Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold733
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: 57991
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Found at i:3959 original size:18 final size:19
Alignment explanation
Indices: 3936--3987 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
3926 AAAGAAATTA
3936 TATCGATACATT-TAAATG
1 TATCGATACATTCTAAATG
* *
3954 TATCGATACATTTCTCATTG
1 TATCGATACA-TTCTAAATG
3974 TATCGATACATTCT
1 TATCGATACATTCT
3988 GGGCTTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 10 0.33
19 6 0.20
20 14 0.47
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (19 bp):
TATCGATACATTCTAAATG
Found at i:4396 original size:20 final size:21
Alignment explanation
Indices: 4357--4400 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
4347 TTAAGTATAG
4357 ATGTCTTTCAAGCATAAAAATA
1 ATGTCTTTCAAG-ATAAAAATA
*
4379 ATGTTTTTCAAG-TAAAAATA
1 ATGTCTTTCAAGATAAAAATA
4399 AT
1 AT
4401 CCAAAGTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (21 bp):
ATGTCTTTCAAGATAAAAATA
Found at i:4629 original size:13 final size:13
Alignment explanation
Indices: 4611--4645 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
4601 TCACTCAGTC
4611 TCGATACATTGTA
1 TCGATACATTGTA
* *
4624 TCGATATAGTGTA
1 TCGATACATTGTA
4637 TCGATACAT
1 TCGATACAT
4646 AGTTAAATAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (13 bp):
TCGATACATTGTA
Found at i:4738 original size:20 final size:20
Alignment explanation
Indices: 4695--4731 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4685 TTCAAATGCA
*
4695 TGTATCGATACATTATGAAT
1 TGTATCGATACATTAGGAAT
4715 TGTATCGATACA-TAGGA
1 TGTATCGATACATTAGGA
4732 GTGTGTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATTAGGAAT
Found at i:5146 original size:36 final size:35
Alignment explanation
Indices: 5094--5325 Score: 216
Period size: 36 Copynumber: 6.9 Consensus size: 35
5084 TAAGTGATTA
5094 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAAGGAG
1 AGAGGTTCTATCTTAGCCTTTG-AAAAGATAAGGAG
* **
5130 AGAGGTTCTATATTAGCCCATGAAAAGAT-AGG-G
1 AGAGGTTCTATCTTAGCCTTTGAAAAGATAAGGAG
* * * *
5163 AG-GTTTCTACCTTAGCTTTTGAAAAAGATAGGGAG
1 AGAGGTTCTATCTTAGCCTTTG-AAAAGATAAGGAG
* * *
5198 AAAGGTTCTATCTTAGACTGTGAAAAGAT-A-GAG
1 AGAGGTTCTATCTTAGCCTTTGAAAAGATAAGGAG
* *
5231 AG-GTTTCTATCTTAGCCTTTGAAAAAGATAAGGAC
1 AGAGGTTCTATCTTAGCCTTTG-AAAAGATAAGGAG
** *
5266 AGAGGTTCTATCTTAGCCCGTGAAAAGATAA--TG
1 AGAGGTTCTATCTTAGCCTTTGAAAAGATAAGGAG
*
5299 AG-GTTTCTATCTTAGCC-TTG-AAAGATA
1 AGAGGTTCTATCTTAGCCTTTGAAAAGATA
5326 GTGTTGTAAG
Statistics
Matches: 159, Mismatches: 29, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
30 7 0.04
31 2 0.01
32 43 0.27
33 23 0.14
34 6 0.04
35 29 0.18
36 49 0.31
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (35 bp):
AGAGGTTCTATCTTAGCCTTTGAAAAGATAAGGAG
Found at i:5208 original size:68 final size:68
Alignment explanation
Indices: 5094--5321 Score: 327
Period size: 68 Copynumber: 3.4 Consensus size: 68
5084 TAAGTGATTA
* * *
5094 AGAGG-TTCTATCTTAGCCTTTGTAAAAGATAAGGAGAGAGGTTCTATATTAGCCCATGAAAAGA
1 AGAGGTTTCTATCTTAGCCTTTGAAAAAGATAAGGAGAGAGGTTCTATCTTAGCCCGTGAAAAGA
5158 TAG
66 TAG
* * * * * * *
5161 GGAGGTTTCTACCTTAGCTTTTGAAAAAGATAGGGAGAAAGGTTCTATCTTAGACTGTGAAAAGA
1 AGAGGTTTCTATCTTAGCCTTTGAAAAAGATAAGGAGAGAGGTTCTATCTTAGCCCGTGAAAAGA
5226 TAG
66 TAG
*
5229 AGAGGTTTCTATCTTAGCCTTTGAAAAAGATAAGGACAGAGGTTCTATCTTAGCCCGTGAAAAGA
1 AGAGGTTTCTATCTTAGCCTTTGAAAAAGATAAGGAGAGAGGTTCTATCTTAGCCCGTGAAAAGA
5294 TA-
66 TAG
5296 ATGAGGTTTCTATCTTAGCC-TTGAAA
1 A-GAGGTTTCTATCTTAGCCTTTGAAA
5322 GATAGTGTTG
Statistics
Matches: 141, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
67 11 0.08
68 130 0.92
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (68 bp):
AGAGGTTTCTATCTTAGCCTTTGAAAAAGATAAGGAGAGAGGTTCTATCTTAGCCCGTGAAAAGA
TAG
Found at i:6943 original size:21 final size:21
Alignment explanation
Indices: 6919--6978 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
6909 GAACTAGAAG
6919 AGAAAATGAATGAGTTGGAAA
1 AGAAAATGAATGAGTTGGAAA
*
6940 AGAAAA-GAAAT-AGGTTGCAAA
1 AGAAAATG-AATGA-GTTGGAAA
6961 ATGAAAATG-ATGAGTTGG
1 A-GAAAATGAATGAGTTGG
6979 CTAATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
20 2 0.06
21 23 0.72
22 6 0.19
23 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.28, T:0.20
Consensus pattern (21 bp):
AGAAAATGAATGAGTTGGAAA
Found at i:9362 original size:79 final size:81
Alignment explanation
Indices: 9191--9596 Score: 340
Period size: 79 Copynumber: 5.2 Consensus size: 81
9181 AGATAAAAAA
* * * * * * *
9191 GGGTTGGAGTATCCCCACGAAAATAACGGGGTTGGAGTAT-CT-CGATTGTAAAAAAT-TAGTGT
1 GGGTTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCTCCGATTATAGAAAATCGAGTGT
** *
9253 TTTAAAAATAAAACTG
66 TTTGGAAATAAAACCG
*
9269 GGGTTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCTCC-CTTATAGAAAATCGA-TGT
1 GGGTTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCTCCGATTATAGAAAATCGAGTGT
9332 TTTGGAAATAAAACCG
66 TTTGGAAATAAAACCG
* * * ** *
9348 CGGTTGCAGTAT-CCCTCAAAAATAA-CACGGTTGG-GTATCC-CCGATGGTGGAAAATC-AGTG
1 GGGTTGGAGTATCCCCTCAAAAATAATGA-GGTTGGAGTATCCTCCGATTATAGAAAATCGAGTG
* *
9408 TTTTAGAAATAAAATCG
65 TTTTGGAAATAAAACCG
* * *
9425 GGGTTGGAGTATCCTCTCAAAAATAAT-AGGGTTAGAGTATCC-CCGATTAT-GAAAAATTG-GT
1 GGGTTGGAGTATCCCCTCAAAAATAATGA-GGTTGGAGTATCCTCCGATTATAG-AAAATCGAGT
*
9486 GTTTTGGAAATAAAACTG
64 GTTTTGGAAATAAAACCG
** * * * * * * * *
9504 GGGTTGGAGTATCCCCTTGAAAATAATGGGGCTAGAGTATCCT-TGATTATATAAAAT-TAATAT
1 GGGTTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCTCCGATTATAGAAAATCGAGTGT
* *
9567 TTTAGAAATAAAGCCG
66 TTTGGAAATAAAACCG
* *
9583 AGGTTAGAGTATCC
1 GGGTTGGAGTATCC
9597 TCGATGGTAG
Statistics
Matches: 267, Mismatches: 46, Indels: 29
0.78 0.13 0.08
Matches are distributed among these distances:
76 3 0.01
77 43 0.16
78 74 0.28
79 145 0.54
80 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (81 bp):
GGGTTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCTCCGATTATAGAAAATCGAGTGT
TTTGGAAATAAAACCG
Found at i:12654 original size:33 final size:34
Alignment explanation
Indices: 12592--12729 Score: 107
Period size: 34 Copynumber: 3.9 Consensus size: 34
12582 AAGGAAGAGG
*
12592 CATCCTGCTCTTTGAGGACAAAAGAAAAAGAGTA
1 CATCCTGCTCTTCGAGGACAAAAGAAAAAGAGTA
* * *
12626 CATCCTGCTCTTCGAGGATAAAGGAAAAGAGAATGA
1 CATCCTGCTCTTCGAGGACAAAAGAAAA-AGAGT-A
* * * *
12662 AATGGGTCTTACTCCTT-GAGGACAAAAGAAAAATGAATA
