Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005774.1 Hibiscus syriacus cultivar Beakdansim tig00013513_pilon, 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: 99234
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:12891 original size:84 final size:82
Alignment explanation
Indices: 12759--12928 Score: 259
Period size: 84 Copynumber: 2.0 Consensus size: 82
12749 AATAAAGAAA
* * * * *
12759 TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAATACCTAAAACAAAGCTAAGATAAAA
1 TAAATCCTAATTAAAACAATTAAAACTATTTAAACTAAAATACATAAAACAAAGATAAAAT-AAA
12824 TATATTTAAAATAATATCC
65 -ATATTTAAAATAATATCC
* *
12843 TAAATCCTAATTAAAACAATTAAAACTATTTAGACTAAAATACATAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAACAATTAAAACTATTTAAACTAAAATACATAAAACAAAGATAAAATAAAA
12908 TATTTAAAATAATATCC
66 TATTTAAAATAATATCC
12925 TAAA
1 TAAA
12929 ACATGAGTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
82 22 0.28
83 2 0.03
84 55 0.70
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.29
Consensus pattern (82 bp):
TAAATCCTAATTAAAACAATTAAAACTATTTAAACTAAAATACATAAAACAAAGATAAAATAAAA
TATTTAAAATAATATCC
Found at i:13876 original size:35 final size:35
Alignment explanation
Indices: 13834--13916 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 35
13824 TTCTCTGCTG
*
13834 TTCGAAATAGTGAACAATTTTATTTTTTCAATTT-TT
1 TTCGAAATAGTGAACAA-CTT-TTTTTTCAATTTCTT
* *
13870 TT-GAAATAATGAACAACTTTTTTTTCGATTTCTT
1 TTCGAAATAGTGAACAACTTTTTTTTCAATTTCTT
*
13904 TTCGAAACAGTGA
1 TTCGAAATAGTGA
13917 TTTTTTTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 11 0.28
34 6 0.15
35 21 0.52
36 2 0.05
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (35 bp):
TTCGAAATAGTGAACAACTTTTTTTTCAATTTCTT
Found at i:15225 original size:6 final size:6
Alignment explanation
Indices: 15209--15251 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
15199 AAAAATAAAG
* *
15209 AAAAAT AAAAAGT AAAAGT GAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
15252 TGAACAAACG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:19246 original size:84 final size:81
Alignment explanation
Indices: 19158--19326 Score: 257
Period size: 84 Copynumber: 2.0 Consensus size: 81
19148 AATAAAGAAA
** *
19158 TAAATCCTAATTAAATTACTTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAGATAAAA
1 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAAT-AAA
*
19223 TATATTTAAAATAATATCT
65 -ATATTT-AAATAATATCC
* *
19242 TAAATCCTAATTAAAACACTTAAAACTATTTAAGCTAAAATACCTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATAAAA
19307 TATTTAAATAATATCC
66 TATTTAAATAATATCC
19323 TAAA
1 TAAA
19327 GCTTGAGTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
81 14 0.18
82 6 0.08
83 2 0.03
84 57 0.72
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (81 bp):
TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATAAAA
TATTTAAATAATATCC
Found at i:21664 original size:24 final size:24
Alignment explanation
Indices: 21632--21682 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
21622 TGCTGCAGGG
21632 TATTGGTAATGAGAGGATTCTGGA
1 TATTGGTAATGAGAGGATTCTGGA
21656 TATTGGTAATGAGAGGATTCTGGA
1 TATTGGTAATGAGAGGATTCTGGA
21680 TAT
1 TAT
21683 GGCGGACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.35
Consensus pattern (24 bp):
TATTGGTAATGAGAGGATTCTGGA
Found at i:26852 original size:42 final size:42
Alignment explanation
