Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 136 of 163
Found at i:36823640 original size:23 final size:23
Alignment explanation
Indices: 36823597--36823641 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
36823587 AAAAAAAATC
**
36823597 AACTCGATTCGTTTAACTCGAAT
1 AACTCGATTCGAATAACTCGAAT
*
36823620 AACTCGATTCGAATAATTCGAA
1 AACTCGATTCGAATAACTCGAA
36823642 ATTCGAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (23 bp):
AACTCGATTCGAATAACTCGAAT
Found at i:36825079 original size:26 final size:26
Alignment explanation
Indices: 36825050--36825107 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
36825040 ATACCTATCC
* *
36825050 AAATTTTGAC-AGTTTTACCCGTGGTA
1 AAATTTTGACGA-TTTTACCCCTGATA
*
36825076 AAATTTTGACGATTTTGCCCCTGATA
1 AAATTTTGACGATTTTACCCCTGATA
36825102 AAATTT
1 AAATTT
36825108 CGAGAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (26 bp):
AAATTTTGACGATTTTACCCCTGATA
Found at i:36825703 original size:17 final size:19
Alignment explanation
Indices: 36825667--36825706 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
36825657 ACTGACTCCA
*
36825667 TTTATATTTTCTAGTTTAT
1 TTTATATTTTCTAGTATAT
36825686 TTTATA-TTT-TAGTATAT
1 TTTATATTTTCTAGTATAT
36825703 TTTA
1 TTTA
36825707 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 3 0.15
19 6 0.30
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTATATTTTCTAGTATAT
Found at i:36825863 original size:15 final size:17
Alignment explanation
Indices: 36825833--36825864 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
36825823 GTTAAAATCT
36825833 TTTTATGTATTTATATA
1 TTTTATGTATTTATATA
36825850 TTTTAT-TA-TTATATA
1 TTTTATGTATTTATATA
36825865 AATATTGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTATGTATTTATATA
Found at i:36826959 original size:16 final size:15
Alignment explanation
Indices: 36826938--36826971 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
36826928 GTGTAATAAA
*
36826938 TATATATTTGATTTTT
1 TATATATTT-ATATTT
36826954 TATATATTTATATTT
1 TATATATTTATATTT
36826969 TAT
1 TAT
36826972 TTTAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TATATATTTATATTT
Found at i:36826980 original size:22 final size:22
Alignment explanation
Indices: 36826940--36826982 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
36826930 GTAATAAATA
**
36826940 TATATTTGATTTTTTATATATT
1 TATATTTGATTTTAAATATATT
*
36826962 TATATTTTATTTTAAATATAT
1 TATATTTGATTTTAAATATAT
36826983 GATTTCTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATATTTGATTTTAAATATATT
Found at i:36827175 original size:13 final size:13
Alignment explanation
Indices: 36827157--36827181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36827147 CCGTTTACTT
36827157 ATAAAAGAAGAAG
1 ATAAAAGAAGAAG
36827170 ATAAAAGAAGAA
1 ATAAAAGAAGAA
36827182 ACAGACGTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (13 bp):
ATAAAAGAAGAAG
Found at i:36828801 original size:27 final size:28
Alignment explanation
Indices: 36828746--36828797 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
36828736 TATTACCAAA
36828746 ACAAAGCATAAAAATAAATTCAAATGTT
1 ACAAAGCATAAAAATAAATTCAAATGTT
36828774 ACAAAGC-TAAAACA-AAA-TCAAATG
1 ACAAAGCATAAAA-ATAAATTCAAATG
36828798 GTTAGTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.30
27 8 0.35
28 8 0.35
ACGTcount: A:0.60, C:0.13, G:0.08, T:0.19
Consensus pattern (28 bp):
ACAAAGCATAAAAATAAATTCAAATGTT
Found at i:36830839 original size:26 final size:26
Alignment explanation
Indices: 36830788--36830841 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
36830778 AATTATTTCC
*
36830788 TTATTTCAAATTTTCATTTACTAAGT
1 TTATTTCAAATTTTCATTTACAAAGT
* *
36830814 TTATTTTAATATTTTTATTTA-AAAGT
1 TTATTTCAA-ATTTTCATTTACAAAGT
36830840 TT
1 TT
36830842 TAAAGTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (26 bp):
TTATTTCAAATTTTCATTTACAAAGT
Found at i:36841447 original size:20 final size:20
Alignment explanation
Indices: 36841422--36841490 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
36841412 ATTAATTATT
*
36841422 ATAAAAATTATAAACAGATA
1 ATAAAAATTATTAACAGATA
** *
36841442 AT-AAAA-TATTAA-TTATT
1 ATAAAAATTATTAACAGATA
*
36841459 ATAAAAATTATTAGCAGATA
1 ATAAAAATTATTAACAGATA
36841479 ATAAAAATTATT
1 ATAAAAATTATT
36841491 CTTTAAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 4 0.11
18 9 0.24
19 9 0.24
20 16 0.42
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (20 bp):
ATAAAAATTATTAACAGATA
Found at i:36841448 original size:37 final size:37
Alignment explanation
Indices: 36841406--36841500 Score: 142
Period size: 37 Copynumber: 2.6 Consensus size: 37
36841396 ATTTATTTTT
36841406 TAAAATATTAATTATTATAAAAATTATAAACAGATAA
1 TAAAATATTAATTATTATAAAAATTATAAACAGATAA
* *
36841443 TAAAATATTAATTATTATAAAAATTATTAGCAGATAA
1 TAAAATATTAATTATTATAAAAATTATAAACAGATAA
*
36841480 TAAAA-ATT-ATTCTT-TAAAAAT
1 TAAAATATTAATTATTATAAAAAT
36841501 ATTATGTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
34 7 0.13
35 5 0.09
36 3 0.05
37 40 0.73
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (37 bp):
TAAAATATTAATTATTATAAAAATTATAAACAGATAA
Found at i:36841503 original size:13 final size:14
Alignment explanation
Indices: 36841480--36841517 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
36841470 TAGCAGATAA
*
36841480 TAAAAATTATTCT-T
1 TAAAAA-TATTATGT
36841494 TAAAAATATTATGT
1 TAAAAATATTATGT
36841508 TAAAAATATT
1 TAAAAATATT
36841518 TTTTGAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (14 bp):
TAAAAATATTATGT
Found at i:36841515 original size:14 final size:13
Alignment explanation
Indices: 36841480--36841530 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
36841470 TAGCAGATAA
*
36841480 TAAAAATTATTCTT
