Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01013157.1 Corchorus olitorius cultivar O-4 contig13190, 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: 85792
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:4196 original size:27 final size:26
Alignment explanation
Indices: 4164--4241 Score: 113
Period size: 25 Copynumber: 3.0 Consensus size: 26
4154 GCATTAGGGT
*
4164 CATCCAGGGGTATTTTGGTCATTTGCA
1 CATCCAGGGGCATTTTGGTCATTT-CA
*
4191 CGTCCAGGGGCATTTTGGTCA-TTCA
1 CATCCAGGGGCATTTTGGTCATTTCA
*
4216 CATTCAGGGGCATTTTGGTCATTTCA
1 CATCCAGGGGCATTTTGGTCATTTCA
4242 ACTTCACTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
25 21 0.46
26 6 0.13
27 19 0.41
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.36
Consensus pattern (26 bp):
CATCCAGGGGCATTTTGGTCATTTCA
Found at i:4673 original size:2 final size:2
Alignment explanation
Indices: 4666--4691 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4656 TTAGCATTGC
4666 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4692 TGGAAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13164 original size:16 final size:16
Alignment explanation
Indices: 13143--13177 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13133 ACAATTCAGA
13143 AAGCAGAAAAACTCTG
1 AAGCAGAAAAACTCTG
*
13159 AAGCAGAAAAGCTCTG
1 AAGCAGAAAAACTCTG
13175 AAG
1 AAG
13178 TATTTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (16 bp):
AAGCAGAAAAACTCTG
Found at i:13330 original size:41 final size:41
Alignment explanation
Indices: 13273--13468 Score: 234
Period size: 41 Copynumber: 4.7 Consensus size: 41
13263 TTTTCGTATG
*
13273 TTCAAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAA
1 TTCAAGACCAAGTCATCGAGACCCTTGAATTAAATTATCAA
***
13314 TTCAAGATTGAGTCATCGAGACCCTTGAATTAAATTATCAA
1 TTCAAGACCAAGTCATCGAGACCCTTGAATTAAATTATCAA
* *
13355 TTCAAGAACAAGTCATCGAGACCCTTGAATCGAATTATTATCAA
1 TTCAAGACCAAGTCATCGAGACCCTTGAAT-TAA--ATTATCAA
** * * *
13399 TTCAAGACCAAGTTGTCAAGACCCTTGAATTAGATTGTCAA
1 TTCAAGACCAAGTCATCGAGACCCTTGAATTAAATTATCAA
*
13440 TTCAAGACTAAGTCATTC--GACCCTTGAAT
1 TTCAAGACCAAGTCA-TCGAGACCCTTGAAT
13469 CAAGTCAAAT
Statistics
Matches: 135, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
40 11 0.08
41 85 0.63
42 4 0.03
43 1 0.01
44 34 0.25
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (41 bp):
TTCAAGACCAAGTCATCGAGACCCTTGAATTAAATTATCAA
Found at i:13441 original size:85 final size:83
Alignment explanation
Indices: 13273--13469 Score: 240
Period size: 85 Copynumber: 2.4 Consensus size: 83
13263 TTTTCGTATG
* * *** *
13273 TTCAAGATCAAGTCATCGAGACCCTTGAAT-TAAATTATCAATTCAAGATTGAGTCATCGAGACC
1 TTCAAGAACAAGTCATCGAGACCCTTGAATCGAAATTATCAATTCAAGACCAAGTCATCAAGACC
13337 CTTGAATTAAATTATCAA
66 CTTGAATTAAATTATCAA
**
13355 TTCAAGAACAAGTCATCGAGACCCTTGAATCGAATTATTATCAATTCAAGACCAAGTTGTCAAGA
1 TTCAAGAACAAGTCATCGAGACCCTTGAATCGAA--ATTATCAATTCAAGACCAAGTCATCAAGA
* *
13420 CCCTTGAATTAGATTGTCAA
64 CCCTTGAATTAAATTATCAA
13440 TTCAAG-ACTAAGTCATTC--GACCCTTGAATC
1 TTCAAGAAC-AAGTCA-TCGAGACCCTTGAATC
13470 AAGTCAAATC
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
82 29 0.29
83 2 0.02
84 14 0.14
85 53 0.53
86 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.29
Consensus pattern (83 bp):
TTCAAGAACAAGTCATCGAGACCCTTGAATCGAAATTATCAATTCAAGACCAAGTCATCAAGACC
CTTGAATTAAATTATCAA
Found at i:14435 original size:400 final size:399
Alignment explanation
Indices: 13696--14481 Score: 1401
Period size: 400 Copynumber: 2.0 Consensus size: 399
13686 GTTACAAATG
* *
13696 TTGGCACACCCAGTGGGACAATCTTTGTCTCTCATCTCTTTTCCTGAAAATTCAAATCATCAAAA
1 TTGGCACACCCAGTGGGACAATCTTTGTCTCTCATCTATTTTCCTGAAAACTCAAATCATCAAAA
13761 ATTTTGATGCTTCGTTGGAGGAACAAGTTGCATCCCTCGCTAAACTGTGGAATCACTAGCCAACA
