Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015638.1 Corchorus olitorius cultivar O-4 contig15671, 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: 54491
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:375 original size:42 final size:43
Alignment explanation
Indices: 328--418 Score: 130
Period size: 45 Copynumber: 2.1 Consensus size: 43
318 CATTACCTAC
* * *
328 ATTCTA-CTCCATCTCTAGGTAATTCATCAAAATAAAGCTAAT
1 ATTCTACCTCCATCTCTAGATAATTCATCAAAACAAAACTAAT
370 ATTCTACTCCTCCATCTCTAGATAATTCATCAAAACAAAACTAAT
1 ATTCTA--CCTCCATCTCTAGATAATTCATCAAAACAAAACTAAT
415 ATTC
1 ATTC
419 ATTGTTGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 6 0.14
45 37 0.86
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.33
Consensus pattern (43 bp):
ATTCTACCTCCATCTCTAGATAATTCATCAAAACAAAACTAAT
Found at i:3547 original size:2 final size:2
Alignment explanation
Indices: 3540--3597 Score: 82
Period size: 2 Copynumber: 28.5 Consensus size: 2
3530 TAAAGATTTG
*
3540 AT AT AT AT AT AT AC AT AT ACT AGT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T A-T AT AT AT AT AT AT AT AT AT AT
3583 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
3598 CTAGTATTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
1 1 0.02
2 46 0.90
3 4 0.08
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3567 original size:39 final size:39
Alignment explanation
Indices: 3524--3607 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
3514 ATTTTCATTT
*
3524 TATTAT-TAAAGATTTGATATATATATATACATATACTAG
1 TATTATATAAAGATAT-ATATATATATATACATATACTAG
* * *
3563 TATTATATATATATATATATATATATATATATATACTAG
1 TATTATATAAAGATATATATATATATATACATATACTAG
3602 TATTAT
1 TATTAT
3608 GTTCTCATCC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 34 0.85
40 6 0.15
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.48
Consensus pattern (39 bp):
TATTATATAAAGATATATATATATATATACATATACTAG
Found at i:5118 original size:22 final size:23
Alignment explanation
Indices: 5091--5172 Score: 84
Period size: 22 Copynumber: 3.7 Consensus size: 23
5081 AAAACATTCA
5091 TATG-AATTGTT-AGTAATCACAC
1 TATGAAATTGTTGA-TAATCACAC
*
5113 TCTGAAATT-TTGATAATCACAC
1 TATGAAATTGTTGATAATCACAC
* **
5135 TATGAAATTG-TGATAACCTTAC
1 TATGAAATTGTTGATAATCACAC
5157 TATGAAATT-TTGATAA
1 TATGAAATTGTTGATAA
5173 ACCTTCCTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
22 46 0.90
23 5 0.10
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (23 bp):
TATGAAATTGTTGATAATCACAC
Found at i:5182 original size:23 final size:23
Alignment explanation
Indices: 5134--5237 Score: 119
Period size: 23 Copynumber: 4.7 Consensus size: 23
5124 GATAATCACA
* *
5134 CTATGAAATTGTGAT-AACCTTA
1 CTATGAAATTTTGATAAACCTTC
5156 CTATGAAATTTTGATAAACCTTC
1 CTATGAAATTTTGATAAACCTTC
* *
5179 CTATAAAATTTTGATAAACCTCC
1 CTATGAAATTTTGATAAACCTTC
*
5202 CTATAAAATTTTGAT-AACC-T-
1 CTATGAAATTTTGATAAACCTTC
*
5222 C-ATGAAATCTTGATAA
1 CTATGAAATTTTGATAA
5238 CTACAAATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
19 11 0.15
20 2 0.03
22 18 0.25
23 42 0.58
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (23 bp):
CTATGAAATTTTGATAAACCTTC
Found at i:5221 original size:45 final size:45
Alignment explanation
Indices: 5117--5221 Score: 115
Period size: 45 Copynumber: 2.3 Consensus size: 45
5107 TCACACTCTG
* * * *
5117 AAATTTTGATAATC-ACACTATGAAATTGTGATAACCTTACTATG
1 AAATTTTGATAACCTACACTATAAAATTGTGATAACCTCACTATA
* * *
5161 AAATTTTGATAAACCTTC-CTATAAAATTTTGATAAACCTCCCTATA
1 AAATTTTGAT-AACCTACACTATAAAATTGTGAT-AACCTCACTATA
5207 AAATTTTGATAACCT
1 AAATTTTGATAACCT
5222 CATGAAATCT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
44 10 0.20
45 21 0.41
46 20 0.39
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (45 bp):
AAATTTTGATAACCTACACTATAAAATTGTGATAACCTCACTATA
Found at i:5250 original size:16 final size:18
