Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168173.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_411, whole genome shotgun sequence
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: 27972
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Found at i:1736 original size:16 final size:15
Alignment explanation
Indices: 1690--1737 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 15
1680 GCTTCTCTAA
*
1690 ATTTTTTGTAATTTT
1 ATTTTTTTTAATTTT
1705 ATTTTTTTCTAAATTTT
1 ATTTTTTT-T-AATTTT
*
1722 CATTTTTTTTTATTTT
1 -ATTTTTTTTAATTTT
1738 TTCTGTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 7 0.25
16 6 0.21
17 7 0.25
18 8 0.29
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (15 bp):
ATTTTTTTTAATTTT
Found at i:1738 original size:17 final size:16
Alignment explanation
Indices: 1691--1737 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1681 CTTCTCTAAA
*
1691 TTTTTTGTAATTTTAT
1 TTTTTTTTAATTTTAT
*
1707 TTTTTTCTAAATTTTCAT
1 TTTTTT-TTAATTTT-AT
1725 TTTTTTTT-ATTTT
1 TTTTTTTTAATTTT
1738 TTCTGTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 11 0.42
17 7 0.27
18 8 0.31
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTTTTTAATTTTAT
Found at i:5100 original size:10 final size:10
Alignment explanation
Indices: 5085--5111 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
5075 ACCGACTTCG
5085 TATATATATT
1 TATATATATT
5095 TATATATATT
1 TATATATATT
5105 TATATAT
1 TATATAT
5112 TAGTCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TATATATATT
Found at i:12115 original size:11 final size:11
Alignment explanation
Indices: 12081--12108 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
12071 TTTCTCTAAA
12081 TTTTTTGTAAT
1 TTTTTTGTAAT
12092 TTTTTTGTAAT
1 TTTTTTGTAAT
12103 TTTTTT
1 TTTTTT
12109 TTCATTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (11 bp):
TTTTTTGTAAT
Found at i:12904 original size:30 final size:30
Alignment explanation
Indices: 12870--12937 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
12860 CTATTTCAAA
* *
12870 TCAATTAAACCTTTACATATATTTTTTCAC
1 TCAATTAAACCTTTACACATATGTTTTCAC
* * * *
12900 TCAATTAAACTTTTATACATCTGTTTTCAT
1 TCAATTAAACCTTTACACATATGTTTTCAC
12930 TCAATTAA
1 TCAATTAA
12938 GCTCTTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.18, G:0.01, T:0.47
Consensus pattern (30 bp):
TCAATTAAACCTTTACACATATGTTTTCAC
Found at i:14911 original size:16 final size:18
Alignment explanation
Indices: 14874--14911 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
14864 TTTTTCTTCT
*
14874 TTATATTTTTATGTATTT
1 TTATATTTTTATGTATTA
14892 TTATA-TTTTAT-TATTA
1 TTATATTTTTATGTATTA
14908 TTAT
1 TTAT
14912 GTATTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTATATTTTTATGTATTA
Found at i:15514 original size:31 final size:31
Alignment explanation
Indices: 15447--15519 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
15437 AATTTCCAGA
* * *
15447 TTCCGACGAAAATTCCGGCGACTTTTGAATT
1 TTCCGGCGACAATTCCGGCGACTTTTGAAGT
15478 TTCCGGCGACAATTCCGGCGAAC-TTTGAAGT
1 TTCCGGCGACAATTCCGGCG-ACTTTTGAAGT
15509 TTCCGGCGACA
1 TTCCGGCGACA
15520 GACCCAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 36 0.95
32 2 0.05
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (31 bp):
TTCCGGCGACAATTCCGGCGACTTTTGAAGT
Found at i:15608 original size:19 final size:20
Alignment explanation
Indices: 15579--15618 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
15569 CTTCCGGCCA
15579 ATTTCCGGCGAAATTCCCAG
1 ATTTCCGGCGAAATTCCCAG
*
15599 ATTT-CGGCGAAATTTCCAG
1 ATTTCCGGCGAAATTCCCAG
15618 A
1 A
15619 ATCCGGCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (20 bp):
ATTTCCGGCGAAATTCCCAG
Found at i:15625 original size:19 final size:19
Alignment explanation
Indices: 15582--15625 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
15572 CCGGCCAATT
*
15582 TCCGGCGAAATTCCCAGAT
1 TCCGGCGAAATTCCCAGAA
* *
15601 TTCGGCGAAATTTCCAGAA
1 TCCGGCGAAATTCCCAGAA
15620 TCCGGC
1 TCCGGC
15626 ACCGGCGTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (19 bp):
TCCGGCGAAATTCCCAGAA
Found at i:15853 original size:5 final size:5
Alignment explanation
Indices: 15843--15880 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
15833 TTCAGCCCCT
* *
15843 CCGAG CCGAG CCGAG CCGAG CCGAA CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCG
15881 CGATCCGAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.24, C:0.42, G:0.34, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:15930 original size:15 final size:14
Alignment explanation
Indices: 15900--15940 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
15890 CCGCTCCAGG
15900 TTTTTTTTTTTT--
1 TTTTTTTTTTTTGA
15912 TTTTTTTTTTTTGAA
1 TTTTTTTTTTTTG-A
*
15927 TTTTTTTTATTTGA
1 TTTTTTTTTTTTGA
15941 CTTTGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 12 0.48
14 1 0.04
15 12 0.48
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTTTTGA
Found at i:16138 original size:160 final size:153
Alignment explanation
Indices: 15972--16575 Score: 973
Period size: 151 Copynumber: 3.9 Consensus size: 153
15962 TTTTTTCTTT
* *
15972 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATAC
16037 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
65 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
* * *
16102 TGATAATTAATTACTTGGCTGATTTTGA
130 ---CAA-TAATTAATTGGATGATTTTGA
*
16130 TTTTTTTTCTTTAATTAATCCGACGATGGAGCCTCTGCAAGTGAAACAGTAGTTTTTTCTTGCAT
1 --TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAG-TTTTTCTTGCAT
* *
16195 ACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAATT
63 ACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
16260 TCCAATAATTAATT-GATGATTTTGA
128 TCCAATAATTAATTGGATGATTTTGA
16285 -TTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
* *
16349 CTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAA-TTCC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
16413 AATAATTAATTGGATGATTTTG-
131 AATAATTAATTGGATGATTTTGA
* *
16435 TTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
*
16500 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATCATTTCC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
* *
16565 AACAACTAATT
131 AATAATTAATT
16576 ACTTGGTAAA
Statistics
Matches: 424, Mismatches: 16, Indels: 16
0.93 0.04 0.04
Matches are distributed among these distances:
150 15 0.04
151 204 0.48
152 61 0.14
155 10 0.02
156 8 0.02
157 2 0.00
159 9 0.02
160 115 0.27
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (153 bp):
TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
AATAATTAATTGGATGATTTTGA
Found at i:21629 original size:42 final size:42
Alignment explanation
Indices: 21484--22051 Score: 699
Period size: 42 Copynumber: 14.0 Consensus size: 42
21474 GTCAAGGAGT
* *
21484 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
* *
21525 ATTTA--ATTCC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTATCTTTCCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCA
* *
21563 ATTTAACTTTTCAAAGTCGT-GTGCCCTCTG-TGAGAGGAGCA
1 ATTTATCTTTCCAAAGTCGTGGTG-CCTCTGTTGAGAGGAGCA
*
21604 ATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
*
21646 ATTTATTTTTCCAAAAGTCGTGGTGCCTCTGTTGAGAGGAGC-
1 ATTTATCTTTCC-AAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
21688 ATTTATCTTTCCCAAAGTCGTGGTG-CTCTGTTGAGAGGAGCA
1 ATTTATCTTT-CCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
* *
21730 ATTTTTTTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 A-TTTATCTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
*
21773 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
21815 ATTTTAT-TTT-CAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 A-TTTATCTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
*
21856 ATTTA-CTTTCCAAAGTCGT-GT-ACTCTG-TGAGAGGAGCA
1 ATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
*
21894 ATTTA-CTTTCC-AAGTCCT--TG-CTCT-TT-AGAGGAGCA
1 ATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
21929 ATTTA-CTTT-CAAAGTCCGT--TGCCGTTCTGTTGAGAGGAGCA
1 ATTTATCTTTCCAAAGT-CGTGGTGCC--TCTGTTGAGAGGAGCA
*
21970 ATTT-TACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTAT-CTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
* *
22012 ATTTATCTTTCCAAAGTCGTGTTG-CTCTGTTTAGAGGAGC
1 ATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGC
22052 TTCGGCAAAA
Statistics
Matches: 476, Mismatches: 20, Indels: 62
0.85 0.04 0.11
Matches are distributed among these distances:
34 1 0.00
35 22 0.05
36 10 0.02
37 7 0.01
38 47 0.10
39 11 0.02
40 25 0.05
41 129 0.27
42 153 0.32
43 67 0.14
44 4 0.01
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (42 bp):
ATTTATCTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
Found at i:22079 original size:16 final size:16
Alignment explanation
Indices: 22058--22131 Score: 98
Period size: 15 Copynumber: 4.7 Consensus size: 16
22048 GAGCTTCGGC
22058 AAAAAAAAAAAAACAA
1 AAAAAAAAAAAAACAA
*
22074 AAAAAAACAAAAAC-A
1 AAAAAAAAAAAAACAA
*
22089 AAAAAAAACAAAA-AA
1 AAAAAAAAAAAAACAA
*
22104 AAAAACAAAAAAACAA
1 AAAAAAAAAAAAACAA
22120 AAAAACAAAAAA
1 AAAAA-AAAAAA
22132 TTTTAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
15 24 0.49
16 20 0.41
17 5 0.10
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAACAA
Found at i:22103 original size:28 final size:27
Alignment explanation
Indices: 22058--22131 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 27
22048 GAGCTTCGGC
22058 AAAAAAAAAAAAAC--AAAAAAAAACA
1 AAAAAAAAAAAAACAAAAAAAAAAACA
22083 AAAACAAAAAAAAACAAAAAAAAAAACA
1 AAAA-AAAAAAAAACAAAAAAAAAAACA
22111 AAAAAACAAAAAAACAAAAAA
1 AAAAAA-AAAAAAACAAAAAA
22132 TTTTAAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
25 4 0.09
26 10 0.22
27 2 0.04
28 29 0.64
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (27 bp):
AAAAAAAAAAAAACAAAAAAAAAAACA