1 CA----TCCTGCT-CTTCGAGGACAAAAGAAAAA-GAGTA
* *
12701 CATCCTACTCTTTGAGGACAAAAGAAAAA
1 CATCCTGCTCTTCGAGGACAAAAGAAAAA
12730 CGAAAATAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
34 28 0.33
35 26 0.31
36 2 0.02
39 3 0.04
40 22 0.26
41 3 0.04
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (34 bp):
CATCCTGCTCTTCGAGGACAAAAGAAAAAGAGTA
Found at i:12655 original size:75 final size:75
Alignment explanation
Indices: 12570--12728 Score: 178
Period size: 75 Copynumber: 2.1 Consensus size: 75
12560 TGGACTTTAG
* * * * *
12570 AAAGGGAAAGAAAAGGAAGA-GGCATCCTGCTCTTTGAGGACAAAAGAAAAA-GAGTACATCCTG
1 AAAGGAAAAGAAAAGGAA-ATGG-ATCCTACTCCTTGAGGACAAAAGAAAAATGAATACATCCTA
*
12633 CTCTTCGAGGAT
64 CTCTTCGAGGAC
* * * *
12645 AAAGGAAAAGAGAATGAAATGGGTCTTACTCCTTGAGGACAAAAGAAAAATGAATACATCCTACT
1 AAAGGAAAAGAAAAGGAAATGGATCCTACTCCTTGAGGACAAAAGAAAAATGAATACATCCTACT
*
12710 CTTTGAGGAC
66 CTTCGAGGAC
*
12720 AAAAGAAAA
1 AAAGGAAAA
12729 ACGAAAATAA
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
74 25 0.36
75 45 0.64
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.18
Consensus pattern (75 bp):
AAAGGAAAAGAAAAGGAAATGGATCCTACTCCTTGAGGACAAAAGAAAAATGAATACATCCTACT
CTTCGAGGAC
Found at i:12729 original size:35 final size:34
Alignment explanation
Indices: 12592--12729 Score: 132
Period size: 35 Copynumber: 3.9 Consensus size: 34
12582 AAGGAAGAGG
* *
12592 CATCCTGCTCTTTGAGGACAAAAGAAAAAGAGTA
1 CATCCTACTCTTTGAGGACAAAAGAAAAAGAATA
* * * *
12626 CATCCTGCTCTTCGAGGATAAAGGAAAAGAGAATGA
1 CATCCTACTCTTTGAGGACAAAAGAAAA-AGAAT-A
* * *
12662 AATGGGTCTTACTCCTTGAGGACAAAAGAAAAATGAATA
1 CA----TCCTACTCTTTGAGGACAAAAGAAAAA-GAATA
12701 CATCCTACTCTTTGAGGACAAAAGAAAAA
1 CATCCTACTCTTTGAGGACAAAAGAAAAA
12730 CGAAAATAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
34 25 0.30
35 29 0.35
36 2 0.02
39 3 0.04
40 24 0.29
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (34 bp):
CATCCTACTCTTTGAGGACAAAAGAAAAAGAATA
Found at i:12867 original size:41 final size:41
Alignment explanation
Indices: 12703--13013 Score: 309
Period size: 41 Copynumber: 7.4 Consensus size: 41
12693 AATGAATACA
* * * * *
12703 TCCTACTCTTTGAGGACAAAAGAAAAACGAAAATAAAATGTG
1 TCCTACTCTTTGAGGACAAAGGGAAAA-GGAAATAAAGTGCG
* * * * *
12745 TCTTGCTCTTTGAGGATAAAGGAAAATAAGGAAATTAAA-TGTG
1 TCCTACTCTTTGAGGACAAAGG-GAA-AAGGAAA-TAAAGTGCG
* *
12788 TCATGCTCTTTGAGGACAAAGGAGAAAAGGAAATAAAGTGCG
1 TCCTACTCTTTGAGGACAAAGG-GAAAAGGAAATAAAGTGCG
* * * *
12830 TCCTACTCTTTAAAGACAAAGGGAAAAGGAAACAAAGTACG
1 TCCTACTCTTTGAGGACAAAGGGAAAAGGAAATAAAGTGCG
* * * *
12871 TCCTGCTTTTTGAGGACAAAGGGAAAAAGAAATGAAGTGCG
1 TCCTACTCTTTGAGGACAAAGGGAAAAGGAAATAAAGTGCG
* *
12912 TCCTACTCTTTTAGGACAAAGGGAAAAGGAAATAAAGTGCA
1 TCCTACTCTTTGAGGACAAAGGGAAAAGGAAATAAAGTGCG
* * *
12953 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAGTGCA
1 TCCTACTCTTTGAGGAC-AAAGGGAAAAG---GAAATAAAGTGCG
12998 TCCTACTCTTTGAGGA
1 TCCTACTCTTTGAGGA
13014 TTAAAAGGCA
Statistics
Matches: 228, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
41 104 0.46
42 57 0.25
43 34 0.15
44 6 0.03
45 27 0.12
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (41 bp):
TCCTACTCTTTGAGGACAAAGGGAAAAGGAAATAAAGTGCG
Found at i:13157 original size:61 final size:61
Alignment explanation
Indices: 12998--13635 Score: 625
Period size: 61 Copynumber: 10.4 Consensus size: 61
12988 ATGAAGTGCA
* * * ** *
12998 TCCTACTCTTTGAGGATTAAAAGGCACCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGAAAGT
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-G--AAA--AAAGC
13063 G
61 G
* **
13064 TCATGCTCTTTG-GGAACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGAAAAAAGCG
1 TCCTGCTCTTTGAGG-ACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGCG
* * * *
13125 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGTTTTGAAAG--GAAAGTG
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGCG
* * * * * *
13184 TCCTACTCTTTAAGGACTGGAAGGTACCACCAACTTGTGTAGGCTTTAAAA-AGAAAAGACG
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAG-CG
* * * *
13245 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTATATGGGCCTTAAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGCG
* * * * *
13306 TCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGCG
* *
13367 TCCTGCTCTTTGAGGACT-GAGAGATGCCACCAATTTGTGT-GGCTTTAAAA-AAGAAAAGACG
1 TCCTGCTCTTTGAGGACTAGA-AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAA-AAAAG-CG
* * * * *
13428 TCATGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTATAGGCTTTGAAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAAGCG
* * * **
13490 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATGTA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAAGCG
* * * * *
13552 TCCTACTCTTTGAGGACTA-AAGGGTACCACCAACTCGTGTAGGCTTTAAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGCG
* *
13613 TCTTACTCTTTGAGGACTA-AAGG
1 TCCTGCTCTTTGAGGACTAGAAGG
13636 GCTCCCATGG
Statistics
Matches: 490, Mismatches: 65, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
59 50 0.10
60 22 0.04
61 251 0.51
62 109 0.22
63 13 0.03
64 2 0.00
65 3 0.01
66 40 0.08
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGCG
Found at i:13636 original size:61 final size:60
Alignment explanation
Indices: 13067--13635 Score: 626
Period size: 61 Copynumber: 9.3 Consensus size: 60
13057 GAAAGTGTCA
** *
13067 TGCTCTTTG-GGAACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGAAAAAAGCGTCC
1 TGCTCTTTGAGG-ACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCC
* * * *
13128 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGTTTTGAAAG-GAAA-GTGTCC
1 TGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCC
* * * * * *
13187 TACTCTTTAAGGACTGGAAGGTACCACCAACTTGTGTAGGCTTTAAAA-AGAAAAGACGTCC
1 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA-AAAAGGCGTCC
* * *
13248 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATATGGGCCTTAAAAGAAAAAGGCGTCC
1 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCC
* * * *
13309 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCC
* * * * * *
13370 TGCTCTTTGAGGACTGAGAGATGCCACCAATTTGTGT-GGCTTTAAAAAAGAAAAGACGTCA
1 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA-AAAAGGCGTCC
* * *
13431 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTATAGGCTTTGAAAAGAAAAAGGCGTCC
1 TGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGCGTCC
* * **
