTTATACATTG-CGTGTAACA-AGCTAATTAT
1 GTGTAACACGCTAACCATGACTTGTCACAAATTTTTGTACA-TGACGTATAACATAGCTAACCAT
* *
19720206 AGCTTTTCACAGGTTTTTGTACATTA-CTTGTAACATATTTTTGTACATAAC
65 AGCTTGTCACAGGTTTTTGTACA-TAGCTTGTCACATATTTTTGTACATAAC
* ** * * * * *
19720257 ATGTAACAAACTAACCATAACTTGTCACATATTTTTGTACATAACATATAACATA-CTAACCATG
1 GTGTAACACGCTAACCATGACTTGTCACAAATTTTTGTACATGACGTATAACATAGCTAACCATA
* *
19720321 GCTTGTCACAGGTTTTTATACATAGCGTGTCACATATTTTTGTACATAAC
66 GCTTGTCACAGGTTTTTGTACATAGCTTGTCACATATTTTTGTACATAAC
* *
19720371 GTGCAACACGCTAACCATGATTTGTCACAAATTTTTGTACATGACGTATAACAT
1 GTGTAACACGCTAACCATGACTTGTCACAAATTTTTGTACATGACGTATAACAT
19720425 CATAGCGTGT
Statistics
Matches: 231, Mismatches: 45, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
113 5 0.02
114 222 0.96
115 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (115 bp):
GTGTAACACGCTAACCATGACTTGTCACAAATTTTTGTACATGACGTATAACATAGCTAACCATA
GCTTGTCACAGGTTTTTGTACATAGCTTGTCACATATTTTTGTACATAAC
Found at i:19723476 original size:21 final size:21
Alignment explanation
Indices: 19723423--19723477 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
19723413 TAATCACTGT
*
19723423 GTGACTAGTTTTTAGGTATTAC
1 GTGACTAG-TTTTAGGCATTAC
* * *
19723445 GTAATTGGTTTTAGGCATTAC
1 GTGACTAGTTTTAGGCATTAC
19723466 GTGACTAGTTTT
1 GTGACTAGTTTT
19723478 TAGATATTGT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.45
Consensus pattern (21 bp):
GTGACTAGTTTTAGGCATTAC
Found at i:19723546 original size:23 final size:23
Alignment explanation
Indices: 19723513--19723688 Score: 171
Period size: 23 Copynumber: 7.5 Consensus size: 23
19723503 GCAATGTCTG
*
19723513 AGTCACACAATGCCTTACTAACT
1 AGTCACGCAATGCCTTACTAACT
19723536 AGTCACGCAATGCCTTACTAACT
1 AGTCACGCAATGCCTTACTAACT
*
19723559 AGTCACGCAATGCCTTACTAACA
1 AGTCACGCAATGCCTTACTAACT
* * *
19723582 AGTCATGCAACGTC-TA-TCAACT
1 AGTCACGCAATGCCTTACT-AACT
* *
19723604 AGTCACACAATGCCTTATCAAAAACT
1 AGTCACGCAATGCCTTA-C--TAACT
19723630 AGTCACGCAATGCC-TA-TCAACT
1 AGTCACGCAATGCCTTACT-AACT
* *
19723652 AGTCACGTAATGCCTTATTAGAAACT
1 AGTCACGCAATGCCTTACT---AACT
19723678 AGTCACGCAAT
1 AGTCACGCAAT
19723689 TTCTTATCAA
Statistics
Matches: 126, Mismatches: 16, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
21 1 0.01
22 32 0.25
23 59 0.47
24 1 0.01
25 2 0.02
26 31 0.25
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (23 bp):
AGTCACGCAATGCCTTACTAACT
Found at i:19723629 original size:26 final size:26
Alignment explanation
Indices: 19723532--19723833 Score: 201
Period size: 26 Copynumber: 12.7 Consensus size: 26
19723522 ATGCCTTACT
*
19723532 AACTAGTCACGCAATGCCTTA-C--T
1 AACTAGTCACGCAATGCCTTATCAAA
*
19723555 AACTAGTCACGCAATGCCTTA-C--T
1 AACTAGTCACGCAATGCCTTATCAAA
* * * *
19723578 AACAAGTCATGCAACGTC-TATC---
1 AACTAGTCACGCAATGCCTTATCAAA
*
19723600 AACTAGTCACACAATGCCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
19723626 AACTAGTCACGCAATGCC-TATC---
1 AACTAGTCACGCAATGCCTTATCAAA
* * *
19723648 AACTAGTCACGTAATGCCTTATTAGA
1 AACTAGTCACGCAATGCCTTATCAAA
**
19723674 AACTAGTCACGCAATTTCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
*
19723700 AACTAGTCACGCAATACC----CAAA
1 AACTAGTCACGCAATGCCTTATCAAA
**
19723722 GTC-AGTCACGCAATGCC----CAAA
1 AACTAGTCACGCAATGCCTTATCAAA
*
19723743 ATC-AGTCACGCAATGCC-TATC---
1 AACTAGTCACGCAATGCCTTATCAAA
** *
19723764 AACTAGTCACGCAATATCTTATCATA
1 AACTAGTCACGCAATGCCTTATCAAA
* *
19723790 AACTAGTCACACAATACCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
* *
19723816 AATTAGTCACGTAATGCC
1 AACTAGTCACGCAATGCC
19723834 CAAAGTCAGT
Statistics
Matches: 229, Mismatches: 33, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
21 35 0.15
22 49 0.21
23 49 0.21
24 1 0.00
25 4 0.02
26 91 0.40
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (26 bp):
AACTAGTCACGCAATGCCTTATCAAA
Found at i:19723750 original size:116 final size:116
Alignment explanation
Indices: 19723630--19723894 Score: 341
Period size: 116 Copynumber: 2.3 Consensus size: 116
19723620 ATCAAAAACT
* * * **
