Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 91
Found at i:7523328 original size:37 final size:37
Alignment explanation
Indices: 7523270--7523355 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 37
7523260 AGAGAAACTA
* *
7523270 TCTCAAGAGA-ACAAAACTTGTTTTGAGTAAAAATTG
1 TCTCAAGCGAGACAAAACTTGTTTTGAGGAAAAATTG
* *
7523306 TCTCAAGCGAGACAAAATTTGTTTTTAGGAAAAATTG
1 TCTCAAGCGAGACAAAACTTGTTTTGAGGAAAAATTG
*
7523343 TCTCTAGCGAGAC
1 TCTCAAGCGAGAC
7523356 GACACTTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 9 0.20
37 35 0.80
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (37 bp):
TCTCAAGCGAGACAAAACTTGTTTTGAGGAAAAATTG
Found at i:7523368 original size:37 final size:39
Alignment explanation
Indices: 7523298--7523401 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 39
7523288 TGTTTTGAGT
* * * *
7523298 AAAAATTGTCTCAAGCGAGAC-AAAATT-TGTTTTT-AGG
1 AAAAATTGTCTCTAGCGAGACGACACTTAT-TTTTTCAAG
7523335 AAAAATTGTCTCTAGCGAGACGACACTTATTTTTTCAAG
1 AAAAATTGTCTCTAGCGAGACGACACTTATTTTTTCAAG
* *
7523374 AAAAGTTGTCTCTAGCGAGATGACACTT
1 AAAAATTGTCTCTAGCGAGACGACACTT
7523402 TGTTTTGAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
37 20 0.34
38 9 0.16
39 29 0.50
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (39 bp):
AAAAATTGTCTCTAGCGAGACGACACTTATTTTTTCAAG
Found at i:7523415 original size:39 final size:37
Alignment explanation
Indices: 7523287--7523415 Score: 120
Period size: 39 Copynumber: 3.4 Consensus size: 37
7523277 AGAACAAAAC
* * * *
7523287 TTGTTTTGAGTA-AAAATTGTCTCAAGCGAGACAAAAT
1 TTGTTTTGAG-AGAAAATTGTCTCTAGCGAGAGACACT
*
7523324 TTGTTTTTAG-GAAAAATTGTCTCTAGCGAGACGACACT
1 TTGTTTTGAGAG-AAAATTGTCTCTAGCGAGA-GACACT
* *
7523362 TATTTTTTCA-AGAAAAGTTGTCTCTAGCGAGATGACACT
1 T-TGTTTTGAGAGAAAA-TTGTCTCTAGCGAGA-GACACT
7523401 TTGTTTTGAGAGAAA
1 TTGTTTTGAGAGAAA
7523416 CAATCTCAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
37 27 0.36
38 14 0.19
39 34 0.45
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (37 bp):
TTGTTTTGAGAGAAAATTGTCTCTAGCGAGAGACACT
Found at i:7529409 original size:20 final size:21
Alignment explanation
Indices: 7529369--7529409 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7529359 GGTGAGTGGA
* *
7529369 TTTCCTTTTTTAATGGGTTTT
1 TTTCCTGTTTGAATGGGTTTT
7529390 TTTCCTGTTTGAAT-GGTTTT
1 TTTCCTGTTTGAATGGGTTTT
7529410 AGTTCTCTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.10, G:0.17, T:0.63
Consensus pattern (21 bp):
TTTCCTGTTTGAATGGGTTTT
Found at i:7531748 original size:44 final size:44
Alignment explanation
Indices: 7531684--7531805 Score: 160
Period size: 44 Copynumber: 2.8 Consensus size: 44
7531674 AAGTATCTAA
* *
7531684 TTTCTTCAATCTCACCTTTTACATTTATAATTGAGGCCCTTCATT
1 TTTC-TCAATCTCACCTTTTACATTTATAATTGAGGACCTTAATT
*
7531729 TTTCTCAATC-CAACCTTTTACTTTTATAATTGA-GACCTTAATT
1 TTTCTCAATCTC-ACCTTTTACATTTATAATTGAGGACCTTAATT
* *
7531772 TTTTTCAA-CTCACTTTTTACATTTATAATTGAGG
1 TTTCTCAATCTCACCTTTTACATTTATAATTGAGG
7531806 TGTCTAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
42 20 0.29
43 18 0.26
44 26 0.38
45 4 0.06
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (44 bp):
TTTCTCAATCTCACCTTTTACATTTATAATTGAGGACCTTAATT
Found at i:7531766 original size:22 final size:22
Alignment explanation
Indices: 7531697--7531767 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
7531687 CTTCAATCTC
*
7531697 ACCTTTTACATTTATAATTGAG
1 ACCTTTTACTTTTATAATTGAG
* * * * * **
7531719 GCCCTTCATTTTTCTCAATCCA-
1 ACCTTTTACTTTTAT-AATTGAG
7531741 ACCTTTTACTTTTATAATTGAG
1 ACCTTTTACTTTTATAATTGAG
7531763 ACCTT
1 ACCTT
7531768 AATTTTTTTC
Statistics
Matches: 32, Mismatches: 15, Indels: 4
0.63 0.29 0.08
Matches are distributed among these distances:
21 4 0.12
22 24 0.75
23 4 0.12
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (22 bp):
ACCTTTTACTTTTATAATTGAG
Found at i:7531817 original size:42 final size:41
Alignment explanation
Indices: 7531679--7531821 Score: 137
Period size: 44 Copynumber: 3.3 Consensus size: 41
7531669 AATTCAAGTA
*
7531679 TCTAATTTCTTCAATCTCACCTTTTACATTTATAATTGAGGC
1 TCTAATTTTTTCAA-CTCACCTTTTACATTTATAATTGAGGC
* * * *
7531721 CCTTCATTTTTCTCAA-TCCAACCTTTTACTTTTATAATTGAGAC
1 TC-TAATTTTT-TCAACT-C-ACCTTTTACATTTATAATTGAGGC
* *
7531765 -CTTAATTTTTTTCAACTCACTTTTTACATTTATAATTGAGGTG
1 TC-TAA-TTTTTTCAACTCACCTTTTACATTTATAATTGAGG-C
7531808 TCTAATTTTTTCAA
1 TCTAATTTTTTCAA
7531822 TTCCATAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
42 31 0.37
43 19 0.23
44 33 0.40
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.48
Consensus pattern (41 bp):
TCTAATTTTTTCAACTCACCTTTTACATTTATAATTGAGGC
Found at i:7533229 original size:20 final size:20
Alignment explanation
Indices: 7533204--7533242 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7533194 AAAGTAATAT
* *
7533204 ATTAAATTTTTAATTTTAAA
1 ATTAAATTATTAATATTAAA
7533224 ATTAAATTATTAATATTAA
1 ATTAAATTATTAATATTAA
7533243 CAGTTATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTAAATTATTAATATTAAA
Found at i:7534232 original size:27 final size:26
Alignment explanation
Indices: 7534181--7534234 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
7534171 GGTCTGATGT
*
7534181 GGTAGTTTCTAGAAGGTCCAATCAGC
1 GGTAGTTTCTAGAAGATCCAATCAGC
* *
7534207 GGTAGTTTTCTAGAAGATCTAGTCAGC
1 GGTAG-TTTCTAGAAGATCCAATCAGC
7534234 G
1 G
7534235 CCTTCTAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (26 bp):
GGTAGTTTCTAGAAGATCCAATCAGC
Found at i:7535114 original size:18 final size:19
Alignment explanation
Indices: 7535081--7535123 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
7535071 CAACTCTACG
7535081 TTTTT-TTATTTAAATCGC
1 TTTTTATTATTTAAATCGC
*
7535099 TTTTTATTATTT-AATCTC
1 TTTTTATTATTTAAATCGC
7535117 TTTTTAT
1 TTTTTAT
7535124 CAAAACCCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTATTATTTAAATCGC
Found at i:7541819 original size:18 final size:19
Alignment explanation
Indices: 7541785--7541822 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
7541775 TCCTGTATTT
7541785 TTATTTAAATCTCTTTTTA
1 TTATTTAAATCTCTTTTTA
*
7541804 TTATTT-AATCTTTTTTTA
1 TTATTTAAATCTCTTTTTA
7541822 T
1 T
7541823 CAAAACCCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTAAATCTCTTTTTA
Found at i:7548136 original size:20 final size:20
Alignment explanation
Indices: 7548107--7548145 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7548097 TTTCCACCAC
*
7548107 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
7548127 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
7548146 TATGGGATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:7550402 original size:12 final size:11
Alignment explanation
Indices: 7550385--7550440 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 11
7550375 CTATTTTTTT
7550385 CAAAAACAAAAA
1 CAAAAA-AAAAA
*
7550397 CAAAAAAAAAGG
1 CAAAAAAAAA-A
7550409 CAAAAAAAAAA
1 CAAAAAAAAAA
*
7550420 CAAAACAAAAAGC
1 CAAAA-AAAAA-A
7550433 CAAAAAAA
1 CAAAAAAA
7550441 CAAAAATTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
11 9 0.24
12 24 0.63
13 5 0.13
ACGTcount: A:0.80, C:0.14, G:0.05, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:7550418 original size:23 final size:24
Alignment explanation
Indices: 7550385--7550440 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
7550375 CTATTTTTTT
*
7550385 CAAAAACAAAAACAAAA-AAAAAGG
1 CAAAAA-AAAAACAAAACAAAAAGC
7550409 CAAAAAAAAAACAAAACAAAAAGC
1 CAAAAAAAAAACAAAACAAAAAGC
7550433 CAAAAAAA
1 CAAAAAAA
7550441 CAAAAATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 10 0.33
24 20 0.67
ACGTcount: A:0.80, C:0.14, G:0.05, T:0.00
Consensus pattern (24 bp):
CAAAAAAAAAACAAAACAAAAAGC
Found at i:7550419 original size:24 final size:25
Alignment explanation
Indices: 7550385--7550445 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 25
7550375 CTATTTTTTT
* *
7550385 CAAAAACAAAAACAAAA-AAAAAGG
1 CAAAAAAAAAAACAAAACAAAAAGC
7550409 C-AAAAAAAAAACAAAACAAAAAGC
1 CAAAAAAAAAAACAAAACAAAAAGC
7550433 CAAAAAAACAAAA
1 CAAAAAAA-AAAA
7550446 ATTTCAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 14 0.44
24 8 0.25
25 6 0.19
26 4 0.12
ACGTcount: A:0.80, C:0.15, G:0.05, T:0.00
Consensus pattern (25 bp):
CAAAAAAAAAAACAAAACAAAAAGC
Found at i:7550446 original size:6 final size:6
Alignment explanation
Indices: 7550385--7550430 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
7550375 CTATTTTTTT
*
7550385 CAAAAA CAAAAA CAAAAA -AAAAGG CAAAAA -AAAAA C-AAAA CAAAAA
1 CAAAAA CAAAAA CAAAAA CAAAA-A CAAAAA CAAAAA CAAAAA CAAAAA
7550431 GCCAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
5 14 0.41
6 16 0.47
7 4 0.12
ACGTcount: A:0.83, C:0.13, G:0.04, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:7554748 original size:16 final size:15
Alignment explanation
Indices: 7554729--7554771 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7554719 CTTTATTATC
7554729 TTATTTCATATTCTGT
1 TTATTT-ATATTCTGT
* *
7554745 TTATTTATCTTTTGT
1 TTATTTATATTCTGT
7554760 TTATTT-TATTCT
1 TTATTTATATTCT
7554772 AATCTTATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 4 0.17
15 13 0.57
16 6 0.26
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (15 bp):
TTATTTATATTCTGT
Found at i:7557710 original size:12 final size:12
Alignment explanation
Indices: 7557695--7557744 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
7557685 CCTAAAAAAG
*
7557695 ACAAGGAAAATA
1 ACAAGTAAAATA
7557707 ACAAGTAAAACTA
1 ACAAGTAAAA-TA
7557720 GACAA--AAAATGA
1 -ACAAGTAAAAT-A
7557732 ACAAGTAAAATA
1 ACAAGTAAAATA
7557744 A
1 A
7557745 AAATGCTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
11 5 0.16
12 16 0.50
13 7 0.22
14 4 0.12
ACGTcount: A:0.66, C:0.10, G:0.12, T:0.12
Consensus pattern (12 bp):
ACAAGTAAAATA
Found at i:7557715 original size:25 final size:25
Alignment explanation
Indices: 7557687--7557741 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
7557677 AAATAAAACC
7557687 TAAAA-AAGACAAGGAAAAT-AACAAG
1 TAAAACAAGACAA--AAAATGAACAAG
*
7557712 TAAAACTAGACAAAAAATGAACAAG
1 TAAAACAAGACAAAAAATGAACAAG
7557737 TAAAA
1 TAAAA
7557742 TAAAAATGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 5 0.19
25 16 0.59
26 6 0.22
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (25 bp):
