Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01022853.1 Corchorus olitorius cultivar O-4 contig22886, 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: 20046
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Found at i:2545 original size:22 final size:22
Alignment explanation
Indices: 2453--2905 Score: 276
Period size: 22 Copynumber: 20.6 Consensus size: 22
2443 TATTCATATC
* *
2453 AAATTTTAATAA-CTACACTATA
1 AAATTTTGATAACCT-CACTATG
2475 AAATTTTGATAA--TCACTTTATG
1 AAATTTTGATAACCTCAC--TATG
* * *
2497 AAATTTTAATAACCAT-ACAACG
1 AAATTTTGATAACC-TCACTATG
* *
2519 TAATTTTGATAACCTCCCTATG
1 AAATTTTGATAACCTCACTATG
* * *
2541 AAATTTCGATAACCTCCCTATA
1 AAATTTTGATAACCTCACTATG
* *
2563 AAATTTAGATAACCACACTATG
1 AAATTTTGATAACCTCACTATG
* *
2585 AAATTTTGGT-ACCTCCCTATG
1 AAATTTTGATAACCTCACTATG
*
2606 AAATTTCGATAA-CTACACTATG
1 AAATTTTGATAACCT-CACTATG
* * *
2628 GAATTTGGATAACCTCCCTATG
1 AAATTTTGATAACCTCACTATG
* * *
2650 AAAGTTTGATAACCACACTACG
1 AAATTTTGATAACCTCACTATG
* ** **
2672 AAACTTTGATAATATTTCTATG
1 AAATTTTGATAACCTCACTATG
* * *
2694 AAATTTTGATAACTTCCCTATA
1 AAATTTTGATAACCTCACTATG
* *
2716 AAATTTTGGTTTA--TACACTATG
1 AAATTTT-GATAACCT-CACTATG
* *
2738 AAATTTTAATAAGCTC-CTTATG
1 AAATTTTGATAACCTCAC-TATG
* * * * **
2760 AGATTTTGGTAACCACATTACA
1 AAATTTTGATAACCTCACTATG
* * *
2782 AAATTGTGATAATCACACTATG
1 AAATTTTGATAACCTCACTATG
* ***
2804 AAATTATGATAACCTTTGTATG
1 AAATTTTGATAACCTCACTATG
* * *
2826 AAATTTTGATTACCACACTATA
1 AAATTTTGATAACCTCACTATG
* *
2848 AAATTTTGATAACCACACTATA
1 AAATTTTGATAACCTCACTATG
* * *
2870 AAATTTTAATAAGCTCATTATG
1 AAATTTTGATAACCTCACTATG
*
2892 AAATTTTGACAACC
1 AAATTTTGATAACC
2906 ACATAGAGAT
Statistics
Matches: 326, Mismatches: 90, Indels: 30
0.73 0.20 0.07
Matches are distributed among these distances:
20 3 0.01
21 25 0.08
22 289 0.89
23 6 0.02
24 2 0.01
25 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (22 bp):
AAATTTTGATAACCTCACTATG
Found at i:2546 original size:66 final size:65
Alignment explanation
Indices: 2501--2641 Score: 167
Period size: 65 Copynumber: 2.2 Consensus size: 65
2491 TTTATGAAAT
* * *
2501 TTTA-ATAACCATACAACGTAATTTTGATAACCTCCCTATGAAATTTCGATAACCTCCCTATAAA
1 TTTAGATAACCACACAACGAAATTTTGAT-ACCTCCCTATGAAATTTCGATAACCACCCTATAAA
2565 A
65 A
* * * * * **
2566 TTTAGATAACCACACTATGAAATTTTGGTACCTCCCTATGAAATTTCGATAACTACACTATGGAA
1 TTTAGATAACCACACAACGAAATTTTGATACCTCCCTATGAAATTTCGATAACCACCCTATAAAA
*
2631 TTTGGATAACC
1 TTTAGATAACC
