Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004497.1 Hibiscus syriacus cultivar Beakdansim tig00009919_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: 52531
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:3610 original size:18 final size:17
Alignment explanation
Indices: 3584--3617 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3574 TTAAATTGAT
*
3584 ATTATATATATATATTAG
1 ATTAAATATAT-TATTAG
3602 ATTAAATATATTATTA
1 ATTAAATATATTATTA
3618 TATCTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTAAATATATTATTAG
Found at i:3662 original size:2 final size:2
Alignment explanation
Indices: 3655--3695 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3645 TATATCAATA
3655 AT AT AT AT 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 AT AT AT AT A
3696 CTAAATAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19217 original size:19 final size:19
Alignment explanation
Indices: 19190--19242 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
19180 TAAATGTTTA
19190 CAGTTATCAGATAATTTTT
1 CAGTTATCAGATAATTTTT
* * *
19209 CAGTGATCATATGA-TTTT
1 CAGTTATCAGATAATTTTT
*
19227 CAATTATCAGATAATT
1 CAGTTATCAGATAATT
19243 ATAAGATCAG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (19 bp):
CAGTTATCAGATAATTTTT
Found at i:19425 original size:41 final size:41
Alignment explanation
Indices: 19368--19448 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
19358 AAGTGAGTGC
*
19368 TTATCAATTCAGCTTTGGTACATTCGTGTATCAATGTTCAA
1 TTATCAATTCAGCTTTGGTACATTCGTATATCAATGTTCAA
19409 TTATCAATTCAGCTTTGGTACATTCGTATATCAATGTTCA
1 TTATCAATTCAGCTTTGGTACATTCGTATATCAATGTTCA
19449 GCACCATTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (41 bp):
TTATCAATTCAGCTTTGGTACATTCGTATATCAATGTTCAA
Found at i:21033 original size:22 final size:22
Alignment explanation
Indices: 21008--21172 Score: 240
Period size: 22 Copynumber: 7.5 Consensus size: 22
20998 GGGTATATTA
21008 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
* *
21030 GTCCTTCGGGATGTATCTAGTG
1 GTCCTTCGGGACGTATCCAGTG
* *
21052 GTCCTTCGAGATGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
21074 GTCCTTCGGGACGTATCCAATG
1 GTCCTTCGGGACGTATCCAGTG
* * *
21096 GTCATTCGGGACATATCCAATG
1 GTCCTTCGGGACGTATCCAGTG
21118 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
21140 GTCCTTCGGGACGTATCTAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
21162 GTTCTTCGGGA
1 GTCCTTCGGGA
21173 AATAGTGATC
Statistics
Matches: 129, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 129 1.00
ACGTcount: A:0.16, C:0.24, G:0.30, T:0.30
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:23313 original size:48 final size:48
Alignment explanation
Indices: 23255--23348 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
23245 TGTTTGTTTT
*
23255 GCTCCTCTGAATGATTCAGTGTTGACTGATTCAGCAAAACAGTGCTTC
1 GCTCCACTGAATGATTCAGTGTTGACTGATTCAGCAAAACAGTGCTTC
23303 GCTCCACTGAATGATTCAGTGTTGACTGATTCAGCAAAACAGTGCT
1 GCTCCACTGAATGATTCAGTGTTGACTGATTCAGCAAAACAGTGCT
23349 GACTGATTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (48 bp):
GCTCCACTGAATGATTCAGTGTTGACTGATTCAGCAAAACAGTGCTTC
Found at i:23346 original size:23 final size:23
Alignment explanation
