Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006597.1 Hibiscus syriacus cultivar Beakdansim tig00016184_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: 103888
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:11240 original size:31 final size:31
Alignment explanation
Indices: 11204--11281 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
11194 TAAAAAAACA
* **
11204 TAAGTTTTGGTCACTTATGTTATTGTTTT-T
1 TAAGTTTTGGTCACTTACGTTATCATTTTAT
11234 TCAAGTTTTGGTCGA-TTACGTTATCATTTTAT
1 T-AAGTTTTGGTC-ACTTACGTTATCATTTTAT
*
11266 TAAGTTTTGATCACTT
1 TAAGTTTTGGTCACTT
11282 GGATGTTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 2 0.05
31 35 0.88
32 3 0.08
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (31 bp):
TAAGTTTTGGTCACTTACGTTATCATTTTAT
Found at i:12657 original size:31 final size:31
Alignment explanation
Indices: 12600--12705 Score: 160
Period size: 31 Copynumber: 3.5 Consensus size: 31
12590 ATTCAACGTC
*
12600 CAAGTGATCAAAACTTAAT-AAACGATAACG
1 CAAGTGACCAAAACTTAATAAAACGATAACG
*
12630 CAAGTGACCAAAACTTAATAAAACGATAACA
1 CAAGTGACCAAAACTTAATAAAACGATAACG
* *
12661 TAAGTGACCAAAACTTAATAAAACAATAACG
1 CAAGTGACCAAAACTTAATAAAACGATAACG
*
12692 TAAGTGACCAAAAC
1 CAAGTGACCAAAAC
12706 GTGTGTATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 18 0.26
31 52 0.74
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.18
Consensus pattern (31 bp):
CAAGTGACCAAAACTTAATAAAACGATAACG
Found at i:16079 original size:26 final size:28
Alignment explanation
Indices: 16050--16111 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
16040 GACACGGGTC
*
16050 TAGAAAATA-TTTTCT-GTTTTTATTTT
1 TAGAAAATATTTTTCTAATTTTTATTTT
*
16076 TAGAAAATATTTTTTTAATTTTTATTTT
1 TAGAAAATATTTTTCTAATTTTTATTTT
*
16104 TTGAAAAT
1 TAGAAAAT
16112 TAGAAAACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 9 0.29
27 5 0.16
28 17 0.55
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (28 bp):
TAGAAAATATTTTTCTAATTTTTATTTT
Found at i:21592 original size:18 final size:18
Alignment explanation
Indices: 21569--21609 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
21559 AAAGGCGATG
*
21569 GCGGTATCATATATGGTT
1 GCGGTATCATATATGGCT
21587 GCGGTATCATATATGGCT
1 GCGGTATCATATATGGCT
21605 GCGGT
1 GCGGT
21610 GGCTACTGTG
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:0.20, C:0.15, G:0.32, T:0.34
Consensus pattern (18 bp):
GCGGTATCATATATGGCT
Found at i:22853 original size:18 final size:17
Alignment explanation
Indices: 22814--22856 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
22804 ATTATATGGA
22814 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
22830 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
22848 TATTATTAT
1 TATTATTAT
22857 ATGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:25974 original size:8 final size:8
Alignment explanation
Indices: 25961--25999 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
25951 GAACATTTCA
25961 TGCATTTT
1 TGCATTTT
25969 TGCA-TTT
1 TGCATTTT
25976 TGCATTTT
1 TGCATTTT
*
25984 TGCCTTTT
1 TGCATTTT
25992 TGCATTTT
1 TGCATTTT
26000 CATCTACAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.10, C:0.15, G:0.13, T:0.62
Consensus pattern (8 bp):
TGCATTTT
Found at i:27193 original size:9 final size:9
Alignment explanation
Indices: 27181--27231 Score: 57
