Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 82 of 295
Found at i:25521018 original size:27 final size:27
Alignment explanation
Indices: 25520936--25521021 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
25520926 ATACCCCTGA
* * *
25520936 TTTACAAAATTACAGAAATATCATTGACTT
1 TTTACAAAATTACTGAAATACCATTG---G
25520966 TTTA-AAAATTA-TAGAAATACCATTGG
1 TTTACAAAATTACT-GAAATACCATTGG
*
25520992 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCATTGG
25521019 TTT
1 TTT
25521022 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
26 4 0.08
27 22 0.45
28 1 0.02
29 18 0.37
30 4 0.08
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCATTGG
Found at i:25521105 original size:27 final size:27
Alignment explanation
Indices: 25521062--25521135 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
25521052 AAACGACTAA
*
25521062 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
25521089 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
25521116 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
25521136 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:25521139 original size:27 final size:27
Alignment explanation
Indices: 25521075--25521139 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
25521065 ACCCCTAATA
*
25521075 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
25521102 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
25521129 GGTAAAATGAC
1 GGTAAAATGAC
25521140 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:25521845 original size:20 final size:20
Alignment explanation
Indices: 25521811--25521887 Score: 106
Period size: 20 Copynumber: 4.0 Consensus size: 20
25521801 GATACGTGGG
25521811 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
25521828 GATATGATATGCACATGATAT
1 G-TATGATATGCACATGATAT
*
25521849 GTATAATATGCACATGATAT
1 GTATGATATGCACATGATAT
*
25521869 GTATGAAATGCACATGATA
1 GTATGATATGCACATGATA
25521888 AATTCATAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
17 1 0.02
18 8 0.15
20 42 0.79
21 2 0.04
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:25521847 original size:11 final size:11
Alignment explanation
Indices: 25521831--25521887 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
25521821 CATGATTGAT
25521831 ATGATATGCAC
1 ATGATATGCAC
*
25521842 ATGATATG--T
1 ATGATATGCAC
*
25521851 ATAATATGCAC
1 ATGATATGCAC
*
25521862 ATGATATG--T
1 ATGATATGCAC
*
25521871 ATGAAATGCAC
1 ATGATATGCAC
25521882 ATGATA
1 ATGATA
25521888 AATTCATAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
9 14 0.41
11 20 0.59
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:25521965 original size:26 final size:26
Alignment explanation
Indices: 25521936--25522111 Score: 248
Period size: 26 Copynumber: 6.8 Consensus size: 26
25521926 GAGGAAGTGC
*
25521936 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
25521962 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
25521988 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
25522014 AAAAAGGGCTTATGCCCCAGTTTACTG
1 -AAAAGGGCTTATGCCCCAGTTTACTG
* *
25522041 AAAAGGGCTTATGCTCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*** *
25522067 AAAAATACTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
25522092 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
25522112 ATTAAAGAGG
Statistics
Matches: 133, Mismatches: 16, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
25 29 0.22
26 79 0.59
27 25 0.19
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:25522044 original size:53 final size:53
Alignment explanation
Indices: 25521936--25522111 Score: 288
Period size: 53 Copynumber: 3.4 Consensus size: 53
25521926 GAGGAAGTGC
25521936 AAAAGGGCTTATGCCCCAGTTTATTG-AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTACCG
*
25521988 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTACCG
* **
25522041 AAAAGGGCTTATGCTCCAGTTTATTGAAAAA-TACTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTACCG
25522092 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
25522112 ATTAAAGAGG
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
50 9 0.08
51 24 0.21
52 29 0.25
53 55 0.47
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (53 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:25522070 original size:79 final size:77
Alignment explanation
Indices: 25521936--25522111 Score: 246
Period size: 79 Copynumber: 2.3 Consensus size: 77
25521926 GAGGAAGTGC
* * *
25521936 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATG
1 AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAAGACTT-TG
**
25522001 CCCCAGTTTATTG
65 CCCCAGTTTACCG
* ** *
25522014 AAAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTTATGCTCCAGTTTATTGAAAAATACTTTG
1 -AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAAGACTTTG
25522079 CCCCAGTTTACCG
65 CCCCAGTTTACCG
25522092 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
25522112 ATTAAAGAGG
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
76 10 0.11
77 10 0.11
78 13 0.15
79 55 0.62
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (77 bp):
AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAAGACTTTGC
CCCAGTTTACCG
Found at i:25522327 original size:42 final size:42
Alignment explanation
Indices: 25522256--25522347 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
25522246 TAGTCTCCCC
* * *
25522256 AAATAGGCTTGCATACATTTATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
25522298 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
25522340 AAATGGGC
1 AAATGGGC
25522348 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:25526489 original size:47 final size:47
Alignment explanation
Indices: 25526435--25526797 Score: 514
Period size: 47 Copynumber: 8.0 Consensus size: 47
25526425 TTAGGATTTT
** *
25526435 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
25526482 ATGTGATGAATATGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
25526529 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
25526576 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
25526623 ATGTGATG--TGTGAACATGCATATATGTGATAA-GCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
25526667 ATGTGATGAATGTGAACATGCATATATGTGATAA-GCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
25526713 ATGTGATGAATGTGAGCATGCATATGTGTGATAA-GCCGAATGG-CA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
25526758 A--TG-TGAATATGAACATG--TATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
25526798 TAGTGTGAAA
Statistics
Matches: 289, Mismatches: 23, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
40 10 0.03
41 9 0.03
42 12 0.04
43 2 0.01
44 19 0.07
45 25 0.09
46 76 0.26
47 136 0.47
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:25526535 original size:22 final size:22
Alignment explanation
Indices: 25526508--25526629 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
25526498 CATGCATATG
25526508 TGTGATAAGGCTGAATGGCCAA
1 TGTGATAAGGCTGAATGGCCAA
* *
25526530 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCTG-A-ATGGC-CA-A
*
25526555 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCTGAATGGCCAA
*
25526577 TGTGATGAATG-TGAGCAT-G-CATA
1 TGTGAT-AAGGCTGA--ATGGCCA-A
*
25526600 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCTGAATGGCCAA
25526624 TGTGAT
1 TGTGAT
25526630 GTGTGAACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 32
0.65 0.08 0.28
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 16 0.21
25 18 0.24
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCTGAATGGCCAA
Found at i:25527007 original size:34 final size:37
Alignment explanation
Indices: 25526960--25527064 Score: 153
Period size: 34 Copynumber: 2.9 Consensus size: 37
25526950 GGAAATATAT
25526960 TCCGGGTAAGACCCGATGACTACGTGTGGAG-TTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
25526996 T-C-GGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
25527031 TCCGGGTAAGACCCGATAACTTCCTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
25527065 TCGTCTGAGC
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
34 27 0.44
35 6 0.10
36 2 0.03
37 27 0.44
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:25527059 original size:37 final size:37
Alignment explanation
Indices: 25526960--25527065 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
25526950 GGAAATATAT
*
25526960 TCCGGGTAAGACCCGATGACTACGTGTGGAG-TTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
25526996 T-C-GGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
25527031 TCCGGGTAAGACCCGATAACTTCCTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
25527066 CGTCTGAGCT
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
34 27 0.43
35 6 0.10
36 2 0.03
37 28 0.44
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:25528393 original size:40 final size:40
Alignment explanation
Indices: 25528329--25528639 Score: 489
Period size: 40 Copynumber: 7.8 Consensus size: 40
25528319 GAGAATTGAG
* * * *
25528329 AGTGATATATTCGAGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
25528369 AGTGATGTATCTGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
25528409 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
25528449 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
25528489 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
25528529 AGTGATATATCCGGGCTAA-TCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
25528568 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
25528608 AGTGATGTATCCGGGCTAGGTCCTGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
25528640 ATCATGCTGG
Statistics
Matches: 255, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
39 37 0.15
40 218 0.85
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:25531796 original size:47 final size:47
Alignment explanation
Indices: 25531742--25532115 Score: 568
Period size: 47 Copynumber: 8.0 Consensus size: 47
25531732 TTCGGATTTT
** *
25531742 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
25531789 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
25531836 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
25531883 ATATGATGAATGTGAGCATGCATATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
25531930 ATGTGATGAATGTGAACATACATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
25531977 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
25532024 ATGTGATGAACGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
25532071 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
25532116 TAGTGTGAAA
Statistics
Matches: 294, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 294 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:25532424 original size:37 final size:37
Alignment explanation
Indices: 25532278--25532422 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
25532268 GGAAATATAT
*
25532278 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
25532315 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
25532352 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
25532389 TCCGGGTAAGACCCGATAACTTCCTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
25532423 TTTTCTGAGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:25538665 original size:45 final size:45
Alignment explanation
Indices: 25538596--25538818 Score: 369
Period size: 45 Copynumber: 5.0 Consensus size: 45
25538586 TTATCGTGCA
25538596 ACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
1 ACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
*
25538641 ACACCATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
1 ACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
25538686 ACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
1 ACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
* * *
25538731 ATACTATTTGGGCCTTTGAGCC-AGCAGGCTACAATGCCGGTGAG
1 ACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
* *
25538775 ATACTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCAGTGA
1 ACACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
25538819 AAGGATATTG
Statistics
Matches: 168, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
43 4 0.02
44 37 0.22
45 127 0.76
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (45 bp):
ACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
Found at i:25541136 original size:39 final size:38
Alignment explanation
Indices: 25541070--25541205 Score: 175
Period size: 39 Copynumber: 3.5 Consensus size: 38
25541060 ACCAGCTCGA
* *
25541070 AGCCTGCGGGACTTTAG-CCTGGATATAATTCCAGCACGT
1 AGCCTGC-GGACTTAAGTCC-GGATATAATTCCAGCACAT
* *
25541109 AGCCTGCGGACCTTAAGTCCGGTTATAATTCTAGCACAT
1 AGCCTGCGGA-CTTAAGTCCGGATATAATTCCAGCACAT
25541148 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGA-CTTAAGTCCGGATATAATTCCAGCACAT
*
25541187 AGTCTGCGGACTCTAAGTC
1 AGCCTGCGGACT-TAAGTC
25541206 TAGATAAACA
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
38 5 0.06
39 80 0.92
40 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (38 bp):
AGCCTGCGGACTTAAGTCCGGATATAATTCCAGCACAT
Found at i:25550335 original size:39 final size:39
Alignment explanation
Indices: 25550310--25550472 Score: 231
Period size: 39 Copynumber: 4.2 Consensus size: 39
25550300 GGACTTTAGC
* * *
25550310 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
* *
25550349 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGA
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
*
25550388 CCAGATATAATTCCAGCACATAGCCTGCGGA-CTCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCT-TAAGT
*
25550427 CCGGATATAATTCCAGCACATAGCCTGCGG-GCTCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCT-TAAGT
25550466 CCGGATA
1 CCGGATA
25550473 AACATCACTG
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 2 0.02
39 111 0.98
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
Found at i:25562310 original size:54 final size:53
Alignment explanation
Indices: 25562181--25562377 Score: 195
Period size: 54 Copynumber: 3.7 Consensus size: 53
25562171 ATTAGGGTTT
* * * **
25562181 AAGGATACCATGTAAGCCCATG-CTAAGGCATGACAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGC-ATTCATAA-G-TTCATAAGGC
* *
25562236 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTCATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTCATAAGTT-C-ATAAGGC
* * ** *
25562291 AAAGG-T-CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTCATAAGTTCATAAGGC
25562343 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
25562378 ATGGTAAGTT
Statistics
Matches: 119, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
51 4 0.03
52 10 0.08
53 29 0.24
54 38 0.32
55 33 0.28
56 5 0.04
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTCATAAGTTCATAAGGC
Found at i:25562647 original size:16 final size:16
Alignment explanation
Indices: 25562626--25562656 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25562616 ATAAATTTGA
25562626 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
25562642 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
25562657 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:25566561 original size:42 final size:42
Alignment explanation
Indices: 25566454--25566561 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 42
25566444 GTACCAATGT
* * *
25566454 CATATCCCAGATATGGTATTATATGTAATCTAGTATCGATGC
1 CATATCCCAGATATGGTATTACACGTAATCTAATATCGATGC
* * * *
25566496 CAATAGCCCAGCTATGGTCTTACACG-AAGTCTAATATCGATTC
1 C-ATATCCCAGATATGGTATTACACGTAA-TCTAATATCGATGC
*
25566539 CATATCCCAGATAAGGTATTACA
1 CATATCCCAGATATGGTATTACA
25566562 TGTTATCTCA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 21 0.40
43 32 0.60
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (42 bp):
CATATCCCAGATATGGTATTACACGTAATCTAATATCGATGC
Found at i:25580403 original size:40 final size:40
Alignment explanation
Indices: 25580348--25580532 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
25580338 CTTGTGCAAG
* * * * *
25580348 GCCTTGGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
25580388 GACTTCGGGACTTAGCCTGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * **
25580428 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCATGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
25580468 GCCTTC-GGATCTTAGTCTGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
25580509 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
25580533 CATTCGAATA
Statistics
Matches: 114, Mismatches: 26, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.03
40 83 0.73
41 25 0.22
42 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:25580443 original size:80 final size:81
Alignment explanation
Indices: 25580348--25580532 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 81
25580338 CTTGTGCAAG
* * *
25580348 GCCTTGGGGTCTTAGCCCGGATGTGGTC-ACTAGCATAAATGACTTCGGGA-CTTAGCCTGGATA
1 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCATAAATGACTTC-GGATCTTAGCCTGGATA
* *
25580411 TAGTC-GCTAGCACAAAT
64 TAGTCACCTAGCACAAAA
* * * * *
25580428 GCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCATGAATGCCTTCGGATCTTAGTCTGGTTATA
1 GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCATAAATGACTTCGGATCTTAGCCTGGATATA
25580493 GTCACCTAGCACAAAA
66 GTCACCTAGCACAAAA
*
25580509 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
25580533 CATTCGAATA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 4 0.04
80 54 0.59
81 33 0.36
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.26
Consensus pattern (81 bp):
GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCATAAATGACTTCGGATCTTAGCCTGGATATA
GTCACCTAGCACAAAA
Found at i:25588378 original size:40 final size:40
Alignment explanation
Indices: 25588332--25588556 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
25588322 CTTGCGCAAG
* * *
25588332 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
25588372 GCCTTCGGGACTTAGCCCGGATATAGTCGCTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
25588412 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
25588452 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGAACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
25588492 GCCTCCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
25588533 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
25588557 CATTCGAATA
Statistics
Matches: 153, Mismatches: 29, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 125 0.82
41 27 0.18
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:25588427 original size:80 final size:80
Alignment explanation
Indices: 25588332--25588556 Score: 290
Period size: 80 Copynumber: 2.8 Consensus size: 80
25588322 CTTGCGCAAG
* * *
25588332 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
25588397 GTC-GCTCGCACAAAT
66 G-CAACTCGAACAAAT
* * * *
25588412 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
25588477 GCAACTCGAACGAAT
66 GCAACTCGAACAAAT
* * * * *
25588492 GCCTCCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
25588557 CATTCGAATA
Statistics
Matches: 124, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
79 1 0.01
80 90 0.73
81 33 0.27
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
GCAACTCGAACAAAT
Found at i:25591190 original size:22 final size:21
Alignment explanation
Indices: 25591145--25591192 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
25591135 CCCTTTGTGC
*
25591145 AAATCTATTAAAAATAAATCA
1 AAATTTATTAAAAATAAATCA
* *
25591166 AAATTTATTATAAAATTAATTA
1 AAATTTATTA-AAAATAAATCA
25591188 AAATT
1 AAATT
25591193 AAAATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATTTATTAAAAATAAATCA
Found at i:25598400 original size:26 final size:26
Alignment explanation
Indices: 25598346--25598404 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
25598336 ACATATATAT
* *
25598346 ATATCTGTTCTGGTGGCCTAGCCATA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
25598372 ATATCTGTTCTGGTGACTTCGTCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
25598398 ATATCTG
1 ATATCTG
25598405 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:25605391 original size:27 final size:26
Alignment explanation
Indices: 25605347--25605398 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
25605337 TTCGCTGCAA
*
25605347 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
25605374 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
25605399 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:25605477 original size:27 final size:26