66 ATTTTGATGCTTCGTTGGAGGAACAAGTTGCATCCCTCGCTAAACTGTGGAATCACTAGCCAACA
*
13826 ACATCAAAGAAAAGAATGAACAGATTTCCTTTCTAATGATAAAAGTTGATGAGAATAAAGGCAAA
131 ACATCAAAGAAAAGAATGAACAAATTTCCTTTCTAATGATAAAAGTTGATGAGAATAAAGGCAAA
*
13891 GACAAGCGTCAAGTTCTCCAACATGTTGATGAAAATGCTGCTGAAAACAGTATCAAGAGAAATGT
196 GACAAGCGTCAAGTTCTCCAACAAGTTGATGAAAATGCTGCTGAAAACAGTATCAAGAGAAATGT
* *
13956 ACAAGAATTTGATGAAAATTCCTCCAAAATTGATGCAGAAGATCTTCAAAGTATTTCTTCTGATC
261 ACAAGAATTTGATGAAAATTCCACCAAAATTGATGCAGAAGATCTTCAAAGTATTTCTTATGATC
14021 AAATCAAGGAGCTCATCAAAGAGGCAATCAAAGATCAAGCCGAAAACATTGCTCCTATTTCTTCT
326 AAATCAAGGAGCTCATCAAAGAGGCAATCAAAGATCAAGCCGAAAACATTGCTCCTATTTCTTCT
14086 GAAAAATTT
391 GAAAAATTT
14095 TTGGCACACCCAGTGGGACAATCTTTGTCTCTCATCTATTTTCCTGAAAACTCAAATCATCAAAA
1 TTGGCACACCCAGTGGGACAATCTTTGTCTCTCATCTATTTTCCTGAAAACTCAAATCATCAAAA
* * ** *
14160 TTTTTGATGGCTTCGTTGGAGGAACAAGTTGCTTTTCTCGCTAAACTGTGGAATCATTAGCCAAC
66 ATTTTGAT-GCTTCGTTGGAGGAACAAGTTGCATCCCTCGCTAAACTGTGGAATCACTAGCCAAC
* *
14225 AACATCAAAGAAAAGGATGAACAAATTTCCTTTCTAATGATAAAAGTTGCTGAGAATAAAGGCAA
130 AACATCAAAGAAAAGAATGAACAAATTTCCTTTCTAATGATAAAAGTTGATGAGAATAAAGGCAA
* *
14290 ATACAAGCGTCAAGTTCTCCAACAAGTTGATGAAAATGCTGTTGAAAACAGTATCAAGAGAAATG
195 AGACAAGCGTCAAGTTCTCCAACAAGTTGATGAAAATGCTGCTGAAAACAGTATCAAGAGAAATG
*
14355 TTCAAGAATTTGATGAAAATTCCACCAAAATTGATGCAGAAGATCTTCAAAGTATTTCTTATGAT
260 TACAAGAATTTGATGAAAATTCCACCAAAATTGATGCAGAAGATCTTCAAAGTATTTCTTATGAT
* *
14420 CAAATCAAGGAGCTCATCAAAGAGTCAATCAAAGATCAAGCCGAAAACATTGCTCCTCTTTC
325 CAAATCAAGGAGCTCATCAAAGAGGCAATCAAAGATCAAGCCGAAAACATTGCTCCTATTTC
14482 CTACACTTAT
Statistics
Matches: 368, Mismatches: 18, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
399 70 0.19
400 298 0.81
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (399 bp):
TTGGCACACCCAGTGGGACAATCTTTGTCTCTCATCTATTTTCCTGAAAACTCAAATCATCAAAA
ATTTTGATGCTTCGTTGGAGGAACAAGTTGCATCCCTCGCTAAACTGTGGAATCACTAGCCAACA
ACATCAAAGAAAAGAATGAACAAATTTCCTTTCTAATGATAAAAGTTGATGAGAATAAAGGCAAA
GACAAGCGTCAAGTTCTCCAACAAGTTGATGAAAATGCTGCTGAAAACAGTATCAAGAGAAATGT
ACAAGAATTTGATGAAAATTCCACCAAAATTGATGCAGAAGATCTTCAAAGTATTTCTTATGATC
AAATCAAGGAGCTCATCAAAGAGGCAATCAAAGATCAAGCCGAAAACATTGCTCCTATTTCTTCT
GAAAAATTT
Found at i:16455 original size:16 final size:16
Alignment explanation
Indices: 16434--16468 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
16424 ACAATTCAGA
16434 AAGCAGAAAAGCTTTG
1 AAGCAGAAAAGCTTTG
16450 AAGCAGAAAAGCTTTG
1 AAGCAGAAAAGCTTTG
16466 AAG
1 AAG
16469 TATTTTCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.26, T:0.17
Consensus pattern (16 bp):
AAGCAGAAAAGCTTTG
Found at i:16609 original size:41 final size:41
Alignment explanation
Indices: 16564--16764 Score: 226
Period size: 41 Copynumber: 4.9 Consensus size: 41
16554 TTTTCGTTTG
* *
16564 TTCAAGATCTAGTCATCGAGACCCTTGAATTAAATTATCAA
1 TTCAAGACCAAGTCATCGAGACCCTTGAATTAAATTATCAA
*** *
16605 TTCAAGATTGAGCCATCGAGACCCTTGAATTAAATTATCAA
1 TTCAAGACCAAGTCATCGAGACCCTTGAATTAAATTATCAA
* * *
16646 TTCAAAAACAAGTCATCGAGACCCTTGAATCGAATTATTATCAA
1 TTCAAGACCAAGTCATCGAGACCCTTGAAT-TAA--ATTATCAA
* * * *
16690 TTCAAGACCAAGTCGTCAAGACCCTTGAATTAGATTGTCAA
1 TTCAAGACCAAGTCATCGAGACCCTTGAATTAAATTATCAA
*
16731 TTCAAGACCAAGTCATTC--GACCCTTGAATCAAAT
1 TTCAAGACCAAGTCA-TCGAGACCCTTGAATTAAAT
16765 CAAATCAAAC
Statistics
Matches: 137, Mismatches: 19, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
40 14 0.10
41 84 0.61
42 4 0.03
43 1 0.01
44 34 0.25
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.28
Consensus pattern (41 bp):
TTCAAGACCAAGTCATCGAGACCCTTGAATTAAATTATCAA
Found at i:16731 original size:85 final size:83
Alignment explanation
Indices: 16574--16764 Score: 228
