Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01009378.1 Corchorus capsularis cultivar CVL-1 contig09399, 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: 46763
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:16046 original size:22 final size:22
Alignment explanation
Indices: 16018--16077 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
16008 TTCTTCATAG
* *
16018 TACAACTCTCCAATTTACGATC
1 TACAACTCTCCAATTCAAGATC
*
16040 TACAACTCTCCAGTTCAAGATC
1 TACAACTCTCCAATTCAAGATC
*
16062 TACAACTTTCCAATTC
1 TACAACTCTCCAATTC
16078 GTTACCTTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (22 bp):
TACAACTCTCCAATTCAAGATC
Found at i:21851 original size:22 final size:22
Alignment explanation
Indices: 21826--22318 Score: 171
Period size: 22 Copynumber: 22.6 Consensus size: 22
21816 ATGATCCAAT
21826 TATGAAATTTTGATAACCTTCC
1 TATGAAATTTTGATAACCTTCC
* *** *
21848 TATGAAATTTTAATAATAATAC
1 TATGAAATTTTGATAACCTTCC
* * * **
21870 TATGGAATTTCGAAAACCTTTT
1 TATGAAATTTTGATAACCTTCC
** *
21892 TAT-AAATTTTTTTTAACCTTCT
1 TATGAAA-TTTTGATAACCTTCC
*
21914 TATGAAATTTTG-TCAACCTCCC
1 TATGAAATTTTGAT-AACCTTCC
* * *
21936 TAAGGAATTTTGA-AGACC-TCAA
1 TATGAAATTTTGATA-ACCTTC-C
*
21958 AATGAAATTTTGATAA-CTTCCC
1 TATGAAATTTTGATAACCTT-CC
* * *
21980 AATGAAATTTTAATAA-CTAACAC
1 TATGAAATTTTGATAACCT-TC-C
* *
22003 TATGAGATGTTGATAACC-TCC
1 TATGAAATTTTGATAACCTTCC
* * * *
22024 ATATGATATATTGATAACC-ACGT
1 -TATGAAATTTTGATAACCTTC-C
* * *
22047 TATGAAAATTTAAAAACC-TCC
1 TATGAAATTTTGATAACCTTCC
* *
22068 ATATG-AATTGTT-AGTAATC-ACAC
1 -TATGAAATT-TTGA-TAACCTTC-C
* * * *
22091 TCTGAAATTTTGATAATCATAC
1 TATGAAATTTTGATAACCTTCC
*
22113 TATGAAATTGTGATAACC-TCAC
1 TATGAAATTTTGATAACCTTC-C
* *
22135 TATGAAATTTTCATAAATCTTCC
1 TATGAAATTTTGAT-AACCTTCC
* * *
22158 TATAAAATTTTGATAACTTTCT
1 TATGAAATTTTGATAACCTTCC
*
22180 TATGAAATCTTGATAA-----C
1 TATGAAATTTTGATAACCTTCC
* *
22197 TA-CAAATTTTGATAACCTCCC
1 TATGAAATTTTGATAACCTTCC
** *
22218 TATGATTTTTTGATAACC-TCA
1 TATGAAATTTTGATAACCTTCC
* * *
22239 TCATGAAATTTTGTTAATCTCCC
1 T-ATGAAATTTTGATAACCTTCC
* *** * *
22262 TATGAAATTTTAATCTGCATAC
1 TATGAAATTTTGATAACCTTCC
* *
22284 TATGAAATTTTGATAACCATCT
1 TATGAAATTTTGATAACCTTCC
22306 TATGAAATTTTGA
1 TATGAAATTTTGA
22319 AAACTAAACT
Statistics
Matches: 341, Mismatches: 98, Indels: 64
0.68 0.19 0.13
Matches are distributed among these distances:
16 11 0.03
17 2 0.01
21 17 0.05
22 266 0.78
23 42 0.12
24 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (22 bp):
TATGAAATTTTGATAACCTTCC
Found at i:22166 original size:45 final size:44
Alignment explanation
Indices: 22088--22174 Score: 111
Period size: 45 Copynumber: 2.0 Consensus size: 44
22078 TTAGTAATCA
* * *
22088 CACTCTGAAATTTTGATAATCATACTATGAAATTGTGATAACCT
1 CACTATGAAATTTTCATAATCATACTATAAAATTGTGATAACCT
* * *
22132 CACTATGAAATTTTCATAAATCTTCCTATAAAATTTTGATAAC
1 CACTATGAAATTTTCAT-AATCATACTATAAAATTGTGATAAC
