Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007507.1 Hibiscus syriacus cultivar Beakdansim tig00020823_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: 119216
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:8148 original size:24 final size:24
Alignment explanation
Indices: 8117--8174 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
8107 CTTCCATTTC
8117 ATGAATGAAATGAATCAAGGTTAA
1 ATGAATGAAATGAATCAAGGTTAA
*
8141 ATGAATGAAATGAATCATGGTTAA
1 ATGAATGAAATGAATCAAGGTTAA
8165 ATGAATGAAA
1 ATGAATGAAA
8175 GGCTATTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.50, C:0.03, G:0.21, T:0.26
Consensus pattern (24 bp):
ATGAATGAAATGAATCAAGGTTAA
Found at i:12319 original size:15 final size:15
Alignment explanation
Indices: 12300--12355 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
12290 TTTATGGGGT
* *
12300 AAGAAGACAACGTCT
1 AAGAAGAAAACGTCA
12315 AAGAAGAAAACGTCA
1 AAGAAGAAAACGTCA
12330 AAGAAGAAAACGTCA
1 AAGAAGAAAACGTCA
12345 AAGAAGGAAAA
1 AAGAA-GAAAA
12356 AGAAAGCATC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 33 0.87
16 5 0.13
ACGTcount: A:0.59, C:0.12, G:0.21, T:0.07
Consensus pattern (15 bp):
AAGAAGAAAACGTCA
Found at i:14354 original size:20 final size:20
Alignment explanation
Indices: 14329--14367 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
14319 TCACGATGAA
14329 GACTCTAAACAAAGAGGTCT
1 GACTCTAAACAAAGAGGTCT
14349 GACTCTAAACAAAGAGGTC
1 GACTCTAAACAAAGAGGTC
14368 CGACAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
GACTCTAAACAAAGAGGTCT
Found at i:14377 original size:20 final size:20
Alignment explanation
Indices: 14334--14377 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
14324 ATGAAGACTC
* **
14334 TAAACAAAGAGGTCTGACTC
1 TAAACAAAGAGGTCCGACAA
14354 TAAACAAAGAGGTCCGACAA
1 TAAACAAAGAGGTCCGACAA
14374 TAAA
1 TAAA
14378 GGGAAAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (20 bp):
TAAACAAAGAGGTCCGACAA
Found at i:16254 original size:38 final size:38
Alignment explanation
Indices: 16203--16294 Score: 143
Period size: 38 Copynumber: 2.5 Consensus size: 38
16193 AGAACTTGTT
* *
16203 GAAAAAGAAGAGGAGAAAGGAGAAAGGACACCGAAGAC
1 GAAAAAAAAGAGGAGAAAGGAGAAAGGAAACCGAAGAC
16241 GAAAAAAAAGAGGAGAAAGGAGAAAGGAAACCGAAGAC
1 GAAAAAAAAGAGGAGAAAGGAGAAAGGAAACCGAAGAC
*
16279 G-GAAAAAAGA-GAGAAA
1 GAAAAAAAAGAGGAGAAA
16295 AGGAAGAGGG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
36 6 0.12
37 8 0.16
38 37 0.73
ACGTcount: A:0.60, C:0.08, G:0.33, T:0.00
Consensus pattern (38 bp):
GAAAAAAAAGAGGAGAAAGGAGAAAGGAAACCGAAGAC
Found at i:16888 original size:12 final size:12
Alignment explanation
Indices: 16868--16898 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16858 TAATCCCGGG
*
16868 TTTGTTTTTTCA
1 TTTGATTTTTCA
16880 TTTGATTTTTCA
1 TTTGATTTTTCA
16892 TTTGATT
1 TTTGATT
16899 ATCAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (12 bp):
TTTGATTTTTCA
Found at i:18724 original size:2 final size:2
Alignment explanation
Indices: 18717--18784 Score: 120
Period size: 2 Copynumber: 34.5 Consensus size: 2
18707 TCAATCTACA
18717 AT AT 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 AT AT
*
18759 AT AT AT AT AT -T AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
18785 ATTTACGAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:18947 original size:85 final size:85
Alignment explanation
Indices: 18832--18992 Score: 268
Period size: 85 Copynumber: 1.9 Consensus size: 85
18822 GTCTTTTTTA
* *
18832 ATGACGTGTGCTTAAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
1 ATGACGGGGGCTTAAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
18897 AATGTATGTCAAGCAGATTT
66 AATGTATGTCAAGCAGATTT
* * *
