Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003123.1 Hibiscus syriacus cultivar Beakdansim tig00006539_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: 185070
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1693 original size:114 final size:114
Alignment explanation
Indices: 1482--1707 Score: 373
Period size: 114 Copynumber: 2.0 Consensus size: 114
1472 AGGTGCTATG
1482 TGCTCATAGTAGAAATAAGAAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * *
1547 TGGTTTGGTATGAACCCCAAAAACCATTATTGGATTTAAAAGATGAATT
66 TGGTTCGGTAGGAACCACAAAAACCATCATTGGAATTAAAAGATGAATT
*
1596 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
1661 TGGTTCGGTAGGAACCAC-AGAACCAATCATTGGAATTAAAAGATGAA
66 TGGTTCGGTAGGAACCACAAAAACC-ATCATTGGAATTAAAAGATGAA
1708 CTGCATTATC
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
113 5 0.05
114 99 0.95
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTCGGTAGGAACCACAAAAACCATCATTGGAATTAAAAGATGAATT
Found at i:2827 original size:75 final size:74
Alignment explanation
Indices: 2659--2833 Score: 192
Period size: 74 Copynumber: 2.4 Consensus size: 74
2649 AACAAGAAGT
* * * * * * *
2659 AAATGTTGGGGCATGCTGAAAACCCTTTTCAATCCGAATTAGAAATGTTGAAATATTCTGAATAT
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAGAAATGTTGAAACATTCTGAACAC
2724 TTGTCAGCA
66 TTGTCAGCA
* ** *
2733 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAGAATTGTTGATGCATTTTGAACAC
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAGAAATGTTGAAACATTCTGAACAC
2798 TTGT-ATTGGC-
66 TTGTCA---GCA
* *
2808 CAATGTTGGGGCATGCTGAAGGCCCA
1 AAATGTTGGGGCATGCTGAAAGCCCA
2834 CAACATCCTG
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
73 1 0.01
74 58 0.68
75 24 0.28
76 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (74 bp):
AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAGAAATGTTGAAACATTCTGAACAC
TTGTCAGCA
Found at i:3845 original size:39 final size:40
Alignment explanation
Indices: 3770--3848 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
3760 GAGCAGAAGC
3770 CACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATCT
1 CACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATCT
3810 CACAGAAAAGGATGAATGTG-TGTCAAGTGTTTTACATCT
1 CACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATCT
3849 GAGCTGAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32
Consensus pattern (40 bp):
CACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATCT
Found at i:3876 original size:89 final size:92
Alignment explanation
Indices: 3716--3891 Score: 216
Period size: 89 Copynumber: 1.9 Consensus size: 92
3706 GAGCAGAAAC
* *
3716 CACAGAAAAGGATGAATGTATTGTCAAATGCTTTACGAACATCTGAGCAGAAGCCACAGAAAAGG
1 CACAGAAAAGGATGAATGTAGTGTCAAATGCTTTA--AACATCTGAGCAGAAACCACAGAAAAGG
* *
3781 ATGAATGTGTTGTCAAGTGTTTTACATCT
64 AAGAATGTGTTGTCAAATGTTTTACATCT
* * * * *
3810 CACAGAAAAGGATGAATGT-GTGTCAAGTG-TTT-TACATCTGAGCTGAAACCACATG-AGATGA
1 CACAGAAAAGGATGAATGTAGTGTCAAATGCTTTAAACATCTGAGCAGAAACCACA-GAAAAGGA
3871 AGAATGTGTTGTCAAATGTTT
65 AGAATGTGTTGTCAAATGTTT
3892 ACGAACATCT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
89 41 0.57
90 1 0.01
92 3 0.04
93 8 0.11
94 19 0.26
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (92 bp):
CACAGAAAAGGATGAATGTAGTGTCAAATGCTTTAAACATCTGAGCAGAAACCACAGAAAAGGAA
GAATGTGTTGTCAAATGTTTTACATCT
Found at i:3915 original size:53 final size:54
Alignment explanation
Indices: 3843--3951 Score: 123
Period size: 53 Copynumber: 2.0 Consensus size: 54
3833 CAAGTGTTTT
* * * * ***
3843 ACATCTGAGCTGAAACCACATGAGATGAAGAATGTGTTGTCAAATG-TTTACGA
1 ACATCTGAGCTAAAACCACAGGAAAGGAAGAATGCACTGTCAAATGTTTTACGA
*
3896 ACATCTGAGC-AAAAGCCACAGGAAAGGATGAATGCACTGTCAAATGTTTTACGA
1 ACATCTGAGCTAAAA-CCACAGGAAAGGAAGAATGCACTGTCAAATGTTTTACGA
3950 AC
1 AC
3952 CTACTATTCT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
52 3 0.07
53 34 0.74
54 9 0.20
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (54 bp):
ACATCTGAGCTAAAACCACAGGAAAGGAAGAATGCACTGTCAAATGTTTTACGA
Found at i:5051 original size:113 final size:112
Alignment explanation
Indices: 4711--5602 Score: 870
Period size: 113 Copynumber: 7.8 Consensus size: 112
4701 GATTCAAATC
* * *
4711 CATCACTTGATGGATCAGCTTTTTCAAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * ** *
4776 AAAATAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTGCTTGAATT
4824 CATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAAT--G-AGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
4886 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATC
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTGCTTGAATT
* *
4934 CATCATTTGATGGATCAGCTTTTCAAGAAAAAATTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
4999 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTT-GCTTGAATT
* * * * * **** *
5047 CATCATTCGATTGATCAACATTACCAGGTCGAGTTCATAATGATAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
5112 AGAATAAGTTCATAATGAGAATAACTTGTTCAACTTTTTGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-TTTTGCTTGAATT
* * * * ***
5160 CATCATTCGATGGGTCAGCATTGCCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
5225 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-TTTTGCTTGAATT
* * *
5273 CATCATTCT-ATGGATCAACATTGCCAG-----G----T-A-GAGAAGAACTCATCTGAAGAAGG
1 CATCATT-TGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
** *
5326 AAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCAT-AATT
65 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTGCTTGAATT
* * * *
5374 CTATCACAGAATGAGATAGATCAGCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCA
1 C-AT--C---AT----TTGAT--GGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCA
* * * *
5439 TCTGAAGGAGGAAGAAGAAGTTCATAATGAGAA-AATTATGTTCAACCTTTTTCATG-ACT
54 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT-TGTTCAA-CTTTTGCTTGAATT
* * *
5498 CTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAG--AAAGTTCATAATGAGAAGAACTCA
1 C-ATCAT---------TTGAT--GGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCA
*
5561 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
54 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
5603 TAACCCTTTT
Statistics
Matches: 688, Mismatches: 52, Indels: 69
0.85 0.06 0.09
Matches are distributed among these distances:
101 5 0.01
102 64 0.09
103 2 0.00
104 2 0.00
107 2 0.00
108 1 0.00
110 104 0.15
111 4 0.01
112 6 0.01
113 330 0.48
114 4 0.01
118 1 0.00
119 2 0.00
122 62 0.09
123 6 0.01
124 93 0.14
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (112 bp):
CATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTGCTTGAATT
Found at i:5442 original size:124 final size:124
Alignment explanation
Indices: 5303--5695 Score: 526
Period size: 124 Copynumber: 3.2 Consensus size: 124
5293 TTGCCAGGTA
* *
5303 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
1 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCC
* *
5368 ATAATTCTATCACAGAATGAGATAGATCAGCATCAACTTTTCCAGAGAAAGTTCATAAT
