Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3451
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: 31537
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Found at i:2801 original size:47 final size:47
Alignment explanation
Indices: 2666--2981 Score: 514
Period size: 47 Copynumber: 6.7 Consensus size: 47
2656 GATTAGGTCT
2666 ATGTGATGAATGTGAAATGTGTATATA--TGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAA-GTGTATATATGTGATAAGGCCTAATGGCCG
2712 ATGTGATGAATGTGAAAGTGTATATAT-TG-TAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
2757 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
2804 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
2853 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
2900 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
2947 ACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
2982 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 9, Indels: 9
0.93 0.03 0.03
Matches are distributed among these distances:
45 52 0.20
46 21 0.08
47 136 0.53
49 47 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:2877 original size:96 final size:94
Alignment explanation
Indices: 2666--2981 Score: 514
Period size: 96 Copynumber: 3.4 Consensus size: 94
2656 GATTAGGTCT
2666 ATGTGATGAATGTGAAATGTGTATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
2729 GTGTATATAT-TG-TAAGGCCTAATGGCCG
65 GTGTATATATGTGATAAGGCCTAATGGCCG
2757 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
2822 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TG--TATATATGTGATAAGGCCTAATGGCCG
2853 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * *
2918 TGTATATATGTGACAGGGCCGAGTGGCCA
66 TGTATATATGTGATAAGGCCTAATGGCCG
* *
2947 ACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
2982 TCCCGAAGGG
Statistics
Matches: 212, Mismatches: 7, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
90 9 0.04
91 17 0.08
92 39 0.18
94 62 0.29
95 2 0.01
96 83 0.39
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCG
Found at i:2945 original size:143 final size:141
Alignment explanation
Indices: 2666--2981 Score: 516
Period size: 143 Copynumber: 2.3 Consensus size: 141
2656 GATTAGGTCT
*
2666 ATGTGATGAATGTGAAA-TGTGTATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
2728 AGTGTATATATTGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
66 AGTGTATATATTGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGG
* *
2793 CCTAATGGCCG
131 CCGAATGGCCA
2804 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
2869 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
66 AGTGTATATAT-TG-TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAA
*
2934 GGCCGAGTGGCCA
129 GGCCGAATGGCCA
*
2947 ACGTGATGAATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
2982 TCCCGAAGGG
Statistics
Matches: 166, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
138 17 0.10
139 9 0.05
141 56 0.34
142 3 0.02
143 81 0.49
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATTGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGG
CCGAATGGCCA
Found at i:3155 original size:36 final size:36
Alignment explanation
Indices: 3100--3177 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
3090 CCGAGCTCTA
* * *
3100 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGA-CCGATAACTACGTGTGGAGATTATGTCCGGGT
*
3137 AAGACCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCGATAACTACGTGTGGAGATTATGTCCGGGT
3173 AAGAC
1 AAGAC
3178 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 33 0.89
37 4 0.11
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (36 bp):
AAGACCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:4505 original size:78 final size:79
Alignment explanation
Indices: 4407--4995 Score: 900
Period size: 78 Copynumber: 7.4 Consensus size: 79
4397 TGCTAAGTCC
*
4407 GAGCATTCGTGCTAGTGATATATCCGGGCTAAG-TCCCAAGAGCATTCGTGCTAGTGATGTATCC
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCCAAGAGCATTCGTGCTAGTGATATATCC
4471 GGGCTAAGTCCGAA
66 GGGCTAAGTCCGAA
*
4485 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCCAAGAGCATTCGTGCTAGTGATATATCC
4550 GGGCTAAGTCCG-A
66 GGGCTAAGTCCGAA
*
4563 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCCAAGAGCATTCGTGCTAGTGATGTATCC
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCCAAGAGCATTCGTGCTAGTGATATATCC