Alignment explanation
Indices: 25605439--25605498 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
25605429 ACATATATAT
* *
25605439 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
25605465 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
25605492 ATATCTG
1 ATATCTG
25605499 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:25615730 original size:5 final size:5
Alignment explanation
Indices: 25615720--25615766 Score: 58
Period size: 5 Copynumber: 8.6 Consensus size: 5
25615710 CTAAATCCTT
25615720 AATAA AATAA AATACA ATGATAA AATAA AATAA AATAA AAGTAA AAT
1 AATAA AATAA AATA-A A--ATAA AATAA AATAA AATAA AA-TAA AAT
25615767 CCATATAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 26 0.68
6 7 0.18
7 2 0.05
8 3 0.08
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:25616190 original size:16 final size:16
Alignment explanation
Indices: 25616169--25616199 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25616159 ACATATGCTC
25616169 TTTTCTTTTCTTTTCT
1 TTTTCTTTTCTTTTCT
*
25616185 TTTTCTTTTTTTTTC
1 TTTTCTTTTCTTTTC
25616200 ACGAGCATTT
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTCTTTTCTTTTCT
Found at i:25625349 original size:21 final size:22
Alignment explanation
Indices: 25625325--25625369 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
25625315 TATTTAACCC
*
25625325 AAAATAAATTGTATTA-GAATT
1 AAAATAAATTATATTATGAATT
*
25625346 AAAATTAATTATATTATGAATT
1 AAAATAAATTATATTATGAATT
25625368 AA
1 AA
25625370 TATTCATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
AAAATAAATTATATTATGAATT
Found at i:25631537 original size:24 final size:24
Alignment explanation
Indices: 25631506--25631563 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
25631496 TCAGCTCGTA
25631506 AGAGCTTACTGTTCTCAACTC-AT
1 AGAGCTTACTGTTCTCAACTCGAT
* *
25631529 CAGAGCTTACTGTTTTTAACTCGAT
1 -AGAGCTTACTGTTCTCAACTCGAT
25631554 AGAGCTTACT
1 AGAGCTTACT
25631564 ATCCATCAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 29 0.94
25 2 0.06
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (24 bp):
AGAGCTTACTGTTCTCAACTCGAT
Found at i:25631782 original size:20 final size:20
Alignment explanation
Indices: 25631753--25631790 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25631743 TGAATTATTG
*
25631753 TTATATGGATGAAGTACTGT
1 TTATACGGATGAAGTACTGT
*
25631773 TTATACGGATGAGGTACT
1 TTATACGGATGAAGTACT
25631791 ATTATTGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (20 bp):
TTATACGGATGAAGTACTGT
Found at i:25639783 original size:27 final size:27
Alignment explanation
Indices: 25639753--25639854 Score: 141
Period size: 27 Copynumber: 3.8 Consensus size: 27
25639743 CCCTAATTGA
*
25639753 TAAAATGACTATTTTGCCCTTATGGGG
1 TAAAATGACTATTTTGCCCTTATGAGG
*
25639780 TAAAATGACTATTTTTCCCTTATGAGG
1 TAAAATGACTATTTTGCCCTTATGAGG
* * * *
25639807 TAAAATGATTGTTTTTCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGAGG
*
25639834 TAAAATAACTATTTTGCCCTT
1 TAAAATGACTATTTTGCCCTT
25639855 TTATGGTAAG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGAGG
Found at i:25639861 original size:27 final size:27
Alignment explanation
Indices: 25639753--25639868 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
25639743 CCCTAATTGA
**
25639753 TAAAATGACTATTTTGCCCTTATGGGG
1 TAAAATGACTATTTTGCCCTTATATGG
*
25639780 TAAAATGACTATTTTTCCCTTATGA-GG
1 TAAAATGACTATTTTGCCCTTAT-ATGG
* * * *
25639807 TAAAATGATTGTTTTTCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATATGG
* *
25639834 TAAAATAACTATTTTGCCCTTTTATGG
1 TAAAATGACTATTTTGCCCTTATATGG
*
25639861 TAAGATGA
1 TAAAATGA
25639869 TTGTTTTACC
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATATGG
Found at i:25639863 original size:54 final size:54
Alignment explanation
Indices: 25639753--25639886 Score: 162
Period size: 54 Copynumber: 2.5 Consensus size: 54
25639743 CCCTAATTGA
* * * * * *
25639753 TAAAATGACTATTTTGCCCTTATGGGGTAAAATGACTATTTTTCCCTTATGAGG
1 TAAAATGATTGTTTTACCCTTATGTGGTAAAATAACTATTTTGCCCTTATGAGG
* *
25639807 TAAAATGATTGTTTTTCCCTTATGTGGTAAAATAACTATTTTGCCCTT-TTATGG
1 TAAAATGATTGTTTTACCCTTATGTGGTAAAATAACTATTTTGCCCTTATGA-GG
* *
25639861 TAAGATGATTGTTTTACCCCTATGTG
1 TAAAATGATTGTTTTACCCTTATGTG
25639887 ATGTATGTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
53 2 0.03
54 67 0.97
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (54 bp):
TAAAATGATTGTTTTACCCTTATGTGGTAAAATAACTATTTTGCCCTTATGAGG
Found at i:25654958 original size:41 final size:41
Alignment explanation
Indices: 25654913--25655012 Score: 164
Period size: 41 Copynumber: 2.4 Consensus size: 41
25654903 CGACGTTTTT
* * *
25654913 GGTAAAACACCGCTAAAAACCAGAGCATTAGCGGCGCTTTC
1 GGTAAAACGCCGCTAAAAACCAGAGCATTAACAGCGCTTTC
25654954 GGTAAAACGCCGCTAAAAACCAGAGCATTAACAGCGCTTTC
1 GGTAAAACGCCGCTAAAAACCAGAGCATTAACAGCGCTTTC
*
25654995 TGTAAAACGCCGCTAAAA
1 GGTAAAACGCCGCTAAAA
25655013 GTCATATAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (41 bp):
GGTAAAACGCCGCTAAAAACCAGAGCATTAACAGCGCTTTC
Found at i:25655078 original size:22 final size:23
Alignment explanation
Indices: 25655053--25655100 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
25655043 AAAAAATCAT
* *
25655053 AAACACT-AATCTATAACCCCTA
1 AAACACTAAACCTATAAACCCTA
25655075 AAACACTAAACCTATAAACCCTA
1 AAACACTAAACCTATAAACCCTA
25655098 AAA
1 AAA
25655101 ACCCCTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (23 bp):
AAACACTAAACCTATAAACCCTA
Found at i:25655087 original size:54 final size:54
Alignment explanation
Indices: 25655028--25655140 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
25655018 ATAACCCCTA
* *
25655028 AAACCT-TAAACCTCAAAAAAATCATAAACACTAATCTATAACCCCTAAAACACT
1 AAACCTATAAACC-CAAAAAAACCATAAACACTAAACTATAACCCCTAAAACACT
* * * * * *
25655082 AAACCTATAAACCCTAAAAACCCCTAAACATTAAACTATAACCCTTAAAACCCT
1 AAACCTATAAACCCAAAAAAACCATAAACACTAAACTATAACCCCTAAAACACT
25655136 AAACC
1 AAACC
25655141 CAAAAAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
54 44 0.88
55 6 0.12
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.19
Consensus pattern (54 bp):
AAACCTATAAACCCAAAAAAACCATAAACACTAAACTATAACCCCTAAAACACT
Found at i:25655465 original size:7 final size:7
Alignment explanation
Indices: 25655323--25655465 Score: 63
Period size: 7 Copynumber: 20.1 Consensus size: 7
25655313 TATGGATTAT
25655323 GGGTTTA
1 GGGTTTA
**
25655330 GGAATTA
1 GGGTTTA
*
25655337 TGGTTTAA
1 GGGTTT-A
*
25655345 GGG-TTG
1 GGGTTTA
25655351 GGGTTTA
1 GGGTTTA
*
25655358 AGGTTTA
1 GGGTTTA
*
25655365 GGGGTTA
1 GGGTTTA
*
25655372 GGGGTTAA
1 -GGGTTTA
*
25655380 GGGTCTA
1 GGGTTTA
* *
25655387 GGATTAA
1 GGGTTTA
*
25655394 GAGTTTA
1 GGGTTTA
* *
25655401 TGTTTTA
1 GGGTTTA
* *
25655408 TGTTTTA
1 GGGTTTA
25655415 GGGTTTA
1 GGGTTTA
25655422 GGGTTTA
1 GGGTTTA
*
25655429 TGGTTTAA
1 GGGTTT-A
* *
25655437 GGATTAA
1 GGGTTTA
* *
25655444 GGATTAA
1 GGGTTTA
*
25655451 GAGTTTA
1 GGGTTTA
25655458 GGGTTTA
1 GGGTTTA
25655465 G
1 G
25655466 TTAATTAGTG
Statistics
Matches: 98, Mismatches: 34, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
6 3 0.03
7 83 0.85
8 12 0.12
ACGTcount: A:0.23, C:0.01, G:0.36, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:25655774 original size:40 final size:39
Alignment explanation
Indices: 25655716--25655810 Score: 106
Period size: 40 Copynumber: 2.5 Consensus size: 39
25655706 TAACCCCTAA
* * *
25655716 AACCT-TAAACCCCTAAAAAATCATAGACACTAGTCTATAT
1 AACCTCTAAACCCCTAAAAAACCATAAACACTAATC--TAT
*
25655756 AACCTCTAAACCCC-AAAAAACCCTAAACACTAATCTAT
1 AACCTCTAAACCCCTAAAAAACCATAAACACTAATCTAT
*
25655794 AACCCCTAAA-CCCTAAA
1 AACCTCTAAACCCCTAAA
25655811 TCCCAAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
37 3 0.06
38 15 0.31
40 22 0.46
41 8 0.17
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (39 bp):
AACCTCTAAACCCCTAAAAAACCATAAACACTAATCTAT
Found at i:25656392 original size:19 final size:20
Alignment explanation
Indices: 25656357--25656400 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
25656347 TTAGATTTAA
25656357 AAAAACATTGATAAATAAAT
1 AAAAACATTGATAAATAAAT
25656377 AAAAACATTGAT-AATAAAT
1 AAAAACATTGATAAATAAAT
25656396 AAAAA
1 AAAAA
25656401 TGAAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAACATTGATAAATAAAT
Found at i:25656640 original size:6 final size:6
Alignment explanation
Indices: 25656624--25656666 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
25656614 ACCTATACGA
* *
25656624 TCCCTT CCCCTT TCCCTT CCCCTT TCCCTT TCCCTT TCCCTT T
1 TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT T
25656667 GGTTTTGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (6 bp):
TCCCTT
Found at i:25656666 original size:12 final size:12
Alignment explanation
Indices: 25656624--25656665 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
25656614 ACCTATACGA
25656624 TCCCTTCCCCTT
1 TCCCTTCCCCTT
25656636 TCCCTTCCCCTT
1 TCCCTTCCCCTT
*
25656648 TCCCTTTCCCTT
1 TCCCTTCCCCTT
25656660 TCCCTT
1 TCCCTT
25656666 TGGTTTTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (12 bp):
TCCCTTCCCCTT
Found at i:25657894 original size:19 final size:20
Alignment explanation
Indices: 25657870--25657907 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
25657860 GGTACCACCA
25657870 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
25657889 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
25657908 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:25658203 original size:46 final size:45
Alignment explanation
Indices: 25658136--25658304 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 45
25658126 CGCCCCTAAG
* *
25658136 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTT-GCATCCATAAA
* * *
25658182 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTGCATCCATAAA
* * * *
25658229 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGAC-GTTGCATCCATAAA
*
25658275 TGAACTCGGACTCAACTCAACTAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
25658305 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 1 0.01
46 53 0.52
47 28 0.28
48 1 0.01
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTGCATCCATAAA
Found at i:25658247 original size:93 final size:93
Alignment explanation
