Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 43 of 325
Found at i:15767474 original size:69 final size:69
Alignment explanation
Indices: 15767363--15767503 Score: 273
Period size: 69 Copynumber: 2.0 Consensus size: 69
15767353 GCAATTCTCA
*
15767363 AAAGTGCATGTCTGTCGTTGGTGAGAGGTTAACGGCATGTTAATATGCATATGATCCAATCTTGT
1 AAAGTGCATGTCTATCGTTGGTGAGAGGTTAACGGCATGTTAATATGCATATGATCCAATCTTGT
15767428 ATTG
66 ATTG
15767432 AAAGTGCATGTCTATCGTTGGTGAGAGGTTAACGGCATGTTAATATGCATATGATCCAATCTTGT
1 AAAGTGCATGTCTATCGTTGGTGAGAGGTTAACGGCATGTTAATATGCATATGATCCAATCTTGT
15767497 ATTG
66 ATTG
15767501 AAA
1 AAA
15767504 TTTCTACACA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (69 bp):
AAAGTGCATGTCTATCGTTGGTGAGAGGTTAACGGCATGTTAATATGCATATGATCCAATCTTGT
ATTG
Found at i:15773543 original size:4 final size:4
Alignment explanation
Indices: 15773534--15773587 Score: 63
Period size: 4 Copynumber: 13.0 Consensus size: 4
15773524 AATCATTACT
* * *
15773534 TGTA TGTA TGTA TGGA TGTA TGTA TGGA TGTA TGTA TGTGAA TGTA CGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT--A TGTA TGTA
15773584 TGTA
1 TGTA
15773588 GTTTGAAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
4 38 0.90
6 4 0.10
ACGTcount: A:0.26, C:0.02, G:0.30, T:0.43
Consensus pattern (4 bp):
TGTA
Found at i:15773554 original size:12 final size:12
Alignment explanation
Indices: 15773537--15773585 Score: 71
Period size: 12 Copynumber: 3.9 Consensus size: 12
15773527 CATTACTTGT
15773537 ATGTATGTATGG
1 ATGTATGTATGG
15773549 ATGTATGTATGG
1 ATGTATGTATGG
15773561 ATGTATGTATGTG
1 ATGTATGTATG-G
*
15773574 AATGTACGTATG
1 -ATGTATGTATG
15773586 TAGTTTGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
12 23 0.68
13 1 0.03
14 10 0.29
ACGTcount: A:0.27, C:0.02, G:0.31, T:0.41
Consensus pattern (12 bp):
ATGTATGTATGG
Found at i:15781401 original size:12 final size:12
Alignment explanation
Indices: 15781384--15781414 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15781374 GAAGCAGGGG
15781384 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
15781396 AGAAAAAGGGAA
1 AGAAAAAGAGAA
15781408 AGAAAAA
1 AGAAAAA
15781415 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:15782362 original size:41 final size:41
Alignment explanation
Indices: 15782316--15782416 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 41
15782306 TCGACCTCGA
*
15782316 GTCGATGAGACACTGGGTGTCACTAAATTT-CTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG
* ** * *
15782356 ATTCGATGAGGTACT-GG-GT-ACCAACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG
*
15782395 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
15782417 ACTATTACTT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
38 17 0.37
39 13 0.28
40 4 0.09
41 12 0.26
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (41 bp):
GTCGATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG
Found at i:15782425 original size:39 final size:39
Alignment explanation
Indices: 15782318--15782452 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
15782308 GACCTCGAGT
* * *
15782318 CGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGCTAG-TC
** ** *
15782359 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
15782397 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
15782436 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
15782453 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 3 0.04
41 15 0.20
42 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:15785669 original size:19 final size:20
Alignment explanation
Indices: 15785645--15785684 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
15785635 AGTTCTTGGC
15785645 AATG-CCATTTGGGTTAACA
1 AATGCCCATTTGGGTTAACA
15785664 AATGCCCCATTTGGGTTAACA
1 AATG-CCCATTTGGGTTAACA
15785685 GGACTGGGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
21 15 0.79
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
AATGCCCATTTGGGTTAACA
Found at i:15786465 original size:22 final size:23
Alignment explanation
Indices: 15786432--15786475 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
15786422 CTCTTGACTA
15786432 TTAATAACAATA-AGATTGTTTT
1 TTAATAACAATATAGATTGTTTT
*
15786454 TTAATATA-AATATATATTGTTT
1 TTAATA-ACAATATAGATTGTTT
15786476 ATATGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (23 bp):
TTAATAACAATATAGATTGTTTT
Found at i:15804351 original size:37 final size:37
Alignment explanation
Indices: 15804301--15804374 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
15804291 AAGAAATTGA
15804301 AAGTTTCTATACATATATGCTGGAAGTATATGATGAT
1 AAGTTTCTATACATATATGCTGGAAGTATATGATGAT
* *
15804338 AAGTTTCTATACATTTGTGCTGGAAGTATATGATGAT
1 AAGTTTCTATACATATATGCTGGAAGTATATGATGAT
15804375 TTGGCATGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (37 bp):
AAGTTTCTATACATATATGCTGGAAGTATATGATGAT
Found at i:15808685 original size:23 final size:23
Alignment explanation
Indices: 15808652--15808695 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
15808642 ATTTATAATT
15808652 TTCTGGGTGTGTTTGGGCTGGATA
1 TTCTGGGTGTGTTTGGG-TGGATA
15808676 TTCT-GGTGTGTTTGGGTGGA
1 TTCTGGGTGTGTTTGGGTGGA
15808696 ATCCGCGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 12 0.60
24 4 0.20
ACGTcount: A:0.07, C:0.07, G:0.43, T:0.43
Consensus pattern (23 bp):
TTCTGGGTGTGTTTGGGTGGATA
Found at i:15809676 original size:41 final size:41
Alignment explanation
Indices: 15809619--15809721 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 41
15809609 GGGGTGTTAC
*
15809619 ATATGGCA-TTCAGTGTGTGAGAATGAGATAGCT-TCGGCTAT
1 ATATGGCACTT-AGTGTGCGAGAATGAGATAGCTGT-GGCTAT
**
15809660 ATATGGCACTTAGTGTGCGA-TTTGAGATAGCTGTGGCTAT
1 ATATGGCACTTAGTGTGCGAGAATGAGATAGCTGTGGCTAT
* * *
15809700 GTACGACACTTAGTGTGCGAGA
1 ATATGGCACTTAGTGTGCGAGA
15809722 TATCGAGTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
40 33 0.63
41 17 0.33
42 2 0.04
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (41 bp):
ATATGGCACTTAGTGTGCGAGAATGAGATAGCTGTGGCTAT
Found at i:15809744 original size:28 final size:28
Alignment explanation
Indices: 15809704--15809780 Score: 127
Period size: 28 Copynumber: 2.8 Consensus size: 28
15809694 GGCTATGTAC
15809704 GACACTTAGTGTGCGAGATATCGAGTAT
1 GACACTTAGTGTGCGAGATATCGAGTAT
*
15809732 GACACTTAGTGTGCAAGATATCGAGTAT
1 GACACTTAGTGTGCGAGATATCGAGTAT
* *
15809760 GGCACTTAGTGTGCGAAATAT
1 GACACTTAGTGTGCGAGATAT
15809781 TTAGTATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (28 bp):
GACACTTAGTGTGCGAGATATCGAGTAT
Found at i:15814709 original size:27 final size:27
Alignment explanation
Indices: 15814690--15814979 Score: 334
Period size: 27 Copynumber: 10.8 Consensus size: 27
15814680 ATTACCAAAG
* * * *
15814690 TACCCTCAATTTACAGAATTATCGTTC
1 TACCCTCGATTTACAGAATTACCATTT
*
15814717 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
15814744 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
15814771 TACCCTCGATTTACAGAATTA-CAGTTT
1 TACCCTCGATTTACAGAATTACCA-TTT
* * *
15814798 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
15814825 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * **
15814852 TACCCTCAATTTGTC-GAATTACTGTTT
1 TACCCTCGATTT-ACAGAATTACCATTT
* * *
15814879 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
15814906 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
15814933 TA-CCTTGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
15814959 TACCCTCAATTTACAAAATTA
1 TACCCTCGATTTACAGAATTA
15814980 TTGAAATACC
Statistics
Matches: 226, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.10
27 201 0.89
28 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:15814721 original size:54 final size:54
Alignment explanation
Indices: 15814663--15814777 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
15814653 ATTACTGAAA
* *
15814663 TACCCTCAAATTGTAAAATTACCAAAGTACCCTCAATTTACAGAATTATCGTTC
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCAATTTACAGAATTACCGTTC
* * * *** * * *
15814717 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCAATTTACAGAATTACCGTTC
15814771 TACCCTC
1 TACCCTC
15814778 GATTTACAGA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (54 bp):