TAAAACAAGACAAAAAATGAACAAG
Found at i:7560367 original size:16 final size:18
Alignment explanation
Indices: 7560326--7560368 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
7560316 CAACAATTTT
*
7560326 TTGTT-AATGGAAGGATC
1 TTGTTCAATGAAAGGATC
7560343 TTGTTCAATGAAAGGA-C
1 TTGTTCAATGAAAGGATC
7560360 TT-TTCAATG
1 TTGTTCAATG
7560369 CCTTGTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 8 0.33
18 9 0.38
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.37
Consensus pattern (18 bp):
TTGTTCAATGAAAGGATC
Found at i:7562521 original size:13 final size:13
Alignment explanation
Indices: 7562503--7562537 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
7562493 ACAATACCCG
7562503 TGAACAGTAACAGT
1 TGAACAGTAACA-T
7562517 T-AACAGTAACAT
1 TGAACAGTAACAT
7562529 TGAACAGTA
1 TGAACAGTA
7562538 CCTGTGAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 17 0.85
14 1 0.05
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (13 bp):
TGAACAGTAACAT
Found at i:7562545 original size:13 final size:13
Alignment explanation
Indices: 7562489--7562549 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
7562479 TTTATGAATA
* *
7562489 GTGAACAATACCC
1 GTGAACAGTACCT
* *
7562502 GTGAACAGTAACA
1 GTGAACAGTACCT
* *
7562515 GTTAACAGTAACAT
1 GTGAACAGT-ACCT
7562529 -TGAACAGTACCT
1 GTGAACAGTACCT
7562541 GTGAACAGT
1 GTGAACAGT
7562550 GTGGGAATCG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
12 3 0.08
13 33 0.89
14 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (13 bp):
GTGAACAGTACCT
Found at i:7563087 original size:44 final size:44
Alignment explanation
Indices: 7563019--7563141 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
7563009 TATAAAATTT
* *
7563019 CTTACCATTTATCCCATAATCTCGTAAGCTTATTTTACCAATATA
1 CTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
7563064 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCGATATA
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
7563108 CTTGA-TATTATTCCGTAAGCTCATAAGCTTATTT
1 CTT-ACCATTATTCCATAAGCTCGTAAGCTTATTT
7563142 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
44 63 0.89
45 8 0.11
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (44 bp):
CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:7573093 original size:27 final size:27
Alignment explanation
Indices: 7573040--7573093 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
7573030 AATGTTTCTG
**
7573040 AGAGTACACACAAAGCTAATGTTTTTT
1 AGAGTACACACAAAGCTAATGAATTTT
* **
7573067 AGAGTACACACGAAGCTGCTGAATTTT
1 AGAGTACACACAAAGCTAATGAATTTT
7573094 TTCTTCTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (27 bp):
AGAGTACACACAAAGCTAATGAATTTT
Found at i:7573095 original size:29 final size:27
Alignment explanation
Indices: 7573025--7573083 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
7573015 CAGTTTCTGG
* *
7573025 AAGCTAATGTTTCTGAGAGTACACACA
1 AAGCTAATGTTTTTTAGAGTACACACA
*
7573052 AAGCTAATGTTTTTTAGAGTACACACG
1 AAGCTAATGTTTTTTAGAGTACACACA
7573079 AAGCT
1 AAGCT
7573084 GCTGAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (27 bp):
AAGCTAATGTTTTTTAGAGTACACACA
Found at i:7573253 original size:21 final size:21
Alignment explanation
Indices: 7573210--7573275 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
7573200 TCAGGAATTA
* * * *
7573210 CAGTGGTTGTAAGATTTTAAG
1 CAGTGGCTGTAGGAATTTCAG
7573231 CAGTGGCTGTAGGAATTTCAG
1 CAGTGGCTGTAGGAATTTCAG
*
7573252 CAATGGCTGTAGGAATTTCAG
1 CAGTGGCTGTAGGAATTTCAG
7573273 CAG
1 CAG
7573276 GTTTTGTAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.30
Consensus pattern (21 bp):
CAGTGGCTGTAGGAATTTCAG
Found at i:7578459 original size:19 final size:20
Alignment explanation
Indices: 7578437--7578478 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
7578427 TTTATAATTC
7578437 TAATTTTAAA-ATTTTATTA
1 TAATTTTAAATATTTTATTA
*
7578456 TAATTTTAAATATTTTTTTA
1 TAATTTTAAATATTTTATTA
7578476 TAA
1 TAA
7578479 AATTAACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATTTTAAATATTTTATTA
Found at i:7578484 original size:20 final size:20
Alignment explanation
Indices: 7578442--7578500 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
7578432 AATTCTAATT
**
7578442 TTAAA-ATTTTATTATAATT
1 TTAAATATTTTATTATAAAA
*
7578461 TTAAATATTTTTTTATAAAA
1 TTAAATATTTTATTATAAAA
*
7578481 TTAACTATTTCTATT-TAAAA
1 TTAAATATTT-TATTATAAAA
7578501 AACAAAGCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAAATATTTTATTATAAAA
Found at i:7580170 original size:37 final size:38
Alignment explanation
Indices: 7580126--7580210 Score: 122
Period size: 37 Copynumber: 2.3 Consensus size: 38
7580116 TTTATTTTGT
*
7580126 TCGAGTCGGGTCGGG-TTTTTTAAGTGTGATATTCAGG
1 TCGAGTCGGGTCGGGTTTTTTTAAGTGTAATATTCAGG
*
7580163 TCGAGTC-GGTCGGGTTTTTTTAAGTGTAATATTCGGG
1 TCGAGTCGGGTCGGGTTTTTTTAAGTGTAATATTCAGG
7580200 TCG-GATCGGGT
1 TCGAG-TCGGGT
7580211 TAGGTTCGGG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
36 8 0.19
37 32 0.74
38 3 0.07
ACGTcount: A:0.15, C:0.12, G:0.35, T:0.38
Consensus pattern (38 bp):
TCGAGTCGGGTCGGGTTTTTTTAAGTGTAATATTCAGG
Found at i:7580415 original size:174 final size:178
Alignment explanation
Indices: 7580213--7580543 Score: 544
Period size: 174 Copynumber: 1.9 Consensus size: 178
7580203 GATCGGGTTA
* * *
7580213 GGTTCGGGTTTAGGGTGAAAAAAACCGGATCGACCTGAAAATATATATAATTCGGGTCGGGTCGG
1 GGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCGGGTCAGGTCGG
7580278 ATTAAGTCACTGTTTTTATTAAATAAAAATA-ATTTTTATTATTTC-G-G-GTCGGGTCGGATTT
66 ATTAAGTCACTGTTTTTATTAAATAAAAATATATTTTTATTATTTCGGTGAGTCGGGTCGGATTT
7580339 CTAATTCATATATTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCG
131 CTAATTCATATATTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCG
* * *
7580387 GGTTCGGGTTTAGGGTGAAATAAACCGGACCGACCCGAAAATATATATAATTTGTGTCAGGTCGG
1 GGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCGGGTCAGGTCGG
*
7580452 ATTAAGTCACTGTTTTTATTAAATAAAAATATTTTTTTTATTATTTCTGGTTGAGTCGGGTCGGA
66 ATTAAGTCACTGTTTTTATTAAATAAAAATA-TATTTTTATTATTTC-GG-TGAGTCGGGTCGGA
7580517 TTTCTAATTCATATATTCGGGTCGGGT
128 TTTCTAATTCATATATTCGGGTCGGGT
7580544 CAGATGAAAC
Statistics
Matches: 143, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
174 90 0.63
176 13 0.09
178 1 0.01
180 1 0.01
181 38 0.27
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (178 bp):
GGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCGGGTCAGGTCGG
ATTAAGTCACTGTTTTTATTAAATAAAAATATATTTTTATTATTTCGGTGAGTCGGGTCGGATTT
CTAATTCATATATTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCG
Found at i:7580635 original size:438 final size:439
Alignment explanation
Indices: 7579910--7580801 Score: 1434
Period size: 438 Copynumber: 2.0 Consensus size: 439
7579900 TTTGGTCGGG
* *
7579910 TCGGATCGGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCTGGTTTAGGGTGAAAAAAA
1 TCGGGTCGGG-TTTTTTAAGTGTGATATT---GTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAA
* * *
7579975 TCGGACCGACCTGAAAATATATATAATTCGGGTCGGGTCAGATTAAGTCACTGTTTTTATTAAAT
62 CCGGACCGACCCGAAAATATATATAATTCGGGTCAGGTCAGATTAAGTCACTGTTTTTATTAAAT
* *
7580040 AAATTTTTTTTTTATTATTTTAGGTTGGGTCGGGTCGGATTTCTAATTCATATATTACGGTCGGG
127 AAATATTTTTTTTATTATTTTAGGTTGAGTCGGGTCGGATTTCTAATTCATATATTACGGTCGGG
*
7580105 TCGGATGAAACTTTATTTTGTTCGAGTCGGGTCGGGTTTTTTAAGTGTGATATTCAGGTCGAGTC
192 TCAGATGAAACTTTATTTTGTTCGAGTCGGGTCGGGTTTTTTAAGTGTGATATTCAGGTCGAGTC
** * *
7580170 GGTCGGGTTTTTTTAAGTGTAATATTCGGGTCGGATCGGGTTAGGTTCGGGTTTAGGGTGAAAAA
257 GGTCGGGTTTTTTTAAAAGTAATATTCGAGTCGGATCGGGTCAGGTTCGGGTTTAGGGTGAAAAA
* *
7580235 AACCGGATCGACCTGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAA
322 AACCGGACCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAA
* *
7580300 ATAAAAATAA-TTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATAT
387 ATAAAAATAATTTTTTATTATTTCAGGTCGGGTCGGAGTTCTAATTCATATAT
*
7580352 TCGGGTCGGGTTTTTTAAGTGTGATA-T-TCGGGTCGGGTTCGGGTTTAGGGTGAAATAAACCGG
1 TCGGGTCGGGTTTTTTAAGTGTGATATTGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGG
* * *
7580415 ACCGACCCGAAAATATATATAATTTGTGTCAGGTCGGATTAAGTCACTGTTTTTATTAAATAAAA
66 ACCGACCCGAAAATATATATAATTCGGGTCAGGTCAGATTAAGTCACTGTTTTTATTAAAT--AA
7580480 ATATTTTTTTTATTATTTCT-GGTTGAGTCGGGTCGGATTTCTAATTCATATATT-CGGGTCGGG
129 ATATTTTTTTTATTATTT-TAGGTTGAGTCGGGTCGGATTTCTAATTCATATATTAC-GGTCGGG
* * *
7580543 TCAGATGAAACTTTATTTTGTTCGAGTCGGGTTGGGTTTTTTAAGTGTGATATTCGGGTCGATTC
192 TCAGATGAAACTTTATTTTGTTCGAGTCGGGTCGGGTTTTTTAAGTGTGATATTCAGGTCGAGTC
* * *
7580608 GGTCGGGTTTTTTTAAAAGTGATATTCGAGTCGGATCGGGTCGGGTTCGGGTTTAGGGTGAAAAT
257 GGTCGGGTTTTTTTAAAAGTAATATTCGAGTCGGATCGGGTCAGGTTCGGGTTTAGGGTGAAAAA
*
7580673 AACCGGACCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTTTTTTTATTAA
322 AACCGGACCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAA
7580738 ATAAAAATAATTTTTTATTATTTCAGGTCGGGTCGGAGTTCTAATTCATATAT
387 ATAAAAATAATTTTTTATTATTTCAGGTCGGGTCGGAGTTCTAATTCATATAT
7580791 TCGGGTCGGGT
1 TCGGGTCGGGT
7580802 CGGATGAAAC
Statistics
Matches: 418, Mismatches: 27, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
436 89 0.21
437 1 0.00
438 250 0.60
439 52 0.12
440 1 0.00
441 16 0.04
442 9 0.02
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (439 bp):
TCGGGTCGGGTTTTTTAAGTGTGATATTGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGG
ACCGACCCGAAAATATATATAATTCGGGTCAGGTCAGATTAAGTCACTGTTTTTATTAAATAAAT
ATTTTTTTTATTATTTTAGGTTGAGTCGGGTCGGATTTCTAATTCATATATTACGGTCGGGTCAG
ATGAAACTTTATTTTGTTCGAGTCGGGTCGGGTTTTTTAAGTGTGATATTCAGGTCGAGTCGGTC
GGGTTTTTTTAAAAGTAATATTCGAGTCGGATCGGGTCAGGTTCGGGTTTAGGGTGAAAAAAACC
GGACCGACCCGAAAATATATATAATTCGGGTCGGGTCGGATTAAGTCACTGTTTTTATTAAATAA
AAATAATTTTTTATTATTTCAGGTCGGGTCGGAGTTCTAATTCATATAT
Found at i:7580650 original size:38 final size:38
Alignment explanation
Indices: 7580564--7580654 Score: 107
Period size: 37 Copynumber: 2.4 Consensus size: 38
7580554 TTTATTTTGT
* * ** *
7580564 TCGAGTCGGGTTGGG-TTTTTTAAGTGTGATATTCGGG
1 TCGATTCGGGTCGGGTTTTTTTAAAAGTGATATTCGAG
7580601 TCGATTC-GGTCGGGTTTTTTTAAAAGTGATATTCGAG
1 TCGATTCGGGTCGGGTTTTTTTAAAAGTGATATTCGAG
7580638 TCGGA-TCGGGTCGGGTT
1 TC-GATTCGGGTCGGGTT
7580655 CGGGTTTAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 6 0.13
37 29 0.63
38 11 0.24