Alignment explanation
Indices: 5207--5254 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
5197 CCTCCCTATA
*
5207 AAATTTTGATAACCTCATG
1 AAATTTTGATAA-CTCATC
*
5226 AAATCTTGATAACT-A-C
1 AAATTTTGATAACTCATC
5242 AAATTTTGATAAC
1 AAATTTTGATAAC
5255 CTCCCAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 12 0.46
17 1 0.04
18 2 0.08
19 11 0.42
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (18 bp):
AAATTTTGATAACTCATC
Found at i:5292 original size:22 final size:22
Alignment explanation
Indices: 5110--5345 Score: 179
Period size: 22 Copynumber: 11.0 Consensus size: 22
5100 TTAGTAATCA
* * *
5110 CACTCTGAAATTTTGATAATCA
1 CACTATGAAATTTTGATAACCT
*
5132 CACTATGAAATTGTGATAACCT
1 CACTATGAAATTTTGATAACCT
*
5154 TACTATGAAATTTTGATAAACCTT
1 CACTATGAAATTTTGAT-AACC-T
*
5178 C-CTATAAAATTTTGATAAACCT
1 CACTATGAAATTTTGAT-AACCT
* *
5200 CCCTATAAAATTTTGATAACCT
1 CACTATGAAATTTTGATAACCT
*
5222 --C-ATGAAATCTTGATAA-CT
1 CACTATGAAATTTTGATAACCT
5240 -AC----AAATTTTGATAACCT
1 CACTATGAAATTTTGATAACCT
* * **
5257 CCCAATGATTTTTTGATAACCT
1 CACTATGAAATTTTGATAACCT
* ** *
5279 CATTATGAAATTTTTTTAATCT
1 CACTATGAAATTTTGATAACCT
* * *
5301 CCCTATGAAATTTTGATCTACAT
1 CACTATGAAATTTTGAT-AACCT
5324 -ACTATGAAATTTTGATAACCT
1 CACTATGAAATTTTGATAACCT
5345 C
1 C
5346 CCCAGAAATA
Statistics
Matches: 170, Mismatches: 32, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
16 11 0.06
17 2 0.01
18 3 0.02
19 14 0.08
20 1 0.01
21 3 0.02
22 95 0.56
23 40 0.24
24 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.39
Consensus pattern (22 bp):
CACTATGAAATTTTGATAACCT
Found at i:5347 original size:44 final size:43
Alignment explanation
Indices: 5115--5507 Score: 176
Period size: 44 Copynumber: 9.3 Consensus size: 43
5105 AATCACACTC
* * * * *
5115 TGAAATTTTGATAATCACACTATGAAATTGTGATAACCTTACTA
1 TGAAATTTTGATAACCTCCCTATGAAATTTTGATAA-CATACTA
* * * *
5159 TGAAATTTTGATAAACCTTCCTATAAAATTTTGATAAACCTCCCTA
1 TGAAATTTTGAT-AACCTCCCTATGAAATTTTGAT-AACAT-ACTA
* *
5205 TAAAATTTTGATAACCT--C-ATGAAATCTTGATAAC-TAC--
1 TGAAATTTTGATAACCTCCCTATGAAATTTTGATAACATACTA
* ** * *
5242 --AAATTTTGATAACCTCCCAATGATTTTTTGATAACCTCATTA
1 TGAAATTTTGATAACCTCCCTATGAAATTTTGATAACAT-ACTA
** * *
5284 TGAAATTTTTTTAATCTCCCTATGAAATTTTGATCTACATACTA
1 TGAAATTTTGATAACCTCCCTATGAAATTTTGAT-AACATACTA
* *
5328 TGAAATTTTGATAACCTCCCCA-G-AA-----AT-AC-CACTA
1 TGAAATTTTGATAACCTCCCTATGAAATTTTGATAACATACTA
* * * ** * * *
5362 TGAAATTTTGGTAATCACATTTTGAAAATTTGATAACCT-CTTTA
1 TGAAATTTTGATAACCTCCCTATGAAATTTTGATAACATAC--TA
* * * *
5406 TGAAATTTTGATAACCTCTCTATAAAATTTTGTTAACCCCT-CTA
1 TGAAATTTTGATAACCTCCCTATGAAATTTTGATAA--CATACTA
* * ** * * * *
5450 TGAAATTTTGATAATCACATTATGTAATTTTGATAACCTCGCTT
1 TGAAATTTTGATAACCTCCCTATGAAATTTTGATAACAT-ACTA
5494 TGAAATTTTGATAA
1 TGAAATTTTGATAA
5508 TAACACTATA
Statistics
Matches: 266, Mismatches: 55, Indels: 56
0.71 0.15 0.15
Matches are distributed among these distances:
34 19 0.07
35 18 0.07
36 2 0.01
37 3 0.01
38 13 0.05
39 2 0.01
40 2 0.01
41 5 0.02
42 19 0.07
43 2 0.01
44 135 0.51
45 26 0.10
46 20 0.08
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (43 bp):
TGAAATTTTGATAACCTCCCTATGAAATTTTGATAACATACTA
Found at i:5409 original size:22 final size:22
Alignment explanation
Indices: 5360--5611 Score: 140
Period size: 22 Copynumber: 11.5 Consensus size: 22
5350 GAAATACCAC
* * *
5360 TATGAAATTTTGGTAATCACATT
1 TATGAAATTTTGATAACCTC-TT
*
5383 T-TGAAAATTTGATAACCTCTT
1 TATGAAATTTTGATAACCTCTT
*
5404 TATGAAATTTTGATAACCTCTC
1 TATGAAATTTTGATAACCTCTT
* * * *
5426 TATAAAATTTTGTTAACCCCTC
1 TATGAAATTTTGATAACCTCTT
* * *
5448 TATGAAATTTTGATAATCACAT
1 TATGAAATTTTGATAACCTCTT
* *
5470 TATGTAATTTTGATAACCTCGCT
1 TATGAAATTTTGATAACCTC-TT
*** **
5493 T-TGAAATTTTGATAATAACAC
1 TATGAAATTTTGATAACCTCTT
* *
5514 TATAAAATTTTGATAATCT-TCT
1 TATGAAATTTTGATAACCTCT-T
* * *
5536 TA-CAAATTTTGATAATCTGATCT