Period size: 9 Copynumber: 5.3 Consensus size: 9
27171 TAAAAAGGGC
27181 AAAAAGAAAA
1 AAAAAG-AAA
27191 AAAAAGCAAAA
1 AAAAAG--AAA
*
27202 AAAAAGCAA
1 AAAAAGAAA
*
27211 AAAAAGAAC
1 AAAAAGAAA
27220 AAAAAGAAA
1 AAAAAGAAA
27229 AAA
1 AAA
27232 GAAAAAGGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
9 20 0.56
10 6 0.17
11 10 0.28
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:27193 original size:18 final size:17
Alignment explanation
Indices: 27179--27231 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 17
27169 AATAAAAAGG
27179 GCAAAAAGAAAAAAAAA
1 GCAAAAAGAAAAAAAAA
*
27196 GCAAAAAAAAAGCAAAAAAA
1 GC-AAAAAGAA--AAAAAAA
27216 GAACAAAAAGAAAAAA
1 G--CAAAAAGAAAAAA
27232 GAAAAAGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 2 0.07
18 7 0.24
19 4 0.14
20 8 0.28
21 7 0.24
22 1 0.03
ACGTcount: A:0.81, C:0.08, G:0.11, T:0.00
Consensus pattern (17 bp):
GCAAAAAGAAAAAAAAA
Found at i:27201 original size:11 final size:11
Alignment explanation
Indices: 27181--27229 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
27171 TAAAAAGGGC
27181 AAAAAG-AAAA
1 AAAAAGCAAAA
27191 AAAAAGCAAAA
1 AAAAAGCAAAA
27202 AAAAAGCAAAA
1 AAAAAGCAAAA
27213 AAAGAA-CAAAA
1 AAA-AAGCAAAA
27224 AGAAAA
1 A-AAAA
27230 AAGAAAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.17
11 26 0.72
12 4 0.11
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAGCAAAA
Found at i:27863 original size:22 final size:22
Alignment explanation
Indices: 27835--27878 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
27825 AGCTACCCCA
27835 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
27857 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
27879 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:28935 original size:36 final size:36
Alignment explanation
Indices: 28838--28958 Score: 188
Period size: 36 Copynumber: 3.3 Consensus size: 36
28828 ATTGAAAACA
* *
28838 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
* *
28874 TTTCCCTTAAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGACAG
*
28911 TTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
28947 TTTCCCTTGAAA
1 TTTCCCTTGAAA
28959 CAAAATATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
36 45 0.59
37 31 0.41
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
Found at i:29038 original size:138 final size:138
Alignment explanation
Indices: 28772--29169 Score: 485
Period size: 138 Copynumber: 2.9 Consensus size: 138
28762 ACTCATGATT
* * * * * *
28772 GTTTTTCTTAAAACAAGA-TTTGTCTCTATTGAGACAGTTTCTCTTGAAACATAAACA-TTGAAA
1 GTTTCTCTTGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATATTTGAAT
* * * *
28835 ACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTAAAACAAAATTTTGTCTC
64 ATATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTAAAACAAAATTTTGTCTC
28900 TCTTGAGACA
129 TCTTGAGACA
*
28910 GTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * * ** ** * *
28975 GTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
66 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTAAAACAAAATTTTGTCTCTC
29040 TTGAGACA
131 TTGAGACA
* * * *
29048 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * * * *
29113 ATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAAT
66 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTT-AAA-ACAAAAT
29170 CTTCAAATTT
Statistics
