Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 55 of 75
Found at i:17649370 original size:43 final size:43
Alignment explanation
Indices: 17649277--17649544 Score: 147
Period size: 43 Copynumber: 6.3 Consensus size: 43
17649267 TGGATGAAAA
* * * * **
17649277 TTAGTGGCGTTTTTCCATAAA-CGCCGCTAAAGAACCATACT-T
1 TTAGCGGCGTTTGTCGATAAAGCGCCGCTAAAG-ATCATGTTCT
*
17649319 TTAGCGGCGTTTG-CGATAAAAGTGCCGCTAAAGATCATGTTCT
1 TTAGCGGCGTTTGTCGAT-AAAGCGCCGCTAAAGATCATGTTCT
* * * * *
17649362 TTAACGGCGTTTGTGGGTAAAGCGCTGCTAAAGCTCATGTTCT
1 TTAGCGGCGTTTGTCGATAAAGCGCCGCTAAAGATCATGTTCT
* ** * *
17649405 ATAGCGGCGTTTGAGGA-AAAGCGCAGCTAAA-AGTCATGATCT
1 TTAGCGGCGTTTGTCGATAAAGCGCCGCTAAAGA-TCATGTTCT
* * * * * *
17649447 ATAGCTGCGTTTGTGGGA-AAAACGCTGCTAAA-AGTCATGATCT
1 TTAGCGGCGTTTGT-CGATAAAGCGCCGCTAAAGA-TCATGTTCT
* * ** * **
17649490 ATAGCGGCGTTTGTGGGAT-AAGTTCCGCTAAAGGTCATGACCT
1 TTAGCGGCGTTTGT-CGATAAAGCGCCGCTAAAGATCATGTTCT
*
17649533 TTAGCAGCGTTT
1 TTAGCGGCGTTT
17649545 ATTTCTAAAA
Statistics
Matches: 185, Mismatches: 33, Indels: 15
0.79 0.14 0.06
Matches are distributed among these distances:
41 3 0.02
42 52 0.28
43 128 0.69
44 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
TTAGCGGCGTTTGTCGATAAAGCGCCGCTAAAGATCATGTTCT
Found at i:17649442 original size:42 final size:43
Alignment explanation
Indices: 17649320--17649544 Score: 204
Period size: 43 Copynumber: 5.3 Consensus size: 43
17649310 ACCATACTTT
* ** * * * *
17649320 TAGCGGCGTTTGCGATAAAAGTGCCGCTAAAGATCATGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGATCATGATCTA
* * * *
17649363 TAACGGCGTTTGTGGGTAAAGCGCTGCTAAAGCTCATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGATCATGATCTA
* *
17649406 TAGCGGCGTTTG-AGGAAAAGCGCAGCTAAA-AGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGA-TCATGATCTA
* *
17649448 TAGCTGCGTTTGTGGGAAAAACGCTGCTAAA-AGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGA-TCATGATCTA
* ** * * * *
17649491 TAGCGGCGTTTGTGGGATAAGTTCCGCTAAAGGTCATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGATCATGATCTA
*
17649534 TAGCAGCGTTT
1 TAGCGGCGTTT
17649545 ATTTCTAAAA
Statistics
Matches: 150, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
42 35 0.23
43 115 0.77
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGATCATGATCTA
Found at i:17649442 original size:85 final size:86
Alignment explanation
Indices: 17649320--17649502 Score: 228
Period size: 85 Copynumber: 2.1 Consensus size: 86
17649310 ACCATACTTT
* * * * * * * *
17649320 TAGCGGCGTTTGCGATAAAAGTGCCGCTAAAGATCATGTTCTTTAACGGCGTTTGTGGGTAAAGC
1 TAGCGGCGTTTGAGAGAAAAGCGCAGCTAAAGATCATGATCTATAACGGCGTTTGTGGGAAAAAC
*
17649385 GCTGCT-AAAGCTCATGTTCTA
66 GCTGCTAAAAG-TCATGATCTA
* *
17649406 TAGCGGCGTTTGAG-GAAAAGCGCAGCTAAA-AGTCATGATCTATAGCTGCGTTTGTGGGAAAAA
1 TAGCGGCGTTTGAGAGAAAAGCGCAGCTAAAGA-TCATGATCTATAACGGCGTTTGTGGGAAAAA
17649469 CGCTGCTAAAAGTCATGATCTA
65 CGCTGCTAAAAGTCATGATCTA
17649491 TAGCGGCGTTTG
1 TAGCGGCGTTTG
17649503 TGGGATAAGT
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
84 1 0.01
85 66 0.79
86 17 0.20
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (86 bp):
TAGCGGCGTTTGAGAGAAAAGCGCAGCTAAAGATCATGATCTATAACGGCGTTTGTGGGAAAAAC
GCTGCTAAAAGTCATGATCTA
Found at i:17650289 original size:25 final size:25
Alignment explanation
Indices: 17650251--17650303 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
17650241 TCATGTACAT
* *
17650251 GTATGCTCAAACGAGCTGTGAATCG
1 GTATGCTCAAACGAGCTATAAATCG
**
17650276 GTATGCTCTCACGAGCTATAAATCG
1 GTATGCTCAAACGAGCTATAAATCG
17650301 GTA
1 GTA
17650304 ACCCTAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (25 bp):
GTATGCTCAAACGAGCTATAAATCG
Found at i:17651487 original size:26 final size:26
Alignment explanation
Indices: 17651433--17651575 Score: 108
Period size: 26 Copynumber: 5.3 Consensus size: 26
17651423 CATAAAGACA
* *
17651433 TTCTTTCCATATTCCGCCACATACA-CT
1 TTCTTT-CATATTACGCCACACA-AGCT
* * *
17651460 TTCTTTTATGTTACGCCATACAAGCT
1 TTCTTTCATATTACGCCACACAAGCT
* *
17651486 TTCCTTCATATTATGGTACGCCATACAAGCT
1 TTCTTTC--A-TAT--TACGCCACACAAGCT
* * *
17651517 TTCCTTCATATTATGCCACACATGCT
1 TTCTTTCATATTACGCCACACAAGCT
**
17651543 TTCTTTCATATTATACCACACAAGCT
1 TTCTTTCATATTACGCCACACAAGCT
17651569 TTCTTTC
1 TTCTTTC
17651576 TTGACATGTT
Statistics
Matches: 96, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
25 1 0.01
26 60 0.62
27 6 0.06
28 4 0.04
29 3 0.03
31 22 0.23
ACGTcount: A:0.24, C:0.29, G:0.08, T:0.40
Consensus pattern (26 bp):
TTCTTTCATATTACGCCACACAAGCT
Found at i:17651506 original size:31 final size:31
Alignment explanation
Indices: 17651465--17651531 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
17651455 ACACTTTCTT
*
17651465 TTATGTTACGCCATACAAGCTTTCCTTCATA
1 TTATGGTACGCCATACAAGCTTTCCTTCATA
17651496 TTATGGTACGCCATACAAGCTTTCCTTCATA
1 TTATGGTACGCCATACAAGCTTTCCTTCATA
17651527 TTATG
1 TTATG
17651532 CCACACATGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (31 bp):
TTATGGTACGCCATACAAGCTTTCCTTCATA
Found at i:17652046 original size:25 final size:25
Alignment explanation
Indices: 17652012--17652062 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
17652002 CATGCAAGAG
17652012 TCAGCTTAAAGACTCACCTGACATC
1 TCAGCTTAAAGACTCACCTGACATC
17652037 TCAGCTTAAAGACTCACCTGACATC
1 TCAGCTTAAAGACTCACCTGACATC
17652062 T
1 T
17652063 ACAAATAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (25 bp):
TCAGCTTAAAGACTCACCTGACATC
Found at i:17666743 original size:20 final size:20
Alignment explanation
Indices: 17666718--17666758 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17666708 GCAGAAAATG
17666718 AAAGGAGTTTTGCTTGCTAA
1 AAAGGAGTTTTGCTTGCTAA
17666738 AAAGGAGTTTTGCTTGCTAA
1 AAAGGAGTTTTGCTTGCTAA
17666758 A
1 A
17666759 TAACCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (20 bp):
AAAGGAGTTTTGCTTGCTAA
Found at i:17668504 original size:12 final size:11
Alignment explanation
Indices: 17668487--17668521 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
17668477 ACTTATACAT
17668487 ACTAAATCATCA
1 ACTAAA-CATCA
17668499 ACTAAACATTCA
1 ACTAAACA-TCA
17668511 ACTAAACATCA
1 ACTAAACATCA
17668522 CCATAAGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (11 bp):
ACTAAACATCA
Found at i:17674422 original size:19 final size:19
Alignment explanation
Indices: 17674395--17674442 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
17674385 GATATGCATA
*
17674395 TTGATTAGATTTTAAGTGT
1 TTGAATAGATTTTAAGTGT
17674414 TTGAATAGATTTTAAGTGT
1 TTGAATAGATTTTAAGTGT
17674433 TTGAATAGAT
1 TTGAATAGAT
17674443 GATATTATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (19 bp):
TTGAATAGATTTTAAGTGT
Found at i:17677212 original size:105 final size:105
Alignment explanation
Indices: 17677092--17677305 Score: 419
Period size: 105 Copynumber: 2.0 Consensus size: 105
17677082 TCTCTTCATC
*
17677092 TTATTTGATTGATATTTGATAAGATGTGACATTTTTGTAGTTATTCGCATGTTTAGGAAAATATA
1 TTATTTGATTGATATTTGATAAGATGTGACATTTTTGTAGTTATTCGCATGTTCAGGAAAATATA
17677157 TGGGATTGAATGTGATATTATTGACATTAAAAAACAATAA
66 TGGGATTGAATGTGATATTATTGACATTAAAAAACAATAA
17677197 TTATTTGATTGATATTTGATAAGATGTGACATTTTTGTAGTTATTCGCATGTTCAGGAAAATATA
1 TTATTTGATTGATATTTGATAAGATGTGACATTTTTGTAGTTATTCGCATGTTCAGGAAAATATA
17677262 TGGGATTGAATGTGATATTATTGACATTAAAAAACAATAA
66 TGGGATTGAATGTGATATTATTGACATTAAAAAACAATAA
17677302 TTAT
1 TTAT
17677306 AACTATTTTA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 108 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (105 bp):
TTATTTGATTGATATTTGATAAGATGTGACATTTTTGTAGTTATTCGCATGTTCAGGAAAATATA
TGGGATTGAATGTGATATTATTGACATTAAAAAACAATAA
Found at i:17677873 original size:23 final size:23
Alignment explanation
Indices: 17677846--17677890 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
17677836 GTAAGTGTTC
17677846 TTTTATTTGATTATTTTATAACG
1 TTTTATTTGATTATTTTATAACG
17677869 TTTTATTTGATTATTTTATAAC
1 TTTTATTTGATTATTTTATAAC
17677891 ACGTTATCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (23 bp):
TTTTATTTGATTATTTTATAACG
Found at i:17677897 original size:23 final size:23
Alignment explanation
Indices: 17677848--17677897 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
17677838 AAGTGTTCTT
***
17677848 TTATTTGATTATTTTATAACGTT
1 TTATTTGATTATTTTATAACACG
17677871 TTATTTGATTATTTTATAACACG
1 TTATTTGATTATTTTATAACACG
17677894 TTAT
1 TTAT
17677898 CAGCACGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (23 bp):
TTATTTGATTATTTTATAACACG
Found at i:17678468 original size:27 final size:28
Alignment explanation
Indices: 17678438--17678497 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
17678428 ATAAATGCCC
* *
17678438 TTTTTT-ATAATTACATGAATAGACCGA
1 TTTTTTAAAAATTACAGGAATAGACCGA
* *
17678465 TTTTTTGAAAAATTACAGGAATAGGCTGA
1 TTTTTT-AAAAATTACAGGAATAGACCGA
17678494 TTTT
1 TTTT
17678498 ACAAAAAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 6 0.22
29 21 0.78
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (28 bp):
TTTTTTAAAAATTACAGGAATAGACCGA
Found at i:17680737 original size:50 final size:51
Alignment explanation
Indices: 17680671--17680769 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 51
17680661 TTATTACAAT
*
17680671 ATTTGGTAGTAAAAAATTAGTCGAAAGCTCTA-AAGAGTTAATATATCACG
1 ATTTGGTAGTAAAAAATTAGTCGAAAGCTCCATAAGAGTTAATATATCACG
* * *
17680721 ATTTGGTAGTATAAAATTAGTTGAAAGCTCCATAAGAGTTAATGTATCA
1 ATTTGGTAGTAAAAAATTAGTCGAAAGCTCCATAAGAGTTAATATATCA
17680770 GTATCTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 29 0.66
51 15 0.34
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.32
Consensus pattern (51 bp):
ATTTGGTAGTAAAAAATTAGTCGAAAGCTCCATAAGAGTTAATATATCACG
Found at i:17684549 original size:42 final size:42
Alignment explanation
Indices: 17684402--17684717 Score: 542
Period size: 42 Copynumber: 7.5 Consensus size: 42
17684392 CGCTTACAAA
* * * ** *
17684402 AAAAAACGCCGCTAAAGAACATATTCTTTAGCTGCGCTAAGA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
*
17684444 AAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
1 AAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
*
17684487 AGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
1 A-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
17684530 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
17684572 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
17684614 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
17684656 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
17684698 AAAAAACGCCGCTAAAGATC
1 AAAAAACGCCGCTAAAGATC
17684718 CCAGCCAAAA
Statistics
Matches: 264, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
42 189 0.72
43 74 0.28
44 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
Found at i:17685042 original size:21 final size:20
Alignment explanation
Indices: 17685018--17685086 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 20
