Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001342.1 Hibiscus syriacus cultivar Beakdansim tig00002619_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: 112458
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:4858 original size:23 final size:23
Alignment explanation
Indices: 4795--4846 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
4785 ATAAGTGGCA
4795 CTTCGGTGCAA-ACCTATGTGGTC
1 CTTCGGTGCAATA-CTATGTGGTC
*
4818 TTTCGGTGCAATACTATGTGGTC
1 CTTCGGTGCAATACTATGTGGTC
4841 CTTCGG
1 CTTCGG
4847 GACAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (23 bp):
CTTCGGTGCAATACTATGTGGTC
Found at i:7483 original size:58 final size:57
Alignment explanation
Indices: 7416--7524 Score: 137
Period size: 58 Copynumber: 1.9 Consensus size: 57
7406 CAAGTGGTGA
* * * *
7416 CCGATTATAGGACATTGTTTAATTGAGTCTCCTGGCTATTAAAAGTTATAAATTGTTT
1 CCGACTATAGGACAATGTTTAATTGAGTCACC-GACTATTAAAAGTTATAAATTGTTT
** **
7474 CCGACTATAGGGTAATGTTTTGTTGAGTCACCGACTATTAAAAGTTATAAA
1 CCGACTATAGGACAATGTTTAATTGAGTCACCGACTATTAAAAGTTATAAA
7525 ATGATCACCC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 18 0.42
58 25 0.58
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (57 bp):
CCGACTATAGGACAATGTTTAATTGAGTCACCGACTATTAAAAGTTATAAATTGTTT
Found at i:8523 original size:60 final size:60
Alignment explanation
Indices: 8343--8525 Score: 201
Period size: 60 Copynumber: 3.0 Consensus size: 60
8333 TTTGAATGAA
* * * * * * * * *
8343 TTTGAGAATAAAATTAGAATATTCAAAAGTTTGAGGAATAATATAGAAAGAAGGTGATAG
1 TTTGAGGATGAAATTAGAATATTCAAAAGTTTAAAGACTAATTTAGAATGAAAGTCATAG
**
8403 TTT-AGGGATGAAATTAGAATGCTCAAAAGTTTAAAGACTAATTTAGAAT-AAGAGTCATAG
1 TTTGA-GGATGAAATTAGAATATTCAAAAGTTTAAAGACTAATTTAGAATGAA-AGTCATAG
* *
8463 TTTGAGGATGAAATTAGAATATTCCAAAGTTTAAAGACTAATTTA-AACTGAAAGTTATAG
1 TTTGAGGATGAAATTAGAATATTCAAAAGTTTAAAGACTAATTTAGAA-TGAAAGTCATAG
8523 TTT
1 TTT
8526 AGAAACATAT
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
59 5 0.05
60 95 0.92
61 3 0.03
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.32
Consensus pattern (60 bp):
TTTGAGGATGAAATTAGAATATTCAAAAGTTTAAAGACTAATTTAGAATGAAAGTCATAG
Found at i:9287 original size:31 final size:30
Alignment explanation
Indices: 9220--9293 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
9210 TTTTGTCAAT
* * *
9220 ATTTTTTCTAATATTTGTTATTAAGGGCTTA
1 ATTTTTT-TAATACTTATTATCAAGGGCTTA
*
9251 ATTTTTTAAATACTTATTATCAAGGGCTTA
1 ATTTTTTTAATACTTATTATCAAGGGCTTA
9281 ATTTTTTTTAATA
1 A-TTTTTTTAATA
9294 TTTGTTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 20 0.54
31 17 0.46
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (30 bp):
ATTTTTTTAATACTTATTATCAAGGGCTTA
Found at i:9862 original size:14 final size:14
Alignment explanation
Indices: 9845--9885 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
9835 AATTTAAGGA
*
9845 TTAAAGTTTT-AGT
1 TTAAGGTTTTGAGT
9858 GTTAAGGTTTTGAGT
1 -TTAAGGTTTTGAGT
9873 TTAAGGTTTTGAG
1 TTAAGGTTTTGAG
9886 GGATTAGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 22 0.88
15 3 0.12
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (14 bp):
TTAAGGTTTTGAGT
Found at i:9990 original size:21 final size:21
Alignment explanation
Indices: 9966--10010 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9956 TGATTTAGTG
*
9966 TTAGTGTTTATAAACTAAGGT
1 TTAGGGTTTATAAACTAAGGT
**
9987 TTAGGGTTTATTTACTAAGGT
1 TTAGGGTTTATAAACTAAGGT
10008 TTA
1 TTA
10011 AAAGTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (21 bp):