19723630 AGTCACGCAATGCCTATCAACTAGTCACGTAATGCCTTATTAGAAACTAGTCACGCAATTTCTTA
1 AGTCACGCAATGCCTATCAACTAGTCACGTAATACCTTATCAGAAACTAGTCACACAATACCTTA
*
19723695 TCAAAAACTAGTCACGCAATACCCAAAGTCAGTCACGCAATGCCCAAAATC
66 TCAAAAACTAGTCACGCAATACCCAAAGTCAGTCACGCAATACCCAAAATC
* * *
19723746 AGTCACGCAATGCCTATCAACTAGTCACGCAATATCTTATCATAAACTAGTCACACAATACCTTA
1 AGTCACGCAATGCCTATCAACTAGTCACGTAATACCTTATCAGAAACTAGTCACACAATACCTTA
* * * * * *
19723811 TCAAAAATTAGTCACGTAATGCCCAAAGTCAGTCACGTAATATCTAAAATC
66 TCAAAAACTAGTCACGCAATACCCAAAGTCAGTCACGCAATACCCAAAATC
* * * ** *
19723862 AATCACGTAATACCTAAAAACTAGTCACATAAT
1 AGTCACGCAATGCCTATCAACTAGTCACGTAAT
19723895 TCTCAAAAAT
Statistics
Matches: 127, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
116 127 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.25
Consensus pattern (116 bp):
AGTCACGCAATGCCTATCAACTAGTCACGTAATACCTTATCAGAAACTAGTCACACAATACCTTA
TCAAAAACTAGTCACGCAATACCCAAAGTCAGTCACGCAATACCCAAAATC
Found at i:19723757 original size:21 final size:21
Alignment explanation
Indices: 19723704--19723759 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
19723694 ATCAAAAACT
* *
19723704 AGTCACGCAATACCCAAAGTC
1 AGTCACGCAATGCCCAAAATC
19723725 AGTCACGCAATGCCCAAAATC
1 AGTCACGCAATGCCCAAAATC
19723746 AGTCACGCAATGCC
1 AGTCACGCAATGCC
19723760 TATCAACTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.34, G:0.16, T:0.14
Consensus pattern (21 bp):
AGTCACGCAATGCCCAAAATC
Found at i:19726291 original size:15 final size:16
Alignment explanation
Indices: 19726271--19726300 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19726261 CTGTTATATG
19726271 GATTTT-ATTTTTAAT
1 GATTTTAATTTTTAAT
19726286 GATTTTAATTTTTAA
1 GATTTTAATTTTTAA
19726301 AAATTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (16 bp):
GATTTTAATTTTTAAT
Found at i:19728992 original size:122 final size:124
Alignment explanation
Indices: 19728848--19729093 Score: 381
Period size: 125 Copynumber: 2.0 Consensus size: 124
19728838 TTTACAGTGA
*
19728848 CTCGTGGGCTCACAAGGAACAAAAGTGTACAAAGGCAGTAAACCTAC-AGTTTT-T-GTAGTAAA
1 CTCGTGGGCTCACAAGGAACAAAAGTGCACAAAGGCAGTAAACCTACAAGTTTTGTAGTAGTAAA
* *
19728910 GTCGACTATAATCCCTGACGATATCTGCTATCCACAGGCTACCTCAGGCCTGAAATGGT
66 GCCGACTATAATCCCTGACGATATCTACTATCCACAGGCTACCTCAGGCCTGAAATGGT
* *
19728969 NCTCGTGGGCTTACAAGGAACAAAAGTGCACAAAGGCAGTAAACCTACAATTTTTGTAGTAGTAA
1 -CTCGTGGGCTCACAAGGAACAAAAGTGCACAAAGGCAGTAAACCTACAAGTTTTGTAGTAGTAA
* ** *
19729034 AGCCGTCTATAATCTTTGACGATATCTACTATCCACAGGCTACCTCGGGCCTGAAATGGT
65 AGCCGACTATAATCCCTGACGATATCTACTATCCACAGGCTACCTCAGGCCTGAAATGGT
19729094 TGAAAAAGAG
Statistics
Matches: 112, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
122 45 0.40
123 5 0.04
124 1 0.01
125 61 0.54
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (124 bp):
CTCGTGGGCTCACAAGGAACAAAAGTGCACAAAGGCAGTAAACCTACAAGTTTTGTAGTAGTAAA
GCCGACTATAATCCCTGACGATATCTACTATCCACAGGCTACCTCAGGCCTGAAATGGT
Found at i:19735413 original size:21 final size:21
Alignment explanation
Indices: 19735387--19735440 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
19735377 TTTTGTGATT
19735387 TTTGGGCATTGCGTAACTGAC
1 TTTGGGCATTGCGTAACTGAC
* * *
19735408 TTTGGGCATTACGTGATTGAC
1 TTTGGGCATTGCGTAACTGAC
*
19735429 TTTGAGCATTGC
1 TTTGGGCATTGC
19735441 TGACTAGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (21 bp):
TTTGGGCATTGCGTAACTGAC
Found at i:19735534 original size:23 final size:23
Alignment explanation
Indices: 19735502--19735583 Score: 119
Period size: 23 Copynumber: 3.6 Consensus size: 23
19735492 GTTGATAGGC
* *
19735502 ATTGCATGACTTATTAGTAAGAT
1 ATTGCGTGACTTATTAGTAAGGT
*
19735525 ATTGCGTGACTTATTAGTAAGGC
1 ATTGCGTGACTTATTAGTAAGGT
*
19735548 ATTGCGTGACTTGTTAGTAAGGT
1 ATTGCGTGACTTATTAGTAAGGT
*
19735571 ATTGTGTGACTTA
1 ATTGCGTGACTTA
19735584 GGCATTGTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (23 bp):
ATTGCGTGACTTATTAGTAAGGT
Found at i:19735558 original size:46 final size:46
Alignment explanation
Indices: 19735477--19735584 Score: 141
