Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006560.1 Hibiscus syriacus cultivar Beakdansim tig00016032_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: 94921
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:187 original size:1 final size:1
Alignment explanation
Indices: 183--249 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
173 TTGACCCCCC
* * * ** * * *
183 TTTTTTTTTTTTCTTTTTCTTTTTTTTCTTTTTTTTTTTTCCTTTTTATATTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
248 TT
1 TT
250 CAAGCATAAT
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:219 original size:30 final size:30
Alignment explanation
Indices: 182--249 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
172 CTTGACCCCC
*
182 CTTTTTTTTTTTT-CTTTTTCT-TTTTTTT
1 CTTTTTTTTTTTTCCTTTTTATATTTTTTT
210 CTTTTTTTTTTTTCCTTTTTATATTTTTTT
1 CTTTTTTTTTTTTCCTTTTTATATTTTTTT
240 CTTTTTTTTT
1 CTTTTTTTTT
250 CAAGCATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
28 13 0.35
29 7 0.19
30 17 0.46
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (30 bp):
CTTTTTTTTTTTTCCTTTTTATATTTTTTT
Found at i:12971 original size:3 final size:3
Alignment explanation
Indices: 12963--13014 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
12953 TTAATATATT
* *
12963 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13011 TAA T
1 TAA T
13015 TAATTAATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:20629 original size:28 final size:28
Alignment explanation
Indices: 20597--20652 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
20587 ACTTACTGTG
20597 CCTTTTAAACTCATAACAAATATTTTTA
1 CCTTTTAAACTCATAACAAATATTTTTA
20625 CCTTTTAAACTCATAACAAATATTTTTA
1 CCTTTTAAACTCATAACAAATATTTTTA
20653 ATATTTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (28 bp):
CCTTTTAAACTCATAACAAATATTTTTA
Found at i:23354 original size:37 final size:37
Alignment explanation
Indices: 23262--23364 Score: 116
Period size: 37 Copynumber: 2.8 Consensus size: 37
23252 TTTTCGTCCT
* **
23262 ACTAGGATTTAAACTCCTAAAAATATGATAAAATTTT
1 ACTAGGATTTAAACTCCTAAAAATAGGATAAAATTCA
* * * *
23299 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCA
1 ACTAGGATTTAAACTCCTAAAAATAGGATAAAATTCA
* * *
23336 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 ACTAGGATTTAAACTCCTAAAAATAGGAT
23365 CCACAAGTAC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.30
Consensus pattern (37 bp):
ACTAGGATTTAAACTCCTAAAAATAGGATAAAATTCA
Found at i:23759 original size:18 final size:17
Alignment explanation
Indices: 23720--23762 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
23710 ATTATATGGA
23720 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
23736 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
23754 TATTATTAT
1 TATTATTAT
23763 ATGTATATAT
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:24034 original size:22 final size:21
Alignment explanation
Indices: 23999--24073 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 21
23989 TTATTCGTAC
23999 TTTGTTATTA-TTATTTTGTTTA
1 TTTGTT-TTATTTATTTT-TTTA
24021 TTTGTTTTATTTATTTTCTTT-
1 TTTGTTTTATTTATTTT-TTTA
* *
24042 TTCTTTTTTATATATATTTTATTA
1 TT-TGTTTTAT-T-TATTTTTTTA
24066 TTTGTTTT
1 TTTGTTTT
24074 TTACTTACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
21 5 0.11
22 23 0.52
23 8 0.18
24 8 0.18
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTGTTTTATTTATTTTTTTA
Found at i:24085 original size:26 final size:24
Alignment explanation
Indices: 23949--24104 Score: 72
Period size: 26 Copynumber: 6.2 Consensus size: 24
23939 AATTTATTAA
*
23949 TTTATATATA-TTTACTTTTTATTTAT
