Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 43
Found at i:4840031 original size:112 final size:113
Alignment explanation
Indices: 4839718--4840059 Score: 537
Period size: 113 Copynumber: 3.0 Consensus size: 113
4839708 ATTCAAATCT
* * *
4839718 ATCATTTGATGGAT-TGACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGGA
1 ATCAATTGATGGATCAG-CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
4839782 AGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTACATGAATTC
65 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTACATGAATTC
* *
4839831 ATCAATTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCTGAAGAAGGAA
1 ATCAATTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
4839896 GAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTC
66 GAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTACATGAATTC
4839944 ATCAATTGATGGATCAGCATTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCAATTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
4840008 AAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGCAT-AATTC
66 GAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTACATGAATTC
4840055 TATCA
1 -ATCA
4840060 CAGAAGGAGA
Statistics
Matches: 211, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
111 5 0.02
112 76 0.36
113 129 0.61
114 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (113 bp):
ATCAATTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTACATGAATTC
Found at i:4840152 original size:40 final size:41
Alignment explanation
Indices: 4840097--4840195 Score: 164
Period size: 40 Copynumber: 2.4 Consensus size: 41
4840087 TTTCTAGTGG
*
4840097 AAAGTTCATAATGAGAAGAACTCATCGAAA-GAAGGATGAA
1 AAAGTTCATAATGAGAAGAACTCATCAAAACGAAGGATGAA
4840137 AAAGTTCATAATGAGAAGAACTCATCAAAAGCGAAGGATGAA
1 AAAGTTCATAATGAGAAGAACTCATCAAAA-CGAAGGATGAA
*
4840179 GAAGTTCATAATGAGAA
1 AAAGTTCATAATGAGAA
4840196 CTCATCAGAG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
40 29 0.53
42 26 0.47
ACGTcount: A:0.49, C:0.10, G:0.22, T:0.18
Consensus pattern (41 bp):
AAAGTTCATAATGAGAAGAACTCATCAAAACGAAGGATGAA
Found at i:4840289 original size:167 final size:166
Alignment explanation
Indices: 4840092--4840465 Score: 592
Period size: 167 Copynumber: 2.2 Consensus size: 166
4840082 AGCCTTTTCT
4840092 AGTGGAAAGTTCATAATGAGAAGAACTCATCGAAAGAAGGATGAAAAAGTTCATAATGAGAAGAA
1 AGTGG-AAGTTCATAATGAGAAGAACTCATCGAAAGAAGGATG-AAAAGTTCATAATGAGAAGAA
4840157 CTCATCAAAAGCGAAGGATGAAGAAGTTCATAAT-G-AGAACTCATC-AGAGCTTATTCAACCTT
64 CTCATC--AAGCGAAGGATGAAGAAGTTCATAATAGAAGAACTCATCAAGAGCTTATTCAACC-T
* *
4840219 TTGAATGACTCTATCACAAAAAGAAAGTCAACATCATCCCC
126 TTGAATGACTCTATCACAAAAAGAAAGACAACAACATCCCC
4840260 AGTGGAAGTTCATAATGAGAAGAACTCATCGAAAGAAGGATGAAAAGTTCATAATGAGAAGAACT
1 AGTGGAAGTTCATAATGAGAAGAACTCATCGAAAGAAGGATGAAAAGTTCATAATGAGAAGAACT
4840325 CATCAAGCGAAGGATGAAGAAGTTCATAATGAGAAGAACTCATCAAGAGCTTATTCAACCTTTGA
66 CATCAAGCGAAGGATGAAGAAGTTCATAAT-AGAAGAACTCATCAAGAGCTTATTCAACCTTTGA
***
4840390 ATGACTCTATCACAAAAAGAAAGAGGTCAACATCCCC
130 ATGACTCTATCACAAAAAGAAAGACAACAACATCCCC
* *
4840427 AGTTGAAAGTTCATAATGAGAAGAACTCATTTGAAAGAA
1 AG-TGGAAGTTCATAATGAGAAGAACTCA-TCGAAAGAA
4840466 AGAGAAGTTA
Statistics
Matches: 193, Mismatches: 7, Indels: 11
0.91 0.03 0.05
Matches are distributed among these distances:
164 26 0.13
166 28 0.15
167 86 0.45
168 45 0.23
169 8 0.04
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.21
Consensus pattern (166 bp):
AGTGGAAGTTCATAATGAGAAGAACTCATCGAAAGAAGGATGAAAAGTTCATAATGAGAAGAACT
CATCAAGCGAAGGATGAAGAAGTTCATAATAGAAGAACTCATCAAGAGCTTATTCAACCTTTGAA
TGACTCTATCACAAAAAGAAAGACAACAACATCCCC
Found at i:4840359 original size:40 final size:40
Alignment explanation
Indices: 4840264--4840373 Score: 188
Period size: 39 Copynumber: 2.8 Consensus size: 40
4840254 ATCCCCAGTG
4840264 GAAGTTCATAATGAGAAGAACTCATCGAA-AGAAGGATGAA
1 GAAGTTCATAATGAGAAGAACTCATC-AAGAGAAGGATGAA
*
4840304 -AAGTTCATAATGAGAAGAACTCATCAAGCGAAGGATGAA
1 GAAGTTCATAATGAGAAGAACTCATCAAGAGAAGGATGAA
4840343 GAAGTTCATAATGAGAAGAACTCATCAAGAG
1 GAAGTTCATAATGAGAAGAACTCATCAAGAG
4840374 CTTATTCAAC
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
38 2 0.03
39 35 0.53
40 29 0.44
ACGTcount: A:0.46, C:0.12, G:0.24, T:0.18
Consensus pattern (40 bp):
GAAGTTCATAATGAGAAGAACTCATCAAGAGAAGGATGAA
Found at i:4840599 original size:3 final size:3
Alignment explanation
Indices: 4840586--4840657 Score: 58
Period size: 3 Copynumber: 23.7 Consensus size: 3
4840576 TTTTTACCCA
* * * * *
4840586 TAT TAAT TAT TAT TAT ATAA TAT AAT TAT ATAT TAT AAT TAT TAT AAA
1 TAT T-AT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
4840634 T-T TAT TAT TAT TA- TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
4840658 AATACAAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
2 3 0.06
3 43 0.80
4 8 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:4840613 original size:23 final size:23
Alignment explanation
Indices: 4840591--4840649 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
4840581 ACCCATATTA
4840591 ATTATTATTATATAATAT-AATT
1 ATTATTATTATATAATATAAATT
* *
4840613 ATATATTATAAT-TATTATAAATTT
1 AT-TATTATTATATAATATAAA-TT
4840637 ATTATTATTATAT
1 ATTATTATTATAT
4840650 TATTATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 7 0.23
23 18 0.60
24 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTATTATTATATAATATAAATT
Found at i:4840615 original size:13 final size:13
Alignment explanation
Indices: 4840597--4840632 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
4840587 ATTAATTATT
4840597 ATTATATAATATA
1 ATTATATAATATA
*
4840610 ATTATATATTATA
1 ATTATATAATATA
4840623 ATTATTATAA
1 ATTA-TATAA
4840633 ATTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTATATAATATA
Found at i:4840640 original size:11 final size:9
Alignment explanation
Indices: 4840591--4840655 Score: 50
Period size: 8 Copynumber: 7.6 Consensus size: 9
4840581 ACCCATATTA
*
4840591 ATTATTATT
1 ATTATAATT
4840600 A-TATAATAT
1 ATTATAAT-T
4840609 AATTAT-A-T
1 -ATTATAATT
4840617 ATTATAATT
1 ATTATAATT
*
4840626 ATTATAAAT
1 ATTATAATT
*
4840635 -TTATTATT
1 ATTATAATT
4840643 ATTAT-ATT
1 ATTATAATT
4840651 ATTAT
1 ATTAT
4840656 TAAATACAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
7 5 0.11
8 21 0.46
9 15 0.33
10 2 0.04
11 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTATAATT
Found at i:4840656 original size:11 final size:11
Alignment explanation
Indices: 4840586--4840657 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
4840576 TTTTTACCCA
4840586 TATTA-ATTAT
1 TATTATATTAT
4840596 TATTATATAATAT
1 TATTATAT--TAT
*
4840609 AATTATA-TAT
1 TATTATATTAT
*
4840619 TATAATTATTAT
1 TATTA-TATTAT
*
4840631 AAATT-TATTAT
1 -TATTATATTAT
4840642 TATTATATTAT
1 TATTATATTAT
4840653 TATTA
1 TATTA
4840658 AATACAAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
10 14 0.29
11 21 0.43
12 3 0.06
13 11 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TATTATATTAT
Found at i:4841019 original size:17 final size:18
Alignment explanation
Indices: 4840983--4841022 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
4840973 ACAGAGACAA
4840983 AGAAAGACAGAAATACAC
1 AGAAAGACAGAAATACAC
4841001 AGAAAGA-AGAGAA-ACAC
1 AGAAAGACAGA-AATACAC
4841018 AGAAA
1 AGAAA
4841023 TCAAATACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.65, C:0.12, G:0.20, T:0.03
Consensus pattern (18 bp):
AGAAAGACAGAAATACAC
Found at i:4841859 original size:18 final size:18
Alignment explanation
Indices: 4841814--4841860 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
4841804 TTATTTTAAA
4841814 TATATGTTTAGTTGTATTT
1 TATAT-TTTAGTTGTATTT
*
4841833 TATTGTTTTAGTT-TATTGT
1 TA-TATTTTAGTTGTATT-T
4841852 TATATTTTA
1 TATATTTTA
4841861 AATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 10 0.42
19 12 0.50
20 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (18 bp):
TATATTTTAGTTGTATTT
Found at i:4844341 original size:27 final size:27
Alignment explanation
Indices: 4844311--4844366 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
4844301 GTTACGCTAC
* * *
4844311 TGCTACAATATTGTATTATCTCAATAT
1 TGCTACAATACTGTATAATATCAATAT
*
4844338 TGCTACTATACTGTATAATATCAATAT
1 TGCTACAATACTGTATAATATCAATAT
4844365 TG
1 TG
4844367 ATACTACATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (27 bp):
TGCTACAATACTGTATAATATCAATAT
Found at i:4845200 original size:21 final size:24
Alignment explanation
Indices: 4845155--4845204 Score: 70
Period size: 21 Copynumber: 2.2 Consensus size: 24
4845145 ATCAAATACC
4845155 TAAAAATGTCTTTTTAAAGAATAT
1 TAAAAATGTCTTTTTAAAGAATAT
*
4845179 TAAAAATTTC-TTTT-AA-AATAT
1 TAAAAATGTCTTTTTAAAGAATAT
4845200 TAAAA
1 TAAAA
4845205 TATATTGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 10 0.40
22 2 0.08
23 4 0.16
24 9 0.36
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
TAAAAATGTCTTTTTAAAGAATAT
Found at i:4846121 original size:163 final size:161
Alignment explanation
Indices: 4845762--4846176 Score: 405
Period size: 163 Copynumber: 2.6 Consensus size: 161
4845752 TCATAGCTTC
* *