22175 TTTCTTATGA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 15 0.42
45 21 0.58
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (44 bp):
CACTATGAAATTTTCATAATCATACTATAAAATTGTGATAACCT
Found at i:22331 original size:22 final size:21
Alignment explanation
Indices: 22282--22333 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
22272 TAATCTGCAT
* *
22282 ACTATGAAATTTTGATAACCA
1 ACTATGAAATTTTGAAAACAA
*
22303 TCTTATGAAATTTTGAAAACTAA
1 AC-TATGAAATTTTGAAAAC-AA
22326 ACTATGAA
1 ACTATGAA
22334 GTTTAATAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 22 0.88
23 2 0.08
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.35
Consensus pattern (21 bp):
ACTATGAAATTTTGAAAACAA
Found at i:22557 original size:66 final size:66
Alignment explanation
Indices: 22443--22571 Score: 152
Period size: 66 Copynumber: 2.0 Consensus size: 66
22433 GATAACCTCT
* * * ** *
22443 TTATGAAATTTTGATAACCTCTTTATAAAATTTTGTTGACTCCTCTATGAAATTCTGATAATCAC
1 TTATGAAATTTTGATAACCTCCTTATAAAATTTTGATAACAACACTATGAAATTCTGATAATCAC
22508 A
66 A
* * * *
22509 TTATGTAATTTTGATAACCTCGCTT-TGAAATTTTGATAACAACACTATGGAATTTTGATAATC
1 TTATGAAATTTTGATAACCTC-CTTATAAAATTTTGATAACAACACTATGAAATTCTGATAATC
22572 TTCCTATAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
66 50 0.96
67 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (66 bp):
TTATGAAATTTTGATAACCTCCTTATAAAATTTTGATAACAACACTATGAAATTCTGATAATCAC
A
Found at i:22563 original size:88 final size:88
Alignment explanation
Indices: 22399--22565 Score: 203
Period size: 88 Copynumber: 1.9 Consensus size: 88
22389 AGAAATACCA
* * * **
22399 CTATGAAATTTTTGTAATCACATTTTGAAAATTTGATAACCTCTTTATGAAATTTTGATAACCTC
1 CTATGAAATTTCTGTAATCACATTATGAAAATTTGATAACCTCCTTATGAAATTTTGATAACAAC
**
22464 TTTATAAAATTTTGTTGACTCCT
66 ACTATAAAATTTTGTTGACTCCT
* *
22487 CTATGAAA-TTCTGATAATCACATTATGTAATTTTGATAACCTCGCTT-TGAAATTTTGATAACA
1 CTATGAAATTTCTG-TAATCACATTATGAAAATTTGATAACCTC-CTTATGAAATTTTGATAACA
**
22550 ACACTATGGAATTTTG
64 ACACTATAAAATTTTG
22566 ATAATCTTCC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
87 4 0.06
88 60 0.91
89 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.43
Consensus pattern (88 bp):
CTATGAAATTTCTGTAATCACATTATGAAAATTTGATAACCTCCTTATGAAATTTTGATAACAAC
ACTATAAAATTTTGTTGACTCCT
Found at i:22607 original size:25 final size:22
Alignment explanation
Indices: 22444--22818 Score: 100
Period size: 22 Copynumber: 16.9 Consensus size: 22
22434 ATAACCTCTT
22444 TATGAAATTTTGATAACCTCTT--
1 TATGAAATTTTGATAA--TCTTCC
* * * *
22466 TATAAAATTTTGTTGA-CTCCTC
1 TATGAAATTTTGATAATCTTC-C
* * *
22488 TATGAAATTCTGATAATC-ACAT
1 TATGAAATTTTGATAATCTTC-C
* *
22510 TATGTAATTTTGATAA-CCTCGC
1 TATGAAATTTTGATAATCTTC-C
* **
22532 TTTGAAATTTTGATAA-CAACAC
1 TATGAAATTTTGATAATCTTC-C
*
22554 TATGGAATTTTGATAATCTTCC
1 TATGAAATTTTGATAATCTTCC
22576 TAT-AAATTTTGATAATCTGATCTC
1 TATGAAATTTTGATAATCT--TC-C
* *
22600 TATGAAATTTCGATAATC-ACTC