13493 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATGTATCC
1 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGCGTCC
* * * * *
13555 TACTCTTTGAGGACTAAAGGGTACCACCAACTCGTGTAGGCTTTAAAAGAAAAAGGCGTCT
1 TGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCC
*
13616 TACTCTTTGAGGACTAAAGG
1 TGCTCTTTGAGGACTAAAGG
13636 GCTCCCATGG
Statistics
Matches: 436, Mismatches: 60, Indels: 25
0.84 0.12 0.05
Matches are distributed among these distances:
59 45 0.10
60 19 0.04
61 256 0.59
62 108 0.25
63 8 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (60 bp):
TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCC
Found at i:14952 original size:11 final size:11
Alignment explanation
Indices: 14904--14979 Score: 55
Period size: 12 Copynumber: 6.5 Consensus size: 11
14894 GTCGTTCCAC
*
14904 TTTTATTCATT
1 TTTTTTTCATT
*
14915 CTTTTTTTCTTT
1 -TTTTTTTCATT
*
14927 TGTTTTTTGATTT
1 T-TTTTTTCA-TT
14940 TTTTTTTCATT
1 TTTTTTTCATT
14951 TTTGTTTCTC-TT
1 TTT-TTT-TCATT
*
14963 TTGTTTCTCATT
1 TT-TTTTTCATT
14975 TTTTT
1 TTTTT
14980 GGCTTTTACC
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
11 11 0.21
12 35 0.67
13 6 0.12
ACGTcount: A:0.07, C:0.11, G:0.05, T:0.78
Consensus pattern (11 bp):
TTTTTTTCATT
Found at i:18036 original size:14 final size:14
Alignment explanation
Indices: 18017--18046 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18007 GATGTATCGA
18017 TACTATTTATGATG
1 TACTATTTATGATG
18031 TACTATTTATGATG
1 TACTATTTATGATG
18045 TA
1 TA
18047 TCGATACACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (14 bp):
TACTATTTATGATG
Found at i:18061 original size:13 final size:13
Alignment explanation
Indices: 18042--18080 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
18032 ACTATTTATG
18042 ATGTATCGATACA
1 ATGTATCGATACA
*
18055 CTGTATCGATACA
1 ATGTATCGATACA
18068 ATGTATCGATACA
1 ATGTATCGATACA
18081 TGAATAGTGA
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):
ATGTATCGATACA
Found at i:18191 original size:53 final size:53
Alignment explanation
Indices: 18124--18260 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
18114 CTACTTCCAA
18124 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
18177 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
18230 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
18261 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:18366 original size:21 final size:21
Alignment explanation
Indices: 18340--18380 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18330 GTCAACCTTG
18340 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
18361 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
18381 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:21274 original size:51 final size:51
Alignment explanation
Indices: 21193--21311 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
21183 TTAGAAATAA
*
21193 CGGGGTTGGAGTAT-CCCGATTATGAAAAATTGGTATTTTAAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAAAAATAAAAT
* * * *
21243 CGGGGTTAGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAAAAATAAAAT
*
21294 CGAGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
21312 TCAGAAAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
50 13 0.21
51 48 0.79
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAAAAATAAAAT
Found at i:21378 original size:77 final size:78
Alignment explanation
Indices: 21245--21559 Score: 377
Period size: 79 Copynumber: 4.0 Consensus size: 78
21235 AATAAAATCG
* * * * *
21245 GGGTTAGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATTGGGGTTGGAGTATCC
21310 CCTCAGAAAAT-A-
66 CCTC-GAAAATAAC
* *
21322 GGGTTAGG-GTATCCTCGA-TAGTGAAAAATCGATGTTTTTGAAATAAAATTGGGGTTGGAGTAT
1 GGGTT-GGAGTATCCCCGATTA-TGAAAAATCGATGTTTTAGAAATAAAATTGGGGTTGGAGTAT
*
21385 CCCCTTGAAAATAAC
64 CCCCTCGAAAATAAC
* * * *
21400 GGGGTTGGAGTATCTCCGATTGTGAAAAATCGATGTTTTTGAAATAAAACTGGGGTTGGAGTATC
1 -GGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATTGGGGTTGGAGTATC
* *
21465 CCTTCGGAAATAAC
65 CCCTCGAAAATAAC
* * *
21479 GAGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAGTTGGGGTTGGAGTATC
1 G-GGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATTGGGGTTGGAGTATC
** *
21544 TACTCAAAAATAAC
65 CCCTCGAAAATAAC
21558 GG
1 GG
21560 TGTAGACACT
Statistics
Matches: 203, Mismatches: 27, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
76 8 0.04
77 57 0.28
78 5 0.02
79 132 0.65
80 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATTGGGGTTGGAGTATCC
CCTCGAAAATAAC
Found at i:21457 original size:156 final size:158
Alignment explanation
Indices: 21243--21543 Score: 398
Period size: 156 Copynumber: 1.9 Consensus size: 158
21233 AAAATAAAAT
* *
21243 CGGGGTTAGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTAT
1 CGGGGTTAGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTAT
* * *
21308 CCCCTCAGAAAAT-A-G-GGTTAGG-GTATCCTCGA-TAGTGAAAAATCGATGTTTTTGAAATAA
66 CCCCTC-GAAAATAACGAGGTT-GGAGTATCCCCGATTA-TGAAAAATCGATATTTTAGAAATAA
21368 AATTGGGGTTGGAGTATCCCCTTGAAAATAA
128 AATTGGGGTTGGAGTATCCCCTTGAAAATAA
* * * * *
21399 CGGGGTTGGAGTATCTCCGATTGTGAAAAATCGATGTTTTTGAAATAAAA-CTGGGGTTGGAGTA
1 CGGGGTTAGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATC-GAGGTTGGAGTA
* * * *
21463 TCCCTTCGGAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAG
65 TCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTAGAAATAAAA
21528 TTGGGGTTGGAGTATC
130 TTGGGGTTGGAGTATC
21544 TACTCAAAAA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
155 6 0.05
156 62 0.50
157 3 0.02
158 52 0.42
159 2 0.02
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (158 bp):
CGGGGTTAGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAATCGAGGTTGGAGTAT
CCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTAGAAATAAAAT
TGGGGTTGGAGTATCCCCTTGAAAATAA
Found at i:21851 original size:13 final size:13
Alignment explanation
Indices: 21833--21857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21823 CATAAAGTGT
21833 TGTATCGATACAA
1 TGTATCGATACAA
21846 TGTATCGATACA
1 TGTATCGATACA
21858 TATTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:21873 original size:32 final size:33
Alignment explanation
Indices: 21813--21878 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
21803 TTCAACGATT
21813 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
** *
21846 TGTATCGATACAT-ATTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
21878 T
