Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 53 of 136
Found at i:17438160 original size:40 final size:40
Alignment explanation
Indices: 17438105--17438219 Score: 146
Period size: 40 Copynumber: 2.9 Consensus size: 40
17438095 GTTTGGATAA
* *
17438105 AAAATGCCGCTAAAGATCCAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTTTGG
* *
17438145 AAAACGCCGCTAAAGATCGAG-ATTTAGCGGCGCTTTATGG
1 AAAACGCCGCTAAAGATCAAGCA-TTAGCGGCGCTTTTTGG
* *
17438185 AAAACGCCACTAAAAAT-AAGCATTAGCGGCG-TTTT
1 AAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTT
17438220 CAATAAAGCG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
38 3 0.05
39 12 0.18
40 51 0.77
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTTTGG
Found at i:17438341 original size:41 final size:41
Alignment explanation
Indices: 17438278--17438515 Score: 309
Period size: 41 Copynumber: 5.8 Consensus size: 41
17438268 CTTTCGGGGA
*
17438278 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCCCATGG-C
1 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCCA-GGCC
*
17438319 TTTAGCGGGGTTTTTG-GAAAAGCGCCGCTAATGCCCCAGGCC
1 TTTAGCGGCGTTTTTGTG-AAAGCGCCGCTAATG-CCCAGGCC
* * *
17438361 TTTAGCGGTGTTTTTGTGGAAGTGCCGCTAATGCCCAGGCC
1 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCCAGGCC
* *
17438402 TTTAACGGCGTTTTTGTGAAAGCGCCGCTAATGTCCAGGCC
1 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCCAGGCC
* * *
17438443 TTTAGCGCCGTTTTTGTGAAAGCGCCGCTAATGCCAAGGGC
1 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCCAGGCC
** * *
17438484 TTTAGTAGAGTTTTTGGGAAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAAT
17438516 AATGCTCAGG
Statistics
Matches: 174, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.01
41 139 0.80
42 33 0.19
43 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCCAGGCC
Found at i:17438785 original size:37 final size:35
Alignment explanation
Indices: 17438742--17438854 Score: 94
Period size: 33 Copynumber: 3.2 Consensus size: 35
17438732 GGTTTAAATA
17438742 GGTTTAGGTGTTACCATTTTAAGGTTTATGGATTTTG
1 GGTTTAGGTGTT-CCATTTTAAGGTTTATGGA-TTTG
* * * *
17438779 GGTTTA-G-G-TCCTTGGTTTAGGGTATATGCA--T-
1 GGTTTAGGTGTTCCAT--TTTAAGGTTTATGGATTTG
17438810 GGTTTAGGTGTTGCCATTTTAAGGTTTATGGATTATG
1 GGTTTAGGTGTT-CCATTTTAAGGTTTATGGATT-TG
17438847 GGTTTAGG
1 GGTTTAGG
17438855 GATTATGGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
31 6 0.10
32 2 0.03
33 16 0.28
34 2 0.03
35 16 0.28
36 2 0.03
37 14 0.24
ACGTcount: A:0.18, C:0.06, G:0.31, T:0.45
Consensus pattern (35 bp):
GGTTTAGGTGTTCCATTTTAAGGTTTATGGATTTG
Found at i:17438845 original size:7 final size:7
Alignment explanation
Indices: 17438827--17438888 Score: 70
Period size: 7 Copynumber: 8.7 Consensus size: 7
17438817 GTGTTGCCAT
*
17438827 TTTAAGG
1 TTTATGG
17438834 TTTATGG
1 TTTATGG
*
17438841 ATTATGGG
1 TTTAT-GG
*
17438849 TTTAGGG
1 TTTATGG
*
17438856 ATTATGG
1 TTTATGG
*
17438863 GTTATGG
1 TTTATGG
17438870 TTTATGG
1 TTTATGG
17438877 TTTATGG
1 TTTATGG
17438884 TTTAT
1 TTTAT
17438889 TTTTCGTGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
7 41 0.89
8 5 0.11
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (7 bp):
TTTATGG
Found at i:17442479 original size:43 final size:43
Alignment explanation
Indices: 17442431--17442525 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
17442421 TTCAGGATAC
* * * *
17442431 TTTATTACCAAGATTTCCTTGATTAAGTAAATGTATTATATCT
1 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
*
17442474 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATAT
1 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
17442517 TTTATTACC
1 TTTATTACC
17442526 TTGCATATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (43 bp):
TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
Found at i:17442905 original size:43 final size:43
Alignment explanation
Indices: 17442805--17443104 Score: 428
Period size: 43 Copynumber: 7.1 Consensus size: 43
17442795 TGTTTTTAGA
* *
17442805 GGCGTTTGTGTGAAAAGCGCCGCTAAAGGT-CTGTTCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
* *
17442847 GGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCCTGATCTATAAC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
* * *
17442890 AGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGT
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
* * * * *
17442933 GGCGTTTGTGGGGAAAGTGCCGCTAAAGATCTTGAGCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
*
17442976 GGCGTTTGT-GGAAAAGCGCCGCTAAAGGT-CTGTTCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
*
17443017 GGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
* *
17443060 GGCATTTGTGGG-GAAGCGCCGCTAAAGGTCCTGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
17443102 GGC
1 GGC
17443105 ATTAGCAACA
Statistics
Matches: 231, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
41 18 0.08
42 98 0.42
43 115 0.50
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
Found at i:17449470 original size:143 final size:144
Alignment explanation
Indices: 17448990--17450211 Score: 1391
Period size: 143 Copynumber: 8.7 Consensus size: 144
17448980 TCATTATAGG
* ** * *
17448990 GAATCTTATTTCGCTGGTGTTGT-GGTGGAACAGATTCAAGCTACAAATTATGGCAGATCTTATC
1 GAATCTTATTTCCCTGGCATTGTCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* * * *
17449054 TTACTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTACAGCAGAA-
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC-GAAG
*
17449118 CAGACAGAAGACAAC
130 CAGACTGAAGACAAC
* * *
17449133 GAATCTTATTTACCTGACATTGT-AGTGGAGCAGATTAAAGCTACAAATTATGGCAGATCTTATC
1 GAATCTTATTTCCCTGGCATTGTCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
** * * * *
17449197 TTTTTGAAGTCGCAGTGGAGCATATTGAAGCCACCAGCCTTAT-TCCCTGAAGTTGCAGTGGAGC
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAGC
* *
17449261 AGACTGAAGATAGC
131 AGACTGAAGACAAC
** **
17449275 GAATCTTATTTCCCTGGTGTTGT-AGTGGAACAGATTAAAGCTACAAATTATGGTGGATCTTATC
1 GAATCTTATTTCCCTGGCATTGTCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* ** *
17449339 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCAAAAGTTGTAGCGAAGC
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAGC
* * *
17449404 AAACTGAAGATAGC
131 AGACTGAAGACAAC
* * * * *
17449418 AAATCTTTTTTCCCTGGCATTGTC-GTGGAACAGATTAAAGCTACAAACTATGGCGGATCTTACC
1 GAATCTTATTTCCCTGGCATTGTCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* * * * * *
17449482 TTCCTGAAGTTGTAGTGGATCAAATTGAAGCCACCAGCCTTATCTCCTTAAAGTTGCAG-TAGAG
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGA-AG
*
17449546 CAGACTGAAGACAGC
130 CAGACTGAAGACAAC
* * * *
17449561 AAATCTTATTTCCCTGGCGTTG-CAGTGGAACAGGTTAAAGCTACAAGTTATGGCAGATCTTATC
1 GAATCTTATTTCCCTGGCATTGTCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* * *
17449625 TTCCTGAAGTTGCAGTGAAGCAGATTAAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGAAGC
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAGC
* *
17449690 AGACTGTAGACAAT
131 AGACTGAAGACAAC
*
17449704 GAATCTTATTTCCCTGGCATTG-CAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATC
1 GAATCTTATTTCCCTGGCATTGTCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* ** * * * * *
17449768 TTCTTGAAGTTATAGTGGAGCAGATTGAAGCCACCAGCTTTACCTCCCTGAAGTTACAGCGGAGT
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAGC
17449833 AGACTGAAGACAAC
131 AGACTGAAGACAAC
* * ** * * *
17449847 GAATCTTATTTCCTTGG-AATCACAATGGAACATATTAAAACTACAAATTATGGCAGATCTTATC
1 GAATCTTATTTCCCTGGCATTGTCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* * * * *
17449911 TTCTTGAAGTTACAGTGGATCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAGT
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAGC
17449976 AGACTGAAGACAAC
131 AGACTGAAGACAAC
* * *
17449990 GAATCCTATTTCCCTGGCATTG-CAGTGGAACAAATTAAACCTACAAATTATGGCAGATCTTATC
1 GAATCTTATTTCCCTGGCATTGTCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
* * ** ** * * * *
17450054 TTCCTGAAGTTACAGCGGAATAGATTGAAGCCACCAATCGTATCTCCTTGAAGTTGCAGAGGAGC
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAGC
* * * **
17450119 AGACTAAAAATAGT
131 AGACTGAAGACAAC
*
17450133 GAGTCTTA-TT---T--C--T-T---TGG--C--ATTAAAGCTACAAATTATGGCAGATCTTATC
1 GAATCTTATTTCCCTGGCATTGTCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
*
17450182 TTCCTGAAGTTACAGTGGAGCAGATTGAAG
66 TTCCTGAAGTTGCAGTGGAGCAGATTGAAG
17450212 ATACTAATCT
Statistics
Matches: 939, Mismatches: 131, Indels: 33
0.85 0.12 0.03
Matches are distributed among these distances:
128 57 0.06
130 1 0.00
132 3 0.00
135 1 0.00
137 1 0.00
139 1 0.00
141 2 0.00
142 126 0.13
143 744 0.79
144 3 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (144 bp):
GAATCTTATTTCCCTGGCATTGTCAGTGGAACAGATTAAAGCTACAAATTATGGCAGATCTTATC
TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGAAGC
AGACTGAAGACAAC
Found at i:17451727 original size:19 final size:19
Alignment explanation
Indices: 17451700--17451741 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17451690 CTTTTTACAA
*
17451700 ATTTTTTTATTATCTATTT
1 ATTTGTTTATTATCTATTT
* *
17451719 ATTTGTTTATTATTTCTTT
1 ATTTGTTTATTATCTATTT
17451738 ATTT
1 ATTT
17451742 TTATATATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (19 bp):
ATTTGTTTATTATCTATTT
Found at i:17451799 original size:18 final size:18
Alignment explanation
Indices: 17451764--17451801 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
17451754 AAAAATTAGA
*
17451764 TTGTATATACTTTATTAT
1 TTGTACATACTTTATTAT
17451782 TTGTACATA-TTTATTTAT
1 TTGTACATACTTTA-TTAT
17451800 TT
1 TT
17451802 ATTGTTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (18 bp):
TTGTACATACTTTATTAT
Found at i:17452010 original size:3 final size:3
Alignment explanation
Indices: 17451940--17451995 Score: 51
Period size: 3 Copynumber: 18.0 Consensus size: 3
17451930 TTAGGTCACC
* * *
17451940 TTA TCTA TT- TTA TTA TTA TTA TGA TGTGA TTA TTA ATA ATA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA TTA TTA TTA
17451987 TTA TTA TTA
1 TTA TTA TTA
17451996 CATTACTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 2 0.04
3 37 0.82
4 4 0.09
5 2 0.04
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:17453561 original size:2 final size:2
Alignment explanation
Indices: 17453556--17453582 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17453546 AAATATATGA
17453556 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
17453583 GTAGATGAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17454503 original size:50 final size:50
Alignment explanation
Indices: 17454428--17454619 Score: 210
Period size: 50 Copynumber: 3.9 Consensus size: 50
17454418 CATTTGGGTA
* * *
17454428 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 GAGAAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACAT
** ** * *
17454478 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 GAGAAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACAT
* * * * *
17454528 GAGAACTCCCATGTAAGACCATATCTGAGATATGGAATTGGCA--GTACAT
1 GAGAAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ACAT
*
17454577 GA-AACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GAGAA-ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17454620 TGTTATTATC
Statistics
Matches: 118, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
48 3 0.03
49 37 0.31
50 78 0.66
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
GAGAAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACAT
Found at i:17459724 original size:50 final size:50
Alignment explanation
Indices: 17459618--17459851 Score: 175
Period size: 50 Copynumber: 4.6 Consensus size: 50
17459608 GATAAAGTGA
* * * *
17459618 TCCCATGTAACACCATGTCTGGAACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-CATGAGAGG
* * *
17459674 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAGG
** * * * * **
17459724 TCCCCCGTAAAACCATGTCTGGGACATCGCATAGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAGG
* * * * * * **
17459774 TCCTATGTAAGACCATATTTGGGATATGACATTGGCA--GTACATGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ACATGAGAGG
*
17459823 TCCCATGTAAGACCGTGTCTGGGACATGG
1 TCCCATGTAAGACCATGTCTGGGACATGG
17459852 TCTTGACATG
Statistics
Matches: 141, Mismatches: 36, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
48 1 0.01
49 29 0.21
50 75 0.53
51 2 0.01
55 1 0.01
56 33 0.23
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAGG
Found at i:17464268 original size:40 final size:40
Alignment explanation
Indices: 17464224--17464328 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
17464214 CTTCGTGCCA
17464224 GTGTAATTATTGGGCTTAATGCCTAGCACGCTTCAGGCTG
1 GTGTAATTATTGGGCTTAATGCCTAGCACGCTTCAGGCTG
* * * * *
17464264 GTGTAATTATTAGGCTTAATGCCTAGCAGGCTTTATGTTG
1 GTGTAATTATTGGGCTTAATGCCTAGCACGCTTCAGGCTG
* *
17464304 GTGTAATTATCGAGCTTAATGCCTA
1 GTGTAATTATTGGGCTTAATGCCTA
17464329 ATAGGCTTTG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (40 bp):
GTGTAATTATTGGGCTTAATGCCTAGCACGCTTCAGGCTG
Found at i:17464335 original size:40 final size:39
Alignment explanation
Indices: 17464224--17464349 Score: 144
Period size: 40 Copynumber: 3.2 Consensus size: 39
17464214 CTTCGTGCCA
* * * *
17464224 GTGTAATTATTGGGCTTAATGCCTAGCACGCTTCAGGCTG
1 GTGTAATTA-TGAGCTTAATGCCTAGCAGGCTTTAGGTTG
* *
17464264 GTGTAATTATTAGGCTTAATGCCTAGCAGGCTTTATGTTG
1 GTGTAATTATGA-GCTTAATGCCTAGCAGGCTTTAGGTTG
** *
17464304 GTGTAATTATCGAGCTTAATGCCTAATAGGCTTTGGGTTG
1 GTGTAATTAT-GAGCTTAATGCCTAGCAGGCTTTAGGTTG
17464344 GTGTAA
1 GTGTAA
17464350 CAATTGTACT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 71 0.97
41 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (39 bp):
GTGTAATTATGAGCTTAATGCCTAGCAGGCTTTAGGTTG
Found at i:17467614 original size:12 final size:13
Alignment explanation
Indices: 17467590--17467618 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17467580 AGGCTATAGC
17467590 TATTGCATTTATT
1 TATTGCATTTATT
17467603 TATTGC-TTTATT
1 TATTGCATTTATT
17467615 TATT
1 TATT
17467619 AATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:17472023 original size:12 final size:13
Alignment explanation
Indices: 17471999--17472027 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17471989 AGGCTATAAC
17471999 TATTGCATTTATT
1 TATTGCATTTATT
17472012 TATTGC-TTTATT
1 TATTGCATTTATT
17472024 TATT
1 TATT
17472028 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:17483690 original size:14 final size:14
Alignment explanation
Indices: 17483668--17483703 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
17483658 CCACTGGATA
*
17483668 TTGAGTTTACTTAT
1 TTGAATTTACTTAT
17483682 TTGAATTTACTTAT
1 TTGAATTTACTTAT
*
17483696 TTGTATTT
1 TTGAATTT
17483704 TTGTTCCGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.61
Consensus pattern (14 bp):
TTGAATTTACTTAT
Found at i:17503116 original size:43 final size:43
Alignment explanation
Indices: 17503066--17503154 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
17503056 TTTGTGTATG
17503066 AATATAAAAATAAATAATATAATGTGGACACTTATAACATGCA
1 AATATAAAAATAAATAATATAATGTGGACACTTATAACATGCA
*
17503109 AATATAAAAATAAATAATATAATGTGGACTCTTATAACATGCA
1 AATATAAAAATAAATAATATAATGTGGACACTTATAACATGCA
17503152 AAT
1 AAT
17503155 TTTATCAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (43 bp):
AATATAAAAATAAATAATATAATGTGGACACTTATAACATGCA
Found at i:17503858 original size:48 final size:48
Alignment explanation
Indices: 17503787--17503881 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
17503777 TAATAAAGTT
*
17503787 GTAAGAGAGATCATCTCCACAAGGATCAGAATGGATTAAAATGGTTAA
1 GTAAGAGAGATCATCTCCACAAGGATCAAAATGGATTAAAATGGTTAA
* *
17503835 GTAAGTGAGATCGTCTCCACAAGGATCAAAATGGATTAAAATGGTTA
1 GTAAGAGAGATCATCTCCACAAGGATCAAAATGGATTAAAATGGTTA
17503882 TCACTATGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (48 bp):
GTAAGAGAGATCATCTCCACAAGGATCAAAATGGATTAAAATGGTTAA
Found at i:17509209 original size:20 final size:20
Alignment explanation
Indices: 17509144--17509233 Score: 58
Period size: 20 Copynumber: 4.5 Consensus size: 20
17509134 TGCAGTTTTC
* *
17509144 TGCCCCTATGTGCACTTCGA
1 TGCCCCTGTTTGCACTTCGA
* * * *
17509164 TGTCTCTATTTGCACTAT-GG
1 TGCCCCTGTTTGCACT-TCGA
* *
17509184 TTCCCCTGTTTGCACATTTG-
1 TGCCCCTGTTTGCAC-TTCGA
* *
17509204 TGCCCCTATATGCACTTCGA
1 TGCCCCTGTTTGCACTTCGA
17509224 TGCCCCTGTT
1 TGCCCCTGTT
17509234 ATGGATCTAT
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
19 3 0.06
20 46 0.88
21 3 0.06
ACGTcount: A:0.13, C:0.31, G:0.18, T:0.38
Consensus pattern (20 bp):
TGCCCCTGTTTGCACTTCGA
Found at i:17509380 original size:7 final size:7
Alignment explanation
Indices: 17509368--17509401 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
17509358 AAGATATTAG
17509368 TAAATGT
1 TAAATGT
17509375 TAAATGT
1 TAAATGT
17509382 TAAATGT
1 TAAATGT
17509389 TAAATGT
1 TAAATGT
*
17509396 TCAATG
1 TAAATG
17509402 AATTACTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (7 bp):
TAAATGT
Found at i:17521134 original size:40 final size:41
Alignment explanation
Indices: 17521090--17521177 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 41
17521080 TGGTTTATCC
*
17521090 ACATTACTT-GTAGCTTGTCTACAATACTAGTGGCTTGTCA
1 ACATTACTTGGTAGCTTGTCTACAATACTAGTCGCTTGTCA
* * * * *
17521130 ACATTA-TTGGTATCTTGTTTACAATTCTGGTCGCTTGTCC
1 ACATTACTTGGTAGCTTGTCTACAATACTAGTCGCTTGTCA
*
17521170 ATATTACT
1 ACATTACT
17521178 AGCAATTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.05
40 36 0.92
41 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (41 bp):
ACATTACTTGGTAGCTTGTCTACAATACTAGTCGCTTGTCA
Found at i:17524821 original size:15 final size:15
Alignment explanation
Indices: 17524801--17524838 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
17524791 GCCCTCAATT
17524801 TTGGGCCTAGAAGTA
1 TTGGGCCTAGAAGTA
17524816 TTGGGCCTAGAAGTA
1 TTGGGCCTAGAAGTA
17524831 TTGGGCCT
1 TTGGGCCT
17524839 TGAGCTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (15 bp):
TTGGGCCTAGAAGTA
Found at i:17526489 original size:27 final size:27
Alignment explanation
Indices: 17526458--17526642 Score: 221
Period size: 27 Copynumber: 6.9 Consensus size: 27
17526448 GCTAATTACT
*
17526458 GAAATACCCTCAAAGGGTAAAATTA-C
1 GAAATACCCTCGAAGGGTAAAATTATC
* *
17526484 TGAAATACCTTTGAAGGGTAAAATTATC
1 -GAAATACCCTCGAAGGGTAAAATTATC
*
17526512 AAAATACCCTCGAAGGGTAAAATTATC
1 GAAATACCCTCGAAGGGTAAAATTATC
* *
17526539 GAAATTCCCTCGAAGGGTAAAAATATC
1 GAAATACCCTCGAAGGGTAAAATTATC
* *
17526566 GAAATACCCTCGATGGGTAAAATCATC
1 GAAATACCCTCGAAGGGTAAAATTATC
* * *
17526593 GAAATACCCCCGAAGGGTAAAATCACC
1 GAAATACCCTCGAAGGGTAAAATTATC
* *
17526620 AAAATACCCCTAGAA-GGTAAAAT
1 GAAATA-CCCTCGAAGGGTAAAAT
17526643 GACCGTAATG
Statistics
Matches: 137, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
27 130 0.95
28 7 0.05
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (27 bp):
GAAATACCCTCGAAGGGTAAAATTATC
Found at i:17526656 original size:27 final size:27
Alignment explanation
Indices: 17526594--17526671 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
17526584 AAAATCATCG
* *
17526594 AAATACCCC-CGAAGGGTAAAATCACCA
1 AAATACCCCTAGAA-GGTAAAATGACCA
*
17526621 AAATACCCCTAGAAGGTAAAATGACCG
1 AAATACCCCTAGAAGGTAAAATGACCA
* * *
17526648 TAATGCCCCTAGAGGGT-AAATGAC
1 AAATACCCCTAGAAGGTAAAATGAC
17526672 TATTTTTTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.16
27 34 0.77
28 3 0.07
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.15
Consensus pattern (27 bp):
AAATACCCCTAGAAGGTAAAATGACCA
Found at i:17526665 original size:81 final size:80
Alignment explanation
Indices: 17526470--17526667 Score: 193
Period size: 81 Copynumber: 2.4 Consensus size: 80
17526460 AATACCCTCA
* * * * * *
17526470 AAGGGTAAAATTACTGAAATACCTTTGAAGGGTAAAATTATCAAAATACCCTCGAAGGGTAAAAT
1 AAGGGTAAAAATACCGAAATACCCTAG-AGGGTAAAATCATCAAAATACCCCCGAAGGGTAAAAT
* * * * *
17526535 TATCGAAATTCCCTCG
65 CACCAAAATCCCCTAG
* * *
17526551 AAGGGTAAAAATATCGAAATACCCTCGATGGGTAAAATCATCGAAATACCCCCGAAGGGTAAAAT
1 AAGGGTAAAAATACCGAAATACCCTAGA-GGGTAAAATCATCAAAATACCCCCGAAGGGTAAAAT
17526616 CACCAAAATACCCCTAG
65 CACCAAAAT-CCCCTAG
* *
17526633 AA-GGT-AAAATGACCGTAATGCCCCTAGAGGGTAAA
1 AAGGGTAAAAAT-ACCGAAAT-ACCCTAGAGGGTAAA
17526668 TGACTATTTT
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
80 6 0.06
81 77 0.80
82 13 0.14
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (80 bp):
AAGGGTAAAAATACCGAAATACCCTAGAGGGTAAAATCATCAAAATACCCCCGAAGGGTAAAATC
ACCAAAATCCCCTAG
Found at i:17526735 original size:24 final size:24
Alignment explanation
Indices: 17526689--17526809 Score: 136
Period size: 24 Copynumber: 5.1 Consensus size: 24
17526679 TCCCTTGAGG
* * * *
17526689 TTAAATGATTGATCTATCCGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
* * *
17526713 TTAAATGACTAAATTGTATGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
* *
17526737 TCAAATGACTGATTTGTTTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
17526761 TTAAATGACTGATTTGTCTGTGA-
1 TTAAATGACTGATTTGTCTGTGAT
* *
17526784 TCAAATGATTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
17526808 TT
1 TT
17526810 GTATGACTAA
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
23 21 0.26
24 59 0.74
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTGAT
Found at i:17526760 original size:48 final size:47
Alignment explanation
Indices: 17526708--17526819 Score: 152
Period size: 47 Copynumber: 2.4 Consensus size: 47
17526698 TGATCTATCC
*
17526708 GTGATTTAAATGACTAAATTGTATGTGATTCAAATGACTGATTTGTTT
1 GTGATTTAAATGACTAAATTGTATGTGA-TCAAATGACTGATTTGTCT
* * * *
17526756 GTGATTTAAATGACTGATTTGTCTGTGATCAAATGATTGATTTGTCT
1 GTGATTTAAATGACTAAATTGTATGTGATCAAATGACTGATTTGTCT
**
17526803 GTGATTTGTATGACTAA
1 GTGATTTAAATGACTAA
17526820 TTCTGAGCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
47 31 0.55
48 25 0.45
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.44
Consensus pattern (47 bp):
GTGATTTAAATGACTAAATTGTATGTGATCAAATGACTGATTTGTCT
Found at i:17526806 original size:47 final size:48
Alignment explanation
Indices: 17526691--17526819 Score: 161
Period size: 48 Copynumber: 2.7 Consensus size: 48
17526681 CCTTGAGGTT
* * *
17526691 AAATGATTGATCTATCCGTGATTTAAATGACTAAATTGTATGTGATTC
1 AAATGATTGATTTGTCTGTGATTTAAATGACTAAATTGTATGTGATTC
* * * * *
17526739 AAATGACTGATTTGTTTGTGATTTAAATGACTGATTTGTCTGTGA-TC
1 AAATGATTGATTTGTCTGTGATTTAAATGACTAAATTGTATGTGATTC
**
17526786 AAATGATTGATTTGTCTGTGATTTGTATGACTAA
1 AAATGATTGATTTGTCTGTGATTTAAATGACTAA
17526820 TTCTGAGCAT
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
47 31 0.46
48 37 0.54
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (48 bp):
AAATGATTGATTTGTCTGTGATTTAAATGACTAAATTGTATGTGATTC
Found at i:17527103 original size:63 final size:63
Alignment explanation
Indices: 17526991--17527212 Score: 252
Period size: 63 Copynumber: 3.5 Consensus size: 63
17526981 TTTGCTGCAA
* * **