Matches: 219, Mismatches: 37, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
137 5 0.02
138 208 0.95
139 1 0.00
140 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (138 bp):
GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTAAAACAAAATTTTGTCTCTC
TTGAGACA
Found at i:29085 original size:36 final size:36
Alignment explanation
Indices: 28977--29100 Score: 169
Period size: 36 Copynumber: 3.4 Consensus size: 36
28967 TTGAATATGT
*
28977 TTTCT-TTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * * *
29012 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
*
29049 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
29085 TTTCCCTTGAAACAAA
1 TTTCTCTTGAAACAAA
29101 ATCTTTGAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
35 5 0.06
36 41 0.53
37 31 0.40
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:29162 original size:65 final size:65
Alignment explanation
Indices: 29058--29232 Score: 224
Period size: 65 Copynumber: 2.6 Consensus size: 65
29048 GTTTCTCTTG
* ** * **
29058 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
* *
29123 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
29188 TA
64 TA
* * *
29190 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
29233 CATATATCTT
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
65 31 0.33
66 6 0.06
67 31 0.33
68 27 0.28
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:29895 original size:105 final size:105
Alignment explanation
Indices: 29733--30182 Score: 642
Period size: 105 Copynumber: 4.3 Consensus size: 105
29723 GCCATCCACG
* * * *
29733 ATTTCAAC-TCTACGACGGAGGATATCGTGGCACTCGAGACAACGCAAGTTCAACTTCACGACAA
1 ATTTCAACTTC-ACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGA
* * *
29797 AGAGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
62 AGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
29841 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACACAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
29906 ACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
29946 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
30011 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
30051 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTTACGATGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
30116 ACCGCTGCTTGTCAACAA-AA-TT-TC-AT-TCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
30151 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
30183 TGAACAATGC
Statistics
Matches: 317, Mismatches: 24, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
100 38 0.12
101 2 0.01
102 1 0.00
103 2 0.01
104 2 0.01
105 247 0.78
106 3 0.01
108 20 0.06
109 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
Found at i:31374 original size:17 final size:17
Alignment explanation
Indices: 31339--31376 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
31329 TATGGATATT
*
31339 TTATTCATTTATTTTTA
1 TTATTCATTTATTTATA
31356 TTATTCATGTTA-TTATA
1 TTATTCAT-TTATTTATA
31373 TTAT
1 TTAT
31377 ATGTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (17 bp):
TTATTCATTTATTTATA
Found at i:33338 original size:17 final size:18
Alignment explanation
Indices: 33295--33335 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
33285 AAATTATATT
33295 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
