Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 59 of 173
Found at i:16661365 original size:119 final size:119
Alignment explanation
Indices: 16661150--16661373 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 119
16661140 TTGAATGATG
* * *
16661150 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGACTAAGACCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
16661215 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * **
16661269 TCCGGACTAAGACCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGACTAAGACCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
16661332 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTG
64 TTGTGCGAGATACTAAT-ACCGGGCTAAGCCCGAAGGCATTTG
16661374 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 3 0.03
119 80 0.89
120 7 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGACTAAGACCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16665809 original size:23 final size:23
Alignment explanation
Indices: 16665783--16665827 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
16665773 TCCTTAAGTG
16665783 CGTCGAAAAAGCATAATTTGCCT
1 CGTCGAAAAAGCATAATTTGCCT
** *
16665806 CGTCGATTAAGCCTAATTTGCC
1 CGTCGAAAAAGCATAATTTGCC
16665828 ATGTTGATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (23 bp):
CGTCGAAAAAGCATAATTTGCCT
Found at i:16672020 original size:22 final size:22
Alignment explanation
Indices: 16671981--16672023 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16671971 CCTTTATGTT
*
16671981 GGTCACTTGTCTTCGAGGACAA
1 GGTCACGTGTCTTCGAGGACAA
16672003 GGTCACGTGATCTT-GAGGACA
1 GGTCACGTG-TCTTCGAGGACA
16672024 TGTTTAGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (22 bp):
GGTCACGTGTCTTCGAGGACAA
Found at i:16674977 original size:14 final size:14
Alignment explanation
Indices: 16674958--16674988 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
16674948 CTTGAGAATT
16674958 GGAATTCAAGGTTG
1 GGAATTCAAGGTTG
16674972 GGAATTCAAGGTTG
1 GGAATTCAAGGTTG
16674986 GGA
1 GGA
16674989 TATCAGAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.39, T:0.26
Consensus pattern (14 bp):
GGAATTCAAGGTTG
Found at i:16675592 original size:40 final size:41
Alignment explanation
Indices: 16675535--16675613 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
16675525 CCTACTTTTT
*
16675535 TGACTAATATAAAAAACATAGTG-ACATCACATCTAATTTA
1 TGACTAATATAAAAAACATAATGAACATCACATCTAATTTA
* * *
16675575 TGACTCATATAACAAACATAATGAAACATCACGTCTAAT
1 TGACTAATATAAAAAACATAATG-AACATCACATCTAAT
16675614 CACTTTCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 20 0.61
42 13 0.39
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.28
Consensus pattern (41 bp):
TGACTAATATAAAAAACATAATGAACATCACATCTAATTTA
Found at i:16679905 original size:15 final size:16
Alignment explanation
Indices: 16679876--16679908 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16679866 TACCTTTTTC
16679876 TTTCTTCTGCCTCTTT
1 TTTCTTCTGCCTCTTT
*
16679892 TTTC-TCTGCTTCTTT
1 TTTCTTCTGCCTCTTT
16679907 TT
1 TT
16679909 GAGCCTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.00, C:0.27, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTCTTCTGCCTCTTT
Found at i:16688746 original size:21 final size:21
Alignment explanation
Indices: 16688722--16688761 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16688712 TCTATAAAAA
16688722 ACTTATTTAACATA-ATTATAT
1 ACTTATTTAA-ATAGATTATAT
*
16688743 ACTTGTTTAAATAGATTAT
1 ACTTATTTAAATAGATTAT
16688762 CTATCTAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (21 bp):
ACTTATTTAAATAGATTATAT
Found at i:16689014 original size:19 final size:18
Alignment explanation
Indices: 16688971--16689014 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
16688961 AATCAAACAT
*
16688971 TTATAATATAAAATAAAA
1 TTATAATAAAAAATAAAA
*
16688989 TAAATAATAAAAAATTAAAA
1 T-TATAATAAAAAA-TAAAA
16689009 TTATAA
1 TTATAA
16689015 CTTCTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.05
19 14 0.67
20 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TTATAATAAAAAATAAAA
Found at i:16703535 original size:58 final size:58
Alignment explanation
Indices: 16703460--16703601 Score: 144
Period size: 58 Copynumber: 2.4 Consensus size: 58
16703450 AGAGAGTTTA
* * * *
16703460 ATTATGATTAAACTTAATCACTTTAA-TATTCAACTAATATAATACTTATC-AAGATAAAT
1 ATTA-GATTAAATTTAAT-A-TTAAACTATTAAACTAATAGAATACTTATCTAAGATAAAT
* *
16703519 ATTAGATTAAATTTAATATTAAATCTATTAAATTAATAGAATATTTATCTATAAGATAAAT
1 ATTAGATTAAATTTAATATTAAA-CTATTAAACTAATAGAATACTTATC--TAAGATAAAT
* *
16703580 ATTAAATTTAATTTAATATTAA
1 ATTAGATTAAATTTAATATTAA
16703602 GATAATAACT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
56 4 0.06
57 1 0.01
58 32 0.46
59 4 0.06
61 29 0.41
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (58 bp):
ATTAGATTAAATTTAATATTAAACTATTAAACTAATAGAATACTTATCTAAGATAAAT
Found at i:16703626 original size:61 final size:60
Alignment explanation
Indices: 16703510--16703685 Score: 149
Period size: 61 Copynumber: 2.8 Consensus size: 60
16703500 AATACTTATC
* *
16703510 AAGATAAATATTAGATTAAATTTAATATTAAATCTATTAAATTAATAGAATATTTATCTAT
1 AAGATAAATATTAAATTAAATTTAATATTAAA-CTAATAAATTAATAGAATATTTATCTAT
* * *
16703571 AAGATAAATATTAAATTTAATTTAATATTAAGA-TAATAACTTTAATATTAA-ATTTATAAAATA
1 AAGATAAATATTAAATTAAATTTAATATTAA-ACTAATAA-ATTAATA-GAATA-TT-T---AT-
16703634 CTAT
57 CTAT
* * * *
16703638 CAAGATAAGTATTAAATTAAATATAATATTAAATCTATTAAAATAATA
1 -AAGATAAATATTAAATTAAATTTAATATTAAA-CTAATAAATTAATA
16703686 TTATTTTTGG
Statistics
Matches: 92, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
60 5 0.05
61 36 0.39
62 5 0.05
63 1 0.01
66 2 0.02
67 5 0.05
68 33 0.36
69 5 0.05
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.40
Consensus pattern (60 bp):
AAGATAAATATTAAATTAAATTTAATATTAAACTAATAAATTAATAGAATATTTATCTAT
Found at i:16703629 original size:20 final size:18
Alignment explanation
Indices: 16703577--16703629 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
16703567 CTATAAGATA
16703577 AATATTAAATT-TAATTT
1 AATATTAAATTATAATTT
*
16703594 AATATTAAGATAATAACTTT
1 AATATTAA-ATTATAA-TTT
16703614 AATATTAAATTTATAA
1 AATATTAAA-TTATAA
16703630 AATACTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 8 0.27
18 2 0.07
19 4 0.13
20 16 0.53
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
AATATTAAATTATAATTT
Found at i:16704071 original size:10 final size:9
Alignment explanation
Indices: 16704056--16704095 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
16704046 AAAATATTAT
16704056 ATTAATTTTA
1 ATTAA-TTTA
*
16704066 ATTAATTTG
1 ATTAATTTA
16704075 ATTAATTTA
1 ATTAATTTA
16704084 ATTTAATTTA
1 A-TTAATTTA
16704094 AT
1 AT
16704096 CAAAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 13 0.48
10 14 0.52
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:16704080 original size:19 final size:19
Alignment explanation
Indices: 16704056--16704092 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
16704046 AAAATATTAT
16704056 ATTAATTTTAA-TTAATTTG
1 ATTAA-TTTAATTTAATTTG
16704075 ATTAATTTAATTTAATTT
1 ATTAATTTAATTTAATTT
16704093 AATCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTAATTTAATTTAATTTG
Found at i:16704925 original size:11 final size:11
Alignment explanation
Indices: 16704895--16704928 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
16704885 GTCACAAGTG
16704895 AATTAATTCATA
1 AATTAATTCA-A
*
16704907 AATGAATTCAA
1 AATTAATTCAA
16704918 AATTAATTCAA
1 AATTAATTCAA
16704929 CTTGGGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (11 bp):
AATTAATTCAA
Found at i:16707400 original size:25 final size:25
Alignment explanation
Indices: 16707372--16707421 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16707362 GAGTAGGGCC
* **
16707372 ATATTCACAGTTTGTGTGAGCATTT
1 ATATTCACAGCTCATGTGAGCATTT
*
16707397 ATATTCATAGCTCATGTGAGCATTT
1 ATATTCACAGCTCATGTGAGCATTT
16707422 CTATCACGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (25 bp):
ATATTCACAGCTCATGTGAGCATTT
Found at i:16709790 original size:13 final size:13
Alignment explanation
Indices: 16709774--16709798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16709764 AAAACTTAGC
16709774 TTTAAAATTATAT
1 TTTAAAATTATAT
16709787 TTTAAAATTATA
1 TTTAAAATTATA
16709799 ATATAAAAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAAAATTATAT
Found at i:16713516 original size:40 final size:42
Alignment explanation
Indices: 16713462--16713539 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
16713452 TTAAAAATTT
16713462 AAAGTT-AA-AATATATTATA-ATATTATAATAATATTACTTA
1 AAAGTTAAATAATATATTATATATATTAT-ATAATATTACTTA
* * *
16713502 AAAGTTAAGTTATATATTATATATATTATATTATATTA
1 AAAGTTAAATAATATATTATATATATTATATAATATTA
16713540 TATAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.19
41 1 0.03
42 18 0.56
43 7 0.22