4845762 CCCACACAAAAAGCCATTGCCTTGATTTTTATTTAATATTAAAAATAATATAATATTACATTGCA
1 CCCACACAAAAAGTCATTGCCTTGACTTTTATTTAATATTAAAAATAATATAATATTACATTGCA
* ** * * * * **
4845827 AAAATTCTTTTAAACATTTTTGAATAAAATTGTATCTTTTTATACGAATAGTCCTCAGAAATGCA
66 AAAATTCTTTTAAACA--TATGAATAAAAAGGTATCTTTTTATACAAACAATCCTCAAAAACACA
* *
4845892 CTTCCTTATAGTCGAAAGACTTTTCCATGGATT
129 CTTCCTTATAATCGAAAGACTTTTCCACGGATT
* * * *
4845925 CTCCATACAAAAAGTTATTGTCTTGAC-TTTATTTAATGTTAAAAATAATATAATATTACATTCG
1 C-CCACACAAAAAGTCATTGCCTTGACTTTTATTTAATATTAAAAATAATATAATATTACATT-G
* * *
4845989 AATAAAAATTCTTTTAAA-A-ATGAATAAAAAGGTAT-TTTTTTTACAAACAATTCTCAAAAACA
64 --CAAAAATTCTTTTAAACATATGAATAAAAAGGTATCTTTTTATACAAACAATCCTCAAAAACA
* * * * *
4846051 CACTTCTCTTATAATCGAGATATTTTTTTCACGGGTT
127 CACTTC-CTTATAATCGAAAGA-CTTTTCCACGGATT
* * * * **
4846088 CCCACACAAAAAGTGATTGCCTTGACTTTTATTTAATAATAAAAAT-TTATACTATTATGTT--A
1 CCCACACAAAAAGTCATTGCCTTGACTTTTATTTAATATTAAAAATAATATAATATTACATTGCA
* *
4846150 AAAA-TCTTTAAAACATTTGAATAAAAA
66 AAAATTCTTTTAAACATATGAATAAAAA
4846177 AGGACACCTT
Statistics
Matches: 207, Mismatches: 36, Indels: 23
0.78 0.14 0.09
Matches are distributed among these distances:
156 8 0.04
157 6 0.03
158 10 0.05
161 25 0.12
162 58 0.28
163 63 0.30
164 21 0.10
165 1 0.00
166 15 0.07
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (161 bp):
CCCACACAAAAAGTCATTGCCTTGACTTTTATTTAATATTAAAAATAATATAATATTACATTGCA
AAAATTCTTTTAAACATATGAATAAAAAGGTATCTTTTTATACAAACAATCCTCAAAAACACACT
TCCTTATAATCGAAAGACTTTTCCACGGATT
Found at i:4846518 original size:2 final size:2
Alignment explanation
Indices: 4846506--4846538 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
4846496 ATACATCTAC
4846506 TA TA T- TA TA TA TA TA T- TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4846539 GTGTGTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:4846522 original size:11 final size:11
Alignment explanation
Indices: 4846506--4846538 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
4846496 ATACATCTAC
4846506 TATATTATATA
1 TATATTATATA
4846517 TATATTATATA
1 TATATTATATA
4846528 TATA-TATATA
1 TATATTATATA
4846538 T
1 T
4846539 GTGTGTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 7 0.32
11 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATATTATATA
Found at i:4846843 original size:27 final size:27
Alignment explanation
Indices: 4846799--4846865 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
4846789 CTAAGTATAC
*
4846799 ATAGTATA-TATATATATAAGGCACAA
1 ATAGTTTAGTATATATATAAGGCACAA
4846825 ATAGTTTAGTATATATATAAGGCACAA
1 ATAGTTTAGTATATATATAAGGCACAA
4846852 ATAG-TT-GTATATAT
1 ATAGTTTAGTATATAT
4846866 TGGTGGTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
25 8 0.21
26 9 0.23
27 22 0.56
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (27 bp):
ATAGTTTAGTATATATATAAGGCACAA
Found at i:4847100 original size:15 final size:15
Alignment explanation
Indices: 4847080--4847108 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4847070 TATTGAGTTG
4847080 CTATTGAGTCTTTTT
1 CTATTGAGTCTTTTT
4847095 CTATTGAGTCTTTT
1 CTATTGAGTCTTTT
4847109 ACCATTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
CTATTGAGTCTTTTT
Found at i:4848629 original size:189 final size:189
Alignment explanation
Indices: 4848309--4848688 Score: 760
Period size: 189 Copynumber: 2.0 Consensus size: 189
4848299 TCCCATATTG
4848309 CATAGAAGGTCAACTTTTACACAAGTCACATAGCCATATTATATATTTCAAGTCGTTTCATGCAA
1 CATAGAAGGTCAACTTTTACACAAGTCACATAGCCATATTATATATTTCAAGTCGTTTCATGCAA
4848374 CTTATGAACCTAACACATTCTATGTACATGTCGAAACTTGTTCAAATACATAAAACAGCATTCAA
66 CTTATGAACCTAACACATTCTATGTACATGTCGAAACTTGTTCAAATACATAAAACAGCATTCAA
4848439 AGGCATACGACAACAATTGGGTATACAAGTAATCATAGCATTAAGAACACTTTTGCAAA
131 AGGCATACGACAACAATTGGGTATACAAGTAATCATAGCATTAAGAACACTTTTGCAAA
4848498 CATAGAAGGTCAACTTTTACACAAGTCACATAGCCATATTATATATTTCAAGTCGTTTCATGCAA
1 CATAGAAGGTCAACTTTTACACAAGTCACATAGCCATATTATATATTTCAAGTCGTTTCATGCAA
4848563 CTTATGAACCTAACACATTCTATGTACATGTCGAAACTTGTTCAAATACATAAAACAGCATTCAA
66 CTTATGAACCTAACACATTCTATGTACATGTCGAAACTTGTTCAAATACATAAAACAGCATTCAA
4848628 AGGCATACGACAACAATTGGGTATACAAGTAATCATAGCATTAAGAACACTTTTGCAAA
131 AGGCATACGACAACAATTGGGTATACAAGTAATCATAGCATTAAGAACACTTTTGCAAA
4848687 CA
1 CA
4848689 ACGTTACCAA
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
189 191 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (189 bp):
CATAGAAGGTCAACTTTTACACAAGTCACATAGCCATATTATATATTTCAAGTCGTTTCATGCAA
CTTATGAACCTAACACATTCTATGTACATGTCGAAACTTGTTCAAATACATAAAACAGCATTCAA
AGGCATACGACAACAATTGGGTATACAAGTAATCATAGCATTAAGAACACTTTTGCAAA
Found at i:4849641 original size:193 final size:193
Alignment explanation
Indices: 4849312--4849676 Score: 687
Period size: 193 Copynumber: 1.9 Consensus size: 193
4849302 GCCTAGGTCC
4849312 AAAATCATTGTTTCGGATCAAAGCTCAATGCACCAATCTTACCACAAAATTCTTCTCGAAGCTAA
1 AAAATCATTGTTTCGGATCAAAGCTCAATGCACCAATCTTACCACAAAATTCTTCTCGAAGCTAA
4849377 GCTCAACGCGACAACCTTACCACAAATATTCCCTATCACACACTTATAGAAAACATATATTACTC
66 GCTCAACGCGACAACCTTACCACAAATATTCCCTATCACACACTTATAGAAAACATATATTACTC
*
4849442 TTTCCTAGGTATACCTTTTATATTCAAAGGTCTTATTTAGAAAACATATATCACACACTTATA
131 TTTCCTAGGTATACCTTTCATATTCAAAGGTCTTATTTAGAAAACATATATCACACACTTATA
*
4849505 AAAATCATTGTTTCGGATCAAAGCTCAATGCACCAATCTTACCACAAAATTTTTCTCTG-AGCTA
1 AAAATCATTGTTTCGGATCAAAGCTCAATGCACCAATCTTACCACAAAATTCTTCTC-GAAGCTA
4849569 AGCTCAACGCGACAACCTTACCACAAATATTCCCTATCACACACTTATAGAAAACATATATTACT
65 AGCTCAACGCGACAACCTTACCACAAATATTCCCTATCACACACTTATAGAAAACATATATTACT
*
4849634 CTTTCCTAGGTATGCCTTTCATATTCAAAGGTCTTATTTAGAA
130 CTTTCCTAGGTATACCTTTCATATTCAAAGGTCTTATTTAGAA
4849677 CAATTTCCAA
Statistics
Matches: 168, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
193 167 0.99
194 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (193 bp):
AAAATCATTGTTTCGGATCAAAGCTCAATGCACCAATCTTACCACAAAATTCTTCTCGAAGCTAA
GCTCAACGCGACAACCTTACCACAAATATTCCCTATCACACACTTATAGAAAACATATATTACTC
TTTCCTAGGTATACCTTTCATATTCAAAGGTCTTATTTAGAAAACATATATCACACACTTATA
Found at i:4849933 original size:25 final size:25
Alignment explanation
Indices: 4849905--4849962 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
4849895 CAAGTGTGAC
*
4849905 ATAACA-ATTCACA-AATCACATATCA
1 ATAACATA-TCACATAAGCACAT-TCA
4849930 ATAACATATCACATAAGCACATTCA
1 ATAACATATCACATAAGCACATTCA
4849955 AT-ACATAT
1 ATAACATAT
4849963 TTACGACATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 6 0.20
25 16 0.53
26 8 0.27
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (25 bp):
ATAACATATCACATAAGCACATTCA
Found at i:4852629 original size:22 final size:23
Alignment explanation
Indices: 4852592--4852635 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
4852582 GGTTGAATGG
4852592 TTTATTAATTAGCTATATAAATA
1 TTTATTAATTAGCTATATAAATA
4852615 TTTATTAA-TAGCTATATAAAT
1 TTTATTAATTAGCTATATAAAT
4852636 GTTGATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (23 bp):
TTTATTAATTAGCTATATAAATA
Found at i:4852786 original size:32 final size:31
Alignment explanation
Indices: 4852714--4852821 Score: 117
Period size: 32 Copynumber: 3.4 Consensus size: 31
4852704 GTTATGAACA
* * * * *
4852714 TTTGAGTAGGCTCTCAGGCCCCAGGCATTTC
1 TTTGGGTAGGCTCTAAGGCCCAAGGTAATTC
*
4852745 CTTGGGTAGGCTCTAAGGTCCCAAGGTAATTC
1 TTTGGGTAGGCTCTAAGG-CCCAAGGTAATTC
* * *
4852777 TTTGGGTAGGCTCTTAGGCCCTAAGGTACTCC
1 TTTGGGTAGGCTCTAAGGCCC-AAGGTAATTC
4852809 TTTGGGTAGGCTC
1 TTTGGGTAGGCTC
4852822 GCAGGCCCCA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
31 18 0.28
32 47 0.72
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.31
Consensus pattern (31 bp):
TTTGGGTAGGCTCTAAGGCCCAAGGTAATTC
Found at i:4852828 original size:32 final size:31
Alignment explanation
Indices: 4852714--4852840 Score: 112
Period size: 32 Copynumber: 4.0 Consensus size: 31
4852704 GTTATGAACA
* * * * *
4852714 TTTGAGTAGGCTCTCAGGCCCCAGGCATTTCC
1 TTTGGGTAGGCTCTAAGGCCCAAGGTA-ATCC
*
4852746 -TTGGGTAGGCTCTAAGGTCCCAAGGTAATTC
1 TTTGGGTAGGCTCTAAGG-CCCAAGGTAATCC
* *
4852777 TTTGGGTAGGCTCTTAGGCCCTAAGGTACTCC
1 TTTGGGTAGGCTCTAAGGCCC-AAGGTAATCC
** *
4852809 TTTGGGTAGGCTCGCAGGCCCCAAGATAATCC
1 TTTGGGTAGGCTCTAAGG-CCCAAGGTAATCC
4852841 CTTAGGTTGG
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
31 20 0.26
32 55 0.71
33 3 0.04
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (31 bp):
TTTGGGTAGGCTCTAAGGCCCAAGGTAATCC
Found at i:4853438 original size:31 final size:30
Alignment explanation
Indices: 4853403--4853473 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
4853393 TTGGATAGTG
4853403 TTGAATTTTATTTTAATATATAAATGATTTT
1 TTGAATTTTATTTT-ATATATAAATGATTTT
* * *
4853434 TTGAACTTGTATTTTATCTATAAATTATTTT
1 TTGAA-TTTTATTTTATATATAAATGATTTT
*
4853465 AT-AATTTTA
1 TTGAATTTTA
4853474 AATAGATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
29 4 0.12
30 2 0.06
31 20 0.59
32 8 0.24
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.58
Consensus pattern (30 bp):
TTGAATTTTATTTTATATATAAATGATTTT
Found at i:4854794 original size:2 final size:2
Alignment explanation