Period size: 46 Copynumber: 2.4 Consensus size: 46
19735467 TAGTTGATAT
19735477 GATATTGCGTGA-TTAGTTGATAGGCATTGCATGACTTATTAGTAA
1 GATATTGCGTGACTTAGTTGATAGGCATTGCATGACTTATTAGTAA
* *
19735522 GATATTGCGTGACTTA-TT-AGTAAGGCATTGCGTGACTTGTTAGTAA
1 GATATTGCGTGACTTAGTTGA-T-AGGCATTGCATGACTTATTAGTAA
* *
19735568 GGTATTGTGTGACTTAG
1 GATATTGCGTGACTTAG
19735585 GCATTGTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
44 1 0.02
45 15 0.27
46 39 0.71
ACGTcount: A:0.26, C:0.09, G:0.27, T:0.38
Consensus pattern (46 bp):
GATATTGCGTGACTTAGTTGATAGGCATTGCATGACTTATTAGTAA
Found at i:19735619 original size:22 final size:22
Alignment explanation
Indices: 19735591--19735671 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 22
19735581 TTAGGCATTG
*
19735591 TTTAAAAATCAGTCACGTAATA
1 TTTAAAAACCAGTCACGTAATA
* *
19735613 TTTAAAAACCAGTTACGTAATG
1 TTTAAAAACCAGTCACGTAATA
** * *
19735635 CCT-AAAACCAATCACGTAATG
1 TTTAAAAACCAGTCACGTAATA
* *
19735656 CTTAAAAACTAGTCAC
1 TTTAAAAACCAGTCAC
19735672 ACAGTGATTA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 18 0.38
22 30 0.62
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (22 bp):
TTTAAAAACCAGTCACGTAATA
Found at i:19735643 original size:21 final size:21
Alignment explanation
Indices: 19735617--19735662 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
19735607 GTAATATTTA
* *
19735617 AAAACCAGTTACGTAATGCCT
1 AAAACCAATCACGTAATGCCT
*
19735638 AAAACCAATCACGTAATGCTT
1 AAAACCAATCACGTAATGCCT
19735659 AAAA
1 AAAA
19735663 ACTAGTCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.46, C:0.22, G:0.11, T:0.22
Consensus pattern (21 bp):
AAAACCAATCACGTAATGCCT
Found at i:19735721 original size:22 final size:22
Alignment explanation
Indices: 19735689--19735730 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19735679 TTAAGTTACG
*
19735689 CAATACCTAAAAATCAGTCTCT
1 CAATACCTAAAAACCAGTCTCT
*
19735711 CAATACTTAAAAACCAGTCT
1 CAATACCTAAAAACCAGTCT
19735731 AATCAATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.26, G:0.05, T:0.26
Consensus pattern (22 bp):
CAATACCTAAAAACCAGTCTCT
Found at i:19735736 original size:23 final size:22
Alignment explanation
Indices: 19735689--19735737 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
19735679 TTAAGTTACG
* *
19735689 CAATACCTAAAAATCAGTCTCT
1 CAATACCTAAAAACCAGTCTAT
*
19735711 CAATACTTAAAAACCAGTCTAAT
1 CAATACCTAAAAACCAGTCT-AT
19735734 CAAT
1 CAAT
19735738 TTCAACTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (22 bp):
CAATACCTAAAAACCAGTCTAT
Found at i:19747729 original size:21 final size:20
Alignment explanation
Indices: 19747704--19747742 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19747694 CGGCCATAAG
19747704 GAGAGAAAAAGAGAGAAAATA
1 GAGAGAAAAAGA-AGAAAATA
* *
19747725 GAGAGGAAAGGAAGAAAA
1 GAGAGAAAAAGAAGAAAA
19747743 GAGAAAAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (20 bp):
GAGAGAAAAAGAAGAAAATA
Found at i:19756130 original size:42 final size:42
Alignment explanation
Indices: 19756071--19756187 Score: 198
Period size: 42 Copynumber: 2.8 Consensus size: 42
19756061 TCATATGCAG
* **
19756071 CGGCTTATGCGCACTCCCACTATCACATAGCCGGGTCAGCAA
1 CGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCAGCAA
19756113 CGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCAGCAA
1 CGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCAGCAA
*
19756155 CGGCTTATGTGCACTCCTACTCGCACATAGCCG
1 CGGCTTATGTGCACTCCCACTCGCACATAGCCG
19756188 AGTCCACATC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.21, C:0.36, G:0.22, T:0.21
Consensus pattern (42 bp):
CGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCAGCAA
Found at i:19762389 original size:38 final size:40
Alignment explanation
Indices: 19762347--19762445 Score: 112
Period size: 38 Copynumber: 2.5 Consensus size: 40
19762337 AGTGCCCGTG
* *
19762347 TGCACGATGTGGGGGGATGCAAACGATGGC-ACTAAT-TA
1 TGCACGATGTGGGGGGATGCAAACGATGACTACGAATATA
* * * * **
19762385 TGCACGATGTGAGGGGATGTACACGATGACTCCGGCTATA
1 TGCACGATGTGGGGGGATGCAAACGATGACTACGAATATA