1 TAAAAA-TATTATT
36841494 TAAAAATATTATGT
1 TAAAAATATTAT-T
36841508 TAAAAATATT-TT
1 TAAAAATATTATT
**
36841520 TTGAAATATTA
1 TAAAAATATTA
36841531 ATTACTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 9 0.28
13 6 0.19
14 17 0.53
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (13 bp):
TAAAAATATTATT
Found at i:36841745 original size:6 final size:6
Alignment explanation
Indices: 36841717--36841795 Score: 83
Period size: 6 Copynumber: 13.2 Consensus size: 6
36841707 AGTTAAATTG
*
36841717 ATTTAA ATTAAA ATTT-- ATCTTAA ATTTAA ATTTAA TTATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA --ATTTAA ATTTAA
* *
36841765 CTTTAA ATTTAA ATTTAA ATTAAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
36841796 CACTAAACAT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
4 2 0.03
5 6 0.10
6 45 0.74
7 2 0.03
8 6 0.10
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (6 bp):
ATTTAA
Found at i:36841776 original size:17 final size:16
Alignment explanation
Indices: 36841709--36841795 Score: 88
Period size: 17 Copynumber: 5.3 Consensus size: 16
36841699 TAATTTGGAG
*
36841709 TTAAATTGATTTAAAT
1 TTAAATTTATTTAAAT
*
36841725 TAAAATTTATCTTAAAT
1 TTAAATTTAT-TTAAAT
*
36841742 TTAAATTTAATT--AT
1 TTAAATTTATTTAAAT
36841756 TTAAATTTACTTTAAAT
1 TTAAATTTA-TTTAAAT
*
36841773 TTAAATTTAAATTAAAAT
1 TTAAATTT--ATTTAAAT
36841791 TTAAA
1 TTAAA
36841796 CACTAAACAT
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
14 11 0.19
15 2 0.03
16 10 0.17
17 24 0.41
18 11 0.19
19 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (16 bp):
TTAAATTTATTTAAAT
Found at i:36842826 original size:16 final size:16
Alignment explanation
Indices: 36842805--36842835 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36842795 CAAAATGTTT
*
36842805 CCAGATCTGGGTTTTC
1 CCAGATCTGGATTTTC
36842821 CCAGATCTGGATTTT
1 CCAGATCTGGATTTT
36842836 GAAAAAACAA
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:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (16 bp):
CCAGATCTGGATTTTC
Found at i:36843777 original size:59 final size:59
Alignment explanation
Indices: 36843709--36844083 Score: 535
Period size: 59 Copynumber: 6.4 Consensus size: 59
36843699 TAAAAGTTTT
* *
36843709 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* *
36843768 AAAAATTACCATTTTACCCCCAAATCTTT-TAAAATTCCATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAA-CTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* *
36843827 GAAAATTACCATTTTACCCTCGAA-TCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACT-TTCTAAAATTCCATTTTTAACCCCGATTTCACC
* ** * *
36843886 GAAAATTACCATTTTACCCTTGAA-TATTTTAAAATTCCATTTTTAACCCCGATTTTACC
1 AAAAATTACCATTTTACCCCCGAACT-TTCTAAAATTCCATTTTTAACCCCGATTTCACC
* *
36843945 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
*
36844004 AAAAATTACCATTTTACCCCCGTATCTTT-TAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCG-AACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* *
36844063 -AAAATCACCATTTTGCCCCCG
1 AAAAATTACCATTTTACCCCCG
36844084 GGTATCCACA
Statistics
Matches: 289, Mismatches: 22, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
57 1 0.00
58 21 0.07
59 257 0.89
60 10 0.03
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:36856333 original size:68 final size:68
Alignment explanation
Indices: 36856224--36856467 Score: 346
Period size: 68 Copynumber: 3.5 Consensus size: 68
36856214 TTTCAATCCG
* * *
36856224 CTTGAAATTGAAGTATAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
36856289 CTC
66 CTC
*
36856292 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATATCTGAAATTGAAGTAAGAGCAA-GATCA
1 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG-TCA
36856356 TTTCCTATCC
65 --T-C--T-C
*
36856366 CTTTGAAATTGAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAATTGAAGTAAGAGCAACGTCA
1 C-TTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCA
*
36856431 TCCC
65 TCTC
*
36856435 CTTGAAATTAAAGTAGAGTGGATAACAAGTCTT
1 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTT
36856468 CATAAGAGCA
Statistics
Matches: 159, Mismatches: 8, Indels: 18
0.86 0.04 0.10
Matches are distributed among these distances:
67 1 0.01
68 89 0.56
69 2 0.01
70 1 0.01
71 1 0.01
72 1 0.01
73 2 0.01
74 2 0.01
75 59 0.37
76 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (68 bp):
CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
CTC
Found at i:36856418 original size:37 final size:35
Alignment explanation
Indices: 36856226--36856420 Score: 134
Period size: 37 Copynumber: 5.4 Consensus size: 35
36856216 TCAATCCGCT
* *
36856226 TGAAATTGAAGTATAGTGGATAATACGTCTTTATCTC
1 TGAAATTGAAGTA-AGTGGATAACAAGTC-TTATCTC
* *
36856263 TGAAATTGAAGTAAG-AG-CAAC--GTC--ATCTCC
1 TGAAATTGAAGTAAGTGGATAACAAGTCTTATCT-C
*
36856293 TTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATATC
1 -TGAAATTGAAGTA-AGTGGATAACAAGTC-TTATCTC
* * ** * *
36856331 TGAAATTGAAGTAAGAGCA-AGATCATTTCCTATCCCTT
1 TGAAATTGAAGTAAGTGGATA-A-CAAGTCTTAT--CTC
36856369 TGAAATTGAAGTAGAGTGGATAACAAGTCTTAATCTC
1 TGAAATTGAAGTA-AGTGGATAACAAGTCTT-ATCTC
36856406 TGAAATTGAAGTAAG
1 TGAAATTGAAGTAAG
36856421 AGCAACGTCA
Statistics
Matches: 122, Mismatches: 19, Indels: 35
0.69 0.11 0.20
Matches are distributed among these distances:
29 4 0.03
30 1 0.01
31 13 0.11
32 5 0.04
33 1 0.01
34 5 0.04
35 2 0.02
36 15 0.12
37 45 0.37
38 20 0.16
39 10 0.08
40 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (35 bp):
TGAAATTGAAGTAAGTGGATAACAAGTCTTATCTC
Found at i:36856465 original size:143 final size:143
Alignment explanation
Indices: 36856207--36856467 Score: 434
Period size: 143 Copynumber: 1.8 Consensus size: 143
36856197 AAACCAAACG
* * * * *
