Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 304 of 325
Found at i:98734071 original size:22 final size:22
Alignment explanation
Indices: 98734012--98734071 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
98734002 GCCTTCTATT
* * *
98734012 CGTCCCATAAAAAGGCTCTCATA
1 CGTCCCAT-AAAGGGCACTCAAA
** *
98734035 CGTCCCACGAGGGGCACTCAAA
1 CGTCCCATAAAGGGCACTCAAA
98734057 CGTCCCATAAAGGGC
1 CGTCCCATAAAGGGC
98734072 TTTTATATAC
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (22 bp):
CGTCCCATAAAGGGCACTCAAA
Found at i:98735620 original size:42 final size:42
Alignment explanation
Indices: 98735499--98735631 Score: 119
Period size: 43 Copynumber: 3.1 Consensus size: 42
98735489 GAAATGTGAA
* * *
98735499 CATCG-ATCTGAGATATCGTGTAAGACCGTGTCTGGGATACAGG
1 CATCGTATCTGAG-TTTCGTGTAAGACCATGTCTGGGACAC-GG
* * * *
98735542 CCTC-TATGTGAGTTTACATGTAAGACCATGTTTGGGACATCGG
1 CATCGTATCTGAGTTT-CGTGTAAGACCATGTCTGGGACA-CGG
* *
98735585 CATCGTATCTGA-TTTCGTGTAAGACCCTGTCTGGGACAAAGG
1 CATCGTATCTGAGTTTCGTGTAAGACCATGTCTGGGAC-ACGG
98735627 CATCG
1 CATCG
98735632 ATACTGAATT
Statistics
Matches: 72, Mismatches: 13, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
42 28 0.39
43 37 0.51
44 7 0.10
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (42 bp):
CATCGTATCTGAGTTTCGTGTAAGACCATGTCTGGGACACGG
Found at i:98735664 original size:43 final size:42
Alignment explanation
Indices: 98735555--98735664 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
98735545 CTATGTGAGT
* **
98735555 TTACATGTAAGACCATGTTTGGGACATCGGCATCGTATCTGA
1 TTACATGTAAGACCACGTTTGGGACAAAGGCATCGTATCTGA
* * *
98735597 TTTCGTGTAAGACC-CTGTCTGGGACAAAGGCATCG-ATACTGAA
1 TTACATGTAAGACCAC-GTTTGGGACAAAGGCATCGTAT-CTG-A
*
98735640 TTACATGTAAAACCACGTTTGGGAC
1 TTACATGTAAGACCACGTTTGGGAC
98735665 GTCAGCATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
41 2 0.04
42 31 0.57
43 20 0.37
44 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (42 bp):
TTACATGTAAGACCACGTTTGGGACAAAGGCATCGTATCTGA
Found at i:98738621 original size:31 final size:31
Alignment explanation
Indices: 98738562--98738625 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
98738552 AAACCTAGAG
* * *
98738562 TTGACAATTTTTCTCACATTAGGACTTGAAT
1 TTGACAATTATTCCCACATTAAGACTTGAAT
98738593 TTGACAATTATTCCCACATTAA-AGCTTGAAT
1 TTGACAATTATTCCCACATTAAGA-CTTGAAT
98738624 TT
1 TT
98738626 TAGGGTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (31 bp):
TTGACAATTATTCCCACATTAAGACTTGAAT
Found at i:98739868 original size:20 final size:20
Alignment explanation
Indices: 98739845--98739883 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
98739835 TTTAATATTT
98739845 ATATT-TTTATAATTTTTAAA
1 ATATTATTTA-AATTTTTAAA
98739865 ATATTAATTTAAATTTTTA
1 ATATT-ATTTAAATTTTTA
98739884 TTATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATTATTTAAATTTTTAAA
Found at i:98739889 original size:82 final size:81
Alignment explanation
Indices: 98739788--98739947 Score: 182
Period size: 82 Copynumber: 2.0 Consensus size: 81
98739778 TGAGGGATTA
* *
98739788 AATTTAAATTATATATA-TTTATGATGATAAAAATATAATTTTATTATTTTAAT-ATTTATATTT
1 AATTTAAATTATATATATTTTAAGA-GATAAAAATATAATTTTA-T-TTTTAATAATTTAAATTT
*
98739851 TTATAATTTTTAAAATATT
63 TTATAAATTTTAAAATATT
* * * * *
98739870 AATTTAAATT-TTTATTATTTTTAAGAGGTCAAAATGTAATTTTATTTTTACTAATTTAAATTTT
1 AATTTAAATTATATA-TA-TTTTAAGAGATAAAAATATAATTTTATTTTTAATAATTTAAATTTT
98739934 TATAAATTTTAAAA
64 TATAAATTTTAAAA
98739948 GAGCTTAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
81 9 0.14
82 36 0.55
83 15 0.23
84 6 0.09
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (81 bp):
AATTTAAATTATATATATTTTAAGAGATAAAAATATAATTTTATTTTTAATAATTTAAATTTTTA
TAAATTTTAAAATATT
Found at i:98741560 original size:5 final size:5
Alignment explanation
Indices: 98741550--98741579 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
98741540 TCTTAATTTC
98741550 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
98741580 TAACCCTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:98744493 original size:107 final size:108
Alignment explanation
Indices: 98744375--98744582 Score: 373
Period size: 107 Copynumber: 1.9 Consensus size: 108
98744365 CGTGTCAAAT
* *
98744375 TTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTGTTATTTAAATCTTA
1 TTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAAAACTTA
98744440 TTCCAACTTAACATATCATTGTTTTGTTAAACTAATCAAAAAA
66 TTCCAACTTAACATATCATTGTTTTGTTAAACTAATCAAAAAA
98744483 TTTAT-AGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAAAACTTA
1 TTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAAAACTTA
* *
98744547 TTCTAACTTAACATATCATTGTTTTGTTAAATTAAT
66 TTCCAACTTAACATATCATTGTTTTGTTAAACTAAT
98744583 TTTTTGTTTA
Statistics
Matches: 96, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
107 91 0.95
108 5 0.05
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (108 bp):
TTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAAAACTTA
TTCCAACTTAACATATCATTGTTTTGTTAAACTAATCAAAAAA
Found at i:98745448 original size:61 final size:61
Alignment explanation
Indices: 98745353--98745473 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
98745343 TATTTAATAA
*
98745353 AATTTATATTCAAACTCCTTACCACTCACTTATTTTACTTACTTTTACAAGTGATTTTTTT
1 AATTTATATTCAAACTCCTTACCACCCACTTATTTTACTTACTTTTACAAGTGATTTTTTT
*
98745414 AATTTATATTCAAATTCCTTACCACCCACTTATTTTACTTACTTTTACAAGTGATTTTTT
1 AATTTATATTCAAACTCCTTACCACCCACTTATTTTACTTACTTTTACAAGTGATTTTTT
98745474 ATTTATTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.28, C:0.20, G:0.03, T:0.49
Consensus pattern (61 bp):
AATTTATATTCAAACTCCTTACCACCCACTTATTTTACTTACTTTTACAAGTGATTTTTTT
Found at i:98752457 original size:10 final size:9
Alignment explanation
Indices: 98752419--98752468 Score: 57
Period size: 10 Copynumber: 5.4 Consensus size: 9
98752409 TAAACACTAT
98752419 AAAATT-TA
1 AAAATTATA
98752427 AAAATTATTA
1 AAAATTA-TA
*
98752437 GAAATTATA
1 AAAATTATA
*
98752446 AAATATTGTA
1 AAA-ATTATA
98752456 AAAATTATA
1 AAAATTATA
98752465 AAAA
1 AAAA
98752469 AATTATTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 6 0.17
9 13 0.37
10 16 0.46
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:98752460 original size:37 final size:34
Alignment explanation
Indices: 98752419--98752511 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 34
98752409 TAAACACTAT
98752419 AAAATTTAAAAATTATTAGAAATTATAAAATATTGTA
1 AAAATTTAAAAATTATTAGAAA-TATAAAAT-TT-TA
* *
98752456 AAAATTATAAAAAAATTATTTGAAATATTAAATTTTA
1 AAAATT-T--AAAAATTATTAGAAATATAAAATTTTA
*
98752493 AAAATAGTAAAAATTATTA
1 AAAAT-TTAAAAATTATTA
98752512 TATTTTGAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
35 10 0.21
37 14 0.29
38 3 0.06
39 7 0.15
40 14 0.29
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (34 bp):
AAAATTTAAAAATTATTAGAAATATAAAATTTTA
Found at i:98752481 original size:40 final size:37
Alignment explanation
Indices: 98752426--98752505 Score: 99
Period size: 40 Copynumber: 2.1 Consensus size: 37
98752416 TATAAAATTT
98752426 AAAAATTATTAGAAATTATAAAATATTGTAAAAATTA-TAA
1 AAAAATTATTAGAAA-TATAAAAT-TT-TAAAAA-TAGTAA
* *
98752466 AAAAATTATTTGAAATATTAAATTTTAAAAATAGTAA
1 AAAAATTATTAGAAATATAAAATTTTAAAAATAGTAA
98752503 AAA
1 AAA
98752506 TTATTATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
36 2 0.05
37 12 0.32
38 2 0.05
39 7 0.19
40 14 0.38
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (37 bp):
AAAAATTATTAGAAATATAAAATTTTAAAAATAGTAA
Found at i:98752916 original size:19 final size:20
Alignment explanation
Indices: 98752882--98752921 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
98752872 TAAGATAGTA
98752882 AAAAATTATTTGAAATAATT
1 AAAAATTATTTGAAATAATT
*
98752902 AAAAATTATTT-AAATTATT
1 AAAAATTATTTGAAATAATT
98752921 A
1 A
98752922 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAAATTATTTGAAATAATT
Found at i:98753168 original size:20 final size:20
Alignment explanation
Indices: 98753135--98753178 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
98753125 TAAAATTTCT
*
98753135 ATTTTTTAAATTTTTAGTAA
1 ATTTTATAAATTTTTAGTAA
* *
98753155 ATTTTATAATTTTTTTGTAA
1 ATTTTATAAATTTTTAGTAA
98753175 ATTT
1 ATTT
98753179 ACATTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
ATTTTATAAATTTTTAGTAA
Found at i:98753179 original size:19 final size:19
Alignment explanation
Indices: 98753138--98753188 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
98753128 AATTTCTATT
*
98753138 TTTTAAA-TTTTTAGTAAA
1 TTTTAAATTTTTTTGTAAA
98753156 TTTTATAATTTTTTTGTAAA
1 TTTTA-AATTTTTTTGTAAA
*
98753176 -TTTACATTTTTTT
1 TTTTAAATTTTTTT
98753189 ATATTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 13 0.45
19 6 0.21
20 10 0.34
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTAAATTTTTTTGTAAA
Found at i:98753236 original size:14 final size:14
Alignment explanation
Indices: 98753210--98753247 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
98753200 AAGTTTTATA
*
98753210 ATTTTTTTATAAAT
1 ATTTTTTTATAAAG
98753224 ATTTATTTT-TAAAG
1 ATTT-TTTTATAAAG
98753238 ATTTTTTTAT
1 ATTTTTTTAT
98753248 GTTTTTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 4 0.19
14 13 0.62
15 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (14 bp):