66 ATAATTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAAAGTTCATAAT
* * *
5427 GAGAAGAACTCATCTGAAGGAGGAAGAAGAAGTTCATAATGAGAA-AATTATGTTCAACCTTTTT
1 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT-TGTTCAACCTTTTC
* *
5491 CATGACTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCC--AGAAAGTTCATAAT
65 CATAATTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAAAGTTCATAAT
*
5549 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCCTTTTC
1 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CCTTTTC
* * *
5614 CA-AATTAC-ATCATAGAAGGAGAT--ATTATCATC--C----CCAGCGGAAAGTTCATAAT
65 CATAATT-CTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAG-AGAAAGTTCATAAT
*
5666 GAGAAGAACTCATCTGAAGAAAG-AGAAGAA
1 GAGAAGAACTCATCTGAAGAAGGAAGAAGAA
5696 TTTATTCAAC
Statistics
Matches: 244, Mismatches: 18, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
114 2 0.01
116 7 0.03
117 35 0.14
118 1 0.00
120 7 0.03
122 81 0.33
123 14 0.06
124 97 0.40
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.25
Consensus pattern (124 bp):
GAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTCC
ATAATTCTATCATAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAAAGTTCATAAT
Found at i:5844 original size:3 final size:3
Alignment explanation
Indices: 5838--5892 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
5828 CCATTTTCTA
*
5838 TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT T-T TATT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
5882 TAT TAT TAT TA
1 TAT TAT TAT TA
5893 CAAACAGGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 4 0.09
3 40 0.85
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:5855 original size:14 final size:14
Alignment explanation
Indices: 5836--5892 Score: 75
Period size: 14 Copynumber: 4.1 Consensus size: 14
5826 CTCCATTTTC
5836 TATATTATTATTAT
1 TATATTATTATTAT
5850 TATATTATTATTA-
1 TATATTATTATTAT
5863 T-TATTATT-TTATT
1 TATATTATTATTA-T
5876 TAGTATTATTATTAT
1 TA-TATTATTATTAT
5891 TA
1 TA
5893 CAAACAGGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
11 3 0.08
12 7 0.18
13 2 0.05
14 13 0.34
15 10 0.26
16 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TATATTATTATTAT
Found at i:6379 original size:3 final size:3
Alignment explanation
Indices: 6371--6438 Score: 95
Period size: 3 Copynumber: 22.7 Consensus size: 3
6361 CTCCATTTTC
6371 TAT TAT TAT TAT TAT T-T TAT ATAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
*
6416 T-T TATT TAG TAT TAT TAT TAT TA
1 TAT TA-T TAT TAT TAT TAT TAT TA
6439 CAAACAGGCT
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
2 4 0.07
3 49 0.83
4 6 0.10
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7374 original size:14 final size:14
Alignment explanation
Indices: 7345--7385 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
7335 ATCATTCAAA
7345 TTTTATTTTTGA--T
1 TTTTATTTTT-ATTT
7358 TTTT-TTTTTATTT
1 TTTTATTTTTATTT
7371 TTTTATTTTTATTT
1 TTTTATTTTTATTT
7385 T
1 T
7386 AATTTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.04
12 5 0.20
13 9 0.36
14 10 0.40
ACGTcount: A:0.12, C:0.00, G:0.02, T:0.85
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:7378 original size:19 final size:18
Alignment explanation
Indices: 7344--7410 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 18
7334 AATCATTCAA
*
7344 ATTTTATTTTTGATTTTT
1 ATTTTATTTTTTATTTTT
*
7362 TTTTTATTTTTTTATTTTT
1 ATTTTA-TTTTTTATTTTT
*
7381 ATTTTAATTTTATATTTTT
1 ATTTT-ATTTTTTATTTTT
7400 AATTATTATTT
1 -ATT-TTATTT
7411 GCAATATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 5 0.12
19 26 0.63
20 8 0.20
21 2 0.05
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.78
Consensus pattern (18 bp):
ATTTTATTTTTTATTTTT
Found at i:7379 original size:25 final size:26
Alignment explanation
Indices: 7345--7400 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
7335 ATCATTCAAA
** *
7345 TTTTATTTTTGATTTTTTTTTTATTT
1 TTTTATTTTTGATTTTAATTTTATAT
7371 TTTTATTTTT-ATTTTAATTTTATAT
1 TTTTATTTTTGATTTTAATTTTATAT
7396 TTTTA
1 TTTTA
7401 ATTATTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (26 bp):
TTTTATTTTTGATTTTAATTTTATAT
Found at i:7408 original size:26 final size:25
Alignment explanation
Indices: 7363--7435 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 25
7353 TTGATTTTTT
* *
7363 TTTTATTTTTTTATTTTTATTT-TAA
1 TTTTA-TTTTTTATTATTATTTGCAA
7388 TTTTATATTTTTAATTATTATTTGCAA
1 TTTTAT-TTTTT-ATTATTATTTGCAA
*
7415 TATTATTTTATTATTATTATT
1 TTTTATTTT-TTATTATTATT
7436 ACTTTTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.02
25 10 0.24
26 21 0.51
27 9 0.22
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (25 bp):
TTTTATTTTTTATTATTATTTGCAA
Found at i:7421 original size:3 final size:3
Alignment explanation
Indices: 7415--7460 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
7405 TTATTTGCAA
* *
7415 TAT TAT T-T TAT TAT TAT TAT TACT TTT TAT TAT TAT TCT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
7460 T
1 T
7461 TATATAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:7462 original size:19 final size:19
Alignment explanation
Indices: 7415--7463 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
7405 TTATTTGCAA
7415 TATTATTTTATTATTATTAT
1 TATTA-TTTATTATTATTAT
*
7435 TACTT-TTTATTATTATTCT
1 TA-TTATTTATTATTATTAT
7454 TATTATTTAT
1 TATTATTTAT
7464 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 20 0.77
20 2 0.08
21 2 0.08
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTATTTATTATTATTAT
Found at i:7484 original size:18 final size:16
Alignment explanation
Indices: 7461--7495 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7451 TCTTATTATT
7461 TATATA-AATAAATATA
1 TATATATAATAAATA-A
7477 TATATATAATAAATAA
1 TATATATAATAAATAA
7493 TAT
1 TAT
7496 TTGTTTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATATATAATAAATAA
Found at i:7698 original size:119 final size:118
Alignment explanation
Indices: 7559--7781 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 118
7549 TTTTAATATA
* * * * *
7559 TATTTATTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTAAAATAACTGGATGTCCATTTTCTG
1 TATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGT-CATTTTCTG
*
7622 ATATTTTTAAATAAATAAATATCTTATTTTATAAATTATATATTATTTGTTTTAAT
65 ATATTTCTAAATAAATAAATATCTTA-TTTATAAA-TATATATTATTTGTTTTAAT
* * ** * *
7678 TATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCATTTTCTTA
1 TATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCTGA
*
7743 TATTTCTAAATAAATAAATATTTTATTTATAAATATATA
66 TATTTCTAAATAAATAAATATCTTATTTATAAATATATA
7782 AATTAATATA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
118 6 0.07
119 28 0.31
120 35 0.39
121 20 0.22
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.47
Consensus pattern (118 bp):
TATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCTGA
TATTTCTAAATAAATAAATATCTTATTTATAAATATATATTATTTGTTTTAAT
Found at i:8539 original size:28 final size:28
Alignment explanation
Indices: 8504--8567 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