1 T
21879 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:21937 original size:13 final size:13
Alignment explanation
Indices: 21919--21943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21909 ATTACTAAAA
21919 TGTATCGATACAT
1 TGTATCGATACAT
21932 TGTATCGATACA
1 TGTATCGATACA
21944 CTGATCTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:28832 original size:10 final size:10
Alignment explanation
Indices: 28819--28882 Score: 74
Period size: 10 Copynumber: 6.1 Consensus size: 10
28809 AAAGTGATGA
28819 AAAAAAAAAC
1 AAAAAAAAAC
*
28829 AAAAAAACAC
1 AAAAAAAAAC
*
28839 AAAAAAAACAA
1 AAAAAAAA-AC
*
28850 AAAACAAAAAA
1 AAAA-AAAAAC
28861 ACAAAAAAAAC
1 A-AAAAAAAAC
28872 AAAAAAAAAC
1 AAAAAAAAAC
28882 A
1 A
28883 CAGAAAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
10 26 0.55
11 14 0.30
12 7 0.15
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:28834 original size:8 final size:8
Alignment explanation
Indices: 28821--28878 Score: 80
Period size: 8 Copynumber: 6.9 Consensus size: 8
28811 AGTGATGAAA
28821 AAAAAAAC
1 AAAAAAAC
28829 AAAAAAAC
1 AAAAAAAC
*
28837 ACAAAAAAA
1 A-AAAAAAC
28846 ACAAAAAAC
1 A-AAAAAAC
28855 AAAAAAAC
1 AAAAAAAC
28863 AAAAAAAAC
1 -AAAAAAAC
28872 AAAAAAA
1 AAAAAAA
28879 AACACAGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
8 23 0.50
9 23 0.50
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:28834 original size:9 final size:9
Alignment explanation
Indices: 28820--28879 Score: 90
Period size: 9 Copynumber: 6.9 Consensus size: 9
28810 AAGTGATGAA
28820 AAAAAAAAC
1 AAAAAAAAC
28829 AAAAAAACAC
1 AAAAAAA-AC
28839 AAAAAAAAC
1 AAAAAAAAC
28848 --AAAAAAC
1 AAAAAAAAC
28855 -AAAAAAAC
1 AAAAAAAAC
28863 AAAAAAAAC
1 AAAAAAAAC
28872 AAAAAAAA
1 AAAAAAAA
28880 ACACAGAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.15
8 7 0.15
9 25 0.52
10 9 0.19
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:28878 original size:26 final size:26
Alignment explanation
Indices: 28818--28882 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
28808 AAAAGTGATG
28818 AAAAAAAAAACAAAAAAACACAAAAA
1 AAAAAAAAAACAAAAAAACACAAAAA
* *
28844 AAACAAAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAACAAAAAAACACAAAAA
28870 ACAAAAAAAAACA
1 A-AAAAAAAAACA
28883 CAGAAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
26 25 0.71
27 10 0.29
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAACAAAAAAACACAAAAA
Found at i:28889 original size:10 final size:9
Alignment explanation
Indices: 28822--28890 Score: 79
Period size: 9 Copynumber: 7.7 Consensus size: 9
28812 GTGATGAAAA
28822 AAAAAACA-
1 AAAAAACAC
28830 AAAAAACAC
1 AAAAAACAC
*
28839 AAAAAAAAC
1 AAAAAACAC
28848 AAAAAACA-
1 AAAAAACAC
*
28856 AAAAAACAA
1 AAAAAACAC
*
28865 AAAAAACAAA
1 AAAAAAC-AC
28875 AAAAAACAC
1 AAAAAACAC
28884 AGAAAAA
1 A-AAAAA
28891 ATGTGCAAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
8 16 0.30
9 24 0.44
10 14 0.26
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (9 bp):
AAAAAACAC
Found at i:28891 original size:1 final size:1
Alignment explanation
Indices: 28818--28880 Score: 63
Period size: 1 Copynumber: 63.0 Consensus size: 1
28808 AAAAGTGATG
* * * * * * *
28818 AAAAAAAAAACAAAAAAACACAAAAAAAACAAAAAACAAAAAAACAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
28881 CACAGAAAAA
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:29157 original size:17 final size:16
Alignment explanation
Indices: 29132--29184 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 16
29122 TCTTTTCCAA
*
29132 AAAAAGAAACAAAACAG
1 AAAAGGAAACAAAA-AG
29149 AAAAGGAAA-AAAAAG
1 AAAAGGAAACAAAAAG
29164 --AA-GAAACAAAAA-
1 AAAAGGAAACAAAAAG
29176 AAAAGGAAA
1 AAAAGGAAA
29185 AACCCCTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
12 4 0.13
13 7 0.23
14 2 0.06
15 6 0.19
16 4 0.13
17 8 0.26
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAGGAAACAAAAAG
Found at i:29169 original size:29 final size:26
Alignment explanation
Indices: 29130--29186 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
29120 GTTCTTTTCC
29130 AAAAAAAGAAACAAAACAGAAAAGGAAA
1 AAAAAAAGAAACAAAA-A-AAAAGGAAA
29158 AAAAAGAAGAAACAAAAAAAAAGGAAA
1 AAAAA-AAGAAACAAAAAAAAAGGAAA
29185 AA
1 AA
29187 CCCCTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 11 0.39
28 6 0.21
29 11 0.39
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (26 bp):
AAAAAAAGAAACAAAAAAAAAGGAAA
Found at i:30322 original size:27 final size:27
Alignment explanation
Indices: 30252--30402 Score: 140
Period size: 27 Copynumber: 5.2 Consensus size: 27
30242 GCACCTTGTT
*
30252 CCTTTTAAGTCCACGACTCCGTGGCACC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
* *
30280 TTCCTTCTAAGTCCACAACTCTGTGGCAC
1 --CCTTTTAAGTCCACAACTCCGTGGCAC
* *
30309 CCTTTTAAGCCCACAACTCTGTGGCATTC
1 CCTTTTAAGTCCACAACTCCGTGGCA--C
*
30338 TTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
*
30370 CCTTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
30397 TCTTTT
1 CCTTTT
30403 TTCTTCTAAG
Statistics
Matches: 103, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
27 54 0.52
29 2 0.02
30 23 0.22
32 1 0.01
34 23 0.22
ACGTcount: A:0.19, C:0.36, G:0.14, T:0.31
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:30359 original size:61 final size:61
Alignment explanation
Indices: 30193--30701 Score: 386
Period size: 61 Copynumber: 7.9 Consensus size: 61
30183 GTCCTAAACT
* * * *
30193 CCACAACTCTGTGGCACTCTTTTTCCCTTTTTGAGTCCACAACTTCGTGGCACCTTGTTCCTTTT
1 CCACAACTCCGTGGCACTCTTTTT-CC-TTCTAAGTCCACAACTCCGTGGCA-C-----CCTTTT
*
30258 AAGT
58 AAGC
* *
30262 CCACGACTCCGTGGCAC-C---TTCCTTCTAAGTCCACAACTCTGTGGCACCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
* *
30319 CCACAACTCTGTGGCATTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
*
30380 CCACAACTCCGTGGCACTCTTTTTTCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAA
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC-----CTTTT--A
30445 AGC
59 AGC
* *
30448 CCATAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCTTTTT
1 CCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACAACTCCGTGGCACC-----C-TTTT
*
30513 AAGT
58 AAGC
* * * * *
30517 CCACGACTCCGTGGCAC-CTTCTT--TTCAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTTTT
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCA--------CCCTTTT
*
30579 AAAGT
58 -AAGC
* * * *