33312 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
33330 ATTAAA
1 AGTAAA
33336 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:34160 original size:17 final size:17
Alignment explanation
Indices: 34118--34160 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
34108 AAAATCTAAA
*
34118 ATATTAAAATATAATTT
1 ATATTAAAATATAACTT
* *
34135 AAATAAAAATATAACTT
1 ATATTAAAATATAACTT
34152 ATATTAAAA
1 ATATTAAAA
34161 AATTATATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATTAAAATATAACTT
Found at i:38896 original size:13 final size:13
Alignment explanation
Indices: 38878--38902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38868 TTTAGATTTA
38878 AAAAATTATTTTT
1 AAAAATTATTTTT
38891 AAAAATTATTTT
1 AAAAATTATTTT
38903 GTTTAAAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:39225 original size:2 final size:2
Alignment explanation
Indices: 39218--39252 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
39208 GACTACTAAC
39218 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 A
39253 CACCGCCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43549 original size:2 final size:2
Alignment explanation
Indices: 43542--43579 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
43532 GACTACTAAC
43542 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43580 GTAATACACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45216 original size:60 final size:61
Alignment explanation
Indices: 45075--45220 Score: 145
Period size: 60 Copynumber: 2.4 Consensus size: 61
45065 TATATGTCCC
* * *
45075 CAAAATAT-AACTCTCATT-TTAATATGATCCTTAAAACTTTTCAATATTCCAATTTCATCCT
1 CAAAATATGAAC-CTCATTCTAAAT-TAATCCTTAAAACGTTTCAATATTCCAATTTCATCCT
* *** * * *
45136 CAAACTATGATTTTCATTCTAAATTAATCCTTAAAA-GTTTGACTATTCTAATTTCATCCT
1 CAAAATATGAACCTCATTCTAAATTAATCCTTAAAACGTTTCAATATTCCAATTTCATCCT
* *
45196 TAAAATATGAACCTCTTTCTAAATT
1 CAAAATATGAACCTCATTCTAAATT
45221 GGTCCCCAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
60 39 0.58
61 23 0.34
62 5 0.07
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (61 bp):
CAAAATATGAACCTCATTCTAAATTAATCCTTAAAACGTTTCAATATTCCAATTTCATCCT
Found at i:49586 original size:32 final size:31
Alignment explanation
Indices: 49540--49628 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 31
49530 TAGCATTTTC
49540 ATAAATTTAATGATTATTTTGTAATAGTTCTG
1 ATAAATTTAATGATTATTTTGTAATAGTTC-G
**
49572 -TAAATTTCAATGATTATTTCATAATAGTTCG
1 ATAAATTT-AATGATTATTTTGTAATAGTTCG
* *
49603 ATAAAATTAATGATTCTTTTTGTAAT
1 ATAAATTTAATGATT-ATTTTGTAAT
49629 TTTCAAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 15 0.31
32 33 0.69
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (31 bp):
ATAAATTTAATGATTATTTTGTAATAGTTCG
Found at i:54012 original size:18 final size:18
Alignment explanation
Indices: 53989--54031 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
53979 TCCCAAACCA
53989 TGATCCTCGTTTTTAAAT
1 TGATCCTCGTTTTTAAAT
54007 TGATCCTCGTTTTTAAAT
1 TGATCCTCGTTTTTAAAT
54025 TGATCCT
1 TGATCCT
54032 TAAACTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.49
Consensus pattern (18 bp):
TGATCCTCGTTTTTAAAT
Found at i:54429 original size:60 final size:61
Alignment explanation
Indices: 54313--54473 Score: 152
Period size: 60 Copynumber: 2.7 Consensus size: 61
54303 GTATAATTAT
* * * * *
54313 GGATG-AAATGGAAATGTTCAAAAAGTTTGGGGACCAATTTAGAAGGAATAAAATAGTTTGG
