Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009252.1 Hibiscus syriacus cultivar Beakdansim tig00112900_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: 120143
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:4332 original size:59 final size:59
Alignment explanation
Indices: 4222--4397 Score: 191
Period size: 59 Copynumber: 3.0 Consensus size: 59
4212 GTAGATTTGG
*
4222 GGATGAAATTTGAATATTCAAAAGTTT-AGGACCAATTTAGAAAGAGGGTCATAGTTT-A
1 GGATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAAAGA-GGTCATAGTTTAA
* * *
4280 GGAATGAAATTAGAATGTTCAAAAGTTTAAGGACTAATTTAGAATTGA-GTCATAGTTTAA
1 GG-ATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAA-AGAGGTCATAGTTTAA
* * * *
4340 GGATGTAATTAGAATATTTAAAAGTTT-AGGAATCAATTTA-AAACAAGAGTCATAGTTT
1 GGATGAAATTAGAATATTCAAAAGTTTAAGG-ACCAATTTAGAAA-GAG-GTCATAGTTT
4398 GGAGATATAG
Statistics
Matches: 99, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
58 8 0.08
59 62 0.63
60 27 0.27
61 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (59 bp):
GGATGAAATTAGAATATTCAAAAGTTTAAGGACCAATTTAGAAAGAGGTCATAGTTTAA
Found at i:4352 original size:30 final size:29
Alignment explanation
Indices: 4268--4354 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 29
4258 TTAGAAAGAG
*
4268 GGTCATAGTTT-AGGAATGAAATTAGAA-T
1 GGTCATAGTTTAAGG-ATGTAATTAGAATT
* * *
4296 GTTCAAAAGTTTAAGGA-CTAATTTAGAATT
1 GGTC-ATAGTTTAAGGATGTAA-TTAGAATT
4326 GAGTCATAGTTTAAGGATGTAATTAGAAT
1 G-GTCATAGTTTAAGGATGTAATTAGAAT
4355 ATTTAAAAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
28 5 0.11
29 13 0.28
30 23 0.50
31 5 0.11
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (29 bp):
GGTCATAGTTTAAGGATGTAATTAGAATT
Found at i:4575 original size:3 final size:3
Alignment explanation
Indices: 4569--4599 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4559 ACTAGATTTT
4569 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4600 CGGAACAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5963 original size:18 final size:16
Alignment explanation
Indices: 5926--5964 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
5916 TTAAAAAGTA
*
5926 ATATTCATTCTATTTT
1 ATATTCATTCTATATT
5942 ATATTCATTCTAATAATT
1 ATATTCATTCT-AT-ATT
5960 ATATT
1 ATATT
5965 AAAAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 2 0.10
18 7 0.35
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATTCATTCTATATT
Found at i:7152 original size:21 final size:21
Alignment explanation
Indices: 7126--7260 Score: 127
Period size: 21 Copynumber: 6.5 Consensus size: 21
7116 GTTTTCAGAT
* *
7126 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
*
7147 TCGCAATGCGAGCTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
7168 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
7188 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
7209 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
7229 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
7250 TCGCAATGCGA
1 TCGCAATGCGA
7261 TTTACATATT
Statistics
Matches: 94, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
20 32 0.34
21 62 0.66
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:7191 original size:41 final size:41
Alignment explanation
Indices: 7146--7260 Score: 187
Period size: 41 Copynumber: 2.8 Consensus size: 41
7136 AACTTCGACT
*
7146 ATCGCAATGCGAGCTTGGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAA
7187 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAA
* *
7228 ATCGCAATGCGATA-GTCGACTATCGCAATGCGA
1 ATCGCAATGCGA-ACTTGGACTATCGCAATGCGA
7261 TTTACATATT
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 69 0.99
42 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (41 bp):
ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAA
Found at i:7192 original size:20 final size:20
Alignment explanation
Indices: 7167--7239 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
7157 AGCTTGGACT
7167 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
* *
7187 ATCGCAATGCGAACT-TGGACT
1 ATCGCAATGCGAA-TATGTA-A
7208 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
7228 ATCGCAATGCGA
1 ATCGCAATGCGA
7240 TAGTCGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 29 0.63
21 17 0.37
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:7390 original size:5 final size:5
Alignment explanation
Indices: 7382--7414 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
7372 CGTATTACCA
*
7382 CGACA CGACC CGACC CGACC CGACC CGACC CGA
1 CGACC CGACC CGACC CGACC CGACC CGACC CGA
7415 GACGAGACGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.24, C:0.55, G:0.21, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:7400 original size:15 final size:15
Alignment explanation
Indices: 7382--7419 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
7372 CGTATTACCA
7382 CGACACGACCCGACC
1 CGACACGACCCGACC
*
7397 CGACCCGACCCGACC
1 CGACACGACCCGACC
*
7412 CGAGACGA
1 CGACACGA
7420 GACGGCGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.50, G:0.24, T:0.00
Consensus pattern (15 bp):
CGACACGACCCGACC
Found at i:8048 original size:21 final size:21
Alignment explanation
Indices: 8023--8157 Score: 136
Period size: 21 Copynumber: 6.4 Consensus size: 21
8013 ATTTTGGACT
8023 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
8044 ATCGCAACGAATTTAGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
8065 ATCGCAACGCAAACTTCGACT--
1 ATCGCAACG--AACTTGGAATAA
*
8086 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
8107 ATCGCAACGCGAACTT-CAACT--
1 ATCGCAA--CGAACTTGGAA-TAA
8128 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