17526991 TGCTGCTGATGGCTTTGTGCCGATCATATTACTGTTACTGATGGTTGTGTACTGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCAATCATATTACCATTACTGATGGTTGTGT-CTGATCATATCAC
* * *
17527055 TGCTACTAATGGC-TTGTGCCAATCATATTACCATTACTAATAGATGTGTGTC-GATCATATCAC
1 TGCTACTGATGGCTTTGTGCCAATCATATTACCATTACTGAT-GGT-TGTGTCTGATCATATCAC
* * * * * *
17527118 TACTACTGATGGCTTTGTGCCGATCATGTTACCATTATTGATGGTTGTGTGCCGATCATATCAT
1 TGCTACTGATGGCTTTGTGCCAATCATATTACCATTACTGATGGTTGTGT-CTGATCATATCAC
* *
17527182 TGCTATTGATGGC-TGGTGCCAATCATATTAC
1 TGCTACTGATGGCTTTGTGCCAATCATATTAC
17527213 TGTACTTATG
Statistics
Matches: 133, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
62 5 0.04
63 64 0.48
64 59 0.44
65 5 0.04
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (63 bp):
TGCTACTGATGGCTTTGTGCCAATCATATTACCATTACTGATGGTTGTGTCTGATCATATCAC
Found at i:17527189 original size:32 final size:32
Alignment explanation
Indices: 17526996--17527209 Score: 148
Period size: 32 Copynumber: 6.8 Consensus size: 32
17526986 TGCAATGCTG
* **
17526996 CTGATGGCTT-TGTGCCGATCATATTACTGTTA
1 CTGATGG-TTGTGTGCCGATCATATCACTACTA
* * *
17527028 CTGATGGTTGTGTACTGATCATATCACTGCTA
1 CTGATGGTTGTGTGCCGATCATATCACTACTA
* * * * * *
17527060 CTAATGGCT-TGTGCCAATCATATTACCATTA
1 CTGATGGTTGTGTGCCGATCATATCACTACTA
* * * *
17527091 CTAATAGATGTGTGTCGATCATATCACTACTA
1 CTGATGGTTGTGTGCCGATCATATCACTACTA
* * * *
17527123 CTGATGGCTT-TGTGCCGATCATGTTACCATTA
1 CTGATGG-TTGTGTGCCGATCATATCACTACTA
* * *
17527155 TTGATGGTTGTGTGCCGATCATATCATTGCTA
1 CTGATGGTTGTGTGCCGATCATATCACTACTA
* * *
17527187 TTGATGGCTG-GTGCCAATCATAT
1 CTGATGGTTGTGTGCCGATCATAT
17527210 TACTGTACTT
Statistics
Matches: 141, Mismatches: 37, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
31 38 0.27
32 102 0.72
33 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (32 bp):
CTGATGGTTGTGTGCCGATCATATCACTACTA
Found at i:17530652 original size:19 final size:19
Alignment explanation
Indices: 17530571--17530655 Score: 66
Period size: 19 Copynumber: 4.6 Consensus size: 19
17530561 CAAACATAAC
17530571 ACATTTAAGCTTACATGAA
1 ACATTTAAGCTTACATGAA
* ** *
17530590 ACATTTAAGATTGTATAAA
1 ACATTTAAGCTTACATGAA
** *
17530609 ACA-TTCGGCTCACAT-AA
1 ACATTTAAGCTTACATGAA
* *
17530626 ATAGTTAAGCTTACATGAA
1 ACATTTAAGCTTACATGAA
*
17530645 ATATTTAAGCT
1 ACATTTAAGCT
17530656 CGCATAAAAC
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
17 4 0.08
18 15 0.31
19 30 0.61
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (19 bp):
ACATTTAAGCTTACATGAA
Found at i:17530680 original size:55 final size:55
Alignment explanation
Indices: 17530575--17530681 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
17530565 CATAACACAT
* * **
17530575 TTAAGCTTACATGAAACATTTAAGATTGTATAAAACATTCGGCTCACATAAATAG
1 TTAAGCTTACATGAAACATTTAAGATCGCATAAAACATTCAACTCACATAAATAG
* * * *
17530630 TTAAGCTTACATGAAATATTTAAGCTCGCATAAAACGTTCAACTCGCATAAA
1 TTAAGCTTACATGAAACATTTAAGATCGCATAAAACATTCAACTCACATAAA
17530682 ATATTTGAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (55 bp):
TTAAGCTTACATGAAACATTTAAGATCGCATAAAACATTCAACTCACATAAATAG
Found at i:17530789 original size:16 final size:16
Alignment explanation
Indices: 17530768--17530798 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17530758 ATGACATATC
17530768 TAAGGTCACACACTTA
1 TAAGGTCACACACTTA
*
17530784 TAAGGTCACTCACTT
1 TAAGGTCACACACTT
17530799 TTATAGAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (16 bp):
TAAGGTCACACACTTA
Found at i:17530826 original size:22 final size:22
Alignment explanation
Indices: 17530798--17530847 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
17530788 GTCACTCACT
17530798 TTTATAGAGTTCGTACAATACA
1 TTTATAGAGTTCGTACAATACA
*
17530820 TTTATAGGGTTCGTACAATACA
1 TTTATAGAGTTCGTACAATACA
17530842 TTTATA
1 TTTATA
17530848 TGGTTCACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (22 bp):
TTTATAGAGTTCGTACAATACA
Found at i:17530852 original size:22 final size:21
Alignment explanation
Indices: 17530798--17530868 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 21
17530788 GTCACTCACT
17530798 TTTATAGAGTTCGTACAATACA
1 TTTATAG-GTTCGTACAATACA
17530820 TTTATAGGGTTCGTACAATACA
1 TTTATA-GGTTCGTACAATACA
** *
17530842 TTTATATGGTTCACACAATACT
1 TTTATA-GGTTCGTACAATACA
17530864 TTTAT
1 TTTAT
17530869 TGTGTTTGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 43 0.98
23 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (21 bp):
TTTATAGGTTCGTACAATACA
Found at i:17544408 original size:95 final size:94
Alignment explanation
Indices: 17544264--17544543 Score: 339
Period size: 95 Copynumber: 3.0 Consensus size: 94
17544254 AACATGGGGT
* * * * * *
17544264 TTGTGTAAGACCATAGCTCGATTATGGTAGCATATGAAGTCCATCGGGACAATAAGCATGGGATA
1 TTGTGTAAGACCATAGCTCGATTATGGCAGCATATGGAGTCTATTGGGACAATAAACACGGGATA
17544329 GTCTGCCAGGACATTAAACATGGAGTTATA
66 GTCTGCCAGGACATTAAACATGG-GTTATA
* * * *
17544359 TTGTGTAAGACCATATCTCGATTATGGCAACATATGGAGTCTGTTGGGACAATAAACACGGGGTA
1 TTGTGTAAGACCATAGCTCGATTATGGCAGCATATGGAGTCTATTGGGACAATAAACACGGGATA
* *
17544424 GCCTGCAAGGACATTAAACATGGGTTATA
66 GTCTGCCAGGACATTAAACATGGGTTATA
** * * *
17544453 TTGTGTAAGACCATAGCTCGGCTATGGCAGCATAT-GAATTTTTTCGGGACAATAAACACGGGGA
1 TTGTGTAAGACCATAGCTCGATTATGGCAGCATATGGAGTCTATT-GGGACAATAAACAC-GGGA
* **
17544517 -AGTTTGCCAGGATGTTAAACATGGGTT
64 TAGTCTGCCAGGACATTAAACATGGGTT
17544544 TACGTTGTAA
Statistics
Matches: 158, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
93 6 0.04
94 73 0.46
95 79 0.50
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (94 bp):
TTGTGTAAGACCATAGCTCGATTATGGCAGCATATGGAGTCTATTGGGACAATAAACACGGGATA
GTCTGCCAGGACATTAAACATGGGTTATA
Found at i:17544487 original size:94 final size:94
Alignment explanation
Indices: 17544264--17544543 Score: 346
Period size: 94 Copynumber: 3.0 Consensus size: 94
17544254 AACATGGGGT
* * * * * * *
17544264 TTGTGTAAGACCATAGCTCGATTATGGTAGCATATGAAGTCCATCGGGACAATAAGCATGGGATA
1 TTGTGTAAGACCATAGCTCGATTATGGCAGCATATGGAGTCTATTGGGACAATAAACACGGGGTA
17544329 GTCTGCCAGGACATTAAACATGGAGTTATA
66 GTCTGCCAGGACATTAAACATGG-GTTATA
* * *
17544359 TTGTGTAAGACCATATCTCGATTATGGCAACATATGGAGTCTGTTGGGACAATAAACACGGGGTA
1 TTGTGTAAGACCATAGCTCGATTATGGCAGCATATGGAGTCTATTGGGACAATAAACACGGGGTA
* *
17544424 GCCTGCAAGGACATTAAACATGGGTTATA
66 GTCTGCCAGGACATTAAACATGGGTTATA
** * * * *
17544453 TTGTGTAAGACCATAGCTCGGCTATGGCAGCATAT-GAATTTTTTCGGGACAATAAACACGGGGA
1 TTGTGTAAGACCATAGCTCGATTATGGCAGCATATGGAGTCTATT-GGGACAATAAACACGGGGT
* **
17544517 AGTTTGCCAGGATGTTAAACATGGGTT
65 AGTCTGCCAGGACATTAAACATGGGTT
17544544 TACGTTGTAA
Statistics
Matches: 159, Mismatches: 25, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
93 6 0.04
94 77 0.48
95 76 0.48
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (94 bp):
TTGTGTAAGACCATAGCTCGATTATGGCAGCATATGGAGTCTATTGGGACAATAAACACGGGGTA
GTCTGCCAGGACATTAAACATGGGTTATA
Found at i:17547806 original size:101 final size:101
Alignment explanation
Indices: 17547631--17547830 Score: 330
Period size: 101 Copynumber: 2.0 Consensus size: 101
17547621 CTCTTGATTT
* *
17547631 AATTACTTGGTTATTCTTCTTCTTCTATTCAATATCATTTCAAATCTTCTCCATATACAACCACC
1 AATTACTTGGCTATTCTTCTTCTTCTATTCAATATCATTTCAAATCTTCTCCATAGACAACCACC
* *
17547696 ATGCACCATCGTTTT-TCGTTTTTTACCATCATCAAA
66 ATGCACCATC-TTTTGTCATTTTTTACCACCATCAAA
*
17547732 AATTACTTGGCTATTCTTCTTCTTCTATTCAATATCATTTCGAATCTTCTCCATAGACAACCACC
1 AATTACTTGGCTATTCTTCTTCTTCTATTCAATATCATTTCAAATCTTCTCCATAGACAACCACC
*
17547797 GTGCACCATCTTTTGTCATTTTTTACCACCATCA
66 ATGCACCATCTTTTGTCATTTTTTACCACCATCA
17547831 TAAACCACTG
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 4 0.04
101 88 0.96
ACGTcount: A:0.26, C:0.27, G:0.06, T:0.41
Consensus pattern (101 bp):
AATTACTTGGCTATTCTTCTTCTTCTATTCAATATCATTTCAAATCTTCTCCATAGACAACCACC
ATGCACCATCTTTTGTCATTTTTTACCACCATCAAA
Found at i:17558269 original size:13 final size:13
Alignment explanation
Indices: 17558251--17558279 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
17558241 ATTGTTGTGC
17558251 TTTGGCCACTATT
1 TTTGGCCACTATT
17558264 TTTGGCCACTATT
1 TTTGGCCACTATT
17558277 TTT
1 TTT
17558280 ACAGCCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.52
Consensus pattern (13 bp):
TTTGGCCACTATT
Found at i:17567190 original size:15 final size:15
Alignment explanation
Indices: 17567170--17567198 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17567160 ATGCCTTACA
17567170 CATCGTGTTATCAAT
1 CATCGTGTTATCAAT
17567185 CATCGTGTTATCAA
1 CATCGTGTTATCAA
17567199 CCAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (15 bp):
CATCGTGTTATCAAT
Found at i:17567916 original size:20 final size:21
Alignment explanation
Indices: 17567893--17567931 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
17567883 TAAAGGCGAG
* *
17567893 TACCCACAA-ATCCTATGGCA
1 TACCAACAATATCCAATGGCA
17567913 TACCAACAATATCCAATGG
1 TACCAACAATATCCAATGG
17567932 ATCCACTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.38, C:0.31, G:0.10, T:0.21
Consensus pattern (21 bp):
TACCAACAATATCCAATGGCA
Found at i:17571918 original size:20 final size:20
Alignment explanation
Indices: 17571893--17571940 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
17571883 AAAACAGAGA
*
17571893 AGAATAGAGTAGAAC-TAAAC
1 AGAATAGAGCAGAACAT-AAC
17571913 AGAATAGAGCAGAACATAAC
1 AGAATAGAGCAGAACATAAC
17571933 AGAATAGA
1 AGAATAGA
17571941 ACAAAGCGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.56, C:0.10, G:0.21, T:0.12
Consensus pattern (20 bp):
AGAATAGAGCAGAACATAAC
Found at i:17571928 original size:15 final size:15
Alignment explanation
Indices: 17571862--17571935 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 15
17571852 ACAACCCAAC
*
17571862 CAGAACAGGACAGAG
1 CAGAACAGAACAGAG
*
17571877 CAGAACAAAACAGAG
1 CAGAACAGAACAGAG
* * ** *
17571892 AAGAATAGAGTAGAA
1 CAGAACAGAACAGAG
*
17571907 CTA-AACAGAATAGAG
1 C-AGAACAGAACAGAG
*
17571922 CAGAACATAACAGA
1 CAGAACAGAACAGA
17571936 ATAGAACAAA
Statistics
Matches: 43, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
14 1 0.02
15 41 0.95
16 1 0.02
ACGTcount: A:0.55, C:0.15, G:0.23, T:0.07
Consensus pattern (15 bp):
CAGAACAGAACAGAG
Found at i:17572487 original size:10 final size:10
Alignment explanation
Indices: 17572472--17572506 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
17572462 TAACATGTTA
*
17572472 AATTTTAATT
1 AATTTTGATT
17572482 AATTTTGATT
1 AATTTTGATT
17572492 AATTTTGATT
1 AATTTTGATT
17572502 -ATTTT
1 AATTTT
17572507 CGACAGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 5 0.21
10 19 0.79
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (10 bp):
AATTTTGATT
Found at i:17575284 original size:70 final size:70
Alignment explanation
Indices: 17575130--17575275 Score: 229
Period size: 70 Copynumber: 2.1 Consensus size: 70
17575120 TTAAACTGGT
* *
17575130 TAATAAAGTGTTTTCTGTAAATCTGATTTTATGTAAACTATTTTGGACTGTAAGTTCTGTTATTA
1 TAAT-AAGTGTTTTCTGTAAATCTGATTTTATGTAAACGATTTTGGACTGGAAGTTCTGTTATTA
17575195 ATAATG
65 ATAATG
** *
17575201 TAATAAGTGTTTTCTGTAAATCTGATTTTATGTTGACGATTTTGGATTGGAAGTTCTGTTATTAA
1 TAATAAGTGTTTTCTGTAAATCTGATTTTATGTAAACGATTTTGGACTGGAAGTTCTGTTATTAA
*
17575266 TACTG
66 TAATG
17575271 TAATA
1 TAATA
17575276 CTATTTTTCG
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
70 65 0.94
71 4 0.06
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (70 bp):
TAATAAGTGTTTTCTGTAAATCTGATTTTATGTAAACGATTTTGGACTGGAAGTTCTGTTATTAA
TAATG