18917 ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACA
1 ATGACGGGGGCTTAAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
*
18982 AATGTGTGTCA
66 AATGTATGTCA
18993 TCTTAAATTA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (85 bp):
ATGACGGGGGCTTAAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
AATGTATGTCAAGCAGATTT
Found at i:19004 original size:85 final size:85
Alignment explanation
Indices: 18832--19054 Score: 256
Period size: 85 Copynumber: 2.6 Consensus size: 85
18822 GTCTTTTTTA
* *
18832 ATGACGTGTGCTTAAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
1 ATGACGAGGGCTTAAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
*
18897 AATGTATGTCAAGCAGATTT
66 AATGTATGTCAAGCAGAATT
* * * *
18917 ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACA
1 ATGACGAGGGCTTAAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
* *
18982 AATGTGTGTC-ATCTTA-AATT
66 AATGTATGTCAAGC--AGAATT
* * * **
19002 ATGATGAGGGCTTTAATGACACTCAATG-AACGTCATTA-ATGCACGTCATAAAT
1 ATGACGAGGGCTTAAATGACACGCAATGTAA-GTCA-TACATGCGTGTCATAAAT
19055 GTGTGTCATA
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
84 4 0.03
85 112 0.94
86 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (85 bp):
ATGACGAGGGCTTAAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
AATGTATGTCAAGCAGAATT
Found at i:19062 original size:13 final size:13
Alignment explanation
Indices: 19046--19090 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
19036 ATTAATGCAC
19046 GTCATAAATGTGT
1 GTCATAAATGTGT
19059 GTCATAAATGTGT
1 GTCATAAATGTGT
* *
19072 GGCATAAATGCGT
1 GTCATAAATGTGT
19085 GTCATA
1 GTCATA
19091 GATTTATGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.33
Consensus pattern (13 bp):
GTCATAAATGTGT
Found at i:22697 original size:18 final size:18
Alignment explanation
Indices: 22674--22711 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
22664 TTTTAAGATT
22674 TTATATTCGATTTAAATA
1 TTATATTCGATTTAAATA
22692 TTATATTCGATTTAAATA
1 TTATATTCGATTTAAATA
22710 TT
1 TT
22712 CGAATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (18 bp):
TTATATTCGATTTAAATA
Found at i:23131 original size:24 final size:23
Alignment explanation
Indices: 23055--23133 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 23
23045 ACCATGTTAG
*
23055 GTATCGATACTACTTTACATAGTA
1 GTATCGATACTAC-TCACATAGTA
*
23079 GTATCGAT-C--CTCAC-TAGATG
1 GTATCGATACTACTCACATAG-TA
*
23099 GTATTGATACTACTACACATAGTA
1 GTATCGATACTACT-CACATAGTA
23123 GTATCGATACT
1 GTATCGATACT
23134 CCCTGGCCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
19 3 0.07
20 11 0.25
21 2 0.05
23 3 0.07
24 22 0.50
25 3 0.07
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (23 bp):
GTATCGATACTACTCACATAGTA
Found at i:23152 original size:44 final size:44
Alignment explanation
Indices: 23055--23152 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
23045 ACCATGTTAG
** * **
23055 GTATCGATACTACTTTACATAGTAGTATCGATCCTCACTAGATG
1 GTATCGATACTACTACACATAGTAGTATCGATACTCACTAGACA
* * * *
23099 GTATTGATACTACTACACATAGTAGTATCGATACTCCCTGGCCA
1 GTATCGATACTACTACACATAGTAGTATCGATACTCACTAGACA
23143 GTATCGATAC
1 GTATCGATAC
23153 CGTTGGGTTG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (44 bp):
GTATCGATACTACTACACATAGTAGTATCGATACTCACTAGACA
Found at i:25584 original size:19 final size:19
Alignment explanation
Indices: 25545--25601 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
25535 ATCGGAGTAC
* *
25545 AAAAAGAAAG-AAAAG-AC
1 AAAAAAAAAGAAAAAGAAG
25562 AAAAAAAAAGAAAAAGAAG
1 AAAAAAAAAGAAAAAGAAG
*
25581 AAAAAAGAAGAAAAAGAAG
1 AAAAAAAAAGAAAAAGAAG
25600 AA
1 AA
25602 TTTCAAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
17 9 0.26
18 5 0.14
19 21 0.60