1 TTTATATATATTTTA-TTTTT-CTT-T
* *
23975 TTTATATATATATATTATTCGTACTTT
1 TTTATATATAT-T-TTATT-TTTCTTT
* * *
24002 GTTAT-TATTATTTTGTTTATT-TGT
1 TTTATATA-TATTTTATTT-TTCTTT
*
24026 TTTAT-T-TATTTTCTTTTTCTTT
1 TTTATATATATTTTATTTTTCTTT
*
24048 TTTATATATATTTTATTATTTGTTT
1 TTTATATATATTTTATT-TTTCTTT
*
24073 TTTACT-TACTATTTTATCTTTGCTTT
1 TTTA-TATA-TATTTTAT-TTTTCTTT
24099 ATTTAT
1 -TTTAT
24105 TTTATCATTT
Statistics
Matches: 101, Mismatches: 15, Indels: 28
0.70 0.10 0.19
Matches are distributed among these distances:
21 2 0.02
22 16 0.16
23 1 0.01
24 15 0.15
25 17 0.17
26 28 0.28
27 13 0.13
28 5 0.05
29 4 0.04
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (24 bp):
TTTATATATATTTTATTTTTCTTT
Found at i:28308 original size:183 final size:183
Alignment explanation
Indices: 28000--28536 Score: 968
Period size: 183 Copynumber: 2.9 Consensus size: 183
27990 ATTAAATCCG
28000 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
28065 ATAGATTATGTTCAGACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
28130 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
28183 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
28248 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGATGTTTACTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
28313 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
28366 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * *
28431 ATAGATTACATTCAAA-TCATGACATTGCTCAGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
* *
28495 TTTGTCAGGTCAAAAACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
28537 TAAACCTGAT
Statistics
Matches: 340, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
182 1 0.00
183 339 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:29720 original size:36 final size:36
Alignment explanation
Indices: 29680--29787 Score: 99
Period size: 36 Copynumber: 3.0 Consensus size: 36
29670 TAAAACATAC
29680 TTTATCTCACTTGAGACTGTTTTTCTCGAAAGAAGA
1 TTTATCTCACTTGAGACTGTTTTTCTCGAAAGAAGA
* ** * * ** *
29716 TTTATTTCACTCAAGATTATTTTTCTTAAAACAAGA
1 TTTATCTCACTTGAGACTGTTTTTCTCGAAAGAAGA
* * * *
29752 TTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAAG
1 TTTATCTCACTTGAGACTGTTTT-TCTCGAAAGAAG
29788 GCATTTCATT
Statistics
Matches: 51, Mismatches: 20, Indels: 1
0.71 0.28 0.01
Matches are distributed among these distances:
36 43 0.84
37 8 0.16
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (36 bp):
TTTATCTCACTTGAGACTGTTTTTCTCGAAAGAAGA
Found at i:29739 original size:72 final size:75
Alignment explanation
Indices: 29645--29815 Score: 199
Period size: 72 Copynumber: 2.3 Consensus size: 75
29635 ATGCAGATGA
* * * * *
29645 TTATCTCACTCAA-ATTTGTTTTTCTTAAAACATA-CTTTATCTCACTTGAGACTGTTTT-TCTC
1 TTATTTCACTCAAGA-TTATTTTTCTTAAAACA-AGATTTATCTCACTTGAGACCGTTTTCACTC
29707 GAAAGAA-G-AT
64 GAAAGAAGGCAT
* *
29717 TTATTTCACTCAAGATTATTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGA
1 TTATTTCACTCAAGATTATTTTTCTTAAAACAAGATTTATCTCACTTGAGACCGTTTTCACTCGA
29782 AAGAAGGCAT
66 AAGAAGGCAT
**
29792 TTCATTTCACTCAAGGCTATTTTT
1 TT-ATTTCACTCAAGATTATTTTT
29816 TTATGAATAT
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
71 1 0.01
72 48 0.57
73 11 0.13
74 1 0.01
75 4 0.05
76 19 0.23
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.42
Consensus pattern (75 bp):
TTATTTCACTCAAGATTATTTTTCTTAAAACAAGATTTATCTCACTTGAGACCGTTTTCACTCGA
AAGAAGGCAT
Found at i:30057 original size:107 final size:106
Alignment explanation
Indices: 29890--30209 Score: 467
Period size: 107 Copynumber: 3.1 Consensus size: 106
29880 ACAGTTTCTC
* *
29890 TTGAAAACATTTCCCTTGAAAT--TAATTTTTCTCTC-CTGAGATAGTTTCCCTCGAAACAGAAA