2642 TCCCTATGAA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 45 0.70
66 19 0.30
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (65 bp):
TTTAGATAACCACACAACGAAATTTTGATACCTCCCTATGAAATTTCGATAACCACCCTATAAAA
Found at i:2633 original size:65 final size:66
Alignment explanation
Indices: 2520--2663 Score: 193
Period size: 65 Copynumber: 2.2 Consensus size: 66
2510 CATACAACGT
*
2520 AATTTTGATAACCTCCCTATGAAATTTCGATAACCTCCCTATAAAATTTAGATAACCACACTATG
1 AATTTTGATAACCTCCCTATGAAATTTCGATAACCTCACTATAAAATTTAGATAACCACACTATG
2585 A
66 A
* ** * * *
2586 AATTTTGGT-ACCTCCCTATGAAATTTCGATAA-CTACACTATGGAATTTGGATAACCTCCCTAT
1 AATTTTGATAACCTCCCTATGAAATTTCGATAACCT-CACTATAAAATTTAGATAACCACACTAT
2649 GA
65 GA
*
2651 AAGTTTGATAACC
1 AATTTTGATAACC
2664 ACACTACGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 2 0.03
65 54 0.81
66 11 0.16
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (66 bp):
AATTTTGATAACCTCCCTATGAAATTTCGATAACCTCACTATAAAATTTAGATAACCACACTATG
A
Found at i:3648 original size:21 final size:21
Alignment explanation
Indices: 3592--3653 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
3582 TTTGATTATT
3592 ACACTATAAGATTTTGATAACC
1 ACACTATAAG-TTTTGATAACC
* * * *
3614 TCCCTACAAATTTTGATAACC
1 ACACTATAAGTTTTGATAACC
* *
3635 ACATTATAAGTTTTAATAA
1 ACACTATAAGTTTTGATAA
3654 TTACAGTATG
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
21 24 0.80
22 6 0.20
ACGTcount: A:0.40, C:0.18, G:0.06, T:0.35
Consensus pattern (21 bp):
ACACTATAAGTTTTGATAACC
Found at i:3831 original size:22 final size:22
Alignment explanation
Indices: 3740--3970 Score: 132
Period size: 22 Copynumber: 10.5 Consensus size: 22
3730 TCTATTTACA
*
3740 AAATTTTGTTAAACTCACTATG
1 AAATTTTGATAAACTCACTATG
* * * *
3762 TAATTTTGATAACCACATTATG
1 AAATTTTGATAAACTCACTATG
* * * *
3784 AAATTGTGATAACCTC-TTCATA
1 AAATTTTGATAAACTCACT-ATG
*
3806 AAATTTTGATAAATTCACTATG
1 AAATTTTGATAAACTCACTATG
*
3828 AAATTTTGATAAACATC-CTTATA
1 AAATTTTGATAAAC-TCAC-TATG
**
3851 AAATTTTGATCCAC-C-CTATG
1 AAATTTTGATAAACTCACTATG
** * * *
3871 ATTTTTTAATAACCTC-CAATG
1 AAATTTTGATAAACTCACTATG
* * *
3892 AAA-TTTGTTAATCTCTCTATG
1 AAATTTTGATAAACTCACTATG
* *
3913 AAATTTTGATAACAACACACTATA
1 AAATTTTGAT-A-AACTCACTATG
* * *
3937 AAATTTTGATAACCTCTCCATG
1 AAATTTTGATAAACTCACTATG
*
3959 GAATTTTGATAA
1 AAATTTTGATAA
3971 TTACACTATA
Statistics
Matches: 157, Mismatches: 43, Indels: 18
0.72 0.20 0.08
Matches are distributed among these distances:
20 20 0.13
21 17 0.11