Found at i:17578270 original size:28 final size:28
Alignment explanation
Indices: 17578180--17578277 Score: 76
Period size: 28 Copynumber: 3.5 Consensus size: 28
17578170 ATTATGTTTA
* * *
17578180 AGGTTTAGGGTGTTAAGGTATA-TCATATT
1 AGGTTTAGGGT-TTAATGTTTAGTAAT-TT
*
17578209 AGAGTTTAGGGTTTAATGTTTAGTATTTT
1 AG-GTTTAGGGTTTAATGTTTAGTAATTT
**
17578238 AGGTTTAGTGG-TTAATGTTTCTTAATTT
1 AGGTTTAG-GGTTTAATGTTTAGTAATTT
*
17578266 GGGTTT-GGGTTT
1 AGGTTTAGGGTTT
17578278 TTGAATTTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.04
27 3 0.05
28 25 0.44
29 16 0.28
30 11 0.19
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (28 bp):
AGGTTTAGGGTTTAATGTTTAGTAATTT
Found at i:17578277 original size:20 final size:21
Alignment explanation
Indices: 17578261--17578315 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
17578251 AATGTTTCTT
17578261 AATTT-GGGTTTGGGTTTTTG
1 AATTTAGGGTTTGGGTTTTTG
* * *
17578281 AATTTATGGTTTGGGTGTATG
1 AATTTAGGGTTTGGGTTTTTG
*
17578302 -GTTTAGGGTTTGGG
1 AATTTAGGGTTTGGG
17578316 GTTTAGTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.49
Consensus pattern (21 bp):
AATTTAGGGTTTGGGTTTTTG
Found at i:17579054 original size:189 final size:187
Alignment explanation
Indices: 17578722--17579280 Score: 694
Period size: 189 Copynumber: 3.0 Consensus size: 187
17578712 ACAAAAGTAT
* * * * * * * *
17578722 GTTTTAATGGCTTCCCAAACGGTGCCATTTTTGCCAATCATTTTAGTGGAGCTTATTAGTAAACG
1 GTTTTAATAGTTTCCTAAACGGTGTCGTTTTTGCCAATGATTTTAGTGGCGCTTATTAGAAAACG
*
17578787 CCGCAAAAGGAT-GAAATTAGTGGCG-TTTGTTTAGCAAGCGCCGCAAATATGTGCCTGATACTA
66 CCG-AAAAGGATAGAAATTAGTGGCGTTTTG-GTAGCAAGCGCCGCAAATATGTGCCTGATACTA
*
17578850 CAAAACGTAACGTTTTGATGCAAGATATTAGTGGGGTTTTTGGAAAAACGCCAGAATTAA
129 CAAAACGT-ACGTTTTGATGCAAGATATTAGTGGCGTTTTTGGAAAAACGCCAGAATTAA
*
17578910 GTTTTAATAGTTTCCTAAACGGTGTCGTTTTTGCCAATGATTTTGGTGGCGCTTATTAGAAAACG
1 GTTTTAATAGTTTCCTAAACGGTGTCGTTTTTGCCAATGATTTTAGTGGCGCTTATTAGAAAACG
* * ** *
17578975 CCGAAAAGGGATAGAAGTTAGTGGCGTTTTGGTAGCAAGCGCCGCTAATATGTGTGTGATACTGC
66 CCGAAAA-GGATAGAAATTAGTGGCGTTTTGGTAGCAAGCGCCGCAAATATGTGCCTGATACTAC
* * * * * * **
17579040 AAAATGATACGTTTTGATGGAATATATTAGTGGCATCTTTGGGAAAATTCCAGAATTAA
130 AAAACG-TACGTTTTGATGCAAGATATTAGTGGCGTTTTTGGAAAAACGCCAGAATTAA
* * **
17579099 GTTTTAATAGTTT-CTCAAACGGTGTCGTTTTTGCGAATGCTTTTAGTGGCGCTTGCTAGAAAAC
1 GTTTTAATAGTTTCCT-AAACGGTGTCGTTTTTGCCAATGATTTTAGTGGCGCTTATTAGAAAAC
* * *
17579163 GCCGAAAAATGATAGAAATTAGTGGCGTTTAGGTA-CAAAGCGCCGAAAATATGTGCCTGATACT
65 GCCG-AAAAGGATAGAAATTAGTGGCGTTTTGGTAGC-AAGCGCCGCAAATATGTGCCTGATACT
* * *
17579227 ACAAAACGTTATGTTTTGATTCAAGATATTAGTGGCGTTTTTAGTAAAAACGCC
128 ACAAAACG-TACGTTTTGATGCAAGATATTAGTGGCGTTTTT-GGAAAAACGCC
17579281 CAATAGCTAT
Statistics
Matches: 314, Mismatches: 49, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
187 4 0.01
188 66 0.21
189 228 0.73
190 16 0.05
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (187 bp):
GTTTTAATAGTTTCCTAAACGGTGTCGTTTTTGCCAATGATTTTAGTGGCGCTTATTAGAAAACG
CCGAAAAGGATAGAAATTAGTGGCGTTTTGGTAGCAAGCGCCGCAAATATGTGCCTGATACTACA
AAACGTACGTTTTGATGCAAGATATTAGTGGCGTTTTTGGAAAAACGCCAGAATTAA
Found at i:17581463 original size:123 final size:117
Alignment explanation
Indices: 17581216--17581518 Score: 446
Period size: 123 Copynumber: 2.5 Consensus size: 117
17581206 CATAACTTAC
* **
17581216 ATAATATTAACATTTATAATTAAATTGGTCAAACCTATGTAAATATTTATATGTTTCCTTTTCAA
1 ATAATATTAACATTTATAATTAAATTGGTCAAAACTATACAAATATTTATATGTTTCCTTTTCAA
* * * *
17581281 ATGTTTATATTAACATTTATACAAATTATGTAATCCCATTTCAAATGTGTAC
66 ATGTTAATATTAACATTTATACAAATTATGTAATCCCATTTAAAATGCGTAA
*
17581333 ATAATATTAACATTTATAATTAAATTTGTCAAAACTATACAAATATTTATATGATTTCCTTGTT-
1 ATAATATTAACATTTATAATTAAATTGGTCAAAACTATACAAATATTTATATG-TTTCCTT-TTC
17581397 AAATGCGTAAATAATATTAACATTTATACAAATTATGTAATCCCATTTAAAATGCGTAA
64 AAAT--GT---TAATATTAACATTTATACAAATTATGTAATCCCATTTAAAATGCGTAA
*
17581456 ATAATATTAACATTTATAATTAAATTGGTCTAAACTATACAAATATTTATATGTTTTCCTTTT
1 ATAATATTAACATTTATAATTAAATTGGTCAAAACTATACAAATATTTATATG-TTTCCTTTT
17581519 TCTTTATCTT
Statistics
Matches: 168, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
117 49 0.29
118 11 0.07
119 2 0.01
120 2 0.01
122 2 0.01
123 102 0.61
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (117 bp):
ATAATATTAACATTTATAATTAAATTGGTCAAAACTATACAAATATTTATATGTTTCCTTTTCAA
ATGTTAATATTAACATTTATACAAATTATGTAATCCCATTTAAAATGCGTAA
Found at i:17581651 original size:32 final size:31
Alignment explanation
Indices: 17581609--17581718 Score: 87
Period size: 32 Copynumber: 3.4 Consensus size: 31
17581599 AATTAAATAA
*
17581609 ATTTTA-TTTAAAGGTATATTTTAATTATTTT
1 ATTTTATTTTAAAGATATATTTTAA-TATTTT
* * *
17581640 ATTTTATTTTAATCACAAATTTTTTTCAATATTTT
1 ATTTTATTTTAA--AGATA-TATTTT-AATATTTT
* * * *
17581675 AATTTATTTTAAAGTTAAATTTTAAATACTTT
1 ATTTTATTTTAAAGATATATTTT-AATATTTT
17581707 ATTTTATTTTAA
1 ATTTTATTTTAA
17581719 TAACAAAATT
Statistics
Matches: 61, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
31 6 0.10
32 27 0.44
33 2 0.03
34 2 0.03
35 22 0.36
36 2 0.03
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (31 bp):
ATTTTATTTTAAAGATATATTTTAATATTTT
Found at i:17581794 original size:30 final size:30
Alignment explanation
Indices: 17581741--17581835 Score: 163
Period size: 30 Copynumber: 3.1 Consensus size: 30
17581731 AAGATAATAT
*
17581741 TTTAAAGTTTAAAGTTACATAACTTACATAA
1 TTTAAAGTTTAAA-TTTCATAACTTACATAA
17581772 TTTAAAGTTTAAATTTCATAACTTACATAA
1 TTTAAAGTTTAAATTTCATAACTTACATAA
*
17581802 TTTAAAGTTCAAATTTCATAACTTACATAA
1 TTTAAAGTTTAAATTTCATAACTTACATAA
17581832 TTTA
1 TTTA
17581836 CATAACTTAC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 49 0.79
31 13 0.21
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (30 bp):
TTTAAAGTTTAAATTTCATAACTTACATAA
Found at i:17581839 original size:78 final size:78
Alignment explanation
Indices: 17581755--17582170 Score: 272
Period size: 78 Copynumber: 5.3 Consensus size: 78
17581745 AAGTTTAAAG
17581755 TTACATAACTTACATAATTTAAAGTTTAAATTTCATAACTTACATAATTTAAAGTTCAAATTTCA
1 TTACATAACTTACATAATTTAAAGTTTAAATTTCATAACTTACATAATTTAAAGTTCAAATTTCA
17581820 TAACTTACATAAT
66 TAACTTACATAAT
* *
17581833 TTACATAACTTACATAATTTAAAGTTTAAATTTCATAACTTACATAATTTAAAACTTTAAGATCG
1 TTACATAACTTACATAATTTAAAGTTTAAATTTCATAACTTACATAATTT-AAAGTTCAA-AT--
17581898 CATTACCTTATAACTTACATAAT
62 --TT--C--ATAACTTACATAAT
* * * ** * *
17581921 TTACATAA--TGCATAACTTACGTAA-CTTAAAGCTCA-AA-TTTCATAATTTATATAATTTACA
1 TTACATAACTTACATAATTTA---AAGTTTAAATTTCATAACTTACATAA-TT-TA-AAGTT-CA
* * * *
17581981 TAACTTACATAATTTAAAGTTTAAA
59 -AA-TTTCATAACTTACA---TAAT
* * * * *
17582006 TTTCATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACATAATTTACA--T-AACTTACA
1 TTACATAACTTACATAATTTAAAGTTTAAATTTCATAACTTACATAATTTAAAGTTCAAATTTCA
* *
17582068 TAA-TT-TA-AAG
66 TAACTTACATAAT
* * * * * *
17582078 TT-CA-AA-TTTCATAACTTACA---TCATTTACATAACTTACATAATTTAAAGTTCAAATTTCA
1 TTACATAACTTACATAATTTAAAGTTTAAATTTCATAACTTACATAATTTAAAGTTCAAATTTCA
*
17582137 TAACTTACATCAT
66 TAACTTACATAAT
17582150 TTACATAACTTACATAATTTA
1 TTACATAACTTACATAATTTA
17582171 TTCTCAACTT
Statistics
Matches: 261, Mismatches: 41, Indels: 75
0.69 0.11 0.20
Matches are distributed among these distances:
66 22 0.08
68 1 0.00
69 20 0.08
70 4 0.02
71 3 0.01
72 7 0.03
73 2 0.01
74 2 0.01
75 10 0.04
76 1 0.00
77 2 0.01
78 58 0.22
79 8 0.03
80 3 0.01
82 9 0.03
84 6 0.02
85 19 0.07
86 22 0.08
87 21 0.08
88 35 0.13
89 4 0.02
90 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (78 bp):
TTACATAACTTACATAATTTAAAGTTTAAATTTCATAACTTACATAATTTAAAGTTCAAATTTCA
TAACTTACATAAT
Found at i:17581840 original size:48 final size:48
Alignment explanation
Indices: 17581783--17582026 Score: 252
Period size: 48 Copynumber: 5.1 Consensus size: 48
17581773 TTAAAGTTTA
17581783 AATTT-CATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACAT
1 AATTTACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACAT
*
17581830 AATTTACATAACTTACATAATTTAAAGTTTAAATTTCATAACTTACAT
1 AATTTACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACAT
* * ** * *
17581878 AATTTA-A-AACTTTAAGATCGCA-TT-ACCTT-ATAACTTACATAATTTACAT
1 AATTTACATAAC-TT-ACAT--AATTTAAAGTTCA-AA-TTTCATAACTTACAT
* * * * * *
17581927 AA--TGCATAACTTACGTAACTTAAAGCTCAAATTTCATAATTTATAT
1 AATTTACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACAT
*
17581973 AATTTACATAACTTACATAATTTAAAGTTTAAATTTCATAACTTACAT
1 AATTTACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACAT
17582021 AATTTA
1 AATTTA
17582027 AAGTTCAAAT
Statistics
Matches: 160, Mismatches: 23, Indels: 27
0.76 0.11 0.13
Matches are distributed among these distances:
45 1 0.01
46 20 0.12
47 16 0.10
48 102 0.64
49 20 0.12
50 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (48 bp):
AATTTACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACAT
Found at i:17581870 original size:30 final size:30
Alignment explanation
Indices: 17581830--17582152 Score: 108
Period size: 30 Copynumber: 10.8 Consensus size: 30
17581820 TAACTTACAT
17581830 AATTTACATAACTTACATAATTTAAAGTTTA
1 AATTT-CATAACTTACATAATTTAAAGTTTA
*
17581861 AATTTCATAACTTACATAATTTAAAACTTTA
1 AATTTCATAACTTACATAATTT-AAAGTTTA
** * * *
17581892 AGATCGCATTACCTT--ATAACTTACATAATTTA
1 A-ATTTCA-TAACTTACATAATTTA-A-AGTTTA
* * * * * *
17581924 CATAATGCATAACTTACGTAACTTAAAGCTCA
1 -A-ATTTCATAACTTACATAATTTAAAGTTTA
* * *
17581956 AATTTCATAATTTATATAATTTACA---TA
1 AATTTCATAACTTACATAATTTAAAGTTTA
* * * *
17581983 ACTTACATAATTTA-A-AGTTT-AA----A
1 AATTTCATAACTTACATAATTTAAAGTTTA
*
17582006 --TTTCATAACTTACATAATTTAAAGTTCA
1 AATTTCATAACTTACATAATTTAAAGTTTA
* *
17582034 AATTTCATAACTTACATAATTTACATAACTTACA
1 AATTTCATAACTTACATAATTT--A-AAGTT-TA
* *
17582068 TAATTT-A-AAGTT-CA-AATTTCATAA-CTTA
1 -AATTTCATAACTTACATAATTT-A-AAGTTTA
*
17582096 CATCATTTACATAACTTACATAATTTAAAGTTCA
1 -A--ATTT-CATAACTTACATAATTTAAAGTTTA
*
17582130 AATTTCATAACTTACATCATTTA
1 AATTTCATAACTTACATAATTTA
17582153 CATAACTTAC
Statistics
Matches: 224, Mismatches: 38, Indels: 61
0.69 0.12 0.19
Matches are distributed among these distances:
21 10 0.04
22 1 0.00
23 5 0.02
24 3 0.01
25 4 0.02
26 1 0.00
27 13 0.06
28 3 0.01
29 1 0.00
30 81 0.36
31 30 0.13
32 21 0.09
33 26 0.12
34 15 0.07
35 10 0.04
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (30 bp):
AATTTCATAACTTACATAATTTAAAGTTTA
Found at i:17582061 original size:48 final size:48
Alignment explanation
Indices: 17582004--17582225 Score: 314
Period size: 48 Copynumber: 4.8 Consensus size: 48
17581994 TTAAAGTTTA
17582004 AATTT-CATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACAT
1 AATTTACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACAT
17582051 AATTTACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACAT
1 AATTTACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACAT
*
17582099 CATTTACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACAT
1 AATTTACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACAT
* * * *
17582147 CATTTACATAACTTACATAATTT--ATTCTCAACTTT-A-GACTTACAT
1 AATTTACATAACTTACATAATTTAAAGT-TCAAATTTCATAACTTACAT
* * *
17582192 GA--TACATAACTTACATAATTTAAGGATCAAATTT
1 AATTTACATAACTTACATAATTTAAAGTTCAAATTT
17582226 GACATGGGCA
Statistics
Matches: 162, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
43 19 0.12
44 7 0.04
45 9 0.06
46 3 0.02
47 12 0.07
48 112 0.69
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (48 bp):
AATTTACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACAT
Found at i:17583679 original size:13 final size:14
Alignment explanation
Indices: 17583663--17583691 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17583653 TTATAAATAT
17583663 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
17583676 TTATAATGGTTTAA
1 TTATAATGGTTTAA
17583690 TT
1 TT
17583692 GGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:17584423 original size:43 final size:42
Alignment explanation
Indices: 17584379--17584738 Score: 513
Period size: 43 Copynumber: 8.4 Consensus size: 42
17584369 ATACCTATTT
* * *
17584379 TAGCGGCGTTTGTAAAAAAAGCACAGCTAAAGGCCAAGACTTT
1 TAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAGG-CAAGACTTC
*
17584422 TAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAGGCCAAGACTTA
1 TAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAGG-CAAGACTTC
* * * *
17584465 TAGCAGCGTTTATAAAAAAAGTGCCGCTAAAGGCCAAGACTTA
1 TAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAGG-CAAGACTTC
* * * *
17584508 TAGCAGCGTTTATAAAAAAAGTGCCGCTAAAGGCCAAGACTTA
1 TAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAGG-CAAGACTTC
*
17584551 TAGCGGCATTTGTAAAAAAAAGCGCCGCTAAAGGCAAGACTTC
1 TAGCGGCGTTTGT-AAAAAAAGCGCCGCTAAAGGCAAGACTTC
*
17584594 TAGCGGCGTTTGTAAAAAAAAGAGCCGCTAAAGGCAAGACTTC
1 TAGCGGCGTTTGT-AAAAAAAGCGCCGCTAAAGGCAAGACTTC
*
17584637 TAGCGGCGTTTGTAAAAAAAAGAGCCGCTAAAGGCAAGACTTC
1 TAGCGGCGTTTGT-AAAAAAAGCGCCGCTAAAGGCAAGACTTC
17584680 TAGCGGCGTTTGTAAAAAAAAGCGCCGCTAAAGGCAAGACTTC
1 TAGCGGCGTTTGT-AAAAAAAGCGCCGCTAAAGGCAAGACTTC
17584723 TAGCGGCGTTTGTAAA
1 TAGCGGCGTTTGTAAA
17584739 GGATGCGCCG
Statistics
Matches: 302, Mismatches: 14, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
42 3 0.01
43 280 0.93
44 19 0.06
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (42 bp):
TAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAGGCAAGACTTC
Found at i:17588984 original size:122 final size:122
Alignment explanation
Indices: 17588767--17589004 Score: 377
Period size: 122 Copynumber: 2.0 Consensus size: 122
17588757 TTAATTTATC
* * * * *
17588767 AATTTATTGAATTATTAATATTTTAAACTAATTAAATTTTTGAGGAAATATTTGTTTCCATCTCA
1 AATTTATTAAAATAATAATATTTTAAACTAATTAAATTTCTGAGAAAATATTTGTTTCCATCTCA
* * * *
17588832 TGTTTAGGTTAATCATGCCTTGCAAGAGAACTCGTGCCTCTGTCTAAATTGTTGAAA
66 TGTTCAGGTTAATCATGCCTCGCAAGAGAACTCATGCCTCTGTCCAAATTGTTGAAA
* *
17588889 AATTTATTAAAATAATAATATTTTATACTAATTAAATTTCTGAGAAAATATTTGTTTCCATCTTA
1 AATTTATTAAAATAATAATATTTTAAACTAATTAAATTTCTGAGAAAATATTTGTTTCCATCTCA
17588954 TGTTCAGGTTAATCATGCCTCGCAAGAGAACTCATGCCTCTGTCCAAATTG
66 TGTTCAGGTTAATCATGCCTCGCAAGAGAACTCATGCCTCTGTCCAAATTG
17589005 ACGAATCACA
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
122 105 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (122 bp):
AATTTATTAAAATAATAATATTTTAAACTAATTAAATTTCTGAGAAAATATTTGTTTCCATCTCA
TGTTCAGGTTAATCATGCCTCGCAAGAGAACTCATGCCTCTGTCCAAATTGTTGAAA
Found at i:17591808 original size:10 final size:12
Alignment explanation
Indices: 17591782--17591813 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17591772 GTTGAATTCA
17591782 AATTAATTTTCT
1 AATTAATTTTCT
17591794 AATTAATTTT-T
1 AATTAATTTTCT
17591805 -ATTAATTTT
1 AATTAATTTT
17591814 AATTTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 9 0.45
11 1 0.05
12 10 0.50
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (12 bp):
AATTAATTTTCT
Found at i:17598939 original size:16 final size:17
Alignment explanation
Indices: 17598903--17598939 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17598893 GTTATATTTA
*
17598903 ATTTTTGATATGTTTTT
1 ATTTTTGATATGTTTTC
17598920 ATTTTTGATATG-TTTC
1 ATTTTTGATATGTTTTC
17598936 ATTT
1 ATTT
17598940 AAAACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.68
Consensus pattern (17 bp):
ATTTTTGATATGTTTTC
Found at i:17605487 original size:11 final size:11
Alignment explanation
Indices: 17605471--17605497 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17605461 GAGGTAGGTC
17605471 CAACTAATAAG
1 CAACTAATAAG
17605482 CAACTAATAAG
1 CAACTAATAAG
17605493 CAACT
1 CAACT
17605498 TGTTCTTACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.22, G:0.07, T:0.19
Consensus pattern (11 bp):
CAACTAATAAG
Found at i:17608602 original size:26 final size:26
Alignment explanation
Indices: 17608566--17608621 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
17608556 CTACAGTAGT
*
17608566 TTCATAATATCATAACATATATCAGC
1 TTCAGAATATCATAACATATATCAGC
* * *
17608592 TTCAGAATATCATAGCATGTATCAGT
1 TTCAGAATATCATAACATATATCAGC
17608618 TTCA
1 TTCA
17608622 AAACACTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (26 bp):
TTCAGAATATCATAACATATATCAGC
Found at i:17609395 original size:34 final size:34
Alignment explanation
Indices: 17609333--17609400 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
17609323 GCACAGTTGA
* **
17609333 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCCTCCCAGTAT-AGTG
*
17609368 ACAGT-TTGGGCCTTAGCCCCTCCCAGTATAGTG
1 ACAGTCTTGGGCCTAAGCCCCTCCCAGTATAGTG
17609401 TCAAAAATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 4 0.14
34 20 0.69
35 5 0.17
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCCTCCCAGTATAGTG
Found at i:17612026 original size:24 final size:24
Alignment explanation
Indices: 17611999--17612046 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
17611989 TTATGTTTGG
17611999 ATGTGAAATATAATTCTCAAGCTA
1 ATGTGAAATATAATTCTCAAGCTA
17612023 ATGTGAAATATAATTCTCAAGCTA
1 ATGTGAAATATAATTCTCAAGCTA
17612047 TTTATTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGTGAAATATAATTCTCAAGCTA
Found at i:17613654 original size:16 final size:16
Alignment explanation
Indices: 17613635--17613676 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
17613625 GTTACACCTT
* *
17613635 TATTCCATTACAGCTC
1 TATTCAATTACAGCCC
17613651 TATTCAATTACAGCCC
1 TATTCAATTACAGCCC
*
17613667 TATTCTATTA
1 TATTCAATTA
17613677 GAGTGAACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (16 bp):
TATTCAATTACAGCCC
Found at i:17613815 original size:41 final size:41
Alignment explanation
Indices: 17613753--17613839 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
17613743 AGGAGTTACA
*
17613753 TCAAAACATCAAAAACAGATTTCATTAAGTATCCAGAACGT
1 TCAAAACATCAAAAACAGATTTCATTAAGTATCCAGAACAT
* *
17613794 TCAAAACATCAAAAACTGATTTCATTGAGTATCCAGAACAT
1 TCAAAACATCAAAAACAGATTTCATTAAGTATCCAGAACAT
17613835 TCAAA
1 TCAAA
17613840 GTTTAATCGA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.25
Consensus pattern (41 bp):
TCAAAACATCAAAAACAGATTTCATTAAGTATCCAGAACAT
Found at i:17619934 original size:16 final size:16
Alignment explanation
Indices: 17619913--17619952 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
17619903 GGAGAATGTG
17619913 TAAATAAACAT-AAATA
1 TAAATAAACATGAAA-A
*
17619929 TAAATAGACATGAAAA
1 TAAATAAACATGAAAA
17619945 TAAATAAA
1 TAAATAAA
17619953 GACGAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (16 bp):
TAAATAAACATGAAAA
Found at i:17620797 original size:28 final size:27
Alignment explanation
Indices: 17620742--17620794 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
17620732 AAAAAACATA
* *
17620742 TTTTTATTTTTCAAAATCTAAACTTTC
1 TTTTTATTTTTAAAAATCAAAACTTTC
*
17620769 TTTTTTTTTTTAAAAATCAAAACTTT
1 TTTTTATTTTTAAAAATCAAAACTTT
17620795 TCTCAAGATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTTATTTTTAAAAATCAAAACTTTC
Found at i:17636015 original size:26 final size:26
Alignment explanation
Indices: 17635984--17636035 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
17635974 TGTTACTTGT
17635984 TGTTCTTGGAAAACTTTATTCTTTTC
1 TGTTCTTGGAAAACTTTATTCTTTTC
*
17636010 TGTTCTTGGAAAACTTTGTTCTTTTC
1 TGTTCTTGGAAAACTTTATTCTTTTC
17636036 AAGATACCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.15, G:0.13, T:0.54
Consensus pattern (26 bp):
TGTTCTTGGAAAACTTTATTCTTTTC
Found at i:17637348 original size:261 final size:261
Alignment explanation
Indices: 17636876--17637352 Score: 685
Period size: 261 Copynumber: 1.8 Consensus size: 261
17636866 AACAGATCAG
* *
17636876 TAAAACCACAGATCTTATCTCTCTGAAGTTGCAGAAGAGCAAATCGCATCCAGTCTTATCTCCCT
1 TAAAACCACAAATCTTATCTCTCTGAAGTTGCAGAAGAGCAAATCGCACCCAGTCTTATCTCCCT
* *
17636941 GAAGTTGCAGTGGAGTAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT
66 AAAGTTACAGTGGAGTAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT
* * *
17637006 AAAACCACAAATCTTATCTCCTTGAAGTTACAGTGGAGCGGGTTAAAACCACAAGTCTTATCTCC
131 AAAACCACAAATCTTATCTCCTTGAAGTTACAGTGGAGCGAGTAAAAACCACAAGTCTTATCCCC
* * *
17637071 CTGATGTTGTAGTGGAGCAGACAGAACAAGCTAATATTATTTCCCGGAAGTTACAGTGGAGCGGA
196 CGGAAGTTGCAGTGGAGCAGACAGAACAAGCTAATATTATTTCCCGGAAGTTACAGTGGAGCGGA
17637136 T
261 T
* * *
17637137 TAAAACCACAAATCTTATCTCTCTGAAGTTGTAGGAGAGCAGATCGCACCCAGTCTTATCTCCCT
1 TAAAACCACAAATCTTATCTCTCTGAAGTTGCAGAAGAGCAAATCGCACCCAGTCTTATCTCCCT
** *
17637202 AAAGTTACAGTGGA-TGAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGAT
66 AAAGTTACAGTGGAGT-AGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTACAGTGGAGCAGAT
* * * * *
17637266 TAAAACCACAAGTCTTATCTCCTT-AACGTTGCAGTGGAGCAGACAG-AAAAAGC-TAA-TTTTA
130 TAAAACCACAAATCTTATCTCCTTGAA-GTTACAGTGGAGC-G--AGTAAAAACCACAAGTCTTA
17637327 TCCCCCGGAAGTTGCAGTGGAGCAGA
191 TCCCCCGGAAGTTGCAGTGGAGCAGA
17637353 TTAAAACCAT
Statistics
Matches: 190, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
260 3 0.02
261 178 0.94
262 3 0.02
263 5 0.03
264 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (261 bp):
TAAAACCACAAATCTTATCTCTCTGAAGTTGCAGAAGAGCAAATCGCACCCAGTCTTATCTCCCT
AAAGTTACAGTGGAGTAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT
AAAACCACAAATCTTATCTCCTTGAAGTTACAGTGGAGCGAGTAAAAACCACAAGTCTTATCCCC
CGGAAGTTGCAGTGGAGCAGACAGAACAAGCTAATATTATTTCCCGGAAGTTACAGTGGAGCGGA
T
Found at i:17637357 original size:217 final size:217
Alignment explanation
Indices: 17636976--17637890 Score: 1341
Period size: 217 Copynumber: 4.2 Consensus size: 217
17636966 AAGCTAATCC
* * * ** * * * *
17636976 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCA-CAAATCTTATCTCCTTGAAGTTACAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAGAAGAAGCTAATCCTATCTCCCTGAAGTTGCAGT
* * * * *
17637040 GGAGCGGGTTAAAACCACAAGTCTTATCTCCCTGATGTTGTAGTGGAGCAGACAGAACAAGCTAA
65 GGAGCGGATTAAAACCACAAGTCTTATCTCCCTAACGTTGCAGTGGAGCAGACAGAAAAAGCTAA
* * * *
17637105 TATTATTTCCCGGAAGTTACAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTGTA
130 TCTTATCTCCCGGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGTA
* *
17637170 GGAGAGCAGATCGCACCCAGTCT
195 GAAGAGCAGATCGCATCCAGTCT
* * *
17637193 TATCTCCCTAAAGTTACAGTGGATG-AGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTGTAGT
1 TATCTCCCTGAAGTTGCAGTGGA-GCAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTGCAGT
*
17637257 GGAGCGGATTAAAACCACAAGTCTTATCTCCTTAACGTTGCAGTGGAGCAGACAGAAAAAGCTAA
65 GGAGCGGATTAAAACCACAAGTCTTATCTCCCTAACGTTGCAGTGGAGCAGACAGAAAAAGCTAA
* * * * * **
17637322 TTTTATCCCCCGGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCTTATCTATCTGAAGTTACA
130 TCTTATCTCCCGGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGTA
*
17637387 GAAGAGCAGATCGCATCTAGTCT
195 GAAGAGCAGATCGCATCCAGTCT
* *
17637410 TATCTCCCTGAAGTTGCAGTGGAACAGACAGAAGAAGCTAATCCTATCTCCCTGAATTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTGCAGTG
*
17637475 GAGCGGATTAGAACCACAAGTCTTATCTCCCTAACGTTGCAGTGGAGCAGACAGAAAAAGCTAAT
66 GAGCGGATTAAAACCACAAGTCTTATCTCCCTAACGTTGCAGTGGAGCAGACAGAAAAAGCTAAT