30584 CCACAACCCCGTGGCAC-CTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC--CTTTT--AAGC
* * *
30648 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTTCGTTGCACC
1 CCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACAACTCCGTGGCACC
30702 TTGTTCCTTT
Statistics
Matches: 369, Mismatches: 40, Indels: 64
0.78 0.08 0.14
Matches are distributed among these distances:
57 23 0.06
58 1 0.00
61 89 0.24
62 1 0.00
63 25 0.07
64 40 0.11
65 9 0.02
66 15 0.04
67 44 0.12
68 33 0.09
69 56 0.15
70 27 0.07
71 4 0.01
72 2 0.01
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.33
Consensus pattern (61 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGC
Found at i:30367 original size:34 final size:33
Alignment explanation
Indices: 30192--30737 Score: 484
Period size: 33 Copynumber: 16.7 Consensus size: 33
30182 TGTCCTAAAC
* *
30192 TCCACAACTCTGTGGCACTCTTTTTCCCTTTTTGAG
1 TCCACAACTCCGTGGCAC-CTTTTT-CC-TTTTAAG
* *
30228 TCCACAACTTCGTGGCACCTTGTTCCTTTTAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
* *
30261 TCCACGACTCCGTGGCACC---TTCCTTCTAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
*
30291 TCCACAACTCTGTGGCA-C-----CCTTTTAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
* * * *
30318 CCCACAACTCTGTGGCATTCTTTTTCCTTCTAAG
1 TCCACAACTCCGTGGCA-CCTTTTTCCTTTTAAG
30352 TCCACAACTCCGTGGCA-C-----CCTTTTAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
* * *
30379 CCCACAACTCCGTGGCACTCTTTTTTCTTCTAAG
1 TCCACAACTCCGTGGCAC-CTTTTTCCTTTTAAG
30413 TCCACAACTCCGTGGCACCTTTTT-CTTTTCAAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTT--AAG
* *
30447 CCCATAACTCCGTGGCACTCTTTTTCCCTTTTAAAG
1 TCCACAACTCCGTGGCAC-CTTTTT-CCTTTT-AAG
* *
30483 TCCACAACTCCGTGGCACCTTGTTCTTTTTAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
* * **
30516 TCCACGACTCCGTGGCACCTTCTT--TTCAAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
* *
30547 CCCACAACTTCGTGGCACTCTTTTTCCCTTTTAAAG
1 TCCACAACTCCGTGGCAC-CTTTTT-CCTTTT-AAG
* *
30583 TCCACAACCCCGTGGCACCTTGTTCCTTTTAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
* * **
30616 TCCACGACTCCGTGGCACCTTCTT--TTCAAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
*
30647 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAG
1 TCCACAACTCCGTGGCAC-CTTTTT-CCTTTT-AAG
* * *
30683 TCCACAACTTCGTTGCACCTTGTTCCTTTTAAG
1 TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
* *
30716 TCCACAACTTCGTGGCATCTTT
1 TCCACAACTCCGTGGCACCTTT
30738 CACCCTTTCT
Statistics
Matches: 424, Mismatches: 57, Indels: 61
0.78 0.11 0.11
Matches are distributed among these distances:
27 48 0.11
29 3 0.01
30 25 0.06
31 41 0.10
32 15 0.04
33 100 0.24
34 85 0.20
35 30 0.07
36 72 0.17
37 5 0.01
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.34
Consensus pattern (33 bp):
TCCACAACTCCGTGGCACCTTTTTCCTTTTAAG
Found at i:30573 original size:100 final size:100
Alignment explanation
Indices: 30369--30732 Score: 568
Period size: 100 Copynumber: 3.6 Consensus size: 100
30359 CTCCGTGGCA
* * * *
30369 CCCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTTCTTCTAAGTCCACAACTCCGTGGCACCT
1 CCCTTTTAAAGTCCACAACTCCGTGGCAC-CTTGTTCCTTTTAAGTCCACAACTCCGTGGCACC-
*
30433 TTTTCTTTTCAAAGCCCATAACTCCGTGGCACTCTTTTT
64 --TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
* *
30472 CCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCTTTTTAAGTCCACGACTCCGTGGCACCTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
*
30537 CTTTTCAAAGCCCACAACTTCGTGGCACTCTTTTT
66 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
* *
30572 CCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
30637 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
66 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
30672 CCCTTTTAAAGTCCACAACTTCGTTGCACCTTGTTCCTTTTAAGTCCACAACTTCGTGGCA
1 CCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
30733 TCTTTCACCC
Statistics
Matches: 244, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
100 188 0.77
103 36 0.15
104 20 0.08
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.34
Consensus pattern (100 bp):
CCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:30780 original size:33 final size:32
Alignment explanation
Indices: 30743--30901 Score: 219
Period size: 33 Copynumber: 4.9 Consensus size: 32
30733 TCTTTCACCC
30743 TTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACC-T
30776 TTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAA-CCT
* * *
30809 TCTCTAAAGCCCACACAAGTTGGTGGCAACCC
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACCT
**
30841 CCTCTAAAGCCCACACAAGTCGGTGGCAACCAT
1 TTTCTAAAGCCCACACAAGTCGGTGGCAACC-T
* * *
30874 CTTCAAAAGCCCACACAAGTTGGTGGCA
1 TTTCTAAAGCCCACACAAGTCGGTGGCA
30902 TCTTCTTTTA
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
32 31 0.27
33 82 0.71
34 2 0.02
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (32 bp):
TTTCTAAAGCCCACACAAGTCGGTGGCAACCT
Found at i:30858 original size:65 final size:66
Alignment explanation
Indices: 30739--30901 Score: 242
Period size: 65 Copynumber: 2.5 Consensus size: 66
30729 GGCATCTTTC
* ***
30739 ACCCTT-TCTAAAGCCCACACAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCTCCCTCTAAAGCCCACACAAGTCGGTGGC
30803 A
66 A
30804 ACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACC-CCCTCTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCTCCCTCTAAAGCCCACACAAGTCGGTGGC
30868 A
66 A
* *
30869 A-CCATCTTCAAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTC-TCTAAAGCCCACACAAGTTGGTGGCA
30902 TCTTCTTTTA
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
64 4 0.04
65 58 0.64
66 28 0.31
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (66 bp):
ACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCTCCCTCTAAAGCCCACACAAGTCGGTGGC
A
Found at i:30962 original size:49 final size:49
Alignment explanation
Indices: 30908--31572 Score: 844
Period size: 49 Copynumber: 14.3 Consensus size: 49
30898 GGCATCTTCT
* *
30908 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* *
30957 TTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* *
31000 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* *
31049 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C--CGTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * *
31095 ---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
*
31141 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* *
31184 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