22 83 0.53
23 20 0.13
24 17 0.11
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (22 bp):
AAATTTTGATAAACTCACTATG
Found at i:3964 original size:46 final size:44
Alignment explanation
Indices: 3895--4008 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 44
3885 TCCAATGAAA
* * * *
3895 TTTGTTAATCTCTCTATGAAATTTTGATAACAACACACTATAAAAT
1 TTTGATAACCTCTCCATGGAATTTTGAT-A-AACACACTATAAAAT
** *
3941 TTTGATAACCTCTCCATGGAATTTTGATAATTACACTATAACAT
1 TTTGATAACCTCTCCATGGAATTTTGATAAACACACTATAAAAT
* * *
3985 TTCGGTAACCTCCCCAT-GAATTTT
1 TTTGATAACCTCTCCATGGAATTTT
4009 TGTTACCCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 7 0.12
44 26 0.45
45 1 0.02
46 24 0.41
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (44 bp):
TTTGATAACCTCTCCATGGAATTTTGATAAACACACTATAAAAT
Found at i:4031 original size:22 final size:22
Alignment explanation
Indices: 3990--4081 Score: 85
Period size: 22 Copynumber: 4.2 Consensus size: 22
3980 AACATTTCGG
* * *
3990 TAACCTCCCCATGAATTTTTGT
1 TAACCTCCCTAGGAAATTTTGT
* *
4012 TACCCTCCCTAGGAAATTTTGA
1 TAACCTCCCTAGGAAATTTTGT
* * **
4034 TAACCTGCCAATTAAATTTTGT
1 TAACCTCCCTAGGAAATTTTGT
* *
4056 TAACCTTCCTAGGAAATTTTGA
1 TAACCTCCCTAGGAAATTTTGT
4078 TAAC
1 TAAC
4082 ATCATAACAA
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (22 bp):
TAACCTCCCTAGGAAATTTTGT
Found at i:4038 original size:44 final size:44
Alignment explanation
Indices: 3990--4081 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
3980 AACATTTCGG
* * *
3990 TAACCTCCCCATGAATTTTTGTTACCCTCCCTAGGAAATTTTGA
1 TAACCTCCCAATGAAATTTTGTTAACCTCCCTAGGAAATTTTGA
* * *
4034 TAACCTGCCAATTAAATTTTGTTAACCTTCCTAGGAAATTTTGA
1 TAACCTCCCAATGAAATTTTGTTAACCTCCCTAGGAAATTTTGA
4078 TAAC
1 TAAC
4082 ATCATAACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (44 bp):
TAACCTCCCAATGAAATTTTGTTAACCTCCCTAGGAAATTTTGA
Found at i:4155 original size:22 final size:22
Alignment explanation
Indices: 4096--4325 Score: 141
Period size: 22 Copynumber: 10.4 Consensus size: 22
4086 TAACAATACA
* *
4096 ATGAAATTTTGATAACCTTC-TT
1 ATGAAATTTTGATAACC-ACACT
* * *
4118 ATTAAAATTTGGTAACCACACT
1 ATGAAATTTTGATAACCACACT
*
4140 ATGAAATGTTT-ATAA-CATCCCT
1 ATGAAAT-TTTGATAACCA-CACT
*
4162 ATTAAATTTTGATAACCACACT
1 ATGAAATTTTGATAACCACACT
* * *
4184 ATGAAATTTTGATAATCTCTCT
1 ATGAAATTTTGATAACCACACT
*
4206 ATGAAATTTCGATAA-CATC-CTT
1 ATGAAATTTTGATAACCA-CAC-T
* *
4228 ATGATATTTTGATAACTACACT
1 ATGAAATTTTGATAACCACACT
* * * * * * *
4250 ATGTAAGTTTGGTAAACTCTCC