17685008 GCTTCTATCG
17685018 CTGCTTCTCTCGCTGTGGCCT
1 CTGCTTCTCTCGCTGT-GCCT
*
17685039 CTGCTTCTCTCGTTGTAGCCT
1 CTGCTTCTCTCGCTGT-GCCT
*
17685060 CTGCTTCCCTCGCTGCTGCCT
1 CTGCTTCTCTCGCTG-TGCCT
17685081 CTGCTT
1 CTGCTT
17685087 TAAGTTGTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 42 0.98
22 1 0.02
ACGTcount: A:0.01, C:0.39, G:0.20, T:0.39
Consensus pattern (20 bp):
CTGCTTCTCTCGCTGTGCCT
Found at i:17690754 original size:9 final size:9
Alignment explanation
Indices: 17690729--17690880 Score: 101
Period size: 9 Copynumber: 17.7 Consensus size: 9
17690719 GATTTAGGAA
17690729 TAAGTTATG
1 TAAGTTATG
17690738 T-A-TTATG
1 TAAGTTATG
17690745 TAAGTTATG
1 TAAGTTATG
*
17690754 TAAGTTGTG
1 TAAGTTATG
*
17690763 TAAGTTGTG
1 TAAGTTATG
*
17690772 TAAGTTGTG
1 TAAGTTATG
17690781 T-A-TTATG
1 TAAGTTATG
* *
17690788 AAACTTATG
1 TAAGTTATG
17690797 TAAGTTATG
1 TAAGTTATG
*
17690806 T--CTTATG
1 TAAGTTATG
*
17690813 TAACTTATG
1 TAAGTTATG
*
17690822 TAAATTATG
1 TAAGTTATG
17690831 T-A-TTATG
1 TAAGTTATG
*
17690838 TAAGTCAT-
1 TAAGTTATG
*
17690846 T-A-TATACG
1 TAAGT-TATG
17690854 TAAGATATTATG
1 TAAG---TTATG
17690866 TAAGTTATG
1 TAAGTTATG
17690875 TAAGTT
1 TAAGTT
17690881 TTTGTTTTTG
Statistics
Matches: 117, Mismatches: 11, Indels: 30
0.74 0.07 0.19
Matches are distributed among these distances:
6 1 0.01
7 24 0.21
8 8 0.07
9 76 0.65
12 7 0.06
13 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:17690758 original size:25 final size:26
Alignment explanation
Indices: 17690729--17690839 Score: 83
Period size: 25 Copynumber: 4.4 Consensus size: 26
17690719 GATTTAGGAA
17690729 TAAGTTATGTA-TTATGTAAGTTATG
1 TAAGTTATGTACTTATGTAAGTTATG
* * * *
17690754 TAAGTTGTGTAAGTTGTGTAAGTTGTG
1 TAAGTTATGT-ACTTATGTAAGTTATG
*
17690781 T-A-TTATGAAACTTATGTAAGTTATG
1 TAAGTTATG-TACTTATGTAAGTTATG
* *
17690806 T--CTTATGTAACTTATGTAAATTATG
1 TAAGTTATGT-ACTTATGTAAGTTATG
17690831 T-A-TTATGTA
1 TAAGTTATGTA
17690840 AGTCATTATA
Statistics
Matches: 70, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
24 1 0.01
25 54 0.77
26 2 0.03
27 13 0.19
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.47
Consensus pattern (26 bp):
TAAGTTATGTACTTATGTAAGTTATG
Found at i:17690821 original size:34 final size:32
Alignment explanation
Indices: 17690729--17690839 Score: 93
Period size: 34 Copynumber: 3.3 Consensus size: 32
17690719 GATTTAGGAA
* *
17690729 TAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
1 TAAGTTATGTATTATGTAA-TTATG-AAATTATG
* *
17690763 TAAGTTGTGTAAGTTGTGT-ATTATGAAACTTATG
1 TAAGTTATGT-A-TTATGTAATTATGAAA-TTATG
*
17690797 TAAGTTATGTCTTATGTAACTTATGTAAATTATG
1 TAAGTTATGTATTATGTAA-TTATG-AAATTATG
17690831 T-A-TTATGTA
1 TAAGTTATGTA
17690840 AGTCATTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
32 11 0.17
33 4 0.06
34 38 0.60
35 5 0.08
36 5 0.08
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.47
Consensus pattern (32 bp):
TAAGTTATGTATTATGTAATTATGAAATTATG
Found at i:17690831 original size:18 final size:18
Alignment explanation
Indices: 17690729--17690840 Score: 89
Period size: 16 Copynumber: 6.7 Consensus size: 18
17690719 GATTTAGGAA
17690729 TAAGTTATGT--ATTATG
1 TAAGTTATGTAAATTATG
* *
17690745 TAAGTTATGTAAGTTGTG
1 TAAGTTATGTAAATTATG
* * *
17690763 TAAGTTGTGTAAGTTGTG
1 TAAGTTATGTAAATTATG
17690781 T-A-TTATG-AAACTTATG
1 TAAGTTATGTAAA-TTATG
*
17690797 TAAGTTATGT--CTTATG
1 TAAGTTATGTAAATTATG
*
17690813 TAACTTATGTAAATTATG
1 TAAGTTATGTAAATTATG
17690831 T-A-TTATGTAA
1 TAAGTTATGTAA
17690841 GTCATTATAT
Statistics
Matches: 79, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.03
16 41 0.52
17 3 0.04
18 33 0.42
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (18 bp):
TAAGTTATGTAAATTATG
Found at i:17690840 original size:25 final size:25
Alignment explanation
Indices: 17690789--17690840 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
17690779 TGTATTATGA
* *
17690789 AACTTATGTAAGTTATGTCTTATGT
1 AACTTATGTAAATTATGTATTATGT
17690814 AACTTATGTAAATTATGTATTATGT
1 AACTTATGTAAATTATGTATTATGT
17690839 AA
1 AA
17690841 GTCATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (25 bp):
AACTTATGTAAATTATGTATTATGT
Found at i:17690946 original size:12 final size:12
Alignment explanation
Indices: 17690929--17691111 Score: 144
Period size: 12 Copynumber: 15.3 Consensus size: 12
17690919 ACGGTATGTA
17690929 TTATTATGTAAG
1 TTATTATGTAAG
17690941 TTATTATGTAAG
1 TTATTATGTAAG
*
17690953 ATATTATGTAAG
1 TTATTATGTAAG
17690965 TTATTATGTAAG
1 TTATTATGTAAG
* *
17690977 ATATTATATAAG
1 TTATTATGTAAG
17690989 ---TTATGTAAG
1 TTATTATGTAAG
* * * **
17690998 TTTTTGTTTTTG
1 TTATTATGTAAG
*
17691010 TGTATTATGTAAC
1 T-TATTATGTAAG
*
17691023 TTA-T-T-TAAT
1 TTATTATGTAAG
* *
17691032 TTATGTAGGGTACG
1 TTAT-TA-TGTAAG
17691046 CATTATTATGTAAG
1 --TTATTATGTAAG
17691060 TTATTATGTAAG
1 TTATTATGTAAG
*
17691072 ATATTATGTAAG
1 TTATTATGTAAG
17691084 TTATTATGTAAG
1 TTATTATGTAAG
* *
17691096 ATATTATATAAG
1 TTATTATGTAAG
17691108 TTAT
1 TTAT
17691112 GTAAGTTTTT
Statistics
Matches: 134, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
9 14 0.10
10 1 0.01
11 2 0.01
12 99 0.74
13 6 0.04
14 6 0.04
15 2 0.01
16 4 0.03
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:17690959 original size:24 final size:24
Alignment explanation
Indices: 17690930--17691111 Score: 160
Period size: 24 Copynumber: 7.6 Consensus size: 24
17690920 CGGTATGTAT
17690930 TATTATGTAAGTTATTATGTAAGA
1 TATTATGTAAGTTATTATGTAAGA
17690954 TATTATGTAAGTTATTATGTAAGA
1 TATTATGTAAGTTATTATGTAAGA
* *
17690978 TATTATATAAG---TTATGTAAGT
1 TATTATGTAAGTTATTATGTAAGA
* * * **
17690999 TTTTGTTTTTGTGTATTATGT-A-A
1 TATTATGTAAGT-TATTATGTAAGA
* * * * *
17691022 -CTTATTTAATTTATGTAGGGTACGCA
1 TATTATGTAAGTTAT-TA-TGTAAG-A
17691048 TTATTATGTAAGTTATTATGTAAGA
1 -TATTATGTAAGTTATTATGTAAGA
17691073 TATTATGTAAGTTATTATGTAAGA
1 TATTATGTAAGTTATTATGTAAGA
*
17691097 TATTATATAAGTTAT
1 TATTATGTAAGTTAT
17691112 GTAAGTTTTT
Statistics
Matches: 126, Mismatches: 21, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
21 18 0.14
22 8 0.06
23 2 0.02
24 73 0.58
25 7 0.06
26 5 0.04
27 2 0.02
28 11 0.09
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.49
Consensus pattern (24 bp):
TATTATGTAAGTTATTATGTAAGA
Found at i:17691001 original size:119 final size:119
Alignment explanation
Indices: 17690853--17691206 Score: 645
Period size: 119 Copynumber: 3.0 Consensus size: 119
17690843 CATTATATAC
*
17690853 GTAAGATATTATGTAAGTTATGTAAGTTTTTGTTTTTGTGTATTATGTAACTTATTTAATTTATG
1 GTAAGATATTATATAAGTTATGTAAGTTTTTGTTTTTGTGTATTATGTAACTTATTTAATTTATG
17690918 TACGGTATGTATTATTATGTAAGTTATTATGTAAGATATTATGTAAGTTATTAT
66 TACGGTATGTATTATTATGTAAGTTATTATGTAAGATATTATGTAAGTTATTAT
17690972 GTAAGATATTATATAAGTTATGTAAGTTTTTGTTTTTGTGTATTATGTAACTTATTTAATTTATG
1 GTAAGATATTATATAAGTTATGTAAGTTTTTGTTTTTGTGTATTATGTAACTTATTTAATTTATG
* * *
17691037 TAGGGTACGCATTATTATGTAAGTTATTATGTAAGATATTATGTAAGTTATTAT
66 TACGGTATGTATTATTATGTAAGTTATTATGTAAGATATTATGTAAGTTATTAT
*
17691091 GTAAGATATTATATAAGTTATGTAAGTTTTTGTTTTTGTGTATTCTGTAACTTATTTAATTTATG
1 GTAAGATATTATATAAGTTATGTAAGTTTTTGTTTTTGTGTATTATGTAACTTATTTAATTTATG
* *
17691156 TACGGTATGTATTATTATCTAAGTTATTATGTAAGATATTATATAAGTTAT
66 TACGGTATGTATTATTATGTAAGTTATTATGTAAGATATTATGTAAGTTAT
17691207 GTAAGTTTTT
Statistics
Matches: 225, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 225 1.00
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.51
Consensus pattern (119 bp):
GTAAGATATTATATAAGTTATGTAAGTTTTTGTTTTTGTGTATTATGTAACTTATTTAATTTATG
TACGGTATGTATTATTATGTAAGTTATTATGTAAGATATTATGTAAGTTATTAT
Found at i:17691184 original size:12 final size:12
Alignment explanation
Indices: 17691167--17691206 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
17691157 ACGGTATGTA
*
17691167 TTATTATCTAAG
1 TTATTATATAAG
*
17691179 TTATTATGTAAG
1 TTATTATATAAG
*
17691191 ATATTATATAAG
1 TTATTATATAAG
17691203 TTAT
1 TTAT
17691207 GTAAGTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:17693088 original size:44 final size:44
Alignment explanation
Indices: 17693024--17693122 Score: 153
Period size: 44 Copynumber: 2.2 Consensus size: 44
17693014 CTGGAAGGAG
* * *
17693024 GAAGGAGGCGATTTAGGGATTTGGGATTTCAAGAAATTCGGCAA
1 GAAGGAGGCAATTTACGGATTTGGGAATTCAAGAAATTCGGCAA
*
17693068 GAAGGAGGCAATTTACGGATTTGGGAATTCAAGAAATTGGGCAA
1 GAAGGAGGCAATTTACGGATTTGGGAATTCAAGAAATTCGGCAA
*
17693112 GAAGGACGCAA
1 GAAGGAGGCAA
17693123 GAATTTCAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.35, C:0.10, G:0.33, T:0.21
Consensus pattern (44 bp):
GAAGGAGGCAATTTACGGATTTGGGAATTCAAGAAATTCGGCAA
Found at i:17693772 original size:24 final size:24
Alignment explanation
Indices: 17693724--17693774 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
17693714 AATTCATACA
*
17693724 TTAAAATTTAAATATTATCAATAT
1 TTAAAATTTAAATATTATAAATAT
17693748 TTAAAA-TTATAA-ATTATAAATTAT
1 TTAAAATTTA-AATATTATAAA-TAT
17693772 TTA
1 TTA
17693775 TATTATTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TTAAAATTTAAATATTATAAATAT
Found at i:17694170 original size:7 final size:7
Alignment explanation
Indices: 17694155--17694211 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
17694145 ACTAAAGTAG
17694155 CCTAAAC
1 CCTAAAC
*
17694162 CCCAAAC
1 CCTAAAC
*
17694169 CCTAAAT
1 CCTAAAC
*
17694176 CTTAAAC
1 CCTAAAC
*
17694183 CCCAAAC
1 CCTAAAC
17694190 TCCTAAAC
1 -CCTAAAC
*
17694198 CGTAAAC
1 CCTAAAC
*
17694205 CCAAAAC
1 CCTAAAC
17694212 ACCATAACCC
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.44, C:0.40, G:0.02, T:0.14
Consensus pattern (7 bp):
CCTAAAC
Found at i:17694182 original size:21 final size:22
Alignment explanation
Indices: 17694157--17694211 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
17694147 TAAAGTAGCC
* *
17694157 TAAACCCCAAAC-CCTAAATCT
1 TAAACCCCAAACTCCTAAACCG
17694178 TAAACCCCAAACTCCTAAACCG
1 TAAACCCCAAACTCCTAAACCG
*
17694200 TAAACCCAAAAC
1 TAAACCCCAAAC
17694212 ACCATAACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.45, C:0.38, G:0.02, T:0.15
Consensus pattern (22 bp):
TAAACCCCAAACTCCTAAACCG
Found at i:17694833 original size:114 final size:113
Alignment explanation
Indices: 17694691--17695115 Score: 387
Period size: 114 Copynumber: 3.7 Consensus size: 113
17694681 AAAAACGCGT
* * * * *
17694691 CGCTAATAGTATACATTAGCGGCATTTTCCAATCAGCGCCACTAATTCTAATATACCTCAAGACC
1 CGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAGACC
* *
17694756 AAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGCTTAACT-TAAATCGC
66 AAACGCTGCGTTTTGGTGTGCATATCTTGCGGCGCTT--CTGAAAATCGC
** * * * *
17694805 CGCTAATACTATTATTTAGCGGCGTTTTCTC-ATAAGCGCCACTAACTATAGTATACATCAAGAC
1 CGCTAATACTATGCTTTAGCGGCGTTTTC-CAATAAGCGCCACTAATTCTAATATACCTCAAGAC
** * * *
17694869 CAAAACGCTGATTTTTGGT-TAAG-AAAT-TTAGCGGCGCTTCTGGAGAAGCGC
65 C-AAACGCTGCGTTTTGGTGT--GCATATCTT-GCGGCGCTTCT-GAAAATCGC