31233 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-T--TC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * *
31279 ---AAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
*
31325 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* *
31368 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT-C
*
31418 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* *
31467 GTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
*
31510 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
31559 TTTAAGTCCAATAT
1 TTTAAGTCCAATAT
31573 CGCTAGCCGC
Statistics
Matches: 537, Mismatches: 42, Indels: 74
0.82 0.06 0.11
Matches are distributed among these distances:
43 226 0.42
44 2 0.00
45 4 0.01
46 10 0.02
47 4 0.01
48 2 0.00
49 241 0.45
50 48 0.09
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
Found at i:31019 original size:43 final size:44
Alignment explanation
Indices: 30908--31554 Score: 696
Period size: 43 Copynumber: 14.0 Consensus size: 44
30898 GGCATCTTCT
*
30908 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG---CATC--C
* *
30957 TTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCC
* *
31000 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC--C
*
31049 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCC
* * * *
31092 GTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC--C
*
31141 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCC
* *
31184 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC--C
31233 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCC
* * * * *
31276 TTCAAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC--C
*
31325 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCC
* *
31368 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG------CATCC
*
31418 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC--C
* *
31467 GTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCC
*
31510 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCC
31553 TT
1 TT
31555 CATCTTTAAG
Statistics
Matches: 516, Mismatches: 46, Indels: 78
0.81 0.07 0.12
Matches are distributed among these distances:
43 231 0.45
44 2 0.00
45 6 0.01
46 2 0.00
47 6 0.01
49 229 0.44
50 40 0.08
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (44 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCC
Found at i:31065 original size:92 final size:92
Alignment explanation
Indices: 30908--31554 Score: 1036
Period size: 92 Copynumber: 7.0 Consensus size: 92
30898 GGCATCTTCT
* * *
30908 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCTAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
30973 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
31000 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
31065 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
31092 GTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
31157 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
*
31184 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
31249 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
31276 TTCAAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
31341 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
*
31368 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCCTTTAAGTCCAATATA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT-CTTTAAGTCCAATGTA
*
31433 GCTGGCCTTGAATCAGCATATTGGCACCTTC
65 GCTGGCCTTGAATCAGCACATTGGCA-C--C
* * * *
31464 ATCGTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 -T--TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
31523 TCGCTGGCCTTGAATCAGCACATTGGCACC
63 TAGCTGGCCTTGAATCAGCACATTGGCACC
31553 TT
1 TT
31555 CATCTTTAAG
Statistics
Matches: 524, Mismatches: 24, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
86 1 0.00
88 1 0.00
89 1 0.00
91 1 0.00
92 439 0.84
93 40 0.08
94 1 0.00
95 1 0.00
96 1 0.00
97 1 0.00
99 37 0.07
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:31277 original size:21 final size:21
Alignment explanation
Indices: 31253--31320 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
31243 ATATAGCTGG
31253 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* ** *
31274 CCTTCAAGTCTAATATCGTTGG--
1 CCTTGAA-TC-AGCA-CATTGGCA
*
31296 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCACATTGGCA
31317 CCTT
1 CCTT
31321 CATCTTTAAG
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 2 0.06
21 12 0.36
22 8 0.24
23 2 0.06
24 5 0.15
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:31511 original size:21 final size:21
Alignment explanation
Indices: 31487--31554 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
31477 ATGTAGCTGG
31487 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
31508 CCTTTAAGTC--CA-ATATCGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
31530 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
31551 CCTT
1 CCTT
31555 CATCTTTAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:32307 original size:13 final size:13
Alignment explanation
Indices: 32289--32313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32279 CATAAAGTGT
32289 TGTATCGATACAA
1 TGTATCGATACAA
32302 TGTATCGATACA
1 TGTATCGATACA
32314 TATTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:32393 original size:13 final size:13
Alignment explanation
Indices: 32375--32399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32365 ATTACTAAAA
32375 TGTATCGATACAT
1 TGTATCGATACAT
32388 TGTATCGATACA
1 TGTATCGATACA
32400 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:32464 original size:52 final size:52
Alignment explanation
Indices: 32408--32532 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
32398 CACTGATCTT
*
32408 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
32460 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
32512 TGTATCAATACATGCAGGCAA
1 TGTATCGATACATGCAGGCAA
32533 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:37961 original size:290 final size:290
Alignment explanation
Indices: 37441--38026 Score: 929
Period size: 290 Copynumber: 2.0 Consensus size: 290
37431 AATTTTGGGA
* * ** * *
37441 GGTTTTTTGGTAGTGGTTTTGAAAGCTATGGGAATGGAGTTTTGAGATTAATGGAATAATGTTTT
1 GGTTTTTTAGTAGTGGTTTTGAAACCTACAGGAATGGAGTTTTGAGATTAAAGGAATAATATTTT
* * * *
37506 CTAAGTGTTTTTGGTTTTTTAGTTGCTGAAGGATTCTCTAAGGGTTTCTCTGCTGCTGGAACTTT