36856207 AGATCATTTTCAATCCGCTTGAAATTGAAGTATAGTGGATAATACGTCTTTATCTCTGAAATTGA
1 AGATCATTTCCAATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAATTGA
* *
36856272 AGTAAGAGCAACGTCATCTCCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATATCTGAAAT
66 AGTAAGAGCAACGTCATCCCCTTGAAATTAAAGTAGAGTGGATAACAAGTCTTTATATCTGAAAT
36856337 TGAAGTAAGAGCA
131 TGAAGTAAGAGCA
*
36856350 AGATCATTTCCTATCC-CTTTGAAATTGAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAATTG
1 AGATCATTTCCAATCCGC-TTGAAATTGAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAATTG
36856414 AAGTAAGAGCAACGTCATCCCCTTGAAATTAAAGTAGAGTGGATAACAAGTCTT
65 AAGTAAGAGCAACGTCATCCCCTTGAAATTAAAGTAGAGTGGATAACAAGTCTT
36856468 CATAAGAGCA
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
142 1 0.01
143 108 0.99
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (143 bp):
AGATCATTTCCAATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTAATCTCTGAAATTGA
AGTAAGAGCAACGTCATCCCCTTGAAATTAAAGTAGAGTGGATAACAAGTCTTTATATCTGAAAT
TGAAGTAAGAGCA
Found at i:36856540 original size:37 final size:36
Alignment explanation
Indices: 36856490--36856609 Score: 115
Period size: 37 Copynumber: 3.4 Consensus size: 36
36856480 GCCAATCCAC
36856490 CTGAAATTGAAGTAGAGTGGATAACAAGTCTTAATCT
1 CTGAAATTGAAGTAGAGTGGATAAC-AGTCTTAATCT
* * * **
36856527 CTGAAATTGAAGTA-AG-AG-CAAC-GTCATCCTCT
1 CTGAAATTGAAGTAGAGTGGATAACAGTCTTAATCT
* *
36856559 -TGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCT
1 CTGAAATTGAAGTAGAG-TGGATAACA-GTCTTAATCT
36856596 CTGAAATTGAAGTA
1 CTGAAATTGAAGTA
36856610 AGAGCAAGAT
Statistics
Matches: 65, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
31 13 0.20
32 9 0.14
34 4 0.06
35 4 0.06
36 2 0.03
37 20 0.31
38 13 0.20
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
CTGAAATTGAAGTAGAGTGGATAACAGTCTTAATCT
Found at i:36856979 original size:6 final size:6
Alignment explanation
Indices: 36856968--36857046 Score: 92
Period size: 6 Copynumber: 13.2 Consensus size: 6
36856958 AGTTAAATTG
36856968 ATTTAA ATTTAA ATTT-- ATCTTAA ATTTAA ATTTAA TTATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA --ATTTAA ATTTAA
* *
36857016 CTTTAA ATTTAA ATTTAA ATTAAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
36857047 CACTAAACAT
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
4 2 0.03
5 6 0.10
6 47 0.75
7 2 0.03
8 6 0.10
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (6 bp):
ATTTAA
Found at i:36856992 original size:17 final size:16
Alignment explanation
Indices: 36856960--36857046 Score: 88
Period size: 17 Copynumber: 5.3 Consensus size: 16
36856950 TAATTTGGAG
* *
36856960 TTAAATTGATTTAAAT
1 TTAAATTTAATTAAAT
*
36856976 TTAAATTTATCTTAAAT
1 TTAAATTTA-ATTAAAT
36856993 TTAAATTTAATT--AT
1 TTAAATTTAATTAAAT
*
36857007 TTAAATTTACTTTAAAT
1 TTAAATTTA-ATTAAAT
36857024 TTAAATTTAAATTAAAAT
1 TTAAATTT-AATT-AAAT
36857042 TTAAA
1 TTAAA
36857047 CACTAAACAT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
14 11 0.18
15 2 0.03
16 10 0.17
17 27 0.45
18 10 0.17
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (16 bp):
TTAAATTTAATTAAAT
Found at i:36857011 original size:31 final size:31
Alignment explanation
Indices: 36856974--36857033 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
36856964 ATTGATTTAA
36856974 ATTTAAATTTA-TCTTAAATTTAAATTTAATT
1 ATTTAAATTTACT-TTAAATTTAAATTTAATT
36857005 ATTTAAATTTACTTTAAATTTAAATTTAA
1 ATTTAAATTTACTTTAAATTTAAATTTAA
36857034 ATTAAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (31 bp):
ATTTAAATTTACTTTAAATTTAAATTTAATT
Found at i:36857011 original size:37 final size:37
Alignment explanation
Indices: 36856963--36857036 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
36856953 TTTGGAGTTA
36856963 AATTGATTTAAATTTAAATTT-ATCTTAAATTTAAATTT
1 AATTGATTTAAATTT-AATTTAAT-TTAAATTTAAATTT
*
36857001 AATT-ATTTAAATTTACTTTAAATTTAAATTTAAATT
1 AATTGATTTAAATTTAATTT-AATTTAAATTTAAATT
36857037 AAAATTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 23 0.70
38 6 0.18
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (37 bp):
AATTGATTTAAATTTAATTTAATTTAAATTTAAATTT
Found at i:36857758 original size:16 final size:16
Alignment explanation
Indices: 36857737--36857767 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36857727 CAAAATGTTT
*
36857737 CCAGATCTGGGTTTTC
1 CCAGATCTGGATTTTC
36857753 CCAGATCTGGATTTT
1 CCAGATCTGGATTTT
36857768 GAAAAAACAA
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:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (16 bp):
CCAGATCTGGATTTTC
Found at i:36858709 original size:59 final size:58
Alignment explanation
Indices: 36858646--36859079 Score: 604
Period size: 59 Copynumber: 7.4 Consensus size: 58
36858636 TAAAAGTTTT
* *
36858646 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTT-TAAAATTCCATTTTTAACCTCGATTTCACC
* *
36858705 AAAAATTACCATTTTACCCCCGAAACTTTAAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCG-AACTTTTAAAATTCCATTTTTAACCTCGATTTCACC
* *
36858764 AAAGATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCGATTTCACT
1 AAAAATTACCATTTTACCCCCGAA-CTTTTAAAATTCCATTTTTAACCTCGATTTCACC
* * * *
36858823 AAAAATTATCATTTTACCCCCAAATCTTCTAAACTTCCATTTTTAACC-CTGATTTCACC
1 AAAAATTACCATTTTACCCCCGAA-CTTTTAAAATTCCATTTTTAACCTC-GATTTCACC
* *
36858882 GAAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACC-CTGATTTCACC
1 AAAAATTACCATTTTACCCCCGAA-CTTTTAAAATTCCATTTTTAACCTC-GATTTCACC
** *
36858941 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTT-TAAAATTCCATTTTTAACCTCGATTTCACC
*
36859000 AAAAATTACCATTTTACCCCCGTATCTTTTAAAATTCCATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCCCG-AACTTTTAAAATTCCATTTTTAACCTCGATTTCACC
* *
36859059 -AAAATCACCATTTTGCCCCCG
1 AAAAATTACCATTTTACCCCCG