ACGTcount: A:0.81, C:0.02, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAGAAG
Found at i:25620 original size:9 final size:9
Alignment explanation
Indices: 25545--25601 Score: 64
Period size: 9 Copynumber: 6.2 Consensus size: 9
25535 ATCGGAGTAC
25545 AAAAAGAA-
1 AAAAAGAAG
25553 AGAAAAGACA-
1 A-AAAAGA-AG
*
25563 AAAAAAAAG
1 AAAAAGAAG
25572 AAAAAGAAG
1 AAAAAGAAG
25581 AAAAAAGAAG
1 -AAAAAGAAG
25591 AAAAAGAAG
1 AAAAAGAAG
25600 AA
1 AA
25602 TTTCAAAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
8 2 0.05
9 30 0.70
10 11 0.26
ACGTcount: A:0.81, C:0.02, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:49262 original size:14 final size:14
Alignment explanation
Indices: 49243--49269 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49233 GTTAATCGGA
49243 TTGCTTCTCATAAT
1 TTGCTTCTCATAAT
49257 TTGCTTCTCATAA
1 TTGCTTCTCATAA
49270 GTTTCTGTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (14 bp):
TTGCTTCTCATAAT
Found at i:57072 original size:44 final size:43
Alignment explanation
Indices: 56953--57136 Score: 165
Period size: 43 Copynumber: 4.3 Consensus size: 43
56943 TTTTTGTTAC
* * * *
56953 AAACGCCGTTATATACCAACCTTTACCGACGTTTGTATACT-A
1 AAACGCCGCTATATACCAACCTTTAGCGGCATTTGTATACTAA
* * *
56995 AAATGCCGCTATATACCAGACCATCAGCGGCATTTGTATACTAA
1 AAACGCCGCTATATACCA-ACCTTTAGCGGCATTTGTATACTAA
* * * * * *
57039 AAATGCCGTTATATACCATATCTTTATCTGCATTT-TATCCTAA
1 AAACGCCGCTATATACCA-ACCTTTAGCGGCATTTGTATACTAA
* ** * *
57082 AGACGCCGCTATATACCGAATTTTTAGCGGCGTTTGTACACTAA
1 AAACGCCGCTATATACC-AACCTTTAGCGGCATTTGTATACTAA
57126 AAACGCCGCTA
1 AAACGCCGCTA
57137 AATGTCAAAA
Statistics
Matches: 113, Mismatches: 25, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
42 16 0.14
43 51 0.45
44 46 0.41
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (43 bp):
AAACGCCGCTATATACCAACCTTTAGCGGCATTTGTATACTAA
Found at i:63778 original size:8 final size:8
Alignment explanation
Indices: 63750--63815 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
63740 AAAATTTACC
63750 AAAAATACT
1 AAAAATA-T
63759 -AAAATAT
1 AAAAATAT
*
63766 -TAAATAT
1 AAAAATAT
63773 AAAAAT-T
1 AAAAATAT
63780 AAGAAA-AT
1 AA-AAATAT
*
63788 AAAAAAAT
1 AAAAATAT
*
63796 AAAGATAT
1 AAAAATAT
*
63804 AAAACTAT
1 AAAAATAT
63812 AAAA
1 AAAA
63816 GGAAAGTAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
7 13 0.28
8 34 0.72
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (8 bp):
AAAAATAT
Found at i:63793 original size:17 final size:17
Alignment explanation
Indices: 63767--63800 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
63757 CTAAAATATT
* *
63767 AAATATAAAAATTAAGA
1 AAATAAAAAAATAAAGA
63784 AAATAAAAAAATAAAGA
1 AAATAAAAAAATAAAGA
63801 TATAAAACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
AAATAAAAAAATAAAGA
Found at i:65211 original size:37 final size:37
Alignment explanation
Indices: 65009--65365 Score: 167
Period size: 37 Copynumber: 9.6 Consensus size: 37
64999 GTTTTCAAGG
* * ** * *
65009 GAAAATATCTCAAGGGAGATGAACTTTTTGTTTCAAGA
1 GAAACTATCTCAAGTGAGAT-AAAATTATGTTTCGAGA
* * * *
65047 GAAAATGTCTCAAGTGAGATGAAAA-T-T-TTTCAAAGG
1 GAAACTATCTCAAGTGAGAT-AAAATTATGTTTC-GAGA
* * *
65083 GAGA-TATCTTAAGTGAGATAAAATT-TGTTTCTAGA
1 GAAACTATCTCAAGTGAGATAAAATTATGTTTCGAGA
* * * * * * * *
65118 AAAACTGTCCCGAGTGAGACAAAA-AATTTTATTGAGGA
1 GAAACTATCTCAAGTGAGATAAAATTATGTT-TCGA-GA
* * *
65156 AAAATTATCTCGAGTGAGATAAAATTATGTTTCGAGA
1 GAAACTATCTCAAGTGAGATAAAATTATGTTTCGAGA
* * * *
65193 GAAACTATCTCAACTGAGACAAAACTAT-TTTTGAGGA
1 GAAACTATCTCAAGTGAGATAAAATTATGTTTCGA-GA
* * * *
65230 AAAACTATCT-AAGGCGAGATAAAATTTTGTTTCGAGG
1 GAAACTATCTCAA-GTGAGATAAAATTATGTTTCGAGA
* * *
65267 GAAACTATCTCAAGTGAG--ACAATTATTGTTTTTGTGAA