1 TATGAAATTTTGATAACCT-CT-T
* * *
5559 CA-GAAATTTTGATAACCACTC
1 TATGAAATTTTGATAACCTCTT
* *
5580 TATGAGA-TTTGATAACCT-TC
1 TATGAAATTTTGATAACCTCTT
*
5600 TATCAAATTTTG
1 TATGAAATTTTG
5612 GTACTCATTA
Statistics
Matches: 179, Mismatches: 42, Indels: 18
0.75 0.18 0.08
Matches are distributed among these distances:
20 7 0.04
21 34 0.19
22 118 0.66
23 20 0.11
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.42
Consensus pattern (22 bp):
TATGAAATTTTGATAACCTCTT
Found at i:5447 original size:24 final size:22
Alignment explanation
Indices: 5386--5611 Score: 151
Period size: 22 Copynumber: 10.4 Consensus size: 22
5376 TCACATTTTG
*
5386 AAAA-TTTGATAACCTCTTTAT
1 AAAATTTTGATAACCTCTCTAT
*
5407 GAAATTTTGATAACCTCTCTAT
1 AAAATTTTGATAACCTCTCTAT
* *
5429 AAAATTTTGTTAACCCCTCTAT
1 AAAATTTTGATAACCTCTCTAT
* * *
5451 GAAATTTTGATAATCACAT-TAT
1 AAAATTTTGATAACCTC-TCTAT
** * *
5473 GTAATTTTGATAACCTCGCTTT
1 AAAATTTTGATAACCTCTCTAT
* *** *
5495 GAAATTTTGATAATAACACTAT
1 AAAATTTTGATAACCTCTCTAT
*
5517 AAAATTTTGATAATCT-TCT-T
1 AAAATTTTGATAACCTCTCTAT
* *
5537 ACAAATTTTGATAATCTGATCTCA-
1 A-AAATTTTGATAACCT-CTCT-AT
* *
5561 GAAATTTTGATAACCACTCTAT
1 AAAATTTTGATAACCTCTCTAT
* *
5583 GAGA-TTTGATAACCT-TCTAT
1 AAAATTTTGATAACCTCTCTAT
*
5603 CAAATTTTG
1 AAAATTTTG
5612 GTACTCATTA
Statistics
Matches: 163, Mismatches: 32, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
20 9 0.06
21 35 0.21
22 102 0.63
23 17 0.10
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (22 bp):
AAAATTTTGATAACCTCTCTAT
Found at i:5473 original size:66 final size:66
Alignment explanation
Indices: 5384--5531 Score: 170
Period size: 66 Copynumber: 2.2 Consensus size: 66
5374 AATCACATTT
* * * * * * ** *
5384 TGAAAATTTGATAACCTCTTTATGAAATTTTGATAACCTCTCTATAAAATTTTGTTAACCCCTCT
1 TGAAATTTTGATAATCACATTATGAAATTTTGATAACCTCGCTATAAAATTTTGATAACAACACT
5449 A
66 A
* * * *
5450 TGAAATTTTGATAATCACATTATGTAATTTTGATAACCTCGCTTTGAAATTTTGATAATAACACT
1 TGAAATTTTGATAATCACATTATGAAATTTTGATAACCTCGCTATAAAATTTTGATAACAACACT
5515 A
66 A
*
5516 TAAAATTTTGATAATC
1 TGAAATTTTGATAATC
5532 TTCTTACAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (66 bp):
TGAAATTTTGATAATCACATTATGAAATTTTGATAACCTCGCTATAAAATTTTGATAACAACACT
A
Found at i:5508 original size:44 final size:44
Alignment explanation
Indices: 5362--5552 Score: 192
Period size: 44 Copynumber: 4.4 Consensus size: 44
5352 AATACCACTA
* *
5362 TGAAATTTTGGTAATCACATTTTGAAAA-TTTGATAACCTCT-TT
1 TGAAATTTTGATAATCACATTAT-AAAATTTTGATAACCTCTCTT
* * * * *
5405 ATGAAATTTTGATAACCTC-TCTATAAAATTTTGTTAACCCCTCTA
1 -TGAAATTTTGATAATCACAT-TATAAAATTTTGATAACCTCTCTT
** *
5450 TGAAATTTTGATAATCACATTATGTAATTTTGATAACCTCGCTT
1 TGAAATTTTGATAATCACATTATAAAATTTTGATAACCTCTCTT
* * *
5494 TGAAATTTTGATAATAACACTATAAAATTTTGATAATCT-TCTT
1 TGAAATTTTGATAATCACATTATAAAATTTTGATAACCTCTCTT
**
5537 ACAAATTTTGATAATC
1 TGAAATTTTGATAATC
5553 TGATCTCAGA
Statistics
Matches: 119, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
43 21 0.18
44 96 0.81
45 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (44 bp):
TGAAATTTTGATAATCACATTATAAAATTTTGATAACCTCTCTT
Found at i:5517 original size:88 final size:88
Alignment explanation
Indices: 5359--5525 Score: 237
Period size: 88 Copynumber: 1.9 Consensus size: 88
5349 AGAAATACCA
* * * **
5359 CTATGAAATTTTGGTAATCACATTTTGAAAATTTGATAACCTCTTTATGAAATTTTGATAACCTC
1 CTATGAAATTTTGATAATCACATTATGAAAATTTGATAACCTCCTTATGAAATTTTGATAACAAC
*
5424 TCTATAAAATTTTGTTAACCCCT
66 ACTATAAAATTTTGTTAACCCCT
* * *
5447 CTATGAAATTTTGATAATCACATTATGTAATTTTGATAACCTCGCTT-TGAAATTTTGATAATAA
1 CTATGAAATTTTGATAATCACATTATGAAAATTTGATAACCTC-CTTATGAAATTTTGATAACAA
5511 CACTATAAAATTTTG
65 CACTATAAAATTTTG
5526 ATAATCTTCT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
88 67 0.97
89 2 0.03
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.42
Consensus pattern (88 bp):
