Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_417 ID=scaffold_417-JGI_221_v2.0
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: 7349
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Warning! 100 characters in sequence are not A, C, G, or T
Found at i:2898 original size:17 final size:16
Alignment explanation
Indices: 2872--2944 Score: 76
Period size: 17 Copynumber: 4.3 Consensus size: 16
2862 TCAGTGGAGG
2872 AAAAAAAACAAAAACA
1 AAAAAAAACAAAAACA
*
2888 AAAAAACAACAAAAATA
1 AAAAAA-AACAAAAACA
2905 AAAAAATAACAAAAAACA
1 AAAAAA-AAC-AAAAACA
*
2923 AAAACAAAA-ATAAAAGA
1 AAAA-AAAACA-AAAACA
2940 AAAAA
1 AAAAA
2945 CCTCTACCGG
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
16 8 0.16
17 27 0.55
18 12 0.24
19 2 0.04
ACGTcount: A:0.85, C:0.10, G:0.01, T:0.04
Consensus pattern (16 bp):
AAAAAAAACAAAAACA
Found at i:2943 original size:6 final size:6
Alignment explanation
Indices: 2875--2937 Score: 67
Period size: 6 Copynumber: 10.7 Consensus size: 6
2865 GTGGAGGAAA
* * *
2875 AAAAAC AAAAAC AAAAA- AACAAC AAAAAT AAAAA- AATAAC AAAAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC -AAAAAC
*
2922 AAAAAC AAAAAT AAAA
1 AAAAAC AAAAAC AAAA
2938 GAAAAAACCT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
5 8 0.17
6 35 0.73
7 5 0.10
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.05
Consensus pattern (6 bp):
AAAAAC
Found at i:2943 original size:12 final size:11
Alignment explanation
Indices: 2875--2945 Score: 63
Period size: 12 Copynumber: 6.0 Consensus size: 11
2865 GTGGAGGAAA
2875 AAAAACAAAAAC
1 AAAAA-AAAAAC
*
2887 AAAAAAACAAC
1 AAAAAAAAAAC
2898 AAAAATAAAAA-
1 AAAAA-AAAAAC
2909 AATAACAAAAAAC
1 AA-AA-AAAAAAC
*
2922 AAAAACAAAAAT
1 AAAAA-AAAAAC
2934 AAAAGAAAAAAC
1 AAAA-AAAAAAC
2946 CTCTACCGGG
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
11 13 0.27
12 32 0.65
13 4 0.08
ACGTcount: A:0.83, C:0.11, G:0.01, T:0.04
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:3396 original size:13 final size:13
Alignment explanation
Indices: 3366--3423 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
3356 TGCAAGCAAT
*
3366 AAAAA-AAAGAAAC
1 AAAAAGAAA-AAAG
3379 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
* *
3392 GAAAAGAAAAACG
1 AAAAAGAAAAAAG
*
3405 AAAAAGAAAAGAG
1 AAAAAGAAAAAAG
3418 AAAAAG
1 AAAAAG
3424 GAGAGGCCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
13 35 0.92
14 3 0.08
ACGTcount: A:0.79, C:0.03, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:3413 original size:18 final size:18
Alignment explanation
Indices: 3368--3421 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
3358 CAAGCAATAA
*
3368 AAAAAAG-AAACAAAAAG
1 AAAAAAGAAAAGAAAAAG
3385 AAAAAAGGAAAAGAAAAACG
1 AAAAAA-GAAAAGAAAAA-G
3405 -AAAAAGAAAAGAGAAAA
1 AAAAAAGAAAAGA-AAAA
3422 AGGAGAGGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.19
18 8 0.25
19 17 0.53
20 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAGAAAAAG
Found at i:3423 original size:26 final size:26
Alignment explanation
Indices: 3366--3423 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
3356 TGCAAGCAAT
*
3366 AAAAAAAAGAAACAAAAAGAAAAAAG
1 AAAAAGAAGAAACAAAAAGAAAAAAG
* *
3392 GAAAAGAA-AAACGAAAAAGAAAAGAG
1 AAAAAGAAGAAAC-AAAAAGAAAAAAG
3418 AAAAAG
1 AAAAAG
3424 GAGAGGCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.79, C:0.03, G:0.17, T:0.00
Consensus pattern (26 bp):
AAAAAGAAGAAACAAAAAGAAAAAAG
Found at i:3766 original size:45 final size:47
Alignment explanation
Indices: 3698--3785 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 47
3688 TCCATTTTAT
* *
3698 TCATTTTCGTATTTTTGACAAAATACGCCATCTTGATTAATTTATTC
1 TCATTTTCGTATTCTAGACAAAATACGCCATCTTGATTAATTTATTC
** *
3745 TCATTTT-GTATTCTAGA-AAAATTTGCTATCTTGATTAATTT
1 TCATTTTCGTATTCTAGACAAAATACGCCATCTTGATTAATTT
3786 GTTCATTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 21 0.58
46 8 0.22
47 7 0.19