Indices: 25658137--25658307 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
25658127 GCCCCTAAGT
* * *
25658137 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
25658202 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * *
25658230 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
* *
25658295 CTAGTTCGGATGC
66 CGAGTTCAGATGC
25658308 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:25658760 original size:30 final size:29
Alignment explanation
Indices: 25658726--25658784 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
25658716 ATTTAATACG
25658726 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTT-AAAAAATTACACTTTTGCCCCTA
** *
25658756 AACTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAATTACACTTTTGCCCCTA
25658785 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (29 bp):
AACTTTAAAAAATTACACTTTTGCCCCTA
Found at i:25661402 original size:8 final size:8
Alignment explanation
Indices: 25661389--25661413 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25661379 TGTTACCCCT
25661389 TAAATGGA
1 TAAATGGA
25661397 TAAATGGA
1 TAAATGGA
25661405 TAAATGGA
1 TAAATGGA
25661413 T
1 T
25661414 TCCACCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (8 bp):
TAAATGGA
Found at i:25661702 original size:13 final size:13
Alignment explanation
Indices: 25661659--25661702 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
25661649 GTTTATCTAC
*
25661659 AATATTTAAATTT
1 AATATTTAAAATT
*
25661672 AAAATTTAAAATT
1 AATATTTAAAATT
*
25661685 TATATTTAAAATT
1 AATATTTAAAATT
25661698 AATAT
1 AATAT
25661703 AATTTAATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATTTAAAATT
Found at i:25661763 original size:22 final size:21
Alignment explanation
Indices: 25661724--25661764 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
25661714 TTTACATAAT
*
25661724 ATTATTTAACTAATATATTTA
1 ATTATTTAACTAAAATATTTA
*
25661745 ATTATTTTAATTAAAATATT
1 ATTA-TTTAACTAAAATATT
25661765 GAAGTCAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATTTAACTAAAATATTTA
Found at i:25663934 original size:19 final size:21
Alignment explanation
Indices: 25663906--25663953 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
25663896 TTATTATTTA
25663906 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
25663926 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
25663946 TTTTAGTT
1 TTTTAGTT
25663954 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:25665671 original size:24 final size:25
Alignment explanation
Indices: 25665644--25665736 Score: 61
Period size: 24 Copynumber: 3.8 Consensus size: 25
25665634 CCGATATATT
25665644 AGCTC-GTAAGAGCTTACTATTCTC
1 AGCTCAGTAAGAGCTTACTATTCTC
* * * *
25665668 AGCT-TGTCAGAGCTTATTGTT-TCC
1 AGCTCAGTAAGAGCTTACTATTCT-C
* * *
25665692 AGCTCGGT-AGAGCTTACTGTCCATC
1 AGCTCAGTAAGAGCTTACTATTC-TC
25665717 AGCTCAG-AAGGAGCTTACTA
1 AGCTCAGTAA-GAGCTTACTA
25665737 ATCATAGTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
23 1 0.02
24 33 0.61
25 10 0.19
26 10 0.19
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (25 bp):
AGCTCAGTAAGAGCTTACTATTCTC
Found at i:25665900 original size:20 final size:20
Alignment explanation
Indices: 25665875--25665933 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
25665865 TGTGTTACAA
25665875 GGATGAATTACTGTTTATAT
1 GGATGAATTACTGTTTATAT
* *
25665895 GGATGAGA-TACT-ATTAT-C
1 GGATGA-ATTACTGTTTATAT
*
25665913 GAATGAATTACTGTTTATAT
1 GGATGAATTACTGTTTATAT
25665933 G
1 G
25665934 ATTGAGAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
17 1 0.03
18 9 0.30
19 8 0.27
20 11 0.37
21 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (20 bp):
GGATGAATTACTGTTTATAT
Found at i:25671665 original size:27 final size:26
Alignment explanation
Indices: 25671628--25671739 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
25671618 AGCATGGCTG
* *
25671628 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
25671654 CCAGATACAGATAATCGTGGTAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
25671682 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
25671709 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
25671736 CCAG
1 CCAG
25671740 GATGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.72
28 15 0.20
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:25671737 original size:54 final size:54
Alignment explanation
Indices: 25671628--25671739 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
25671618 AGCATGGCTG
* *
25671628 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
* * * *
25671682 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
25671736 CCAG
1 CCAG
25671740 GATGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
Found at i:25673184 original size:24 final size:24
Alignment explanation
Indices: 25673157--25673203 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
25673147 CTAGATTTCC
**
25673157 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
25673181 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
25673204 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:25675567 original size:15 final size:15
Alignment explanation
Indices: 25675544--25675583 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
25675534 GTTTATGATA
*
25675544 TTATTAAGTTAAATG
1 TTATCAAGTTAAATG
25675559 TTATCAAGTTTAAATG
1 TTATCAAG-TTAAATG
25675575 TTATCAAGT
1 TTATCAAGT
25675584 CACCATGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (15 bp):
TTATCAAGTTAAATG
Found at i:25675573 original size:16 final size:16
Alignment explanation
Indices: 25675552--25675583 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25675542 TATTATTAAG
25675552 TTAAATGTTATCAAGT
1 TTAAATGTTATCAAGT
25675568 TTAAATGTTATCAAGT
1 TTAAATGTTATCAAGT
25675584 CACCATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
TTAAATGTTATCAAGT
Found at i:25676284 original size:54 final size:53
Alignment explanation
Indices: 25676202--25676311 Score: 175
Period size: 54 Copynumber: 2.1 Consensus size: 53
25676192 ATCTTCTTTT
* *
25676202 GAACAATAGTCTCCCCTAAGTAGTAGCTTCCCATTGAACTATGGTGTTTTCTG
1 GAACAATAGTCTCCCCTAAATAGTAGCTTCCCATTGAACAATGGTGTTTTCTG
**
25676255 GAACAATAGTCTCCCCCTAAATAGTAGCTTCCTTTTGAACAATGGTGTTTTCTG
1 GAACAATAGTCT-CCCCTAAATAGTAGCTTCCCATTGAACAATGGTGTTTTCTG
25676309 GAA
1 GAA
25676312 TAAGGTTTCC
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (53 bp):
GAACAATAGTCTCCCCTAAATAGTAGCTTCCCATTGAACAATGGTGTTTTCTG
Found at i:25679144 original size:26 final size:26
Alignment explanation
Indices: 25679111--25679163 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
25679101 ACGTAAATGA
25679111 ATTTCTACTTGTGTTTTTATATTATG
1 ATTTCTACTTGTGTTTTTATATTATG
25679137 ATTTCTACTTGTGTTTTTATATTATG
1 ATTTCTACTTGTGTTTTTATATTATG
25679163 A
1 A
25679164 AATGTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.21, C:0.08, G:0.11, T:0.60
Consensus pattern (26 bp):
ATTTCTACTTGTGTTTTTATATTATG
Found at i:25679231 original size:40 final size:40
Alignment explanation
Indices: 25679187--25679269 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
25679177 AATTATTGTA
* *
25679187 TGATTACACAAACGTGCCTCTGTTTGTACTTCGGTACCCC
1 TGATTACACAAACATGCCTCTGTTTGTACTCCGGTACCCC
* *
25679227 TGATTGCACATACATGCCTCTGTTTGTACTCCGGTACCCC
1 TGATTACACAAACATGCCTCTGTTTGTACTCCGGTACCCC
25679267 TGA
1 TGA
25679270 ACGCATTTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.33
Consensus pattern (40 bp):
TGATTACACAAACATGCCTCTGTTTGTACTCCGGTACCCC
Found at i:25686249 original size:40 final size:40
Alignment explanation
Indices: 25686187--25686362 Score: 118
Period size: 40 Copynumber: 4.4 Consensus size: 40
25686177 TGCGCAAATG
* * *
25686187 TGCCTCTATTTGTATTTTGGTACCCCTGAGAGCACATACA
1 TGCCCCTATTTGTACTTCGGTACCCCTGAGAGCACATACA
* ** * *
25686227 TGCCCCTATTTGAACTTCGGTACCCCTGATTGCACATGCG
1 TGCCCCTATTTGTACTTCGGTACCCCTGAGAGCACATACA
** * * ****
25686267 TGGACCTTTTTGTACTTCGGTACCCCTAATTTTACATACA
1 TGCCCCTATTTGTACTTCGGTACCCCTGAGAGCACATACA
** * * ** * *
25686307 TTTCCCTGTTTGTACTTCGGCACCCCTGATTGAACATGCA
1 TGCCCCTATTTGTACTTCGGTACCCCTGAGAGCACATACA
* *
25686347 TGTCTCTATTTGTACT
1 TGCCCCTATTTGTACT
25686363 CTAATACCCC
Statistics
Matches: 107, Mismatches: 29, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.37
Consensus pattern (40 bp):
TGCCCCTATTTGTACTTCGGTACCCCTGAGAGCACATACA
Found at i:25686289 original size:80 final size:80
Alignment explanation
Indices: 25686195--25686345 Score: 185
Period size: 80 Copynumber: 1.9 Consensus size: 80
25686185 TGTGCCTCTA
* * * * *
25686195 TTTGTATTTTGGTACCCCTGAGAGCACATACATGCCCCTATTTGAACTTCGGTACCCCTGATTGC
1 TTTGTACTTCGGTACCCCTAAGAGCACATACATGCCCCTATTTGAACTTCGGCACCCCTGATTGA
25686260 ACATGCGTGGACCTT
66 ACATGCGTGGACCTT
**** ** * *
25686275 TTTGTACTTCGGTACCCCTAATTTTACATACATTTCCCTGTTTGTACTTCGGCACCCCTGATTGA
1 TTTGTACTTCGGTACCCCTAAGAGCACATACATGCCCCTATTTGAACTTCGGCACCCCTGATTGA
25686340 ACATGC
66 ACATGC
25686346 ATGTCTCTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 58 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (80 bp):
TTTGTACTTCGGTACCCCTAAGAGCACATACATGCCCCTATTTGAACTTCGGCACCCCTGATTGA
ACATGCGTGGACCTT
Found at i:25686371 original size:80 final size:80
Alignment explanation
Indices: 25686220--25686373 Score: 177
Period size: 80 Copynumber: 1.9 Consensus size: 80
25686210 CCCTGAGAGC
* * * *
25686220 ACATACATGCCCCTATTTGAACTTCGGTACCCCTGATTGCACATGCGTGGACCTTTTTGTACTTC
1 ACATACATGCCCCTATTTGAACTTCGGCACCCCTGATTGAACATGCATGGACCTATTTGTACTTC
**
25686285 GGTACCCCTAATTTT
66 AATACCCCTAATTTT
** * * *
25686300 ACATACATTTCCCTGTTTGTACTTCGGCACCCCTGATTGAACATGCAT-GTCTCTATTTGTAC-T
1 ACATACATGCCCCTATTTGAACTTCGGCACCCCTGATTGAACATGCATGGAC-CTATTTGTACTT
25686363 CTAATACCCCT
65 C-AATACCCCT
25686374 TAACGCATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
79 4 0.07
80 57 0.93
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (80 bp):
ACATACATGCCCCTATTTGAACTTCGGCACCCCTGATTGAACATGCATGGACCTATTTGTACTTC
AATACCCCTAATTTT
Found at i:25690410 original size:29 final size:28
Alignment explanation
Indices: 25690367--25690476 Score: 121
Period size: 29 Copynumber: 3.9 Consensus size: 28
25690357 CATGAGTATG
* *
25690367 AATGTGACTGGGCCTAACGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
