Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 97 of 316
Found at i:29823462 original size:144 final size:144
Alignment explanation
Indices: 29823231--29823624 Score: 524
Period size: 144 Copynumber: 2.7 Consensus size: 144
29823221 AGATCTCTTA
* * * * *
29823231 TAAGACCATATCTGGGATATGGCATCGGCATTGAAATGAGATCCCATGTA-AA-ACCATATCTAG
1 TAAGACCATATCTGGGATATGGCATTGGCATTGATATGAGGT--CTTGTATAAGACCATGTCTAG
* * * ** * *
29823294 GATATGGTATCGGCATCGAAATGAGATC-CCGTGTAAGACCATATCTGGGATATGGCATCAACAT
64 GACATGGCATCGGCACCGTTATGAGA-CATCGTGTAAGACCATATCTGGGATATAGCATCAACAT
29823358 CAGTATGAGATCCCATG
128 CAGTATGAGATCCCATG
* * * *
29823375 TAAGACCATATCTGGGATATGGTATTGGCATCGATATGAGGTCTTGTATAAGACAATGTCTGGGA
1 TAAGACCATATCTGGGATATGGCATTGGCATTGATATGAGGTCTTGTATAAGACCATGTCTAGGA
* *
29823440 CATGGCATCGGCACCGTTATGAGACTTCGTGTAAGACCATATCTGGGATATAGCATCGACATCAG
66 CATGGCATCGGCACCGTTATGAGACATCGTGTAAGACCATATCTGGGATATAGCATCAACATCAG
*
29823505 TATGAGATCTCATG
131 TATGAGATCCCATG
*
29823519 TAAGACCATATCTGGGATATGGCATTGGCATTGATATGAGGTCTCGTATAAGACCATGTCTAGGA
1 TAAGACCATATCTGGGATATGGCATTGGCATTGATATGAGGTCTTGTATAAGACCATGTCTAGGA
** * *
29823584 CATAACATCGACACCGTTATAAGACATCGTGTAAGACCATA
66 CATGGCATCGGCACCGTTATGAGACATCGTGTAAGACCATA
29823625 GTTGGGTTGT
Statistics
Matches: 219, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
142 5 0.02
143 3 0.01
144 211 0.96
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (144 bp):
TAAGACCATATCTGGGATATGGCATTGGCATTGATATGAGGTCTTGTATAAGACCATGTCTAGGA
CATGGCATCGGCACCGTTATGAGACATCGTGTAAGACCATATCTGGGATATAGCATCAACATCAG
TATGAGATCCCATG
Found at i:29823571 original size:48 final size:48
Alignment explanation
Indices: 29823221--29823575 Score: 347
Period size: 48 Copynumber: 7.4 Consensus size: 48
29823211 GTGAGTATTA
* * *
29823221 AGATCTCTTATAAGACCATATCTGGGATATGGCATCGGCATTGAAATG
1 AGATCTCGTGTAAGACCATATCTGGGATATGGCATCGGCATTGATATG
* * * * * * *
29823269 AGATCCCATGTAAAACCATATCTAGGATATGGTATCGGCATCGAAATG
1 AGATCTCGTGTAAGACCATATCTGGGATATGGCATCGGCATTGATATG
* ** *
29823317 AGATCCCGTGTAAGACCATATCTGGGATATGGCATCAACA-TCAGTATG
1 AGATCTCGTGTAAGACCATATCTGGGATATGGCATCGGCATTGA-TATG
* * * * *
29823365 AGATCCCATGTAAGACCATATCTGGGATATGGTATTGGCATCGATATG
1 AGATCTCGTGTAAGACCATATCTGGGATATGGCATCGGCATTGATATG
* * * * * * ** *
29823413 AGGTCTTGTATAAGACAATGTCTGGGACATGGCATCGGCACCGTTATG
1 AGATCTCGTGTAAGACCATATCTGGGATATGGCATCGGCATTGATATG
* * *
29823461 AGA-CTTCGTGTAAGACCATATCTGGGATATAGCATCGACA-TCAGTATG
1 AGATC-TCGTGTAAGACCATATCTGGGATATGGCATCGGCATTGA-TATG
* *
29823509 AGATCTCATGTAAGACCATATCTGGGATATGGCATTGGCATTGATATG
1 AGATCTCGTGTAAGACCATATCTGGGATATGGCATCGGCATTGATATG
* *
29823557 AGGTCTCGTATAAGACCAT
1 AGATCTCGTGTAAGACCAT
29823576 GTCTAGGACA
Statistics
Matches: 247, Mismatches: 54, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
47 2 0.01
48 241 0.98
49 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (48 bp):
AGATCTCGTGTAAGACCATATCTGGGATATGGCATCGGCATTGATATG
Found at i:29823571 original size:96 final size:96
Alignment explanation
Indices: 29823221--29823624 Score: 366
Period size: 96 Copynumber: 4.2 Consensus size: 96
29823211 GTGAGTATTA
* * *
29823221 AGATCTCTTATAAGACCATATCTGGGATATGGCATCGGCATTGAAATGAGATCCCATGTAAAACC
1 AGATCTCGTATAAGACCATATCTGGGATATGGCATCGGCATTGATATGAGATCCCATGTAAGACC
* * * *
29823286 ATATCTAGGATATGGTATCGGCATCGAAATG
66 ATATCTAGGATATAGCATCGACATCGATATG
* * ** *
29823317 AGATCCCGTGTAAGACCATATCTGGGATATGGCATCAACA-TCAGTATGAGATCCCATGTAAGAC
1 AGATCTCGTATAAGACCATATCTGGGATATGGCATCGGCATTGA-TATGAGATCCCATGTAAGAC
* * * * *
29823381 CATATCTGGGATATGGTATTGGCATCGATATG
65 CATATCTAGGATATAGCATCGACATCGATATG
* * * * * ** * * *
29823413 AGGTCTTGTATAAGACAATGTCTGGGACATGGCATCGGCACCGTTATGAGA-CTTCGTGTAAGAC
1 AGATCTCGTATAAGACCATATCTGGGATATGGCATCGGCATTGATATGAGATC-CCATGTAAGAC
*
29823477 CATATCTGGGATATAGCATCGACATC-AGTATG
65 CATATCTAGGATATAGCATCGACATCGA-TATG
* * * * * * *
29823509 AGATCTCATGTAAGACCATATCTGGGATATGGCATTGGCATTGATATGAGGTCTCGTATAAGACC
1 AGATCTCGTATAAGACCATATCTGGGATATGGCATCGGCATTGATATGAGATCCCATGTAAGACC
* * * * * *
29823574 ATGTCTAGGACATAACATCGACACCGTTATA
66 ATATCTAGGATATAGCATCGACATCGATATG
*
29823605 AGA-CATCGTGTAAGACCATA
1 AGATC-TCGTATAAGACCATA
29823625 GTTGGGTTGT
Statistics
Matches: 251, Mismatches: 50, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
95 5 0.02
96 245 0.98
97 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (96 bp):
AGATCTCGTATAAGACCATATCTGGGATATGGCATCGGCATTGATATGAGATCCCATGTAAGACC
ATATCTAGGATATAGCATCGACATCGATATG
Found at i:29826260 original size:21 final size:21
Alignment explanation
Indices: 29826234--29826275 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
29826224 GATTTTTCAA
**
29826234 TGTTGCTGCTTGGCTTTGGAT
1 TGTTGCTGCTTGAATTTGGAT
29826255 TGTTGCTGCTTGAATTTGGAT
1 TGTTGCTGCTTGAATTTGGAT
29826276 CAATGTGCCC
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:0.10, C:0.12, G:0.31, T:0.48
Consensus pattern (21 bp):
TGTTGCTGCTTGAATTTGGAT
Found at i:29827904 original size:15 final size:16
Alignment explanation
Indices: 29827886--29827923 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
29827876 AATTGGAAAG
29827886 ATGAAAAGTT-ATTAA
1 ATGAAAAGTTAATTAA
* *
29827901 ATGACAATTTAATTAA
1 ATGAAAAGTTAATTAA
29827917 ATGAAAA
1 ATGAAAA
29827924 AGAAAACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.32
Consensus pattern (16 bp):
ATGAAAAGTTAATTAA
Found at i:29829974 original size:29 final size:29
Alignment explanation
Indices: 29829913--29830002 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
29829903 CACATACCTG
*
29829913 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
29829941 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * *
29829970 TATATGGCCCATCAGGCCCAATTCACATA
1 TATATGGCCCATTAGGCCCAAATCACATT
29829999 TATA
1 TATA
29830003 GTCATGCTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 18 0.32
29 39 0.68
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:29830241 original size:16 final size:16
Alignment explanation
Indices: 29830220--29830257 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
29830210 CAAACATTCA
*
29830220 GCTTTTTAGTATTTCG
1 GCTTTTTAGCATTTCG
*
29830236 GCTTTTTGGCATTTCG
1 GCTTTTTAGCATTTCG
29830252 GCTTTT
1 GCTTTT
29830258 GTCGATCTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.08, C:0.16, G:0.21, T:0.55
Consensus pattern (16 bp):
GCTTTTTAGCATTTCG
Found at i:29833955 original size:29 final size:29
Alignment explanation
Indices: 29833894--29833983 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
29833884 CACATACCTG
*
29833894 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
29833922 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
29833951 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
29833980 TATA
1 TATA
29833984 GTCATGCTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
28 18 0.31
29 40 0.69
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:29834230 original size:16 final size:16
Alignment explanation
Indices: 29834196--29834238 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
29834186 ATAGTCAAAC
*
29834196 TTTCAGCTTTTCAGTA
1 TTTCAGCTTTTCAGCA
29834212 TTTCAGCTTTTC-GACA
1 TTTCAGCTTTTCAG-CA
*
29834228 TTTCGGCTTTT
1 TTTCAGCTTTT
29834239 ACCGATCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTCAGCTTTTCAGCA
Found at i:29837590 original size:23 final size:22
Alignment explanation
Indices: 29837553--29837595 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
29837543 GATATGCCAT
29837553 TTTGAATGATAGAATTTGTTTAA
1 TTTGAATGATAGAA-TTGTTTAA
* *
29837576 TTTGAATGCTTGAATTGTTT
1 TTTGAATGATAGAATTGTTT
29837596 GGTTTATGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (22 bp):
TTTGAATGATAGAATTGTTTAA
Found at i:29839526 original size:39 final size:39
Alignment explanation
Indices: 29839451--29839606 Score: 133
Period size: 39 Copynumber: 4.0 Consensus size: 39
29839441 CAAATCCAAT
* * * *
29839451 CACCACCAC-AAAGCATGCGGGACTTTAAGCCCGATATAA
1 CACCAGCACGAAAGCCTACGGGACTTT-AGCCGGATATAA
* *
29839490 TA-CATGCAC-AAAGGCTACGGGACTTTAGCCTGGATATAA
1 CACCA-GCACGAAAGCCTACGGGACTTTAGCC-GGATATAA
* *
29839529 CACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTACGGGACTTTAG-CCGGATATAA
* * *
29839568 CACCAGCACGAATGCCTTCGGGAC-TTAGCCCGAATATAA
1 CACCAGCACGAAAGCCTACGGGACTTTAG-CCGGATATAA
29839607 TTCCCCATTA
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
38 6 0.06
39 80 0.79
40 15 0.15
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTACGGGACTTTAGCCGGATATAA
Found at i:29844601 original size:38 final size:38
Alignment explanation
Indices: 29844546--29844702 Score: 199
Period size: 38 Copynumber: 4.1 Consensus size: 38
29844536 TCGAAATATG
*
29844546 ATAT-ACGGGCTTAAAATCCCGCAGGCTTCGTGCTGGTA
1 ATATAACGGGGTT-AAATCCCGCAGGCTTCGTGCTGGTA
*
29844584 ATATAACGGGGTTAAATCCCGCAGACTTCGTGCTGGTA
1 ATATAACGGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* ** *
29844622 ATATATCCAGGTTAAATCCCGCAAGCTTCGTGCTGGTA
1 ATATAACGGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* * * *
29844660 TTATAACTGGGTTAAATCCCGCAGGCCTAGTGCTGGTA
1 ATATAACGGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
*
29844698 TTATA
1 ATATA
29844703 TTCGGGCCTT
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
38 97 0.93
39 7 0.07
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (38 bp):
ATATAACGGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
Found at i:29844641 original size:76 final size:76
Alignment explanation
Indices: 29844559--29844703 Score: 227
Period size: 76 Copynumber: 1.9 Consensus size: 76
29844549 TACGGGCTTA
* * *
29844559 AAATCCCGCAGGCTTCGTGCTGGTAATATAACGGGGTTAAATCCCGCAGACTTCGTGCTGGTAAT
1 AAATCCCGCAAGCTTCGTGCTGGTAATATAACGGGGTTAAATCCCGCAGACCTAGTGCTGGTAAT
29844624 ATATCCAGGTT
66 ATATCCAGGTT
* * * *
29844635 AAATCCCGCAAGCTTCGTGCTGGTATTATAACTGGGTTAAATCCCGCAGGCCTAGTGCTGGTATT
1 AAATCCCGCAAGCTTCGTGCTGGTAATATAACGGGGTTAAATCCCGCAGACCTAGTGCTGGTAAT
29844700 ATAT
66 ATAT
29844704 TCGGGCCTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (76 bp):
AAATCCCGCAAGCTTCGTGCTGGTAATATAACGGGGTTAAATCCCGCAGACCTAGTGCTGGTAAT
ATATCCAGGTT
Found at i:29844775 original size:46 final size:45
Alignment explanation
Indices: 29844701--29844829 Score: 151
Period size: 46 Copynumber: 2.9 Consensus size: 45
29844691 GCTGGTATTA
* * *
29844701 TATTCGGGCCTTT-GAGCCTAGCAAGCTATTATGCCGGTGAGACAT
1 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-AAAT
*
29844746 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCTGGT-AAAAT
1 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAAT
* *
29844790 GATATCGGGCC--TCGAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TAT-TCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