TTAGGGTTTATAAACTAAGGT
Found at i:10114 original size:29 final size:28
Alignment explanation
Indices: 10068--10123 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
10058 AACTAATGTT
* * *
10068 TAGGGTTTATGTATTAAGGTTTTAGGGTA
1 TAGGGTTTATATACTAAGG-ATTAGGGTA
10097 TAGGGTTTATATACTAAGGATTAGGGT
1 TAGGGTTTATATACTAAGGATTAGGGT
10124 TTATTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.27, C:0.02, G:0.30, T:0.41
Consensus pattern (28 bp):
TAGGGTTTATATACTAAGGATTAGGGTA
Found at i:10162 original size:65 final size:65
Alignment explanation
Indices: 10081--10213 Score: 221
Period size: 65 Copynumber: 2.0 Consensus size: 65
10071 GGTTTATGTA
* * *
10081 TTAAGGTTTTAGGGTATAGGGTTTATATACTAAGGATTAGGGTTTATTTATTAGGGTTTAAAGGT
1 TTAAAGTTTTAAGGTATAGGGTTTATAGACTAAGGATTAGGGTTTATTTATTAGGGTTTAAAGGT
* *
10146 TTAAAGTTTTAAGGTATATGGTTTATAGACTAAGGATTAGGGTTTATTTATTAGGTTTTAAAGGT
1 TTAAAGTTTTAAGGTATAGGGTTTATAGACTAAGGATTAGGGTTTATTTATTAGGGTTTAAAGGT
10211 TTA
1 TTA
10214 TGATTAAGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.44
Consensus pattern (65 bp):
TTAAAGTTTTAAGGTATAGGGTTTATAGACTAAGGATTAGGGTTTATTTATTAGGGTTTAAAGGT
Found at i:10220 original size:14 final size:14
Alignment explanation
Indices: 10206--10253 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
10196 TTAGGTTTTA
10206 AAGGTTTATGA-TT
1 AAGGTTTATGATTT
*
10219 AAGG-TTATGGTTT
1 AAGGTTTATGATTT
**
10232 AAGGTTTACAATTT
1 AAGGTTTATGATTT
10246 AAGGTTTA
1 AAGGTTTA
10254 AGGCTTATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 5 0.17
13 10 0.34
14 14 0.48
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (14 bp):
AAGGTTTATGATTT
Found at i:10239 original size:7 final size:7
Alignment explanation
Indices: 10217--10319 Score: 52
Period size: 7 Copynumber: 14.3 Consensus size: 7
10207 AGGTTTATGA
10217 TTAAGG-
1 TTAAGGT
*
10223 TTATGGT
1 TTAAGGT
10230 TTAAGGT
1 TTAAGGT
*
10237 TTACA-AT
1 TTA-AGGT
10244 TTAAGGT
1 TTAAGGT
*
10251 TTAAGGC
1 TTAAGGT
*
10258 TTATA-GA
1 TTA-AGGT
10265 TTAAGGT
1 TTAAGGT
10272 TTACTA-GT
1 TTA--AGGT
10280 TTAAGGT
1 TTAAGGT
**
10287 TTATATAT
1 TTA-AGGT
10295 ATTAAGGTT
1 -TTAAGG-T
10304 TTAAGGT
1 TTAAGGT
*
10311 TTATGGT
1 TTAAGGT
10318 TT
1 TT
10320 TAGGGTTGAG
Statistics
Matches: 74, Mismatches: 12, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
6 8 0.11
7 45 0.61
8 16 0.22
9 5 0.07
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.47
Consensus pattern (7 bp):
TTAAGGT
Found at i:10253 original size:21 final size:21
Alignment explanation
Indices: 10227--10274 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
10217 TTAAGGTTAT
* **
10227 GGTTTAAGGTTTACAATTTAA
1 GGTTTAAGGCTTACAGATTAA
*
10248 GGTTTAAGGCTTATAGATTAA
1 GGTTTAAGGCTTACAGATTAA
10269 GGTTTA
1 GGTTTA
10275 CTAGTTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.42
Consensus pattern (21 bp):
GGTTTAAGGCTTACAGATTAA
Found at i:10285 original size:15 final size:14
Alignment explanation
Indices: 10249--10291 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
10239 ACAATTTAAG
*
10249 GTTTAAGGCTTATA
1 GTTTAAGGTTTATA
*
10263 GATTAAGGTTTACTA
1 GTTTAAGGTTTA-TA
10278 GTTTAAGGTTTATA
1 GTTTAAGGTTTATA
10292 TATATTAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (14 bp):
GTTTAAGGTTTATA
Found at i:10301 original size:16 final size:17
Alignment explanation
Indices: 10230--10304 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 17
10220 AGGTTATGGT
10230 TTAAGGTTTAC-A-AT-