Period size: 85 Copynumber: 2.3 Consensus size: 83
16564 TTCAAGATCT
* *** *
16574 AGTCATCGAGACCCTTGAAT-TAAATTATCAATTCAAGATTGAGCCATCGAGACCCTTGAATTAA
1 AGTCATCGAGACCCTTGAATCGAAATTATCAATTCAAGACCAAGCCATCAAGACCCTTGAATTAA
16638 ATTATCAATTCAAAAACA
66 ATTATCAATTCAAAAACA
* *
16656 AGTCATCGAGACCCTTGAATCGAATTATTATCAATTCAAGACCAAGTCGTCAAGACCCTTGAATT
1 AGTCATCGAGACCCTTGAATCGAA--ATTATCAATTCAAGACCAAGCCATCAAGACCCTTGAATT
* * * *
16721 AGATTGTCAATTCAAGACCA
64 AAATTATCAATTCAAAAACA
16741 AGTCATTC--GACCCTTGAATC-AAAT
1 AGTCA-TCGAGACCCTTGAATCGAAAT
16765 CAAATCAAAC
Statistics
Matches: 94, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
81 2 0.02
82 20 0.21
83 4 0.04
84 12 0.13
85 54 0.57
86 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (83 bp):
AGTCATCGAGACCCTTGAATCGAAATTATCAATTCAAGACCAAGCCATCAAGACCCTTGAATTAA
ATTATCAATTCAAAAACA
Found at i:19762 original size:18 final size:18
Alignment explanation
Indices: 19738--19791 Score: 76
Period size: 18 Copynumber: 3.0 Consensus size: 18
19728 TTACGTTTGT
19738 GGTAGTTTTTTCTAAATGA
1 GGTAGTTTTTT-TAAATGA
19757 -GTAGTTTTTTTTAAAT-A
1 GGTAG-TTTTTTTAAATGA
19774 GGTAGTTTTTTTAAATGA
1 GGTAGTTTTTTTAAATGA
19792 TATAAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 12 0.38
18 14 0.44
19 6 0.19
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.52
Consensus pattern (18 bp):
GGTAGTTTTTTTAAATGA
Found at i:19782 original size:17 final size:16
Alignment explanation
Indices: 19737--19790 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 16
19727 ATTACGTTTG
19737 TGGTAGTTTTTTCTAAA
1 TGGTAGTTTTTT-TAAA
19754 TGAGTAGTTTTTTTTAAA
1 TG-GTAG-TTTTTTTAAA
19772 TAGGTAGTTTTTTTAAA
1 T-GGTAGTTTTTTTAAA
19789 TG
1 TG
19791 ATATAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 1 0.03
17 13 0.38
18 13 0.38
19 7 0.21
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.54
Consensus pattern (16 bp):
TGGTAGTTTTTTTAAA
Found at i:22682 original size:17 final size:17
Alignment explanation
Indices: 22642--22682 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
22632 GTACCCAAAA
22642 TTTCGGGTCATTTCTGG
1 TTTCGGGTCATTTCTGG
*
22659 GTT-GGGTCAGTTTC-GG
1 TTTCGGGTCA-TTTCTGG
22675 TTTCGGGT
1 TTTCGGGT
22683 TGGGCGGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.05, C:0.15, G:0.37, T:0.44
Consensus pattern (17 bp):
TTTCGGGTCATTTCTGG
Found at i:32385 original size:35 final size:35
Alignment explanation
Indices: 32314--32778 Score: 530
Period size: 36 Copynumber: 13.2 Consensus size: 35
32304 AATTCCAAAA
* *
32314 TGATCCGGGGCGATCTTTCCTTCAATTTATTTCAGT
1 TGATCCAGGGCGATCTTT-CTTCAGTTTATTTCAGT
*
32350 TGATCCAGGGCGATCTTTCTTTAGTTTATTTCAGT
1 TGATCCAGGGCGATCTTTCTTCAGTTTATTTCAGT
32385 TGATCCAGGGCGATCTTTCTTCAGTTTA--T---T
1 TGATCCAGGGCGATCTTTCTTCAGTTTATTTCAGT
* * *
32415 TGACCCAGGGCGGTCTTTCTTCAATTTATTTCAGT
1 TGATCCAGGGCGATCTTTCTTCAGTTTATTTCAGT
* * * *
32450 TGACCCAGGGCGGTCTTTCTTCAATTCATTTCAGT
1 TGATCCAGGGCGATCTTTCTTCAGTTTATTTCAGT
* * * *
32485 TGACCCAGGGCGGTCTTTCTTCAATTCATTTCAGT
1 TGATCCAGGGCGATCTTTCTTCAGTTTATTTCAGT
* * * *
32520 TGGTCCAGGGCAATCCTTCCTTCAATTTATTTCAGT
1 TGATCCAGGGCGAT-CTTTCTTCAGTTTATTTCAGT
* * *
32556 CGATCC-GAGGCGATCTTTTCTTCAATTTATTTCAGC
1 TGATCCAG-GGCGATC-TTTCTTCAGTTTATTTCAGT
*
32592 TGATCCAGGGCGATCTTT-TATGCAGTCTATTTCAGT
1 TGATCCAGGGCGATCTTTCT-T-CAGTTTATTTCAGT
32628 TGATCCAGGGCGATCTTTCCTTCAGTTTATTTCAGT
1 TGATCCAGGGCGATCTTT-CTTCAGTTTATTTCAGT
* * *
32664 TGATCCAGGGTGATCTTTTCTTCGGTTTATTTCAGG
1 TGATCCAGGGCGATC-TTTCTTCAGTTTATTTCAGT
* * *
32700 TGATCCAGGGCGATCTTTTCTACAGTCTATTTGAGT
1 TGATCCAGGGCGATC-TTTCTTCAGTTTATTTCAGT
*
32736 TGATCCAGGGCGATCTTTCTTCAGTTTGTTTCAGT
1 TGATCCAGGGCGATCTTTCTTCAGTTTATTTCAGT
*
32771 TGACCCAG
1 TGATCCAG
