Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold277
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: 582610
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
File 1 of 4
Found at i:4197 original size:13 final size:13
Alignment explanation
Indices: 4181--4223 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
4171 TTAAATTAAA
*
4181 ATTTAGTATTATT
1 ATTTACTATTATT
* *
4194 ATTTATTATTATG
1 ATTTACTATTATT
*
4207 AATTACTATTATT
1 ATTTACTATTATT
4220 ATTT
1 ATTT
4224 TCTTTTGAAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (13 bp):
ATTTACTATTATT
Found at i:7532 original size:17 final size:16
Alignment explanation
Indices: 7499--7530 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
7489 ATGAAAATTT
7499 TGCCTTGAACAAAATA
1 TGCCTTGAACAAAATA
7515 TGCCTT-AACAAAATA
1 TGCCTTGAACAAAATA
7530 T
1 T
7531 ATGACTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (16 bp):
TGCCTTGAACAAAATA
Found at i:12050 original size:20 final size:19
Alignment explanation
Indices: 12025--12064 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
12015 AATTGAAATT
12025 AAAATAATTTTAAATATTAA
1 AAAAT-ATTTTAAATATTAA
*
12045 AAAATATTTTTAATATTAA
1 AAAATATTTTAAATATTAA
12064 A
1 A
12065 TAAGTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATATTTTAAATATTAA
Found at i:13199 original size:22 final size:22
Alignment explanation
Indices: 13164--13205 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
13154 AACTTTTTAT
13164 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
13186 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
13206 ATTATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:13217 original size:20 final size:22
Alignment explanation
Indices: 13164--13218 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
13154 AACTTTTTAT
13164 TAAA-TTTAATTATAAAAATATA
1 TAAATTTTAA-TATAAAAATATA
*
13186 TAAATATTAATATAAAAATA-A
1 TAAATTTTAATATAAAAATATA
*
13207 T-TATTTTAATAT
1 TAAATTTTAATAT
13219 TTTTTAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 9 0.31
21 2 0.07
22 14 0.48
23 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAATTTTAATATAAAAATATA
Found at i:13477 original size:20 final size:20
Alignment explanation
Indices: 13449--13488 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13439 TAATTATTTT
* *
13449 TTAATATTTCAAAGATTGAA
1 TTAAAATTTAAAAGATTGAA
*
13469 TTAAAATTTAAAATATTGAA
1 TTAAAATTTAAAAGATTGAA
13489 AAGTATATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (20 bp):
TTAAAATTTAAAAGATTGAA
Found at i:17720 original size:20 final size:20
Alignment explanation
Indices: 17682--17732 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
17672 GTTTTTTATG
*
17682 TTTATTTTACATTCTTTTTTGT
1 TTTATTTT--ATTCATTTTTGT
17704 TTTATTTTATTCATTTTTGT
1 TTTATTTTATTCATTTTTGT
17724 TTT-TTTTAT
1 TTTATTTTAT
17733 GGGTTTCTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 6 0.21
20 14 0.50
22 8 0.29
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTATTTTATTCATTTTTGT
Found at i:19931 original size:19 final size:20
Alignment explanation
Indices: 19907--19955 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
19897 GCCAAACTTA
**
19907 TATCGATACACAAAGTA-TG
1 TATCGATACACAAAAAATTG
19926 TATCGATACACAAAAAATTG
1 TATCGATACACAAAAAATTG
19946 TATCGATACA
1 TATCGATACA
19956 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (20 bp):
TATCGATACACAAAAAATTG
Found at i:24023 original size:15 final size:15
Alignment explanation
Indices: 24003--24033 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23993 TAAAAATGTC
*
24003 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
24018 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
24033 C
1 C
24034 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:26130 original size:13 final size:13
Alignment explanation
Indices: 26112--26150 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
26102 CATTTTTCTT
26112 TGTATCGATACAA
1 TGTATCGATACAA
*
26125 TGTATCGATACAC
1 TGTATCGATACAA
26138 TGTATCGATACAA
1 TGTATCGATACAA
26151 AGGGATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:26304 original size:20 final size:20
Alignment explanation
Indices: 26261--26306 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
26251 AAATCTTTTG
26261 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
26282 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
26302 CAAAA
1 CAAAA
26307 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:28705 original size:13 final size:13
Alignment explanation
Indices: 28687--28712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28677 TACACAAAGT
28687 ATGTATCGATACA
1 ATGTATCGATACA
28700 ATGTATCGATACA
1 ATGTATCGATACA
28713 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:28710 original size:32 final size:33
Alignment explanation
Indices: 28669--28732 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
28659 TAGCCAAACT
**
28669 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
28701 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
28733 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:38057 original size:13 final size:12
Alignment explanation
Indices: 38039--38077 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
38029 TTCTTTTATA
38039 TTTCTCTCTTTT
1 TTTCTCTCTTTT
38051 CTTTCTC-CTTTT
1 -TTTCTCTCTTTT
38063 TTTCTCTCTTTT
1 TTTCTCTCTTTT
38075 TTT
1 TTT
38078 AGCTGACCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.24
12 13 0.52
13 6 0.24
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTCTCTCTTTT
Found at i:38947 original size:164 final size:164
Alignment explanation
Indices: 38671--39182 Score: 515
Period size: 164 Copynumber: 3.1 Consensus size: 164
38661 AATGAATTAC
*
38671 TTTTTGAAAACTAATCTAATATGAAATAAATAATAATATTTGATGAATTTAAAAAAATAAAAACC
1 TTTTTGAAAACTAATTTAATATGAAATAAATAATAATATTTGATGAATTT-AAAAAATAAAAACC
* * * * *
38736 AAGAAAAAT-CTTCCAAAAAAATTTATGAAATATAAAACTCCGTATTTCGAAAACAAAAAAATTT
65 AAGAAAAATCCCT-CAAAAAAATTTACGGAATAAAAAACTCTGTATTTCGAAAACAAAAAAATTT
38800 -AAGGAAAAAAATC-AAAATCCATGTAAA-AAAAGAAA
129 CAAGGAAAAAAATCAAAAATCCATG-AAATAAAAG-AA
** * * *
38835 TTTTTGAAAACTGGTTTAATGTGAAATAAATGATAATATTTGATGAATTTAAAAATTAAAAACCA
1 TTTTTGAAAACTAATTTAATATGAAATAAATAATAATATTTGATGAATTTAAAAAATAAAAACCA
* * *
38900 AGAAAAATCACCTCAAAAAAATTTACGGAATAAAAAACTCTGTATTTCGAAACCATAAAAGTTTC
66 AGAAAAATC-CCTCAAAAAAATTTACGGAATAAAAAACTCTGTATTTCGAAAACAAAAAAATTTC
****
38965 AAGGAAAAAAATCAAAAATCCATGAAATTGTTGAA
130 AAGGAAAAAAATCAAAAATCCATGAAATAAAAGAA
* * ** * * *
39000 TTTTTGAAAGCTAATTTAATATCATTTAAATAATAATATTTTATGGATTTTAAAAACTAAAAACC
1 TTTTTGAAAACTAATTTAATATGAAATAAATAATAATATTTGAT-GAATTTAAAAAATAAAAACC
* * * * *
39065 AAGAAAAATCCTCTCGAAAAAATTTTCAGAGA-AAAAAA-TCTGTAATTT-GAAAATAAAAGGAA
65 AAGAAAAATCC-CTCAAAAAAATTTACGGA-ATAAAAAACTCTGT-ATTTCGAAAACAAAA-AAA
* * *
39127 -TTCAA--AAAGAAAATCAATAA-CTTAAGAAATAAAAAGAA
126 TTTCAAGGAAA-AAAATCAAAAATC-CATGAAAT-AAAAGAA
* *
39165 TTTTTCAAAACTGATTTA
1 TTTTTGAAAACTAATTTA
39183 GTGAAAGTTA
Statistics
Matches: 288, Mismatches: 47, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
163 26 0.09
164 105 0.36
165 91 0.32
166 65 0.23
167 1 0.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (164 bp):
TTTTTGAAAACTAATTTAATATGAAATAAATAATAATATTTGATGAATTTAAAAAATAAAAACCA
AGAAAAATCCCTCAAAAAAATTTACGGAATAAAAAACTCTGTATTTCGAAAACAAAAAAATTTCA
AGGAAAAAAATCAAAAATCCATGAAATAAAAGAA
Found at i:43151 original size:12 final size:12
Alignment explanation
Indices: 43120--43188 Score: 66
Period size: 12 Copynumber: 5.8 Consensus size: 12
43110 TAAAAATCTA
* *
43120 TTTGAACCTGTG
1 TTTGAACTTATG
*
43132 TCTGAACTTATG
1 TTTGAACTTATG
* *
43144 TTTTAACTTGTG
1 TTTGAACTTATG
* *
43156 TCTGAACTTGTG
1 TTTGAACTTATG
*
43168 TTTGAACCTATG
1 TTTGAACTTATG
43180 TTTGAACTT
1 TTTGAACTT
43189 GTATCTACAC
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.20, C:0.14, G:0.19, T:0.46
Consensus pattern (12 bp):
TTTGAACTTATG
Found at i:43174 original size:36 final size:36
Alignment explanation
Indices: 43122--43190 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
43112 AAAATCTATT
* *
43122 TGAACCTGTGTCTGAACTTATGTTTTAACTTGTGTC
1 TGAACCTGTGTCTGAACCTATGTTTGAACTTGTGTC
* *
43158 TGAACTTGTGTTTGAACCTATGTTTGAACTTGT
1 TGAACCTGTGTCTGAACCTATGTTTGAACTTGT
43191 ATCTACACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.45
Consensus pattern (36 bp):
TGAACCTGTGTCTGAACCTATGTTTGAACTTGTGTC
Found at i:43189 original size:24 final size:24
Alignment explanation
Indices: 43120--43190 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
43110 TAAAAATCTA
*
43120 TTTGAACCTGTGTCTGAACTTATG
1 TTTGAACCTGTGTCTGAACTTGTG
* *
43144 TTTTAACTTGTGTCTGAACTTGTG
1 TTTGAACCTGTGTCTGAACTTGTG
* *
43168 TTTGAACCTATGTTTGAACTTGT
1 TTTGAACCTGTGTCTGAACTTGT