8149 ATCGCAACG
1 ATCGCAACG
8158 CGAACTTGAA
Statistics
Matches: 93, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
19 15 0.16
20 2 0.02
21 60 0.65
22 2 0.02
23 14 0.15
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:8090 original size:42 final size:42
Alignment explanation
Indices: 8044--8176 Score: 214
Period size: 42 Copynumber: 3.2 Consensus size: 42
8034 CTTGGAATAA
* *
8044 ATCGCAACGAATTTAGAATAAATCGCAACGCAAACTTCGACT
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
*
8086 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCAACT
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
*
8128 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTT-GAACT
1 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCG-ACT
8170 ATCGCAA
1 ATCGCAA
8177 TGCGGATATG
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (42 bp):
ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
Found at i:8173 original size:21 final size:22
Alignment explanation
Indices: 8065--8176 Score: 89
Period size: 21 Copynumber: 5.3 Consensus size: 22
8055 TTTAGAATAA
* *
8065 ATCGCAACGCAAACTTCG-ACT
1 ATCGCAACGCGAACTTGGAACT
*
8086 ATCGCAA--CGAATTTGGAA-T
1 ATCGCAACGCGAACTTGGAACT
*
8105 AAATCGCAACGCGAACTT-CAACT
1 --ATCGCAACGCGAACTTGGAACT
8128 ATCGCAA--CGAACTTGGAA-T
1 ATCGCAACGCGAACTTGGAACT
8147 AAATCGCAACGCGAACTT-GAACT
1 --ATCGCAACGCGAACTTGGAACT
8170 ATCGCAA
1 ATCGCAA
8177 TGCGGATATG
Statistics
Matches: 73, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
19 15 0.21
20 3 0.04
21 35 0.48
22 5 0.07
23 15 0.21
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.20
Consensus pattern (22 bp):
ATCGCAACGCGAACTTGGAACT
Found at i:8433 original size:14 final size:14
Alignment explanation
Indices: 8414--8440 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8404 ATATTAAATA
8414 ATAACTATAATTAT
1 ATAACTATAATTAT
8428 ATAACTATAATTA
1 ATAACTATAATTA
8441 AAAAATAAAT
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:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAACTATAATTAT
Found at i:8655 original size:24 final size:24
Alignment explanation
Indices: 8628--8689 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
8618 CTATTATTTC
* *
8628 ACTTCAATTAAGCTCGAATTTTAG
1 ACTTCAATCAAGCTCGAATTTCAG
8652 ACTTCAATCAAGCTCGAATTTCAG
1 ACTTCAATCAAGCTCGAATTTCAG
*
8676 ACTTCAATCGAGCT
1 ACTTCAATCAAGCT
8690 TCTAAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (24 bp):
ACTTCAATCAAGCTCGAATTTCAG
Found at i:9160 original size:13 final size:13
Alignment explanation
Indices: 9142--9180 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
9132 TAAAATTAGT
9142 TAAAATTTTAAAA
1 TAAAATTTTAAAA
9155 TAAAATTATTTAAAA
1 TAAAA-T-TTTAAAA
*
9170 TAAAATATTAA
1 TAAAATTTTAA
9181 TTACATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 9 0.39
14 2 0.09
15 12 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATTTTAAAA
Found at i:16695 original size:31 final size:31
Alignment explanation
Indices: 16649--16722 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
16639 TATTTTTGAC
* * * *
16649 TCATCTTA-GTGTCTAATGTTTTCTCCGTTA
1 TCATTTTAGGTGTCTAACGTTTTCTACATTA
*
16679 TTATTTTAGGTGTCTAACGTTTTCTACATTA
1 TCATTTTAGGTGTCTAACGTTTTCTACATTA
16710 TCATTTTAGGTGT
1 TCATTTTAGGTGT
16723 TCGGCCATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 6 0.16
31 31 0.84
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (31 bp):
TCATTTTAGGTGTCTAACGTTTTCTACATTA
Found at i:17773 original size:2 final size:2
Alignment explanation
Indices: 17766--17794 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17756 ATAAGTTCTT
17766 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
17795 TATTACAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:20060 original size:18 final size:18
Alignment explanation
Indices: 20039--20073 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20029 ATCTCGATAT
20039 AATAAATTTTAATAAAAA
1 AATAAATTTTAATAAAAA
* *
20057 AATATATTTTATTAAAA
1 AATAAATTTTAATAAAA
20074 TTCATCATCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAAATTTTAATAAAAA
Found at i:21997 original size:2 final size:2
Alignment explanation
Indices: 21990--22020 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21980 TGTGTAACTC
21990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22021 CACTCTCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23567 original size:20 final size:20
Alignment explanation
Indices: 23542--23579 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23532 ATCCACTTTC
* *
23542 CACCGTTCTTCGTCCACCAT
1 CACCGTTCGTCGACCACCAT
23562 CACCGTTCGTCGACCACC
1 CACCGTTCGTCGACCACC
23580 GTCCGCCGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.47, G:0.13, T:0.24
Consensus pattern (20 bp):
CACCGTTCGTCGACCACCAT
Found at i:25287 original size:27 final size:27
Alignment explanation
Indices: 25257--25313 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
25247 TGCAAATCGA
*
25257 GGAAGAGGTGGAACATGAGGAAGTGCT
1 GGAAGAGGTGGAACACGAGGAAGTGCT
* *
25284 GGAAGCGGTGGAACACGAGGTAGTGCT
1 GGAAGAGGTGGAACACGAGGAAGTGCT
25311 GGA
1 GGA
25314 TCACGTGCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.46, T:0.14
Consensus pattern (27 bp):
GGAAGAGGTGGAACACGAGGAAGTGCT
Found at i:31606 original size:21 final size:21
Alignment explanation
Indices: 31582--31631 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
31572 AAATGAGAAT
* *
31582 AATAAATTAAGTATATTAAAA
1 AATAAATAAAATATATTAAAA
*
31603 AAT-AATAAAATTTATTAAAA
1 AATAAATAAAATATATTAAAA
31623 AATAAATAA
1 AATAAATAA
31632 CGTGCATTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AATAAATAAAATATATTAAAA
