Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004451.1 Hibiscus syriacus cultivar Beakdansim tig00009786_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: 92019
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:4474 original size:13 final size:13
Alignment explanation
Indices: 4456--4480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4446 ACTCTAGGAC
4456 TTGCTTCTTTGAT
1 TTGCTTCTTTGAT
4469 TTGCTTCTTTGA
1 TTGCTTCTTTGA
4481 AACCTTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (13 bp):
TTGCTTCTTTGAT
Found at i:5229 original size:20 final size:20
Alignment explanation
Indices: 5204--5246 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5194 TCTAAAAGCC
*
5204 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
* *
5224 CATTTAGTAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
5244 CAT
1 CAT
5247 GTGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:8515 original size:31 final size:31
Alignment explanation
Indices: 8492--8568 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
8482 CATAGATTCT
* *
8492 GAAGAACCTAGGTAATCAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
*
8523 GAATAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
*
8554 GAATAACATAGGTAA
1 GAAGAACATAGGTAA
8569 CCCTCAACCC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAGTCCATATGTCCC
Found at i:11729 original size:19 final size:19
Alignment explanation
Indices: 11705--11755 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
11695 GAAAATATTC
11705 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
11724 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
11743 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
11756 TTCAATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 20 0.65
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:11797 original size:65 final size:64
Alignment explanation
Indices: 11599--11806 Score: 230
Period size: 65 Copynumber: 3.2 Consensus size: 64
11589 GCACCAAGTG
* * *
11599 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGGTGCATCGATGCATGG-CTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT-TCATGATGCATCGATGCATGGAC-TG
11663 -
64 A
*
11663 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAA-ATTCATGA-TGCATCGATGCATGGACT
11725 GA
63 GA
* * *
11727 GTGCATCGATGCATGGAATGCATTCGATG-TTCAATTAATTCATCGATGCATCGATGCATGGACT
1 -TGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAATTCAT-GATGCATCGATGCATGGACT
11791 GA
63 GA
*
11793 TGCATCGGTGCATG
1 TGCATCGATGCATG
11807 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 9, Indels: 21
0.81 0.06 0.14
Matches are distributed among these distances:
63 10 0.08
64 45 0.36
65 65 0.52
66 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATTCATGATGCATCGATGCATGGACTGA
Found at i:11997 original size:20 final size:21
Alignment explanation
Indices: 11974--12013 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11964 GAATCGAATA
11974 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
11994 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
12014 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:12828 original size:21 final size:21
Alignment explanation
Indices: 12804--12847 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
12794 CTGAAGGAGG
*
12804 AGGAGGAGCACGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
*
12825 AGGAGCAGCTCGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
12846 AG
1 AG
12848 CTCCCGGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.36, T:0.07
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAACT
Found at i:13702 original size:21 final size:21
Alignment explanation
Indices: 13646--13705 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
13636 TCAATAAGCC
*
13646 ATTAGGA-GCTTGAGGATCAGG
1 ATTAGGATG-TTGAGGAACAGG
* **
13667 ATTAGGTTGAGGAGGAACAGG
1 ATTAGGATGTTGAGGAACAGG
13688 ATTAGGATGTTGAGGAAC
1 ATTAGGATGTTGAGGAAC
13706 GGGAGGACGG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.38, T:0.23
Consensus pattern (21 bp):
ATTAGGATGTTGAGGAACAGG
Found at i:20296 original size:64 final size:65
Alignment explanation
Indices: 20243--20403 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
20233 CGGTGCACCA
*
20243 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTG-GTGCATCGATGCATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTG-AAAATAGCCAGAGTGCATCGATGCATG
20306 G
65 G
** * **
20307 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
20372 AGAGTGCATCGGTGCATGGAATGCATTCGATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG
20404 CTCAATTAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 37 0.45
65 46 0.55
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (65 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:20377 original size:19 final size:19
Alignment explanation
Indices: 20353--20404 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
20343 GAAAATATTC
20353 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
20372 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
20391 A-A-TGCATTCGATGC
1 AGAGTGCA-TCGATGC
20405 TCAATTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 19 0.63
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.23
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:20645 original size:20 final size:21