43191 ATCTACACTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.46
Consensus pattern (24 bp):
TTTGAACCTGTGTCTGAACTTGTG
Found at i:43201 original size:36 final size:36
Alignment explanation
Indices: 43122--43202 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
43112 AAAATCTATT
* * * *
43122 TGAACCTGTGTCTGAACTTATGTTTTAACTTGTGTC
1 TGAACTTGTGTCTGAACCTATGTTTGAACTTGTATC
*
43158 TGAACTTGTGTTTGAACCTATGTTTGAACTTGTATC
1 TGAACTTGTGTCTGAACCTATGTTTGAACTTGTATC
43194 T-ACACTTGT
1 TGA-ACTTGT
43203 AACCAAACCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 1 0.03
36 38 0.97
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (36 bp):
TGAACTTGTGTCTGAACCTATGTTTGAACTTGTATC
Found at i:45516 original size:3 final size:3
Alignment explanation
Indices: 45508--45532 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45498 ATGAGAAAAG
45508 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
45533 ATATACTATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:46008 original size:15 final size:15
Alignment explanation
Indices: 45985--46017 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
45975 CATTTTTTTT
45985 ATAAAAAATTAATAA
1 ATAAAAAATTAATAA
*
46000 ATAATAAATTAATAA
1 ATAAAAAATTAATAA
46015 ATA
1 ATA
46018 TATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAAAAATTAATAA
Found at i:49993 original size:12 final size:11
Alignment explanation
Indices: 49978--50019 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
49968 ATAATTAAGG
49978 TATTAATTTATA
1 TATTAATTT-TA
49990 TATTAACTTTTA
1 TATTAA-TTTTA
50002 -ATTTAATTTTA
1 TA-TTAATTTTA
50013 TATTAAT
1 TATTAAT
50020 ACGAATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 11 0.41
12 13 0.48
13 3 0.11
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTAATTTTA
Found at i:50095 original size:26 final size:26
Alignment explanation
Indices: 50066--50117 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
50056 AATTATATTT
*
50066 ATTTTTAA-AAAAATAGTGATAAAAAC
1 ATTTTTAAGAAAAA-AATGATAAAAAC
50092 ATTTTTAAGTAAAAAAATGATAAAAA
1 ATTTTTAAG-AAAAAAATGATAAAAA
50118 AAAATTAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 10 0.43
28 5 0.22
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (26 bp):
ATTTTTAAGAAAAAAATGATAAAAAC
Found at i:52535 original size:20 final size:20
Alignment explanation
Indices: 52461--52535 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
52451 ATAAATTCAA
*
52461 GTCAAAT-TTGATCCATCTTG
1 GTCAAATCTT-ATCAATCTTG
52481 GTCAAATCTTATCAA-CTCTG
1 GTCAAATCTTATCAATCT-TG
52501 GTCAAAT-TTAATCAATCTTG
1 GTCAAATCTT-ATCAATCTTG
* *
52521 GTTAAATCTTGTCAA
1 GTCAAATCTTATCAA
52536 ACAAATTAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
19 4 0.09
20 37 0.79
21 6 0.13
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (20 bp):
GTCAAATCTTATCAATCTTG
Found at i:54025 original size:24 final size:26
Alignment explanation
Indices: 53993--54040 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
53983 TTTTATAAAT
53993 AAATCAT-AAT-TTAAAAATAAAAAA
1 AAATCATAAATATTAAAAATAAAAAA
* *
54017 AAATTATAAATATTAAAATTAAAA
1 AAATCATAAATATTAAAAATAAAA
54041 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 3 0.15
26 11 0.55
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (26 bp):
AAATCATAAATATTAAAAATAAAAAA
Found at i:54043 original size:14 final size:15
Alignment explanation
Indices: 54016--54044 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
54006 AAAATAAAAA
54016 AAAATTATAAATATT
1 AAAATTATAAATATT
54031 AAAATTA-AAATATT
1 AAAATTATAAATATT
54045 TTTTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTATAAATATT
Found at i:54570 original size:33 final size:32
Alignment explanation
Indices: 54528--54592 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
54518 ACATATCTTA
* *
54528 ATTTTTAAAA-TTATTTTTTTATTTTTTTAATT
1 ATTTTTAAAAGTTA-TGTGTTATTTTTTTAATT
54560 ATTTCTTAAAAGTTATGTGTTATTTTTTTAATT
1 ATTT-TTAAAAGTTATGTGTTATTTTTTTAATT
54593 CTAACTGTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 4 0.14
33 22 0.76
34 3 0.10
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (32 bp):
ATTTTTAAAAGTTATGTGTTATTTTTTTAATT
Found at i:54848 original size:2 final size:2
Alignment explanation
Indices: 54843--54881 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
54833 ATTTTTTTGT
54843 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
54882 TTATCTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:55270 original size:20 final size:18
Alignment explanation
Indices: 55201--55292 Score: 71
Period size: 19 Copynumber: 5.0 Consensus size: 18
55191 TATAATTTAT
* *
55201 TTAAATAAATTGAAAAAGA
1 TTAAAAAAATTTAAAAA-A
* * * *
55220 TGAAAAAAATTTTATACA
1 TTAAAAAAATTTAAAAAA
55238 TT--AAAAATTTAAAAAGA
1 TTAAAAAAATTTAAAAA-A
*
55255 TTAAAAAAGTTTTAAATAAA
1 TTAAAAAA-ATTTAAA-AAA
55275 TTAAAAAAATTTAAAAAA
1 TTAAAAAAATTTAAAAAA
55293 AATAAAGAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
16 10 0.18
17 3 0.05
18 5 0.09
19 21 0.38
20 15 0.27
21 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.30
Consensus pattern (18 bp):
TTAAAAAAATTTAAAAAA
Found at i:55295 original size:20 final size:19
Alignment explanation
Indices: 55240--55298 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
55230 TTTATACATT
*
55240 AAAAATTTAAAAAGATTAA
1 AAAAATTTAAAAAAATTAA
* *
55259 AAAAGTTTTAAATAAATTAA
1 AAAA-ATTTAAAAAAATTAA
*
55279 AAAAATTTAAAAAAAATAA
1 AAAAATTTAAAAAAATTAA
55298 A
1 A
55299 GAATTCTCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (19 bp):
AAAAATTTAAAAAAATTAA
Found at i:55342 original size:2 final size:2
Alignment explanation
Indices: 55337--55400 Score: 61
Period size: 2 Copynumber: 35.5 Consensus size: 2
55327 CCTATATAAC
*
55337 AT AT AT A- AT AT AT A- AT AT AT AT -T A- AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
55375 A- AT AG AT AT AT A- AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
55401 CTATGTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
1 7 0.14
2 44 0.86
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:55347 original size:7 final size:7
Alignment explanation
Indices: 55337--55400 Score: 78
Period size: 7 Copynumber: 9.0 Consensus size: 7
55327 CCTATATAAC
55337 ATATATA
1 ATATATA
55344 ATATATA
1 ATATATA
55351 ATATATA
1 ATATATA
*
55358 TTAATATA
1 AT-ATATA
55366 A-ATAT-
1 ATATATA
55371 ATATAATA
1 ATAT-ATA
55379 GATATATA
1 -ATATATA
55387 ATATATA
1 ATATATA
55394 ATATATA
1 ATATATA
55401 CTATGTTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
5 1 0.02
6 6 0.12
7 31 0.62
8 8 0.16
9 4 0.08
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (7 bp):
ATATATA
Found at i:55585 original size:70 final size:70
Alignment explanation
Indices: 55504--55634 Score: 192
Period size: 70 Copynumber: 1.9 Consensus size: 70
55494 GCTAATATAA
*
55504 AATAAAATTCTTGGAACCCGAAAGATATGACAGATGCATACGG-GTATAAGATTCCTTTTGAGTA
1 AATAAAATTCTTGGAACCCGAAAGATATGACAGATACAT-CGGAGTATAAGATTCCTTTTGAGTA
55568 ATGACT
65 ATGACT
* * * * *
55574 AATAAATTTCTTGGAACCCGAAATATGTGACAGATACATGGGAGTATCAGATTCCTTTTGA
1 AATAAAATTCTTGGAACCCGAAAGATATGACAGATACATCGGAGTATAAGATTCCTTTTGA
55635 CACGACAGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
69 2 0.04
70 52 0.96
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (70 bp):
AATAAAATTCTTGGAACCCGAAAGATATGACAGATACATCGGAGTATAAGATTCCTTTTGAGTAA
TGACT
Found at i:55711 original size:89 final size:89
Alignment explanation
Indices: 55560--55926 Score: 407
Period size: 89 Copynumber: 4.1 Consensus size: 89
55550 TAAGATTCCT
* * *
55560 TTTGAGTAATGAC-TAATAAATTTCTTGGAACCCGAAATATGTGACAGATACATG-GGAGTATCA
1 TTTGACTAATG-CTTAATAAATTTCTTGGAACCCGAAAGATGTGACAGATGCATGTGG-GTATCA
*
55623 GATTCCTTTTGACACGACAGAAAATA
64 GATTCCTTCTGACACGACAGAAAATA
** * *
55649 TTTGACTAATGCTTAATAAATTTCTTGGAATTCGAAAGATGTGACATATGCATGCGGGTATCAGA
1 TTTGACTAATGCTTAATAAATTTCTTGGAACCCGAAAGATGTGACAGATGCATGTGGGTATCAGA
* * *
55714 TTCCTTTTGACACGATAAAAAATA
66 TTCCTTCTGACACGACAGAAAATA
* * * *
55738 TTTGACTAATG-TCTAATAAATTTCTTGGAACCCAAAAGATGTGACAGAAGTATGTAGGTATCAG
1 TTTGACTAATGCT-TAATAAATTTCTTGGAACCCGAAAGATGTGACAGATGCATGTGGGTATCAG
* * *
55802 ATTTCTTCTGATATGACAGAAAATA
65 ATTCCTTCTGACACGACAGAAAATA
* * * * * * *
55827 TTTAATTAATGCCTAATAAATTTCTTGAAACTCGAAAAATGTGATAGATGCATGTGGGTATCAGA
1 TTTGACTAATGCTTAATAAATTTCTTGGAACCCGAAAGATGTGACAGATGCATGTGGGTATCAGA
* * ** *
55892 TTTCTTCTAACACGATGGAAATTA
66 TTCCTTCTGACACGACAGAAAATA
*
55916 TTTAACTAATG
1 TTTGACTAATG
55927 ATATGGCAGA
Statistics
Matches: 234, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
88 2 0.01
89 230 0.98
90 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (89 bp):
TTTGACTAATGCTTAATAAATTTCTTGGAACCCGAAAGATGTGACAGATGCATGTGGGTATCAGA
TTCCTTCTGACACGACAGAAAATA
Found at i:55880 original size:178 final size:178