36859080 GGTATCCACA
Statistics
Matches: 339, Mismatches: 30, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
58 26 0.08
59 301 0.89
60 12 0.04
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCCGAACTTTTAAAATTCCATTTTTAACCTCGATTTCACC
Found at i:36860807 original size:11 final size:11
Alignment explanation
Indices: 36860791--36860815 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36860781 GTCAACAAAG
36860791 ATTTTAAAATT
1 ATTTTAAAATT
36860802 ATTTTAAAATT
1 ATTTTAAAATT
36860813 ATT
1 ATT
36860816 AAAGTTATGT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTTAAAATT
Found at i:36860823 original size:20 final size:20
Alignment explanation
Indices: 36860794--36860831 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36860784 AACAAAGATT
*
36860794 TTAAAATTATTTTAAAATTA
1 TTAAAATTATGTTAAAATTA
*
36860814 TTAAAGTTATGTTAAAAT
1 TTAAAATTATGTTAAAAT
36860832 CATCATCTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TTAAAATTATGTTAAAATTA
Found at i:36861771 original size:29 final size:29
Alignment explanation
Indices: 36861746--36861816 Score: 117
Period size: 28 Copynumber: 2.4 Consensus size: 29
36861736 ATTAAAATTA
36861746 TTTAATAATTTTATTATTTCAAAAAATAAT
1 TTTAATAATTTTA-TATTTCAAAAAATAAT
*
36861776 TTTAATAA-TTTATATTTTAAAAAATAAT
1 TTTAATAATTTTATATTTCAAAAAATAAT
36861804 TTTAATAATTTTA
1 TTTAATAATTTTA
36861817 AAATCTTTGC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
28 23 0.59
29 8 0.21
30 8 0.21
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTAATAATTTTATATTTCAAAAAATAAT
Found at i:36861777 original size:13 final size:13
Alignment explanation
Indices: 36861761--36861808 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
36861751 TAATTTTATT
*
36861761 ATTTCAAAAAATA
1 ATTTTAAAAAATA
**
36861774 ATTTTAATAATTTA
1 ATTTTAA-AAAATA
36861788 TATTTTAAAAAATA
1 -ATTTTAAAAAATA
36861802 ATTTTAA
1 ATTTTAA
36861809 TAATTTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 13 0.46
14 8 0.29
15 7 0.25
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTAAAAAATA
Found at i:36861794 original size:15 final size:14
Alignment explanation
Indices: 36861772--36861814 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
36861762 TTTCAAAAAA
36861772 TAATTTTAATAATT
1 TAATTTTAATAATT
**
36861786 TATATTTTAA-AAAA
1 TA-ATTTTAATAATT
36861800 TAATTTTAATAATT
1 TAATTTTAATAATT
36861814 T
1 T
36861815 TAAAATCTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
13 7 0.30
14 9 0.39
15 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATTTTAATAATT
Found at i:36862607 original size:32 final size:29
Alignment explanation
Indices: 36862543--36862608 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 29
36862533 AAGAGAAGGG
* *
36862543 ATTAAAATTGTGATATTTTTTTTGAAATA
1 ATTATAATTGTGATATTTTTTTTGAAAAA
*
36862572 ATTATAATTGTGATAATTAATTTTTTTAAAAA
1 ATTATAATTGTGAT-ATT--TTTTTTGAAAAA
36862604 ATTAT
1 ATTAT
36862609 TGTGATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 13 0.42
30 3 0.10
32 15 0.48
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.52
Consensus pattern (29 bp):
ATTATAATTGTGATATTTTTTTTGAAAAA
Found at i:36874826 original size:18 final size:18
Alignment explanation
Indices: 36874803--36874847 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
36874793 TTTTAAAGAA
36874803 AATTTTTGAA-TTTTTAT
1 AATTTTTGAATTTTTTAT
*
36874820 -ATCTTTTCAATTTTTTAT
1 AAT-TTTTGAATTTTTTAT
36874838 AATTTTTGAA
1 AATTTTTGAA
36874848 ATCTAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 2 0.09
17 6 0.26
18 13 0.57
19 2 0.09
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (18 bp):
AATTTTTGAATTTTTTAT
Found at i:36875303 original size:19 final size:20
Alignment explanation
Indices: 36875275--36875314 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
36875265 TTCATATTTA
36875275 AAATAGTAAAAATAATTTTT
1 AAATAGTAAAAATAATTTTT
*
36875295 AAATA-TAAAAATTATTTTT
1 AAATAGTAAAAATAATTTTT
36875314 A
1 A
36875315 TATTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AAATAGTAAAAATAATTTTT
Found at i:36879795 original size:13 final size:13
Alignment explanation
Indices: 36879777--36879801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36879767 GTATCGTGAA
36879777 AAGTGATTTTAAG
1 AAGTGATTTTAAG
36879790 AAGTGATTTTAA
1 AAGTGATTTTAA
36879802 AAAATACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (13 bp):
AAGTGATTTTAAG
Found at i:36882150 original size:18 final size:19
Alignment explanation
Indices: 36882118--36882159 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
36882108 ATCAAAAGAG
36882118 AAGGCAGCTTAAAAACAAA
1 AAGGCAGCTTAAAAACAAA
36882137 AAGGCAGCTTAAAAACAAA
1 AAGGCAGCTTAAAAACAAA
36882156 AAGG
1 AAGG
36882160 AAACTCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.57, C:0.14, G:0.19, T:0.10
Consensus pattern (19 bp):
AAGGCAGCTTAAAAACAAA
Found at i:36882269 original size:24 final size:25
Alignment explanation
Indices: 36882242--36882306 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 25
36882232 TTAAAATCAT
36882242 ATAATAATTTTATATTTCAAAAACATAA
1 ATAATAATTTTATATTTC-AAAA-A-AA
36882270 TATAATAATTTTATATTTC-AAAAAA
1 -ATAATAATTTTATATTTCAAAAAAA
36882295 ATAAT--TTTTATA
1 ATAATAATTTTATA
36882307 ATTTTGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.19
24 5 0.14
25 2 0.06
26 1 0.03
27 3 0.08
29 18 0.50
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (25 bp):
ATAATAATTTTATATTTCAAAAAAA
Found at i:36882311 original size:30 final size:29
Alignment explanation
Indices: 36882234--36882299 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
36882224 ATTAGAAATT
*
36882234 AAAATCATATAATAATTTTATATTTCAAA
1 AAAATAATATAATAATTTTATATTTCAAA
*