Indices: 26793--26877 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
26783 ATGGACTATG
26793 GAAGCAGTTTGCTTGTAAGGAGTAGAATACTTCAGGAAATCA
1 GAAGCAGTTTGCTTGTAAGGAGTAGAATACTTCAGGAAATCA
26835 GAAGCAGTTTGCTTGTAAGGAGTAGAATACTTCAGGAAATCA
1 GAAGCAGTTTGCTTGTAAGGAGTAGAATACTTCAGGAAATCA
26877 G
1 G
26878 CTCCAGAGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (42 bp):
GAAGCAGTTTGCTTGTAAGGAGTAGAATACTTCAGGAAATCA
Found at i:30225 original size:2 final size:2
Alignment explanation
Indices: 30180--30206 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30170 TAGGCGTAAC
30180 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
30207 ATAACAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30592 original size:2 final size:2
Alignment explanation
Indices: 30585--30617 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30575 TAGGCGTGAC
30585 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30618 ATAATTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30840 original size:416 final size:404
Alignment explanation
Indices: 30082--30887 Score: 1132
Period size: 416 Copynumber: 2.0 Consensus size: 404
30072 TATATTTGCG
* * * *
30082 TATCATATGTTCCATTTGTTATTTTTCATATTTGTATATGTGGAATCATATTAGTATCTAAGTCA
1 TATCATATGTTCCATTTGTTATTTATCACATTTCTATATGTGGAATCATATTAGTATCTAAGTAA
30147 TATTGATGCATACATATATATGTTAGGCGTAACATATATATATATATATATATATATATAATAAC
66 TATTGATGCATACATATATATGTTAGGCGTAACATATATATATATATATATATATATATAATAAC
* ** * *
30212 AGTTTATAATATATTCTTATAATACTTAGGTTTATGTTGCGAGGTACATTTCAAACTTGTATGGT
131 AATTTATAATATAAACTTATAATACTTAGGTTTATGTTGCGAGGTACATTGCAAACTTGGATGGT
* * * * *
30277 TACATTTAAGGGCTTGAATGGGTACATTATGGAAGGGTTTCATGAAAGGCTTCAAAGGATGCATT
196 TACATTTAAAGGCTTGAACGAGTACATTATGGAAAGGTTTCATGAAAGGATTCAAAGGATGCATT
* *
30342 CAAAGGACACGTTTTCATTCAAGGATTATGACTTTTCATTCAAGTATTTGCAAGAGACATGTTCA
261 CAAAGGACACATTTTCATTCAAGGATTATGACTTTTCACTCAAGTATTTGCAAGAGACATGTTCA
* * * *
30407 TACTTACACATCTTCATTTGGGTG-ATAAAATGAAGCAAATACAAGGCTTTTGATCATTTGACAT
326 TACATACACATCTTCATTTGGGTGAAAAAAATGAAGCAAATACAAAGCTTATGATCATTTGACAT
30471 CATCGACTATTTCA
391 CATCGACTATTTCA
* *
30485 TATCATATGTTCCATTTTTTA-TTATCGCATTTCTATATGTGGAATCATATTAGTATCTAAGTAA
1 TATCATATGTTCCATTTGTTATTTATCACATTTCTATATGTGGAATCATATTAGTATCTAAGTAA
*
30549 TATTGATGCATACATATATTATACGTTAGGCGTGACATATATATATATATATATATATATATATA
66 TATTGATGCATACATATA-TAT--GTTAGGCGT-A-ACATATATATATATATATATATATATATA
* * *
30614 TATAATAATTTATAATTTAAACTTATAATACTTAGGTTTATGTTGCAACTTGCAATGTACATTGC
126 -ATAACAATTTATAATATAAACTTATAATACTTAGGTTTATGTTG---C--G--AGGTACATTGC
* * *
30679 AATGCTTGGATGGTTACATTTAAAGGCTTCG-ACGAGTACATTATGGAAAGTTTTCGTGAAAGGA
183 AA-ACTTGGATGGTTACATTTAAAGGCTT-GAACGAGTACATTATGGAAAGGTTTCATGAAAGGA
* * *
30743 TTCAAAGGATGCATTCAAAGGACATATTTTCATTCAAGGATTTTGACTTTTCACTCAAGTATTTT
246 TTCAAAGGATGCATTCAAAGGACACATTTTCATTCAAGGATTATGACTTTTCACTCAAGTATTTG
* * *
30808 CAAGGGACATGTTCATCCATACACCTCTTCATTTGGGTGACAAAAAATGAAGCAAATACAAAGCT
311 CAAGAGACATGTTCATACATACACATCTTCATTTGGGTGA-AAAAAATGAAGCAAATACAAAGCT
30873 TATGATCATTTGACA
375 TATGATCATTTGACA
30888 CCAACAACTA
Statistics
Matches: 351, Mismatches: 35, Indels: 19
0.87 0.09 0.05
Matches are distributed among these distances:
402 56 0.16
403 23 0.07
405 9 0.03
406 1 0.00
407 28 0.08
408 39 0.11
411 1 0.00
413 1 0.00
415 11 0.03
416 145 0.41
417 1 0.00
418 36 0.10
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (404 bp):