1 GAAACTATCTCAAGTGAGATAAAATTA-TG-TTTCGAG-A
* * ** *
65305 TAAATTATCTCTTGTGAGATAAAATTATGTTCCGAGA
1 GAAACTATCTCAAGTGAGATAAAATTATGTTTCGAGA
* * *
65342 GAAACTGTCTCGAGTGAGACAAAA
1 GAAACTATCTCAAGTGAGATAAAA
65366 ATTTCAAGTG
Statistics
Matches: 238, Mismatches: 64, Indels: 35
0.71 0.19 0.10
Matches are distributed among these distances:
34 4 0.02
35 28 0.12
36 37 0.16
37 86 0.36
38 71 0.30
39 6 0.03
40 6 0.03
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.31
Consensus pattern (37 bp):
GAAACTATCTCAAGTGAGATAAAATTATGTTTCGAGA
Found at i:65214 original size:75 final size:73
Alignment explanation
Indices: 64882--65369 Score: 293
Period size: 74 Copynumber: 6.7 Consensus size: 73
64872 ACATCACAAA
* * * * * ** * *
64882 TGAGATGAAATTTTGTTTCGAGGGAAACTGTCTCAATTGTA-AC-AAAATATTTTCAAGGGATAA
1 TGAGATAAAATTATGTTTCGAGAGAAACTATCTCAAGTG-AGACAAAAAT-TTTTTGAGGAAAAA
64945 -TATCTCAAG
64 TTATCTCAAG
** * * * * ** *
64954 TGATGA-AATTTTCAT-TTT-GAGAGAAACTATCACGAGT--GACAGAAAGTTTTCAAGGGAAAA
1 TGA-GATAAAATT-ATGTTTCGAGAGAAACTATCTCAAGTGAGACAAAAATTTTTTGAGGAAAAA
65014 -TATCTCAAG
64 TTATCTCAAG
* ** * * * * ** ** * *
65023 GGAGATGAACTTTTTGTTTCAAGAGAAAATGTCTCAAGTGAGATGAAAATTTTTCAAAGG-GAGA
1 TGAGAT-AAAATTATGTTTCGAGAGAAACTATCTCAAGTGAGACAAAAATTTTT-TGAGGAAAAA
*
65087 -TATCTTAAG
64 TTATCTCAAG
* * * * *
65096 TGAGATAAAATT-TGTTTCTAGAAAAACTGTCCCGAGTGAGACAAAAAATTTTATTGAGGAAAAA
1 TGAGATAAAATTATGTTTCGAGAGAAACTATCTCAAGTGAGAC-AAAAATTTT-TTGAGGAAAAA
*
65160 TTATCTCGAG
64 TTATCTCAAG
* * *
65170 TGAGATAAAATTATGTTTCGAGAGAAACTATCTCAACTGAGACAAAACTATTTTTGAGGAAAAAC
1 TGAGATAAAATTATGTTTCGAGAGAAACTATCTCAAGTGAGACAAAAAT-TTTTTGAGGAAAAAT
65235 TATCT-AAGG
65 TATCTCAA-G
* * * * * *
65244 CGAGATAAAATTTTGTTTCGAGGGAAACTATCTCAAGTGAGACAATTATTGTTTTTG-TGAATAA
1 TGAGATAAAATTATGTTTCGAGAGAAACTATCTCAAGTGAGACAA-AAAT-TTTTTGAGGAA-AA
**
65308 ATTATCTCTTG
63 ATTATCTCAAG
* * *
65319 TGAGATAAAATTATGTTCCGAGAGAAACTGTCTCGAGTGAGACAAAAATTT
1 TGAGATAAAATTATGTTTCGAGAGAAACTATCTCAAGTGAGACAAAAATTT
65370 CAAGTGAAAC
Statistics
Matches: 323, Mismatches: 72, Indels: 41
0.74 0.17 0.09
Matches are distributed among these distances:
68 2 0.01
69 27 0.08
70 11 0.03
71 52 0.16
72 24 0.07
73 33 0.10
74 91 0.28
75 83 0.26
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (73 bp):
TGAGATAAAATTATGTTTCGAGAGAAACTATCTCAAGTGAGACAAAAATTTTTTGAGGAAAAATT
ATCTCAAG
Found at i:67098 original size:2 final size:2
Alignment explanation
Indices: 67091--67149 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
67081 ATATTGGTTG
67091 AT AT 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 AT AT
67133 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
67150 AGTAATATTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:72408 original size:47 final size:47
Alignment explanation
Indices: 72355--72469 Score: 221
Period size: 47 Copynumber: 2.4 Consensus size: 47
72345 TAAAGGTCAT
72355 TTTTCTCCTCTCACGAGGACATCATCAAATTTTCTTTCTCAAGATCA
1 TTTTCTCCTCTCACGAGGACATCATCAAATTTTCTTTCTCAAGATCA
72402 TTTTCTCCTCTCACGAGGACATCATCAAATTTTCTTTCTCAAGATCA
1 TTTTCTCCTCTCACGAGGACATCATCAAATTTTCTTTCTCAAGATCA
*
72449 TTTTCTCCTCTCATGAGGACA
1 TTTTCTCCTCTCACGAGGACA
72470 AATTCAAGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.24, C:0.28, G:0.10, T:0.38
Consensus pattern (47 bp):
TTTTCTCCTCTCACGAGGACATCATCAAATTTTCTTTCTCAAGATCA
Found at i:72809 original size:67 final size:66
Alignment explanation
Indices: 72738--72866 Score: 195
Period size: 67 Copynumber: 1.9 Consensus size: 66
72728 ATTGAGAGAG
* * *
72738 TTTCTCTTGAAACATAAATCTTTGAGATTGTTTCTCTCGAAACAAAGTTTTGTCTCACTTGAGGC
1 TTTCTCTTGAAACATAAACCTTTGAAATTGCTTCTCTCGAAACAAAGTTTTG-CTCACTTGAGGC
72803 AT
65 AT
* * *