ACGTcount: A:0.15, C:0.11, G:0.35, T:0.38
Consensus pattern (38 bp):
TCGATTCGGGTCGGGTTTTTTTAAAAGTGATATTCGAG
Found at i:7580739 original size:264 final size:248
Alignment explanation
Indices: 7580379--7580951 Score: 824
Period size: 264 Copynumber: 2.2 Consensus size: 248
7580369 AGTGTGATAT
* *
7580379 TCGGGTCGGGTTCGGGTTTAGGGTG-AAATAAACCGGACCGACCCGAAAATATATATAATTTGTG
1 TCGGGTCGGGTTCGGGTTTAGGGTGAAAAT-AACCGGACCGACCCGAAAATATATATAATTCGGG
* *
7580443 TCAGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATATTTTTTTTATTATTTCTGGTTGAGT
65 TCAGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATA-ATTTTTTATTATTTC----AG-GT
*
7580508 CGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCAGATGAAACTTTATTTTGTTCGAGTCGG
124 CGGGTCGGAGTTCTAATTCATATATTCGGGTCGGGTCAGATGAAACTTTATTTTG-T----TCGG
** *
7580573 GTTGGGTTTTTTAAGTGTGATATTCGGGTCGATTCGGTCGGGTTTTTTTAAAAGTGATATTCGAG
184 GTCAGGTTTTTTAAGTGTGATATTCGGGTCGAGTCGGTCGGGTTTTTTTAAAAGTGATATTC--G
7580638 TCGG
247 --GG
7580642 ATCGGGTCGGGTTCGGGTTTAGGGTGAAAATAACCGGACCGACCCGAAAATATATATAATTCGGG
1 -TCGGGTCGGGTTCGGGTTTAGGGTGAAAATAACCGGACCGACCCGAAAATATATATAATTCGGG
* *
7580707 TCGGGTCGGATTAAGTCACTTTTTTTATTAAATAAAAATAATTTTTTATTATTTCAGGTCGGGTC
65 TCAGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCAGGTCGGGTC
*
7580772 GGAGTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCAGGTTTTT
130 GGAGTTCTAATTCATATATTCGGGTCGGGTCAGATGAAACTTTATTTTGTTCGGGTCAGGTTTTT
**
7580837 TAAGTGTGATATTCGGGTCGAGTCGGTCGGGTTTTTTTAAGTGTGATATTCGGG
195 TAAGTGTGATATTCGGGTCGAGTCGGTCGGGTTTTTTTAAAAGTGATATTCGGG
* * * *
7580891 TCAGGTCAGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGAGCCGAAAAATATATATAATT
1 TCGGGTCGGGTTCGGGTTTAGGGTGAAAATAACCGGACCGACCCG-AAAATATATATAATT
7580952 TTACCTTCTA
Statistics
Matches: 290, Mismatches: 17, Indels: 19
0.89 0.05 0.06
Matches are distributed among these distances:
248 41 0.14
249 17 0.06
251 1 0.00
253 61 0.21
257 1 0.00
258 55 0.19
259 1 0.00
263 14 0.05
264 95 0.33
265 4 0.01
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (248 bp):
TCGGGTCGGGTTCGGGTTTAGGGTGAAAATAACCGGACCGACCCGAAAATATATATAATTCGGGT
CAGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCAGGTCGGGTCG
GAGTTCTAATTCATATATTCGGGTCGGGTCAGATGAAACTTTATTTTGTTCGGGTCAGGTTTTTT
AAGTGTGATATTCGGGTCGAGTCGGTCGGGTTTTTTTAAAAGTGATATTCGGG
Found at i:7580876 original size:37 final size:39
Alignment explanation
Indices: 7580832--7580909 Score: 126
Period size: 37 Copynumber: 2.1 Consensus size: 39
7580822 TCGGGTCAGG
7580832 TTTTTTAAGTGTGATATTCGGGTC-GAGTC-GG-TCGGGT
1 TTTTTTAAGTGTGATATTCGGGTCAG-GTCAGGTTCGGGT
7580869 TTTTTTAAGTGTGATATTCGGGTCAGGTCAGGTTCGGGT
1 TTTTTTAAGTGTGATATTCGGGTCAGGTCAGGTTCGGGT
7580908 TT
1 TT
7580910 AGGGTGAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
37 27 0.71
38 3 0.08
39 8 0.21
ACGTcount: A:0.14, C:0.10, G:0.33, T:0.42
Consensus pattern (39 bp):
TTTTTTAAGTGTGATATTCGGGTCAGGTCAGGTTCGGGT
Found at i:7581500 original size:16 final size:18
Alignment explanation
Indices: 7581475--7581520 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
7581465 TATGGAATTG
*
7581475 GATTCCAATTCC-T-ACA
1 GATTCAAATTCCTTCACA
*
7581491 GATTCTAATTCCTTCACA
1 GATTCAAATTCCTTCACA
7581509 GATTCAAATTCC
1 GATTCAAATTCC
7581521 CTCATAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 11 0.42
17 1 0.04
18 14 0.54
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (18 bp):
GATTCAAATTCCTTCACA
Found at i:7585870 original size:15 final size:15
Alignment explanation
Indices: 7585850--7585902 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
7585840 AACCGGGTAT
7585850 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
* **
7585865 CGGGTACCCTCAAAATC
1 CGGGTACCC-GATTA-C
*
7585882 CGGATACCCGATTAC
1 CGGGTACCCGATTAC
7585897 CGGGTA
1 CGGGTA
7585903 TCTGTAACAT
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
15 15 0.54
16 4 0.14
17 9 0.32
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.19
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:7585974 original size:14 final size:15
Alignment explanation
Indices: 7585955--7585997 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
7585945 CTTGAAAGTT
7585955 TCGGGTA-CCGGAAA
1 TCGGGTACCCGGAAA
*
7585969 TCGGGTACCCGAAAA
1 TCGGGTACCCGGAAA
*
7585984 TCCGGGTATCCGGA
1 T-CGGGTACCCGGA
7585998 TTTGCACACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 7 0.29
15 7 0.29
16 10 0.42
ACGTcount: A:0.26, C:0.26, G:0.33, T:0.16
Consensus pattern (15 bp):
TCGGGTACCCGGAAA
Found at i:7591987 original size:35 final size:35
Alignment explanation
Indices: 7591945--7592023 Score: 149
Period size: 35 Copynumber: 2.3 Consensus size: 35
7591935 AACCTATAAA
7591945 AGGAATTACCAATAGCGACTGAACCTGATAGAGAT
1 AGGAATTACCAATAGCGACTGAACCTGATAGAGAT
*
7591980 AGGAATTACCAATAGCGACTGAACCTGCTAGAGAT
1 AGGAATTACCAATAGCGACTGAACCTGATAGAGAT
7592015 AGGAATTAC
1 AGGAATTAC
7592024 TAGTCAGTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (35 bp):
AGGAATTACCAATAGCGACTGAACCTGATAGAGAT
Found at i:7595508 original size:32 final size:32
Alignment explanation
Indices: 7595467--7595528 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
7595457 AAAAGGATAA
*
7595467 GTTTTTTTATATTCCATTTTTATTTTAAACCC
1 GTTTTTTTATATTCCATTTTTATGTTAAACCC
*
7595499 GTTTTTTTATATTTCATTTTTATGTTAAAC
1 GTTTTTTTATATTCCATTTTTATGTTAAAC
7595529 ACTAAAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.23, C:0.11, G:0.05, T:0.61
Consensus pattern (32 bp):
GTTTTTTTATATTCCATTTTTATGTTAAACCC
Found at i:7597738 original size:22 final size:22
Alignment explanation
Indices: 7597710--7597759 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
7597700 GGCTCTCCAG
7597710 CCGGTCCAGGAGCAGTCTGGAA
1 CCGGTCCAGGAGCAGTCTGGAA
7597732 CCGGTCCAGGAGCAGTCTGGAA
1 CCGGTCCAGGAGCAGTCTGGAA
7597754 CCGGTC
1 CCGGTC
7597760 TAGTCAGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.30, G:0.36, T:0.14
Consensus pattern (22 bp):
CCGGTCCAGGAGCAGTCTGGAA
Found at i:7601947 original size:19 final size:20
Alignment explanation
Indices: 7601923--7601968 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
7601913 ATAAAAAATA
7601923 TATTTTTA-ATTTTT-TAATT
1 TATTTTTATATTTTTAT-ATT
7601942 TATTTTTATATTTTTATATT
1 TATTTTTATATTTTTATATT
7601962 TATTTTT
1 TATTTTT
7601969 TGAATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.32
20 16 0.64
21 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
TATTTTTATATTTTTATATT
Found at i:7603196 original size:60 final size:58
Alignment explanation
Indices: 7603066--7603211 Score: 141
Period size: 59 Copynumber: 2.4 Consensus size: 58
7603056 AAAGATATGA
** * ** *
7603066 ATAGTCAAATGACCATTTTGTAACTTTTAATAGCCGAGAGATCAACAAAGCAACGTCTT
1 ATAGTCAAGGGACCA-TTTGTAACTTTTAATAGCCGAGAGATCAACAAAACAACACCCT
** * *
7603125 ATAGTTGAGGGACCACTTTGTAACTTTTGATAGTCGATG-GACTCAACAAAACAACACCCT
1 ATAGTCAAGGGACCA-TTTGTAACTTTTAATAGCCGA-GAGA-TCAACAAAACAACACCCT
*
7603185 ATAGTCAAGGGACTATTTGTGAACTTT
1 ATAGTCAAGGGACCATTTGT-AACTTT
7603212 ACCCTTTAGT
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
59 37 0.53
60 33 0.47
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (58 bp):
ATAGTCAAGGGACCATTTGTAACTTTTAATAGCCGAGAGATCAACAAAACAACACCCT
Found at i:7603334 original size:26 final size:26
Alignment explanation
Indices: 7603304--7603359 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
7603294 CTGTTAGAAA
* *
7603304 TTAACTTAAAGTA-AAATATGTAAGAT
1 TTAACCTAAA-TACAAATATGTAAGAC
*
7603330 TTAACCTAAATACAAATTTGTAAGAC
1 TTAACCTAAATACAAATATGTAAGAC
7603356 TTAA
1 TTAA
7603360 TGGAATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (26 bp):
TTAACCTAAATACAAATATGTAAGAC
Found at i:7603372 original size:25 final size:25
Alignment explanation
Indices: 7603337--7603393 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
7603327 GATTTAACCT
*
7603337 AAATACAAATTTGTAAGACTTAATG
1 AAATATAAATTTGTAAGACTTAATG
* *
7603362 GAATATAAATTTGTAAGACTTATTG
1 AAATATAAATTTGTAAGACTTAATG
7603387 AAATATA
1 AAATATA
7603394 GTGTGATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (25 bp):
AAATATAAATTTGTAAGACTTAATG
Found at i:7603798 original size:14 final size:14
Alignment explanation
Indices: 7603772--7603801 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7603762 TGATATATAT
7603772 ATATATGTATATGC
1 ATATATGTATATGC
7603786 ATATATGTATATGC
1 ATATATGTATATGC
7603800 AT
1 AT
7603802 GTATCATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (14 bp):
ATATATGTATATGC
Found at i:7605084 original size:43 final size:44
Alignment explanation
Indices: 7605022--7605528 Score: 505
Period size: 43 Copynumber: 11.7 Consensus size: 44
7605012 TATTTGAGGC
* *
7605022 TCCTTTGTTGTATGCAAGGGTAAGCCTTACAGTTTTCCC-AGGT
1 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCTAGGT
* * *
7605065 TCATTTGCTGTGTCCAAGGGTAAGCCTTACAG-TTTCCCTATGT
1 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCTAGGT
** *
7605108 TCCTTTGCTGTGTGCAAGAATAAGCCTTACAG-TTTCCCTAGTT
1 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCTAGGT
* * * *
7605151 TCCTTTGTTGTGTGCAAGGGTAAGCCTTATAG-TTTCCCCAAGT
1 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCTAGGT
* ** * * * *
7605194 TTCTTTATTGTGTGAAAGGATAAGCCTTATAG-TTTCCCCAGGT
1 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCTAGGT
* * *
7605237 TTCTTTGCTGTGTGCAAGGGTAAGCCTTACA-ATTTCCTTAGGT
1 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCTAGGT
* * * *
7605280 TCTTTTACTGTGTGCAAGGGTAAGCCTTACA-ATTT-CCTCATGT
1 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCT-AGGT
* * *
7605323 TCCTTTGCTGTGTGCAAGGGTAAGCCTTAAAG-TTTCCCCAAGT
1 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCTAGGT
* * * *
7605366 TCCTTTGTTGTGTGTAAGGGTAAGCCTTACAG--TTCCCCAAGT
1 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCTAGGT
* * *
7605408 TTCTTTGTTGTGTGCAAGGGTAAGTCTTACAGTTTTCCCTAGGT
1 TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCTAGGT
* * * * *
7605452 TCCTTTGTTGTGTTCAAGGGTAAGACCTTATAGTTTTCCCCAGGC
1 TCCTTTGCTGTGTGCAAGGGTAAG-CCTTACAGTTTTCCCTAGGT
* * *
7605497 TCCTCTGCTTTGCGCATAGGGTAAGCCCTTAC
1 TCCTTTGCTGTGTGCA-AGGGTAAG-CCTTAC
7605529 CAGTGTACAG
Statistics
Matches: 394, Mismatches: 61, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