Indices: 23319--23384 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 23
23309 CTGAATGATT
23319 CAGTGTTGACTGATTCAGCAAAA
1 CAGTGTTGACTGATTCAGCAAAA
* *
23342 CAGTGCTGACTGATTTAGCAAAA
1 CAGTGTTGACTGATTCAGCAAAA
*
23365 CAGTGTTGAATGATTCAGCA
1 CAGTGTTGACTGATTCAGCA
23385 CAGAAATACA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (23 bp):
CAGTGTTGACTGATTCAGCAAAA
Found at i:24110 original size:14 final size:14
Alignment explanation
Indices: 24091--24133 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
24081 ATATAAAAAT
24091 TATTTTTATTTTAA
1 TATTTTTATTTTAA
* *
24105 TATTTTCATATTAA
1 TATTTTTATTTTAA
*
24119 TTTTTTTATTGTTAA
1 TATTTTTATT-TTAA
24134 CGAGATTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (14 bp):
TATTTTTATTTTAA
Found at i:24937 original size:14 final size:14
Alignment explanation
Indices: 24918--24945 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24908 CAATTTTATG
24918 TACTCATAAACATT
1 TACTCATAAACATT
24932 TACTCATAAACATT
1 TACTCATAAACATT
24946 GTTCATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
TACTCATAAACATT
Found at i:26765 original size:43 final size:43
Alignment explanation
Indices: 26685--26808 Score: 139
Period size: 42 Copynumber: 2.9 Consensus size: 43
26675 TCTGGAAAAA
* *
26685 AAAACGCCGCAAAA-AGTCATGATCTATAGCGGTGTTTTTGGATAC
1 AAAA-GCCGCAAAAGAGTCA-GACCTATAGCGGTGTTTTTAGA-AC
* *
26730 AAAAGCCGCAAAAGAG-CAGACCTATAACGGCGTTTTTAGAAC
1 AAAAGCCGCAAAAGAGTCAGACCTATAGCGGTGTTTTTAGAAC
*
26772 AAACA-CCGCAAAAG-GTAAGACCTATAGCGGTGTTTTT
1 AAA-AGCCGCAAAAGAGTCAGACCTATAGCGGTGTTTTT
26809 TAACACAAAC
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 32 0.46
43 19 0.28
44 11 0.16
45 6 0.09
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (43 bp):
AAAAGCCGCAAAAGAGTCAGACCTATAGCGGTGTTTTTAGAAC
Found at i:30692 original size:41 final size:41
Alignment explanation
Indices: 30626--30945 Score: 363
Period size: 41 Copynumber: 7.7 Consensus size: 41
30616 TGACAATTAT
* * * * *
30626 GGCGTTTGGTATTAAAATGCCACTAAAGTACGCGTCTACAGC
1 GGCGTTT-GTATAAAAACGCCACTAAAGTATGAGTCTATAGC
* * *
30668 GGCGTTTGTATGAAAACGCCACTAAAGTATGAGTTTATAGA
1 GGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATAGC
* * *
30709 AGCGTTTGGTATTAAAACGCCAC-AAACGTATGTGTCTATAGC
1 GGCGTTT-GTATAAAAACGCCACTAAA-GTATGAGTCTATAGC
* *
30751 GGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGC
1 GGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATAGC
* * * *
30792 GGTGTTTGGTATTAAAACGCCACAAAAGTATGTGTCTATAGC
1 GGCGTTT-GTATAAAAACGCCACTAAAGTATGAGTCTATAGC
* * * * *
30834 AGTGTTTGTGTAAAAACGCCACTAAAGTATGAGTTTATAGT
1 GGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATAGC
* * *
30875 GGCGTTTGTATAAAAATGCCACTTAAGTACGAGTCTATAGC
1 GGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATAGC
*
30916 GGCGTTTATATAAAAACGCCACTAAAGTAT
1 GGCGTTTGTATAAAAACGCCACTAAAGTAT
30946 AGTATTTTGC
Statistics
Matches: 232, Mismatches: 42, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
41 155 0.67
42 77 0.33
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (41 bp):
GGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATAGC
Found at i:30721 original size:83 final size:83
Alignment explanation