Alignment explanation
Indices: 20622--20661 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
20612 GAATCGAATA
20622 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
20642 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
20662 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:22465 original size:23 final size:23
Alignment explanation
Indices: 22439--22512 Score: 123
Period size: 23 Copynumber: 3.2 Consensus size: 23
22429 TAGCACTATA
22439 GTGCAATTCTACGCGGCACTTCG
1 GTGCAATTCTACGCGGCACTTCG
*
22462 GTGCAATTCTACGTGGCACTTCG
1 GTGCAATTCTACGCGGCACTTCG
22485 GTGCAATTCTACGTC-GCACTTCG
1 GTGCAATTCTACG-CGGCACTTCG
22508 GTGCA
1 GTGCA
22513 TTTATATGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (23 bp):
GTGCAATTCTACGCGGCACTTCG
Found at i:26017 original size:61 final size:60
Alignment explanation
Indices: 25905--26018 Score: 147
Period size: 61 Copynumber: 1.9 Consensus size: 60
25895 TCATATGACT
* *** * * * *
25905 ATTTTATAACTTTTAATAGTTGGAGGACTCAATAAAATAATATCTTATAATCGGATGATC
1 ATTTTATAACTTTTAATAATAACAGAACTCAATAAAACAACATCCTATAATCGGATGATC
25965 ATTTTATAACTTTTAATAATAACAGAAACTCAATAAAACAACATCCTATAATCG
1 ATTTTATAACTTTTAATAATAACAG-AACTCAATAAAACAACATCCTATAATCG
26019 AGAGATTACT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
60 21 0.47
61 24 0.53
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAATAACAGAACTCAATAAAACAACATCCTATAATCGGATGATC
Found at i:31311 original size:19 final size:19
Alignment explanation
Indices: 31287--31323 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31277 ATCACTACAT
* *
31287 CACCTTGTTTTCTCAACAA
1 CACCTTCTTCTCTCAACAA
31306 CACCTTCTTCTCTCAACA
1 CACCTTCTTCTCTCAACA
31324 GTAGCATGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.38, G:0.03, T:0.35
Consensus pattern (19 bp):
CACCTTCTTCTCTCAACAA
Found at i:32204 original size:14 final size:15
Alignment explanation
Indices: 32178--32218 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
32168 ATTTTTATTA
32178 TAATATA-ATAAAA-
1 TAATATATATAAAAT
*
32191 TAATATTTATAAAAT
1 TAATATATATAAAAT
32206 TAATATATATAAA
1 TAATATATATAAA
32219 TAAAAATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 6 0.25
14 6 0.25
15 12 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATATATATAAAAT
Found at i:41833 original size:19 final size:19
Alignment explanation
Indices: 41809--41857 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
41799 GCTGATGATG
41809 AGGATAGTGAAAATTCCTC
1 AGGATAGTGAAAATTCCTC
41828 AGGATAGTGAAAATTCCTC
1 AGGATAGTGAAAATTCCTC
*
41847 AGGGTAGTGAA
1 AGGATAGTGAA
41858 TCTGCAGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (19 bp):
AGGATAGTGAAAATTCCTC
Found at i:48411 original size:26 final size:26
Alignment explanation
Indices: 48382--48435 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
48372 TAGGCCAAAT
*
48382 TCTAACACAGCCTTCCCTAGGATACA
1 TCTAACACAACCTTCCCTAGGATACA
48408 TCTAACACAACCTTCCCTAGGATACA
1 TCTAACACAACCTTCCCTAGGATACA
48434 TC
1 TC
48436 GAAAACCCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.35, G:0.09, T:0.24
Consensus pattern (26 bp):
TCTAACACAACCTTCCCTAGGATACA
Found at i:49395 original size:23 final size:23
Alignment explanation
Indices: 49369--49431 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
49359 ATATAACCAC
49369 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
49392 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
49415 TACCTATTACATCATAT
1 TACCTATTACATTATAT
49432 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:49616 original size:30 final size:29
Alignment explanation
Indices: 49576--49642 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
49566 TCATTTGCAC
* * *
49576 AAAAAATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
49606 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
49635 AATAATAT
1 AA-AATAT
49643 ATATCGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:49769 original size:20 final size:20
Alignment explanation
Indices: 49744--49782 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49734 TCCACAGTGA
* *
49744 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
49764 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
49783 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:49821 original size:23 final size:23
Alignment explanation
Indices: 49795--49857 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
49785 ATATAACCAC
49795 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
49818 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
49841 TACCTATTACATCATAT
1 TACCTATTACATTATAT
49858 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:50308 original size:34 final size:34
Alignment explanation
Indices: 50268--50333 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
50258 AAGTTGTAGA
*
50268 TTTTGATTTCCTTTTGCTTGGCATCATATGAGAT
1 TTTTGATTTCCTTTTGCTTGGCACCATATGAGAT
50302 TTTTGATTTCCTTTTGCTTGGCACCATATGAG
1 TTTTGATTTCCTTTTGCTTGGCACCATATGAG
50334 CTTTGGATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.48
Consensus pattern (34 bp):
TTTTGATTTCCTTTTGCTTGGCACCATATGAGAT
Found at i:50629 original size:18 final size:18
Alignment explanation
Indices: 50606--50642 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
50596 CGAAATATAT
50606 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