72805 TTTCTCTTGAAATATAAACCTTTGAAATTGCTTCTCTCGAAATAAAGTTTTGCTTACTTGAG
1 TTTCTCTTGAAACATAAACCTTTGAAATTGCTTCTCTCGAAACAAAGTTTTGCTCACTTGAG
72867 ATACTTTCCC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
66 9 0.16
67 47 0.84
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (66 bp):
TTTCTCTTGAAACATAAACCTTTGAAATTGCTTCTCTCGAAACAAAGTTTTGCTCACTTGAGGCA
T
Found at i:73882 original size:104 final size:105
Alignment explanation
Indices: 73687--73926 Score: 248
Period size: 104 Copynumber: 2.3 Consensus size: 105
73677 TTAAATATCT
* * ** ** * * * *
73687 AGATTGACATGACGTCCTCAATGAGAAGGAACAACGTTATATGAAAGCGGCCAAAACTCTTCGAC
1 AGATTGACACGACTTCCTCAACAAGAAGGAATTACATCATCTGAAAGCGGCCAAAACTCTTCAAC
** * * *
73752 ATGGATGAGCCTTGTCTTCTTTAACACCAAGTTATCTCT-
66 ATGGATGAGCAGTGTCATCTTGAACACCAAATTATCTCTA
* ** * * *
73791 GGATTGACTTGACTTTCTCAACAAGAAGGAATTACATCATCTGAAAGCGGCCAGAACTCTTCAAT
1 AGATTGACACGACTTCCTCAACAAGAAGGAATTACATCATCTGAAAGCGGCCAAAACTCTTCAAC
* *
73856 ATGGATGAGTAGTGTCATCTTGAACACCAAATTATTTCTA
66 ATGGATGAGCAGTGTCATCTTGAACACCAAATTATCTCTA
**
73896 AGATTGACACGACTTCCTCATTAAGAAGGAA
1 AGATTGACACGACTTCCTCAACAAGAAGGAA
73927 CAACGTCATC
Statistics
Matches: 108, Mismatches: 27, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
104 83 0.77
105 25 0.23
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (105 bp):
AGATTGACACGACTTCCTCAACAAGAAGGAATTACATCATCTGAAAGCGGCCAAAACTCTTCAAC
ATGGATGAGCAGTGTCATCTTGAACACCAAATTATCTCTA
Found at i:74447 original size:3 final size:3
Alignment explanation
Indices: 74439--74471 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
74429 TTCGCTCGAG
74439 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
74472 GGTTACAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:82476 original size:16 final size:16
Alignment explanation
Indices: 82455--82485 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
82445 GTCGAAAGGC
82455 TCATTTTCGATAAGTA
1 TCATTTTCGATAAGTA
82471 TCATTTTCGATAAGT
1 TCATTTTCGATAAGT
82486 CTAAATATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (16 bp):
TCATTTTCGATAAGTA
Found at i:83094 original size:29 final size:27
Alignment explanation
Indices: 83062--83140 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 27
83052 TATGAAATGA
* *
83062 TATATAGTAAATATAAAAATATATATACT
1 TATAT-GTAAATATAAAAAAATATA-AAT
*
83091 TATATGTTAATA-AAAAAAATATAAAT
1 TATATGTAAATATAAAAAAATATAAAT
*
83117 TATATTTAAATATGCAAAAAAATA
1 TATATGTAAATAT--AAAAAAATA
83141 CATGTGTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 12 0.29
27 10 0.24
28 6 0.14
29 14 0.33
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (27 bp):
TATATGTAAATATAAAAAAATATAAAT
Found at i:83128 original size:26 final size:29
Alignment explanation
Indices: 83069--83140 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 29
83059 TGATATATAG
* *
83069 TAAATATAAAAATATATATACTTATATGT
1 TAAATATAAAAAAATATATAATTATATGT
83098 T-AATA-AAAAAAATATA-AATTATAT-T
1 TAAATATAAAAAAATATATAATTATATGT
83123 TAAATATGCAAAAAAATA
1 TAAATAT--AAAAAAATA
83141 CATGTGTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 2 0.05
26 11 0.30
27 10 0.27
28 4 0.11
29 10 0.27
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (29 bp):
TAAATATAAAAAAATATATAATTATATGT
Found at i:83400 original size:28 final size:28
Alignment explanation
Indices: 83360--83421 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
83350 ATTTTCAAAT
83360 GAAAAATTGAGATCAATCAAACTAATAA
1 GAAAAATTGAGATCAATCAAACTAATAA
83388 GAAAAATTGAGATCAATCAAACTAATAA
1 GAAAAATTGAGATCAATCAAACTAATAA
83416 GAAAAA
1 GAAAAA
83422 AATAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.60, C:0.10, G:0.11, T:0.19
Consensus pattern (28 bp):
GAAAAATTGAGATCAATCAAACTAATAA