66 CTAAGTGTTTTCGGTTTTTTAGTTGCTAAAGGATTCTCTAAGGGTTTCTCTACTGCTCGAACTTT
* * * *
37571 ATTTTTTTGCCAAAAAAGATCCTCTTTCCTAGGCCAATAGCCCCTATTTATCATCATGCTCAGCC
131 ATTTTTTTGCCAAAAAAGATCCTCTCTCCTAAGCCAACAGCCCCTATTTATCATCATGCTCAACC
* *
37636 AATAGGATTAAAGGACAAACCAAGGGCATTGTGGGGATTTTCCTTTGCACAAGGAGACAACCACT
196 AATAGGATTAAAGGACAAACCAAAGGCATTGTGGGGATTTTCCTTTGCACAAGAAGACAACCACT
*
37701 CACCAACTCAGTCTGCCCTTCATTACCATT
261 CACCAACTCAGTCTGCCATTCATTACCATT
* *
37731 GGTTTTTTAGTAGTGGTTTTGGAACCTACAGGAATGGAGTTTTGAGATTAAAGGAATAGTATTTT
1 GGTTTTTTAGTAGTGGTTTTGAAACCTACAGGAATGGAGTTTTGAGATTAAAGGAATAATATTTT
*
37796 CTAAGTGTTTTCGGTTTTTTGGTTGCTAAAGGATTCTCTAAGGGTTTCTCTACTGCTCGAACTTT
66 CTAAGTGTTTTCGGTTTTTTAGTTGCTAAAGGATTCTCTAAGGGTTTCTCTACTGCTCGAACTTT
* * *
37861 GTTTTTTTGCCAAAAAAGATCCTCTCTCCTAAGCCAACGGCCTCTATTTATCATCATGCTCAACC
131 ATTTTTTTGCCAAAAAAGATCCTCTCTCCTAAGCCAACAGCCCCTATTTATCATCATGCTCAACC
*
37926 AATAGGATTAAGGGACAAACCAAAGGCATTGTGGGGATTTTCCTTTGCACAAGAAGACAACCACT
196 AATAGGATTAAAGGACAAACCAAAGGCATTGTGGGGATTTTCCTTTGCACAAGAAGACAACCACT
* * *
37991 CACCAGCTTAGTCTGCCATTCATTGCCATT
261 CACCAACTCAGTCTGCCATTCATTACCATT
38021 GGTTTT
1 GGTTTT
38027 GCCATACAAT
Statistics
Matches: 269, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
290 269 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (290 bp):
GGTTTTTTAGTAGTGGTTTTGAAACCTACAGGAATGGAGTTTTGAGATTAAAGGAATAATATTTT
CTAAGTGTTTTCGGTTTTTTAGTTGCTAAAGGATTCTCTAAGGGTTTCTCTACTGCTCGAACTTT
ATTTTTTTGCCAAAAAAGATCCTCTCTCCTAAGCCAACAGCCCCTATTTATCATCATGCTCAACC
AATAGGATTAAAGGACAAACCAAAGGCATTGTGGGGATTTTCCTTTGCACAAGAAGACAACCACT
CACCAACTCAGTCTGCCATTCATTACCATT
Found at i:38336 original size:50 final size:50
Alignment explanation
Indices: 38280--38414 Score: 139
Period size: 50 Copynumber: 2.7 Consensus size: 50
38270 AAAAATGCCT
* * * * *
38280 GAATGTATCGATACATTGAGA-AATGTATCGAA-ACATTTGGGTGAATCCCA
1 GAATGTATCGATACAATGA-ATAATGTATC-AATACATCTGAGTAAAACCCA
*
38330 TAATGTATCGATACAATGAATAATGTATCAATACATCTGAGTAAAACCCA
1 GAATGTATCGATACAATGAATAATGTATCAATACATCTGAGTAAAACCCA
* * * * *
38380 GAATGTATTGATACAATAAAGAATATATCGATACA
1 GAATGTATCGATACAATGAATAATGTATCAATACA
38415 AATTGTGAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
49 3 0.04
50 68 0.96
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.28
Consensus pattern (50 bp):
GAATGTATCGATACAATGAATAATGTATCAATACATCTGAGTAAAACCCA
Found at i:38737 original size:13 final size:13
Alignment explanation
Indices: 38719--38759 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
38709 ACAAAAAAAT
38719 TTATATCGATACA
1 TTATATCGATACA
*
38732 TTATATTGATACA
1 TTATATCGATACA
* *
38745 ATGTATCGATACA
1 TTATATCGATACA
38758 TT
1 TT
38760 GCTTCAGTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (13 bp):
TTATATCGATACA
Found at i:39645 original size:13 final size:13
Alignment explanation
Indices: 39627--39652 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39617 CAATTTTTTG
39627 TGTATCGATACAT
1 TGTATCGATACAT
39640 TGTATCGATACAT
1 TGTATCGATACAT
39653 ACTTGCTGTA
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):
TGTATCGATACAT
Found at i:39717 original size:21 final size:20
Alignment explanation
Indices: 39691--39767 Score: 91
Period size: 21 Copynumber: 3.8 Consensus size: 20
39681 CTGCCAAGAA
39691 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACAT-TTTTTT
*****
39712 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTTTTTT
39732 ATGTATCGATACATTTTTTT
1 ATGTATCGATACATTTTTTT
39752 CATGTATCGATACATT
1 -ATGTATCGATACATT
39768 GCAACATGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTT
Found at i:39737 original size:20 final size:20
Alignment explanation
Indices: 39712--39784 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
39702 CATCTTTTTT
39712 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
39732 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
39753 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
39773 ATGTATCGATAC
1 ATGTATCGATAC
39785 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:39751 original size:41 final size:41
Alignment explanation
Indices: 39691--39784 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
39681 CTGCCAAGAA
*
39691 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
39732 ATGTATCGATACATTTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
39773 ATGTATCGATAC
1 ATGTATCGATAC
39785 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:42248 original size:13 final size:13
Alignment explanation
Indices: 42230--42268 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
42220 ATAATCACCC
*
42230 TGTATCGATACAG
1 TGTATCGATACAA
42243 TGTATCGATACAA
1 TGTATCGATACAA
42256 TGTATCGATACAA
1 TGTATCGATACAA
42269 GGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:44368 original size:15 final size:15
Alignment explanation
Indices: 44348--44378 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44338 ATTTCGTTTG
*
44348 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
44363 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
44378 G
1 G
44379 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:48457 original size:13 final size:13
Alignment explanation
Indices: 48439--48464 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48429 CAATTTTTTG
48439 TGTATCGATACAT
1 TGTATCGATACAT
48452 TGTATCGATACAT
1 TGTATCGATACAT
48465 ACTTGCTGTA
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):
TGTATCGATACAT
Found at i:48529 original size:21 final size:20
Alignment explanation
Indices: 48503--48579 Score: 91
Period size: 21 Copynumber: 3.8 Consensus size: 20
48493 CTGCCAAGAA
48503 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACAT-TTTTTT
*****
48524 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTTTTTT
48544 ATGTATCGATACATTTTTTT
1 ATGTATCGATACATTTTTTT
48564 CATGTATCGATACATT
1 -ATGTATCGATACATT
48580 GCAACATGTA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTT
Found at i:48549 original size:20 final size:20
Alignment explanation
Indices: 48524--48596 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
48514 CATCTTTTTT
48524 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
48544 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
48565 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
48585 ATGTATCGATAC
1 ATGTATCGATAC
48597 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:48563 original size:41 final size:41