8494 CTATTAATTC
* *
8504 AATT-AATTAATTTTTTCTTT-AATTGTT
1 AATTGAATTAATTTTTT-TTTAAAATATT
8531 AATTGAATTAATTTTTTTTTAAAATATT
1 AATTGAATTAATTTTTTTTTAAAATATT
8559 AATTGAATT
1 AATTGAATT
8568 GAATAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 7 0.21
28 26 0.79
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (28 bp):
AATTGAATTAATTTTTTTTTAAAATATT
Found at i:14377 original size:18 final size:18
Alignment explanation
Indices: 14342--14392 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
14332 ATATCATTGA
*
14342 TCACATT-TTAT-GATAT
1 TCACATTATTATAAATAT
14358 TCACATTATTATAAATAT
1 TCACATTATTATAAATAT
14376 TCACATTATTATAAATA
1 TCACATTATTATAAATA
14393 ATGTTACATG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 7 0.22
17 4 0.12
18 21 0.66
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.45
Consensus pattern (18 bp):
TCACATTATTATAAATAT
Found at i:14597 original size:3 final size:3
Alignment explanation
Indices: 14589--14657 Score: 129
Period size: 3 Copynumber: 23.0 Consensus size: 3
14579 TTAAACATGA
*
14589 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14637 AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
14658 GTTACATGAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19794 original size:24 final size:24
Alignment explanation
Indices: 19698--19796 Score: 117
Period size: 24 Copynumber: 4.1 Consensus size: 24
19688 TCCTATTTGG
* * * *
19698 ATTCTGTTATGATACCTGACATGG
1 ATTCTGATCTGATACTTGACATGA
*
19722 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGA
* **
19746 ATTCTGATCCGATGTTTGACATGA
1 ATTCTGATCTGATACTTGACATGA
*
19770 ATTCTGATCTGATACTTGACCTGA
1 ATTCTGATCTGATACTTGACATGA
19794 ATT
1 ATT
19797 ATGTTTTGAT
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGA
Found at i:31520 original size:18 final size:18
Alignment explanation
Indices: 31471--31520 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
31461 ACATCTAATA
* *
31471 ATTTAATTAATCAAAATT
1 ATTTAATTAATTAAAACT
31489 ATTTAATT--TT--AACT
1 ATTTAATTAATTAAAACT
31503 ATTTAATTAATTAAAACT
1 ATTTAATTAATTAAAACT
31521 CATCAAGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
14 11 0.42
16 3 0.12
18 12 0.46
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTTAATTAATTAAAACT
Found at i:32913 original size:14 final size:15
Alignment explanation
Indices: 32880--32914 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
32870 CATTTTAATA
32880 TTTTTGACCGTTCTC
1 TTTTTGACCGTTCTC
32895 TTTTTGACCGTTCTC
1 TTTTTGACCGTTCTC
32910 TTTTT
1 TTTTT
32915 TACATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.06, C:0.23, G:0.11, T:0.60
Consensus pattern (15 bp):
TTTTTGACCGTTCTC
Found at i:34006 original size:31 final size:27
Alignment explanation
Indices: 33938--34007 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 27
33928 CAAATAATCA
*
33938 AATTAATTCGGTTAATTGATCGAACCG
1 AATTAATTCGATTAATTGATCGAACCG
* *
33965 AATTAGTTCGATTAATTTGATTCGATTACTG
1 AATTAATTCGATTAA-TTGA-TCGA--ACCG
33996 AATTAATTCGAT
1 AATTAATTCGAT
34008 CGATTAACAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 13 0.37
28 4 0.11
29 4 0.11
31 14 0.40
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (27 bp):
AATTAATTCGATTAATTGATCGAACCG
Found at i:34420 original size:184 final size:174
Alignment explanation
Indices: 34091--34467 Score: 480
Period size: 174 Copynumber: 2.1 Consensus size: 174
34081 ATTAAATTTT
*
34091 AAATATTAAATATATTATATATAACATATGGACTCAACTCAAATCATTAAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGACTCAACTCAAACCATTAAAAACCCAATTAATAA
* *
34156 TTTAAGATCCAATAACTGTAAACTGTTTTTTTAATTAAAAAATTATATAATTTTTTTTATTTATA
66 TTTAAGATCCAATAACTGTAAACTGTTTTTTTAATTAAAAAATTATATAAGTTTTTATATTTATA
*
34221 ATTATATATTATTTAAATTAATTGTAAACTATTTTTT-AATTAAA
131 ATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
* *
34265 AAATATTAAATATATTATATATAACATATAGG-CT-AAGCTCAAACCATTTAGAACCCAATTAAT
1 AAATATTAAATATATTATATATAACATAT-GGACTCAA-CTCAAACCATTAAAAACCCAATTAAT
* *
34328 AATTTAAGATCCAATAACTTTTAAACT-TAAATCAATATTAATTAATTAAAAAAGTTATCTAAAG
64 AATTTAAGATCCAATAAC-TGTAAACTGT---T---T-TT--TTAATTAAAAAA-TTATAT-AAG
*
34392 TTTTTAT-TTTATAATTATTTATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
117 TTTTTATATTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
*
34449 AAATATTTAAT-T-TTATATA
1 AAATATTAAATATATTATATA
34468 AATTAGAAAA
Statistics
Matches: 178, Mismatches: 10, Indels: 22
0.85 0.05 0.10
Matches are distributed among these distances:
173 2 0.01
174 73 0.41
175 9 0.05
177 1 0.01
180 1 0.01
181 2 0.01
182 7 0.04
183 19 0.11
184 56 0.31
185 8 0.04
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (174 bp):
AAATATTAAATATATTATATATAACATATGGACTCAACTCAAACCATTAAAAACCCAATTAATAA
TTTAAGATCCAATAACTGTAAACTGTTTTTTTAATTAAAAAATTATATAAGTTTTTATATTTATA
ATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
Found at i:41394 original size:29 final size:28
Alignment explanation
Indices: 41353--41447 Score: 93
Period size: 29 Copynumber: 3.3 Consensus size: 28
41343 TCTCATTTTA
41353 AATTGATCCTTAAACTTTTAAATATTCT
1 AATTGATCCTTAAACTTTTAAATATTCT
* * **
41381 AATTGTATTCTTAAA-TTGTGACTTATTCT
1 AATTG-ATCCTTAAACTT-TTAAATATTCT
* *
41410 AAATTAATCCTTAAACTTTTGAATATTCT
1 -AATTGATCCTTAAACTTTTAAATATTCT
41439 AATTTGATC
1 AA-TTGATC
41448 ACTTCTAGTC
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
28 9 0.18
29 36 0.71
30 6 0.12
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (28 bp):
AATTGATCCTTAAACTTTTAAATATTCT
Found at i:41561 original size:87 final size:86
Alignment explanation
Indices: 41438--41597 Score: 257
Period size: 87 Copynumber: 1.8 Consensus size: 86
41428 TTGAATATTC
* * * *
41438 TAATTTGATCACTTCTAGTCTATATTTTTAAGAATATGGATATTTAGTCATGATGTCAACTTTTT
1 TAATTTGATCACTTCTAATATATACTTTTAAAAATATGGATATTTAGTCATGATGTCAACTTTTT
41503 AAATTAATTACGACTCTCATTA
66 -AATTAATTACGACTCTCATTA
* *
41525 TAATTTGATCACTTCTAATATGTACTTTTAAAAATATGGATATTTAGTCATGGTGTCAACTTTTT
1 TAATTTGATCACTTCTAATATATACTTTTAAAAATATGGATATTTAGTCATGATGTCAACTTTTT
41590 AATTAATT
66 AATTAATT
41598 TCTTAGACTA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 8 0.12
87 59 0.88
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (86 bp):
TAATTTGATCACTTCTAATATATACTTTTAAAAATATGGATATTTAGTCATGATGTCAACTTTTT
AATTAATTACGACTCTCATTA
Found at i:42120 original size:63 final size:63
Alignment explanation
Indices: 42053--42178 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
42043 TTAGAGTAGA
42053 GGTCGTAGTCTGGGGGATAAGATTGGAATGTTTAAAACTTTGAGGATGAATTAAGAATGATAG
1 GGTCGTAGTCTGGGGGATAAGATTGGAATGTTTAAAACTTTGAGGATGAATTAAGAATGATAG
42116 GGTCGTAGTCTGGGGGATAAGATTGGAATGTTTAAAACTTTGAGGATGAATTAAGAATGATAG
1 GGTCGTAGTCTGGGGGATAAGATTGGAATGTTTAAAACTTTGAGGATGAATTAAGAATGATAG
42179 TCACGGTTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.33, C:0.05, G:0.32, T:0.30
Consensus pattern (63 bp):
GGTCGTAGTCTGGGGGATAAGATTGGAATGTTTAAAACTTTGAGGATGAATTAAGAATGATAG
Found at i:65201 original size:38 final size:37