Found at i:35130 original size:4 final size:4
Alignment explanation
Indices: 35081--35111 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
35071 AATAGAGCTT
35081 TTTC TTTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TT
35112 CAGGTCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:36502 original size:18 final size:19
Alignment explanation
Indices: 36467--36510 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
36457 AAAAATTTAA
*
36467 TTTT-TTTTATATGTTAAT
1 TTTTATTTTATATGATAAT
36485 TTTTATTTTAT-TGATAAT
1 TTTTATTTTATATGATAAT
36503 TTATTATT
1 TT-TTATT
36511 GTCGTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTATTTTATATGATAAT
Found at i:44203 original size:6 final size:6
Alignment explanation
Indices: 44194--44229 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
44184 ACAGCTGCAG
*
44194 GAGGAG GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA
44230 AAATAGTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:48306 original size:26 final size:26
Alignment explanation
Indices: 48269--48324 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
48259 TTAAAACAAA
*
48269 AAAAGATT-AAAAACCCAACAATTTTG
1 AAAAGATTAAAAAACCCAA-AACTTTG
*
48295 AAAA-ATTAAAAAAACTCAAAACTTTG
1 AAAAGATT-AAAAAACCCAAAACTTTG
48321 AAAA
1 AAAA
48325 TTCCAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 3 0.12
26 14 0.54
27 9 0.35
ACGTcount: A:0.61, C:0.12, G:0.05, T:0.21
Consensus pattern (26 bp):
AAAAGATTAAAAAACCCAAAACTTTG
Found at i:52345 original size:3 final size:3
Alignment explanation
Indices: 52339--52435 Score: 126
Period size: 3 Copynumber: 33.0 Consensus size: 3
52329 TTTATCCATT
* * * *
52339 TTA TTA TCA TTA TTA TTA ATA TTA TTA TTA TCA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
52387 TCA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TT- TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
52433 TTA
1 TTA
52436 AATATATTAA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
2 4 0.05
3 77 0.95
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:52345 original size:12 final size:11
Alignment explanation
Indices: 52324--52433 Score: 61
Period size: 12 Copynumber: 9.9 Consensus size: 11
52314 TGAAGATACT
*
52324 ATTTTTTTATCC
1 ATTTTATTAT-C
52336 ATTTTATTATC
1 ATTTTATTATC
52347 ATTATTATTAAT-
1 ATT-TTATT-ATC
52359 ATTATTATTATC
1 ATT-TTATTATC
52371 A--TTATTA--
1 ATTTTATTATC
*
52378 ATATTATTATC
1 ATTTTATTATC
* *
52389 ATTATTATTTTT
1 ATT-TTATTATC
*
52401 ATTATTATTATT
1 ATT-TTATTATC
52413 ATTATTATTAT-
1 ATT-TTATTATC
*
52424 TTTTTATTAT
1 ATTTTATTAT
52434 TAAATATATT
Statistics
Matches: 84, Mismatches: 6, Indels: 18
0.78 0.06 0.17
Matches are distributed among these distances:
7 1 0.01
9 12 0.14
10 7 0.08
11 10 0.12
12 52 0.62
13 2 0.02
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTATTATC
Found at i:52939 original size:19 final size:19
Alignment explanation
Indices: 52915--52953 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
52905 ACAGAACCGA
52915 AGAGAAAA-AAGAAAAAAAC
1 AGAGAAAAGAA-AAAAAAAC
52934 AGAGAAAAGAAAAAAAAAC
1 AGAGAAAAGAAAAAAAAAC
52953 A
1 A
52954 ACAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.00
Consensus pattern (19 bp):
AGAGAAAAGAAAAAAAAAC
Found at i:53897 original size:14 final size:13
Alignment explanation
Indices: 53802--53901 Score: 66
Period size: 12 Copynumber: 7.9 Consensus size: 13
53792 TCATTTATCT
53802 TATTATTTTTAAA
1 TATTATTTTTAAA
* *
53815 TA-TATTATTTTAG
1 TATTATT-TTTAAA
* * *
53828 TAGTATTTGT-AT
1 TATTATTTTTAAA
* *
53840 TTTTATTGTTAAA
1 TATTATTTTTAAA
53853 TATT-TTTTTAAA
1 TATTATTTTTAAA
**
53865 TA-TA-TAATAAA
1 TATTATTTTTAAA
53876 TATTATTTTTAAA
1 TATTATTTTTAAA
53889 TATTTATTTTTAA
1 TA-TTATTTTTAA
53902 TATCGAAGAA
Statistics
Matches: 65, Mismatches: 15, Indels: 13
0.70 0.16 0.14
Matches are distributed among these distances:
11 8 0.12
12 22 0.34
13 21 0.32
14 14 0.22
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (13 bp):
TATTATTTTTAAA
Found at i:53904 original size:13 final size:14
Alignment explanation
Indices: 53872--53901 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
53862 AAATATATAA
53872 TAAATA-TTATTTT
1 TAAATATTTATTTT
53885 TAAATATTTATTTT
1 TAAATATTTATTTT
53899 TAA
1 TAA
53902 TATCGAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TAAATATTTATTTT
Found at i:54619 original size:13 final size:15
Alignment explanation
Indices: 54588--54624 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
54578 TTATATGTTT
54588 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
54603 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
54616 TA-TTTATTT
1 TATTTTATTT
54625 TTCTGTCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:65190 original size:14 final size:13
Alignment explanation
Indices: 65175--65221 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
65165 ATGCTTGAAG
65175 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
*
65188 GAAAAGAAAAAGAA
1 -AAAAAAAAAAGAA
65202 AAAAAAGAAAA-AA
1 AAAAAA-AAAAGAA
65215 AAAAAAA
1 AAAAAAA
65222 GGGTCAAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 1 0.03
13 13 0.43
14 16 0.53
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:65207 original size:23 final size:23
Alignment explanation
Indices: 65177--65222 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
65167 GCTTGAAGAA
* *
65177 AAAAAAAAGAAGAAAAGAAAAAG
1 AAAAAAAAGAAAAAAAAAAAAAG
65200 AAAAAAAAGAAAAAAAAAAAAAG
1 AAAAAAAAGAAAAAAAAAAAAAG
65223 GGTCAAGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (23 bp):
AAAAAAAAGAAAAAAAAAAAAAG