TACCCTCAAATTATAAAATTACCAAAGTACCCTCAATTTACAGAATTACCGTTC
Found at i:15814778 original size:54 final size:54
Alignment explanation
Indices: 15814690--15814971 Score: 379
Period size: 54 Copynumber: 5.2 Consensus size: 54
15814680 ATTACCAAAG
* * * *
15814690 TACCCTCAATTTACAGAATTATCGTTCTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
*
15814744 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTA-CAGTTT
1 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCA-TTT
* *
15814798 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTACAGAATTACCATTT
1 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* * * * * *
15814852 TACCCTCAATTTGTCGAATTACTGTTTTACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* * * * *
15814906 TACCCTCGATTTATAGAATTACCATTTTA-CCTTGACTTACAGAATTACCGTTT
1 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
15814959 TACCCTCAATTTA
1 TACCCTCAATTTA
15814972 CAAAATTATT
Statistics
Matches: 204, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
53 36 0.18
54 166 0.81
55 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
Found at i:15814787 original size:81 final size:81
Alignment explanation
Indices: 15814690--15814971 Score: 399
Period size: 81 Copynumber: 3.5 Consensus size: 81
15814680 ATTACCAAAG
* *
15814690 TACCCTCAATTTACAGAATTATC-GTTCTACCCTCGATTTATAGAATTACCATTTTACCCTCGAT
1 TACCCTCAATTTACAGAATTA-CAGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGAT
*
15814754 TTATAGAATTACCGTTT
65 TTATAGAATTACCATTT
* *
15814771 TACCCTCGATTTACAGAATTACAGTTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
1 TACCCTCAATTTACAGAATTACAGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
*
15814836 TACAGAATTACCATTT
66 TATAGAATTACCATTT
* * *
15814852 TACCCTCAATTTGTC-GAATTACTGTTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCGAT
1 TACCCTCAATTT-ACAGAATTACAGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGAT
15814916 TTATAGAATTACCATTT
65 TTATAGAATTACCATTT
** * * *
15814933 TA-CCTTGACTTACAGAATTACCGTTTTACCCTCAATTTA
1 TACCCTCAATTTACAGAATTACAGTTTTACCCTCGATTTA
15814972 CAAAATTATT
Statistics
Matches: 179, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
79 1 0.01
80 29 0.16
81 148 0.83
82 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCAATTTACAGAATTACAGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
TATAGAATTACCATTT
Found at i:15815013 original size:27 final size:27
Alignment explanation
Indices: 15814983--15815336 Score: 330
Period size: 27 Copynumber: 13.1 Consensus size: 27
15814973 AAAATTATTG
*
15814983 AAATACCCTTGATTTATAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
* ** *
15815010 AAATACCCTCGATCAGTAAAATTACTA
1 AAATACCCTTGATTTGTAAAATTACCA
* * * *
15815037 AAATGCCCCTGGTTTGTAAAATTACTA
1 AAATACCCTTGATTTGTAAAATTACCA
* * *
15815064 AAATACCCTTGGTTTATAAAATTGCCA
1 AAATACCCTTGATTTGTAAAATTACCA
* * *
15815091 GAATACCCCTGTTTTGTAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
* * *
15815118 AAATACCCCTAATTTGTGAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
* * **
15815145 AAATACCCCTGATTTGTGAAATTACTT
1 AAATACCCTTGATTTGTAAAATTACCA
* *
15815172 AAATACCCTCGACTTGTAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
* * *
15815199 AAATACCATTGGTTTATAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
*
15815226 AAATACCCTTGGTTTGTAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
* * * **
15815253 AAATACCATTGATTTGTGAAATGACTG
1 AAATACCCTTGATTTGTAAAATTACCA
** * **
15815280 AAATACCCTCAATTTGCAAAATTACTG
1 AAATACCCTTGATTTGTAAAATTACCA
** *
15815307 AAATACCCTCAACTTGTAAAAATTACCA
1 AAATACCCTTGATTTGT-AAAATTACCA
15815335 AA
1 AA
15815337 GTGCCCCCGA
Statistics
Matches: 269, Mismatches: 57, Indels: 1
0.82 0.17 0.00
Matches are distributed among these distances:
27 259 0.96
28 10 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATACCCTTGATTTGTAAAATTACCA
Found at i:15815033 original size:107 final size:107
Alignment explanation
Indices: 15814650--15815034 Score: 265
Period size: 108 Copynumber: 3.6 Consensus size: 107
15814640 TTTAGTTTAC
** * * * * * * * * *
15814650 CAAATTACTGAAATACCCTCAAATTGTAAAATTACCAAAGTACCCTCAATTTACAGAATTATCGT
1 CAAATTACTGAAATACCCTTGATTTATAAAATTACCAAAATACCCTCGATTCATAAAATTACCAT
* * * * *
15814715 TCTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTT-A
66 TTTA-CCTTGACTTACAGAATTACCATTTTACCCTCAATTTGA
* * *** * * * *** * * *
15814757 TAGAATTACCGTTTTACCCTCGATTTACAGAATTA-CAGTTTTACCCTCGATTTATAGAATTATC
1 CA-AATTACTGAAATACCCTTGATTTATAAAATTACCA-AAATACCCTCGATTCATAAAATTACC
* * * *
15814821 GTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTGT
64 ATTTTA-CCTTGACTTACAGAATTACCATTTTACCCTCAATTTGA
* *** * **** * *
15814866 CGAATTACTGTTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCAT
1 CAAATTACTGAAATACCCTTGATTTATAAAATTACCAAAATACCCTCGATTCATAAAATTACCAT
*
15814931 TTTACCTTGACTTACAGAATTACCGTTTTACCCTCAATTT-A
66 TTTACCTTGACTTACAGAATTACCATTTTACCCTCAATTTGA
*
15814972 CAAAATTATTGAAATACCCTTGATTTATAAAATTACCAAAATACCCTCGA-TCAGTAAAATTAC
1 C-AAATTACTGAAATACCCTTGATTTATAAAATTACCAAAATACCCTCGATTCA-TAAAATTAC
15815035 TAAAATGCCC
Statistics
Matches: 229, Mismatches: 43, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
106 3 0.01
107 82 0.36
108 143 0.62
109 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (107 bp):
CAAATTACTGAAATACCCTTGATTTATAAAATTACCAAAATACCCTCGATTCATAAAATTACCAT
TTTACCTTGACTTACAGAATTACCATTTTACCCTCAATTTGA
Found at i:15815395 original size:27 final size:27
Alignment explanation
Indices: 15815271--15815397 Score: 96
Period size: 27 Copynumber: 4.7 Consensus size: 27
15815261 TTGATTTGTG
* *
15815271 AAATGACTGAAATACCCTCAATTTGCA
1 AAATTACTGAAATACCCTCAATTTACA
15815298 AAATTACTGAAATACCCTCAACTTGTA-A
1 AAATTACTGAAATACCCTCAA-TT-TACA
* * * *
15815326 AAATTAC-CAAAGTGCCCCCGATTTACA
1 AAATTACTGAAA-TACCCTCAATTTACA
* * *** *
15815353 GAATTACCGTCTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCAATTTACA
*
15815380 AAATTATTGAAATACCCT
1 AAATTACTGAAATACCCT
15815398 TGTAGGGTAG
Statistics
Matches: 76, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
26 2 0.03
27 57 0.75
28 16 0.21
29 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.28
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAATTTACA
Found at i:15815411 original size:27 final size:27
Alignment explanation
Indices: 15815381--15815520 Score: 190
Period size: 27 Copynumber: 5.2 Consensus size: 27
15815371 CGATTTACAA
*
15815381 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
* * *
15815408 AATTACCGAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
* *
15815435 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
15815462 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
* * * *
15815489 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTATCGAAATACCCTTGTAGGGTAG
15815516 AATTA
1 AATTA
15815521 CCATTTTGCC
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (27 bp):
AATTATCGAAATACCCTTGTAGGGTAG
Found at i:15815763 original size:25 final size:25
Alignment explanation
Indices: 15815727--15815821 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
15815717 AGGAAGTGCT
*
15815727 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
15815752 AAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
15815777 AAAAGAGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
15815802 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
15815822 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:15816119 original size:29 final size:30
Alignment explanation
Indices: 15816028--15816121 Score: 75
Period size: 29 Copynumber: 3.1 Consensus size: 30
15816018 CCTATGGGCC
* *
15816028 ATACCATTTACAGTAAAGGCTTCAGCCCAGT
1 ATACCATTAAC-GAAAAGGCTTCAGCCCAGT
** * ** *
15816059 GATATGATTTACGAAAAGGCTTTGGCCTAGT
1 -ATACCATTAACGAAAAGGCTTCAGCCCAGT
15816090 A-ACCATTAAACG-AAAGGCTTCAGCCCAGT
1 ATACCATT-AACGAAAAGGCTTCAGCCCAGT
15816119 ATA
1 ATA
15816122 TGTCGAGACC
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
29 19 0.40
30 5 0.10
31 15 0.31
32 9 0.19
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (30 bp):
ATACCATTAACGAAAAGGCTTCAGCCCAGT