Alignment explanation
Indices: 65130--65204 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
65120 CATTAAACCT
*
65130 TTTTATATCTTTAATTTTGTAAAAACAATTATATAAA
1 TTTTATATATTTAATTTTGTAAAAACAATTATATAAA
*
65167 TTTTATGATATTTAAATTTTTTAAAGAA-AA-TATATAAA
1 TTTTAT-ATATTT-AATTTTGTAAA-AACAATTATATAAA
65205 ATATTTTCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
37 6 0.18
38 13 0.39
39 12 0.36
40 2 0.06
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (37 bp):
TTTTATATATTTAATTTTGTAAAAACAATTATATAAA
Found at i:65417 original size:20 final size:20
Alignment explanation
Indices: 65362--65411 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
65352 TCCTATTCTT
65362 TGGTAATCTTTTATTCTCAC
1 TGGTAATCTTTTATTCTCAC
65382 TGGTAATCTTTTATTCTCAC
1 TGGTAATCTTTTATTCTCAC
65402 TGGTAATCTT
1 TGGTAATCTT
65412 ACATTCCGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (20 bp):
TGGTAATCTTTTATTCTCAC
Found at i:70453 original size:10 final size:10
Alignment explanation
Indices: 70440--70471 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
70430 GTTCGTGAAC
*
70440 GTTCGGTTAT
1 GTTCGTTTAT
70450 GTTCGTTTAT
1 GTTCGTTTAT
70460 GTTCGTTTAT
1 GTTCGTTTAT
70470 GT
1 GT
70472 GCGCTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.25, T:0.56
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:72047 original size:16 final size:16
Alignment explanation
Indices: 72026--72076 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
72016 GTCTCCAACG
72026 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
72042 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
72058 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
72072 TTTAT
1 TTTAT
72077 TAAATGAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.15
15 2 0.06
16 26 0.79
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.61
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:80056 original size:18 final size:19
Alignment explanation
Indices: 80008--80048 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
79998 GGAGTCAAAG
80008 AAAGAAGCTGCAATTGTCA
1 AAAGAAGCTGCAATTGTCA
80027 AAAGAAGCTGCAATTGTCA
1 AAAGAAGCTGCAATTGTCA
80046 AAA
1 AAA
80049 AGGCTGCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (19 bp):
AAAGAAGCTGCAATTGTCA
Found at i:86001 original size:2 final size:2
Alignment explanation
Indices: 85994--86042 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
85984 ATAAACAACT
85994 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
86036 TA TA TA T
1 TA TA TA T
86043 GAGAAGTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:88832 original size:24 final size:24
Alignment explanation
Indices: 88805--88894 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 24
88795 TTTATGAATT
88805 TAATATTAATAAAATATTTTAATA
1 TAATATTAATAAAATATTTTAATA
* *
88829 TAATTTTAATCAAAATATTAATTATTA
1 TAATATTAAT-AAAATATT--TTAATA
* * *
88856 AAATATTTA-AAAATATATTAATA
1 TAATATTAATAAAATATTTTAATA
**
88879 TTTTTATTAATAAAAT
1 -TAATATTAATAAAAT
88895 TATAGAAATA
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
23 5 0.10
24 14 0.28
25 20 0.40
27 11 0.22
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (24 bp):
TAATATTAATAAAATATTTTAATA
Found at i:88890 original size:20 final size:20
Alignment explanation
Indices: 88844--88890 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
88834 TTAATCAAAA
88844 TATTAAT-TATTAAAATATT
1 TATTAATATATTAAAATATT
** * *
88863 TAAAAATATATTAATATTTT
1 TATTAATATATTAAAATATT
88883 TATTAATA
1 TATTAATA
88891 AAATTATAGA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTAATATATTAAAATATT
Found at i:90355 original size:14 final size:14
Alignment explanation
Indices: 90300--90356 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
90290 ATATTTTTAA
*
90300 ATTATTAAAATAAT
1 ATTATTAAAATATT
90314 -TTATT-AAATATTT
1 ATTATTAAAATA-TT
* **
90327 TTTATTTCAATATT
1 ATTATTAAAATATT
90341 ATTATTAAAATATT
1 ATTATTAAAATATT
90355 AT
1 AT
90357 ATCTATAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 5 0.14
13 6 0.17
14 20 0.57
15 4 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTATTAAAATATT
Found at i:90443 original size:37 final size:40
Alignment explanation
Indices: 90387--90487 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 40
90377 AAATATTAAG
90387 ATTATTGTATTTATTAAAATAAA-A-T-TATTACAAATTAT
1 ATTATT-TATTTATTAAAATAAATATTATATTACAAATTAT
**
90425 ATTATTTATTTATTAAAATTAAAATATTATATTAGTAATTAT
1 ATTATTTATTTATTAAAA-T-AAATATTATATTACAAATTAT
* *
90467 ATTAATTACTTATTAAAATAA
1 ATTATTTATTTATTAAAATAA
90488 TGACATTATA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
37 12 0.22
38 7 0.13
39 3 0.06
40 3 0.06
41 2 0.04
42 27 0.50
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (40 bp):
ATTATTTATTTATTAAAATAAATATTATATTACAAATTAT
Found at i:90445 original size:22 final size:21
Alignment explanation
Indices: 90410--90485 Score: 59
Period size: 22 Copynumber: 3.6 Consensus size: 21
90400 TTAAAATAAA
90410 ATTATTACAAATTATATTATTT
1 ATTATTACAAATTATATTA-TT
* *
90432 ATTTATTA-AAATTAAAATATT
1 A-TTATTACAAATTATATTATT
**
90453 A-TATTAGTAATTATATTAATT
1 ATTATTACAAATTATATT-ATT
90474 ACTTATTA-AAAT
1 A-TTATTACAAAT
90486 AATGACATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
19 5 0.12
20 7 0.16
21 7 0.16
22 13 0.30
23 11 0.26
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (21 bp):
ATTATTACAAATTATATTATT
Found at i:90457 original size:23 final size:23
Alignment explanation
Indices: 90411--90457 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
90401 TAAAATAAAA
* *
90411 TTATTACAAATTATATTATTTAT
1 TTATTACAAATTAAAATATTTAT
90434 TTATTA-AAATTAAAATATTATAT
1 TTATTACAAATTAAAATATT-TAT
90457 T
1 T
90458 AGTAATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTATTACAAATTAAAATATTTAT
Found at i:90508 original size:24 final size:24
Alignment explanation
Indices: 90477--90526 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
90467 ATTAATTACT
*
90477 TATT-AAAATAATGACATTATAAAA
1 TATTAAAAATAATAACATTA-AAAA
*
90501 TATTAAAAATAATAATATTAAAAA
1 TATTAAAAATAATAACATTAAAAA
90525 TA
1 TA
90527 AAATATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
TATTAAAAATAATAACATTAAAAA
Found at i:90519 original size:15 final size:14
Alignment explanation
Indices: 90495--90534 Score: 71
Period size: 15 Copynumber: 2.8 Consensus size: 14
90485 TAATGACATT
90495 ATAAAATATTAAAA
1 ATAAAATATTAAAA
90509 ATAATAATATTAAAA
1 ATAA-AATATTAAAA
90524 ATAAAATATTA
1 ATAAAATATTA
90535 TATTTTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAAATATTAAAA
Found at i:90632 original size:27 final size:27
Alignment explanation
Indices: 90561--90634 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
90551 TTTTAAATAT
* *
90561 TTAATAATTTAATA-ATATTATTTTTA
1 TTAATAATTTATTATATATTAATTTTA
* *
90587 -TAA-AATTAATAAATAATATTAATTTTA
1 TTAATAATTTAT-TAT-ATATTAATTTTA
90614 TTAATAATTTATTATATATTA
1 TTAATAATTTATTATATATTA
90635 TTAACATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
24 5 0.14