* * * * * * *
17694920 CACTAATAGTACGCTTTAGCGGCGTTTTACAGTAAGCGCCACTAATCCTAATATACCTCAACACC
1 CGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAGACC
* *
17694985 AAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGATTCTAGAAAATCGC
66 AAACGCTGCGTTTTGGTGTGCATATCTTGCGGCGCTTCT-GAAAATCGC
** * ** * * *
17695034 CGCTAATGTTATGCTTTAGCAGCGTTTTCCCCTAA-CGCCACTAATTGTATTAT-CCATCGAGAC
1 CGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACC-TCAAGAC
17695097 CAAACCGCTGCGTTTTGGT
65 CAAA-CGCTGCGTTTTGGT
17695116 TAACATTTTT
Statistics
Matches: 246, Mismatches: 52, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
112 2 0.01
113 27 0.11
114 131 0.53
115 85 0.35
116 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (113 bp):
CGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAGACC
AAACGCTGCGTTTTGGTGTGCATATCTTGCGGCGCTTCTGAAAATCGC
Found at i:17694941 original size:229 final size:227
Alignment explanation
Indices: 17694706--17695136 Score: 576
Period size: 229 Copynumber: 1.9 Consensus size: 227
17694696 ATAGTATACA
* * * *
17694706 TTAGCGGCATTTTCCAATCAGCGCCACTAATTCTAATATACCTCAAGACCAAACTCTGCGTTTTG
1 TTAGCGGCATTTTACAATAAGCGCCACTAATCCTAATATACCTCAACACCAAACTCTGCGTTTTG
* * * * *
17694771 GTGTGCATATCTTGCGGCGCTTAACT-TAAATCGCCGCTAATACTATTATTTAGCGGCGTTTTCT
66 GTGTGCATATCTTGCGGCGATT--CTAAAAATCGCCGCTAATACTATGATTTAGCAGCGTTTTCC
* *
17694835 CATAAGCGCCACTAACTATAGTATACATCAAGACCAAAACGCTGATTTTTGGTTAAGAAATTTAG
129 CATAA-CGCCACTAACTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGTTAACAAATTTAG
17694900 CGGCGCTTCTGGAGAAGCGCCACTAATAGTACGCT
193 CGGCGCTTCTGGAGAAGCGCCACTAATAGTACGCT
* *
17694935 TTAGCGGCGTTTTACAGTAAGCGCCACTAATCCTAATATACCTCAACACCAAACTCTGCGTTTTG
1 TTAGCGGCATTTTACAATAAGCGCCACTAATCCTAATATACCTCAACACCAAACTCTGCGTTTTG
** *
17695000 GTGTGCATATCTTGCGGCGATTCTAGAAAATCGCCGCTAATGTTATGCTTTAGCAGCGTTTTCCC
66 GTGTGCATATCTTGCGGCGATTCTA-AAAATCGCCGCTAATACTATGATTTAGCAGCGTTTTCCC
* * * * * * * * ** *
17695065 CTAACGCCACTAATTGTATTATCCATCGAGACCAAACCGCTGCGTTTTGGTTAACATTTTTTGCG
130 ATAACGCCACTAACTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGTTAACAAATTTAGCG
17695130 GCGCTTC
195 GCGCTTC
17695137 ATAATTCTAA
Statistics
Matches: 173, Mismatches: 27, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
227 2 0.01
228 56 0.32
229 115 0.66
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (227 bp):
TTAGCGGCATTTTACAATAAGCGCCACTAATCCTAATATACCTCAACACCAAACTCTGCGTTTTG
GTGTGCATATCTTGCGGCGATTCTAAAAATCGCCGCTAATACTATGATTTAGCAGCGTTTTCCCA
TAACGCCACTAACTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGTTAACAAATTTAGCGG
CGCTTCTGGAGAAGCGCCACTAATAGTACGCT
Found at i:17695129 original size:114 final size:113
Alignment explanation
Indices: 17694642--17695132 Score: 338
Period size: 114 Copynumber: 4.3 Consensus size: 113
17694632 ATCAAGATTT
* * * * * *
17694642 AAACGCAGCGTTTCGGTTAATATATTCTGCGGTGCA-TCTA-AAAA-CGCGTCGCTAATAGTATA
1 AAACGCTGCGTTTTGGTTAACATATTTTGCGGCG-ATTCTAGAAAATCGC--CGCTAAT-GTATG
* * * * *
17694704 CATTAGCGGCATTTTCCAATCAGCGCCACTAATTCTAATATACC-TCAAGACC
62 CTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTATAATAT-CCATCAAGACC
* * * * * * *
17694756 AAACTCTGCGTTTTGGTGT-GCATATCTTGCGGCGCTTAACT--TAAATCGCCGCTAATACTATT
1 AAACGCTGCGTTTTGGT-TAACATATTTTGCGGCGATT--CTAGAAAATCGCCGCTAAT-GTATG
* * * * *
17694818 ATTTAGCGGCGTTTTCTCATAAGCGCCACTAACTATAGTATACATCAAGACC
62 CTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTATAATATCCATCAAGACC
** * * * * * * * * *
17694870 AAAACGCTGATTTTTGGTTAAGAAATTTAGCGGCGCTTCTGGAGAAGCGCCACTAATAGTACGCT
1 -AAACGCTGCGTTTTGGTTAACATATTTTGCGGCGATTCTAGAAAATCGCCGCTAAT-GTATGCT
* ** *
17694935 TTAGCGGCGTTTT-ACAGTAAGCGCCACTAATCCTAATATACC-TCAACACC
64 TTAGCGGCGTTTTCCCA-TAAGCGCCACTAATTATAATAT-CCATCAAGACC
* * *
17694985 AAACTCTGCGTTTTGGTGT-GCATATCTTGCGGCGATTCTAGAAAATCGCCGCTAATGTTATGCT
1 AAACGCTGCGTTTTGGT-TAACATATTTTGCGGCGATTCTAGAAAATCGCCGCTAATG-TATGCT
* * * * *
17695049 TTAGCAGCGTTTTCCCCTAA-CGCCACTAATTGTATTATCCATCGAGACC
64 TTAGCGGCGTTTTCCCATAAGCGCCACTAATTATAATATCCATCAAGACC
*
17695098 AAACCGCTGCGTTTTGGTTAACATTTTTTGCGGCG
1 AAA-CGCTGCGTTTTGGTTAACATATTTTGCGGCG
17695133 CTTCATAATT
Statistics
Matches: 288, Mismatches: 71, Indels: 36
0.73 0.18 0.09
Matches are distributed among these distances:
112 2 0.01
113 29 0.10
114 165 0.57
115 86 0.30
116 6 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (113 bp):
AAACGCTGCGTTTTGGTTAACATATTTTGCGGCGATTCTAGAAAATCGCCGCTAATGTATGCTTT
AGCGGCGTTTTCCCATAAGCGCCACTAATTATAATATCCATCAAGACC
Found at i:17695334 original size:113 final size:113
Alignment explanation
Indices: 17695138--17695401 Score: 257
Period size: 113 Copynumber: 2.3 Consensus size: 113
17695128 CGGCGCTTCA
** * * *
17695138 TAATTCTAATATACATCACGAT--CAAAACTCTGCGTTTTGGTTATCATATTTTGCGGCGCTTTC
1 TAATTCTAATATACAT--CGATACCAAAACGATGCGTTTTCGTTAACATATTTTGCGGCGCTTCC
* * * * * ** *
17695201 CGTAAGCGTCACTAAGACTTGTTTTA-CTGGCGTTTTTTTGTAAACGCCAC
64 CGCAAGCGCCACTAAGACTTGCTTTAGC-GGCATTTTATCATAAACGACAC
*
17695251 TAATTCTAATATACATCGATACCAAAACGATGCGTTTTCGTTAAGAT-TTTTGCGGCGCTTCCCG
1 TAATTCTAATATACATCGATACCAAAACGATGCGTTTTCGTTAACATATTTTGCGGCGCTTCCCG
* * *
17695315 CAATGCGCCTCTAATACTTGCTTTAGCGGCATTTTATCATAATCGACAC
66 CAA-GCGCCACTAAGACTTGCTTTAGCGGCATTTTATCATAAACGACAC
* ** * * *
17695364 TAATTATTGTATACATCAAGACAAAAACGATGCGTTTT
1 TAATTCTAATATACATCGATACCAAAACGATGCGTTTT
17695402 GTCTTGAGAT
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
111 4 0.03
112 18 0.15
113 101 0.81
114 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (113 bp):
TAATTCTAATATACATCGATACCAAAACGATGCGTTTTCGTTAACATATTTTGCGGCGCTTCCCG
CAAGCGCCACTAAGACTTGCTTTAGCGGCATTTTATCATAAACGACAC
Found at i:17696648 original size:16 final size:15
Alignment explanation
Indices: 17696623--17696652 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17696613 TGAACCATTA
17696623 ACTGACGATTTATTT
1 ACTGACGATTTATTT
17696638 ACTGCACGATTTATT
1 ACTG-ACGATTTATT
17696653 CATTGTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (15 bp):
ACTGACGATTTATTT
Found at i:17700117 original size:6 final size:6
Alignment explanation
Indices: 17700108--17700142 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
17700098 GTGTGTTCTT
* *
17700108 TATTTT TATTTC TATTTC TATTTC TATTGC TATTT
1 TATTTC TATTTC TATTTC TATTTC TATTTC TATTT
17700143 TCTTTGTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.17, C:0.11, G:0.03, T:0.69
Consensus pattern (6 bp):
TATTTC
Found at i:17704576 original size:6 final size:6
Alignment explanation
Indices: 17704562--17704596 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
17704552 GTGTGTTCTT
*
17704562 TATTTC TATTCC TATTTC TATTTC TATTTC TATTT
1 TATTTC TATTTC TATTTC TATTTC TATTTC TATTT
17704597 TCTTTGCGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (6 bp):
TATTTC
Found at i:17705081 original size:23 final size:23
Alignment explanation
Indices: 17705037--17705081 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
17705027 TCTTATTTTG
* *
17705037 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
*
17705060 TTGATTTGTATATTATTGATTT
1 TTGATTTGTATATAATTGATTT
17705082 CAAATCTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:17710861 original size:42 final size:42
Alignment explanation
Indices: 17710781--17710861 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
17710771 CCCGAAAAGG
*
17710781 GCAGCTCAAATATTGATCAGAATGGGGCATGAGGTGATCAGA
1 GCAGCTCAAATATTGATCAGAATGGGGCATGAGATGATCAGA
* * *
17710823 GCAGTTCAAATTTTGATCAGATTGGGGCAT-ATGATGATC
1 GCAGCTCAAATATTGATCAGAATGGGGCATGA-GATGATC
17710862 TTGCTATACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (42 bp):
GCAGCTCAAATATTGATCAGAATGGGGCATGAGATGATCAGA
Found at i:17711755 original size:44 final size:44
Alignment explanation
Indices: 17711707--17712112 Score: 509
Period size: 44 Copynumber: 9.7 Consensus size: 44
17711697 GTGTCCCAGC
17711707 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* *
17711751 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTATGAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
*
17711795 CCTATCTCCCTGGTCAGCAGTGGAATTGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
*
17711839 CCTATCTCCCTGGTCAGCAATGG-A-A---T--AGA-TG-AA-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* *
17711873 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTCTGAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
*
17711917 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAG-
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
17711960 CCTTATCTCCCT-GTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
1 CC-TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* * *
17712004 CCTATCTCCTTGGTCAGTAGTGGAATA----G--G--CG-AA-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
17712038 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGT
* *
17712082 CCTATCTCCCTGAG-CAACAGTGGAGTAGGTT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTT
17712113 CAAAATTACA
Statistics
Matches: 318, Mismatches: 20, Indels: 48
0.82 0.05 0.12
Matches are distributed among these distances:
34 49 0.15
35 5 0.02
36 4 0.01
37 3 0.01
38 2 0.01
39 2 0.01
40 2 0.01
41 3 0.01
42 2 0.01
43 42 0.13
44 203 0.64
45 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
Found at i:17711923 original size:78 final size:78
Alignment explanation
Indices: 17711789--17712093 Score: 407
Period size: 78 Copynumber: 3.8 Consensus size: 78
17711779 GTTGAAGATT
* *
17711789 ATGAGTCCTATCTCCCTGGTCAGCAGTGGAATTGGTTGAAGATTGTAAGTCCTATCTCCCTGGTC
1 ATGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTC
*
17711854 AGCAATGGAATAG
66 AGCAGTGGAATAG
* *
17711867 ATGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTCTGAGTCCTATCTCCCTGGTC
1 ATGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTC
17711932 AGCAGTGGAATAGG
66 AGCAGTGGAATA-G
*
17711946 TTGAAGATTGTGAGCCTTATCTCCCT-GTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATC
1 ATG-A-A---T---CC-TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATC
* *
17712010 TCCTTGGTCAGTAGTGGAATAG
57 TCCCTGGTCAGCAGTGGAATAG
**
17712032 GCGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTATCTCCCTG
1 ATGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCCTATCTCCCTG
17712094 AGCAACAGTG
Statistics
Matches: 202, Mismatches: 13, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
77 9 0.04
78 114 0.56
79 5 0.02
80 1 0.00
81 2 0.01
84 2 0.01
85 1 0.00
86 2 0.01
87 57 0.28
88 9 0.04
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (78 bp):
ATGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTC
AGCAGTGGAATAG
Found at i:17712031 original size:87 final size:78
Alignment explanation
Indices: 17711963--17712110 Score: 221
Period size: 78 Copynumber: 1.9 Consensus size: 78
17711953 TTGTGAGCCT
* *