ATTTTTTTATAAAG
Found at i:98753242 original size:47 final size:46
Alignment explanation
Indices: 98753127--98753243 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 46
98753117 TAAAATATTA
* * *
98753127 AAATTTCTATTTTTTAAATTTTTAGTAAATTTTATAATTTTTTTGT
1 AAATTTATATTTTTTAAATTTTTAATAAATTTTATAATTTTTTTAT
* * *
98753173 AAATTTACATTTTTTTATATTTTTAATAAGTTTTATAATTTTTTTAT
1 AAATTTATA-TTTTTTAAATTTTTAATAAATTTTATAATTTTTTTAT
*
98753220 AAATATT-TATTTTTAAAGATTTTT
1 AAAT-TTATATTTTTTAA-ATTTTT
98753244 TTATGTTTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
46 13 0.22
47 44 0.75
48 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.62
Consensus pattern (46 bp):
AAATTTATATTTTTTAAATTTTTAATAAATTTTATAATTTTTTTAT
Found at i:98761851 original size:18 final size:18
Alignment explanation
Indices: 98761828--98761902 Score: 123
Period size: 18 Copynumber: 4.2 Consensus size: 18
98761818 AGATAAATGC
*
98761828 ACTGAATGATTGATTGTT
1 ACTGAATGACTGATTGTT
98761846 ACTGAATGACTGATTGTT
1 ACTGAATGACTGATTGTT
* *
98761864 ATTGAATGATTGATTGTT
1 ACTGAATGACTGATTGTT
98761882 ACTGAATGACTGATTGTT
1 ACTGAATGACTGATTGTT
98761900 ACT
1 ACT
98761903 AAATAATGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (18 bp):
ACTGAATGACTGATTGTT
Found at i:98761870 original size:36 final size:36
Alignment explanation
Indices: 98761830--98761900 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
98761820 ATAAATGCAC
98761830 TGAATGATTGATTGTTACTGAATGACTGATTGTTAT
1 TGAATGATTGATTGTTACTGAATGACTGATTGTTAT
98761866 TGAATGATTGATTGTTACTGAATGACTGATTGTTA
1 TGAATGATTGATTGTTACTGAATGACTGATTGTTA
98761901 CTAAATAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.44
Consensus pattern (36 bp):
TGAATGATTGATTGTTACTGAATGACTGATTGTTAT
Found at i:98768562 original size:14 final size:14
Alignment explanation
Indices: 98768545--98768571 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
98768535 AACCCATTAC
98768545 AGAAACTCCATTTT
1 AGAAACTCCATTTT
98768559 AGAAACTCCATTT
1 AGAAACTCCATTT
98768572 CTGTCGCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (14 bp):
AGAAACTCCATTTT
Found at i:98770613 original size:17 final size:19
Alignment explanation
Indices: 98770593--98770630 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
98770583 CAGGGGAAGG
98770593 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
98770610 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
98770629 AA
1 AA
98770631 TTAAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:98774482 original size:3 final size:3
Alignment explanation
Indices: 98774474--98774499 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
98774464 TGTGGATGGA
98774474 GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GA
98774500 AAATATACAA
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:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:98774918 original size:50 final size:49
Alignment explanation
Indices: 98774843--98775005 Score: 220
Period size: 50 Copynumber: 3.2 Consensus size: 49
98774833 CCATGGCAAC
* *
98774843 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATGA
1 AAGTGATAAGTGATAGTTTAGGCTACACTTATCTGATCAAGGA-AAATGA
*
98774893 AAGTGATAAGTAATAGTTTAGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGTTTAGGCTACACTTATCTGATCAAGGAAAA-TGA
* *
98774943 AAGTGATAAGTGATAGCTTCA-GCTACACTTATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAG-TTTAGGCTACACTTATCTGATCAAGGA-AAATGA
*
98774993 CAAGTGAAAAGTG
1 -AAGTGATAAGTG
98775006 GTAGCTTCAG
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
49 3 0.03
50 82 0.80
51 17 0.17
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (49 bp):
AAGTGATAAGTGATAGTTTAGGCTACACTTATCTGATCAAGGAAAATGA
Found at i:98775033 original size:31 final size:31
Alignment explanation
Indices: 98774995--98775143 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
98774985 ACAAATGACA
*
98774995 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
98775026 AGTGAAAAGTGGTAGCTTCTGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
98775057 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
98775088 AGTGAAAAATGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
98775119 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
98775144 AAGTGAAAAG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:98775239 original size:47 final size:46
Alignment explanation
Indices: 98775170--98775291 Score: 154
Period size: 47 Copynumber: 2.6 Consensus size: 46
98775160 GTGATTTCCG
* *
98775170 TATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTA
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATAC-A
* * * *
98775217 TATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTCA
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACA
* * *
98775263 TGTAAGACCATAGCTGGGCTATGGCATCG
1 TATAAGACCATATCTGGGATATGGCATCG
98775292 ATATATGAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
46 25 0.39
47 39 0.61
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACA
Found at i:98775319 original size:42 final size:43
Alignment explanation
Indices: 98775263--98775376 Score: 169
Period size: 42 Copynumber: 2.7 Consensus size: 43
98775253 ATGTGATTCA
*
98775263 TGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
*
98775305 TGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
* **
98775347 TGTAAGACCATAGTTGAACTATGGCATCGA
1 TGTAAGACCATAGCTGGGCTATGGCATCGA
98775377 GAAAACGAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
Found at i:98779823 original size:22 final size:22
Alignment explanation
Indices: 98779785--98779826 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
98779775 CTCTCACAAC
*
98779785 AATTCTCTGTAAATTCTTTCCA
1 AATTCTCTGCAAATTCTTTCCA
98779807 AATTCTCT-CAAATTTCTTTC
1 AATTCTCTGCAAA-TTCTTTC
98779827 AATTTTTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.26, C:0.24, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTCTCTGCAAATTCTTTCCA
Found at i:98780982 original size:7 final size:7
Alignment explanation
Indices: 98780970--98780995 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
98780960 TAATCGTTTT
98780970 GTATTTA
1 GTATTTA
98780977 GTATTTA
1 GTATTTA
98780984 GTATTTA
1 GTATTTA
98780991 GTATT
1 GTATT
98780996 ACCTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:98781593 original size:18 final size:18
Alignment explanation
Indices: 98781570--98781612 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
98781560 TACCAGGTGC
*
98781570 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
98781588 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
*
98781606 GTTTCCT
1 GTATCCT
98781613 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:98784781 original size:93 final size:93
Alignment explanation
Indices: 98784666--98784838 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
98784656 TGCCCATAAG
* *
98784666 CGAACTCGGACTCAAATCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAAATCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCA
98784731 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * * *
98784759 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAAATCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
98784824 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
98784839 CAAATATCCC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAAATCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:98784834 original size:46 final size:46
Alignment explanation
Indices: 98784659--98784834 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
98784649 TGTAACCTGC
* * * *
98784659 CCATAAGCGAACTCGGACTCAAATCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGTAT
* * * *
98784705 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGTAT
* * *
98784751 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGTAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGTAT
* *
98784798 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
98784835 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 70 0.65
47 33 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGTAT
Found at i:98784853 original size:46 final size:45
Alignment explanation
Indices: 98784710--98784853 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
98784700 CGCATCCATA
* * * * *
98784710 AGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ATATCCC
* * * * *
98784758 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GTATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCC--C
98784803 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AATATCCC
98784849 AGTGA
1 AGTGA
98784854 CATGTCACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 3 0.04
45 1 0.01
46 37 0.49
47 29 0.38
48 6 0.08
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCCC
Found at i:98788191 original size:126 final size:126
Alignment explanation
Indices: 98787963--98788645 Score: 974
Period size: 126 Copynumber: 5.4 Consensus size: 126
98787953 AGGCTTTTTC
* * **
98787963 AGATACTACAGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGAAAGTGCA
1 AGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGAAAGTGCA
* * * *
98788028 TCATCCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATCTTATT
66 TCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATT
*
98788089 AGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTAAAAGTGCA
1 AGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGAAAGTGCA
* *
98788154 TCCTTCTTAAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCACAAAATTATTTTATT
66 TCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATT
* * * *
98788215 AGATACCACTATAGCAAAAGAGCGTCCATGTGGGAGCTTTTTTCCGTAATTTTTCTGAAAGTGCA
1 AGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGAAAGTGCA
* ** * * *
98788280 TCATTCTTGAAGTATTTTTGACACTATTTGTTCAGAAACATCTTTTAAAAATTATTTTATC
66 TCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATT
* * * *
98788341 AGATACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCCATTATTTTACTGACAGAGTG
1 AGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGA-A-AGTG
*
98788406 CATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATC
64 CATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATT
* * * * * *
98788469 AAATATCACTATAGCAAAAGAGCGTCCACGTGTGAGCTTTTTTCCATTATTTTGCTGACAGTGCA
1 AGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGAAAGTGCA
* * * *
98788534 TCCTTCTTGAAGAG-TTTTGTACACTATTTGTTTAGAAACATCTTCTCAAATTTATTTT-TC
66 TCCTTCTTGAAGCGTTTTTG-ACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATT
* * *
98788594 AGATACTACTGTAGTAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTT
1 AGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTT
98788646 AATTAATAAA
Statistics
Matches: 500, Mismatches: 54, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
125 51 0.10
126 334 0.67
127 1 0.00
128 114 0.23
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (126 bp):
AGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGAAAGTGCA
TCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATT
Found at i:98788534 original size:254 final size:251
Alignment explanation
Indices: 98787974--98788645 Score: 1031
Period size: 254 Copynumber: 2.7 Consensus size: 251
98787964 GATACTACAG
* *
98787974 TAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGAAAGTGCATCATCCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAAAGTGCATCATTCTTGAA
* * * *
98788039 GCGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATCTTATTAGATACCACTGTAGC
66 G-ATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTATCAGATACTACTGTAGC
*
98788104 AAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTAAAAGTGCATCCTTCTTAAAGCGT
130 AAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTACTAAAAGTGCATCCTTCTTAAAGCGT
* *
98788169 TTTTGACACTATTTGTTCAGAAACATCTTCACAAAATTATTTTATTAGATACCACTA
195 TTTTGACACTATTTGTTCAGAAACATCTTCACAAAATTATTTTATCAAATACCACTA
* *
98788226 TAGCAAAAGAGCGTCCATGTGGGAGCTTTTTTCCGTAATTTTTCTGAAAGTGCATCATTCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAAAGTGCATCATTCTTGAA
* * *
98788291 GTATTTTTGACACTATTTGTTCAGAAACATCTTTTAAAAATTATTTTATCAGATACTACTGTAGC
66 G-ATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTATCAGATACTACTGTAGC
* * * *
98788356 AAAAGAGCGTCCACGTGAGAGCTTTTTTCCATTATTTTACTGACAGAGTGCATCCTTCTTGAAGC
130 AAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTACT-A-AAAGTGCATCCTTCTTAAAGC
* *
98788421 GTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATCAAATATCACTA
193 GTTTTTGACACTATTTGTTCAGAAACATCTTCACAAAATTATTTTATCAAATACCACTA
* * * * *
98788480 TAGCAAAAGAGCGTCCACGTGTGAGCTTTTTTCCATTATTTTGCTGACAGTGCATCCTTCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAAAGTGCATCATTCTTGAA
* * *
98788545 GAGTTTTGTACACTATTTGTTTAGAAACATCTTCTCAAATTTATTTT-TCAGATACTACTGTAGT
66 GATTTTTG-ACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTATCAGATACTACTGTAGC
*
98788609 AAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTT
130 AAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTT
98788646 AATTAATAAA
Statistics
Matches: 380, Mismatches: 37, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
252 156 0.41
253 57 0.15
254 167 0.44
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (251 bp):
TAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGAAAGTGCATCATTCTTGAA
GATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTATCAGATACTACTGTAGCA
AAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTACTAAAAGTGCATCCTTCTTAAAGCGTT
TTTGACACTATTTGTTCAGAAACATCTTCACAAAATTATTTTATCAAATACCACTA
Found at i:98788779 original size:17 final size:17
Alignment explanation
Indices: 98788757--98788812 Score: 78
Period size: 17 Copynumber: 3.3 Consensus size: 17
98788747 CCCTTAAAAA
*
98788757 CACTAAAAATCCTAAAC
1 CACTAAAAAACCTAAAC
*
98788774 CACTAAAAACCCTAAAC
1 CACTAAAAAACCTAAAC
98788791 CA-TAAAAAACTCTAAAC
1 CACTAAAAAAC-CTAAAC
98788808 CACTA
1 CACTA
98788813 TACCCTAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
16 7 0.20
17 26 0.74
18 2 0.06
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.16
Consensus pattern (17 bp):
CACTAAAAAACCTAAAC
Found at i:98788943 original size:17 final size:17
Alignment explanation
Indices: 98788921--98788978 Score: 82
Period size: 17 Copynumber: 3.4 Consensus size: 17
98788911 CCCTAAAAAA
98788921 CACTAAAAATCCTAAAC
1 CACTAAAAATCCTAAAC
98788938 CACTAAAAATCCTAAAC
1 CACTAAAAATCCTAAAC
*
98788955 CACCAAAAA-CTCTAAAC
1 CACTAAAAATC-CTAAAC
*
98788972 TACTAAA
1 CACTAAA
98788979 CCCTAAACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
16 1 0.03
17 36 0.97
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.17
Consensus pattern (17 bp):
CACTAAAAATCCTAAAC
Found at i:98788984 original size:15 final size:15
Alignment explanation
Indices: 98788961--98788999 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
98788951 AAACCACCAA
*
98788961 AAACTCTAAACTACT
1 AAACCCTAAACTACT
98788976 AAACCCTAAACTACT
1 AAACCCTAAACTACT
98788991 AAACCCTAA
1 AAACCCTAA
98789000 TTTAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (15 bp):
AAACCCTAAACTACT
Found at i:98789103 original size:166 final size:161
Alignment explanation
Indices: 98788668--98789290 Score: 805
Period size: 166 Copynumber: 3.8 Consensus size: 161
98788658 CTAAAAAACC
*
98788668 CTAAACCCTAATTTAATTAA--TTTTTATTTTCATAGTTAATTTAATTAATTAACCATCAACTCT
1 CTAAACCCTAATTTAATTAATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCT
** *
98788731 AA-T-TAAATTAGTTTTTCCCTT-AAAAACACTAAAAATCCTAAACCACTAAAAACCCTAAACCA
66 AAGTGTTCATTAATTTTTCCCTTAAAAAACACTAAAAATCCTAAACCACTAAAAACCCTAAACCA
*
98788793 TAAAAAACTCTAAACCACTATACCCTAAACTA
131 TAAAAAACTCTAAA-CACTAAACCCTAAACTA
* *
98788825 TTAAACCCTAATTTAATTGATTTTTTCTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACT
1 CTAAACCCTAATTTAATT-AATTTTT-TTATTTTCATAGTTAATTTAATTAATTAACCCTCAACT
* *
98788890 CTAAGTGTTCATTAATTTTTCCCCTAAAAAACACTAAAAATCCTAAACCACTAAAAATCCTAAAC
64 CTAAGTGTTCATTAATTTTTCCCTTAAAAAACACTAAAAATCCTAAACCACTAAAAACCCTAAAC
**
98788955 CACCAAAAACTCTAAACTACTAAACCCTAAACTA
129 CATAAAAAACTCTAAAC-ACTAAACCCTAAACTA
*
98788989 CTAAACCCTAATTTAATTAATTTTTTTTCTTATTTTTATAGTTAATTTAATTAATTAACCCTCAA
1 CTAAACCCTAATTTAATTAA---TTTTT-TTATTTTCATAGTTAATTTAATTAATTAACCCTCAA
* * *
98789054 CTCTAGGTGTTCATTAATTTTTCCCTTAAAAAACTCTAAAAACCCTAAACCCACT-AAAACCCT-
62 CTCTAAGTGTTCATTAATTTTTCCCTTAAAAAACACTAAAAATCCTAAA-CCACTAAAAACCCTA
* * * * **
98789117 AACCTTAAAACAA-TCAAAAACCCT-AACCTTAAAAAA
126 AACCATAAAA-AACTC-TAAACACTAAACCCTAAACTA
* * * *
98789153 CCATAAACCCTAATATAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCTTCAAAT
1 -C-TAAACCCTAATTTAATTAATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACT
* * *
98789218 CTAAGTGTTCGTTAAATTTTCCCTTAAAAAACACTAAAAATCCTAAACCGCTAAAAACCCTAAAC
64 CTAAGTGTTCATTAATTTTTCCCTTAAAAAACACTAAAAATCCTAAACCACTAAAAACCCTAAAC
98789283 CAGTAAAA
129 CA-TAAAA
98789291 CCTTAACCCT
Statistics
Matches: 408, Mismatches: 39, Indels: 31
0.85 0.08 0.06
Matches are distributed among these distances:
157 17 0.04
158 1 0.00
160 3 0.01
161 45 0.11
162 86 0.21
163 25 0.06
164 98 0.24
165 12 0.03
166 116 0.28
167 5 0.01
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (161 bp):
CTAAACCCTAATTTAATTAATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCT
AAGTGTTCATTAATTTTTCCCTTAAAAAACACTAAAAATCCTAAACCACTAAAAACCCTAAACCA
TAAAAAACTCTAAACACTAAACCCTAAACTA
Found at i:98789125 original size:23 final size:24
Alignment explanation
Indices: 98789109--98789165 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
98789099 TAAACCCACT
98789109 AAAACCCTAACCTTAAAACAATCA
1 AAAACCCTAACCTTAAAACAATCA
*
98789133 AAAACCCTAACCTTAAAA-AACCA
1 AAAACCCTAACCTTAAAACAATCA
*
98789156 TAAACCCTAA
1 AAAACCCTAA
98789166 TATAATTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.16
Consensus pattern (24 bp):
AAAACCCTAACCTTAAAACAATCA
Found at i:98789260 original size:328 final size:321
Alignment explanation
Indices: 98788668--98789284 Score: 863
Period size: 328 Copynumber: 1.9 Consensus size: 321
98788658 CTAAAAAACC
98788668 CTAAACCCTAATTTAATTAATTTTTATTTTCATAGTTAATTTAATTAATTAACCATCAACTCTAA
1 CTAAACCCTAATTTAATTAATTTTTATTTTCATAGTTAATTTAATTAATTAACCATCAACTCTAA
* *
98788733 TTAAATTAGTTTTTCCCTTAAAAACACTAAAAATCCTAAACCACTAAAAACCCTAAACCATAAAA
66 TTAAATTAATTTTTCCCTTAAAAACACTAAAAACCCTAAACCACTAAAAACCCTAAACCATAAAA
* * *
98788798 AACTCTAAACCACTATACCCTAAACTATTAAACCCTAATTTAATTGATTTTTTCTTATTTTCATA