4628 GGGCTAAGTCCGAA
66 GGGCTAAGTCCGAA
*
4642 GAGCATTCGTGCTAGTGATATAT-CGGGCTAAGTTCCCGAGAGAGCATTCGTGCTAGTGATGTAT
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCC-A-AGAGCATTCGTGCTAGTGATATAT
*
4706 CCGGGCTAAGTTCGAA
64 CCGGGCTAAGTCCGAA
*
4722 GAGCATTCGTGCTAGTGATTATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 GAGCATTCGTGCTAGTG---ATATATCCGGGCTAAGTTCCCAAGAGCATTCGTGCTAGTGATATA
4787 TCC-GGCTAAGTTCCGAA
63 TCCGGGCTAAG-TCCGAA
* * *
4804 GAGCATTCGTGCTAGTGATGTATTCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCCAAGAGCATTCGTGCTAGTGATATATCC
*
4869 GGGCTAAGTCCCGAG
66 GGGCTAAGT-CCGAA
* *
4884 GAGCATTTGTGCTAGTGATATATCCGGGCTAAAG-TCCCGAGGAGCATTCGTGCTAGTGATATAT
1 GAGCATTCGTGCTAGTGATATATCCGGGCT-AAGTTCCC-AAGAGCATTCGTGCTAGTGATATAT
* **
4948 CCGTGCTAAACCCCGAA
64 CCGGGCT-AAGTCCGAA
* *
4965 GAGCATTCGTGCTGGTGTTATATCCGGGCTA
1 GAGCATTCGTGCTAGTGATATATCCGGGCTA
4996 GGTCTTGAAG
Statistics
Matches: 474, Mismatches: 23, Indels: 26
0.91 0.04 0.05
Matches are distributed among these distances:
78 123 0.26
79 113 0.24
80 98 0.21
81 71 0.15
82 49 0.10
83 7 0.01
84 13 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCCAAGAGCATTCGTGCTAGTGATATATCC
GGGCTAAGTCCGAA
Found at i:4534 original size:40 final size:40
Alignment explanation
Indices: 4407--5022 Score: 908
Period size: 40 Copynumber: 15.4 Consensus size: 40
4397 TGCTAAGTCC
*
4407 GAGCATTCGTGCTAGTGATATATCCGGGCTAAG-TCCCAA
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
*
4446 GAGCATTCGTGCTAGTGATGTATCCGGGCTAAG-TCCGAA
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
4485 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
4525 GAGCATTCGTGCTAGTGATATATCCGGGCTAAG-TCCG-A
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
*
4563 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCCAA
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
*
4603 GAGCATTCGTGCTAGTGATGTATCCGGGCTAAG-TCCGAA
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
4642 GAGCATTCGTGCTAGTGATATAT-CGGGCTAAGTTCCCGAGA
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTT-CCGA-A
*
4683 GAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTT-CGAA
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
4722 GAGCATTCGTGCTAGTGATTATATATCCGGGCTAAGTTCCGAA
1 GAGCATTCGTGCTAGTG---ATATATCCGGGCTAAGTTCCGAA
4765 GAGCATTCGTGCTAGTGATATATCC-GGCTAAGTTCCGAA
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
* *
4804 GAGCATTCGTGCTAGTGATGTATTCGGGCTAAGTTCCGAA
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
* *
4844 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAG
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
* * *
4884 GAGCATTTGTGCTAGTGATATATCCGGGCTAAAGTCCCGAG
1 GAGCATTCGTGCTAGTGATATATCCGGGCT-AAGTTCCGAA
* ***
4925 GAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAA
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
* * * *
4965 GAGCATTCGTGCTGGTGTTATATCCGGGCT-AGGTCTTGAA
1 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTC-CGAA
* *
5005 GAGCAATCATGCTAGTGA
1 GAGCATTCGTGCTAGTGA
5023 CGTGTATTCT
Statistics
Matches: 531, Mismatches: 32, Indels: 27
0.90 0.05 0.05
Matches are distributed among these distances:
38 43 0.08
39 161 0.30
40 217 0.41
41 61 0.11
42 28 0.05
43 21 0.04
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAA
Found at i:4857 original size:23 final size:23
Alignment explanation
Indices: 4791--4857 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
4781 GATATATCCG
4791 GCTAAGTTCCGAAGAGCATTCGT
1 GCTAAGTTCCGAAGAGCATTCGT
* * *
4814 GCT-AG-T--G-A-TGTATTCGG
1 GCTAAGTTCCGAAGAGCATTCGT
4831 GCTAAGTTCCGAAGAGCATTCGT
1 GCTAAGTTCCGAAGAGCATTCGT
4854 GCTA
1 GCTA
4858 GTGATATATC
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 9 0.28
18 3 0.09
19 2 0.06
21 2 0.06
22 3 0.09
23 13 0.41
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (23 bp):
GCTAAGTTCCGAAGAGCATTCGT
Found at i:8743 original size:47 final size:47
Alignment explanation
Indices: 8691--9101 Score: 698
Period size: 47 Copynumber: 8.7 Consensus size: 47
8681 TTAGGATTCT
* * *
8691 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
8738 TTGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
8785 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
8832 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
8879 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