1 TTAAGGTTTACTATATA
*
10244 TTAAGGTTTAAGGCTTATAGA
1 TTAAGGTTT-A--C-TATATA
*
10265 TTAAGGTTTACTA-GT-
1 TTAAGGTTTACTATATA
10280 TTAAGGTTTA-TATATA
1 TTAAGGTTTACTATATA
10296 TTAAGGTTT
1 TTAAGGTTT
10305 TAAGGTTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
14 11 0.23
15 12 0.25
16 9 0.19
17 3 0.06
18 1 0.02
19 1 0.02
20 2 0.04
21 9 0.19
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (17 bp):
TTAAGGTTTACTATATA
Found at i:10313 original size:31 final size:29
Alignment explanation
Indices: 10243--10321 Score: 81
Period size: 31 Copynumber: 2.7 Consensus size: 29
10233 AGGTTTACAA
*
10243 TTTAAGGTTTAAGG-CTTATAGATTAAGG
1 TTTAAGGTTTAAGGTTTTATAGATTAAGG
*
10271 TTTACTA-GTTTAAGGTTTATATATATTAAGG
1 TTTA--AGGTTTAAGGTTT-TATAGATTAAGG
*
10302 TTTTAAGGTTTATGGTTTTA
1 -TTTAAGGTTTAAGGTTTTA
10322 GGGTTGAGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
28 4 0.10
29 8 0.19
30 5 0.12
31 21 0.50
32 4 0.10
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.48
Consensus pattern (29 bp):
TTTAAGGTTTAAGGTTTTATAGATTAAGG
Found at i:10655 original size:82 final size:82
Alignment explanation
Indices: 10532--10936 Score: 398
Period size: 82 Copynumber: 4.9 Consensus size: 82
10522 TAAGTGTCAT
** ** *
10532 AATAGGGTTCATCTATAGTGTTGTTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCAACG
1 AATAGGGTTCATCTATAGTGGCG-TTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCGGCA
*
10597 TTTTTATACAAATGGCGC
65 TTTTTATACAAATGTCGC
* * * **
10615 AATATGGTTCATCTATAGTGGCGTTGTTCAACAAACGCCGCAATAGAGTAGTACTTTAGCGGTGT
1 AATAGGGTTCATCTATAGTGGCGTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCGGCAT
*** *
10680 TTTTATACAAACACCAC
66 TTTTATACAAATGTCGC
* * * ** * *
10697 AATAGAGTTCATCTACAGTGGC-ATTTTCAACAAACGCCTTAAAAGAGTAGTACTTTAGCGGTAT
1 AATAGGGTTCATCTATAGTGGCGTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCGGCAT
*
10761 TTTTATACAAATGTCGT
66 TTTTATACAAATGTCGC
* ** ** ** * *
10778 AATGGGGTTCATCTATAAAGGTTTTTTTCAACAAATACCGCAATAGAGTAGTACTTTAGTGGCAT
1 AATAGGGTTCATCTATAGTGGCGTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCGGCAT
* * *
10843 TTTTATATAAATGTTGT
66 TTTTATACAAATGTCGC
* * * * * * * *
10860 AATAGGGTTTATCAATAGTGGCATTTTTTCAATAAACACCGCAACAAAGTTGTACTTTGGCGGCA
1 AATAGGGTTCATCTATAGTGGC-GTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCGGCA
10925 TTTTTATACAAA
65 TTTTTATACAAA
10937 CACCGCAATG
Statistics
Matches: 264, Mismatches: 56, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
81 64 0.24
82 134 0.51
83 66 0.25
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (82 bp):
AATAGGGTTCATCTATAGTGGCGTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCGGCAT
TTTTATACAAATGTCGC
Found at i:10690 original size:41 final size:41
Alignment explanation
Indices: 10563--10771 Score: 126
Period size: 41 Copynumber: 5.1 Consensus size: 41
10553 TGTTTTTTCA
* **
10563 ACAAACGCCGCAACAGAGTAGTACTTTAGCAACGTTTTTAT
1 ACAAACGCCGCAATAGAGTAGTACTTTAGCGGCGTTTTTAT
* * * * *
10604 ACAAATGGCGCAATATG-GT--TCATCTATAGTGGCGTTGTTCA-
1 ACAAACGCCGCAATA-GAGTAGT-A-CTTTAGCGGCGTT-TTTAT
*
10645 ACAAACGCCGCAATAGAGTAGTACTTTAGCGGTGTTTTTAT
1 ACAAACGCCGCAATAGAGTAGTACTTTAGCGGCGTTTTTAT
* * ** * * *
10686 ACAAACACCACAATAGAGT--TCATCTACAGTGGCATTTTCA-
1 ACAAACGCCGCAATAGAGTAGT-A-CTTTAGCGGCGTTTTTAT
** * **
10726 ACAAACGCCTTAAAAGAGTAGTACTTTAGCGGTATTTTTAT
1 ACAAACGCCGCAATAGAGTAGTACTTTAGCGGCGTTTTTAT
10767 ACAAA
1 ACAAA
10772 TGTCGTAATG
Statistics