1 GGATGAAAATAGAAATGTTC-AAAAGTTTGAGGACTAATTTAGAAGCAATAAAATAGTTTAG
* * **
54374 GGGTGAAAAT-GAAATGTTCAAAAGTTTGAGGACTAATTTAGAATGCCAT-GCATAGTTTAG
1 GGATGAAAATAGAAATGTTCAAAAGTTTGAGGACTAATTTAGAA-GCAATAAAATAGTTTAG
* * *
54434 GGATGAAATTAGAATAT-TT-AAAAGTTTAAGGATTAATTTA
1 GGATGAAAATAGAA-ATGTTCAAAAGTTTGAGGACTAATTTA
54474 AAATAAGAGT
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
60 57 0.68
61 21 0.25
62 6 0.07
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.30
Consensus pattern (61 bp):
GGATGAAAATAGAAATGTTCAAAAGTTTGAGGACTAATTTAGAAGCAATAAAATAGTTTAG
Found at i:57089 original size:40 final size:43
Alignment explanation
Indices: 56997--57092 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 43
56987 GCGCAAAAAG
* *
56997 AAACGCCGCAAAAGCTTATGCTTTTTAGCGACGTTTATTTTAC
1 AAACGCCGCTAAAGCTTATGCTTTTTAGCAACGTTTATTTTAC
* *
57040 AAACACCGCTAAAGGTTATGC-TTTTAGCAAC-TTT-TTTTAC
1 AAACGCCGCTAAAGCTTATGCTTTTTAGCAACGTTTATTTTAC
*
57080 AAATGCCGCTAAA
1 AAACGCCGCTAAA
57093 AGATTATGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 17 0.36
41 3 0.06
42 9 0.19
43 18 0.38
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (43 bp):
AAACGCCGCTAAAGCTTATGCTTTTTAGCAACGTTTATTTTAC
Found at i:57672 original size:21 final size:21
Alignment explanation
Indices: 57648--57698 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
57638 CGCTTCAGTT
57648 CATTTGAGCAAATATTTCATC
1 CATTTGAGCAAATATTTCATC
57669 CATTTGAGCAAATATTTCATC
1 CATTTGAGCAAATATTTCATC
*
57690 TATTTGAGC
1 CATTTGAGC
57699 CAATTGTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (21 bp):
CATTTGAGCAAATATTTCATC
Found at i:60821 original size:42 final size:42
Alignment explanation
Indices: 60752--61069 Score: 305
Period size: 42 Copynumber: 7.7 Consensus size: 42
60742 GGATTGTACA
* * * * *
60752 ATTGCGGCGTTTATTACAAAAAAGCCGCTAAGGTGCATTACT
1 ATTGTGGCGTTTATTACAAAAACGCCGCTAAAGTGCATGATT
* *
60794 ATAGTGGCGTTTATTACAAAAATGCCGCTAAAGTGCATGATT
1 ATTGTGGCGTTTATTACAAAAACGCCGCTAAAGTGCATGATT
*
60836 ATT-TAGGCGTTTA-T-CAAAAACGCCG--AAAGTGCATGACT
1 ATTGT-GGCGTTTATTACAAAAACGCCGCTAAAGTGCATGATT
* * *
60874 ATTGCGGCGTTTATTGA-AAAAATGCCACTAAAGTGCATGATT
1 ATTGTGGCGTTTATT-ACAAAAACGCCGCTAAAGTGCATGATT
* ** *
60916 ATTGCGATGTTTATTACAAAAACGCCACTAAAGTGCATGATT
1 ATTGTGGCGTTTATTACAAAAACGCCGCTAAAGTGCATGATT
* *
60958 ATTGTGGCGTTTA-TAAAAAAACGCAGCTAAAGTGCATGATT
1 ATTGTGGCGTTTATTACAAAAACGCCGCTAAAGTGCATGATT
* * * *
60999 ATTGTGGCGATTT-TGTA-ATAAACGCCTCT-AAGTTGCTTGACT
1 ATTGTGGCG-TTTAT-TACAAAAACGCCGCTAAAG-TGCATGATT
* * *
61041 ATTGCGGCATTTATTATAAAAACGCCGCT
1 ATTGTGGCGTTTATTACAAAAACGCCGCT
61070 TTTTGTTCAA
Statistics
Matches: 231, Mismatches: 31, Indels: 28
0.80 0.11 0.10
Matches are distributed among these distances:
38 23 0.10
39 1 0.00
40 18 0.08
41 45 0.19
42 142 0.61
43 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (42 bp):
ATTGTGGCGTTTATTACAAAAACGCCGCTAAAGTGCATGATT
Found at i:60895 original size:80 final size:81
Alignment explanation
Indices: 60752--61069 Score: 293
Period size: 83 Copynumber: 3.8 Consensus size: 81
60742 GGATTGTACA
* * * * *
60752 ATTGCGGCGTTTATTACAAAAAAGCCGCTAAGGTGCATTACTATAGTGGCGTTTATTACAAAAAT
1 ATTGAGGCGTTTATTACAAAAACGCCG--AAAGTGCATGACTATTGTGGCGTTTATTA-AAAAAT
60817 GCCGCTAAAGTGCATGATT
63 GCCGCTAAAGTGCATGATT
* *