25 4 0.11
27 17 0.46
28 5 0.14
29 6 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TTAATAATTTATTATATATTAATTTTA
Found at i:90659 original size:8 final size:8
Alignment explanation
Indices: 90646--90701 Score: 57
Period size: 8 Copynumber: 7.5 Consensus size: 8
90636 TAACATAAAA
90646 ATTATAAT
1 ATTATAAT
90654 ATTAT-AT
1 ATTATAAT
90661 ATTATAAT
1 ATTATAAT
*
90669 AATAT-A-
1 ATTATAAT
90675 ATTATAAT
1 ATTATAAT
*
90683 ATTA-AAA
1 ATTATAAT
*
90690 ATTATAAC
1 ATTATAAT
90698 ATTA
1 ATTA
90702 CATTATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 4 0.10
7 15 0.38
8 21 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (8 bp):
ATTATAAT
Found at i:90664 original size:15 final size:15
Alignment explanation
Indices: 90644--90701 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
90634 ATTAACATAA
90644 AAATTATAATATTAT
1 AAATTATAATATTAT
* *
90659 ATATTATAATAATAT
1 AAATTATAATATTAT
*
90674 -AATTATAATATTAA
1 AAATTATAATATTAT
*
90688 AAATTATAACATTA
1 AAATTATAATATTA
90702 CATTATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
14 11 0.31
15 25 0.69
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATTATAATATTAT
Found at i:90686 original size:29 final size:27
Alignment explanation
Indices: 90623--90696 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 27
90613 ATTAATAATT
90623 TATTATATATTATTAACATAAAAATTATAA
1 TATTATATATTA-T-A-ATAAAAATTATAA
90653 TATTATATATTATAATAATATAATTATAA
1 TATTATATATTATAATAA-A-AATTATAA
* *
90682 TATTAAAAATTATAA
1 TATTATATATTATAA
90697 CATTACATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.10
28 2 0.05
29 22 0.55
30 12 0.30
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (27 bp):
TATTATATATTATAATAAAAATTATAA
Found at i:90774 original size:13 final size:13
Alignment explanation
Indices: 90747--90795 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
90737 TTAATATTTT
90747 TATTAAAAT--GA
1 TATTAAAATAAGA
90758 TATTAAAATAAGA
1 TATTAAAATAAGA
90771 TATTAAAATTAA-A
1 TATTAAAA-TAAGA
90784 TATATAAAATAA
1 TAT-TAAAATAA
90796 TAATATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.26
13 17 0.50
14 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (13 bp):
TATTAAAATAAGA
Found at i:90800 original size:15 final size:13
Alignment explanation
Indices: 90757--90802 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
90747 TATTAAAATG
*
90757 ATATTAAAATAAG
1 ATATTAAAATAAA
*
90770 ATATTAAAATTAA
1 ATATTAAAATAAA
90783 ATATATAAAATAATA
1 ATAT-TAAAATAA-A
90798 ATATT
1 ATATT
90803 TTAAATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 15 0.54
14 8 0.29
15 5 0.18
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (13 bp):
ATATTAAAATAAA
Found at i:101302 original size:29 final size:30
Alignment explanation
Indices: 101235--101302 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 30
101225 TTTAAGGTTA
*
101235 TTTTAAATTTTTTATTTCTTAAATATATAGT
1 TTTTAAATTTTTTAATTCTTAAATATATA-T
101266 TTTT--ATTTTTTAAATT-TTAAATATAT-T
1 TTTTAAATTTTTT-AATTCTTAAATATATAT
101293 TTTTAAATTT
1 TTTTAAATTT
101303 ATCAGTTGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 5 0.15
29 21 0.64
30 3 0.09
31 4 0.12
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (30 bp):
TTTTAAATTTTTTAATTCTTAAATATATAT
Found at i:106526 original size:29 final size:29
Alignment explanation
Indices: 106489--106549 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
106479 AGTACCGTCC
*
106489 TTATTAATAGCATACTCTTTTTGATTTGT
1 TTATGAATAGCATACTCTTTTTGATTTGT
*
106518 TTATGAATAGTATACTCTTTTTGATTTGT
1 TTATGAATAGCATACTCTTTTTGATTTGT
106547 TTA
1 TTA
106550 GCTCTCCTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.56
Consensus pattern (29 bp):
TTATGAATAGCATACTCTTTTTGATTTGT
Found at i:108829 original size:21 final size:20
Alignment explanation
Indices: 108800--108838 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
108790 AAAACAAAAC
*
108800 TAAAATATAACATTATTATTT
1 TAAAATATAAAATT-TTATTT
*
108821 TAAATTATAAAATTTTAT
1 TAAAATATAAAATTTTAT
108839 AAAATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAAATATAAAATTTTATTT
Found at i:113829 original size:12 final size:12
Alignment explanation
Indices: 113812--113836 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
113802 TTCACTGAAA
113812 TTTTATTTTATT
1 TTTTATTTTATT
113824 TTTTATTTTATT
1 TTTTATTTTATT
113836 T
1 T
113837 ATCGTACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:114378 original size:19 final size:19
Alignment explanation
Indices: 114340--114394 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
114330 TAATAATGAG
*
114340 TAATATTAAT-TTATATATT
1 TAATATTAATGTAATA-ATT
114359 TAATATTAATGTAATAATT
1 TAATATTAATGTAATAATT
*
114378 TAGTATT-ATGTTAATAA
1 TAATATTAATG-TAATAA
114395 AATATTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 3 0.09
19 25 0.78
20 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TAATATTAATGTAATAATT
Found at i:114735 original size:30 final size:30
Alignment explanation
Indices: 114699--114799 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
114689 AATTTTAAGC
* *
114699 AATTCATTCTACA-TAAAACAGTTTCCATGT
1 AATTCATTTTA-ATTAAAACAGTTTTCATGT
*
114729 AATTCATTTTAATTAAAACAATTTTCATGT
1 AATTCATTTTAATTAAAACAGTTTTCATGT
*
114759 AATTCATTTTAATTAAAACAGTTTTCAGGT
1 AATTCATTTTAATTAAAACAGTTTTCATGT
114789 AA-TCAATTTTA
1 AATTC-ATTTTA
114800 TTATTTTCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
29 3 0.05
30 61 0.95
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.43
Consensus pattern (30 bp):
AATTCATTTTAATTAAAACAGTTTTCATGT
Found at i:115535 original size:40 final size:40
Alignment explanation
Indices: 115491--115600 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 40
115481 ACGAATCCTC
* *
115491 TGTTCGTGTTCATTTATTTAATTAAACAAGCACAAAATCT
1 TGTTCGTGTTCGTTTATTTAATTAAACAAACACAAAATCT
* * *
115531 TGTTCGTATTCGTTCATTTAATTAAACAAATACAAAATCT
1 TGTTCGTGTTCGTTTATTTAATTAAACAAACACAAAATCT
* * * *
115571 TATTCATGTTCGTTTGTTTAA-TAAATAAAC
1 TGTTCGTGTTCGTTTATTTAATTAAACAAAC
115601 GAAATTTTCA
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
39 7 0.12
40 51 0.88
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (40 bp):
TGTTCGTGTTCGTTTATTTAATTAAACAAACACAAAATCT
Found at i:116075 original size:21 final size:21
Alignment explanation
Indices: 116051--116091 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
116041 GATAAAAAAT
*
116051 TACCCAAAACATTATTATTTC
1 TACCCAAAACATTAATATTTC
*
116072 TACCTAAAACATTAATATTT
1 TACCCAAAACATTAATATTT
116092 TTAACATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (21 bp):
TACCCAAAACATTAATATTTC
Found at i:129152 original size:2 final size:2
Alignment explanation
Indices: 129145--129172 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
129135 AATATTGGGA
129145 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
129173 GCAATGAAAG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:138738 original size:19 final size:19
Alignment explanation
Indices: 138714--138783 Score: 140