8926 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
8973 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
9020 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
9067 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
9102 TCCCGAAGGG
Statistics
Matches: 348, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 347 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:9278 original size:37 final size:37
Alignment explanation
Indices: 9220--9298 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
9210 CTGAGCTCTA
* * * *
9220 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
*
9257 AAGACCCGATAACTTCATGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
9294 AAGAC
1 AAGAC
9299 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:11321 original size:26 final size:26
Alignment explanation
Indices: 11251--11314 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
11241 GTGCCTAGAC
*
11251 CCCCTAGTTGATAAAATGACTATTATG
1 CCCCTAG-TGAGAAAATGACTATTATG
*
11278 CCCCTAGTGAGAAAATGACTGTTATG
1 CCCCTAGTGAGAAAATGACTATTATG
11304 CCCCTA-TGAGA
1 CCCCTAGTGAGA
11315 TGTATGATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 5 0.14
26 23 0.66
27 7 0.20
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (26 bp):
CCCCTAGTGAGAAAATGACTATTATG
Found at i:11966 original size:16 final size:18
Alignment explanation
Indices: 11928--11968 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
11918 GCCTTTATGT
11928 ATTTTTACTTTAATTTGG
1 ATTTTTACTTTAATTTGG
* *
11946 GTTTTTA-TTT-ATTTTG
1 ATTTTTACTTTAATTTGG
11962 ATTTTTA
1 ATTTTTA
11969 ACTGCTAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 11 0.55
17 3 0.15
18 6 0.30
ACGTcount: A:0.20, C:0.02, G:0.10, T:0.68
Consensus pattern (18 bp):
ATTTTTACTTTAATTTGG
Found at i:15051 original size:23 final size:24
Alignment explanation
Indices: 14990--15067 Score: 95
Period size: 24 Copynumber: 3.3 Consensus size: 24
14980 TACCGATATA
*
14990 TCAGCTCATAAGAGCTTACTGTTT
1 TCAGCTCATAAAAGCTTACTGTTT
* **
15014 TCAGCTCGTTGAAGCTTACTG-TT
1 TCAGCTCATAAAAGCTTACTGTTT
*
15037 TCAGCTCATAAAAGCTTACTATTT
1 TCAGCTCATAAAAGCTTACTGTTT
*
15061 TTAGCTC
1 TCAGCTC
15068 GTCAGTGCTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 19 0.43
24 25 0.57
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (24 bp):
TCAGCTCATAAAAGCTTACTGTTT
Found at i:15090 original size:47 final size:47
Alignment explanation
Indices: 14976--15091 Score: 117
Period size: 47 Copynumber: 2.4 Consensus size: 47
14966 AGCTCGAATG
* * *
14976 AGCTTACCGATATATCAGCTCATAAGAGCTTACTGTTTTCAGCTCGTTGA
1 AGCTTACC-AT-T-TCAGCTCATAAAAGCTTACTATTTTCAGCTCGTAGA
** *
15026 AGCTTACTGTTTCAGCTCATAAAAGCTTACTATTTTTAGCTCGTCAG-
1 AGCTTACCATTTCAGCTCATAAAAGCTTACTATTTTCAGCTCGT-AGA
* *
15073 TGCTTACCATTTTAGCTCA
1 AGCTTACCATTTCAGCTCA
15092 ATAGAGCTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
47 45 0.82
48 2 0.04
49 1 0.02
50 7 0.13
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (47 bp):
AGCTTACCATTTCAGCTCATAAAAGCTTACTATTTTCAGCTCGTAGA
Found at i:16800 original size:27 final size:27
Alignment explanation
Indices: 16765--17201 Score: 328
Period size: 27 Copynumber: 16.1 Consensus size: 27
16755 TACTGAAATG
* **
16765 CCTTCGATTTGTAAAATTACTATTTTAC
1 CCTT-GATTTATAAAATTACCGTTTTAC
* * * *
16793 CCTTGATTTACAGAATTACTGGTTTAC
1 CCTTGATTTATAAAATTACCGTTTTAC
* * *
16820 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTTGATTTATAAAATTACCGTTTTAC
* *
16847 CC-TCAGTTTATAGAATTACCGTTTTAC
1 CCTTGA-TTTATAAAATTACCGTTTTAC
* *
16874 CCTTGATTTACAGAATTACCGTTTTAC
1 CCTTGATTTATAAAATTACCGTTTTAC
* * * *
16901 CC-TCAGTTTACAGAATTACTGTTTTAC
1 CCTTGA-TTTATAAAATTACCGTTTTAC
* * *
16928 CCTCGATTTATAGAATTACCATTTTAC
1 CCTTGATTTATAAAATTACCGTTTTAC
* *
16955 CCTCGATTTACAAAATTACCGTTTTAC
1 CCTTGATTTATAAAATTACCGTTTTAC
* * * **
16982 CC-TCAGTTTACAGAATTACTATTTTAC
1 CCTTGA-TTTATAAAATTACCGTTTTAC
* *
17009 CCTCGATTTA-AAGAACTACCGTTTTAC
1 CCTTGATTTATAA-AATTACCGTTTTAC
* * * *
17036 CC-TCAGTTTACAGAATTACTGTTTTAC
1 CCTTGA-TTTATAAAATTACCGTTTTAC
* * *
17063 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTTGATTTATAAAATTACCGTTTTAC
* * *
17090 CCTCGATTTGTAAAATTACTGTTTTAC
1 CCTTGATTTATAAAATTACCGTTTTAC
* * *
17117 CCTTGATTTACAAAATTACTGGTTTAC
1 CCTTGATTTATAAAATTACCGTTTTAC
* * *
17144 CC-TCAGTTTACAAAATTATCGTTTTAC