60836 ATTTAGGCGTTTA-T-CAAAAACGCCGAAAGTGCATGACTATTGCGGCGTTTATTGAAAAAATGC
1 ATTGAGGCGTTTATTACAAAAACGCCGAAAGTGCATGACTATTGTGGCGTTTATT-AAAAAATGC
*
60899 CACTAAAGTGCATGATT
65 CGCTAAAGTGCATGATT
* ** * * * *
60916 ATTGCGATGTTTATTACAAAAACGCCACTAAAGTGCATGATTATTGTGGCGTTTATAAAAAAACG
1 ATTGAGGCGTTTATTACAAAAACG-C-CGAAAGTGCATGACTATTGTGGCGTTTATTAAAAAATG
*
60981 CAGCTAAAGTGCATGATT
64 CCGCTAAAGTGCATGATT
* * ** * * *
60999 ATTGTGGCGATTT-TGTA-ATAAACGCCTCTAAGTTGCTTGACTATTGCGGCATTTATTATAAAA
1 ATTGAGGCG-TTTAT-TACAAAAACGCC-GAAAG-TGCATGACTATTGTGGCGTTTATTA-AAAA
*
61062 ACGCCGCT
61 ATGCCGCT
61070 TTTTGTTCAA
Statistics
Matches: 193, Mismatches: 31, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
80 57 0.30
81 3 0.02
82 22 0.11
83 58 0.30
84 53 0.27
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (81 bp):
ATTGAGGCGTTTATTACAAAAACGCCGAAAGTGCATGACTATTGTGGCGTTTATTAAAAAATGCC
GCTAAAGTGCATGATT
Found at i:60969 original size:122 final size:124
Alignment explanation
Indices: 60752--61007 Score: 322
Period size: 122 Copynumber: 2.1 Consensus size: 124
60742 GGATTGTACA
* * * * * *
60752 ATTGCGGCGTTTATTACAAAAAAGCCGCTAAGGTGCATTACTATAGTGGCGTTTATTACAAAAAT
1 ATTGCGGCGTTTATTACAAAAAAGCCACTAAAGTGCATGACTATAGCGACGTTTATTACAAAAAC
* *
60817 GCCGCTAAAGTGCATGATTATTTAGGCGTTTAT-CAAAAACGC-CGAAAGTGCATGACT
66 GCCACTAAAGTGCATGATTATTTAGGCGTTTATAAAAAAACGCACGAAAGTGCATGACT
* * * *
60874 ATTGCGGCGTTTATTGA-AAAAATGCCACTAAAGTGCATGATTATTGCGATGTTTATTACAAAAA
1 ATTGCGGCGTTTATT-ACAAAAAAGCCACTAAAGTGCATGACTATAGCGACGTTTATTACAAAAA
* *
60938 CGCCACTAAAGTGCATGATTATTGT-GGCGTTTATAAAAAAACGCAGCTAAAGTGCATGATT
65 CGCCACTAAAGTGCATGATTATT-TAGGCGTTTATAAAAAAACGCA-CGAAAGTGCATGACT
*
60999 ATTGTGGCG
1 ATTGCGGCG
61008 ATTTTGTAAT
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
122 83 0.73
123 10 0.09
125 21 0.18
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (124 bp):
ATTGCGGCGTTTATTACAAAAAAGCCACTAAAGTGCATGACTATAGCGACGTTTATTACAAAAAC
GCCACTAAAGTGCATGATTATTTAGGCGTTTATAAAAAAACGCACGAAAGTGCATGACT
Found at i:61062 original size:125 final size:122
Alignment explanation
Indices: 60752--61066 Score: 314
Period size: 122 Copynumber: 2.6 Consensus size: 122
60742 GGATTGTACA
* * * * * * * * *
60752 ATTGCGGCGTTTATT-ACAAAAAAGCCGCTAAGGTGCATTACTATAGTGGCGTTTATTACAAAAA
1 ATTGCGGCGATTATTGA-AAAAACGCCACTAAAGTGCATGACTATTGCGACATTTATTACAAAAA
* * *
60816 TGCCGCTAAAGTGCATGATTATTTAGGCGTTTATCAAAAACGCCGAAAGTGCATGACT
65 CGCCACTAAAGTGCATGATTATTTAGGCGTTTATAAAAAACGCCGAAAGTGCATGACT
* * * **
60874 ATTGCGGCGTTTATTGAAAAAATGCCACTAAAGTGCATGATTATTGCGATGTTTATTACAAAAAC
1 ATTGCGGCGATTATTGAAAAAACGCCACTAAAGTGCATGACTATTGCGACATTTATTACAAAAAC
* *
60939 GCCACTAAAGTGCATGATTATTGT-GGCGTTTATAAAAAAACGCAGCTAAAGTGCATGATT
66 GCCACTAAAGTGCATGATTATT-TAGGCGTTTAT-AAAAAACGC--CGAAAGTGCATGACT
* * * * * *
60999 ATTGTGGCGATT-TTGTAATAAACGCCTCT-AAGTTGCTTGACTATTGCGGCATTTATTATAAAA
1 ATTGCGGCGATTATTG-AAAAAACGCCACTAAAG-TGCATGACTATTGCGACATTTATTACAAAA
61062 ACGCC
64 ACGCC
61067 GCTTTTTGTT
Statistics
Matches: 161, Mismatches: 25, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
122 83 0.52
123 10 0.06
124 6 0.04
125 62 0.39
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (122 bp):
ATTGCGGCGATTATTGAAAAAACGCCACTAAAGTGCATGACTATTGCGACATTTATTACAAAAAC
GCCACTAAAGTGCATGATTATTTAGGCGTTTATAAAAAACGCCGAAAGTGCATGACT
Found at i:62963 original size:168 final size:168