Indices: 4854787--4854821 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4854777 AGCATATAAC
4854787 AT AT 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 AT AT A
4854822 ATGCACATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4854821 original size:80 final size:82
Alignment explanation
Indices: 4854723--4854893 Score: 251
Period size: 80 Copynumber: 2.1 Consensus size: 82
4854713 CTATTTTCCA
* * *
4854723 ATATATATATATATATATAA-GTCACATATGACATTTAAATATAGTGGAATTGTAAGCATA-TA-
1 ATATATATATATATATATAATG-CACATATGACATTTAAACATAATGGAATAGTAAGCATACTAT
*
4854785 ACATATATATATATATAT
65 ACATATATATATATAAAT
4854803 ATATATATATATATATATAATGCACATATGACATTTAAACATAATGGAATAGTAAGCATACTATA
1 ATATATATATATATATATAATGCACATATGACATTTAAACATAATGGAATAGTAAGCATACTATA
* *
4854868 CATGTGTATATATAAAT
66 CATATATATATATAAAT
4854885 ATATA-ATAT
1 ATATATATAT
4854894 GCATATAAGG
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
80 55 0.67
81 7 0.09
82 20 0.24
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (82 bp):
ATATATATATATATATATAATGCACATATGACATTTAAACATAATGGAATAGTAAGCATACTATA
CATATATATATATAAAT
Found at i:4855650 original size:115 final size:115
Alignment explanation
Indices: 4855448--4855661 Score: 419
Period size: 115 Copynumber: 1.9 Consensus size: 115
4855438 ATTAAAAACA
*
4855448 TGTTGGAAAAGTAGTGTGATTCTTGGTTTGGAGTGTTCTTTAGAGAAATTGGATATTATATGAAG
1 TGTTGGAAAAGTAGTGTGATTCTTGGTTTGGAGTGTTCTTTAGAGAAATTGGATATTATAGGAAG
4855513 ATTAATAAAGGAAAGTTAGTTGGGTTAAGTGATGTTAAGTTTAAGGGTAT
66 ATTAATAAAGGAAAGTTAGTTGGGTTAAGTGATGTTAAGTTTAAGGGTAT
4855563 TGTTGGAAAAGTAGTGTGATTCTTGGTTTGGAGTGTTCTTTAGAGAAATTGGATATTATAGGAAG
1 TGTTGGAAAAGTAGTGTGATTCTTGGTTTGGAGTGTTCTTTAGAGAAATTGGATATTATAGGAAG
4855628 ATTAATAAAGGAAAGTTAGTTGGGTTAAGTGATG
66 ATTAATAAAGGAAAGTTAGTTGGGTTAAGTGATG
4855662 AATTGTAATA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 98 1.00
ACGTcount: A:0.31, C:0.02, G:0.29, T:0.37
Consensus pattern (115 bp):
TGTTGGAAAAGTAGTGTGATTCTTGGTTTGGAGTGTTCTTTAGAGAAATTGGATATTATAGGAAG
ATTAATAAAGGAAAGTTAGTTGGGTTAAGTGATGTTAAGTTTAAGGGTAT
Found at i:4856140 original size:12 final size:12
Alignment explanation
Indices: 4856103--4856176 Score: 62
Period size: 12 Copynumber: 5.9 Consensus size: 12
4856093 ACATGAAATC
4856103 AATATA-AT-AT
1 AATATATATAAT
* *
4856113 AATATGTATAAA
1 AATATATATAAT
*
4856125 AATATATTTAAT
1 AATATATATAAT
4856137 AATATAGTATAAGGT
1 AATATA-TATAA--T
4856152 AATATATATATAT
1 AATATATATA-AT
4856165 ATATATATATAA
1 A-ATATATATAA
4856177 AGTAATACAC
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
10 5 0.10
11 2 0.04
12 16 0.31
13 7 0.14
14 13 0.25
15 8 0.16
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (12 bp):
AATATATATAAT
Found at i:4864385 original size:110 final size:111
Alignment explanation
Indices: 4864191--4864411 Score: 408
Period size: 110 Copynumber: 2.0 Consensus size: 111
4864181 ATTACAAAAA
* *
4864191 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
4864256 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
4864302 TTAATTCTTAATCTAATAATCATGCATTAAATAAAT-AACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
4864366 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
4864412 ATGATTTCCA
Statistics
Matches: 107, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
110 72 0.67
111 35 0.33
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:4864548 original size:12 final size:10
Alignment explanation
Indices: 4864534--4864574 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
4864524 ACCTTAAAAA
*
4864534 GAGAGTATTT
1 GAGAGAATTT
4864544 GAGAGAAATTT
1 GAGAG-AATTT
4864555 -AGAGAATTT
1 GAGAGAATTT
4864564 GAGAGAATTT
1 GAGAGAATTT
4864574 G
1 G
4864575 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:4866242 original size:22 final size:22
Alignment explanation
Indices: 4866217--4866270 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
4866207 ATGTCATATA
* *
4866217 ATTTTTTAAAACATTATTTTAT
1 ATTTTTTAAAACAATATGTTAT
* *
4866239 ATTTATTAAAAGAATATGTTAT
1 ATTTTTTAAAACAATATGTTAT
*
4866261 ATTTTATAAA
1 ATTTTTTAAA
4866271 TAGATTATCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (22 bp):
ATTTTTTAAAACAATATGTTAT
Found at i:4868234 original size:14 final size:15
Alignment explanation
Indices: 4868217--4868251 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4868207 AATTAACATT
4868217 AAAAATAAT-TAAAA
1 AAAAATAATATAAAA
4868231 AAAAATAATATAAAA
1 AAAAATAATATAAAA
*
4868246 ATAAAT
1 AAAAAT
4868252 CAAAACTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAATAATATAAAA
Found at i:4873540 original size:20 final size:19
Alignment explanation
Indices: 4873515--4873565 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
4873505 AGTGAACTCG
4873515 GTATCGATACC-ACCCTACGA
1 GTATCGATACCTA-CCTA-GA
*
4873535 GTATCGATACTCTACCTATA
1 GTATCGATAC-CTACCTAGA
4873555 GTATCGATACC
1 GTATCGATACC
4873566 CATTGAAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 21 0.75
21 5 0.18
22 1 0.04
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.27
Consensus pattern (19 bp):
GTATCGATACCTACCTAGA
Found at i:4876604 original size:21 final size:21
Alignment explanation
Indices: 4876575--4876617 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4876565 ATATAAATTA
*
4876575 TGTATCGATGCACTGCTACAG
1 TGTACCGATGCACTGCTACAG
4876596 TGTACCGATGCACTGCTACAG
1 TGTACCGATGCACTGCTACAG
4876617 T
1 T
4876618 AACTTCAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (21 bp):
TGTACCGATGCACTGCTACAG
Found at i:4876998 original size:2 final size:2
Alignment explanation
Indices: 4876991--4877063 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
4876981 GCACATATGC
4876991 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4877033 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
4877064 CAATCATTAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4878766 original size:17 final size:17
Alignment explanation
Indices: 4878744--4878776 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4878734 ACGGTTGAAG
4878744 AAGAAGAAGAAAGGAAC
1 AAGAAGAAGAAAGGAAC
4878761 AAGAAGAAGAAAGGAA
1 AAGAAGAAGAAAGGAA
4878777 GAATTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.30, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAAGGAAC
Found at i:4888629 original size:20 final size:19
Alignment explanation
Indices: 4888604--4888657 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
4888594 GACCAACAAA
4888604 TTCGCAATGCGAATTCCAAT
1 TTCGCAA-GCGAATTCCAAT
* * *
4888624 TTCGCAACCCAGTTTCCAAT
1 TTCGCAAGCGA-ATTCCAAT
4888644 TTCGCAACGCGAAT
1 TTCGCAA-GCGAAT
4888658 ATGTAAATCA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (19 bp):
TTCGCAAGCGAATTCCAAT
Found at i:4888694 original size:41 final size:41
Alignment explanation
Indices: 4888636--4888745 Score: 184
Period size: 41 Copynumber: 2.7 Consensus size: 41
4888626 CGCAACCCAG
*
4888636 TTTCCAATTTCGCAACGCGAATATGTAAATCACATTGTGAT
1 TTTCCAAATTCGCAACGCGAATATGTAAATCACATTGTGAT
*
4888677 TTTCCAAATTCGTAACGCGAATATGTAAATCACATTGTGAT
1 TTTCCAAATTCGCAACGCGAATATGTAAATCACATTGTGAT
* *
4888718 TTTCCAAATTCGCAACGTGAATTTGTAA
1 TTTCCAAATTCGCAACGCGAATATGTAA
4888746 TTCGCAACGC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (41 bp):
TTTCCAAATTCGCAACGCGAATATGTAAATCACATTGTGAT
Found at i:4888767 original size:20 final size:20
Alignment explanation
Indices: 4888744--4888786 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
4888734 GTGAATTTGT
*
4888744 AATTCGCAACGCGATAGTCA
1 AATTCGCAACGCGAAAGTCA
*
4888764 AATTTGCAACGCGAAAGTCA
1 AATTCGCAACGCGAAAGTCA
4888784 AAT
1 AAT
4888787 GTTTTTACGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (20 bp):
AATTCGCAACGCGAAAGTCA
Found at i:4888943 original size:22 final size:22
Alignment explanation
Indices: 4888918--4888960 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4888908 GGCGACATCC
4888918 GTCCCCATCTCCGACGAAATCT
1 GTCCCCATCTCCGACGAAATCT
* * *
4888940 GTCCCTATTTTCGACGAAATC
1 GTCCCCATCTCCGACGAAATC
4888961 CGTCTATCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCT
Found at i:4889258 original size:19 final size:19
Alignment explanation
Indices: 4889234--4889277 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
4889224 TCACAACGCG
*
4889234 AAAATCGCAATGCGAAACT
1 AAAATCGCAACGCGAAACT
4889253 AAAATCGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
4889272 AAAATC
1 AAAATC
4889278 ACGTTACGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.50, C:0.23, G:0.14, T:0.14
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Found at i:4889318 original size:19 final size:19
Alignment explanation
Indices: 4889279--4889344 Score: 105
Period size: 19 Copynumber: 3.4 Consensus size: 19
4889269 ACTAAAATCA
*
4889279 CGTTACGATTTTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
4889299 CATTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
4889318 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
4889337 CGTTGCGA
1 CGTTGCGA
4889345 ATTTAAGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
19 31 0.72
20 12 0.28