29844830 TGAATAAAAG
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
42 8 0.11
43 18 0.24
44 5 0.07
45 21 0.28
46 22 0.30
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (45 bp):
TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAAT
Found at i:29862478 original size:24 final size:24
Alignment explanation
Indices: 29862433--29862479 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
29862423 ATAAAAACTA
* *
29862433 AACCCTGAAAACCTGAAAACAAAG
1 AACCCTCAAAACATGAAAACAAAG
29862457 AACCCTCAAAACAT-AAACACAAA
1 AACCCTCAAAACATGAAA-ACAAA
29862480 ATTCTCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.57, C:0.28, G:0.06, T:0.09
Consensus pattern (24 bp):
AACCCTCAAAACATGAAAACAAAG
Found at i:29865418 original size:18 final size:18
Alignment explanation
Indices: 29865387--29865429 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
29865377 TTACAAACAA
* *
29865387 TTTATTTATTTTAAATAT
1 TTTATATATATTAAATAT
*
29865405 TTTATATATATTAATTAT
1 TTTATATATATTAAATAT
29865423 TTT-TATA
1 TTTATATA
29865430 AACATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATATATATTAAATAT
Found at i:29865506 original size:12 final size:12
Alignment explanation
Indices: 29865491--29865566 Score: 75
Period size: 12 Copynumber: 6.3 Consensus size: 12
29865481 AGGTTATTTG
29865491 TATTTTATTATA
1 TATTTTATTATA
29865503 TATTTTATATATA
1 TATTTTAT-TATA
29865516 TATTTTATTATA
1 TATTTTATTATA
* ***
29865528 TATATTATTCCC
1 TATTTTATTATA
*
29865540 TATATTATCT-T-
1 TATTTTAT-TATA
29865551 TATTTTATTATA
1 TATTTTATTATA
29865563 TATT
1 TATT
29865567 ATTCTATTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
10 1 0.02
11 8 0.15
12 32 0.59
13 13 0.24
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTTTATTATA
Found at i:29865736 original size:20 final size:18
Alignment explanation
Indices: 29865705--29865754 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
29865695 ATATTATTAT
* *
29865705 TTTTATAAATATATTAAG
1 TTTTATATATATAGTAAG
*
29865723 TTATTATATCATATAGTATG
1 TT-TTATAT-ATATAGTAAG
29865743 TTTTATATATAT
1 TTTTATATATAT
29865755 TAATCGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.22
19 11 0.41
20 10 0.37
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (18 bp):
TTTTATATATATAGTAAG
Found at i:29865873 original size:19 final size:19
Alignment explanation
Indices: 29865833--29865874 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
29865823 TCATAATATG
*
29865833 TTTATTTATTTTTGTATTT
1 TTTATTTATTTTAGTATTT
29865852 TTTATTTA-TTTAGTATTGT
1 TTTATTTATTTTAGTATT-T
29865871 TTTA
1 TTTA
29865875 GTAGGTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (19 bp):
TTTATTTATTTTAGTATTT
Found at i:29865920 original size:18 final size:18
Alignment explanation
Indices: 29865899--29865933 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29865889 ATCTCATATA
*
29865899 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
*
29865917 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
29865934 ATATTCGCAT
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:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:29865925 original size:25 final size:24
Alignment explanation
Indices: 29865883--29865933 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
29865873 TAGTAGGTTA
29865883 ATTTTTATCTCATATATTATTTGTT
1 ATTTTTATCTCATATATTATTT-TT
* * * *
29865908 ATTTTTATGTTATTTATTGTTTTT
1 ATTTTTATCTCATATATTATTTTT
29865932 AT
1 AT
29865934 ATATTCGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (24 bp):
ATTTTTATCTCATATATTATTTTT
Found at i:29866089 original size:106 final size:106
Alignment explanation
Indices: 29865972--29866171 Score: 253
Period size: 106 Copynumber: 1.9 Consensus size: 106
29865962 TTGATTTAAG
* * * * *
29865972 TTATATTTGCATGAAATATT-AT-TATA-TATGTAATTTATGTTGTTATATTCATTATTTTCTAT
1 TTATATCTGCATGAAAGATTAATGTATATTATATAATTAATGTTG-T-TATTCATCATTTTCTAT
* * *
29866034 GTTATATTTTGCATGAAATATTAATGCATGTATATTTATGTTAT
64 ATTATA-GTTGCATGAAATATTAAAGCATGTATATTTATGTTAT
* *
29866078 TTATATCTGCATGAAAGGTTAATGTATATTATATAATTAATGTTGTTATTCGTCATTTTCTATAT
1 TTATATCTGCATGAAAGATTAATGTATATTATATAATTAATGTTGTTATTCATCATTTTCTATAT
*
29866143 TATAGTTGCATGAAATGTTAAAGCATGTA
66 TATAGTTGCATGAAATATTAAAGCATGTA
29866172 GTTTATATTG
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
106 39 0.49
107 22 0.28
108 5 0.06
109 14 0.17
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.49
Consensus pattern (106 bp):
TTATATCTGCATGAAAGATTAATGTATATTATATAATTAATGTTGTTATTCATCATTTTCTATAT
TATAGTTGCATGAAATATTAAAGCATGTATATTTATGTTAT
Found at i:29869075 original size:17 final size:17
Alignment explanation
Indices: 29869036--29869075 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
29869026 ACACCATTCC
*
29869036 AATACTCAATTCATTTCA
1 AATA-TCAATTCATATCA
29869054 AATATCAATTCATATCA
1 AATATCAATTCATATCA
*
29869071 CATAT
1 AATAT
29869076 ATACATGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (17 bp):
AATATCAATTCATATCA
Found at i:29869703 original size:8 final size:8
Alignment explanation
Indices: 29869690--29869721 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
29869680 TACCTTAGAT
29869690 TTTACAAA
1 TTTACAAA
29869698 TTTACAAA
1 TTTACAAA
29869706 TTTACAAA
1 TTTACAAA
*
29869714 TTTTCAAA
1 TTTACAAA
29869722 ACAATCCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (8 bp):
TTTACAAA
Found at i:29877625 original size:47 final size:48
Alignment explanation
Indices: 29877382--29877646 Score: 162
Period size: 47 Copynumber: 5.7 Consensus size: 48
29877372 TGGGTTAATG
* * * * *
29877382 TGAGCTAGTGTAAG-CCATGTATGGTACAT-GCATCGGC-C-ACATTA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCTCGAGACTA
* * * * *
29877426 TGAGAGCCAGTGTAAGACCACGTCTAGGACATGGCATCGGCATCGAGACGA
1 T--GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGC-TCGAGACTA
* * * *
29877477 -GTGCTAGTGTAAGA-CATGTCTGGGACAT-ACATCGGCCTTGAGACT-
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGG-CTCGAGACTA
* ** * *
29877522 TAAGCCGGTGTAA-AACATGTCTGGGACAT-GCATTGGCTACAAGA-TGA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCT-CGAGACT-A
* *
29877569 T-AG-TCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTGAGA-TA
1 TGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATTGGCTCGAGACTA
* *
29877615 TGAGCTAGTGTAAGATCATGTCTGGGATATGG
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGG
29877647 AATCGGCACC
Statistics
Matches: 172, Mismatches: 31, Indels: 33
0.73 0.13 0.14
Matches are distributed among these distances:
44 1 0.01
45 4 0.02
46 64 0.37
47 70 0.41
48 29 0.17
50 1 0.01
51 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCTCGAGACTA
Found at i:29881882 original size:37 final size:37
Alignment explanation
Indices: 29881832--29881910 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
29881822 TTATTACGAA
* * *
29881832 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
29881869 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
29881906 GTCTT
1 GTCTT
29881911 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:29882107 original size:47 final size:47
Alignment explanation
Indices: 29882029--29882562 Score: 870
Period size: 47 Copynumber: 11.2 Consensus size: 47
29882019 CCCTTCGGGA
* * * * * *
29882029 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29882076 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29882123 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29882170 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29882217 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29882264 CTTATCACATATATATACACTATCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29882313 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29882360 CTTATCACATATAAACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29882407 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29882456 CTTATCACATACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29882505 CTTATCACATATATACACTTTCACATTTATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29882552 CTTATCACATA
1 CTTATCACATA
29882563 GAATCCTAAA
Statistics
Matches: 457, Mismatches: 24, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
47 319 0.70
49 138 0.30
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29882310 original size:96 final size:96
Alignment explanation
Indices: 29882029--29882562 Score: 864
Period size: 96 Copynumber: 5.6 Consensus size: 96
29882019 CCCTTCGGGA
* * * * * * * *
29882029 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
29882092 ACTTTCACATTCATCACATCGGCCATTAAGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
29882123 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
29882186 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
29882217 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
29882282 ACTATCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
29882313 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA-A-AC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
29882376 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
29882407 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATACATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
29882472 ACACTTTCACATTCATCACATCGGCTATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29882505 CTTATCACATATATACACTTTCACATTTATCACATCGGTCATTAGGCCTTATCACATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
29882563 GAATCCTAAA
Statistics
Matches: 415, Mismatches: 19, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
94 179 0.43
95 1 0.00
96 194 0.47
97 1 0.00
98 40 0.10
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29882338 original size:143 final size:143
Alignment explanation
Indices: 29882029--29882562 Score: 892
Period size: 143 Copynumber: 3.7 Consensus size: 143
29882019 CCCTTCGGGA
* * * * * * * *
29882029 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
29882094 TTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
29882157 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
29882170 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
29882235 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTATCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
29882300 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
29882313 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAAACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
29882378 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
29882443 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
29882456 CTTATCACATACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
29882521 ACTTTCACATTTATCACATCGGTCATTAGGCCTTATCACATA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