1 TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTCTGAGATAGTTTCCCTAGAAACAGAAA
* *
29952 ATTTTATCTCCCTTGAGACAGTTTCTCTTGAAGCATAAACA
66 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
*
29993 TTGAAAACATTTCCCTTGAAATGATTTTTTTTCTCTCTCTCGAGATAGTTTCCCTAGAAACAGAA
1 TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTCT-GAGATAGTTTCCCTAGAAACAGAA
*
30058 AATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACA
65 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * *
30100 TTGAAAACATTTCCCTTGAAATGA-ATTTTATCTCGCT-TGAGATAGTTTCCCTTGAAAC-G--A
1 TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTCTGAGATAGTTTCCCTAGAAACAGAAA
** *
30160 ATTTTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
30201 TTGAAAACA
1 TTGAAAACA
30210 ATTTAACGAA
Statistics
Matches: 199, Mismatches: 14, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
101 47 0.24
103 23 0.12
104 19 0.10
105 12 0.06
106 12 0.06
107 86 0.43
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (106 bp):
TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTCTGAGATAGTTTCCCTAGAAACAGAAA
ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:30156 original size:36 final size:36
Alignment explanation
Indices: 30109--30184 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
30099 ATTGAAAACA
* * *
30109 TTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
*
30145 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
30181 TTTC
1 TTTC
30185 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:30562 original size:103 final size:105
Alignment explanation
Indices: 30384--31008 Score: 844
Period size: 105 Copynumber: 6.0 Consensus size: 105
30374 ATATCGTGAC
* * * ** * *
30384 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCC
*
30449 AATTTTAGAGCCAATTTCAACTTCAC-ACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
30489 ACTCCAGACAACGCAAGTTCAACTTCA-GACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
30553 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
30593 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
* *
30658 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
30698 ACTCCAGGCAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGCTTGTCAAC-A-AACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
* *
30761 ATCTCAGAGCCAATTTCAACTTCACAACGAA-TAT-TTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
30799 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTTAACAA-AA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
* **
30860 ATTT-AGAGTCAATTTCAACTTCACAGTGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
30899 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGCTTGTCAAC-AACAA-CTTC
* * * *
30963 CCAGTTCCAGAGCCAATTTC-ACTTCACGACGGAGGATATTGG
63 CCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
31005 ACTC
1 ACTC
31009 GGAACAATGC
Statistics
Matches: 467, Mismatches: 40, Indels: 25
0.88 0.08 0.05
Matches are distributed among these distances:
98 23 0.05
99 7 0.01
100 49 0.10
101 56 0.12
102 7 0.01
103 76 0.16
104 64 0.14
105 150 0.32
106 24 0.05
107 11 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:31581 original size:21 final size:21
Alignment explanation
Indices: 31556--31619 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
31546 TTCGTCCTAC
31556 TAGGATTCAAACTCCTAAAAA
1 TAGGATTCAAACTCCTAAAAA
* ***
31577 TAGGA-TAAAACT--T--TGC
1 TAGGATTCAAACTCCTAAAAA
31593 TAGGATTCAAACTCCTAAAAA
1 TAGGATTCAAACTCCTAAAAA
31614 TAGGAT
1 TAGGAT
31620 AGAGTTCAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
16 5 0.17
17 6 0.20