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:4891677 original size:20 final size:21
Alignment explanation
Indices: 4891638--4891677 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4891628 ATGTCACGAG
4891638 AAACACACATATCATTATATCA
1 AAACACACATAT-ATTATATCA
*
4891660 AAACATACATAT-TTATAT
1 AAACACACATATATTATAT
4891678 ACAATCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (21 bp):
AAACACACATATATTATATCA
Found at i:4891973 original size:23 final size:23
Alignment explanation
Indices: 4891908--4891976 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
4891898 CACCACAGCT
*
4891908 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * * *
4891931 CGTAGAATTGTATCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
4891954 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
4891977 TATAATAATG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:4892870 original size:74 final size:74
Alignment explanation
Indices: 4892749--4892909 Score: 295
Period size: 74 Copynumber: 2.2 Consensus size: 74
4892739 CCGGGCAAAA
*
4892749 TCCGGGTACCCGATTACCGGGTACCCGTAACATCCGGGTCGGGACACGGGCCGAGAAATCGTCGA
1 TCCGGGTACCCGATTACCAGGTACCCGTAACATCCGGGTCGGGACACGGGCCGAGAAATCGTCGA
4892814 CCCGGAAGT
66 CCCGGAAGT
4892823 TCCGGGTACCCGATTACCAGGTACCCGTAACATCCGGGTCGGGACACGGGCCGAGAAATCGTCGA
1 TCCGGGTACCCGATTACCAGGTACCCGTAACATCCGGGTCGGGACACGGGCCGAGAAATCGTCGA
*
4892888 CTCGGAAGT
66 CCCGGAAGT
*
4892897 TTCGGGTACCCGA
1 TCCGGGTACCCGA
4892910 AAATCGTGTA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 84 1.00
ACGTcount: A:0.22, C:0.30, G:0.32, T:0.16
Consensus pattern (74 bp):
TCCGGGTACCCGATTACCAGGTACCCGTAACATCCGGGTCGGGACACGGGCCGAGAAATCGTCGA
CCCGGAAGT
Found at i:4892950 original size:16 final size:15
Alignment explanation
Indices: 4892898--4892954 Score: 96
Period size: 15 Copynumber: 3.7 Consensus size: 15
4892888 CTCGGAAGTT
4892898 TCGGGTACCCGAAAA
1 TCGGGTACCCGAAAA
*
4892913 TCGTGTACCCGAAAA
1 TCGGGTACCCGAAAA
4892928 TCGGGTACCCGAAAA
1 TCGGGTACCCGAAAA
4892943 TCCGGGTACCCG
1 T-CGGGTACCCG
4892955 GATTTGCACA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 29 0.74
16 10 0.26
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (15 bp):
TCGGGTACCCGAAAA
Found at i:4894042 original size:21 final size:21
Alignment explanation
Indices: 4894018--4894062 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
4894008 TTTTGTTCGT
*
4894018 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
4894039 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
4894060 TTG
1 TTG
4894063 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:4894990 original size:16 final size:16
Alignment explanation
Indices: 4894951--4894993 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
4894941 ATCATCAGTT
*
4894951 CTTATCACTCAAAATC
1 CTTATCAATCAAAATC
* *
4894967 ATTAATCAATCAAATTC
1 CTT-ATCAATCAAAATC
4894984 CTTATCAATC
1 CTTATCAATC
4894994 TTTAATTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
CTTATCAATCAAAATC
Found at i:4897644 original size:23 final size:23
Alignment explanation
Indices: 4897618--4897686 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
4897608 CACCACAGCT
* *
4897618 CGTATAAATACACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * * *
4897641 CGTAGAATTGTATCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
4897664 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
4897687 TATAATAATG
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:4898716 original size:2 final size:2
Alignment explanation
Indices: 4898705--4898775 Score: 135
Period size: 2 Copynumber: 36.0 Consensus size: 2
4898695 CATTTAATAC
4898705 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4898746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4898776 CACATATACC
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 67 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4899182 original size:21 final size:21
Alignment explanation
Indices: 4899158--4899202 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4899148 TTTTGTTCGT
* *
4899158 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
4899179 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
4899200 TTG
1 TTG
4899203 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:4900297 original size:42 final size:42
Alignment explanation
Indices: 4900250--4900349 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
4900240 GCCCGATGCA
* * *
4900250 CCTATCATCATTCAAGAGGCGCCTC-CTATCGTTAAAGAGGCC
1 CCTATCATCATTCAAGAAGCCCCTCTC-ACCGTTAAAGAGGCC
*
4900292 CCTATCATCA-TCGAAGAAGCCCCTCTCACCGTTCAAGAGGCC
1 CCTATCATCATTC-AAGAAGCCCCTCTCACCGTTAAAGAGGCC
* *
4900334 CCTGTCATCGTTCAAG
1 CCTATCATCATTCAAG
4900350 TGGTCCCGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.04
42 44 0.90
43 3 0.06
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCATTCAAGAAGCCCCTCTCACCGTTAAAGAGGCC
Found at i:4900308 original size:21 final size:21
Alignment explanation
Indices: 4900250--4900349 Score: 62
Period size: 21 Copynumber: 4.8 Consensus size: 21
4900240 GCCCGATGCA
*
4900250 CCTATCATC-ATTCAAGAGGCG
1 CCTATCATCGA-TCAAGAGGCC
* * *
4900271 CCT-CCTATCGTTAAAGAGGCC
1 CCTATC-ATCGATCAAGAGGCC
*
4900292 CCTATCATC-ATCGAAGAAGCC
1 CCTATCATCGATC-AAGAGGCC
* * *
4900313 CCTCTCACCGTTCAAGAGGCC
1 CCTATCATCGATCAAGAGGCC
* *
4900334 CCTGTCATCGTTCAAG
1 CCTATCATCGATCAAG
4900350 TGGTCCCGCC
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
20 2 0.03
21 55 0.92
22 3 0.05
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (21 bp):
CCTATCATCGATCAAGAGGCC
Found at i:4901819 original size:14 final size:14
Alignment explanation
Indices: 4901800--4901839 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4901790 TTTTGATTAA
4901800 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
4901814 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
4901828 TTGATTTGTAAA
1 TTGATTTGTAAA
4901840 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:4901832 original size:61 final size:66
Alignment explanation
Indices: 4901749--4901889 Score: 177
Period size: 66 Copynumber: 2.2 Consensus size: 66
4901739 TTTTACATTG
4901749 AAAGTTGATTTG-TTACAATTGATGAGGAAATAAG-A-T-TTATTTT-TTGATTAATTGATTTGT
1 AAAGTTGATTTGTTTACAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGT
4901809 A
66 A
* ** * * *
4901810 AAAGTTGATTTGTTTA-ATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTG
1 AAAGTTGATTTGTTTACAATTGATGAGGAAATAAGAATTATTATTTT-CTTGATTAATTGATTTG
4901874 TA
65 TA
4901876 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
4901890 GTTTCTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
61 26 0.38
62 4 0.06
63 1 0.01
64 6 0.09
66 31 0.46
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.50
Consensus pattern (66 bp):
AAAGTTGATTTGTTTACAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGT
A
Found at i:4902281 original size:39 final size:39
Alignment explanation
Indices: 4902227--4902313 Score: 149
Period size: 39 Copynumber: 2.2 Consensus size: 39
4902217 TCAAGTTGTA
*
4902227 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGA-TTTG
1 GATTTTGATTTCCTTTTGCTAGGCACCATATG-GACTTTG
4902266 GATTTTGATTTCCTTTTGCTAGGCACCATATGGACTTTG
1 GATTTTGATTTCCTTTTGCTAGGCACCATATGGACTTTG
4902305 GATTTTGAT
1 GATTTTGAT
4902314 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
38 2 0.04
39 44 0.96
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.46
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTAGGCACCATATGGACTTTG
Found at i:4902344 original size:35 final size:35
Alignment explanation
Indices: 4902297--4902380 Score: 82
Period size: 35 Copynumber: 2.4 Consensus size: 35
4902287 GGCACCATAT
*
4902297 GGACTT-TGGATTTTGATGAGCA-TCGGAAGCATTTC
1 GGACTTAT-GATTTTGATG-GCACTCAGAAGCATTTC
* * *
4902332 GGACTTATGATTTGGGTGGTACTCAGAAGCATTTC
1 GGACTTATGATTTTGATGGCACTCAGAAGCATTTC
* *
4902367 AGACTTATTATTTT
1 GGACTTATGATTTT
4902381 TGTTATTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
34 2 0.05
35 37 0.93
36 1 0.03
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (35 bp):
GGACTTATGATTTTGATGGCACTCAGAAGCATTTC
Found at i:4902644 original size:18 final size:18
Alignment explanation
Indices: 4902621--4902657 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4902611 ATAAATTTAT
4902621 ATTGAAATTCAAAATCAA
1 ATTGAAATTCAAAATCAA
* *
4902639 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAAATCAA
4902657 A
1 A
4902658 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAAATCAA
Found at i:4903075 original size:25 final size:25
Alignment explanation
Indices: 4903041--4903090 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4903031 ATTATTTTTC
*
4903041 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
4903066 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
4903091 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:4903174 original size:20 final size:20
Alignment explanation
Indices: 4903151--4903192 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
4903141 AGACCTATTG
*