36882263 AACATAATATAATAATTTTATATTTCAAA
1 AAAATAATATAATAATTTTATATTTCAAA
36882292 AAAATAAT
1 AAAATAAT
36882300 TTTTATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (29 bp):
AAAATAATATAATAATTTTATATTTCAAA
Found at i:36890056 original size:30 final size:30
Alignment explanation
Indices: 36890022--36890081 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
36890012 ATATGAAGTG
*
36890022 ATATAATAAGCAGAT-AAATAATATGCGAAA
1 ATATAAGAAGCAGATCAAATAA-ATGCGAAA
*
36890052 ATATAAGATGCAGATGCAAATAAATGCGAA
1 ATATAAGAAGCAGAT-CAAATAAATGCGAA
36890082 TATTGGTGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 13 0.50
31 7 0.27
32 6 0.23
ACGTcount: A:0.53, C:0.08, G:0.17, T:0.22
Consensus pattern (30 bp):
ATATAAGAAGCAGATCAAATAAATGCGAAA
Found at i:36890380 original size:30 final size:30
Alignment explanation
Indices: 36890238--36890370 Score: 214
Period size: 30 Copynumber: 4.4 Consensus size: 30
36890228 ATCGGGGTCA
*
36890238 AAAATGTAATATTGGAAAAGTTTTAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
36890268 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
36890298 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
* *
36890328 AAAATGTAATTTT-TAGAAAGTTTTGGGGTT
1 AAAATGTAATTTTGGA-AAAGTTTTAGGGTT
*
36890358 AAAATATAATTTT
1 AAAATGTAATTTT
36890371 TGGGCAGTTT
Statistics
Matches: 98, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
29 1 0.01
30 97 0.99
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTTAGGGTT
Found at i:36892327 original size:7 final size:6
Alignment explanation
Indices: 36892302--36892397 Score: 83
Period size: 6 Copynumber: 16.0 Consensus size: 6
36892292 TTAATATTAT
* *
36892302 TTTAAA TTTAAA TTTAAA TTTAAA -ATAAA TTTAAA TAAGTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA
** *
36892351 TTTAAGA --TAAA TTTAAA AATAAA TTTAAA ATT-AA TTTAAA CTTTAAA
1 TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
36892398 AAATCAAAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
4 1 0.01
5 11 0.15
6 48 0.67
7 7 0.10
8 5 0.07
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:36892330 original size:17 final size:17
Alignment explanation
Indices: 36892310--36892367 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 17
36892300 ATTTTAAATT
36892310 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
36892327 TAAATTTAAA--T-AAG
1 TAAATTTAAATTTAAAA
*
36892341 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAAA
36892358 TAAATTTAAA
1 TAAATTTAAA
36892368 AATAAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 12 0.34
15 1 0.03
16 1 0.03
17 21 0.60
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:36892332 original size:11 final size:11
Alignment explanation
Indices: 36892304--36892390 Score: 81
Period size: 11 Copynumber: 7.9 Consensus size: 11
36892294 AATATTATTT
*
36892304 TAAATTTAAATT
1 TAAATTTAAA-A
36892316 TAAATTTAAAA
1 TAAATTTAAAA
36892327 TAAATTT-AAA
1 TAAATTTAAAA
* *
36892337 T-AA-GTAAATT
1 TAAATTTAAA-A
*
36892347 TAAATTTAAGA
1 TAAATTTAAAA
36892358 TAAATTTAAAAA
1 TAAATTT-AAAA
36892370 TAAATTTAAAA
1 TAAATTTAAAA
*
36892381 TTAATTTAAA
1 TAAATTTAAA
36892391 CTTTAAAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
8 1 0.02
9 4 0.06
10 5 0.08
11 29 0.47
12 23 0.37
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:36892345 original size:31 final size:29
Alignment explanation
Indices: 36892310--36892399 Score: 117
Period size: 31 Copynumber: 3.0 Consensus size: 29
36892300 ATTTTAAATT
36892310 TAAATTTAAATTTAAAATAAATTTAAATAA
1 TAAATTTAAATTTAAAATAAATTTAAA-AA
*
36892340 GTAAATTTAAATTTAAGATAAATTTAAAAA
1 -TAAATTTAAATTTAAAATAAATTTAAAAA
* **
36892370 TAAATTTAAAATTAATTTAAACTTTAAAAA
1 TAAATTTAAATTTAAAATAAA-TTTAAAAA
36892400 ATCAAAACCC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
29 18 0.33
30 10 0.19
31 26 0.48
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (29 bp):
TAAATTTAAATTTAAAATAAATTTAAAAA
Found at i:36892981 original size:22 final size:22
Alignment explanation
Indices: 36892953--36892994 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
36892943 TTTATAAGTA
36892953 ATTTTAAAAATTTATTATATAT
1 ATTTTAAAAATTTATTATATAT
* *
36892975 ATTTTAATATTTTATTATAT
1 ATTTTAAAAATTTATTATAT
36892995 TTATATAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTAAAAATTTATTATATAT
Found at i:36893502 original size:64 final size:61
Alignment explanation
Indices: 36893425--36893546 Score: 174
Period size: 61 Copynumber: 2.0 Consensus size: 61
36893415 TATTAATTTT
* *
36893425 TTTAAATATTTTTCAGATATATATTTATAGTCTATTTTTTAGTTTCTTGATAAATTATATATAC
1 TTTAAATATTTTTCA-AT-TATATTTATAATCTA-TTTTTAGTTTCTTAATAAATTATATATAC
*
36893489 TTTAAATCA-TTTTCACTTATATTTATAATCTATTTTTAGTTTCTTAATAAATTATATA
1 TTTAAAT-ATTTTTCAATTATATTTATAATCTATTTTTAGTTTCTTAATAAATTATATA
36893547 CTATTTTGGA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 25 0.46
62 14 0.26
63 1 0.02
64 13 0.24
65 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (61 bp):
TTTAAATATTTTTCAATTATATTTATAATCTATTTTTAGTTTCTTAATAAATTATATATAC
Found at i:36895142 original size:20 final size:20
Alignment explanation
Indices: 36895117--36895154 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
36895107 TGTTTTTGTG
36895117 TTTTTTTACTGTTTTGGTAC
1 TTTTTTTACTGTTTTGGTAC
36895137 TTTTTTTACTGTTTTGGT
1 TTTTTTTACTGTTTTGGT
36895155 TGTTATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (20 bp):
TTTTTTTACTGTTTTGGTAC
Found at i:36895150 original size:31 final size:31
Alignment explanation
Indices: 36895087--36895151 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
36895077 TTTGGTGCTG
* *
36895087 TTTTTTACTGTTTTGGTTGCTGTTTTTGTGT
1 TTTTTTACTGTTTTGGTTACTGTTTTTCTGT
*
36895118 TTTTTTACTGTTTTGG-TACTTTTTTTACTGT