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (42 bp):
AAAGTTAAATAATATATTATATATATTATATAATATTACTTA
Found at i:16713522 original size:5 final size:5
Alignment explanation
Indices: 16713514--16713542 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
16713504 AGTTAAGTTA
16713514 TATAT TATA- TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
16713543 AATAAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:16717846 original size:31 final size:31
Alignment explanation
Indices: 16717811--16717892 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
16717801 AGTCATCCTA
16717811 GGTTGCCCGACAATAATGACCCGCCACCTCG
1 GGTTGCCCGACAATAATGACCCGCCACCTCG
** * * *
16717842 GGTTGTTCGGCAACAATGACCTGCCACCTCG
1 GGTTGCCCGACAATAATGACCCGCCACCTCG
* *
16717873 AGTTGCCCGACAATGATGAC
1 GGTTGCCCGACAATAATGAC
16717893 TTACTAATAT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.20
Consensus pattern (31 bp):
GGTTGCCCGACAATAATGACCCGCCACCTCG
Found at i:16718070 original size:35 final size:35
Alignment explanation
Indices: 16717994--16718167 Score: 136
Period size: 35 Copynumber: 5.0 Consensus size: 35
16717984 ATTTTCAGTA
* * * * *
16717994 GGCATGCTTTACATTCAAATTAGAATCAA-CATAGT
1 GGCATGCTTTACATGCAAATCAAAAT-AAGAATAAT
* *
16718029 GACATGCTTTACATGCAAATCAAAATAAGTATAAT
1 GGCATGCTTTACATGCAAATCAAAATAAGAATAAT
* * * *
16718064 GGCATGCTTAACATGCAAATCATAATCAGAAAAAT
1 GGCATGCTTTACATGCAAATCAAAATAAGAATAAT
* * * * *
16718099 GGCATGCTTAACACGCGAATCATAATTAGAATAAT
1 GGCATGCTTTACATGCAAATCAAAATAAGAATAAT
** * *
16718134 AACATG-TTTAACATGCGAATCAAAATAACAATAA
1 GGCATGCTTT-ACATGCAAATCAAAATAAGAATAA
16718168 ACTAGAGTCA
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
34 4 0.04
35 110 0.96
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.26
Consensus pattern (35 bp):
GGCATGCTTTACATGCAAATCAAAATAAGAATAAT
Found at i:16720990 original size:66 final size:66
Alignment explanation
Indices: 16720876--16720999 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
16720866 TCCGAATAGC
* * * *
16720876 TGTCAGGTGCAGCGAAAATTCTGAACGCAATTTGGAATTAACCCATGCAAG-GACATTACAGACA
1 TGTCAGGTACAGCGAAAATTCTGAACGCAATCTGAAATTAACCAATGC-AGTGACATTACAGACA
16720940 TA
65 TA
* * *
16720942 TGTCAGGTACGGCGACAATTCT-AGACGCAATCTGAAATTAACTAATGCAGTGACATTA
1 TGTCAGGTACAGCGAAAATTCTGA-ACGCAATCTGAAATTAACCAATGCAGTGACATTA
16721000 ATACAATAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
65 3 0.06
66 46 0.94
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (66 bp):
TGTCAGGTACAGCGAAAATTCTGAACGCAATCTGAAATTAACCAATGCAGTGACATTACAGACAT
A
Found at i:16722003 original size:17 final size:17
Alignment explanation
Indices: 16721970--16722017 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
16721960 CATTGTCCCC
*
16721970 AATGCACTGAC-ATGAA
1 AATGCAATGACAATGAA
* *
16721986 AATGTAATGATAATGAA
1 AATGCAATGACAATGAA
16722003 AATGCAATGACAATG
1 AATGCAATGACAATG
16722018 TATACTTATC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (17 bp):
AATGCAATGACAATGAA
Found at i:16722496 original size:21 final size:21
Alignment explanation
Indices: 16722472--16722513 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16722462 ATTTTTAGAA
* *
16722472 ACTTCCTCTTCTTCAGCAACT
1 ACTTCCTCTTCTGCAACAACT
16722493 ACTTCCTCTTCTGCAACAACT
1 ACTTCCTCTTCTGCAACAACT
16722514 TCTGCTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.05, T:0.36
Consensus pattern (21 bp):
ACTTCCTCTTCTGCAACAACT
Found at i:16722502 original size:18 final size:18
Alignment explanation
Indices: 16722481--16722515 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16722471 AACTTCCTCT
*
16722481 TCTTCAGCAACTACTTCC
1 TCTTCAGCAACAACTTCC
*
16722499 TCTTCTGCAACAACTTC
1 TCTTCAGCAACAACTTC
16722516 TGCTTTTGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.37, G:0.06, T:0.34
Consensus pattern (18 bp):
TCTTCAGCAACAACTTCC
Found at i:16723155 original size:17 final size:17
Alignment explanation
Indices: 16723133--16723172 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
16723123 AACTAAAATT
16723133 CCAGTCTGCCTTGCAGC
1 CCAGTCTGCCTTGCAGC
*
16723150 CCAGTCTGCCTTGTAGC
1 CCAGTCTGCCTTGCAGC
16723167 CCAGTC
1 CCAGTC
16723173 AGCTATTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.40, G:0.23, T:0.25
Consensus pattern (17 bp):
CCAGTCTGCCTTGCAGC
Found at i:16724273 original size:19 final size:17
Alignment explanation
Indices: 16724238--16724278 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
16724228 AATTATTCTG
16724238 TAAAAAAAAAAAGAAAA
1 TAAAAAAAAAAAGAAAA
*
16724255 TAAAAAAACATAAATAAAA
1 TAAAAAAA-A-AAAGAAAA
16724274 TAAAA
1 TAAAA
16724279 TCACGGAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 1 0.05
19 12 0.57
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (17 bp):
TAAAAAAAAAAAGAAAA
Found at i:16727916 original size:18 final size:18
Alignment explanation
Indices: 16727893--16727932 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
16727883 TTCTTGTGTT
16727893 GACACATTTGATTGCACC
1 GACACATTTGATTGCACC
*
16727911 GACACATTTGATTGCATC
1 GACACATTTGATTGCACC
16727929 GACA
1 GACA
16727933 GTTTCGAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (18 bp):
GACACATTTGATTGCACC
Found at i:16730253 original size:20 final size:20
Alignment explanation
Indices: 16730218--16730265 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
16730208 TTCAAACCCT
* *
16730218 AAGATT-AAACAATAAAAGC
1 AAGATTAAAAAAATAAAAGA
16730237 AAGATTAAAAAAATAAAAGA
1 AAGATTAAAAAAATAAAAGA
16730257 AAGATTAAA
1 AAGATTAAA
16730266 TAAGATAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.69, C:0.04, G:0.10, T:0.17
Consensus pattern (20 bp):
AAGATTAAAAAAATAAAAGA
Found at i:16734247 original size:37 final size:36
Alignment explanation
Indices: 16734203--16734322 Score: 138
Period size: 35 Copynumber: 3.3 Consensus size: 36
16734193 GATGTTTTAG
*
16734203 TTCGCATGTTAAACATGCTAATATTCTGATATTCTGA
1 TTCGCATGTTAAACATGCTATTATTCTGA-ATTCTGA
* * *
16734240 TTCGCATGTTAATCATGCTATTAATCT-AATTTTGA
1 TTCGCATGTTAAACATGCTATTATTCTGAATTCTGA
* *
16734275 CTCGCATGTTAAGCATG-TCATTATTTCTG-ATTCTGA
1 TTCGCATGTTAAACATGCT-ATTA-TTCTGAATTCTGA
16734311 TTCGCATGTTAA
1 TTCGCATGTTAA
16734323 GTATGTCACT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
34 1 0.01
35 25 0.35
36 21 0.30
37 24 0.34
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (36 bp):
TTCGCATGTTAAACATGCTATTATTCTGAATTCTGA
Found at i:16734329 original size:36 final size:35
Alignment explanation
Indices: 16734233--16734330 Score: 110
Period size: 36 Copynumber: 2.8 Consensus size: 35
16734223 ATATTCTGAT
16734233 ATTCTGATTCGCATGTTAA-TCATG-CTATTAATCTA
1 ATTCTGATTCGCATGTTAAGT-ATGTC-ATTAATCTA
* * * * *
16734268 ATTTTGACTCGCATGTTAAGCATGTCATTATTTCTG
1 ATTCTGATTCGCATGTTAAGTATGTCATTA-ATCTA
16734304 ATTCTGATTCGCATGTTAAGTATGTCA
1 ATTCTGATTCGCATGTTAAGTATGTCA
16734331 CTGTGTGAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
35 24 0.46
36 28 0.54
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (35 bp):
ATTCTGATTCGCATGTTAAGTATGTCATTAATCTA
Found at i:16736619 original size:22 final size:22
Alignment explanation
Indices: 16736594--16736673 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
16736584 ACGAGATTTT
16736594 CACTACGGTGCCTATTGATTCG
1 CACTACGGTGCCTATTGATTCG
* * *
16736616 CACTATGGTGCCCATTGATTTG
1 CACTACGGTGCCTATTGATTCG
* **
16736638 CACTCCGGTATCTATTGATTCG
1 CACTACGGTGCCTATTGATTCG
*
16736660 CACTCCGGTGCCTA
1 CACTACGGTGCCTA
16736674 CTGTTAAAGC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (22 bp):
CACTACGGTGCCTATTGATTCG
Found at i:16737846 original size:23 final size:23
Alignment explanation
Indices: 16737820--16737883 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
16737810 CACACGACCA
* *
16737820 TGTGACCCTGGTTTACACGGTCG
1 TGTGACCCTGCTTTACACGGGCG
*
16737843 TGTGACCCTACTTTACACGGGCG
1 TGTGACCCTGCTTTACACGGGCG
16737866 TGTGACCCTGCTTTACAC
1 TGTGACCCTGCTTTACAC
16737884 TTTTGTCCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.16, C:0.30, G:0.25, T:0.30
Consensus pattern (23 bp):
TGTGACCCTGCTTTACACGGGCG
Found at i:16744790 original size:20 final size:20
Alignment explanation
Indices: 16744762--16744818 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
16744752 AATATTATGA
* *
16744762 ACCACTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
16744782 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
16744802 TCCATTTCATTTACTTA
1 ACCATTCCATTTACTTA
16744819 GCACAATCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:16751653 original size:25 final size:26
Alignment explanation
Indices: 16751616--16751685 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
16751606 TAATTAATTT
16751616 TTTTAAAATTTAAAAATTAT-AAATA
1 TTTTAAAATTTAAAAATTATAAAATA
* *
16751641 TTTTAAAAATTAAAAAGTATAAAATA
1 TTTTAAAATTTAAAAATTATAAAATA
* *
16751667 TTTTTAATTTTAAAAATTA