Matches: 124, Mismatches: 31, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
39 2 0.02
40 33 0.27
41 82 0.66
42 6 0.05
43 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (41 bp):
ACAAACGCCGCAATAGAGTAGTACTTTAGCGGCGTTTTTAT
Found at i:10882 original size:163 final size:162
Alignment explanation
Indices: 10505--10936 Score: 443
Period size: 163 Copynumber: 2.6 Consensus size: 162
10495 AATGGTAAAC
* **
10505 TTAGTGGCTTTTATATATAAGTGTCATAATAGGGTTCATCTATAGTGTTGTTTTTTCAACAAACG
1 TTAGTGGCTTTT-TATATAAATGTCATAATAGGGTTCATCTATAGTG--GCATTTTCAACAAACG
* ** * * **
10570 CCGCAACAGAGTAGTACTTTAGCAACGTTTTTATACAAATGGCGCAATATGGTTCATCTATAGTG
63 CCGCAAAAGAGTAGTACTTTAGCGGCATTTTTATACAAATGGCGCAATAGGGTTCATCTATAAAG
*
10635 GCGTTGTTCAACAAACGCCGCAATAGAGTAGTACT
128 GCGTTGTTCAACAAACACCGCAATAGAGTAGTACT
* * * *** * * *
10670 TTAGCGGTGTTTTTATACAAACACCACAATAGAGTTCATCTACAGTGGCATTTTCAACAAACGCC
1 TTAGTGG-CTTTTTATATAAATGTCATAATAGGGTTCATCTATAGTGGCATTTTCAACAAACGCC
** * * * * *
10735 TTAAAAGAGTAGTACTTTAGCGGTATTTTTATACAAATGTCGTAATGGGGTTCATCTATAAAGGT
65 GCAAAAGAGTAGTACTTTAGCGGCATTTTTATACAAATGGCGCAATAGGGTTCATCTATAAAGGC
* * *
10800 TTTTTTCAACAAATACCGCAATAGAGTAGTACT
130 GTTGTTCAACAAACACCGCAATAGAGTAGTACT
** * * * *
10833 TTAGTGGCATTTTTATATAAATGTTGTAATAGGGTTTATCAATAGTGGCATTTTTTCAATAAACA
1 TTAGTGGC-TTTTTATATAAATGTCATAATAGGGTTCATCTATAGTGGCA--TTTTCAACAAACG
* *
10898 CCGCAACAA-AGTTGTACTTTGGCGGCATTTTTATACAAA
63 CCGCAA-AAGAGTAGTACTTTAGCGGCATTTTTATACAAA
10937 CACCGCAATG
Statistics
Matches: 212, Mismatches: 50, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
163 132 0.62
165 74 0.35
166 6 0.03
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (162 bp):
TTAGTGGCTTTTTATATAAATGTCATAATAGGGTTCATCTATAGTGGCATTTTCAACAAACGCCG
CAAAAGAGTAGTACTTTAGCGGCATTTTTATACAAATGGCGCAATAGGGTTCATCTATAAAGGCG
TTGTTCAACAAACACCGCAATAGAGTAGTACT
Found at i:16191 original size:22 final size:22
Alignment explanation
Indices: 16148--16192 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
16138 CATTGCATAA
*
16148 AAATTAAACAGTTATAATTCCTG
1 AAATTAAACAG-TATAACTCCTG
16171 AAATTAAATCAG-ATAACTCCTG
1 AAATTAAA-CAGTATAACTCCTG
16193 TAACTCCTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 8 0.40
24 3 0.15
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (22 bp):
AAATTAAACAGTATAACTCCTG
Found at i:16702 original size:43 final size:42
Alignment explanation
Indices: 16621--16727 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
16611 ACTTGTACTG
* *
16621 TAGTGGTGTTTTTGTAATAAACACTGCAATAATAATGTACTT
1 TAGTGGCGTTTTTGTAATAAACACTGCAATAATAATGTACCT
* ** * * *
16663 TAGTGGCATTTTTTGTAATAAAGGCTGTAATAGTCATGTACCT
1 TAGTGGC-GTTTTTGTAATAAACACTGCAATAATAATGTACCT
*
16706 TAGTGGCGTTTTTATAATAAAC
1 TAGTGGCGTTTTTGTAATAAAC
16728 GTCGCGATTT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 18 0.34
43 35 0.66
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (42 bp):
TAGTGGCGTTTTTGTAATAAACACTGCAATAATAATGTACCT
Found at i:18041 original size:48 final size:48
Alignment explanation
Indices: 17986--18078 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
17976 AGTTAAACAC
17986 ATAACAACTATATATTTCTATAAAGTTACATAAGAAAATGAACAAAAT
1 ATAACAACTATATATTTCTATAAAGTTACATAAGAAAATGAACAAAAT
*
18034 ATAACAACTATATATTTCTATAAAGTTACATAGGAAAATGAACAA
1 ATAACAACTATATATTTCTATAAAGTTACATAAGAAAATGAACAA
18079 CATAAAAGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (48 bp):
ATAACAACTATATATTTCTATAAAGTTACATAAGAAAATGAACAAAAT
Found at i:23335 original size:31 final size:32