CTATGAAATTTTGATAATCACATTATGAAAATTTGATAACCTCCTTATGAAATTTTGATAACAAC
ACTATAAAATTTTGTTAACCCCT
Found at i:5544 original size:21 final size:22
Alignment explanation
Indices: 5518--5573 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
5508 TAACACTATA
*
5518 AAATTTTGATAATCT-TCTTAC
1 AAATTTTGATAATCTATCTCAC
*
5539 AAATTTTGATAATCTGATCTCAG
1 AAATTTTGATAATCT-ATCTCAC
5562 AAATTTTGATAA
1 AAATTTTGATAA
5574 CCACTCTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 15 0.48
23 16 0.52
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.43
Consensus pattern (22 bp):
AAATTTTGATAATCTATCTCAC
Found at i:5609 original size:20 final size:21
Alignment explanation
Indices: 5566--5609 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
5556 TCTCAGAAAT
* *
5566 TTTGATAACCACTCTATGAGA
1 TTTGATAACCACTCTATCAAA
*
5587 TTTGATAACC-TTCTATCAAA
1 TTTGATAACCACTCTATCAAA
5607 TTT
1 TTT
5610 TGGTACTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (21 bp):
TTTGATAACCACTCTATCAAA
Found at i:6645 original size:19 final size:19
Alignment explanation
Indices: 6621--6664 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
6611 GGTCGACAAC
6621 CTTTTCGCCCCGTTTTGGT
1 CTTTTCGCCCCGTTTTGGT
6640 CTTTTCGCCCCGTTTTGGT
1 CTTTTCGCCCCGTTTTGGT
6659 CTTTTC
1 CTTTTC
6665 TCCCTGGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.18, T:0.50
Consensus pattern (19 bp):
CTTTTCGCCCCGTTTTGGT
Found at i:12241 original size:158 final size:158
Alignment explanation
Indices: 11953--12263 Score: 568
Period size: 158 Copynumber: 2.0 Consensus size: 158
11943 ATAAATGGTT
** *
11953 ACTTAATTTTTAACAACATTCTGTTTTGGTCATTTAAGTATAAAAACTAATGTTTTGATCACTTA
1 ACTTAATTTTTAACAACATTCTGTTTTGGTCATCCAAGTATAAAAACTAATGTTCTGATCACTTA
12018 TATTTGTCAAATTGAACATTTTAGTCACCAATCAAATTTTATGATGATGTGGCTATGTCACGTGA
66 TATTTGTCAAATTGAACATTTTAGTCACCAATCAAATTTTATGATGATGTGGCTATGTCACGTGA
12083 CATGTCATCAAACATGCAACTTAAGCAA
131 CATGTCATCAAACATGCAACTTAAGCAA
* *
12111 ACTTAATTTTTAACAACTTTTTGTTTTGGTCATCCAAGTATAAAAACTAATGTTCTGATCACTTA
1 ACTTAATTTTTAACAACATTCTGTTTTGGTCATCCAAGTATAAAAACTAATGTTCTGATCACTTA
*
12176 TATTTGTCAAATTGAATATTTTAGTCACCAATCAAATTTTATGATGATGTGGCTATGTCACGTGA
66 TATTTGTCAAATTGAACATTTTAGTCACCAATCAAATTTTATGATGATGTGGCTATGTCACGTGA
12241 CATGTCATCAAACATGCAACTTA
131 CATGTCATCAAACATGCAACTTA
12264 TAAGCAAATT
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
158 147 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (158 bp):
ACTTAATTTTTAACAACATTCTGTTTTGGTCATCCAAGTATAAAAACTAATGTTCTGATCACTTA
TATTTGTCAAATTGAACATTTTAGTCACCAATCAAATTTTATGATGATGTGGCTATGTCACGTGA
CATGTCATCAAACATGCAACTTAAGCAA
Found at i:15780 original size:73 final size:73
Alignment explanation
Indices: 15701--15846 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
15691 ACGAAGATGA
*
15701 ACAAAATGGAATTGAAGATGAACGCAAAAATCATTCGAATGAGGATCATATGAATAATTAATCAA
1 ACAAAATGGAATCGAAGATGAACGCAAAAATCATTCGAATGAGGATCATATGAATAATTAATCAA
15766 CGAAGTTT
66 CGAAGTTT
*
15774 ACAAAATGGAATCGAAGATGAACGTAAAAATCATTCGAATGAGGATCATATGAATAATTAATCAA
1 ACAAAATGGAATCGAAGATGAACGCAAAAATCATTCGAATGAGGATCATATGAATAATTAATCAA
15839 CGAAGTTT
66 CGAAGTTT
15847 TAAACGATAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.25
Consensus pattern (73 bp):
ACAAAATGGAATCGAAGATGAACGCAAAAATCATTCGAATGAGGATCATATGAATAATTAATCAA
CGAAGTTT
Found at i:20670 original size:28 final size:29
Alignment explanation
Indices: 20629--20684 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
20619 AACATATTTC
20629 ACTCCGCGACTGAGTAAAAACT-ACATGG
1 ACTCCGCGACTGAGTAAAAACTAACATGG
* *
20657 ACTCCGCGATTGAGTATAAACTAACATG
1 ACTCCGCGACTGAGTAAAAACTAACATG
20685 ACGAACGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (29 bp):
ACTCCGCGACTGAGTAAAAACTAACATGG
Found at i:21300 original size:240 final size:240
Alignment explanation
Indices: 20868--21347 Score: 845