1 TATGAAATTTTGATAATCTTC-C
* * *
22622 TATGAGAGTTT-ATAACCTT-C
1 TATGAAATTTTGATAATCTTCC
* * * *
22642 TATCAAATTTTGGTACTCCTT-A
1 TATGAAATTTTGATAAT-CTTCC
* *
22664 TGAAATTGAAACTTTT-ATAACCTTCA
1 T---A-TGAAA-TTTTGATAATCTTCC
**
22690 TATGAAATTTTGATAA-CCACAC
1 TATGAAATTTTGATAATCTTC-C
* * *
22712 TATAAAATTTTGATAACCTCCC
1 TATGAAATTTTGATAATCTTCC
* * *
22734 CATGAAATATT-AGTAAAC-TCC
1 TATGAAATTTTGA-TAATCTTCC
* **
22755 TAATGAAATTTTGTTAA-CTAAAC
1 T-ATGAAATTTTGATAATCT-TCC
* *
22778 TATGAAATTCTT-ATAACCTCCC
1 TATGAAATT-TTGATAATCTTCC
*
22800 TATGACATTTTGATAATCT
1 TATGAAATTTTGATAATCT
22819 CTTTGACAAC
Statistics
Matches: 258, Mismatches: 65, Indels: 60
0.67 0.17 0.16
Matches are distributed among these distances:
19 2 0.01
20 9 0.03
21 34 0.13
22 166 0.64
23 14 0.05
24 4 0.02
25 17 0.07
26 8 0.03
27 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (22 bp):
TATGAAATTTTGATAATCTTCC
Found at i:22625 original size:22 final size:22
Alignment explanation
Indices: 22399--22626 Score: 137
Period size: 22 Copynumber: 10.3 Consensus size: 22
22389 AGAAATACCA
22399 CTATGAAATTTTTG-TAATCACAT
1 CTATGAAA-TTTTGATAATCAC-T
* * * *
22422 -TTTGAAAATTTGATAACCTCT
1 CTATGAAATTTTGATAATCACT
* * *
22443 TTATGAAATTTTGATAACCTCT
1 CTATGAAATTTTGATAATCACT
* * * *
22465 TTATAAAATTTTGTTGACTC-CT
1 CTATGAAATTTTGAT-AATCACT
*
22487 CTATGAAATTCTGATAATCACAT
1 CTATGAAATTTTGATAATCAC-T
* * * *
22510 -TATGTAATTTTGATAACCTCG
1 CTATGAAATTTTGATAATCACT
* *
22531 CTTTGAAATTTTGATAA-CAACA
1 CTATGAAATTTTGATAATC-ACT
* *
22553 CTATGGAATTTTGATAATC-TT
1 CTATGAAATTTTGATAATCACT
22574 CCTAT-AAATTTTGATAATCTGATCT
1 -CTATGAAATTTTGATAATC--A-CT
*
22599 CTATGAAATTTCGATAATCACT
1 CTATGAAATTTTGATAATCACT
22621 CTATGA
1 CTATGA
22627 GAGTTTATAA
Statistics
Matches: 160, Mismatches: 31, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
21 22 0.14
22 115 0.72
23 5 0.03
24 4 0.03
25 14 0.09
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (22 bp):
CTATGAAATTTTGATAATCACT
Found at i:22705 original size:22 final size:21
Alignment explanation
Indices: 22670--23037 Score: 101
Period size: 22 Copynumber: 17.0 Consensus size: 21
22660 CTTATGAAAT
22670 TGAAACTTTT-ATAACCTTCATA
1 TGAAA-TTTTGATAACC-TCATA
*
22692 TGAAATTTTGATAACCACACTA
1 TGAAATTTTGATAACCTCA-TA
* **
22714 TAAAATTTTGATAACCTCCCCA
1 TGAAATTTTGATAACCT-CATA
* * *
22736 TGAAATATT-AGTAAACTCCTAA
1 TGAAATTTTGA-TAACCTCAT-A
* *
22758 TGAAATTTTGTTAA-CTAAACTA
1 TGAAATTTTGATAACCT-CA-TA
*
22780 TGAAATTCTT-ATAACCTCCCTA
1 TGAAATT-TTGATAACCT-CATA
* * *
22802 TGACATTTTGATAATCTC-TT
1 TGAAATTTTGATAACCTCATA
** *
22822 TGACAACCTTTCT-ATAAAAT--TG
1 TGA-AA--TTT-TGATAACCTCATA
* * *
22844 TGAAA-ATTAATCACC-C-TA
1 TGAAATTTTGATAACCTCATA
** * *
22862 TGAAATTTCAATAACCAACCTA
1 TGAAATTTTGATAACC-TCATA
* * *
22884 AGAAATTTTAATAACCTGATCA
1 TGAAATTTTGATAACCTCAT-A
* *
22906 TAGAAATTTTGGTAACCACACTA
1 T-GAAATTTTGATAACCTCA-TA
*
22929 TGAAATTTTGATAACTTCCATA