1 TTTTAAAATTTAAAAATTA
16751686 ATTAATTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
25 18 0.47
26 20 0.53
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (26 bp):
TTTTAAAATTTAAAAATTATAAAATA
Found at i:16762748 original size:20 final size:20
Alignment explanation
Indices: 16762714--16762755 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
16762704 ACTATTCTGA
** *
16762714 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
16762734 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
16762754 AT
1 AT
16762756 GTGTCTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:16772197 original size:26 final size:26
Alignment explanation
Indices: 16772161--16772214 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
16772151 GATATAAGTT
16772161 CACCAAAAATATAACATGAGCCCACC
1 CACCAAAAATATAACATGAGCCCACC
16772187 CACCAAAAATATAACATGAGCCCACC
1 CACCAAAAATATAACATGAGCCCACC
16772213 CA
1 CA
16772215 ACAGGGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.35, G:0.07, T:0.11
Consensus pattern (26 bp):
CACCAAAAATATAACATGAGCCCACC
Found at i:16772298 original size:12 final size:12
Alignment explanation
Indices: 16772281--16772305 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16772271 TCAATACCTT
16772281 AAACACACACCC
1 AAACACACACCC
16772293 AAACACACACCC
1 AAACACACACCC
16772305 A
1 A
16772306 TATCATTTAA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (12 bp):
AAACACACACCC
Found at i:16779062 original size:18 final size:18
Alignment explanation
Indices: 16779039--16779170 Score: 92
Period size: 18 Copynumber: 6.9 Consensus size: 18
16779029 TTATTATTAA
16779039 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
16779057 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
16779074 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
*
16779092 -TATAATATATAATAATCAA-
1 ATATAAT-T-TAATAA-AAAT
*
16779111 ATATAATTTAAAATAATTATTATTAA
1 ATATAATTT--AATAA--A--A--AT
16779137 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
16779155 ATATAATTTGATAAAA
1 ATATAATTTAATAAAA
16779171 TTCTTAATAT
Statistics
Matches: 94, Mismatches: 6, Indels: 28
0.73 0.05 0.22
Matches are distributed among these distances:
16 3 0.03
17 13 0.14
18 44 0.47
19 2 0.02
20 14 0.15
21 1 0.01
22 1 0.01
23 1 0.01
24 5 0.05
25 1 0.01
26 9 0.10
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:16779118 original size:26 final size:26
Alignment explanation
Indices: 16779057--16779149 Score: 71
Period size: 26 Copynumber: 3.5 Consensus size: 26
16779047 TAATAAAAAT
* **
16779057 ATATAATTTAATAAAATATATGAATTTA
1 ATATAATTTAATATAATA-AT-AATCAA
* *
16779085 CTAAAATTATAATAT-ATAATAATCAA
1 ATATAATT-TAATATAATAATAATCAA
* * * *
16779111 ATATAATTTAAAATAATTATTATTAA
1 ATATAATTTAATATAATAATAATCAA
16779137 ATATAATTTAATA
1 ATATAATTTAATA
16779150 AAAATATATA
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
25 5 0.10
26 30 0.59
27 2 0.04
28 9 0.18
29 5 0.10
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (26 bp):
ATATAATTTAATATAATAATAATCAA
Found at i:16784891 original size:6 final size:6
Alignment explanation
Indices: 16784880--16784916 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
16784870 CCATTTTCTT
*
16784880 TCTAAA TCTAAA TCTAAA TCTGAA TCTAAA TCTAAA T
1 TCTAAA TCTAAA TCTAAA TCTAAA TCTAAA TCTAAA T
16784917 TTCATTTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (6 bp):
TCTAAA
Found at i:16785397 original size:21 final size:21
Alignment explanation
Indices: 16785365--16785404 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
16785355 TTTTAAAAAT
16785365 ATTAATTATAAATATTTAATG
1 ATTAATTATAAATATTTAATG
16785386 ATTATATT-TAAATATTTAA
1 ATTA-ATTATAAATATTTAA
16785405 AATATAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
ATTAATTATAAATATTTAATG
Found at i:16785852 original size:234 final size:234
Alignment explanation
Indices: 16785445--16786146 Score: 1354
Period size: 234 Copynumber: 3.0 Consensus size: 234
16785435 ATAAATAATT
16785445 AATATTTATTAATTAAAAATATTTACAATATATATTTTATATATTAAAATATTAACAAGTTATAA
1 AATATTTATTAATTAAAAATATTTACAATATATATTTTATATATTAAAATATTAACAAGTTATAA
16785510 TAA-TTTTTTATATTATTACTAAAATA-AATAATATTAACTAATTTAACTATTATTTAAATACAT
66 TAATTTTTTTATATTATTACTAAAATATAATAATATTAACTAATTTAACTATTATTTAAATACAT
*
16785573 ATTTGTTACTTGATAATAACATGTCTAAAATAGACATTTTATTTCTCAAAAGTACTTTTTGACAG
131 ATTTGTTACTTAATAATAACATGTCTAAAATAGACATTTTATTTCTCAAAAGTACTTTTTGACAG
16785638 CAATGCTAAACACTCAAATTTTAAACCAAACTTTTTAAA
196 CAATGCTAAACACTCAAATTTTAAACCAAACTTTTTAAA
16785677 AATATTTATTAATTAAAAATATTTACAATATATATTTTATATATTAAAATATTAACAAGTTATAA
1 AATATTTATTAATTAAAAATATTTACAATATATATTTTATATATTAAAATATTAACAAGTTATAA
16785742 TAATTTTTTTATATTATTACTAAAATATAATAATATTAACTAATTTAACTATTATTTAAATACAT
66 TAATTTTTTTATATTATTACTAAAATATAATAATATTAACTAATTTAACTATTATTTAAATACAT
*
16785807 ATTTGTTACTTAATAATAACATGTCTAAAATAGACATTTTATTTCTCAAAAGTATTTTTTGACAG
131 ATTTGTTACTTAATAATAACATGTCTAAAATAGACATTTTATTTCTCAAAAGTACTTTTTGACAG
16785872 CAATGCTAAACACTCAAATTTTAAACCAAACTTTTTAAA
196 CAATGCTAAACACTCAAATTTTAAACCAAACTTTTTAAA
16785911 AATATTTATTAATTAAAAATATTTACAATATATATTTTATATATTAAAATATTAACAAGTTATAA
1 AATATTTATTAATTAAAAATATTTACAATATATATTTTATATATTAAAATATTAACAAGTTATAA
16785976 TAATTTTTTTATATTATTACTAAAATATAATAATATTAACTAATTTAACTATTATTTAAATACAT
66 TAATTTTTTTATATTATTACTAAAATATAATAATATTAACTAATTTAACTATTATTTAAATACAT
*
16786041 ATTTGTTACTTAATAATAACATGTCTAAAATAGACATTTTATTTCTCAAAAATACTTTTTGACAG
131 ATTTGTTACTTAATAATAACATGTCTAAAATAGACATTTTATTTCTCAAAAGTACTTTTTGACAG
*
16786106 CAATGCTAAACACTCAAATTTTAAACCAAACTTTTCAAA
196 CAATGCTAAACACTCAAATTTTAAACCAAACTTTTTAAA
16786145 AA
1 AA
16786147 CACTTTTCCA
Statistics
Matches: 463, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
232 68 0.15
233 23 0.05
234 372 0.80
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (234 bp):
AATATTTATTAATTAAAAATATTTACAATATATATTTTATATATTAAAATATTAACAAGTTATAA
TAATTTTTTTATATTATTACTAAAATATAATAATATTAACTAATTTAACTATTATTTAAATACAT
ATTTGTTACTTAATAATAACATGTCTAAAATAGACATTTTATTTCTCAAAAGTACTTTTTGACAG
CAATGCTAAACACTCAAATTTTAAACCAAACTTTTTAAA
Found at i:16786151 original size:13 final size:13
Alignment explanation
Indices: 16786135--16786187 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
16786125 TTTAAACCAA
*
16786135 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
* *
16786148 ACTTTTCCATAGC
1 ACTTTTCAAAAGC
* *
16786161 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
16786174 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
16786187 A
1 A
16786188 ATGAAGAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:16787515 original size:13 final size:12
Alignment explanation
Indices: 16787494--16787545 Score: 54
Period size: 11 Copynumber: 4.2 Consensus size: 12
16787484 TGAACTAAAA
16787494 AAAAGAAGAACGAG
1 AAAA-AAGAAC-AG
16787508 AAAAAAGAA-AG
1 AAAAAAGAACAG
*
16787519 AAATAAGAACAGG
1 AAAAAAGAACA-G
16787532 AAAAAAGAA-AG
1 AAAAAAGAACAG
16787543 AAA
1 AAA
16787546 CCAGACTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 14 0.41
12 2 0.06
13 14 0.41
14 4 0.12
ACGTcount: A:0.73, C:0.04, G:0.21, T:0.02
Consensus pattern (12 bp):
AAAAAAGAACAG
Found at i:16787534 original size:24 final size:24
Alignment explanation
Indices: 16787499--16787545 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
16787489 TAAAAAAAAG
16787499 AAGAACGAGAAAAAAGAAAGAAAT
1 AAGAACGAGAAAAAAGAAAGAAAT
16787523 AAGAAC-AGGAAAAAAGAAAGAAA
1 AAGAACGA-GAAAAAAGAAAGAAA
16787546 CCAGACTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.72, C:0.04, G:0.21, T:0.02
Consensus pattern (24 bp):
AAGAACGAGAAAAAAGAAAGAAAT
Found at i:16805198 original size:10 final size:10
Alignment explanation
Indices: 16805183--16805219 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
16805173 CTTAACATGT
*
16805183 TTAATTTTAA
1 TTAATTTTGA
16805193 TTAATTTTGA
1 TTAATTTTGA
16805203 TTAATTTTGA
1 TTAATTTTGA
16805213 TT-ATTTT
1 TTAATTTT
16805220 CGACAGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 5 0.19
10 21 0.81
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (10 bp):
TTAATTTTGA
Found at i:16806720 original size:14 final size:15
Alignment explanation
Indices: 16806698--16806774 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
16806688 CAATCAAACA
16806698 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
16806712 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
16806727 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
16806747 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
16806761 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
16806775 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:16806739 original size:20 final size:20
Alignment explanation
Indices: 16806714--16806753 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16806704 AATATTTTCC