* *
17637540 CTTATCTCCCGAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAATTGTAG
131 CTTATCTCCCGGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGTAG
17637605 AAGAGCAGATCGCATCCAGTCT
196 AAGAGCAGATCGCATCCAGTCT
17637627 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTGCAGTG
* *
17637692 GAGCGGATTAAAACCACAAGTCTTATCTCCCTGACTTTGCAGTGGAGCAGACA-AAAGAAGCTAA
66 GAGCGGATTAAAACCACAAGTCTTATCTCCCTAACGTTGCAGTGGAGCAGACAGAAA-AAGCTAA
* *
17637756 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATTTCTCTGAAGTTGTA
130 TCTTATCTCCCGGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGTA
* * * *
17637821 GTAGGGCAGGTTGCATCCAGTCT
195 GAAGAGCAGATCGCATCCAGTCT
* * * *
17637844 TATCTCCATGAAGTTGCAGTGGAGCGGACAGAAGAAACCAATCCTAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAGCTAATCCTAT
17637891 GAAGTTGCAG
Statistics
Matches: 631, Mismatches: 63, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
216 7 0.01
217 623 0.99
218 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (217 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTGCAGTG
GAGCGGATTAAAACCACAAGTCTTATCTCCCTAACGTTGCAGTGGAGCAGACAGAAAAAGCTAAT
CTTATCTCCCGGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGTAG
AAGAGCAGATCGCATCCAGTCT
Found at i:17637652 original size:129 final size:129
Alignment explanation
Indices: 17637493--17637725 Score: 391
Period size: 129 Copynumber: 1.8 Consensus size: 129
17637483 TAGAACCACA
*
17637493 AGTCTTATCTCCCTAACGTTGCAGTGGAGCAGACAGAAAAAGCTAATCTTATCTCCC-GAAAGTT
1 AGTCTTATCTCCCTAACGTTGCAGTGGAGCAGACAGAAAAAGCTAATCCTATCTCCCTG-AAGTT
*
17637557 GCAGTGGAGCGGATTAAAACCAC-AGATCTTATCTCTCTGAAATTGTAGAAGAGCAGATCGCATC
65 GCAGTGGAGCGGATTAAAACCACAAG-TCTTATCTCCCTGAAATTGTAGAAGAGCAGATCGCATC
17637621 C
129 C
*
17637622 AGTCTTATCTCCCTGAA-GTTGCAGTGGAGCAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTT
1 AGTCTTATCTCCCT-AACGTTGCAGTGGAGCAGACAGAAAAAGCTAATCCTATCTCCCTGAAGTT
17637686 GCAGTGGAGCGGATTAAAACCACAAGTCTTATCTCCCTGA
65 GCAGTGGAGCGGATTAAAACCACAAGTCTTATCTCCCTGA
17637726 CTTTGCAGTG
Statistics
Matches: 98, Mismatches: 3, Indels: 6
0.92 0.03 0.06
Matches are distributed among these distances:
129 93 0.95
130 5 0.05
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (129 bp):
AGTCTTATCTCCCTAACGTTGCAGTGGAGCAGACAGAAAAAGCTAATCCTATCTCCCTGAAGTTG
CAGTGGAGCGGATTAAAACCACAAGTCTTATCTCCCTGAAATTGTAGAAGAGCAGATCGCATCC
Found at i:17637803 original size:44 final size:43
Alignment explanation
Indices: 17636876--17637868 Score: 544
Period size: 44 Copynumber: 22.9 Consensus size: 43
17636866 AACAGATCAG
* ** *
17636876 TAAAACCACAGATCTTATCTCTCTGAAGTTGCAGAAGAGCA-AA
1 TAAAACCACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
*** * * * *
17636919 TCGCATC-CAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACA
1 TAAAACCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T
* * * * *
17636962 GAAGAAGC-TAATCCTATCTCCCTGAAGTTACAGTGGAGCAGAT
1 TAA-AACCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * *
17637005 TAAAACCACAAATCTTATCTCCTTGAAGTTACAGTGGAGCGGGT
1 TAAAACCAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* *
17637049 TAAAACCACAAGTCTTATCTCCCTGATGTTGTAGTGGAGCAGA-
1 TAAAACCACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * * * *
17637092 CAGAACAAGCTAATATTATTTCCCGGAAGTTACAGTGGAGCGGAT
1 TAAAACCA-C-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* *
17637137 TAAAACCACAAATCTTATCTCTCTGAAGTTGTAG-GAGAGCAGA-
1 TAAAACCAC-AATCTTATCTCCCTGAAGTTGCAGTG-GAGCAGAT
*** * * * *
17637180 TCGCACC-CAGTCTTATCTCCCTAAAGTTACAGTGGATG-AGACA
1 TAAAACCACAATCTTATCTCCCTGAAGTTGCAGTGGA-GCAGA-T
* * * * * *
17637223 GAAGAAGC-TAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGAT
1 TAA-AACCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
*
17637266 TAAAACCACAAGTCTTATCT-CCTTAACGTTGCAGTGGAGCAGA-
1 TAAAACCACAA-TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGAT
* * * * *
17637309 CAGAAA-AAGCTAATTTTATCCCCCGGAAGTTGCAGTGGAGCAGAT
1 TA-AAACCA-C-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* ** * **
17637354 TAAAACCATAGATCTTATCTATCTGAAGTTACAGAAGAGCAGA-
1 TAAAACCACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
*** * * * * *
17637397 TCGCATC-TAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACA
1 TAAAACCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T
* * * * * *
17637440 GAAGAAGC-TAATCCTATCTCCCTGAATTTGCAGTGGAGCGGAT
1 TAA-AACCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
*
17637483 TAGAACCACAAGTCTTATCTCCCT-AACGTTGCAGTGGAGCAGA-
1 TAAAACCACAA-TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGAT
* * *
17637526 CAGAAA-AAGCTAATCTTATCTCCC-GAAAGTTGCAGTGGAGCGGAT
1 TA-AAACCA-C-AATCTTATCTCCCTG-AAGTTGCAGTGGAGCAGAT
* * * **
17637571 TAAAACCACAGATCTTATCTCTCTGAAATTGTAGAAGAGCAGA-
1 TAAAACCACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
*** * * *
17637614 TCGCATC-CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
1 TAAAACCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T
* * * * *
17637657 GAAGAAGC-TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
1 TAA-AACCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
**
17637700 TAAAACCACAAGTCTTATCTCCCTGACTTTGCAGTGGAGCAGA-
1 TAAAACCACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* ** *
17637743 CAAAAGAAGCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGAT
1 TAAAACCA-C-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * *
17637788 TAAAACCACAGATCTTATTTCTCTGAAGTTGTAGTAGG-GCAGGT
1 TAAAACCACA-ATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGAT
** * * *
17637832 T-GCATC-CAGTCTTATCTCCATGAAGTTGCAGTGGAGC
1 TAAAACCACAATCTTATCTCCCTGAAGTTGCAGTGGAGC
17637869 GGACAGAAGA
Statistics
Matches: 709, Mismatches: 189, Indels: 106
0.71 0.19 0.11
Matches are distributed among these distances:
40 2 0.00
41 121 0.17
42 24 0.03
43 57 0.08
44 474 0.67
45 31 0.04
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (43 bp):
TAAAACCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
Found at i:17642805 original size:16 final size:16
Alignment explanation
Indices: 17642784--17642846 Score: 99
Period size: 16 Copynumber: 3.9 Consensus size: 16
17642774 TTTGGTTCGC
*
17642784 TGTAATGAAATAGAGG
1 TGTAATGGAATAGAGG
17642800 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
* *
17642816 GGTAATGGAATAGAGA
1 TGTAATGGAATAGAGG
17642832 TGTAATGGAATAGAG
1 TGTAATGGAATAGAG
17642847 ACATAATAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:17642853 original size:16 final size:16
Alignment explanation
Indices: 17642785--17642853 Score: 75
Period size: 16 Copynumber: 4.3 Consensus size: 16
17642775 TTGGTTCGCT
* **
17642785 GTAATGAAATAGAGGT
1 GTAATGGAATAGAGAC
**
17642801 GTAATGGAATAGAGGG
1 GTAATGGAATAGAGAC
*
17642817 GTAATGGAATAGAGAT
1 GTAATGGAATAGAGAC
17642833 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGAC
*
17642849 ATAAT
1 GTAAT
17642854 AGTAATTCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.43, C:0.01, G:0.32, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGAC
Found at i:17642886 original size:45 final size:44
Alignment explanation
Indices: 17642831--17642927 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 44
17642821 TGGAATAGAG
17642831 ATGTAATGGAATAGAGACATAATAGTAATTCAAT-TGTTTGGTTGA
1 ATGTAATGGAATAGAGACATAATAGT-ATTC-ATGTGTTTGGTTGA
* * * *
17642876 ATGTAATGGAATAGAGGCGTGATAGTATTCTTGTGTTTGGTTGA
1 ATGTAATGGAATAGAGACATAATAGTATTCATGTGTTTGGTTGA
*
17642920 ATGGAATG
1 ATGTAATG
17642928 ATGTTGTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (44 bp):
ATGTAATGGAATAGAGACATAATAGTATTCATGTGTTTGGTTGA
Found at i:17645633 original size:20 final size:19
Alignment explanation
Indices: 17645588--17645641 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
17645578 ATAAAATCAA
17645588 TAAAATTT-ATAAAAA-AT
1 TAAAATTTAATAAAAATAT
*
17645605 TAAAGTTTAATAAAAATATT
1 TAAAATTTAATAAAAATA-T
*
17645625 TAAAATTTATTAAAAAT
1 TAAAATTTAATAAAAAT
17645642 TAGAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.23
18 7 0.23
19 1 0.03
20 16 0.52
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TAAAATTTAATAAAAATAT
Found at i:17645679 original size:19 final size:17
Alignment explanation
Indices: 17645648--17645771 Score: 65
Period size: 19 Copynumber: 6.8 Consensus size: 17
17645638 AAATTAGAAA
17645648 AAAAAATTA-AAAATCGT
1 AAAAAATTATAAAAT-GT
*
17645665 AAAAAATATATAAAATTTT
1 AAAAAAT-TATAAAA-TGT
* *
17645684 ATAAAAATCATAAAATAT
1 A-AAAAATTATAAAATGT
** * *
17645702 AAAATTTTATAAAGTCAT
1 AAAAAATTATAAAAT-GT
17645720 AAGAAAATTATAAACAATGT
1 AA-AAAATTAT-AA-AATGT
17645740 AAAGAAA-TATAAAATTTGT
1 AAA-AAATTATAAAA--TGT
17645759 AAAAAA-TATAAAA
1 AAAAAATTATAAAA
17645772 ATTATCGTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
17 19 0.22
18 21 0.25
19 28 0.33
20 15 0.18
21 2 0.02
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (17 bp):
AAAAAATTATAAAATGT
Found at i:17645999 original size:30 final size:30
Alignment explanation
Indices: 17645960--17646022 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
17645950 TTTTATGCAT
*
17645960 TTTATAATTTTTT-TATGATTTTTATGAAAA
1 TTTACAATTTTTTATAT-ATTTTTATGAAAA
* *
17645990 TTTACAATTTTTTATATTTTTTTATTAAAA
1 TTTACAATTTTTTATATATTTTTATGAAAA
17646020 TTT
1 TTT
17646023 GATAAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (30 bp):
TTTACAATTTTTTATATATTTTTATGAAAA
Found at i:17665223 original size:19 final size:19
Alignment explanation
Indices: 17665199--17665235 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
17665189 AAAGCATAAA
17665199 TATTATTGTCGAGAAAAGT
1 TATTATTGTCGAGAAAAGT
17665218 TATTATTGTCGAGAAAAG
1 TATTATTGTCGAGAAAAG
17665236 AATCAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (19 bp):
TATTATTGTCGAGAAAAGT
Found at i:17672211 original size:15 final size:16
Alignment explanation
Indices: 17672179--17672212 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
17672169 CCCACACTCA
17672179 ATTAAACATATATCAC
1 ATTAAACATATATCAC
17672195 ATTAAACATAT-TCAC
1 ATTAAACATATATCAC
17672210 ATT
1 ATT
17672213 TTATGATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTAAACATATATCAC
Found at i:17674180 original size:130 final size:131
Alignment explanation
Indices: 17673947--17674443 Score: 497
Period size: 130 Copynumber: 3.9 Consensus size: 131
17673937 GTGACAGTTA
* * * *
17673947 ATTTATGAG-CACAACTGATATTGTTAAGGCTCGCTGATTTACGATCACAGCCTAAGTTTATTGA
1 ATTTACGAGTCACAACTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTAAGTTCATTGA
** * * * *
17674011 TTTATGATCATAAAAAATCTTCTCTGAGTTAGGTGATTTACTATCACTACTCCAAATAGCTCCCT
66 TTTACAATCATGAACAATCTTCTCTGAGTTAGTTGATTTACTATCACTACTCCAAATAGCTCACT
17674076 G
131 G
* * ** *
17674077 ATTTATG-GTCACAGCTGATATTATTAAGGCTCATTGATTTACGATCA-AAGCCTAAGTTTATTG
1 ATTTACGAGTCACAACTGATATTATTAAGGCTCGCTGATTTACGATCACAA-CCTAAGTTCATTG
* * * * *
17674140 ATTTACAATCATGAATAATCTTCTCTGAGTTAGTTGATTTACTA-CTACTCCTCTAAACAACTCA
65 ATTTACAATCATGAACAATCTTCTCTGAGTTAGTTGATTTACTATC-ACTACTCCAAATAGCTCA
17674204 CTG
129 CTG
* *
17674207 ATTTACGAGTCACAACTG---------A--CTCCCTGATGTACGATCACAACCTACA-TTCATTG
1 ATTTACGAGTCACAACTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTA-AGTTCATTG
* * * *
17674260 ATTTACAATCATGAACAATATTCTCTGAGTTAGTTTATTTATTATCACTACTCCAAATAGCTCGC
65 ATTTACAATCATGAACAATCTTCTCTGAGTTAGTTGATTTACTATCACTACTCCAAATAGCTCAC
*
17674325 TA
130 TG