32779 TTTAAATGTC
Statistics
Matches: 377, Mismatches: 38, Indels: 29
0.85 0.09 0.07
Matches are distributed among these distances:
30 26 0.07
32 1 0.00
33 1 0.00
34 1 0.00
35 151 0.40
36 191 0.51
37 5 0.01
38 1 0.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.40
Consensus pattern (35 bp):
TGATCCAGGGCGATCTTTCTTCAGTTTATTTCAGT
Found at i:32441 original size:26 final size:27
Alignment explanation
Indices: 32384--32441 Score: 64
Period size: 30 Copynumber: 2.1 Consensus size: 27
32374 TTTATTTCAG
*
32384 TTGATCCAGGGCGATCTTTCTTCAGTTTAT
1 TTGACCCAGGGCGATCTTTCTTCA---TAT
*
32414 TTGACCCAGGGCGGTCTTTCTTCA-AT
1 TTGACCCAGGGCGATCTTTCTTCATAT
32440 TT
1 TT
32442 ATTTCAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 4 0.15
30 22 0.85
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (27 bp):
TTGACCCAGGGCGATCTTTCTTCATAT
Found at i:33333 original size:38 final size:38
Alignment explanation
Indices: 33282--33465 Score: 287
Period size: 38 Copynumber: 4.8 Consensus size: 38
33272 TACTTTGTTA
*
33282 ATTTCGATCCTGGTTTAGGGTCATTGCTTTATCAGTTT
1 ATTTCGATCCTGGTTTAGGATCATTGCTTTATCAGTTT
*
33320 ATTTCGATCCTGGTTTAGGATCATTGCTTTATCGGTTT
1 ATTTCGATCCTGGTTTAGGATCATTGCTTTATCAGTTT
** *
33358 ATTTAAATCCTGGTTGAGGATCATTGCTTTATCAGTTT
1 ATTTCGATCCTGGTTTAGGATCATTGCTTTATCAGTTT
*
33396 ATTTCGATCCTGGTTTAGGATCATTGCTTTATCGGTTT
1 ATTTCGATCCTGGTTTAGGATCATTGCTTTATCAGTTT
** *
33434 ATTTAAATCCTGGTTGAGGATCATTGCTTTAT
1 ATTTCGATCCTGGTTTAGGATCATTGCTTTAT
33466 TTTAATCCTG
Statistics
Matches: 133, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 133 1.00
ACGTcount: A:0.19, C:0.15, G:0.20, T:0.46
Consensus pattern (38 bp):
ATTTCGATCCTGGTTTAGGATCATTGCTTTATCAGTTT
Found at i:33414 original size:76 final size:76
Alignment explanation
Indices: 33288--33465 Score: 338
Period size: 76 Copynumber: 2.3 Consensus size: 76
33278 GTTAATTTCG
* *
33288 ATCCTGGTTTAGGGTCATTGCTTTATCAGTTTATTTCGATCCTGGTTTAGGATCATTGCTTTATC
1 ATCCTGGTTGAGGATCATTGCTTTATCAGTTTATTTCGATCCTGGTTTAGGATCATTGCTTTATC
33353 GGTTTATTTAA
66 GGTTTATTTAA
33364 ATCCTGGTTGAGGATCATTGCTTTATCAGTTTATTTCGATCCTGGTTTAGGATCATTGCTTTATC
1 ATCCTGGTTGAGGATCATTGCTTTATCAGTTTATTTCGATCCTGGTTTAGGATCATTGCTTTATC
33429 GGTTTATTTAA
66 GGTTTATTTAA
33440 ATCCTGGTTGAGGATCATTGCTTTAT
1 ATCCTGGTTGAGGATCATTGCTTTAT
33466 TTTAATCCTG
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 100 1.00
ACGTcount: A:0.19, C:0.15, G:0.20, T:0.46
Consensus pattern (76 bp):
ATCCTGGTTGAGGATCATTGCTTTATCAGTTTATTTCGATCCTGGTTTAGGATCATTGCTTTATC
GGTTTATTTAA
Found at i:33467 original size:30 final size:30
Alignment explanation
Indices: 33431--33582 Score: 250
Period size: 30 Copynumber: 5.1 Consensus size: 30
33421 GCTTTATCGG
*
33431 TTTATTTAAATCCTGGTTGAGGATCATTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
33461 TTTATTTTAATCCTGGTTGAGGATCATTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
* *
33491 TTTATTTTAGTCCTGGTTTAGGATCATTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
* *
33521 TCTATTTTAATCTTGGTTGAGGATCATTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
*
33551 TTTATTTTAATCCTGGTTTAGGATCATTGC
1 TTTATTTTAATCCTGGTTGAGGATCATTGC
33581 TT
1 TT
33583 CATCAGCTAA
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 112 1.00
ACGTcount: A:0.20, C:0.13, G:0.19, T:0.48
Consensus pattern (30 bp):
TTTATTTTAATCCTGGTTGAGGATCATTGC
Found at i:39437 original size:27 final size:27
Alignment explanation
Indices: 39373--39498 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
39363 AATGAATTGA
* *
39373 AAATGACCAAAATGCCCCTGAAC-TAC
1 AAATGACTAAAATGCCCCTGAACGTGC
* ** *
39399 AAATGACCAAAACACCCCTGAATGTGC
1 AAATGACTAAAATGCCCCTGAACGTGC
*
39426 AAATGACTAAAATGCCCCTGAACATGC