50624 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
50642 A
1 A
50643 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:51088 original size:21 final size:20
Alignment explanation
Indices: 51058--51109 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
51048 GATAGATACT
*
51058 TTACAATATAACCACTACCTA
1 TTACATTATAACCA-TACCTA
*
51079 TTACATTATAAACGATACCTA
1 TTACATTAT-AACCATACCTA
51100 TTACATTATA
1 TTACATTATA
51110 TAAGCGCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.82
22 4 0.14
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:51121 original size:23 final size:22
Alignment explanation
Indices: 51063--51133 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
51053 ATACTTTACA
*
51063 ATATAACCACTACCTATTACATT
1 ATATAACGA-TACCTATTACATT
51086 ATA-AACGATACCTATTACATT
1 ATATAACGATACCTATTACATT
*
51107 ATATAAGCGCA-ACCTATTACATC
1 ATATAA-CG-ATACCTATTACATT
51130 ATAT
1 ATAT
51134 GTTTACCTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 16 0.37
22 6 0.14
23 20 0.47
24 1 0.02
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.32
Consensus pattern (22 bp):
ATATAACGATACCTATTACATT
Found at i:54325 original size:183 final size:182
Alignment explanation
Indices: 54013--54502 Score: 863
Period size: 183 Copynumber: 2.7 Consensus size: 182
54003 TTAAAATTAC
*
54013 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACGTAAAGTACCGACACAAT
1 CGACACTTTTTTAAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
54078 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
54143 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
130 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
* *
54196 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
54261 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
54326 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
* *
54379 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTTA-AATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
54444 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATA
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATA
54503 ATATGTTGAA
Statistics
Matches: 293, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
183 290 0.99
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (182 bp):
CGACACTTTTTTAAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
TATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
Found at i:55368 original size:198 final size:198
Alignment explanation
Indices: 54699--55807 Score: 2064
Period size: 198 Copynumber: 5.6 Consensus size: 198
54689 TGGGATCGAC
*
54699 ACAGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACACTATACTTTTGGGTTCGATGA
1 ACAGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
54764 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
66 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
*
54829 TCTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCAT
131 TCTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCAT
54894 AAA
196 AAA
54897 ACAGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
1 ACAGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
*
54962 TTTTGGGATTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
66 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
55027 TCTGGAAAAGAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCA
131 TCTGGAAAA-AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCA
55092 TAAA
195 TAAA
55096 ACAGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
1 ACAGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
55161 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
66 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
55226 TCTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCAT
131 TCTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCAT
55291 AAA
196 AAA
55294 ACAGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
1 ACAGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
55359 TTTTGGGATCGACAC--TTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
66 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
55421 TCTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATA-TATCTCAT
131 TCTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCAT
55485 AAA
196 AAA
55488 ACAGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
1 ACAGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
55553 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
66 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
* *
55618 TCTGGAAAAGAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTTTTTCA
131 TCTGGAAAA-AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCA
55683 TAAA
195 TAAA
* * * *
55687 ACCGGTAGACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG
1 ACAGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATG
* *
55752 TTTTTGGGATTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
65 ATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
55808 GGCCATATTG
Statistics
Matches: 892, Mismatches: 12, Indels: 12
0.97 0.01 0.01
Matches are distributed among these distances:
194 91 0.10
195 100 0.11
196 6 0.01
197 53 0.06
198 323 0.36
199 258 0.29
200 61 0.07
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (198 bp):
ACAGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
TCTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCAT
AAA
Found at i:55972 original size:19 final size:19
Alignment explanation
Indices: 55926--55974 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
55916 TTATATTCAC
*
55926 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
55945 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
55964 ATACAAAATTA
1 ATACAAAATTA
55975 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:57805 original size:33 final size:33
Alignment explanation
Indices: 57768--57833 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
57758 CATCTTAATA
*
57768 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
57801 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
57834 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:60176 original size:17 final size:18
Alignment explanation
Indices: 60154--60196 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
60144 ATATATCCGG
60154 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
60171 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
60191 TATCAT
1 TATCAT
60197 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:60214 original size:20 final size:19
Alignment explanation
Indices: 60159--60205 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
60149 TCCGGTATCA
60159 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
60178 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
60199 TTTTACC
1 TTTTACC
60206 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:60367 original size:20 final size:20
Alignment explanation
Indices: 60340--60386 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
60330 TCCGGTAACG
60340 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
60359 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
60380 TTTTACC
1 TTTTACC
60387 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:60430 original size:181 final size:182
Alignment explanation
Indices: 60126--60598 Score: 698
Period size: 181 Copynumber: 2.6 Consensus size: 182
60116 CGTACTTACG
* *
60126 AAAGTATCGACACTTTAAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
60191 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
60256 AGGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * *
60307 AAAGTATCGAAACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
60372 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
60437 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * *
60489 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCTGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * * *
60553 TTGTCCTAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
60599 AATTTGGATC
Statistics
Matches: 261, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 165 0.63
182 95 0.36
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:61161 original size:229 final size:229
Alignment explanation
Indices: 60665--61378 Score: 1308
Period size: 228 Copynumber: 3.1 Consensus size: 229
60655 ACCTACTTTT
*
60665 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
* *
60730 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
66 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
*
60795 ATATTATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
60859 CAAATATAATAATAAATATGTTTTCAACAGTGAA
196 CAAATATAATAATAAATATGTTTTCAACAGTGAA
*
60893 ATAAGTATAGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
60958 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
61023 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
61088 CAAATATAATAATAAATATGTTTTCAACAGTGAA
196 CAAATATAATAATAAATATGTTTTCAACAGTGAA
61122 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
61187 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AA
66 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
*
61251 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* * * *
61316 TAAAGATAATAATAAATATATTTTC-ATAGTGAA
196 CAAATATAATAATAAATATGTTTTCAACAGTGAA
*
61349 ATAAGTATGGACACTTTTATAAAAAGGATA
1 ATAAGTATGGACACTTTTATAAAAATGATA
61379 GATAATTTAC
Statistics
Matches: 473, Mismatches: 12, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
227 36 0.08
228 226 0.48
229 211 0.45
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (229 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
CAAATATAATAATAAATATGTTTTCAACAGTGAA
Found at i:66067 original size:24 final size:24
Alignment explanation
Indices: 66040--66087 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
66030 ATGTTATTAG
66040 CCTATTTATAGCCATAAATATAAC
1 CCTATTTATAGCCATAAATATAAC
66064 CCTATTTATAGCCATAAATATAAC
1 CCTATTTATAGCCATAAATATAAC
66088 TTGAATAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (24 bp):
CCTATTTATAGCCATAAATATAAC
Found at i:70347 original size:31 final size:31
Alignment explanation
Indices: 70262--70327 Score: 111
Period size: 29 Copynumber: 2.2 Consensus size: 31
70252 TTTTATTTTT
70262 TATAT-ATAGAAAAATTAGAG--TTTTTTAA
1 TATATAATAGAAAAATTAGAGTTTTTTTTAA
70290 TATATAATAGAAAAATTAGAGTTTTTTTTAA
1 TATATAATAGAAAAATTAGAGTTTTTTTTAA
70321 TATATAA
1 TATATAA
70328 ATAATAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
28 5 0.14
29 15 0.43
31 15 0.43
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (31 bp):
TATATAATAGAAAAATTAGAGTTTTTTTTAA