Period size: 240 Copynumber: 2.0 Consensus size: 240
20858 AGGTATGACC
*
20868 ATCTACCTAACGAAGTTGGACTAAGCTCTATTATGCTCTAAGTAAGCTCTATTATGTGAGATCAC
1 ATCTACCTAACGAAGTTGGACTAAGCTCTATTATGCTCTAACTAAGCTCTATTATGTGAGATCAC
*
20933 CTTCCACACAAACACTCACAAGCACTGAAAGTGGACCTCACTGACTTGACCGTCGGAGGAGGTCC
66 CCTCCACACAAACACTCACAAGCACTGAAAGTGGACCTCACTGACTTGACCGTCGGAGGAGGTCC
20998 CCCCTCAAACACCACAAGGGGACCTCTTTCTAACGGTTTACACTCTTGCAGGCCTCGCTCGGAGC
131 CCCCTCAAACACCACAAGGGGACCTCTTTCTAACGGTTTACACTCTTGCAGGCCTCGCTCGGAGC
*
21063 TCGATCTATGTGATGCTGATCGTCGGTATATTTTTGGCGTCAACA
196 TCGATCTATGTGATGCTGATCGTCGGTATATTTTTGGCATCAACA
*
21108 ATCTACCTAATGAAGTTGGACTAAGCTCTATTATGCTCTAACTAAGCTCTATTATGTGAGATCAC
1 ATCTACCTAACGAAGTTGGACTAAGCTCTATTATGCTCTAACTAAGCTCTATTATGTGAGATCAC
* *
21173 CCTCCACACAAACACTCACAAGTACTGAAAGTGGACCTCACTGGCTTGACCGTCGGAGGAGGTCC
66 CCTCCACACAAACACTCACAAGCACTGAAAGTGGACCTCACTGACTTGACCGTCGGAGGAGGTCC
* * * *
21238 CCTCTCAAACACCACAGGGGGACCTCTTTCTAACGGTTTACTCTCTTGTAGGCC-CTGCTCGGAG
131 CCCCTCAAACACCACAAGGGGACCTCTTTCTAACGGTTTACACTCTTGCAGGCCTC-GCTCGGAG
*
21302 CTCGATCTATGTGATGTTGATCGTCGGTATATTTTTGGCATCAACA
195 CTCGATCTATGTGATGCTGATCGTCGGTATATTTTTGGCATCAACA
21348 TTTATGATAT
Statistics
Matches: 228, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
239 1 0.00
240 227 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (240 bp):
ATCTACCTAACGAAGTTGGACTAAGCTCTATTATGCTCTAACTAAGCTCTATTATGTGAGATCAC
CCTCCACACAAACACTCACAAGCACTGAAAGTGGACCTCACTGACTTGACCGTCGGAGGAGGTCC
CCCCTCAAACACCACAAGGGGACCTCTTTCTAACGGTTTACACTCTTGCAGGCCTCGCTCGGAGC
TCGATCTATGTGATGCTGATCGTCGGTATATTTTTGGCATCAACA
Found at i:24244 original size:17 final size:17
Alignment explanation
Indices: 24222--24262 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
24212 ACACCATGTA
24222 ACCAATTCAGTTATGGG
1 ACCAATTCAGTTATGGG
*
24239 ACCAATTCAGTTTTGGG
1 ACCAATTCAGTTATGGG
24256 ACCAATT
1 ACCAATT
24263 ATATTGGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (17 bp):
ACCAATTCAGTTATGGG
Found at i:28264 original size:19 final size:18
Alignment explanation
Indices: 28231--28266 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
28221 TGAAAATAAT
28231 TCTTCAATGGTCTTCAAA
1 TCTTCAATGGTCTTCAAA
*
28249 TCTTCAAATTGTCTTCAA
1 TCTTC-AATGGTCTTCAA
28267 TAAGTCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (18 bp):
TCTTCAATGGTCTTCAAA
Found at i:29099 original size:21 final size:21
Alignment explanation
Indices: 29075--29122 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
29065 GCCGCTGGGT
29075 ACCCAGGCAAAAT-GCCTCAGC
1 ACCCAGGCAAAATGGCC-CAGC
* * *
29096 ACCCACGCAATATGGCCCATC
1 ACCCAGGCAAAATGGCCCAGC
29117 ACCCAG
1 ACCCAG
29123 CTCAGCCCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.31, C:0.42, G:0.17, T:0.10
Consensus pattern (21 bp):
ACCCAGGCAAAATGGCCCAGC
Found at i:29667 original size:56 final size:56
Alignment explanation
Indices: 29593--29705 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
29583 TTTGAGGCTT
29593 TGCGACCTCAATTCAAGGACTATTGGAGCTTGTATGATGAGAACTTTGAAGGATGA
1 TGCGACCTCAATTCAAGGACTATTGGAGCTTGTATGATGAGAACTTTGAAGGATGA
29649 TGCGACCTCAATTCAAGGACTATTGGAGCTTGTATGATGAGAACTTTGAAGGATGA
1 TGCGACCTCAATTCAAGGACTATTGGAGCTTGTATGATGAGAACTTTGAAGGATGA
29705 T
1 T
29706 TCACAAGGGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (56 bp):
TGCGACCTCAATTCAAGGACTATTGGAGCTTGTATGATGAGAACTTTGAAGGATGA
Found at i:32040 original size:21 final size:21
Alignment explanation
Indices: 32016--32055 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32006 AGTCATCAGA
32016 AAGACATGGGTGATCAGGCTT
1 AAGACATGGGTGATCAGGCTT
* *
32037 AAGACCTGGGTGCTCAGGC
1 AAGACATGGGTGATCAGGC
32056 CAACCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.20, G:0.35, T:0.20
Consensus pattern (21 bp):
AAGACATGGGTGATCAGGCTT
Found at i:35244 original size:32 final size:32
Alignment explanation