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (47 bp):
TCATTTTCGTATTCTAGACAAAATACGCCATCTTGATTAATTTATTC
Found at i:4557 original size:44 final size:45
Alignment explanation
Indices: 4492--4717 Score: 210
Period size: 44 Copynumber: 5.1 Consensus size: 45
4482 GGAATGGATT
* * *
4492 GAAGAAAACAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAACAGATCCTGTCTTCATATATTGGTCGTGAAGTAGATC
* * * * *
4536 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAACAGATCCTGTCTTCATATATTGGTCGTGAAGTAGATC
* * ** * *
4580 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
1 GAAGATAACAGATCCTGTCTTCATATATTGGTCGTGAAGTAGATC
* * * *
4624 AAAGAAAACAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAACAGATCCTGTCTTCATATATTGGTCGTGAAGTAGATC
* * * * *
4668 GAAGATAACAGGTCCTGTCTTCCTAGATTGGTAG-GAAGTGGATC
1 GAAGATAACAGATCCTGTCTTCATATATTGGTCGTGAAGTAGATC
4712 GAAGAT
1 GAAGAT
4718 GCAGATCTTG
Statistics
Matches: 148, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
43 23 0.16
44 103 0.70
45 22 0.15
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (45 bp):
GAAGATAACAGATCCTGTCTTCATATATTGGTCGTGAAGTAGATC
Found at i:4643 original size:88 final size:88
Alignment explanation
Indices: 4492--4734 Score: 233
Period size: 88 Copynumber: 2.8 Consensus size: 88
4482 GGAATGGATT
* * * * * * *
4492 GAAGAAAACAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTGTCT
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAAAGCAGATCTTGTCT
*
4556 TCCTATATTGGTAG-GAAGTGGATC
65 TCCTATATTGG-AGTGAAGTAGATC
* * * * *
4580 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAACAGATCTTGTCT
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAAAGCAGATCTTGTCT
* * *
4644 TCATGTATTGGCGTGAAGTAGATC
65 TCCTATATTGGAGTGAAGTAGATC
* * * * * *
4668 GAAGATAACAGGTCCTGTCTTCCTAGATTGGTAGGAAGTGGATCGAAG-ATGCAGATCTTGCCTT
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
4732 CCT
66 CCT
4735 GCATTAACAG
Statistics
Matches: 124, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
87 36 0.29
88 67 0.54
89 21 0.17
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (88 bp):
GAAGATAACAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
CCTATATTGGAGTGAAGTAGATC
Found at i:4733 original size:132 final size:132
Alignment explanation
Indices: 4493--4733 Score: 455
Period size: 132 Copynumber: 1.8 Consensus size: 132
4483 GAATGGATTG
*
4493 AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
1 AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTGTCTTC
* *
4558 CTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGAT
66 CTAGATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTCCCATATTGGTGGCGAAGTAGAT
4623 CA
131 CA
4625 AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTGTCTTC
1 AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTGTCTTC
4690 CTAGATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTCC
66 CTAGATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTCC
4734 TGCATTAACA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 106 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (132 bp):
AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTGTCTTC
CTAGATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTCCCATATTGGTGGCGAAGTAGAT
CA
Found at i:4771 original size:43 final size:43
Alignment explanation
Indices: 4724--4947 Score: 160
Period size: 43 Copynumber: 5.2 Consensus size: 43
4714 AGATGCAGAT
*
4724 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAAC
1 CTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAAC
* * * * * *
4767 CTTGCC-TCCAT-CGATT--CAGTGGAGCTGGTC-AAAGATAGCAGAT
1 CTTGCCTTCC-TGC-ATTAACAGTGAAGCAGATCGAAA-ACA--AAAC
*
4810 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAAC
1 CTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAAC
* * * * * * * *
4853 CTTGCC-TCCAT-CGTT-GCAGTGGAGCTGGTC-AAAGATAGCAGAT
1 CTTGCCTTCC-TGCATTAACAGTGAAGCAGATCGAAA-ACA--AAAC