*
16806714 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
16806734 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
16806754 TCATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:16806759 original size:34 final size:35
Alignment explanation
Indices: 16806702--16806768 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
16806692 CAAACACCAG
*
16806702 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
16806737 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
16806769 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:16810285 original size:27 final size:27
Alignment explanation
Indices: 16810244--16810468 Score: 258
Period size: 27 Copynumber: 8.4 Consensus size: 27
16810234 CTTTAAAATA
* * *
16810244 GGTAAAATAATCGTAATGCCCATGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
16810271 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
16810298 GGTAAAATGACCATAATGCCCCCGTAA
1 GGTAAAATGACCGTAATGCCCCTGTAG
* **
16810325 GGTAAAATAACCGTAATGCCCCAATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * * *
16810352 GGTAAAATGACCGTAATACTCTTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
16810379 GGTAAAATGGCCGTAATGCCCCTATAA
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
16810406 GGTAAAATGACCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
16810433 GGTAAAATGACCGTAATG-CCCTGGT-G
1 GGTAAAATGACCGTAATGCCCCT-GTAG
16810459 GGT-AAATGAC
1 GGTAAAATGAC
16810469 TATTTTTGCC
Statistics
Matches: 169, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
25 7 0.04
26 7 0.04
27 155 0.92
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:16810380 original size:81 final size:81
Alignment explanation
Indices: 16810243--16810449 Score: 290
Period size: 81 Copynumber: 2.6 Consensus size: 81
16810233 ACTTTAAAAT
* *
16810243 AGGTAAAATAATCGTAATG-CCCATGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATG
1 AGGTAAAATAACCGTAATGCCCCA-GTAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATG
*
16810307 ACCATAATGCCCCCGTA
65 ACCATAATGCCCCCATA
* * * *
16810324 AGGTAAAATAACCGTAATGCCCCAATAGGGTAAAATGACCGTAATACTCTTATAGGGTAAAATGG
1 AGGTAAAATAACCGTAATGCCCCAGTAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGA
* *
16810389 CCGTAATGCCCCTATA
66 CCATAATGCCCCCATA
* **
16810405 AGGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCGTAAT
1 AGGTAAAATAACCGTAATGCCCCAGTAGGGTAAAATGACCGTAAT
16810450 GCCCTGGTGG
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 108 0.96
82 4 0.04
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (81 bp):
AGGTAAAATAACCGTAATGCCCCAGTAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGA
CCATAATGCCCCCATA
Found at i:16810568 original size:24 final size:24
Alignment explanation
Indices: 16810513--16810572 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
16810503 TCTATGGTTA
16810513 AATGACTGATTTGTCTGTGTTTGG
1 AATGACTGATTTGTCTGTGTTTGG
* *
16810537 GATAACTGATTTGTCTGTGATTT-G
1 AATGACTGATTTGTCTGTG-TTTGG
16810561 AATGACTGATTT
1 AATGACTGATTT
16810573 TGAGTATGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.45
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGTTTGG
Found at i:16810815 original size:32 final size:32
Alignment explanation
Indices: 16810743--16811041 Score: 241
Period size: 32 Copynumber: 9.4 Consensus size: 32
16810733 GTTACAATGC
* ** *
16810743 TACTGATGGCTTTCTGCAAATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
16810775 TACTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* **
16810807 TA-TCGATGG-TTGTGTGCTGATCAT-TTCACTAT
1 TACT-GATGGCTT-TGTGCCGATCATATT-ACCGT
* * * * *
16810839 TATTGAT-GATTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTT-TGTGCCGATCATATTACCGT
* *
16810871 TACTGATGACTTTGTGCCGATCATGTTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * ***
16810903 TACTGATGGCTATGTGCCGATCATATCACTAC
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * *
16810935 TACTGATAGCTTTGTGCCAATCATGTTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * *
16810967 TACTGATGGCTGTGTGCC-AGTCATATCACTGC
1 TACTGATGGCTTTGTGCCGA-TCATATTACCGT
* * *
16810999 TACTGATGGCTTTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
16811030 TACTTATGGCTT
1 TACTGATGGCTT
16811042 GTAGCCATTC
Statistics
Matches: 215, Mismatches: 43, Indels: 19
0.78 0.16 0.07
Matches are distributed among these distances:
31 18 0.08
32 192 0.89
33 5 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:16810887 original size:64 final size:64
Alignment explanation
Indices: 16810740--16811021 Score: 288
Period size: 64 Copynumber: 4.4 Consensus size: 64
16810730 TTTGTTACAA
* * ** * *
16810740 TGCTACTGATGGCTTTCTGCAAATCATAG-TACCGTTACTGATGGCTTTGTGCCGATCATATTAC
1 TGCTACTGATGACTTTGTGCCGATCAT-GTTACCGTTACTGATGGCTGTGTGCCGATCATATCAC
* * * * ** * **
16810804 CGTTA-TCGATG-GTTGTGTGCTGATCAT-TTCACTATTATTGATGATTGTGTGCCGATCATATC
1 TGCTACT-GATGACTT-TGTGCCGATCATGTT-ACCGTTACTGATGGCTGTGTGCCGATCATATC
16810866 AC
63 AC
*
16810868 TGCTACTGATGACTTTGTGCCGATCATGTTACCGTTACTGATGGCTATGTGCCGATCATATCAC
1 TGCTACTGATGACTTTGTGCCGATCATGTTACCGTTACTGATGGCTGTGTGCCGATCATATCAC
* *
16810932 TACTACTGAT-AGCTTTGTGCCAATCATGTTACCGTTACTGATGGCTGTGTGCC-AGTCATATCA
1 TGCTACTGATGA-CTTTGTGCCGATCATGTTACCGTTACTGATGGCTGTGTGCCGA-TCATATCA
16810995 C
64 C
* *
16810996 TGCTACTGATGGCTTTGTGCCAATCA
1 TGCTACTGATGACTTTGTGCCGATCA
16811022 CATTACTGTA
Statistics
Matches: 180, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
63 6 0.03
64 169 0.94
65 5 0.03
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (64 bp):
TGCTACTGATGACTTTGTGCCGATCATGTTACCGTTACTGATGGCTGTGTGCCGATCATATCAC
Found at i:16810951 original size:96 final size:96
Alignment explanation
Indices: 16810761--16811021 Score: 269
Period size: 96 Copynumber: 2.7 Consensus size: 96
16810751 GCTTTCTGCA
* * *
16810761 AATCATAGT-ACCGTTACTGATGGCTTTGTGCCGATCATATTACCGTTA-TCGATGGTTGTGTGC
1 AATCATA-TCACCGCTACTGATGGCTTTGTGCCGATCATATTACCGTTACT-GATGGCTATGTGC
* * * *
16810824 TGATCATTTCACTATTATTGATGATTGTGTGCC
64 CGATCATATCACTACTACTGATGATTGTGTGCC
* * * *
16810857 GATCATATCACTGCTACTGATGACTTTGTGCCGATCATGTTACCGTTACTGATGGCTATGTGCCG
1 AATCATATCACCGCTACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTATGTGCCG
*
16810922 ATCATATCACTACTACTGATAGCTT-TGTGCC
66 ATCATATCACTACTACTGAT-GATTGTGTGCC
* * * * * * * *
16810953 AATCATGTTACCGTTACTGATGGCTGTGTGCC-AGTCATATCACTGCTACTGATGGCTTTGTGCC
1 AATCATATCACCGCTACTGATGGCTTTGTGCCGA-TCATATTACCGTTACTGATGGCTATGTGCC
*
16811017 AATCA
65 GATCA
16811022 CATTACTGTA
Statistics
Matches: 136, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
95 2 0.01
96 130 0.96
97 4 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (96 bp):
AATCATATCACCGCTACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTATGTGCCG
ATCATATCACTACTACTGATGATTGTGTGCC
Found at i:16827422 original size:22 final size:22
Alignment explanation
Indices: 16827381--16827428 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
16827371 TATTGCATCT
*
16827381 CCCTTAACTCTTATATTCACAA
1 CCCTTAACTCTTATAATCACAA
*
16827403 CCCTTAACTCTCTA-AATCACCA
1 CCCTTAACTCT-TATAATCACAA
16827425 CCCT
1 CCCT
16827429 AAACACCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.29, C:0.40, G:0.00, T:0.31
Consensus pattern (22 bp):
CCCTTAACTCTTATAATCACAA
Found at i:16837153 original size:19 final size:17
Alignment explanation
Indices: 16837129--16837163 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
16837119 CTCAACAATG
16837129 ACAATATCTAAAATATTAA
1 ACAATA-CTAAAA-ATTAA
16837148 ACAATACTAAAAATTA
1 ACAATACTAAAAATTA
16837164 TGACATGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (17 bp):
ACAATACTAAAAATTAA
Found at i:16837387 original size:3 final size:3
Alignment explanation
Indices: 16837374--16837441 Score: 127
Period size: 3 Copynumber: 22.3 Consensus size: 3
16837364 TTTTAAAGCC
16837374 TTA TCTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16837420 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
16837442 ACATACATTA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 61 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:16838621 original size:14 final size:14
Alignment explanation
Indices: 16838602--16838632 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
16838592 CGAATATGTG
16838602 ACTGCTTATGAGCT
1 ACTGCTTATGAGCT
16838616 ACTGCTTATGAGCT
1 ACTGCTTATGAGCT
16838630 ACT
1 ACT
16838633 AAAGAAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (14 bp):
ACTGCTTATGAGCT
Found at i:16857399 original size:26 final size:26
Alignment explanation
Indices: 16857357--16857406 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
16857347 TTTCTCATCC
16857357 CAATTTTACCACGAGTAAAATTTTAA
1 CAATTTTACCACGAGTAAAATTTTAA
* *
16857383 CAATTTTACCCCTAGTAAAATTTT
1 CAATTTTACCACGAGTAAAATTTT