Found at i:83594 original size:11 final size:12
Alignment explanation
Indices: 83578--83606 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
83568 TAGTAAAAAC
83578 AATAAACAAAG-
1 AATAAACAAAGA
83589 AATAAACAAAGA
1 AATAAACAAAGA
83601 AATAAA
1 AATAAA
83607 TAAATTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (12 bp):
AATAAACAAAGA
Found at i:84433 original size:32 final size:32
Alignment explanation
Indices: 84397--84466 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
84387 TACAACACTA
* * * * * *
84397 ACTCTGCTATGCATTATTTGAATGCATTATTG
1 ACTCTGATATACATTATCTAAATGCAATACTG
84429 ACTCTGATATACATTATCTAAATGCAATACTG
1 ACTCTGATATACATTATCTAAATGCAATACTG
84461 ACTCTG
1 ACTCTG
84467 GTGTGCTTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (32 bp):
ACTCTGATATACATTATCTAAATGCAATACTG
Found at i:89806 original size:32 final size:32
Alignment explanation
Indices: 89723--89811 Score: 115
Period size: 32 Copynumber: 2.8 Consensus size: 32
89713 GACGCTCATG
* *
89723 TGCATTATCTGAATGCAACACTAACTCTACTA
1 TGCATTATCTGAATGCAATACTGACTCTACTA
* * * *
89755 TGTATTATTTGAATACAATACTGACTCTATTA
1 TGCATTATCTGAATGCAATACTGACTCTACTA
*
89787 TGCATTATCTAAATGCAATACTGAC
1 TGCATTATCTGAATGCAATACTGAC
89812 ATTGTAAAGC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (32 bp):
TGCATTATCTGAATGCAATACTGACTCTACTA
Found at i:93359 original size:13 final size:13
Alignment explanation
Indices: 93343--93367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93333 TCTTTCTTTC
93343 TTTTTATATTTTA
1 TTTTTATATTTTA
93356 TTTTTATATTTT
1 TTTTTATATTTT
93368 GAGTATTGGT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATATTTTA
Found at i:93788 original size:2 final size:2
Alignment explanation
Indices: 93776--94019 Score: 160
Period size: 2 Copynumber: 137.0 Consensus size: 2
93766 TTTTGTCCTA
* *
93776 AT AT AT A- AT AT AT -T AT AT AGT AT AT AT AT AT GT -T AT AC A-
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
93815 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
93854 GT AGT AT -T AT AT AT -T AT -T AT -T AT AT A- AT -T AT AT A- AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93890 -T AT AT -T AT A- AT -T AT AT GAT AT AGT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT A-T AT AT AT AT AT AT AT AT
* *
93930 AT AT -T AT TT AT AT AT -T AT AT AT -T AT -T AT -T AT AT CT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
93966 AT AT AT -T AT AT AT -T AT -T AT -T AT AT -T TT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94002 AT -T AT -T AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
94020 TGATTTTTAT
Statistics
Matches: 197, Mismatches: 7, Indels: 76
0.70 0.03 0.27
Matches are distributed among these distances:
1 34 0.17
2 155 0.79
3 8 0.04
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (2 bp):
AT
Found at i:93845 original size:27 final size:27
Alignment explanation
Indices: 93776--94019 Score: 175
Period size: 27 Copynumber: 9.2 Consensus size: 27
93766 TTTTGTCCTA
93776 ATATATA-ATATATTATATAGTATATAT
1 ATATATATATATATTATATA-TATATAT
* *
93803 ATATGTTATACAATATTATATATATATAT
1 ATAT-ATATA-TATATTATATATATATAT
*
93832 ATATATATATATA-TATAT-TAT-TGT
1 ATATATATATATATTATATATATATAT
93856 AGTAT-TATATATTATTAT-TATATA-AT
1 A-TATATATATA-TATTATATATATATAT
93882 -TATATA-ATTATATTATA-AT-TATAT
1 ATATATATA-TATATTATATATATATAT
93906 GATATAGTATATATATATATATATATATTAT
1 -ATATA-TATATATAT-TATATATATA-TAT
*
93937 TTATATATTATATATTAT-TAT-TATAT
1 ATATATA-TATATATTATATATATATAT
*
93963 CTTATATATTATATATTAT-TAT-TATAT
1 -ATATATAT-ATATATTATATATATATAT
*
93990 -TTTATATATTATATTAT-TAT-TATAT
1 ATATATATA-TATATTATATATATATAT
94015 -TATAT
1 ATATAT
94020 TGATTTTTAT
Statistics
Matches: 184, Mismatches: 9, Indels: 50