TATCATATGTTCCATTTGTTATTTATCACATTTCTATATGTGGAATCATATTAGTATCTAAGTAA
TATTGATGCATACATATATATGTTAGGCGTAACATATATATATATATATATATATATATAATAAC
AATTTATAATATAAACTTATAATACTTAGGTTTATGTTGCGAGGTACATTGCAAACTTGGATGGT
TACATTTAAAGGCTTGAACGAGTACATTATGGAAAGGTTTCATGAAAGGATTCAAAGGATGCATT
CAAAGGACACATTTTCATTCAAGGATTATGACTTTTCACTCAAGTATTTGCAAGAGACATGTTCA
TACATACACATCTTCATTTGGGTGAAAAAAATGAAGCAAATACAAAGCTTATGATCATTTGACAT
CATCGACTATTTCA
Found at i:31592 original size:55 final size:55
Alignment explanation
Indices: 31533--32011 Score: 796
Period size: 55 Copynumber: 8.7 Consensus size: 55
31523 CTAACAATAA
* * *
31533 GGAAATTCATATACTTATTATGAATTTCTTATTTTTGCACACAAAGTGCCCATAT
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
31588 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
*
31643 GGAGATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
*
31698 GGAGATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
** * * *
31753 AAAAATTCATAAACTTGTTATGAATTTCTTAGTTTTGCAAACATAGTGCCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
* *
31808 AGAAATTTATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
* * * *
31863 GAAAATTCATAAACTTATTATGAATCTCTTAGTTTTGAACACAAAGTGCCCCTAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
* *
31918 AGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGTCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
31973 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCA
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCA
32012 AACATAATGC
Statistics
Matches: 396, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 396 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (55 bp):
GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
Found at i:32468 original size:20 final size:21
Alignment explanation
Indices: 32443--32489 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
32433 CATGGTATCA
* *
32443 ATACTTCTCTCCTA-GTACCG
1 ATACTTCTATACTAGGTACCG
32463 ATACTTCTATACTATGGTACCG
1 ATACTTCTATACTA-GGTACCG
32485 ATACT
1 ATACT
32490 CCATTACAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 12 0.52
22 11 0.48
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.36
Consensus pattern (21 bp):
ATACTTCTATACTAGGTACCG
Found at i:38904 original size:54 final size:54
Alignment explanation
Indices: 38699--38916 Score: 312
Period size: 55 Copynumber: 4.0 Consensus size: 54
38689 CCCACTAACA
* *
38699 ATACGAAATTTCATATACTTATTATGAATTTCTTATTTTTGCACACAAAGTGCCC
1 ATACGAAA-TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* **
38754 ATACAAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCTT
1 ATAC-GAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
*
38809 ATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTACCC
1 ATAC-GAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
38864 ATACGAAGATT-ATAAACTTATTATTAATTTCTTAGCTTTGCACACATAGTGCC
1 ATACGAA-ATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCC
38917 ATTTGGTAAT
Statistics
Matches: 148, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
54 41 0.28
55 104 0.70
56 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (54 bp):
ATACGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
Found at i:40801 original size:44 final size:44
Alignment explanation
Indices: 40751--40948 Score: 261
Period size: 44 Copynumber: 4.5 Consensus size: 44
40741 AATGAGTGGA
* * *