16857407 GATAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (26 bp):
CAATTTTACCACGAGTAAAATTTTAA
Found at i:16865476 original size:17 final size:17
Alignment explanation
Indices: 16865450--16865489 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
16865440 GAATTTTCCA
* * *
16865450 TTTGGCGAACTCTAGGG
1 TTTGGTGAACTCCAAGG
16865467 TTTGGTGAACTCCAAGG
1 TTTGGTGAACTCCAAGG
16865484 TTTGGT
1 TTTGGT
16865490 ACACTATTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.17, C:0.15, G:0.33, T:0.35
Consensus pattern (17 bp):
TTTGGTGAACTCCAAGG
Found at i:16878465 original size:3 final size:3
Alignment explanation
Indices: 16878447--16878493 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
16878437 ATACTGCTAT
*
16878447 TTC TTT TTC TTTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TTC
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
16878492 TT
1 TT
16878494 TGGTAAACAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:16879115 original size:3 final size:3
Alignment explanation
Indices: 16879109--16879134 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16879099 AAAAAATTCA
16879109 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
16879135 AGTAGCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16887515 original size:55 final size:59
Alignment explanation
Indices: 16887456--16887593 Score: 140
Period size: 60 Copynumber: 2.3 Consensus size: 59
16887446 TACCCAAGAC
16887456 TTTTTAATTAAATAAACCCTCAAAC-TAA-G-TTATTTAAATAAGCCCTTACAATA-TT
1 TTTTTAATTAAATAAACCCTCAAACATAAGGCTTATTTAAATAAGCCCTTACAATATTT
** * ** * *
16887511 TTTTTACCTAAATAAACCCTTAGGCTATAATGGCTTATTTAAATAAGCCCTTATAGTATTT
1 TTTTTAATTAAATAAACCCTCAAAC-ATAA-GGCTTATTTAAATAAGCCCTTACAATATTT
*
16887572 TTTTTATATCTAGATAAACCCT
1 TTTTTA-AT-TAAATAAACCCT
16887594 TGAGCTATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
55 20 0.31
57 3 0.05
59 1 0.02
60 22 0.34
61 8 0.12
63 11 0.17
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.41
Consensus pattern (59 bp):
TTTTTAATTAAATAAACCCTCAAACATAAGGCTTATTTAAATAAGCCCTTACAATATTT
Found at i:16887562 original size:60 final size:62
Alignment explanation
Indices: 16887485--16887626 Score: 182
Period size: 63 Copynumber: 2.3 Consensus size: 62
16887475 TCAAACTAAG
*
16887485 TTATTTAAATAAGCCCTTACA-ATATTTTTT-TACCTAAATAAACCCTT-AGGCTATAATGGC
1 TTATTTAAATAAGCCCTTACAGATATTTTTTATACCTAAATAAACCCTTGA-GCTATAATGAC
* * * * *
16887545 TTATTTAAATAAGCCCTTATAGTATTTTTTTTATATCTAGATAAACCCTTGAGCTATATTGAC
1 TTATTTAAATAAGCCCTTACAG-ATATTTTTTATACCTAAATAAACCCTTGAGCTATAATGAC
*
16887608 TTATTTAAATAAACCCTTA
1 TTATTTAAATAAGCCCTTA
16887627 AATCTAGTTG
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
60 20 0.28
62 8 0.11
63 42 0.59
64 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.42
Consensus pattern (62 bp):
TTATTTAAATAAGCCCTTACAGATATTTTTTATACCTAAATAAACCCTTGAGCTATAATGAC
Found at i:16887620 original size:31 final size:30
Alignment explanation
Indices: 16887519--16887626 Score: 85
Period size: 31 Copynumber: 3.5 Consensus size: 30
16887509 TTTTTTTACC
* *
16887519 TAAATAAACCCTTAGGCTATAATGGCTTATT
1 TAAATAAACCCTTA-GCTATATTGACTTATT
* ***
16887550 TAAATAAGCCCTTA--TAGTATTTTTTTTATAT
1 TAAATAAACCCTTAGCTA-TA-TTGACTTAT-T
*
16887581 CTAGATAAACCCTTGAGCTATATTGACTTATT
1 -TAAATAAACCCTT-AGCTATATTGACTTATT
16887613 TAAATAAACCCTTA
1 TAAATAAACCCTTA
16887627 AATCTAGTTG
Statistics
Matches: 59, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
28 2 0.03
29 2 0.03
30 6 0.10
31 26 0.44
32 12 0.20
33 7 0.12
34 2 0.03
35 2 0.03
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (30 bp):
TAAATAAACCCTTAGCTATATTGACTTATT
Found at i:16905519 original size:44 final size:45
Alignment explanation
Indices: 16905462--16905580 Score: 161
Period size: 44 Copynumber: 2.7 Consensus size: 45
16905452 ATTTTACCCA
* * *
16905462 AAATGAGA-AAGACCATAGTTGAAAGATACTGTGGCATTAAACCAG
1 AAATGA-ATAAGACCATAGTTGAAAGATACTGCGACACTAAACCAG
*
16905507 -AATGAATAAGACCATGGTTGAAAGATACTGCGACACTAAACCAG
1 AAATGAATAAGACCATAGTTGAAAGATACTGCGACACTAAACCAG
**
16905551 AAATGTGTAAGACCATAGTTGAAAGATACT
1 AAATGAATAAGACCATAGTTGAAAGATACT
16905581 AAAACCATAG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 38 0.58
45 26 0.40
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGATACTGCGACACTAAACCAG
Found at i:16905587 original size:22 final size:22
Alignment explanation
Indices: 16905562--16905603 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
16905552 AATGTGTAAG
16905562 ACCATAGTTGAAAGATACTAAA
1 ACCATAGTTGAAAGATACTAAA
16905584 ACCATAGTTGAAAGATACTA
1 ACCATAGTTGAAAGATACTA
16905604 TGTCATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (22 bp):
ACCATAGTTGAAAGATACTAAA
Found at i:16905636 original size:45 final size:45
Alignment explanation
Indices: 16905584--16905701 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
16905574 AGATACTAAA
* *
16905584 ACCATAGTTGAAAGATACTATGTCATTAAATCTGATACGAAT-AAG
1 ACCATAGTTGAAAGAAACTATGTCATTAAAT-TGATAAGAATCAAG
* * * * *
16905629 ACCATAGTTGAAAGAAAATATGTCATCACATTGGTAATAATCAAG
1 ACCATAGTTGAAAGAAACTATGTCATTAAATTGATAAGAATCAAG
* * *
16905674 ACCATAGTTGGAAGACACTATGACATTA
1 ACCATAGTTGAAAGAAACTATGTCATTA
16905702 CTTCGGGAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 7 0.12
45 53 0.88
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.27
Consensus pattern (45 bp):
ACCATAGTTGAAAGAAACTATGTCATTAAATTGATAAGAATCAAG
Found at i:16910084 original size:31 final size:29
Alignment explanation
Indices: 16910015--16910088 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
16910005 ACCTCAAGCT
* *
16910015 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTACGTTTGAAATGTA
* * *
16910044 ATATTTTAGTCACTTACGTTATCGTATTGTA
1 ACATTTTAGTCACTTACGTT-T-GAAATGTA
16910075 ACATTTTAGTCACT
1 ACATTTTAGTCACT
16910089 GAGCCGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 18 0.49
30 1 0.03
31 18 0.49
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTACGTTTGAAATGTA
Found at i:16922964 original size:16 final size:16
Alignment explanation
Indices: 16922943--16922975 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16922933 TTCGCTGTAT
16922943 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
16922959 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
16922975 T
1 T
16922976 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:16923226 original size:16 final size:16
Alignment explanation
Indices: 16923189--16923230 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
16923179 GTAATCATAT
*
16923189 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
16923205 TT-AAATATATTATAA
1 TTAAAATATATTATAA
16923220 TTAAAATATAT
1 TTAAAATATAT
16923231 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:16923237 original size:14 final size:15
Alignment explanation
Indices: 16923198--16923239 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16923188 TTTAAACATA
*
16923198 ATTATTATTAAATAT
1 ATTATAATTAAATAT
16923213 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
16923227 A-TATAATTTAATA
1 ATTATAATTAAATA
16923240 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:16923337 original size:120 final size:121
Alignment explanation
Indices: 16923192--16923727 Score: 891
Period size: 120 Copynumber: 4.4 Consensus size: 121
16923182 ATCATATTTA
16923192 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
16923257 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
16923312 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
16923377 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
*
16923432 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAG
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
16923497 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* * *
16923553 AA-ATAATTATTATTAAATATATTTTAATTAAAATATATGACTTAATAAAATTCTTAATAATTAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT-A--AT
* *
16923617 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
63 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* * * * *
16923676 AA-AGAATTAATATTAAATATATTTTAATTAAAATATATGACTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
16923728 TAAAATAATT
Statistics
Matches: 402, Mismatches: 10, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
120 290 0.72
121 3 0.01
123 109 0.27
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:16923357 original size:14 final size:15
Alignment explanation
Indices: 16923308--16923359 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
16923298 ATAAAATATA
16923308 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
16923323 TATTAAATATATTAT
1 AATTAAATATATTAT
16923338 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
16923351 AATTTAATA
1 AATTAAATA
16923360 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:16923361 original size:59 final size:58