4903151 AAGGTAAATTCGCAACGTGA
1 AAGGTAAATTCGCAACGCGA
4903171 AAGGTAAATTCGCAACGCGA
1 AAGGTAAATTCGCAACGCGA
4903191 AA
1 AA
4903193 TAAGCGTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGGTAAATTCGCAACGCGA
Found at i:4903262 original size:20 final size:20
Alignment explanation
Indices: 4903201--4903262 Score: 88
Period size: 20 Copynumber: 3.1 Consensus size: 20
4903191 AATAAGCGTT
4903201 GCGATAGTCAAATTTGCAAC
1 GCGATAGTCAAATTTGCAAC
* * * *
4903221 ACGAAAGTCAAATTCGCTAC
1 GCGATAGTCAAATTTGCAAC
4903241 GCGATAGTCAAATTTGCAAC
1 GCGATAGTCAAATTTGCAAC
4903261 GC
1 GC
4903263 TTATTTCGCG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
GCGATAGTCAAATTTGCAAC
Found at i:4905915 original size:24 final size:24
Alignment explanation
Indices: 4905881--4905934 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4905871 CCATCACATC
4905881 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
4905905 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
4905929 ATCAAA
1 ATCAAA
4905935 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:4906846 original size:19 final size:19
Alignment explanation
Indices: 4906822--4906907 Score: 68
Period size: 19 Copynumber: 4.4 Consensus size: 19
4906812 ACTAAAACCT
4906822 GTTGCGAAATTAAATTCGC
1 GTTGCGAAATTAAATTCGC
* *
4906841 GTTGCGAATTTGAAATTC-A
1 GTTGCGAAATT-AAATTCGC
*
4906860 GTTGCGATTAA-CAAATTCGC
1 GTTGCGA--AATTAAATTCGC
* * *
4906880 GTTGCGAATTTGACTTCCGC
1 GTTGCGAAATTAAATT-CGC
4906900 GTTGCGAA
1 GTTGCGAA
4906908 TTTGGCTTCC
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
18 1 0.02
19 26 0.50
20 24 0.46
21 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (19 bp):
GTTGCGAAATTAAATTCGC
Found at i:4906858 original size:20 final size:20
Alignment explanation
Indices: 4906822--4907071 Score: 121
Period size: 20 Copynumber: 12.6 Consensus size: 20
4906812 ACTAAAACCT
*
4906822 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGC
*
4906841 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
**
4906860 GTTGCG-ATTAACAAATTCGC
1 GTTGCGAATT-TGAAATTCGC
*
4906880 GTTGCGAATTTG-ACTTCCGC
1 GTTGCGAATTTGAAATT-CGC
**
4906900 GTTGCGAATTTG-GCTTCCGC
1 GTTGCGAATTTGAAATT-CGC
**
4906920 GTTGCGAATTTG-GCTTC-C
1 GTTGCGAATTTGAAATTCGC
*
4906938 ATGTTGCGAATTTG-ACTATCGC
1 --GTTGCGAATTTGAAAT-TCGC
*** *
4906960 AACGCGAATTTGGAAAATCGC
1 GTTGCGAATTT-GAAATTCGC
**
4906981 AATGCG-ATTT-ACATATTCGC
1 GTTGCGAATTTGA-A-ATTCGC
* * *
4907001 GTTGCGAAATTAGAAACT-GG
1 GTTGCG-AATTTGAAATTCGC
*
4907021 GTTGCGAAATT-AGAATTCGC
1 GTTGCGAATTTGA-AATTCGC
*
4907041 GTTGCGAATTTGAGA-TCGC
1 GTTGCGAATTTGAAATTCGC
4907060 GTTGCGAATTTG
1 GTTGCGAATTTG
4907072 TTGATCATTT
Statistics
Matches: 184, Mismatches: 28, Indels: 38
0.74 0.11 0.15
Matches are distributed among these distances:
18 6 0.03
19 49 0.27
20 104 0.57
21 18 0.10
22 6 0.03
23 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:4913513 original size:13 final size:13
Alignment explanation
Indices: 4913495--4913519 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4913485 TTTTTAAAAA
4913495 TAAAATCAAATTT
1 TAAAATCAAATTT
4913508 TAAAATCAAATT
1 TAAAATCAAATT
4913520 CAAGGAGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAATCAAATTT
Found at i:4913849 original size:2 final size:2
Alignment explanation
Indices: 4913842--4913874 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4913832 TTGAAAATCA
4913842 AT 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 AT A
4913875 GAGAGAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4913879 original size:2 final size:2
Alignment explanation
Indices: 4913874--4913906 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4913864 ATATATATAT
4913874 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4913907 TTCACACTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4914125 original size:12 final size:12
Alignment explanation
Indices: 4914108--4914138 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
4914098 TTTCATTTAG
4914108 TAATTTTGAAAA
1 TAATTTTGAAAA
4914120 TAATTTTGAAAA
1 TAATTTTGAAAA
4914132 TATATTT
1 TA-ATTT
4914139 ATAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (12 bp):
TAATTTTGAAAA
Found at i:4914164 original size:32 final size:33
Alignment explanation
Indices: 4914102--4914164 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
4914092 TTTAACTTTC
* *
4914102 ATTTAGTAATTTTGAAAATAATTTTGAAAATAT
1 ATTTAGTAATTTTAAAAATAATTGTGAAAATAT
4914135 ATTTA-TAATTTTAAAAATAACTTGT-AAAAT
1 ATTTAGTAATTTTAAAAATAA-TTGTGAAAAT
4914165 TTTATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (33 bp):
ATTTAGTAATTTTAAAAATAATTGTGAAAATAT
Found at i:4925129 original size:34 final size:34
Alignment explanation
Indices: 4925086--4925152 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
4925076 AAGAGGAATT
*
4925086 CCCTGATGAGAAAACTTTATTTGCCGCGAAAATC
1 CCCTGATGAGAAAACTTTATTTGCCGCAAAAATC
*
4925120 CCCTGATGAGAAAATTTTATTTGCCGCAAAAAT
1 CCCTGATGAGAAAACTTTATTTGCCGCAAAAAT
4925153 TCCATGGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (34 bp):
CCCTGATGAGAAAACTTTATTTGCCGCAAAAATC
Found at i:4942423 original size:20 final size:20
Alignment explanation
Indices: 4942398--4942471 Score: 76
Period size: 20 Copynumber: 3.4 Consensus size: 20
4942388 TATGGTCTCT
4942398 TTTCATGCCTTAATGCATCC
1 TTTCATGCCTTAATGCATCC
*
4942418 TTTCATGCATTTTAGTTATGGCATCC
1 TTTCATGC--CTTA---AT-GCATCC
4942444 TTTCATGCCTTAATGCATCC
1 TTTCATGCCTTAATGCATCC
*
4942464 GTTCATGC
1 TTTCATGC
4942472 ATTTTTAGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
20 21 0.47
21 2 0.04
22 3 0.07
24 3 0.07
25 2 0.04
26 14 0.31
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.42
Consensus pattern (20 bp):
TTTCATGCCTTAATGCATCC
Found at i:4942496 original size:47 final size:47
Alignment explanation
Indices: 4942385--4942975 Score: 907
Period size: 47 Copynumber: 12.6 Consensus size: 47
4942375 CGTAAATTTC
* *
4942385 AGTTATGGTC-TCTTTTCATGCCTTAATGCATCCTTTCATGCA-TTTT
1 AGTTATGG-CATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
4942431 AGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
1 AGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
* * *
4942478 AGTTATGGCATCTTTTCATGCCTTAATGCATTCGTTCATGCACTTTT
1 AGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
* * *
4942525 AGTTATGGCATCATTTCATGCCTTAATGCATCTGTTCCTGCATTTTT
1 AGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
* *
4942572 AGTTATGGCATCATTTCATGCCTTAATGCATCCGTTCCTGCATTTTT
1 AGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
* * * *
4942619 AGTTATGGTATCCTTTCACGCCTTAATGCATTCGTTCATTCATTTTT
1 AGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
* * *
4942666 ATTTATGGCATCCTCTCATGCCTTAATGCATTCGTTCATGCATTTTT
1 AGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
**
4942713 AGTTATGGCATCCTTTCATGCCTTAATGCATTTGTTCATGCATTTTT
1 AGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
* *
4942760 AGTTATGGCATCCTTTCATGCCTTAATGCATCTGTTTATGCATTTTT
1 AGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
* *
4942807 AGTTATGACATCTTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
1 AGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
*
4942854 AGTTATGGCATCCTTTCATGGCTTAATGCATCCGTTCATGCATTTTT
1 AGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
* * *
4942901 AGTTATGACATCTTTTCATGCCTTAATGTATCCGTTCATGCATTTTT
1 AGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
*
4942948 AGTTATGGCATCATTTCATGCCTTAATG
1 AGTTATGGCATCCTTTCATGCCTTAATG
4942976 ATAACATAAT
Statistics
Matches: 503, Mismatches: 40, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 38 0.08
47 464 0.92
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (47 bp):
AGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTT
Found at i:4942543 original size:27 final size:27
Alignment explanation
Indices: 4942512--4942592 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
4942502 AATGCATTCG
4942512 TTCATGCACTTTTAGTTATGGCATCAT
1 TTCATGCACTTTTAGTTATGGCATCAT
4942539 TTCATGC-C--TTA---AT-GCATC-T
1 TTCATGCACTTTTAGTTATGGCATCAT
* *
4942558 GTTCCTGCATTTTTAGTTATGGCATCAT
1 -TTCATGCACTTTTAGTTATGGCATCAT
4942586 TTCATGC
1 TTCATGC
4942593 CTTAATGCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
19 1 0.02
20 11 0.26
21 2 0.05
23 3 0.07
24 3 0.07
26 3 0.07
27 18 0.43
28 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (27 bp):
TTCATGCACTTTTAGTTATGGCATCAT
Found at i:4942844 original size:20 final size:20
Alignment explanation
Indices: 4942821--4942894 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
4942811 ATGACATCTT
4942821 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATCCG
* *
4942841 TTCATGCATTTTTAGTTATGGCATCCT
1 TTCATGC---CTTA---AT-GCATCCG
*
4942868 TTCATGGCTTAATGCATCCG
1 TTCATGCCTTAATGCATCCG
4942888 TTCATGC
1 TTCATGC
4942895 ATTTTTAGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
20 19 0.46
21 2 0.05
23 3 0.07
24 3 0.07
26 2 0.05
27 12 0.29
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (20 bp):
TTCATGCCTTAATGCATCCG