19762425 TGCACGATGTGGGGGGATGCA
1 TGCACGATGTGGGGGGATGCA
19762446 CATGAGCTGG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
38 26 0.53
39 2 0.04
40 21 0.43
ACGTcount: A:0.25, C:0.17, G:0.36, T:0.21
Consensus pattern (40 bp):
TGCACGATGTGGGGGGATGCAAACGATGACTACGAATATA
Found at i:19762924 original size:19 final size:19
Alignment explanation
Indices: 19762900--19762950 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
19762890 GGAGGTTTGG
19762900 TGAGAAACCCTCGGCTAGT
1 TGAGAAACCCTCGGCTAGT
*
19762919 TGAGAAACCCTCAGCTAGT
1 TGAGAAACCCTCGGCTAGT
*
19762938 TGACAAACCCTCG
1 TGAGAAACCCTCG
19762951 TTCGGCTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (19 bp):
TGAGAAACCCTCGGCTAGT
Found at i:19764571 original size:16 final size:16
Alignment explanation
Indices: 19764550--19764582 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19764540 GAACTTAATA
*
19764550 AGCTTATTGAGAAATG
1 AGCTTATTGACAAATG
19764566 AGCTTATTGACAAATG
1 AGCTTATTGACAAATG
19764582 A
1 A
19764583 AGCTCGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.30
Consensus pattern (16 bp):
AGCTTATTGACAAATG
Found at i:19770179 original size:50 final size:51
Alignment explanation
Indices: 19770084--19770196 Score: 131
Period size: 50 Copynumber: 2.3 Consensus size: 51
19770074 CCACAACGAA
** * ** *
19770084 ATTCTTGCTTTTTCATTAGATCAAGCGATAACTCTTACAAACCATAAAGGG
1 ATTCTTGCTTTTTCACGAGATCAAGCGATAACCCACACAAACCATAAAAGG
* * *
19770135 ATTCTTGCTTTTT-ACGGGATCAAGCGGTAACCCACACAATCCATAAAAGG
1 ATTCTTGCTTTTTCACGAGATCAAGCGATAACCCACACAAACCATAAAAGG
19770185 -TTCTTGCTTTTT
1 ATTCTTGCTTTTT
19770197 GATAGGAAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 12 0.23
50 28 0.53
51 13 0.25
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (51 bp):
ATTCTTGCTTTTTCACGAGATCAAGCGATAACCCACACAAACCATAAAAGG
Found at i:19783461 original size:3 final size:3
Alignment explanation
Indices: 19783446--19783486 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
19783436 TAAATATAGT
*
19783446 TAC TAC TAA TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
19783487 GAGATAAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:19798715 original size:54 final size:54
Alignment explanation
Indices: 19798631--19798733 Score: 179
Period size: 54 Copynumber: 1.9 Consensus size: 54
19798621 TATATCACCA
* *
19798631 CATCTCATCCAGCTCATGTGCATCCTCCCACATCGTGCACATAGTCGGACTCCC
1 CATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGTCGGACTCCC
*
19798685 CATCTCACCCAGCTTATGTGCATCCCCCCACATCGTGCACATAGTCGGA
1 CATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGTCGGA
19798734 GTCATTGTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.21, C:0.40, G:0.16, T:0.23
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGTCGGACTCCC
Found at i:19798756 original size:40 final size:40
Alignment explanation
Indices: 19798701--19798806 Score: 185
Period size: 40 Copynumber: 2.6 Consensus size: 40
19798691 ACCCAGCTTA
* *
19798701 TGTGCATCCCCCCACATCGTGCACATAGTCGGAGTCATTG
1 TGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATCG
19798741 TGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATCG
*
19798781 TGTACATCCCCCCACATCGTGCACAT
1 TGTGCATCCCCCCACATCGTGCACAT
19798807 GGGCAGTGTC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.21, C:0.37, G:0.20, T:0.23
Consensus pattern (40 bp):
TGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATCG
Found at i:19804931 original size:42 final size:42
Alignment explanation
Indices: 19804880--19804963 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
19804870 GATGTGGACT
* *
19804880 CGGCTATGTGCGAGTA-AGAGTGTACATAAGCCGATGATGACC
1 CGGCTATGTGCGAGTAGA-AGTGCACATAAGCCAATGATGACC
*
19804922 CGGCTATGTGCGAGTGGAAGTGCACATAAGCCAATGATGACC
1 CGGCTATGTGCGAGTAGAAGTGCACATAAGCCAATGATGACC
19804964 TAGCCATGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (42 bp):
CGGCTATGTGCGAGTAGAAGTGCACATAAGCCAATGATGACC
Found at i:19804973 original size:42 final size:42
Alignment explanation