17711963 TATCTCCCT-GTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCTTGGTCAGTAGTGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGG
17712027 AATAGGCGAATCC
66 AATAGGCGAATCC
*
17712040 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTATCTCCCTGAG-CAACAGT
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCCTATCTCCCTG-GTCAGCAGT
*
17712103 GGAGTAGG
64 GGAATAGG
17712111 TTCAAAATTA
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
77 9 0.14
78 52 0.81
79 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (78 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGG
AATAGGCGAATCC
Found at i:17712067 original size:165 final size:166
Alignment explanation
Indices: 17711707--17712112 Score: 665
Period size: 165 Copynumber: 2.5 Consensus size: 166
17711697 GTGTCCCAGC
*
17711707 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGT
*
17711772 GGAATAGGTTGAAGATTATGAGTCCTATCTCCCTGGTCAGCAGTGGAATTGGTTGAAGATTGTAA
66 GGAATAGGTTGAAGATTATGAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAA
*
17711837 GTCCTATCTCCCTGGTCAGCAATGGAATAGATGAAT
131 GTCCTATCTCCCTGGTCAGCAATGGAATAGACGAAT
*
17711873 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTCTGAGTCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGT
*
17711938 GGAATAGGTTGAAGATTGTGAG-CCTTATCTCCCT-GTCAGCAGTGGAATAGGTTGAAGATTGTA
66 GGAATAGGTTGAAGATTATGAGTCC-TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
* * * *
17712001 AGTCCTATCTCCTTGGTCAGTAGTGGAATAGGCGAAT
130 AGTCCTATCTCCCTGGTCAGCAATGGAATAGACGAAT
* *
17712038 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGAG-CAACAG
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTG-GTCAGCAG
*
17712102 TGGAGTAGGTT
65 TGGAATAGGTT
17712113 CAAAATTACA
Statistics
Matches: 225, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
165 131 0.58
166 94 0.42
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (166 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGT
GGAATAGGTTGAAGATTATGAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAA
GTCCTATCTCCCTGGTCAGCAATGGAATAGACGAAT
Found at i:17712346 original size:44 final size:44
Alignment explanation
Indices: 17712249--17712370 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 44
17712239 TGAAAATTAC
* ** *
17712249 AGATTTTATCTCCCTAAGTTGCAGTGGAGCAGATTGAAGCCAGT
1 AGATCTTATCTCCCTAAGTTGCAGTGGAGCAGATTGAAAACAAT
* * *
17712293 A-ATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATT-AAAATAAT
1 AGATCTTATCTCCCT-AAGTTGCAGTGGAGCAGATTGAAAACAAT
* * *
17712336 AGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 AGATCTTATCTCCCT-AAGTTGCAGTGGAGCAGAT
17712371 CGTATCAAGT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 16 0.25
44 47 0.75
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (44 bp):
AGATCTTATCTCCCTAAGTTGCAGTGGAGCAGATTGAAAACAAT
Found at i:17712933 original size:17 final size:19
Alignment explanation
Indices: 17712911--17712984 Score: 89
Period size: 19 Copynumber: 3.9 Consensus size: 19
17712901 ATGGAAACAT
17712911 AATCTTA-A-AGGATATGC
1 AATCTTAGATAGGATATGC
*
17712928 AATCTTAGATATGATATGC
1 AATCTTAGATAGGATATGC
*
17712947 AATCTTAGATATGATACATGC
1 AATCTTAGATAGGAT--ATGC
*
17712968 AATCTTAGATATGATAT
1 AATCTTAGATAGGATAT
17712985 ATGTAATCTT
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
17 7 0.13
18 1 0.02
19 25 0.48
21 19 0.37
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
AATCTTAGATAGGATATGC
Found at i:17712945 original size:19 final size:19
Alignment explanation
Indices: 17712921--17712984 Score: 110
Period size: 19 Copynumber: 3.3 Consensus size: 19
17712911 AATCTTAAAG
17712921 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
17712940 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
17712959 GATACATGCAATCTTAGATAT
1 GAT--ATGCAATCTTAGATAT
17712980 GATAT
1 GATAT
17712985 ATGTAATCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 24 0.56
21 19 0.44
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:17712969 original size:21 final size:20
Alignment explanation
Indices: 17712924--17712997 Score: 114
Period size: 21 Copynumber: 3.6 Consensus size: 20
17712914 CTTAAAGGAT
17712924 ATGCAATCTTAGATATGAT-
1 ATGCAATCTTAGATATGATA
17712943 ATGCAATCTTAGATATGATA
1 ATGCAATCTTAGATATGATA
17712963 CATGCAATCTTAGATATGATA
1 -ATGCAATCTTAGATATGATA
*
17712984 TATGTAATCTTAGA
1 -ATGCAATCTTAGA
17712998 AGATATGATT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 19 0.37
21 32 0.63
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (20 bp):
ATGCAATCTTAGATATGATA
Found at i:17713016 original size:23 final size:24
Alignment explanation
Indices: 17712953--17713020 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 24
17712943 ATGCAATCTT
* *
17712953 AGATATGATACATGCAATCTT---
1 AGATATGATATATGTAATCTTAGA
17712974 AGATATGATATATGTAATCTTAGA
1 AGATATGATATATGTAATCTTAGA
*
17712998 AGATATGAT-TTTGTAATCTTAGA
1 AGATATGATATATGTAATCTTAGA
17713021 GATTTAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
21 19 0.46
23 13 0.32
24 9 0.22
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.38
Consensus pattern (24 bp):
AGATATGATATATGTAATCTTAGA
Found at i:17713030 original size:22 final size:23
Alignment explanation
Indices: 17712986--17713030 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17712976 ATATGATATA
*
17712986 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
17713009 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
17713031 GTAGGTACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:17713268 original size:23 final size:23
Alignment explanation
Indices: 17713224--17713268 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
17713214 TCTTATTTTG
* *
17713224 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
17713247 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
17713269 CAAATCTATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:17722599 original size:2 final size:2
Alignment explanation
Indices: 17722594--17722626 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
17722584 GTTTTTTTTT
*
17722594 TG TG TG TG TG TG TG TG TG TG TG TG TG TG GG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
17722627 AAAATTGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
TG
Found at i:17724273 original size:2 final size:2
Alignment explanation
Indices: 17724268--17724411 Score: 288
Period size: 2 Copynumber: 72.0 Consensus size: 2
17724258 GTTTTTTTTT
17724268 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
17724310 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
17724352 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
17724394 TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG
17724412 CTTGCATCTG
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 142 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:17753407 original size:8 final size:7
Alignment explanation
Indices: 17753384--17753416 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
17753374 AAATTGTTTA
17753384 TTTT-CT
1 TTTTCCT
17753390 TTTTCCT
1 TTTTCCT
17753397 TTTTCCT
1 TTTTCCT
*
17753404 TTTTCCA
1 TTTTCCT
17753411 TTTTCC
1 TTTTCC
17753417 ATGCTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
6 4 0.16
7 21 0.84
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTCCT
Found at i:17762921 original size:22 final size:22
Alignment explanation
Indices: 17762879--17762936 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
17762869 TAAATTATAA
* *
17762879 AAACAAAAAAGAAATAGAAAC-
1 AAACAAAAAAGAAAGACAAACG
*
17762900 AAACAAACAAAGAAAGCCAAACG
1 AAACAAA-AAAGAAAGACAAACG
* *
17762923 AAACAGAATAGAAA
1 AAACAAAAAAGAAA
17762937 AAGGAAAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 7 0.23
22 17 0.57
23 6 0.20
ACGTcount: A:0.71, C:0.14, G:0.12, T:0.03
Consensus pattern (22 bp):
AAACAAAAAAGAAAGACAAACG
Found at i:17763903 original size:41 final size:41
Alignment explanation
Indices: 17763848--17763981 Score: 118
Period size: 41 Copynumber: 3.4 Consensus size: 41
17763838 ACTTCGAGTC
*
17763848 GATGAGACATTGGGTGTCAATTTACTACTTTGGATTAATTC-
1 GATGAGACACTGGGTGTCAATTTACTACTTTGGATTAA-TCA
* * * *
17763889 GATGAGGCACTGGGTGCCAATTTACT-C--CGGTTTAA-CA
1 GATGAGACACTGGGTGTCAATTTACTACTTTGGATTAATCA
* * * * *
17763926 GATGAGACATTGGTTGTCAATTTATTACTTTGCATT-ATCT
1 GATGAGACACTGGGTGTCAATTTACTACTTTGGATTAATCA
*
17763966 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
17763982 CCAAACTGGT
Statistics
Matches: 71, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
36 1 0.01
37 21 0.30
38 7 0.10
39 1 0.01
40 18 0.25
41 23 0.32
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (41 bp):
GATGAGACACTGGGTGTCAATTTACTACTTTGGATTAATCA
Found at i:17772758 original size:40 final size:40
Alignment explanation
Indices: 17772714--17772793 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
17772704 AACAAGGAAA
*
17772714 GAATGACACCACAAGCTGAGCTTGATAAGTCGTTTCAGTC
1 GAATGACACCACAAGCTAAGCTTGATAAGTCGTTTCAGTC
** *
17772754 GAATGATGCCACAAGCTAAGCTTGATAAGTTGTTTCAGTC
1 GAATGACACCACAAGCTAAGCTTGATAAGTCGTTTCAGTC
17772794 CAAGAGAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
GAATGACACCACAAGCTAAGCTTGATAAGTCGTTTCAGTC
Found at i:17781659 original size:40 final size:40
Alignment explanation
Indices: 17781615--17781726 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 40
17781605 GCGTTTGAAT
*
17781615 AAAAAACGCCGCTAAAAATCAAGTATTAGCGGCACTTTTC
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCACTTTTC
* * * * *
17781655 AAAAATCGCCGCTAAAGATCCAGCATTAGCGGCGCTTTTT
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCACTTTTC
** * *
17781695 TGAAAACGCCGCTAAAAAT-GAGCACTAGCGGC
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGC
17781727 GTTTGCAAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
39 11 0.18
40 49 0.82
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCACTTTTC
Found at i:17781740 original size:39 final size:40
Alignment explanation
Indices: 17781599--17781740 Score: 110
Period size: 40 Copynumber: 3.5 Consensus size: 40
17781589 AGCGGCATTT
* * *
17781599 TTAGTGGCGTTTGAATAAAAAACGCCGCTAAAAATCAAGTA
1 TTAGCGGCGTTTGCA-AAAAAACGCCGCTAAAAATCAAGCA
* * * * *
17781640 TTAGCGGCACTTTTC-AAAAATCGCCGCTAAAGATCCAGCA
1 TTAGCGGC-GTTTGCAAAAAAACGCCGCTAAAAATCAAGCA
**** *
17781680 TTAGCGGCGCTTT-TTTGAAAACGCCGCTAAAAAT-GAGCA
1 TTAGCGGCG-TTTGCAAAAAAACGCCGCTAAAAATCAAGCA
*
17781719 CTAGCGGCGTTTGCAAAAAAAC
1 TTAGCGGCGTTTGCAAAAAAAC
17781741 CTAAGCCCAA
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
38 3 0.04
39 17 0.22
40 47 0.61
41 7 0.09
42 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCGGCGTTTGCAAAAAAACGCCGCTAAAAATCAAGCA
Found at i:17781837 original size:41 final size:41
Alignment explanation
Indices: 17781777--17781988 Score: 336
Period size: 41 Copynumber: 5.2 Consensus size: 41
17781767 CCTTTCTAGG