Found at i:22145 original size:1 final size:1
Alignment explanation
Indices: 22058--22131 Score: 85
Period size: 1 Copynumber: 74.0 Consensus size: 1
22048 GAGCTTCGGC
* * * * * *
22058 AAAAAAAAAAAAACAAAAAAAAACAAAAACAAAAAAAAACAAAAAAAAAAACAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
22123 AACAAAAAA
1 AAAAAAAAA
22132 TTTTAAAAAA
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22151 original size:8 final size:8
Alignment explanation
Indices: 22058--22131 Score: 102
Period size: 8 Copynumber: 9.6 Consensus size: 8
22048 GAGCTTCGGC
22058 AAAAAA-A
1 AAAAAACA
22065 AAAAAACA
1 AAAAAACA
22073 AAAAAA-A
1 AAAAAACA
22080 ACAAAAACA
1 A-AAAAACA
22089 AAAAAA-A
1 AAAAAACA
*
22096 ACAAAA-A
1 AAAAAACA
22103 AAAAAACA
1 AAAAAACA
22111 AAAAAACA
1 AAAAAACA
22119 AAAAAACA
1 AAAAAACA
22127 AAAAA
1 AAAAA
22132 TTTTAAAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
7 20 0.33
8 39 0.64
9 2 0.03
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:22480 original size:3 final size:3
Alignment explanation
Indices: 22467--22503 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
22457 TGGGTTTATC
22467 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22504 TTTAATTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:22986 original size:31 final size:32
Alignment explanation
Indices: 22930--23001 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
22920 TTTCCAGATT
* *
22930 CCGGCGAAAATTCCGGCGACTTTTGAA-TTTT
1 CCGGCGACAATTCCGGCGACTTTTGAAGTTTC
*
22961 TCGGCGACAATTCCGGCGAAC-TTTGAAGTTTC
1 CCGGCGACAATTCCGGCG-ACTTTTGAAGTTTC
22993 CCGGCGACA
1 CCGGCGACA
23002 GACCCAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.63
32 13 0.37
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (32 bp):
CCGGCGACAATTCCGGCGACTTTTGAAGTTTC
Found at i:23076 original size:18 final size:19
Alignment explanation
Indices: 23053--23096 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
23043 CCGGCCAACT
23053 TTCCGGCG-AATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
*
23071 TTCCGGCGAAATTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
23090 ATCCGGC
1 TTCCGGC
23097 ACCGGCGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.23
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:23325 original size:5 final size:5
Alignment explanation
Indices: 23315--23357 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
23305 TTCAGCCCCT
* *
23315 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAA CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCG
23358 CGATCCGAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.23, C:0.42, G:0.35, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:23409 original size:15 final size:15
Alignment explanation
Indices: 23377--23419 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23367 CCGCTCCAGG
**
23377 TTTTTTTTTTTT-TT
1 TTTTTTTTTTTTGAA
23391 TTTTTTTTTTTTGAA
1 TTTTTTTTTTTTGAA
*
23406 TTTTTTTTATTTGA
1 TTTTTTTTTTTTGA
23420 CTTTGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.09, C:0.00, G:0.05, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTTTGAA
Found at i:23413 original size:1 final size:1
Alignment explanation
Indices: 23377--23402 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
23367 CCGCTCCAGG
23377 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
23403 GAATTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:23890 original size:153 final size:153
Alignment explanation
Indices: 23444--23893 Score: 708
Period size: 153 Copynumber: 2.9 Consensus size: 153
23434 TTGATTTTTT
* *
23444 TTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
23509 ATACTCTTGAGGTGAGGGAATTTTCTCAA-TTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
* * *
23573 TTTTCGATAATTAATTACTTGGCTGA
131 -TTTC--CAATTAATTAATTGGATGA
23599 TTTTGATTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTT
1 TTTTG----TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAG-TTTTT
*
23664 CTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAG
61 CTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAG
23729 AATAATTTCCAA-TAATTAATTGGATGA
126 AATAATTTCCAATTAATTAATTGGATGA
*
23756 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCC-CTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
*
23820 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCCTGCTAAAAGTAATTAGAGTCAATTGAGAAT
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTT-CTGCTAAAAGT-ATTAGAGTCAATTGAGAAT
*
23885 CATTTCCAA
129 AATTTCCAA
23894 ACAACTAATT
Statistics
Matches: 277, Mismatches: 10, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
151 42 0.15
152 29 0.10
153 56 0.20
155 4 0.01
157 18 0.06
158 2 0.01
159 49 0.18
160 43 0.16
161 34 0.12
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (153 bp):
TTTTGTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
TTTCCAATTAATTAATTGGATGA
Done.