Found at i:15819730 original size:23 final size:22
Alignment explanation
Indices: 15819670--15819734 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 22
15819660 CTTGATTAGT
15819670 ATACGACACATAAGTGCCTGAA
1 ATACGACACATAAGTGCCTGAA
* *
15819692 AT--GACACACGAGGTGCCTGAA
1 ATACGACACA-TAAGTGCCTGAA
15819713 ATACGACACATAAAGTGCCTGA
1 ATACGACACAT-AAGTGCCTGA
15819735 TCGACAAAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
20 6 0.17
21 12 0.34
22 2 0.06
23 15 0.43
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (22 bp):
ATACGACACATAAGTGCCTGAA
Found at i:15823322 original size:17 final size:16
Alignment explanation
Indices: 15823293--15823326 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
15823283 GTCCTCCCTC
15823293 ATTTATCACTTGAGCA
1 ATTTATCACTTGAGCA
*
15823309 ATTTAATCATTTGAGCA
1 ATTT-ATCACTTGAGCA
15823326 A
1 A
15823327 ATTTTGCACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (16 bp):
ATTTATCACTTGAGCA
Found at i:15827084 original size:6 final size:6
Alignment explanation
Indices: 15827065--15827107 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
15827055 GAAGCAGGGG
* * *
15827065 AGAAAA AGAGAA AGAAAA AGGAAA AGAAAA ATAAAA GAGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA -AGAAAA
15827108 CTCAGGATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:15828105 original size:39 final size:40
Alignment explanation
Indices: 15827998--15828108 Score: 104
Period size: 38 Copynumber: 2.8 Consensus size: 40
15827988 GACCTCGAGT
**
15827998 CGATGAGACACTGGGTGTC-ACTAAATTTA-TTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--A-TTACTTCGGATAGAGC
** ** *
15828039 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
15828077 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
15828109 AACTATCCGA
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
38 22 0.39
39 16 0.29
41 15 0.27
42 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:15828250 original size:15 final size:16
Alignment explanation
Indices: 15828225--15828254 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15828215 TTAAGGCATT
15828225 GAAATAAAAAAGAAAA
1 GAAATAAAAAAGAAAA
15828241 GAAA-AAAAAAGAAA
1 GAAATAAAAAAGAAA
15828255 TTGAATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (16 bp):
GAAATAAAAAAGAAAA
Found at i:15828273 original size:18 final size:18
Alignment explanation
Indices: 15828250--15828290 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15828240 AGAAAAAAAA
15828250 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
15828268 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
15828286 AGAAA
1 AGAAA
15828291 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:15828801 original size:20 final size:20
Alignment explanation
Indices: 15828778--15828815 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15828768 GTTATTAAGT
15828778 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
15828798 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
15828816 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:15829038 original size:16 final size:19
Alignment explanation
Indices: 15828999--15829038 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 19
15828989 GGACTTAATT
15828999 ATTATATTATACTATGTAA
1 ATTATATTATACTATGTAA
*
15829018 GTTATATTA-A-T-TGTAA
1 ATTATATTATACTATGTAA
15829034 ATTAT
1 ATTAT
15829039 TTGTAAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
16 9 0.47
17 1 0.05
18 1 0.05
19 8 0.42
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (19 bp):
ATTATATTATACTATGTAA
Found at i:15829876 original size:29 final size:29
Alignment explanation
Indices: 15829839--15829895 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
15829829 CACCTTGACA
* *
15829839 CGAATTCTCAATGAACAAGTTCTTCACCG
1 CGAACTCTCAACGAACAAGTTCTTCACCG
15829868 CGAACTCTCAACGAACAAGTTCTTCACC
1 CGAACTCTCAACGAACAAGTTCTTCACC
15829896 TCTTCTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.25
Consensus pattern (29 bp):
CGAACTCTCAACGAACAAGTTCTTCACCG
Found at i:15831251 original size:4 final size:4
Alignment explanation
Indices: 15831242--15831276 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
15831232 GAGCAAATGT
15831242 GAAA GAAA G-AA GAAA GAAA GAAA GAAA GAAA -AAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
15831277 GGAAATTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:15847783 original size:17 final size:18
Alignment explanation
Indices: 15847752--15847786 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15847742 AATTTAATTA
*
15847752 TTTTATCTAATAAATATC
1 TTTTATCTAAAAAATATC
15847770 TTTTA-CTAAAAAATATC
1 TTTTATCTAAAAAATATC
15847787 ACAAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTTATCTAAAAAATATC
Found at i:15848296 original size:41 final size:41
Alignment explanation
Indices: 15848234--15848316 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
15848224 ACTTAATAAT
* *
15848234 GATTACACTTTTATAATTTAGTCCCCATATTATAGTTAACC
1 GATTACACTTTTACAATTTAGTCCCCATACTATAGTTAACC
*
15848275 GATTGCACTTTTACAATTTAGTCCCCATACTATAGTTAACC
1 GATTACACTTTTACAATTTAGTCCCCATACTATAGTTAACC
15848316 G
1 G
15848317 CTTTCTCGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.39
Consensus pattern (41 bp):
GATTACACTTTTACAATTTAGTCCCCATACTATAGTTAACC
Found at i:15876805 original size:2 final size:2
Alignment explanation
Indices: 15876798--15876822 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15876788 CAGATGAGGC
15876798 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
15876823 ATAGAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15879888 original size:43 final size:43
Alignment explanation
Indices: 15879827--15879917 Score: 182
Period size: 43 Copynumber: 2.1 Consensus size: 43
15879817 AAGTTCTGTT
15879827 ACCAAAAACAATTGATTATGAAATCCATATAAATACTAAAGTA
1 ACCAAAAACAATTGATTATGAAATCCATATAAATACTAAAGTA
15879870 ACCAAAAACAATTGATTATGAAATCCATATAAATACTAAAGTA
1 ACCAAAAACAATTGATTATGAAATCCATATAAATACTAAAGTA
15879913 ACCAA
1 ACCAA
15879918 GTTTTATAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.54, C:0.15, G:0.07, T:0.24
Consensus pattern (43 bp):
ACCAAAAACAATTGATTATGAAATCCATATAAATACTAAAGTA
Found at i:15883764 original size:13 final size:14
Alignment explanation
Indices: 15883746--15883774 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15883736 TCTTCTAATA
15883746 ATTTAATTAT-TAT
1 ATTTAATTATATAT
15883759 ATTTAATTATATAT
1 ATTTAATTATATAT
15883773 AT
1 AT
15883775 AAATCATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTAATTATATAT
Found at i:15885214 original size:5 final size:5
Alignment explanation
Indices: 15885204--15885228 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15885194 TTTAATCAAA
15885204 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
15885229 GGCCTCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:15888062 original size:19 final size:19
Alignment explanation
Indices: 15888038--15888075 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15888028 CTTTGAACTG
15888038 AAAGAAAACTTGAACCTTT
1 AAAGAAAACTTGAACCTTT
15888057 AAAGAAAACTTGAACCTTT
1 AAAGAAAACTTGAACCTTT
15888076 CCTCGAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
AAAGAAAACTTGAACCTTT
Found at i:15890232 original size:31 final size:31
Alignment explanation
Indices: 15890197--15890273 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
15890187 ATGTATAATT
* * * *
15890197 TTTTGGACAAGTTTAAGTATCAATTAGATAC
1 TTTTGGACAAGTTCAAGTACCAACTAAATAC
15890228 TTTTGGACAAGTTCAAGTACCAACTAAATAC
1 TTTTGGACAAGTTCAAGTACCAACTAAATAC
15890259 TTTTGGACAAGTTCA
1 TTTTGGACAAGTTCA
15890274 TAGGGCAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (31 bp):
TTTTGGACAAGTTCAAGTACCAACTAAATAC
Found at i:15891620 original size:3 final size:3
Alignment explanation
Indices: 15891612--15891636 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15891602 GGTTTAGAAT
15891612 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
15891637 CAAAACTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15904247 original size:25 final size:25
Alignment explanation