Found at i:4952283 original size:19 final size:20
Alignment explanation
Indices: 4952259--4952309 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
4952249 AATGACCAAT
4952259 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
4952278 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
4952298 AAAATCGCAACG
1 AAAATCGCAACG
4952310 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:4952319 original size:20 final size:20
Alignment explanation
Indices: 4952296--4952349 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
4952286 AACGCGATTT
*
4952296 AGAAAATCGCAACGTTAAAA
1 AGAAAATCGCAACGGTAAAA
*
4952316 AGAAAATCGCAACGGTCAAA
1 AGAAAATCGCAACGGTAAAA
4952336 AGAAAATCGCAACG
1 AGAAAATCGCAACG
4952350 CGAGCTTCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.11
Consensus pattern (20 bp):
AGAAAATCGCAACGGTAAAA
Found at i:4952409 original size:20 final size:20
Alignment explanation
Indices: 4952384--4952634 Score: 313
Period size: 20 Copynumber: 12.4 Consensus size: 20
4952374 TTTAGAAGAA
*
4952384 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGAGAG
* *
4952404 AATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAG
* *
4952424 AATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAG
4952444 AATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAG
* * *
4952464 AGTCGCAACGCGATTTAGAAGAA
1 AATCGCAATGCGA-TT-G-AGAG
*
4952487 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAG
*
4952507 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAG
* *
4952527 AATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAG
4952547 AATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAG
* * *
4952567 AATCGCAACGCGATTTATAG
1 AATCGCAATGCGATTGAGAG
4952587 AATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAG
* * *
4952607 AATCGCAACGCGATTTAGAA
1 AATCGCAATGCGATTGAGAG
4952627 AATCGCAA
1 AATCGCAA
4952635 CGGTCAAAAG
Statistics
Matches: 204, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
20 185 0.91
21 3 0.01
22 2 0.01
23 14 0.07
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (20 bp):
AATCGCAATGCGATTGAGAG
Found at i:4952495 original size:103 final size:103
Alignment explanation
Indices: 4952363--4952634 Score: 442
Period size: 103 Copynumber: 2.7 Consensus size: 103
4952353 GCTTCCAAGT
* *
4952363 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAGAGAATC
*
4952428 GCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAG
66 GCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAA
* * *
4952466 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAGAGAATC
4952531 GCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAA
66 GCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAA
* * *
4952569 TCGCAACGCGATTTA-TAG--AATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAGAGAATC
4952631 GCAA
66 GCAA
4952635 CGGTCAAAAG
Statistics
Matches: 157, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
100 43 0.27
102 2 0.01
103 112 0.71
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (103 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAGAGAATC
GCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAA
Found at i:4952647 original size:38 final size:39
Alignment explanation
Indices: 4952259--4952647 Score: 148
Period size: 40 Copynumber: 9.6 Consensus size: 39
4952249 AATGACCAAT
*
4952259 AAAATCGCAACGCGAT-ATCAA-AATCGCAACGCGATTTAG
1 AAAATCGCAA-GCGATCA-AAAGAATCGCAACGCGATTTAG
* * **
4952298 AAAATCGCAA-CGTTAAAAAGAAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAAGCGATCAAAAG--AATCGCAACGCGAT--TTAG
* *
4952338 AAAATCGCAACGCGAGCTTC-CAAG-TTCGCAACGCGATTTAGAAG
1 AAAATCGCAA-GCGA---TCAAAAGAATCGCAACGCGATTT---AG
** * * *
4952382 AAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTAT
1 AAAATCGCAA-GCGATCAAAAGAATCGCAACGCGATTTAG
* ** * * *
4952422 AGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAG
1 AAAATCGCAA-GCGATCAAAAGAATCGCAACGCGATTTAG
* * * * * * *
4952462 AGAGTCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAG
1 AAAATCGCAA-GCGA-TCA-AA-AGAATCGCAACGCGATTTAG
* * * * *
4952505 AGAATCGCAATGCGA-CTGAGAGAATCGCAATGCGATTTAT
1 AAAATCGCAA-GCGATC-AAAAGAATCGCAACGCGATTTAG
* ** * *
4952545 AGAATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAT
1 AAAATCGCAA-GCGATCAAAAGAATCGCAACGCGATTTAG
* ** *
4952585 AGAATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAG
1 AAAATCGCAA-GCGATCAAAAGAATCGCAACGCGATTTAG
*
4952625 AAAATCGCAA-CGGTCAAAAGAAT
1 AAAATCGCAAGCGATCAAAAGAAT
4952648 AGTTAAAAAA
Statistics
Matches: 283, Mismatches: 44, Indels: 47
0.76 0.12 0.13
Matches are distributed among these distances:
37 5 0.02
38 11 0.04
39 11 0.04
40 173 0.61
41 12 0.04
42 6 0.02
43 45 0.16
44 19 0.07
45 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.20
Consensus pattern (39 bp):
AAAATCGCAAGCGATCAAAAGAATCGCAACGCGATTTAG
Found at i:4952735 original size:6 final size:6
Alignment explanation
Indices: 4952724--4952766 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
4952714 GACACGTATT
4952724 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
4952767 GACGGCGGCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4953475 original size:6 final size:6
Alignment explanation
Indices: 4953449--4953544 Score: 171
Period size: 6 Copynumber: 16.5 Consensus size: 6
4953439 TCTCGTCTCG
4953449 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
4953494 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
4953542 GGT
1 GGT
4953545 AATACGTGTC
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 15 0.17
6 75 0.83
ACGTcount: A:0.00, C:0.17, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:4953641 original size:20 final size:20
Alignment explanation
Indices: 4953616--4953655 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4953606 TTTTTAACTA
*
4953616 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
4953636 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
4953656 CTCTCAATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.17, G:0.17, T:0.53
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:4953671 original size:20 final size:20
Alignment explanation
Indices: 4953648--4953798 Score: 203
Period size: 20 Copynumber: 7.4 Consensus size: 20
4953638 CTTTTTAACG
4953648 TTGCGATTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCA
*
4953668 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCA
*
4953688 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCA
* *
4953708 TTGCGATTTTCTTCTAAATCGCG
1 TTGCGA--TTC-TCTCAATCGCA
*
4953731 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCA
* *
4953751 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTCAATCGCA
*
4953771 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTCTCAATCGCA
4953791 TTGCGATT
1 TTGCGATT
4953799 TTCTTCTAAA
Statistics
Matches: 117, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
20 98 0.84
21 2 0.02
22 3 0.03
23 14 0.12
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTCTCAATCGCA
Found at i:4953672 original size:40 final size:41
Alignment explanation
Indices: 4953628--4953811 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 41
4953618 CTTTTGACCG
* *
4953628 TTGCGATTTTCTTTTTAA-CGTTGCGATTCTCTCAATCGCA
1 TTGCGATTTTCTTATAAATCGTTGCGATTCTCTCAATCGCA
* * * *
4953668 TTGCGA--TTC-TCTCAGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTTTCTTATAAATCG--TTGCGATTCTCTCAATCGCA
* *
4953708 TTGCGATTTTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCA
1 TTGCGATTTTCTTATAAAT--CGTTGCGATTCTCTCAATCGCA
*
4953751 TTGCGA--TTC-TATAAATCGCATTGCGATTCTATCAATCGCA
1 TTGCGATTTTCTTATAAATCG--TTGCGATTCTCTCAATCGCA
*
4953791 TTGCGATTTTCTTCTAAATCG
1 TTGCGATTTTCTTATAAATCG
4953812 CGTTGCGAAC
Statistics
Matches: 119, Mismatches: 12, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
37 3 0.03
38 7 0.06
40 61 0.51
41 3 0.03
42 6 0.05
43 37 0.31
45 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (41 bp):
TTGCGATTTTCTTATAAATCGTTGCGATTCTCTCAATCGCA
Found at i:4953742 original size:83 final size:83
Alignment explanation
Indices: 4953646--4953819 Score: 294
Period size: 83 Copynumber: 2.1 Consensus size: 83
4953636 TTCTTTTTAA
* * * * * *
4953646 CGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCATTG
1 CGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCATTG
4953711 CGATTTTCTTCTAAATCG
66 CGATTTTCTTCTAAATCG
4953729 CGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCATTG
1 CGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCATTG
4953794 CGATTTTCTTCTAAATCG
66 CGATTTTCTTCTAAATCG
4953812 CGTTGCGA
1 CGTTGCGA
4953820 ACTTGGAAGC
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 85 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (83 bp):
CGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCATTG
CGATTTTCTTCTAAATCG
Found at i:4953819 original size:63 final size:59
Alignment explanation
Indices: 4953648--4953798 Score: 194
Period size: 63 Copynumber: 2.5 Consensus size: 59
4953638 CTTTTTAACG
* * * *
4953648 TTGCGATTCTCTCAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCT-TCAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCA
* *
4953708 TTGCGATTTTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCA
1 TTGCGA--TTCTTC--AATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCA
4953771 TTGCGATTCTATCAATCGCATTGCGATT
1 TTGCGATTCT-TCAATCGCATTGCGATT
4953799 TTCTTCTAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
60 19 0.24
61 6 0.08
62 6 0.08
63 47 0.60
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.36
Consensus pattern (59 bp):
TTGCGATTCTTCAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTATAAATCGCA
Found at i:4953850 original size:12 final size:12
Alignment explanation
Indices: 4953833--4953857 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4953823 TGGAAGCTCG
4953833 CGTTGCGATTTT
1 CGTTGCGATTTT
4953845 CGTTGCGATTTT
1 CGTTGCGATTTT
4953857 C
1 C
4953858 TTTTTAACGT
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:0.08, C:0.20, G:0.24, T:0.48
Consensus pattern (12 bp):
CGTTGCGATTTT
Found at i:4954126 original size:12 final size:12
Alignment explanation
Indices: 4954111--4954137 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4954101 AATAATAGAG
4954111 TAAATAAAGAAA
1 TAAATAAAGAAA
4954123 TAAATAAAGAAA
1 TAAATAAAGAAA
4954135 TAA
1 TAA
4954138 GGGGATACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (12 bp):
TAAATAAAGAAA
Found at i:4955309 original size:150 final size:144
Alignment explanation
Indices: 4955043--4955311 Score: 367
Period size: 150 Copynumber: 1.8 Consensus size: 144
4955033 TAACTATTCA
* * *
4955043 ATTTCCGTGTATATAGTTTAATAGGTAATGCATTTCATCAAATGCCGGTGATATTATAATAGTCC
1 ATTTCCGTGTATATAGTTTAATAGGTAACGCATTTCATCAAATGCCGGTGATATGACAATAGTCC
* *
4955108 ATCTGAAAATAATGGGAAAGAAATTTGGCTTATGAATGGTGAAATATGTGAGATATCCAAGTATA
66 ATCTGAAAATAATGGGAAAGAAATTTGACTCATGAATGGTGAAATATGTGAGATATCCAAGTATA
4955173 TAGTTAACTAATTG
131 TAGTTAACTAATTG
* * * *
4955187 ATTTCCTTGTATATAGTTTAATAGGTAACGCATTTCATCATCTAATGCTCTGCTTTATATGACCA
1 ATTTCCGTGTATATAGTTTAATAGGTAACGCATTTCATCA---AATGC-C-G-GTGATATGACAA
* * * *
4955252 TAGTCCATCTGAATATAATGGGAAAGAAGTTTGACTCGTGGATGGTGAAATATGTGAGAT
60 TAGTCCATCTGAAAATAATGGGAAAGAAATTTGACTCATGAATGGTGAAATATGTGAGAT
4955312 TTCCGGGTCT
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
144 38 0.36
147 5 0.05
148 1 0.01
149 1 0.01
150 61 0.58
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (144 bp):
ATTTCCGTGTATATAGTTTAATAGGTAACGCATTTCATCAAATGCCGGTGATATGACAATAGTCC
ATCTGAAAATAATGGGAAAGAAATTTGACTCATGAATGGTGAAATATGTGAGATATCCAAGTATA
TAGTTAACTAATTG
Found at i:4957783 original size:33 final size:34
Alignment explanation
Indices: 4957746--4957814 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
4957736 ATAATATTAT
4957746 ATTTAAAATAAA-ATATTTTGAGGGTAAAA-ATTG
1 ATTTAAAATAAAGA-ATTTTGAGGGTAAAATATTG
*
4957779 ATTTAAGATAAAGAATTTTGAGGGTAAAATATTG
1 ATTTAAAATAAAGAATTTTGAGGGTAAAATATTG
4957813 AT
1 AT
4957815 GAGAGAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 26 0.79
34 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.36
Consensus pattern (34 bp):
ATTTAAAATAAAGAATTTTGAGGGTAAAATATTG
Found at i:4959292 original size:2 final size:2
Alignment explanation
Indices: 4959285--4959311 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4959275 ATATGAAGAA
4959285 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 A
4959312 GAATAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4959628 original size:15 final size:15
Alignment explanation
Indices: 4959608--4959654 Score: 85
Period size: 15 Copynumber: 3.1 Consensus size: 15
4959598 TGAGATGTTT
4959608 CCTAATTCAGTAGAA
1 CCTAATTCAGTAGAA
*
4959623 CCTAATTTAGTAGAA
1 CCTAATTCAGTAGAA
4959638 CCTAATTCAGTAGAA
1 CCTAATTCAGTAGAA
4959653 CC
1 CC
4959655 AAACACTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (15 bp):
CCTAATTCAGTAGAA
Found at i:4964876 original size:23 final size:23
Alignment explanation
Indices: 4964841--4964894 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
4964831 CTGTGCGCTA
* *
4964841 GGTATCGATACCCCCTTTGAATG
1 GGTACCGAAACCCCCTTTGAATG
*
4964864 GGTACCGAAACCCTCTTTGAATG
1 GGTACCGAAACCCCCTTTGAATG
4964887 GGTACCGA
1 GGTACCGA
4964895 TACCTCCCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (23 bp):
GGTACCGAAACCCCCTTTGAATG
Found at i:4965408 original size:13 final size:14
Alignment explanation
Indices: 4965385--4965424 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
4965375 AAAACTATAT
4965385 ATTGATTTTCAAAC
1 ATTGATTTTCAAAC
4965399 ATTG-TTTTCAAAC
1 ATTGATTTTCAAAC
* *
4965412 ATAGTTTTTCAAA
1 ATTGATTTTCAAA
4965425 ATTTTCCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (14 bp):
ATTGATTTTCAAAC
Found at i:4967774 original size:14 final size:14
Alignment explanation
Indices: 4967755--4967782 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4967745 AAGAAGAATT
4967755 GAGAAAGCATCAAA
1 GAGAAAGCATCAAA
4967769 GAGAAAGCATCAAA
1 GAGAAAGCATCAAA
4967783 CCCAAGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.21, T:0.07
Consensus pattern (14 bp):
GAGAAAGCATCAAA
Found at i:4968014 original size:12 final size:12
Alignment explanation
Indices: 4967997--4968022 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4967987 CTTTGTCCTC
4967997 AAAAGAAAGATA
1 AAAAGAAAGATA
4968009 AAAAGAAAGATA
1 AAAAGAAAGATA
4968021 AA
1 AA
4968023 TTAGTGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAAGAAAGATA
Found at i:4973957 original size:21 final size:22
Alignment explanation
Indices: 4973911--4973971 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
4973901 TGAACCAAAT
4973911 AAAA-AGAAGAAAAGAAAAGAG
1 AAAAGAGAAGAAAAGAAAAGAG
*
4973932 CAAAGAGAAG-AAAGAAAACGA-
1 AAAAGAGAAGAAAAGAAAA-GAG
**
4973953 AAAAGCTAAGAAAA-AAAAG
1 AAAAGAGAAGAAAAGAAAAG
4973972 TTAAGAAGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 1 0.03
21 22 0.67
22 10 0.30
ACGTcount: A:0.72, C:0.05, G:0.21, T:0.02
Consensus pattern (22 bp):
AAAAGAGAAGAAAAGAAAAGAG
Found at i:4973971 original size:26 final size:26
Alignment explanation
Indices: 4973906--4973971 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
4973896 AAAGGTGAAC
* *
4973906 CAAATAAAAAGAAGAAAAGAAAAGAG
1 CAAAGAAAAAAAAGAAAAGAAAAGAG
* *
4973932 CAAAGAGAAGAAAGAAAACGAAAA-AG
1 CAAAGAAAAAAAAGAAAA-GAAAAGAG
*
4973958 CTAAGAAAAAAAAG
1 CAAAGAAAAAAAAG
4973972 TTAAGAAGCA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
26 27 0.84
27 5 0.16
ACGTcount: A:0.71, C:0.06, G:0.20, T:0.03
Consensus pattern (26 bp):
CAAAGAAAAAAAAGAAAAGAAAAGAG
Found at i:4975216 original size:36 final size:37
Alignment explanation
Indices: 4975137--4975224 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
4975127 AAACAGAGTG
4975137 TCGTCTCGCTTGAGACAAGTTTTCTTAAAAACAAATT
1 TCGTCTCGCTTGAGACAAGTTTTCTTAAAAACAAATT
* * *
4975174 TTGTCTCGCTTGAGACAA--TTTCTCTCAAAATAAATT
1 TCGTCTCGCTTGAGACAAGTTTTCT-TAAAAACAAATT
*
4975210 TCGTCTCACTTGAGA
1 TCGTCTCGCTTGAGA
4975225 TAGTTTTGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 5 0.11
36 23 0.51
37 17 0.38
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (37 bp):
TCGTCTCGCTTGAGACAAGTTTTCTTAAAAACAAATT
Found at i:4975300 original size:15 final size:15
Alignment explanation
Indices: 4975280--4975320 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
4975270 AAATTTTGTC
4975280 TCTCTTGAGACAATA
1 TCTCTTGAGACAATA
* *
4975295 TCTCTTGAGACAGTC
1 TCTCTTGAGACAATA
4975310 TCTCTTGAGAC
1 TCTCTTGAGAC
4975321 GTCATCCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (15 bp):
TCTCTTGAGACAATA
Found at i:4975561 original size:131 final size:131
Alignment explanation
Indices: 4975322--4975581 Score: 313
Period size: 131 Copynumber: 2.0 Consensus size: 131
4975312 TCTTGAGACG
** * * *
4975322 TCATCCCTAAAGATGGTTTATCATCCTCATCGCGTAGGAACCGTATCATCCCCCAACCAGACCTC
1 TCATCCCTAAAGATGGCATACCATCCTCATCACGTAGGAACAGTATCATCCCCCAACCAGACCTC
* * ** * **
4975387 CTTATCATGTAGGAGCTGTGTCAACCTTAGATAACCAGTCGTCCTCATCACGTAGGAACCGTGTT
66 CTCATCACGTAGGAGCCATGTCAACCCTAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTT
4975452 A
131 A
* * * * ** * *
4975453 TCATCCCTAAAGATGGCATGCCTTCCTCATCACGTAGGAATAGTGTCATCCCCTGAGCAGACTTC
1 TCATCCCTAAAGATGGCATACCATCCTCATCACGTAGGAACAGTATCATCCCCCAACCAGACCTC
* * *
4975518 CTCATCACGTAGGAGCCATGTCACCCCTAGATAACCAACCGTCCTCATCGCGTATGAACCGTGT
66 CTCATCACGTAGGAGCCATGTCAACCCTAGATAACCAACCGTCCTCATCACGTAGGAACCGTGT
4975582 CATCCACCGA
Statistics
Matches: 106, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
131 106 1.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (131 bp):
TCATCCCTAAAGATGGCATACCATCCTCATCACGTAGGAACAGTATCATCCCCCAACCAGACCTC
CTCATCACGTAGGAGCCATGTCAACCCTAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTT
A
Found at i:4975822 original size:3 final size:3
Alignment explanation
Indices: 4975814--4975858 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
4975804 GGTTCTCATT
4975814 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4975859 ATTTACATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4980027 original size:22 final size:22