Found at i:65218 original size:11 final size:11
Alignment explanation
Indices: 65172--65218 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
65162 ATTATGCTTG
65172 AAGAAAAAAAA
1 AAGAAAAAAAA
65183 AAGAAGAAAAGAA
1 AAGAA-AAAA-AA
*
65196 AA-AGAAAAAA
1 AAGAAAAAAAA
65206 AAGAAAAAAAA
1 AAGAAAAAAAA
65217 AA
1 AA
65219 AAAGGGTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 4 0.13
11 18 0.58
12 5 0.16
13 4 0.13
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:65222 original size:14 final size:14
Alignment explanation
Indices: 65178--65222 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 14
65168 CTTGAAGAAA
65178 AAAAAAAGAAGAAAAG
1 AAAAAAA-AA-AAAAG
65194 AAAAAGAAAAAAAAG
1 AAAAA-AAAAAAAAG
65209 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
65223 GGTCAAGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.32
15 10 0.36
16 7 0.25
17 2 0.07
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:66263 original size:52 final size:52
Alignment explanation
Indices: 66200--66628 Score: 711
Period size: 52 Copynumber: 8.2 Consensus size: 52
66190 GGAAAATCAT
*
66200 CAGAACATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GA
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
*
66251 TCATAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 -CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
* *
66304 CAGAAAATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GA
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
*
66355 TCATAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 -CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
66408 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
*
66460 CAGAACATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
*
66512 CAGAACATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
* * * *
66564 CAGAACATAGTATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGA
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
66616 CAGAATCA-AGCAT
1 CAGAA-CATAGCAT
66629 TGAGTTTAGA
Statistics
Matches: 357, Mismatches: 16, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
51 2 0.01
52 349 0.98
53 6 0.02
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (52 bp):
CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
Found at i:66717 original size:83 final size:83
Alignment explanation
Indices: 66578--66776 Score: 380
Period size: 83 Copynumber: 2.4 Consensus size: 83
66568 ACATAGTATT
66578 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATCAAGCATTGAGTTTAGAAGAT
1 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATCAAGCATTGAGTTTAGAAGAT
66643 GAATTTGCCAATAGCATC
66 GAATTTGCCAATAGCATC
66661 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATCAAGCATTGAGTTTAGAAGAT
1 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATCAAGCATTGAGTTTAGAAGAT
66726 GAATTTGCCAATAGCATC
66 GAATTTGCCAATAGCATC
* *
66744 TTCTGGAAGCGTTCTTTGAGTTATTTGATCTGA
1 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
66777 AGAAGTGCAT
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 114 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATCAAGCATTGAGTTTAGAAGAT
GAATTTGCCAATAGCATC
Found at i:67529 original size:114 final size:113
Alignment explanation
Indices: 67329--68563 Score: 1954
Period size: 114 Copynumber: 10.9 Consensus size: 113
67319 TAGCAAAGAT
* *
67329 TTGAATTCATCAAATTGATGGATCAT-TGTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 TTGAATTCATC-ACTTGATGGATCATCT-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
67393 GAAGAAGGAAG-AGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
64 GAAGAAGGAAGAAG-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
67443 TTGAATTCATCAAATTGATGGATCATCGTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TTGAATTCATC-ACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* * *
67508 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTAC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * * *
67557 CTGAATCCATCATTTGGTGGATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATTCATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
67622 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
67670 TTAAATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
1 TTGAATTCATCACTTGATGGATCA-TCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* *
67735 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * * *
67784 CTGAATCCATCATTTGGTGGATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATTCATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
67849 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
67897 TTAAATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
1 TTGAATTCATCACTTGATGGATCA-TCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* *
67962 AAGAAGGAAGAAGAAGTTCATAACGAGAAGAACTTGTTCAACCTTTTAC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * * *
68011 CTGAATCCATCATTTGGTGGATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATTCATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
68076 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
68124 TTAAATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
1 TTGAATTCATCACTTGATGGATCA-TCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
68189 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
68238 TTGAATTCATCAAATTGATGGATCATCGTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TTGAATTCATC-ACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* *
68303 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
68352 TTAAATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