Alignment explanation
Indices: 62679--63027 Score: 644
Period size: 168 Copynumber: 2.1 Consensus size: 168
62669 TATAGCGTTC
*
62679 GTTTATGTTCATAGGGGTGTAAATGAACATAATGTTCCATGAAATGTTCATGAACTGTTCTTATA
1 GTTTATGTTCACAGGGGTGTAAATGAACATAATGTTCCATGAAATGTTCATGAACTGTTCTTATA
*
62744 ACATTCGTTTATGTTTGTTTGTTAAGTTAAAATAAACGAGTATGAACAAATTTTTATATTTAATT
66 ACATTCGCTTATGTTTGTTTGTTAAGTTAAAATAAACGAGTATGAACAAATTTTTATATTTAATT
62809 AATAAACGAACGAACACGAACGGAGGTGTATTTAGTTT
131 AATAAACGAACGAACACGAACGGAGGTGTATTTAGTTT
*
62847 GTTTATGTTCACAGGGGTGTAAATGAACATAATGTTCCATGATATGTTCATGAACTGTTCTTATA
1 GTTTATGTTCACAGGGGTGTAAATGAACATAATGTTCCATGAAATGTTCATGAACTGTTCTTATA
* *
62912 ACGTTCGCTTATGTTTGTTTGTTAAGTTAAAATAAACGAGTATGGACAAATTTTTATATTTAATT
66 ACATTCGCTTATGTTTGTTTGTTAAGTTAAAATAAACGAGTATGAACAAATTTTTATATTTAATT
*
62977 AATAAACGAACGAACACGAACGTAGGTGTATTTAGTTT
131 AATAAACGAACGAACACGAACGGAGGTGTATTTAGTTT
63015 GTTTATGTTCACA
1 GTTTATGTTCACA
63028 AATAAGCTCA
Statistics
Matches: 175, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
168 175 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (168 bp):
GTTTATGTTCACAGGGGTGTAAATGAACATAATGTTCCATGAAATGTTCATGAACTGTTCTTATA
ACATTCGCTTATGTTTGTTTGTTAAGTTAAAATAAACGAGTATGAACAAATTTTTATATTTAATT
AATAAACGAACGAACACGAACGGAGGTGTATTTAGTTT
Found at i:63684 original size:64 final size:63
Alignment explanation
Indices: 63612--63803 Score: 181
Period size: 64 Copynumber: 3.2 Consensus size: 63
63602 CAAAAATACT
*
63612 TTTCAGGGTGGGCACACATATGTTAACAACATAAAATTTTTAAATGAGATGGGTACCAATAAAA
1 TTTCAGGGTGGGCACACATATGTTAACAACATAAAATTTTTAAATGAGAT-GGTACAAATAAAA
* ** * * ** * * *
63676 TTTCAGGGT-GG-ACAC---TGTCAGTAAAAT-AAGTAATTAATTGA-A--G-A-AAACTCATA
1 TTTCAGGGTGGGCACACATATGTTAACAACATAAAATTTTTAAATGAGATGGTACAAA-TAAAA
63729 TTTCAGGGTGGGCACACATATGTTAACAACATAAAATTTTTAAATGAGATAGGTACAAATAAAA
1 TTTCAGGGTGGGCACACATATGTTAACAACATAAAATTTTTAAATGAGAT-GGTACAAATAAAA
63793 TTTCAGGGTGG
1 TTTCAGGGTGG
63804 ACAATGTCAG
Statistics
Matches: 94, Mismatches: 21, Indels: 26
0.67 0.15 0.18
Matches are distributed among these distances:
52 2 0.02
53 13 0.14
54 3 0.03
55 4 0.04
57 1 0.01
58 18 0.19
59 18 0.19
60 1 0.01
62 4 0.04
63 3 0.03
64 24 0.26
65 3 0.03
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (63 bp):
TTTCAGGGTGGGCACACATATGTTAACAACATAAAATTTTTAAATGAGATGGTACAAATAAAA
Found at i:63737 original size:53 final size:53
Alignment explanation
Indices: 63675--63908 Score: 168
Period size: 53 Copynumber: 4.2 Consensus size: 53
63665 TACCAATAAA
* *
63675 ATTTCAGGGTGGACACTGTCAGTAAAATAAGTAATTAATTGAAGAAAACTCAT
1 ATTTCAGGGTGGACACTGTCAGTAAAATAAGTAATTAATCGAAGAAAACTCAG
* ** * * ** * * *
63728 ATTTCAGGGTGGGCACACATATGTTAACAACATAAAATTTTTAAATGAGATAGGTACAAA-TAAA
1 ATTTCAGGGT-GG-ACAC---TGTCAGTAAAAT-AAGTAATT-AAT-CGA-A-G-A-AAACTCAG
*
63792 ATTTCAGGGTGGACAATGTCAGT-AAATAAGTAATTAATCGAAGAAAACTCAG
1 ATTTCAGGGTGGACACTGTCAGTAAAATAAGTAATTAATCGAAGAAAACTCAG
** * * *
63844 ATTTCAGGGTGGGA-ACCATCAGTAAAATAAGTAACTAATCGAAAAAAATTCAG
1 ATTTCAGGGT-GGACACTGTCAGTAAAATAAGTAATTAATCGAAGAAAACTCAG
63897 ATTTCAGGGTGG
1 ATTTCAGGGTGG
63909 GCACAACCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 31
0.71 0.14 0.16
Matches are distributed among these distances:
51 3 0.02
52 21 0.15
53 50 0.36
54 3 0.02
55 6 0.04
56 3 0.02
57 5 0.04
58 11 0.08
59 9 0.06
60 3 0.02
61 2 0.01
62 4 0.03
63 3 0.02