29882563 GAATCCTAAA
Statistics
Matches: 369, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
141 92 0.25
143 187 0.51
145 90 0.24
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:29888392 original size:21 final size:22
Alignment explanation
Indices: 29888367--29888407 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
29888357 GAATCTCAAT
29888367 ATGCA-AAGTTTTCA-AAAATCA
1 ATGCAGAA-TTTTCAGAAAATCA
29888388 ATGCAGAATTTTCAGAAAAT
1 ATGCAGAATTTTCAGAAAAT
29888408 GTTCCTACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (22 bp):
ATGCAGAATTTTCAGAAAATCA
Found at i:29894534 original size:26 final size:26
Alignment explanation
Indices: 29894456--29894536 Score: 101
Period size: 26 Copynumber: 3.1 Consensus size: 26
29894446 AACACACCAA
*
29894456 TATCGCAGCAAAGCTGGCAGTATCAG
1 TATCGCAGCAAAGCTGCCAGTATCAG
* * *
29894482 AAAT-GCAGCAAAGCTGCGAGTAGCAG
1 -TATCGCAGCAAAGCTGCCAGTATCAG
*
29894508 TATCGCAGGAAAGCTGCCAGTATCAG
1 TATCGCAGCAAAGCTGCCAGTATCAG
29894534 TAT
1 TAT
29894537 ATGTGGCCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
25 2 0.04
26 41 0.91
27 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTATCAG
Found at i:29896149 original size:24 final size:25
Alignment explanation
Indices: 29896095--29896152 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
29896085 AACTGCCCTT
*
29896095 TTCTCTCCCCTTATCCCTCTCCTAAA
1 TTCTCT-CCCTAATCCCTCTCCTAAA
* **
29896121 ATCTCTCCCTAAT-CCTCTCCTCTA
1 TTCTCTCCCTAATCCCTCTCCTAAA
29896145 TTCTCTCC
1 TTCTCTCC
29896153 ATATAACACT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 16 0.59
25 6 0.22
26 5 0.19
ACGTcount: A:0.14, C:0.47, G:0.00, T:0.40
Consensus pattern (25 bp):
TTCTCTCCCTAATCCCTCTCCTAAA
Found at i:29902838 original size:70 final size:71
Alignment explanation
Indices: 29902705--29902843 Score: 217
Period size: 70 Copynumber: 2.0 Consensus size: 71
29902695 GCCTATTGGG
** *
29902705 CCACACGACCCATTTTGGCCTATTTCAGACCAAACCCATGAGAATACTCATGACGGCCTTTACAG
1 CCACACGACCCATTTCAGCCTATTTCAGACCAAACCCATGAGAATACTCATGACGGCCTTTACAA
29902770 TCTACT
66 TCTACT
* * *
29902776 CCACACGGCCCATTTCAGCCTATTTCAGACC-AACCCTTGAGAATACTCATGGCGGCCTTTACAA
1 CCACACGACCCATTTCAGCCTATTTCAGACCAAACCCATGAGAATACTCATGACGGCCTTTACAA
29902840 TCTA
66 TCTA
29902844 ACACCCATGT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 34 0.55
71 28 0.45
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.25
Consensus pattern (71 bp):
CCACACGACCCATTTCAGCCTATTTCAGACCAAACCCATGAGAATACTCATGACGGCCTTTACAA
TCTACT
Found at i:29907896 original size:11 final size:11
Alignment explanation
Indices: 29907877--29907906 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
29907867 ATTATATGAT
29907877 AATGAATTTGTG
1 AATG-ATTTGTG
29907889 AATGATTTGTG
1 AATGATTTGTG
29907900 AATGATT
1 AATGATT
29907907 CATGTTGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.43
Consensus pattern (11 bp):
AATGATTTGTG
Found at i:29909404 original size:46 final size:46
Alignment explanation
Indices: 29909348--29909619 Score: 296
Period size: 46 Copynumber: 5.9 Consensus size: 46
29909338 GGATATTTGG
*
29909348 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGA
* *** * *
29909394 GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATACGA
*
29909440 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGA
* * * *** * *
29909487 GCGTCCGAACTCGTTGAGTTGAGTCTGAGTTTGAGAGATGTA-ACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATACGA
* *
29909533 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGA
* * * *
29909580 ACACCCGAGCTCGTTCAGTTGAGTCCGAGTTCACTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29909620 GCGGGTTACA
Statistics
Matches: 184, Mismatches: 36, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
46 111 0.60
47 73 0.40
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGA
Found at i:29909506 original size:93 final size:93
Alignment explanation
Indices: 29909347--29909611 Score: 449
Period size: 93 Copynumber: 2.8 Consensus size: 93
29909337 GGGATATTTG
*
29909347 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
29909412 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
29909440 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
* *
29909505 TTGAGTCTGAGTTTGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* ** * *
29909533 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTCAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
29909598 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
29909612 ACTTATGGGC
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 160 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:29910175 original size:131 final size:131
Alignment explanation
Indices: 29909941--29910204 Score: 528
Period size: 131 Copynumber: 2.0 Consensus size: 131
29909931 GCATGTGAAC
29909941 TTATTAAGCATTTATGCTTACTCCCTCCTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGAAA
1 TTATTAAGCATTTATGCTTACTCCCTCCTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGAAA
29910006 ATCGGGAACGGTCGAAGGCTCGCTCACACTATCCGTATACCATCTTGACCTAATGGCTTGTATAT
66 ATCGGGAACGGTCGAAGGCTCGCTCACACTATCCGTATACCATCTTGACCTAATGGCTTGTATAT
29910071 T
131 T
29910072 TTATTAAGCATTTATGCTTACTCCCTCCTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGAAA
1 TTATTAAGCATTTATGCTTACTCCCTCCTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGAAA
29910137 ATCGGGAACGGTCGAAGGCTCGCTCACACTATCCGTATACCATCTTGACCTAATGGCTTGTATAT
66 ATCGGGAACGGTCGAAGGCTCGCTCACACTATCCGTATACCATCTTGACCTAATGGCTTGTATAT
29910202 T
131 T
29910203 TT
1 TT
29910205 GAGTATGGCA
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 133 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (131 bp):
TTATTAAGCATTTATGCTTACTCCCTCCTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGAAA
ATCGGGAACGGTCGAAGGCTCGCTCACACTATCCGTATACCATCTTGACCTAATGGCTTGTATAT
T
Found at i:29912765 original size:14 final size:15
Alignment explanation
Indices: 29912716--29912765 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
29912706 GTATCTTGGG
* *
29912716 TTTCTTTATCCTAGA
1 TTTCTTTATTCTGGA
*
29912731 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
29912746 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
29912760 TTTCTT
1 TTTCTT
29912766 GTTATCTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 8 0.27
15 22 0.73
ACGTcount: A:0.12, C:0.18, G:0.10, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:29915207 original size:46 final size:47
Alignment explanation
Indices: 29915149--29915417 Score: 233
Period size: 46 Copynumber: 5.8 Consensus size: 47
29915139 TATTTGGGCA
* * *
29915149 TCCGAACACGTTGAGTTGAGTCTGAGTTCACTTATGGATTC-AAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACTAAGCG
* *** * * *
29915195 TCCGAACTCGTTGAGTTGAGTCCGAGTTTGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATACTAAGCG
* * * * *
29915242 TCCGAGCTCGTTGAGTTGAATTCAAGTTCACTTATGGATAC-GAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACTAAGCG
*** * * *
29915288 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATACTAAGCG
* * * *
29915335 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA-CG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACTAAGCG
* * *
29915381 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29915418 GCGGGTTACA
Statistics
Matches: 171, Mismatches: 46, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
46 101 0.59
47 70 0.41
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACTAAGCG
Found at i:29915304 original size:93 final size:93
Alignment explanation
Indices: 29915145--29915409 Score: 406
Period size: 93 Copynumber: 2.8 Consensus size: 93
29915135 GGGATATTTG
* * * *
29915145 GGCATCCGAACACGTTGAGTTGAGTCTGAGTTCACTTATGGATTCAAGCGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAGCGTCCGAACTCGTTGAG
*
29915210 TTGAGTCCGAGTTTGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
29915238 GGCATCCGAGCTCGTTGAGTTGAAT-TCAAGTTCACTTATGGATACGAGCGTCCGAACTCGTTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATACGAGCGTCCGAACTCGTTGA
29915302 GTTGAGTCCGAGTTCGAGAGATGTAACTA
65 GTTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
29915331 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAGCGTCCGAACTCGTTGAG
29915396 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
29915410 ACTTATGGGC
Statistics
Matches: 156, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
92 1 0.01
93 154 0.99
94 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAGCGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:29915352 original size:47 final size:47
Alignment explanation
Indices: 29915195--29915363 Score: 198
Period size: 47 Copynumber: 3.6 Consensus size: 47
29915185 GATTCAAGCG
*
29915195 TCCGAACTCGTTGAGTTGAGTCCGAGTTTGAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
* * * * *** * * *
29915242 TCCGAGCTCGTTGAGTTGAATTCAAGTTC-ACTTATGGATACGA-GCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
29915288 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
* *
29915335 TCCGAGCTCGTTGAGTTGAGTCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
29915364 ACTTATGGAT
Statistics
Matches: 96, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 35 0.36
47 61 0.64
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
Found at i:29917287 original size:14 final size:14
Alignment explanation
Indices: 29917268--29917301 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
29917258 TTTTTTTTTG
*
29917268 TTATTTTACTTAGT
1 TTATTTAACTTAGT
29917282 TTATTTAACTTAGT
1 TTATTTAACTTAGT
29917296 TATATT
1 T-TATT
29917302 CAATTTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (14 bp):
TTATTTAACTTAGT
Found at i:29923765 original size:38 final size:38
Alignment explanation
Indices: 29923714--29923788 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
29923704 GTATTCAGGT
* *
29923714 TAAATCCCGCAGGCTTCGTGCTAGTATTATATCCGGGA
1 TAAATCCCGCAGGCCTAGTGCTAGTATTATATCCGGGA
* *
29923752 TAAATCCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 TAAATCCCGCAGGCCTAGTGCTAGTATTATATCCGGG
29923789 CCTTCATGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (38 bp):
TAAATCCCGCAGGCCTAGTGCTAGTATTATATCCGGGA
Found at i:29923829 original size:43 final size:43
Alignment explanation
Indices: 29923781--29923978 Score: 306
Period size: 43 Copynumber: 4.6 Consensus size: 43
29923771 GCTGGTATTA
* * * *
29923781 TATTCGGGCCTTCATGCCTAGCAGGCTTGGTGTCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
29923824 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
29923867 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
** *
29923910 TATTCAAGCCTTCGTGCCTAGCAGGTTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
29923953 TATTCGGGCCTTCGTACCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
29923979 ATAATGCCGA
Statistics
Matches: 141, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 141 1.00
ACGTcount: A:0.13, C:0.24, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:29923987 original size:43 final size:43
Alignment explanation
Indices: 29923760--29923987 Score: 298
Period size: 43 Copynumber: 5.3 Consensus size: 43
29923750 GATAAATCCC
* * * *
29923760 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCATGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
29923801 GCAGGCTTGGTGTCAGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
29923844 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * **
29923887 GCAGGCTTCGTGTCGGTGATGTGTATTCAAGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
29923930 GCAGGTTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTACCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
29923973 GCAGGCATAATGCCG
1 GCAGGCTTAGTGCCG
29923988 ATGAAATGAT
Statistics
Matches: 162, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 12 0.07
42 2 0.01
43 148 0.91
ACGTcount: A:0.14, C:0.23, G:0.32, T:0.31
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:29924382 original size:45 final size:44
Alignment explanation
Indices: 29924308--29924434 Score: 136
Period size: 45 Copynumber: 2.9 Consensus size: 44
29924298 TTGACTTGAT
* * **
29924308 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA-AC
*
29924353 TATTTGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGT--GAAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAAC
* *
29924395 TGATATCGGGCC-TCGAGCCTAACAGGC-AAAATGCCGGTGA
1 T-AT-TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
29924435 TTTGAGAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
42 13 0.19
43 18 0.26
44 6 0.09
45 33 0.47
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (44 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAAC
Found at i:29925205 original size:27 final size:27
Alignment explanation
Indices: 29925151--29925244 Score: 161
Period size: 27 Copynumber: 3.4 Consensus size: 27
29925141 GGGTGTTACA
* *
29925151 AGAGCCACCAGAAACAGATATTTATGGC
1 AGAGCCACCAG-ATCAGATATTTGTGGC
29925179 AGAGCCACCAGATCAGATATTTGTGGC
1 AGAGCCACCAGATCAGATATTTGTGGC
29925206 AGAGCCACCAGATCAGATATTTGTGGC
1 AGAGCCACCAGATCAGATATTTGTGGC
29925233 AGAGCCACCAGA
1 AGAGCCACCAGA
29925245 ACGTTTCCTC
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 53 0.83
28 11 0.17
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
AGAGCCACCAGATCAGATATTTGTGGC
Found at i:29928688 original size:54 final size:54
Alignment explanation
Indices: 29928602--29928712 Score: 186
Period size: 54 Copynumber: 2.1 Consensus size: 54
29928592 AACAGTAAAA
29928602 GATAGTTATATGCAAAGGCAGAAATTCATCCATTCATGCATTCATATGTATTTT
1 GATAGTTATATGCAAAGGCAGAAATTCATCCATTCATGCATTCATATGTATTTT
* ** *
29928656 GATAGTTATATGCAAGGGCAGAAATTTGTCCATTCATGCATTTATATGTATTTT
1 GATAGTTATATGCAAAGGCAGAAATTCATCCATTCATGCATTCATATGTATTTT
29928710 GAT
1 GAT
29928713 TGAGGACAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.39
Consensus pattern (54 bp):
GATAGTTATATGCAAAGGCAGAAATTCATCCATTCATGCATTCATATGTATTTT
Found at i:29935467 original size:3 final size:3
Alignment explanation
Indices: 29935459--29935483 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
29935449 AACTAACAAG
29935459 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
29935484 CAAGTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:29948711 original size:43 final size:43
Alignment explanation
Indices: 29948614--29948736 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 43
29948604 ATCGAGATGT
* * * *
29948614 GATTACATGTAAGACCATGTCTAGGACATTGACATTGTATTGA
1 GATTGCATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* *
29948657 GATTGCGTGTAAGACCATGTTTGGGACATTGGCATCGTATT-A
1 GATTGCATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * * *
29948699 TGGTTTCATGTAAGACCCTGTCTGGGACAGTGGCATCG
1 -GATTGCATGTAAGACCATGTCTGGGACATTGGCATCG
29948737 ATATGTATCT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 1 0.01
43 66 0.99
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
GATTGCATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:29952026 original size:33 final size:33
Alignment explanation
Indices: 29951984--29952046 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
29951974 CACTTAGAAA
* *
29951984 TTGTTTTGGAGAGCCATATATATCATAATTTTC
1 TTGTTTTGGAGAGCCACATATATCACAATTTTC
*
29952017 TTGTTTTGGAGAGTCACATATATCACAATT
1 TTGTTTTGGAGAGCCACATATATCACAATT
29952047 ATATCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (33 bp):
TTGTTTTGGAGAGCCACATATATCACAATTTTC
Found at i:29952383 original size:12 final size:13
Alignment explanation
Indices: 29952361--29952389 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
29952351 CTTGGCAAAA
29952361 AAAACAATTATAT
1 AAAACAATTATAT
29952374 AAAA-AATTATAT
1 AAAACAATTATAT
29952386 AAAA
1 AAAA
29952390 TCATATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAACAATTATAT
Found at i:29959397 original size:13 final size:13
Alignment explanation
Indices: 29959379--29959404 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29959369 ATATATATAT
29959379 AGCCGAAGCTATC
1 AGCCGAAGCTATC
29959392 AGCCGAAGCTATC
1 AGCCGAAGCTATC
29959405 TCAAATTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
AGCCGAAGCTATC
Found at i:29959549 original size:88 final size:88
Alignment explanation
Indices: 29959392--29959557 Score: 262
Period size: 88 Copynumber: 1.9 Consensus size: 88
29959382 CGAAGCTATC
* * *
29959392 AGCCGAAGCTATCTCAAATTGCACAACAAGTGCCACTTTTAGCCAAAGCTATTTCAGACCGCACG
1 AGCCGAAGCTATCTCAAATTGCACAACAAGTGCCACTTTTAGCCAAAGCTATTTCAGACAGAACA
*
29959457 CTAAGTGCTATTTATATATATAT
66 CTAAGTGCCATTTATATATATAT
* *
29959480 AGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTTTAGCCGAAGCTATTTC-GAACAGAAC
1 AGCCGAAGCTATCTCAAATTGCACAACAAGTGCCACTTTTAGCCAAAGCTATTTCAG-ACAGAAC
29959544 ACTAAGTGCCATTT
65 ACTAAGTGCCATTT
29959558 TCGCTGATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
87 1 0.01
88 70 0.99
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (88 bp):
AGCCGAAGCTATCTCAAATTGCACAACAAGTGCCACTTTTAGCCAAAGCTATTTCAGACAGAACA
CTAAGTGCCATTTATATATATAT
Found at i:29959551 original size:40 final size:39
Alignment explanation
Indices: 29959479--29959558 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
29959469 TATATATATA
** *
29959479 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACAGAACACCAAGTGCCA-TTT
* * *
29959519 TAGCCGAAGCTATTTCGAACAGAACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAACAGAACACCAAGTGCCATTT
29959558 T
1 T
29959559 CGCTGATAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACAGAACACCAAGTGCCATTT
Found at i:29964409 original size:20 final size:20
Alignment explanation
Indices: 29964384--29964424 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
29964374 ATAAAAACAC
*
29964384 TTTTTAAGTAATATACTATT
1 TTTTTAAGTAATACACTATT
29964404 TTTTTAAGTAATACACTATT
1 TTTTTAAGTAATACACTATT
29964424 T
1 T
29964425 GTTATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTTTAAGTAATACACTATT
Found at i:29964486 original size:4 final size:4
Alignment explanation
Indices: 29964469--29964512 Score: 79
Period size: 4 Copynumber: 10.8 Consensus size: 4
29964459 AATGTTAAAG
29964469 TTAA TTATA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTA-A TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
29964513 TTATTTTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 35 0.90
5 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:29964738 original size:26 final size:26
Alignment explanation
Indices: 29964696--29964745 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
29964686 CTAATTACTC
*
29964696 TAATTAAAAATATAATATTTAAAAAA
1 TAATTAAAAATATAATATGTAAAAAA
29964722 TAATTAAATAATA-AATATGTAAAA
1 TAATTAAA-AATATAATATGTAAAA
29964746 TCACATATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
TAATTAAAAATATAATATGTAAAAAA
Found at i:29970228 original size:31 final size:31
Alignment explanation
Indices: 29970181--29970266 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
29970171 TATTTTCAAA
* *
29970181 GATTTTGGTTTCATGAGCCAGAAAGGAAAAAG
1 GATTCTGGCTTCATGAGCCAGAAAGG-AAAAG
29970213 G-TTCTGGCTTCATGAGCCAGAAAGGAAAAG
1 GATTCTGGCTTCATGAGCCAGAAAGGAAAAG
*
29970243 GATTCTGGCTTCATGAGTCAGAAA
1 GATTCTGGCTTCATGAGCCAGAAA
29970267 TAAACTCAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
30 6 0.12
31 43 0.86
32 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (31 bp):
GATTCTGGCTTCATGAGCCAGAAAGGAAAAG
Found at i:29970667 original size:29 final size:29
Alignment explanation
Indices: 29970634--29970691 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
29970624 ACATCACAAA
29970634 ATGTTAAAATT-T-ATTAATAATATATTTTT
1 ATGTT-AAATTATAATTAA-AATATATTTTT
29970663 ATGTTAAATTATAAATTAAAATATATTTT
1 ATGTTAAATTAT-AATTAAAATATATTTT
29970692 AAAAACATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 5 0.19
29 6 0.23
30 10 0.38
31 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (29 bp):
ATGTTAAATTATAATTAAAATATATTTTT
Found at i:29972325 original size:28 final size:28
Alignment explanation
Indices: 29972293--29972362 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
29972283 AATGAGATTG
29972293 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
29972321 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
29972349 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
29972363 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:29978172 original size:5 final size:5
Alignment explanation
Indices: 29978162--29978186 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
29978152 ATTTTCGCCG
29978162 AAGCT AAGCT AAGCT AAGCT AAGCT
1 AAGCT AAGCT AAGCT AAGCT AAGCT
29978187 TGATTAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
AAGCT
Found at i:29978584 original size:56 final size:56
Alignment explanation
Indices: 29978523--29978657 Score: 209
Period size: 56 Copynumber: 2.4 Consensus size: 56
29978513 CCATGGCATC
* *
29978523 GATATATATGTGCGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATAGGTTGGCATCGATATGTGATTCT
* * *
29978579 GATATATGTGCGCAAGTAAGGCCACGTTTAATAGGTTGGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATAGGTTGGCATCGATATGTGATTCT
29978635 G-TAATATGTGTGCGAGTAAGACC
1 GAT-ATATGTGTGCGAGTAAGACC
29978658 CTACTGGACA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
55 1 0.01
56 69 0.99
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTTTAATAGGTTGGCATCGATATGTGATTCT
Found at i:29986019 original size:46 final size:46
Alignment explanation