1 AAATGACTAAAATGCCCCTGAACGTGC
39453 AAATGACTAAAATGCCCCTGAACGTGC
1 AAATGACTAAAATGCCCCTGAACGTGC
*
39480 AAATGACTAACATGCCCCT
1 AAATGACTAAAATGCCCCT
39499 TATGTGACCC
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 20 0.23
27 68 0.77
ACGTcount: A:0.40, C:0.29, G:0.14, T:0.17
Consensus pattern (27 bp):
AAATGACTAAAATGCCCCTGAACGTGC
Found at i:42678 original size:294 final size:293
Alignment explanation
Indices: 42262--42841 Score: 878
Period size: 295 Copynumber: 2.0 Consensus size: 293
42252 TTAGTGACTA
* * * *
42262 TGGAAATTACTTAAAGGCCAAATTGAGGATTAATGTGGTGCCTTCTTTTGGCTTTTTTTGGTCTT
1 TGGAAATTACTAAAAGGCCAAATTGAGAATTAATGCGGTGCCTTCTTTTGGCTTTTTTTGGTCTA
* *
42327 TTCTCACTTTTCAGGTGACTAAAAAGGCCCTTGATAAATTTCCTCCCTTACTTTTCCTCCTGCCC
66 TTCTCAATTTTCAGGTGACTAAAAAGGCCCTCGATAAATTTCCTCCCTTACTTTTCCTCCTGCCC
* **
42392 TTTTTTGTAATTTACTATTTTTGTA-TTATGATTAAGTGTGTTTTAATTATGTATTAATTGTGTG
131 TTTTTTGTAATTTACTATTTTTATATTTATGATTAAGTGTGTTTTAATTACATATTAATTGTGTG
* *
42456 TGGATATTAGGATTTACC-GATTCAACTCCTCTGCTGGAATTCCAAAGGATTGGTGCTATAAATG
196 TGGATATTAGGATTTACCAG-TTCAACTCCTCTGCCGGAATTCCAAAGGATTAGTGCTATAAATG
42520 TATCTACCCGACTTCATTAATTTAACAGTTGTTT
260 TATCTACCCGACTTCATTAATTTAACAGTTGTTT
*
42554 TGGAAATTACCTAAAAGGCCAAATTGAGAATTAATGCGGTG-CTTCCTTTTGGCTTTTTTTTTGT
1 TGGAAATTA-CTAAAAGGCCAAATTGAGAATTAATGCGGTGCCTT-CTTTTGGC-TTTTTTTGGT
* * * * *
42618 CTATTCTCAATTTTCGGGTGACTAAAAAGGTCCTCGATGAATTTTCTCCCTTACTTTTCCTGCTG
63 CTATTCTCAATTTTCAGGTGACTAAAAAGGCCCTCGATAAATTTCCTCCCTTACTTTTCCTCCTG
* *
42683 GCCTTTTTTGTAATTTACTATTTTTATATTTATGATTAAGTGTGTTTTAATTACATATTGATTGT
128 CCCTTTTTTGTAATTTACTATTTTTATATTTATGATTAAGTGTGTTTTAATTACATATTAATTGT
* * *
42748 GTGTGGATATTAGGATTTATCAGTTCAACTCCTTTGCCGGAATTCCAAAGGATTAGTGCTGTAAA
193 GTGTGGATATTAGGATTTACCAGTTCAACTCCTCTGCCGGAATTCCAAAGGATTAGTGCTATAAA
* * *
42813 TGTGTTTACCCGAGTTCATTAATTTAACA
258 TGTATCTACCCGACTTCATTAATTTAACA
42842 ATTGCAATCA
Statistics
Matches: 258, Mismatches: 25, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
292 12 0.05
293 36 0.14
294 92 0.36
295 117 0.45
296 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (293 bp):
TGGAAATTACTAAAAGGCCAAATTGAGAATTAATGCGGTGCCTTCTTTTGGCTTTTTTTGGTCTA
TTCTCAATTTTCAGGTGACTAAAAAGGCCCTCGATAAATTTCCTCCCTTACTTTTCCTCCTGCCC
TTTTTTGTAATTTACTATTTTTATATTTATGATTAAGTGTGTTTTAATTACATATTAATTGTGTG
TGGATATTAGGATTTACCAGTTCAACTCCTCTGCCGGAATTCCAAAGGATTAGTGCTATAAATGT
ATCTACCCGACTTCATTAATTTAACAGTTGTTT
Found at i:43549 original size:16 final size:15
Alignment explanation
Indices: 43524--43566 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
43514 GTCAAATTTG
43524 AAGAAAAAAACGAAAA
1 AAGAAAAAAA-GAAAA
*
43540 AAGAAGAAAAGAAAA
1 AAGAAAAAAAGAAAA
43555 AATGGAAAAAAA
1 AA--GAAAAAAA
43567 TCAGAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 7 0.30
16 9 0.39
17 7 0.30
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.02
Consensus pattern (15 bp):
AAGAAAAAAAGAAAA
Found at i:60223 original size:59 final size:59
Alignment explanation
Indices: 60151--60262 Score: 206
Period size: 59 Copynumber: 1.9 Consensus size: 59
60141 ACGTATATAG
*
60151 AGAAGCCATGTATAAGAAATAAAGAAGCTCAGAAACCTTGTTTTTTGAAACCTAGAACT
1 AGAAGCCATGTATAAGAAATAAAGAAGCTCAGAAACCTTGTCTTTTGAAACCTAGAACT
*
60210 AGAAGCCATGTATAAGAAATAAAGAAGCTCAGAAACTTTGTCTTTTGAAACCT
1 AGAAGCCATGTATAAGAAATAAAGAAGCTCAGAAACCTTGTCTTTTGAAACCT
60263 TTCCTGATTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (59 bp):
AGAAGCCATGTATAAGAAATAAAGAAGCTCAGAAACCTTGTCTTTTGAAACCTAGAACT
Found at i:65860 original size:19 final size:19
Alignment explanation
Indices: 65836--65873 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
65826 GTTCTTGGTG
65836 GAATGTTGTAATAAAGCCC
1 GAATGTTGTAATAAAGCCC