Indices: 35203--35263 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
35193 ATTTTGGCGT
35203 TTTGTTCATTAAA-CGACCCAATATAGTGGTGC
1 TTTGTTCATTAAACCG-CCCAATATAGTGGTGC
35235 TTTGTTCATTAAACCGCCCAATATAGTGG
1 TTTGTTCATTAAACCGCCCAATATAGTGG
35264 CGTTATGCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (32 bp):
TTTGTTCATTAAACCGCCCAATATAGTGGTGC
Found at i:35276 original size:32 final size:31
Alignment explanation
Indices: 35197--35279 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 31
35187 AGTGGCATTT
35197 TGGCGTTTTGTTCATTAAACGACCCAATATAG
1 TGGCG-TTTGTTCATTAAACGACCCAATATAG
*
35229 TGGTGCTTTGTTCATTAAACCG-CCCAATATAG
1 TGGCG-TTTGTTCATTAAA-CGACCCAATATAG
*
35261 TGGCGTTATGCTCATTAAA
1 TGGCGTT-TGTTCATTAAA
35280 TGCTCCAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
31 2 0.04
32 41 0.91
33 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (31 bp):
TGGCGTTTGTTCATTAAACGACCCAATATAG
Found at i:47658 original size:34 final size:34
Alignment explanation
Indices: 47620--47715 Score: 129
Period size: 34 Copynumber: 2.8 Consensus size: 34
47610 AAAAATTGAA
**
47620 TGGGAACTTTCCCAATTTGAAAACTTAAAACCGG
1 TGGGAACTTTCCCAATTACAAAACTTAAAACCGG
* *
47654 TGGGAACTTTCCCGATTACAAAACTTAAAACTGG
1 TGGGAACTTTCCCAATTACAAAACTTAAAACCGG
* * *
47688 TGGGAACTTTTCCAATAAAAAAACTTAA
1 TGGGAACTTTCCCAATTACAAAACTTAA
47716 TGATATTCTC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (34 bp):
TGGGAACTTTCCCAATTACAAAACTTAAAACCGG
Found at i:51267 original size:25 final size:25
Alignment explanation
Indices: 51233--51282 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
51223 CTACACTATT
*
51233 AAAAGATAAAGACCTGTCTGAGGTC
1 AAAAGATAAAGACCCGTCTGAGGTC
51258 AAAAGATAAAGACCCGTCTGAGGTC
1 AAAAGATAAAGACCCGTCTGAGGTC
51283 GAAATTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (25 bp):
AAAAGATAAAGACCCGTCTGAGGTC
Found at i:51426 original size:32 final size:32
Alignment explanation
Indices: 51265--52275 Score: 1238
Period size: 32 Copynumber: 31.6 Consensus size: 32
51255 GTCAAAAGAT
* * *
51265 AAAGACCCGTCTGAGGTCGAAATTGAAACTTAG
1 AAAGACCTGTCTGAGGTCGAAA-TAAAACTGAG
*
51298 AAAGACCTGTCCGAGGTCGAAAT-----TGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
* * *
51325 AAAGACCTGTCTGAGGTCGGAATTGAAA-T-AT
1 AAAGACCTGTCTGAGGTC-GAAATAAAACTGAG
*
51356 AAAGACATGTCTGAGGTCGAAATTAAAAGCTGAG
1 AAAGACCTGTCTGAGGTCGAAA-TAAAA-CTGAG
51390 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
* * *
51422 AAAGACCTGTCTGAGGTCGGAATTGAAA-T-AT
1 AAAGACCTGTCTGAGGTC-GAAATAAAACTGAG
51453 AAAGACCTGTCTGAGGTCGAAATTAAAAGCTGAG
1 AAAGACCTGTCTGAGGTCGAAA-TAAAA-CTGAG
* ** *
51487 AAAGACCTGTCTGAGGTCGGAATGGAACTGAT
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
*
51519 AAAGACCTGTCCGAGGTCGAAATTAAAAGCTGAG
1 AAAGACCTGTCTGAGGTCGAAA-TAAAA-CTGAG
*
51553 AAAGACCTGTCTGAGGTCAAAATAAAAGCTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAA-CTGAG
*
51586 AGAGACCTGTCTGAGGTCGAAATAAAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
* * * *
51618 AGAGACCTGTCTGAGGTCGGAATTGAAA-T-AT
1 AAAGACCTGTCTGAGGTC-GAAATAAAACTGAG
*
51649 AAGGACCTGTCTGAGGTCGAAATTAAAAGCTGAG
1 AAAGACCTGTCTGAGGTCGAAA-TAAAA-CTGAG
*
51683 AAAGACCTGTCTGAGGTCAAAATAAAAGCTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAA-CTGAG
*
51716 AGAGACCTGTCTGAGGTCGAAATAAAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
* * * *
51748 AGAGACCTGTCTGAGGTCGGAATTGAAA-TAAG
1 AAAGACCTGTCTGAGGTC-GAAATAAAACTGAG
*
51780 AAAGACCTGTCTGAGGTCGGAATTAAAAGCTGAG
1 AAAGACCTGTCTGAGGTC-GAAATAAAA-CTGAG
*
51814 AAAGACCTGTCTGAGGTCAAAATAAAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
51846 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
*
51878 AAAGACCTGTCTGAGGTCGAAATAAAGCTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
*
51910 AAAAACCTGTCTGAGGTCGAAATAAAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