40751 ACCTTTCTGCCAGTAATTCACCGTTATGCATTTTCATTTATGGT
1 ACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGC
* * *
40795 ACCTTTCTGCCAATAATGCACTGTCATGCATTTTCATTTATGGA
1 ACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGC
* * * *
40839 ATCTTTCTACCAATAATGCACCGTTATGCATTTCCATTTATGAC
1 ACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGC
* * *
40883 ACATTTTATGCCAATAATGCACCGTTATGCATTTTCATTTGTGGC
1 AC-CTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGC
*
40928 ACCTTTCTACCAATAATGCAC
1 ACCTTTCTGCCAATAATGCAC
40949 AATTATGTGT
Statistics
Matches: 131, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
44 93 0.71
45 38 0.29
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (44 bp):
ACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGC
Found at i:40955 original size:89 final size:88
Alignment explanation
Indices: 40746--40948 Score: 280
Period size: 89 Copynumber: 2.3 Consensus size: 88
40736 AATACAATGA
* * * * ** *
40746 GTGGAACCTTTCTGCCAGTAATTCACCGTTATGCATTTTCATTTATGGTACCTTTCTGCCAATAA
1 GTGGAACCTTTCTACCAATAATGCACCGTTATGCATTTCCATTTATGACACCTTTATGCCAATAA
*
40811 TGCACTGTCATGCATTTTCATTT
66 TGCACCGTCATGCATTTTCATTT
* * *
40834 ATGGAATCTTTCTACCAATAATGCACCGTTATGCATTTCCATTTATGACACATTTTATGCCAATA
1 GTGGAACCTTTCTACCAATAATGCACCGTTATGCATTTCCATTTATGACAC-CTTTATGCCAATA
*
40899 ATGCACCGTTATGCATTTTCATTT
65 ATGCACCGTCATGCATTTTCATTT
*
40923 GTGGCACCTTTCTACCAATAATGCAC
1 GTGGAACCTTTCTACCAATAATGCAC
40949 AATTATGTGT
Statistics
Matches: 99, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
88 43 0.43
89 56 0.57
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.38
Consensus pattern (88 bp):
GTGGAACCTTTCTACCAATAATGCACCGTTATGCATTTCCATTTATGACACCTTTATGCCAATAA
TGCACCGTCATGCATTTTCATTT
Found at i:47046 original size:13 final size:13
Alignment explanation
Indices: 47020--47053 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47010 GGCAATTTTG
*
47020 GAAAACCATATTT
1 GAAAATCATATTT
*
47033 GAAAATCATGTTT
1 GAAAATCATATTT
47046 GAAAATCA
1 GAAAATCA
47054 ATACACGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (13 bp):
GAAAATCATATTT
Found at i:47920 original size:24 final size:25
Alignment explanation
Indices: 47864--47921 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 25
47854 GTCAAACCTA
*
47864 ATTCTCTTCTACGTGTCCAAAATCTTTT
1 ATTCTCTTCTAAGTGTCCAAAATC---T
47892 AATTCTCTTCTAAGTGTCCAAAATC-
1 -ATTCTCTTCTAAGTGTCCAAAATCT
47917 ATTCT
1 ATTCT
47922 TTGTCTAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 5 0.18
29 23 0.82
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (25 bp):
ATTCTCTTCTAAGTGTCCAAAATCT
Found at i:55358 original size:12 final size:10
Alignment explanation
Indices: 55334--55368 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
55324 TTATTTATCA
55334 TTTTTTATTT
1 TTTTTTATTT
**
55344 TTTTAAATTT
1 TTTTTTATTT
55354 TTTTTTATTT
1 TTTTTTATTT
55364 TTTTT
1 TTTTT
55369 AACAATAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:56934 original size:29 final size:29
Alignment explanation
Indices: 56902--56982 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
56892 GTTTGTATTA
*
56902 TATTGTAATTTATAAAAGGTTTTGTCCTT
1 TATTGTAATTTATAAAAGGTTTTATCCTT
* * * * *
56931 TATTATTATTTATAAAAAGCTTTATTCTT
1 TATTGTAATTTATAAAAGGTTTTATCCTT
* * *
56960 TAATGCAATTTATAAAAGATTTT
1 TATTGTAATTTATAAAAGGTTTT
56983 TTTTGGATAA
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.51