65855 GAATGTTGTAATAAAGCCC
1 GAATGTTGTAATAAAGCCC
65874 ATTCTCTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (19 bp):
GAATGTTGTAATAAAGCCC
Found at i:66521 original size:41 final size:41
Alignment explanation
Indices: 66464--66544 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
66454 CTATGAACTT
66464 GCTTTTGATGGTGGTCGGAACCCTGTTGGTGTTGCTCTTTG
1 GCTTTTGATGGTGGTCGGAACCCTGTTGGTGTTGCTCTTTG
66505 GCTTTTGATGGTGGTCGGAACCCTGTTGGTGTTGCTCTTT
1 GCTTTTGATGGTGGTCGGAACCCTGTTGGTGTTGCTCTTT
66545 TGCCAGCTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.07, C:0.17, G:0.33, T:0.42
Consensus pattern (41 bp):
GCTTTTGATGGTGGTCGGAACCCTGTTGGTGTTGCTCTTTG
Found at i:66683 original size:103 final size:103
Alignment explanation
Indices: 66504--66705 Score: 350
Period size: 103 Copynumber: 2.0 Consensus size: 103
66494 GTTGCTCTTT
*
66504 GGCTTTTGATGGTGGTCGGAACCCTGTTGGTGTTGCTCTTTTGCCAGCTTCAAACATGTCTGCCT
1 GGCTTTTGATGGTGGTCGGAACCCTGTTGGTGTTGCTCTTTTGCCAGCTTCAAAAATGTCTGCCT
*
66569 GTACGTTATAAGGGTGTCTAAAAATTTGCTGATGCTGC
66 GGACGTTATAAGGGTGTCTAAAAATTTGCTGATGCTGC
* * * *
66607 GGCTTTTGCTGGTGGTTGGAACCCTGTTGGTGTTGTTCTTTTGCCAGCTTCAAAAATGTCTGTCT
1 GGCTTTTGATGGTGGTCGGAACCCTGTTGGTGTTGCTCTTTTGCCAGCTTCAAAAATGTCTGCCT
66672 GGACGTTATAAGGGTGTCTAAAAATTTGCTGATG
66 GGACGTTATAAGGGTGTCTAAAAATTTGCTGATG
66706 TTCCATTTTC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.37
Consensus pattern (103 bp):
GGCTTTTGATGGTGGTCGGAACCCTGTTGGTGTTGCTCTTTTGCCAGCTTCAAAAATGTCTGCCT
GGACGTTATAAGGGTGTCTAAAAATTTGCTGATGCTGC
Found at i:69881 original size:125 final size:128
Alignment explanation
Indices: 69741--69995 Score: 394
Period size: 125 Copynumber: 2.0 Consensus size: 128
69731 TTGTTTAAAC
*
69741 TTTTATAGTTTTACTCAACTAAAAACTCTAATTTTATTTAATTAAATCTAATAT-C-T-T-TA-T
1 TTTTACAGTTTTACTCAACTAAAAACTCTAATTTTATTTAATTAAATCTAATATCCTTATCTATT
69801 GATTTTTACCATTTTACTATTTTAATTAAAAAACTTATATATATATTAGAATTTTTTAAATATAA
66 GATTTTTACCATTTTACTATTTTAATTAAAAAAC-T-TATATATATTAGAATTTTTTAAATATAA
*
69866 TTTTACAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATACCTA
1 TTTTACAGTTTTACTCAACTAAAAACTCTAATTTTATTTAATTAAATCTAATATCCTTAT--CTA
* *
69931 TTTTATTTTTACCATTTTACTATTTTATTTAAAAAACTTATATATATTAGAATTTTTTAAATATA
64 -TTGATTTTTACCATTTTACTATTTTAATTAAAAAACTTATATATATTAGAATTTTTTAAATATA
69996 TTTCTTAAAT
Statistics
Matches: 118, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
125 52 0.44
126 1 0.01
127 1 0.01
128 1 0.01
131 29 0.25
132 1 0.01
133 33 0.28
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (128 bp):
TTTTACAGTTTTACTCAACTAAAAACTCTAATTTTATTTAATTAAATCTAATATCCTTATCTATT
GATTTTTACCATTTTACTATTTTAATTAAAAAACTTATATATATTAGAATTTTTTAAATATAA
Found at i:70017 original size:14 final size:13
Alignment explanation
Indices: 69981--70019 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
69971 TATATATTAG
69981 AATTTTTTAAATA
1 AATTTTTTAAATA
* *
69994 TATTTCTTAAATGA
1 AATTTTTTAAAT-A
70008 AATTTTTTAAAT
1 AATTTTTTAAAT
70020 TTTACAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (13 bp):
AATTTTTTAAATA
Found at i:76432 original size:18 final size:18
Alignment explanation
Indices: 76386--76432 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
76376 AGCTTTCCCT
76386 CAACACAAAA-AAAAAAAA
1 CAACA-AAAAGAAAAAAAA
*
76404 CAACAAGAAGAAAAAAAA
1 CAACAAAAAGAAAAAAAA
76422 C-ACAGAAAAGA
1 CAACA-AAAAGA
76433 GTTAGATTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.77, C:0.15, G:0.09, T:0.00
Consensus pattern (18 bp):
CAACAAAAAGAAAAAAAA
Found at i:78190 original size:40 final size:41
Alignment explanation
Indices: 78107--78439 Score: 424
Period size: 40 Copynumber: 8.4 Consensus size: 41
78097 AGATTTCAAA
*