Alignment explanation
Indices: 48503--48596 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
48493 CTGCCAAGAA
*
48503 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
48544 ATGTATCGATACATTTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
48585 ATGTATCGATAC
1 ATGTATCGATAC
48597 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:49540 original size:66 final size:66
Alignment explanation
Indices: 49465--49614 Score: 257
Period size: 66 Copynumber: 2.3 Consensus size: 66
49455 TTCTTAAATA
*
49465 TTTTTATTTTCATGAATGATTAATAAATTCATG-TTTTCATGAAATTATGTTCTTACATGGTTTA
1 TTTTTATTTTCATGAATAATTAATAAATTCATGCTTTT-ATGAAATTATGTTCTTACATGGTTTA
49529 AT
65 AT
*
49531 TTTTTATTTTCATGACTAATTAATAAATTCATGCTTTTATGAAATTATGTTCTTACATGGTTTAA
1 TTTTTATTTTCATGAATAATTAATAAATTCATGCTTTTATGAAATTATGTTCTTACATGGTTTAA
49596 T
66 T
*
49597 ATTTTATTTTCATGAATA
1 TTTTTATTTTCATGAATA
49615 CTTGATTGAA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
66 75 0.95
67 4 0.05
ACGTcount: A:0.31, C:0.08, G:0.09, T:0.52
Consensus pattern (66 bp):
TTTTTATTTTCATGAATAATTAATAAATTCATGCTTTTATGAAATTATGTTCTTACATGGTTTAA
T
Found at i:49822 original size:21 final size:21
Alignment explanation
Indices: 49780--49818 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49770 GAGTTTGCAT
49780 AAAATTCGTATTATAGGGGAG
1 AAAATTCGTATTATAGGGGAG
*
49801 AAAATTTGTATTA-AGGGG
1 AAAATTCGTATTATAGGGG
49819 GAGAGCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (21 bp):
AAAATTCGTATTATAGGGGAG
Found at i:50610 original size:20 final size:21
Alignment explanation
Indices: 50571--50614 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
50561 TTAAGTATAG
50571 ATGTTTTTCAAGCATAAAAATA
1 ATGTTTTTCAAG-ATAAAAATA
50593 ATGTTTTTCAAG-TAAAAATA
1 ATGTTTTTCAAGATAAAAATA
50613 AT
1 AT
50615 CTGAAGTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (21 bp):
ATGTTTTTCAAGATAAAAATA
Found at i:50749 original size:13 final size:13
Alignment explanation
Indices: 50731--50755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50721 ATATTGCTTA
50731 GTATCGATACATT
1 GTATCGATACATT
50744 GTATCGATACAT
1 GTATCGATACAT
50756 GTTCTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:50768 original size:32 final size:33
Alignment explanation
Indices: 50710--50773 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
50700 CACACCCAGA
50710 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
*
50743 TGTATCGATACATGTT-CTTAGTATCGATACA
1 TGTATCGATACATATTGCTTAGTATCGATACA
50774 CAGTGAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCGATACAT
Found at i:51339 original size:36 final size:34
Alignment explanation
Indices: 51290--51522 Score: 207
Period size: 36 Copynumber: 6.9 Consensus size: 34
51280 TCAATTGATT
51290 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAAGGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGAT-AGGA
* *
51326 GAGAGGTTTTATCTTAGCCTGTGAAAAGATA--A
1 GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGGA
* *
51358 G-GAGTTTTGTATCTTAGCCTTTGCAAAAGATAGAGA
1 GAGAG-GTTCTATCTTAGCCTTTG-AAAAGATAG-GA
*
51394 GAAAGGTTCTATCTTAG-CTTGTGAAAAGATAGG-
1 GAGAGGTTCTATCTTAGCCTT-TGAAAAGATAGGA
* * * *
51427 GAG-GTTTTTATGTTAGCCTTTGAAAAAGATAGAGG
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAG-GA
**
51462 GAGAGGTTCTATCTTAGCCCATGAAAAGATAGG-
1 GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGGA
* *
51495 GAG-GTTTCTATCGTAG-CTTTG-AAAGATA
1 GAGAGGTTCTATCTTAGCCTTTGAAAAGATA
51523 ATGTTGTAAG
Statistics
Matches: 164, Mismatches: 21, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
30 7 0.04
31 6 0.04
32 40 0.24
33 25 0.15
34 4 0.02
35 31 0.19
36 49 0.30
37 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (34 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGGA
Found at i:51408 original size:68 final size:67
Alignment explanation
Indices: 51299--51518 Score: 291
Period size: 68 Copynumber: 3.3 Consensus size: 67
51289 TGAGAGGTTC
* *
51299 TATCTTAGCCTTTGAAAAAGATA-AGGAGAGAGGTTTTATCTTAGCCTGTGAAAAGATAAGGAGT
1 TATCTTAGCCTTTGAAAAAGATAGA-GAGAGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGAGT
51363 TTT
65 TTT
* * *
51366 GTATCTTAGCCTTTGCAAAAGATAGAGAGAAAGGTTCTATCTTAGCTTGTGAAAAGATAGGGAGG
1 -TATCTTAGCCTTTGAAAAAGATAGAGAGAGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGA-G
51431 TTTT
64 TTTT
* * **
51435 TATGTTAGCCTTTGAAAAAGATAGAGGGAGAGGTTCTATCTTAGCCCATGAAAAGATAGGGAGGT
1 TATCTTAGCCTTTGAAAAAGATAGAGAGAGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGA-GT
*
51500 TTC
65 TTT
*
51503 TATCGTAG-CTTTGAAA
1 TATCTTAGCCTTTGAAA
51519 GATAATGTTG
Statistics
Matches: 135, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
67 8 0.06
68 121 0.90
69 6 0.04
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (67 bp):
TATCTTAGCCTTTGAAAAAGATAGAGAGAGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGAGTT
TT
Found at i:55141 original size:20 final size:20
Alignment explanation
Indices: 55116--55153 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
55106 TCCCGTGTGA
55116 ATGTATCGATACACATTTTG
1 ATGTATCGATACACATTTTG
*
55136 ATGTATCGATACATATTT
1 ATGTATCGATACACATTT
55154 GAAAATATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACACATTTTG
Found at i:55225 original size:13 final size:13
Alignment explanation
Indices: 55207--55232 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55197 CAATTTTTTG
55207 TGTATCGATACAT
1 TGTATCGATACAT
55220 TGTATCGATACAT
1 TGTATCGATACAT
55233 ACTTTGTGTA
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):
TGTATCGATACAT
Found at i:55851 original size:23 final size:23
Alignment explanation
Indices: 55819--55877 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
55809 TTTCACTGTT
55819 CATCACTGTTCATG-TATCAAATA
1 CATCACTGTTCATGTTATC-AATA
*
55842 CGTCACTGTTCATGTTATCAATA
1 CATCACTGTTCATGTTATCAATA
*
55865 CATCACTATTCAT
1 CATCACTGTTCAT
55878 CACTAACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 28 0.88
24 4 0.12
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (23 bp):
CATCACTGTTCATGTTATCAATA
Found at i:56839 original size:17 final size:17
Alignment explanation
Indices: 56813--56846 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56803 TTTATATTTT
*
56813 TTATAATTATTAGATAA
1 TTATAATTATGAGATAA
*
56830 TTATATTTATGAGATAA
1 TTATAATTATGAGATAA
56847 ATTGCACAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (17 bp):
TTATAATTATGAGATAA
Done.