Alignment explanation
Indices: 55560--55927 Score: 470
Period size: 178 Copynumber: 2.1 Consensus size: 178
55550 TAAGATTCCT
* * * *
55560 TTTGAGTAATGACTAATAAATTTCTTGGAACCCGAAATATGTGACAGATACATGGGAGTATCAGA
1 TTTGACTAATGACTAATAAATTTCTTGGAACCCAAAAGATGTGACAGATACATGAGAGTATCAGA
* * * * * *
55625 TTCCTTTTGACACGACAGAAAATATTTGACTAATGCTTAATAAATTTCTTGGAATTCGAAAGATG
66 TTCCTTCTGACACGACAGAAAATATTTAACTAATGCCTAATAAATTTCTTGAAACTCGAAAAATG
* * *
55690 TGACATATGCATGCGGGTATCAGATTCCTTTTGACACGATAAAAAATA
131 TGACAGATGCATGCGGGTATCAGATTCCTTCTAACACGATAAAAAATA
* *
55738 TTTGACTAATGTCTAATAAATTTCTTGGAACCCAAAAGATGTGACAGA-AGTATGTAG-GTATCA
1 TTTGACTAATGACTAATAAATTTCTTGGAACCCAAAAGATGTGACAGATA-CATG-AGAGTATCA
* * * *
55801 GATTTCTTCTGATATGACAGAAAATATTTAATTAATGCCTAATAAATTTCTTGAAACTCGAAAAA
64 GATTCCTTCTGACACGACAGAAAATATTTAACTAATGCCTAATAAATTTCTTGAAACTCGAAAAA
* * * ** *
55866 TGTGATAGATGCATGTGGGTATCAGATTTCTTCTAACACGATGGAAATTA
129 TGTGACAGATGCATGCGGGTATCAGATTCCTTCTAACACGATAAAAAATA
*
55916 TTTAACTAATGA
1 TTTGACTAATGA
55928 TATGGCAGAA
Statistics
Matches: 161, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
177 1 0.01
178 159 0.99
179 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (178 bp):
TTTGACTAATGACTAATAAATTTCTTGGAACCCAAAAGATGTGACAGATACATGAGAGTATCAGA
TTCCTTCTGACACGACAGAAAATATTTAACTAATGCCTAATAAATTTCTTGAAACTCGAAAAATG
TGACAGATGCATGCGGGTATCAGATTCCTTCTAACACGATAAAAAATA
Found at i:55973 original size:18 final size:18
Alignment explanation
Indices: 55950--55985 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
55940 TAAAACAACG
55950 TGAAACTAGTGCATAGAT
1 TGAAACTAGTGCATAGAT
55968 TGAAACTAGTGCATAGAT
1 TGAAACTAGTGCATAGAT
55986 ATTTTTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (18 bp):
TGAAACTAGTGCATAGAT
Found at i:58488 original size:2 final size:2
Alignment explanation
Indices: 58481--58646 Score: 98
Period size: 2 Copynumber: 91.0 Consensus size: 2
58471 TATTATATGT
*
58481 TA TA TA TA T- TA TG TA TA TA T- TA TA T- TA TA TA TA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
*
58521 CTA T- TA T- TA TA T- TA TA TA T- TA T- TA TA T- TA T- TA TA AA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** * * * * * *
58557 TA TA GC TG T- TT TA TA TA TA TT TA TA TT TA TA TT TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58598 TA T- TA -A TA TA TA TA TA -A TA TA TA -A TA TA TA -A TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58634 TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA
58647 AAAAAATTAC
Statistics
Matches: 127, Mismatches: 17, Indels: 40
0.69 0.09 0.22
Matches are distributed among these distances:
1 18 0.14
2 105 0.83
3 4 0.03
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:58532 original size:47 final size:45
Alignment explanation
Indices: 58480--58646 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 45
58470 ATATTATATG
58480 TTATATATATTATGTATATATTATATTATATATACTATATACTATTA
1 TTATATATATTAT-TATATATTATATTATATATA-TATATACTATTA
* *
58527 TTATAT-TA-TA-TAT-TATTATATTAT-TATAAATATAGCTGTT-
1 TTATATATATTATTATATATTATATTATATATATATATA-CTATTA
* *
58567 TTATATATA-T-TTATAT-TTATATT-TATAT-T-TATATTAATA
1 TTATATATATTATTATATATTATATTATATATATATATACTATTA
* * *
58606 -TATATATAATATATAATATATAATATAATATATATAATATA
1 TTATATAT-AT-TATTATATATTATATTATATATAT-ATATA
58647 AAAAAATTAC
Statistics
Matches: 96, Mismatches: 9, Indels: 30
0.71 0.07 0.22
Matches are distributed among these distances:
38 9 0.09
39 5 0.05
40 12 0.12
41 25 0.26
42 17 0.18
43 8 0.08
44 5 0.05
45 3 0.03
46 2 0.02
47 10 0.10
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (45 bp):
TTATATATATTATTATATATTATATTATATATATATATACTATTA
Found at i:58978 original size:2 final size:2
Alignment explanation
Indices: 58926--58958 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
58916 TGATTGAAAA
58926 AG AG AG AG 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 AG AG AG AG A
58959 CGGAGAGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59024 original size:27 final size:27
Alignment explanation
Indices: 58972--59024 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
58962 AGAGAATGAT
*
58972 TGAGAGAAAAAGAAATACGAGGAGAGG
1 TGAGAGAAAAAGAAATACGAGAAGAGG
58999 TGAGAGAAGAAAAGAAA-A-GAGAAGAG
1 TGAGAG-A-AAAAGAAATACGAGAAGAG
59025 AAAAGATGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 13 0.57
28 2 0.09
29 8 0.35
ACGTcount: A:0.57, C:0.02, G:0.36, T:0.06
Consensus pattern (27 bp):
TGAGAGAAAAAGAAATACGAGAAGAGG
Found at i:59413 original size:16 final size:15
Alignment explanation
Indices: 59391--59423 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
59381 AAAGTTATAG
59391 TTTTTG-TGTTTT-A
1 TTTTTGTTGTTTTAA
59404 TTTTTGTTGTTTTAA
1 TTTTTGTTGTTTTAA
59419 TTTTT
1 TTTTT
59424 ATAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 6 0.33
15 6 0.33
ACGTcount: A:0.09, C:0.00, G:0.12, T:0.79
Consensus pattern (15 bp):
TTTTTGTTGTTTTAA
Found at i:60928 original size:2 final size:2
Alignment explanation
Indices: 60916--60948 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
60906 TAATTGAAAC
60916 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60949 GTCCCTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:63070 original size:2 final size:2
Alignment explanation
Indices: 63063--63092 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
63053 GTTCCATATT
63063 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
63093 AGATAAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:72151 original size:27 final size:25
Alignment explanation
Indices: 72107--72159 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
72097 TATGTTGTAT
* *
72107 TTATTATGATTATTAATTTAATAAATA
1 TTATTATGATGATGAATTT--TAAATA
*
72134 TTATTATTATGATGAATTTTAAATA
1 TTATTATGATGATGAATTTTAAATA
72159 T
1 T
72160 AAATGATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
27 16 0.70
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (25 bp):
TTATTATGATGATGAATTTTAAATA
Found at i:72751 original size:19 final size:21
Alignment explanation
Indices: 72727--72782 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 21
72717 TTTTGATATA
72727 TTTATATCATATTT-ATT-AT
1 TTTATATCATATTTAATTAAT
*
72746 TTTATATAATATATTTTAATTAAT
1 TTTATAT--CATA-TTTAATTAAT
72770 TTTATATCATATT
1 TTTATATCATATT
72783 AATATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
19 7 0.23
21 5 0.17
22 6 0.20
23 3 0.10
24 9 0.30
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATATCATATTTAATTAAT
Found at i:79915 original size:15 final size:16
Alignment explanation
Indices: 79881--79937 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 16
79871 ATATTTTCTC
*
79881 ATATTATAATTATATT
1 ATATTATAATAATATT
*
79897 ATATTA-AATAATGTT
1 ATATTATAATAATATT
*
79912 ATATAATATATAATA-T
1 ATATTATA-ATAATATT
79928 ATA-TATAATA
1 ATATTATAATA
79938 TTTAAATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 3 0.09
15 15 0.44
16 11 0.32
17 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATATTATAATAATATT
Found at i:79922 original size:2 final size:2
Alignment explanation
Indices: 79911--79967 Score: 50
Period size: 2 Copynumber: 30.5 Consensus size: 2
79901 TAAATAATGT
* *
79911 TA TA TA -A TA TA TA -A TA TA TA TA TA -A TA TT TA AA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
79949 TA TT TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA T
79968 TATGTATTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
1 4 0.09
2 39 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:79939 original size:38 final size:38
Alignment explanation
Indices: 79891--79967 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
79881 ATATTATAAT
* *
79891 TATATTATA-TTAAATAATGTTATATA-ATATATAATATA
1 TATATAATATTTAAAT-ATATTATATATATATATAA-ATA
*
79929 TATATAATATTTAAATATATTATTTATATATATAAATA
1 TATATAATATTTAAATATATTATATATATATATAAATA
79967 T
1 T
79968 TATGTATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 20 0.59
39 14 0.41
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (38 bp):
TATATAATATTTAAATATATTATATATATATATAAATA
Found at i:79956 original size:26 final size:27
Alignment explanation
Indices: 79881--79960 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 27
79871 ATATTTTCTC
*
79881 ATATTATAATTATATTATATTA-A-ATA
1 ATATTATAAATATATTAT-TTATATATA
* * *
79907 ATGTTATATAATATATAATATATATATA
1 ATATTATA-AATATATTATTTATATATA
79935 ATATT-TAAATATATTATTTATATATA
1 ATATTATAAATATATTATTTATATATA
79961 TAAATATTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
26 26 0.59
27 11 0.25
28 7 0.16
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (27 bp):
ATATTATAAATATATTATTTATATATA
Found at i:79970 original size:15 final size:15
Alignment explanation
Indices: 79889--79970 Score: 53