4896 CTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAAC
1 CTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAAC
4939 CTTGCCTTC
1 CTTGCCTTC
4948 ATCGGTTGCA
Statistics
Matches: 132, Mismatches: 31, Indels: 36
0.66 0.16 0.18
Matches are distributed among these distances:
40 6 0.05
41 24 0.18
42 10 0.08
43 51 0.39
44 10 0.08
45 25 0.19
46 6 0.05
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAAC
Found at i:5009 original size:87 final size:87
Alignment explanation
Indices: 4713--5017 Score: 517
Period size: 86 Copynumber: 3.5 Consensus size: 87
4703 AAGTGGATCG
4713 AAGAT-GCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCA
*
4777 TCGATT-CAGTGGAGCTGGTCA
66 TCGGTTGCAGTGGAGCTGGTCA
4798 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCA
4863 TC-GTTGCAGTGGAGCTGGTCA
66 TCGGTTGCAGTGGAGCTGGTCA
* *
4884 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAACCTTGCCTTCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCA
*
4949 TCGGTTGCAGTGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCTGGTCA
* * * *
4971 AAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCGAA
1 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA
5018 GAAGCCAGTC
Statistics
Matches: 208, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
85 7 0.03
86 141 0.68
87 60 0.29
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCA
TCGGTTGCAGTGGAGCTGGTCA
Found at i:5267 original size:44 final size:45
Alignment explanation
Indices: 5218--5399 Score: 117
Period size: 43 Copynumber: 4.2 Consensus size: 45
5208 CGGATTTTAC
*
5218 CTCCCTGAG-ATTACAGTGGAGTACATTGAAGCCGGTAGTTCTAT
1 CTCCCTGAGCATTACAGTGGAGTACATTGAAGCCGGCAGTTCTAT
* * * * * * * *
5262 CTCCCTGGGCA--GCAGTGGAATAGATTAAAACC-ACAGATCTTAT
1 CTCCCTGAGCATTACAGTGGAGTACATTGAAGCCGGCAGTTC-TAT
* * * * * ** * *
5305 CTCCCTAAGCAGT--AGTGGAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCTGAGCATTACAGTGGAGTACATTGAAGCCGGCAG-TTCTAT
* *
5349 CTCCCTGAG-ATTACAGTGGAGTACATTGAAGCCAGTAGTTCTAT
1 CTCCCTGAGCATTACAGTGGAGTACATTGAAGCCGGCAGTTCTAT
5393 CTCCCTG
1 CTCCCTG
5400 GGCAGTAGTG
Statistics
Matches: 97, Mismatches: 33, Indels: 16
0.66 0.23 0.11
Matches are distributed among these distances:
42 4 0.04
43 42 0.43
44 32 0.33
45 19 0.20
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (45 bp):
CTCCCTGAGCATTACAGTGGAGTACATTGAAGCCGGCAGTTCTAT
Found at i:5269 original size:96 final size:95
Alignment explanation
Indices: 5105--5287 Score: 294
Period size: 96 Copynumber: 1.9 Consensus size: 95
5095 GGGCAGATCA
5105 AATATGGCAGATTTTACCACCCTGAGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
1 AATATGGCAGATTTTACCACCCTGAGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
**
5170 CTGGGTTGGCAGTGGAATAGATTGAAGATTG
66 CTGGG-CAGCAGTGGAATAGATTGAAGATTG
* * * * *
5201 AATATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCTATCTCC
1 AATATGGCAGATTTTACCACCCTGAGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
5266 CTGGGCAGCAGTGGAATAGATT
66 CTGGGCAGCAGTGGAATAGATT
5288 AAAACCACAG
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
95 15 0.19
96 65 0.81
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (95 bp):
AATATGGCAGATTTTACCACCCTGAGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCC
CTGGGCAGCAGTGGAATAGATTGAAGATTG
Found at i:5280 original size:43 final size:43
Alignment explanation
Indices: 5231--5455 Score: 114
Period size: 43 Copynumber: 5.2 Consensus size: 43
5221 CCTGAGATTA
* *
5231 CAGTGGAGTACATTGAAGCCGGTAGTTCTATCTCCCTGGGCAG
1 CAGTGGAGTACATTGAAGCCGGCAGTTCTATCTCCCTGAGCAG
* * * * * * *
5274 CAGTGGAATAGATTAAAACC-ACAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTACATTGAAGCCGGCAGTTC-TATCTCCCTGAGCAG
* * * * ** * * *
5317 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAG-ATTA
1 CAGTGGAGTACATTGAAGCCGGCAG-TTCTATCTCCCTGAGCA--G
* * *
5362 CAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAG
1 CAGTGGAGTACATTGAAGCCGGCAGTTCTATCTCCCTGAGCAG
* * * * * * * *
5405 TAGTGGAATAGATTAAAACC-ACAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTACATTGAAGCCGGCAGTTC-TATCTCCCTGAGCAG
*
5448 TAGTGGAG
1 CAGTGGAG
5456 CAGATCGAAG
Statistics
Matches: 129, Mismatches: 46, Indels: 14
0.68 0.24 0.07
Matches are distributed among these distances:
42 8 0.06
43 77 0.60
44 25 0.19
45 19 0.15
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (43 bp):
CAGTGGAGTACATTGAAGCCGGCAGTTCTATCTCCCTGAGCAG
Found at i:5676 original size:263 final size:262
Alignment explanation
Indices: 5195--5681 Score: 735
Period size: 263 Copynumber: 1.9 Consensus size: 262
5185 AATAGATTGA
* * * * *** *
5195 AGATTGAATATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCT
1 AGATCGAAGATGGCAGATTTTACCTCCATGAGATTACAGTGGAGTACATTGAAGCCAAAAATTCT
* *
5260 ATCTCCCTGGGCAGCAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAG
66 ATCTCCCTGGGCAACAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAG
* *
5325 CAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTC
131 CAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTAGAGTACATTGAAACCAGTAGTTC
* **
5390 TATCTCCCTGGGCAGTAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGA
196 TATCTCCCTGGACAACAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGA
5455 GC
261 GC
* *
5457 AGATCGAAGATGGCAGATTTTACCTCCATGTGGTTACAGTGGAGTACATTGAAGCCAAAAATTCT
1 AGATCGAAGATGGCAGATTTTACCTCCATGAGATTACAGTGGAGTACATTGAAGCCAAAAATTCT
* **
5522 A-CTTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGG
66 ATC-TCCCTGGGCAACAGTGGAATAGATT-AAAACCACAGATCTTATCTCCCTAAGCAATAGTGG
* *
5586 AGCAGATCGAAGATGGCGGATTTTACCTCTCTGAGATTACAGTAGAGTACATTGAAACCAGTAGT
129 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTAGAGTACATTGAAACCAGTAGT
5651 TCTA-CTTCCCTGGACAACAGTGGAATAGATT
194 TCTATC-TCCCTGGACAACAGTGGAATAGATT
5682 GAAGAGCAGA
Statistics
Matches: 200, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
261 1 0.00
262 81 0.41
263 118 0.59
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (262 bp):
AGATCGAAGATGGCAGATTTTACCTCCATGAGATTACAGTGGAGTACATTGAAGCCAAAAATTCT
ATCTCCCTGGGCAACAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAG
CAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTAGAGTACATTGAAACCAGTAGTTC
TATCTCCCTGGACAACAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGA
GC
Found at i:5686 original size:132 final size:131
Alignment explanation
Indices: 5195--5681 Score: 735
Period size: 131 Copynumber: 3.7 Consensus size: 131
5185 AATAGATTGA
* * * *
5195 AGATTGAATATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCT
*
5260 ATCTCCCTGGGCAGCAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAG
66 ATCTCCCTGGGCAACAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAG
5325 C
131 C
5326 AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCT
**
5391 ATCTCCCTGGGCAGTAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAG
66 ATCTCCCTGGGCAACAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAG
5456 C
131 C
* * * ** *
5457 AGATCGAAGATGGCAGATTTTACCTCCATGTGGTTACAGTGGAGTACATTGAAGCCAAAAATTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCT
* ** *
5522 A-CTTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGG
66 ATC-TCCCTGGGCAACAGTGGAATAGATT-AAAACCACAGATCTTATCTCCCTAAGCAGTAGTGG
5586 AGC
129 AGC
* * * *
5589 AGATCGAAGATGGCGGATTTTACCTCTCTGAGATTACAGTAGAGTACATTGAAACCAGTAGTTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCT
*
5654 A-CTTCCCTGGACAACAGTGGAATAGATT
66 ATC-TCCCTGGGCAACAGTGGAATAGATT
5682 GAAGAGCAGA
Statistics
Matches: 326, Mismatches: 28, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
130 1 0.00
131 209 0.64
132 116 0.36
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (131 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCT
ATCTCCCTGGGCAACAGTGGAATAGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAG
C
Done.