Alignment explanation
Indices: 16923192--16923603 Score: 250
Period size: 59 Copynumber: 6.9 Consensus size: 58
16923182 ATCATATTTA
* * *
16923192 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * *
16923251 AATCA-ATATTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTAAAATATATGAT-TTAATAAAATATAAA-T
* * *
16923312 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * *
16923371 AATCA-ATATTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTAAAATATATGAT-TTAATAAAATATAAA-T
* * *
16923432 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * * * *
16923491 AATCAGT-ATTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAAGATAATTT
1 AA-CA-TAATTATTAT-TAAATATA-TTATAATTAAAATATATGAT-TTAATAAAATATAA-AT
* *
16923552 GAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGACTTAATAAAAT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAAT
16923604 TCTTAATAAT
Statistics
Matches: 261, Mismatches: 62, Indels: 60
0.68 0.16 0.16
Matches are distributed among these distances:
58 8 0.03
59 86 0.33
60 71 0.27
61 85 0.33
62 11 0.04
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAAT
Found at i:16923477 original size:14 final size:15
Alignment explanation
Indices: 16923428--16923479 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
16923418 ATAAAATATA
16923428 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
16923443 TATTAAATATATTAT
1 AATTAAATATATTAT
16923458 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
16923471 AATTTAATA
1 AATTAAATA
16923480 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:16923666 original size:64 final size:64
Alignment explanation
Indices: 16923237--16923666 Score: 226
Period size: 59 Copynumber: 7.1 Consensus size: 64
16923227 ATATAATTTA
*
16923237 ATAAAATTCTTAAT-A--ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATTATAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
* * * * * * * * * *
16923298 ATAAAA-T-AT-A-AATTA-ACATAATTATTAT-TAAATATA-TTATAATTAAAATATATAAT-T
1 ATAAAATTCTTAATAATTATAAAT-ATTCTTATATGAATTTACTCA-AATCATAATATATGATAC
16923355 T
64 T
*
16923356 AATAAAATTCTTAAT-A--ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATTATAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
* * * * * * * * * *
16923418 ATAAAA-T-AT-A-AATTA-ACATAATTATTAT-TAAATATA-TTATAATTAAAATATATAAT-T
1 ATAAAATTCTTAATAATTATAAAT-ATTCTTATATGAATTTACTCA-AATCATAATATATGATAC
16923475 T
64 T
* *
16923476 AATAAAATTCTTAAT-A--ATCAGTATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATTATAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
* * * * * ** * *
16923538 ATAAAA-----GATAATT-TGAAATAATTATTAT-TAAATATATTTTAATTAAAATATATG--AC
1 ATAAAATTCTTAATAATTAT-AAAT-ATTCTTATATGAATTTACTCAAATCATAATATATGATAC
16923594 TT
64 -T
*
16923596 AATAAAATTCTTAATAATTATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATTATAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
16923661 ATAAAA
1 ATAAAA
16923667 GATAATTTGA
Statistics
Matches: 259, Mismatches: 66, Indels: 85
0.63 0.16 0.21
Matches are distributed among these distances:
56 2 0.01
57 3 0.01
58 12 0.05
59 83 0.32
60 43 0.17
61 61 0.24
62 10 0.04
63 7 0.03
64 34 0.13
65 2 0.01
66 2 0.01
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.42
Consensus pattern (64 bp):
ATAAAATTCTTAATAATTATAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
Found at i:16923715 original size:59 final size:58
Alignment explanation
Indices: 16923525--16923715 Score: 167
Period size: 59 Copynumber: 3.2 Consensus size: 58
16923515 CTCAAATCAT
*
16923525 AATATATGATACTATAAAAGATAATTTGAAATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAAGATAATTTGAAA-AATTAATATTAAATATATTTTAATTAA
* * **
16923584 AATATATG--ACT-TAATA-A-AATTCTTAATAATTATTAATATTCTTATATGAATTTACTCAAA
1 AATATATGATACTATAAAAGATAATT-TGAA-AA--ATTAATATT-AAATAT--ATTT--T--AA
* *
16923644 TCAT
55 TTAA
16923648 AATATATGATACTATAAAAGATAATTTGAAAGAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAAGATAATTTGAAA-AATTAATATTAAATATATTTTAATTAA
16923707 AATATATGA
1 AATATATGA
16923716 CTTAATAAAA
Statistics
Matches: 102, Mismatches: 13, Indels: 34
0.68 0.09 0.23
Matches are distributed among these distances:
54 4 0.04
55 5 0.05
56 5 0.05
57 11 0.11
58 4 0.04
59 21 0.21
60 4 0.04
61 1 0.01
62 1 0.01
63 4 0.04
64 12 0.12
65 4 0.04
66 12 0.12
67 5 0.05
68 5 0.05
69 4 0.04
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.41
Consensus pattern (58 bp):
AATATATGATACTATAAAAGATAATTTGAAAAATTAATATTAAATATATTTTAATTAA
Found at i:16923797 original size:26 final size:28
Alignment explanation
Indices: 16923768--16923828 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
16923758 TATGAATTTG
*
16923768 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
16923794 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
16923822 TAAAATT
1 TATAATT
16923829 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:16923826 original size:47 final size:46
Alignment explanation
Indices: 16923775--16923918 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
16923765 TTGTATAATT
16923775 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
16923822 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
16923866 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
16923913 TAAAAT
1 TAAAAT
16923919 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:16923839 original size:91 final size:90
Alignment explanation
Indices: 16923743--16923950 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
16923733 TAATTATAAC
* * * *
16923743 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
16923808 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
16923834 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
16923899 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
16923925 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
16923951 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:16923910 original size:44 final size:43
Alignment explanation
Indices: 16923768--16923910 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
16923758 TATGAATTTG
* *
16923768 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
16923812 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
16923859 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
16923903 TATAATTT
1 TATAATTT
16923911 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:16923925 original size:47 final size:47
Alignment explanation
Indices: 16923793--16923931 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
16923783 TTATTATTAC
* *
16923793 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
16923840 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
16923884 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
16923931 A
1 A
16923932 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:16930318 original size:11 final size:11
Alignment explanation
Indices: 16930302--16930326 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16930292 AACTAAACAC
16930302 GGGATTAAGTG
1 GGGATTAAGTG
16930313 GGGATTAAGTG
1 GGGATTAAGTG
16930324 GGG
1 GGG
16930327 CCCACGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.52, T:0.24
Consensus pattern (11 bp):
GGGATTAAGTG
Found at i:16935572 original size:16 final size:16
Alignment explanation
Indices: 16935551--16935597 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
16935541 CATCTTTTAT
16935551 TTAATTAACATTTAAC
1 TTAATTAACATTTAAC
* *
16935567 TTAATTATCAAATT-AC
1 TTAATTAAC-ATTTAAC
16935583 TTAATTAACATTTAA
1 TTAATTAACATTTAA
16935598 AAATTACCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 3 0.12
16 19 0.76
17 3 0.12
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAATTAACATTTAAC
Found at i:16935602 original size:22 final size:21
Alignment explanation
Indices: 16935576--16935620 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
16935566 CTTAATTATC
*
16935576 AAATTA-CTTAATTAACATTTAA
1 AAATTACCATAATT-ACA-TTAA
16935598 AAATTACCATAATTACATTAA
1 AAATTACCATAATTACATTAA
16935619 AA
1 AA
16935621 CCTATCCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 9 0.43
23 6 0.29
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATTACCATAATTACATTAA
Found at i:16939615 original size:17 final size:18
Alignment explanation
Indices: 16939583--16939616 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16939573 CCATGTGGTC
16939583 TGCCCATGTGGGCCCACA
1 TGCCCATGTGGGCCCACA
*
16939601 TGCCCTTGT-GGCCCAC
1 TGCCCATGTGGGCCCAC
16939617 TCGGCCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.12, C:0.41, G:0.26, T:0.21
Consensus pattern (18 bp):
TGCCCATGTGGGCCCACA
Found at i:16944570 original size:16 final size:16
Alignment explanation
Indices: 16944549--16944595 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
16944539 CATCTTTTAT