42 47 0.12
43 275 0.70
44 32 0.08
45 27 0.07
46 13 0.03
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.37
Consensus pattern (44 bp):
TCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCTAGGT
Found at i:7605252 original size:129 final size:129
Alignment explanation
Indices: 7605022--7605528 Score: 593
Period size: 129 Copynumber: 3.9 Consensus size: 129
7605012 TATTTGAGGC
* * * * *
7605022 TCCTTTGTTGTATGCAAGGGTAAGCCTTACAGTTTTCCCAGGTTCATTTGCTGTGTCCAAGGGTA
1 TCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAAGTTCCTTTGCTGTGTGCAAGGGTA
* * * **
7605087 AGCCTTACAGTTTCCCTATGTTCCTTTGCTGTGTGCAAGAATAAGCCTTACAGTTTCCCTAGTT
66 AGCCTTATAGTTTCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCTAGTT
* * ** * *
7605151 TCCTTTGTTGTGTGCAAGGGTAAGCCTTATAGTTTCCCCAAGTTTCTTTATTGTGTGAAAGGATA
1 TCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAAGTTCCTTTGCTGTGTGCAAGGGTA
* * * *
7605216 AGCCTTATAGTTTCCCCAGGTTTCTTTGCTGTGTGCAAGGGTAAGCCTTACAATTTCCTTAGGT
66 AGCCTTATAGTTTCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCTAGTT
* ** * * *
7605280 TCTTTTACTGTGTGCAAGGGTAAGCCTTACAATTTCCTCATGTTCCTTTGCTGTGTGCAAGGGTA
1 TCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAAGTTCCTTTGCTGTGTGCAAGGGTA
* * * * * *
7605345 AGCCTTAAAGTTTCCCCAAGTTCCTTTGTTGTGTGTAAGGGTAAGCCTTACAGTTCCCCAAGTT
66 AGCCTTATAGTTTCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCTAGTT
* * * * *
7605409 T-CTTTGTTGTGTGCAAGGGTAAGTCTTACAGTTTTCCCTAGGTTCCTTTGTTGTGTTCAAGGGT
1 TCCTTTGTTGTGTGCAAGGGTAAGCCTTACAG-TTTCCCCAAGTTCCTTTGCTGTGTGCAAGGGT
* * * *
7605473 AAGACCTTATAGTTTTCCCCAGGCTCCTCTGCTTTGCGCATAGGGTAAGCCCTTAC
65 AAG-CCTTATAG-TTTCCCCAGGTTCCTTTGCTGTGTGCA-AGGGTAAG-CCTTAC
7605529 CAGTGTACAG
Statistics
Matches: 313, Mismatches: 60, Indels: 6
0.83 0.16 0.02
Matches are distributed among these distances:
128 25 0.08
129 247 0.79
130 7 0.02
131 20 0.06
132 8 0.03
133 6 0.02
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.37
Consensus pattern (129 bp):
TCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAAGTTCCTTTGCTGTGTGCAAGGGTA
AGCCTTATAGTTTCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCTAGTT
Found at i:7612291 original size:43 final size:43
Alignment explanation
Indices: 7612187--7612520 Score: 416
Period size: 43 Copynumber: 7.7 Consensus size: 43
7612177 GGAAGTATTT
* * * *
7612187 CAGGCTCCTTTGTTGTGTGCAAGGGTAAACCTTACAGTTTTTCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAG-TTTCCC
7612231 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* * * *
7612274 CAGGTACCTTTGTTGTGTGCAAGGGTAAGCCTTACGGATTCCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* *
7612317 CAGGTTCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTTCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* * * *
7612360 CAGGTTCCTTTGCTGTGCGTAAGGGTAAGCCTTGCAGGTTCCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
* * *
7612403 TAGGTTCCTTTGCTGTGTGCAAGGGTAAGTCTTACAGTTTTCTC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAG-TTTCCC
* * *
7612447 CAGGTTCATTTGCTGTGTGCAAGGGTAAGACCTTATAGTTTTTCC
1 CAGGTTCCTTTGCTGTGTGCAAGGGTAAG-CCTTACAG-TTTCCC
* * *
7612492 CAGGCTCCTCTGCTTTGTGCACAGGGTAA
1 CAGGTTCCTTTGCTGTGTGCA-AGGGTAA
7612521 ACCCTTATCG
Statistics
Matches: 252, Mismatches: 35, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
43 152 0.60
44 65 0.26
45 28 0.11
46 7 0.03
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.34
Consensus pattern (43 bp):
CAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCC
Found at i:7614878 original size:26 final size:26
Alignment explanation
Indices: 7614849--7614915 Score: 125
Period size: 26 Copynumber: 2.6 Consensus size: 26
7614839 GAGTTCAAGA
7614849 TATTTTAATCCTTTAGGGTTTAAAGG
1 TATTTTAATCCTTTAGGGTTTAAAGG
7614875 TATTTTAATCCTTTAGGGTTTAAAGG
1 TATTTTAATCCTTTAGGGTTTAAAGG
*
7614901 TATTTTAATCATTTA
1 TATTTTAATCCTTTA
7614916 AAAATCGAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.49
Consensus pattern (26 bp):
TATTTTAATCCTTTAGGGTTTAAAGG
Found at i:7615653 original size:17 final size:17
Alignment explanation
Indices: 7615631--7615664 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7615621 TGTCTAAAAA
7615631 CATAAAATATAACTTTT
1 CATAAAATATAACTTTT
*
7615648 CATAAAATTTAACTTTT
1 CATAAAATATAACTTTT
7615665 TGGTCAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
CATAAAATATAACTTTT
Found at i:7615808 original size:19 final size:19
Alignment explanation
Indices: 7615784--7615820 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7615774 GACCTAGCTT
*
7615784 GGTTTGACTGGACTGGTTC
1 GGTTTGACTGGACCGGTTC
7615803 GGTTTGACTGGACCGGTT
1 GGTTTGACTGGACCGGTT
7615821 TTAGAAGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.16, G:0.38, T:0.35
Consensus pattern (19 bp):
GGTTTGACTGGACCGGTTC
Found at i:7617085 original size:24 final size:23
Alignment explanation
Indices: 7617053--7617101 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
7617043 CATACAGGTC
7617053 AATTCATTGAGTTGCAAAGCTCAT
1 AATTCATTGAGTTGCAAA-CTCAT
* * *
7617077 AATTTATTGGGTTTCAAACTCAT
1 AATTCATTGAGTTGCAAACTCAT
7617100 AA
1 AA
7617102 AATTGGAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (23 bp):
AATTCATTGAGTTGCAAACTCAT
Found at i:7620770 original size:21 final size:21
Alignment explanation
Indices: 7620737--7620798 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
7620727 GGTGTTAGGT
7620737 CGGG-TCTAGATCTGGGCCTC
1 CGGGTTCTAGATCTGGGCCTC
*
7620757 CGGGTTCTGGATCTGGGCCTC
1 CGGGTTCTAGATCTGGGCCTC
**
7620778 CAAGTTCTAGATCTGGGCCTC
1 CGGGTTCTAGATCTGGGCCTC
7620799 ATTTGTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 4 0.11
21 33 0.89
ACGTcount: A:0.11, C:0.29, G:0.32, T:0.27
Consensus pattern (21 bp):
CGGGTTCTAGATCTGGGCCTC
Found at i:7620845 original size:3 final size:3
Alignment explanation
Indices: 7620837--7620944 Score: 99
Period size: 3 Copynumber: 36.0 Consensus size: 3
7620827 ATTTGGCCTG
* * * *
7620837 TAA TAA TAA TAT TAT TTA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * *
7620885 TAT TTA TAA AAA TAA TTA TAA CAA TAA TAA TAT TTA TAA AAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7620933 TAA TAA TAA TAA
1 TAA TAA TAA TAA
7620945 AATGAAAAAA
Statistics
Matches: 81, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:7620899 original size:30 final size:30
Alignment explanation
Indices: 7620837--7620944 Score: 135
Period size: 30 Copynumber: 3.4 Consensus size: 30
7620827 ATTTGGCCTG
*
7620837 TAATAATAATATTATTTATAATAATAATAATAATAA
1 TAATAATAATAATATTTAT-A-AA-AATAAT--T-A
*
7620873 CAATAATAATAATATTTATAAAAATAATTA
1 TAATAATAATAATATTTATAAAAATAATTA
*
7620903 TAACAATAATAATATTTATAAAAATAATTA
1 TAATAATAATAATATTTATAAAAATAATTA
7620933 TAATAATAATAA
1 TAATAATAATAA
7620945 AATGAAAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
30 40 0.60
31 1 0.01
33 6 0.09
34 2 0.03
35 1 0.01
36 17 0.25
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (30 bp):
TAATAATAATAATATTTATAAAAATAATTA
Found at i:7621301 original size:45 final size:45
Alignment explanation
Indices: 7621191--7621385 Score: 266
Period size: 45 Copynumber: 4.3 Consensus size: 45
7621181 TAAAATCTCA
* ** *
7621191 TTTGAAAACATCCTGCACTGAAGGTTTTACGGATGACCCGAAGGCTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG--T
* * * *
7621238 TTTGAAAACATCATGCACTGAAAGTCTTACGGATGATCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
7621283 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
7621328 TTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGAAAGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
7621373 TTT-AAAACTATCA
1 TTTGAAAAC-ATCA
7621386 AAAAGCTCCT
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
44 5 0.04
45 92 0.67
47 40 0.29
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
Found at i:7621466 original size:45 final size:45
Alignment explanation
Indices: 7621403--7621506 Score: 181
Period size: 45 Copynumber: 2.3 Consensus size: 45
7621393 CCTGAAGGCT
* *
7621403 TTTTGAAAACATCCTGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGG
7621448 TTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGG
*
7621493 TTTTGAAAATATCA
1 TTTTGAAAACATCA
7621507 AAAAGCTCCC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGG
Found at i:7621496 original size:121 final size:121
Alignment explanation
Indices: 7621275--7621582 Score: 514
Period size: 121 Copynumber: 2.6 Consensus size: 121
7621265 TACGGATGAT
7621275 CCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
1 CCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
**
7621338 TCATGCACTGTAGGGCTTACAGATGACCCGAAAGTTTT-AAAACTATCAAAAAGCTC
66 TCATGCACTAAAGGGCTTACAGATGACCCGAAAGTTTTGAAAA-TATCAAAAAGCTC
* *
7621394 CTGAAGGCTTTTTGAAAACATCCTGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
1 CCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
*
7621459 TCATGCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTC
66 TCATGCACTAAAGGGCTTACAGATGACCCGAAAGTTTTGAAAATATCAAAAAGCTC
* * *
7621515 CCGAAGGCTTTTTGAAAACATCTTGTACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATA
1 CCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
7621580 TCA
66 TCA
7621583 AAAAGCTCTT
Statistics
Matches: 177, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
119 6 0.03
121 167 0.94
122 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (121 bp):
CCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACA
TCATGCACTAAAGGGCTTACAGATGACCCGAAAGTTTTGAAAATATCAAAAAGCTC
Found at i:7621532 original size:76 final size:76
Alignment explanation
Indices: 7621440--7621711 Score: 431
Period size: 76 Copynumber: 3.6 Consensus size: 76
7621430 TTACAGATGA
* * *
7621440 CCCGAAGG--TTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAT
1 CCCGAAGGCTTTTTGAAAACATCCTGTACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAT
7621503 ATCAAAAAGCT
66 ATCAAAAAGCT
*
7621514 CCCGAAGGCTTTTTGAAAACATCTTGTACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAT
1 CCCGAAGGCTTTTTGAAAACATCCTGTACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAT
7621579 ATCAAAAAGCT
66 ATCAAAAAGCT
** * * *
7621590 CTTGAAGGCTTTTTGAAAACATCCTGTGCTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCCTGTACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAT
7621655 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
7621666 CCCGAAGGCTTTTTGAAAACATCCTGTGCTGGAGGGCTTACAGATG
1 CCCGAAGGCTTTTTGAAAACATCCTGTACTGAAGGGCTTACAGATG
7621712 TGGGAAATAG
Statistics
Matches: 184, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
74 8 0.04
76 176 0.96
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGAAAACATCCTGTACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAT
ATCAAAAAGCT
Found at i:7622415 original size:20 final size:22
Alignment explanation
Indices: 7622384--7622457 Score: 112
Period size: 22 Copynumber: 3.4 Consensus size: 22
7622374 GGCTTTAATC
* *
7622384 TTTGAAAAGAGAATCTATTATA
1 TTTGAAGAGAGAATCTATCATA
*
7622406 TTTGAAGAGAGAATCTACCATA
1 TTTGAAGAGAGAATCTATCATA
*
7622428 TTTGAAGAGAGAATCTATCATC
1 TTTGAAGAGAGAATCTATCATA
7622450 TTTGAAGA
1 TTTGAAGA
7622458 ATGTAGATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (22 bp):
TTTGAAGAGAGAATCTATCATA
Found at i:7622906 original size:54 final size:54
Alignment explanation
Indices: 7622823--7623089 Score: 308
Period size: 54 Copynumber: 4.9 Consensus size: 54
7622813 ATAATCACTG
* *
7622823 GTTCGTAAAACATTTGACAATACATTCATCCTTTCTCGTGGTTTCTGCACAGAT
1 GTTCGTAAAGCATTTGACAACACATTCATCCTTTCTCGTGGTTTCTGCACAGAT
* * * * * *
7622877 GTTCGTAAAACATTTGATAACATAATCATCCTTTCTTGTGGCTTCTGGC-CAGAT
1 GTTCGTAAAGCATTTGACAACACATTCATCCTTTCTCGTGGTTTCT-GCACAGAT
* * * * *
7622931 GTTCGTAAAGCATTTAACAATATATTCATCCTTTCTTGTGGCTTCTAGC-CAGAT
1 GTTCGTAAAGCATTTGACAACACATTCATCCTTTCTCGTGGTTTCT-GCACAGAT
* * *
7622985 GTTCGTAAAGCATTTGATAACACGTTCATCATTT-TCTGTGGTTTCTGCACAGAT
1 GTTCGTAAAGCATTTGACAACACATTCATCCTTTCTC-GTGGTTTCTGCACAGAT
* *
7623039 TTTCGTAAAGCATTTGACAACACATTCATCATTT-TCTGTGGTTTCTGCACA
1 GTTCGTAAAGCATTTGACAACACATTCATCCTTTCTC-GTGGTTTCTGCACA
7623090 AATTTCTGAT
Statistics
Matches: 187, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
53 3 0.02
54 182 0.97
55 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAGCATTTGACAACACATTCATCCTTTCTCGTGGTTTCTGCACAGAT
Found at i:7622960 original size:108 final size:108
Alignment explanation
Indices: 7622823--7623089 Score: 344
Period size: 108 Copynumber: 2.5 Consensus size: 108
7622813 ATAATCACTG
*
7622823 GTTCGTAAAACATTTGACAATACATTCATCCTTTCTCGTGGTTTCTGCACAGATGTTCGTAAAAC
1 GTTCGTAAAGCATTTGACAATACATTCATCCTTTCTCGTGGTTTCTGCACAGATGTTCGTAAAAC
* *
7622888 ATTTGATAACATAATCATC-CTTTCTTGTGGCTTCTGGC-CAGAT
66 ATTTGATAACACAATCATCATTTTC-TGTGGCTTCT-GCACAGAT
* * * * *
7622931 GTTCGTAAAGCATTTAACAATATATTCATCCTTTCTTGTGGCTTCTAGC-CAGATGTTCGTAAAG
1 GTTCGTAAAGCATTTGACAATACATTCATCCTTTCTCGTGGTTTCT-GCACAGATGTTCGTAAAA
** *
7622995 CATTTGATAACACGTTCATCATTTTCTGTGGTTTCTGCACAGAT
65 CATTTGATAACACAATCATCATTTTCTGTGGCTTCTGCACAGAT
* * *
7623039 TTTCGTAAAGCATTTGACAACACATTCATCATTT-TCTGTGGTTTCTGCACA
1 GTTCGTAAAGCATTTGACAATACATTCATCCTTTCTC-GTGGTTTCTGCACA
7623090 AATTTCTGAT
Statistics
Matches: 136, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
107 5 0.04
108 125 0.92
109 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (108 bp):
GTTCGTAAAGCATTTGACAATACATTCATCCTTTCTCGTGGTTTCTGCACAGATGTTCGTAAAAC
ATTTGATAACACAATCATCATTTTCTGTGGCTTCTGCACAGAT
Found at i:7626907 original size:32 final size:32
Alignment explanation
Indices: 7626866--7626927 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
7626856 GAAGAAATGA
* *
7626866 TTGTTATGCTTATCTGGTAGAGATACTTCTCG
1 TTGTTATGCTCATCTCGTAGAGATACTTCTCG
7626898 TTGTTATGCTCATCTCGTAGAGATACTTCT
1 TTGTTATGCTCATCTCGTAGAGATACTTCT
7626928 TATTTCCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (32 bp):
TTGTTATGCTCATCTCGTAGAGATACTTCTCG
Found at i:7631571 original size:16 final size:17
Alignment explanation
Indices: 7631546--7631585 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
7631536 AACGTCTTTT
7631546 AAAAACAATTTT-TAAG
1 AAAAACAATTTTATAAG
*
7631562 AAAAATAATTTTATAAG
1 AAAAACAATTTTATAAG
*
7631579 ACAAACA
1 AAAAACA
7631586 TTTGGTCTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (17 bp):
AAAAACAATTTTATAAG
Found at i:7634118 original size:25 final size:25
Alignment explanation
Indices: 7634080--7634228 Score: 264
Period size: 25 Copynumber: 6.0 Consensus size: 25
7634070 AGTTAAGGGA
*
7634080 TTAGGG-TTGAAACCCTAAATTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
7634104 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
7634129 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
*
7634154 TTAGGGTTTGAAACCTTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
7634179 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
*
7634204 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
7634229 GGGTTGTCGG
Statistics
Matches: 120, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 6 0.05
25 114 0.95
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAAACTGAT
Found at i:7634366 original size:3 final size:3
Alignment explanation
Indices: 7634358--7634413 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
7634348 GCAAAAATTG
* **
7634358 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TAA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7634402 TAA TAA TAA TAA
1 TAA TAA TAA TAA
7634414 CGGAAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 38 0.86
4 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:7646638 original size:16 final size:17
Alignment explanation
Indices: 7646613--7646652 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
7646603 AACGTCTTTT
7646613 AAAAACAATTTT-TAAG
1 AAAAACAATTTTATAAG
*
7646629 AAAAATAATTTTATAAG
1 AAAAACAATTTTATAAG
*
7646646 ACAAACA
1 AAAAACA
7646653 TTTGGTCTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (17 bp):
AAAAACAATTTTATAAG
Found at i:7649164 original size:25 final size:25
Alignment explanation
Indices: 7649090--7649212 Score: 198
Period size: 25 Copynumber: 5.0 Consensus size: 25
7649080 AGTTAAGGGA
*
7649090 TTAGGG-TTGAAACCC--AATTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
7649112 TTAGGGTTTGAAACCCTAAAACTGAT
1 TTAGGGTTTGAAACCCT-AAACTGAT
7649138 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
7649163 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
*
7649188 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
7649213 GGGTTGTCGG
Statistics
Matches: 95, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
22 6 0.06
23 9 0.09
25 57 0.60
26 23 0.24
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAAACTGAT
Found at i:7649350 original size:3 final size:3
Alignment explanation
Indices: 7649342--7649397 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
7649332 GCAAAAATTG
* **
7649342 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TAA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7649386 TAA TAA TAA TAA
1 TAA TAA TAA TAA
7649398 CGGAAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 38 0.86
4 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:7650676 original size:16 final size:16
Alignment explanation
Indices: 7650657--7650692 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
7650647 TGAACTTGAC
7650657 CTGTTTTTAACCTAAA
1 CTGTTTTTAACCTAAA
*
7650673 CTGTTTTTAACCTAAT
1 CTGTTTTTAACCTAAA
7650689 CTGT
1 CTGT
7650693 AAATGATCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.47
Consensus pattern (16 bp):
CTGTTTTTAACCTAAA
Found at i:7650881 original size:13 final size:13
Alignment explanation
Indices: 7650865--7650891 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7650855 TACCTATTAT
7650865 ATAAAATTATTTA
1 ATAAAATTATTTA
7650878 ATAAAATTATTTA
1 ATAAAATTATTTA
7650891 A
1 A
7650892 ATTTAAATTA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:7650987 original size:23 final size:24
Alignment explanation
Indices: 7650947--7651000 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 24
7650937 CAATGATTAA
7650947 ATGTAAATTAATATAGTTTAATTT
1 ATGTAAATTAATATAGTTTAATTT
*
7650971 ATGTAAATT-ATATAGTTTAGTTT
1 ATGTAAATTAATATAGTTTAATTT
7650994 ATGTAAA
1 ATGTAAA
7651001 GAAAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (24 bp):
ATGTAAATTAATATAGTTTAATTT
Found at i:7651870 original size:13 final size:14
Alignment explanation
Indices: 7651821--7651896 Score: 76
Period size: 13 Copynumber: 5.9 Consensus size: 14
7651811 TATTAAATAA
7651821 TAATTGCATGTTAT
1 TAATTGCATGTTAT
*
7651835 TAATT-CATGTGA-
1 TAATTGCATGTTAT
7651847 T-ATTGCATGTTAT
1 TAATTGCATGTTAT
7651860 TAATT-CATG-T-T
1 TAATTGCATGTTAT
**
7651871 GCATTGCATGTTAT
1 TAATTGCATGTTAT
7651885 TAATT-CATGTTA
1 TAATTGCATGTTA
7651897 CATTAGGTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
11 7 0.14
12 12 0.24
13 19 0.38
14 12 0.24
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (14 bp):
TAATTGCATGTTAT
Found at i:7651908 original size:25 final size:25
Alignment explanation
Indices: 7651823--7651900 Score: 129
Period size: 25 Copynumber: 3.1 Consensus size: 25
7651813 TTAAATAATA
* *
7651823 ATTGCATGTTATTAATTCATGTGAT
1 ATTGCATGTTATTAATTCATGTTAC
*
7651848 ATTGCATGTTATTAATTCATGTTGC
1 ATTGCATGTTATTAATTCATGTTAC
7651873 ATTGCATGTTATTAATTCATGTTAC
1 ATTGCATGTTATTAATTCATGTTAC
7651898 ATT
1 ATT
7651901 AGGTGTTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (25 bp):
ATTGCATGTTATTAATTCATGTTAC
Found at i:7652440 original size:21 final size:21
Alignment explanation
Indices: 7652396--7652440 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
7652386 ATTTAGGGGG
* *
7652396 TTAGGGTTTATGGTTTATACT
1 TTAGGGTTTAGGGTTTAGACT
* *
7652417 TTAGTGTTTAGGGTTTAGAGT
1 TTAGGGTTTAGGGTTTAGACT
7652438 TTA
1 TTA
7652441 TGACTCATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.51
Consensus pattern (21 bp):
TTAGGGTTTAGGGTTTAGACT
Found at i:7652455 original size:35 final size:35
Alignment explanation
Indices: 7652379--7652468 Score: 92
Period size: 35 Copynumber: 2.5 Consensus size: 35
7652369 AATCCAAGTG
* * * ** *
7652379 ATTTAGTATTTAGGGGGTTAGGGTTTATGGTTTATA
1 ATTTAGTGTTTA-GGGTTTAGAGTTTATGACTCATA
*
7652415 CTTTAGTGTTTAGGGTTTAGAGTTTATGACTCATA
1 ATTTAGTGTTTAGGGTTTAGAGTTTATGACTCATA
7652450 ATTTAG-GATTTAGGGTTTA
1 ATTTAGTG-TTTAGGGTTTA
7652469 AGATTTTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
34 1 0.02
35 34 0.76
36 10 0.22