Period size: 19 Copynumber: 3.7 Consensus size: 19
138704 ACCAACTAAA
138714 TCGCAATGCGATCGATAAT
1 TCGCAATGCGATCGATAAT
138733 TCGCAATGCGATCGATAAT
1 TCGCAATGCGATCGATAAT
138752 TCGCAATGCGATCGATAAT
1 TCGCAATGCGATCGATAAT
138771 TCGCAATGCGATC
1 TCGCAATGCGATC
138784 TCCGGTATCG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (19 bp):
TCGCAATGCGATCGATAAT
Found at i:138877 original size:20 final size:20
Alignment explanation
Indices: 138852--138903 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
138842 TTTTCCGACT
138852 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
138872 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
138892 ATCGCAATGCGA
1 ATCGCAATGCGA
138904 TTCTGACTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:139790 original size:24 final size:24
Alignment explanation
Indices: 139739--139792 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
139729 GTATTCGAAA
*
139739 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
139763 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
139787 TTTGAT
1 TTTGAT
139793 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:140011 original size:14 final size:14
Alignment explanation
Indices: 139982--140018 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
139972 AGAAAAAGAA
139982 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
139997 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
140011 GAAGAAAA
1 GAAGAAAA
140019 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:142390 original size:141 final size:140
Alignment explanation
Indices: 142137--142407 Score: 479
Period size: 141 Copynumber: 1.9 Consensus size: 140
142127 AAACGTTGTA
** *
142137 TTATGTGTAAACTTTTAACATTTTCAATTAGGTATGTATTAGTAACTTGAGTTTGAACATTGTTA
1 TTATGTGTAAACTTTTAACATTTTCAATTAGACATGTATTAGTAACTTGAGTTTGAACATTGCTA
*
142202 TAATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TAATATCTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
142267 TATGTGTATT
131 TATGTGTATT
*
142277 TTATGTGTAAACTTTTAACATTTTTCAGTTAGACATGTATTAGTAACTTGAGTTTGAACATTGCT
1 TTATGTGTAAACTTTTAACA-TTTTCAATTAGACATGTATTAGTAACTTGAGTTTGAACATTGCT
*
142342 ATGATATCTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTA
65 ATAATATCTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTA
142407 T
130 T
142408 CGCAACGCGA
Statistics
Matches: 124, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
140 20 0.16
141 104 0.84
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAATTAGACATGTATTAGTAACTTGAGTTTGAACATTGCTA
TAATATCTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:142403 original size:20 final size:20
Alignment explanation
Indices: 142378--142622 Score: 230
Period size: 20 Copynumber: 12.8 Consensus size: 20
142368 TTACACATTC
*
142378 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
142398 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
142418 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* *
142437 A----A-AATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
142452 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
142472 ATATGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
*
142491 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
142506 ATTT-ATCTATCGCAATGCGA
1 ATTTGA-CTATCGCAACGCGA
*
142526 ATTTGACTATCGCAACG-GTT
1 ATTTGACTATCGCAACGCG-A
142546 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
**
142566 ATTTGAGAATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * * *
142586 ATTTAATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
142606 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
142623 AGAAAATCGC
Statistics
Matches: 187, Mismatches: 23, Indels: 30
0.78 0.10 0.12
Matches are distributed among these distances:
14 19 0.10
15 6 0.03
18 1 0.01
19 6 0.03
20 153 0.82
21 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:142473 original size:54 final size:54
Alignment explanation
Indices: 142386--142602 Score: 247
Period size: 54 Copynumber: 3.9 Consensus size: 54
142376 TCATTTGAAT
* *
142386 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACTCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAA
* * *
142440 ATCGCAACACGAATTTGACTATCGCAACACGAATATGACTATCGCAACGCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAA
* * **
142494 ATCGCAACGCGAATTT-ATCTATCGCAATGCGAATTTGACTATCGCAACGGTTATTTGACT
1 ATCGCAACGCGAATTTGA-CTATCGCAACGCGAATTTGACTATCGCAAC-G-CA----AAA
** * *
142554 ATCGCAACGCGAATTTGAGAATCGCAACGCGAATTTAATTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACG
142603 GGTATTTGAC
Statistics
Matches: 138, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
53 1 0.01
54 91 0.66
55 1 0.01
56 1 0.01
59 1 0.01
60 42 0.30
61 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (54 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAA
Found at i:144320 original size:21 final size:22
Alignment explanation
Indices: 144270--144372 Score: 65
Period size: 21 Copynumber: 4.9 Consensus size: 22
144260 AATGTTGGGA
* *
144270 GGGACCTCTTCAAC-GATGACAG
1 GGGA-CTCTTGAACGGATGAGAG
* *
144292 TGGCCTCTTGAACGG-TGAGAG
1 GGGACTCTTGAACGGATGAGAG
* *
144313 GGGACTCTTG-AGGGATGATAG
1 GGGACTCTTGAACGGATGAGAG
* *
144334 GGGTCTCTTGAAC-GAT-AGGG
1 GGGACTCTTGAACGGATGAGAG
*
144354 GAGGCCTCTTGAAC-GATGA
1 G-GGACTCTTGAACGGATGA
144373 CAGGTGATTC
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
20 6 0.10
21 52 0.83
22 5 0.08
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.22
Consensus pattern (22 bp):
GGGACTCTTGAACGGATGAGAG
Found at i:144372 original size:42 final size:42
Alignment explanation
Indices: 144268--144376 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
144258 AGAATGTTGG
* * * *
144268 GAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGGTGA
1 GAGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGATGA
* ** * *
144310 GAGGGGACTCTTGAGGGATGATAGGGGTCTCTTGAACGAT-A
1 GAGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGATGA
*
144351 GGGGAGGCCTCTTGAACGATGACAGG
1 GAGG-GGCCTCTTGAACGATGACAGG
144377 TGATTCAGGC
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
41 4 0.08
42 48 0.92
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.21
Consensus pattern (42 bp):
GAGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGATGA
Found at i:144892 original size:20 final size:20
Alignment explanation
Indices: 144867--144922 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
144857 TCGCAACACG
144867 AATGACTATCGCAACGCAAA
1 AATGACTATCGCAACGCAAA
*
144887 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCAAA
**
144907 TTTGACTATCGCAACG
1 AATGACTATCGCAACG
144923 AGAGAATCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATGACTATCGCAACGCAAA
Found at i:144933 original size:14 final size:14
Alignment explanation
Indices: 144914--144948 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
144904 GAATTTGACT
144914 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
144928 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