Alignment explanation
Indices: 23261--23335 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 32
23251 GGGGCATGCG
* *
23261 AGCCTACCCAAGACAATTCCCGGGGCCACTAA
1 AGCCTACCCAAGAAAATTCCCAGGGCCACTAA
* ** * *
23293 GGTTTACCCAAGAAAATTCTCAGGGCC-GTAA
1 AGCCTACCCAAGAAAATTCCCAGGGCCACTAA
23324 AGCCTACCCAAG
1 AGCCTACCCAAG
23336 GCTCGACTTA
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
31 12 0.36
32 21 0.64
ACGTcount: A:0.32, C:0.32, G:0.20, T:0.16
Consensus pattern (32 bp):
AGCCTACCCAAGAAAATTCCCAGGGCCACTAA
Found at i:24261 original size:29 final size:29
Alignment explanation
Indices: 24226--24370 Score: 218
Period size: 29 Copynumber: 5.0 Consensus size: 29
24216 AATTAATTAT
* *
24226 GAAACTAACACCCATTTAAAAATACTTAC
1 GAAACTAACACCCTTTTAAAAATATTTAC
24255 GAAACTAACACCCTTTTAAAAATATTTAC
1 GAAACTAACACCCTTTTAAAAATATTTAC
** *
24284 GAAACTTTCACCATTTTAAAAATATTTAC
1 GAAACTAACACCCTTTTAAAAATATTTAC
*
24313 GAAAATAACACCCTTTTAAAAATATTTAC
1 GAAACTAACACCCTTTTAAAAATATTTAC
* *
24342 AAAAATAACACCCTTTTAAAAATATTTAC
1 GAAACTAACACCCTTTTAAAAATATTTAC
24371 AAATATAGCA
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 106 1.00
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (29 bp):
GAAACTAACACCCTTTTAAAAATATTTAC
Found at i:24400 original size:58 final size:58
Alignment explanation
Indices: 24354--24493 Score: 244
Period size: 58 Copynumber: 2.4 Consensus size: 58
24344 AAATAACACC
* *
24354 CTTTTAAAAATATTTACAAATATAGCATTGAACAAAAATTAATTACATATTAGGCACT
1 CTTTTAAAAATATTTACAAAAATAGCATCGAACAAAAATTAATTACATATTAGGCACT
* *
24412 CTTTTAAAAATATTTACAAAAATAGCATCGAACAGAAATTAATTACTTATTAGGCACT
1 CTTTTAAAAATATTTACAAAAATAGCATCGAACAAAAATTAATTACATATTAGGCACT
24470 CTTTTAAAAATATTTACAAAAATA
1 CTTTTAAAAATATTTACAAAAATA
24494 TTACCCGAGT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 78 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.34
Consensus pattern (58 bp):
CTTTTAAAAATATTTACAAAAATAGCATCGAACAAAAATTAATTACATATTAGGCACT
Found at i:24420 original size:29 final size:29
Alignment explanation
Indices: 24387--24487 Score: 71
Period size: 29 Copynumber: 3.4 Consensus size: 29
24377 AGCATTGAAC
24387 AAAAATTAATTACATATTAGGCACTCTTTT
1 AAAAA-TAATTACATATTAGGCACTCTTTT
* * * ****
24417 AAAAATATTTACAAAAATA-GCA-TCGAAC
1 AAAAATAATTAC-ATATTAGGCACTCTTTT
* *
24445 AGAAATTAATTACTTATTAGGCACTCTTTT
1 A-AAAATAATTACATATTAGGCACTCTTTT
*
24475 AAAAATATTTACA
1 AAAAATAATTACA
24488 AAAATATTAC
Statistics
Matches: 48, Mismatches: 19, Indels: 9
0.63 0.25 0.12
Matches are distributed among these distances:
28 6 0.12
29 30 0.62
30 12 0.25
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.35
Consensus pattern (29 bp):
AAAAATAATTACATATTAGGCACTCTTTT
Found at i:24558 original size:17 final size:17
Alignment explanation
Indices: 24536--24578 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
24526 GGTCAACGGA
*
24536 TCGGGTCAACGGTCGAG
1 TCGGGTCAACAGTCGAG
24553 TCGGGTCAACAGTCGAG
1 TCGGGTCAACAGTCGAG
24570 TCGGGTCAA
1 TCGGGTCAA
24579 TGTTCGGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.21, C:0.23, G:0.37, T:0.19
Consensus pattern (17 bp):
TCGGGTCAACAGTCGAG
Found at i:28414 original size:21 final size:21
Alignment explanation
Indices: 28388--28446 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
28378 TGATTTATTA
28388 TTATGGATTTCAAG-TTGATTG
1 TTATGGATTTCAAGTTTG-TTG
28409 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
* *
28430 TTATGGATGTCATGTTT
1 TTATGGATTTCAAGTTT