Indices: 29985952--29986126 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
29985942 TGTAACCCGC
29985952 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
29985998 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * *
29986048 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
29986091 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
29986127 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 63 0.57
47 26 0.24
48 1 0.01
49 1 0.01
50 6 0.05
51 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:29986072 original size:93 final size:93
Alignment explanation
Indices: 29985960--29986130 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
29985950 GCCCATAAGT
* * *
29985960 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
29986025 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
29986053 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
29986118 CGAGTTCGGATGC
66 CGAGCTCGGATGC
29986131 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:29986146 original size:46 final size:45
Alignment explanation
Indices: 29985957--29986146 Score: 156
Period size: 46 Copynumber: 4.1 Consensus size: 45
29985947 CCCGCCCATA
** *
29985957 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-ACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACATCC-T
*
29986002 AAGTGAACTTGGACTCAACTCAACGAGCTCGGATGC-CTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACATC-CT
* * *** *
29986052 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACATCC-T
*
29986095 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAA-CATCCT
29986142 AGTGA
1 AGTGA
29986147 CATGTCACTT
Statistics
Matches: 115, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
45 1 0.01
46 67 0.58
47 28 0.24
48 6 0.05
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACATCCT
Found at i:29988551 original size:15 final size:15
Alignment explanation
Indices: 29988525--29988580 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
29988515 CAAGGAAACC
29988525 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
29988540 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
29988555 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
29988570 GAATAAAGAAA
1 GAATAAAGAAA
29988581 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:29991630 original size:93 final size:93
Alignment explanation
Indices: 29991518--29991688 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
29991508 GCCCATAAGT
* *
29991518 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29991583 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
29991611 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
29991676 TGAGTTCGGATGC
66 CGAGCTCGGATGC
29991689 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:29991685 original size:46 final size:46
Alignment explanation
Indices: 29991512--29991685 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
29991502 TAACCCGCCC
* * *
29991512 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
*
29991558 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCT
* * *
29991608 CT---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
* *
29991651 ATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
29991686 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 7 0.06
44 1 0.01
46 62 0.57
47 28 0.26
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
Found at i:29994690 original size:34 final size:33
Alignment explanation
Indices: 29994633--29994698 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 33
29994623 GTAATAATAG
* *
29994633 TGTGGGCCTTAGCCCAATACAGTAATAGTATCAA
1 TGTGAGCCTTAGCCCAATACAGT-ACAGTATCAA
* *
29994667 TGTGAGCCTTAGCCCATTTCAGTACAGTATCA
1 TGTGAGCCTTAGCCCAATACAGTACAGTATCA
29994699 GTAATGCACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 8 0.29
34 20 0.71
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (33 bp):
TGTGAGCCTTAGCCCAATACAGTACAGTATCAA
Found at i:29997808 original size:39 final size:39
Alignment explanation
Indices: 29997725--29997870 Score: 159
Period size: 39 Copynumber: 3.7 Consensus size: 39
29997715 TGTATCTGGG
* *
29997725 CTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGG
1 CTTAAAGA-CCGCAGGCTATATGCTGGAATTATAACCGGA
*
29997765 CTTAAAGACTCGCAGGCTATATGCT-GAATTATACCCGGA
1 CTTAAAGAC-CGCAGGCTATATGCTGGAATTATAACCGGA
* * * * *
29997804 CTTAAGGTCCACAGGCTATGTACTGGAATTATAACCGGA
1 CTTAAAGACCGCAGGCTATATGCTGGAATTATAACCGGA
* * **
29997843 CTTAAGGTCCGCAGGCTACGTGCTGGAA
1 CTTAAAGACCGCAGGCTATATGCTGGAA
29997871 ATATGCCCGA
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
38 12 0.13
39 58 0.62
40 23 0.25
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (39 bp):
CTTAAAGACCGCAGGCTATATGCTGGAATTATAACCGGA
Found at i:30005609 original size:40 final size:40
Alignment explanation
Indices: 30005554--30005646 Score: 168
Period size: 40 Copynumber: 2.3 Consensus size: 40
30005544 ATTTGATGTG
30005554 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
30005594 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
* *
30005634 TACCCGGACTTAA
1 TATCCGGGCTTAA
30005647 GGTCCGCTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
Found at i:30008587 original size:69 final size:69
Alignment explanation
Indices: 30008476--30008611 Score: 263
Period size: 69 Copynumber: 2.0 Consensus size: 69
30008466 CAATGCCTCG
30008476 TAAGGTGCCATCTGTATGCTGGACTGGTAGCTATTATTGTACGCAAATTCTGCCAACGACAAGTA
1 TAAGGTGCCATCTGTATGCTGGACTGGTAGCTATTATTGTACGCAAATTCTGCCAACGACAAGTA
30008541 ATTT
66 ATTT
*
30008545 TAAGGTGCCATCTGTATGCTGGACTGGTAGCTATTATTGTACGCAAATTCTGCCAATGACAAGTA
1 TAAGGTGCCATCTGTATGCTGGACTGGTAGCTATTATTGTACGCAAATTCTGCCAACGACAAGTA
30008610 AT
66 AT
30008612 CCTCCCAACT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (69 bp):
TAAGGTGCCATCTGTATGCTGGACTGGTAGCTATTATTGTACGCAAATTCTGCCAACGACAAGTA
ATTT
Found at i:30010354 original size:23 final size:23
Alignment explanation
Indices: 30010324--30010371 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
30010314 GTCCTAAATG
*
30010324 TTGTCTTGTCAACATCAGTCTCC
1 TTGTCTTGTAAACATCAGTCTCC
30010347 TTGTCTTGTAAACATCAGTCTCC
1 TTGTCTTGTAAACATCAGTCTCC
30010370 TT
1 TT
30010372 AACCCTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (23 bp):
TTGTCTTGTAAACATCAGTCTCC
Found at i:30013458 original size:34 final size:34
Alignment explanation
Indices: 30013411--30013517 Score: 108
Period size: 34 Copynumber: 3.2 Consensus size: 34
30013401 TATAGTATTG
* * **
30013411 AACAGTCTCGGCCTAAGCCCAATTCAGTTGCAAT
1 AACAGTGTGGGCCTAAGCCCAATTCAGTAACAAT
* *
30013445 AACAGTGTGGGCCTCAGCCCAATACAGTAACAAT
1 AACAGTGTGGGCCTAAGCCCAATTCAGTAACAAT
* * * *
30013479 ATCAATGTGGGCCTTAGCCCATTTCAGT-ACAAT
1 AACAGTGTGGGCCTAAGCCCAATTCAGTAACAAT
*
30013512 ATCAGT
1 AACAGT
30013518 AATGCACACA
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
33 10 0.16
34 51 0.84
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (34 bp):
AACAGTGTGGGCCTAAGCCCAATTCAGTAACAAT
Found at i:30030592 original size:42 final size:43
Alignment explanation
Indices: 30030482--30030637 Score: 136
Period size: 43 Copynumber: 3.6 Consensus size: 43
30030472 GGTTGTTACA
* * * * * *
30030482 GCCAGTGTCCCAGACGTGGTCTTACATGTAATCATATATCAAT
1 GCCAATGTCCCAAACATGGTCTTACACGAAATCATATATCGAT
* * *
30030525 GCCACTGTCCCTAACAGGGTCTTACACGAAATCATATA-CGAT
1 GCCAATGTCCCAAACATGGTCTTACACGAAATCATATATCGAT
* * * *
30030567 GCCAATGTCCCAAACATGGTGTTACACATAAATCACAAATCGAT
1 GCCAATGTCCCAAACATGGTCTTACAC-GAAATCATATATCGAT
* * *
30030611 GCCAACGT-CCAAGACGTGGCCTTACAC
1 GCCAATGTCCCAA-ACATGGTCTTACAC
30030638 AATAACACAA
Statistics
Matches: 91, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
42 26 0.29
43 43 0.47
44 22 0.24
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
GCCAATGTCCCAAACATGGTCTTACACGAAATCATATATCGAT
Found at i:30035073 original size:12 final size:12
Alignment explanation
Indices: 30035056--30035085 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30035046 ACCACACGGT
30035056 CGTGTGATAGGC
1 CGTGTGATAGGC
*
30035068 CGTGTGGTAGGC
1 CGTGTGATAGGC
30035080 CGTGTG
1 CGTGTG
30035086 CCATAACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.17, G:0.47, T:0.27
Consensus pattern (12 bp):
CGTGTGATAGGC
Found at i:30043954 original size:68 final size:68
Alignment explanation
Indices: 30043881--30044032 Score: 168
Period size: 67 Copynumber: 2.2 Consensus size: 68
30043871 CATCATGTGT
* * * *
30043881 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGTAATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGGGTAATACCAGTGAAGGACACCA
30043944 TGTAG
64 TGTAG
* * ** *
30043949 ACAAGAGAGCTAC-AG-GATATATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGGGTAATACCA-GTGAAGGACACCAT
30044012 GTAG
65 GTAG
30044016 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
30044033 TAAACTGGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
64 22 0.31
65 3 0.04
66 3 0.04
67 27 0.39
68 15 0.21
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGGGTAATACCAGTGAAGGACACCATG
TAG
Found at i:30052458 original size:11 final size:11
Alignment explanation
Indices: 30052442--30052466 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30052432 GTTATGATTG
30052442 AATACCTTTAA
1 AATACCTTTAA
30052453 AATACCTTTAA
1 AATACCTTTAA
30052464 AAT
1 AAT
30052467 GTTCAATTTA
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (11 bp):
AATACCTTTAA
Found at i:30056113 original size:75 final size:75
Alignment explanation
Indices: 30056028--30056582 Score: 455
Period size: 75 Copynumber: 7.4 Consensus size: 75
30056018 TAGTATTGGA
* * * *
30056028 CACACCATTATATTTGTCGGTTTATATGACTAGCGCTTGGCACAACTTTCATCACTTTATCTGAC
1 CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCAATTTATCTTAC
*
30056093 TAGTGTTGGG
66 TAGTGCTGGG
* * * * *
30056103 TACACTATTATAGTTT-TTGGTTTATCTGACTAGTG-TTGGACACAACTTTCATCAATTTATCTT
1 CACACCATTATA-TTTGTCGGTTTATCTGACTAGCGCTAGG-CACAACTTTCATCAATTTATCTT
* *
30056166 ACTAATGCTAGG
64 ACTAGTGCTGGG
* * * * * *
30056178 CACACCATTATATTTTTCGGTTTATCTGACAAGTGCTAGTCACAACTTTCATCAGTTTCTCTTAC
1 CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCAATTTATCTTAC
*
30056243 TAGTG-TTGG
66 TAGTGCTGGG
* ** ** * * * **
30056252 CAACATCATTATATTTGTCAATTTATCCAACTAGCACTGGGTGCA-AACCTTT-GTTGATTTAT-
1 C-ACACCATTATATTTGTCGGTTTATCTGACTAGCGCT-AG-GCACAA-CTTTCATCAATTTATC
* *
30056314 TCAACTAGTGTTGGG
62 T-TACTAGTGCTGGG
* * * * * *
30056329 CACACCATTATATTTGTTGGTTTATAC-AACTAGCACTTGGCGCAACTTTCATCACTTTAT-TTG
1 CACACCATTATATTTGTCGGTTTAT-CTGACTAGCGCTAGGCACAACTTTCATCAATTTATCTT-
*
30056392 ACTAGTGCTAGG
64 ACTAGTGCTGGG
* * * * * **
30056404 CACACCATTGTAGTTT-TTGGTTTATCTGACTAGTGCCAAGTGCAACTTTCATCAATTTATCTTA