1 TTTTTTACTGTTTTGGTTACTGTTTTT-CTGT
36895149 TTT
1 TTT
36895152 GGTTGTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.06, C:0.08, G:0.17, T:0.69
Consensus pattern (31 bp):
TTTTTTACTGTTTTGGTTACTGTTTTTCTGT
Found at i:36895163 original size:20 final size:20
Alignment explanation
Indices: 36895106--36895230 Score: 65
Period size: 20 Copynumber: 6.0 Consensus size: 20
36895096 GTTTTGGTTG
* *
36895106 CTGTTTTTG-TGTTTTTTTA
1 CTGTTTTGGTTGTTATTTTA
** *
36895125 CTGTTTTGGTACTTTTTTTA
1 CTGTTTTGGTTGTTATTTTA
36895145 CTGTTTTGGTTGTTATTTTCA
1 CTGTTTTGGTTGTTATTTT-A
* * * *
36895166 TGCTGTTTTTACTGTTATTTTTGTTG
1 --CTG-TTTT--GGTTGTTATT-TTA
36895192 CTGTTTTGGTTGTTATTTTTA
1 CTGTTTTGGTTGTTA-TTTTA
* *
36895213 TTG-TTTGGATGTTATTTT
1 CTGTTTTGGTTGTTATTTT
36895231 TTATGCGTTT
Statistics
Matches: 81, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
19 12 0.15
20 34 0.42
21 10 0.12
22 2 0.02
23 7 0.09
24 7 0.09
26 7 0.09
27 2 0.02
ACGTcount: A:0.09, C:0.06, G:0.18, T:0.66
Consensus pattern (20 bp):
CTGTTTTGGTTGTTATTTTA
Found at i:36895187 original size:24 final size:23
Alignment explanation
Indices: 36895145--36895241 Score: 76
Period size: 24 Copynumber: 4.3 Consensus size: 23
36895135 ACTTTTTTTA
** *
36895145 CTGTTTTGGTTGTTATTTTCATG
1 CTGTTTTGACTGTTATTTTTATG
* *
36895168 CTGTTTTTACTGTTATTTTTGTTG
1 CTGTTTTGACTGTTATTTTT-ATG
**
36895192 CTGTTTTGGTTGTTATTTTTAT-
1 CTGTTTTGACTGTTATTTTTATG
*
36895214 -TGTTTGGA-TGTTATTTTTTATG
1 CTGTTTTGACTGTTA-TTTTTATG
36895236 C-GTTTT
1 CTGTTTT
36895242 TACTATTGTT
Statistics
Matches: 58, Mismatches: 12, Indels: 9
0.73 0.15 0.11
Matches are distributed among these distances:
20 5 0.09
21 13 0.22
22 4 0.07
23 17 0.29
24 19 0.33
ACGTcount: A:0.09, C:0.06, G:0.20, T:0.65
Consensus pattern (23 bp):
CTGTTTTGACTGTTATTTTTATG
Found at i:36895196 original size:67 final size:66
Alignment explanation
Indices: 36895117--36895245 Score: 163
Period size: 67 Copynumber: 1.9 Consensus size: 66
36895107 TGTTTTTGTG
*
36895117 TTTTTTTACTGTTTTGGTACTT-TTTTTACTGTTTTGGTTGTTA-TTTTCATGCTGTTTTTACTG
1 TTTTTTTACTGTTTTGGTACTTATTTTTACTG-TTTGGATGTTATTTTTCATGC-GTTTTTACTG
36895180 TTA
64 TTA
* ** * *
36895183 TTTTTGTTGCTGTTTTGGTTGTTATTTTTATTGTTTGGATGTTATTTTTTATGCGTTTTTACT
1 TTTTT-TTACTGTTTTGGTACTTATTTTTACTGTTTGGATGTTATTTTTCATGCGTTTTTACT
36895246 ATTGTTTCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
66 5 0.09
67 33 0.61
68 16 0.30
ACGTcount: A:0.10, C:0.07, G:0.17, T:0.66
Consensus pattern (66 bp):
TTTTTTTACTGTTTTGGTACTTATTTTTACTGTTTGGATGTTATTTTTCATGCGTTTTTACTGTT
A
Found at i:36895430 original size:38 final size:38
Alignment explanation
Indices: 36895348--36895431 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 38
36895338 ATATAAAAAA
* * *
36895348 TTTTTAATGTATTTTAAATGTATTTATTTTTTAATGTT
1 TTTTTAATGTATTTTAAATGTATTTATATATTAATGAT
36895386 TGTTTTAATGT-TTTTAAATGTATTTGATATATTATAT-AT
1 T-TTTTAATGTATTTTAAATGTATTT-ATATATTA-ATGAT
36895425 TTTTTAA
1 TTTTTAA
36895432 ATTTGTTGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 21 0.52
39 17 0.43
40 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (38 bp):
TTTTTAATGTATTTTAAATGTATTTATATATTAATGAT
Found at i:36896894 original size:28 final size:29
Alignment explanation
Indices: 36896837--36896901 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
36896827 TACTTTTATG
* * *
36896837 TTTAAAAAATTAATTTAATTTTTCAAA-T
1 TTTAAAATATAAATTTAATTTGTCAAATT
*
36896865 TTTAAAATATAAATTTAA-TTGTCGATATT
1 TTTAAAATATAAATTTAATTTGTC-AAATT
36896894 TTTAAAAT
1 TTTAAAAT
36896902 TATTATATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.58
29 9 0.29
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (29 bp):
TTTAAAATATAAATTTAATTTGTCAAATT
Found at i:36903720 original size:30 final size:30
Alignment explanation
Indices: 36903684--36903746 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
36903674 TGATTATCAT
36903684 TTCACTTACCTCAATGTCACAATTTGCACA
1 TTCACTTACCTCAATGTCACAATTTGCACA
36903714 TTCACTTACCTCAATGTCACAATTTGCACA
1 TTCACTTACCTCAATGTCACAATTTGCACA
36903744 TTC
1 TTC
36903747 TTTCTTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.29, C:0.30, G:0.06, T:0.35
Consensus pattern (30 bp):
TTCACTTACCTCAATGTCACAATTTGCACA
Found at i:36904090 original size:6 final size:6
Alignment explanation
Indices: 36904065--36904103 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
36904055 ACAATTCATA
* * *
36904065 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
36904104 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:36908142 original size:53 final size:52
Alignment explanation
Indices: 36907905--36908149 Score: 255
Period size: 52 Copynumber: 4.7 Consensus size: 52
36907895 ATTTCACTTC
* * * * * *
36907905 ATTCATATACTCACGATGACACATAGCCACCGGACC-TTATAATCTACAAGGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTA-AATCCATAAAGG
** * * * * * *
36907957 ATTTGTACT-CTCACGATAACA-TAGAGTTATCGGACC-TCATAATCCGTAAAAG
1 ATTCATA-TACTCACGATGACACT-TAGTCATCGGACCTTTA-AATCCATAAAGG
* * *
36908009 ATCCATATACTAATGATGACACTTAGTCATCGGACCTTTAAATCCATAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTAAATCCATAAAGG
36908061 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTAAATCCATAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTAAATCCATAAAGG
*
36908113 ATTTCATATAGTCACGATGACACTTAGTCATCGGACC
1 A-TTCATATACTCACGATGACACTTAGTCATCGGACC
36908150 CTTTTTCATT
Statistics
Matches: 158, Mismatches: 29, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
51 1 0.01
52 119 0.75
53 38 0.24
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTAAATCCATAAAGG
Found at i:36912060 original size:51 final size:51
Alignment explanation