0.76 0.04 0.21
Matches are distributed among these distances:
23 2 0.01
24 24 0.13
25 39 0.21
26 20 0.11
27 40 0.22
28 14 0.08
29 19 0.10
30 23 0.12
31 3 0.02
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (27 bp):
ATATATATATATATTATATATATATAT
Found at i:93931 original size:84 final size:82
Alignment explanation
Indices: 93776--94019 Score: 272
Period size: 84 Copynumber: 3.0 Consensus size: 82
93766 TTTTGTCCTA
* * *
93776 ATATATAATATATTATATAGTATAT-ATATATGTTATACAATATTATATATATATATATATATAT
1 ATATATTAT-TATTATATATTATATAATATATATTAT---A-ATTATATATATATATATATATAT
*
93840 ATATATATATTATTGTA-GTATT
61 ATATATATATTATT-TATATATT
93862 ATATATTATTATTATATAATTATATAAT-TATATTATAATTATATGATATAGTATATATATATAT
1 ATATATTATTATTATAT-ATTATATAATATATATTATAATTATAT-ATATA-TATATATATATAT
93926 ATATATATTATTTATATATT
63 ATATATATTATTTATATATT
* * *
93946 ATATATTATTATTATATCTTATATATTATATATTATTATTATAT-T-T-TATATAT-TATAT-TA
1 ATATATTATTATTATATATTATATAATATATATTATAATTATATATATATATATATATATATATA
94006 T-TATTATATTATAT
66 TATATTAT-TTATAT
94020 TGATTTTTAT
Statistics
Matches: 144, Mismatches: 7, Indels: 23
0.83 0.04 0.13
Matches are distributed among these distances:
76 6 0.04
77 9 0.06
78 5 0.03
79 7 0.05
81 1 0.01
82 8 0.06
83 16 0.11
84 61 0.42
85 8 0.06
86 21 0.15
87 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (82 bp):
ATATATTATTATTATATATTATATAATATATATTATAATTATATATATATATATATATATATATA
TATATTATTTATATATT
Found at i:98356 original size:54 final size:54
Alignment explanation
Indices: 98270--98451 Score: 269
Period size: 54 Copynumber: 3.4 Consensus size: 54
98260 ATTACACCTA
** *
98270 AGTGCCAAAATTATAATTCACAAACTCATTATGAATTCCATGGGTTGCACACAT
1 AGTGCCAAAATGGTAATTCACAAACTCATTATGAATTACATGGGTTGCACACAT
*
98324 AGTACCAAAATGGTAATTCACAAACTCATTATGAATTACATGGGTT--ACACAT
1 AGTGCCAAAATGGTAATTCACAAACTCATTATGAATTACATGGGTTGCACACAT
* * *
98376 AGTGCGAAAATGGTAATTCATAAACTCATTATGAATTTCATGGGTTGCACACAT
1 AGTGCCAAAATGGTAATTCACAAACTCATTATGAATTACATGGGTTGCACACAT
* *
98430 AGTGCCGAAATGGTAATACACA
1 AGTGCCAAAATGGTAATTCACA
98452 TAGTACTAAT
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
52 48 0.42
54 66 0.58
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (54 bp):
AGTGCCAAAATGGTAATTCACAAACTCATTATGAATTACATGGGTTGCACACAT
Found at i:108064 original size:2 final size:2
Alignment explanation
Indices: 108055--108341 Score: 209
Period size: 2 Copynumber: 156.0 Consensus size: 2
108045 AGTATATAAA
* *
108055 AT AT -T AT AT AGT AT AT AT AT AT GT -T AT AC A- AT AT -T AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108094 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108135 AT -T AT -T 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 AT AT
* * *
108175 -T AT AT AGT -T TT AT AT -T AT TT AT AT AT AT -T AT AT AT TT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
108214 -T AT CAT -T AT TT AT AT -T TT AT CT AT AT AT -T AT AT AC AT TT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
108253 AT -T AT AT -T AT -T AT -T AT AT TT AT AT TT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
108290 AT AT -T AT -T TT TT AT AT GAT AT AT A- AT AT -T AT -T AT -T AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
108327 -T AT A- AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT
108342 TAATTTTATC
Statistics
Matches: 231, Mismatches: 21, Indels: 66
0.73 0.07 0.21
Matches are distributed among these distances:
1 29 0.13
2 195 0.84
3 7 0.03
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (2 bp):
AT
Found at i:108130 original size:41 final size:41
Alignment explanation
Indices: 108055--108341 Score: 224
Period size: 39 Copynumber: 7.0 Consensus size: 41
108045 AGTATATAAA
* *