*
17781777 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGTTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
*
17781818 CTTTAGCGGCGTTTATGGAAAAGCGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
**
17781859 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* *
17781900 TTTTAGCGGCATTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
1 CTTTAGCGGC-GTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* *
17781942 CTTTAGCGACCTTTTTGGAAAAGCGCCGCTAATGCTCAGA-
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
17781982 CTTTAGC
1 CTTTAGC
17781989 AAAAAAGCGC
Statistics
Matches: 158, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
40 7 0.04
41 115 0.73
42 36 0.23
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
Found at i:17781957 original size:83 final size:82
Alignment explanation
Indices: 17781777--17781985 Score: 337
Period size: 83 Copynumber: 2.5 Consensus size: 82
17781767 CCTTTCTAGG
* *
17781777 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGTTCAGACCTTTAGCGGCGTTTATGGAAAAGC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGACTTTTAGCGGCGTTTATGGAAAAGC
17781842 GCCGCTAATGCTCAGAC
66 GCCGCTAATGCTCAGAC
** * *
17781859 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGACTTTTAGCGGCATTTTTTGGAAAAG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGACTTTTAGCGGC-GTTTATGGAAAAG
17781924 CGCCGCTAATGCTCAGAC
65 CGCCGCTAATGCTCAGAC
* *
17781942 CTTTAGCGACCTTTTTGGAAAAGCGCCGCTAATGCTCAGACTTT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGACTTT
17781986 AGCAAAAAAG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
82 47 0.41
83 69 0.59
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGACTTTTAGCGGCGTTTATGGAAAAGC
GCCGCTAATGCTCAGAC
Found at i:17782445 original size:14 final size:15
Alignment explanation
Indices: 17782417--17782449 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
17782407 AAGGTTTATA
17782417 GATTATGGAATTAGG
1 GATTATGGAATTAGG
17782432 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
17782446 GATT
1 GATT
17782450 CTAGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:17787576 original size:43 final size:43
Alignment explanation
Indices: 17787515--17787697 Score: 285
Period size: 43 Copynumber: 4.3 Consensus size: 43
17787505 AATTCATGTT
* * *
17787515 TTTAGCAGCGCTTGTGGGAAAAGCGCCGCTAAAGGTATTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
17787558 TTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
17787601 TTTAGCAGCGTTTGTGGGATAAGCGTCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
17787644 TTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
17787687 TTTAGCAGCGT
1 TTTAGCGGCGT
17787698 GTTTTTCTAA
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 127 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:17787820 original size:22 final size:22
Alignment explanation
Indices: 17787792--17787835 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17787782 TAGCGGTGCT
* *
17787792 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCACCGCTAAAAGCCTA
17787814 AAAAAGCACCGCTAAAAGCCTA
1 AAAAAGCACCGCTAAAAGCCTA
17787836 TTTTGGTGTA
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:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (22 bp):
AAAAAGCACCGCTAAAAGCCTA
Found at i:17790320 original size:20 final size:20
Alignment explanation
Indices: 17790295--17790332 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
17790285 TAGCAGCTGC
17790295 TGGCCTTTAATTCAACTTGT
1 TGGCCTTTAATTCAACTTGT
17790315 TGGCCTTTAATTCAACTT
1 TGGCCTTTAATTCAACTT
17790333 CATAATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (20 bp):
TGGCCTTTAATTCAACTTGT
Found at i:17795302 original size:20 final size:20
Alignment explanation
Indices: 17795277--17795315 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
17795267 CACTTTCTTC
17795277 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
17795297 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
17795316 ACTTGCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:17795304 original size:12 final size:12
Alignment explanation
Indices: 17795289--17795321 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
17795279 TACTTACTCT
*
17795289 CTTACTTGTTTA
1 CTTACTTGCTTA
17795301 CTTACTTGCTTA
1 CTTACTTGCTTA
17795313 CTTACTTGC
1 CTTACTTGC
17795322 ATACCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.24, G:0.09, T:0.52
Consensus pattern (12 bp):
CTTACTTGCTTA
Found at i:17795655 original size:50 final size:51
Alignment explanation
Indices: 17795583--17795712 Score: 165
Period size: 50 Copynumber: 2.6 Consensus size: 51
17795573 CTGTACTACA
* * **
17795583 AATGCCATATCCCAGATATGGTCTTACATGAG-AGTTCTCATATCGATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGAACCTCTCATATCGATGCC
* * * *
17795633 CATGCCATGTCTCAGACATGGTCTTACA-GGGAACCTCTCATCTCGATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGAACCTCTCATATCGATGCC
*
17795683 AACGCCATGTCCCAGACATGGTCTTACATG
1 AATGCCATGTCCCAGACATGGTCTTACATG
17795713 GGATCTCATT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
49 2 0.03
50 64 0.96
51 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (51 bp):
AATGCCATGTCCCAGACATGGTCTTACATGAGAACCTCTCATATCGATGCC
Found at i:17797342 original size:14 final size:14
Alignment explanation
Indices: 17797323--17797349 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17797313 TAATTTATAT
17797323 GTGTGAAAATTTTC
1 GTGTGAAAATTTTC
17797337 GTGTGAAAATTTT
1 GTGTGAAAATTTT
17797350 ATCGTTTGCG
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:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (14 bp):
GTGTGAAAATTTTC
Found at i:17797354 original size:16 final size:16
Alignment explanation
Indices: 17797314--17797354 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
17797304 ACAGCATGTT
17797314 AATTTATAT-GTGTGAA
1 AATTT-TATCGTGTGAA
17797330 AA-TTT-TCGTGTGAA
1 AATTTTATCGTGTGAA
17797344 AATTTTATCGT
1 AATTTTATCGT
17797355 TTGCGTGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.05
14 10 0.45
15 5 0.23
16 6 0.27
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.46
Consensus pattern (16 bp):
AATTTTATCGTGTGAA
Found at i:17798494 original size:43 final size:42
Alignment explanation
Indices: 17798385--17798502 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
17798375 AATTTTATAT
* * * *
17798385 TTACTTGTAAGACCATGCCTGGGACATTGGCATCGTATATGA
1 TTACATGTAAGACCACGTCTGGGACAGTGGCATCGTATATGA
* * * *
17798427 TTACGTGTAAGACC-CTTTCAGGGACAGTGGCATCGTTATGTGA
1 TTACATGTAAGACCAC-GTCTGGGACAGTGGCATCG-TATATGA
17798470 TTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TTACATGTAAGACCACGTCTGGGACAG-TGGCAT
17798503 TGTACGAGCT
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
42 29 0.47
43 32 0.52
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACAGTGGCATCGTATATGA
Found at i:17803641 original size:162 final size:162
Alignment explanation
Indices: 17803374--17803697 Score: 612
Period size: 162 Copynumber: 2.0 Consensus size: 162
17803364 CAGTAGGACG
17803374 TTCAGGACCAACACCCGAATTATGTAAACCCAAATGACGTGTCATTTGTACCCTATGATTTCCTA
1 TTCAGGACCAACACCCGAATTATGTAAACCCAAATGACGTGTCATTTGTACCCTATGATTTCCTA
17803439 AGGTTCAAAACGGGCTCGGTAATCATTGTACGTTGTTGGATATGCGATAGGTATATATATATGGC
66 AGGTTCAAAACGGGCTCGGTAATCATTGTACGTTGTTGGATATGCGATAGGTATATATATATGGC
17803504 AATTTCCATCACATGTATAATTCAATTGAAAA
131 AATTTCCATCACATGTATAATTCAATTGAAAA
*
17803536 TTCAGGACCAACACCCGAATTATGTAAACCCAAATGACGTGTCATTTGTATCCTATGATTTCCTA
1 TTCAGGACCAACACCCGAATTATGTAAACCCAAATGACGTGTCATTTGTACCCTATGATTTCCTA
* *
17803601 AGGTTCAAAACGGGCTCGGTAATCATTTTATGTTGTTGGATATGCGATAGGTATATATATATGGC
66 AGGTTCAAAACGGGCTCGGTAATCATTGTACGTTGTTGGATATGCGATAGGTATATATATATGGC
*
17803666 AATTTCTATCACATGTATAATTCAATTGAAAA
131 AATTTCCATCACATGTATAATTCAATTGAAAA
17803698 CATATAAATA
Statistics
Matches: 158, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 158 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (162 bp):
TTCAGGACCAACACCCGAATTATGTAAACCCAAATGACGTGTCATTTGTACCCTATGATTTCCTA
AGGTTCAAAACGGGCTCGGTAATCATTGTACGTTGTTGGATATGCGATAGGTATATATATATGGC
AATTTCCATCACATGTATAATTCAATTGAAAA
Found at i:17806828 original size:20 final size:20
Alignment explanation
Indices: 17806803--17806843 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17806793 GTTTAAAGGT
17806803 TATGCCTCTTCACTATTCCA
1 TATGCCTCTTCACTATTCCA
17806823 TATGCCTCTTCACTATTCCA
1 TATGCCTCTTCACTATTCCA
17806843 T
1 T
17806844 GTATAGCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.34, G:0.05, T:0.41
Consensus pattern (20 bp):
TATGCCTCTTCACTATTCCA
Found at i:17814492 original size:20 final size:21
Alignment explanation
Indices: 17814451--17814497 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
17814441 GCATCGATGA
* *
17814451 TGCATAACAGAGGCATCGAAG
1 TGCAAAACAGAGGCACCGAAG
*
17814472 T-CAAAACAGAGGCACCTAAG
1 TGCAAAACAGAGGCACCGAAG
17814492 TGCAAA
1 TGCAAA
17814498 CCCGTACAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (21 bp):
TGCAAAACAGAGGCACCGAAG
Found at i:17816949 original size:30 final size:30
Alignment explanation
Indices: 17816908--17816991 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 30
17816898 TGGTATCCAC
* *
17816908 CACTAGTACATAGTACTTGATAAATGTAAA
1 CACTAGGACATAGTACTTGATAAATATAAA
* * *
17816938 CACTAGGACATAGTGCCTGATATAATATGAA
1 CACTAGGACATAGTACTTGATA-AATATAAA
* *
17816969 CA-TCGGTACAAAGTACTTGATAA
1 CACTAGG-ACATAGTACTTGATAA
17816992 TAAAGTCATC
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
30 23 0.53
31 20 0.47
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.27
Consensus pattern (30 bp):
CACTAGGACATAGTACTTGATAAATATAAA
Found at i:17827621 original size:26 final size:26
Alignment explanation
Indices: 17827592--17827641 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
17827582 AGTTAATAAA
* *
17827592 TTCTCTCTGGGTTTTTTTTA-AAGAAT
1 TTCTCT-TGAGTTTCTTTTAGAAGAAT
17827618 TTCTCTTGAGTTTCTTTTAGAAGA
1 TTCTCTTGAGTTTCTTTTAGAAGA
17827642 GTTTTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (26 bp):
TTCTCTTGAGTTTCTTTTAGAAGAAT
Found at i:17827858 original size:13 final size:13
Alignment explanation
Indices: 17827837--17827870 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
17827827 TCTTTGATTT
17827837 ATTATTTTATTTTA
1 ATTA-TTTATTTTA
*
17827851 GTTATTTATTTTA
1 ATTATTTATTTTA
17827864 ATTATTT
1 ATTATTT
17827871 TTATCTGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 15 0.83
14 3 0.17
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
ATTATTTATTTTA
Found at i:17829283 original size:42 final size:44
Alignment explanation
Indices: 17829236--17829319 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 44
17829226 TTTGGAGTAG
*
17829236 TTAAAAAAAATCAAAA-TTTTGTTTTAAAAAT-TAAACTTTCAT
1 TTAAAAAAAATAAAAATTTTTGTTTTAAAAATCTAAACTTTCAT
* * *