18 1 0.03
19 1 0.03
20 6 0.20
21 11 0.37
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.27
Consensus pattern (21 bp):
TAGGATTCAAACTCCTAAAAA
Found at i:32052 original size:18 final size:17
Alignment explanation
Indices: 32013--32055 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
32003 ATTATATGGA
32013 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
32029 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
32047 TATTATTAT
1 TATTATTAT
32056 GTATATATAT
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:32149 original size:22 final size:22
Alignment explanation
Indices: 32096--32149 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
32086 TCATTTATTT
*
32096 TTTTAC-TATATTTTATTATTA
1 TTTTACTTATATTTTATTAATA
* *
32117 TTATA-TATATATTTTTTTAATA
1 TTTTACT-TATATTTTATTAATA
32139 TTTTACTTATA
1 TTTTACTTATA
32150 AGTCTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
21 4 0.15
22 21 0.81
23 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTACTTATATTTTATTAATA
Found at i:32345 original size:24 final size:23
Alignment explanation
Indices: 32309--32359 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
32299 TGTTTATTTG
*
32309 TTTTATTTATTTTCTT-TTTCTT
1 TTTTATTTATTTTATTATTTCTT
*
32331 TTTTATATATATTTTATTATTTGTT
1 TTTTAT-T-TATTTTATTATTTCTT
32356 TTTT
1 TTTT
32360 TTACTTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 8 0.33
25 9 0.38
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTATTTATTTTATTATTTCTT
Found at i:32382 original size:18 final size:18
Alignment explanation
Indices: 32359--32419 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
32349 ATTTGTTTTT
32359 TTTACTTACTTTTTTATC
1 TTTACTTACTTTTTTATC
*
32377 TTTACTTTCTTTATTTTATC
1 TTTACTTAC-TT-TTTTATC
*
32397 ATTTTACTTAATTTGTTT-TC
1 --TTTACTTACTTT-TTTATC
32417 TTT
1 TTT
32420 TCATTTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
18 11 0.31
19 2 0.06
20 10 0.29
21 5 0.14
22 7 0.20
ACGTcount: A:0.16, C:0.13, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTACTTACTTTTTTATC
Found at i:32415 original size:22 final size:19
Alignment explanation
Indices: 32311--32420 Score: 54
Period size: 19 Copynumber: 5.9 Consensus size: 19
32301 TTTATTTGTT
* *
32311 TTATTTATTT-TCTTTTTC
1 TTATTTTTTTATCTTTTAC
* *
32329 TT-TTTTATATATATTTTA-
1 TTATTTT-TTTATCTTTTAC
*
32347 TTATTTGTTT-T-TTTTAC
1 TTATTTTTTTATCTTTTAC
*
32364 TTACTTTTTTATC-TTTAC
1 TTATTTTTTTATCTTTTAC
*
32382 TTTCTTTATTTTATCATTTTAC
1 -TTATTT-TTTTATC-TTTTAC
*
32404 TTAATTTGTTT-TCTTTT
1 TT-ATTTTTTTATCTTTT
32421 CATTTTAATT
Statistics
Matches: 69, Mismatches: 12, Indels: 21
0.68 0.12 0.21
Matches are distributed among these distances:
16 5 0.07
17 12 0.17
18 14 0.20
19 16 0.23
20 9 0.13
21 5 0.07
22 8 0.12
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (19 bp):
TTATTTTTTTATCTTTTAC
Found at i:51541 original size:16 final size:16
Alignment explanation
Indices: 51520--51556 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
51510 TTGTTTCTCG
51520 TTTCTTTTTTTTTCTT
1 TTTCTTTTTTTTTCTT
51536 TTTCTTTTTTTTTCTT
1 TTTCTTTTTTTTTCTT
51552 TTTCT
1 TTTCT
51557 GTATCTTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTCTTTTTTTTTCTT
Found at i:52037 original size:17 final size:17
Alignment explanation
Indices: 52015--52074 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
52005 TTATTTAATG
52015 ATAATAATATATATATA
1 ATAATAATATATATATA
* *
52032 ATAAT-ATATTTTATTTA
1 ATAATAATA-TATATATA
52049 ATAATAATA-ATA-ATTA
1 ATAATAATATATATA-TA
52065 A-AATAATATA
1 ATAATAATATA
52075 ATGAAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
15 7 0.20