Consensus pattern (29 bp):
TATTGTAATTTATAAAAGGTTTTATCCTT
Found at i:59119 original size:39 final size:39
Alignment explanation
Indices: 59076--59168 Score: 168
Period size: 39 Copynumber: 2.4 Consensus size: 39
59066 CATAAGGGCA
59076 TGTGGTAAGGTCTTAGCTTCTGCACAAAGCAAATGTACC
1 TGTGGTAAGGTCTTAGCTTCTGCACAAAGCAAATGTACC
*
59115 TGTGGTAAGGTCTTAGCTTCTGCACAAAGCAGATGTACC
1 TGTGGTAAGGTCTTAGCTTCTGCACAAAGCAAATGTACC
*
59154 TGTGGTAAAGTCTTA
1 TGTGGTAAGGTCTTA
59169 CAAGTCATAG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (39 bp):
TGTGGTAAGGTCTTAGCTTCTGCACAAAGCAAATGTACC
Found at i:63760 original size:37 final size:36
Alignment explanation
Indices: 63685--63760 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
63675 TTTTTATATT
*
63685 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
63721 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
63758 TTT
1 TTT
63761 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:66860 original size:3 final size:3
Alignment explanation
Indices: 66852--66889 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
66842 GTAGGGTATG
66852 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T
66890 TTTTAAACCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:67629 original size:22 final size:22
Alignment explanation
Indices: 67603--67644 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
67593 TTCAGAAGAA
*
67603 TTTGTCTCAAAAGAGACAAAAT
1 TTTGTCTCAAAAGAAACAAAAT
* *
67625 TTTGTTTCCAAAGAAACAAA
1 TTTGTCTCAAAAGAAACAAA
67645 CTCAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (22 bp):
TTTGTCTCAAAAGAAACAAAAT
Found at i:67867 original size:32 final size:32
Alignment explanation
Indices: 67817--67904 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 32
67807 TTCATATCAG
* *
67817 GATGTTGAATC-CATAAAGATGCCCCAATATTCT
1 GATGTTGAATCTC-CAAAGATGCCCCAACATT-T
*
67850 -TTGTTGAATCTCCAAAGATGCCCCAACATTT
1 GATGTTGAATCTCCAAAGATGCCCCAACATTT
*
67881 GATGTTGAATCTTCAAAGATGCCC
1 GATGTTGAATCTCCAAAGATGCCC
67905 TCATTTTTCC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
31 1 0.02
32 46 0.96
33 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATGCCCCAACATTT
Found at i:75248 original size:3 final size:3
Alignment explanation
Indices: 75240--75268 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
75230 GTAGGGTAGG
75240 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
75269 TTTTTTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:77642 original size:17 final size:16
Alignment explanation
Indices: 77620--77656 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
77610 TATAAGCATC
77620 CAAATTCAAACAATCCA
1 CAAATTCAAAC-ATCCA
77637 CAAATTCAAACATCCA
1 CAAATTCAAACATCCA
77653 -AAAT
1 CAAAT
77657 GTTAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.20
16 5 0.25
17 11 0.55
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.19
Consensus pattern (16 bp):
CAAATTCAAACATCCA
Found at i:77992 original size:3 final size:3
Alignment explanation
Indices: 77984--78021 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
77974 TTTTAATAGT
*
77984 TTA TTA TTA TTA TTA TTA -TA TTT TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
78022 ATAATAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:78010 original size:14 final size:14
Alignment explanation
Indices: 77988--78021 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