1 TTGAATTCATCACTTGATGGATCA-TCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* *
68417 AAGAAGGAAGAAGAAGTTCATAATGAGAAAAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * *
68466 TTGAATTCATCAGTTGATGGATCAACATTACCAG-GTAAAGTTCATAATGAGAAGAACTCATCTG
1 TTGAATTCATCACTTGATGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTG
*
68530 AAGAAGGAAGAAAAAGTTCATAATGAGAAGAACT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
68564 CATCAAGAGC
Statistics
Matches: 1036, Mismatches: 77, Indels: 17
0.92 0.07 0.02
Matches are distributed among these distances:
112 1 0.00
113 400 0.39
114 621 0.60
115 14 0.01
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (113 bp):
TTGAATTCATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
Found at i:67742 original size:227 final size:227
Alignment explanation
Indices: 67347--68563 Score: 2116
Period size: 227 Copynumber: 5.4 Consensus size: 227
67337 ATCAAATTGA
** *
67347 TGGATCATTGTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGT
1 TGGATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAGT
* * *
67411 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGATGGATCA-TCGTTTC
65 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATC-ACTTGATGGATCATTCTTTTC
* *
67475 CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
129 CAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
67540 TTTGTTCAACCTTTTACCTGAATCCATCATTTGG
194 TTTGTTCAACCTTTTACCTGAATCCATCATTTGG
67574 TGGATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
1 TGGATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
67639 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCATTCTTTTCCA
66 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCATTCTTTTCCA
67704 GAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
131 GAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
67769 TGTTCAACCTTTTACCTGAATCCATCATTTGG
196 TGTTCAACCTTTTACCTGAATCCATCATTTGG
67801 TGGATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
1 TGGATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
67866 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCATTCTTTTCCA
66 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCATTCTTTTCCA
* *
67931 GAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAACGAGAAGAACT
131 GAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
67996 TGTTCAACCTTTTACCTGAATCCATCATTTGG
196 TGTTCAACCTTTTACCTGAATCCATCATTTGG
68028 TGGATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
1 TGGATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
68093 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCATTCTTTTCCA
66 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCATTCTTTTCCA
*
68158 GAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
131 GAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
* * * * *
68223 TGTTCAACCTTTTGCTTGAATTCATCAAATTGA
196 TGTTCAACCTTTTACCTGAATCCATC-ATTTGG
*
68256 TGGATCATCGTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
1 TGGATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
* *
68321 CATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCACTTGATGGATCATTCTTTTCCA
66 CATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCATTCTTTTCCA
*
68386 GAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAAAATT
131 GAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
* * * * *
68451 TGTTCAACCTTTTGCTTGAATTCATCAGTTGA
196 TGTTCAACCTTTTACCTGAATCCATCATTTGG
* * * *
68483 TGGATCAACATTACCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGT
1 TGGATCATCCTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
68547 TCATAATGAGAAGAACT
65 TCATAATGAGAAGAACT
68564 CATCAAGAGC
Statistics
Matches: 959, Mismatches: 27, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
226 13 0.01
227 724 0.75
228 222 0.23
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (227 bp):
TGGATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
CATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCATTCTTTTCCA
GAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
TGTTCAACCTTTTACCTGAATCCATCATTTGG
Found at i:67955 original size:341 final size:340
Alignment explanation
Indices: 67332--68563 Score: 1986
Period size: 341 Copynumber: 3.6 Consensus size: 340
67322 CAAAGATTTG
* *
67332 AATTCATCAAATTGATGGATCATT-GTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAA
1 AATTCATC-ACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAA
67396 GAAGGAAG-AGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTG
65 GAAGGAAGAAG-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATC-AATTG
* *
67460 ATGGATCATCGTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
128 ATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * * * * *
67525 TCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGGATCATCCTTTCCA
193 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAATTGATGGATCATCCTTTCCA
67590 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
258 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
67655 TGTTCAACCTTTTGCTTA
323 TGTTCAACCTTTTGCTTA
67673 AATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
1 AATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
* * * * * *
67738 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAATTGATG
*
67803 GATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
131 GATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * *
67868 TAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCATTCTTTTCCAGA
196 TAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAATTGATGGATCA-TCCTTTCCAGA
* *