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (35 bp):
ATTTAGTGTTTAGGGTTTAGAGTTTATGACTCATA
Found at i:7652540 original size:2 final size:2
Alignment explanation
Indices: 7652533--7652668 Score: 69
Period size: 2 Copynumber: 71.5 Consensus size: 2
7652523 TTCTATAAAT
* *
7652533 TA TA TA TA TA TA TA TA TA -A TC TA TA GA T- TA CT- TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
7652572 GT- TA TA CA TA CA TT TA TA TA TA CTA TA T- TA -A TA TA AA T- TA
1 -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * *
7652612 TA -A TT TA TA AA CTA TA TA T- TT TA TA T- TT TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7652652 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
7652669 TAATATAAAT
Statistics
Matches: 101, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
1 11 0.11
2 85 0.84
3 5 0.05
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7652622 original size:14 final size:15
Alignment explanation
Indices: 7652603--7652701 Score: 52
Period size: 14 Copynumber: 7.1 Consensus size: 15
7652593 ACTATATTAA
*
7652603 TATAAATTATA-ATT
1 TATAAACTATATATT
7652617 TATAAACTATATATT
1 TATAAACTATATATT
* * * *
7652632 T-TATATTTTATATA
1 TATAAACTATATATT
* *
7652646 TATATA-TATATATA
1 TATAAACTATATATT
* *
7652660 TATATA-TAT-TA-A
1 TATAAACTATATATT
7652672 TATAAA-T-TATAGTT
1 TATAAACTATATA-TT
7652686 TATAAACTATATATT
1 TATAAACTATATATT
7652701 T
1 T
7652702 TTTATAGTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
11 1 0.01
12 9 0.13
13 2 0.03
14 42 0.60
15 12 0.17
16 4 0.06
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (15 bp):
TATAAACTATATATT
Found at i:7652634 original size:16 final size:15
Alignment explanation
Indices: 7652633--7652702 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 15
7652623 CTATATATTT
*
7652633 TATATTTTATATATA
1 TATATTTTATAAATA
* *
7652648 TATATATATATATATA
1 TATAT-TTTATAAATA
*
7652664 TATATTAATATAAAT-
1 TATATT-TTATAAATA
*
7652679 TATAGTTTATAAACTA
1 TATATTTTATAAA-TA
7652695 TATATTTT
1 TATATTTT
7652703 TTATAGTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
14 6 0.13
15 12 0.26
16 28 0.61
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (15 bp):
TATATTTTATAAATA
Found at i:7652681 original size:69 final size:71
Alignment explanation
Indices: 7652586--7652722 Score: 224
Period size: 69 Copynumber: 1.9 Consensus size: 71
7652576 TACATACATT
* *
7652586 TATATATACTATATTAATATAAATTATAATTTATAAACTATATA-TTTTATATTTTATATATATA
1 TATATATACTATATTAATATAAATTATAATTTATAAACTATATATTTTTATAGTTTATACATATA
7652650 TATATA
66 TATATA
*
7652656 TATATATA-TATATTAATATAAATTATAGTTTATAAACTATATATTTTTTATAGTTTATACATAT
1 TATATATACTATATTAATATAAATTATAATTTATAAACTATATA-TTTTTATAGTTTATACATAT
7652720 ATA
65 ATA
7652723 ATTTAAATAC
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
69 34 0.55
70 8 0.13
71 20 0.32
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (71 bp):
TATATATACTATATTAATATAAATTATAATTTATAAACTATATATTTTTATAGTTTATACATATA
TATATA
Found at i:7652689 original size:28 final size:27
Alignment explanation
Indices: 7652658--7652776 Score: 84
Period size: 28 Copynumber: 4.4 Consensus size: 27
7652648 TATATATATA
*
7652658 TATATATATATTAATATAAATTATAGTT
1 TATATATATA-TAATATAAATCATAGTT
*** *
7652686 TATA-A-ACTAT-ATATTTTTTATAGTT
1 TATATATA-TATAATATAAATCATAGTT
* *
7652711 TATACATATATAATTTAAATACATAGTT
1 TATATATATATAATATAAAT-CATAGTT
* *
7652739 TATATATATAGTCCATATAAA-CATAATT
1 TATATATATA-T-AATATAAATCATAGTT
7652767 TATATATATA
1 TATATATATA
7652777 GCTCATAATA
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
25 16 0.22
26 6 0.08
27 8 0.11
28 35 0.49
29 1 0.01
30 6 0.08
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (27 bp):
TATATATATATAATATAAATCATAGTT
Found at i:7652697 original size:53 final size:53
Alignment explanation
Indices: 7652640--7652742 Score: 120
Period size: 53 Copynumber: 1.9 Consensus size: 53
7652630 TTTTATATTT
* *
7652640 TATATATATATATATA-TATATATATATATTAATATAAAT-TATAGTTTATAAAC
1 TATATAT-TATATATAGTATATACATATA-TAATATAAATACATAGTTTATAAAC
* * * *
7652693 TATATATTTTTTATAGTTTATACATATATAATTTAAATACATAGTTTATA
1 TATATATTATATATAGTATATACATATATAATATAAATACATAGTTTATA
7652743 TATATAGTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
52 15 0.36
53 27 0.64
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (53 bp):
TATATATTATATATAGTATATACATATATAATATAAATACATAGTTTATAAAC
Found at i:7652744 original size:69 final size:69
Alignment explanation
Indices: 7652586--7652744 Score: 198
Period size: 69 Copynumber: 2.3 Consensus size: 69
7652576 TACATACATT
* * *
7652586 TATATATACTATATTAATATAAATTATAATTTATAAACTATATATTTTATATTTTATATATATAT
1 TATAAATAC-ATATTAATATAAATTATAATTTATAAACTATATATTTTATAGTTTATACATATAT
7652651 ATATA
65 ATATA
* * *
7652656 TATATATATATATTAATATAAATTATAGTTTATAAACTATATATTTTTTATAGTTTATACATATA
1 TATAAATACATATTAATATAAATTATAATTTATAAACTATATA--TTTTATAGTTTATACATATA
7652721 TA-AT-
64 TATATA
*
7652725 T-TAAATACATAGTTTATATA
1 TATAAATACATA-TTAATATA
7652745 TATAGTCCAT
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
68 8 0.10
69 41 0.52
70 10 0.13
71 20 0.25
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (69 bp):
TATAAATACATATTAATATAAATTATAATTTATAAACTATATATTTTATAGTTTATACATATATA
TATA
Found at i:7652854 original size:32 final size:33
Alignment explanation
Indices: 7652765--7652855 Score: 93
Period size: 31 Copynumber: 2.9 Consensus size: 33
7652755 ATAAACATAA
* * *
7652765 TTTATATATATAGCTCATAATA-AT-TATATAT
1 TTTATATATATAACTTATAATATATATATATAG
* * *
7652796 TTTAGA-ATATAA-TTATAATTTTTATATATAG
1 TTTATATATATAACTTATAATATATATATATAG
7652827 TTTATATATA-AACTTATAATATATATATA
1 TTTATATATATAACTTATAATATATATATA
7652856 AATTATATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
29 6 0.13
30 6 0.13
31 18 0.38
32 17 0.36
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (33 bp):
TTTATATATATAACTTATAATATATATATATAG
Found at i:7654615 original size:195 final size:194
Alignment explanation
Indices: 7654237--7654808 Score: 915
Period size: 195 Copynumber: 3.0 Consensus size: 194
7654227 GACACGAATT
*
7654237 ATGAGGCGCACCTTCTATTATTCACTTTGAATTATTGCACACTCCATTATTACCTGAGCATTAAC
1 ATGAGGCGCACCTTCTATTATTCACTTTGAATTATTGCACACTCCATTATTACCTGAGCCTTAAC
* * * * *
7654302 TCTCTCGGTTATTGACCCATTCCATCCCCAATAAATACCCCTGAATGTAAACATCAAACCACACC
66 TCTCTCGGTTATTGACCCATCCCCTCCCCTATAAATACCCCCGAATGCAAACATCAAACCACACC
7654367 AAAATTACTTTCACATTCTTCTTTCTATCAAGCTAAGTAATTTTTGTTATAGTTTTTACCTTCC
131 AAAATTACTTTCACATTCTTCTTTCTATCAAGCTAAGTAATTTTTGTTATAGTTTTTACCTTCC
* *
7654431 ATGTGGCGCACCTTCTATTATTCACTTTGAATTATTGCACGCTCCATTATTACCTGAGCCTTAAC
1 ATGAGGCGCACCTTCTATTATTCACTTTGAATTATTGCACACTCCATTATTACCTGAGCCTTAAC
*
7654496 TCTCTCGGTTATTGACCCATCCCTCTCCCCTATAAATACCCCCGAATGCAAACATCAAACCACGC
66 TCTCTCGGTTATTGACCCATCCC-CTCCCCTATAAATACCCCCGAATGCAAACATCAAACCACAC
* *
7654561 CAAAATTTCTTTCACATTCTTCTTTCTATCAAGCGAAGTAATTTTTGTTATAGTTTTTACCTTCC
130 CAAAATTACTTTCACATTCTTCTTTCTATCAAGCTAAGTAATTTTTGTTATAGTTTTTACCTTCC
* * *
7654626 ATGAGGCGCATCTTCCATTATTCACTTTGAATTATTGCACACTCCATTATTACCTAAGCCTTAA-
1 ATGAGGCGCACCTTCTATTATTCACTTTGAATTATTGCACACTCCATTATTACCTGAGCCTTAAC
*
7654690 TACTCTCGGTTATTGACCCATCCCCCTCCCCTATAAATA--CCC---T-CGAACATCAAACCACA
66 T-CTCTCGGTTATTGACCCAT-CCCCTCCCCTATAAATACCCCCGAATGCAAACATCAAACCACA
* *
7654749 CCAAAATTACTTTTACATTCTTTTTTCTATCAAGCTAAGTAATTTTTGTTATAGTTTTTA
129 CCAAAATTACTTTCACATTCTTCTTTCTATCAAGCTAAGTAATTTTTGTTATAGTTTTTA
7654809 GAAGGTAAAA
Statistics
Matches: 353, Mismatches: 22, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
189 70 0.20
190 1 0.00
193 3 0.01
194 85 0.24
195 191 0.54
196 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.36
Consensus pattern (194 bp):
ATGAGGCGCACCTTCTATTATTCACTTTGAATTATTGCACACTCCATTATTACCTGAGCCTTAAC
TCTCTCGGTTATTGACCCATCCCCTCCCCTATAAATACCCCCGAATGCAAACATCAAACCACACC
AAAATTACTTTCACATTCTTCTTTCTATCAAGCTAAGTAATTTTTGTTATAGTTTTTACCTTCC
Found at i:7666145 original size:24 final size:24
Alignment explanation
Indices: 7666098--7666145 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
7666088 TAGAAAAGGT
* *
7666098 TAAGAAAAGGATAATGTAATGAAA
1 TAAGAAAAGGATAATGAAAAGAAA
7666122 TAAGAAAA-GATGAATGAAAAGAAA
1 TAAGAAAAGGAT-AATGAAAAGAAA
7666146 ATGAAATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (24 bp):
TAAGAAAAGGATAATGAAAAGAAA
Found at i:7669326 original size:18 final size:17
Alignment explanation
Indices: 7669303--7669336 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7669293 TATTCTTTTT
7669303 TTCATTCATGATTTTTCC
1 TTCATTCATG-TTTTTCC
*
7669321 TTCATTTATGTTTTTC
1 TTCATTCATGTTTTTC
7669337 AATTATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.18, G:0.06, T:0.62
Consensus pattern (17 bp):
TTCATTCATGTTTTTCC
Found at i:7671737 original size:21 final size:21
Alignment explanation
Indices: 7671711--7671750 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
7671701 GAGATATTGT
7671711 TTTTAAAATAT-AAAAATGATA
1 TTTTAAAAT-TGAAAAATGATA
7671732 TTTTAAAATTGAAAAATGA
1 TTTTAAAATTGAAAAATGA
7671751 AAATAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
TTTTAAAATTGAAAAATGATA
Found at i:7675581 original size:20 final size:21
Alignment explanation
Indices: 7675556--7675618 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
7675546 TTTTGTGCTT
7675556 AATGCATCGATACACC-T-AA
1 AATGCATCGATACACCTTGAA
*
7675575 CAATGCATCGATGCATCCTTGAA
1 -AATGCATCGATACA-CCTTGAA
* *
7675598 TATGCATCGATACACCATGAA
1 AATGCATCGATACACCTTGAA
7675619 GGTGCACCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 13 0.36
21 8 0.22
22 13 0.36
23 2 0.06
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (21 bp):
AATGCATCGATACACCTTGAA
Found at i:7676170 original size:11 final size:11
Alignment explanation
Indices: 7676150--7676183 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
7676140 TACATATTAT
7676150 AATT-TTTTCA
1 AATTGTTTTCA
7676160 AATTGTTTTCA
1 AATTGTTTTCA
*
7676171 AATAGTTTTCA
1 AATTGTTTTCA
7676182 AA
1 AA
7676184 ACCTTTCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (11 bp):
AATTGTTTTCA
Found at i:7677776 original size:2 final size:2
Alignment explanation
Indices: 7677769--7677833 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
7677759 GCAGCTTAAG