131 AACTCAAAACCACTATACCCTAAACCATTAAACCCTAATATAATTGATTTTTTCTTATTTTCATA
* *
98788863 GTTAATTTAATTAATTAACCCTCAACTCTAAGTGTTCATTAATTTTTCCCCTAAAAAACACTAAA
196 GTTAATTTAATTAATTAACCCTCAAATCTAAGTGTTCATTAAATTTTCCCCTAAAAAACACTAAA
*
98788928 AATCCTAAACCACTAAAAATCCTAAACCACCAAAAACTCTAAACTACTAAACCCTAAACTA
261 AATCCTAAACCACTAAAAACCCTAAACCACCAAAAACTCTAAACTACTAAACCCTAAACTA
* *
98788989 CTAAACCCTAATTTAATTAATTTTTTTTCTTATTTTTATAGTTAATTTAATTAATTAACCCTCAA
1 CTAAACCCTAATTTAATTAA-----TTT-TTATTTTCATAGTTAATTTAATTAATTAACCATCAA
* ** *
98789054 CTCTAGGTGTTCATTAATTTTTCCCTTAAAAAACTCTAAAAACCCTAAACCCACT-AAAACCCT-
60 CTCTA-AT-TAAATTAATTTTTCCCTT-AAAAACACTAAAAACCCTAAA-CCACTAAAAACCCTA
* *
98789117 AACCTTAAAACAA-TCAAAAACC-CTA-ACCTTAAAAAACCA-TAAACCCTAATATAATTGA-TT
121 AACCATAAAA-AACTC-AAAACCACTATACCCT---AAACCATTAAACCCTAATATAATTGATTT
* *
98789177 TTT-TTATTTTCATAGTTAATTTAATTAATTAACCTTCAAATCTAAGTGTTCGTTAAATTTTCCC
181 TTTCTTATTTTCATAGTTAATTTAATTAATTAACCCTCAAATCTAAGTGTTCATTAAATTTTCCC
* *
98789241 TTAAAAAACACTAAAAATCCTAAACCGCTAAAAACCCTAAACCA
246 CTAAAAAACACTAAAAATCCTAAACCACTAAAAACCCTAAACCA
98789285 GTAAAACCTT
Statistics
Matches: 261, Mismatches: 20, Indels: 23
0.86 0.07 0.08
Matches are distributed among these distances:
321 20 0.08
326 3 0.01
327 39 0.15
328 103 0.39
329 34 0.13
330 52 0.20
331 10 0.04
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.35
Consensus pattern (321 bp):
CTAAACCCTAATTTAATTAATTTTTATTTTCATAGTTAATTTAATTAATTAACCATCAACTCTAA
TTAAATTAATTTTTCCCTTAAAAACACTAAAAACCCTAAACCACTAAAAACCCTAAACCATAAAA
AACTCAAAACCACTATACCCTAAACCATTAAACCCTAATATAATTGATTTTTTCTTATTTTCATA
GTTAATTTAATTAATTAACCCTCAAATCTAAGTGTTCATTAAATTTTCCCCTAAAAAACACTAAA
AATCCTAAACCACTAAAAACCCTAAACCACCAAAAACTCTAAACTACTAAACCCTAAACTA
Found at i:98789290 original size:17 final size:17
Alignment explanation
Indices: 98789251--98789283 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
98789241 TTAAAAAACA
*
98789251 CTAAAAATCCTAAACCG
1 CTAAAAACCCTAAACCG
98789268 CTAAAAACCCTAAACC
1 CTAAAAACCCTAAACC
98789284 AGTAAAACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.33, G:0.03, T:0.15
Consensus pattern (17 bp):
CTAAAAACCCTAAACCG
Found at i:98789815 original size:3 final size:3
Alignment explanation
Indices: 98789755--98789800 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
98789745 TGGAAACCTA
98789755 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
98789801 CCTTTTGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:98794824 original size:16 final size:17
Alignment explanation
Indices: 98794793--98794825 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
98794783 TTCATAAGTA
98794793 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
98794810 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
98794826 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:98795210 original size:46 final size:46
Alignment explanation
Indices: 98795112--98795212 Score: 134
Period size: 46 Copynumber: 2.2 Consensus size: 46
98795102 TTTGACATGA
* * *
98795112 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTCTGTCACGT
*
98795158 TGCCATGGTGTCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGCT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTC-TGTCACG-T
98795205 T-CCATGGT
1 TGCCATGGT
98795213 CTTATTCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
45 4 0.08
46 43 0.88
47 2 0.04
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (46 bp):
TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTCTGTCACGT
Found at i:98795258 original size:76 final size:76
Alignment explanation
Indices: 98795132--98795288 Score: 253
Period size: 76 Copynumber: 2.1 Consensus size: 76
98795122 TCTTTCAACT
* * *
98795132 ATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTGTCTTTCAACCATGGTCTTATTCATTTCAT
1 ATGGTCTTACTCATTTCCTGTCATGTTGCCATGATATCTTTCAACCATGGTCTTATTCATTTCAT
*
98795197 GTCACGCTT-CC
66 ATCACG-TTGCC
*
98795208 ATGGTCTTATTCATTTCCTGTCATGTTGCCATGATATCTTTCAACCATGGTCTTATTCATTTCAT
1 ATGGTCTTACTCATTTCCTGTCATGTTGCCATGATATCTTTCAACCATGGTCTTATTCATTTCAT
98795273 ATCACGTTGCC
66 ATCACGTTGCC
98795284 ATGGT
1 ATGGT
98795289 ATCTTTCAAC
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
75 2 0.03
76 73 0.97
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (76 bp):
ATGGTCTTACTCATTTCCTGTCATGTTGCCATGATATCTTTCAACCATGGTCTTATTCATTTCAT
ATCACGTTGCC
Found at i:98795369 original size:46 final size:46
Alignment explanation
Indices: 98795206--98795369 Score: 247
Period size: 46 Copynumber: 3.6 Consensus size: 46
98795196 TGTCACGCTT
** * * * *
98795206 CCATGGTCTTATTCATTTCCTGTCATGTTGCCATGATATCTTTCAA
1 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
** *
98795252 CCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
98795298 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
98795344 CCATGGTCTTACACATTTCATATCAG
1 CCATGGTCTTACACATTTCATATCAG
98795370 AGAGCACACT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 111 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (46 bp):
CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
Found at i:98799022 original size:26 final size:26
Alignment explanation
Indices: 98798986--98799040 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
98798976 GGAATCTCAC
*
98798986 ATTGTCTAGGAACAAGCTGCAAAATT
1 ATTGTCTAGGAACAAGCTGCAAAACT
98799012 ATTGTCTAGGAACAAGCTGCAAAACT
1 ATTGTCTAGGAACAAGCTGCAAAACT
98799038 ATT
1 ATT
98799041 CATGAGTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.27
Consensus pattern (26 bp):
ATTGTCTAGGAACAAGCTGCAAAACT
Found at i:98811498 original size:24 final size:24
Alignment explanation
Indices: 98811466--98811511 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
98811456 TGATTTAACT
*
98811466 TAATCGAACATGTTCATGAACATA
1 TAATCGAACATGTTCACGAACATA
*
98811490 TAATTGAACATGTTCACGAACA
1 TAATCGAACATGTTCACGAACA
98811512 ATGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (24 bp):
TAATCGAACATGTTCACGAACATA
Found at i:98811718 original size:24 final size:24
Alignment explanation
Indices: 98811691--98811748 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
98811681 TCATTAATAA
* *
98811691 ATAAACGAGTCAATAAACAAACTT
1 ATAAACAAGCCAATAAACAAACTT
*
98811715 ATAAACAAGCCAATAAATAAACTT
1 ATAAACAAGCCAATAAACAAACTT
*
98811739 TTAAACAAGC
1 ATAAACAAGC
98811749 TTGTTCGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (24 bp):
ATAAACAAGCCAATAAACAAACTT
Found at i:98814756 original size:13 final size:14
Alignment explanation
Indices: 98814721--98814771 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 14
98814711 TAAAAAATAG
*
98814721 AAATTAAAAAC-CA
1 AAATAAAAAACACA
98814734 AAA-AATAAAACA-A
1 AAATAA-AAAACACA
98814747 AAATAAAAAACACA
1 AAATAAAAAACACA
98814761 CAAATAAAAAA
1 -AAATAAAAAA
98814772 ATTCAAATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
12 1 0.03
13 18 0.56
14 3 0.09
15 10 0.31
ACGTcount: A:0.78, C:0.12, G:0.00, T:0.10
Consensus pattern (14 bp):
AAATAAAAAACACA
Found at i:98829164 original size:17 final size:17
Alignment explanation
Indices: 98829142--98829174 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
98829132 TGCAGGAGTT
98829142 CTATAA-AAATAATTTTG
1 CTATAATAAA-AATTTTG
98829159 CTATAATAAAAATTTT
1 CTATAATAAAAATTTT
98829175 AAATTAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
CTATAATAAAAATTTTG
Found at i:98837395 original size:17 final size:17
Alignment explanation
Indices: 98837373--98837413 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
98837363 TATTTTCTTT
98837373 CAAAGTTAACTAATAGA
1 CAAAGTTAACTAATAGA
**
98837390 CAAAGTTGGCTAATAGA
1 CAAAGTTAACTAATAGA
*
98837407 TAAAGTT
1 CAAAGTT
98837414 GGAGAAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (17 bp):
CAAAGTTAACTAATAGA
Found at i:98837414 original size:17 final size:17
Alignment explanation
Indices: 98837382--98837415 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
98837372 TCAAAGTTAA
98837382 CTAATAGACAAAGTTGG
1 CTAATAGACAAAGTTGG
*
98837399 CTAATAGATAAAGTTGG
1 CTAATAGACAAAGTTGG
98837416 AGAAGAAAAG
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:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (17 bp):
CTAATAGACAAAGTTGG
Found at i:98844052 original size:50 final size:50
Alignment explanation
Indices: 98843977--98844076 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
98843967 ACACGGTTCA
*
98843977 GGGCTTTTTACACAGTCCAGTCACACGACCACGTGTCCCTATAAGAATTT
1 GGGCTTTCTACACAGTCCAGTCACACGACCACGTGTCCCTATAAGAATTT
*
98844027 GGGCTTTCTACACAGTCCGGTCACACGACCACGTGTCCCTATAAGAATTT
1 GGGCTTTCTACACAGTCCAGTCACACGACCACGTGTCCCTATAAGAATTT
98844077 ATAATTTTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (50 bp):
GGGCTTTCTACACAGTCCAGTCACACGACCACGTGTCCCTATAAGAATTT
Found at i:98847633 original size:90 final size:91
Alignment explanation
Indices: 98847471--98847649 Score: 222
Period size: 90 Copynumber: 2.0 Consensus size: 91
98847461 AATGTTACAT
* * *
98847471 ATTATCTGGCAACTATTATTTACAATATTGTATTGTATTTACAACCATCTGGTAGTGTTTTAACT
1 ATTATCTGGCAACTATTATTTACAATATTGTATTGTATTCACAACCATCTGGTAGCGTATTAACT
* * *
98847536 TGCAACA-TTGGTGGTTCGTCCACCC
66 AGCAACATTTGATGGTTCATCCACCC
* * *
98847561 ATTATCTGGCAACTTTTATTTGCAAT-TATGT-TGTGTATTCACAACCATTTGGTAGCGTATTAA