16944549 TTAATTAACATTTAAC
1 TTAATTAACATTTAAC
* *
16944565 TTAATTATCAAATT-AC
1 TTAATTAAC-ATTTAAC
16944581 TTAATTAACATTTAA
1 TTAATTAACATTTAA
16944596 AAATTTCCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 3 0.12
16 19 0.76
17 3 0.12
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAATTAACATTTAAC
Found at i:16944770 original size:18 final size:17
Alignment explanation
Indices: 16944731--16944772 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
16944721 AACTTTTACA
*
16944731 CTTTTTACGATTTAGTC
1 CTTTTTACGATTTAGAC
*
16944748 CTTTTTATGATTTAGAC
1 CTTTTTACGATTTAGAC
16944765 CTTTTTAC
1 CTTTTTAC
16944773 TTAATTAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.19, C:0.17, G:0.10, T:0.55
Consensus pattern (17 bp):
CTTTTTACGATTTAGAC
Found at i:16956430 original size:16 final size:16
Alignment explanation
Indices: 16956416--16956448 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16956406 TTATTAAATG
16956416 AATAAAAGTAAAAATAA
1 AATAAAA-TAAAAATAA
16956433 AATAAAAT-AAAATAA
1 AATAAAATAAAAATAA
16956448 A
1 A
16956449 TGAAACATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (16 bp):
AATAAAATAAAAATAA
Found at i:16964032 original size:26 final size:26
Alignment explanation
Indices: 16963970--16964054 Score: 125
Period size: 27 Copynumber: 3.2 Consensus size: 26
16963960 ATAAAAAGGT
*
16963970 AGCCTTTGTGGCGATCTATGAAAACCA
1 AGCCTTTGTGGCGATCTATGAAAA-AA
16963997 AGCCTTTGTGGCGATCTATGAAAAAA
1 AGCCTTTGTGGCGATCTATGAAAAAA
* *
16964023 AGCCTTTGTGGGGATCTATGATAAAGA
1 AGCCTTTGTGGCGATCTATGA-AAAAA
16964050 AGCCT
1 AGCCT
16964055 CTATGGCACA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
26 21 0.39
27 33 0.61
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (26 bp):
AGCCTTTGTGGCGATCTATGAAAAAA
Found at i:16968443 original size:51 final size:52
Alignment explanation
Indices: 16968351--16968459 Score: 166
Period size: 51 Copynumber: 2.1 Consensus size: 52
16968341 ATATAACTGG
* *
16968351 TGAAAATGGAGAAATGAGAAACATTTGAAAATGATTATGGTTTTCTCCAAAA
1 TGAAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTCTCCAAAA
* * *
16968403 TGAAAATAGAGAAATGA-AATCATTTGGAAATGAATGTGGTTTTCTCCAAAA
1 TGAAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTCTCCAAAA
16968454 TGAAAA
1 TGAAAA
16968460 ATAAAATGTG
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
51 36 0.69
52 16 0.31
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.28
Consensus pattern (52 bp):
TGAAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTCTCCAAAA
Found at i:16978717 original size:40 final size:40
Alignment explanation
Indices: 16978680--16978865 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
16978670 GCTACTCGTT
*
16978680 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
16978720 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
16978760 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
16978800 CAAATGACTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
16978841 CAAA-GCCTTCGGGACTGAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16978866 CATCATTCAA
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 112 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:16983129 original size:17 final size:17
Alignment explanation
Indices: 16983107--16983142 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
16983097 AAATCCCAGA
16983107 TTCTGATACCCATATCT
1 TTCTGATACCCATATCT
16983124 TTCTGATACCCATATCT
1 TTCTGATACCCATATCT
16983141 TT
1 TT
16983143 GACTTTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (17 bp):
TTCTGATACCCATATCT
Found at i:16990422 original size:14 final size:14
Alignment explanation
Indices: 16990396--16990429 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
16990386 ATATTTATGG
16990396 TTTTTTTCTTTCTT
1 TTTTTTTCTTTCTT
16990410 TTATTTTTC-TTCTT
1 TT-TTTTTCTTTCTT
16990424 TTTTTT
1 TTTTTT
16990430 GAATGGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 9 0.47
15 6 0.32
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTCTTTCTT
Found at i:16990429 original size:18 final size:17
Alignment explanation
Indices: 16990396--16990428 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16990386 ATATTTATGG
16990396 TTTTTTTCTTTCTTTTA
1 TTTTTTTCTTTCTTTTA
16990413 TTTTTCTTCTTT-TTTT
1 TTTTT-TTCTTTCTTTT
16990429 TGAATGGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTCTTTCTTTTA
Found at i:17008139 original size:22 final size:22
Alignment explanation
Indices: 17008113--17008157 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
17008103 ATTATATGTA
17008113 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
17008135 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
17008157 T
1 T
17008158 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:17015493 original size:16 final size:16
Alignment explanation
Indices: 17015472--17015502 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17015462 ATTATAGGAG
17015472 ATACTTTTAATTTTTC
1 ATACTTTTAATTTTTC
17015488 ATACTTTTAATTTTT
1 ATACTTTTAATTTTT
17015503 ATTGTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.65
Consensus pattern (16 bp):
ATACTTTTAATTTTTC
Found at i:17017482 original size:36 final size:36
Alignment explanation
Indices: 17017442--17017511 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
17017432 AGTCGATGTA
*
17017442 CTCTTATAAGCATTTGGTGCGTTTCGGATGGATTAG
1 CTCTTATAAGCATCTGGTGCGTTTCGGATGGATTAG
* * * *
17017478 CTCTTATGAGCATCTGGTGTGTTTTGGTTGGATT
1 CTCTTATAAGCATCTGGTGCGTTTCGGATGGATT
17017512 GTCGATGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.16, C:0.13, G:0.29, T:0.43
Consensus pattern (36 bp):
CTCTTATAAGCATCTGGTGCGTTTCGGATGGATTAG
Found at i:17018439 original size:12 final size:12
Alignment explanation
Indices: 17018422--17018447 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17018412 TATGTTTATG
17018422 ATATTGAATAAA
1 ATATTGAATAAA
17018434 ATATTGAATAAA
1 ATATTGAATAAA
17018446 AT
1 AT
17018448 TAAGTTTAAA
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:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
ATATTGAATAAA
Found at i:17026267 original size:36 final size:36
Alignment explanation
Indices: 17026227--17026296 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
17026217 TTCGAATCCA
* *
17026227 TTGGTGTGTTTCGAATAGATTAGCTCTTATGAGCCT
1 TTGGTGTGTTTCGAATAGATAAACTCTTATGAGCCT
* *
17026263 TTGGTGTGTTTCGGATGGATAAACTCTTATGAGC
1 TTGGTGTGTTTCGAATAGATAAACTCTTATGAGC
17026297 ATCTAGTGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (36 bp):
TTGGTGTGTTTCGAATAGATAAACTCTTATGAGCCT
Found at i:17026306 original size:36 final size:36
Alignment explanation
Indices: 17026230--17026318 Score: 97
Period size: 36 Copynumber: 2.5 Consensus size: 36
17026220 GAATCCATTG
* * * * * * *
17026230 GTGTGTTTCGAATAGATTAGCTCTTATGAGCCTTTG
1 GTGTGTTTCGGATGGATAAACTCTTATGAGCATCTA
17026266 GTGTGTTTCGGATGGATAAACTCTTATGAGCATCTA
1 GTGTGTTTCGGATGGATAAACTCTTATGAGCATCTA
* *
17026302 GTGTGTTTTGGTTGGAT
1 GTGTGTTTCGGATGGAT
17026319 TGTCGATGTA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.19, C:0.11, G:0.28, T:0.42
Consensus pattern (36 bp):
GTGTGTTTCGGATGGATAAACTCTTATGAGCATCTA
Found at i:17029718 original size:55 final size:56
Alignment explanation
Indices: 17029655--17029762 Score: 182
Period size: 55 Copynumber: 1.9 Consensus size: 56
17029645 TTTTACAAAA
*
17029655 AATGAGATATTATAGGATATTATTATG-GATATTATCTCTTAGCAATTTGATTCAT
1 AATGAGATATTATAGGATATTATTATGAGATATTACCTCTTAGCAATTTGATTCAT
* *
17029710 AATGAGATATTATATGATATTATTATGAGATATTACCTTTTAGCAATTTGATT
1 AATGAGATATTATAGGATATTATTATGAGATATTACCTCTTAGCAATTTGATT
17029763 TCTAAGTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 26 0.53
56 23 0.47
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.44
Consensus pattern (56 bp):
AATGAGATATTATAGGATATTATTATGAGATATTACCTCTTAGCAATTTGATTCAT
Found at i:17030484 original size:20 final size:19
Alignment explanation
Indices: 17030447--17030497 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
17030437 TCTATAACCG
17030447 AATAATGTT-TATTAAAAAAT
1 AATAAT-TTATATT-AAAAAT
*
17030467 AA-AATTGTATATTTAAAAT
1 AATAATT-TATATTAAAAAT
17030486 AATAATTTATAT
1 AATAATTTATAT
17030498 AATATGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 10 0.37
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
AATAATTTATATTAAAAAT
Found at i:17031014 original size:39 final size:39
Alignment explanation
Indices: 17030940--17031025 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 39
17030930 AAGTATTTAG
** *
17030940 TTACAAAGTTAGGTTTCCAATAAAAAATTTGATATTTGA
1 TTACAAAAATAGGTTTCCAATAAAAAATTTAATATTTGA
* * * *
17030979 TTATAAAAATAGGTTTCCAA-AAGTAATTTTAATATTTGG
1 TTACAAAAATAGGTTTCCAATAA-AAAATTTAATATTTGA
17031018 TTACAAAA
1 TTACAAAA
17031026 GGTTTTCAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