1 CACACCATTATA-TTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCAATTTATCTTA
**
30056468 CTAGCACTGGG
65 CTAGTGCTGGG
* * **
30056479 CACACCATTATATTTGTCGGTATATCTGACTATCGCTAGGCGTAACTTTCATCAATTTATCTTAC
1 CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCAATTTATCTTAC
*
30056544 TAGTGCT-AG
66 TAGTGCTGGG
* *
30056553 CAACATCATTATATTTGTTGGTTTATCTGA
1 C-ACACCATTATATTTGTCGGTTTATCTGA
30056583 TTAGTGCGGG
Statistics
Matches: 383, Mismatches: 78, Indels: 38
0.77 0.16 0.08
Matches are distributed among these distances:
74 23 0.06
75 294 0.77
76 55 0.14
77 11 0.03
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (75 bp):
CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCAATTTATCTTAC
TAGTGCTGGG
Found at i:30056526 original size:150 final size:151
Alignment explanation
Indices: 30056028--30056589 Score: 525
Period size: 150 Copynumber: 3.7 Consensus size: 151
30056018 TAGTATTGGA
* * *
30056028 CACACCATTATATTTGTCGGTTTATATGACTAGCGCTTGGCACAACTTTCATCACTTTATCTGAC
1 CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCACTTTATCTTAC
* ** * * **
30056093 TAGTG-TTGGGTACACTATTATAGTTT-TTGGTTTATCTGACTAGTG-TTGGACACAACTTTCAT
66 TAGTGCTAGGCAACACCATTATA-TTTGTTGGTTTATCTGACTAGTGCTAGG-TGCAACTTTCAT
* *
30056155 CAATTTATCTTACTAATGCTAGG
129 CAATTTATCTTACTAGTGCTGGG
* * * * * *
30056178 CACACCATTATATTTTTCGGTTTATCTGACAAGTGCTAGTCACAACTTTCATCAGTTTCTCTTAC
1 CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCACTTTATCTTAC
* * *** ** ** * *
30056243 TAGTG-TTGGCAACATCATTATATTTGTCAATTTATCCAACTAGCACTGGGTGCAAACCTTT-GT
66 TAGTGCTAGGCAACACCATTATATTTGTTGGTTTATCTGACTAGTGCTAGGTGC-AA-CTTTCAT
** * *
30056306 TGATTTAT-TCAACTAGTGTTGGG
129 CAATTTATCT-TACTAGTGCTGGG
* * * * *
30056329 CACACCATTATATTTGTTGGTTTATAC-AACTAGCACTTGGCGCAACTTTCATCACTTTAT-TTG
1 CACACCATTATATTTGTCGGTTTAT-CTGACTAGCGCTAGGCACAACTTTCATCACTTTATCTT-
* * *
30056392 ACTAGTGCTAGGC-ACACCATTGTAGTTT-TTGGTTTATCTGACTAGTGCCAAGTGCAACTTTCA
64 ACTAGTGCTAGGCAACACCATTATA-TTTGTTGGTTTATCTGACTAGTGCTAGGTGCAACTTTCA
**
30056455 TCAATTTATCTTACTAGCACTGGG
128 TCAATTTATCTTACTAGTGCTGGG
* * ** *
30056479 CACACCATTATATTTGTCGGTATATCTGACTATCGCTAGGCGTAACTTTCATCAATTTATCTTAC
1 CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCACTTTATCTTAC
* *
30056544 TAGTGCTA-GCAACATCATTATATTTGTTGGTTTATCTGATTAGTGC
66 TAGTGCTAGGCAACACCATTATATTTGTTGGTTTATCTGACTAGTGC
30056590 GGGGCACAAA
Statistics
Matches: 325, Mismatches: 72, Indels: 30
0.76 0.17 0.07
Matches are distributed among these distances:
149 13 0.04
150 196 0.60
151 104 0.32
152 12 0.04
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (151 bp):
CACACCATTATATTTGTCGGTTTATCTGACTAGCGCTAGGCACAACTTTCATCACTTTATCTTAC
TAGTGCTAGGCAACACCATTATATTTGTTGGTTTATCTGACTAGTGCTAGGTGCAACTTTCATCA
ATTTATCTTACTAGTGCTGGG
Found at i:30056544 original size:301 final size:301
Alignment explanation
Indices: 30055996--30056570 Score: 821
Period size: 301 Copynumber: 1.9 Consensus size: 301
30055986 CTGGGCACCC
* **
30055996 AACCTTTGTTGATTTATTTAACTAGTATTGGACACACCATTATATTTGTCGGTTTATATGACTAG
1 AACCTTTGTTGATTTATTCAACTAGTATTGGACACACCATTATATTTGTCGGTTTATACAACTAG
* * * * *
30056061 CGCTTGGCACAACTTTCATCACTTTATCTGACTAGTGTTGGGTACACTATTATAGTTTTTGGTTT
66 CACTTGGCACAACTTTCATCACTTTATCTGACTAGTGCTAGGCACACCATTATAGTTTTTGGTTT
*** **
30056126 ATCTGACTAGTGTTGGACACAACTTTCATCAATTTATCTTACTAATGCTAGGCACACCATTATAT
131 ATCTGACTAGTGCAAGACACAACTTTCATCAATTTATCTTACTAACACTAGGCACACCATTATAT
* * * * * * *
30056191 TTTTCGGTTTATCTGACAAGTGCTAGTCACAACTTTCATCAGTTTCTCTTACTAGTGTTGGCAAC
196 TTGTCGGTATATCTGACAAGTGCTAGGCACAACTTTCATCAATTTATCTTACTAGTGCTAGCAAC
30056256 ATCATTATATTTGTCAATTTATCCAACTAGCACTGGGTGCA
261 ATCATTATATTTGTCAATTTATCCAACTAGCACTGGGTGCA
* * *
30056297 AACCTTTGTTGATTTATTCAACTAGTGTTGGGCACACCATTATATTTGTTGGTTTATACAACTAG
1 AACCTTTGTTGATTTATTCAACTAGTATTGGACACACCATTATATTTGTCGGTTTATACAACTAG
* * *
30056362 CACTTGGCGCAACTTTCATCACTTTATTTGACTAGTGCTAGGCACACCATTGTAGTTTTTGGTTT
66 CACTTGGCACAACTTTCATCACTTTATCTGACTAGTGCTAGGCACACCATTATAGTTTTTGGTTT
** * *
30056427 ATCTGACTAGTGCCAAG-TGCAACTTTCATCAATTTATCTTACTAGCACTGGGCACACCATTATA
131 ATCTGACTAGTG-CAAGACACAACTTTCATCAATTTATCTTACTAACACTAGGCACACCATTATA
* **
30056491 TTTGTCGGTATATCTGACTA-TCGCTAGGCGTAACTTTCATCAATTTATCTTACTAGTGCTAGCA
195 TTTGTCGGTATATCTGACAAGT-GCTAGGCACAACTTTCATCAATTTATCTTACTAGTGCTAGCA
30056555 ACATCATTATATTTGT
259 ACATCATTATATTTGT
30056571 TGGTTTATCT
Statistics
Matches: 239, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
300 1 0.00
301 237 0.99
302 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.39
Consensus pattern (301 bp):
AACCTTTGTTGATTTATTCAACTAGTATTGGACACACCATTATATTTGTCGGTTTATACAACTAG
CACTTGGCACAACTTTCATCACTTTATCTGACTAGTGCTAGGCACACCATTATAGTTTTTGGTTT
ATCTGACTAGTGCAAGACACAACTTTCATCAATTTATCTTACTAACACTAGGCACACCATTATAT
TTGTCGGTATATCTGACAAGTGCTAGGCACAACTTTCATCAATTTATCTTACTAGTGCTAGCAAC
ATCATTATATTTGTCAATTTATCCAACTAGCACTGGGTGCA
Found at i:30067184 original size:40 final size:40
Alignment explanation
Indices: 30067110--30067291 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
30067100 AACCCAAGTA
* *
30067110 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
30067149 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
30067189 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
30067229 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
30067269 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30067292 CATTCGAATA
Statistics
Matches: 134, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 12 0.09
40 119 0.89
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:30074765 original size:40 final size:40
Alignment explanation
Indices: 30074691--30074832 Score: 198
Period size: 40 Copynumber: 3.6 Consensus size: 40
30074681 AACCCAAGTA
* *
30074691 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
** *
30074730 CCTTTAGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
30074770 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
30074810 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30074833 CATTCGAATA
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
39 10 0.11
40 77 0.86
41 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:30082713 original size:34 final size:34
Alignment explanation
Indices: 30082637--30082731 Score: 86
Period size: 34 Copynumber: 2.8 Consensus size: 34
30082627 CTGATATTGT
* * * * **
30082637 ACTGAAATGGGC-TAAGCCCACATTGATATTGTT
1 ACTGAATTGGGCTTAGGCCCACACTGTTATTGCA
*
30082670 ACTGTATTGGG-TTGAGGCCCACACTGTTATTGCA
1 ACTGAATTGGGCTT-AGGCCCACACTGTTATTGCA
* *
30082704 ACTGAATTGGGCTTAGGCCGAGACTGTT
1 ACTGAATTGGGCTTAGGCCCACACTGTT
30082732 CAATACTATA
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
33 10 0.20
34 37 0.76
35 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (34 bp):
ACTGAATTGGGCTTAGGCCCACACTGTTATTGCA
Found at i:30087609 original size:69 final size:69
Alignment explanation
Indices: 30087498--30087633 Score: 263
Period size: 69 Copynumber: 2.0 Consensus size: 69
30087488 CAGTTGGAGG
30087498 ATTACTTGTCATTGGCAGAATTTGCGTACAATAATAGCTACCAGTCCAGCATACAGATGGCACCT
1 ATTACTTGTCATTGGCAGAATTTGCGTACAATAATAGCTACCAGTCCAGCATACAGATGGCACCT
30087563 TAAA
66 TAAA
*
30087567 ATTACTTGTCGTTGGCAGAATTTGCGTACAATAATAGCTACCAGTCCAGCATACAGATGGCACCT
1 ATTACTTGTCATTGGCAGAATTTGCGTACAATAATAGCTACCAGTCCAGCATACAGATGGCACCT
30087632 TA
66 TA
30087634 CGAGGCATTG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (69 bp):
ATTACTTGTCATTGGCAGAATTTGCGTACAATAATAGCTACCAGTCCAGCATACAGATGGCACCT
TAAA
Found at i:30090465 original size:38 final size:40
Alignment explanation
Indices: 30090350--30090537 Score: 140
Period size: 40 Copynumber: 4.8 Consensus size: 40
30090340 AACCAATTAG
* * *
30090350 CAGCACA-AGCCTGCGGGA-ATTCAAACCCGG-TATAATAC
1 CAGCACATAGCCTGCGGGACCTT-AAGCCCGGATATAATTC
* ** * * *
30090388 CAGCTCGA-AGCCTG-GGGA-CTTTTGCCAGGACATATTTC
1 CAGCAC-ATAGCCTGCGGGACCTTAAGCCCGGATATAATTC
* * *
30090426 CAGCACGTAGCC-GC-GGACCTTAAGTCCGGGTATAATTC
1 CAGCACATAGCCTGCGGGACCTTAAGCCCGGATATAATTC
* * *
30090464 CAGCATATAGCCTGCGGGTCTTTAAGCCCGGATATAATTC
1 CAGCACATAGCCTGCGGGACCTTAAGCCCGGATATAATTC
* * *
30090504 CAGCATATAGCCTGCGGGTCTTTAAGCCCGGATA
1 CAGCACATAGCCTGCGGGACCTTAAGCCCGGATA
30090538 CACATCAAAT
Statistics
Matches: 119, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
37 8 0.07
38 48 0.40
39 9 0.08
40 54 0.45
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CAGCACATAGCCTGCGGGACCTTAAGCCCGGATATAATTC
Found at i:30090500 original size:40 final size:40
Alignment explanation
Indices: 30090445--30090537 Score: 168
Period size: 40 Copynumber: 2.3 Consensus size: 40
30090435 GCCGCGGACC
* *
30090445 TTAAGTCCGGGTATAATTCCAGCATATAGCCTGCGGGTCT
1 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCT
30090485 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCT
1 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCT
30090525 TTAAGCCCGGATA
1 TTAAGCCCGGATA
30090538 CACATCAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (40 bp):
TTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCT
Found at i:30109667 original size:40 final size:40
Alignment explanation
Indices: 30109609--30109793 Score: 275
Period size: 40 Copynumber: 4.6 Consensus size: 40
30109599 CGGATGATAA
* *
30109609 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATA-T
* *
30109649 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
*
30109689 CCAGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
*
30109729 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
*
30109769 CCGGGCTAAGT-TTCGAAGGCATTTG
1 CCGGGCTAAGTCCT-GAAGGCATTTG
30109794 AGCAAGTAGT
Statistics
Matches: 133, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 131 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
Found at i:30109808 original size:80 final size:79
Alignment explanation
Indices: 30109605--30109825 Score: 259
Period size: 80 Copynumber: 2.8 Consensus size: 79
30109595 TATTCGGATG
* * *
30109605 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCAAGT-ATTATA-TCCGGGCTAAGTCCCGAAGGC
30109669 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * * * *
30109685 ATATCCAGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCTGAAGGCA
1 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCAAG-TATTATATCCGGGCTAAGTCCCGAAGGCA
30109750 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* * * * *
30109765 ATAACCGGGCTAAGT-TTCGAAGGCATTTGAGCAAGTAGTTATATTC-GGCAAAATCCCGAAG
1 ATAACCGGGCTAAGTCCT-GAAGGCATTTGTGCAAGTA-TTATATCCGGGCTAAGTCCCGAAG
30109826 ATGCTTGAGT
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
79 15 0.12
80 105 0.86
81 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTATTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:30110093 original size:22 final size:21