1 ATTATCTGGCAACTATTATTTACAATAT-TGTAT-TGTATTCACAACCATCTGGTAGCGTATTAA
98847624 CCTAG-AACATTTGATGGTTCATCCAC
64 -CTAGCAACATTTGATGGTTCATCCAC
98847650 AACTCGATGT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
89 2 0.03
90 57 0.75
91 17 0.22
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (91 bp):
ATTATCTGGCAACTATTATTTACAATATTGTATTGTATTCACAACCATCTGGTAGCGTATTAACT
AGCAACATTTGATGGTTCATCCACCC
Found at i:98848924 original size:3 final size:3
Alignment explanation
Indices: 98848918--98848952 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
98848908 AATAATAATA
98848918 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
98848953 TAAGAAGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:98849349 original size:13 final size:11
Alignment explanation
Indices: 98849321--98849363 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
98849311 AGTTAAATAT
98849321 TATTTTATTAA
1 TATTTTATTAA
98849332 TATTTTCATTAGA
1 TATTTT-ATTA-A
*
98849345 TA-TTTATTAT
1 TATTTTATTAA
98849355 TATTTTATT
1 TATTTTATT
98849364 TAGAAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:98849546 original size:16 final size:16
Alignment explanation
Indices: 98849525--98849579 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
98849515 GTTTGGTTCA
*
98849525 CTGTAATGAAATAGGG
1 CTGTAATGAAATAGAG
98849541 CTGTAATTG-AATAGAG
1 CTGTAA-TGAAATAGAG
*
98849557 CTATAATGGAAA-AGAG
1 CTGTAAT-GAAATAGAG
98849573 CTGTAAT
1 CTGTAAT
98849580 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.03
16 28 0.85
17 4 0.12
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.27
Consensus pattern (16 bp):
CTGTAATGAAATAGAG
Found at i:98849649 original size:44 final size:46
Alignment explanation
Indices: 98849561--98849653 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
98849551 ATAGAGCTAT
*
98849561 AATGGAAAAGAGCTGTAATCAGTAATTCAGCTGTTTGGTTGAATGG
1 AATGGAAAAGAACTGTAATCAGTAATTCAGCTGTTTGGTTGAATGG
* *
98849607 AATGGAATAGAACTGTAAT-AGT-ATTCTTG-TGTTTGGTTGAATGG
1 AATGGAAAAGAACTGTAATCAGTAATTC-AGCTGTTTGGTTGAATGG
98849651 AAT
1 AAT
98849654 AATGTTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 22 0.51
45 4 0.09
46 17 0.40
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.34
Consensus pattern (46 bp):
AATGGAAAAGAACTGTAATCAGTAATTCAGCTGTTTGGTTGAATGG
Found at i:98849834 original size:17 final size:17
Alignment explanation
Indices: 98849824--98849856 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
98849814 ATTTATTATT
98849824 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
*
98849841 AAATATAATTCAATAA
1 AAATATAATTTAATAA
98849857 CATTCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:98849880 original size:58 final size:58
Alignment explanation
Indices: 98849757--98849878 Score: 139
Period size: 58 Copynumber: 2.2 Consensus size: 58
98849747 TTTTAATAAG
* * *
98849757 ATTATTATTGAAAATAATTTAATAAAAATAATAAATAATTTAATCATATTTTAACATAT
1 ATTATTATTGAAAATAATTTAATAAAAATAAT-AATAATTCAATAACATTTTAACATAT
*
98849816 -TTATTATT-AAATATAATTTAAT-AAAA-AAT-ATAATTCAATAACATTCTTAATATA-
1 ATTATTATTGAAA-ATAATTTAATAAAAATAATAATAATTCAATAACATT-TTAACATAT
98849870 ATTATTATT
1 ATTATTATT
98849879 ATATGAATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
54 13 0.23
55 15 0.27
56 3 0.05
57 7 0.12
58 18 0.32
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (58 bp):
ATTATTATTGAAAATAATTTAATAAAAATAATAATAATTCAATAACATTTTAACATAT
Found at i:98858766 original size:3 final size:3
Alignment explanation
Indices: 98858758--98858830 Score: 137
Period size: 3 Copynumber: 24.0 Consensus size: 3
98858748 TCCTCATTCA
98858758 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
98858806 ATT ATT ATT ATT ATT ATT ATCT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT
98858831 TATTCTGTTG
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 66 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:98859952 original size:253 final size:253
Alignment explanation
Indices: 98859504--98859988 Score: 916
Period size: 253 Copynumber: 1.9 Consensus size: 253
98859494 TTTGACTTAC
98859504 AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACCAG
1 AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACCAG
*
98859569 CCACATATTCTACTTAGCTTATTTCATTGCTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
66 CCACATATTCTACTTAGCTTATTTCATTACTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
98859634 AGAGTCCCATCTGTCTAGGCCCTTATGTAACTCATCTCGCTCGACACTTCGATCTTCTCGACACA
131 AGAGTCCCATCTGTCTAGGCCCTTATGTAACTCATCTCGCTCGACACTTCGATCTTCTCGACACA
*
98859699 CCGGAGCAGTCATTGACACTTACCCTCGTCGGCCAGAGCACATGAGTTGTGAGCATGG
196 CCGAAGCAGTCATTGACACTTACCCTCGTCGGCCAGAGCACATGAGTTGTGAGCATGG
*
98859757 AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACTAG
1 AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACCAG
* *
98859822 CCATATATTTTACTTAGCTTATTTCATTACTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
66 CCACATATTCTACTTAGCTTATTTCATTACTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
*
98859887 AGAGTCCCATCTGTCTAGGCCCTTATGTAACTCATCTCGCTTGACACTTCGATCTTCTCGACACA
131 AGAGTCCCATCTGTCTAGGCCCTTATGTAACTCATCTCGCTCGACACTTCGATCTTCTCGACACA
98859952 CCGAAGCAGTCATTGACACTTACCCTCGTCGGCCAGA
196 CCGAAGCAGTCATTGACACTTACCCTCGTCGGCCAGA
98859989 TACCCCCTCA
Statistics
Matches: 226, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
253 226 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (253 bp):
AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACCAG
CCACATATTCTACTTAGCTTATTTCATTACTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
AGAGTCCCATCTGTCTAGGCCCTTATGTAACTCATCTCGCTCGACACTTCGATCTTCTCGACACA
CCGAAGCAGTCATTGACACTTACCCTCGTCGGCCAGAGCACATGAGTTGTGAGCATGG
Found at i:98860399 original size:18 final size:18
Alignment explanation
Indices: 98860348--98860424 Score: 77
Period size: 18 Copynumber: 4.4 Consensus size: 18
98860338 CTATTGAGTC
* *
98860348 TATTTATCTTTGTTTTTT
1 TATTTATCTTTATTTTTA
*
98860366 TGTTT-T-TTTATTTTTA
1 TATTTATCTTTATTTTTA
* *
98860382 TCTTTATCTTTATCTTTA
1 TATTTATCTTTATTTTTA
* *
98860400 TTTTTATTTTTATTTTTA
1 TATTTATCTTTATTTTTA
98860418 TATTTAT
1 TATTTAT
98860425 TTTTTTATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
16 12 0.25
17 2 0.04
18 34 0.71
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.77
Consensus pattern (18 bp):
TATTTATCTTTATTTTTA
Found at i:98860435 original size:6 final size:6
Alignment explanation
Indices: 98860370--98860428 Score: 82
Period size: 6 Copynumber: 9.8 Consensus size: 6
98860360 TTTTTTTGTT
* * *
98860370 TTTTTA TTTTTA TCTTTA TCTTTA TCTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
98860418 TATTTA TTTTT
1 TTTTTA TTTTT
98860429 TTATTTTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:98861405 original size:4 final size:4
Alignment explanation
Indices: 98861398--98861422 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
98861388 AAAAGTGAAA
98861398 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
98861423 CATATATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:98863577 original size:80 final size:79
Alignment explanation
Indices: 98863428--98863657 Score: 370
Period size: 80 Copynumber: 2.9 Consensus size: 79
98863418 AAAATTTTTA
*
98863428 AGATTCTAGAGAATATGCTCATCAATTTAGAAGCAAGAAAATAGTAGATGAAAGTGGACAAAATG
1 AGATTCTAGAGAATATGCTCATCAATTTAGAAGCAAGAAAATAGTAGATGAAAGTGGAAAAAATG
98863493 AGAAGATGAAGTAG
66 AGAAGATGAAGTAG
* * **
98863507 AGATTTTAGAGAACATGCTCATCAATTTAGAAGCAAAGAAAATAGTAGATGAAAGTGGGGAAAAT
1 AGATTCTAGAGAATATGCTCATCAATTTAGAAGC-AAGAAAATAGTAGATGAAAGTGGAAAAAAT
98863572 GAGAAGATGAAGTAG
65 GAGAAGATGAAGTAG
* * **
98863587 AGATTCTAGAGAATATGCTCATCAATTTAGAAACAAGAAAATGGTATTTGAAAGTGGAAAAAATG
1 AGATTCTAGAGAATATGCTCATCAATTTAGAAGCAAGAAAATAGTAGATGAAAGTGGAAAAAATG
98863652 AGAAGA
66 AGAAGA
98863658 AAAAAATGAA
Statistics
Matches: 138, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
79 64 0.46
80 74 0.54
ACGTcount: A:0.47, C:0.07, G:0.24, T:0.22
Consensus pattern (79 bp):
AGATTCTAGAGAATATGCTCATCAATTTAGAAGCAAGAAAATAGTAGATGAAAGTGGAAAAAATG
AGAAGATGAAGTAG
Found at i:98864245 original size:19 final size:20
Alignment explanation
Indices: 98864209--98864246 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
98864199 CACGAATAGT
98864209 AGGGAAAGAAAGAAGAAAAA
1 AGGGAAAGAAAGAAGAAAAA
98864229 AGGGAAAGAAA-AAGAAAA
1 AGGGAAAGAAAGAAGAAAA
98864247 GGAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
AGGGAAAGAAAGAAGAAAAA
Found at i:98868263 original size:57 final size:57
Alignment explanation
Indices: 98868194--98868308 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
98868184 CGGGATAGTC
98868194 ATAACTTTCAATTCCTAGCTTTGGATTAAAATTCATTTTCATATATTCTCATTACGG
1 ATAACTTTCAATTCCTAGCTTTGGATTAAAATTCATTTTCATATATTCTCATTACGG
*
98868251 ATAACTTTCAATTCCTTGCTTTGGATTAAAATTCATTTTCATATATTCTCATTACGG
1 ATAACTTTCAATTCCTAGCTTTGGATTAAAATTCATTTTCATATATTCTCATTACGG
98868308 A
1 A
98868309 CCTATACTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (57 bp):
ATAACTTTCAATTCCTAGCTTTGGATTAAAATTCATTTTCATATATTCTCATTACGG
Found at i:98869730 original size:3 final size:3
Alignment explanation
Indices: 98869722--98869752 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