77978 AATAGTTTAT
77988 TATTATTATTATTA
1 TATTATTATTATTA
*
78002 TATTTTTATTATTA
1 TATTATTATTATTA
78016 TTATTA
1 -TATTA
78022 ATAATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:78010 original size:17 final size:17
Alignment explanation
Indices: 77985--78019 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
77975 TTTAATAGTT
77985 TATTATTATTATTATTA
1 TATTATTATTATTATTA
*
78002 TATTTTTATTATTATTA
1 TATTATTATTATTATTA
78019 T
1 T
78020 TAATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:81583 original size:36 final size:36
Alignment explanation
Indices: 81536--81642 Score: 187
Period size: 36 Copynumber: 3.0 Consensus size: 36
81526 AGCTATGCAT
* *
81536 ACAAAGATCCTGTTATATTAATACCAAAAGTATTCC
1 ACAAAGATCCTGTTAGATTGATACCAAAAGTATTCC
81572 ACAAAGATCCTGTTAGATTGATACCAAAAGTATTCC
1 ACAAAGATCCTGTTAGATTGATACCAAAAGTATTCC
*
81608 ACAAAGATCCTGTTAGATTGATACCAAAAGCATTC
1 ACAAAGATCCTGTTAGATTGATACCAAAAGTATTC
81643 TACTATAAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (36 bp):
ACAAAGATCCTGTTAGATTGATACCAAAAGTATTCC
Found at i:82163 original size:43 final size:43
Alignment explanation
Indices: 82096--82178 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
82086 TGGGTTTAAA
*
82096 GAAGTTAGGAAGGAAAGTTATCCCCTATATGTAAAGTTTTGTT
1 GAAGTTAGGAAGGAAAGCTATCCCCTATATGTAAAGTTTTGTT
** *
82139 GAAGTTAGGACTGAAAGCTGTCCCCTATATGTAAAGTTTT
1 GAAGTTAGGAAGGAAAGCTATCCCCTATATGTAAAGTTTT
82179 ATTTGATGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (43 bp):
GAAGTTAGGAAGGAAAGCTATCCCCTATATGTAAAGTTTTGTT
Found at i:82275 original size:13 final size:13
Alignment explanation
Indices: 82257--82294 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
82247 TTTTCATACA
82257 TGCATTTGCATTT
1 TGCATTTGCATTT
*
82270 TGCATTTTCATTT
1 TGCATTTGCATTT
82283 T-CATTTTGCATT
1 TGCA-TTTGCATT
82295 CATACTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 2 0.09
13 20 0.91
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.58
Consensus pattern (13 bp):
TGCATTTGCATTT
Found at i:87808 original size:42 final size:42
Alignment explanation
Indices: 87761--87859 Score: 180
Period size: 42 Copynumber: 2.4 Consensus size: 42
87751 CAAAATGTTG
*
87761 GGGCATTTTGAAGGCCCATTTCAGATAGAAATGATCCATATA
1 GGGCATTTTGAAGGCCCATTTCAAATAGAAATGATCCATATA
87803 GGGCATTTTGAAGGCCCATTTCAAATAGAAATGATCCATATA
1 GGGCATTTTGAAGGCCCATTTCAAATAGAAATGATCCATATA
*
87845 GGACATTTTGAAGGC
1 GGGCATTTTGAAGGC
87860 TCACAACAGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (42 bp):
GGGCATTTTGAAGGCCCATTTCAAATAGAAATGATCCATATA
Found at i:90538 original size:113 final size:113
Alignment explanation
Indices: 90355--91019 Score: 511
Period size: 123 Copynumber: 5.6 Consensus size: 113
90345 TCCAGAAGAT
* * *
90355 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAATAATTTCATAATGAGAAGAACTTGTTCAA
1 TTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAA
* *
90420 -CTTTTTGC-TCGAATCCATCACCCGATGG-AT-CA-ACATTGCCAG-GTAGAG
65 CCTTTTT-CAT-GAATCCATCA-CAGAAGGAATACACACATTGCCAGAG-A-AG
* * * *
90468 TTCATAATGAAAAGAATTCATCTGAAGTGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAC
1 TTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
* * * *
90533 CTTTTTCATGACTCTATCACAGAAGGATATAGATACACATTTCCAGAGAAG
66 CTTTTTCATGAATCCATCACAGAAGGA-AT--ACACACATTGCCAGAGAAG
* *
90584 TTCATAATTAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