1 TGAAATTTTGATAACCT-CATA
* * *
22951 TGGAATTTTGATAATCACATTA
1 TGAAATTTTGATAACCTCA-TA
* * *
22973 TGGAATTTTTATAACCTCCTCA
1 TGAAATTTTGATAACCTCAT-A
* * *
22995 TGAAATTATAATAACCATCTTA
1 TGAAATTTTGATAACC-TCATA
* *
23017 TGAAATTTTGGTAACCACATA
1 TGAAATTTTGATAACCTCATA
23038 GAGACAAGAA
Statistics
Matches: 256, Mismatches: 62, Indels: 57
0.68 0.17 0.15
Matches are distributed among these distances:
17 1 0.00
18 10 0.04
19 7 0.03
20 4 0.02
21 25 0.10
22 172 0.67
23 35 0.14
24 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.36
Consensus pattern (21 bp):
TGAAATTTTGATAACCTCATA
Found at i:23032 original size:44 final size:44
Alignment explanation
Indices: 22918--23032 Score: 117
Period size: 44 Copynumber: 2.6 Consensus size: 44
22908 GAAATTTTGG
* * * * *
22918 TAACCACACTATGAAATTTTGATAACTTCCATATGGAATTTTGA
1 TAACCACATTATGAAATTTTGATAACCTCCATATGAAATTATAA
* * *
22962 TAATCACATTATGGAATTTTTATAACCTCC-TCATGAAATTATAA
1 TAACCACATTATGAAATTTTGATAACCTCCAT-ATGAAATTATAA
*
23006 TAACCATC-TTATGAAATTTTGGTAACC
1 TAACCA-CATTATGAAATTTTGATAACC
23033 ACATAGAGAC
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
43 1 0.02
44 55 0.96
45 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (44 bp):
TAACCACATTATGAAATTTTGATAACCTCCATATGAAATTATAA
Found at i:23230 original size:19 final size:20
Alignment explanation
Indices: 23199--23236 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
23189 TATTGACATT
23199 TAAAAATTGAAATT-AAAAG
1 TAAAAATTGAAATTCAAAAG
23218 TAAAATATT-AAATTCAAAA
1 TAAAA-ATTGAAATTCAAAA
23237 ACTAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (20 bp):
TAAAAATTGAAATTCAAAAG
Found at i:23472 original size:30 final size:31
Alignment explanation
Indices: 23438--23502 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
23428 TGGCAATTTA
* *
23438 GAAATATGTTTTAAAAA-AAGGGTACAATTG
1 GAAATATGTTTTAAAAATAAGGATACAATCG
23468 GAAATATGTTTTAAAAATAAGGATACAATCG
1 GAAATATGTTTTAAAAATAAGGATACAATCG
23499 GAAA
1 GAAA
23503 ACATAAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.49, C:0.05, G:0.18, T:0.28
Consensus pattern (31 bp):
GAAATATGTTTTAAAAATAAGGATACAATCG
Found at i:23571 original size:19 final size:20
Alignment explanation
Indices: 23547--23584 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
23537 TAGTATAGAT
23547 TAAAAT-TTGAAATT-AAAAG
1 TAAAATATT-AAATTCAAAAG
23566 TAAAATATTAAATTCAAAA
1 TAAAATATTAAATTCAAAA
23585 ACTAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (20 bp):
TAAAATATTAAATTCAAAAG
Found at i:35349 original size:16 final size:14
Alignment explanation
Indices: 35325--35359 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
35315 TTTTCTTTTT
35325 AAAAAAAAAGGAAGA
1 AAAAAAAAAGGAA-A
35340 AAAAAGAAAAGGAAA
1 AAAAA-AAAAGGAAA
35355 AAAAA
1 AAAAA
35360 TACCTAGGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGGAAA
Found at i:35832 original size:2 final size:2
Alignment explanation