Period size: 15 Copynumber: 5.3 Consensus size: 15
79879 TCATATTATA
79889 ATTATATTATATTAAAT
1 ATTATA-TATA-TAAAT
* *
79906 AATGT-TATATAATAT
1 ATTATATATATAA-AT
*
79921 ATAATATATATATAAT
1 ATTATATATATA-AAT
* *
79937 ATT-TAAATAT-ATT
1 ATTATATATATAAAT
79950 ATTTATATATATAAAT
1 A-TTATATATATAAAT
79966 ATTAT
1 ATTAT
79971 GTATTGTAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
13 3 0.06
14 5 0.10
15 24 0.49
16 13 0.27
17 4 0.08
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (15 bp):
ATTATATATATAAAT
Found at i:80042 original size:10 final size:10
Alignment explanation
Indices: 79889--80042 Score: 52
Period size: 10 Copynumber: 15.2 Consensus size: 10
79879 TCATATTATA
*
79889 ATTATATTAT
1 ATTATATAAT
*
79899 ATTAAATAAT
1 ATTATATAAT
*
79909 GTTATAT-A-
1 ATTATATAAT
79917 A-TATATAAT
1 ATTATATAAT
79926 ATATATATAAT
1 AT-TATATAAT
*
79937 ATT-TAAATAT
1 ATTATATA-AT
*
79947 ATTAT-TTAT
1 ATTATATAAT
79956 A-TATATAAAT
1 ATTATAT-AAT
* *
79966 ATTATGTATT
1 ATTATATAAT
* *
79976 GTAATTATACAT
1 ATTA-TATA-AT
79988 AATTATATAACT
1 -ATTATATAA-T
*
80000 ATTGATACT-GT
1 ATT-ATA-TAAT
*
80011 AATATATAAT
1 ATTATATAAT
** *
80021 ATGCTATCAT
1 ATTATATAAT
80031 ATTATATAAT
1 ATTATATAAT
80041 AT
1 AT
80043 ATAAGTGTTC
Statistics
Matches: 101, Mismatches: 27, Indels: 32
0.63 0.17 0.20
Matches are distributed among these distances:
7 5 0.05
8 4 0.04
9 10 0.10
10 45 0.45
11 25 0.25
12 9 0.09
13 3 0.03
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (10 bp):
ATTATATAAT
Found at i:85834 original size:33 final size:33
Alignment explanation
Indices: 85792--85856 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
85782 AATTCCATAG
85792 TGTATCGATA-CAAAGCAATTTGTATCAATATAA
1 TGTATCGATATCAAA-CAATTTGTATCAATATAA
** *
85825 TGTATCGATATTTAACAATTTGTATCGATATA
1 TGTATCGATATCAAACAATTTGTATCAATATA
85857 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (33 bp):
TGTATCGATATCAAACAATTTGTATCAATATAA
Found at i:87957 original size:20 final size:20
Alignment explanation
Indices: 87932--87969 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
87922 AGTAACATTT
* *
87932 TCACCATTCTTATGCTTTAG
1 TCACCAATCATATGCTTTAG
87952 TCACCAATCATATGCTTT
1 TCACCAATCATATGCTTT
87970 GAGCACTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.08, T:0.42
Consensus pattern (20 bp):
TCACCAATCATATGCTTTAG
Found at i:88472 original size:21 final size:20
Alignment explanation
Indices: 88439--88478 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
88429 TATACAAAGT
88439 TTTTCTTTGTTAACTCATTA
1 TTTTCTTTGTTAACTCATTA
* *
88459 TTTTCGTTTTTTAATTCATT
1 TTTTC-TTTGTTAACTCATT
88479 GTTAGGATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.17, C:0.12, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTCTTTGTTAACTCATTA
Found at i:88878 original size:13 final size:13
Alignment explanation
Indices: 88860--88885 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88850 TACAGCAAGT
88860 ATGTATCGATACA
1 ATGTATCGATACA
88873 ATGTATCGATACA
1 ATGTATCGATACA
88886 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:91136 original size:21 final size:21
Alignment explanation
Indices: 91103--91147 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
91093 TTGCAAGTTG
*
91103 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
91125 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
91145 AAA
1 AAA
91148 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:92970 original size:15 final size:15
Alignment explanation
Indices: 92950--92988 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
92940 TAAAAATGTC
*
92950 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
92965 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
92980 CCAAATGAA
1 CAAAATGAA
92989 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:95073 original size:20 final size:20
Alignment explanation
Indices: 94994--95073 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
94984 AATGTCCAAA
*
94994 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
95014 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
95039 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
95059 TTGTATCGATACATT
1 ATGTATCGATACATT
95074 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:95077 original size:13 final size:13
Alignment explanation
Indices: 95059--95084 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95049 ACATTTTTCT
95059 TTGTATCGATACA
1 TTGTATCGATACA
95072 TTGTATCGATACA
1 TTGTATCGATACA
95085 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:95229 original size:21 final size:21
Alignment explanation
Indices: 95205--95251 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
95195 AAATCTTTTG
95205 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
95226 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
95246 CAAAAT
1 CAAAAT
95252 CAGCATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:95248 original size:20 final size:19
Alignment explanation
Indices: 95207--95249 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
95197 ATCTTTTGCA
95207 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
95227 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
95247 AAA
1 AAA
95250 ATCAGCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:97617 original size:13 final size:13
Alignment explanation
Indices: 97599--97624 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
97589 TACAGCAAGT
97599 ATGTATCGATACA
1 ATGTATCGATACA
97612 ATGTATCGATACA
1 ATGTATCGATACA
97625 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:103738 original size:35 final size:35
Alignment explanation
Indices: 103575--103886 Score: 299
Period size: 35 Copynumber: 8.9 Consensus size: 35
103565 AACCTTACAA
* * * *
103575 CCCTATCTTT-TCATAGGCTAAGATAGAACATCCT
1 CCCTATCTTTCTCAAAAGCTAAGATAGAACCTCTT
* * *
103609 CTCTATCTTT-TCATAAGCTAAGATAAAACCTCTT
1 CCCTATCTTTCTCAAAAGCTAAGATAGAACCTCTT
* * * *
103643 CCTTATCTTT-TCAAAGGCTAAGATAGAGCCTTTT
1 CCCTATCTTTCTCAAAAGCTAAGATAGAACCTCTT
* * *
103677 CCCTATTTTTCTTATCAAAGGTTAAGATAGAACCTCTT
1 CCCTATCTTTC---TCAAAAGCTAAGATAGAACCTCTT
** * * *
103715 CTTTATTTTTCTCAAAAGCTAAGATAAAACCTTTT
1 CCCTATCTTTCTCAAAAGCTAAGATAGAACCTCTT
** * * *
103750 TTCTATCTTTCTCAAAGGCTAAGATAGAGCATCTT
1 CCCTATCTTTCTCAAAAGCTAAGATAGAACCTCTT
* *
103785 TCCTATTTTTCTCAAAAGCTAAGATAGAACCTCTT
1 CCCTATCTTTCTCAAAAGCTAAGATAGAACCTCTT
* *
103820 CCCTATCTTTCTCAAAAGCTAAGATAGATCATCTT
1 CCCTATCTTTCTCAAAAGCTAAGATAGAACCTCTT
*
103855 CCTTATCCTTT-TCAAAAGCTAAGATAGAACCT
1 CCCTAT-CTTTCTCAAAAGCTAAGATAGAACCT
103887 ATCAATCACT
Statistics
Matches: 230, Mismatches: 43, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
34 64 0.28
35 132 0.57
36 4 0.02
38 30 0.13
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (35 bp):
CCCTATCTTTCTCAAAAGCTAAGATAGAACCTCTT
Found at i:103870 original size:105 final size:105
Alignment explanation
Indices: 103591--103882 Score: 367
Period size: 105 Copynumber: 2.8 Consensus size: 105
103581 CTTTTCATAG
* * *
103591 GCTAAGATAGAACATCCTCTCTATCTTT-TCATAAGCTAAGATAAAACCTCTTCCTTATCTTTTC
1 GCTAAGATAGAACCTCTTCTCTATCTTTCTCAAAAGCTAAGATAAAACCTCTTCCTTATCTTTTC
* *
103655 AAAGGCTAAGATAGAGCCTTTTCCCTATTTTTCTTATCAAAG
66 AAAGGCTAAGATAGAGCATTTTCCCTATTTTTC-T-TCAAAA
* * * **
103697 GTTAAGATAGAACCTCTTCTTTATTTTTCTCAAAAGCTAAGATAAAACCT-TTTTTCTATCTTTC
1 GCTAAGATAGAACCTCTTCTCTATCTTTCTCAAAAGCTAAGATAAAACCTCTTCCT-TATCTTT-
103761 TCAAAGGCTAAGATAGAGCATCTTT-CCTATTTTTC-TCAAAA
64 TCAAAGGCTAAGATAGAGCAT-TTTCCCTATTTTTCTTCAAAA
* * * *
103802 GCTAAGATAGAACCTCTTCCCTATCTTTCTCAAAAGCTAAGATAGATCATCTTCCTTATCCTTTT
1 GCTAAGATAGAACCTCTTCTCTATCTTTCTCAAAAGCTAAGATAAAACCTCTTCCTTAT-CTTTT
*
103867 CAAAAGCTAAGATAGA
65 CAAAGGCTAAGATAGA
103883 ACCTATCAAT
Statistics
Matches: 160, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
105 67 0.42
106 33 0.21
107 27 0.17
108 30 0.19
109 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (105 bp):
GCTAAGATAGAACCTCTTCTCTATCTTTCTCAAAAGCTAAGATAAAACCTCTTCCTTATCTTTTC
AAAGGCTAAGATAGAGCATTTTCCCTATTTTTCTTCAAAA
Found at i:104350 original size:20 final size:20
Alignment explanation
Indices: 104325--104380 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
104315 CGTTGGGCCA
*
104325 AATGTATCGATACAATTTAT
1 AATGTATCGATACAATTCAT
*
104345 AATGTATCGATATAATTCAT
1 AATGTATCGATACAATTCAT
104365 AATGTATCGATACAAT
1 AATGTATCGATACAAT
104381 CACAAGGTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACAATTCAT
Found at i:105846 original size:16 final size:16
Alignment explanation
Indices: 105822--105852 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
105812 TTTATTCTTA
105822 TTAAAATAAATAAAAG
1 TTAAAATAAATAAAAG
*
105838 TTAATATAAATAAAA
1 TTAAAATAAATAAAA
105853 AAGTTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TTAAAATAAATAAAAG