78107 TTAGGGAAAGATCCCA-CCAGTATTTCTC--AAGTTTTTAAT
1 TTAGGGAAAGATCCCATCCAGT-TTTTTCAAAAGTTTTTAAT
78146 TTAGGGAAAGATCCCA-CCAGTTTTTTCAAAAGTTTTTAAT
1 TTAGGGAAAGATCCCATCCAGTTTTTTCAAAAGTTTTTAAT
*
78186 TTAGGGAAAGATCCCATCCAG--TCTTC-AAAGTTTTTAAT
1 TTAGGGAAAGATCCCATCCAGTTTTTTCAAAAGTTTTTAAT
*
78224 TTAGGGAAAGATCCCATCAAGTTTTTT-AAAAGTTTTTAAT
1 TTAGGGAAAGATCCCATCCAGTTTTTTCAAAAGTTTTTAAT
* *
78264 TTAGGGAAAGATCCCATCAAGTTTTTTTAAAAGTTTTTAAT
1 TTAGGGAAAGATCCCATCCAGTTTTTTCAAAAGTTTTTAAT
*
78305 TTAGGGAAAGATCCCATCCAG--TCTTC-AAAGTTTTTAAT
1 TTAGGGAAAGATCCCATCCAGTTTTTTCAAAAGTTTTTAAT
* * *
78343 TTAGGGAAAGATTCCATCAAG-TTTTTCAGAAG-TTTTAAT
1 TTAGGGAAAGATCCCATCCAGTTTTTTCAAAAGTTTTTAAT
* *
78382 TTAGGGAAAGATCCCATCTAGTCTTTTTTCAAAAGTTTTCAA-
1 TTAGGGAAAGATCCCATCCAG--TTTTTTCAAAAGTTTTTAAT
*
78424 CTAGGGGAAAGATCCC
1 TTA-GGGAAAGATCCC
78440 GTTAAAGATT
Statistics
Matches: 264, Mismatches: 16, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
38 68 0.26
39 58 0.22
40 72 0.27
41 37 0.14
42 12 0.05
43 17 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (41 bp):
TTAGGGAAAGATCCCATCCAGTTTTTTCAAAAGTTTTTAAT
Found at i:78315 original size:119 final size:119
Alignment explanation
Indices: 78092--78439 Score: 499
Period size: 119 Copynumber: 2.9 Consensus size: 119
78082 AAGTTTTCAA
* * * * * *
78092 TTCAAAGATTTCAAATTAGGGAAAGATCCCA-CCAGTATTTCT-CAAGTTTTTAATTTAGGGAAA
1 TTCAAAGTTTTTAATTTAGGGAAAGATCCCATCAAGT-TTTTTAAAAGTTTTTAATTTAGGGAAA
* *
78155 GATCCCA-CCAGTTTTTTCAAAAGTTTTTAATTTAGGGAAAGATCCCATCCAGTC
65 GATCCCATCAAGTTTTTTTAAAAGTTTTTAATTTAGGGAAAGATCCCATCCAGTC
78209 TTCAAAGTTTTTAATTTAGGGAAAGATCCCATCAAGTTTTTTAAAAGTTTTTAATTTAGGGAAAG
1 TTCAAAGTTTTTAATTTAGGGAAAGATCCCATCAAGTTTTTTAAAAGTTTTTAATTTAGGGAAAG
78274 ATCCCATCAAGTTTTTTTAAAAGTTTTTAATTTAGGGAAAGATCCCATCCAGTC
66 ATCCCATCAAGTTTTTTTAAAAGTTTTTAATTTAGGGAAAGATCCCATCCAGTC
* * *
78328 TTCAAAGTTTTTAATTTAGGGAAAGATTCCATCAAGTTTTTCAGAAG-TTTTAATTTAGGGAAAG
1 TTCAAAGTTTTTAATTTAGGGAAAGATCCCATCAAGTTTTTTAAAAGTTTTTAATTTAGGGAAAG
* * *
78392 ATCCCATCTAGTCTTTTTTCAAAAGTTTTCAA-CTAGGGGAAAGATCCC
66 ATCCCATCAAGT-TTTTTT-AAAAGTTTTTAATTTA-GGGAAAGATCCC
78440 GTTAAAGATT
Statistics
Matches: 211, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
117 32 0.15
118 59 0.28
119 97 0.46
120 23 0.11
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (119 bp):
TTCAAAGTTTTTAATTTAGGGAAAGATCCCATCAAGTTTTTTAAAAGTTTTTAATTTAGGGAAAG
ATCCCATCAAGTTTTTTTAAAAGTTTTTAATTTAGGGAAAGATCCCATCCAGTC
Found at i:84303 original size:2 final size:2
Alignment explanation
Indices: 84296--84330 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
84286 TTTTTGTTAG
84296 TA TA TA TA TA TA 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 TA TA T
84331 TGAGTTCCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:85119 original size:58 final size:58
Alignment explanation
Indices: 85029--85398 Score: 650
Period size: 58 Copynumber: 6.3 Consensus size: 58
85019 ATCAGAAGTA
85029 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATG
1 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATG
85087 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATG
1 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATG
*
85145 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGAAGTA
1 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAG-A-TG
* * *
85205 GATCTGAAGACAGTCCCTAAAAGATTTTAAGATTAAGGCTGAAGACAGCTCATAGATG
1 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATG
85263 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATG
1 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATG
* *
85321 GATCTAAAGACAGTTCCTAAAAGATTTTTAAGATTGAGACTGAAGACAGCTCACAGATG
1 GATCTGAAGACAGTTCCTAAAAGA-TTTTAAGATTGAGACTGAAGACAGCTCATAGATG
*