Indices: 15904213--15904264 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
15904203 CATATATGCC
15904213 ATTGCTAATTCCCTAATGGTCTCAG
1 ATTGCTAATTCCCTAATGGTCTCAG
15904238 ATTGCTAATTCCCTAATGGTCTCAG
1 ATTGCTAATTCCCTAATGGTCTCAG
15904263 AT
1 AT
15904265 ACTTTAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (25 bp):
ATTGCTAATTCCCTAATGGTCTCAG
Found at i:15919147 original size:61 final size:64
Alignment explanation
Indices: 15919018--15919147 Score: 164
Period size: 61 Copynumber: 2.1 Consensus size: 64
15919008 GAAAACAAAA
* *
15919018 TAAATTATTTAAGTTTATTTTTTACCTAATTAATATTTAGAAACTATTTATACTTAGATATTAC
1 TAAATTATTAAAGTTTATTTTTTACCAAATTAATATTTAGAAACTATTTATACTTAGATATTAC
* * *
15919082 --AATTATTAAATTTTA-TTTTTACCAAATTAATATTTAGATACTATTTCGTA-TTAG-T-TTAC
1 TAAATTATTAAAGTTTATTTTTTACCAAATTAATATTTAGAAACTATTT-ATACTTAGATATTAC
15919141 TAAATTA
1 TAAATTA
15919148 AACTAAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
59 4 0.07
60 1 0.02
61 38 0.66
62 15 0.26
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.50
Consensus pattern (64 bp):
TAAATTATTAAAGTTTATTTTTTACCAAATTAATATTTAGAAACTATTTATACTTAGATATTAC
Found at i:15922074 original size:20 final size:20
Alignment explanation
Indices: 15922051--15922092 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
15922041 AAAGAATAAC
15922051 ATTAATAATA-AAAAAATCAA
1 ATTAA-AATACAAAAAATCAA
15922071 ATTAAAATACAAAAAATCAA
1 ATTAAAATACAAAAAATCAA
15922091 AT
1 AT
15922093 CAAATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (20 bp):
ATTAAAATACAAAAAATCAA
Found at i:15922097 original size:25 final size:23
Alignment explanation
Indices: 15922054--15922115 Score: 90
Period size: 25 Copynumber: 2.7 Consensus size: 23
15922044 GAATAACATT
*
15922054 AATAATAAAA-AAATCAAATTAA
1 AATAAAAAAATAAATCAAATTAA
15922076 AATACAAAAAATCAAATCAAATTAA
1 AATA-AAAAAAT-AAATCAAATTAA
15922101 AATAAAAAAATAAAT
1 AATAAAAAAATAAAT
15922116 TCCACCATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 4 0.11
23 9 0.25
24 7 0.19
25 16 0.44
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (23 bp):
AATAAAAAAATAAATCAAATTAA
Found at i:15928148 original size:6 final size:6
Alignment explanation
Indices: 15928137--15928162 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15928127 TTGTGTGAAC
15928137 AAAACA AAAACA AAAACA AAAACA AA
1 AAAACA AAAACA AAAACA AAAACA AA
15928163 TATGGCTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:15931491 original size:22 final size:20
Alignment explanation
Indices: 15931465--15931506 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
15931455 GTTATAAGTT
15931465 TAAAAATTAAAATTAATTTAAA
1 TAAAAATT-AAATT-ATTTAAA
15931487 TAAAAATTAAATTATTTAAA
1 TAAAAATTAAATTATTTAAA
15931507 AATTAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAAATTAAATTATTTAAA
Found at i:15931492 original size:16 final size:16
Alignment explanation
Indices: 15931468--15931513 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
15931458 ATAAGTTTAA
*
15931468 AAATTAAAATTAATTT
1 AAATAAAAATTAATTT
*
15931484 AAATAAAAATTAAATT
1 AAATAAAAATTAATTT
**
15931500 ATTTAAAAATTAAT
1 AAATAAAAATTAAT
15931514 AAAATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATAAAAATTAATTT
Found at i:15931509 original size:22 final size:22
Alignment explanation
Indices: 15931464--15931524 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 22
15931454 TGTTATAAGT
15931464 TTAAAAATTAAAATTAATTTAAA
1 TTAAAAATT-AAATTAATTTAAA
15931487 -TAAAAATTAAATT-ATTTAAAAA
1 TTAAAAATTAAATTAATTT--AAA
15931509 TTAATAAAATTAAATT
1 TT-A-AAAATTAAATT
15931525 TCTTCAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 4 0.12
21 5 0.15
22 11 0.33
23 1 0.03
24 1 0.03
25 11 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAAAAATTAAATTAATTTAAA
Found at i:15931518 original size:20 final size:20
Alignment explanation
Indices: 15931465--15931520 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
15931455 GTTATAAGTT
15931465 TAAAAATTAAAATTAATTTAAA
1 TAAAAA-TAAAATT-ATTTAAA
*
15931487 TAAAAATTAAATTATTTAAA
1 TAAAAATAAAATTATTTAAA
*
15931507 -AATTAATAAAATTA
1 TAA-AAATAAAATTA
15931521 AATTTCTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 16 0.53
21 6 0.20
22 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAAATAAAATTATTTAAA
Found at i:15936666 original size:17 final size:17
Alignment explanation
Indices: 15936639--15936676 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
15936629 CATGCTAGTT
15936639 TTTTGAATTTTTATGAAA
1 TTTTGAATTTTT-TGAAA
*
15936657 TTTT-AATTTTTTTAAA
1 TTTTGAATTTTTTGAAA
15936673 TTTT
1 TTTT
15936677 TAAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (17 bp):
TTTTGAATTTTTTGAAA
Found at i:15936677 original size:17 final size:18
Alignment explanation
Indices: 15936638--15936679 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
15936628 TCATGCTAGT
15936638 TTTTTGAATTTTTATGAAA
1 TTTTT-AATTTTTATGAAA
*
15936657 -TTTTAATTTTT-TTAAA
1 TTTTTAATTTTTATGAAA
15936673 TTTTTAA
1 TTTTTAA
15936680 ATATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.19
17 13 0.62
18 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTTTAATTTTTATGAAA
Found at i:15937295 original size:31 final size:32
Alignment explanation
Indices: 15937236--15937300 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
15937226 TTATCAATAA
15937236 AAATTATTTAAAAATAATTTATTATTAT-ATT
1 AAATTATTTAAAAATAATTTATTATTATAATT
*
15937267 AAATTATTTAATTAA-AATTTA-TAGTTATAATT
1 AAATTATTTAA-AAATAATTTATTA-TTATAATT
15937299 AA
1 AA
15937301 TATTTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 2 0.07
31 21 0.70
32 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (32 bp):
AAATTATTTAAAAATAATTTATTATTATAATT
Found at i:15948296 original size:19 final size:19
Alignment explanation
Indices: 15948260--15948321 Score: 90
Period size: 19 Copynumber: 3.2 Consensus size: 19
15948250 TTACAAAAAA
15948260 AAATAATTCTTAAAAATTCT
1 AAATAATT-TTAAAAATTCT
*
15948280 AAATAATTTTTAAAATTCT
1 AAATAATTTTAAAAATTCT
15948299 AAAT-ATTTATAAAAATTCT
1 AAATAATTT-TAAAAATTCT
15948318 AAAT
1 AAAT
15948322 TTTATATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
18 4 0.10
19 27 0.69
20 8 0.21
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATAATTTTAAAAATTCT
Found at i:15948311 original size:18 final size:18
Alignment explanation
Indices: 15948272--15948327 Score: 78
Period size: 19 Copynumber: 3.1 Consensus size: 18
15948262 ATAATTCTTA
*
15948272 AAAATTCTAAATAATTTTT
1 AAAATTCTAAAT-ATTTAT
15948291 AAAATTCTAAATATTTAT
1 AAAATTCTAAATATTTAT
15948309 AAAAATTCTAAAT-TTTAT
1 -AAAATTCTAAATATTTAT
15948327 A
1 A
15948328 TTTTTAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
17 1 0.03
18 10 0.29
19 24 0.69
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATTCTAAATATTTAT
Found at i:15948321 original size:26 final size:25
Alignment explanation
Indices: 15948292--15948345 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
15948282 ATAATTTTTA
15948292 AAATTCTAAATATTTATAAAAATTCT
1 AAATTCTAAATATTTA-AAAAATTCT
* * *
15948318 AAATTTTATATTTTTAAAAAATTCT
1 AAATTCTAAATATTTAAAAAATTCT
15948343 AAA
1 AAA
15948346 AAATATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (25 bp):
AAATTCTAAATATTTAAAAAATTCT
Found at i:15948352 original size:25 final size:26
Alignment explanation
Indices: 15948304--15948353 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
15948294 ATTCTAAATA
***
15948304 TTTATAAAAATTCTAAATTTTATATT
1 TTTATAAAAATTCTAAAAAATATATT
15948330 TTTA-AAAAATTCTAAAAAATATAT
1 TTTATAAAAATTCTAAAAAATATAT
15948354 AAAGAAAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTATAAAAATTCTAAAAAATATATT
Found at i:15962223 original size:11 final size:11
Alignment explanation
Indices: 15962207--15962231 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15962197 ATATCTAGAA
15962207 TTCTCTTCATT
1 TTCTCTTCATT
15962218 TTCTCTTCATT
1 TTCTCTTCATT
15962229 TTC
1 TTC
15962232 ATCATCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:15964471 original size:6 final size:6
Alignment explanation
Indices: 15964460--15964490 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