98869712 AATAACTTAA
98869722 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
98869753 ACAAATTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:98870955 original size:19 final size:19
Alignment explanation
Indices: 98870927--98871004 Score: 61
Period size: 19 Copynumber: 4.1 Consensus size: 19
98870917 TGAAAACAAT
98870927 AGAAATATTATAAAATTTTA
1 AGAAA-ATTATAAAATTTTA
** *
98870947 AGAAAATTATAAAAAATTG
1 AGAAAATTATAAAATTTTA
* *
98870966 AG-AATTTATAAAATTTATT
1 AGAAAATTATAAAATTT-TA
*
98870985 A-AATATTATAAAATATTTA
1 AGAAAATTATAAAAT-TTTA
98871004 A
1 A
98871005 ATATATTAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
18 11 0.24
19 27 0.60
20 7 0.16
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
AGAAAATTATAAAATTTTA
Found at i:98870980 original size:9 final size:10
Alignment explanation
Indices: 98870929--98871025 Score: 75
Period size: 10 Copynumber: 10.3 Consensus size: 10
98870919 AAAACAATAG
98870929 AAATATTATA
1 AAATATTATA
98870939 AAAT-TT-TA
1 AAATATTATA
*
98870947 AGAAAATTATA
1 A-AATATTATA
* *
98870958 AAAAATT-GA
1 AAATATTATA
*
98870967 GAAT-TTATA
1 AAATATTATA
*
98870976 AAAT-TTATT
1 AAATATTATA
98870985 AAATATTATA
1 AAATATTATA
98870995 AAATATT-TA
1 AAATATTATA
98871004 AATATATTA-A
1 AA-ATATTATA
98871014 AAA-ATTATA
1 AAATATTATA
98871023 AAA
1 AAA
98871026 GGAATTATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
8 9 0.13
9 28 0.39
10 31 0.44
11 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
AAATATTATA
Found at i:98871429 original size:19 final size:18
Alignment explanation
Indices: 98871402--98871455 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
98871392 AGAAATTATT
*
98871402 AAAATATTATAAAAATGTA
1 AAAAAATTATAAAAAT-TA
98871421 AAAAAATTATAGAAAATTA
1 AAAAAATTATA-AAAATTA
* * *
98871440 TATAAATTATTAAAAT
1 AAAAAATTATAAAAAT
98871456 ATTAGAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 5 0.17
19 20 0.67
20 5 0.17
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
AAAAAATTATAAAAATTA
Found at i:98871436 original size:10 final size:9
Alignment explanation
Indices: 98871394--98871455 Score: 61
Period size: 10 Copynumber: 6.4 Consensus size: 9
98871384 AAGCTTTTAG
98871394 AAATTATTAA
1 AAATTA-TAA
98871404 AATATTATAA
1 AA-ATTATAA
*
98871414 AAATGTAAAA
1 AAAT-TATAA
98871424 AAATTATAGA
1 AAATTATA-A
*
98871434 AAATTATAT
1 AAATTATAA
*
98871443 AAATTATTA
1 AAATTATAA
98871452 AAAT
1 AAAT
98871456 ATTAGAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
9 16 0.36
10 24 0.55
11 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (9 bp):
AAATTATAA
Found at i:98879315 original size:15 final size:16
Alignment explanation
Indices: 98879290--98879319 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
98879280 TTATTTATAA
98879290 TAAATTTTAAAAAATT
1 TAAATTTTAAAAAATT
98879306 TAAA-TTTAAAAAAT
1 TAAATTTTAAAAAAT
98879320 GGTCACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAATTTTAAAAAATT
Found at i:98883822 original size:32 final size:33
Alignment explanation
Indices: 98883786--98883853 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 33
98883776 TTAACTCGGT
98883786 TTAGCTTAATCTACTTAGCTC-GAGGGGTTGAA
1 TTAGCTTAATCTACTTAGCTCGGAGGGGTTGAA
*
98883818 TTAGCTTAATCTACTTAGCTCGGGGGGGGTTGAA
1 TTAGCTTAATCTACTTAGCTC-GGAGGGGTTGAA
98883852 TT
1 TT
98883854 GTAAACTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 21 0.64
34 12 0.36
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (33 bp):
TTAGCTTAATCTACTTAGCTCGGAGGGGTTGAA
Found at i:98889176 original size:48 final size:49
Alignment explanation
Indices: 98889120--98889212 Score: 161
Period size: 48 Copynumber: 1.9 Consensus size: 49
98889110 AAAAGAATTG
*
98889120 TTTTCAAAAAATCTGGATGATTTGAGAAAG-ATGTAGTTTACTAAACTA
1 TTTTCAAAAAATCTGGATGATTTGAGAAAGTATGTAGTTCACTAAACTA
*
98889168 TTTTCAAAAAATCTGGATGATTTGAGAAAGTATGTGGTTCACTAA
1 TTTTCAAAAAATCTGGATGATTTGAGAAAGTATGTAGTTCACTAA
98889213 GTCTCCGGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
48 30 0.71
49 12 0.29
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (49 bp):
TTTTCAAAAAATCTGGATGATTTGAGAAAGTATGTAGTTCACTAAACTA
Found at i:98892758 original size:26 final size:26
Alignment explanation
Indices: 98892728--98892835 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
98892718 TGAAATTCCC
*
98892728 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
98892754 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
98892780 ATCATGAAACATTTACCTAGCCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
98892806 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
98892832 ATCA
1 ATCA
98892836 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:98895766 original size:25 final size:25
Alignment explanation
Indices: 98895738--98895789 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
98895728 AAATAAATCA
*
98895738 TCAATCCTTGGCAAAGGGTATTTGT
1 TCAATCCTTGGCAAAGGGTATCTGT
*
98895763 TCAATCCTTGGCAGAGGGTATCTGT
1 TCAATCCTTGGCAAAGGGTATCTGT
98895788 TC
1 TC
98895790 TTTATCGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (25 bp):
TCAATCCTTGGCAAAGGGTATCTGT
Found at i:98899303 original size:27 final size:26
Alignment explanation
Indices: 98899266--98899318 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
98899256 CACCACTGAA
* *
98899266 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
98899292 TCGGAGGAATCAGCACATAGCAACCCC
1 TCGG-GGAATCAGCACATAGCAACCCC
98899319 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.30, C:0.34, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:98899465 original size:77 final size:71
Alignment explanation
Indices: 98899278--98899466 Score: 229
Period size: 71 Copynumber: 2.6 Consensus size: 71
98899268 GGGGAATCAT
* *
98899278 CACTTAGCAACCCCT-CGGAGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCCGG-GGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATG
98899342 GATATCG
65 GATATCG
* ***
98899349 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
98899414 GATATCG
65 GATATCG
*
98899421 CACTTAGC-ACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCC
1 CACTTAGCAACC-CC--T---CCGGGGAATCAGCACATAGCAACCCC
98899467 TCGGGGGAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
71 44 0.43
72 33 0.32
74 1 0.01
77 24 0.24
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (71 bp):
CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:98899470 original size:104 final size:104
Alignment explanation
Indices: 98899348--98899571 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
98899338 AATGGATATC
98899348 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
98899413 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
98899452 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
98899517 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
98899556 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
98899572 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:98901279 original size:26 final size:26
Alignment explanation
Indices: 98901249--98901304 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
98901239 TGAAATTCCC
98901249 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
98901275 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
98901301 ATCA
1 ATCA
98901305 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:98912906 original size:21 final size:21
Alignment explanation
Indices: 98912863--98912902 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
98912853 TATATATGAT
*
98912863 AAAATAGTTAAATATAAAATA
1 AAAATAATTAAATATAAAATA
*
98912884 AAAATAATT-AATATTAAAT
1 AAAATAATTAAATATAAAAT
98912903 TAAATTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAATAATTAAATATAAAATA
Found at i:98916875 original size:46 final size:44
Alignment explanation
Indices: 98916775--98916882 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
98916765 TGTCTTTGAC
* * * * *
98916775 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGACTCAATCCTATCTCCAAAGCCATATATAAT
* *
98916819 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGACTCAATCCTATCTCCAAAGCCATA--TATAAT
98916865 ATGGACTTACATGACTCA
1 ATGGACTTACATGACTCA
98916883 TTTCTGTTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 32 0.59
46 22 0.41
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGACTCAATCCTATCTCCAAAGCCATATATAAT
Found at i:98919837 original size:47 final size:46
Alignment explanation
Indices: 98919763--98919859 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 46
98919753 TATCCATGTG
* * *
98919763 ACAAAAAATGACGTTGTAATGAGCCTAAATTTATTA-AGGAATTTTA
1 ACAAAAAATGACATTGTAATGAGCCTAAATTTAATAGA-GAATTTAA
*
98919809 ACAAAAATATGACATTGTAATG-GACCTAAGTTTAATAGAGAATTTAA
1 ACAAAAA-ATGACATTGTAATGAG-CCTAAATTTAATAGAGAATTTAA
98919856 ACAA
1 ACAA
98919860 TGTTAACAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
46 8 0.18
47 35 0.80
48 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.30
Consensus pattern (46 bp):
ACAAAAAATGACATTGTAATGAGCCTAAATTTAATAGAGAATTTAA
Found at i:98920706 original size:62 final size:63
Alignment explanation
Indices: 98920609--98920736 Score: 240
Period size: 62 Copynumber: 2.0 Consensus size: 63
98920599 AAAAAAAAGA