Indices: 19804885--19804991 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
19804875 GGACTCGGCT
* * * * *
19804885 ATGTGCGAGT-AAGAGTGTACATAAGCCGATGATGACCCGGCT
1 ATGTGCGAGTGGA-AGTGCACATAAGCCAATGATGACCCAGCC
*
19804927 ATGTGCGAGTGGAAGTGCACATAAGCCAATGATGACCTAGCC
1 ATGTGCGAGTGGAAGTGCACATAAGCCAATGATGACCCAGCC
* *
19804969 ATGTGCTAGTGGGGAGTGCACAT
1 ATGTGCGAGT-GGAAGTGCACAT
19804992 GAGCTGATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 43 0.78
43 12 0.22
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (42 bp):
ATGTGCGAGTGGAAGTGCACATAAGCCAATGATGACCCAGCC
Found at i:19820971 original size:25 final size:25
Alignment explanation
Indices: 19820941--19820997 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
19820931 GACATGCCGG
*
19820941 TGATGATGGTGGCGTGAGAGATATA
1 TGATGATGGTGGCGTGAGAGATAGA
19820966 TGATGATGGTGGCGTGAGAGATAGA
1 TGATGATGGTGGCGTGAGAGATAGA
19820991 TGATGAT
1 TGATGAT
19820998 AGTGCCCGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.28, C:0.04, G:0.40, T:0.28
Consensus pattern (25 bp):
TGATGATGGTGGCGTGAGAGATAGA
Found at i:19832577 original size:21 final size:22
Alignment explanation
Indices: 19832542--19832585 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
19832532 CTCTTAAAGT
19832542 AATTTAAAATAAAATAACATAA
1 AATTTAAAATAAAATAACATAA
* *
19832564 AATTT-AACTAAAATAACTTAA
1 AATTTAAAATAAAATAACATAA
19832585 A
1 A
19832586 TTAATTACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
AATTTAAAATAAAATAACATAA
Found at i:19836524 original size:26 final size:26
Alignment explanation
Indices: 19836495--19836580 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
19836485 TGCACTCCTA
19836495 CACCGCACATAGCTGGAATCATCATC
1 CACCGCACATAGCTGGAATCATCATC
** * * *
19836521 CACCGGTCATCAGCT-CATGTGCACTC-CC
1 CACCGCACAT-AGCTGGA-AT-CA-TCATC
19836549 ACACCGCACATAGCTGGAATCATCATC
1 -CACCGCACATAGCTGGAATCATCATC
19836576 CACCG
1 CACCG
19836581 GTCATCAGCT
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
26 16 0.37
27 8 0.19
28 8 0.19
29 11 0.26
ACGTcount: A:0.27, C:0.38, G:0.16, T:0.19
Consensus pattern (26 bp):
CACCGCACATAGCTGGAATCATCATC
Found at i:19836550 original size:27 final size:27
Alignment explanation
Indices: 19836520--19836605 Score: 63
Period size: 27 Copynumber: 3.1 Consensus size: 27
19836510 GAATCATCAT
19836520 CCACCGGTCATCAGCTCATGTGCACTCC
1 CCACCGGTCATCAGCTCATGTGCACT-C
** * *
19836548 CACACCGCACAT-AGCTGGA-AT-CA-TC
1 C-CACCGGTCATCAGCT-CATGTGCACTC
19836573 ATCCACCGGTCATCAGCTCATGTGCACTC
1 --CCACCGGTCATCAGCTCATGTGCACTC
19836602 CCAC
1 CCAC
19836606 ACAACACATA
Statistics
Matches: 42, Mismatches: 8, Indels: 17
0.63 0.12 0.25
Matches are distributed among these distances:
25 1 0.02
26 10 0.24
27 12 0.29
28 8 0.19
29 11 0.26
ACGTcount: A:0.23, C:0.41, G:0.16, T:0.20
Consensus pattern (27 bp):
CCACCGGTCATCAGCTCATGTGCACTC
Found at i:19836556 original size:55 final size:55
Alignment explanation
Indices: 19836472--19836717 Score: 337
Period size: 55 Copynumber: 4.6 Consensus size: 55
19836462 AACTACCAGC
* *
19836472 TCATCAGCTCATGTGCACTCCTACACCGCACATAGCTGGAATCATCATCCACCGG
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACCGG
*
19836527 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCATCCACCGG
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACCGG
** ** *
19836582 TCATCAGCTCATGTGCACTCCCACACAACACATAGCTAGAATCATCATCCATTGA
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACCGG
*
19836637 TCATCAGCTCATGTGCACTCCCACACCGAACATAGCTAGAATCA-C--CCA----
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACCGG
19836685 TCATCA-CTGGCATGTGCACTCCCACACCGCACA
1 TCATCAGCT--CATGTGCACTCCCACACCGCACA
19836718 CACGCAGTTA
Statistics
Matches: 178, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
47 2 0.01
48 6 0.03
49 22 0.12
52 3 0.02
54 1 0.01
55 144 0.81
ACGTcount: A:0.28, C:0.37, G:0.14, T:0.21
Consensus pattern (55 bp):
TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACCGG
Found at i:19842264 original size:20 final size:20