144942 ATCGCAA
1 ATCGCAA
144949 TGCAATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:146939 original size:20 final size:20
Alignment explanation
Indices: 146916--146969 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
146906 GAAACTTAAA
146916 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
**
146936 ATCGCAACACGAATTTGACT
1 ATCGCAACACGAAAATGACT
*
146956 ATCGCAACGCGAAA
1 ATCGCAACACGAAA
146970 CTAAAATCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.41, C:0.26, G:0.17, T:0.17
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:147394 original size:22 final size:22
Alignment explanation
Indices: 147367--147419 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
147357 GAGATAGACG
147367 GATTTCGCCGGAGATGGGGACT
1 GATTTCGCCGGAGATGGGGACT
*
147389 GATTTCGTCGGAGATGGGGACT
1 GATTTCGCCGGAGATGGGGACT
*
147411 GATGTCGCC
1 GATTTCGCC
147420 TTAGAGAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.19, G:0.40, T:0.25
Consensus pattern (22 bp):
GATTTCGCCGGAGATGGGGACT
Found at i:147675 original size:40 final size:40
Alignment explanation
Indices: 147584--147677 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 40
147574 GCGTTTTGAA
*
147584 AATCGCATTGCGATAGTCAGCATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTCAG
* * * *
147624 AATCTCGTTGCGATAGTCAGAATCGCGTTGCGATAGTTAT
1 AATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTCAG
*
147664 ACTCGCATTGCGAT
1 AATCGCATTGCGAT
147678 TTACATATTA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
AATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTCAG
Found at i:147677 original size:20 final size:20
Alignment explanation
Indices: 147584--147660 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
147574 GCGTTTTGAA
*
147584 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
147604 CATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
147624 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
147644 AATCGCGTTGCGATAGT
1 AATCGCGTTGCGATAGT
147661 TATACTCGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:148848 original size:6 final size:6
Alignment explanation
Indices: 148837--148866 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
148827 ATTAGTTTAG
148837 AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA
148867 TTTTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:150046 original size:6 final size:6
Alignment explanation
Indices: 150035--150062 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
150025 AAATGATTTT
150035 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
150063 TATGTTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:150255 original size:16 final size:16
Alignment explanation
Indices: 150234--150264 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
150224 CGGCGAAGGC
*
150234 TAAACAGAGACGAACT
1 TAAACAAAGACGAACT
150250 TAAACAAAGACGAAC
1 TAAACAAAGACGAAC
150265 CATTCTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.19, G:0.16, T:0.10
Consensus pattern (16 bp):
TAAACAAAGACGAACT
Found at i:155125 original size:42 final size:42
Alignment explanation
Indices: 155036--155127 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
155026 TATAGGGTCA
* * * *
155036 CTAATTTTTTTATTATGCTTTTTATTTTTATAATTGAGTCTT
1 CTAATTTTTTTATTATGATTTTTATCTTTATAATTAAGTCTC
* *
155078 TTAATTTTTTTAATT-TTATTTTTATCTTTATAATTAAAG-CTC
1 CTAATTTTTTT-ATTATGATTTTTATCTTTATAATT-AAGTCTC
155120 CTAATTTT
1 CTAATTTT
155128 CGTTTTCATC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
42 36 0.88
43 5 0.12
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.63
Consensus pattern (42 bp):
CTAATTTTTTTATTATGATTTTTATCTTTATAATTAAGTCTC
Found at i:155159 original size:34 final size:32
Alignment explanation
Indices: 155086--155161 Score: 80
Period size: 34 Copynumber: 2.3 Consensus size: 32
155076 TTTTAATTTT
* *
155086 TTTAATTTTATTTTTATCTTTATAATTAAAGC
1 TTTAATTTTATTTTCATCTTTATAATTAAACC
* * *
155118 TCCTAATTTTCGTTTTCATCTTTATAATTGAGACC
1 T-TTAATTTT-ATTTTCATCTTTATAATT-AAACC
155153 TTTAATTTT
1 TTTAATTTT
155162 TTAATCCAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
32 1 0.03
33 7 0.20
34 23 0.66
35 4 0.11
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.57
Consensus pattern (32 bp):
TTTAATTTTATTTTCATCTTTATAATTAAACC
Found at i:155226 original size:41 final size:43
Alignment explanation
Indices: 155137--155233 Score: 119
Period size: 41 Copynumber: 2.3 Consensus size: 43
155127 TCGTTTTCAT
* * *
155137 CTTTATAATTGAGACCTTTAATTTTTTAATCCAACTTTTTTAC
1 CTTTATAATTGAGACCTTTAATTTTTCAATCCAACGTTTGTAC
* *
155180 ATTTATAATTGATGACC-TT-ATTTTTCAATCCCA-GTTTGTAC
1 CTTTATAATTGA-GACCTTTAATTTTTCAATCCAACGTTTGTAC
155221 CTTTATAATTGAG
1 CTTTATAATTGAG
155234 CTCCTAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
40 1 0.02
41 17 0.36
42 12 0.26
43 13 0.28
44 4 0.09
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.48
Consensus pattern (43 bp):
CTTTATAATTGAGACCTTTAATTTTTCAATCCAACGTTTGTAC
Found at i:155244 original size:41 final size:41
Alignment explanation
Indices: 155137--155245 Score: 103
Period size: 41 Copynumber: 2.6 Consensus size: 41
155127 TCGTTTTCAT
* * * *
155137 CTTTATAATTGAGACCTTTAATTTTTTAATCCAACTTTTTTAC
1 CTTTATAATTGAG-CC-CTAATTTTTCAATCCAACGTTTGTAC
* * * *
155180 ATTTATAATTGATGACCTTATTTTTCAATCCCA-GTTTGTAC
1 CTTTATAATTGA-GCCCTAATTTTTCAATCCAACGTTTGTAC
155221 CTTTATAATTGAGCTCCTAATTTTT
1 CTTTATAATTGAGC-CCTAATTTTT
155246 TTCAATCTCA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
40 1 0.02
41 26 0.49
42 13 0.25
43 12 0.23
44 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (41 bp):
CTTTATAATTGAGCCCTAATTTTTCAATCCAACGTTTGTAC
Found at i:159033 original size:21 final size:21
Alignment explanation
Indices: 158978--159043 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
158968 CTACCAAAAT
158978 TTTACCAAACTTTGAAAAACA
1 TTTACCAAACTTTGAAAAACA
**
158999 TTTTTCAAA----G--AAACA
1 TTTACCAAACTTTGAAAAACA
159014 TTTACCAAACTTTGAAAAACA
1 TTTACCAAACTTTGAAAAACA
*
159035 TTTTCCAAA
1 TTTACCAAA
159044 GTTGGTTGCC
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
15 12 0.35
17 1 0.03
19 1 0.03
21 20 0.59
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (21 bp):
TTTACCAAACTTTGAAAAACA
Found at i:163117 original size:16 final size:16
Alignment explanation
Indices: 163093--163124 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
163083 TATCGCCGAC
*
163093 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
163109 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
163125 TGTGAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:165128 original size:17 final size:17
Alignment explanation
Indices: 165098--165136 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
165088 AAATTATAAA
*
165098 TAAAA-ATATGAAAAAT
1 TAAAATATATAAAAAAT
165114 TAAAATATATAAAAAAT
1 TAAAATATATAAAAAAT
*
165131 TTAAAT
1 TAAAAT
165137 TTTAAATGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:167531 original size:14 final size:14