7677769 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
7677811 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
7677834 ATCAATTGGC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7678398 original size:45 final size:45
Alignment explanation
Indices: 7678349--7678434 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
7678339 ACATCGAATT
* *
7678349 CATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGTG
1 CATTTGATGCATCGATGCACAAACCATGCATCGATGCACTCAGTG
7678394 CATTTGATGCATCGATGCACAAACCATGCATCGATGCACTC
1 CATTTGATGCATCGATGCACAAACCATGCATCGATGCACTC
7678435 TGGCTATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (45 bp):
CATTTGATGCATCGATGCACAAACCATGCATCGATGCACTCAGTG
Found at i:7682002 original size:21 final size:19
Alignment explanation
Indices: 7681977--7682015 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
7681967 ATTTGTTGTT
7681977 TATTTTGAACTTTATATTTTA
1 TATTTTGAA-TTTA-ATTTTA
*
7681998 TATTTTTAATTTAATTTT
1 TATTTTGAATTTAATTTT
7682016 TTGTTAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 4 0.24
21 8 0.47
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
TATTTTGAATTTAATTTTA
Found at i:7690798 original size:15 final size:15
Alignment explanation
Indices: 7690778--7690808 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7690768 GGGCATGTTT
7690778 TACTATAAATTAATG
1 TACTATAAATTAATG
7690793 TACTATAAATTAATG
1 TACTATAAATTAATG
7690808 T
1 T
7690809 TATTCGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (15 bp):
TACTATAAATTAATG
Found at i:7697928 original size:10 final size:10
Alignment explanation
Indices: 7697913--7697940 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
7697903 TTATCTGGGG
7697913 AAAAAATAGA
1 AAAAAATAGA
7697923 AAAAAATAGA
1 AAAAAATAGA
7697933 AAAAAATA
1 AAAAAATA
7697941 ATAAATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (10 bp):
AAAAAATAGA
Found at i:7700466 original size:66 final size:66
Alignment explanation
Indices: 7700353--7700740 Score: 434
Period size: 66 Copynumber: 5.9 Consensus size: 66
7700343 TAGGGATAAT
* *
7700353 GTTTCAAGGGAGACG-TACTCAAAGATGA-TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAAT
1 GTTTCAAGGGAAACGAT-CTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
7700416 TC
65 TC
* *
7700418 GTTTCAATGGAAACGATCTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAATT
1 GTTTCAAGGGAAACGATCTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
7700483 C
66 C
* * *
7700484 GTTTCAAGGGAAACGTTCTCAAAGATGA--GATTTCAAGAGAAACTATCTCAAGAGAGAAAAAAT
1 GTTTCAAGGGAAACGATCTCAAAGATGATTG-TTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
7700547 TC
65 TC
* * * * *
7700549 GTTTCAAGGGAAACGATTTCAAAGAT-TTGTGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAAT
1 GTTTCAAGGGAAACGATCTCAAAGATGAT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
7700613 TC
65 TC
* * * ** * *
7700615 GTTTCAAGGGAAACGATCTCAAAAATGATCGTTTCAAGGGAAACCATCTCAAGGGAGATAAAACT
1 GTTTCAAGGGAAACGATCTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-T
*
7700680 TT
65 TC
* ** * * *
7700682 GTTTCAAGAGAAATAATTTCAAAG-T--TTGTCTCAAG-GAATACTGTCTCAAGTGAGACAAA
1 GTTTCAAGGGAAACGATCTCAAAGATGATTGTTTCAAGAGAA-ACTGTCTCAAGAGAGACAAA
7700741 GTTTGTTTTC
Statistics
Matches: 279, Mismatches: 35, Indels: 19
0.84 0.11 0.06
Matches are distributed among these distances:
63 3 0.01
64 25 0.09
65 80 0.29
66 148 0.53
67 23 0.08
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (66 bp):
GTTTCAAGGGAAACGATCTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
C
Found at i:7700592 original size:131 final size:130
Alignment explanation
Indices: 7700353--7700740 Score: 478
Period size: 131 Copynumber: 3.0 Consensus size: 130
7700343 TAGGGATAAT
* * * * *
7700353 GTTTCAAGGGAGACGTACTCAAAGATGATGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTC
1 GTTTCAAGGGAAACGTTCTCAAAGATGATGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAATTC
* * * * *
7700418 GTTTCAATGGAAACGATCTCAAAGATGATTGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAATT
66 GTTTCAAGGGAAACGATTTCAAAGAT-TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
7700483 C
130 C
7700484 GTTTCAAGGGAAACGTTCTCAAAGATGA-GATTTCAAGAGAAACTATCTCAAGAGAGAAAAAATT
1 GTTTCAAGGGAAACGTTCTCAAAGATGATG-TTTCAAGAGAAACTATCTCAAGAGAGAAAAAATT
* *
7700548 CGTTTCAAGGGAAACGATTTCAAAGATTTGTGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAAT
65 CGTTTCAAGGGAAACGATTTCAAAGATTT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT
7700613 TC
129 TC
* * * * * *
7700615 GTTTCAAGGGAAACGATCTCAAAAATGATCGTTTCAAGGGAAACCATCTCAAGGGAGATAAAACT
1 GTTTCAAGGGAAACGTTCTCAAAGATGAT-GTTTCAAGAGAAACTATCTCAAGAGAGA-AAAAAT
* * ** * *
7700680 TTGTTTCAAGAGAAATAATTTCAAAG--TTTGTCTCAA-GGAATACTGTCTCAAGTGAGACAAA
64 TCGTTTCAAGGGAAACGATTTCAAAGATTTTGTTTCAAGGGAA-ACTGTCTCAAGAGAGACAAA
7700741 GTTTGTTTTC
Statistics
Matches: 226, Mismatches: 25, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
129 4 0.02
130 27 0.12
131 143 0.63
132 24 0.11
133 28 0.12
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (130 bp):
GTTTCAAGGGAAACGTTCTCAAAGATGATGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAATTC
GTTTCAAGGGAAACGATTTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
Found at i:7700914 original size:37 final size:37
Alignment explanation
Indices: 7700828--7700951 Score: 128
Period size: 37 Copynumber: 3.4 Consensus size: 37
7700818 GGAAAAAAAA
** * * * *
7700828 GTCTCAAGCGAGATGAAATTTA-TTTTGATAGAAATT
1 GTCTCAAGCGAGACAAAATTTAGTTTTTAGAAAAACT
7700864 GTCTCAAGCGAGACAAAATTT-GTTTTTAGAGAAAACT
1 GTCTCAAGCGAGACAAAATTTAGTTTTTAGA-AAAACT
*
7700901 GTCTCAAAG-GAGACAAAATTTATTTTTTAGAAAAACT
1 GTCTC-AAGCGAGACAAAATTTAGTTTTTAGAAAAACT
* *
7700938 GTCTCTAGTGAGAC
1 GTCTCAAGCGAGAC
7700952 GACGCTTTGT
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
36 27 0.36
37 37 0.49
38 11 0.15
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (37 bp):
GTCTCAAGCGAGACAAAATTTAGTTTTTAGAAAAACT
Found at i:7702147 original size:12 final size:11
Alignment explanation
Indices: 7702131--7702222 Score: 78
Period size: 12 Copynumber: 8.0 Consensus size: 11
7702121 TATTGTCTTC
7702131 TTTTTTTTTTG
1 TTTTTTTTTTG
**
7702142 CTTTTTCATTTG
1 -TTTTTTTTTTG
7702154 TTTTTTCTTTTG
1 TTTTTT-TTTTG
*
7702166 TTTTTTCTTTG
1 TTTTTTTTTTG
7702177 ATTTTTTTCTTTG
1 -TTTTTTT-TTTG
*
7702190 TTTTTTCCTTTG
1 TTTTTT-TTTTG
* *
7702202 -TTTTTTTCTC
1 TTTTTTTTTTG
7702212 TTTTTTTTTTG
1 TTTTTTTTTTG
7702223 ATTTGATCTT
Statistics
Matches: 63, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
10 2 0.03
11 22 0.35
12 35 0.56
13 4 0.06
ACGTcount: A:0.02, C:0.10, G:0.08, T:0.80
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:7702209 original size:24 final size:24
Alignment explanation
Indices: 7702131--7702220 Score: 105
Period size: 24 Copynumber: 3.8 Consensus size: 24
7702121 TATTGTCTTC
* *
7702131 TTTTTTT-TTTGCTTTTTCATTTG
1 TTTTTTTCTTTGTTTTTTCCTTTG
7702154 -TTTTTTCTTTTGTTTTTT-CTTTG
1 TTTTTTTC-TTTGTTTTTTCCTTTG
7702177 ATTTTTTTCTTTGTTTTTTCCTTTG
1 -TTTTTTTCTTTGTTTTTTCCTTTG
*
7702202 TTTTTTTCTCTTTTTTTTT
1 TTTTTTTCT-TTGTTTTTT
7702221 TGATTTGATC
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
22 6 0.10
23 4 0.07
24 28 0.48
25 20 0.34
ACGTcount: A:0.02, C:0.10, G:0.07, T:0.81
Consensus pattern (24 bp):
TTTTTTTCTTTGTTTTTTCCTTTG
Found at i:7702218 original size:36 final size:36
Alignment explanation
Indices: 7702143--7702227 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 36
7702133 TTTTTTTTGC
*
7702143 TTTTTCATTTGTTTTTTCTTTTGTTTTTTCTTTGATT
1 TTTTTCATTTGTTTTTTCCTTTGTTTTTTCTTT-ATT
*
7702180 TTTTTC-TTTGTTTTTTCCTTTGTTTTTTTCTCTTTTT
1 TTTTTCATTTGTTTTTTCCTTTG-TTTTTTCT-TTATT
*
7702217 TTTTTGATTTG
1 TTTTTCATTTG
7702228 ATCTTTGCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 15 0.36
37 21 0.50
38 6 0.14
ACGTcount: A:0.04, C:0.09, G:0.08, T:0.79
Consensus pattern (36 bp):
TTTTTCATTTGTTTTTTCCTTTGTTTTTTCTTTATT
Found at i:7704002 original size:22 final size:22
Alignment explanation
Indices: 7703963--7704004 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7703953 AGATGCAATG
*
7703963 CAAAAAAAGATGAAAAATGACA
1 CAAAAAAAGATAAAAAATGACA
7703985 CAAAAAAAGA-AAAGAAATGA
1 CAAAAAAAGATAAA-AAATGA
7704005 GTTAGTACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.71, C:0.07, G:0.14, T:0.07
Consensus pattern (22 bp):
CAAAAAAAGATAAAAAATGACA
Found at i:7711233 original size:18 final size:19
Alignment explanation
Indices: 7711189--7711235 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
7711179 CCGGTCAGAC
*
7711189 CCGTTGACCTTGACATGAA
1 CCGTTGACTTTGACATGAA
* *
7711208 CTGTTGACTTTGACCT-AA
1 CCGTTGACTTTGACATGAA
7711226 CCGTTGACTT
1 CCGTTGACTT
7711236 GCCCGTTGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (19 bp):
CCGTTGACTTTGACATGAA
Found at i:7716554 original size:5 final size:5
Alignment explanation
Indices: 7716529--7716814 Score: 104
Period size: 5 Copynumber: 57.2 Consensus size: 5
7716519 ATATCAAATT
* * * * * *
7716529 TATAA TATAA TATAA TATAA TGTAA TATAG TATAG TATAG TATAG TATAG
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * * * * * * * * *
7716579 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * * * * * * * * *
7716629 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * * * * * * * * *
7716679 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * * * * * * * * *
7716729 TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG TATAG
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * * * * *
7716779 TATAG TATAG TATAG TATAG TATAG TATAG TATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
7716815 GATTTCAAGG
Statistics
Matches: 277, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
5 277 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:7718334 original size:21 final size:23
Alignment explanation
Indices: 7718297--7718350 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
7718287 GACCGTCGTT
*
7718297 GATCGATGACCAGGCCATTGACC
1 GATCGTTGACCAGGCCATTGACC
7718320 G-TCGTTGACC-GGCCATTGACC
1 GATCGTTGACCAGGCCATTGACC
7718341 GATCGTTGAC
1 GATCGTTGAC
7718351 TTTTTCCGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 12 0.41
22 16 0.55
23 1 0.03