** * * * *
17674327 ATTTAC-AACCACATCTGATATTATTAAGGCTCGTTGATTTACAATCACAACCTAAGTTCATTGG
1 ATTTACGAGTCACAACTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTAAGTTCATTGA
* * * * * *
17674391 TTCACAATCATGAACAATCTCCTTTAAGTTACTTGATTTATTATCACTACTCC
66 TTTACAATCATGAACAATCTTCTCTGAGTTAGTTGATTTACTATCACTACTCC
17674444 TAACACTGAT
Statistics
Matches: 302, Mismatches: 46, Indels: 38
0.78 0.12 0.10
Matches are distributed among these distances:
119 8 0.03
120 86 0.28
121 4 0.01
122 1 0.00
128 1 0.00
129 4 0.01
130 189 0.63
131 9 0.03
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (131 bp):
ATTTACGAGTCACAACTGATATTATTAAGGCTCGCTGATTTACGATCACAACCTAAGTTCATTGA
TTTACAATCATGAACAATCTTCTCTGAGTTAGTTGATTTACTATCACTACTCCAAATAGCTCACT
G
Found at i:17674239 original size:26 final size:25
Alignment explanation
Indices: 17674199--17674247 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
17674189 CCTCTAAACA
*
17674199 ACTCACTGATTTACGAGTCACAACTG
1 ACTCACTGATGTACGA-TCACAACTG
*
17674225 ACTCCCTGATGTACGATCACAAC
1 ACTCACTGATGTACGATCACAAC
17674248 CTACATTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (25 bp):
ACTCACTGATGTACGATCACAACTG
Found at i:17674331 original size:120 final size:120
Alignment explanation
Indices: 17674111--17674332 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 120
17674101 TAAGGCTCAT
* * * *
17674111 TGATTTACGATCAAAGCCTAAGTTTATTGATTTACAATCATGAATAATCTTCTCTGAGTTAGTTG
1 TGATGTACGATCAAAGCCTAAGTTCATTGATTTACAATCATGAACAATATTCTCTGAGTTAGTTG
* * *
17674176 ATTTACTACTACTCCTCTAAACAACTCACTGATTTACGAGTCACAACTGACTCCC
66 ATTTACTACTACTACTCCAAACAACTCACTAATTTACGAGTCACAACTGACTCCC
17674231 TGATGTACGATCACAA-CCTACA-TTCATTGATTTACAATCATGAACAATATTCTCTGAGTTAGT
1 TGATGTACGATCA-AAGCCTA-AGTTCATTGATTTACAATCATGAACAATATTCTCTGAGTTAGT
* * * * *
17674294 TTATTTATTA-TCACTACTCCAAATAGCTCGCTAATTTAC
64 TGATTTACTACT-ACTACTCCAAACAACTCACTAATTTAC
17674333 AACCACATCT
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
119 1 0.01
120 83 0.95
121 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.36
Consensus pattern (120 bp):
TGATGTACGATCAAAGCCTAAGTTCATTGATTTACAATCATGAACAATATTCTCTGAGTTAGTTG
ATTTACTACTACTACTCCAAACAACTCACTAATTTACGAGTCACAACTGACTCCC
Found at i:17674429 original size:250 final size:250
Alignment explanation
Indices: 17673980--17674430 Score: 618
Period size: 250 Copynumber: 1.8 Consensus size: 250
17673970 TTAAGGCTCG
* * * ** *
17673980 CTGATTTACGATCACAGCCTAAGTTTATTGATTTATGATCATAAAAAATCTTCTCTGAGTTAGGT
1 CTGATGTACGATCACAACCTAAGTTCATTGATTTACAATCATAAAAAATATTCTCTGAGTTAGGT
* ****
17674045 GATTTACTATCACTACTCCAAATAGCTCCCTGATTTATGGTCACAGCTGATATTATTAAGGCTCA
66 GATTTACTATCACTACTCCAAATAGCTCCCTAATTTACAACCACAGCTGATATTATTAAGGCTCA
* * * * * * *
17674110 TTGATTTACGATCAAAGCCTAAGTTTATTGATTTACAATCATGAATAATCTTCTCTGAGTTAGTT
131 TTGATTTACAATCAAAGCCTAAGTTCATTGATTCACAATCATGAACAATCTCCTCTAAGTTACTT
17674175 GATTTACTACTACTCCTCTAAACAACTCACTGATTTACGAGTCACAACTGACTCC
196 GATTTACTACTACTCCTCTAAACAACTCACTGATTTACGAGTCACAACTGACTCC
* * *
17674230 CTGATGTACGATCACAACCTACA-TTCATTGATTTACAATCATGAACAATATTCTCTGAGTTAGT
1 CTGATGTACGATCACAACCTA-AGTTCATTGATTTACAATCATAAAAAATATTCTCTGAGTTAGG
* * * *
17674294 TTATTTATTATCACTACTCCAAATAGCTCGCTAATTTACAACCACATCTGATATTATTAAGGCTC
65 TGATTTACTATCACTACTCCAAATAGCTCCCTAATTTACAACCACAGCTGATATTATTAAGGCTC
* * *
17674359 GTTGATTTACAATCACAA-CCTAAGTTCATTGGTTCACAATCATGAACAATCTCCTTTAAGTTAC
130 ATTGATTTACAATCA-AAGCCTAAGTTCATTGATTCACAATCATGAACAATCTCCTCTAAGTTAC
17674423 TTGATTTA
194 TTGATTTA
17674431 TTATCACTAC
Statistics
Matches: 171, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
250 168 0.98
251 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (250 bp):
CTGATGTACGATCACAACCTAAGTTCATTGATTTACAATCATAAAAAATATTCTCTGAGTTAGGT
GATTTACTATCACTACTCCAAATAGCTCCCTAATTTACAACCACAGCTGATATTATTAAGGCTCA
TTGATTTACAATCAAAGCCTAAGTTCATTGATTCACAATCATGAACAATCTCCTCTAAGTTACTT
GATTTACTACTACTCCTCTAAACAACTCACTGATTTACGAGTCACAACTGACTCC
Found at i:17674789 original size:3 final size:3
Alignment explanation
Indices: 17674781--17674983 Score: 192
Period size: 3 Copynumber: 68.0 Consensus size: 3
17674771 CAGTGAGCTA
17674781 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * *
17674828 TAC TTC ATC TTC TTC TTC -TC TTC CTC ATCC TTC -TC ATT- TTCC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC -TTC TT-C TTC
* * *
17674873 TTC TTC -TC ATT- TTCC TTT TTC TTC TTC TCC TCC TTC TTC TT- TTCC
1 TTC TTC TTC -TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C
17674918 TTC -TC TT- TCTC ATT- TTCC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC T-TC -TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC
17674963 TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC
17674984 GATAGCATTT
Statistics
Matches: 169, Mismatches: 12, Indels: 38
0.77 0.05 0.17
Matches are distributed among these distances:
2 19 0.11
3 137 0.81
4 12 0.07
5 1 0.01
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:17677542 original size:22 final size:22
Alignment explanation
Indices: 17677514--17677555 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
17677504 CCACCCGACG
17677514 CACATTTATGACTAATTAACAC
1 CACATTTATGACTAATTAACAC
17677536 CACATTTATGACTAATTAAC
1 CACATTTATGACTAATTAAC
17677556 TATCATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.33
Consensus pattern (22 bp):
CACATTTATGACTAATTAACAC
Found at i:17683419 original size:22 final size:24
Alignment explanation
Indices: 17683394--17683437 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
17683384 AAATTGGTTG
*
17683394 TATAAAAATA-AAAAT-ATTAACT
1 TATAAAAAAACAAAATGATTAACT
17683416 TATAAAAAAACAAAATGATTAA
1 TATAAAAAAACAAAATGATTAA
17683438 AATTTGCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 5 0.26
24 5 0.26
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (24 bp):
TATAAAAAAACAAAATGATTAACT
Found at i:17684527 original size:22 final size:22
Alignment explanation
Indices: 17684502--17684553 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
17684492 ATGAATCTAA
17684502 TATAATTTCC-ACAATTTTAATT
1 TATAATTTCCTA-AATTTTAATT
***
17684524 TATAAACCCCTAAATTTTAATT
1 TATAATTTCCTAAATTTTAATT
17684546 TATAATTT
1 TATAATTT
17684554 TCATAATTAG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.48
Consensus pattern (22 bp):
TATAATTTCCTAAATTTTAATT
Found at i:17684929 original size:16 final size:15
Alignment explanation
Indices: 17684910--17684950 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
17684900 TACAAACAAT
*
17684910 AAATTTTGAATATTCA
1 AAATTTTAAATATT-A
17684926 AAATTTTAAATATTA
1 AAATTTTAAATATTA
17684941 AATATTTTAA
1 AA-ATTTTAA
17684951 TTCCCAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
AAATTTTAAATATTA
Found at i:17685644 original size:6 final size:6
Alignment explanation
Indices: 17685635--17685668 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
17685625 CTCAATCATT
17685635 ATCACC ATCACC ATCACC ATCACC ATCACC ATCA
1 ATCACC ATCACC ATCACC ATCACC ATCACC ATCA
17685669 TATATAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.47, G:0.00, T:0.18
Consensus pattern (6 bp):
ATCACC
Found at i:17685702 original size:8 final size:8
Alignment explanation
Indices: 17685691--17685717 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
17685681 TAAAGTAAAC
17685691 AAACATTA
1 AAACATTA
17685699 AAACATTA
1 AAACATTA
17685707 AAACATTA
1 AAACATTA
17685715 AAA
1 AAA
17685718 TTGTGATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (8 bp):
AAACATTA
Found at i:17686082 original size:10 final size:9
Alignment explanation
Indices: 17686049--17686109 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
17686039 TTCACATCCT
17686049 TCTCTCAAC
1 TCTCTCAAC
*
17686058 TC-CTTCAAT
1 TCTC-TCAAC
17686067 TCTCTCAAAC
1 TCTCTC-AAC
17686077 TCTCTCAAAC
1 TCTCTC-AAC
* *
17686087 CCTCTCAAG
1 TCTCTCAAC
17686096 TCTCTCAAC
1 TCTCTCAAC
17686105 TCTCT
1 TCTCT
17686110 TGTTTTTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 1 0.02
9 24 0.56
10 18 0.42
ACGTcount: A:0.23, C:0.41, G:0.02, T:0.34
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:17686091 original size:12 final size:10
Alignment explanation
Indices: 17686067--17686109 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
17686057 CTCCTTCAAT
17686067 TCTCTCAAAC
1 TCTCTCAAAC
17686077 TCTCTCAAAC
1 TCTCTCAAAC
* *
17686087 CCTCTC-AAG
1 TCTCTCAAAC
17686096 TCTCTC-AAC
1 TCTCTCAAAC
17686105 TCTCT
1 TCTCT
17686110 TGTTTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 14 0.48
10 15 0.52
ACGTcount: A:0.23, C:0.42, G:0.02, T:0.33
Consensus pattern (10 bp):
TCTCTCAAAC
Found at i:17688412 original size:24 final size:24
Alignment explanation
Indices: 17688379--17688435 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
17688369 TAGGCCTGCA
*
17688379 ACTCCAGATACATC-TCTGGATGCT
1 ACTCCGGATACATCTTC-GGATGCT
17688403 ACTCCGGATACATCTTCGGATGCT
1 ACTCCGGATACATCTTCGGATGCT
17688427 ACTCCGGAT
1 ACTCCGGAT
17688436 GCACCTCCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 29 0.94
25 2 0.06
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (24 bp):
ACTCCGGATACATCTTCGGATGCT
Found at i:17688434 original size:12 final size:12
Alignment explanation
Indices: 17688396--17688437 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
17688386 ATACATCTCT
17688396 GGATGCTACTCC
1 GGATGCTACTCC
* *
17688408 GGATAC-ATCTTC
1 GGATGCTA-CTCC
17688420 GGATGCTACTCC
1 GGATGCTACTCC
17688432 GGATGC
1 GGATGC
17688438 ACCTCCGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (12 bp):
GGATGCTACTCC
Found at i:17690741 original size:12 final size:12
Alignment explanation
Indices: 17690724--17690750 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17690714 AACATTGGTC
17690724 TTGTTTTTTTTT
1 TTGTTTTTTTTT
17690736 TTGTTTTTTTTT
1 TTGTTTTTTTTT
17690748 TTG
1 TTG
17690751 CTAGAGCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (12 bp):
TTGTTTTTTTTT
Found at i:17692737 original size:40 final size:41
Alignment explanation
Indices: 17692693--17692789 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
17692683 GGAGTAATCC
*
17692693 TAACTTGTTTGAAAATCATTTTGA--TGTGTTAAAATGATTT
1 TAACTTGTTTGAAAATCATTTTGACTTG-GTTAAAATCATTT
*
17692733 TAACTTGGTTG-AAATCATTTTGACTTGGTTAAAATCATTT
1 TAACTTGTTTGAAAATCATTTTGACTTGGTTAAAATCATTT
*
17692773 TAACTTGATTTTAAAAT
1 TAACTTG-TTTGAAAAT
17692790 TGTTTCAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
39 12 0.24
40 29 0.59
41 4 0.08
42 4 0.08
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (41 bp):
TAACTTGTTTGAAAATCATTTTGACTTGGTTAAAATCATTT
Found at i:17692752 original size:20 final size:20
Alignment explanation
Indices: 17692693--17692779 Score: 97
Period size: 20 Copynumber: 4.3 Consensus size: 20
17692683 GGAGTAATCC
*
17692693 TAACTTGTTTGAAAATCATTT
1 TAACTTGGTT-AAAATCATTT
* *
17692714 TGA--TGTGTTAAAATGATTT
1 TAACTTG-GTTAAAATCATTT
*
17692733 TAACTTGGTTGAAATCATTT
1 TAACTTGGTTAAAATCATTT
*
17692753 TGACTTGGTTAAAATCATTT
1 TAACTTGGTTAAAATCATTT
17692773 TAACTTG
1 TAACTTG
17692780 ATTTTAAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
19 13 0.24
20 37 0.69
21 4 0.07
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (20 bp):
TAACTTGGTTAAAATCATTT
Found at i:17697039 original size:318 final size:318
Alignment explanation
Indices: 17696459--17697074 Score: 1196
Period size: 318 Copynumber: 1.9 Consensus size: 318
17696449 CTTTCTCAAG
17696459 AATTTGTAAGCTTTTGTGACTCTAATGGGATCCATAGACAACTTACTGCAGCTTATACTCCTCAA