15964450 ATGTGCCGAC
*
15964460 TACTGT TACTGT TACCGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
15964491 TCGGCACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:15964525 original size:6 final size:6
Alignment explanation
Indices: 15964514--15964547 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
15964504 TGTAAGATAT
* *
15964514 TGTTAC TGTTAC TGTTAC CGTTAC TATTAC TGTT
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTT
15964548 TTTGGATTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (6 bp):
TGTTAC
Found at i:15964811 original size:18 final size:18
Alignment explanation
Indices: 15964758--15964918 Score: 81
Period size: 18 Copynumber: 8.5 Consensus size: 18
15964748 AAAGATCGAC
*
15964758 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
* *
15964777 TGTTACTGTATATTTGAT
1 TGTTACTGAATAATTGAT
* *
15964795 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
15964813 TGTTACTGGGTAACCGATCAATTGAT
1 TGTTACT--G--A---AT-AATTGAT
* *
15964839 TGATACTGAATAACTGAT
1 TGTTACTGAATAATTGAT
** *
15964857 TAATATTGAATAATTGAT
1 TGTTACTGAATAATTGAT
* * *
15964875 TGTTACCGAATAACTGAC
1 TGTTACTGAATAATTGAT
* * * *
15964893 TATTACTAAATAAATAAT
1 TGTTACTGAATAATTGAT
15964911 TGTT-CTGA
1 TGTTACTGA
15964919 TACGTTAATG
Statistics
Matches: 106, Mismatches: 28, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
17 3 0.03
18 72 0.68
19 13 0.12
20 1 0.01
22 2 0.02
24 1 0.01
25 2 0.02
26 12 0.11
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:15964905 original size:36 final size:36
Alignment explanation
Indices: 15964832--15964914 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
15964822 GTAACCGATC
* * * * *
15964832 AATTGATTGATACTGAATAACTGATTAATATTGAAT
1 AATTGATTGTTACCGAATAACTGACTAATACTAAAT
*
15964868 AATTGATTGTTACCGAATAACTGACTATTACTAAAT
1 AATTGATTGTTACCGAATAACTGACTAATACTAAAT
* *
15964904 AAATAATTGTT
1 AATTGATTGTT
15964915 CTGATACGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (36 bp):
AATTGATTGTTACCGAATAACTGACTAATACTAAAT
Found at i:15968789 original size:29 final size:30
Alignment explanation
Indices: 15968740--15968799 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
15968730 AGAATTGGAT
* *
15968740 AAAATTAAAATTTTATGTATAAAATTACAC
1 AAAATTAAAAGTTTATATATAAAATTACAC
*
15968770 AAAATT-AAAGTTTATATATACAATTACAC
1 AAAATTAAAAGTTTATATATAAAATTACAC
15968799 A
1 A
15968800 TTAAATCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTAAAAGTTTATATATAAAATTACAC
Found at i:15982591 original size:16 final size:16
Alignment explanation
Indices: 15982570--15982602 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15982560 CTCTAAGGAG
15982570 CATACTTATATTTTGC
1 CATACTTATATTTTGC
15982586 CATACTTATATTTTGC
1 CATACTTATATTTTGC
15982602 C
1 C
15982603 TTTGCAATAT
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:0.24, C:0.21, G:0.06, T:0.48
Consensus pattern (16 bp):
CATACTTATATTTTGC
Found at i:15996037 original size:23 final size:22
Alignment explanation
Indices: 15996006--15996048 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
15995996 AAATTTAAAT
*
15996006 TTATCTATTTTTATTTTAAAAAA
1 TTATCTATTTAT-TTTTAAAAAA
*
15996029 TTATTTATTTATTTTTAAAA
1 TTATCTATTTATTTTTAAAA
15996049 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATCTATTTATTTTTAAAAAA
Found at i:16011945 original size:20 final size:21
Alignment explanation
Indices: 16011906--16011956 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
16011896 TCTAAATTCT
*
16011906 ATATAAAT-TTTTAAATAATA
1 ATATAAATAATTTAAATAATA
16011926 ATATAAATAATTTAAA-AATA
1 ATATAAATAATTTAAATAATA
*
16011946 TTA-AAATAATT
1 ATATAAATAATT
16011957 AGACATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 8 0.29
20 14 0.50
21 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATAAATAATTTAAATAATA
Found at i:16013409 original size:19 final size:19
Alignment explanation
Indices: 16013376--16013424 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
16013366 CGTAAATATG
*
16013376 AAAAAAATTAGGTAC-AAA
1 AAAAAAATTAAGTACGAAA
16013394 AAAAAAATGTAAGTACGAAA
1 AAAAAAAT-TAAGTACGAAA
16013414 ATGAAAAAATT
1 A--AAAAAATT
16013425 GATACATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 8 0.31
19 6 0.23
20 4 0.15
21 1 0.04
22 7 0.27
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.18
Consensus pattern (19 bp):
AAAAAAATTAAGTACGAAA
Found at i:16016125 original size:24 final size:25
Alignment explanation
Indices: 16016098--16016146 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16016088 GTCCCATTAA
16016098 TTTCTTAGAT-TCTTCCCTTTTTTT
1 TTTCTTAGATCTCTTCCCTTTTTTT
** *
16016122 TTTCTTTTATCTTTTCCCTTTTTTT
1 TTTCTTAGATCTCTTCCCTTTTTTT
16016147 CTGGTTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTCTTAGATCTCTTCCCTTTTTTT
Found at i:16017706 original size:18 final size:18
Alignment explanation
Indices: 16017683--16017724 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
16017673 ATAATGCTAC
*
16017683 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
16017701 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
16017719 AATAAC
1 AATAAC
16017725 AACAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:16017749 original size:3 final size:3
Alignment explanation
Indices: 16017743--16017928 Score: 89
Period size: 3 Copynumber: 61.7 Consensus size: 3
16017733 AATAGTAGAC
* * * * *
16017743 AAT AAT AAT AGT -AT ATT AAT AAA AAT AAT AAT -AT AAA AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** ** *
16017789 AAT AAA AAT -AT GTT TCT AAT AAT AAT AAAT CAAT AAT GAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT -AAT
* * * *
16017836 ATAT ACAA AAT AAT AGT AAC AGT AAT AA- AAT AAGT -AT AAT -AT AAT
1 A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* * *
16017881 AA- ATAT AAT AAT AAT AAT AAT ATAT AAT AAT AAC AAT ATT AAA AAT
1 AAT A-AT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
16017927 AA
1 AA
16017929 CACTCTCCCT
Statistics
Matches: 135, Mismatches: 35, Indels: 26
0.69 0.18 0.13
Matches are distributed among these distances:
2 11 0.08
3 105 0.78
4 19 0.14
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16017770 original size:23 final size:23
Alignment explanation
Indices: 16017759--16017928 Score: 73
Period size: 23 Copynumber: 7.1 Consensus size: 23
16017749 AATAGTATAT
16017759 TAATAAAAATAATAATATAAAAA
1 TAATAAAAATAATAATATAAAAA
* ***
16017782 TAATAAAAATAAAAATATGTTTCTAA
1 TAATAAAAATAATAATA---TAAAAA
16017808 TAATAATAAATCAATAATGATAATAAA
1 TAATAA-AAAT-AATAAT-ATAA-AAA
* * *
16017835 TATATACAAAATAAT-A-GTAACAG
1 TA-ATA-AAAATAATAATATAAAAA
* *
16017858 TAAT-AAAAT-A-AGTAT-AATA
1 TAATAAAAATAATAATATAAAAA
* *
16017877 TAATAAATATAATAATAATAATAA
1 TAATAAAAATAATAAT-ATAAAAA
* *
16017901 TATATAATAATAACAATATTAAAAA
1 TA-ATAAAAATAATAATA-TAAAAA
16017926 TAA
1 TAA
16017929 CACTCTCCCT
Statistics
Matches: 105, Mismatches: 24, Indels: 35
0.64 0.15 0.21
Matches are distributed among these distances:
19 6 0.06
20 10 0.10
21 1 0.01
22 4 0.04
23 21 0.20
24 9 0.09
25 18 0.17
26 11 0.10
27 11 0.10
28 12 0.11
29 2 0.02
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (23 bp):
TAATAAAAATAATAATATAAAAA
Found at i:16017778 original size:14 final size:15
Alignment explanation
Indices: 16017760--16017798 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
16017750 ATAGTATATT
16017760 AATAAAAATAAT-AA
1 AATAAAAATAATAAA
*
16017774 TATAAAAATAATAAA
1 AATAAAAATAATAAA
16017789 AATAAAAATA
1 AATAAAAATA
16017799 TGTTTCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAAAATAATAAA
Found at i:16017783 original size:20 final size:21
Alignment explanation
Indices: 16017746--16017793 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
16017736 AGTAGACAAT
* **
16017746 AATAATAGTATATTAATAA-A
1 AATAATAATATAAAAATAATA
16017766 AATAATAATATAAAAATAATA
1 AATAATAATATAAAAATAATA
16017787 AA-AATAA
1 AATAATAA
16017794 AAATATGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAATAATATAAAAATAATA
Found at i:16017867 original size:20 final size:18
Alignment explanation
Indices: 16017842--16017890 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