67933 GAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAACGAGAAGAACTTG
260 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * *
67998 TTCAACCTTTTACCTG
325 TTCAACCTTTTGCTTA
* * * * *
68014 AATCCATCATTTGGTGGATCA-TCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
* *
68078 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAATTGATG
* *
68143 GATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
131 GATCA-TCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
*
68208 ATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGATGGATCATCGTTTCCAG
195 ATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATC-AATTGATGGATCATCCTTTCCAG
*
68273 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
259 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
*
68338 GTTCAACCTTTTGTTTA
324 GTTCAACCTTTTGCTTA
68355 AATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
1 AATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
* * *
68420 AAGGAAGAAGAAGTTCATAATGAGAAAAATTTGTTCAACCTTTTGCTTGAATTCATCAGTTGATG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAATTGATG
* * *
68485 GATCAACATTACCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTC
131 GATCATCATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
68549 ATAATGAGAAGAACT
195 ATAATGAGAAGAACT
68564 CATCAAGAGC
Statistics
Matches: 823, Mismatches: 61, Indels: 14
0.92 0.07 0.02
Matches are distributed among these distances:
340 234 0.28
341 468 0.57
342 121 0.15
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (340 bp):
AATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAATTGATG
GATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAATTGATGGATCATCCTTTCCAGAG
AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACCTTTTGCTTA
Found at i:68825 original size:3 final size:3
Alignment explanation
Indices: 68811--68904 Score: 120
Period size: 3 Copynumber: 32.0 Consensus size: 3
68801 TTTATCCATT
* * * *
68811 TTA TTA TCA TTA TTA TTA ATA TTA TTA TTA TCA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
68859 TCA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TT- TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
68905 AATATATTAA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
2 4 0.05
3 74 0.95
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:68826 original size:12 final size:12
Alignment explanation
Indices: 68802--68889 Score: 90
Period size: 12 Copynumber: 7.3 Consensus size: 12
68792 ATACTATTTT
68802 TTATCCATT-TTA
1 TTAT-CATTATTA
68814 TTATCATTATTA
1 TTATCATTATTA
68826 TTAAT-ATTATTA
1 TT-ATCATTATTA
68838 TTATCATTATTA
1 TTATCATTATTA
* * *
68850 ATATTATTATCA
1 TTATCATTATTA
* *
68862 TTATTATTTTTA
1 TTATCATTATTA
*
68874 TTATTATTATTA
1 TTATCATTATTA
68886 TTAT
1 TTAT
68890 TATTTTTTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
11 6 0.09
12 58 0.88
13 2 0.03
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATCATTATTA
Found at i:69409 original size:19 final size:19
Alignment explanation
Indices: 69385--69423 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
69375 ACAGAACCGA
69385 AGAGAAAA-AAGAAAAAAAC
1 AGAGAAAAGAA-AAAAAAAC
69404 AGAGAAAAGAAAAAAAAAC
1 AGAGAAAAGAAAAAAAAAC
69423 A
1 A
69424 ACAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.00
Consensus pattern (19 bp):
AGAGAAAAGAAAAAAAAAC
Found at i:70361 original size:14 final size:13
Alignment explanation
Indices: 70267--70365 Score: 57
Period size: 13 Copynumber: 7.9 Consensus size: 13
70257 TCATTTATCT
70267 TATTATTTTTAAA
1 TATTATTTTTAAA
* *
70280 TA-TATTATTTTAG
1 TATTATT-TTTAAA
* * *
70293 TAGTATTTGT-AT
1 TATTATTTTTAAA
* *
70305 TTTTATTGTTAAA
1 TATTATTTTTAAA
70318 TA-T-TTTTTAAA
1 TATTATTTTTAAA
**
70329 TA-TA-TAATAAA
1 TATTATTTTTAAA
70340 TATTATTTTTAAA
1 TATTATTTTTAAA
70353 TATTTATTTTTAA
1 TA-TTATTTTTAA
70366 TATCGAAGAA
Statistics
Matches: 64, Mismatches: 15, Indels: 13
0.70 0.16 0.14
Matches are distributed among these distances:
11 17 0.27
12 14 0.22
13 19 0.30
14 14 0.22
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (13 bp):
TATTATTTTTAAA
Found at i:70368 original size:13 final size:14
Alignment explanation
Indices: 70336--70365 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
70326 AAATATATAA
70336 TAAATA-TTATTTT
1 TAAATATTTATTTT
70349 TAAATATTTATTTT
1 TAAATATTTATTTT
70363 TAA
1 TAA
70366 TATCGAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TAAATATTTATTTT
Found at i:83224 original size:4 final size:4
Alignment explanation
Indices: 83215--83602 Score: 546
Period size: 4 Copynumber: 97.5 Consensus size: 4
83205 GAGAAACCTT
83215 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
83263 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
83311 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * * * *
83359 GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
83407 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
83455 ATAC ATAC ATAC ATAC ATAC ATAT GTAC GTAC GTAC GTAC ATAC GTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
83503 ATAC GTAC ATAC ATAC ATAC ATAC GTAC AT-- ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
83549 ATAC ATAC ATAC ATAC ATAC ATAC GTAC GTAC ATAC ATAC GTAC GTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
83597 GTAC AT
1 ATAC AT
83603 GGGGTTTTGT
Statistics
Matches: 364, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
2 2 0.01
4 362 0.99
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:84537 original size:24 final size:24
Alignment explanation
Indices: 84504--84554 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 24
84494 ACTTTATTTG
84504 AAAATATAT-ATTAAACTTAGTAA