ACGTcount: A:0.20, C:0.30, G:0.28, T:0.22
Consensus pattern (23 bp):
GATCGTTGACCAGGCCATTGACC
Found at i:7720876 original size:31 final size:31
Alignment explanation
Indices: 7720841--7720916 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
7720831 CTTAGGATAT
* * *
7720841 TTCTTGGGTAGGTCATGTAGCCCTGAGATCA
1 TTCTTAGGTAGGCCATGCAGCCCTGAGATCA
* * *
7720872 TTCTTATGTAGGCCATGCGGCCCTGAGATCT
1 TTCTTAGGTAGGCCATGCAGCCCTGAGATCA
*
7720903 TTCTTTGGTAGGCC
1 TTCTTAGGTAGGCC
7720917 CCGTGGCCCT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.16, C:0.22, G:0.28, T:0.34
Consensus pattern (31 bp):
TTCTTAGGTAGGCCATGCAGCCCTGAGATCA
Found at i:7720925 original size:31 final size:31
Alignment explanation
Indices: 7720860--7720936 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
7720850 AGGTCATGTA
* *
7720860 GCCCTGAGATCATTCTTATGTAGGCCATGCG
1 GCCCTGAGATCTTTCTTATGTAGGCCACGCG
* *
7720891 GCCCTGAGATCTTTCTT-TGGTAGGCCCCGTG
1 GCCCTGAGATCTTTCTTAT-GTAGGCCACGCG
*
7720922 GCCCTGAGAACTTTC
1 GCCCTGAGATCTTTC
7720937 CTGGGTAGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.16, C:0.29, G:0.26, T:0.30
Consensus pattern (31 bp):
GCCCTGAGATCTTTCTTATGTAGGCCACGCG
Found at i:7725749 original size:62 final size:62
Alignment explanation
Indices: 7725628--7725767 Score: 136
Period size: 62 Copynumber: 2.3 Consensus size: 62
7725618 TTATTCTTGG
* * * * * *
7725628 GTAGACCCTGAGGCCCTGGGATATTTCTTGGGTAGGTCTTGTAGCCTTGATATCATTCTTAT
1 GTAGACCCTGAGGCCCTGAGATATTTCTTGGGTAGGCCTCGTAGCCCTGAGAACATTCTTAT
* * * * * * **
7725690 GTAGGCCCTGTGGCCCTGAGATCTTTCTTTGGTAGGCCTCGTGGCCCTGAGAACTTTCTTGG
1 GTAGACCCTGAGGCCCTGAGATATTTCTTGGGTAGGCCTCGTAGCCCTGAGAACATTCTTAT
* *
7725752 GTAGACTCTCAGGCCC
1 GTAGACCCTGAGGCCC
7725768 CAAGATGCTC
Statistics
Matches: 60, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.15, C:0.24, G:0.28, T:0.33
Consensus pattern (62 bp):
GTAGACCCTGAGGCCCTGAGATATTTCTTGGGTAGGCCTCGTAGCCCTGAGAACATTCTTAT
Found at i:7725755 original size:31 final size:31
Alignment explanation
Indices: 7725621--7725755 Score: 112
Period size: 31 Copynumber: 4.4 Consensus size: 31
7725611 CCCGATATTA
* * *
7725621 TTCTTGGGTAGACCCTGAGGCCCTGGGATA-T
1 TTCTTGGGTAGGCCCTGTGGCCCTGAGA-ACT
* * * * * * *
7725652 TTCTTGGGTAGGTCTTGTAGCCTTGATATCA
1 TTCTTGGGTAGGCCCTGTGGCCCTGAGAACT
** *
7725683 TTCTTATGTAGGCCCTGTGGCCCTGAGATCT
1 TTCTTGGGTAGGCCCTGTGGCCCTGAGAACT
*
7725714 TTCTTTGGTAGG-CCTCGTGGCCCTGAGAACT
1 TTCTTGGGTAGGCCCT-GTGGCCCTGAGAACT
7725745 TTCTTGGGTAG
1 TTCTTGGGTAG
7725756 ACTCTCAGGC
Statistics
Matches: 80, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
30 3 0.04
31 77 0.96
ACGTcount: A:0.14, C:0.21, G:0.29, T:0.36
Consensus pattern (31 bp):
TTCTTGGGTAGGCCCTGTGGCCCTGAGAACT
Found at i:7725767 original size:31 final size:31
Alignment explanation
Indices: 7725701--7725767 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
7725691 TAGGCCCTGT
* * * *
7725701 GGCCCTGAGATCTTTCTTTGGTAGGCCTCGT
1 GGCCCTGAGAACTTTCTTGGGTAGACCTCGA
7725732 GGCCCTGAGAACTTTCTTGGGTAGACTCTC-A
1 GGCCCTGAGAACTTTCTTGGGTAGAC-CTCGA
7725763 GGCCC
1 GGCCC
7725768 CAAGATGCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.13, C:0.28, G:0.28, T:0.30
Consensus pattern (31 bp):
GGCCCTGAGAACTTTCTTGGGTAGACCTCGA
Found at i:7730346 original size:31 final size:31
Alignment explanation
Indices: 7730284--7730442 Score: 116
Period size: 31 Copynumber: 5.3 Consensus size: 31
7730274 ATGTGACTCG
* *
7730284 TGGGTAGGCTCTGTGGCCCCGAGATCA-TTCT
1 TGGGTAGGCCCTGTGGCCCTGAGAT-ATTTCT
* *
7730315 TGGGTAGGCCCTGCGGCCCTGGGATATTTCT
1 TGGGTAGGCCCTGTGGCCCTGAGATATTTCT
* ** *
7730346 TAGGTAGGCCCCATGG-CCT-TG--A-TTCT
1 TGGGTAGGCCCTGTGGCCCTGAGATATTTCT
* *** * *
7730372 TGGGTAGGCCATACAGCCCTGAGATCTTTAT
1 TGGGTAGGCCCTGTGGCCCTGAGATATTTCT
*
7730403 TGGGTAGGCCCCGTGGCCCTGAGA-ACTTTCT
1 TGGGTAGGCCCTGTGGCCCTGAGATA-TTTCT
7730434 TGGGTAGGC
1 TGGGTAGGC
7730443 TCTCAGGCCC
Statistics
Matches: 97, Mismatches: 24, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
26 15 0.15
27 4 0.04
28 1 0.01
29 1 0.01
30 4 0.04
31 72 0.74
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.28
Consensus pattern (31 bp):
TGGGTAGGCCCTGTGGCCCTGAGATATTTCT
Found at i:7730379 original size:57 final size:57
Alignment explanation
Indices: 7730310--7730420 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
7730300 CCCCGAGATC
* * * * *
7730310 ATTCTTGGGTAGGCCCTGCGGCCCTGGGATATTTCTTAGGTAGGCCCCATGGCCTTG
1 ATTCTTGGGTAGGCCATACAGCCCTGAGATATTTATTAGGTAGGCCCCATGGCCTTG
* * *
7730367 ATTCTTGGGTAGGCCATACAGCCCTGAGATCTTTATTGGGTAGGCCCCGTGGCC
1 ATTCTTGGGTAGGCCATACAGCCCTGAGATATTTATTAGGTAGGCCCCATGGCC
7730421 CTGAGAACTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (57 bp):
ATTCTTGGGTAGGCCATACAGCCCTGAGATATTTATTAGGTAGGCCCCATGGCCTTG
Found at i:7730452 original size:31 final size:30
Alignment explanation
Indices: 7730368--7730452 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 30
7730358 ATGGCCTTGA
*
7730368 TTCTTGGGTAGGCCATACA-GCCCTGAGATCT
1 TTCTTGGGTAGGCC-T-CAGGCCCTGAGAACT
* * *
7730399 TTATTGGGTAGGCCCCGTGGCCCTGAGAACT
1 TTCTTGGGTAGGCCTC-AGGCCCTGAGAACT
7730430 TTCTTGGGTAGGCTCTCAGGCCC
1 TTCTTGGGTAGGC-CTCAGGCCC
7730453 CAAGATGCTC
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
29 1 0.02
31 41 0.93
32 2 0.05
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.28
Consensus pattern (30 bp):
TTCTTGGGTAGGCCTCAGGCCCTGAGAACT
Found at i:7733961 original size:15 final size:16
Alignment explanation
Indices: 7733936--7733969 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
7733926 CAACTGTGGA
*
7733936 GTTTTTCTTATGAAAT
1 GTTTTTCTTATAAAAT
7733952 GTTTTT-TTATAAAAT
1 GTTTTTCTTATAAAAT
7733967 GTT
1 GTT
7733970 GAGAGTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
GTTTTTCTTATAAAAT
Found at i:7735365 original size:19 final size:19
Alignment explanation
Indices: 7735341--7735482 Score: 110
Period size: 19 Copynumber: 7.1 Consensus size: 19
7735331 TTGTATATAT
7735341 TATAATTTTAAAAATAATA
1 TATAATTTTAAAAATAATA
7735360 TATAATTTTAAAAATTGTATATAATA
1 TATAATTTT--AAA----A-ATAATA
7735386 TATACAATTTTAAAAATAATA
1 TAT--AATTTTAAAAATAATA
* *
7735407 TATAATTTAAAAAATAGTA
1 TATAATTTTAAAAATAATA
* *
7735426 TAT-ATTTT--ATATATTA
1 TATAATTTTAAAAATAATA
*
7735442 TATAATTTTTAAAATAATA
1 TATAATTTTAAAAATAATA
* *
7735461 TATAATTTAAATAAATAGTA
1 TATAATTTTAA-AAATAATA
7735481 TA
1 TA
7735483 CATATAATTC
Statistics
Matches: 100, Mismatches: 10, Indels: 25
0.74 0.07 0.19
Matches are distributed among these distances:
16 9 0.09
17 5 0.05
18 4 0.04
19 41 0.41
20 9 0.09
21 12 0.12
22 1 0.01
25 1 0.01
26 12 0.12
28 6 0.06
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (19 bp):
TATAATTTTAAAAATAATA
Found at i:7735383 original size:26 final size:27
Alignment explanation
Indices: 7735354--7735466 Score: 86
Period size: 28 Copynumber: 4.2 Consensus size: 27
7735344 AATTTTAAAA
**
7735354 ATAATATAT-AATTTTAAAAATTGTAT
1 ATAATATATAAATTTTAAAAATAATAT
7735380 ATAATATATACAATTTTAAAAATAATAT
1 ATAATATATA-AATTTTAAAAATAATAT
* * ** * * **
7735408 ATAATTTAAAAAATAGTATATATTTTAT
1 ATAATAT-ATAAATTTTAAAAATAATAT
* *
7735436 ATATTATAT-AATTTTTAAAATAATAT
1 ATAATATATAAATTTTAAAAATAATAT
7735462 ATAAT
1 ATAAT
7735467 TTAAATAAAT
Statistics
Matches: 63, Mismatches: 21, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
26 23 0.37
27 1 0.02
28 37 0.59
29 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (27 bp):
ATAATATATAAATTTTAAAAATAATAT
Found at i:7735403 original size:47 final size:44
Alignment explanation
Indices: 7735327--7735429 Score: 154
Period size: 47 Copynumber: 2.3 Consensus size: 44
7735317 GAAAAATAAC
*
7735327 AAAATTGTATAT-ATTATAATTTTAAAAATAATATATAATTTTA
1 AAAATTGTATATAATTATAATTTTAAAAATAATATATAATTTAA
7735370 AAAATTGTATATAATATATACAATTTTAAAAATAATATATAATTTAA
1 AAAATTGTATATAAT-TAT--AATTTTAAAAATAATATATAATTTAA
*
7735417 AAAATAGTATATA
1 AAAATTGTATATA
7735430 TTTTATATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
43 12 0.22
44 2 0.04
45 3 0.06
47 37 0.69
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (44 bp):
AAAATTGTATATAATTATAATTTTAAAAATAATATATAATTTAA
Found at i:7735456 original size:54 final size:57
Alignment explanation
Indices: 7735377--7735482 Score: 173
Period size: 54 Copynumber: 1.9 Consensus size: 57
7735367 TTAAAAATTG
7735377 TATATAATATATACAATTTTAAAAATAATATATAATTTAAA-AAATAGTATATATTT
1 TATATAATATATACAATTTTAAAAATAATATATAATTTAAATAAATAGTATATATTT
* *
7735433 TATAT-AT-TATATAATTTTTAAAATAATATATAATTTAAATAAATAGTATA
1 TATATAATATATACAATTTTAAAAATAATATATAATTTAAATAAATAGTATA
7735483 CATATAATTC
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
54 30 0.64
55 12 0.26
56 5 0.11
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (57 bp):
TATATAATATATACAATTTTAAAAATAATATATAATTTAAATAAATAGTATATATTT
Found at i:7735544 original size:81 final size:78
Alignment explanation
Indices: 7735406--7735563 Score: 212
Period size: 81 Copynumber: 2.0 Consensus size: 78
7735396 TAAAAATAAT
* *
7735406 ATATAATTTAAAAAATAGTATATATTTTATATATTATATAATTTTTAAAATAATATATAATTTAA
1 ATATAATTTAAAAAATAGTATATATTATATATATTATATAATTTTAAAAATAATATATAATTTAA
7735471 ATAAATAGTATAC
66 ATAAATAGTATAC
** *
7735484 ATATAATTCTGAAAACAATA-TATATATATATATATATTATA-ATATTTTAAAAATGGTATATAG
1 ATATAATT-T-AAAA-AATAGTATATAT-TATATATATTATATA-ATTTTAAAAATAATATATAA
7735547 TTTAAATAAATAGTATA
61 TTTAAATAAATAGTATA
7735564 TATTATATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
78 8 0.11
79 1 0.01
80 12 0.17
81 49 0.70
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (78 bp):
ATATAATTTAAAAAATAGTATATATTATATATATTATATAATTTTAAAAATAATATATAATTTAA
ATAAATAGTATAC
Found at i:7736921 original size:30 final size:31
Alignment explanation
Indices: 7736881--7736957 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
7736871 TTAAAACTTG
* *
7736881 CAATACAGTCCCCAACATTTAGTATATTT-T
1 CAATATAGTCCCCAACATTTAGTACATTTGT
* *
7736911 CAATATAGTCCCCCAATATTTAGTCCATTTGT
1 CAATATAGT-CCCCAACATTTAGTACATTTGT
*
7736943 -AATATGGTCCCCAAC
1 CAATATAGTCCCCAAC
7736958 GTAACCGACC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 14 0.36
31 24 0.62
32 1 0.03
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (31 bp):
CAATATAGTCCCCAACATTTAGTACATTTGT
Done.