1 AATTTGTAAGCTTTTGTGACTCTAATGGGATCCATAGACAACTTACTGCAGCTTATACTCCTCAA
*
17696524 CAAAGCTTGGTAAGAGACTTGGAACATTACTTCTTAGTAATAGACTTCAAATAATATTTAAGATT
66 CAAAGCTTGGTAAGAGACTTGGAACATTACTTCTTAGTAAGAGACTTCAAATAATATTTAAGATT
17696589 ATTCGATTCTTTTCAGGTTGAAAAGAAAGTTTGAATGTTAATTAAATCCTTGTCAACAGAAACCC
131 ATTCGATTCTTTTCAGGTTGAAAAGAAAGTTTGAATGTTAATTAAATCCTTGTCAACAGAAACCC
*
17696654 TACACATGCTGTTCAAAATATGACACCGGAAGAAGCTTGGTCAGGTCGACAATCGGATGTACATC
196 TACACATGCTGTTCAAAATATGACACCGGAAGAAGCTTGGTCAGGTCGACAACCGGATGTACATC
17696719 ATTTCAGGGTGTTCAGATGTGTTGCTTATTCTCATGTGATCCATAGACAACTTACTTA
261 ATTTCAGGGTGTTCAGATGTGTTGCTTATTCTCATGTGATCCATAGACAACTTACTTA
17696777 AATTTGTAAGCTTTTGTGACTCTAATGGGATCCATAGACAACTTACTGCAGCTTATACTCCTCAA
1 AATTTGTAAGCTTTTGTGACTCTAATGGGATCCATAGACAACTTACTGCAGCTTATACTCCTCAA
17696842 CAAAGCTTGGTAAGAGACTTGGAACATTACTTCTTAGTAAGAGACTTCAAATAATATTTAAGATT
66 CAAAGCTTGGTAAGAGACTTGGAACATTACTTCTTAGTAAGAGACTTCAAATAATATTTAAGATT
17696907 ATTCGATTCTTTTCAGGTTGAAAAGAAAGTTTGAATGTTAATTAAATCCTTGTCAACAGAAACCC
131 ATTCGATTCTTTTCAGGTTGAAAAGAAAGTTTGAATGTTAATTAAATCCTTGTCAACAGAAACCC
* *
17696972 TGCACATGCTGTTCAAAATATGACACCGGAAGAAGCTTGGTCAGGTCGACAACCGGATGTGCATC
196 TACACATGCTGTTCAAAATATGACACCGGAAGAAGCTTGGTCAGGTCGACAACCGGATGTACATC
17697037 ATTTCAGGGTGTTCAGATGTGTTGCTTATTCTCATGTG
261 ATTTCAGGGTGTTCAGATGTGTTGCTTATTCTCATGTG
17697075 CTGGATCAGA
Statistics
Matches: 294, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
318 294 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (318 bp):
AATTTGTAAGCTTTTGTGACTCTAATGGGATCCATAGACAACTTACTGCAGCTTATACTCCTCAA
CAAAGCTTGGTAAGAGACTTGGAACATTACTTCTTAGTAAGAGACTTCAAATAATATTTAAGATT
ATTCGATTCTTTTCAGGTTGAAAAGAAAGTTTGAATGTTAATTAAATCCTTGTCAACAGAAACCC
TACACATGCTGTTCAAAATATGACACCGGAAGAAGCTTGGTCAGGTCGACAACCGGATGTACATC
ATTTCAGGGTGTTCAGATGTGTTGCTTATTCTCATGTGATCCATAGACAACTTACTTA
Found at i:17704955 original size:13 final size:14
Alignment explanation
Indices: 17704929--17704976 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
17704919 AGTTATATGA
*
17704929 TTTTATAAAATATT
1 TTTTATAAATTATT
17704943 TTTTAT-AATTATT
1 TTTTATAAATTATT
* *
17704956 TTTTATGAATTGAAT
1 TTTTATAAATT-ATT
17704971 TTTTAT
1 TTTTAT
17704977 TAAAAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 12 0.40
14 10 0.33
15 8 0.27
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (14 bp):
TTTTATAAATTATT
Found at i:17705662 original size:21 final size:21
Alignment explanation
Indices: 17705645--17705696 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
17705635 TCTTAACCTT
17705645 TAACCCCTAACCCCTAACCCC
1 TAACCCCTAACCCCTAACCCC
* * ***
17705666 TAACCCTTAACCCTTAATTAC
1 TAACCCCTAACCCCTAACCCC
17705687 TAACCCCTAA
1 TAACCCCTAA
17705697 ACCTTATTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.23
Consensus pattern (21 bp):
TAACCCCTAACCCCTAACCCC
Found at i:17705679 original size:7 final size:7
Alignment explanation
Indices: 17705636--17705682 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
17705626 ATCACTAGCT
17705636 CTTAACC
1 CTTAACC
*
17705643 TTTAACC
1 CTTAACC
*
17705650 CCTAACC
1 CTTAACC
*
17705657 CCTAACC
1 CTTAACC
*
17705664 CCTAACC
1 CTTAACC
17705671 CTTAACC
1 CTTAACC
17705678 CTTAA
1 CTTAA
17705683 TTACTAACCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.30, C:0.45, G:0.00, T:0.26
Consensus pattern (7 bp):
CTTAACC
Found at i:17705696 original size:7 final size:7
Alignment explanation
Indices: 17705645--17705678 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
17705635 TCTTAACCTT
17705645 TAACCCC
1 TAACCCC
17705652 TAACCCC
1 TAACCCC
17705659 TAACCCC
1 TAACCCC
*
17705666 TAACCCT
1 TAACCCC
17705673 TAACCC
1 TAACCC
17705679 TTAATTACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.53, G:0.00, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:17705889 original size:21 final size:21
Alignment explanation
Indices: 17705863--17705903 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17705853 AACCTTAAAT
* *
17705863 CCCTAACTCTTAATCCCTAAC
1 CCCTAACCCTTAACCCCTAAC
17705884 CCCTAACCCTTAACCCCTAA
1 CCCTAACCCTTAACCCCTAA
17705904 ATCACAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.46, G:0.00, T:0.24
Consensus pattern (21 bp):
CCCTAACCCTTAACCCCTAAC
Found at i:17706466 original size:41 final size:40
Alignment explanation
Indices: 17706360--17706475 Score: 135
Period size: 41 Copynumber: 2.9 Consensus size: 40
17706350 AAATGTTTTT
*
17706360 GCGGCGCTTTTTCAAAAACGCCGCTAAA-TCCCGAGCATTA
1 GCGGCGCTTTTT-AAAAACGCCGCTAAAGCCCCGAGCATTA
** * *
17706400 GCGGCGCTTCTTGGAAAATGACGCTAAAGCCCCGAGCATTA
1 GCGGCGCTT-TTTAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
17706441 GCTGCTTCTTTTTAAAAACGCCGCTAAAGCCCCGA
1 GCGGC-GCTTTTTAAAAACGCCGCTAAAGCCCCGA
17706476 AAGATCACAA
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
40 21 0.34
41 38 0.61
42 3 0.05
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
GCGGCGCTTTTTAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:17707613 original size:44 final size:44
Alignment explanation
Indices: 17707550--17707681 Score: 192
Period size: 44 Copynumber: 3.0 Consensus size: 44
17707540 TTAATGCAAT
* *
17707550 ATTTGGTAGTACAAAATTAGTTGAAAGCTCCAAAAGAGCTAATA
1 ATTTGATAGTACAAAATTAGTTGAAAGCTCCAGAAGAGCTAATA
* ** * *
17707594 ATTTGCTAGTACAAAATTAGTTGAAAGCTTTAGAACAGCTAATT
1 ATTTGATAGTACAAAATTAGTTGAAAGCTCCAGAAGAGCTAATA
*
17707638 ATTTGATAGTACAAAATTAGTTGAAAACTCCAGAAGAGCTAATA
1 ATTTGATAGTACAAAATTAGTTGAAAGCTCCAGAAGAGCTAATA
17707682 TATCAATATC
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 76 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (44 bp):
ATTTGATAGTACAAAATTAGTTGAAAGCTCCAGAAGAGCTAATA
Found at i:17718441 original size:25 final size:24
Alignment explanation
Indices: 17718395--17718446 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
17718385 CATACCACAA
*
17718395 CTCTTTATCAGCGTCTCGATATAGG
1 CTCTTTATCAGCGTCTCAATAT-GG
*
17718420 CTCTTTATTAGCGT-TCTAATATGG
1 CTCTTTATCAGCGTCTC-AATATGG
17718444 CTC
1 CTC
17718447 AGTTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (24 bp):
CTCTTTATCAGCGTCTCAATATGG
Found at i:17734388 original size:21 final size:22
Alignment explanation
Indices: 17734358--17734399 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
17734348 ATATATATCA
17734358 TGTTTAGTTAA-TAATTAAGTT
1 TGTTTAGTTAACTAATTAAGTT
*
17734379 TGTTTGGTTAACTTAATTAAG
1 TGTTTAGTTAAC-TAATTAAG
17734400 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (22 bp):
TGTTTAGTTAACTAATTAAGTT
Found at i:17739721 original size:44 final size:45
Alignment explanation
Indices: 17739658--17739751 Score: 156
Period size: 44 Copynumber: 2.1 Consensus size: 45
17739648 TATTACAATA
17739658 CCATTCCATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATT
1 CCATTCCATTCAACCAAACA-ATAGAATTACTATTACAGTTCTATT
*
17739702 CCATTCCATTCAACCAAACAATTGAATTACTATTACAGTTCTATT
1 CCATTCCATTCAACCAAACAATAGAATTACTATTACAGTTCTATT
17739747 CCATT
1 CCATT
17739752 ACAGCTCTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 23 0.49
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (45 bp):
CCATTCCATTCAACCAAACAATAGAATTACTATTACAGTTCTATT
Found at i:17739754 original size:16 final size:16
Alignment explanation
Indices: 17739733--17739800 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
17739723 TTGAATTACT
*
17739733 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
17739749 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
*
17739765 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
17739781 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
17739797 ATTA
1 ATTA
17739801 TAGCGAACCA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:17740626 original size:16 final size:16
Alignment explanation
Indices: 17740605--17740655 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
17740595 TTTGGTTCGC
17740605 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17740621 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
17740637 TGTAAT-GAATAGAGG
1 TGTATTGGATTAGAGG
17740652 TGTA
1 TGTA
17740656 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:17745484 original size:13 final size:13
Alignment explanation
Indices: 17745466--17745493 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17745456 CAATACAGGC
17745466 AAGAACCGAAACA
1 AAGAACCGAAACA
17745479 AAGAACCGAAACA
1 AAGAACCGAAACA
17745492 AA
1 AA
17745494 TAATGCAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.21, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGAACCGAAACA
Found at i:17747482 original size:3 final size:3
Alignment explanation
Indices: 17747474--17747549 Score: 89
Period size: 3 Copynumber: 25.3 Consensus size: 3
17747464 TCTTTAAAAA
* * * * * *
17747474 TAT TAT TAT TGT TAT TAT CAT GAT CAT GAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
17747522 TAT TAT TAT TAT TAT TAT TAT TAA TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17747550 CAAATCAAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:17747625 original size:3 final size:3
Alignment explanation
Indices: 17747617--17747655 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
17747607 GTTACTGGGA
17747617 TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17747656 CAAATCAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:17747696 original size:106 final size:107
Alignment explanation
Indices: 17747510--17747722 Score: 410
Period size: 106 Copynumber: 2.0 Consensus size: 107
17747500 TGATCATTAT
17747510 TATTATTATTATTATTATTATTATTATTATTATTAATATTCAAATCAAAGAACTCTATCAAATGC
1 TATTATTATTATTATTATTATTATTATTATTATTAATATTCAAATCAAAGAACTCTATCAAATGC
17747575 AAAACTGCTAATAATTTCCATTTTTTGGTTCAGTTACTGGGA
66 AAAACTGCTAATAATTTCCATTTTTTGGTTCAGTTACTGGGA
*
17747617 TATTATTATT-TTATTATTATTATTATTATTATTATTATTCAAATCAAAGAACTCTATCAAATGC
1 TATTATTATTATTATTATTATTATTATTATTATTAATATTCAAATCAAAGAACTCTATCAAATGC
17747681 AAAACTGCTAATAATTTCCATTTTTTGGTTCAGTTACTGGGA
66 AAAACTGCTAATAATTTCCATTTTTTGGTTCAGTTACTGGGA
17747723 AGCAAAGTAA
Statistics
Matches: 105, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
106 95 0.90
107 10 0.10
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (107 bp):
TATTATTATTATTATTATTATTATTATTATTATTAATATTCAAATCAAAGAACTCTATCAAATGC
AAAACTGCTAATAATTTCCATTTTTTGGTTCAGTTACTGGGA
Found at i:17749073 original size:17 final size:17
Alignment explanation
Indices: 17749051--17749095 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
17749041 TGAACTGGTC
17749051 ATAAAGTGACTATGATG
1 ATAAAGTGACTATGATG
17749068 ATAAAGTGACTATGATG
1 ATAAAGTGACTATGATG
17749085 ATAAAGTGACT
1 ATAAAGTGACT
17749096 CCAAGAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (17 bp):
ATAAAGTGACTATGATG
Found at i:17752341 original size:74 final size:74
Alignment explanation
Indices: 17752220--17752357 Score: 240
Period size: 74 Copynumber: 1.9 Consensus size: 74
17752210 GGCTGTATAA
* * *
17752220 ACATTTTTTGTGGAATTTGAAATGTCAAGTTTCCTCTTAAAAACATCATTTTATGTGAAGTAAAG
1 ACATTGTTAGTGGAATTTGAAATGTCAAGTTTCCTCTTAAAAACATCATTTGATGTGAAGTAAAG
17752285 GCCGGATAG
66 GCCGGATAG
*
17752294 ACATTGTTAGTGGAATTTGAAATGTCAAGTTTCCTTTTAAAAACATCATTTGATGTGAAGTAAA
1 ACATTGTTAGTGGAATTTGAAATGTCAAGTTTCCTCTTAAAAACATCATTTGATGTGAAGTAAA
17752358 TATGTTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (74 bp):
ACATTGTTAGTGGAATTTGAAATGTCAAGTTTCCTCTTAAAAACATCATTTGATGTGAAGTAAAG
GCCGGATAG
Done.