1 AAAATATATAATTAAACTTAGTAA
84527 AAAATATTATACAATTAAACTTAGTAA
1 AAAATA-TAT--AATTAAACTTAGTAA
84554 A
1 A
84555 CTTTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.25
24 3 0.12
27 15 0.62
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAATATATAATTAAACTTAGTAA
Found at i:86986 original size:13 final size:13
Alignment explanation
Indices: 86968--86994 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
86958 TCACTAAGAT
86968 TTTAAAATATATA
1 TTTAAAATATATA
86981 TTTAAAATATATA
1 TTTAAAATATATA
86994 T
1 T
86995 AATTTTAGGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTAAAATATATA
Found at i:91724 original size:28 final size:26
Alignment explanation
Indices: 91677--91728 Score: 61
Period size: 28 Copynumber: 1.9 Consensus size: 26
91667 TTTTATTTAT
91677 TTTATTTATATACATATTATCATTTCG
1 TTTATTTATATACATATTAT-ATTTCG
*
91704 TTTATCTTATAT-CTATTTTATATTT
1 TTTAT-TTATATAC-ATATTATATTT
91729 TTTCCCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTATTTATATACATATTATATTTCG
Found at i:91835 original size:19 final size:19
Alignment explanation
Indices: 91794--91855 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
91784 TTTTCTAGTA
* * **
91794 TTTTATTTATTTCATTTGC
1 TTTTATGTATTTTATTTAT
91813 TTTTATGTATTTTATTTATTT
1 TTTTATGTATTTTATTTA--T
*
91834 TTTTATGTCTTTTAATTTAT
1 TTTTATGTATTTT-ATTTAT
91854 TT
1 TT
91856 ATTTATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 15 0.43
20 3 0.09
21 12 0.34
22 5 0.14
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTATGTATTTTATTTAT
Found at i:91854 original size:22 final size:21
Alignment explanation
Indices: 91799--91861 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 21
91789 TAGTATTTTA
91799 TTTATTTCATTTGCTTTTATGTAT
1 TTTATTT-ATTT--TTTTATGTAT
*
91823 TTTATTTATTTTTTTATGTCT
1 TTTATTTATTTTTTTATGTAT
*
91844 TTTAATTTATTTATTTAT
1 TTT-ATTTATTTTTTTAT
91862 TTTTCTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.33
22 13 0.36
23 4 0.11
24 7 0.19
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTATTTATTTTTTTATGTAT
Found at i:95044 original size:15 final size:13
Alignment explanation
Indices: 95022--95070 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 13
95012 CAATCAGAAC
95022 AAAAAGAGAAAAA
1 AAAAAGAGAAAAA
*
95035 AAGTAAAGAGAAAAT
1 AA--AAAGAGAAAAA
95050 AAAAAGAGAAAAA
1 AAAAAGAGAAAAA
95063 ACAAAAGA
1 A-AAAAGA
95071 AAATTGAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 13 0.42
14 6 0.19
15 12 0.39
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (13 bp):
AAAAAGAGAAAAA
Found at i:95270 original size:69 final size:69
Alignment explanation
Indices: 95146--95283 Score: 204
Period size: 69 Copynumber: 2.0 Consensus size: 69
95136 GATTCAAACT
* * *
95146 ATGAGATTGATCAAGCACAATTATTTCCGAATCATTGAACCACTTAACTCAAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTCAACTCAAAGATCATAGAGCA
95211 TCAA
66 TCAA
** * * *
95215 ATGAGATTGATCAAGCACAATCATTTTTGAATCACTGAATCACTCCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTCAACTCAAAGATCATAGAGCA
95280 TCAA
66 TCAA
95284 GAGAGAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTCAACTCAAAGATCATAGAGCA
TCAA
Found at i:96232 original size:32 final size:31
Alignment explanation
Indices: 96196--96315 Score: 132
Period size: 32 Copynumber: 3.7 Consensus size: 31
96186 GGAACAATGA
96196 GGGCATCTTTGAAGATTCAACATCAAATATTG
1 GGGCATCTTTG-AGATTCAACATCAAATATTG
* * * *
96228 GGGCATTTTTTTAGATTTAACATCAAATGTTG
1 GGGCA-TCTTTGAGATTCAACATCAAATATTG
* * *
96260 GGGCATTTTTTGATATTCAACATCGAATATTG
1 GGGCA-TCTTTGAGATTCAACATCAAATATTG
*
96292 GGGCATCTTTGGGAATTCAACATC
1 GGGCATCTTTGAG-ATTCAACATC
96316 CTGATACAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
31 5 0.07
32 65 0.88
33 4 0.05
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (31 bp):
GGGCATCTTTGAGATTCAACATCAAATATTG
Found at i:97073 original size:32 final size:32
Alignment explanation
Indices: 96994--97066 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
96984 ATTCCAAGGC
96994 TCAACTTCACAACGAATGGGTCATCCACGGTT
1 TCAACTTCACAACGAATGGGTCATCCACGGTT
97026 TCAACTTCACAACGAATGGGTCATCCACGGTT
1 TCAACTTCACAACGAATGGGTCATCCACGGTT
97058 TCAACTTCA
1 TCAACTTCA
97067 TGACGAAGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (32 bp):
TCAACTTCACAACGAATGGGTCATCCACGGTT
Found at i:97224 original size:67 final size:68
Alignment explanation
Indices: 97115--97263 Score: 180
Period size: 68 Copynumber: 2.2 Consensus size: 68
97105 ACAATTTCCA
* ** *
97115 AGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATCTCTCCTAAAAC-AAATTTTGTCTCCCTTGA
1 AGTTTCTCTTGAAACACAAAATCTTCAAATTTATCTCTCCTAAAACAAAATTTTATCTCCCTTGA
97177 GAC
66 GAC
* *
97180 AGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTC-CCTTAAAACAAAATTTTATTTCCCTTG
1 AGTTTCTCTTGAAACACAAAATCTTCAAATTTATCTCTCC-TAAAACAAAATTTTATCTCCCTTG
97244 AGAC
65 AGAC
* * *
97248 CGTTTTTCATGAAACA
1 AGTTTCTCTTGAAACA
97264 ACATATATCT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
65 10 0.14
66 4 0.06
67 25 0.35
68 32 0.45
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (68 bp):
AGTTTCTCTTGAAACACAAAATCTTCAAATTTATCTCTCCTAAAACAAAATTTTATCTCCCTTGA
GAC
Found at i:98182 original size:110 final size:110
Alignment explanation
Indices: 97989--98186 Score: 288
Period size: 110 Copynumber: 1.8 Consensus size: 110
97979 ATTTCAAAGC
* * * *
97989 CAATTTCAACTTCACAGCGAGGGATATTGGACTTAAGACAACACAAGCTCAAATTCATAACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAAATTCACAACGAAG
*
98054 GGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
66 GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* * * * *