Indices: 30626--30945 Score: 419
Period size: 83 Copynumber: 3.9 Consensus size: 83
30616 TGACAATTAT
* * * *
30626 GGCGTTTGGTATTAAAATGCCACTAAAGTACGCGTCTACAGCGGCGTTTGTATGAAAACGCCACT
1 GGCGTTTGGTATTAAAACGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTATAAAAACGCCACT
30691 AAAGTATGAGTTTATAGA
66 AAAGTATGAGTTTATAGA
* * *
30709 AGCGTTTGGTATTAAAACGCCAC-AAACGTATGTGTCTATAGCGGCGTTTGTGTAAAAACGCCAC
1 GGCGTTTGGTATTAAAACGCCACTAAA-GTACGTGTCTATAGCGGCGTTTGTATAAAAACGCCAC
* * *
30773 TAAAGTACGAGTCTATAGC
65 TAAAGTATGAGTTTATAGA
* * * * * *
30792 GGTGTTTGGTATTAAAACGCCACAAAAGTATGTGTCTATAGCAGTGTTTGTGTAAAAACGCCACT
1 GGCGTTTGGTATTAAAACGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTATAAAAACGCCACT
*
30857 AAAGTATGAGTTTATAGT
66 AAAGTATGAGTTTATAGA
* * * * *
30875 GGCGTTT-GTATAAAAATGCCACTTAAGTACGAGTCTATAGCGGCGTTTATATAAAAACGCCACT
1 GGCGTTTGGTATTAAAACGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTATAAAAACGCCACT
30939 AAAGTAT
66 AAAGTAT
30946 AGTATTTTGC
Statistics
Matches: 207, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
82 57 0.28
83 147 0.71
84 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (83 bp):
GGCGTTTGGTATTAAAACGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTATAAAAACGCCACT
AAAGTATGAGTTTATAGA
Found at i:30793 original size:124 final size:123
Alignment explanation
Indices: 30626--30945 Score: 412
Period size: 124 Copynumber: 2.6 Consensus size: 123
30616 TGACAATTAT
* * *
30626 GGCGTTTG-GTATTAAAATGCCACTAAAGTACGCGTCTACAGCGGCGTTTGTATGAAAACGCCAC
1 GGCGTTTGTGTA--AAAATGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCAC
* *
30690 TAAAGTATGAGTTTATAGAAGCGTTTG-GTATTAAAACGCCAC-AAACGTATGTGTCTATAGC
64 TAAAGTATGAGTCTATAGAAGCGTTTGTGTA--AAAACGCCACTAAA-GTATGAGTCTATAGC
* * * *
30751 GGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGCGGTGTTTGGTATTAAAACGCCACA
1 GGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATAGCGGCGTTT-GTATAAAAACGCCACT
* * * * *
30816 AAAGTATGTGTCTATAGCAGTGTTTGTGTAAAAACGCCACTAAAGTATGAGTTTATAGT
65 AAAGTATGAGTCTATAGAAGCGTTTGTGTAAAAACGCCACTAAAGTATGAGTCTATAGC
* * *
30875 GGCGTTTGTATAAAAATGCCACTTAAGTACGAGTCTATAGCGGCGTTTATATAAAAACGCCACTA
1 GGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTA
30940 AAGTAT
66 AAGTAT
30946 AGTATTTTGC
Statistics
Matches: 171, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
123 20 0.12
124 98 0.57
125 47 0.27
126 6 0.04
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (123 bp):
GGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTA
AAGTATGAGTCTATAGAAGCGTTTGTGTAAAAACGCCACTAAAGTATGAGTCTATAGC
Found at i:31901 original size:31 final size:31
Alignment explanation
Indices: 31863--32082 Score: 323
Period size: 31 Copynumber: 7.1 Consensus size: 31
31853 GCTCGTATAA
31863 TAATCTGTCCATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
* *
31894 TAATCTGTCTATATGTCCCGAAGAACAAAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
* *
31925 TAATCTGTCTATATGTCCCGAAGAACAAAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
*
31956 TAATCTGTCCAAATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
*
31987 TAATCTGTCCATATGTTCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
* ** *
32018 TAATATGTTAATATGTTCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
* * *
32049 TAAACTATACATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCCGAAGAACATAGG
32080 TAA
1 TAA
32083 CCCTCGACTC
Statistics
Matches: 173, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 173 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (31 bp):
TAATCTGTCCATATGTCCCGAAGAACATAGG
Found at i:33559 original size:17 final size:17
Alignment explanation
Indices: 33537--33572 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
33527 GCTTGATATA
33537 ATTAGAA-TATTATATTT
1 ATTAGAATTA-TATATTT
33554 ATTAGAATTATATATTT
1 ATTAGAATTATATATTT
33571 AT
1 AT
33573 GTTTCAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTAGAATTATATATTT
Found at i:34209 original size:42 final size:42
Alignment explanation
Indices: 34131--34233 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 42
34121 GATGCCACAG
* *
34131 GGGTACATGCCCATCCCACCAGTTAAGATGCCATCTCCGCAA
1 GGGTACATGCCCAGCCCACCAATTAAGATGCCATCTCCGCAA
* * * ** *
34173 GGGTATATGCCCAGCCCACCAATTCATATGTTATCTCCGCAT
1 GGGTACATGCCCAGCCCACCAATTAAGATGCCATCTCCGCAA
* * *
34215 GGTTACATTCCTAGCCCAC
1 GGGTACATGCCCAGCCCAC
34234 AGGGGTACAT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.24
Consensus pattern (42 bp):
GGGTACATGCCCAGCCCACCAATTAAGATGCCATCTCCGCAA
Found at i:34263 original size:21 final size:21
Alignment explanation
Indices: 34239--34281 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
34229 CCCACAGGGG
34239 TACATACCCAGCCTGCAAGGT
1 TACATACCCAGCCTGCAAGGT
* *
34260 TACATGCCCAGCCTGCAGGGT
1 TACATACCCAGCCTGCAAGGT
34281 T
1 T
34282 TTATGACACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.21
Consensus pattern (21 bp):
TACATACCCAGCCTGCAAGGT
Found at i:34831 original size:24 final size:23
Alignment explanation
Indices: 34803--34882 Score: 61
Period size: 24 Copynumber: 3.3 Consensus size: 23
34793 TTACAAATCC
34803 AAATTCAACTTAATATTCCAATTA
1 AAATTCAACTT-ATATTCCAATTA
* * * * *
34827 AAATTTAAAATTGTATTCAAAATTC
1 AAA-TTCAACTTATATTC-CAATTA
*
34852 AAAGTCAACTTTATATTCCAATTA
1 AAATTCAAC-TTATATTCCAATTA
*
34876 AAGTTCA
1 AAATTCA
34883 CAAAGAAAGT
Statistics
Matches: 40, Mismatches: 13, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
24 20 0.50
25 20 0.50
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.38
Consensus pattern (23 bp):
AAATTCAACTTATATTCCAATTA
Found at i:35033 original size:21 final size:21
Alignment explanation
Indices: 35007--35047 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
34997 TTTTTAACTT
35007 TAAATAATAATTAATATATTA
1 TAAATAATAATTAATATATTA
*
35028 TAAATAATATTTAATATATT
1 TAAATAATAATTAATATATT
35048 CGAATGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATAATAATTAATATATTA
Found at i:35511 original size:136 final size:135
Alignment explanation
Indices: 35153--35644 Score: 647
Period size: 137 Copynumber: 3.7 Consensus size: 135
35143 GGTGTTGACA
* ** * *
35153 TGAATAGTGCCCTGTCAGGGACATCACACATAATAGGACAATTATAATATATTCGCTGACAAAAA
1 TGAATAGTGCCCCGTGGGGGACATCACACATAATAGGACAATTATAACATATTCTCTGACAAAAA
* * ** * *
35218 GGAAAGATGCGTCGCACAAGAAATACTTTCACCACATTGTTGCGTCCCCTCAAAAATGATAGATG
66 GGAAAGACGCGTCCCACAAGAAGCACTTTCACCA-ATTGTTGCGTCCCCTCAAACATGATGGATG