17829278 TTAAAATAAATAAAAATTTTTTTTTTCAAAATCTAAACTTTC
1 TTAAAAAAAATAAAAATTTTTGTTTTAAAAATCTAAACTTTC
17829320 TCCTTTCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 14 0.39
43 13 0.36
44 9 0.25
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (44 bp):
TTAAAAAAAATAAAAATTTTTGTTTTAAAAATCTAAACTTTCAT
Found at i:17829320 original size:142 final size:144
Alignment explanation
Indices: 17829079--17829437 Score: 492
Period size: 142 Copynumber: 2.5 Consensus size: 144
17829069 CCTTATTTCA
* * *
17829079 AAATAGTT-AAAAAAATCAAAACTTTATTTTAAAAATTTTAACTTTCTTTTAAAATGACTTAAAG
1 AAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCATTT-AAA--A--TAAA-
* *
17829143 AAAACATATTTTTATTTTTCAAAATCTAAACTTTCTCCATTT-TTTAAAAAAATATTATTTTTCT
60 TAAA-A-ATTTTTATTTTTCAAAATCTAAACTTTCTCC-TTTCTTTAAAAAAATACTATTTTTCT
*
17829207 TAAAGATTAAAGCTTTTATTTTG
122 TAAAGATTAAAGCTTTTACTTTG
* * *
17829230 GAGTAGTTAAAAAAAATCAAAATTTTGTTTTAAAAA-TTAAACTTTCATTTAAAATAAATAAAAA
1 AAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCATTTAAAATAAATAAAAA
17829294 TTTTT-TTTTTCAAAATCTAAACTTTCTCCTTTCTTTAAAAAAATACTATTTTTCTTAAAGATTA
66 TTTTTATTTTTCAAAATCTAAACTTTCTCCTTTCTTTAAAAAAATACTATTTTTCTTAAAGATTA
17829358 AAGCTTTTACTTTG
131 AAGCTTTTACTTTG
* * *
17829372 AAATAGTTGAAAACAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAA
1 AAATAGTT-AAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCATTTAAAATAAATAAAA
17829437 A
65 A
17829438 AACAGATTTT
Statistics
Matches: 189, Mismatches: 15, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
141 3 0.02
142 73 0.39
143 32 0.17
144 27 0.14
145 3 0.02
146 4 0.02
148 1 0.01
150 3 0.02
151 18 0.10
152 25 0.13
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.42
Consensus pattern (144 bp):
AAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCATTTAAAATAAATAAAAA
TTTTTATTTTTCAAAATCTAAACTTTCTCCTTTCTTTAAAAAAATACTATTTTTCTTAAAGATTA
AAGCTTTTACTTTG
Found at i:17829731 original size:6 final size:6
Alignment explanation
Indices: 17829720--17829744 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17829710 GCAGTTGTTG
17829720 TGTTTT TGTTTT TGTTTT TGTTTT T
1 TGTTTT TGTTTT TGTTTT TGTTTT T
17829745 TTTACCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TGTTTT
Found at i:17833015 original size:4 final size:4
Alignment explanation
Indices: 17833006--17833039 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
17832996 TAGTTAAAAT
*
17833006 ATAA ATAA ATAA ATAA ATAA ATAA TAAAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA A
17833040 ACTTTACAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 24 0.89
5 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:17833023 original size:12 final size:13
Alignment explanation
Indices: 17833003--17833039 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
17832993 AATTAGTTAA
17833003 AATATAAATAAAT
1 AATATAAATAAAT
17833016 AA-ATAAATAAAT
1 AATATAAATAAAT
*
17833028 AATAAAAATAAA
1 AATATAAATAAA
17833040 ACTTTACAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATATAAATAAAT
Found at i:17833768 original size:40 final size:40
Alignment explanation
Indices: 17833717--17833845 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
17833707 TTTGGATAAA
* *
17833717 AAAACGTCGCTAAAGATCGAGCATTAGCGACGCTTCTTGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTCTTGG
*
17833757 AAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTT-TATGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTCT-TGG
* * * *
17833797 AAAACGCCGCTAAA-AACAAGCATTAGCGGCGTTTCTCGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTCTTGG
*
17833836 AAAGCGCCGC
1 AAAACGCCGC
17833846 AAAAAACCTA
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 28 0.36
40 50 0.64
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTCTTGG
Found at i:17833851 original size:39 final size:38
Alignment explanation
Indices: 17833736--17833852 Score: 117
Period size: 39 Copynumber: 3.0 Consensus size: 38
17833726 CTAAAGATCG
* * * * *
17833736 AGCATTAGCGACGCTTCTTGGAAAACGCCGCTAAAGATCG
1 AGCATTAGCGGCGTTTC-TGGAAAACGCCGC-AAAAAACA
* * *
17833776 AGTATTAGCGGCGCTTTATGGAAAACGCCGCTAAAAACA
1 AGCATTAGCGGCG-TTTCTGGAAAACGCCGCAAAAAACA
*
17833815 AGCATTAGCGGCGTTTCTCGGAAAGCGCCGCAAAAAAC
1 AGCATTAGCGGCGTTTCT-GGAAAACGCCGCAAAAAAC
17833853 CTAAGCCCGT
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
38 4 0.06
39 33 0.52
40 24 0.38
41 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (38 bp):
AGCATTAGCGGCGTTTCTGGAAAACGCCGCAAAAAACA
Found at i:17833942 original size:41 final size:41
Alignment explanation
Indices: 17833880--17834132 Score: 308
Period size: 41 Copynumber: 6.1 Consensus size: 41
17833870 CTTTCGGGGA
*
17833880 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
* * * * *
17833921 TTGAGCGGCGGTTTTGGGAAAGCGCCGCTTTAATGCTAAAGGT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGC--TAATGCTCAGGGC
*
17833964 TTTAGCGGCGTTTTTGGGAAAGCGACGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
* *
17834005 TTTAGCGGCGTTTCTGGGAAAGCGACGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
** * *
17834046 TTTAGCGGTTTTTTTAGGAAAGCGCCGCTAATGCTCAGGGAT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGG-C
* *** * *
17834088 TTTAGCGGTGTTTTTCATAAAACGCCGCTAATGCTCAGGGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
17834129 TTTA
1 TTTA
17834133 AAATAATTTA
Statistics
Matches: 184, Mismatches: 25, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
41 114 0.62
42 35 0.19
43 35 0.19
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
Found at i:17834023 original size:84 final size:81
Alignment explanation
Indices: 17833880--17834101 Score: 291
Period size: 84 Copynumber: 2.7 Consensus size: 81
17833870 CTTTCGGGGA
* *
17833880 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTGAGCGGCGGTTTTGGGAAAGCG
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGC-GTTTTGGGAAAGCG
* *
17833945 CCGCTTTAATGCTAAAGGT
65 ACGC--TAATGCTAAAGGC
*
17833964 TTTAGCGGCGTTTTTGGGAAAGCGACGCTAATGCTCAGGGCTTTAGCGGCGTTTCTGGGAAAGCG
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTT-TGGGAAAGCG
* *
17834029 ACGCTAATGCTCAGGGC
65 ACGCTAATGCTAAAGGC
** * * *
17834046 TTTAGCGGTTTTTTTAGGAAAGCGCCGCTAATGCTCAGGGATTTTAGCGGTGTTTT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGG-CTTTAGCGGCGTTTT
17834102 TCATAAAACG
Statistics
Matches: 123, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
82 47 0.38
83 16 0.13
84 60 0.49
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.30
Consensus pattern (81 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTGGGAAAGCGA
CGCTAATGCTAAAGGC
Found at i:17834383 original size:7 final size:7
Alignment explanation
Indices: 17834305--17834387 Score: 60
Period size: 7 Copynumber: 11.7 Consensus size: 7
17834295 TATCACTATA
*
17834305 GTTTAGG
1 GTTTATG
*
17834312 GTTTTTG
1 GTTTATG
*
17834319 GTTTAGG
1 GTTTATG
*
17834326 GTATATG
1 GTTTATG
*
17834333 ATTTA-G
1 GTTTATG
*
17834339 AGTTTATT
1 -GTTTATG
17834347 GTTTATG
1 GTTTATG
*
17834354 GATTATGG
1 GTTTAT-G
*
17834362 GTTTAGG
1 GTTTATG
*
17834369 GGTTATG
1 GTTTATG
17834376 GTTTATG
1 GTTTATG
17834383 GTTTA
1 GTTTA
17834388 AAGGCTGGGG
Statistics
Matches: 56, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
6 1 0.02
7 50 0.89
8 5 0.09
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (7 bp):
GTTTATG
Found at i:17834426 original size:29 final size:29
Alignment explanation
Indices: 17834394--17834467 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
17834384 TTTAAAGGCT
*
17834394 GGGGTTTAAGGTTTAGAGG-TTATGTGTTA
1 GGGGTTTAAGGTTTAGAGGTTTAAGT-TTA
*
17834423 GGGGTTTATGGTTTTAG-GGTTTAAGTTTA
1 GGGGTTTAAGG-TTTAGAGGTTTAAGTTTA
*
17834452 -GGGTTTAGGGTTTAGA
1 GGGGTTTAAGGTTTAGA
17834468 TTAACTATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 5 0.13
28 9 0.23
29 15 0.38
30 10 0.26
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.43
Consensus pattern (29 bp):
GGGGTTTAAGGTTTAGAGGTTTAAGTTTA
Found at i:17834443 original size:8 final size:7
Alignment explanation
Indices: 17834424--17834466 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
17834414 TATGTGTTAG
17834424 GGGTTTA
1 GGGTTTA
*
17834431 TGGTTTTA
1 -GGGTTTA
17834439 GGGTTTA
1 GGGTTTA
*
17834446 -AGTTTA
1 GGGTTTA
17834452 GGGTTTA
1 GGGTTTA
17834459 GGGTTTA
1 GGGTTTA
17834466 G
1 G
17834467 ATTAACTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 5 0.17
7 19 0.63
8 6 0.20
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (7 bp):
GGGTTTA
Found at i:17834464 original size:14 final size:14
Alignment explanation
Indices: 17834305--17834466 Score: 107
Period size: 14 Copynumber: 11.4 Consensus size: 14
17834295 TATCACTATA
*
17834305 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
17834319 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* * *
17834333 ATTTAGAGTTTATT
1 GTTTAGGGTTTATG
* *
17834347 GTTTATGGATTATGG
1 GTTTAGGGTTTAT-G
*
17834362 GTTTAGGGGTTATG
1 GTTTAGGGTTTATG
* *
17834376 GTTTATGGTTTAAAG
1 GTTTAGGGTTT-ATG
* * *
17834391 G-CTGGGGTTTAAG
1 GTTTAGGGTTTATG
17834404 GTTTAGAGG-TTAT-
1 GTTTAG-GGTTTATG
17834417 GTGTTAGGGGTTTATG
1 GT-TTA-GGGTTTATG
*
17834433 GTTTTAGGGTTTA-A
1 G-TTTAGGGTTTATG
*
17834447 GTTTAGGGTTTAGG
1 GTTTAGGGTTTATG
17834461 GTTTAG
1 GTTTAG
17834467 ATTAACTATT
Statistics
Matches: 114, Mismatches: 24, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
13 17 0.15
14 64 0.56
15 28 0.25
16 4 0.04
17 1 0.01
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:17840169 original size:86 final size:85
Alignment explanation
Indices: 17840038--17840245 Score: 204
Period size: 86 Copynumber: 2.4 Consensus size: 85
17840028 TTTTTGCGAG
* * *
17840038 AAGCGTCGCTAAAGGTTTGTTTTATAGCGGCGTTTGTGCTAAAAAGCGACACTAAAGGTCATGGT
1 AAGCGCCGCTAAAGGTTTGTCTTATAGCGGCGTTTGCGC-AAAAAGCGACACTAAAGGTCATGGT
*
17840103 CTTTAGCGGTGTTTGCCACAA
65 CTTTAGCGGCGTTTGCCACAA
* * **
17840124 AAGCGCCGCTAAAGGTTGTGGTCTT-TAGCGGCGTTTGCG-ACAAAAGCGCCGCTAAAGGTTGTG
1 AAGCGCCGCTAAAGGTT-T-GTCTTATAGCGGCGTTTGCGCA-AAAAGCGACACTAAAGGTCATG
* ****
17840187 GTCTTTAGTGGCGTTTGTGGGAA
63 GTCTTTAGCGGCGTTTGCCACAA
* * * *
17840210 AAGCGCCGCTAAATGTCATGACTTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGGT-TTGTCTTATAGCGGCGTTT
17840246 ATTTCTAAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
85 5 0.05
86 78 0.77
87 14 0.14
88 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (85 bp):
AAGCGCCGCTAAAGGTTTGTCTTATAGCGGCGTTTGCGCAAAAAGCGACACTAAAGGTCATGGTC
TTTAGCGGCGTTTGCCACAA
Found at i:17840215 original size:43 final size:43
Alignment explanation
Indices: 17840018--17840222 Score: 211
Period size: 43 Copynumber: 4.8 Consensus size: 43
17840008 ATGATATGTT
* * * *
17840018 TTTAGCGGCGTTTTTG-CGAGAAGCGTCGCTAAAGGTT-T-GTT
1 TTTAGCGGCGTTTGTGAC-AAAAGCGCCGCTAAAGGTTGTGGTC
* * **
17840059 TTATAGCGGCGTTTGTG-CTAAAAAGCGACACTAAAGGTCATGGTC