*
98920609 CATGGATTTTGTTTCCTCTTCAACTCCAATTAGAACTTTTCTTTCCTATCCCTA-TTTTTTCT
1 CATGGATTTTGTTTCCTCTTCAACTCCAATTAGAACTTTTCTTCCCTATCCCTATTTTTTTCT
98920671 CATGGATTTTGTTTCCTCTTCAACTCCAATTAGAACTTTTCTTCCCTATCCCTATTTTTTTCT
1 CATGGATTTTGTTTCCTCTTCAACTCCAATTAGAACTTTTCTTCCCTATCCCTATTTTTTTCT
98920734 CAT
1 CAT
98920737 ATTTCTTTCC
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 53 0.83
63 11 0.17
ACGTcount: A:0.18, C:0.27, G:0.06, T:0.49
Consensus pattern (63 bp):
CATGGATTTTGTTTCCTCTTCAACTCCAATTAGAACTTTTCTTCCCTATCCCTATTTTTTTCT
Found at i:98920768 original size:29 final size:30
Alignment explanation
Indices: 98920708--98920776 Score: 122
Period size: 29 Copynumber: 2.3 Consensus size: 30
98920698 AATTAGAACT
*
98920708 TTTCTTCCCTATCCCTATTTTTTTCTCATA
1 TTTCTTTCCTATCCCTATTTTTTTCTCATA
98920738 TTTCTTTCCTATCCCTA-TTTTTTCTCATA
1 TTTCTTTCCTATCCCTATTTTTTTCTCATA
98920767 TTTCTTTCCT
1 TTTCTTTCCT
98920777 TTCCTCTCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 22 0.58
30 16 0.42
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTCTTTCCTATCCCTATTTTTTTCTCATA
Found at i:98922032 original size:102 final size:101
Alignment explanation
Indices: 98921851--98922033 Score: 267
Period size: 102 Copynumber: 1.8 Consensus size: 101
98921841 TGCAACATTG
* * * *
98921851 GTGGTTCATCCACAAATTACTGGTAGCTTTTATCTGCAAATCTGTTGTGCATCCACAACCTACTG
1 GTGGTTCATCCACAAACTACTGGGAGCTATTATCTGCAAATATGTTGTGCATCCACAACCTACTG
**** *
98921916 GTGGTTTGTTTGCAAACCGTTTAACTAGAAATACTA
66 GCAACTTGTCTGCAAACCGTTTAACTAGAAATACTA
*
98921952 GTGGTTCATCCACAAACTACTGGGAGCCTATTATCTGTAAATATGTTGTGCATCCACAACCTACT
1 GTGGTTCATCCACAAACTACTGGGAG-CTATTATCTGCAAATATGTTGTGCATCCACAACCTACT
98922017 GGCAACTTGTCTGCAAA
65 GGCAACTTGTCTGCAAA
98922034 TACTAGTGGT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
101 24 0.34
102 47 0.66
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (101 bp):
GTGGTTCATCCACAAACTACTGGGAGCTATTATCTGCAAATATGTTGTGCATCCACAACCTACTG
GCAACTTGTCTGCAAACCGTTTAACTAGAAATACTA
Found at i:98927922 original size:29 final size:30
Alignment explanation
Indices: 98927863--98927920 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
98927853 TCCGAGCCTT
*
98927863 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
98927893 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
98927921 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:98928150 original size:13 final size:13
Alignment explanation
Indices: 98928132--98928163 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
98928122 TTTCCAGCAA
98928132 TTATGAATTTATT
1 TTATGAATTTATT
98928145 TTATGAATTTATT
1 TTATGAATTTATT
*
98928158 TGATGA
1 TTATGA
98928164 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:98928370 original size:50 final size:50
Alignment explanation
Indices: 98928264--98928498 Score: 292
Period size: 50 Copynumber: 4.6 Consensus size: 50
98928254 GTAAAGAGAT
* *
98928264 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--GAGAGGTC
*
98928320 CCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGGTC
* * *
98928370 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGGTC
* * * **
98928420 CCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AGGTC
98928471 CCATGTAAGACCATGTCTGGGACATGGC
1 CCATGTAAGACCATGTCTGGGACATGGC
98928499 TTTGGCATGT
Statistics
Matches: 160, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.57
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 33 0.21
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGGTC
Found at i:98928444 original size:100 final size:104
Alignment explanation
Indices: 98928264--98928506 Score: 352
Period size: 100 Copynumber: 2.3 Consensus size: 104
98928254 GTAAAGAGAT
*
98928264 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGTAAG
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCCCTATAAG
* **
98928329 ACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AGGTC
63 ACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAACATC
* *
98928370 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTATAAGACC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAGACC
98928432 ATGTCTGGGACATGGCATGGGCACCATCACGAGAACATC
66 ATGTCTGGGACATGGCATGGGCACCATCACGAGAACATC
*
98928471 CCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
98928507 GTTATTATCA
Statistics
Matches: 127, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.40
101 39 0.31
105 2 0.02
106 34 0.27
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (104 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAGACC
ATGTCTGGGACATGGCATGGGCACCATCACGAGAACATC
Found at i:98937046 original size:85 final size:86
Alignment explanation
Indices: 98936938--98937113 Score: 221
Period size: 85 Copynumber: 2.1 Consensus size: 86
98936928 GTTTCATCTA
* * * *
98936938 CAAATAGTGTGGTTCGATTATGAAACAAGTGACATTTTATTTAATCTGCAAAAATGTTGTGCACT
1 CAAATAGTGTGGTTCGATCATGAAACAAGTGACAATTTATTTAATCTACAAAAATGTTGTGCACC
* * *
98937003 CATAACAAGTGGCAATAACTG
66 CACAACAAGTGACAACAACTG
* * * *
98937024 CAAATA-TGTGGTTC-AGTCATGAACCAAGTGGCAATTTGTTTAATCTACAAATATGTTGTGCAC
1 CAAATAGTGTGGTTCGA-TCATGAAACAAGTGACAATTTATTTAATCTACAAAAATGTTGTGCAC
98937087 CCACAACAAGTGACAACAACTG
65 CCACAACAAGTGACAACAACTG
*
98937109 TAAAT
1 CAAAT
98937114 CAATGGTGGT
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
84 1 0.01
85 70 0.91
86 6 0.08
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (86 bp):
CAAATAGTGTGGTTCGATCATGAAACAAGTGACAATTTATTTAATCTACAAAAATGTTGTGCACC
CACAACAAGTGACAACAACTG
Found at i:98937054 original size:40 final size:38
Alignment explanation
Indices: 98936983--98937058 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 38
98936973 TTTATTTAAT
*
98936983 CTGCAAAAATGTTGTGCACTCATAACAAGTGGCAATAA
1 CTGCAAAAATGTGGTGCACTCATAACAAGTGGCAATAA
* * *
98937021 CTGCAAATATGTGGTTCAGTCATGAACCAAGTGGCAAT
1 CTGCAAAAATGTGGTGCACTCAT-AA-CAAGTGGCAAT
98937059 TTGTTTAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 19 0.59
39 2 0.06
40 11 0.34
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (38 bp):
CTGCAAAAATGTGGTGCACTCATAACAAGTGGCAATAA
Found at i:98938483 original size:17 final size:19
Alignment explanation
Indices: 98938447--98938485 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
98938437 TAGCATTTAA
*
98938447 TTTTAGAATATATATCTAT
1 TTTTAAAATATATATCTAT
98938466 TTTTAAAATATA-AT-TAT
1 TTTTAAAATATATATCTAT
98938483 TTT
1 TTT
98938486 GCTGATTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 11 0.58
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTTAAAATATATATCTAT
Found at i:98943549 original size:18 final size:18
Alignment explanation
Indices: 98943526--98943614 Score: 97
Period size: 18 Copynumber: 4.9 Consensus size: 18
98943516 TCATCGGTAT
*
98943526 TAATCAATTATTCAGTAG
1 TAATCAATTATTCAGTAA
*
98943544 TAATCATTTATTCAGTAA
1 TAATCAATTATTCAGTAA
* * ** *
98943562 CAGTCGTTTATTTAGTAA
1 TAATCAATTATTCAGTAA
*
98943580 CAATCAATTATTCAGTAA
1 TAATCAATTATTCAGTAA
*
98943598 TAATCAGTTATTCAGTA
1 TAATCAATTATTCAGTA
98943615 CCTTTATTTA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40
Consensus pattern (18 bp):
TAATCAATTATTCAGTAA
Found at i:98943974 original size:20 final size:20
Alignment explanation
Indices: 98943949--98943988 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
98943939 TTTCATTTTC
98943949 AATCAGTATATATT-TCAATT
1 AATCAG-ATATATTCTCAATT
98943969 AATCAGATATATTCTCAATT
1 AATCAGATATATTCTCAATT
98943989 CAATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (20 bp):
AATCAGATATATTCTCAATT
Found at i:98943996 original size:16 final size:15
Alignment explanation
Indices: 98943956--98944005 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
98943946 TTCAATCAGT
98943956 ATATATTTCAATTAATCA
1 ATATATTTCAA-T--TCA
98943974 GATATATTCTCAATTCA
1 -ATATATT-TCAATTCA
98943991 ATATATTTCAATTCA
1 ATATATTTCAATTCA
98944006 CTTTAACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 3 0.10
19 8 0.27
20 4 0.13
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (15 bp):
ATATATTTCAATTCA
Found at i:98945183 original size:4 final size:4
Alignment explanation
Indices: 98945174--98945207 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
98945164 CACAATTGTC
98945174 TTTA TTTA TTTA TTTTA TTTA TTTA CTTTA TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA
98945208 ATTAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:98945192 original size:9 final size:8
Alignment explanation
Indices: 98945174--98945207 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
98945164 CACAATTGTC
98945174 TTTATTTA
1 TTTATTTA
98945182 TTTATTTTA
1 TTTA-TTTA
98945191 TTTATTTA
1 TTTATTTA
98945199 CTTTATTTA
1 -TTTATTTA
98945208 ATTAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTATTTA
Found at i:98945192 original size:13 final size:13
Alignment explanation
Indices: 98945173--98945207 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
98945163 ACACAATTGT
98945173 CTTTATTTATTTA
1 CTTTATTTATTTA
*
98945186 TTTTATTTATTTA
1 CTTTATTTATTTA
98945199 CTTTATTTA
1 CTTTATTTA
98945208 ATTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (13 bp):
CTTTATTTATTTA
Found at i:98946666 original size:12 final size:12
Alignment explanation