Alignment explanation
Indices: 4980000--4980044 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4979990 GAACAGAAAA
4980000 TGTACTAGTCTACAGAATAGAC
1 TGTACTAGTCTACAGAATAGAC
4980022 TGTACTAGTCTACAGAATAGAC
1 TGTACTAGTCTACAGAATAGAC
4980044 T
1 T
4980045 ATGTAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (22 bp):
TGTACTAGTCTACAGAATAGAC
Found at i:4982614 original size:24 final size:24
Alignment explanation
Indices: 4982474--4982695 Score: 160
Period size: 23 Copynumber: 9.2 Consensus size: 24
4982464 ATATGATAAT
*
4982474 ATATAATATATAG-TTTTGTCAAAC
1 ATATAATATATAGTTTTTG-AAAAC
4982498 ATATAATATATAGTTTTTG-AAA-
1 ATATAATATATAGTTTTTGAAAAC
*
4982520 ATAT-ATAGTATAGTTTTTAAAAAAC
1 ATATAATA-TATAGTTTTT-GAAAAC
**
4982545 ATATTGTTATATAG-TTTTGAAAAC
1 ATA-TAATATATAGTTTTTGAAAAC
*
4982569 TTATAATATATAG-TTTTGAAAAC
1 ATATAATATATAGTTTTTGAAAAC
* *
4982592 TTATAATATATAGTTTTTAAAAAAC
1 ATATAATATATAGTTTTT-GAAAAC
4982617 ATATGTAATATATA-TATATTTGAAAAC
1 ATA--TAATATATAGT-T-TTTGAAAAC
* * *
4982644 --ATACTATAT-GATTTTGAAAAT
1 ATATAATATATAGTTTTTGAAAAC
*
4982665 ATAATATATTATATAGTTTTT-AAAAT
1 AT-ATA-A-TATATAGTTTTTGAAAAC
4982691 ATATA
1 ATATA
4982696 TATTAAGCTT
Statistics
Matches: 164, Mismatches: 14, Indels: 39
0.76 0.06 0.18
Matches are distributed among these distances:
21 11 0.07
22 15 0.09
23 41 0.25
24 30 0.18
25 23 0.14
26 19 0.12
27 22 0.13
28 3 0.02
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.44
Consensus pattern (24 bp):
ATATAATATATAGTTTTTGAAAAC
Found at i:4982659 original size:21 final size:21
Alignment explanation
Indices: 4982626--4982678 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
4982616 CATATGTAAT
4982626 ATATATATATTTGAAAACATA
1 ATATATATATTTGAAAACATA
* *
4982647 CTATATGAT-TTTGAAAATATA
1 ATATAT-ATATTTGAAAACATA
4982668 ATATATTATAT
1 ATATA-TATAT
4982679 AGTTTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (21 bp):
ATATATATATTTGAAAACATA
Found at i:4982735 original size:16 final size:16
Alignment explanation
Indices: 4982716--4982766 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
4982706 ATTATTATTC
*
4982716 TTATTTATTTTCATTT
1 TTATTTTTTTTCATTT
4982732 TTATTTTTTTTCATTT
1 TTATTTTTTTTCATTT
4982748 TTATTTTTTTTCATTT
1 TTATTTTTTTTCATTT
4982764 TTA
1 TTA
4982767 GGGTCCAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (16 bp):
TTATTTTTTTTCATTT
Found at i:4982735 original size:22 final size:22
Alignment explanation
Indices: 4982710--4982763 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
4982700 AAGCTTATTA
4982710 TTATTCTTATTT-ATTTTCATTT
1 TTATT-TTATTTCATTTTCATTT
* *
4982732 TTATTTTTTTTCATTTTTATTT
1 TTATTTTATTTCATTTTCATTT
*
4982754 TT-TTTCATTT
1 TTATTTTATTT
4982764 TTAGGGTCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (22 bp):
TTATTTTATTTCATTTTCATTT
Found at i:4983898 original size:19 final size:19
Alignment explanation
Indices: 4983870--4983910 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4983860 AATTTGGTTC
4983870 TTTTAATTTT-TTTTATTTA
1 TTTTAATTTTATTTTA-TTA
*
4983889 TTTTATTTTTATTTTATTA
1 TTTTAATTTTATTTTATTA
4983908 TTT
1 TTT
4983911 CACATTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTAATTTTATTTTATTA
Found at i:4987617 original size:24 final size:24
Alignment explanation
Indices: 4987589--4987656 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
4987579 TCAAGGGGAC
4987589 TCATCTTCTGCAAAAGCACAAGCT
1 TCATCTTCTGCAAAAGCACAAGCT
*
4987613 TCATCTGCTGCAAAAG-AGCAAGCT
1 TCATCTTCTGCAAAAGCA-CAAGCT
*
4987637 TCGTCTGT-TGCAAAAGCACA
1 TCATCT-TCTGCAAAAGCACA
4987657 TGCCTTTGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 1 0.03
24 36 0.95
25 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (24 bp):
TCATCTTCTGCAAAAGCACAAGCT
Found at i:4998456 original size:22 final size:22
Alignment explanation
Indices: 4998407--4998475 Score: 86
Period size: 22 Copynumber: 3.0 Consensus size: 22
4998397 TATTTATAAT
*
4998407 ATATAATATATAGTTTTGTCAAAC
1 ATATAATATATAGTTTT-T-AAAA
*
4998431 ATATAATATATAGTTTTTGAAA
1 ATATAATATATAGTTTTTAAAA
4998453 ATAT-ATAGTATAGTTTTTAAAA
1 ATATAATA-TATAGTTTTTAAAA
4998475 A
1 A
4998476 AAAACATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
21 3 0.07
22 20 0.49
23 1 0.02
24 17 0.41
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (22 bp):
ATATAATATATAGTTTTTAAAA
Found at i:4998542 original size:25 final size:25
Alignment explanation
Indices: 4998438--4998543 Score: 67
Period size: 25 Copynumber: 4.2 Consensus size: 25
4998428 AACATATAAT
*
4998438 ATATAGTTTTT-GAAAATATA--TA
1 ATATAGTTTTTAAAAAATATATGTA
* * *
4998460 GTATAGTTTTTAAAAAAAAACATATTGTT
1 ATATAGTTTTT---AAAAAATATA-TGTA
* * **
4998489 ATATAGTTTTGAAAACATA-AAATA
1 ATATAGTTTTTAAAAAATATATGTA
4998513 TATATAGTTTTTAAAAAATATATGTA
1 -ATATAGTTTTTAAAAAATATATGTA
4998539 ATATA
1 ATATA
4998544 TATATATATT
Statistics
Matches: 60, Mismatches: 15, Indels: 15
0.67 0.17 0.17
Matches are distributed among these distances:
22 10 0.17
24 1 0.02
25 23 0.38
26 16 0.27
29 10 0.17
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (25 bp):
ATATAGTTTTTAAAAAATATATGTA
Found at i:4998592 original size:21 final size:21
Alignment explanation
Indices: 4998554--4998593 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4998544 TATATATATT
*
4998554 TTTTGAAAACATACTATATGA
1 TTTTGAAAACATAATATATGA
**
4998575 TTTTGAAAATGTAATATAT
1 TTTTGAAAACATAATATAT
4998594 TATATAGTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTTGAAAACATAATATATGA
Found at i:4998599 original size:2 final size:2
Alignment explanation
Indices: 4998588--4998628 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
4998578 TGAAAATGTA
*
4998588 AT AT AT -T AT AT AGT AT TT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4998629 TAAGCTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 2 0.06
2 30 0.88
3 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4999808 original size:4 final size:4
Alignment explanation
Indices: 4999799--4999842 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
4999789 TTTTAATTAT
*
4999799 TTTA TTTA TTTA TTTA -TTA TTTA TTTA TTTTAA TTTT TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTT-A TTTA TTTA TTT
4999843 CACATCAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 3 0.09
4 25 0.71
5 6 0.17
6 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:4999820 original size:15 final size:14
Alignment explanation
Indices: 4999798--4999842 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
4999788 CTTTTAATTA
4999798 TTTTATTTATTTAT
1 TTTTATTTATTTAT
4999812 TTATTATTTATTTAT
1 TT-TTATTTATTTAT
* *
4999827 TTTAATTTTTTTAT
1 TTTTATTTATTTAT
4999841 TT
1 TT
4999843 CACATCAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 14 0.50
15 14 0.50
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTATTTAT
Found at i:5001483 original size:24 final size:23
Alignment explanation
Indices: 5001401--5001485 Score: 68
Period size: 23 Copynumber: 3.7 Consensus size: 23
5001391 TTTTAAACTC
*
5001401 AAAATATAAAATTATTTAAAAACTT
1 AAAATAT-AAATTATTCAAAAA-TT
* * *
5001426 -AAATAT-AATAATACCAAAAATA
1 AAAATATAAATTAT-TCAAAAATT
5001448 AAAAT-TAAATTATTCAAAAATTT
1 AAAATATAAATTATTCAAAAA-TT
*
5001471 AAAATATATATTATT
1 AAAATATAAATTATT
5001486 ACTTTTTTAC
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
22 13 0.28
23 20 0.43
24 14 0.30
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATATAAATTATTCAAAAATT
Found at i:5002117 original size:21 final size:21
Alignment explanation
Indices: 5002074--5002117 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
5002064 ATTTATTTAA
*
5002074 TATTTTTAGTAATATAATTTT
1 TATTTTTAGTAATATAATATT
* * *
5002095 TATTTTTGGTATTATTATATT
1 TATTTTTAGTAATATAATATT
5002116 TA
1 TA
5002118 AGTTTTTAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
TATTTTTAGTAATATAATATT
Found at i:5003253 original size:30 final size:29
Alignment explanation
Indices: 5003217--5003288 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
5003207 GAGTCTACTT
*
5003217 GTTGACTTTGACCGAGTCA-ACCCGTTGACC
1 GTTGACTTTGACCG-CTCATA-CCGTTGACC
*
5003247 GTTGACTTTGACTGCTCATACCGTTGACC
1 GTTGACTTTGACCGCTCATACCGTTGACC
*
5003276 ATTGACTTTGACC
1 GTTGACTTTGACC
5003289 AAAAAGTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 23 0.62
30 14 0.38
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (29 bp):
GTTGACTTTGACCGCTCATACCGTTGACC
Found at i:5011995 original size:30 final size:30
Alignment explanation
Indices: 5011943--5012044 Score: 113
Period size: 29 Copynumber: 3.5 Consensus size: 30
5011933 TTTTATTTGA
* * *
5011943 GTACTTAAAG-CA-TTTGTGGTCAAAATAA
1 GTACTTAAAGTTATTTTTTGGTCAAAATAG
* *
5011971 GTATTTAAAGTTGTTTTTTGGTCAAAATAG
1 GTACTTAAAGTTATTTTTTGGTCAAAATAG
* *
5012001 GTACCTAAA-ATATTTTTTGGTCAAAATAG
1 GTACTTAAAGTTATTTTTTGGTCAAAATAG
5012030 GTACTTAAAG-TATTT
1 GTACTTAAAGTTATTT
5012045 AATTTTTTTC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 9 0.15
29 31 0.51
30 21 0.34
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (30 bp):
GTACTTAAAGTTATTTTTTGGTCAAAATAG
Done.