Alignment explanation
Indices: 167512--167548 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
167502 AATCTATTCG
167512 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
*
167526 TTTATGTTCGTTCG
1 TTTATGTTCGTTCA
167540 TTTATGTTC
1 TTTATGTTC
167549 TCCAAACCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.16, T:0.59
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:177993 original size:19 final size:19
Alignment explanation
Indices: 177961--178004 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
177951 TGTGTGTGAG
*
177961 TGAACTGTTAAAGTTTGTTA
1 TGAA-TGTTAAAGTCTGTTA
* *
177981 TGAATGTTGAAGTCTGTTT
1 TGAATGTTAAAGTCTGTTA
178000 TGAAT
1 TGAAT
178005 CTGTTATAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.27, C:0.05, G:0.23, T:0.45
Consensus pattern (19 bp):
TGAATGTTAAAGTCTGTTA
Found at i:179219 original size:36 final size:36
Alignment explanation
Indices: 179168--179309 Score: 241
Period size: 36 Copynumber: 4.0 Consensus size: 36
179158 GCGTTTCTAG
* *
179168 TCGAACGGAATGAAGCATCGGCACTTCCGATTTAAA
1 TCGAACGGAAGGAAGCATCGGCACTTCCGATTCAAA
*
179204 TCGAACGGAAGGAAGCATCGGTACTTCCGATTCAAA
1 TCGAACGGAAGGAAGCATCGGCACTTCCGATTCAAA
179240 TCGAACGGAAGGAAGCATCGGCACTTCCGATTCAAA
1 TCGAACGGAAGGAAGCATCGGCACTTCCGATTCAAA
*
179276 TCGAACGGAAAGAAGCATC-GCACTTCCGATTCAA
1 TCGAACGGAAGGAAGCATCGGCACTTCCGATTCAA
179310 CTAGAACGAA
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
35 15 0.15
36 86 0.85
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (36 bp):
TCGAACGGAAGGAAGCATCGGCACTTCCGATTCAAA
Found at i:180012 original size:13 final size:13
Alignment explanation
Indices: 179996--180022 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
179986 TGTGTTTAAT
179996 TCGAGGAAATATA
1 TCGAGGAAATATA
180009 TCGAGGAAATATA
1 TCGAGGAAATATA
180022 T
1 T
180023 TTTAGAAACA
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:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (13 bp):
TCGAGGAAATATA
Found at i:180915 original size:31 final size:31
Alignment explanation
Indices: 180879--180937 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
180869 AACTTAAAAG
* *
180879 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
180910 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
180938 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:180989 original size:22 final size:22
Alignment explanation
Indices: 180963--181007 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
180953 AATAGTGATA
180963 ATTTTAAAATAAATCAATCCAT
1 ATTTTAAAATAAATCAATCCAT
*
180985 ATTTTAAAATAAATCAATTCAT
1 ATTTTAAAATAAATCAATCCAT
181007 A
1 A
181008 CTAATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (22 bp):
ATTTTAAAATAAATCAATCCAT
Found at i:181016 original size:22 final size:22
Alignment explanation
Indices: 180967--181015 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
180957 GTGATAATTT
**
180967 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
180989 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
181012 TAAA
1 TAAA
181016 TTATTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:181100 original size:226 final size:221
Alignment explanation
Indices: 180604--181209 Score: 970
Period size: 226 Copynumber: 2.7 Consensus size: 221
180594 TTAACGTTTA
* *
180604 CAGACTGTTAAAATAAACTGAAATATAAATAAACTGATTTTTAAACTTAAAAGAGTTTTGCAATA
1 CAGACTGCTAAAATAAACTGAAATATAAATAAACTGTTTTTTAAACTTAAAAGAGTTTTGCAATA
*
180669 CTGAGATTTAAATCATTTTAGTTTTACAATACTGAAATTTAAATAATCCATACAACTACAATAAT
66 CTGAGATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAATCCATACAACTACAATAAT
* * *
180734 AAATTTTTTTAAATAAATCAATTCATA-TTTAAAATAATCAATCTATATTGAATAAATTATTTAA
131 ATA-TTTTTAAAATAAATCAATTCATATTTTAAAATAATCAATCTATACTGAATAAATTATTTAA
*
180798 TAAATAACCTTATTAAATTAACGTATG
195 TAAATAACCTTATTAAATTAACGTAGG
* *
180825 CAAACTGCTAAAATAAACTAAAATATAAATAAACTGATTTTTTAAACTTAAAAGAGTTTTGCAAT
1 CAGACTGCTAAAATAAACTGAAATATAAATAAACTG-TTTTTTAAACTTAAAAGAGTTTTGCAAT
180890 ACTGAGATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAATCCATACAACTACAATAA
65 ACTGAGATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAATCCATACAACTACAATAA
*
180955 TAGTGATAATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT-TCATACT-AATAAATT
130 TA-T-AT--TTTTAAAATAAATCAATTCATATTTTAAAAT-AATCAATCT-ATACTGAATAAATT
*
181018 ATTTAATAAATAACCTTATTAAATTAACGTCGG
189 ATTTAATAAATAACCTTATTAAATTAACGTAGG
181051 CAGACTGCTAAAATAAACTGAAATATAAATAAACTGTTTTTTTAAACTTAAAAGAGTTTTGCAAT
1 CAGACTGCTAAAATAAACTGAAATATAAATAAACTG-TTTTTTAAACTTAAAAGAGTTTTGCAAT
* * *
181116 ATTGAGATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAATCAATTCAACTACAATAA
65 ACTGAGATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAATCCATACAACTACAATAA
181181 T-T-TTTTTAAAATAAATCAATTCATATTTT
130 TATATTTTTAAAATAAATCAATTCATATTTT
181210 TTAATGTTCT
Statistics
Matches: 359, Mismatches: 18, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
220 25 0.07
221 33 0.09
222 94 0.26
223 1 0.00
224 2 0.01
225 20 0.06
226 173 0.48
227 11 0.03
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.37
Consensus pattern (221 bp):
CAGACTGCTAAAATAAACTGAAATATAAATAAACTGTTTTTTAAACTTAAAAGAGTTTTGCAATA
CTGAGATTTAAATAATTTTAGTTTTACAATACTGAAATTTAAATAATCCATACAACTACAATAAT
ATATTTTTAAAATAAATCAATTCATATTTTAAAATAATCAATCTATACTGAATAAATTATTTAAT
AAATAACCTTATTAAATTAACGTAGG
Found at i:181141 original size:31 final size:31
Alignment explanation
Indices: 181105--181163 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
181095 AACTTAAAAG
* * *
181105 AGTTTTGCAATATTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
181136 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
181164 CAATTCAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:181787 original size:17 final size:16
Alignment explanation
Indices: 181749--181787 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
181739 GTAAAATGTT
181749 AAAAT-TTAATATTAA
1 AAAATATTAATATTAA
181764 AATAATATTAATATTAA
1 AA-AATATTAATATTAA
181781 ATAAATA
1 A-AAATA
181788 AAATAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.10
16 3 0.14
17 15 0.71
18 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATATTAATATTAA
Found at i:181793 original size:25 final size:25
Alignment explanation
Indices: 181761--181810 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
181751 AATTTAATAT
*
181761 TAAAATAATATTAATATTAAATAAA
1 TAAAATAACATTAATATTAAATAAA
* *
181786 TAAAATAACATTAATCTTAATTAAA
1 TAAAATAACATTAATATTAAATAAA
181811 AGTTAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (25 bp):
TAAAATAACATTAATATTAAATAAA
Found at i:181860 original size:14 final size:16
Alignment explanation
Indices: 181836--181867 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
181826 ATTATTACTA
181836 AATATTATTTAT-ATC
1 AATATTATTTATGATC
181851 AATA-TATTTATGATC
1 AATATTATTTATGATC
181866 AA
1 AA
181868 ATTTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (16 bp):
AATATTATTTATGATC
Done.