Alignment explanation
Indices: 19842239--19842285 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
19842229 CAGTTGGCTG
19842239 AGGGTTTTCTCAACTAGCCA
1 AGGGTTTTCTCAACTAGCCA
* * *
19842259 AGGG-TTTCTTAACTGGCCG
1 AGGGTTTTCTCAACTAGCCA
19842278 AGGGTTTT
1 AGGGTTTT
19842286 TCACTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (20 bp):
AGGGTTTTCTCAACTAGCCA
Found at i:19842753 original size:37 final size:36
Alignment explanation
Indices: 19842706--19842824 Score: 157
Period size: 37 Copynumber: 3.2 Consensus size: 36
19842696 AATGCAATAT
*
19842706 CATCATCATGTGTGCACTCCCTATTCGCACACGTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACAC-TCAA
* *
19842743 CATCATCATGTGTGAACTCCCTACTCGCACACTCTAT
1 CATCATCATGTGTGCACTCCCTACTCGCACACTC-AA
* * *
19842780 CATCATCACGTGTGCACTCCCCACTCGTACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACAC-TCAA
19842817 CATCATCA
1 CATCATCA
19842825 CACAACATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
36 2 0.03
37 68 0.94
38 2 0.03
ACGTcount: A:0.25, C:0.37, G:0.11, T:0.27
Consensus pattern (36 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTCAA
Found at i:19842866 original size:2 final size:2
Alignment explanation
Indices: 19842859--19842883 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19842849 ACACATATTC
19842859 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 A
19842884 CATACCAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19848995 original size:55 final size:54
Alignment explanation
Indices: 19848906--19849059 Score: 236
Period size: 55 Copynumber: 2.8 Consensus size: 54
19848896 AACCACCGGC
* * **
19848906 TCATTAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCATCGG
1 TCATCAGCTCATGTGCACTCCCACA-CGCACATAGCTAGAATCATCATCCACCAA
19848961 TCATCAGCTCATGTGCACTCCCACATCGCACATAGCTAGAATCATCATCCACCAA
1 TCATCAGCTCATGTGCACTCCCACA-CGCACATAGCTAGAATCATCATCCACCAA
*
19849016 TCATCAGCTCATGTGCACTCCCACACTGCACATAGCTGGAATCA
1 TCATCAGCTCATGTGCACTCCCACAC-GCACATAGCTAGAATCA
19849060 CCCATCATCA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 1 0.01
55 91 0.99
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.23
Consensus pattern (54 bp):
TCATCAGCTCATGTGCACTCCCACACGCACATAGCTAGAATCATCATCCACCAA
Found at i:19850929 original size:16 final size:15
Alignment explanation
Indices: 19850924--19850968 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
19850914 AAGGAGAAAG
19850924 GAAAGAAAGAAAGGA
1 GAAAGAAAGAAAGGA
*
19850939 GAAAGGAAAGGAAGGA
1 GAAA-GAAAGAAAGGA
19850955 GAAGAAGAAAGAAA
1 G-A-AAGAAAGAAA
19850969 AAAAGAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 4 0.16
16 11 0.44
17 8 0.32
18 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAGGA
Found at i:19850935 original size:20 final size:20
Alignment explanation
Indices: 19850910--19850986 Score: 85
Period size: 20 Copynumber: 4.1 Consensus size: 20
19850900 GGTCAGTTGG
19850910 AAGAAAGGAGAAAGGAAAGA
1 AAGAAAGGAGAAAGGAAAGA
19850930 AAGAAAGGAGAAAGGAAAG-
1 AAGAAAGGAGAAAGGAAAGA
*
19850949 --G-AAGGAGAAGAAGAAAGA
1 AAGAAAGGAGAA-AGGAAAGA
*
19850967 AA-AAAAGAGAAAGG-AAGA
1 AAGAAAGGAGAAAGGAAAGA
19850985 AA
1 AA
19850987 AAGCTTGGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
16 8 0.16
17 7 0.14
18 6 0.12
19 2 0.04
20 26 0.53
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
AAGAAAGGAGAAAGGAAAGA
Found at i:19850977 original size:36 final size:36
Alignment explanation
Indices: 19850914--19850982 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
19850904 AGTTGGAAGA
* *
19850914 AAGGAGAAAGGAAAGAAAGAAAGGAGAAAGGAAAGG
1 AAGGAGAAAAGAAAGAAAGAAAAGAGAAAGGAAAGG
19850950 AAGGAGAAGAAGAAAGAAA-AAAAGAGAAAGGAA
1 AAGGAGAA-AAGAAAGAAAGAAAAGAGAAAGGAA
19850983 GAAAAAGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
36 21 0.70
37 9 0.30
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (36 bp):
AAGGAGAAAAGAAAGAAAGAAAAGAGAAAGGAAAGG
Found at i:19850979 original size:14 final size:16
Alignment explanation
Indices: 19850940--19850989 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