1 TT-TAGCGGCGTTTGTGAC--AAAAGCGCCGCTAAAGGTTGTGGTC
* **
17840104 TTTAGCGGTGTTTGCCACAAAAGCGCCGCTAAAGGTTGTGGTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTTGTGGTC
*
17840147 TTTAGCGGCGTTTGCGACAAAAGCGCCGCTAAAGGTTGTGGTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTTGTGGTC
* **
17840190 TTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAA
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAA
17840223 TGTCATGACT
Statistics
Matches: 139, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.01
42 14 0.10
43 106 0.76
44 12 0.09
45 5 0.04
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTTGTGGTC
Found at i:17854480 original size:2 final size:2
Alignment explanation
Indices: 17854473--17854499 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17854463 ATAACACCTT
17854473 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 T
17854500 TTACAAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17857708 original size:13 final size:13
Alignment explanation
Indices: 17857690--17857722 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17857680 CTATAATATA
17857690 ATAATAGTTACAT
1 ATAATAGTTACAT
*
17857703 ATAATAGTTATAT
1 ATAATAGTTACAT
17857716 AT-ATAGT
1 ATAATAGT
17857723 AGGAGGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (13 bp):
ATAATAGTTACAT
Found at i:17858338 original size:202 final size:203
Alignment explanation
Indices: 17857992--17858396 Score: 803
Period size: 202 Copynumber: 2.0 Consensus size: 203
17857982 TACAAATTAT
17857992 ATTTGGGAATTGATTATTTTGGACTTGAGATTTGAGCTATAATTAGTTTATTTTGAGTTTAGATA
1 ATTTGGGAATTGATTATTTTGGACTTGAGATTTGAGCTATAATTAGTTTATTTTGAGTTTAGATA
17858057 ATAATGAGTACTATTATTTGGGTTTGGGCTTAGTATAATATATTTGAGTTTTAAAATAAATACTT
66 ATAATGAGTACTATTATTTGGGTTTGGGCTTAGTATAATATATTTGAGTTTTAAAATAAATACTT
17858122 TAGAATATAAGTATTAGATTTATAAATTTAATAAAAAAAACTAAAAAGTGATTCAATTGTCT-TA
131 TAGAATATAAGTATTAGATTTATAAATTTAATAAAAAAAACTAAAAAGTGATTCAATTGTCTATA
17858186 TAATATAA
196 TAATATAA
17858194 ATTTGGGAATTGATTATTTTGGACTTGAGATTTGAGCTATAATTAGTTTATTTTGAGTTTAGATA
1 ATTTGGGAATTGATTATTTTGGACTTGAGATTTGAGCTATAATTAGTTTATTTTGAGTTTAGATA
17858259 ATAATGAGTACTATTATTTGGGTTTGGGCTTAGTATAATATATTTGAGTTTTAAAATAAATACTT
66 ATAATGAGTACTATTATTTGGGTTTGGGCTTAGTATAATATATTTGAGTTTTAAAATAAATACTT
17858324 TAGAATATAAGTATTAGATTTATAAATTTAATAAAAAAAACTAAAAAGTGATTCAATTGTCTATA
131 TAGAATATAAGTATTAGATTTATAAATTTAATAAAAAAAACTAAAAAGTGATTCAATTGTCTATA
17858389 TAATATAA
196 TAATATAA
17858397 TAATGAATAA
Statistics
Matches: 202, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
202 192 0.95
203 10 0.05
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.42
Consensus pattern (203 bp):
ATTTGGGAATTGATTATTTTGGACTTGAGATTTGAGCTATAATTAGTTTATTTTGAGTTTAGATA
ATAATGAGTACTATTATTTGGGTTTGGGCTTAGTATAATATATTTGAGTTTTAAAATAAATACTT
TAGAATATAAGTATTAGATTTATAAATTTAATAAAAAAAACTAAAAAGTGATTCAATTGTCTATA
TAATATAA
Found at i:17865300 original size:69 final size:69
Alignment explanation
Indices: 17865194--17865692 Score: 378
Period size: 69 Copynumber: 7.2 Consensus size: 69
17865184 TTATCATTTG
* * *
17865194 TAAAATCAAGGTTCGCAGTCAAAGAGCCGTGACCTCCAACATAGTTAGCGAGAGCAAAACTTCCA
1 TAAAATCAAGGTTCGCAGGCAAAGAGCCGCGACCTCCAACACAGTTAGCGAGAGCAAAACTTCCA
17865259 ACTA
66 ACTA
* * ** * * *
17865263 TAAAATCAAAGTTCGCAGGCAAAGAGTCATGATCTCCAACACAGTTAGTGAGAGTAAAAC-TCTC
1 TAAAATCAAGGTTCGCAGGCAAAGAGCCGCGACCTCCAACACAGTTAGCGAGAGCAAAACTTC-C
* *
17865327 AGCTG
65 AACTA
** * * * ** * * * *
17865332 TAAAATTGATGTTCGCAGGCAAAGCGCCTCGGTCTCCAATACAGTTAGTGAGAAC-AAAGTTCCC
1 TAAAATCAAGGTTCGCAGGCAAAGAGCCGCGACCTCCAACACAGTTAGCGAGAGCAAAACTT-CC
*
17865396 AGCTA
65 AACTA
* * * * * * * *
17865401 TAAAATCGAGGTTCACAGGCGAAGAGCCGCGACCTCTAACATAGTTAGCAAGAGCAAAGCTCCCA
1 TAAAATCAAGGTTCGCAGGCAAAGAGCCGCGACCTCCAACACAGTTAGCGAGAGCAAAACTTCCA
*
17865466 ACTG
66 ACTA
* * *
17865470 TAAAATCAAGGTTCGCAAG-AGAAGAGCCGCGACCTCCAACACAGTTAGCGAGAGCAAAGCTTCT
1 TAAAATCAAGGTTCGCAGGCA-AAGAGCCGCGACCTCCAACACAGTTAGCGAGAGCAAAACTTCC
17865534 AACTA
65 AACTA
* * * * * *** * *
17865539 TAAAATCAAGATTCACAGGCGAAGAGTCGCAACCTCCAATGTAGTTAGCGAAAGCAAAGC-TCCT
1 TAAAATCAAGGTTCGCAGGCAAAGAGCCGCGACCTCCAACACAGTTAGCGAGAGCAAAACTTCC-
*
17865603 AACTG
65 AACTA
* * ** * * ** * *
17865608 TAAAATCAAGGTTTGTAGGTGAAGAGTCGCGACCTCTAACACAACTAGCAAGAGCAAAGC-TCCT
1 TAAAATCAAGGTTCGCAGGCAAAGAGCCGCGACCTCCAACACAGTTAGCGAGAGCAAAACTTCC-
* *
17865672 AGCTG
65 AACTA
*
17865677 TAAAACCAAGGTTCGC
1 TAAAATCAAGGTTCGC
17865693 TTATAAAAAA
Statistics
Matches: 341, Mismatches: 82, Indels: 14
0.78 0.19 0.03
Matches are distributed among these distances:
68 7 0.02
69 330 0.97
70 4 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (69 bp):
TAAAATCAAGGTTCGCAGGCAAAGAGCCGCGACCTCCAACACAGTTAGCGAGAGCAAAACTTCCA
ACTA
Found at i:17865578 original size:207 final size:207
Alignment explanation
Indices: 17865194--17865692 Score: 502
Period size: 207 Copynumber: 2.4 Consensus size: 207
17865184 TTATCATTTG
* * * * * * *
17865194 TAAAATCAAGGTTCGCAGTCAAAGAGCCGTGACCTCCAACATAGTTAGCGAGAGCAAAACTTCCA
1 TAAAATCAAGGTTCGCAGGCGAAGAGCCGCGACCTCTAACATAGTTAGCAAGAGCAAAGCTCCCA
* * * * * * * *
17865259 ACTATAAAATCAAAGTTCGCAGGCAAAGAGTCATGATCTCCAACACAGTTAGTGAGAGTAAAACT
66 ACTGTAAAATCAAGGTTCGCAAGCAAAGAGCCACGACCTCCAACACAGTTAGCGAGAGCAAAACT
* * * * * * * *** *
17865324 CTCAGCTGTAAAATTGATGTTCGCAGGCAAAGCGCCTCGGTCTCCAATACAGTTAGTGAGAA-CA
131 CTCAACTATAAAATTCAAGTTCACAGGCAAAGAGCCGCAACCTCCAATACAGTTAGCGA-AAGCA
* *
17865388 AAGTTCCCAGCTA
195 AAGCTCCCAACTA
* *
17865401 TAAAATCGAGGTTCACAGGCGAAGAGCCGCGACCTCTAACATAGTTAGCAAGAGCAAAGCTCCCA
1 TAAAATCAAGGTTCGCAGGCGAAGAGCCGCGACCTCTAACATAGTTAGCAAGAGCAAAGCTCCCA
* *
17865466 ACTGTAAAATCAAGGTTCGCAAG-AGAAGAGCCGCGACCTCCAACACAGTTAGCGAGAGCAAAGC
66 ACTGTAAAATCAAGGTTCGCAAGCA-AAGAGCCACGACCTCCAACACAGTTAGCGAGAGCAAAAC
* * **
17865530 T-TCTAACTATAAAA-TCAAGATTCACAGGCGAAGAGTCGCAACCTCCAATGTAGTTAGCGAAAG
130 TCTC-AACTATAAAATTCAAG-TTCACAGGCAAAGAGCCGCAACCTCCAATACAGTTAGCGAAAG
* *
17865593 CAAAGCTCCTAACTG
193 CAAAGCTCCCAACTA
* * * * * ** *
17865608 TAAAATCAAGGTTTGTAGGTGAAGAGTCGCGACCTCTAACACAACTAGCAAGAGCAAAGCTCCTA
1 TAAAATCAAGGTTCGCAGGCGAAGAGCCGCGACCTCTAACATAGTTAGCAAGAGCAAAGCTCCCA
* *
17865673 GCTGTAAAACCAAGGTTCGC
66 ACTGTAAAATCAAGGTTCGC
17865693 TTATAAAAAA
Statistics
Matches: 238, Mismatches: 50, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
206 8 0.03
207 230 0.97
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (207 bp):
TAAAATCAAGGTTCGCAGGCGAAGAGCCGCGACCTCTAACATAGTTAGCAAGAGCAAAGCTCCCA
ACTGTAAAATCAAGGTTCGCAAGCAAAGAGCCACGACCTCCAACACAGTTAGCGAGAGCAAAACT
CTCAACTATAAAATTCAAGTTCACAGGCAAAGAGCCGCAACCTCCAATACAGTTAGCGAAAGCAA
AGCTCCCAACTA
Found at i:17868782 original size:21 final size:21
Alignment explanation
Indices: 17868756--17868807 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
17868746 GATTTATTTT
17868756 TTTTTGAGTTAATAATAATTC
1 TTTTTGAGTTAATAATAATTC
*
17868777 TTTTTGAGTTAATAATAATTG
1 TTTTTGAGTTAATAATAATTC
17868798 TTTTTGAGTT
1 TTTTTGAGTT
17868808 TTTCTTCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (21 bp):
TTTTTGAGTTAATAATAATTC
Found at i:17882422 original size:26 final size:26
Alignment explanation
Indices: 17882393--17882445 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
17882383 GAAATCTTCT
17882393 GACCCATTCCAATCGCACAGAAGAAG
1 GACCCATTCCAATCGCACAGAAGAAG
*
17882419 GACCCATTCCAATCGCACAGAATAAG
1 GACCCATTCCAATCGCACAGAAGAAG
17882445 G
1 G
17882446 TAAATTAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.30, G:0.19, T:0.13
Consensus pattern (26 bp):
GACCCATTCCAATCGCACAGAAGAAG
Found at i:17891757 original size:10 final size:10
Alignment explanation
Indices: 17891742--17891804 Score: 58
Period size: 10 Copynumber: 6.2 Consensus size: 10
17891732 CAACCTAATT
17891742 TTTATTTTTA
1 TTTATTTTTA
*
17891752 TTTATTATTA
1 TTTATTTTTA
*
17891762 TTTATTATTA
1 TTTATTTTTA
17891772 TTT-TTCTTTA
1 TTTATT-TTTA
*
17891782 CTTTA-TTTTC
1 -TTTATTTTTA
17891792 TTTATTATTTA
1 TTTATT-TTTA
17891803 TT
1 TT
17891805 ACTTATTTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
9 6 0.14
10 29 0.66
11 9 0.20
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:17895571 original size:9 final size:9
Alignment explanation
Indices: 17895557--17895624 Score: 111
Period size: 9 Copynumber: 7.6 Consensus size: 9
17895547 TTTGGTTAAA
17895557 AATTAACTG
1 AATTAACTG
17895566 AATTAACTG
1 AATTAACTG
17895575 AATTAACTG
1 AATTAACTG
*
17895584 AATTAACCG
1 AATTAACTG
17895593 AATTAACTG
1 AATTAACTG
17895602 AATT-ACTCG
1 AATTAACT-G
17895611 AATTAACTG
1 AATTAACTG
17895620 AATTA
1 AATTA
17895625 CCCGAATTGA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
8 3 0.05
9 49 0.89
10 3 0.05
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.32
Consensus pattern (9 bp):
AATTAACTG
Found at i:17895630 original size:18 final size:18
Alignment explanation
Indices: 17895557--17895632 Score: 118
Period size: 18 Copynumber: 4.2 Consensus size: 18
17895547 TTTGGTTAAA
*
17895557 AATTAACTGAATTAACTG
1 AATTAACTGAATTAACCG
17895575 AATTAACTGAATTAACCG
1 AATTAACTGAATTAACCG
17895593 AATTAACTGAATT-ACTCG
1 AATTAACTGAATTAAC-CG
*
17895611 AATTAACTGAATTACCCG
1 AATTAACTGAATTAACCG
17895629 AATT
1 AATT
17895633 GAATCACTAC
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
17 2 0.04
18 51 0.94
19 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (18 bp):
AATTAACTGAATTAACCG
Found at i:17895631 original size:9 final size:9
Alignment explanation
Indices: 17895557--17895632 Score: 82
Period size: 9 Copynumber: 8.4 Consensus size: 9
17895547 TTTGGTTAAA
*
17895557 AATTAACTG
1 AATTAACCG
*
17895566 AATTAACTG
1 AATTAACCG
*
17895575 AATTAACTG
1 AATTAACCG
17895584 AATTAACCG
1 AATTAACCG
*
17895593 AATTAACTG
1 AATTAACCG
17895602 AATT-ACTCG
1 AATTAAC-CG
*
17895611 AATTAACTG
1 AATTAACCG
*
17895620 AATTACCCG
1 AATTAACCG
17895629 AATT
1 AATT
17895633 GAATCACTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
8 2 0.03
9 55 0.93
10 2 0.03
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTAACCG
Found at i:17895662 original size:17 final size:17
Alignment explanation
Indices: 17895640--17895698 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
17895630 ATTGAATCAC
17895640 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** *
17895657 TACATAAGTATTTGAATCAT
1 TACAT-A--ATTAAAAACAT
*
17895677 TATATAATTAAAAACAT
1 TACATAATTAAAAACAT
17895694 TACAT
1 TACAT
17895699 CATTCTTGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
17 17 0.55
18 1 0.03
19 1 0.03
20 12 0.39
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:17895880 original size:39 final size:39
Alignment explanation
Indices: 17895835--17895913 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
17895825 TACTTAGAGT
*
17895835 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAATTTTAGTTTTATTGGGTTGGGTAATTGGG