*
25690395 AATGTGATTTGGGCCTAATGGGTCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* * * * *
25690424 CAGGTGGTTTGGGCCTAATGGGCTATATG
1 AATGT-GATTGGGCCTAATGGGCCATATA
*
25690453 AATATGATTGGGCCTAATGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
25690477 GATACAGGTA
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
28 24 0.36
29 41 0.62
30 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:25690473 original size:57 final size:58
Alignment explanation
Indices: 25690375--25690485 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 58
25690365 TGAATGTGAC
* * *
25690375 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGTCATATACAGGTGGTT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGGTT
* * *
25690433 TGGGCCTAATGGGCTATATGAATATGA-TTGGGCCTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
25690486 ATGTGAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 24 0.51
58 23 0.49
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGGTT
Found at i:25701689 original size:30 final size:30
Alignment explanation
Indices: 25701658--25701715 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
25701648 CCGAGCCTAG
25701658 GGGA-AAAAGTGTAAATATGCAAAAGTTTA
1 GGGACAAAAGTGTAAATATGCAAAAGTTTA
* * * *
25701687 GGGACAAAATTGTAATTTTGTAAAAGTTT
1 GGGACAAAAGTGTAAATATGCAAAAGTTT
25701716 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGACAAAAGTGTAAATATGCAAAAGTTTA
Found at i:25704118 original size:79 final size:82
Alignment explanation
Indices: 25704007--25704191 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
25703997 GCTACTCGTT
* *
25704007 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
25704070 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
25704087 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
25704150 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
25704167 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
25704192 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:25704191 original size:40 final size:40
Alignment explanation
Indices: 25703988--25704191 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
25703978 CGGAATTTAA
** *
25703988 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25704028 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
25704068 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
25704107 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
25704147 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
25704187 CCGGA
1 CCGGA
25704192 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:25708200 original size:15 final size:14
Alignment explanation
Indices: 25708180--25708227 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
25708170 AAAGCCTTAC
25708180 TTTTTATATCAATTT
1 TTTTTATAT-AATTT
25708195 TTTTTATA-AATATAT
1 TTTTTATATAAT-T-T
*
25708210 TTGTTATATAATTT
1 TTTTTATATAATTT
25708224 TTTT
1 TTTT
25708228 ACTTATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 3 0.11
14 5 0.18
15 17 0.61
16 3 0.11
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTTTATATAATTT
Found at i:25717370 original size:20 final size:21
Alignment explanation
Indices: 25717337--25717396 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
25717327 TAATTATATG
* *
25717337 AAATTGAAAAATATATA-TAA
1 AAATTCAAAAATATAAATTAA
*
25717357 AAATTCAAATATATAAATTAA
1 AAATTCAAAAATATAAATTAA
25717378 AAATTCTAAAAA-ATAAATT
1 AAATTC-AAAAATATAAATT
25717397 CAAAGATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 14 0.41
21 16 0.47
22 4 0.12
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (21 bp):
AAATTCAAAAATATAAATTAA
Found at i:25719731 original size:41 final size:40
Alignment explanation
Indices: 25719686--25719768 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 40
25719676 AAACGCTTCA
*
25719686 AAAAGTTGAGTAATAATGGCGTTTTTGGTCCAAACACCGCT
1 AAAAGTTGAGCAATAATGGCGTTTTT-GTCCAAACACCGCT
* * * *
25719727 AAAAGTTGAGCGATAGTGGTGTTTTTTTCCAAACACCGCT
1 AAAAGTTGAGCAATAATGGCGTTTTTGTCCAAACACCGCT
25719767 AA
1 AA
25719769 TATATATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 15 0.41
41 22 0.59
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (40 bp):
AAAAGTTGAGCAATAATGGCGTTTTTGTCCAAACACCGCT
Found at i:25723211 original size:38 final size:38
Alignment explanation
Indices: 25723154--25723246 Score: 163
Period size: 38 Copynumber: 2.5 Consensus size: 38
25723144 TTGGATCATA
*
25723154 ACTTACATAA--TACATAAATATATATGATATCTATGG
1 ACTTACATAACTTACATAAATATATATCATATCTATGG
25723190 ACTTACATAACTTACATAAATATATATCATATCTATGG
1 ACTTACATAACTTACATAAATATATATCATATCTATGG
25723228 ACTTACATAACTTACATAA
1 ACTTACATAACTTACATAA
25723247 CTTACAAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
36 10 0.19
38 44 0.81
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.35
Consensus pattern (38 bp):
ACTTACATAACTTACATAAATATATATCATATCTATGG
Found at i:25723240 original size:9 final size:9
Alignment explanation
Indices: 25723228--25723290 Score: 65
Period size: 9 Copynumber: 7.0 Consensus size: 9
25723218 ATATCTATGG
25723228 ACTTACATA
1 ACTTACATA
25723237 ACTTACATA
1 ACTTACATA
25723246 ACTTACA-A
1 ACTTACATA
** *
25723254 AAATATATA
1 ACTTACATA
* *
25723263 TCATACCATA
1 ACTTA-CATA
25723273 ACTTACATA
1 ACTTACATA
25723282 ACTTACATA
1 ACTTACATA
25723291 GTTTACACCC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
8 5 0.11
9 33 0.75
10 6 0.14
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:25723297 original size:45 final size:47
Alignment explanation
Indices: 25723190--25723290 Score: 161
Period size: 47 Copynumber: 2.2 Consensus size: 47
25723180 ATATCTATGG
* * *
25723190 ACTTACATAACTTACATAAATATATATCATATCTATGGACTTACATA
1 ACTTACATAACTTACAAAAATATATATCATATCCATGAACTTACATA
25723237 ACTTACATAACTTACAAAAATATATATCATA-CCAT-AACTTACATA
1 ACTTACATAACTTACAAAAATATATATCATATCCATGAACTTACATA
25723282 ACTTACATA
1 ACTTACATA
25723291 GTTTACACCC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
45 18 0.35
46 3 0.06
47 30 0.59
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.34
Consensus pattern (47 bp):
ACTTACATAACTTACAAAAATATATATCATATCCATGAACTTACATA
Found at i:25727499 original size:19 final size:19
Alignment explanation
Indices: 25727475--25727515 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
25727465 TTGTTTGTGG
25727475 TTGTTTGGAAAAAACTATC
1 TTGTTTGGAAAAAACTATC
25727494 TTGTTTGGAAAAAACTATC
1 TTGTTTGGAAAAAACTATC
25727513 TTG
1 TTG
25727516 ATTAATCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (19 bp):
TTGTTTGGAAAAAACTATC
Found at i:25728870 original size:13 final size:13
Alignment explanation
Indices: 25728852--25728879 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25728842 AAATATGACC
25728852 CACTGTTAGTCCT
1 CACTGTTAGTCCT
25728865 CACTGTTAGTCCT
1 CACTGTTAGTCCT
25728878 CA
1 CA
25728880 AATTGATAGG
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:0.18, C:0.32, G:0.14, T:0.36
Consensus pattern (13 bp):
CACTGTTAGTCCT
Found at i:25731117 original size:13 final size:14
Alignment explanation
Indices: 25731101--25731129 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25731091 TTTTAAATAT
25731101 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
25731114 TTATAATGGTTTAA
1 TTATAATGGTTTAA
25731128 TT
1 TT
25731130 CATCGTTTGT
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:25731956 original size:43 final size:43
Alignment explanation
Indices: 25731903--25732248 Score: 214
Period size: 43 Copynumber: 8.1 Consensus size: 43
25731893 CTGCCAAAGT
* * * * *
25731903 TAGCGGCGTTTTTAGTAAAAGTGCCGCTGAAGGCCACATTCTA
1 TAGCAGCGTTTATGGTAAAAGTGTCGCTAAAGGCCACATTCTA
* *
25731946 TAGCAGCGTTTATGGTGAAAGTGTCGCTAAAGGTCACATTCTA
1 TAGCAGCGTTTATGGTAAAAGTGTCGCTAAAGGCCACATTCTA
* * *
25731989 TAGCAGCGTTTATGGGACAAGTGTTGCTAAAGGCCACATTCTA
1 TAGCAGCGTTTATGGTAAAAGTGTCGCTAAAGGCCACATTCTA
* * * * * * * **
25732032 TAAC-GATGTTTATGGAAAAAGCGCCACTAAAAGCCATGTTCTA
1 TAGCAG-CGTTTATGGTAAAAGTGTCGCTAAAGGCCACATTCTA
** * * * * * *
25732075 TAGTGGCGTTTGTGGGACAAGTGCCACTAAAGGCCACGTTCTA
1 TAGCAGCGTTTATGGTAAAAGTGTCGCTAAAGGCCACATTCTA
** * * * * *
25732118 TAGTGGTGTTTGTGCG-AAAAGCGTCACTAAAGGCCACGTTCTA
1 TAGCAGCGTTTATG-GTAAAAGTGTCGCTAAAGGCCACATTCTA
* * * * * *
25732161 -A-CGGTGTTTGTGGGAAAAGCGCCGCTAAAGGCCACATTCTA
1 TAGCAGCGTTTATGGTAAAAGTGTCGCTAAAGGCCACATTCTA
* * * * * * **
25732202 TAGAAGCATTTGTGGGAAAAGTGCCGCTAAAGGTCATGTTCTA
1 TAGCAGCGTTTATGGTAAAAGTGTCGCTAAAGGCCACATTCTA
25732245 TAGC
1 TAGC
25732249 GATGCTTTTT
Statistics
Matches: 248, Mismatches: 49, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
40 1 0.00
41 34 0.14
42 3 0.01
43 208 0.84
44 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (43 bp):
TAGCAGCGTTTATGGTAAAAGTGTCGCTAAAGGCCACATTCTA
Found at i:25732062 original size:86 final size:85
Alignment explanation
Indices: 25731903--25732204 Score: 295
Period size: 86 Copynumber: 3.5 Consensus size: 85
25731893 CTGCCAAAGT
* * * * * * *
25731903 TAGCGGCGTTTTTAGTAAAAGTGCCGCTGAAGGCCACATTCTATAGC-AGCGTTTATGGTGAAAG
1 TAGCGGCGTTTGTGGGACAAGTGCCGCTAAAGGCCACATTCTATAGCGA-TGTTTATGG-AAAAG
* * * *
25731967 TGTCGCTAAAGGTCACATTCTA
64 CGTCACTAAAGGCCACGTTCTA
* * ** *
25731989 TAGCAGCGTTTATGGGACAAGTGTTGCTAAAGGCCACATTCTATAACGATGTTTATGGAAAAAGC
1 TAGCGGCGTTTGTGGGACAAGTGCCGCTAAAGGCCACATTCTATAGCGATGTTTATGG-AAAAGC
* * *
25732054 GCCACTAAAAGCCATGTTCTA
65 GTCACTAAAGGCCACGTTCTA
* * * * * *
25732075 TAGTGGCGTTTGTGGGACAAGTGCCACTAAAGGCCACGTTCTATAGTGGTGTTTGTGCGAAAAGC
1 TAGCGGCGTTTGTGGGACAAGTGCCGCTAAAGGCCACATTCTATAGCGATGTTTATG-GAAAAGC
25732140 GTCACTAAAGGCCACGTTCTA
65 GTCACTAAAGGCCACGTTCTA
* * *
25732161 -A-CGGTGTTTGTGGGAAAAGCGCCGCTAAAGGCCACATTCTATAG
1 TAGCGGCGTTTGTGGGACAAGTGCCGCTAAAGGCCACATTCTATAG
25732205 AAGCATTTGT
Statistics
Matches: 175, Mismatches: 39, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
84 37 0.21
85 1 0.01
86 135 0.77
87 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (85 bp):
TAGCGGCGTTTGTGGGACAAGTGCCGCTAAAGGCCACATTCTATAGCGATGTTTATGGAAAAGCG
TCACTAAAGGCCACGTTCTA
Found at i:25732179 original size:41 final size:43
Alignment explanation
Indices: 25732015--25732249 Score: 240
Period size: 43 Copynumber: 5.5 Consensus size: 43