38 2 0.05
39 36 0.95
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (39 bp):
TTACAAAAATAGGTTTCCAATAAAAAATTTAATATTTGA
Found at i:17031713 original size:21 final size:22
Alignment explanation
Indices: 17031684--17031758 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
17031674 ACTAATAATT
17031684 AAAAT-TAAATTTTAAAATTT-
1 AAAATATAAATTTTAAAATTTA
* *
17031704 GAAATATAAAAATTTAAAATTTA
1 AAAATAT-AAATTTTAAAATTTA
* * *
17031727 AAAATAAAAATTTAAAAAAATTTC
1 AAAATATAAATTT--TAAAATTTA
17031751 AAAATATA
1 AAAATATA
17031759 CGGGCTTAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
20 4 0.10
21 1 0.02
22 18 0.43
23 5 0.12
24 14 0.33
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (22 bp):
AAAATATAAATTTTAAAATTTA
Found at i:17031715 original size:15 final size:15
Alignment explanation
Indices: 17031697--17031758 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 15
17031687 ATTAAATTTT
*
17031697 AAAATTTGAAATATA
1 AAAATTTAAAATATA
*
17031712 AAAATTTAAAATTTA
1 AAAATTTAAAATATA
* *
17031727 AAAA-TAAAAATTTAAA
1 AAAATTTAAAA--TATA
17031743 AAAATTTCAAAATATA
1 AAAATTT-AAAATATA
17031759 CGGGCTTAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
14 5 0.14
15 17 0.47
16 9 0.25
17 1 0.03
18 4 0.11
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
AAAATTTAAAATATA
Found at i:17031722 original size:7 final size:7
Alignment explanation
Indices: 17031682--17031743 Score: 63
Period size: 7 Copynumber: 8.9 Consensus size: 7
17031672 ATACTAATAA
17031682 TTAAAA-
1 TTAAAAT
*
17031688 TTAAATT
1 TTAAAAT
17031695 TTAAAAT
1 TTAAAAT
*
17031702 TTGAAAT
1 TTAAAAT
*
17031709 ATAAAAAT
1 -TTAAAAT
17031717 TTAAAAT
1 TTAAAAT
*
17031724 TTAAAAA
1 TTAAAAT
*
17031731 TAAAAAT
1 TTAAAAT
17031738 TTAAAA
1 TTAAAA
17031744 AAATTTCAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
6 5 0.11
7 34 0.77
8 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (7 bp):
TTAAAAT
Found at i:17031742 original size:8 final size:8
Alignment explanation
Indices: 17031690--17031744 Score: 55
Period size: 8 Copynumber: 7.4 Consensus size: 8
17031680 AATTAAAATT
*
17031690 AAATTTTA
1 AAATTTAA
*
17031698 AAATTT-G
1 AAATTTAA
*
17031705 AAATATAA
1 AAATTTAA
17031713 AAATTT-A
1 AAATTTAA
17031720 AAATTTAA
1 AAATTTAA
17031728 AAA--TAA
1 AAATTTAA
17031734 AAATTTAA
1 AAATTTAA
17031742 AAA
1 AAA
17031745 AATTTCAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 6 0.15
7 12 0.31
8 21 0.54
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (8 bp):
AAATTTAA
Found at i:17031744 original size:14 final size:15
Alignment explanation
Indices: 17031690--17031744 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
17031680 AATTAAAATT
* **
17031690 AAATTTTAAAATTTG
1 AAATTTAAAAATTAA
* *
17031705 AAATATAAAAATTTA
1 AAATTTAAAAATTAA
17031720 AAATTTAAAAA-TAA
1 AAATTTAAAAATTAA
17031734 AAATTTAAAAA
1 AAATTTAAAAA
17031745 AATTTCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 13 0.37
15 22 0.63
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
AAATTTAAAAATTAA
Found at i:17031779 original size:7 final size:7
Alignment explanation
Indices: 17031767--17031797 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
17031757 TACGGGCTTA
17031767 GGGAAAT
1 GGGAAAT
17031774 GGGAAAT
1 GGGAAAT
17031781 GGGAAAT
1 GGGAAAT
17031788 GGGAAAT
1 GGGAAAT
17031795 GGG
1 GGG
17031798 GAGGGGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.48, T:0.13
Consensus pattern (7 bp):
GGGAAAT
Found at i:17031806 original size:13 final size:14
Alignment explanation
Indices: 17031767--17031808 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
17031757 TACGGGCTTA
*
17031767 GGGAAATGGGAAAT
1 GGGAAAGGGGAAAT
*
17031781 GGGAAATGGGAAAT
1 GGGAAAGGGGAAAT
*
17031795 GGG-GAGGGGAAAT
1 GGGAAAGGGGAAAT
17031808 G
1 G
17031809 AAAATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.38, C:0.00, G:0.50, T:0.12
Consensus pattern (14 bp):
GGGAAAGGGGAAAT
Found at i:17032590 original size:29 final size:30
Alignment explanation
Indices: 17032541--17032598 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
17032531 TAAATTCAAG
17032541 ATATTTATAAAAATTCCAAAA-ATTATATAT
1 ATATTTATAAAAATTCCAAAAGA-TATATAT
*
17032571 ATATTT-TAAAAATTCTAAAAGATATATA
1 ATATTTATAAAAATTCCAAAAGATATATA
17032599 AAAAAGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (30 bp):
ATATTTATAAAAATTCCAAAAGATATATAT
Found at i:17038632 original size:128 final size:128
Alignment explanation
Indices: 17038404--17038659 Score: 494
Period size: 128 Copynumber: 2.0 Consensus size: 128
17038394 TTAATTTTAA
*
17038404 AAGGAATATACCAAAAACTTTCATGCCAAGAGTTTGAATAAACTAAGTAAAATTTCTTTAAAAAG
1 AAGGAATATACCAAAAACTTTCATGCCAAGAGTTTGAATAAACCAAGTAAAATTTCTTTAAAAAG
17038469 GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
66 GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
*
17038532 AAGGAATATACTAAAAACTTTCATGCCAAGAGTTTGAATAAACCAAGTAAAATTTCTTTAAAAAG
1 AAGGAATATACCAAAAACTTTCATGCCAAGAGTTTGAATAAACCAAGTAAAATTTCTTTAAAAAG
17038597 GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
66 GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
17038660 GTCCTTTTTT
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 126 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.28
Consensus pattern (128 bp):
AAGGAATATACCAAAAACTTTCATGCCAAGAGTTTGAATAAACCAAGTAAAATTTCTTTAAAAAG
GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
Found at i:17039479 original size:22 final size:22
Alignment explanation
Indices: 17039440--17039494 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
17039430 AAGACCGTCC
*
17039440 ATATTATTTTTTTAAAATATTT
1 ATATTATTTTATTAAAATATTT
*
17039462 ATATTATTTTAATT-AAATATGT
1 ATATTATTTT-ATTAAAATATTT
*
17039484 A-ATAATTTTAT
1 ATATTATTTTAT
17039495 ATATTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 2 0.07
21 7 0.24
22 18 0.62
23 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATTATTTTATTAAAATATTT
Found at i:17043593 original size:16 final size:16
Alignment explanation
Indices: 17043570--17043625 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
17043560 CGTTTGGTTC
17043570 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* **
17043586 GTTGTAATTAAATAGA
1 GCTGTAATGGAATAGA
*
17043602 ACTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
17043618 GCTGTAAT
1 GCTGTAAT
17043626 AAGTAATTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:17043812 original size:133 final size:134
Alignment explanation
Indices: 17043572--17043844 Score: 397
Period size: 133 Copynumber: 2.0 Consensus size: 134
17043562 TTTGGTTCGC
* * * *
17043572 TGTAATGGAATAGAGTTGTAATTAAATAGAACTGTAATGGAATAGAGCTGTAATAAGTAATTCAA
1 TGTAATGGAATAGAGCTCTAATTAAAGAGAACTGTAATGGAATAGAGCTATAATAAGTAATTCAA
* *
17043637 TTATTTGGTTGAATAGAATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGGAAT-G
66 TTATTTGGTTGAATAGAATGAAATAGAACTGTAATAGAATTCTTGTGTTTGGTTGAATGGAATAG
17043701 ATGT
131 ATGT
* * * *
17043705 TGTAATGGAATA-AGGCTCTAATTGAAGAGAATTGTAATGGGATAGAGCTATAATCAGTAATTCA
1 TGTAATGGAATAGA-GCTCTAATTAAAGAGAACTGTAATGGAATAGAGCTATAATAAGTAATTCA
* **
17043769 ATTATTTGGTTGAATGGAATGAAATAGAGTTGTAATAGAATTCTTGTGTTTGGTTGAATGGAATA
65 ATTATTTGGTTGAATAGAATGAAATAGAACTGTAATAGAATTCTTGTGTTTGGTTGAATGGAATA
17043834 GATGT
130 GATGT
*
17043839 CGTAAT
1 TGTAAT
17043845 AGTATAAGAA
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
132 1 0.01
133 113 0.91
134 10 0.08
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (134 bp):
TGTAATGGAATAGAGCTCTAATTAAAGAGAACTGTAATGGAATAGAGCTATAATAAGTAATTCAA
TTATTTGGTTGAATAGAATGAAATAGAACTGTAATAGAATTCTTGTGTTTGGTTGAATGGAATAG
ATGT
Found at i:17043939 original size:25 final size:26
Alignment explanation
Indices: 17043905--17043956 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
17043895 TAGGTAGATG
*
17043905 ATTATTGTT-ATTAAATTTTAATAAA
1 ATTATTGTTAAATAAATTTTAATAAA
*
17043930 ATTATTGTTAAATATATTTTAATAAA
1 ATTATTGTTAAATAAATTTTAATAAA
17043956 A
1 A
17043957 ATAAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAA
Found at i:17043980 original size:55 final size:57
Alignment explanation
Indices: 17043914--17044027 Score: 151
Period size: 55 Copynumber: 2.0 Consensus size: 57
17043904 GATTATTGTT
* * * *
17043914 ATTAAATTTTAATAAAATTATTGTTAAATATATTTTAAT-AAA-AATAAATAATTTA
1 ATTAAATTTTAACAAAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTA
* * *
17043969 ATTATATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTA
1 ATTAAATTTTAACAAAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTA
17044026 AT
1 AT
17044028 AGCATTCCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 33 0.66
56 3 0.06
57 14 0.28
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.46
Consensus pattern (57 bp):
ATTAAATTTTAACAAAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTA
Done.