1 TTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
* * * * *
90649 CTTTTTC-TAGACTCTATCACAAAAGGAGATAGATCAACAAACACTTTTCTAGAGAAG
66 CTTTTTCAT-GAATCCATCACAGAAGGA-AT--A-C-AC--ACA--TTGCCAGAGAAG
* * * *
90706 TTCATAATGATAAGAACTCATCTAAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAAC
1 TTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
* * * * *
90771 CTTTTGC-TAGACTCTATCACAGAAGGAGATAGATCAGCATACACTTTTCAAGAGAAAG
66 CTTTTTCAT-GAATCCATCACAGAAGGA-AT--A-CA-C--ACA--TTGCCAGAG-AAG
* * *
90829 ATCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
1 TTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
* ** * * *
90894 CTTTTGC-TCGACGCTATCACATAATGAGATAGATCAGCATCAACATTTCCAGAGAGAG
66 CTTTTTCAT-GAATCCATCACAGAA-G-G--A-AT-A-CA-C-ACATTGCCAGAGA-AG
* * * * *
90952 TTCATAACGAGAAGAACTTATCTGAAGAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTCCAAC
1 TTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
91017 CTT
66 CTT
91020 GCCTTAATTC
Statistics
Matches: 481, Mismatches: 48, Indels: 36
0.85 0.08 0.06
Matches are distributed among these distances:
111 5 0.01
112 41 0.09
113 34 0.07
115 1 0.00
116 91 0.19
117 10 0.02
118 3 0.01
120 3 0.01
121 1 0.00
122 121 0.25
123 158 0.33
124 1 0.00
125 4 0.01
126 4 0.01
127 4 0.01
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (113 bp):
TTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
CTTTTTCATGAATCCATCACAGAAGGAATACACACATTGCCAGAGAAG
Found at i:90892 original size:123 final size:122
Alignment explanation
Indices: 90466--91019 Score: 757
Period size: 123 Copynumber: 4.6 Consensus size: 122
90456 TGCCAGGTAG
* * * *
90466 AGTTCATAATGAAAAGAA-TTCATCTGAAGTGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTT-ATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
90530 AACCTTTTTC-ATGACTCTATCACAGAA-G-GAT--AT-AG-ATACACATTTCCAGAGA
65 AACCTTTTGCTA-GACTCTATCACAGAAGGAGATAGATCAGCATACACATTTCCAGAGA
* *
90582 AGTTCATAATTAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * * * *
90647 ACCTTTTTCTAGACTCTATCACAAAAGGAGATAGATCAACAAACACTTTTCTAGAGA
66 ACCTTTTGCTAGACTCTATCACAGAAGGAGATAGATCAGCATACACATTTCCAGAGA
* * * *
90704 AGTTCATAATGATAAGAACTCATCTAAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
90769 ACCTTTTGCTAGACTCTATCACAGAAGGAGATAGATCAGCATACACTTTTCAAGAGAA
66 ACCTTTTGCTAGACTCTATCACAGAAGGAGATAGATCAGCATACACATTTCCAGAG-A
*
90827 AGATCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * *
90892 ACCTTTTGCTCGACGCTATCACATAATGAGATAGATCAGCAT-CAACATTTCCAGAGA
66 ACCTTTTGCTAGACTCTATCACAGAAGGAGATAGATCAGCATAC-ACATTTCCAGAGA
* * *
90949 GAGTTCATAACGAGAAGAACTTATCTGAAGAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTCC
1 -AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
91014 AACCTT
65 AACCTT
91020 GCCTTAATTC
Statistics
Matches: 392, Mismatches: 35, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
116 80 0.20
117 3 0.01
118 3 0.01
120 2 0.01
121 1 0.00
122 128 0.33
123 175 0.45
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (122 bp):
AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTGCTAGACTCTATCACAGAAGGAGATAGATCAGCATACACATTTCCAGAGA
Found at i:90898 original size:245 final size:238
Alignment explanation
Indices: 90356--91019 Score: 780
Period size: 245 Copynumber: 2.8 Consensus size: 238
90346 CCAGAAGATT
* * *
90356 TCATAATGAGAAGAACTCATCTGAAGAAGGAAAAATAATTTCATAATGAGAAGAACTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