16 9 0.26
17 16 0.46
18 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATAATATATATATA
Found at i:52056 original size:37 final size:35
Alignment explanation
Indices: 52003--52074 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 35
51993 TTGTATGTTT
* *
52003 TTTTATTTAATGATAATAATATATATATAATAATATA
1 TTTTATTTAATAATAATAATA-AT-TAAAATAATATA
52040 TTTTATTTAATAATAATAATAATTAAAATAATATA
1 TTTTATTTAATAATAATAATAATTAAAATAATATA
52075 ATGAAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 11 0.33
36 2 0.06
37 20 0.61
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (35 bp):
TTTTATTTAATAATAATAATAATTAAAATAATATA
Found at i:52318 original size:76 final size:76
Alignment explanation
Indices: 52192--52921 Score: 1226
Period size: 76 Copynumber: 9.5 Consensus size: 76
52182 GATTGAAATA
*
52192 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
*
52257 TCGAAGGCTTT
66 CCGAAGGCTTT
52268 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
*
52333 CCGAATGCTTT
66 CCGAAGGCTTT
*
52344 TTGGAAACATCATGCACTAAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
52409 CCGAAGGCTTT
66 CCGAAGGCTTT
*
52420 TCGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
*
52485 CCGAATGCTTTTTTTTTT
66 CCGAAGGC-------TTT
** *
52503 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
52568 CCGAAGGCTTT
66 CCGAAGGCTTT
* * *
52579 TTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
52644 CCGAAGGCTTT
66 CCGAAGGCTTT
** *
52655 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
52720 CCGAAGGCTTT
66 CCGAAGGCTTT
52731 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
52796 CCGAAGGCTTT
66 CCGAAGGCTTT
52807 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
52872 CCGAAGGCTTTTTTT
66 CCGAAGGC----TTT
52887 TTGGAAACATCATGCACTGAAGGACTTACAGATGA
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGA
52922 GGGAAATAGT
Statistics
Matches: 619, Mismatches: 24, Indels: 18
0.94 0.04 0.03
Matches are distributed among these distances:
76 510 0.82
80 38 0.06
83 71 0.11
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (76 bp):
TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
CCGAAGGCTTT
Found at i:54031 original size:54 final size:52
Alignment explanation
Indices: 53949--54067 Score: 141
Period size: 54 Copynumber: 2.3 Consensus size: 52
53939 AGAATAACAG
*** *
53949 GTTCGTAAAACATTTAACAGTGCATTCATCTTTTCCTGTGGTTTCTACTCAGAT
1 GTTCGTAAAACATTTAACAACACATTCAT-TTTT-CTGTGGCTTCTACTCAGAT
* * *
54003 GTTCGTAAAACATTTGACAACACATTCATTTTTTTGTGGCTTCTTCTCAGAT
1 GTTCGTAAAACATTTAACAACACATTCATTTTTCTGTGGCTTCTACTCAGAT
*
54055 GTTC-TCAAACATT
1 GTTCGTAAAACATT
54068 GAAGCTCTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 8 0.14
52 20 0.35
53 4 0.07
54 25 0.44
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.41
Consensus pattern (52 bp):
GTTCGTAAAACATTTAACAACACATTCATTTTTCTGTGGCTTCTACTCAGAT
Found at i:64639 original size:3 final size:3
Alignment explanation
Indices: 64626--64681 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
64616 GTTTTTTATT
*
64626 TAA TGA TAA TAA TATA TATA TAA TAA T-A TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
64672 T-A TAA TAA TA
1 TAA TAA TAA TA
64682 TATATATATA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 4 0.08
3 37 0.77
4 7 0.15
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:64646 original size:6 final size:6
Alignment explanation
Indices: 64637--64748 Score: 154
Period size: 6 Copynumber: 20.3 Consensus size: 6
64627 AATGATAATA
64637 ATATAT ATATA- ATA-AT ATA-AT A-ATA- ATA-AT A-ATA- ATATA-
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