16017832 AAATATATAC
16017842 AAAATAATAGTAACAGTAAT
1 AAAATAATA-TAACA-TAAT
*
16017862 AAAATAAGTATAATATAAT
1 AAAATAA-TATAACATAAT
16017881 AAATATAATA
1 AAA-ATAATA
16017891 ATAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 9 0.35
20 15 0.58
21 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAATAATATAACATAAT
Found at i:16017881 original size:14 final size:13
Alignment explanation
Indices: 16017858--16017912 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 13
16017848 ATAGTAACAG
*
16017858 TAATAAAATAAGTA
1 TAATATAATAA-TA
16017872 TAATATAATAAATA
1 TAATATAAT-AATA
16017886 TAATAATAATAATA
1 TAAT-ATAATAATA
16017900 -ATATATAATAATA
1 TA-ATATAATAATA
16017913 ACAATATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
13 10 0.27
14 20 0.54
15 7 0.19
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (13 bp):
TAATATAATAATA
Found at i:16017918 original size:28 final size:28
Alignment explanation
Indices: 16017874--16017928 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
16017864 AATAAGTATA
* *
16017874 ATATAATAAATATAATAATAATAATAAT
1 ATATAATAAATACAATAATAAAAATAAT
*
16017902 ATATAAT-AATAACAATATTAAAAATAA
1 ATATAATAAAT-ACAATAATAAAAATAA
16017929 CACTCTCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
ATATAATAAATACAATAATAAAAATAAT
Found at i:16018181 original size:17 final size:17
Alignment explanation
Indices: 16018159--16018216 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
16018149 TTTGTAGGCA
16018159 AGTGGGGTGATGGAGTT
1 AGTGGGGTGATGGAGTT
*
16018176 AGT--GG-GATGG-TTT
1 AGTGGGGTGATGGAGTT
* *
16018189 AATTGGGTGATGGAGTT
1 AGTGGGGTGATGGAGTT
16018206 AGTGGGGTGAT
1 AGTGGGGTGAT
16018217 TTAGTAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
13 4 0.12
14 5 0.16
15 4 0.12
16 5 0.16
17 14 0.44
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.33
Consensus pattern (17 bp):
AGTGGGGTGATGGAGTT
Found at i:16018227 original size:30 final size:30
Alignment explanation
Indices: 16018163--16018227 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
16018153 TAGGCAAGTG
* *
16018163 GGGTGATGGAGTTAGTGGGATGGTTTAATT
1 GGGTGATGGAGTTAGTGGGATGATTTAATA
* *
16018193 GGGTGATGGAGTTAGTGGGGTGATTTAGTA
1 GGGTGATGGAGTTAGTGGGATGATTTAATA
16018223 GGGTG
1 GGGTG
16018228 TGGGGGTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.34
Consensus pattern (30 bp):
GGGTGATGGAGTTAGTGGGATGATTTAATA
Found at i:16019625 original size:21 final size:21
Alignment explanation
Indices: 16019599--16019639 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
16019589 TAACAGGAGT
16019599 GCTGACGTGGCAAGTTAACTA
1 GCTGACGTGGCAAGTTAACTA
*
16019620 GCTGACGTGGCCAGTTAACT
1 GCTGACGTGGCAAGTTAACT
16019640 TGTCACGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACTA
Found at i:16020932 original size:20 final size:20
Alignment explanation
Indices: 16020895--16020932 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16020885 TGATGGGGAG
*
16020895 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
16020915 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
16020933 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:16022841 original size:46 final size:46
Alignment explanation
Indices: 16022788--16023003 Score: 317
Period size: 46 Copynumber: 4.7 Consensus size: 46
16022778 AGTGTGCTCT
* *
16022788 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
16022834 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16022880 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
16022926 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
16022972 ATGACA-GAAAATGAGTAAGACCATAGTTGAAA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAA
16023004 TACACTATGG
Statistics
Matches: 158, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 157 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:16029142 original size:13 final size:13
Alignment explanation
Indices: 16029124--16029150 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16029114 CAATAGCCAG
16029124 TTATTTCATTCAA
1 TTATTTCATTCAA
16029137 TTATTTCATTCAA
1 TTATTTCATTCAA
16029150 T
1 T
16029151 GATCCAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATTTCATTCAA
Found at i:16029612 original size:12 final size:12
Alignment explanation
Indices: 16029597--16029644 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
16029587 GTGGCGGCTT
*
16029597 AGGTGGTGGGGG
1 AGGTGGTGGTGG
16029609 AGGTGGTGGTGG
1 AGGTGGTGGTGG
* *
16029621 CGGTGGCGGTGG
1 AGGTGGTGGTGG
*
16029633 AGGTGGGGGTGG
1 AGGTGGTGGTGG
16029645 CAAAGGCGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.06, C:0.04, G:0.71, T:0.19
Consensus pattern (12 bp):
AGGTGGTGGTGG
Found at i:16029631 original size:18 final size:18
Alignment explanation
Indices: 16029610--16029645 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16029600 TGGTGGGGGA
*
16029610 GGTGGTGGTGGCGGTGGC
1 GGTGGAGGTGGCGGTGGC
*
16029628 GGTGGAGGTGGGGGTGGC
1 GGTGGAGGTGGCGGTGGC
16029646 AAAGGCGGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.08, G:0.69, T:0.19
Consensus pattern (18 bp):
GGTGGAGGTGGCGGTGGC
Found at i:16029652 original size:24 final size:24
Alignment explanation
Indices: 16029607--16029655 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
16029597 AGGTGGTGGG
* ***
16029607 GGAGGTGGTGGTGGCGGTGGCGGT
1 GGAGGTGGGGGTGGCAAAGGCGGT
16029631 GGAGGTGGGGGTGGCAAAGGCGGT
1 GGAGGTGGGGGTGGCAAAGGCGGT
16029655 G
1 G
16029656 CTGGATATGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.10, C:0.08, G:0.65, T:0.16
Consensus pattern (24 bp):
GGAGGTGGGGGTGGCAAAGGCGGT
Found at i:16031218 original size:42 final size:42
Alignment explanation
Indices: 16031111--16031193 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
16031101 AAAAGAAAAG
*
16031111 AAATTGGTTGACAATGATGAGATTGAACATTTTTTCCACATT
1 AAATTGATTGACAATGATGAGATTGAACATTTTTTCCACATT
16031153 AAATTGATTGACAATGATGAGATTGAAC-TTTTTTCCACATT
1 AAATTGATTGACAATGATGAGATTGAACATTTTTTCCACATT
16031194 TAAAATTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 13 0.32
42 27 0.68
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.39
Consensus pattern (42 bp):
AAATTGATTGACAATGATGAGATTGAACATTTTTTCCACATT
Found at i:16036907 original size:15 final size:16
Alignment explanation
Indices: 16036889--16036919 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16036879 TTCAAGAGCA
16036889 AAAGGA-AAACATTTG
1 AAAGGAGAAACATTTG
16036904 AAAGGAGAAACATTTG
1 AAAGGAGAAACATTTG
16036920 CATGGAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (16 bp):
AAAGGAGAAACATTTG
Found at i:16046159 original size:6 final size:6
Alignment explanation
Indices: 16046148--16046172 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16046138 ATGTTGGTCC
16046148 ATTAAA ATTAAA ATTAAA ATTAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA A
16046173 CAGAACATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATTAAA
Found at i:16046825 original size:20 final size:21
Alignment explanation
Indices: 16046788--16046827 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16046778 GCAGTGTACC
*
16046788 AAATATTTTTCATTATTTTAA
1 AAATATTTTTCATCATTTTAA
16046809 AAATATTTTT-ATCATTTTA
1 AAATATTTTTCATCATTTTA
16046828 TATCTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATATTTTTCATCATTTTAA
Found at i:16058991 original size:6 final size:6
Alignment explanation
Indices: 16058982--16059016 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
16058972 TCCTTAAATT
16058982 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
16059017 TAGATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:16070370 original size:29 final size:29
Alignment explanation
Indices: 16070300--16070371 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
16070290 AGAAAATATC
16070300 CAGTGCACTCTCTATTCTATTAATGCATTT
1 CAGTGCA-TCTCTATTCTATTAATGCATTT
* *
16070330 CAGTGCCA-CTCTGTTCTATTTATGCACTTT
1 CAGTG-CATCTCTATTCTATTAATGCA-TTT
*
16070360 -GGTGCATCTCTA
1 CAGTGCATCTCTA
16070372 CATTAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
28 2 0.06
29 23 0.66
30 8 0.23
31 2 0.06
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (29 bp):