1 ATGAAATTTTGATAACCACACT
4272 AT-AGAATTTTGATAAACCACACT
1 ATGA-AATTTTGAT-AACCACACT
* *
4295 ATGAAATTTTGCTAACCTC-CAT
1 ATGAAATTTTGATAACCACAC-T
4317 ATGAAATTT
1 ATGAAATTT
4326 CGATTGCCTC
Statistics
Matches: 157, Mismatches: 38, Indels: 26
0.71 0.17 0.12
Matches are distributed among these distances:
21 9 0.06
22 125 0.80
23 22 0.14
24 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (22 bp):
ATGAAATTTTGATAACCACACT
Found at i:4208 original size:66 final size:66
Alignment explanation
Indices: 4138--4311 Score: 174
Period size: 66 Copynumber: 2.6 Consensus size: 66
4128 GGTAACCACA
* * * *
4138 CTATGAAATGTT-TATAACATCCCTATTAAATTTTGATAACCACACTATGAAATTTTGATAATCT
1 CTATGAAAT-TTCGATAACATCCCTATGAAATTTTGATAACCACACTATGAAAGTTTGATAAACT
4202 CT
65 CT
* * * * *
4204 CTATGAAATTTCGATAACATCCTTATGATATTTTGATAACTACACTATGTAAGTTTGGTAAACTC
1 CTATGAAATTTCGATAACATCCCTATGAAATTTTGATAACCACACTATGAAAGTTTGATAAACTC
4269 T
66 T
* * * *
4270 CCAT-AGAATTTTGATAAACCA-CACTATGAAATTTTGCTAACC
1 CTATGA-AATTTCGAT-AA-CATCCCTATGAAATTTTGATAACC
4312 TCCATATGAA
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
65 3 0.03
66 65 0.74
67 18 0.20
68 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (66 bp):
CTATGAAATTTCGATAACATCCCTATGAAATTTTGATAACCACACTATGAAAGTTTGATAAACTC
T
Found at i:4964 original size:67 final size:67
Alignment explanation
Indices: 4890--5024 Score: 198
Period size: 67 Copynumber: 2.0 Consensus size: 67
4880 TGAGAAATAT
* **
4890 TTTAAAAAAACAAGGGTATCATCATCAATTTAAAAGTTTCCCGAAATTCATATTTTTTTATATAG
1 TTTAAAAAAACAAGGGTATCATCATCAATATAAAAGTTTCCCGAAATTCATACATTTTTATATAG
4955 TA
66 TA
* ** * *
4957 TTTAAAAAAATAAGGGTATCATTGTCAATATAAAAGTTTCCCGACATTCGTACATTTTTATATAG
1 TTTAAAAAAACAAGGGTATCATCATCAATATAAAAGTTTCCCGAAATTCATACATTTTTATATAG
5022 TA
66 TA
5024 T
1 T
5025 AGATATAGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (67 bp):
TTTAAAAAAACAAGGGTATCATCATCAATATAAAAGTTTCCCGAAATTCATACATTTTTATATAG
TA
Found at i:5163 original size:22 final size:22
Alignment explanation
Indices: 5136--5302 Score: 138
Period size: 22 Copynumber: 7.5 Consensus size: 22
5126 CAGTTTCGGG
5136 TTCATAGGGAGGTTATCAAAAT
1 TTCATAGGGAGGTTATCAAAAT
* * * *
5158 TCCATAAGGAGATTACCAAAAT
1 TTCATAGGGAGGTTATCAAAAT
*
5180 TTCATAGGGAGGTTAACAAAAT
1 TTCATAGGGAGGTTATCAAAAT
* * **
5202 TTTATAGGAAGGTTATTGAAAT
1 TTCATAGGGAGGTTATCAAAAT
* * * **
5224 TTCACATTGTAAATTATCAAAAT
1 TTCATA-GGGAGGTTATCAAAAT
* *
5247 TTCATAGAGAGGTTACCAAAAT