25732005 ACAAGTGTTG
* * * * *
25732015 CTAAAGGCCACATTCTATAACGATGTTTATGGAAAAAGCGCCA
1 CTAAAGGCCACGTTCTATAGCGGTGTTTGTGGGAAAAGCGCCA
* * * * * *
25732058 CTAAAAGCCATGTTCTATAGTGGCGTTTGTGGGACAAGTGCCA
1 CTAAAGGCCACGTTCTATAGCGGTGTTTGTGGGAAAAGCGCCA
* * *
25732101 CTAAAGGCCACGTTCTATAGTGGTGTTTGTGCGAAAAGCGTCA
1 CTAAAGGCCACGTTCTATAGCGGTGTTTGTGGGAAAAGCGCCA
*
25732144 CTAAAGGCCACGTTCTA-A-CGGTGTTTGTGGGAAAAGCGCCG
1 CTAAAGGCCACGTTCTATAGCGGTGTTTGTGGGAAAAGCGCCA
* ** ** * *
25732185 CTAAAGGCCACATTCTATAGAAGCATTTGTGGGAAAAGTGCCG
1 CTAAAGGCCACGTTCTATAGCGGTGTTTGTGGGAAAAGCGCCA
* *
25732228 CTAAAGGTCATGTTCTATAGCG
1 CTAAAGGCCACGTTCTATAGCG
25732250 ATGCTTTTTC
Statistics
Matches: 157, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
41 35 0.22
42 2 0.01
43 120 0.76
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (43 bp):
CTAAAGGCCACGTTCTATAGCGGTGTTTGTGGGAAAAGCGCCA
Found at i:25732214 original size:127 final size:127
Alignment explanation
Indices: 25731919--25732248 Score: 356
Period size: 129 Copynumber: 2.6 Consensus size: 127
25731909 CGTTTTTAGT
* * * * * *
25731919 AAAAGTGCCGCTGAAGGCCACATTCTATAGCAGCGTTTATGGTGAAAGTGTCGCTAAAGGTCACA
1 AAAAGCGCCGCTAAAGGCCACATTCTATAGAAGCGTTTGTGG-GAAAGTGCCGCTAAAGGTCACG
* * * **
25731984 TTCTATAGCAGCGTTTATGGGACAAGTGTTGCTAAAGGCCACATTCTATAACGATGTTTATGGA
65 TTCTATAGCAGCGTTTATGCGAAAAGCGTCACTAAAGGCCACATTC-ATAACGATGTTTATGGA
* * ** ** * *
25732048 AAAAGCGCCACTAAAAGCCATGTTCTATAGTGGCGTTTGTGGGACAAGTGCCACTAAAGGCCACG
1 AAAAGCGCCGCTAAAGGCCACATTCTATAGAAGCGTTTGTGGGA-AAGTGCCGCTAAAGGTCACG
** * * * * * *
25732113 TTCTATAGTGGTGTTTGTGCGAAAAGCGTCACTAAAGGCCACGTTC-TAACGGTGTTTGTGGG
65 TTCTATAGCAGCGTTTATGCGAAAAGCGTCACTAAAGGCCACATTCATAACGATGTTTATGGA
* *
25732175 AAAAGCGCCGCTAAAGGCCACATTCTATAGAAGCATTTGTGGGAAAAGTGCCGCTAAAGGTCATG
1 AAAAGCGCCGCTAAAGGCCACATTCTATAGAAGCGTTTGTGGG-AAAGTGCCGCTAAAGGTCACG
25732240 TTCTATAGC
65 TTCTATAGC
25732249 GATGCTTTTT
Statistics
Matches: 162, Mismatches: 37, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
127 74 0.46
128 3 0.02
129 85 0.52
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (127 bp):
AAAAGCGCCGCTAAAGGCCACATTCTATAGAAGCGTTTGTGGGAAAGTGCCGCTAAAGGTCACGT
TCTATAGCAGCGTTTATGCGAAAAGCGTCACTAAAGGCCACATTCATAACGATGTTTATGGA
Found at i:25734616 original size:4 final size:4
Alignment explanation
Indices: 25734585--25734640 Score: 60
Period size: 4 Copynumber: 13.5 Consensus size: 4
25734575 TAGTTCATTG
* *
25734585 ATTT ATTTT ATTT GTTT ATTT GTTT ATTT ATTT ATTT ATTT -TCGTT ATTT
1 ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT--TT ATTT
25734635 ATTT AT
1 ATTT AT
25734641 CTTTATCTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
3 1 0.02
4 36 0.82
5 6 0.14
6 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:25738398 original size:23 final size:23
Alignment explanation
Indices: 25738354--25738399 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
25738344 GCAAAGTGAG
* *
25738354 TAGAAAAGAAAAATAAATAAAAT
1 TAGAAAAGAAAAAGAAAGAAAAT
25738377 TAGAAAA-AATAAAGAAAGAAAAT
1 TAGAAAAGAA-AAAGAAAGAAAAT
25738400 ACTCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (23 bp):
TAGAAAAGAAAAAGAAAGAAAAT
Found at i:25739060 original size:20 final size:20
Alignment explanation
Indices: 25739020--25739059 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
25739010 CAATTCGTTG
25739020 TGGCAACTTAAGAGTCTTTT
1 TGGCAACTTAAGAGTCTTTT
25739040 TGGC-ACTTAACGAGT-TTTT
1 TGGCAACTTAA-GAGTCTTTT
25739059 T
1 T
25739060 TCCTAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (20 bp):
TGGCAACTTAAGAGTCTTTT
Found at i:25742404 original size:46 final size:48
Alignment explanation
Indices: 25742332--25742450 Score: 206
Period size: 46 Copynumber: 2.5 Consensus size: 48
25742322 CGTATAATAT
*
25742332 CATGTCTGGGACATGGCATCGACATCGTTATATGAGCCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCATCGTTATATGAGCCAGTGTAAGAC
*
25742380 CATGTCT-GG-CATGGCATCGGCATCGTTATGTGAGCCAGTGTAAGAC
1 CATGTCTGGGACATGGCATCGGCATCGTTATATGAGCCAGTGTAAGAC
25742426 CATGTCTGGGACATGGCATCGGCAT
1 CATGTCTGGGACATGGCATCGGCAT
25742451 GAGGCATCGT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
46 42 0.63
47 4 0.06
48 21 0.31
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (48 bp):
CATGTCTGGGACATGGCATCGGCATCGTTATATGAGCCAGTGTAAGAC
Found at i:25745222 original size:42 final size:42
Alignment explanation
Indices: 25745169--25745268 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
25745159 CTTAAGGTTT
* *
25745169 AAGTCAGTGAGTTACAAGGACTGGCACACGAGCGTGTAAGGC
1 AAGTTAGTGAGTTACAAGGACTAGCACACGAGCGTGTAAGGC
*
25745211 AAGTTAGTGAGTTACAAGGCCTAGCACACGAGCGTGTAAGGC
1 AAGTTAGTGAGTTACAAGGACTAGCACACGAGCGTGTAAGGC
* * *
25745253 AACTTTGAGAGTTACA
1 AAGTTAGTGAGTTACA
25745269 CGAGTAAGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (42 bp):
AAGTTAGTGAGTTACAAGGACTAGCACACGAGCGTGTAAGGC
Found at i:25754024 original size:46 final size:46
Alignment explanation
Indices: 25753957--25754126 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
25753947 AACCCGCCCC
*
25753957 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
25754003 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
25754051 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
25754096 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
25754127 AGATGCTCAA
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 58 0.56
47 28 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:25754069 original size:93 final size:93
Alignment explanation
Indices: 25753962--25754132 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
25753952 GCCCCTAAGT
* *
25753962 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
25754027 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCAGATGCCTAGTTACATTTCAC
*
25754055 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25754120 CGAGTTCAGATGC
66 CGAGTTCAGATGC
25754133 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:25754589 original size:30 final size:30
Alignment explanation
Indices: 25754555--25754614 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
25754545 ATTTAATACG
25754555 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
25754585 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
25754615 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:25755593 original size:24 final size:24
Alignment explanation
Indices: 25755548--25755593 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
25755538 GTTTTGTGGT
*
25755548 AAAGGATGAATTGACGGTAAATGC
1 AAAGGATGAATTGACGGAAAATGC
*
25755572 AAAGGATGAATTGATGGAAAAT
1 AAAGGATGAATTGACGGAAAAT
25755594 TACCCAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.04, G:0.28, T:0.22
Consensus pattern (24 bp):
AAAGGATGAATTGACGGAAAATGC
Found at i:25755715 original size:16 final size:16
Alignment explanation
Indices: 25755694--25755726 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25755684 TTTCTGTTTA
25755694 ACCCTAATGGGTTTCC
1 ACCCTAATGGGTTTCC
25755710 ACCCTAATGGGTTTCC
1 ACCCTAATGGGTTTCC
25755726 A
1 A
25755727 TTTAGCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.30
Consensus pattern (16 bp):
ACCCTAATGGGTTTCC
Found at i:25755806 original size:42 final size:42
Alignment explanation
Indices: 25755719--25755822 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
25755709 CACCCTAATG
* * *
25755719 GGTTTCCATTTAGCTCTTTTGAGCTTCAGTTTAACCCTTATA
1 GGTTTCCATTTAGCTCTTATGAGCTTCAGTTCAACCCTTACA
* * *
25755761 GGTTTCCATTCAGCTCTTATGAGCTTTC-GTTCCACCTTTACA
1 GGTTTCCATTTAGCTCTTATGAGC-TTCAGTTCAACCCTTACA
* *
25755803 GGTTTCTATTTAGCACTTAT
1 GGTTTCCATTTAGCTCTTAT
25755823 CTGCTTTTGG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 49 0.94
43 3 0.06
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.44
Consensus pattern (42 bp):
GGTTTCCATTTAGCTCTTATGAGCTTCAGTTCAACCCTTACA
Found at i:25758609 original size:844 final size:844
Alignment explanation
Indices: 25756985--25759244 Score: 3619
Period size: 844 Copynumber: 2.7 Consensus size: 844
25756975 TAAGGGTTAG
* * * * *
25756985 GGGTGTTACATTTAGTGGTATTAGAGCTTCAGTTTAGCCAATTATCAGAATGAACATAGTGTGTA
1 GGGTGTTACACTTAGTGGTATTAGAGCTTCAGTTTAGCTAATTCTCATAATGAACGTAGTGTGTA
* * **
25757050 AAATGTCTAGAAATACATGCCATATAAAATATGTGATAATATGATGTGTATGATCCGATCTAACC
66 AAATGTCTAGAAATACATGTCATATAAAATATGTGATAATGTGATGTGTATGATTAGATCTAACC
* * *
25757115 CTTGTTTTTCTTATAGATTGTAAAGATGACAGAAAGATCTGAACATGCCGAACATGATGTGACCA
131 CTTGTTTTT-TTATAGATTGTAAAGATGACAGAAAGATCTGAACATGCCAAACATGATGAGGCCA
* * * * * *
25757180 ATAGTAAAATACAGACATCTAAACATGGGACAAGTAGTAATTTCCCAATT-ATCCGGCACAAGAA
195 ATAGTAGAGTACAGACATCTAAACATGGGACAAGTAGTAATGTCCCAATTCTTCCGGTATAAGAA
* * * * * * *
25757244 CAAGAA-TTAAAAACATGTTCTTTAGGTATATAAACCAATGGTTCAGTAAATTTATGCAAGATAG
260 CAAGAATTTAAAAACATGTTCTTTGGGTATATGAACCAATGATTTAGTGAATTTATGCAAGAAAT
* * * *
25757308 AAATATGGA-TCAACAACCTCCTCCTCCTACTGTACCATCTGTAGAGACGCCGATTGCACCTCTA
325 AAATAT-GACTCAACAACCTCCTCCCCCTATTGTACCACCTGTAGAGACGCCGATTGCACCTCCA
* * * * *
25757372 CCTCCTTCAGTGACTGAATCAACTAAACGTATTCTAATAGAAAAACTCAAAAAGTGTGGGGTCGA
389 CCTCCTTAAGTGACTGAATCAACTAAACGTACTCCAATAGAAAAACTCAAAAAGTGTGGGGCCAA
* * * * * * * *
25757437 AGAATTTCGGGGTAGATAAGATGATGATTCAGTTAAAGCTGAATATTGGCTTTAGAAAATAATAA
454 AGAATTTTGGGGTAGGTCAGATGATGATTCAGTTAAAGTTGAATATTTGCTTCAGAATACAATAA
* * * * * *
25757502 GAGTTTTTAAAGAAATAGCTTT-TTATCCCAATGATTATCTGAGATGTGACGTTTCATTATTGAA
519 GAGTTTTTGAAGAAATA-TTTTGTTCTCCCAATGATTATCTGAGATGTGATGTTTCACTACTGAA
* * * *
25757566 AGAGGAAGCTTATAATTGGTGGTCAATAATAGTGGTTGTTGTGTCGAAAAATAAAATCACTTGGA
583 AGAAGAAGCTTATAATTGGTGGTCAATAATAGTGGTTGTAGTGCCGAAAAAGAAAATCACTTGGA
* *
25757631 AATTCTTTTAGAATGAATTTAAAAGAAAATATGTTGGCAAGAGTTATCTAGGCAAAAAGAAAAGG
648 AATTCTTTCAGAATGAATTTAAAAGAAAATATGTTGGCAAGAGGTATCTAGGCAAAAAGAAAAGG
*
25757696 GAATTTCTTAATTTGCCCCAAGGAAAACGATCAGTGATTAGTTTTTGATATGTGTATTAAATGAT
713 GAATTTCTTAACTTGCCCCAAGGAAAACGATCAGTGATTAGTTTTTGATATGTGTATTAAATGAT
* * ** * * *
25757761 ATGAAATATTCGTAATTGGTTTGAAATGTTTAGTAATGCTCTATAACCCTGTTTCAGAGATGATT
778 ATGAAATATTCGTAATTGGTCTGAAATGTCTAGTAATGCTCTATAACCAGGTTTCAAAAACGATT
25757826 AA
843 AA
* *
25757828 GGGTGTTACACTTAGTGGTATCAGAGCTTCAGTTTAGCTGATTCTCATAATGAACGTAGTGTGTA