1 CCTTGA-TTTATAAAATTACCGTTTTAC
* * *
17171 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTTGATTTATAAAATTACCGTTTTAC
17198 CCTT
1 CCTT
17202 AATTGTGAAA
Statistics
Matches: 338, Mismatches: 59, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
26 8 0.02
27 319 0.94
28 11 0.03
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CCTTGATTTATAAAATTACCGTTTTAC
Found at i:16827 original size:54 final size:54
Alignment explanation
Indices: 16768--17200 Score: 491
Period size: 54 Copynumber: 8.0 Consensus size: 54
16758 TGAAATGCCT
* * * * *
16768 TCGATTTGTAAAATTACTATTTTACCCTTGATTTACAGAATTACTGGTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC
* * * *
16822 TCGATTTACAGAATTACCGTTTTACCCTC-AGTTTATAGAATTACCGTTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCC
* * * * *
16876 TTGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTGTTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCC
* ** *
16930 TCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC
* * * * *
16984 TC-AGTTTACAGAATTACTATTTTACCCTCGATTTAAAGAACTACCGTTTTACCC
1 TCGA-TTTATAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC
* *
17038 TC-AGTTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC
1 TCGA-TTTATAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC
* * * * *
17092 TCGATTTGTAAAATTACTGTTTTACCCTTGATTTACAAAATTACTGGTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC
*
17146 TC-AGTTTACAAAATTA-TCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC
1 TCGA-TTTATAAAATTACT-GTTTTACCCTCGATTTACAGAATTACCGTTTTACCC
17200 T
1 T
17201 TAATTGTGAA
Statistics
Matches: 335, Mismatches: 38, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
53 4 0.01
54 329 0.98
55 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.40
Consensus pattern (54 bp):
TCGATTTATAAAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC
Found at i:16887 original size:81 final size:81
Alignment explanation
Indices: 16768--17201 Score: 588
Period size: 81 Copynumber: 5.4 Consensus size: 81
16758 TGAAATGCCT
* * ** *
16768 TCGATTTGTAAAATTACTATTTTACCCTTGATTTACAGAATTACTGGTTTACCCTC-GATTTACA
1 TCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCAG-TTTACA
16832 GAATTACCGTTTTACCC
65 GAATTACCGTTTTACCC
*
16849 TC-AGTTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAGTTTACA
1 TCGA-TTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCAGTTTACA
*
16913 GAATTACTGTTTTACCC
65 GAATTACCGTTTTACCC
* * * *
16930 TCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAGTTTACAG
1 TCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCAGTTTACAG
**
16995 AATTACTATTTTACCC
66 AATTACCGTTTTACCC
* * *
17011 TCGATTTAAAGAACTACCGTTTTACCC-TCAGTTTACAGAATTACTGTTTTACCCTC-GATTTAC
1 TCGATTTATAGAATTACCGTTTTACCCTTGA-TTTACAGAATTACTGTTTTACCCTCAG-TTTAC
17074 AGAATTACCGTTTTACCC
64 AGAATTACCGTTTTACCC
* * * * * *
17092 TCGATTTGTAAAATTACTGTTTTACCCTTGATTTACAAAATTACTGGTTTACCCTCAGTTTACAA
1 TCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCAGTTTACAG
*
17157 AATTATCGTTTTACCC
66 AATTACCGTTTTACCC
*
17173 TCGATTTACAGAATTACCGTTTTACCCTT
1 TCGATTTATAGAATTACCGTTTTACCCTT
17202 AATTGTGAAA
Statistics
Matches: 312, Mismatches: 34, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
80 3 0.01
81 304 0.97
82 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.40
Consensus pattern (81 bp):
TCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCAGTTTACAG
AATTACCGTTTTACCC
Found at i:17240 original size:27 final size:27
Alignment explanation
Indices: 17210--17405 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
17200 TTAATTGTGA
* *
17210 AATTACTGAAATAGCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
17237 AATTTCCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
17264 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
17291 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17318 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17345 AAATACCGAAGTACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
17372 AATTACCGAGATACCCTTATGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
17399 AATTACC
1 AATTACC
17406 ATTTTGCCCT
Statistics
Matches: 140, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:17274 original size:54 final size:54
Alignment explanation
Indices: 17210--17389 Score: 247
Period size: 54 Copynumber: 3.3 Consensus size: 54