28447 ATTGGATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 32 0.91
22 3 0.09
ACGTcount: A:0.20, C:0.05, G:0.24, T:0.51
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:31033 original size:40 final size:40
Alignment explanation
Indices: 30978--31053 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
30968 TAAAAGTAGT
*
30978 TTTGCTTTGAGTAGGATCTAATGGATCTATATTTTTCTAC
1 TTTGCTTTGAGTAGGATCTAATAGATCTATATTTTTCTAC
* *
31018 TTTGCTTTGAGTAGGATTTACTAGATCTATATTTTT
1 TTTGCTTTGAGTAGGATCTAATAGATCTATATTTTT
31054 TCATTGTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.50
Consensus pattern (40 bp):
TTTGCTTTGAGTAGGATCTAATAGATCTATATTTTTCTAC
Found at i:32992 original size:31 final size:31
Alignment explanation
Indices: 32954--33050 Score: 115
Period size: 31 Copynumber: 3.1 Consensus size: 31
32944 AGAACCTCGA
* *
32954 AAACTATCCATAGGTCCCGAAGAACCTAGGT
1 AAACTATCCATATGTCCCGAAGAACATAGGT
* * * *
32985 AAACTATCCATATATCTCGTAGAACATATGT
1 AAACTATCCATATGTCCCGAAGAACATAGGT
*
33016 AAACTGTCCATATGTCCCGGAAG-ACATAGGT
1 AAACTATCCATATGTCCC-GAAGAACATAGGT
33047 AAAC
1 AAAC
33051 CCTCGACTCT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
31 51 0.94
32 3 0.06
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (31 bp):
AAACTATCCATATGTCCCGAAGAACATAGGT
Found at i:35786 original size:2 final size:2
Alignment explanation
Indices: 35781--35812 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
35771 CTAATCACGG
35781 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
35813 TTCCCAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38345 original size:31 final size:31
Alignment explanation
Indices: 38307--38403 Score: 133
Period size: 31 Copynumber: 3.1 Consensus size: 31
38297 AGAACCTCGA
* *
38307 AAACTATCCATAGGTCCCGAAGAACCTAGGT
1 AAACTATCCATATGTCCCGAAGAACATAGGT
* * *
38338 AAACTATCCATATATCCCGTAGAACATATGT
1 AAACTATCCATATGTCCCGAAGAACATAGGT
38369 AAACTATCCATATGTCCCGAA-AGACATAGGT
1 AAACTATCCATATGTCCCGAAGA-ACATAGGT
38400 AAAC
1 AAAC
38404 CCTCGACTCT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
30 1 0.02
31 56 0.98
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (31 bp):
AAACTATCCATATGTCCCGAAGAACATAGGT
Found at i:42207 original size:13 final size:13
Alignment explanation
Indices: 42189--42215 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42179 TTATAGACGC
42189 GCATATGAAGACT
1 GCATATGAAGACT
42202 GCATATGAAGACT
1 GCATATGAAGACT
42215 G
1 G
42216 TTCAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:43983 original size:30 final size:30
Alignment explanation
Indices: 43961--44020 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
43951 TCCCGGTATT
43961 ACCCTTAGGCTCTTCCTTTTTCCCCGACATC
1 ACCCTTAGGCTCTTCCTTTTT-CCCGACATC
* *
43992 ACCTTTAGGCTTTTCCTTTTTCCCCGACA
1 ACCCTTAGGCTCTTCCTTTTT-CCCGACA
44021 CAACGGCCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.13, C:0.38, G:0.10, T:0.38
Consensus pattern (30 bp):
ACCCTTAGGCTCTTCCTTTTTCCCGACATC
Found at i:44381 original size:24 final size:24
Alignment explanation
Indices: 44354--44406 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
44344 TTCCCCTTCG
44354 CCTTCTTTAATTTCAACCATTTCA
1 CCTTCTTTAATTTCAACCATTTCA
*
44378 CCTTCTTTATTTTCAACCATTTCA
1 CCTTCTTTAATTTCAACCATTTCA
44402 CCTTC
1 CCTTC
44407 GTTTTCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.47
Consensus pattern (24 bp):
CCTTCTTTAATTTCAACCATTTCA
Found at i:45861 original size:2 final size:2