108055 ATAT-TATATAGTATATATATATGT-TATACA-ATATTATAT
1 ATATATATATA-TATATATATATATATATATATATATTATAT
108094 ATATATATATATATATATATATATATATATATATATTATAT
1 ATATATATATATATATATATATATATATATATATATTATAT
108135 AT-TAT-TATATATATATATATATATATATATATA-TATAT
1 ATATATATATATATATATATATATATATATATATATTATAT
* * *
108173 ATTATATAGTTTTATATTATTTATATATATTATATATTTATTATCAT
1 A-TATATA--TATATA-TATATATATATA-TATATATATATTAT-AT
* * * * *
108220 -TATTTATAT-TTTATCTATATATTATATACATTTATTATAT
1 ATATATATATATATATATATATA-TATATATATATATTATAT
* *
108260 -TAT-TAT-TATATTTATATTTATATTATATATATATTAT-T
1 ATATATATATATATATATATATATA-TATATATATATTATAT
* *
108298 TTTTATATGATATATA-ATAT-TATTATTATTATAATATATTATAT
1 ATATATAT-ATATATATATATATA-TA-TA-TAT-ATATATTATAT
108342 TAATTTTATC
Statistics
Matches: 207, Mismatches: 18, Indels: 41
0.78 0.07 0.15
Matches are distributed among these distances:
38 10 0.05
39 70 0.34
40 27 0.13
41 42 0.20
42 11 0.05
43 16 0.08
44 12 0.06
45 14 0.07
46 3 0.01
47 2 0.01
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (41 bp):
ATATATATATATATATATATATATATATATATATATTATAT
Found at i:108136 original size:43 final size:43
Alignment explanation
Indices: 108047--108341 Score: 239
Period size: 45 Copynumber: 7.1 Consensus size: 43
108037 TTTGTCCTAG
* * * *
108047 TATATA-AAATAT-TATATAGTATATATATATGT-TATACAATA
1 TATATATATATATATATATA-TATATATATATATATATATATTA
108088 TTATATATATATATATATATATATATATATATATATATATATTA
1 -TATATATATATATATATATATATATATATATATATATATATTA
108132 TATATTATTATATATATATATATATATATATATATATATATATTA
1 TATA-TA-TATATATATATATATATATATATATATATATATATTA
* * *
108177 TATAGT-TTTATAT-TATTTATATATATTATATATTTATTATCATTA
1 TATA-TATATATATATATATATATATA-TATATATATA-TAT-ATTA
* * * * *
108222 TTTATAT-TTTATCTATATAT-TATATACATTTAT-TATATTA
1 TATATATATATATATATATATATATATATATATATATATATTA
* * * *
108262 T-TAT-TATATTTATATTTATAT-TATATATATAT-TATTTTT
1 TATATATATATATATATATATATATATATATATATATATATTA
108301 TATATGATATATA-ATAT-TAT-TAT-TAT-TATA-ATATATTA
1 TATAT-ATATATATATATATATATATATATATATATATATATTA
108339 TAT
1 TAT
108342 TAATTTTATC
Statistics
Matches: 211, Mismatches: 25, Indels: 38
0.77 0.09 0.14
Matches are distributed among these distances:
38 13 0.06
39 31 0.15
40 13 0.06
41 7 0.03
42 22 0.10
43 42 0.20
44 27 0.13
45 56 0.27
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (43 bp):
TATATATATATATATATATATATATATATATATATATATATTA
Found at i:112125 original size:100 final size:95
Alignment explanation
Indices: 111960--112152 Score: 305
Period size: 100 Copynumber: 2.0 Consensus size: 95
111950 TGTAAGTATG
* * *
111960 TATTTATTTTTAGGTTGAGAAATGTACATTATCGGTGTAAGTATAATTGCTACGCTTCTTTATTT
1 TATTTAGTTTTAGGTTGAGAAATGTACATTACCGGTGTAAGTATAATTGCTACACTTCTTTATTT
*
112025 ATGCTACATGTATGAGTTGTATAAAAAAGT
66 ATGCTACATGTATGAGTTGTACAAAAAAGT
112055 TATTTAGTTTTAGGTTGAGAAATGTACATACTTACACCGGTGTAAGTATAATTGCTACACTTCTT
1 TATTTAGTTTTAGGTTGAGAAATGTAC--A-TT--ACCGGTGTAAGTATAATTGCTACACTTCTT
112120 TATTTATGCTACATGTATGAGTTGTACAAAAAA
61 TATTTATGCTACATGTATGAGTTGTACAAAAAA
112153 ATATTATATC
Statistics
Matches: 89, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
95 26 0.29
97 1 0.01
98 2 0.02
100 60 0.67
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (95 bp):
TATTTAGTTTTAGGTTGAGAAATGTACATTACCGGTGTAAGTATAATTGCTACACTTCTTTATTT
ATGCTACATGTATGAGTTGTACAAAAAAGT
Found at i:117070 original size:16 final size:14
Alignment explanation
Indices: 117034--117071 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
117024 TATACCTTTA
*
117034 ATGACACATGGACG
1 ATGACACACGGACG
117048 ATGACACACGGACG
1 ATGACACACGGACG
117062 ATGACACACG
1 ATGACACACG
117072 CTAATTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.26, T:0.11
Consensus pattern (14 bp):
ATGACACACGGACG
Done.