1 TTCATAGGGAGGTTATCAAAAT
* *
5269 TTTATAGTGTA-GTTATCAAAAT
1 TTCATAG-GGAGGTTATCAAAAT
*
5291 TTGATAGGGAGG
1 TTCATAGGGAGG
5303 CCGCTAACCA
Statistics
Matches: 108, Mismatches: 34, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
21 2 0.02
22 90 0.83
23 16 0.15
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (22 bp):
TTCATAGGGAGGTTATCAAAAT
Found at i:5411 original size:23 final size:22
Alignment explanation
Indices: 5356--5420 Score: 87
Period size: 21 Copynumber: 3.0 Consensus size: 22
5346 ATTTCATATT
*
5356 GAGGTTATCAAAATTTTATAAG
1 GAGGTTATCAAAATTTTATAGG
5378 G-GGTTATCAAAATTTTATAGG
1 GAGGTTATCAAAATTTTATAGG
* *
5399 GAGGTTTATCAAAGTTTCATAG
1 GAGG-TTATCAAAATTTTATAG
5421 TGGGGCCATC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 20 0.53
22 3 0.08
23 15 0.39
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (22 bp):
GAGGTTATCAAAATTTTATAGG
Found at i:8233 original size:88 final size:88
Alignment explanation
Indices: 8085--8780 Score: 1022
Period size: 88 Copynumber: 7.9 Consensus size: 88
8075 TGGGAATAGC
* * * * * ** *
8085 AAACAACACC-TCCTAGGGGGAAGGGC-AGACGGGAATTAAAACAACACCTTCCTATTGGGAAGG
1 AAACAACACCTTCCGATGAGGAAGGGCAAAACGAGAATTAAAACAACACCTTCCGGTGGGGAAGG
* *
8148 GCAAAACAAGGAAAAGCAGGCTT
66 GCAAGACAGGGAAAAGCAGGCTT
* *
8171 AAACAACACCTTCCGATGAGGAAGGGAAAAATGAGAATTAAAACAACACCTTCCGGTGGGGAAGG
1 AAACAACACCTTCCGATGAGGAAGGGCAAAACGAGAATTAAAACAACACCTTCCGGTGGGGAAGG
* *
8236 GCAAGACAGGGAAAATCAGGTTT
66 GCAAGACAGGGAAAAGCAGGCTT
* * *
8259 AAACAACACCTTCTGATGAGGAAGGGCAAAACGGGAATTAAAACAACACCTTCCAGTGGGGAAGG
1 AAACAACACCTTCCGATGAGGAAGGGCAAAACGAGAATTAAAACAACACCTTCCGGTGGGGAAGG
8324 GCAAGACAGGGAAAAGCAGGCTT
66 GCAAGACAGGGAAAAGCAGGCTT
* *
8347 AAACAACACCTTCTGATGAGGAAGGGCAAAACGAGAATTAAAACAACACCTTCTGGTGGGGAAGG
1 AAACAACACCTTCCGATGAGGAAGGGCAAAACGAGAATTAAAACAACACCTTCCGGTGGGGAAGG
* ** *
8412 GCAAGAGAATGAAAAGCA-GATAT
66 GCAAGACAGGGAAAAGCAGGCT-T
* * * *
8435 AAACAACACCTTCCGATAAGGAAGGGTAAGACGAGAATTAAAATAACACCTTCCGGTGGGGAAGG
1 AAACAACACCTTCCGATGAGGAAGGGCAAAACGAGAATTAAAACAACACCTTCCGGTGGGGAAGG
*
8500 GCAAGACAGGGAAAAGCAAGCTT
66 GCAAGACAGGGAAAAGCAGGCTT
* * * *
8523 AAACAACACCTTCCGATGAGGAAGGGCAAAACAAGAATTTAAACAACAACTTCTGGTGGGGAAGG
1 AAACAACACCTTCCGATGAGGAAGGGCAAAACGAGAATTAAAACAACACCTTCCGGTGGGGAAGG
* *
8588 GCAAGGCAGGGAAAAGCAGGTTT
66 GCAAGACAGGGAAAAGCAGGCTT
8611 AAACAACACCTTCCGATGAGGAAGGGCAAAACGAGAATTAAAACAACACCTTCCGGTGGGGAAGG
1 AAACAACACCTTCCGATGAGGAAGGGCAAAACGAGAATTAAAACAACACCTTCCGGTGGGGAAGG