Alignment explanation
Indices: 45854--45881 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45844 TTCGTGCTAG
45854 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
45882 CAATCAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48967 original size:26 final size:27
Alignment explanation
Indices: 48928--48995 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
48918 GATAAACCTT
*
48928 TCTTCGAGAATCTCAAT-CCTAAGGTAA
1 TCTTCAAG-ATCTCAATACCTAAGGTAA
**
48955 TCTTCAAGATCTCAATATTTAAGGTAA
1 TCTTCAAGATCTCAATACCTAAGGTAA
48982 TCTTCAAGAT-TCAA
1 TCTTCAAGATCTCAA
48996 CCTTCTAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.32
27 25 0.68
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (27 bp):
TCTTCAAGATCTCAATACCTAAGGTAA
Found at i:56629 original size:31 final size:31
Alignment explanation
Indices: 56570--56632 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
56560 TGAGAAATGA
**
56570 TCCCTAACGTTATCAATCCTTTTAATTTTAG
1 TCCCTAACGTTATCAATCCACTTAATTTTAG
* * *
56601 TCCCTAATGTTATCGATCCACTTGATTTTAG
1 TCCCTAACGTTATCAATCCACTTAATTTTAG
56632 T
1 T
56633 TCCTCAGTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (31 bp):
TCCCTAACGTTATCAATCCACTTAATTTTAG
Found at i:60436 original size:27 final size:28
Alignment explanation
Indices: 60401--60453 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
60391 AGGGCTTAGA
60401 GGTACTTTG-GATCATTTTACACTTCAAG
1 GGTACTTTGAG-TCATTTTACACTTCAAG
60429 GGTA-TTTGAGTCATTTTACACTTCA
1 GGTACTTTGAGTCATTTTACACTTCA
60454 GGGGCAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (28 bp):
GGTACTTTGAGTCATTTTACACTTCAAG
Found at i:65161 original size:27 final size:28
Alignment explanation
Indices: 65126--65178 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
65116 ATGGCTCAGA
65126 GGTACTTTG-GATCATTTTACACTTCAAG
1 GGTACTTTGAG-TCATTTTACACTTCAAG
65154 GGTA-TTTGAGTCATTTTACACTTCA
1 GGTACTTTGAGTCATTTTACACTTCA
65179 GGGGCAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (28 bp):
GGTACTTTGAGTCATTTTACACTTCAAG
Found at i:70545 original size:29 final size:29
Alignment explanation
Indices: 70499--70556 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
70489 CAAAGTCAAT
* *
70499 GGGTTGACTCGGACGAGTTGAGTTAGTTC
1 GGGTTGACTCAGACGAGTTGACTTAGTTC
70528 GGGTTGACTCAG-CTGAGTTGACTTAGTTC
1 GGGTTGACTCAGAC-GAGTTGACTTAGTTC
70557 AGACCGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.17, C:0.16, G:0.34, T:0.33
Consensus pattern (29 bp):
GGGTTGACTCAGACGAGTTGACTTAGTTC
Found at i:71293 original size:2 final size:2
Alignment explanation
Indices: 71286--71321 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
71276 ACATGCACGA
71286 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
71322 GTGTGTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71326 original size:2 final size:2
Alignment explanation
Indices: 71321--71346 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
71311 TATATATATA
71321 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
71347 ACAATCCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:73753 original size:13 final size:13
Alignment explanation
Indices: 73737--73763 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
73727 TGTTGTTCGT
73737 TTATGTTCATTTA
1 TTATGTTCATTTA
73750 TTATGTTCATTTA
1 TTATGTTCATTTA
73763 T
1 T
73764 GTTCATTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGTTCATTTA
Found at i:73819 original size:10 final size:10
Alignment explanation