51942 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
* * * *
51974 AAAGACCTGTCTGAGGCCGGAATTGAAA-TAAG
1 AAAGACCTGTCTGAGGTC-GAAATAAAACTGAG
*
52006 AAAGACCTGTCTGAGGTCGGAATTAAAAGCTGAG
1 AAAGACCTGTCTGAGGTC-GAAATAAAA-CTGAG
*
52040 AAAGACCTGTCTGAGGTCGAAATAAAGCTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
52072 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
52104 AAAGACCTGTCTGAGGTCG-----AAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
52131 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
* *
52163 AAAGACCTGTCTGAGGTCGGAATTGAAA-T-AG
1 AAAGACCTGTCTGAGGTC-GAAATAAAACTGAG
* *
52194 AAAGACCTGTCTGAGGTCGAAATTAAAGCCGAG
1 AAAGACCTGTCTGAGGTCGAAA-TAAAACTGAG
* * *
52227 AAAGACCTGTCTGAGGTCGGAATTGAAA-T-AT
1 AAAGACCTGTCTGAGGTC-GAAATAAAACTGAG
*
52258 AAAGACCCGTCTGAGGTC
1 AAAGACCTGTCTGAGGTC
52276 TGGAACTTCG
Statistics
Matches: 864, Mismatches: 77, Indels: 76
0.85 0.08 0.07
Matches are distributed among these distances:
27 47 0.05
28 4 0.00
30 12 0.01
31 107 0.12
32 382 0.44
33 178 0.21
34 134 0.16
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.20
Consensus pattern (32 bp):
AAAGACCTGTCTGAGGTCGAAATAAAACTGAG
Found at i:51667 original size:162 final size:164
Alignment explanation
Indices: 51265--52275 Score: 1296
Period size: 162 Copynumber: 6.3 Consensus size: 164
51255 GTCAAAAGAT
* * * *
51265 AAAGACCCGTCTGAGGTCGAAATTGAAACTTAGAAAGACCTGTCCGAGGTCGAAA-T-----TGA
1 AAAGACCTGTCTGAGGTCGAAA-TAAAACTGAGAAAGACCTGTCTGAGGTCGAAATTAAAACTGA
* * * *
51324 GAAAGACCTGTCTGAGGTCGGAATTGAAA-T-ATAAAGACATGTCTGAGGTCGAAATTAAAAGCT
65 GAAAGACCTGTCTGAGGTC-GAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAATTAAAAGCT
51387 GAGAAAGACCTGTCTGAGGTCGAAATAAAA-CTGAG
129 GAGAAAGACCTGTCTGAGGTCGAAATAAAAGCTGAG
* * *
51422 AAAGACCTGTCTGAGGTCGGAATTGAAA-T-ATAAAGACCTGTCTGAGGTCGAAATTAAAAGCTG
1 AAAGACCTGTCTGAGGTC-GAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAATTAAAA-CTG
* ** * *
51485 AGAAAGACCTGTCTGAGGTCGGAATGGAACTGATAAAGACCTGTCCGAGGTCGAAATTAAAAGCT
64 AGAAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAATTAAAAGCT
*
51550 GAGAAAGACCTGTCTGAGGTCAAAATAAAAGCTGAG
129 GAGAAAGACCTGTCTGAGGTCGAAATAAAAGCTGAG
* * * * *
51586 AGAGACCTGTCTGAGGTCGAAATAAAACTGAGAGAGACCTGTCTGAGGTCGGAATTGAAA-T-AT
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAATTAAAACTGAG
* *
51649 AAGGACCTGTCTGAGGTCGAAATTAAAAGCTGAGAAAGACCTGTCTGAGGTC-AAAATAAAAGCT
66 AAAGACCTGTCTGAGGTCGAAA-TAAAA-CTGAGAAAGACCTGTCTGAGGTCGAAATTAAAAGCT
*
51713 GAGAGAGACCTGTCTGAGGTCGAAATAAAA-CTGAG
129 GAGAAAGACCTGTCTGAGGTCGAAATAAAAGCTGAG
* * * * *
51748 AGAGACCTGTCTGAGGTCGGAATTGAAA-TAAGAAAGACCTGTCTGAGGTCGGAATTAAAAGCTG
1 AAAGACCTGTCTGAGGTC-GAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAATTAAAA-CTG
*
51812 AGAAAGACCTGTCTGAGGTCAAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAA-TAAAA-CT
64 AGAAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAATTAAAAGCT
51875 GAGAAAGACCTGTCTGAGGTCGAAAT-AAAGCTGAG
129 GAGAAAGACCTGTCTGAGGTCGAAATAAAAGCTGAG
*
51910 AAAAACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAA-TAAAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAATTAAAACTGAG
* * * * *
51974 AAAGACCTGTCTGAGGCCGGAATTGAAA-TAAGAAAGACCTGTCTGAGGTCGGAATTAAAAGCTG
66 AAAGACCTGTCTGAGGTC-GAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAATTAAAAGCTG
52038 AGAAAGACCTGTCTGAGGTCGAAAT-AAAGCTGAG
130 AGAAAGACCTGTCTGAGGTCGAAATAAAAGCTGAG
52072 AAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCG------AAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAATTAAAACTGAG
* *
52131 AAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGGAATTGAAA--T-A
66 AAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAATTAAAAGCTGA
* *
52193 GAAAGACCTGTCTGAGGTCGAAATTAAAGCCGAG
131 GAAAGACCTGTCTGAGGTCGAAATAAAAGCTGAG
* * * *