1 GGGTGTTACACTTAGTGGTATTAGAGCTTCAGTTTAGCTAATTCTCATAATGAACGTAGTGTGTA
*
25757893 AAATGTCTAGAAATACATGTCATATAAAATATGTGATACTGTGATGTGTATGATTAGATCTAACC
66 AAATGTCTAGAAATACATGTCATATAAAATATGTGATAATGTGATGTGTATGATTAGATCTAACC
* *
25757958 CTTATTTTTTTATAGATTGTAAAGATGACAGAAAGATCTGAACATGCCAAACATGATAAGGCCAA
131 CTTGTTTTTTTATAGATTGTAAAGATGACAGAAAGATCTGAACATGCCAAACATGATGAGGCCAA
* *
25758023 TAGTGGAGTACAGACATCTAAACATGGGACAAGTAGTAATGTCTCAATTCTTCCGGTATAAGAAC
196 TAGTAGAGTACAGACATCTAAACATGGGACAAGTAGTAATGTCCCAATTCTTCCGGTATAAGAAC
*
25758088 AAGAATTTAAAAACATGTTTTTTGGGTATATGAACCAATGATTTAGTGAATTTATGCAAGAAATA
261 AAGAATTTAAAAACATGTTCTTTGGGTATATGAACCAATGATTTAGTGAATTTATGCAAGAAATA
*
25758153 AATATGACTCAACAACCTCCTCCCCCTATTGTACCACCTGTAAAGACGCCGATTGCACCTCCACC
326 AATATGACTCAACAACCTCCTCCCCCTATTGTACCACCTGTAGAGACGCCGATTGCACCTCCACC
25758218 TCCTTAAGTGACTGAATCAACTAAACGTACTCCAATAGAAAAACTCAAAAAGTGTGGGGCCAAAG
391 TCCTTAAGTGACTGAATCAACTAAACGTACTCCAATAGAAAAACTCAAAAAGTGTGGGGCCAAAG
* *
25758283 AATTTTAGGGTAGGTCAGATGATGATTTAGTTAAAGTTGAATATTTGCTTCAGAATACAATAAGA
456 AATTTTGGGGTAGGTCAGATGATGATTCAGTTAAAGTTGAATATTTGCTTCAGAATACAATAAGA
25758348 GTTTTTGAAGAAATATTTTGTTCTCCCAATGATTATCTGAGATGTGATGTTTCACTACTGAAAGA
521 GTTTTTGAAGAAATATTTTGTTCTCCCAATGATTATCTGAGATGTGATGTTTCACTACTGAAAGA
* *
25758413 AGAAGCTTATAATTGGTGGTCAATAATAGTGGTTGTAGTGCCGAAAGAGAAAATCATTTGGAAAT
586 AGAAGCTTATAATTGGTGGTCAATAATAGTGGTTGTAGTGCCGAAAAAGAAAATCACTTGGAAAT
*
25758478 TCTTTCAGAATGAATTTAAAAGAAAATATGTTGGCAAGAGGTATCTAGGCAAAAAGAAGAGGGAA
651 TCTTTCAGAATGAATTTAAAAGAAAATATGTTGGCAAGAGGTATCTAGGCAAAAAGAAAAGGGAA
*
25758543 TTTCTTAACTTGCCTCAAGGAAAACGATCAGTGATTAGTTTTTGATATGTGTATTAAATGATATG
716 TTTCTTAACTTGCCCCAAGGAAAACGATCAGTGATTAGTTTTTGATATGTGTATTAAATGATATG
25758608 AAATATTCGTAATTGGTCTGAAATGTCTAGTAATGCTCTATAACCAGGTTTCAAAAACGATTAA
781 AAATATTCGTAATTGGTCTGAAATGTCTAGTAATGCTCTATAACCAGGTTTCAAAAACGATTAA
* *
25758672 GGGTGTTATACTTAGTGGTATTAGAGCTTCAGTTTAGCTAATTCTCATAATAAACGTAGTGTGTA
1 GGGTGTTACACTTAGTGGTATTAGAGCTTCAGTTTAGCTAATTCTCATAATGAACGTAGTGTGTA
* *
25758737 AAATGTCTAGAAATACATGTCGTATAAAATATGTGATAGTGTGATGTGTATGATTAGATCTAACC
66 AAATGTCTAGAAATACATGTCATATAAAATATGTGATAATGTGATGTGTATGATTAGATCTAACC
*
25758802 CTTGTTTTTTTATAGATTGTAAAGATGACAGAAAGATCTAAACATGCCAAACATGATGAGGCCAA
131 CTTGTTTTTTTATAGATTGTAAAGATGACAGAAAGATCTGAACATGCCAAACATGATGAGGCCAA
*
25758867 TAGTAGAGTACAGACATCTGAACATGGGACAAGTAGTAATGTCCCAATTCTTCCGGTATAAGAAC
196 TAGTAGAGTACAGACATCTAAACATGGGACAAGTAGTAATGTCCCAATTCTTCCGGTATAAGAAC
*
25758932 AAGAATTTAAAAACATGTTCTTTGGGTATATGAACCAATTATTTAGTGAATTTATGCAAGAAATA
261 AAGAATTTAAAAACATGTTCTTTGGGTATATGAACCAATGATTTAGTGAATTTATGCAAGAAATA
* * *
25758997 AATATGACTAAACAACCTCCTCCCCCTATTGTACCACCTGTAGAGGCGCTGATTGCACCTCCACC
326 AATATGACTCAACAACCTCCTCCCCCTATTGTACCACCTGTAGAGACGCCGATTGCACCTCCACC
* * *
25759062 TCCTTAAGTGACTGAATCAACTAAACGTACTCCAATAAAAAAAATTCATAAAGTGTGGGGCCAAA
391 TCCTTAAGTGACTGAATCAACTAAACGTACTCCAAT-AGAAAAACTCAAAAAGTGTGGGGCCAAA
* *
25759127 GAATTGTGGGGTAGGTCAGATGATGATTCAGTCAAAGTTGAATATTTGCTTCAGAATACAATAAG
455 GAATTTTGGGGTAGGTCAGATGATGATTCAGTTAAAGTTGAATATTTGCTTCAGAATACAATAAG
*
25759192 AGTTTTTGAAGAAATATTTTGTTCTCCCGATGATTATCTGAGATGTGATGTTT
520 AGTTTTTGAAGAAATATTTTGTTCTCCCAATGATTATCTGAGATGTGATGTTT
25759245 GACCAACTGA
Statistics
Matches: 1309, Mismatches: 103, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
842 96 0.07
843 148 0.11
844 927 0.71
845 138 0.11
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (844 bp):
GGGTGTTACACTTAGTGGTATTAGAGCTTCAGTTTAGCTAATTCTCATAATGAACGTAGTGTGTA
AAATGTCTAGAAATACATGTCATATAAAATATGTGATAATGTGATGTGTATGATTAGATCTAACC
CTTGTTTTTTTATAGATTGTAAAGATGACAGAAAGATCTGAACATGCCAAACATGATGAGGCCAA
TAGTAGAGTACAGACATCTAAACATGGGACAAGTAGTAATGTCCCAATTCTTCCGGTATAAGAAC
AAGAATTTAAAAACATGTTCTTTGGGTATATGAACCAATGATTTAGTGAATTTATGCAAGAAATA
AATATGACTCAACAACCTCCTCCCCCTATTGTACCACCTGTAGAGACGCCGATTGCACCTCCACC
TCCTTAAGTGACTGAATCAACTAAACGTACTCCAATAGAAAAACTCAAAAAGTGTGGGGCCAAAG
AATTTTGGGGTAGGTCAGATGATGATTCAGTTAAAGTTGAATATTTGCTTCAGAATACAATAAGA
GTTTTTGAAGAAATATTTTGTTCTCCCAATGATTATCTGAGATGTGATGTTTCACTACTGAAAGA
AGAAGCTTATAATTGGTGGTCAATAATAGTGGTTGTAGTGCCGAAAAAGAAAATCACTTGGAAAT
TCTTTCAGAATGAATTTAAAAGAAAATATGTTGGCAAGAGGTATCTAGGCAAAAAGAAAAGGGAA
TTTCTTAACTTGCCCCAAGGAAAACGATCAGTGATTAGTTTTTGATATGTGTATTAAATGATATG
AAATATTCGTAATTGGTCTGAAATGTCTAGTAATGCTCTATAACCAGGTTTCAAAAACGATTAA
Found at i:25762840 original size:42 final size:42
Alignment explanation
Indices: 25762767--25762914 Score: 167
Period size: 42 Copynumber: 3.5 Consensus size: 42
25762757 TCTCACGAGC
* * * * *
25762767 TTCTG-TTAACTCATATGAGTTTCTATTTAACCCTAATGGGT
1 TTCTGTTTAGCTCTTATGAGCTTCCATTTAACCCTTATGGGT
*
25762808 TTCTGTTTAGCTCTTTTGAGCTT-CAGTTTAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGCTTCCA-TTTAACCCTTATGGGT
* *
25762850 TT-TCGTTCAGCTCTTATGAGCTTCCATTCAACCCTTATGGGT
1 TTCT-GTTTAGCTCTTATGAGCTTCCATTTAACCCTTATGGGT
* *
25762892 TTCTGTTTAGCACTTATGTGCTT
1 TTCTGTTTAGCTCTTATGAGCTT
25762915 TTGTGTAGCC
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
41 7 0.08
42 80 0.89
43 3 0.03
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (42 bp):
TTCTGTTTAGCTCTTATGAGCTTCCATTTAACCCTTATGGGT
Found at i:25762907 original size:21 final size:21
Alignment explanation
Indices: 25762780--25762909 Score: 73
Period size: 21 Copynumber: 6.2 Consensus size: 21
25762770 TGTTAACTCA
* * *
25762780 TATGAGTTTCTATTTAACCCT
1 TATGGGTTTCTGTTTAGCCCT
* *
25762801 AATGGGTTTCTGTTTAGCTCT
1 TATGGGTTTCTGTTTAGCCCT
* * * * *
25762822 TTTGAGCTTCAGTTTAACCCT
1 TATGGGTTTCTGTTTAGCCCT
* *
25762843 TATGGGTTT-TCGTTCAGCTCT
1 TATGGGTTTCT-GTTTAGCCCT
* * ** * *
25762864 TATGAGCTTCCATTCAACCCT
1 TATGGGTTTCTGTTTAGCCCT
*
25762885 TATGGGTTTCTGTTTAGCACT
1 TATGGGTTTCTGTTTAGCCCT
25762906 TATG
1 TATG
25762910 TGCTTTTGTG
Statistics
Matches: 75, Mismatches: 32, Indels: 4
0.68 0.29 0.04
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.45
Consensus pattern (21 bp):
TATGGGTTTCTGTTTAGCCCT
Found at i:25767125 original size:11 final size:10
Alignment explanation
Indices: 25767102--25767135 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
25767092 AAGTGTAGAG
25767102 AAAAAAAACT
1 AAAAAAAACT
*
25767112 AAAGAAAACAT
1 AAAAAAAAC-T
25767123 AAAAAAAACT
1 AAAAAAAACT
25767133 AAA
1 AAA
25767136 CCTAAAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.79, C:0.09, G:0.03, T:0.09
Consensus pattern (10 bp):
AAAAAAAACT
Found at i:25769463 original size:35 final size:35
Alignment explanation
Indices: 25769417--25769496 Score: 160
Period size: 35 Copynumber: 2.3 Consensus size: 35
25769407 GTCCAAAAAC
25769417 AAAATTAAATGTGTTTAACCATTTACATGCCGCGT
1 AAAATTAAATGTGTTTAACCATTTACATGCCGCGT
25769452 AAAATTAAATGTGTTTAACCATTTACATGCCGCGT
1 AAAATTAAATGTGTTTAACCATTTACATGCCGCGT
25769487 AAAATTAAAT
1 AAAATTAAAT
25769497 AAAATTAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (35 bp):
AAAATTAAATGTGTTTAACCATTTACATGCCGCGT
Found at i:25777542 original size:40 final size:40
Alignment explanation
Indices: 25777480--25777747 Score: 403
Period size: 40 Copynumber: 6.7 Consensus size: 40
25777470 ATATTCGGAA
* * * * *
25777480 TATAACCGGGCTAAGTCTCGAAGGCATTTGCGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
25777520 TAGT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TA-TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
*
25777560 TATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
* * *
25777600 TATGTCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
*
25777640 TATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
*
25777680 TATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
* *
25777720 TATATCCGAGCTATGTCCCGAAGGCATT
1 TATATCCGGGCTAAGTCCCGAAGGCATT
25777748 CGAGCAAATA
Statistics
Matches: 212, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.00
40 210 0.99
41 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
Found at i:25777704 original size:120 final size:119
Alignment explanation
Indices: 25777480--25777782 Score: 394
Period size: 120 Copynumber: 2.5 Consensus size: 119
25777470 ATATTCGGAA
* * * * * *
25777480 TATAACCGGGCTAAGTCTCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGG
1 TATATCCGAGCTAAGTCCCGAAGGCATTTGAGC-AGTTACTA-TATCCGGGTTAAGTCCCGAAGG
* *
25777544 CATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC
64 CATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTAC
* * * * *
25777600 TATGTCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCCGAAGGC
1 TATATCCGAGCTAAGTCCCGAAGGCATTTGAGC-AGTTACTATATCCGGGTTAAGTCCCGAAGGC
25777665 ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTAC
65 ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTAC
* * ** *
25777720 TATATCCGAGCTATGTCCCGAAGGCATTCGAGCAAATAGCTATATCC-GGTTAAATCCCGAAGG
1 TATATCCGAGCTAAGTCCCGAAGGCATTTGAGCAGTTA-CTATATCCGGGTTAAGTCCCGAAGG
25777783 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
119 19 0.12
120 141 0.88
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (119 bp):
TATATCCGAGCTAAGTCCCGAAGGCATTTGAGCAGTTACTATATCCGGGTTAAGTCCCGAAGGCA
TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTAC
Found at i:25785782 original size:39 final size:39
Alignment explanation
Indices: 25785678--25785932 Score: 394
Period size: 40 Copynumber: 6.6 Consensus size: 39
25785668 TGGATGATAA
* * *
25785678 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-TAT
25785718 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
25785758 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
25785797 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
25785837 CCGGGCTAAGTCCGAAGGCA-TTGTGCGAG-T-CTATAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
*
25785873 CCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
*
25785912 CC-GGCTATGTCCGAAGGCATT
1 CCGGGCTAAGTCCGAAGGCATT
25785933 CGACAGTAGC
Statistics
Matches: 205, Mismatches: 5, Indels: 12
0.92 0.02 0.05
Matches are distributed among these distances:
36 26 0.13
37 9 0.04
38 28 0.14
39 57 0.28
40 85 0.41
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:25785810 original size:79 final size:79
Alignment explanation
Indices: 25785678--25785932 Score: 405
Period size: 79 Copynumber: 3.3 Consensus size: 79