Indices: 35809--35872 Score: 94
Period size: 2 Copynumber: 32.5 Consensus size: 2
35799 AGGGTGTTGG
* * *
35809 GA GA GA CA GA CA GG GA GA -A 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 GA GA GA GA GA GA
35850 GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA G
35873 GTAATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.48, C:0.03, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:41777 original size:2 final size:2
Alignment explanation
Indices: 41765--41794 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
41755 TCTAATCTAC
41765 TA TA TA T- 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 T
41795 TAATTTCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:42058 original size:26 final size:26
Alignment explanation
Indices: 42005--42099 Score: 156
Period size: 26 Copynumber: 3.6 Consensus size: 26
41995 TGCAATATAT
42005 AATTGGGATTTTTTTTCCTCAAAA-AAA
1 AATTGGGA-TTTTTTTCCT-AAAACAAA
42032 AATTGGGATTTTTTTCCTAAAACAAA
1 AATTGGGATTTTTTTCCTAAAACAAA
42058 AATTGGGATTTTTTTCCTAAAACAAAA
1 AATTGGGATTTTTTTCCTAAAAC-AAA
42085 AATTGGGATTTTTTT
1 AATTGGGATTTTTTT
42100 GTAGGAAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
25 4 0.06
26 36 0.55
27 26 0.39
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (26 bp):
AATTGGGATTTTTTTCCTAAAACAAA
Found at i:42456 original size:3 final size:3
Alignment explanation
Indices: 42450--42528 Score: 122
Period size: 3 Copynumber: 26.3 Consensus size: 3
42440 ATTATTATTA
* * *
42450 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAC AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
42498 AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
42529 TTTATATATC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:42596 original size:14 final size:14
Alignment explanation
Indices: 42577--42607 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
42567 CTGAATTTAA
42577 ATACATTCGTCTTT
1 ATACATTCGTCTTT
42591 ATACATTCGTCTTT
1 ATACATTCGTCTTT
42605 ATA
1 ATA
42608 GTATGTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (14 bp):
ATACATTCGTCTTT
Found at i:45754 original size:98 final size:98
Alignment explanation
Indices: 45636--45827 Score: 348
Period size: 98 Copynumber: 2.0 Consensus size: 98
45626 GACAATTTCG
* *
45636 ATAATCTTGAAATACTTTTTTTCCATTTGTTCAAACATTGTGGCATTTTTTGTTCTTTACTGGTA
1 ATAATCTTGAAATACCTTTTTTCCATTTGTTCAAACATTGTGACATTTTTTGTTCTTTACTGGTA
*
45701 TATATAAGATGATAGATTATAATTTACTATGAT
66 CATATAAGATGATAGATTATAATTTACTATGAT
*
45734 ATAATCTTTAAATACCTTTTTTCCATTTGTTCAAACATTGTGACATTTTTTGTTCTTTACTGGTA
1 ATAATCTTGAAATACCTTTTTTCCATTTGTTCAAACATTGTGACATTTTTTGTTCTTTACTGGTA
45799 CATATAAGATGATAGATTATAATTTACTA
66 CATATAAGATGATAGATTATAATTTACTA
45828 CATCATAGGA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.47
Consensus pattern (98 bp):
ATAATCTTGAAATACCTTTTTTCCATTTGTTCAAACATTGTGACATTTTTTGTTCTTTACTGGTA
CATATAAGATGATAGATTATAATTTACTATGAT
Done.