Alignment explanation
Indices: 30110052--30110095 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
30110042 GAATGTGCAT
30110052 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
30110074 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
30110096 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:30124784 original size:46 final size:47
Alignment explanation
Indices: 30124680--30124791 Score: 136
Period size: 48 Copynumber: 2.4 Consensus size: 47
30124670 TGTCTTCGAC
** * * * *
30124680 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATCTAAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCA-ATATATCTAAT
* *
30124728 ATGGGCTTACATGGCTCAATCCTATCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCAATATATCTAAT
30124774 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
30124792 TTTCTGTCCT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 27 0.49
48 28 0.51
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (47 bp):
ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCAATATATCTAAT
Found at i:30131921 original size:46 final size:47
Alignment explanation
Indices: 30131836--30131928 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 47
30131826 CCTGAATTAT
* * *
30131836 TCCTGTCTCCAATGCCATATATATCTAATATGGGCTTACATGGCTCAA
1 TCCTATCTCCAAAGCCA-ATATATCTAATATGGACTTACATGGCTCAA
*
30131884 TCCTATCTCCAAAGCC-ATATATCTGATATGGACTTACATGGCTCA
1 TCCTATCTCCAAAGCCAATATATCTAATATGGACTTACATGGCTCA
30131929 TTTCTGTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 27 0.66
48 14 0.34
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (47 bp):
TCCTATCTCCAAAGCCAATATATCTAATATGGACTTACATGGCTCAA
Found at i:30144085 original size:49 final size:49
Alignment explanation
Indices: 30144032--30144263 Score: 320
Period size: 49 Copynumber: 4.7 Consensus size: 49
30144022 CTGGTACGCA
* * *
30144032 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
30144081 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
30144130 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
30144180 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
*
30144231 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
30144264 TCACAATAGA
Statistics
Matches: 164, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
49 80 0.49
50 44 0.27
51 39 0.24
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:30144263 original size:101 final size:99
Alignment explanation
Indices: 30144019--30144264 Score: 350
Period size: 101 Copynumber: 2.5 Consensus size: 99
30144009 TAGCCAAAGC
* * * ** *
30144019 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACGTA
30144083 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
66 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * *
30144117 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACGTA
*
30144182 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
66 GTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* *
30144218 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCT
30144265 CACAATAGAT
Statistics
Matches: 129, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
98 40 0.31
99 43 0.33
100 1 0.01
101 45 0.35
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (99 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACGTA
GTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:30147821 original size:43 final size:43
Alignment explanation
Indices: 30147768--30148008 Score: 355
Period size: 43 Copynumber: 5.6 Consensus size: 43
30147758 CCAACGTCCT
* *
30147768 AGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCC
1 AGACGTGGTCTTACACGTAATCACATATCGATGCCACTATCCC
30147811 AGACAG-GGTCTTACACGTAATCACATATCGATGCCAAC-ATCCC
1 AGAC-GTGGTCTTACACGTAATCACATATCGATGCC-ACTATCCC
*
30147854 AGACGTGGTCTTACACATAATCACATATCGATGCCAAC-ATCCC
1 AGACGTGGTCTTACACGTAATCACATATCGATGCC-ACTATCCC
*
30147897 AGACGTGGTCTTACACATAATCACATATCGATGCCACTATCCC
1 AGACGTGGTCTTACACGTAATCACATATCGATGCCACTATCCC
* *
30147940 AGACAG-GGTCTTACACGTAATCACATATCGATGCCAATGTCCC
1 AGAC-GTGGTCTTACACGTAATCACATATCGATGCCACTATCCC
*
30147983 AAACGTGGTCTTACACGTAATCACAT
1 AGACGTGGTCTTACACGTAATCACAT
30148009 GTAACACCCC
Statistics
Matches: 185, Mismatches: 7, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
42 4 0.02
43 177 0.96
44 4 0.02
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
AGACGTGGTCTTACACGTAATCACATATCGATGCCACTATCCC
Found at i:30147989 original size:129 final size:129
Alignment explanation
Indices: 30147755--30148008 Score: 427
Period size: 129 Copynumber: 2.0 Consensus size: 129
30147745 ATATCGTACA
* * ** *
30147755 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACATCCCAGACGTGGTCTTACACATAATCACATATCGATGCCACTATCCCAGACAGGGT
*
30147820 CTTACACGTAATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACATAATCACATATCG
66 CTTACACGTAATCACATATCGATGCCAACATCCCAAACGTGGTCTTACACATAATCACATATCG
30147884 ATGCCAACATCCCAGACGTGGTCTTACACATAATCACATATCGATGCCACTATCCCAGACAGGGT
1 ATGCCAACATCCCAGACGTGGTCTTACACATAATCACATATCGATGCCACTATCCCAGACAGGGT
** *
30147949 CTTACACGTAATCACATATCGATGCCAATGTCCCAAACGTGGTCTTACACGTAATCACAT
66 CTTACACGTAATCACATATCGATGCCAACATCCCAAACGTGGTCTTACACATAATCACAT
30148009 GTAACACCCC
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 116 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (129 bp):
ATGCCAACATCCCAGACGTGGTCTTACACATAATCACATATCGATGCCACTATCCCAGACAGGGT
CTTACACGTAATCACATATCGATGCCAACATCCCAAACGTGGTCTTACACATAATCACATATCG
Found at i:30149681 original size:68 final size:64
Alignment explanation
Indices: 30149540--30149690 Score: 162
Period size: 68 Copynumber: 2.3 Consensus size: 64
30149530 TGGAACCACG
* * * * * *
30149540 CATGCAACCTAGCAACATATATTCTGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCATC
1 CATGCGACCTAGCTACATATATTCTGTAGCTCTCTTGTCTACATGATGTACACATAGCACCATA
*
30149604 CATGCGACCTAGCTACATCATAATGTCTCGTAGCTCTCTTGTAC-ACATGATGTGCAC-TCAGCA
1 CATGCGACCTAGCTACAT-AT-AT-TCT-GTAGCTCTCTTGT-CTACATGATGTACACAT-AGCA
30149667 CCATA
60 CCATA
*
30149672 CATGTGACCTAGCTACATA
1 CATGCGACCTAGCTACATA
30149691 CCATCTATAT
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 16 0.22
65 2 0.03
66 2 0.03
67 5 0.07
68 47 0.64
69 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (64 bp):
CATGCGACCTAGCTACATATATTCTGTAGCTCTCTTGTCTACATGATGTACACATAGCACCATA
Found at i:30150452 original size:31 final size:30
Alignment explanation
Indices: 30150412--30150474 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
30150402 GTCATTAACT
30150412 TAAAATTTTGGCAAAATT-ACAATTTTTCCCC
1 TAAAATTTT-GC-AAATTCACAATTTTTCCCC
* * *
30150443 TAAACTTTTGCATATTCACACTTTTTCCCC
1 TAAAATTTTGCAAATTCACAATTTTTCCCC
30150473 TA
1 TA
30150475 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 4 0.14
30 16 0.57
31 8 0.29
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
TAAAATTTTGCAAATTCACAATTTTTCCCC
Found at i:30154050 original size:48 final size:48
Alignment explanation
Indices: 30153998--30154204 Score: 188
Period size: 48 Copynumber: 4.3 Consensus size: 48
30153988 ACTATATATG
* * *
30153998 GGATATGGCATCAGCATCGAAATGAGATCCCGTGTAAGACCATTTCTA
1 GGATATGGCATCGGCATCGATATGAGATCCCGTATAAGACCATTTCTA
* * * *
30154046 GGATATGGCATCGGCATCGAGATGAGATCCCGTGA-AA-ACCATATATG
1 GGATATGGCATCGGCATCGATATGAGATCCCGT-ATAAGACCATTTCTA
* * * *
30154093 GGATATGACATTGGCATC-AGTATGAGATCCCCTATAAGACCATATT-TG
1 GGATATGGCATCGGCATCGA-TATGAGATCCCGTATAAGACCAT-TTCTA
* * * * * * *
30154141 GGATATAGAATTGGCATTGATATGAGGTCCCGTATAAGGCCATGTCTA
1 GGATATGGCATCGGCATCGATATGAGATCCCGTATAAGACCATTTCTA
*
30154189 GGACATGGCATCGGCA
1 GGATATGGCATCGGCA
30154205 CCATTATGAG
Statistics
Matches: 128, Mismatches: 24, Indels: 14
0.77 0.14 0.08
Matches are distributed among these distances:
46 2 0.02
47 37 0.29
48 87 0.68
49 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
GGATATGGCATCGGCATCGATATGAGATCCCGTATAAGACCATTTCTA
Found at i:30154157 original size:95 final size:95
Alignment explanation
Indices: 30153991--30154173 Score: 217
Period size: 95 Copynumber: 1.9 Consensus size: 95
30153981 ATATAAGACT
* * * * *
30153991 ATATATGGGATATGGCATCAGCATCGAAATGAGATCCCGTGTAAGACCATTTCTAGGATATGGCA
1 ATATATGGGATATGACATCAGCATCGAAATGAGATCCCCTATAAGACCATTTCTAGGATATAGAA
30154056 TCGGCATCGAGATGAGATCCCGTGAAAACC
66 TCGGCATCGAGATGAGATCCCGTGAAAACC
** * *
30154086 ATATATGGGATATGACATTGGCATC-AGTATGAGATCCCCTATAAGACCATATT-TGGGATATAG
1 ATATATGGGATATGACATCAGCATCGA-AATGAGATCCCCTATAAGACCAT-TTCTAGGATATAG
* * * *
30154149 AATTGGCATTGATATGAGGTCCCGT
64 AATCGGCATCGAGATGAGATCCCGT
30154174 ATAAGGCCAT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
94 1 0.01
95 70 0.96
96 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (95 bp):
ATATATGGGATATGACATCAGCATCGAAATGAGATCCCCTATAAGACCATTTCTAGGATATAGAA
TCGGCATCGAGATGAGATCCCGTGAAAACC
Found at i:30159243 original size:40 final size:40
Alignment explanation
Indices: 30159206--30159391 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
30159196 GCTACTCGTT
* *
30159206 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
30159246 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
30159286 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
30159326 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
30159367 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
30159392 CATCATTCAA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30170194 original size:53 final size:53
Alignment explanation
Indices: 30170066--30170320 Score: 216
Period size: 55 Copynumber: 4.8 Consensus size: 53
30170056 ACACGGGTAC
* ** * *
30170066 CTTACCATTGCCATGATTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
30170115 CTTACCATTGCCATGTCTTGACATGGTCTGACATGGTAGCCTTGCCTTACG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* ** * *
30170168 CTCACCAATGCCATGCCTTGGGATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * * * *
30170223 CTTATCAATGCCGTGTCTTGACATTGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
30170276 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
30170321 AACCCCTAAT
Statistics
Matches: 162, Mismatches: 32, Indels: 18
0.76 0.15 0.08
Matches are distributed among these distances:
49 37 0.23
52 4 0.02
53 43 0.27
54 11 0.07
55 65 0.40
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:30170257 original size:108 final size:110
Alignment explanation
Indices: 30170113--30170310 Score: 276
Period size: 108 Copynumber: 1.8 Consensus size: 110
30170103 ATCCTTTTGA
* *
30170113 AACTTACCATTGCCATGTCTTGACATGGTCTGACATGGTAGCCTTGCCTTACG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTA-GAAACCTCACCAA
*
30170176 -TGCCATGCCTTGGGATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * ** *