17200 TTAATTGTGA
* * * *
17210 AATTACTGAAATAGCCC-TGTAGGGTAGAATTTCCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATA-CCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* *
17264 AATTACTGAAATACCCTTATAGGATAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
*
17318 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAGTACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* *
17372 AATTACCGAGATACCCTT
1 AATTACTGAAATACCCTT
17390 ATGGGGTAAA
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
53 4 0.04
54 108 0.96
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
Found at i:17615 original size:27 final size:26
Alignment explanation
Indices: 17577--17659 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
17567 CGGAGGAAGC
*
17577 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
17604 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
17630 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
17657 GTT
1 GTT
17660 GGCCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:18017 original size:27 final size:27
Alignment explanation
Indices: 17969--18042 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
17959 TAGGTGGGTT
* * *
17969 TGCCACATTATCTG-ATTTTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGACTC
17996 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
* *
18023 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
18043 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 35 0.85
28 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:18200 original size:6 final size:6
Alignment explanation
Indices: 18182--18217 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
18172 ATTCTGTCAC
*
18182 CTGATT CTTATT CTGATT CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT
18218 TTAGTTATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.53
Consensus pattern (6 bp):
CTGATT
Found at i:19262 original size:76 final size:76
Alignment explanation
Indices: 19176--19330 Score: 274
Period size: 76 Copynumber: 2.0 Consensus size: 76
19166 ATTAACAATC
* *
19176 AAAGTACATGTATATACGTACACATAATTATCAATTTTTCAAAAATGTATATAATGCTCATGGTG
1 AAAGTACATGTATATACGTACACAAAATTATCAATTTTTCAAAAATGCATATAATGCTCATGGTG
19241 TACTATTACAT
66 TACTATTACAT
* *
19252 AAAGTACATGTATATATGTACACAAAATTATCAATTTTTCAAAAATGCATATAATGGTCATGGTG
1 AAAGTACATGTATATACGTACACAAAATTATCAATTTTTCAAAAATGCATATAATGCTCATGGTG
19317 TACTATTACAT
66 TACTATTACAT
19328 AAA
1 AAA
19331 ATCACTATTC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.35
Consensus pattern (76 bp):
AAAGTACATGTATATACGTACACAAAATTATCAATTTTTCAAAAATGCATATAATGCTCATGGTG
TACTATTACAT
Found at i:22444 original size:79 final size:80
Alignment explanation
Indices: 22309--22539 Score: 301
Period size: 79 Copynumber: 2.9 Consensus size: 80
22299 TTGAATGATG
* * * * *
22309 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCATT
22372 TGTACGAGTTACTAAA
65 TGTACGAGTTACTAAA
* *
22388 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATT
*
22451 TGTGCGAGTTACTAAA
65 TGTACGAGTTACTAAA
* *
22467 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
22531 TGAACGAGT
65 TGTACGAGT
22540 AGCTATATCC
Statistics
Matches: 133, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 85 0.64
80 44 0.33
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTACGAGTTACTAAA
Found at i:22524 original size:119 final size:118
Alignment explanation
Indices: 22309--22532 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 118
22299 TTGAATGATG
* *
22309 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
22374 TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCAGTTACTAAA
66 TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCAGTTACTAAA
* * * **
22427 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
* * *
22491 TGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
22533 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 22 0.24
119 68 0.74
120 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCAGTTACTAAA
Found at i:22546 original size:40 final size:40
Alignment explanation
Indices: 22309--22532 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
22299 TTGAATGATG
* * * *