* * ** *** * *
90421 TTTTTGCT---CG-AATC-CATCACCCGATGGAT-----CAACATTGCCAG-GTAGAGTTCATAA
65 CTTTTGCTAGACGCTATCACAAAAGGAGATAGATCAACACAACATTTCCAGAG-AGAGTTCATAA
* * * * *
90475 TGAAAAGAATTCATCTGAAGTGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTTC
129 TGAAAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
90540 ATGACTCTATCACAGAAGGATATAGATACACATTTCCAGAGAAGT
194 ATGACTCTATCACAGAAGGATATAGATACACATTTCAAGAGAAGA
*
90585 TCATAATTAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
1 TCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
* * *
90650 TTTTTCTAGACTCTATCACAAAAGGAGATAGATCAACA-AACACTTTTCTAGAGA-AGTTCATAA
66 TTTTGCTAGACGCTATCACAAAAGGAGATAGATCAACACAACA--TTTCCAGAGAGAGTTCATAA
* * *
90713 TGATAAGAACTCATCTAAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGC
129 TGAAAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
*
90778 -TAGACTCTATCACAGAAGGAGATAGATCAGCATACACTTTTCAAGAGAAAGA
194 AT-GACTCTATCACAGAA-G-GAT--AT-AG-ATACACATTTCAAGAG-AAGA
*
90830 TCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
1 TCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
* * * * *
90895 TTTTGCTCGACGCTATCACATAATGAGATAGATCAGCATCAACATTTCCAGAGAGAGTTCATAAC
66 TTTTGCTAGACGCTATCACAAAAGGAGATAGATCAACA-CAACATTTCCAGAGAGAGTTCATAAT
* * * *
90960 GAGAAGAACTTATCTGAAGAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTCCAACCTT
130 GAAAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
91020 GCCTTAATTC
Statistics
Matches: 368, Mismatches: 43, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
228 41 0.11
229 25 0.07
231 1 0.00
232 3 0.01
233 9 0.02
237 5 0.01
238 81 0.22
239 7 0.02
240 4 0.01
242 2 0.01
243 2 0.01
244 14 0.04
245 107 0.29
246 63 0.17
247 4 0.01
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (238 bp):
TCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
TTTTGCTAGACGCTATCACAAAAGGAGATAGATCAACACAACATTTCCAGAGAGAGTTCATAATG
AAAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCAT
GACTCTATCACAGAAGGATATAGATACACATTTCAAGAGAAGA
Found at i:91405 original size:3 final size:3
Alignment explanation
Indices: 91397--91450 Score: 92
Period size: 3 Copynumber: 18.0 Consensus size: 3
91387 TTTTAATAGT
91397 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
91442 TTA TTA TTA
1 TTA TTA TTA
91451 AAATATATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:93290 original size:4 final size:4
Alignment explanation
Indices: 93283--93308 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
93273 TATAATAATA
93283 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
93309 TTAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:93472 original size:9 final size:10
Alignment explanation
Indices: 93444--93472 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
93434 AGAGAAATGT
93444 TTTATTAATA
1 TTTATTAATA
93454 TTTATTAATA
1 TTTATTAATA
93464 TTT-TTAATA
1 TTTATTAATA
93473 GTAAGAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTATTAATA
Found at i:93575 original size:23 final size:22
Alignment explanation
Indices: 93540--93583 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
93530 ACAAATATCT
93540 TATTTATAAAAATATAAAATATA
1 TATTTATAAAAAT-TAAAATATA
*
93563 TATTTA-AAGAAATTAATATAT
1 TATTTATAA-AAATTAAAATAT
93584 TTTCTTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TATTTATAAAAATTAAAATATA
Done.