Found at i:106430 original size:21 final size:21
Alignment explanation
Indices: 106405--106474 Score: 90
Period size: 21 Copynumber: 3.3 Consensus size: 21
106395 TTTTCTTTCA
106405 TTTTATCTTTGACATCCTATT
1 TTTTATCTTTGACATCCTATT
*
106426 TTTTATTATTTGA-ATGCC-ATAT
1 TTTTA-TCTTTGACAT-CCTAT-T
106448 TTTTATCTTTGACATCCTATT
1 TTTTATCTTTGACATCCTATT
106469 TTTTAT
1 TTTTAT
106475 TATTTGAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
21 24 0.57
22 18 0.43
ACGTcount: A:0.21, C:0.14, G:0.06, T:0.59
Consensus pattern (21 bp):
TTTTATCTTTGACATCCTATT
Found at i:106450 original size:22 final size:22
Alignment explanation
Indices: 106425--106497 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 22
106415 GACATCCTAT
106425 TTTTTATTATTTGAATGCCATA
1 TTTTTATTATTTGAATGCCATA
*
106447 TTTTTA-TCTTTGACAT-CC-TA
1 TTTTTATTATTTGA-ATGCCATA
106467 TTTTTTATTATTTGAATGCCATA
1 -TTTTTATTATTTGAATGCCATA
106490 TTTTTATT
1 TTTTTATT
106498 TAAACTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
20 2 0.05
21 16 0.36
22 24 0.55
23 2 0.05
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.59
Consensus pattern (22 bp):
TTTTTATTATTTGAATGCCATA
Found at i:106452 original size:43 final size:43
Alignment explanation
Indices: 106405--106496 Score: 184
Period size: 43 Copynumber: 2.1 Consensus size: 43
106395 TTTTCTTTCA
106405 TTTTATCTTTGACATCCTATTTTTTATTATTTGAATGCCATAT
1 TTTTATCTTTGACATCCTATTTTTTATTATTTGAATGCCATAT
106448 TTTTATCTTTGACATCCTATTTTTTATTATTTGAATGCCATAT
1 TTTTATCTTTGACATCCTATTTTTTATTATTTGAATGCCATAT
106491 TTTTAT
1 TTTTAT
106497 TTAAACTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.58
Consensus pattern (43 bp):
TTTTATCTTTGACATCCTATTTTTTATTATTTGAATGCCATAT
Found at i:106493 original size:21 final size:21
Alignment explanation
Indices: 106426--106493 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
106416 ACATCCTATT
106426 TTTTATTATTTGAATGCCATA
1 TTTTATTATTTGAATGCCATA
* *
106447 TTTT-TATCTTTGACAT-CCTATT
1 TTTTAT-TATTTGA-ATGCC-ATA
106469 TTTTATTATTTGAATGCCATA
1 TTTTATTATTTGAATGCCATA
106490 TTTT
1 TTTT
106494 TATTTAAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
20 1 0.03
21 20 0.53
22 16 0.42
23 1 0.03
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTTATTATTTGAATGCCATA
Found at i:108310 original size:3 final size:3
Alignment explanation
Indices: 108302--108332 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
108292 AAGGACGCAT
108302 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
108333 ACTACTACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:108862 original size:16 final size:15
Alignment explanation
Indices: 108840--108897 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
108830 TAATATTTAT
108840 TTTAAATATAACAAA
1 TTTAAATATAACAAA
**
108855 TATTAAATATAACTATC
1 T-TTAAATATAAC-AAA
* *
108872 TTTAAATTTAATAAA
1 TTTAAATATAACAAA
108887 TTTAAATATAA
1 TTTAAATATAA
108898 TTACTTATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
15 12 0.35
16 20 0.59
17 2 0.06
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTAAATATAACAAA
Found at i:108894 original size:31 final size:30
Alignment explanation
Indices: 108840--108919 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 30
108830 TAATATTTAT
* *
108840 TTTAAATATAACAAATATTAAATATAACTATC
1 TTTAAATTTAATAAAT-TTAAATATAACTA-C
*
108872 TTTAAATTTAATAAATTTAAATATAATTAC
1 TTTAAATTTAATAAATTTAAATATAACTAC
108902 TTATAAATTTAATAAATT
1 TT-TAAATTTAATAAATT
108920 ATTAAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.07
31 27 0.61
32 14 0.32
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (30 bp):
TTTAAATTTAATAAATTTAAATATAACTAC
Found at i:108921 original size:16 final size:16
Alignment explanation
Indices: 108874--108921 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
108864 TAACTATCTT
108874 TAAATTTAATAAATT-
1 TAAATTTAATAAATTA
* * *
108889 TAAATATAATTACTTA
1 TAAATTTAATAAATTA
108905 TAAATTTAATAAATTA
1 TAAATTTAATAAATTA
108921 T
1 T
108922 TAAAAAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATTTAATAAATTA
Found at i:112186 original size:54 final size:54
Alignment explanation
Indices: 112128--112256 Score: 231
Period size: 54 Copynumber: 2.4 Consensus size: 54
112118 TGTCCACATC
** *
112128 ATTTGAAGCATTGGCATCACTCCTTTTTGGACCAGCAGAGGATTCCTCAGCTTT
1 ATTTGAAGCATCAGCATCACTCCTTTTTGGACCAGCACAGGATTCCTCAGCTTT
112182 ATTTGAAGCATCAGCATCACTCCTTTTTGGACCAGCACAGGATTCCTCAGCTTT
1 ATTTGAAGCATCAGCATCACTCCTTTTTGGACCAGCACAGGATTCCTCAGCTTT
112236 ATTTGAAGCATCAGCATCACT
1 ATTTGAAGCATCAGCATCACT
112257 GCATTTTTTA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (54 bp):
ATTTGAAGCATCAGCATCACTCCTTTTTGGACCAGCACAGGATTCCTCAGCTTT
Found at i:112191 original size:27 final size:27
Alignment explanation
Indices: 112161--112245 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 27
112151 TTTTTGGACC
*
112161 AGCAGAGGATTCCTCAGCTTTATTTGA
1 AGCACAGGATTCCTCAGCTTTATTTGA
* *
112188 AGCATCAGCA-TCACTC--CTTT-TTGGA
1 AGCA-CAGGATTC-CTCAGCTTTATTTGA
112213 CCAGCACAGGATTCCTCAGCTTTATTTGA
1 --AGCACAGGATTCCTCAGCTTTATTTGA
112242 AGCA
1 AGCA
112246 TCAGCATCAC
Statistics
Matches: 45, Mismatches: 5, Indels: 16
0.68 0.08 0.24
Matches are distributed among these distances:
25 4 0.09
26 11 0.24
27 16 0.36
28 10 0.22
29 4 0.09
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (27 bp):
AGCACAGGATTCCTCAGCTTTATTTGA
Found at i:118275 original size:13 final size:13
Alignment explanation
Indices: 118259--118296 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
118249 CCCTTTCTTT
118259 AAACAAAA-ATAAG
1 AAACAAAACAT-AG
118272 AAACAAAACATAG
1 AAACAAAACATAG
*
118285 AAACAATACATA
1 AAACAAAACATA
118297 TAAATTAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 21 0.91
14 2 0.09
ACGTcount: A:0.71, C:0.13, G:0.05, T:0.11
Consensus pattern (13 bp):
AAACAAAACATAG
Found at i:118841 original size:22 final size:23
Alignment explanation
Indices: 118816--118872 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
118806 ATTTTTAATA
118816 ATATTTTAATTAAATAATTTAT-
1 ATATTTTAATTAAATAATTTATC
* ** *
118838 ATATTTTTATTTTATATTTTATC
1 ATATTTTAATTAAATAATTTATC
118861 ATAATTTTAATT
1 AT-ATTTTAATT
118873 TAATTTTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 18 0.64
23 2 0.07
24 8 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
ATATTTTAATTAAATAATTTATC
Found at i:120453 original size:21 final size:19
Alignment explanation
Indices: 120410--120453 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
120400 TCTAAAAATT
*
120410 AAAAAGAAATTAAATGAAT
1 AAAAAGAAATTAAATGAAA
*
120429 AAAAAGAATTTATAATTGAAA
1 AAAAAGAAATTA-AA-TGAAA
120450 AAAA
1 AAAA
120454 TTTGAAGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (19 bp):
AAAAAGAAATTAAATGAAA
Found at i:121754 original size:79 final size:79
Alignment explanation
Indices: 121623--121773 Score: 232
Period size: 79 Copynumber: 1.9 Consensus size: 79
121613 TTTGGGTGAT
* * *
121623 AATAACGGGGCTGGAGGATCCCTGATTATGAAAAATTTGTGTTTTGAAAATAAAATCGGGGTTGG
1 AATAACAGGGCTGGAGGATCCCTAATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGG
121688 AGTATCCTTTTGGA
66 AGTATCCTTTTGGA
* * *
121702 AATAACAGGGTTGGAGTATCCCTAATTGT-AGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTG
1 AATAACAGGGCTGGAGGATCCCTAATTATGA-AAAATTGGTGTTTTGAAAATAAAATCGGGGTTG
121766 GAGTATCC
65 GAGTATCC
121774 CCTCAAAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 1 0.02
79 64 0.98
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (79 bp):
AATAACAGGGCTGGAGGATCCCTAATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGG
AGTATCCTTTTGGA
Found at i:121784 original size:79 final size:78
Alignment explanation
Indices: 121623--121801 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 78
121613 TTTGGGTGAT
* * * *
121623 AATAACGGGGCTGGAGGATCCCTGATTATGAAAAATTTGTGTTTTGAAAATAAAATCGGGGTTGG
1 AATAAC-GGGTTGGAGTATCCCTAATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGG
** ***
121688 AGTATCCTTTTGGA
65 AGTATCCCCTCAAA
*
121702 AATAACAGGGTTGGAGTATCCCTAATTGT-AGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTG
1 AATAAC-GGGTTGGAGTATCCCTAATTATGA-AAAATTGGTGTTTTGAAAATAAAATCGGGGTTG
121766 GAGTATCCCCTCAAA
64 GAGTATCCCCTCAAA
121781 AATAACGGAGTTGGAGTATCC
1 AATAACGG-GTTGGAGTATCC
121802 TCATGAAAAT
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
78 3 0.03
79 84 0.97
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (78 bp):
AATAACGGGTTGGAGTATCCCTAATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGA
GTATCCCCTCAAA
Found at i:121796 original size:28 final size:28
Alignment explanation
Indices: 121760--121831 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
121750 AATAAAATCG
121760 GGGTTGGAGTATCCCCTCA-AAAATAAC
1 GGGTTGGAGTATCCCCTCAGAAAATAAC