64676 ATA-AT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
64723 ATATAT ATATAT ATATAT ATATAT AT
1 ATATAT ATATAT ATATAT ATATAT AT
64749 GTTCCAGCTG
Statistics
Matches: 98, Mismatches: 0, Indels: 16
0.86 0.00 0.14
Matches are distributed among these distances:
4 7 0.07
5 22 0.22
6 69 0.70
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATATAT
Found at i:64656 original size:8 final size:8
Alignment explanation
Indices: 64626--64743 Score: 77
Period size: 10 Copynumber: 13.9 Consensus size: 8
64616 GTTTTTTATT
64626 TAATGATAA
1 TAAT-ATAA
64635 TAATAT-A
1 TAATATAA
64642 T-ATATAA
1 TAATATAA
64649 TAATATAA
1 TAATATAA
64657 T-A-ATAA
1 TAATATAA
64663 T-A-ATAA
1 TAATATAA
64669 TAATATAA
1 TAATATAA
64677 TAATATATA
1 TAATATA-A
64686 TATATATATA
1 TA-ATATA-A
64696 TATATATATA
1 TA-ATATA-A
64706 TATATATATA
1 TA-ATATA-A
64716 TATATATATA
1 TA-ATATA-A
64726 TATATATATA
1 TA-ATATA-A
64736 TATATATA
1 TA-ATATA
64744 TATATGTTCC
Statistics
Matches: 103, Mismatches: 0, Indels: 11
0.90 0.00 0.10
Matches are distributed among these distances:
6 15 0.15
7 6 0.06
8 20 0.19
9 7 0.07
10 55 0.53
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (8 bp):
TAATATAA
Found at i:64744 original size:8 final size:8
Alignment explanation
Indices: 64637--64748 Score: 154
Period size: 8 Copynumber: 15.2 Consensus size: 8
64627 AATGATAATA
64637 ATATATAT
1 ATATATAT
64645 ATA-ATA-
1 ATATATAT
64651 ATATA-AT
1 ATATATAT
64658 A-ATA-AT
1 ATATATAT
64664 A-ATA-AT
1 ATATATAT
64670 A-ATATA-
1 ATATATAT
64676 ATA-ATAT
1 ATATATAT
64683 ATATATAT
1 ATATATAT
64691 ATATATAT
1 ATATATAT
64699 ATATATAT
1 ATATATAT
64707 ATATATAT
1 ATATATAT
64715 ATATATAT
1 ATATATAT
64723 ATATATAT
1 ATATATAT
64731 ATATATAT
1 ATATATAT
64739 ATATATAT
1 ATATATAT
64747 AT
1 AT
64749 GTTCCAGCTG
Statistics
Matches: 98, Mismatches: 0, Indels: 12
0.89 0.00 0.11
Matches are distributed among these distances:
6 23 0.23
7 10 0.10
8 65 0.66
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
ATATATAT
Found at i:64748 original size:14 final size:14
Alignment explanation
Indices: 64637--64748 Score: 154
Period size: 14 Copynumber: 8.7 Consensus size: 14
64627 AATGATAATA
64637 ATATATATATA-AT
1 ATATATATATATAT
64650 A-ATATA-ATA-AT
1 ATATATATATATAT
64661 A-ATA-ATA-ATA-
1 ATATATATATATAT
64671 ATATA-ATA-ATAT
1 ATATATATATATAT
64683 ATATATATATATAT
1 ATATATATATATAT
64697 ATATATATATATAT
1 ATATATATATATAT
64711 ATATATATATATAT
1 ATATATATATATAT
64725 ATATATATATATAT
1 ATATATATATATAT
64739 ATATATATAT
1 ATATATATAT
64749 GTTCCAGCTG
Statistics
Matches: 93, Mismatches: 0, Indels: 11
0.89 0.00 0.11
Matches are distributed among these distances:
10 3 0.03
11 20 0.22
12 10 0.11
13 4 0.04
14 56 0.60
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:69399 original size:14 final size:16
Alignment explanation
Indices: 69375--69412 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
69365 ATCAAAATAT
69375 TTATATTTCA-CTCATA
1 TTAT-TTTCACCTCATA
69391 TT-TTTTCACCTCATA
1 TTATTTTCACCTCATA
69406 TTATTTT
1 TTATTTT
69413 TGAATGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.25
15 9 0.45
16 6 0.30
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATTTTCACCTCATA
Found at i:69613 original size:2 final size:2
Alignment explanation
Indices: 69606--69630 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
69596 CCATAAAAAG
69606 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
69631 TATTTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:73916 original size:2 final size:2
Alignment explanation
Indices: 73909--73942 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