CAGTGCATCTCTATTCTATTAATGCATTT
Found at i:16070797 original size:21 final size:19
Alignment explanation
Indices: 16070768--16070841 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 19
16070758 AAATTGATAG
16070768 ATATTATAATAAAATATAT
1 ATATTATAATAAAATATAT
* * *
16070787 TTACTTAATAATTAAGTATAT
1 ATA-TT-ATAATAAAATATAT
*
16070808 ATATTATAATAATATATA-
1 ATATTATAATAAAATATAT
16070826 ATAATATATAATAAAA
1 AT-AT-TATAATAAAA
16070842 GCAAAAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
18 2 0.05
19 14 0.33
20 13 0.30
21 14 0.33
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (19 bp):
ATATTATAATAAAATATAT
Found at i:16070827 original size:10 final size:10
Alignment explanation
Indices: 16070812--16070839 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
16070802 GTATATATAT
16070812 TATAATAATA
1 TATAATAATA
16070822 TATAATAATA
1 TATAATAATA
16070832 TATAATAA
1 TATAATAA
16070840 AAGCAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TATAATAATA
Found at i:16071727 original size:41 final size:40
Alignment explanation
Indices: 16071682--16071796 Score: 137
Period size: 37 Copynumber: 2.9 Consensus size: 40
16071672 ACTTCGAGTT
**
16071682 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAAGCC
* * *
16071723 GATGAGGCACTGGGTGCCAA-TT-TACTTCGG-TTTAGCC
1 GATGAGACACTGGGTGTCAATTTATACTTCGGATTAAGCC
*
16071760 GATGAGACACTGGGTGTCAATTTATTACTTCGAATTA
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGGATTA
16071797 TCCAATGAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
37 22 0.36
38 10 0.16
40 9 0.15
41 20 0.33
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTATACTTCGGATTAAGCC
Found at i:16071805 original size:40 final size:40
Alignment explanation
Indices: 16071682--16071815 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
16071672 ACTTCGAGTT
* *
16071682 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAATTTATTACTTCGGATT-ATCC
* * * *
16071723 GATGAGGCACTGGGTGCCAA--T-TTACTTCGGTTTAGCC
1 GATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCC
*
16071760 GATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCC
1 GATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCC
* * *
16071800 AATGAGGCACTAGGTG
1 GATGAGACACTGGGTG
16071816 CCAAAATGGT
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
37 20 0.26
38 10 0.13
39 2 0.03
40 26 0.34
41 18 0.24
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCC
Found at i:16075247 original size:22 final size:22
Alignment explanation
Indices: 16075189--16075247 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
16075179 TAATTTATAC
*
16075189 ATTACTTTTACCATT-TTTTTT
1 ATTACTTTTACCATTATTTATT
* **
16075210 ATTATTTTTAATATTATTTATT
1 ATTACTTTTACCATTATTTATT
*
16075232 ATTACATTTACCATTA
1 ATTACTTTTACCATTA
16075248 CCGTTATTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTACTTTTACCATTATTTATT
Found at i:16075284 original size:20 final size:21
Alignment explanation
Indices: 16075251--16075299 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
16075241 ACCATTACCG
* * *
16075251 TTATTATTATTATTATTAGTA
1 TTATTTTTACTATTATTAGAA
16075272 -TATTTTTACTATTATTAGAA
1 TTATTTTTACTATTATTAGAA
16075292 TTATTTTT
1 TTATTTTT
16075300 TTAGTTTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (21 bp):
TTATTTTTACTATTATTAGAA
Found at i:16075871 original size:23 final size:23
Alignment explanation
Indices: 16075820--16075872 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
16075810 TAGTTTAATA
* *
16075820 ATATATTATGTATACATTTTTTT
1 ATATATTACGTATACATTCTTTT
*
16075843 ATATATTACGTATATATATCTTTT
1 ATATATTACGTATACAT-TCTTTT
16075867 A-ATATT
1 ATATATT
16075873 GTATTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (23 bp):
ATATATTACGTATACATTCTTTT
Found at i:16075920 original size:21 final size:20
Alignment explanation
Indices: 16075874--16075919 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
16075864 TTTAATATTG
* *
16075874 TATTTTTATTATTATGTATA
1 TATTTTTAATACTATGTATA
16075894 TA-TTTTAATACTATGTATA
1 TATTTTTAATACTATGTATA
16075913 TATTTTT
1 TATTTTT
16075920 TTTATTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (20 bp):
TATTTTTAATACTATGTATA
Found at i:16075926 original size:48 final size:49
Alignment explanation
Indices: 16075874--16075968 Score: 147
Period size: 48 Copynumber: 1.9 Consensus size: 49
16075864 TTTAATATTG
* *
16075874 TATTTTTATTATTATGTATATATTTTAATAC-TATGTATATATTTTTTT
1 TATTTCTATTATTACGTATATATTTTAATACATATGTATATATTTTTTT
16075922 TATTTCTATTATTACGTATATATTTTAATACATATATGTATATATTT
1 TATTTCTATTATTACGTATATATTTTAATAC--ATATGTATATATTT
16075969 ATATATCGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
48 29 0.69
51 13 0.31
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (49 bp):
TATTTCTATTATTACGTATATATTTTAATACATATGTATATATTTTTTT
Found at i:16076154 original size:3 final size:3
Alignment explanation
Indices: 16076146--16076184 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
16076136 CGTTTTATAC
16076146 TAT TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
16076185 CGTTTTCGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.03
3 32 0.94
4 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:16076159 original size:15 final size:14
Alignment explanation
Indices: 16076139--16076182 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
16076129 TTGTTAACGT
16076139 TTTATACTATTATTA
1 TTTATA-TATTATTA
16076154 TTTATATTATTATTA
1 TTTATA-TATTATTA
16076169 -TTAT-TATTATTA
1 TTTATATATTATTA
16076181 TT
1 TT
16076183 ATCGTTTTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 8 0.30
13 1 0.04
14 4 0.15
15 14 0.52
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTATATATTATTA
Found at i:16076196 original size:24 final size:24
Alignment explanation
Indices: 16076169--16076215 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
16076159 ATTATTATTA
* *
16076169 TTATTATTATTATTATCGTTTTCG
1 TTATCATTATTATTATCATTTTCG
* *
16076193 TTATCATTTTTATTTTCATTTTC
1 TTATCATTATTATTATCATTTTC
16076216 ATTTTGCCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.19, C:0.11, G:0.04, T:0.66
Consensus pattern (24 bp):
TTATCATTATTATTATCATTTTCG
Found at i:16079250 original size:29 final size:29
Alignment explanation
Indices: 16079208--16079297 Score: 180
Period size: 29 Copynumber: 3.1 Consensus size: 29
16079198 TATGTCCATA
16079208 TCATTCAAAATTCTTTCTACATAACCTAC
1 TCATTCAAAATTCTTTCTACATAACCTAC
16079237 TCATTCAAAATTCTTTCTACATAACCTAC
1 TCATTCAAAATTCTTTCTACATAACCTAC
16079266 TCATTCAAAATTCTTTCTACATAACCTAC
1 TCATTCAAAATTCTTTCTACATAACCTAC
16079295 TCA
1 TCA
16079298 AAGCTTTTCG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (29 bp):
TCATTCAAAATTCTTTCTACATAACCTAC
Found at i:16079495 original size:23 final size:23
Alignment explanation
Indices: 16079463--16079514 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
16079453 CCATGCATGC
16079463 TAACACGTATGCT-ATCCTAAACT
1 TAACACGTATGCTGAT-CTAAACT
* *
16079486 TAACATGTATGCTGATCTAGACT
1 TAACACGTATGCTGATCTAAACT
16079509 TAACAC
1 TAACAC
16079515 ATGCTCGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (23 bp):
TAACACGTATGCTGATCTAAACT
Found at i:16087466 original size:21 final size:20
Alignment explanation
Indices: 16087441--16087479 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16087431 AATTTGACTC
*
16087441 TAAAATTTTATAAAAAAATAT
1 TAAAATATT-TAAAAAAATAT
16087462 TAAAATATTTAAAAAAAT
1 TAAAATATTTAAAAAAAT
16087480 TTATATTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATATTTAAAAAAATAT
Found at i:16093964 original size:24 final size:24
Alignment explanation
Indices: 16093919--16093965 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16093909 ATATTAAAAG
*
16093919 ATATATATATAAAATGTATACATA
1 ATATATATATAAAATATATACATA
*
16093943 ATATA-ATATTAAAATATTTACAT
1 ATATATATA-TAAAATATATACAT
16093966 GGTATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATATATATAAAATATATACATA
Found at i:16094565 original size:39 final size:39
Alignment explanation
Indices: 16094486--16094624 Score: 174
Period size: 39 Copynumber: 3.6 Consensus size: 39
16094476 CTCATGCTAC