121787 GGAGTTGGAGTAT--CCTCATGAAAATAAC
1 GG-GTTGGAGTATCCCCTCA-GAAAATAAC
121815 GGGATTGGAGTATCCCC
1 GGG-TTGGAGTATCCCC
121832 GATTGTGAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
26 5 0.13
27 3 0.08
28 29 0.74
30 2 0.05
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTCAGAAAATAAC
Found at i:121873 original size:79 final size:79
Alignment explanation
Indices: 121790--121960 Score: 236
Period size: 79 Copynumber: 2.2 Consensus size: 79
121780 AAATAACGGA
* *
121790 GTTGGAGTATCCTCAT-GAAAATAACGGGATTGGAGTATCCCCGATTGTGAGGAATCAATATTTT
1 GTTGGAGTATCC-CATCGAAAATAACGGGATTAGAGTATCCCCGATTGTGAGAAATCAATATTTT
* *
121854 AGGAATAAAGCTGGG
65 AGGAATAAAACCGGG
* * * *
121869 GTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCTGATTGTGAGAAATCAATATTTTA
1 GTTGGAGTATCCCATCGAAAATAACGGGATTAGAGTATCCCCGATTGTGAGAAATCAATATTTTA
*
121934 GGATTAAAACCGGG
66 GGAATAAAACCGGG
*
121948 GTTAGAGTATCCC
1 GTTGGAGTATCCC
121961 TAATTGTGGA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
78 2 0.02
79 79 0.98
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCATCGAAAATAACGGGATTAGAGTATCCCCGATTGTGAGAAATCAATATTTTA
GGAATAAAACCGGG
Found at i:121993 original size:51 final size:51
Alignment explanation
Indices: 121893--122128 Score: 278
Period size: 51 Copynumber: 4.6 Consensus size: 51
121883 TCGGAAATAA
* * * * * * *
121893 CGGGGTTAGAGTATCCCTGATTGT-GAGAAATCAATATTTTAGGATTAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGA-AAATTAGTGTTTTAGAAATAAAAC
* ** * * *
121944 CGGGGTTAGAGTATCCCTAATTGTGGAAAATTGGTG-TTTCGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAG-AAATAAAAC
* *
121995 CGGAGTTGGAGTATCCCCGATTGTAGAAAATTAGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
*
122046 CGGGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
* *
122097 CGGGGTTGGAGTATCCCCGATTATGAAAAATT
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAATT
122129 GAGAAACTTA
Statistics
Matches: 161, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
50 4 0.02
51 151 0.94
52 6 0.04
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
Found at i:127015 original size:2 final size:2
Alignment explanation
Indices: 127008--127041 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
126998 ACTTACATGC
127008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
127042 TTTGTAGGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:131195 original size:16 final size:16
Alignment explanation
Indices: 131159--131194 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
131149 TTTTACTTTT
131159 ATTTTGCAACTCAAAC
1 ATTTTGCAACTCAAAC
*
131175 ATTTTGTAACTCAAAC
1 ATTTTGCAACTCAAAC
131191 -TTTT
1 ATTTT
131195 TACTTTTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTTGCAACTCAAAC
Found at i:133636 original size:88 final size:87
Alignment explanation
Indices: 133370--133793 Score: 316
Period size: 88 Copynumber: 4.8 Consensus size: 87
133360 AGGATACTTT
* * * * * *
133370 AATCCCGTTCTACCAAAAAATTTCAAATTTTCCCTTCGCATGATTTTATCTTTGGGGAAACTCCA
1 AATCACGTTCTA--AAAAAAATTCAAATTTT-CCTTCGTATAATTTTATCCTTAGGGAAACTCCA
* * *
133435 TCCTCACTATTCC--GATGGGATACTCC
63 TCC-CA-T-TCCCTTGAGGGGACACTCC
* * * * * * *
133461 AATCCCGTTCTAATAAAATTTCAAAATTTCCTTCGTATAATTTAATCCTTGGGGAAACTCTATCC
1 AATCACGTTCTAAAAAAAATTCAAATTTTCCTTCGTATAATTTTATCCTTAGGGAAACTCCATCC
** * * *
133526 CTATT-CCTCCAAGAGAATACTCC
66 C-ATTCCCT-TGAGGGGACACTCC
* *
133549 AACTC-CGTTCTAAAAAAAATTCAAATTCTCCTTCATATAATTTTATCCTTAGGGAAACTCCATT
1 AA-TCACGTTCTAAAAAAAATTCAAATTTTCCTTCGTATAATTTTATCCTTAGGGAAACTCCA-T
133613 CCCATTCCCTTGAGGGGACACTCC
64 CCCATTCCCTTGAGGGGACACTCC
* *** * * * * *
133637 AACCACGTTCTACCGAAATTTCAAATTTTCTTTTCGTATGATTTTAGCTTTAGGGAAACTCCATC
1 AATCACGTTCTAAAAAAAATTCAAATTTTC-CTTCGTATAATTTTATCCTTAGGGAAACTCCATC
** * *
133702 CTTGTTCCTTTGAGGGGACACTCT
65 C-CATTCCCTTGAGGGGACACTCC
* ** * * *
133726 AATCTCGTTCTACTAAAAAAATTCGTATTTTTCTTTGTATAATTTTATCTTTAGGGAAACTCCAT
1 AATCACGTTCTA--AAAAAAATTCAAATTTTCCTTCGTATAATTTTATCCTTAGGGAAACTCCAT
133791 CCC
64 CCC
133794 CACTATTCAG
Statistics
Matches: 268, Mismatches: 53, Indels: 26
0.77 0.15 0.07
Matches are distributed among these distances:
85 2 0.01
86 1 0.00
87 3 0.01
88 129 0.48
89 79 0.29
90 31 0.12
91 23 0.09
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (87 bp):
AATCACGTTCTAAAAAAAATTCAAATTTTCCTTCGTATAATTTTATCCTTAGGGAAACTCCATCC
CATTCCCTTGAGGGGACACTCC
Found at i:137906 original size:585 final size:578
Alignment explanation
Indices: 136737--138332 Score: 1742
Period size: 585 Copynumber: 2.7 Consensus size: 578
136727 AGAGCAATCA
* * *
136737 TATTATAAAAGAAAAATTGCTATTCTTACTA-TATTATTATG-ACAAATAACATTTGACATATTT
1 TATTATAAAAGAAAATTTGCTATTCTTACTATTATTATTATGAAAAAATAACATTCGACATATTT
* *
136800 AATTTGAAAAAAACCTCAAAAATATATCCTTTGCTTACAAAAGGACTTATTCCTACTAAGTACAT
66 AATTTGAAAAAAACCTAAAAAATATATCCTTTGCTTACAAAAGGACTTATTCTTACTAAGTACAT
*
136865 CTTTATTAGACTCAAACAATAATTTATAATAATCTCTAATAAGAAAAAAAACCACTAATCAAATT
131 CTTTATTAGACTCAAACAATAATTTATAATCATCTCTAAT-AG--AAAAAA--ACTAAT-AAATT
* * * * * *
136930 TTTCCTAAGGTCAAACACATGTTGCACTATATGAAGAGACACATTTTTCTCC-GAATTTAGTAAT
190 TTTCCTAATGTTAGACACATGTTGCACTTTATGAAGAGACACAATCTTC-CCAGAATTTAGTAAT
* * * * *
136994 AAATCTAT--TTT-TCCTTTTTGTTTCACTTATGTAGCAATAGCATTACTTATGTTTACTAATTT
254 AAATCTATCATTTCTCC--TTT-TTTCACTTATGCAACAACAACATTACCTATGTTTACTAATTT
* * * * *
137056 TCCACCAATGACCTAAAATTTTGAAAATAATAATTGGTCAATATAAATATGGATATTTGCATTGG
316 TCCACCAATAACCTAAAATTTTGAAAATAATGATTGGTCAGTATAAATATGGATATTTGCATCGA
* * * * * ** * *
137121 TGTTAATCCCTTACTTATAAAAGTCTACGCTAAATTGACCATAAGAATGATTGATACAAACTTTT
381 T-TTAATCCATCAATTATAAAATTATATACTAAATTGACCATAAGAATGATTAATACAAACCTTT
* * * * *
137186 TGTCAATCTTACTACTCATAGCAATGACTTGTAAGGTCAATGTTTTAAATGTTTTCTACCTCTTG
445 TATCAATCTTACTACTCATAGCAATCACTTGTAAAGTCAATGTCTTAAATGTTTTCTAACTCTTG
* * * * *
137251 CCATGTAGGCAGACCAAATATTGTTAATATGTTCTAAATAACTATAGCAAACATTAGGGAAATGA
510 CCACGTAGGCAGACCAAACATTGTTAATATGTCCTAAACAACTATAGCAAACATTAGGGAAATAA
137316 ATAC
575 ATAC
* * * * *
137320 TATTATAAAAGAAAATTTGCTATGCTTACTATTAGTGTT-CGAAAAAATAACATTCAACATATTT
1 TATTATAAAAGAAAATTTGCTATTCTTACTATTATTATTATGAAAAAATAACATTCGACATATTT
* * * * * *
137384 AATTTAGAAAATAACTTAAAAAATATATCCTTTGCTTACAAAAAGACTCATTCTTACTAAATATA
66 AATTT-GAAAAAAACCTAAAAAATATATCCTTTGCTTACAAAAGGACTTATTCTTACTAAGTACA
*
137449 TCTTTATTAGACTCAAGCAATAATTTATAATCATCTCTAATAGAAAAAAATGCTTAATTAAAATT
130 TCTTTATTAGACTCAAACAATAATTTATAATCATCTCTAATAGAAAAAAA--C-TAA-T-AAATT
* * * * * *
137514 TTTCCTAATGTTAGATATATGTTGCACTTTATAAAAAGAAACAACCTTCCCAGAATTTAGTAATA
190 TTTCCTAATGTTAGACACATGTTGCACTTTATGAAGAGACACAATCTTCCCAGAATTTAGTAATA
*
137579 AATCTATCATTTCTCCTTTTTTCACTTATGCAACAACAACATTACCTATATTTACTAATTTTCCA
255 AATCTATCATTTCTCCTTTTTTCACTTATGCAACAACAACATTACCTATGTTTACTAATTTTCCA
* * * *
137644 CCAATAATCTGAAAA-TTTGAAAATAATGATTGGTCAGTACAAATATTGATATTTACATCGATTT
320 CCAATAACCT-AAAATTTTGAAAATAATGATTGGTCAGTATAAATATGGATATTTGCATCGATTT
* *
137708 AAATCCATCATTTATAAAAATTATATACTAAATTGACCATATA-CATGATTAATACAAACCTTTT
384 -AATCCATCAATTAT-AAAATTATATACTAAATTGACCATA-AGAATGATTAATACAAACCTTTT
* * *
137772 ATCAATCTTACTAGTTATAGCAATCACTTGTAAAGTCAATGTCTTAGATGTTTTCTAACTCTTGC
446 ATCAATCTTACTACTCATAGCAATCACTTGTAAAGTCAATGTCTTAAATGTTTTCTAACTCTTGC
* * *
137837 TACGTAGGCAGACCAAACATTGTTAATATGTCCTAAACAA-TCATATCAAGCATTAAGGG-AATA
511 CACGTAGGCAGACCAAACATTGTTAATATGTCCTAAACAACT-ATAGCAAACATT-AGGGAAATA
137900 AATAC
574 AATAC
** * * *
137905 TATTATAAAAGAAAAATTACTATTATTATTATTATTATTATTATTATTATTATTATTATGACAAA
1 TATTATAAAAG----A--A--A--A-T-TTGCTATTCTTACTATTATTATTATGA--A--A-AAA
* * * * * * *
137970 TAACATTCGATACATTTAACTTGAAAAGAACCTAAAAAAAAAATCCTTTGCTTAC-AAAGGATTT
49 TAACATTCGACATATTTAATTTGAAAAAAACCTAAAAAATATATCCTTTGCTTACAAAAGGACTT
*
138034 ATTCTTACTAAGTACATCTTTATTAGACTCAAACAATAATTTATAATCAT-T-T--T--TAAAAA
114 ATTCTTACTAAGTACATCTTTATTAGACTCAAACAATAATTTATAATCATCTCTAATAGAAAAAA
* * * * *
138093 ACCACT-AATTTTTCCCAATGTTAGACACATGTTACACTTTATGAAGAGACACAATCTTCCCAAA
179 ACTAATAAATTTTTCCTAATGTTAGACACATGTTGCACTTTATGAAGAGACACAATCTTCCCAGA
* * * **
138157 ATTTA-TAATAAATCTATCATTTCGT-CTCTTTTAAATTGCGCAACAACAACATTACCTATGTTT
244 ATTTAGTAATAAATCTATCATTTC-TCCTTTTTTCACTTATGCAACAACAACATTACCTATGTTT
* * *
138220 ACTAATTTTCTACCAATTACCTAAAATTTTGAAAATAATGATTGGTCAGTATAAACATGGATATT
308 ACTAATTTTCCACCAATAACCTAAAATTTTGAAAATAATGATTGGTCAGTATAAATATGGATATT
* *
138285 TGCATCGATGTCAATCCA-CTAATTATAAAATATATATATTAAATTGAC
373 TGCATCGAT-TTAATCCATC-AATTATAAAAT-TATATACTAAATTGAC
138333 TATAGAAATT
Statistics
Matches: 850, Mismatches: 123, Indels: 75
0.81 0.12 0.07
Matches are distributed among these distances:
580 1 0.00
582 7 0.01
583 37 0.04
584 194 0.23
585 257 0.30
586 8 0.01
587 13 0.02
588 138 0.16
589 57 0.07
591 2 0.00
592 1 0.00
593 2 0.00
595 7 0.01
596 1 0.00
597 17 0.02
598 1 0.00