17895874 TAGACTTTAATTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAATTTTAGTTTTATTGGGTTGGGTAATTGGG
17895913 T
1 T
17895914 TGGGTTGGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.19, C:0.03, G:0.29, T:0.49
Consensus pattern (39 bp):
TAGACTTTAATTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:17895912 original size:13 final size:13
Alignment explanation
Indices: 17895894--17895918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17895884 TTTTAGTTTT
17895894 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
17895907 ATTGGGTTGGGT
1 ATTGGGTTGGGT
17895919 TGGATAATTT
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:17901540 original size:74 final size:74
Alignment explanation
Indices: 17901454--17901599 Score: 265
Period size: 74 Copynumber: 2.0 Consensus size: 74
17901444 TATACGAATT
* * *
17901454 AATTTAACCCAATTCAATCTAATTCACATAGAATTTAGTCCATCATGTATTTTTGCAAAATTACC
1 AATTTAACCCAATTCAATCTAATTCACATAAAATATAGTCCAACATGTATTTTTGCAAAATTACC
17901519 ATTTTAATG
66 ATTTTAATG
17901528 AATTTAACCCAATTCAATCTAATTCACATAAAATATAGTCCAACATGTATTTTTGCAAAATTACC
1 AATTTAACCCAATTCAATCTAATTCACATAAAATATAGTCCAACATGTATTTTTGCAAAATTACC
17901593 ATTTTAA
66 ATTTTAA
17901600 CCCTATACTT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (74 bp):
AATTTAACCCAATTCAATCTAATTCACATAAAATATAGTCCAACATGTATTTTTGCAAAATTACC
ATTTTAATG
Found at i:17902563 original size:52 final size:52
Alignment explanation
Indices: 17902481--17902585 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
17902471 AAGAGGTTCG
*
17902481 GATATTGATTTCTCATAGCTTCCTCGGGTTCCCAGGTAGCTTCTTTTATTCT
1 GATATTGATTTCTCATAGCTTCCTCGGGTTCCCAGGTAGCTTATTTTATTCT
* *
17902533 GATATTGGTTTCTCATAGCTTCCTCTGGTTCCCAGGTAGCTTATTTTATTCT
1 GATATTGATTTCTCATAGCTTCCTCGGGTTCCCAGGTAGCTTATTTTATTCT
17902585 G
1 G
17902586 TGTCACAGTC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (52 bp):
GATATTGATTTCTCATAGCTTCCTCGGGTTCCCAGGTAGCTTATTTTATTCT
Found at i:17908768 original size:26 final size:26
Alignment explanation
Indices: 17908715--17908857 Score: 152
Period size: 26 Copynumber: 5.6 Consensus size: 26
17908705 CATGTAACAA
17908715 GAAGCTCCA-GAA-AGCCATT-AACGG
1 GAAGCT-CATGAAGAGCCATTAAACGG
*
17908739 GAAGCT-ATGGAGAGCCAATTAAACGG
1 GAAGCTCATGAAGAGCC-ATTAAACGG
* *
17908765 GAAGCTCATGAAGAGCCCTTAAAAGG
1 GAAGCTCATGAAGAGCCATTAAACGG
* *
17908791 GAAGCTCACGAAGAGCCCTTAAACGG
1 GAAGCTCATGAAGAGCCATTAAACGG
* * *
17908817 GAAGCTCACGAAGAGCCATTTATCGG
1 GAAGCTCATGAAGAGCCATTAAACGG
*
17908843 GACGCTCAT-AAGAGC
1 GAAGCTCATGAAGAGC
17908858 TACGGTGTGT
Statistics
Matches: 103, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 10 0.10
25 9 0.09
26 72 0.70
27 9 0.09
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (26 bp):
GAAGCTCATGAAGAGCCATTAAACGG
Found at i:17909314 original size:21 final size:21
Alignment explanation
Indices: 17909290--17909332 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
17909280 TAAATTTAAC
*
17909290 TCAATTTAATACAATTCGCAT
1 TCAATTCAATACAATTCGCAT
* *
17909311 TCAATTCCATCCAATTCGCAT
1 TCAATTCAATACAATTCGCAT
17909332 T
1 T
17909333 TTAGGAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.37
Consensus pattern (21 bp):
TCAATTCAATACAATTCGCAT
Found at i:17909429 original size:81 final size:82
Alignment explanation
Indices: 17909325--17909489 Score: 323
Period size: 81 Copynumber: 2.0 Consensus size: 82
17909315 TTCCATCCAA
17909325 TTCGCATTTTAGGAAAAATTACCATTTTGCCCCTATACTTTTGATTAATTATGATTTTATCTCTA
1 TTCGCATTTTAGGAAAAATTACCATTTTGCCCCTATACTTTTGATTAATTATGATTTTATCTCTA
17909390 GGCTCGAAAAATGAAAT
66 GGCTCGAAAAATGAAAT
17909407 TTCGCATTTT-GGAAAAATTACCATTTTGCCCCTATACTTTTGATTAATTATGATTTTATCTCTA
1 TTCGCATTTTAGGAAAAATTACCATTTTGCCCCTATACTTTTGATTAATTATGATTTTATCTCTA
17909471 GGCTCGAAAAATGAAAT
66 GGCTCGAAAAATGAAAT
17909488 TT
1 TT
17909490 ATACAATTTA
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 73 0.88
82 10 0.12
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (82 bp):
TTCGCATTTTAGGAAAAATTACCATTTTGCCCCTATACTTTTGATTAATTATGATTTTATCTCTA
GGCTCGAAAAATGAAAT
Found at i:17909596 original size:16 final size:16
Alignment explanation
Indices: 17909575--17909612 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
17909565 CAAGGTTCGT
17909575 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
17909591 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
17909607 CGTAAT
1 TGTAAT
17909613 AGTAATTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.34, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:17911604 original size:49 final size:49
Alignment explanation
Indices: 17911532--17911635 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
17911522 GAAAAAAAAC
* ** *
17911532 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTCTATA
1 AAATTAAAATTAAGTTAAATATCATGAATCAAAAACTCAACACTCTATA
*
17911581 AAATTAAAATTAAGTTAAATATCATGAATCAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTAAATATCATGAATCAAAAACTCAACACTCTATA
17911630 AAATTA
1 AAATTA
17911636 TAACACATGA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.52, C:0.11, G:0.08, T:0.30
Consensus pattern (49 bp):
AAATTAAAATTAAGTTAAATATCATGAATCAAAAACTCAACACTCTATA
Found at i:17913790 original size:27 final size:28
Alignment explanation
Indices: 17913751--17913821 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 28
17913741 TCAATAATAA
*
17913751 ATGTAATTAAATTATAAGTATTT-TTAAAT
1 ATGTAA-T-AATTATAAATATTTGTTAAAT
17913780 ATGTAATAATTATCACAATATTTGTTAAAT
1 ATGTAATAATTAT-A-AATATTTGTTAAAT
17913810 -T-T-ATAATTATAA
1 ATGTAATAATTATAA
17913822 CAAATTTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 1 0.03
26 1 0.03
27 14 0.37
28 3 0.08
29 13 0.34
30 6 0.16
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (28 bp):
ATGTAATAATTATAAATATTTGTTAAAT
Found at i:17914497 original size:26 final size:26
Alignment explanation
Indices: 17914468--17914517 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
17914458 TAAACTAAGG
*
17914468 TAAAATC-GAAGAAATCATTTTAAAAT
1 TAAAATCAAAAGAAAT-ATTTTAAAAT
*
17914494 TAAAATCAAAATAAATATTTTAAA
1 TAAAATCAAAAGAAATATTTTAAA
17914518 TAAAACCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.32
Consensus pattern (26 bp):
TAAAATCAAAAGAAATATTTTAAAAT
Found at i:17914527 original size:24 final size:27
Alignment explanation
Indices: 17914479--17914527 Score: 68
Period size: 24 Copynumber: 1.9 Consensus size: 27
17914469 AAAATCGAAG
*
17914479 AAATCATTTTAAAATTAAAATCAAAAT
1 AAATCATTTTAAAATTAAAACCAAAAT
17914506 AAAT-ATTTT-AAA-TAAAACCAAA
1 AAATCATTTTAAAATTAAAACCAAA
17914528 TTCAAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 3 0.14
26 5 0.24
27 4 0.19
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (27 bp):
AAATCATTTTAAAATTAAAACCAAAAT
Found at i:17922309 original size:207 final size:206
Alignment explanation
Indices: 17921930--17922510 Score: 635
Period size: 207 Copynumber: 2.8 Consensus size: 206
17921920 CCAATACTTC
* * *
17921930 ACACCATTT-CCACAAATCATTATACGAACTGTCCCAACTGTGATGCAACTTATCCATAGCCTTT
1 ACACC-TTTGCCACAAATCATTATACGACCTATCCCAACCGTGATGCAACTTATCCATAGCCTTT
** * * * ** *
17921994 TATTTTGTGACCTGTGTCTTGTAGTATGATGGCGTGTAATTGTACTGGCTATGAATATTGGCAAT
65 TATTTTGTGACCCATGCCTTGTAGTACGATGGCGTGTAATCGTACTGGCTACAAATGTTGGCAAT
* ** * * * * *
17922059 CAACACCGATAGGGGAATCCTGGGATTCACTTTTACTAGATCGATTACAAAA-CTTGATACGTAC
130 CAACACAGA-ACAGGAATCTTGGGACTCGCTTTCACCAGATCGATTACAAAATC-TGATACGTAC
* *
17922123 CAATCTAGTACCCG
193 CAATCCAGTACCCA
* * * *
17922137 ACACCTTTGCCACAAATCATTCTACGACCTATCTCAGCCATGATGCAACTTATCCATAGCCTTTT
1 ACACCTTTGCCACAAATCATTATACGACCTATCCCAACCGTGATGCAACTTATCCATAGCCTTTT
* ** * *
17922202 ATTTTATGACCCATGCCTTGTAGTACGATGATGTGTAATCATACTGACTACAAATGTTGGCAATC
66 ATTTTGTGACCCATGCCTTGTAGTACGATGGCGTGTAATCGTACTGGCTACAAATGTTGGCAATC
* * *** * * *
17922267 AACATCAGAACAAGAATCTTAGGACTCGCTTTCACCAGATCGATTATGGAATCTGGTACGTATCG
131 AACA-CAGAACAGGAATCTTGGGACTCGCTTTCACCAGATCGATTACAAAATCTGATACGTACCA
*
17922332 ATCCAGTACCTA
195 ATCCAGTACCCA
* * * * * *
17922344 AAACCATTGCCACAAGTCATTATACAACCTATCCCAATCGTGATGCAACTTATCCATAACCTTTT
1 ACACCTTTGCCACAAATCATTATACGACCTATCCCAACCGTGATGCAACTTATCCATAGCCTTTT
* * **
17922409 ATTTTGTGACCCATGCCTTGTAGTACGATGGCGAGTAATCGTACTGGTTACTGATGTTGGCAATC
66 ATTTTGTGACCCATGCCTTGTAGTACGATGGCGTGTAATCGTACTGGCTACAAATGTTGGCAATC
* * *
17922474 AACACTAGGATAGGAATCTTGGGACTTGCTTTCACCA
131 AACAC-AGAACAGGAATCTTGGGACTCGCTTTCACCA
17922511 TAGGAAAAAT
Statistics
Matches: 307, Mismatches: 63, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
206 4 0.01
207 299 0.97
208 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (206 bp):
ACACCTTTGCCACAAATCATTATACGACCTATCCCAACCGTGATGCAACTTATCCATAGCCTTTT
ATTTTGTGACCCATGCCTTGTAGTACGATGGCGTGTAATCGTACTGGCTACAAATGTTGGCAATC
AACACAGAACAGGAATCTTGGGACTCGCTTTCACCAGATCGATTACAAAATCTGATACGTACCAA
TCCAGTACCCA
Found at i:17937328 original size:36 final size:36
Alignment explanation
Indices: 17937279--17937352 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
17937269 AGTAAACTCT
* *
17937279 ATTCAGTTCAGCAG-TCTTTCGGATCTATTTTGACTG
1 ATTCAGTTCAGCAGCT-TTTCAGATCTATTATGACTG
* *
17937315 ATTCAGTTTAGCAGCTTTTTAGATCTATTATGACTG
1 ATTCAGTTCAGCAGCTTTTCAGATCTATTATGACTG
17937351 AT
1 AT
17937353 GTGCTCCTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (36 bp):
ATTCAGTTCAGCAGCTTTTCAGATCTATTATGACTG
Found at i:17939176 original size:23 final size:23
Alignment explanation
Indices: 17939150--17939194 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
17939140 CTCGGGTAAG
17939150 TTGTGTTAGGGTTACCCTTCAGT
1 TTGTGTTAGGGTTACCCTTCAGT
17939173 TTGTGTTAGGGTTACCCTTCAG
1 TTGTGTTAGGGTTACCCTTCAG
17939195 CCCTTCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.13, C:0.18, G:0.27, T:0.42
Consensus pattern (23 bp):
TTGTGTTAGGGTTACCCTTCAGT
Found at i:17943571 original size:10 final size:10
Alignment explanation
Indices: 17943556--17943614 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
17943546 GGTTCAACTT
17943556 TGTTGAGATA
1 TGTTGAGATA
17943566 TGTTGAGAT-
1 TGTTGAGATA
* *
17943575 TCTAGAGGATA
1 TGTTGA-GATA
17943586 TGTTGAGAT-
1 TGTTGAGATA
* *
17943595 TCTGGAAGATA
1 TGTTG-AGATA
17943606 TGTTGAGAT
1 TGTTGAGAT
17943615 GTTGTATACT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
9 7 0.19
10 23 0.62
11 7 0.19
ACGTcount: A:0.29, C:0.03, G:0.31, T:0.37
Consensus pattern (10 bp):
TGTTGAGATA
Found at i:17943587 original size:20 final size:20
Alignment explanation
Indices: 17943561--17943614 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
17943551 AACTTTGTTG
17943561 AGATATGTTGAGATTCTAGA
1 AGATATGTTGAGATTCTAGA
* *
17943581 GGATATGTTGAGATTCTGGA
1 AGATATGTTGAGATTCTAGA
17943601 AGATATGTTGAGAT
1 AGATATGTTGAGAT
17943615 GTTGTATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (20 bp):
AGATATGTTGAGATTCTAGA
Done.