* * *
16094486 TTTGTTTTATTATTAATCAAAAAC-AC-TCCCCATGCTAT
1 TTTGTTTTATTGTTAAT-TAAAACTACTTCCCCATACTAT
* * *
16094524 TTTGTTTTACTGTTAATTAAAATTATTTCCCCATACTAT
1 TTTGTTTTATTGTTAATTAAAACTACTTCCCCATACTAT
**
16094563 TTTGTTTTATTGTTAATTAAAACTACTTCTTCATACTAT
1 TTTGTTTTATTGTTAATTAAAACTACTTCCCCATACTAT
*
16094602 TTTGTTTTATTATTAATTAAAAC
1 TTTGTTTTATTGTTAATTAAAAC
16094625 CATACTTTAT
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
37 4 0.05
38 16 0.18
39 67 0.77
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.50
Consensus pattern (39 bp):
TTTGTTTTATTGTTAATTAAAACTACTTCCCCATACTAT
Found at i:16096188 original size:21 final size:21
Alignment explanation
Indices: 16096154--16096197 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
16096144 AAATCTCTAC
*
16096154 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
16096175 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
16096196 AA
1 AA
16096198 GCTCTTTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:16097185 original size:16 final size:17
Alignment explanation
Indices: 16097159--16097201 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
16097149 ATATATATAT
*
16097159 AAAAAGTAAAATGAATA-
1 AAAAAG-AAAAAGAATAG
16097176 AAAAAGAAAAAGAATAG
1 AAAAAGAAAAAGAATAG
16097193 AAAAAGAAA
1 AAAAAGAAA
16097202 GAAAGGATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (17 bp):
AAAAAGAAAAAGAATAG
Found at i:16097257 original size:16 final size:16
Alignment explanation
Indices: 16097230--16097268 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16097220 AGAGAGCAGG
* *
16097230 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
*
16097246 GTAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
16097262 GGAAAAA
1 GGAAAAA
16097269 GGGAAAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:16099402 original size:46 final size:46
Alignment explanation
Indices: 16099346--16099621 Score: 399
Period size: 46 Copynumber: 6.0 Consensus size: 46
16099336 AGTGTGCTCT
* **
16099346 CTGATGTGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
16099392 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
16099438 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
16099484 GTGACATGAAAAGAATTAGACCATGGTTGAAAGATACCATGTCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
16099530 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
16099576 GTGACATGAAAAGAATAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
16099622 ATGACAGAAA
Statistics
Matches: 213, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 213 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:16099509 original size:92 final size:92
Alignment explanation
Indices: 16099346--16099621 Score: 444
Period size: 92 Copynumber: 3.0 Consensus size: 92
16099336 AGTGTGCTCT
* * * * **
16099346 CTGATGTGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
16099411 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* *
16099438 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATTAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
*
16099503 ACCATGGTTGAAAGATACCATGTCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
** *
16099530 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
16099595 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
16099622 ATGACAGAAA
Statistics
Matches: 169, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 169 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:16099600 original size:138 final size:138
Alignment explanation
Indices: 16099363--16099669 Score: 454
Period size: 138 Copynumber: 2.2 Consensus size: 138
16099353 GAAATGTGTA
**
16099363 AGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATA
1 AGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGATA
* * ** * *
16099428 CCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGA
66 CCATGGCAACGTGACATGAAAAGAATAAAACCATGGTTGAAAGATACCATGGCAACATGACA-GA
16099493 AAA-GAATT
130 AAATGAATT
*
16099501 AGACCATGGTTGAAAGATACCATGTCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGATA
1 AGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGATA
16099566 CCATGGCAACGTGACATGAAAAGAATAAAACCATGGTTGAAAGATACCATGGCAACATGACAGAA
66 CCATGGCAACGTGACATGAAAAGAATAAAACCATGGTTGAAAGATACCATGGCAACATGACAGAA
16099631 AATGAATGAGT
131 AATGAAT---T
* * *
16099642 AAGACCATAGTTGAAAGACACTATGGCA
1 -AGACCATGGTTGAAAGATACCATGGCA
16099670 TCATGTCAAA
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
137 5 0.03
138 122 0.81
141 1 0.01
142 23 0.15
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (138 bp):
AGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGATA
CCATGGCAACGTGACATGAAAAGAATAAAACCATGGTTGAAAGATACCATGGCAACATGACAGAA
AATGAATT
Found at i:16099627 original size:46 final size:46
Alignment explanation
Indices: 16099361--16099669 Score: 395
Period size: 46 Copynumber: 6.6 Consensus size: 46
16099351 GTGAAATGTG
* * * **
16099361 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * **
16099407 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
16099453 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * * * *
16099499 TTAGACCATGGTTGAAAGATACCATGTCAACCTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
16099545 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* *
16099591 TAAAACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-G-A--A
* * *
16099640 GTAAGACCATAGTTGAAAGACACTATGGCA
1 -TAAGACCATGGTTGAAAGATACCATGGCA
16099670 TCATGTCAAA
Statistics
Matches: 237, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 5 0.02
46 205 0.86
47 1 0.00
49 1 0.00
50 25 0.11
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
Found at i:16100289 original size:5 final size:5
Alignment explanation
Indices: 16100279--16100309 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
16100269 TTATTATTAA
16100279 TATAT TATAT TATAT TATAT TATAT ATATAT
1 TATAT TATAT TATAT TATAT TATAT -TATAT
16100310 ATAACAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:16100932 original size:29 final size:30
Alignment explanation
Indices: 16100873--16100930 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16100863 TCCGAGCCTT
*
16100873 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
16100903 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
16100931 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:16101160 original size:13 final size:13
Alignment explanation
Indices: 16101142--16101173 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16101132 TTTCCAGCAA
16101142 TTATGAATTTATT
1 TTATGAATTTATT
16101155 TTATGAATTTATT
1 TTATGAATTTATT
*
16101168 TGATGA
1 TTATGA
16101174 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:16101381 original size:50 final size:50
Alignment explanation
Indices: 16101268--16101516 Score: 302
Period size: 50 Copynumber: 4.8 Consensus size: 50
16101258 ATTTGGGTAA
* *
16101268 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* *
16101324 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATAGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
16101374 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
16101424 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-GACG
** *
16101474 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16101517 TGTTATTATC
Statistics
Matches: 171, Mismatches: 20, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.53
51 34 0.20
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:16101457 original size:100 final size:103
Alignment explanation
Indices: 16101268--16101517 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
16101258 ATTTGGGTAA
16101268 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
16101333 CTGTAAGACCATGTCTGGGACATGGCATAGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATAGGCACC-ATCACG
* * *
16101374 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
16101436 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATAGGCACCATCACG
* *
16101474 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
16101518 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATAGGCACCATCACG
Done.