73899 TATTCACACC
73909 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
73943 CATTTCATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:74312 original size:44 final size:44
Alignment explanation
Indices: 74252--74338 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
74242 ACATATATAT
74252 ATTTTATTTTCCAAATAAGCTTCTTCATTAATACATATCAAAAG
1 ATTTTATTTTCCAAATAAGCTTCTTCATTAATACATATCAAAAG
* * *
74296 ATTTTATTTTCTAAATAATCTTTTTCATTAATACATATCAAAA
1 ATTTTATTTTCCAAATAAGCTTCTTCATTAATACATATCAAAA
74339 TTGAACTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (44 bp):
ATTTTATTTTCCAAATAAGCTTCTTCATTAATACATATCAAAAG
Found at i:75866 original size:22 final size:21
Alignment explanation
Indices: 75821--75866 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
75811 TCTTACTGGG
* * *
75821 TTTTGTTTAAAATATCAAACT
1 TTTTGTTTAAAAAATAAAAAT
75842 TTTTGTATTAAAAAATAAAAAT
1 TTTTGT-TTAAAAAATAAAAAT
75864 TTT
1 TTT
75867 GAAATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (21 bp):
TTTTGTTTAAAAAATAAAAAT
Found at i:76288 original size:179 final size:180
Alignment explanation
Indices: 75902--76354 Score: 766
Period size: 179 Copynumber: 2.5 Consensus size: 180
75892 ACTTTTTTAC
* * * *
75902 TACCGGTTTTTTCATTTCGAGACCGATTTTATCATATTTTTACCTGTTATATTATTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
75967 TACATTTTTATAAAGTATCGACACTTTATTCGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTC--TTCTTTTAAATTCCAAAAG
* *
76032 TGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTT
129 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTT
76084 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
76149 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTC-TCTTTTAAATTCCAAAAGTG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTTTTAAATTCCAAAAGTG
76213 TCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTT
131 TCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTT
* **
76263 TACCTGTTTTGTCATTTATAGACCGGTTTTGTCAGT-TTTTTACCTGTTATATTGTTATGGATCG
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCA-TATTTTTACCTGTTATATTGTTATGGATCG
*
76327 ATACATTTTTATAAAGTATTGACACTTT
65 ATACATTTTTATAAAGTATCGACACTTT
76355 CAATATATCC
Statistics
Matches: 259, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
179 154 0.59
180 1 0.00
182 104 0.40
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (180 bp):
TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTTTTAAATTCCAAAAGTG
TCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTT
Found at i:76592 original size:112 final size:112
Alignment explanation
Indices: 76225--76686 Score: 764
Period size: 112 Copynumber: 4.1 Consensus size: 112
76215 GATACTTATA
* * *
76225 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
76290 TTTGTCAGTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTT
* *
76337 ATAAAGTATTGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
76402 TTTGTCA-TATTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTT
* * *
76448 ATAAAGTATTGACACTTTCAATATATCCGGTAGCACTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
76513 TTTGTCATTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTT
* *
76560 ATAAAGTATCGATACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
76625 CTTGTCATTTTTTTACCTGTTATATTGTTATGAATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTT
76672 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
76687 AAACCGACAA
Statistics
Matches: 331, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
111 107 0.32
112 224 0.68
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTT
Found at i:76613 original size:223 final size:224
Alignment explanation
Indices: 76225--76686 Score: 764
Period size: 223 Copynumber: 2.1 Consensus size: 224
76215 GATACTTATA
* *
76225 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCACTTTACCTGTTTTGTCATTTATAGACCGGT
* *
76290 TTTGTCAGTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATTGACACTTT
66 TTTGTCAGTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTTATAAAGTATCGACACTTT
*
76355 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCA-TATTTTACCT
131 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATCTTGTCATTATTTTACCT
* *
76419 GTTATATTGTTATGGATCGATACATTTTT
196 GTTATATTGTTATGAATCAATACATTTTT
* * * *
76448 ATAAAGTATTGACACTTTCAATATATCCGGTAGCACTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCACTTTACCTGTTTTGTCATTTATAGACCGGT
* *
76513 TTTGTCATTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTTATAAAGTATCGATACTTT
66 TTTGTCAGTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTTATAAAGTATCGACACTTT
* * *
76578 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGTCTTGTCATTTTTTTACCT
131 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATCTTGTCATTATTTTACCT
*
76643 GTTATATTGTTATGAATCAATATATTTTT
196 GTTATATTGTTATGAATCAATACATTTTT
76672 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
76687 AAACCGACAA
Statistics
Matches: 220, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
223 171 0.78
224 49 0.22
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (224 bp):
ATAAAGTATCGACACTATCAACATATCCGGTAGCACTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCAGTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTTATAAAGTATCGACACTTT
CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATCTTGTCATTATTTTACCT
GTTATATTGTTATGAATCAATACATTTTT
Found at i:76841 original size:11 final size:11
Alignment explanation
Indices: 76825--76849 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
76815 ATTCGGTAAC
76825 GTCGTATATTA
1 GTCGTATATTA
76836 GTCGTATATTA
1 GTCGTATATTA
76847 GTC
1 GTC
76850 CGCCTTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (11 bp):
GTCGTATATTA
Found at i:77084 original size:23 final size:23
Alignment explanation
Indices: 77050--77191 Score: 194
Period size: 23 Copynumber: 6.1 Consensus size: 23
77040 GAACTAATCA
*
77050 TTCTACTCTGTTTATACATATAC
1 TTCTACTCTGTTTATACACATAC
* *
77073 TTCTACTTTGTTTATACATATAC
1 TTCTACTCTGTTTATACACATAC
*
77096 TTCTACTCTGTTTATACATATAC
1 TTCTACTCTGTTTATACACATAC
* *
77119 TTTCCACTCTGTTTATATACATAC
1 -TTCTACTCTGTTTATACACATAC
*
77143 TTCTACTCTGTTTATACACACAC
1 TTCTACTCTGTTTATACACATAC
*
77166 TTTCCACTCTGTTTATACACATAC
1 -TTCTACTCTGTTTATACACATAC
77190 TT
1 TT
77192 TCCAAAGTAT
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
23 66 0.62
24 41 0.38
ACGTcount: A:0.25, C:0.24, G:0.04, T:0.46
Consensus pattern (23 bp):
TTCTACTCTGTTTATACACATAC
Found at i:77150 original size:47 final size:47
Alignment explanation
Indices: 77050--77191 Score: 223
Period size: 47 Copynumber: 3.0 Consensus size: 47
77040 GAACTAATCA
* * *
77050 TTCTACTCTGTTTATACATATAC-TTCTACTTTGTTTATACATATAC
1 TTCTACTCTGTTTATACATATACTTTCCACTCTGTTTATACACATAC
*
77096 TTCTACTCTGTTTATACATATACTTTCCACTCTGTTTATATACATAC
1 TTCTACTCTGTTTATACATATACTTTCCACTCTGTTTATACACATAC
* *
77143 TTCTACTCTGTTTATACACACACTTTCCACTCTGTTTATACACATAC
1 TTCTACTCTGTTTATACATATACTTTCCACTCTGTTTATACACATAC
77190 TT
1 TT
77192 TCCAAAGTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 23 0.26
47 65 0.74
ACGTcount: A:0.25, C:0.24, G:0.04, T:0.46
Consensus pattern (47 bp):
TTCTACTCTGTTTATACATATACTTTCCACTCTGTTTATACACATAC
Done.