Indices: 98946651--98946679 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
98946641 GTGAATAAAG
98946651 AAGATAAATGGA
1 AAGATAAATGGA
98946663 AAGAT-AATGGA
1 AAGATAAATGGA
98946674 AAGATA
1 AAGATA
98946680 GAACGTGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:98950763 original size:12 final size:12
Alignment explanation
Indices: 98950748--98950776 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
98950738 GTAAATAAAG
98950748 AAGATAAATGGA
1 AAGATAAATGGA
98950760 AAGAT-AATGGA
1 AAGATAAATGGA
98950771 AAGATA
1 AAGATA
98950777 GAACGTGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:98953747 original size:34 final size:34
Alignment explanation
Indices: 98953709--98953893 Score: 235
Period size: 34 Copynumber: 5.4 Consensus size: 34
98953699 AGCATGTCTT
* * * * *
98953709 TTGCTACTTTAATGATTTGTTAGAAGCATATGAA
1 TTGCTACTGTATTGATCTGTTACAAGCATATTAA
* * * *
98953743 TTGCTACCGTATTGATATGTTATAAGCATATTCA
1 TTGCTACTGTATTGATCTGTTACAAGCATATTAA
* * *
98953777 TTGTTACTGTATTGATCTATTATAAGCATATTAA
1 TTGCTACTGTATTGATCTGTTACAAGCATATTAA
*
98953811 TTGCTACTGTATTGATCTGTTACAACCATATTAA
1 TTGCTACTGTATTGATCTGTTACAAGCATATTAA
*
98953845 TTACTACTGTATTGATCTGTTACAAGCATATTAA
1 TTGCTACTGTATTGATCTGTTACAAGCATATTAA
*
98953879 TTGCTACCGTATTGA
1 TTGCTACTGTATTGA
98953894 AATGTTCATG
Statistics
Matches: 131, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 131 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (34 bp):
TTGCTACTGTATTGATCTGTTACAAGCATATTAA
Found at i:98955793 original size:18 final size:19
Alignment explanation
Indices: 98955757--98955794 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
98955747 ATTTACGGAG
*
98955757 AAGGGAAAAAATATTAGAA
1 AAGGGAAAAAATATAAGAA
*
98955776 AAGGGAAAAGATA-AAGAA
1 AAGGGAAAAAATATAAGAA
98955794 A
1 A
98955795 CTTGACGTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.11
Consensus pattern (19 bp):
AAGGGAAAAAATATAAGAA
Found at i:98959149 original size:3 final size:3
Alignment explanation
Indices: 98959126--98959222 Score: 72
Period size: 3 Copynumber: 31.7 Consensus size: 3
98959116 GAAAGGAAAT
* * * * * *
98959126 ATA ATT ATA ATA GTG ATA ATA ATA AAA ATA ATA ACA ATA AT- ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
98959173 ATA ATA CATTA ATA ACA ACA ATA ATA AT- ATA CATTA ATA ATA ATA ATA
1 ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA
98959221 AT
1 AT
98959223 TAATTAATCT
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
2 3 0.04
3 63 0.85
4 4 0.05
5 4 0.05
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:98959190 original size:28 final size:26
Alignment explanation
Indices: 98959154--98959226 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
98959144 ATAATAAAAA
98959154 TAATAACAATAATACAATAATAATACAT
1 TAATAACAATAATA-AATAAT-ATACAT
*
98959182 TAATAACAACAAT-AATAATATACAT
1 TAATAACAATAATAAATAATATACAT
* *
98959207 TAATAATAATAATAATTAAT
1 TAATAACAATAATAAATAAT
98959227 TAATCTTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.43
26 11 0.28
28 12 0.30
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (26 bp):
TAATAACAATAATAAATAATATACAT
Found at i:98959217 original size:31 final size:29
Alignment explanation
Indices: 98959141--98959218 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 29
98959131 TATAATAGTG
* *
98959141 ATAATAATAAAAATAATAACAATAATACA
1 ATAATAATAATAATAACAACAATAATACA
98959170 ATAATAATACATTAATAACAACAATAATA-A
1 ATAATAATA-A-TAATAACAACAATAATACA
98959200 TATACATTAATAATAATAA
1 -ATA-A-TAATAATAATAA
98959219 TAATTAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 9 0.21
30 2 0.05
31 24 0.57
32 2 0.05
33 5 0.12
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (29 bp):
ATAATAATAATAATAACAACAATAATACA
Found at i:98970397 original size:28 final size:27
Alignment explanation
Indices: 98970366--98970459 Score: 68
Period size: 28 Copynumber: 3.2 Consensus size: 27
98970356 CACTGGGCTT
98970366 TAGCCCATATCAATATTAATCTGGGTCA
1 TAGCCCATATCAATATTAATCTGGG-CA
*
98970394 TAGCCCCTTACAGTATCAGAGTA-T-AT-TGGGCC
1 TAG--CC---CA-TATCA-A-TATTAATCTGGGCA
98970426 TAGCCCATATCAATATTAATCTGGGCCA
1 TAGCCCATATCAATATTAATCTGGG-CA
98970454 TAGCCC
1 TAGCCC
98970460 TATTACAAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 24
0.67 0.03 0.31
Matches are distributed among these distances:
24 2 0.04
25 2 0.04
26 7 0.13
27 6 0.12
28 10 0.19
30 4 0.08
32 4 0.08
33 6 0.12
34 7 0.13
35 2 0.04
36 2 0.04
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (27 bp):
TAGCCCATATCAATATTAATCTGGGCA
Found at i:98970479 original size:60 final size:59
Alignment explanation
Indices: 98970366--98970495 Score: 174
Period size: 60 Copynumber: 2.2 Consensus size: 59
98970356 CACTGGGCTT
* * *
98970366 TAGCCCATATCAATATTAATCTGGGTCATAGCCCCTTACAGTATCAGAGTATATTGGGCC
1 TAGCCCATATCAATATTAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATATTGGACC
98970426 TAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACA-AGTC-GAGATATATTGGACC
1 TAGCCCATATCAATATTAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATATTGGACC
*
98970486 TTGCCCATAT
1 TAGCCCATAT
98970496 TAACACAGTT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
59 4 0.06
60 54 0.86
61 5 0.08
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (59 bp):
TAGCCCATATCAATATTAATCTGGGCCATAGCCCATTACAGATCAGAGTATATTGGACC
Found at i:98971999 original size:15 final size:16
Alignment explanation
Indices: 98971958--98972006 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
98971948 GGTTATAGGG
98971958 GAAAAGAAGAAGAGAAA
1 GAAAAGAAGAAGA-AAA
* *
98971975 GTAGATGAAG-AGAAAA
1 G-AAAAGAAGAAGAAAA
98971991 GAAAAGAAGAAGAAAA
1 GAAAAGAAGAAGAAAA
98972007 AACTGAATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 6 0.23
16 10 0.38
17 4 0.15
18 6 0.23
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (16 bp):
GAAAAGAAGAAGAAAA
Found at i:98974056 original size:18 final size:18
Alignment explanation
Indices: 98974033--98974079 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
98974023 ATATTAAAAA
98974033 TAATTAAAATAATATT-T
1 TAATTAAAATAATATTAT
98974050 TATATT-AAATAAATATTAT
1 TA-ATTAAAAT-AATATTAT
*
98974069 TAATGAAAATA
1 TAATTAAAATA
98974080 TTGCTAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 6 0.24
18 12 0.48
19 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
TAATTAAAATAATATTAT
Found at i:98978363 original size:21 final size:20
Alignment explanation
Indices: 98978339--98978377 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
98978329 AAACATAATA
98978339 TTAATATATTTTATATTTATT
1 TTAATATATTTTA-ATTTATT
*
98978360 TTAATTTATTTTAATTTA
1 TTAATATATTTTAATTTA
98978378 AAATGTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTAATATATTTTAATTTATT
Found at i:98978368 original size:10 final size:10
Alignment explanation
Indices: 98978339--98978377 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
98978329 AAACATAATA
*
98978339 TTAATATATT
1 TTAATTTATT
98978349 TTATATTTATT
1 TTA-ATTTATT
98978360 TTAATTTATT
1 TTAATTTATT
98978370 TTAATTTA
1 TTAATTTA
98978378 AAATGTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTAATTTATT
Found at i:98985472 original size:31 final size:30
Alignment explanation
Indices: 98985437--98985498 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
98985427 TCCTTAACTC
98985437 AAACTTTTGAAAAAATTACAATTTTGCCCCT
1 AAACTTTTG-AAAAATTACAATTTTGCCCCT
* * * *
98985468 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
98985498 A
1 A
98985499 GGCTGGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:98996049 original size:2 final size:2
Alignment explanation
Indices: 98996042--98996067 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
98996032 AACAGTGACA
98996042 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
98996068 AAAGACAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:98999856 original size:5 final size:6
Alignment explanation
Indices: 98999840--98999865 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
98999830 ACTAAACAAT
98999840 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
98999866 TTAAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:99000983 original size:26 final size:27
Alignment explanation
Indices: 99000935--99000994 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
99000925 TTTATTTTTC
*
99000935 TTTTTAATTTTTATGAATTTTTTAT-A
1 TTTTTAATTTTTATGAATGTTTTATAA
99000961 TTATTTAATTTTT-TGAATGTTTTATAA
1 TT-TTTAATTTTTATGAATGTTTTATAA
99000988 TTTTTAA
1 TTTTTAA
99000995 ATGGGTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 18 0.58
27 13 0.42
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTTTAATTTTTATGAATGTTTTATAA
Found at i:99000993 original size:9 final size:8
Alignment explanation
Indices: 99000935--99000992 Score: 53
Period size: 9 Copynumber: 6.5 Consensus size: 8
99000925 TTTATTTTTC
99000935 TTTTTAAT
1 TTTTTAAT
99000943 TTTTATGAAT
1 TTTT-T-AAT
99000953 TTTTTATAT
1 TTTTTA-AT
*
99000962 TATTTAAT
1 TTTTTAAT
99000970 TTTTTGAAT
1 TTTTT-AAT
99000979 GTTTTATAAT
1 -TTTT-TAAT
99000989 TTTT
1 TTTT
99000993 AAATGGGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
8 11 0.26
9 16 0.38
10 14 0.33
11 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (8 bp):
TTTTTAAT
Done.