Indices: 73804--73829 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
73794 TTATCATTTA
73804 ATGAACGAAC
1 ATGAACGAAC
73814 ATGAACGAAC
1 ATGAACGAAC
73824 ATGAAC
1 ATGAAC
73830 ATGTTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.19, T:0.12
Consensus pattern (10 bp):
ATGAACGAAC
Found at i:84270 original size:20 final size:20
Alignment explanation
Indices: 84247--84294 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
84237 CAAACCAATT
84247 TGAACCGGCCCGAGTCAACC
1 TGAACCGGCCCGAGTCAACC
* * * *
84267 TGAACTGACCTGAGTCAGCC
1 TGAACCGGCCCGAGTCAACC
*
84287 TGATCCGG
1 TGAACCGG
84295 TCTGAACCGT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.33, G:0.27, T:0.17
Consensus pattern (20 bp):
TGAACCGGCCCGAGTCAACC
Found at i:88323 original size:33 final size:32
Alignment explanation
Indices: 88281--88379 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 32
88271 TAGTATCCTG
88281 GTGGCCAACATCAATGTTCAAATCAGTTTCTTT
1 GTGGCCAACATCAATGTTCAAA-CAGTTTCTTT
* *
88314 GTGGCCAACATCAATGTTCAAACCGATTTCTTG
1 GTGGCCAACATCAATGTTCAAACAG-TTTCTTT
**
88347 GTGGAAAACATCAATGTTCAAACCAGTTTCTTT
1 GTGGCCAACATCAATGTTCAAA-CAGTTTCTTT
88380 ACCCTTATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.03
33 54 0.93
34 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (32 bp):
GTGGCCAACATCAATGTTCAAACAGTTTCTTT
Found at i:88474 original size:78 final size:78
Alignment explanation
Indices: 88353--88706 Score: 456
Period size: 78 Copynumber: 4.5 Consensus size: 78
88343 CTTGGTGGAA
* *
88353 AACATCAATGTTCAAACCAGTTTCTTTACCCTTATGATCTTCTATGTTGGGTGTAGGGTTATTAG
1 AACATCAATGTTCAAACCAGTTTCTTTACCCTTTTGATCTTCTATGTTGGGTGTAGGCTTATTAG
88418 TATCCTGGTGGCC
66 TATCCTGGTGGCC
* *** * * * * *
88431 TACATTGGTGTTCGAACCAGTTTCTTTACCCTTTTGATCTTCTATATTTGGTGTAGGCCTATTTG
1 AACATCAATGTTCAAACCAGTTTCTTTACCCTTTTGATCTTCTATGTTGGGTGTAGGCTTATTAG
* * **
88496 CATCTTCATGGCC
66 TATCCTGGTGGCC
* * * * * * *
88509 AACAACAAAGTCCAAATCAGCTCCTTTACCCTTTTGATCTTCTATGCTGGGTGTAGGCTTATTAG
1 AACATCAATGTTCAAACCAGTTTCTTTACCCTTTTGATCTTCTATGTTGGGTGTAGGCTTATTAG
88574 TATCCTGGTGGCC
66 TATCCTGGTGGCC
* * * * *
88587 AACATCAGTGTTCAAATCAGTTTCTTTACACTTTTGATATTCTATCTTGGGTGTAGGCTTATTAG
1 AACATCAATGTTCAAACCAGTTTCTTTACCCTTTTGATCTTCTATGTTGGGTGTAGGCTTATTAG
88652 TATCCTGGTGGCC
66 TATCCTGGTGGCC
*
88665 AACATCAATGTTCAAACCAGTTTTTTTACCCTTTTGATCTTC
1 AACATCAATGTTCAAACCAGTTTCTTTACCCTTTTGATCTTC
88707 AGAATCAATA
Statistics
Matches: 226, Mismatches: 50, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
78 226 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (78 bp):
AACATCAATGTTCAAACCAGTTTCTTTACCCTTTTGATCTTCTATGTTGGGTGTAGGCTTATTAG
TATCCTGGTGGCC
Found at i:90959 original size:20 final size:20
Alignment explanation
Indices: 90934--90990 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
90924 AGCTCATATT
*
90934 GAATCATATAGATGTATTTA
1 GAATCATATAGATGCATTTA
90954 GAATCATATAGATGCATTTA
1 GAATCATATAGATGCATTTA
* * *
90974 GGACCATATAGTTGCAT
1 GAATCATATAGATGCAT
90991 GAGGTAGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (20 bp):
GAATCATATAGATGCATTTA
Found at i:101399 original size:21 final size:19
Alignment explanation
Indices: 101361--101406 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
101351 AATTAATCTT
101361 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
101381 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
101402 A-TAAT
1 ACTAAT
101407 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Done.