*
8676 GCAAGACAGGGAAAAGCAGGTTT
66 GCAAGACAGGGAAAAGCAGGCTT
*
8699 AAACAACACCTTCCGATGAGGAAGGGCAAAACGGGAATTAAAACAACACCTTCCGGTGGGGAAGG
1 AAACAACACCTTCCGATGAGGAAGGGCAAAACGAGAATTAAAACAACACCTTCCGGTGGGGAAGG
*
8764 GCAA-ACTGGGAAAAGCA
66 GCAAGACAGGGAAAAGCA
8781 AACATTGGGT
Statistics
Matches: 550, Mismatches: 56, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
86 10 0.02
87 26 0.05
88 512 0.93
89 2 0.00
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.13
Consensus pattern (88 bp):
AAACAACACCTTCCGATGAGGAAGGGCAAAACGAGAATTAAAACAACACCTTCCGGTGGGGAAGG
GCAAGACAGGGAAAAGCAGGCTT
Found at i:8420 original size:37 final size:39
Alignment explanation
Indices: 8347--8769 Score: 128
Period size: 40 Copynumber: 9.8 Consensus size: 39
8337 AAGCAGGCTT
*
8347 AAACAACACCTTCTGATGAGGAAGGGCAAAACGAGAATTA
1 AAACAACACCTTCTGATGAGGAAGGGC-AAACGAGAATGA
* * *
8387 AAACAACACCTTCTGGTGGGGAAGGGCAAGA-GAATGAAAAGCAGATA
1 AAACAACACCTTCTGATGAGGAAGGGCAA-ACG-A-G--AA--TG--A
* * * *
8434 TAAACAACACCTTCCGATAAGGAAGGGTAAGACGAGAATTA
1 -AAACAACACCTTCTGATGAGGAAGGGCAA-ACGAGAATGA
* * * * * *
8475 AAATAACACCTTCCGGTGGGGAAGGGCAAGACAGGGAAAAGCAA
1 AAACAACACCTTCTGATGAGGAAGGGCAA-AC-GAG-AATG--A
* * **
8519 GCTTAAACAACACCTTCCGATGAGGAAGGGCAAAACAAGAATTT
1 ----AAACAACACCTTCTGATGAGGAAGGGC-AAACGAGAATGA
* * * * * *
8563 AAACAACAACTTCTGGTGGGGAAGGGCAAGGCAGGGAAAAGCA
1 AAACAACACCTTCTGATGAGGAAGGGCAA-AC-GAG-AATG-A
* *
8606 GGTTTAAACAACACCTTCCGATGAGGAAGGGCAAAACGAGAATTA
1 -----AAACAACACCTTCTGATGAGGAAGGGC-AAACGAGAATGA
* * * * *
8651 AAACAACACCTTCCGGTGGGGAAGGGCAAGACAGGGAAAAGCA
1 AAACAACACCTTCTGATGAGGAAGGGCAA-AC-GAG-AATG-A
* * *
8694 GGTTTAAACAACACCTTCCGATGAGGAAGGGCAAAACGGGAATTA
1 -----AAACAACACCTTCTGATGAGGAAGGGC-AAACGAGAATGA
* * *
8739 AAACAACACCTTCCGGTGGGGAAGGGCAAAC
1 AAACAACACCTTCTGATGAGGAAGGGCAAAC
8770 TGGGAAAAGC
Statistics
Matches: 287, Mismatches: 56, Indels: 81
0.68 0.13 0.19
Matches are distributed among these distances:
39 11 0.04
40 130 0.45
41 7 0.02
42 6 0.02
43 3 0.01
44 1 0.00
45 4 0.01
46 6 0.02
47 8 0.03
48 104 0.36
49 7 0.02
ACGTcount: A:0.41, C:0.18, G:0.27, T:0.13
Consensus pattern (39 bp):
AAACAACACCTTCTGATGAGGAAGGGCAAACGAGAATGA
Found at i:17998 original size:1 final size:1
Alignment explanation
Indices: 17992--18021 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
17982 TTTCTACCTC
17992 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18022 ATCTTGAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Done.