599 1 0.00
600 2 0.00
601 53 0.06
602 30 0.04
603 21 0.02
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (578 bp):
TATTATAAAAGAAAATTTGCTATTCTTACTATTATTATTATGAAAAAATAACATTCGACATATTT
AATTTGAAAAAAACCTAAAAAATATATCCTTTGCTTACAAAAGGACTTATTCTTACTAAGTACAT
CTTTATTAGACTCAAACAATAATTTATAATCATCTCTAATAGAAAAAAACTAATAAATTTTTCCT
AATGTTAGACACATGTTGCACTTTATGAAGAGACACAATCTTCCCAGAATTTAGTAATAAATCTA
TCATTTCTCCTTTTTTCACTTATGCAACAACAACATTACCTATGTTTACTAATTTTCCACCAATA
ACCTAAAATTTTGAAAATAATGATTGGTCAGTATAAATATGGATATTTGCATCGATTTAATCCAT
CAATTATAAAATTATATACTAAATTGACCATAAGAATGATTAATACAAACCTTTTATCAATCTTA
CTACTCATAGCAATCACTTGTAAAGTCAATGTCTTAAATGTTTTCTAACTCTTGCCACGTAGGCA
GACCAAACATTGTTAATATGTCCTAAACAACTATAGCAAACATTAGGGAAATAAATAC
Found at i:137933 original size:3 final size:3
Alignment explanation
Indices: 137920--137963 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
137910 TAAAAGAAAA
*
137920 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
137964 GACAAATAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:145726 original size:13 final size:14
Alignment explanation
Indices: 145710--145743 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
145700 ATAATTAATT
145710 ATAATAAATAT-TA
1 ATAATAAATATATA
145723 ATAATAAATATATA
1 ATAATAAATATATA
*
145737 TTAATAA
1 ATAATAA
145744 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATAAATATATA
Found at i:145737 original size:17 final size:16
Alignment explanation
Indices: 145703--145778 Score: 61
Period size: 17 Copynumber: 4.9 Consensus size: 16
145693 TATTATCATA
*
145703 ATTAATTATAATAAAT
1 ATTAATAATAATAAAT
*
145719 ATTAATAATAAATATAT
1 ATTAATAAT-AATAAAT
*
145736 ATTAATAATTAA-AAAA
1 ATTAATAA-TAATAAAT
*
145752 ATTAA-AATTATAAA-
1 ATTAATAATAATAAAT
*
145766 A-TAATAATTATAA
1 ATTAATAATAATAA
145779 TATCATACAC
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
13 3 0.06
14 11 0.22
15 5 0.10
16 15 0.29
17 16 0.31
18 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAATAATAATAAAT
Found at i:145774 original size:14 final size:14
Alignment explanation
Indices: 145722--145778 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
145712 AATAAATATT
* *
145722 AATAATAAATATAT
1 AATAATAATTATAA
* *
145736 ATTAATAATTAAAAA
1 AATAATAATT-ATAA
145751 AATTAA-AATTATAA
1 AA-TAATAATTATAA
145765 AATAATAATTATAA
1 AATAATAATTATAA
145779 TATCATACAC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
13 3 0.09
14 21 0.62
15 7 0.21
16 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATAATAATTATAA
Found at i:150575 original size:21 final size:21
Alignment explanation
Indices: 150549--150588 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
150539 ATATTTAAAA
* *
150549 ATATATTAAATTGTTTTTAAG
1 ATATATTAAAATATTTTTAAG
150570 ATATATTAAAATATTTTTA
1 ATATATTAAAATATTTTTA
150589 TCTTTCTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
ATATATTAAAATATTTTTAAG
Found at i:150648 original size:19 final size:21
Alignment explanation
Indices: 150598--150649 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
150588 ATCTTTCTTT
150598 AGAATCATATTT-AATATTAA
1 AGAATCATATTTAAATATTAA
* *
150618 ATAATAATATTTAAATA-T-A
1 AGAATCATATTTAAATATTAA
150637 AGAATCATATTTA
1 AGAATCATATTTA
150650 TATAATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 12 0.44
20 11 0.41
21 4 0.15
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (21 bp):
AGAATCATATTTAAATATTAA
Found at i:150658 original size:72 final size:72
Alignment explanation
Indices: 150450--150659 Score: 164
Period size: 72 Copynumber: 2.8 Consensus size: 72
150440 TATGTCATAC
* *
150450 ATCATATTTAATATTAAATAATAATATTTAAATATAAAAATTATAGTTATATAATGTTATATATT
1 ATCATATTTAATATTAAATAATAATATTTAAATATAAGAA-TATATTTATATAAT-TT-T-TATT
150515 TTCAGAATTTATAA
62 TTC---ATTTATAA
* * * * *
150529 ATTATATTTTATATTTAAA-AAT-ATA-TTAAATTGTTTTTAAG-ATATATTAAAAT-ATTTTTA
1 ATCATATTTAATA-TTAAATAATAATATTTAAA-----TATAAGAATATATTTATATAATTTTTA
*
150589 TCTTTC-TTTA-GA
60 T-TTTCATTTATAA
150601 ATCATATTTAATATTAAATAATAATATTTAAATATAAGAATCATATTTATATAATTTTT
1 ATCATATTTAATATTAAATAATAATATTTAAATATAAGAAT-ATATTTATATAATTTTT
150660 TAATATTTTC
Statistics
Matches: 105, Mismatches: 13, Indels: 33
0.70 0.09 0.22
Matches are distributed among these distances:
69 5 0.05
70 2 0.02
71 13 0.12
72 21 0.20
73 7 0.07
74 5 0.05
76 3 0.03
77 10 0.10
78 5 0.05
79 16 0.15
80 13 0.12
81 1 0.01
82 4 0.04
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (72 bp):
ATCATATTTAATATTAAATAATAATATTTAAATATAAGAATATATTTATATAATTTTTATTTTCA
TTTATAA
Found at i:154849 original size:31 final size:31
Alignment explanation
Indices: 154813--154889 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
154803 AAATCAAAAA
* * *
154813 TATTTTATTTTTTAA-ATTTAATTTAAAAATT
1 TATTTTATTATTTAATATAT-ATCTAAAAATT
154844 TATTTTATTATTTAATATATATCTAAAAATT
1 TATTTTATTATTTAATATATATCTAAAAATT
154875 TATTTTATATATTTA
1 TATTTTAT-TATTTA
154890 TATTTTTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
31 32 0.78
32 9 0.22
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (31 bp):
TATTTTATTATTTAATATATATCTAAAAATT
Found at i:156333 original size:39 final size:39
Alignment explanation
Indices: 156298--156379 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
156288 AATAACTTAT
* * *
156298 AACTTTTATATGAATAAAGTTACAAATCCTCTAACTAAC
1 AACTTTTACACGAATAAAATTACAAATCCTCTAACTAAC
* * * *
156337 AATTTTTGCACGAATAAAATTACAAATCCTTTAACTAAA
1 AACTTTTACACGAATAAAATTACAAATCCTCTAACTAAC
156376 AACT
1 AACT
156380 AGTAACTTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (39 bp):
AACTTTTACACGAATAAAATTACAAATCCTCTAACTAAC
Found at i:163625 original size:40 final size:40
Alignment explanation
Indices: 163565--163654 Score: 107
Period size: 40 Copynumber: 2.2 Consensus size: 40
163555 ATAATTATTA
163565 AATTTATATTAAATTATAATA-AATAAAAAATAAAAAAATT
1 AATTTATATTAAATTATAATATAAT-AAAAATAAAAAAATT
*
163605 AATTTGATATTTAAA-T-TAATATAATAAAAATAATAAAA-T
1 AATTT-ATA-TTAAATTATAATATAATAAAAATAAAAAAATT
163644 ATATTTATATT
1 A-ATTTATATT
163655 CATAAAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
38 2 0.04
39 5 0.11
40 26 0.58
41 7 0.16
42 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (40 bp):
AATTTATATTAAATTATAATATAATAAAAATAAAAAAATT
Found at i:163659 original size:19 final size:19
Alignment explanation
Indices: 163637--163673 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
163627 AATAAAAATA
* *
163637 ATAAAATATATTTATATTC
1 ATAAAATAAATTAATATTC
163656 ATAAAATAAATTAATATT
1 ATAAAATAAATTAATATT
163674 TAAATTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAAAATAAATTAATATTC
Found at i:163713 original size:14 final size:15
Alignment explanation
Indices: 163674--163713 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
163664 AATTAATATT
163674 TAAATTTATATAAAAA
1 TAAATTTATA-AAAAA
163690 T--ATTTATAAAAAA
1 TAAATTTATAAAAAA
163703 TAAATTT-TAAA
1 TAAATTTATAAA
163714 TAATTAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 6 0.27
14 11 0.50
15 4 0.18
16 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATTTATAAAAAA
Found at i:164346 original size:102 final size:101
Alignment explanation
Indices: 164171--164421 Score: 353
Period size: 102 Copynumber: 2.5 Consensus size: 101
164161 ATATGTTATA
* * * *
164171 TGTTGATTAAATGATG-ATTTGGTAGTTTACCATTGTTGATTAAGTGGGTGATTTGGTGGTTTGC
1 TGTTGATTAAATGA-GAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTAC
*
164235 CATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
65 CATTGTTGACTAAATGGGAAATTTGGTAGCTTACCAT
*
164272 TGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
1 TGTTGATTAAATGAG-AATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTAC
* * *
164337 CATTGTTGACTAAATGGTAAATTTGGTAGGTTGCCAT
65 CATTGTTGACTAAATGGGAAATTTGGTAGCTTACCAT
* *
164374 TGTTGATTAAATG-GTAGATTTGGTAGGTTGCCATTGTTGATTAAATGG
1 TGTTGATTAAATGAG-A-ATTTGGTAGCTTACCATTGTTGATTAAATGG
164422 TGGTTTTTAC
Statistics
Matches: 134, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
100 1 0.01
101 16 0.12
102 117 0.87
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.41
Consensus pattern (101 bp):
TGTTGATTAAATGAGAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
ATTGTTGACTAAATGGGAAATTTGGTAGCTTACCAT
Found at i:164422 original size:34 final size:34
Alignment explanation
Indices: 164171--164422 Score: 291
Period size: 34 Copynumber: 7.4 Consensus size: 34
164161 ATATGTTATA
* *
164171 TGTTGATTAAATGAT-GATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGTAGATTTGGTAGGTTACCAT
* *
164204 TGTTGATTAAGTGGGT-GATTTGGT-GGTTTGCCAT
1 TGTTGATTAAAT-GGTAGATTTGGTAGG-TTACCAT
* * *
164238 TGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGTAGATTTGGTAGGTTACCAT
* *
164272 TGTTGATTAAATGAG-AAATTTGGTAGCTTACCAT
1 TGTTGATTAAATG-GTAGATTTGGTAGGTTACCAT
*