64 13 0.09
65 3 0.02
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (53 bp):
ATTTCAGGGTGGACACTGTCAGTAAAATAAGTAATTAATCGAAGAAAACTCAG
Found at i:69973 original size:2 final size:2
Alignment explanation
Indices: 69966--70001 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
69956 ACTATAATAC
69966 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
70002 ATTTGGATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71822 original size:17 final size:17
Alignment explanation
Indices: 71800--71838 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
71790 TGAATCAAAT
71800 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
71817 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
71834 -AATTA
1 TAATTA
71839 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:73691 original size:24 final size:24
Alignment explanation
Indices: 73646--73695 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
73636 TGGTGGTAGG
*
73646 TTTAATGGATGTTTAAACTTTATT
1 TTTAATGGATATTTAAACTTTATT
*
73670 TTTAATGGTATATTT-AAGTTTATT
1 TTTAATGG-ATATTTAAACTTTATT
73694 TT
1 TT
73696 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (24 bp):
TTTAATGGATATTTAAACTTTATT
Found at i:76985 original size:15 final size:15
Alignment explanation
Indices: 76961--77004 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
76951 TGAGTGTTTG
76961 TTTG-TTTATTTTTA
1 TTTGTTTTATTTTTA
76975 TTTGTTTTATTTTT-
1 TTTGTTTTATTTTTA
*
76989 TTTAGTTTTAATTTTA
1 TTT-GTTTTATTTTTA
77005 ATATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTGTTTTATTTTTA
Found at i:89110 original size:18 final size:19
Alignment explanation
Indices: 89075--89111 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
89065 CACGGAATGT
89075 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
89095 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
89112 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:93679 original size:20 final size:21
Alignment explanation
Indices: 93654--93700 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
93644 ATATTAAGTC
93654 ATTTAATAAAG-TAAAGGAGA
1 ATTTAATAAAGATAAAGGAGA
*
93674 ATTTAA-AAAGATAGAGGAGA
1 ATTTAATAAAGATAAAGGAGA
93694 ATTTAAT
1 ATTTAAT
93701 TAAAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (21 bp):
ATTTAATAAAGATAAAGGAGA
Found at i:103842 original size:72 final size:77
Alignment explanation
Indices: 103693--103877 Score: 215
Period size: 81 Copynumber: 2.4 Consensus size: 77
103683 GTTTAGCCTT
* *
103693 TCATCTAACTTGCATACTTGACACCTTTCTGCCAAGTGCACAGCTAGGTCATTAATCTTTTACTC
1 TCATCTAAC-TGCATAATTGACA-CTTTCTGCCAAGTGCACAACTAGGTCATTAATCTTTTACTC
103758 AACGGTATTTAACCGA
64 AAC-G-ATTTAACCGA
* *
103774 TCATCTAACTGACATAATTGACA-TTTCTTCCAA-TGCATAACTAGGTC-TT-ATCTTTTACTC-
1 TCATCTAACTG-CATAATTGACACTTTCTGCCAAGTGCACAACTAGGTCATTAATCTTTTACTCA
*
103834 AC-ATTTAACCGT
65 ACGATTTAACCGA
103846 TCATCT-A-TGCATAATTGACACATTTCTGCCAA
1 TCATCTAACTGCATAATTGACAC-TTTCTGCCAA
103878 ATACACAGCT
Statistics
Matches: 95, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
69 11 0.12
70 2 0.02
71 10 0.11
72 15 0.16
75 2 0.02
76 11 0.12
77 2 0.02
78 12 0.13
79 9 0.09
80 2 0.02
81 19 0.20
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.36
Consensus pattern (77 bp):
TCATCTAACTGCATAATTGACACTTTCTGCCAAGTGCACAACTAGGTCATTAATCTTTTACTCAA
CGATTTAACCGA
Done.