19850930 AAGAAAGGAG
*
19850940 AAAG-GAAAGGAAGGA
1 AAAGAGAAAGGAAGAA
*
19850955 GAAGAAGAAA-GAA-AA
1 AAAG-AGAAAGGAAGAA
19850970 AAAGAGAAAGGAAGAA
1 AAAGAGAAAGGAAGAA
19850986 AAAG
1 AAAG
19850990 CTTGGTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
14 5 0.18
15 10 0.36
16 9 0.32
17 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
AAAGAGAAAGGAAGAA
Found at i:19862506 original size:19 final size:19
Alignment explanation
Indices: 19862470--19862506 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19862460 CTTCTAAACT
*
19862470 TCAAATCATCCTCCAATAC
1 TCAAATCATACTCCAATAC
*
19862489 TCAAATCATACTCTAATA
1 TCAAATCATACTCCAATA
19862507 AGTCAAATGG
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:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:19869963 original size:22 final size:22
Alignment explanation
Indices: 19869938--19869981 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
19869928 TTCGATTAAT
*
19869938 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAGAGCTTTTAGTTTTAAAG
*
19869960 ATCAGAGTTTTTAGTTTTAAAG
1 ATCAGAGCTTTTAGTTTTAAAG
19869982 TTGTTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (22 bp):
ATCAGAGCTTTTAGTTTTAAAG
Found at i:19889375 original size:36 final size:36
Alignment explanation
Indices: 19889236--19889405 Score: 164
Period size: 36 Copynumber: 4.6 Consensus size: 36
19889226 TAACCATGTG
* **
19889236 TGTGTGGTGTGGGAGTGCACATGATGG-TGCTAG-TA
1 TGTGCGGTGTGGGAGTGCACATG-TGGATATTAGCTA
* * * *
19889271 GTGTGCTGTGTGGGAGAGCACATGTTGATGATATATGCCA
1 -TGTGCGGTGTGGGAGTGCACATGTGGAT-AT-TA-GCTA
*
19889311 TGTGCGGTGTGGGAGTGCACATGAGGATATTAGCTA
1 TGTGCGGTGTGGGAGTGCACATGTGGATATTAGCTA
* *
19889347 TGTGCGGTGTGGGAGTGCACATGGGGATATTAGTTA
1 TGTGCGGTGTGGGAGTGCACATGTGGATATTAGCTA
* * *
19889383 TGTGAGGCGTGGAAGTGCACATG
1 TGTGCGGTGTGGGAGTGCACATG
19889406 AGCTGAGTTG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
35 2 0.02
36 78 0.70
37 2 0.02
38 4 0.04
39 25 0.22
40 1 0.01
ACGTcount: A:0.21, C:0.11, G:0.40, T:0.29
Consensus pattern (36 bp):
TGTGCGGTGTGGGAGTGCACATGTGGATATTAGCTA
Found at i:19893394 original size:39 final size:39
Alignment explanation
Indices: 19893340--19893414 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
19893330 GCATTGACAT
19893340 TGATATATGCCATGTG-AGGTGTGGGAGTGCACATGATGA
1 TGATATATGCCATGTGCA-GTGTGGGAGTGCACATGATGA
19893379 TGATATATGCCATGTGCAGTGTGGGAGTGCACATGA
1 TGATATATGCCATGTGCAGTGTGGGAGTGCACATGA
19893415 GCTGAGTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 34 0.97
40 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.28
Consensus pattern (39 bp):
TGATATATGCCATGTGCAGTGTGGGAGTGCACATGATGA
Found at i:19896604 original size:38 final size:38
Alignment explanation
Indices: 19896553--19896657 Score: 167
Period size: 38 Copynumber: 2.8 Consensus size: 38
19896543 GAACCGTGCA
* *
19896553 TGTGCACAATGTGGGGGGATGCACATGATGATATT-GC
1 TGTGCACGATGTGGGGGGATGCACACGATGATATTAGC
*
19896590 TTGTGCACGATGTGGGGGGATGCACACGATGGTATTAGC
1 -TGTGCACGATGTGGGGGGATGCACACGATGATATTAGC
19896629 TGTGCACGATGTGGGGGGATGCACACGAT
1 TGTGCACGATGTGGGGGGATGCACACGAT
19896658 CACTCCGACT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 61 0.97
39 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.38, T:0.25
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGCACACGATGATATTAGC
Found at i:19901780 original size:27 final size:28
Alignment explanation
Indices: 19901750--19901803 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
19901740 AGTGTTGGGT
* *
19901750 GGTGG-AAAATTACAATTTTGCCCCTAG
1 GGTGGCAAAATGACAATTTTACCCCTAG
*
19901777 GGTGGCAAAATGACTATTTTACCCCTA
1 GGTGGCAAAATGACAATTTTACCCCTA
19901804 TGCTCGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (28 bp):
GGTGGCAAAATGACAATTTTACCCCTAG
Found at i:19912864 original size:22 final size:22
Alignment explanation
Indices: 19912839--19912883 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
19912829 GATCGATTTT
19912839 GAGAGGAAGCCATGGTGGTGAA