22309 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22348 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22388 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22427 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22467 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22508 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22533 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 53 0.31
40 113 0.67
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22554 original size:119 final size:118
Alignment explanation
Indices: 22309--22565 Score: 290
Period size: 119 Copynumber: 2.2 Consensus size: 118
22299 TTGAATGATG
* * *
22309 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
**
22374 TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCAGTTACTAAA
66 TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACAGTTACTAAA
* * **
22427 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
* * * *
22491 TGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAAC-AGTTA-CTAAA
* *
22547 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22566 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
118 22 0.19
119 85 0.72
120 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACAGTTACTAAA
Found at i:22564 original size:79 final size:78
Alignment explanation
Indices: 22322--22565 Score: 273
Period size: 79 Copynumber: 3.1 Consensus size: 78
22312 GGGCTAAGTC
* * * *
22322 CCGAAGGC-TTTGTGCTAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACT
1 CCGAAGGCATTTGTGC-AGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACT
*
22385 AAATCCGGACTAAGA-T
64 AAATCCGG-TTAA-ATT
* *
22401 CCGAAGGCATTTGTGCAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA
* *
22465 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATT
* *
22480 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGC-AGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTA-CT
*
22544 ATATCCGGTTAAATT
64 AAATCCGGTTAAATT
22559 CCGAAGG
1 CCGAAGG
22566 TACGTGATTT
Statistics
Matches: 141, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
78 2 0.01
79 86 0.61
80 51 0.36
81 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAA
ATCCGGTTAAATT
Found at i:30049 original size:79 final size:78
Alignment explanation
Indices: 29889--30112 Score: 308
Period size: 79 Copynumber: 2.8 Consensus size: 78
29879 TTGAATGATG
* * * * *
29889 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCGAAGGCATT
29953 TGTGCGAGTTACTAA
64 TGTGCGAGTTACTAA
* *
29968 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTTG
30033 TGCGAGTTACTAAA
66 TGCGAGTTACT-AA
* *
30047 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGT-CCGAAGGCATT
30111 TG
64 TG
30113 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
78 25 0.19
79 83 0.64
80 22 0.17
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTTG
TGCGAGTTACTAA
Found at i:30119 original size:40 final size:40
Alignment explanation
Indices: 29889--30112 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
29879 TTGAATGATG
* * * *
29889 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
29929 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29968 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30008 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30047 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30088 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30113 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
38 1 0.01
39 75 0.44
40 83 0.49
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30134 original size:79 final size:77
Alignment explanation
Indices: 29896--30145 Score: 290
Period size: 79 Copynumber: 3.2 Consensus size: 77
29886 ATGTCCGGGC
* * * * *
29896 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCGAAGGCATTTGTGCGA
*
29960 GTTACTAATCCGGAC
64 GTTACTAATCCGG-T
*
29975 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCGAAGGCATTTGTGCGAG
30039 TTACTAAATCCGGGT
65 TTACT-AATCC-GGT
* **
30054 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT-CCGAAGGCATTTGTGCGAG
30119 -TAGCTATATCCGGT
65 TTA-CTA-ATCCGGT
* *
30133 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
30146 TACGTGATTT
Statistics
Matches: 150, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
78 26 0.17
79 90 0.60
80 34 0.23
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (77 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGT
TACTAATCCGGT
Done.