52227 AAAGACCTGTCTGAGGTCGGAATTGAAA-T-ATAAAGACCCGTCTGAGGTC
1 AAAGACCTGTCTGAGGTC-GAAATAAAACTGAGAAAGACCTGTCTGAGGTC
52276 TGGAACTTCG
Statistics
Matches: 767, Mismatches: 59, Indels: 59
0.87 0.07 0.07
Matches are distributed among these distances:
154 43 0.06
155 50 0.07
156 16 0.02
157 77 0.10
158 3 0.00
160 46 0.06
161 32 0.04
162 255 0.33
163 145 0.19
164 53 0.07
165 47 0.06
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.20
Consensus pattern (164 bp):
AAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAATTAAAACTGAG
AAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGAAATTAAAAGCTGA
GAAAGACCTGTCTGAGGTCGAAATAAAAGCTGAG
Found at i:51701 original size:130 final size:130
Alignment explanation
Indices: 51265--52280 Score: 1287
Period size: 130 Copynumber: 7.9 Consensus size: 130
51255 GTCAAAAGAT
* * * *
51265 AAAGACCCGTCTGAGGTCGAAATTGAAACTTAGAAAGACCTGTCCGAGGTCGAAAT-----TGAG
1 AAAGACCTGTCTGAGGTCGAAATTAAAACTGAGAAAGACCTGTCTGAGGTCGAAATAAAACTGAG
* * * * *
51325 AAAGACCTGTCTGAGGTCGGAATTGAAA-T-ATAAAGACATGTCTGAGGTCGAAATTAAAAGCTG
66 AAAGACCTGTCTGAGGTC-GAAATAAAACTGAGAAAGACCTGTCTGAGGTCGGAATTAAAA-CTG
51388 AG
129 AG
* *
51390 AAAGACCTGTCTGAGGTCGAAA-TAAAACTGAGAAAGACCTGTCTGAGGTCGGAATTGAAA-T-A
1 AAAGACCTGTCTGAGGTCGAAATTAAAACTGAGAAAGACCTGTCTGAGGTC-GAAATAAAACTGA
* **
51452 TAAAGACCTGTCTGAGGTCGAAATTAAAAGCTGAGAAAGACCTGTCTGAGGTCGGAA-TGGAACT
65 GAAAGACCTGTCTGAGGTCGAAA-TAAAA-CTGAGAAAGACCTGTCTGAGGTCGGAATTAAAACT
*
51516 GAT
128 GAG
* *
51519 AAAGACCTGTCCGAGGTCGAAATTAAAAGCTGAGAAAGACCTGTCTGAGGTCAAAATAAAAGCTG
1 AAAGACCTGTCTGAGGTCGAAATTAAAA-CTGAGAAAGACCTGTCTGAGGTCGAAATAAAA-CTG
* * *
51584 AGAGAGACCTGTCTGAGGTCGAAATAAAACTGAGAGAGACCTGTCTGAGGTCGGAATTGAAA-T-
64 AGAAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGGAATTAAAACTG
*
51647 AT
129 AG
* *
51649 AAGGACCTGTCTGAGGTCGAAATTAAAAGCTGAGAAAGACCTGTCTGAGGTCAAAATAAAAGCTG
1 AAAGACCTGTCTGAGGTCGAAATTAAAA-CTGAGAAAGACCTGTCTGAGGTCGAAATAAAA-CTG
* * * *
51714 AGAGAGACCTGTCTGAGGTCGAAATAAAACTGAGAGAGACCTGTCTGAGGTCGGAATTGAAA-TA
64 AGAAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGGAATTAAAACTG
51778 AG
129 AG
* *
51780 AAAGACCTGTCTGAGGTCGGAATTAAAAGCTGAGAAAGACCTGTCTGAGGTCAAAATAAAACTGA
1 AAAGACCTGTCTGAGGTCGAAATTAAAA-CTGAGAAAGACCTGTCTGAGGTCGAAATAAAACTGA
* *
51845 GAAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTC-GAAATAAAGCTGA
65 GAAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGGAATTAAAACTGA
51909 G
130 G
*
51910 AAAAACCTGTCTGAGGTCGAAA-TAAAACTGAGAAAGACCTGTCTGAGGTCGAAATAAAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATTAAAACTGAGAAAGACCTGTCTGAGGTCGAAATAAAACTGAG
* * * *
51974 AAAGACCTGTCTGAGGCCGGAATTGAAA-TAAGAAAGACCTGTCTGAGGTCGGAATTAAAAGCTG
66 AAAGACCTGTCTGAGGTC-GAAATAAAACTGAGAAAGACCTGTCTGAGGTCGGAATTAAAA-CTG
52038 AG
129 AG
*
52040 AAAGACCTGTCTGAGGTCGAAA-TAAAGCTGAGAAAGACCTGTCTGAGGTCGAAATAAAACTGAG
1 AAAGACCTGTCTGAGGTCGAAATTAAAACTGAGAAAGACCTGTCTGAGGTCGAAATAAAACTGAG
*
52104 AAAGACCTGTCTGAGGTCG-----AAACTGAGAAAGACCTGTCTGAGGTC-GAAATAAAACTGAG
66 AAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGGAATTAAAACTGAG
* * * *
52163 AAAGACCTGTCTGAGGTCGGAATTGAAA-T-AGAAAGACCTGTCTGAGGTCGAAATTAAAGCCGA
1 AAAGACCTGTCTGAGGTCGAAATTAAAACTGAGAAAGACCTGTCTGAGGTCGAAA-TAAAACTGA
* * * *
52226 GAAAGACCTGTCTGAGGTCGGAATTGAAA-T-ATAAAGACCCGTCTGAGGTCTGGAA
65 GAAAGACCTGTCTGAGGTC-GAAATAAAACTGAGAAAGACCTGTCTGAGGTC-GGAA
52281 CTTCGAAATC
Statistics
Matches: 806, Mismatches: 54, Indels: 58
0.88 0.06 0.06
Matches are distributed among these distances:
122 24 0.03
123 53 0.07
124 40 0.05
125 46 0.06
127 21 0.03
128 98 0.12
129 58 0.07
130 303 0.38
131 131 0.16
132 10 0.01
133 22 0.03
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.20
Consensus pattern (130 bp):
AAAGACCTGTCTGAGGTCGAAATTAAAACTGAGAAAGACCTGTCTGAGGTCGAAATAAAACTGAG
AAAGACCTGTCTGAGGTCGAAATAAAACTGAGAAAGACCTGTCTGAGGTCGGAATTAAAACTGAG
Done.