1 GAGAGGAAGCCATGGTGGTGAA
19912861 GAGAGGAAGCCATGGTGGTGAA
1 GAGAGGAAGCCATGGTGGTGAA
19912883 G
1 G
19912884 GGAGTGATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.47, T:0.13
Consensus pattern (22 bp):
GAGAGGAAGCCATGGTGGTGAA
Found at i:19912943 original size:16 final size:17
Alignment explanation
Indices: 19912922--19912959 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
19912912 CGTGGAAGAG
19912922 AGAAAAAG-AAAGAAAA
1 AGAAAAAGAAAAGAAAA
*
19912938 AG-AAAAGAAAAGAAAT
1 AGAAAAAGAAAAGAAAA
19912954 AGAAAA
1 AGAAAA
19912960 TAAGTGGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 5 0.26
16 11 0.58
17 3 0.16
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AGAAAAAGAAAAGAAAA
Found at i:19913015 original size:31 final size:32
Alignment explanation
Indices: 19912947--19913008 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
19912937 AAGAAAAGAA
* * *
19912947 AAGAAATAGAAAATAAGTGGGCATGGCCTAAC
1 AAGAAATAGAAAATAAATGGGCATCGCCCAAC
*
19912979 AAGAAATA-AAAATAAATGGGCTTCGCCCAA
1 AAGAAATAGAAAATAAATGGGCATCGCCCAA
19913009 ATAGAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.16
Consensus pattern (32 bp):
AAGAAATAGAAAATAAATGGGCATCGCCCAAC
Found at i:19917407 original size:42 final size:42
Alignment explanation
Indices: 19917309--19917408 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
19917299 TAATGATAAT
* *
19917309 TGACCCGGCTATGTACGAGTAGGAGTGCGCATAAGCCGATGA
1 TGACCCGGCTATGTGCGAGTAGGAGTACGCATAAGCCGATGA
19917351 TGACCCGGCTATGTGCGAGTAGGAGTACGCATAAGCCGATGA
1 TGACCCGGCTATGTGCGAGTAGGAGTACGCATAAGCCGATGA
*
19917393 TGACCTGGCTATGTGC
1 TGACCCGGCTATGTGC
19917409 TAGTGGGGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTAGGAGTACGCATAAGCCGATGA
Found at i:19921881 original size:38 final size:38
Alignment explanation
Indices: 19921838--19921914 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
19921828 GGGAGTGTGG
*
19921838 ATGATGTTATTGCTTGTGCACGATGTGGGGGGATGCAC
1 ATGATGATATTGCTTGTGCACGATGTGGGGGGATGCAC
*
19921876 ATGATGATATTGCTTGTGCATGATGTGGGGGGATGCAC
1 ATGATGATATTGCTTGTGCACGATGTGGGGGGATGCAC
19921914 A
1 A
19921915 CGATATGGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.21, C:0.12, G:0.36, T:0.31
Consensus pattern (38 bp):
ATGATGATATTGCTTGTGCACGATGTGGGGGGATGCAC
Found at i:19923936 original size:22 final size:23
Alignment explanation
Indices: 19923902--19923944 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
19923892 CAAATTTAAG
19923902 AGAAAAGAGAAAGAAAGAAAGAA
1 AGAAAAGAGAAAGAAAGAAAGAA
* *
19923925 AGAAAGGA-AAAGAGAGAAAG
1 AGAAAAGAGAAAGAAAGAAAG
19923945 CTGGGATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (23 bp):
AGAAAAGAGAAAGAAAGAAAGAA
Found at i:19924004 original size:37 final size:37
Alignment explanation
Indices: 19923932--19924051 Score: 163
Period size: 37 Copynumber: 3.3 Consensus size: 37
19923922 GAAAGAAAGG
*
19923932 AAAAGAGAG-AA-AGCTGGGATTGTGGTGGTTAGCGGA
1 AAAAGAGAGAAAGAGCTGGG-TTGTGGTGGTTGGCGGA
* *
19923968 TAAAGAGAGAAAGAGCTGGGTTATGGTGGTTGGCGGA
1 AAAAGAGAGAAAGAGCTGGGTTGTGGTGGTTGGCGGA
* * *
19924005 AAAAGAGAGAAAGAGTTGGGTTGTGGTGGTTGACAGA
1 AAAAGAGAGAAAGAGCTGGGTTGTGGTGGTTGGCGGA
19924042 AAAAGAGAGA
1 AAAAGAGAGA
19924052 GAGCTTGGTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
36 8 0.11
37 59 0.80
38 7 0.09
ACGTcount: A:0.36, C:0.04, G:0.41, T:0.19
Consensus pattern (37 bp):
AAAAGAGAGAAAGAGCTGGGTTGTGGTGGTTGGCGGA
Found at i:19925387 original size:37 final size:38
Alignment explanation
Indices: 19925337--19925410 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 38
19925327 TGGATAATGA
*
19925337 TATTGCCTATGCACAATGTGGGG-GATGAACACGATGG
1 TATTACCTATGCACAATGTGGGGTGATGAACACGATGG
* * * *
19925374 TATTACCTGTGCACGATGTGGGGTGATGCACATGATG
1 TATTACCTATGCACAATGTGGGGTGATGAACACGATG
19925411 ACACCAGCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
37 20 0.65
38 11 0.35
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.27
Consensus pattern (38 bp):
TATTACCTATGCACAATGTGGGGTGATGAACACGATGG
Done.