98099 CAATTTCAACTTCACTGCGAAGTATATTGAACTCGAGACAACACAAGCTCAACTTCACAGCGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAAATTCACAACGAAG
* *
98164 GGGCGGCTGGCTGTCAACAAACA
66 GGGCGACTGACTGTCAACAAACA
98187 GTTTCCCAGT
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
110 76 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (110 bp):
CAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAAATTCACAACGAAG
GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
Found at i:98197 original size:110 final size:106
Alignment explanation
Indices: 97986--98238 Score: 285
Period size: 110 Copynumber: 2.3 Consensus size: 106
97976 CCAATTTCAA
* * * *
97986 AGCCAATTTCAACTTCACAGCGAGGGATATTGGACTTAAGACAACACAAGCTCAAATTCATAACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAAATTCACAACG
* *
98051 AAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCATTCAG
66 AAGGGGCGACTGACTGTCAACAAACAACTTTCCAG-TTC---CAG
* * * * * *
98096 AGTCAATTTCAACTTCACTGCGAAGTATATTGAACTCGAGACAACACAAGCTCAACTTCACAGCG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAAATTCACAACG
* * *
98161 AAGGGGCGGCTGGCTGTCAACAAAC-AGTTTCCCAGTTCCAG
66 AAGGGGCGACTGACTGTCAACAAACAACTTT-CCAGTTCCAG
* *
98202 AGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
1 AGCCAATTTCAACTTCACAG-CGAAGGATATTGAACTC
98239 GGAACAATAC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
105 1 0.01
106 34 0.28
109 7 0.06
110 80 0.66
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (106 bp):
AGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAAATTCACAACG
AAGGGGCGACTGACTGTCAACAAACAACTTTCCAGTTCCAG
Found at i:99515 original size:19 final size:19
Alignment explanation
Indices: 99477--99515 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
99467 ATATACATAT
*
99477 TATCATTTTGTTTATCTTA
1 TATCATTTTATTTATCTTA
99496 TATCTATTTTATTTAT-TTA
1 TATC-ATTTTATTTATCTTA
99515 T
1 T
99516 TTTTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (19 bp):
TATCATTTTATTTATCTTA
Found at i:99632 original size:17 final size:17
Alignment explanation
Indices: 99610--99650 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
99600 TTTCATTTGC
99610 TTTTATGGATTTTATTT
1 TTTTATGGATTTTATTT
**
99627 TTTTATGTCTTTTATTT
1 TTTTATGGATTTTATTT
99644 TATTTAT
1 T-TTTAT
99651 TTATTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.73
Consensus pattern (17 bp):
TTTTATGGATTTTATTT
Found at i:99649 original size:9 final size:9
Alignment explanation
Indices: 99589--99657 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
99579 TATTTTCTAG
99589 TATTTTATT
1 TATTTTATT
*
99598 TATTTCATT
1 TATTTTATT
* *
99607 TGCTTTTATG
1 T-ATTTTATT
*
99617 GATTTTATT
1 TATTTTATT
*
99626 T-TTTTATG
1 TATTTTATT
*
99634 TCTTTTATT
1 TATTTTATT
99643 T-TATTTATT
1 TAT-TTTATT
99652 TATTTT
1 TATTTT
99658 TCTTTTCGTT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
8 8 0.17
9 32 0.70
10 6 0.13
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.72
Consensus pattern (9 bp):
TATTTTATT
Found at i:107137 original size:24 final size:24
Alignment explanation
Indices: 107096--107150 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
107086 TTTTTTTTTT
* *
107096 AATT-TTATTAATTTAATATATAA
1 AATTATTAATAATTAAATATATAA
*
107119 AATTATTAATAATTAAATATGTAA
1 AATTATTAATAATTAAATATATAA
*
107143 TATTATTA
1 AATTATTA
107151 TATATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AATTATTAATAATTAAATATATAA
Found at i:108589 original size:133 final size:135
Alignment explanation
Indices: 108348--108602 Score: 451
Period size: 133 Copynumber: 1.9 Consensus size: 135
108338 CACATGCCCA
* *
108348 AATCCTTAAACTTATTTCATTCAATAAGTTCATGCTTAAAAGACTATATTTTAAAAACTTGATAA
1 AATCCTTAAACTTATTTCATTCAATAAGTTCATGCTTAAAAGAC-ATATTTTAAAAACATGAAAA
*
108413 AACTAATGTGAGATTTAAAAATCTCACTGTTAAACTTATTGATTTTGAACTATAAAACGTGCCTC
65 AACTAATGTGAGATTTAAAAATCTCACTGTTAAACTTAATGATTTTGAACTATAAAACGTGCCTC
108478 ACCCTG
130 ACCCTG
*
108484 AATCCTTAAACTTATTTCATTCAATAAGTTCATGTTTAAAAGAC-TATTTT-AAAACATGAAAAA
1 AATCCTTAAACTTATTTCATTCAATAAGTTCATGCTTAAAAGACATATTTTAAAAACATGAAAAA
108547 ACTAATGTGAGATTTAAAAATCTCACTGTTAAACTTAATGATTTTGAACTATAAAA
66 ACTAATGTGAGATTTAAAAATCTCACTGTTAAACTTAATGATTTTGAACTATAAAA
108603 AGACAAATTC
Statistics
Matches: 115, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
133 66 0.57
134 6 0.05
136 43 0.37
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (135 bp):
AATCCTTAAACTTATTTCATTCAATAAGTTCATGCTTAAAAGACATATTTTAAAAACATGAAAAA
ACTAATGTGAGATTTAAAAATCTCACTGTTAAACTTAATGATTTTGAACTATAAAACGTGCCTCA
CCCTG
Found at i:114881 original size:12 final size:13
Alignment explanation
Indices: 114856--114885 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
114846 ATATTTAATA
114856 AAAATAATATTTT
1 AAAATAATATTTT
114869 AAAATAA-ATTTT
1 AAAATAATATTTT
114881 AAAAT
1 AAAAT
114886 CGAGTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAATATTTT
Found at i:114884 original size:50 final size:48
Alignment explanation
Indices: 114762--114885 Score: 108
Period size: 50 Copynumber: 2.5 Consensus size: 48
114752 TATTATTTAA
* *
114762 AATATTTTAAAA-ATAA-GTTAAAATAAAAAAAAGATATATAATAAATT
1 AATATTTTAAAATA-AATATTAAAATAAAAAAAAGATATATAATAAAAT
* ** * * *
114809 ATTAATTTTAAATATTTATAGTAAAATAAAATAAAATATATTTAATAAAAAT
1 AAT-ATTTTAAA-ATAAATATTAAAATAAAA-AAAAGATATATAAT-AAAAT
*
114861 AATATTTTAAAATAAATTTTAAAAT
1 AATATTTTAAAATAAATATTAAAAT
114886 CGAGTTAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
47 2 0.03
48 8 0.14
49 2 0.03
50 20 0.34
51 20 0.34
52 6 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (48 bp):
AATATTTTAAAATAAATATTAAAATAAAAAAAAGATATATAATAAAAT
Done.