Found at i:71431 original size:16 final size:17
Alignment explanation
Indices: 71405--71437 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
71395 TTGGATTAAT
*
71405 AAAAATAATTTTAAATA
1 AAAAATAATTTAAAATA
71422 AAAAAT-ATTTAAAATA
1 AAAAATAATTTAAAATA
71438 TTTAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATAATTTAAAATA
Found at i:71437 original size:9 final size:9
Alignment explanation
Indices: 71423--71447 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
71413 TTTTAAATAA
71423 AAAATATTT
1 AAAATATTT
71432 AAAATATTT
1 AAAATATTT
71441 AAAATAT
1 AAAATAT
71448 ATATGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAATATTT
Found at i:73132 original size:64 final size:63
Alignment explanation
Indices: 73036--73176 Score: 151
Period size: 64 Copynumber: 2.2 Consensus size: 63
73026 CATATTTAAT
* * *
73036 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAATTGGTGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCAT-AGGTA
* * * * * * *
73099 GTGCATCGATGCATCCCCTTAAA-ATGGAAACATCGAGGGTAATTTGTGTATTGATGCATGGGTA
1 GTGCATCGATGCA-CCCCTTAAAGA-AGAAACATCGAAGGCAATTGGTGCATCGATGCATAGGTA
73163 GTGCATCGATGCAC
1 GTGCATCGATGCAC
73177 ATGTTAAAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
63 17 0.26
64 48 0.74
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCATAGGTA
Found at i:73209 original size:20 final size:20
Alignment explanation
Indices: 73164--73241 Score: 120
Period size: 20 Copynumber: 3.7 Consensus size: 20
73154 GCATGGGTAG
73164 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
73188 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
73208 TGCATCGATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
73228 TGCATCGATGCACT
1 TGCATCGATGCACT
73242 TAAAGGGGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
20 38 0.70
22 1 0.02
23 2 0.04
24 13 0.24
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:74806 original size:32 final size:31
Alignment explanation
Indices: 74770--74845 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
74760 GGGGCCACGA
* *
74770 GGCCTACTTAAGAACACATCTTAGGGCCGCAG
1 GGCCTACCTAAGAA-ACATCTCAGGGCCGCAG
* **
74802 GGCCTACCCAAGAATGATCTCAGGGCCGCAG
1 GGCCTACCTAAGAAACATCTCAGGGCCGCAG
*
74833 AGCCTACCTAAGA
1 GGCCTACCTAAGA
74846 GTCACATTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 25 0.68
32 12 0.32
ACGTcount: A:0.29, C:0.30, G:0.25, T:0.16
Consensus pattern (31 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGCAG
Found at i:74828 original size:63 final size:63
Alignment explanation
Indices: 74722--74845 Score: 146
Period size: 63 Copynumber: 2.0 Consensus size: 63
74712 CCCTAAGGGA
* * * *
74722 ACATCTTAGGGCCTGAGAGCTTACCCAAGATAGATTTCGGGGCCAC-GAGGCCTACTTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCACAGA-GCCTACCTAAGAAC
* *
74785 ACATCTTAGGGCC-GCAGGGCCTACCCAAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCACAGAGCCTACCTAAGA
74846 GTCACATTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
62 2 0.04
63 48 0.92
64 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCACAGAGCCTACCTAAGAAC
Found at i:74830 original size:31 final size:31
Alignment explanation
Indices: 74787--74845 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
74777 TTAAGAACAC
* *
74787 ATCTTAGGGCCGCAGGGCCTACCCAAGAATG
1 ATCTCAGGGCCGCAGAGCCTACCCAAGAATG
*
74818 ATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ATCTCAGGGCCGCAGAGCCTACCCAAGA
74846 GTCACATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.15
Consensus pattern (31 bp):
ATCTCAGGGCCGCAGAGCCTACCCAAGAATG
Found at i:75860 original size:30 final size:29
Alignment explanation
Indices: 75756--75847 Score: 157
Period size: 29 Copynumber: 3.1 Consensus size: 29
75746 CATAAATTAA
*
75756 TTACGAAACTAACACCCTTTTAAAAATAC
1 TTACGAAACTAACACCCTTTTAAAAATAT
*
75785 TTATGAAACTAACACCCTTTTAAAAATAT
1 TTACGAAACTAACACCCTTTTAAAAATAT
75814 TTACGAAACTAACACCCTTTTAAAAAATAT
1 TTACGAAACTAACACCCTTTT-AAAAATAT
75844 TTAC
1 TTAC
75848 AAAAATAGCA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
29 47 0.80
30 12 0.20
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.32
Consensus pattern (29 bp):
TTACGAAACTAACACCCTTTTAAAAATAT
Found at i:78124 original size:18 final size:18
Alignment explanation
Indices: 78101--78141 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
78091 TAAATTTTTG
78101 TCATAATATTTTCAAACC
1 TCATAATATTTTCAAACC
*
78119 TCATAATATTTTCAAGCC
1 TCATAATATTTTCAAACC
78137 TCATA
1 TCATA
78142 TAGTCTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (18 bp):
TCATAATATTTTCAAACC
Found at i:88671 original size:18 final size:19
Alignment explanation
Indices: 88628--88672 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
88618 ATCATTTTTT
88628 AAAATCAACTTTTGCTTTC
1 AAAATCAACTTTTGCTTTC
88647 AAAATCAACTTTTGCTTTC
1 AAAATCAACTTTTGCTTTC
88666 -AAATCAA
1 AAAATCAA
88673 ATCATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (19 bp):
AAAATCAACTTTTGCTTTC
Found at i:90408 original size:15 final size:16
Alignment explanation
Indices: 90384--90416 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
90374 TTAAGTTTTT
*
90384 TTTTTGTTTAAAATAA
1 TTTTTGTTTAAAAAAA
90400 TTTTT-TTTAAAAAAA
1 TTTTTGTTTAAAAAAA
90415 TT
1 TT
90417 ATAAATGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTTTGTTTAAAAAAA
Done.