Indices: 36912004--36912226 Score: 167
Period size: 51 Copynumber: 4.5 Consensus size: 51
36911994 TATTTTCTAG
* *
36912004 AAAAGTTTAAATTTTTAAACAAAATTTTGATTTTTTTAACTATTTCGAAA-T
1 AAAAGTTTAAATTTTTAAATAAAATTTTGATTTTTTTAACTATTT-GAAAGA
** * ** *
36912055 AAAAGTTTGGATTTTTAAGTAAAATAGTGATTTTCTTTAA--A---AAAAGA
1 AAAAGTTTAAATTTTTAAATAAAATTTTGATTTT-TTTAACTATTTGAAAGA
* * * ** *
36912102 AAAAGTTTATATTTTTAAAAATAAAAATCT-A-TTTTTTAGTTATTTTAAAGA
1 AAAAGTTTAAATTTTT--AAATAAAATTTTGATTTTTTTAACTATTTGAAAGA
* * *
36912153 AAAAGTTTAAATTTTTAAATAAATTTTTTATTTTTTTAACTATTTCGAAATA
1 AAAAGTTTAAATTTTTAAATAAAATTTTGATTTTTTTAACTATTT-GAAAGA
* *
36912205 AAAA-TTTAGATTTTTAAGTAAA
1 AAAAGTTTAAATTTTTAAATAAA
36912227 GTAGTTGTTG
Statistics
Matches: 134, Mismatches: 26, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
46 7 0.05
47 17 0.13
48 2 0.01
49 17 0.13
50 2 0.01
51 76 0.57
52 13 0.10
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (51 bp):
AAAAGTTTAAATTTTTAAATAAAATTTTGATTTTTTTAACTATTTGAAAGA
Found at i:36912138 original size:22 final size:23
Alignment explanation
Indices: 36912095--36912139 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
36912085 TTTTCTTTAA
*
36912095 AAAAAGAAAAAGTTTATATTTTT
1 AAAAAGAAAAAGTCTATATTTTT
*
36912118 AAAAATAAAAA-TCTAT-TTTTT
1 AAAAAGAAAAAGTCTATATTTTT
36912139 A
1 A
36912140 GTTATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 4 0.20
23 10 0.50
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (23 bp):
AAAAAGAAAAAGTCTATATTTTT
Found at i:36912150 original size:136 final size:136
Alignment explanation
Indices: 36911888--36912136 Score: 385
Period size: 136 Copynumber: 1.8 Consensus size: 136
36911878 GATTTTGGGA
36911888 AAAAATTTGTTTTTTTAAACAATTTCAAAATAAAAACTTTGATTTTTAAGTAAAATAGGGATTTT
1 AAAAATTTGTTTTTTTAAACAATTTCAAAATAAAAACTTTGATTTTTAAGTAAAATAGGGATTTT
* *
36911953 CTTTAAAACAGAGAAAGTTTAGATTTTTAAAAATAAAAATCTATTTTCTAGAAAAGTTTAAATTT
66 CTTTAAAAAAGAAAAAGTTTAGATTTTTAAAAATAAAAATCTATTTTCTAGAAAAGTTTAAATTT
36912018 TTAAAC
131 TTAAAC
* * * * *
36912024 AAAATTTTGATTTTTTT-AACTATTTCGAAAT-AAAAGTTTGGATTTTTAAGTAAAATAGTGATT
1 AAAAATTTG-TTTTTTTAAACAATTTCAAAATAAAAACTTT-GATTTTTAAGTAAAATAGGGATT
*
36912087 TTCTTTAAAAAAAGAAAAAGTTTATATTTTTAAAAATAAAAATCTATTTT
64 TTCTTT-AAAAAAGAAAAAGTTTAGATTTTTAAAAATAAAAATCTATTTT
36912137 TTAGTTATTT
Statistics
Matches: 102, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
135 7 0.07
136 48 0.47
137 47 0.46
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (136 bp):
AAAAATTTGTTTTTTTAAACAATTTCAAAATAAAAACTTTGATTTTTAAGTAAAATAGGGATTTT
CTTTAAAAAAGAAAAAGTTTAGATTTTTAAAAATAAAAATCTATTTTCTAGAAAAGTTTAAATTT
TTAAAC
Found at i:36912890 original size:238 final size:238
Alignment explanation
Indices: 36912472--36912941 Score: 732
Period size: 238 Copynumber: 2.0 Consensus size: 238
36912462 AAAATCATAA
* *
36912472 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAATTT
1 TAATGATAAAAGATCAAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCAATAGTAATTT
* * *
36912537 TTAGGTTTTTTTTAGGATTTTAAAATAGAATTAATTTTAAGAATTGAAGGTATTTTACTAGAATT
66 TTAGGTTTTTTTTAGAATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAATT
*
36912602 ATATAAGTATCTTTTAGGGTTTTCGTTAGAAGTAAAAATCTCTAATTTAAGTTTTAAATTAGATA
131 ATATAAGTATCTTTTAGGGTTTTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTAAATTAGATA
36912667 AGTTTAGTGAACACGTCTTAGTCAAGTTACAAGTAAAACGGAG
196 AGTTTAGTGAACACGTCTTAGTCAAGTTACAAGTAAAACGGAG
36912710 TAATGATAAAAGATCAAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCAATAGTAATTT
1 TAATGATAAAAGATCAAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCAATAGTAA--T
* * *
36912775 TTTTAGG-TTTTTTTAGAATTCTAAAATAGAATTAATTTTAAGAATTGAAATTA-TTTATTATAA
64 TTTTAGGTTTTTTTTAGAATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAA
* * * * *
36912838 TTATTTAGGTAT-TCTTTAGGGTTCTT-ATTTGGAGTAAAAATCTTTAATTTAAGTTTTAAATTA
129 TTATATAAGTATCT-TTTAGGGTT-TTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTAAATTA
* *
36912901 GATAAGTTTGGTGAACACTTCTTAGTCAAGTTACAAGTAAA
192 GATAAGTTTAGTGAACACGTCTTAGTCAAGTTACAAGTAAA
36912942 TTAGAGGCAT
Statistics
Matches: 212, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
237 1 0.00
238 159 0.75
239 44 0.21
240 8 0.04
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (238 bp):
TAATGATAAAAGATCAAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCAATAGTAATTT
TTAGGTTTTTTTTAGAATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAATT
ATATAAGTATCTTTTAGGGTTTTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTAAATTAGATA
AGTTTAGTGAACACGTCTTAGTCAAGTTACAAGTAAAACGGAG
Found at i:36922492 original size:13 final size:13
Alignment explanation
Indices: 36922474--36922498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36922464 TTAGGATCTA
36922474 AAACACAAGCAAC
1 AAACACAAGCAAC
36922487 AAACACAAGCAA
1 AAACACAAGCAA
36922499 ATTCATCTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.28, G:0.08, T:0.00
Consensus pattern (13 bp):
AAACACAAGCAAC
Found at i:36925197 original size:6 final size:6
Alignment explanation
Indices: 36925186--36925212 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
36925176 AATTTAAAAC
36925186 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
36925213 TTAGGTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:36925723 original size:49 final size:49
Alignment explanation
Indices: 36925670--36926475 Score: 673
Period size: 49 Copynumber: 16.4 Consensus size: 49
36925660 GTCGTAACCC
* * * * *
36925670 TTCCCTCCATATCTTTGTGGTACTGGATTCGCCATTGCGGCTTAAATAT
1 TTCCCTTCATATCTTTGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
* * ** * * * *
36925719 TTCCCTTCAT-GCTCCTAAGGTACAAGGTTTGCCGTTGCGATTTAAA-CAT