85380 GATCTGAAGACACTTCCTA
1 GATCTGAAGACAGTTCCTA
85399 GGTCAAAATA
Statistics
Matches: 297, Mismatches: 12, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
58 192 0.65
59 52 0.18
60 53 0.18
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (58 bp):
GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATG
Found at i:85265 original size:118 final size:116
Alignment explanation
Indices: 85029--85398 Score: 650
Period size: 118 Copynumber: 3.2 Consensus size: 116
85019 ATCAGAAGTA
85029 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATGGATCTGA
1 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATGGATCTGA
85094 AGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATG
66 AGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATG
*
85145 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGAAGTAGATCT
1 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAG-A-TGGATCT
* * *
85210 GAAGACAGTCCCTAAAAGATTTTAAGATTAAGGCTGAAGACAGCTCATAGATG
64 GAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATG
*
85263 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATGGATCTAA
1 GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATGGATCTGA
*
85328 AGACAGTTCCTAAAAGATTTTTAAGATTGAGACTGAAGACAGCTCACAGATG
66 AGACAGTTCCTAAAAGA-TTTTAAGATTGAGACTGAAGACAGCTCATAGATG
*
85380 GATCTGAAGACACTTCCTA
1 GATCTGAAGACAGTTCCTA
85399 GGTCAAAATA
Statistics
Matches: 240, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
116 78 0.32
117 51 0.21
118 111 0.46
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (116 bp):
GATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATGGATCTGA
AGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATG
Found at i:85316 original size:176 final size:177
Alignment explanation
Indices: 85017--85391 Score: 666
Period size: 176 Copynumber: 2.1 Consensus size: 177
85007 GAGAAAGAAT
* *
85017 TCATCAGAAGTAGATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCAT
1 TCAT-AGAAGTAGATCTGAAGACAGTCCCTAAAAGATTTTAAGATTAAGACTGAAGACAGCTCAT
85082 AGATGGATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATGGA
65 AGATGGATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATGGA
*
85147 TCTGAAGACAGTTCCTAAAAGA-TTTTAAGATTGAGACTGAAGACAGC
130 TCTAAAGACAGTTCCTAAAAGATTTTTAAGATTGAGACTGAAGACAGC
*
85194 TCATAGAAGTAGATCTGAAGACAGTCCCTAAAAGATTTTAAGATTAAGGCTGAAGACAGCTCATA
1 TCATAGAAGTAGATCTGAAGACAGTCCCTAAAAGATTTTAAGATTAAGACTGAAGACAGCTCATA
85259 GATGGATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATGGAT
66 GATGGATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATGGAT
85324 CTAAAGACAGTTCCTAAAAGATTTTTAAGATTGAGACTGAAGACAGC
131 CTAAAGACAGTTCCTAAAAGATTTTTAAGATTGAGACTGAAGACAGC
* *
85371 TCACAG-A-TGGATCTGAAGACA
1 TCATAGAAGTAGATCTGAAGACA
85392 CTTCCTAGGT
Statistics
Matches: 191, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
175 13 0.07
176 144 0.75
177 34 0.18
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (177 bp):
TCATAGAAGTAGATCTGAAGACAGTCCCTAAAAGATTTTAAGATTAAGACTGAAGACAGCTCATA
GATGGATCTGAAGACAGTTCCTAAAAGATTTTAAGATTGAGACTGAAGACAGCTCATAGATGGAT
CTAAAGACAGTTCCTAAAAGATTTTTAAGATTGAGACTGAAGACAGC
Found at i:85451 original size:31 final size:30
Alignment explanation
Indices: 85416--85489 Score: 114
Period size: 29 Copynumber: 2.5 Consensus size: 30
85406 ATACCCTACA
85416 GGTCCCTCTACTTATAAAAAAGGATCAATTT
1 GGTCCCTCTACTTATAAAAAAGG-TCAATTT
**
85447 GGTCCCTCTAC-TATAAAAACTGTCAATTT
1 GGTCCCTCTACTTATAAAAAAGGTCAATTT
85476 GGTCCCTCTACTTA
1 GGTCCCTCTACTTA
85490 CAATTTGGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
29 18 0.45
30 11 0.28
31 11 0.28
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (30 bp):
GGTCCCTCTACTTATAAAAAAGGTCAATTT
Done.