30170221 AACTTATCAATGCCGTGTCTTGACATTGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTAGAAACCTCACCAAT
30170286 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
30170311 CGGTATCCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 45 0.58
109 7 0.09
110 24 0.31
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:30177168 original size:16 final size:16
Alignment explanation
Indices: 30177149--30177179 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30177139 CTTCTTCACT
30177149 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
30177165 TACTTACTTACTTAA
1 TACTCACTTACTTAA
30177180 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:30177185 original size:20 final size:20
Alignment explanation
Indices: 30177146--30177185 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30177136 AAACTTCTTC
* *
30177146 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
30177166 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
30177186 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:30177566 original size:108 final size:110
Alignment explanation
Indices: 30177422--30177619 Score: 276
Period size: 108 Copynumber: 1.8 Consensus size: 110
30177412 ATCCTTTTGA
* *
30177422 AACTTACCATTGCCATGTCTTGACATGGTCTGACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTA-GAAACCTCACCAA
* *
30177485 -TGCCATGCGTTGGGATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * ** *
30177530 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTAGAAACCTCACCAAT
*
30177595 TTCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
30177620 CGGTATCCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.61
109 7 0.09
110 22 0.29
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:30177629 original size:55 final size:54
Alignment explanation
Indices: 30177375--30177629 Score: 224
Period size: 55 Copynumber: 4.8 Consensus size: 54
30177365 ACACAGGTAC
* * *
30177375 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
30177424 CTTACC-ATTGCCATGTCTTGACATGGTCTGACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * ** * *
30177477 CTCACCAA-TGCCATGCGTTGGGATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * *
30177532 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
30177585 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
30177630 AAACCCTAAT
Statistics
Matches: 164, Mismatches: 29, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
49 38 0.23
52 4 0.02
53 41 0.25
54 12 0.07
55 67 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:30179763 original size:45 final size:45
Alignment explanation
Indices: 30179649--30180002 Score: 489
Period size: 45 Copynumber: 7.8 Consensus size: 45
30179639 GGAAAGAACT
*
30179649 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAC
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATG-C-----C
*
30179700 GGTGAGATGTTATTCGGGCCTTTGAGACTAGCAGGCTATAATGCC
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
**
30179745 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTT
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* *
30179790 GGTGAGATGTTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGAC
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
30179835 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGATATAATGCC
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
30179880 GGTGAGATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
** * *
30179925 GGTGAGATACTATTCGGG-CTTTCGAGCCTAACAGGCTATAATACC
1 GGTGAGATGTTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCC
* * *
30179970 GGTGAAATGATA-TCGGGCC-TCGAGCCTAGCAGG
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGG
30180003 TGAAATGCCA
Statistics
Matches: 280, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
43 11 0.04
44 10 0.04
45 217 0.77
50 1 0.00
51 41 0.15
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (45 bp):
GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
Found at i:30182293 original size:22 final size:22
Alignment explanation
Indices: 30182265--30182315 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
30182255 GGACTGTTTT
30182265 GATAAATGTGAATATTAAATAA
1 GATAAATGTGAATATTAAATAA
30182287 GATAAATGTGAATATTAAATAA
1 GATAAATGTGAATATTAAATAA
*
30182309 GTTAAAT
1 GATAAAT
30182316 TTTCTATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (22 bp):
GATAAATGTGAATATTAAATAA
Found at i:30200432 original size:46 final size:46
Alignment explanation
Indices: 30200382--30200647 Score: 305
Period size: 46 Copynumber: 5.7 Consensus size: 46
30200372 TGGTTGAGCA
*
30200382 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30200428 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30200473 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30200521 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
30200566 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
30200614 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
30200648 GGGGCAGGTT
Statistics
Matches: 186, Mismatches: 16, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 89 0.48
47 57 0.31
48 6 0.03
50 10 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30200491 original size:93 final size:93
Alignment explanation
Indices: 30200379--30200642 Score: 510
Period size: 93 Copynumber: 2.8 Consensus size: 93
30200369 GGATGGTTGA
30200379 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
30200444 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
30200472 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
30200537 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
30200565 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
30200630 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30200643 ACTTAGGGGC
Statistics
Matches: 169, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 169 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30200494 original size:47 final size:47
Alignment explanation
Indices: 30200428--30200596 Score: 231
Period size: 47 Copynumber: 3.6 Consensus size: 47
30200418 GATGCGAATG
30200428 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * * *
30200475 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
30200521 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
30200568 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
30200597 ACTTATGGAT
Statistics
Matches: 105, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 28 0.27
47 57 0.54
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:30210824 original size:27 final size:27
Alignment explanation
Indices: 30210794--30210970 Score: 176
Period size: 27 Copynumber: 6.6 Consensus size: 27
30210784 ATATTGAGTC
* *
30210794 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30210821 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30210848 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
30210876 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
30210903 CGCACACTTAGTGC-ACATATTCGTTT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
30210929 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30210956 CCCACACTTAGTGCT
1 CGCACACTTAGTGCT
30210971 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.17
27 82 0.65
28 23 0.18
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30210886 original size:55 final size:54
Alignment explanation
Indices: 30210794--30210970 Score: 203
Period size: 55 Copynumber: 3.3 Consensus size: 54
30210784 ATATTGAGTC
* * * * *
30210794 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
30210848 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* ***
30210903 CGCACACTTAGTGC-ACATATTCGTTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
*
30210956 CCCACACTTAGTGCT
1 CGCACACTTAGTGCT
30210971 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
53 37 0.36
54 27 0.26
55 39 0.38
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:30218898 original size:27 final size:27
Alignment explanation
Indices: 30218868--30219045 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
30218858 ATATTGAGTC
* * * *
30218868 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30218895 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
30218922 CGCACACTCAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30218950 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30218977 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30219004 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30219031 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30219046 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30219007 original size:82 final size:81
Alignment explanation
Indices: 30218889--30219044 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30218879 TGCTATATAA
* *
30218889 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTCAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTCAGTGCAACATAGTCAAA-TCGCA
30218954 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
30218971 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTCAGTGCAACATAGTCAAATCGCA
30219035 CACTTAGTGC
65 CACTTAGTGC
30219045 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTCAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30219545 original size:12 final size:12
Alignment explanation
Indices: 30219528--30219554 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30219518 ATGGCATACT
30219528 TATGTATATATA
1 TATGTATATATA
30219540 TATGTATATATA
1 TATGTATATATA
30219552 TAT
1 TAT
30219555 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:30221808 original size:12 final size:12
Alignment explanation
Indices: 30221791--30221817 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30221781 ATTCCGAAGT
30221791 ATATATATATAC
1 ATATATATATAC
30221803 ATATATATATAC
1 ATATATATATAC
30221815 ATA
1 ATA
30221818 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:30222331 original size:27 final size:27
Alignment explanation
Indices: 30222300--30222477 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
30222290 TAAATTGTAC
30222300 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30222327 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
30222353 ATGCACTAAGTGTGCGAATTGACCT-TGC
1 A-GCACTAAGTGTGCGATTTGA-CTATGT
* *
30222381 GGCACTAAGTGTGGGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30222409 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30222436 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30222463 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30222478 GACTCAATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
27 106 0.83
28 21 0.17
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Done.