35283 TTGATG
130 TTGATG
* *
35289 TGAATAGTGTCCCAC-CGGGGGACATCACACATAATAAGACAATTATAACATATTCTCTGACAAA
1 TGAATAGTG-CCC-CGTGGGGGACATCACACATAATAGGACAATTATAACATATTCTCTGACAAA
* *
35353 AAGGAAATG-TGCATCCCACAAGAAGCACTTTCACCATATTGTTGCGTCCCCTCAAACATGATGG
64 AAGGAAA-GACGCGTCCCACAAGAAGCACTTTCACCA-ATTGTTGCGTCCCCTCAAACATGATGG
35417 ATGTTGATG
127 ATGTTGATG
* *
35426 TGAATAGTGCCCCGTGGGGGACATCACACATAATAGGGCAATTATAACATATTATCTGACAAAAA
1 TGAATAGTGCCCCGTGGGGGACATCACACATAATAGGACAATTATAACATATTCTCTGACAAAAA
*
35491 GGAAAGACGCGTCCCACAAGAAGCGC-TT-A-C-ATTGTTGCGTCCCCTCAAACATGATAGG-TG
66 GGAAAGACGCGTCCCACAAGAAGCACTTTCACCAATTGTTGCGTCCCCTCAAACATGAT-GGATG
*
35551 TTGATA
130 TTGATG
* * * *
35557 TGAACAGTGCCCCGTGGGGGACATCACACATAATAGGGCAATTATAACCTATTTTCTGACAAAAA
1 TGAATAGTGCCCCGTGGGGGACATCACACATAATAGGACAATTATAACATATTCTCTGACAAAAA
* * *
35622 AGAAAGGCACGTCCCACAAGAAG
66 GGAAAGACGCGTCCCACAAGAAG
35645 TGCTTTTGGT
Statistics
Matches: 322, Mismatches: 28, Indels: 17
0.88 0.08 0.05
Matches are distributed among these distances:
131 114 0.35
132 2 0.01
133 1 0.00
134 1 0.00
135 4 0.01
136 80 0.25
137 119 0.37
138 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (135 bp):
TGAATAGTGCCCCGTGGGGGACATCACACATAATAGGACAATTATAACATATTCTCTGACAAAAA
GGAAAGACGCGTCCCACAAGAAGCACTTTCACCAATTGTTGCGTCCCCTCAAACATGATGGATGT
TGATG
Found at i:35593 original size:131 final size:133
Alignment explanation
Indices: 35140--35644 Score: 633
Period size: 131 Copynumber: 3.8 Consensus size: 133
35130 ATAACGAATA
* * ** *
35140 ATAGGTGTTGACATGAATAGTGCCCTGTCAGGGACATCACACATAATAGGACAATTATAATATAT
1 ATAGGTGTTGATATGAATAGTGCCCCGTGGGGGACATCACACATAATAGGACAATTATAACATAT
* * * **
35205 TCGCTGACAAAAAGGAAAGATGCGTCGCACAAGAAATACTTTCACCACATTGTTGCGTCCCCTCA
66 TCTCTGACAAAAAGGAAAGACGCGTCCCACAAGAAGCACTTT---CACATTGTTGCGTCCCCTCA
*
35270 AAAATG
128 AACATG
* * * *
35276 ATAGATGTTGATGTGAATAGTGTCCCAC-CGGGGGACATCACACATAATAAGACAATTATAACAT
1 ATAGGTGTTGATATGAATAGTG-CCC-CGTGGGGGACATCACACATAATAGGACAATTATAACAT
* *
35340 ATTCTCTGACAAAAAGGAAATG-TGCATCCCACAAGAAGCACTTTCACCATATTGTTGCGTCCCC
64 ATTCTCTGACAAAAAGGAAA-GACGCGTCCCACAAGAAGCACTTTCA-C--ATTGTTGCGTCCCC
35404 TCAAACATG
125 TCAAACATG
* *
35413 AT-GGATGTTGATGTGAATAGTGCCCCGTGGGGGACATCACACATAATAGGGCAATTATAACATA
1 ATAGG-TGTTGATATGAATAGTGCCCCGTGGGGGACATCACACATAATAGGACAATTATAACATA
* *
35477 TTATCTGACAAAAAGGAAAGACGCGTCCCACAAGAAGCGC-TT-ACATTGTTGCGTCCCCTCAAA
65 TTCTCTGACAAAAAGGAAAGACGCGTCCCACAAGAAGCACTTTCACATTGTTGCGTCCCCTCAAA
35540 CATG
130 CATG
* * *
35544 ATAGGTGTTGATATGAACAGTGCCCCGTGGGGGACATCACACATAATAGGGCAATTATAACCTAT
1 ATAGGTGTTGATATGAATAGTGCCCCGTGGGGGACATCACACATAATAGGACAATTATAACATAT
* * * *
35609 TTTCTGACAAAAAAGAAAGGCACGTCCCACAAGAAG
66 TCTCTGACAAAAAGGAAAGACGCGTCCCACAAGAAG
35645 TGCTTTTGGT
Statistics
Matches: 329, Mismatches: 30, Indels: 25
0.86 0.08 0.07
Matches are distributed among these distances:
131 114 0.35
132 2 0.01
133 1 0.00
134 3 0.01
135 5 0.02
136 91 0.28
137 112 0.34
138 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (133 bp):
ATAGGTGTTGATATGAATAGTGCCCCGTGGGGGACATCACACATAATAGGACAATTATAACATAT
TCTCTGACAAAAAGGAAAGACGCGTCCCACAAGAAGCACTTTCACATTGTTGCGTCCCCTCAAAC
ATG
Done.