25785668 TGGATGATAA
* * *
25785678 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTT
25785742 GTGCGAGTTACTATAT
64 GTGCGAGTTACTATAT
25785758 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
25785823 GCGAGTTACTATAT
66 GCGAGTTACTATAT
*
25785837 CCGGGCTAAGTCCGAAGGCA-TTGTGCGAG-T-CTATATCCGGGCTAAGT-CCGAAGGCATTGGT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
25785898 GCGAGTTACTATAT
66 GCGAGTTACTATAT
*
25785912 CC-GGCTATGTCCGAAGGCATT
1 CCGGGCTAAGTCCGAAGGCATT
25785933 CGACAGTAGC
Statistics
Matches: 168, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
74 16 0.10
75 30 0.18
76 17 0.10
77 1 0.01
78 10 0.06
79 83 0.49
80 11 0.07
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTACTATAT
Found at i:25789706 original size:9 final size:9
Alignment explanation
Indices: 25789692--25789771 Score: 61
Period size: 9 Copynumber: 8.2 Consensus size: 9
25789682 CTAAAATATT
25789692 TTAAAAATA
1 TTAAAAATA
25789701 TTAAAAATAA
1 TTAAAAAT-A
* *
25789711 ATATAAATTA
1 TTA-AAAATA
25789721 TTAAAAATA
1 TTAAAAATA
25789730 TTAAGAATATA
1 TTAA-AA-ATA
*
25789741 TTAATAATA
1 TTAAAAATA
*
25789750 TTAGAAATTA
1 TTA-AAAATA
*
25789760 TGTTAAAATA
1 T-TAAAAATA
25789770 TT
1 TT
25789772 TTTAAAAATA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
9 24 0.43
10 20 0.36
11 12 0.21
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (9 bp):
TTAAAAATA
Found at i:25789707 original size:20 final size:21
Alignment explanation
Indices: 25789658--25789752 Score: 63
Period size: 20 Copynumber: 4.6 Consensus size: 21
25789648 TTTGATTTTT
*
25789658 TTAAAAAAATTAT-TAACAATAA
1 TTAAAAATATTATATAA-AAT-A
* *
25789680 TTCTAAAATATTTTA-AAAATA
1 TT-AAAAATATTATATAAAATA
* *
25789701 TTAAAAATA-AATATAAATTA
1 TTAAAAATATTATATAAAATA
* *
25789721 TTAAAAATATTA-AGAATATA
1 TTAAAAATATTATATAAAATA
*
25789741 TTAATAATATTA
1 TTAAAAATATTA
25789753 GAAATTATGT
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
19 2 0.04
20 36 0.63
21 4 0.07
22 5 0.09
23 10 0.18
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (21 bp):
TTAAAAATATTATATAAAATA
Found at i:25789743 original size:11 final size:10
Alignment explanation
Indices: 25789683--25789770 Score: 60
Period size: 9 Copynumber: 8.8 Consensus size: 10
25789673 ACAATAATTC
*
25789683 TAAAATATTT
1 TAAAATATAT
25789693 TAAAA-ATAT
1 TAAAATATAT
*
25789702 TAAAA-ATAAA
1 TAAAATAT-AT
25789712 TATAAAT-TAT
1 TA-AAATATAT
25789722 TAAAA-ATAT
1 TAAAATATAT
25789731 TAAGAATATAT
1 TAA-AATATAT
*
25789742 TAATA-ATAT
1 TAAAATATAT
*
25789751 TAGAAATTATGT
1 TA-AAA-TATAT
25789763 TAAAATAT
1 TAAAATAT
25789771 TTTTAAAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
9 25 0.40
10 19 0.30
11 14 0.22
12 5 0.08
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (10 bp):
TAAAATATAT
Found at i:25789751 original size:29 final size:29
Alignment explanation
Indices: 25789662--25789757 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
25789652 ATTTTTTTAA
* * *
25789662 AAAAATTATTAACAATAATTCTAAAATATTTT
1 AAAAA-TATTAAAAATAAATATAAAATA--TT
*
25789694 AAAAATATTAAAAATAAATATAAATTATT
1 AAAAATATTAAAAATAAATATAAAATATT
* *
25789723 AAAAATATTAAGAATATAT-TAATAATATT
1 AAAAATATTAAAAATAAATATAA-AATATT
*
25789752 AGAAAT
1 AAAAAT
25789758 TATGTTAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 3 0.05
29 29 0.53
31 18 0.33
32 5 0.09
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAAATATTAAAAATAAATATAAAATATT
Found at i:25789769 original size:20 final size:18
Alignment explanation
Indices: 25789663--25789771 Score: 58
Period size: 20 Copynumber: 5.4 Consensus size: 18
25789653 TTTTTTTAAA
*
25789663 AAAATTATTAACAATAATTCT
1 AAAA-TATTAA-AATTATT-T
* *
25789684 AAAATATTTTAAAAATATTA
1 AAAATA--TTAAAATTATTT
* *
25789704 AAAATAAATATAAATTATTA
1 AAAAT-ATTA-AAATTATTT
25789724 AAAATATTAAGAA-TATATT
1 AAAATATTAA-AATTAT-TT
25789743 AATAATATTAGAAATTATGTT
1 AA-AATATTA-AAATTAT-TT
25789764 AAAATATT
1 AAAATATT
25789772 TTTAAAAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 19
0.72 0.08 0.19
Matches are distributed among these distances:
18 4 0.06
19 10 0.14
20 35 0.49
21 18 0.25
22 4 0.06
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAATATTAAAATTATTT
Found at i:25789874 original size:24 final size:23
Alignment explanation
Indices: 25789828--25789875 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
25789818 ATATATATGT
* *
25789828 AAAAAATTCTAAAAAATTTTCAA
1 AAAAAATTCTAAAAAACTATCAA
*
25789851 AAAAAATCTTTAAAAAACTATCAA
1 AAAAAAT-TCTAAAAAACTATCAA
25789875 A
1 A
25789876 CTTTCTAGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAAAATTCTAAAAAACTATCAA
Found at i:25792009 original size:30 final size:30
Alignment explanation
Indices: 25791936--25792010 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
25791926 AGATTTTTTT
*
25791936 CAAAATTAAAATTTTTATAAATTTAGAGGG
1 CAAAAATAAAATTTTTATAAATTTAGAGGG
* * *
25791966 CCAAACTAGAATTTTTAATAAATTTCA-AGGG
1 CAAAAATAAAATTTTT-ATAAATTT-AGAGGG
25791997 -AAAAATAAAATTTT
1 CAAAAATAAAATTTT
25792011 CCAAAAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
30 24 0.65
31 12 0.32
32 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.35
Consensus pattern (30 bp):
CAAAAATAAAATTTTTATAAATTTAGAGGG
Found at i:25792402 original size:49 final size:49
Alignment explanation
Indices: 25792330--25792427 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
25792320 TTCGACATAG
* * *
25792330 TGAATTTTCTTTTTTTCTGCCCGTAAAAAATCTGTATTATTTCTCTTTT
1 TGAATTTTCTTCTTCTCTGCCCGTAAAAAATCTATATTATTTCTCTTTT
*
25792379 TGAATTTTCTTCTTCTCTGCCCGTAAAAAATCTATGTTATTTCTCTTTT
1 TGAATTTTCTTCTTCTCTGCCCGTAAAAAATCTATATTATTTCTCTTTT
25792428 CTTTACGAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.53
Consensus pattern (49 bp):
TGAATTTTCTTCTTCTCTGCCCGTAAAAAATCTATATTATTTCTCTTTT
Found at i:25797911 original size:81 final size:81
Alignment explanation
Indices: 25797776--25797938 Score: 299
Period size: 81 Copynumber: 2.0 Consensus size: 81
25797766 CCAAGTGTGT
* *
25797776 TAGAAGATCAATGGTTAAAGCTATTTGGTTGGTTTTTGTAGTCGGTGTGCTTTGCGTCCCCCATA
1 TAGAAAATCAATGGTTAAAGCTATTTGGTTGGTTTTTGTAGTCGGTGTGCTTTGCATCCCCCATA
25797841 ATCTTCAATTTTGACC
66 ATCTTCAATTTTGACC
*
25797857 TAGAAAATCAATGGTTAAAGCTATTTGGTTGGTTTTTGTAGTCGGTGTGCTTTGCATCCTCCATA
1 TAGAAAATCAATGGTTAAAGCTATTTGGTTGGTTTTTGTAGTCGGTGTGCTTTGCATCCCCCATA
25797922 ATCTTCAATTTTGACC
66 ATCTTCAATTTTGACC
25797938 T
1 T
25797939 TTTAAGTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (81 bp):
TAGAAAATCAATGGTTAAAGCTATTTGGTTGGTTTTTGTAGTCGGTGTGCTTTGCATCCCCCATA
ATCTTCAATTTTGACC
Found at i:25802630 original size:40 final size:42
Alignment explanation
Indices: 25802533--25802630 Score: 121
Period size: 41 Copynumber: 2.3 Consensus size: 42
25802523 AAAATGATCC
25802533 CGCACACTTAGTGCCATTTCAAATAGCCAAAGCTACCTCAGTAT
1 CGCACACTTAGTGCC--TTCAAATAGCCAAAGCTACCTCAGTAT
* * *
25802577 CGCACACTTAGTGCC-TCATATAGCCAAAGCTA-TTCCA-TTT
1 CGCACACTTAGTGCCTTCAAATAGCCAAAGCTACCT-CAGTAT
25802617 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25802631 TATTTATAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 17 0.34
41 18 0.36
44 15 0.30
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (42 bp):
CGCACACTTAGTGCCTTCAAATAGCCAAAGCTACCTCAGTAT
Found at i:25808142 original size:27 final size:27
Alignment explanation
Indices: 25808112--25808289 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25808102 ATATTGAGTC
* * * *
25808112 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25808139 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25808166 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25808194 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25808221 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25808248 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25808275 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25808290 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25808251 original size:82 final size:81
Alignment explanation
Indices: 25808133--25808288 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25808123 TGCTATATAA
* *
25808133 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25808198 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25808215 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25808279 CACTTAGTGC
65 CACTTAGTGC
25808289 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25816328 original size:27 final size:27
Alignment explanation
Indices: 25816298--25816475 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25816288 ATATTGAGTC
* * * *
25816298 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25816325 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25816352 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25816380 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25816407 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25816434 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25816461 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25816476 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25816437 original size:82 final size:81
Alignment explanation
Indices: 25816319--25816474 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25816309 TGCTATATAA
* *
25816319 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25816384 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25816401 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25816465 CACTTAGTGC
65 CACTTAGTGC
25816475 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25825408 original size:43 final size:44
Alignment explanation
Indices: 25825316--25825409 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 44
25825306 AAAAGTTTTG
* * * *
25825316 ATAATTATACATTTAAAAAAGAATTATAATTTTATAGAATTTTT
1 ATAATTACACATTTAAAAAAGAATTATAATTTAATACAATTTAT
*
25825360 ATAATTACACATTT-AAAAATAATTATAATTTAACTTACAA-TTAT
1 ATAATTACACATTTAAAAAAGAATTATAATTTAA--TACAATTTAT
25825404 -TAATTA
1 ATAATTA
25825410 AAAATTTGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
43 23 0.53
44 16 0.37
45 4 0.09
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (44 bp):
ATAATTACACATTTAAAAAAGAATTATAATTTAATACAATTTAT
Done.