164306 TATTGATTAAATGGGT-GATTTGGT-GGCTTACCAT
1 TGTTGATTAAAT-GGTAGATTTGGTAGG-TTACCAT
* * *
164340 TGTTGACTAAATGGTAAATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGTAGATTTGGTAGGTTACCAT
*
164374 TGTTGATTAAATGGTAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGTAGATTTGGTAGGTTACCAT
164408 TGTTGATTAAATGGT
1 TGTTGATTAAATGGT
164423 GGTTTTTACC
Statistics
Matches: 189, Mismatches: 20, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
33 18 0.10
34 166 0.88
35 5 0.03
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.41
Consensus pattern (34 bp):
TGTTGATTAAATGGTAGATTTGGTAGGTTACCAT
Found at i:168887 original size:34 final size:34
Alignment explanation
Indices: 168830--169048 Score: 280
Period size: 34 Copynumber: 6.5 Consensus size: 34
168820 AAGTGGGAGA
*
168830 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
168863 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
168897 ATTGTTGACTAAATGGGAGATTTGATAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* **
168931 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
168965 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
168999 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
169033 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
169049 TGGTTTTTAC
Statistics
Matches: 160, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
33 17 0.11
34 142 0.89
35 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:168973 original size:102 final size:101
Alignment explanation
Indices: 168830--169048 Score: 339
Period size: 102 Copynumber: 2.2 Consensus size: 101
168820 AAGTGGGAGA
** * * * *
168830 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
168895 CCATTGTTGACTAAATGGGAGATTTGATAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGATAGCTTACC
168931 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
* * * *
168996 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCC
65 ACCATTGTTGACTAAATGGGAGATTTGATAGCTTACC
169033 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
169049 TGGTTTTTAC
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 16 0.15
102 91 0.85
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGATAGCTTACC
Found at i:170425 original size:20 final size:20
Alignment explanation
Indices: 170405--170443 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
170395 TATATCTTAA
170405 TATATTATA-ATATAACATAAT
1 TATA-TATAGATA-AACATAAT
170426 TATATATAGATAAACATA
1 TATATATAGATAAACATA
170444 TCAAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (20 bp):
TATATATAGATAAACATAAT
Found at i:170670 original size:11 final size:11
Alignment explanation
Indices: 170656--170693 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
170646 ATGAAAAATA
170656 ATATAAACATG
1 ATATAAACATG
*
170667 ATAT-AA-ATA
1 ATATAAACATG
170676 ATATAAACATG
1 ATATAAACATG
170687 ATATAAA
1 ATATAAA
170694 TAGACGTCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 6 0.26
10 4 0.17
11 13 0.57
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (11 bp):
ATATAAACATG
Found at i:170674 original size:20 final size:20
Alignment explanation
Indices: 170651--170695 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
170641 ATAATATGAA
170651 AAATAATATAAACATGATAT
1 AAATAATATAAACATGATAT
170671 AAATAATATAAACATGATAT
1 AAATAATATAAACATGATAT
170691 AAATA
1 AAATA
170696 GACGTCACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (20 bp):
AAATAATATAAACATGATAT
Found at i:171602 original size:15 final size:14
Alignment explanation
Indices: 171572--171619 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
171562 ATTATAGAGC
* *
171572 ATTTTAATTTTTAT
1 ATTTTAAATTTAAT
171586 ATTATTAAATTTAAT
1 ATT-TTAAATTTAAT
* *
171601 ATTTTAATTTTTAT
1 ATTTTAAATTTAAT
171615 ATTTT
1 ATTTT
171620 TAAAATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTAAATTTAAT
Found at i:171620 original size:15 final size:15
Alignment explanation
Indices: 171573--171622 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
171563 TTATAGAGCA
171573 TTTTAATTTTTATAT
1 TTTTAATTTTTATAT
* * *
171588 TATTAAATTTAATA-
1 TTTTAATTTTTATAT
171602 TTTTAATTTTTATAT
1 TTTTAATTTTTATAT
171617 TTTTAA
1 TTTTAA
171623 AATTATAACA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTAATTTTTATAT
Found at i:171876 original size:14 final size:14
Alignment explanation
Indices: 171859--171910 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
171849 ACTATAATTT
171859 TTAAAATATAAAAA
1 TTAAAATATAAAAA
* **
171873 TTAAAATATTAATT
1 TTAAAATATAAAAA
171887 TTAATAATATAAAAA
1 TTAA-AATATAAAAA
171902 TTAAAATAT
1 TTAAAATAT
171911 TTTTTCATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TTAAAATATAAAAA
Found at i:171895 original size:29 final size:28
Alignment explanation
Indices: 171857--171911 Score: 101
Period size: 29 Copynumber: 1.9 Consensus size: 28
171847 TTACTATAAT
171857 TTTTAAAATATAAAAATTAAAATATTAA
1 TTTTAAAATATAAAAATTAAAATATTAA
171885 TTTTAATAATATAAAAATTAAAATATT
1 TTTTAA-AATATAAAAATTAAAATATT
171912 TTTTCATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTTAAAATATAAAAATTAAAATATTAA
Found at i:172451 original size:26 final size:25
Alignment explanation
Indices: 172417--172465 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 25
172407 TTATTAAAAA
172417 TTATATAATTAAATTAAATATATATTT
1 TTATATAATT--ATTAAATATATATTT
*
172444 TTAT-TAATTATTAACTATATAT
1 TTATATAATTATTAAATATATAT
172466 AATATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
26 5 0.24
27 4 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TTATATAATTATTAAATATATATTT
Found at i:172473 original size:27 final size:26
Alignment explanation
Indices: 172434--172484 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
172424 ATTAAATTAA
*
172434 ATATATATTTTTA-TTAATTATTAACT
1 ATATATATATTTATTTAA-TATTAACT
172460 ATATATAATATTTATTTAATATTAA
1 ATATAT-ATATTTATTTAATATTAA
172485 AATTAATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 6 0.27
27 12 0.55
28 4 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
ATATATATATTTATTTAATATTAACT
Found at i:175088 original size:20 final size:20
Alignment explanation
Indices: 175060--175134 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
175050 TCATACCCTG
175060 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
175080 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
175100 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
175120 ATGTATCGATACATT
1 ATGTATCGATACATT
175135 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:175127 original size:40 final size:39
Alignment explanation
Indices: 175060--175137 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
175050 TCATACCCTG
* *
175060 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
175100 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
175138 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:181475 original size:23 final size:23
Alignment explanation
Indices: 181445--181489 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
181435 TAACAACTTT
181445 ATCTCCAAATCAGTAAATAAGTA
1 ATCTCCAAATCAGTAAATAAGTA
181468 ATCTCCAAATCAGTAAATAAGT
1 ATCTCCAAATCAGTAAATAAGT
181490 GTCTACCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.27
Consensus pattern (23 bp):
ATCTCCAAATCAGTAAATAAGTA
Found at i:183445 original size:18 final size:19
Alignment explanation
Indices: 183424--183464 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
183414 AATTGTCAAA
183424 ACAC-TTAAAAGTATCGAT
1 ACACATTAAAAGTATCGAT
*
183442 ACACAATTCAAAGTATCGAT
1 ACAC-ATTAAAAGTATCGAT
183462 ACA
1 ACA
183465 TGTTGCAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
20 16 0.80
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (19 bp):
ACACATTAAAAGTATCGAT
Found at i:183574 original size:13 final size:13
Alignment explanation
Indices: 183556--183581 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
183546 TACACAAAGT
183556 ATGTATCGATACA
1 ATGTATCGATACA
183569 ATGTATCGATACA
1 ATGTATCGATACA
183582 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:183600 original size:34 final size:32
Alignment explanation
Indices: 183538--183602 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
183528 TAGCCAAACT
**
183538 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
183570 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
183603 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:185846 original size:21 final size:21
Alignment explanation
Indices: 185813--185862 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
185803 TTGCAAGTTG
*
185813 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
185835 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
185856 AAATAAA
1 AAATAAA
185863 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Done.