1 TTCCCTTCATATCT-TTGTGGTACTAGATTCGCCGTTGCGACTTAAATC-T
* * * *
36925768 TTCCCTTTATAT-TTTCATGGTTCTAGATTCGCCGTTGCGGCTTAAATCT
1 TTCCCTTCATATCTTT-GTGGTACTAGATTCGCCGTTGCGACTTAAATCT
* ** * * *
36925817 TTCCCTTCAT-GCTTCTGAAGTACAATG-TTCGCCGTTACGACTTAAACCT
1 TTCCCTTCATATCTT-TGTGGTACTA-GATTCGCCGTTGCGACTTAAATCT
* *
36925866 TTCCCTTCATATCTTTATGGTACTAGATTCGCCATTGCGACTTAAATCT
1 TTCCCTTCATATCTTTGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
* * * * *
36925915 TTCCCTTCAT-GCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCT
1 TTCCCTTCATATCTT-TGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
* * * * *
36925964 TTTCCTTTATATCTTCGTGGTACTAGATTCACCGTTGCGGCTTAAATCT
1 TTCCCTTCATATCTTTGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
* * * * *
36926013 TTCCCTTCAT-GCTTTTGAGGTACAAGGTTCGCCATTGCGACTTAAATCT
1 TTCCCTTCATATC-TTTGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
* * * *
36926062 TTCCCTTCATATCTTCGTGGTACTAGATTCGCCGTTACGGCTTAAACCT
1 TTCCCTTCATATCTTTGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
* * * * * *
36926111 TTCCCTTCAT-GCTTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCT
1 TTCCCTTCATATCTT-TGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
* * * * *
36926160 TTCCCTTTATATCTTCGTGGTACTAGATTCGTCGTTGTGGCTTAAATCT
1 TTCCCTTCATATCTTTGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
* * * * *
36926209 TTCCCTTCAT-GCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCT
1 TTCCCTTCATATCTT-TGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
* * * *
36926258 TTCCCTTTATATCTTCGTGGTACTAGATTCACCGTTGCGGCTTAAATCT
1 TTCCCTTCATATCTTTGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
* * * * * * * *
36926307 TCCCCTTCAT-GCTTTTGAGGTACAAGGTTCGCCGTTACAACTTAAACCT
1 TTCCCTTCATATC-TTTGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
* * *
36926356 TTCCCTTTATATCTTTGTGGTACTAGATTCGCCGTTGTGGCTTAAATCT
1 TTCCCTTCATATCTTTGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
* * * * * * * *
36926405 TTCTCTTCATGT-TTCTGAGGTACAAGGTTCACCGTTGCGACTTAAACCC
1 TTCCCTTCATATCTT-TGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
36926454 TTCCC-TCTATATCTTTGTGGTA
1 TTCCCTTC-ATATCTTTGTGGTA
36926476 ATGAAACCTG
Statistics
Matches: 584, Mismatches: 150, Indels: 46
0.75 0.19 0.06
Matches are distributed among these distances:
48 19 0.03
49 546 0.93
50 19 0.03
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.38
Consensus pattern (49 bp):
TTCCCTTCATATCTTTGTGGTACTAGATTCGCCGTTGCGACTTAAATCT
Found at i:36925806 original size:98 final size:98
Alignment explanation
Indices: 36925678--36926475 Score: 1200
Period size: 98 Copynumber: 8.1 Consensus size: 98
36925668 CCTTCCCTCC
* * * * * *
36925678 ATATCTTTGTGGTACTGGATTCGCCATTGCGGCTTAAATATTTCCCTTCATGCTCCTAAGGTACA
1 ATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
* * *
36925743 AGGTTTGCCGTTGCGATTTAAACATTTCCCTTT
66 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTT
* * * *
36925776 ATATTTTCATGGTTCTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAAGTACA
1 ATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
* * *
36925841 ATGTTCGCCGTTACGACTTAAACCTTTCCCTTC
66 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTT
** * *
36925874 ATATCTTTATGGTACTAGATTCGCCATTGCGACTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
1 ATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
*
36925939 AGGTTCGCCGTTGCGACTTAAACCTTTTCCTTT
66 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTT
* *
36925972 ATATCTTCGTGGTACTAGATTCACCGTTGCGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACA
1 ATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
* * *
36926037 AGGTTCGCCATTGCGACTTAAATCTTTCCCTTC
66 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTT
* *
36926070 ATATCTTCGTGGTACTAGATTCGCCGTTACGGCTTAAACCTTTCCCTTCATGCTTCTGAGGTACA
1 ATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
*
36926135 AGGTTCGTCGTTGCGACTTAAACCTTTCCCTTT
66 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTT
* *
36926168 ATATCTTCGTGGTACTAGATTCGTCGTTGTGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
1 ATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
36926233 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTT
66 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTT
* * *
36926266 ATATCTTCGTGGTACTAGATTCACCGTTGCGGCTTAAATCTTCCCCTTCATGCTTTTGAGGTACA
1 ATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
* *
36926331 AGGTTCGCCGTTACAACTTAAACCTTTCCCTTT
66 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTT
* * * *
36926364 ATATCTTTGTGGTACTAGATTCGCCGTTGTGGCTTAAATCTTTCTCTTCATGTTTCTGAGGTACA
1 ATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
* * *
36926429 AGGTTCACCGTTGCGACTTAAACCCTTCCCTCT
66 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTT
*
36926462 ATATCTTTGTGGTA
1 ATATCTTCGTGGTA
36926476 ATGAAACCTG
Statistics
Matches: 632, Mismatches: 68, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 632 1.00
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (98 bp):
ATATCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACA
AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTT
Found at i:36932280 original size:113 final size:113
Alignment explanation
Indices: 36932123--36932348 Score: 328
Period size: 114 Copynumber: 2.0 Consensus size: 113
36932113 TTAAAGGACA
* *
36932123 TTTGAAAAAATCTAAAGGAGCATACTAGATTGTGCAAATTCTAC-AAAAATCACACCCAACACGT
1 TTTGAAAAAATCTAAAGGAGCATAATAGATGGTGCAAATTCTACAAAAAATCACACCCAACACGT
* * * * *
36932187 TAGGGCACAATTTTTTGAAGTTTTCATACAAAAGGATATTGCTTTGAT
66 TAAGGCACAATTCTTTGAAATTTTCACACAAAAGGATATTGCCTTGAT
* * * *
36932235 TTTGAAAATAATTTAAAGGAGGATAATTGATGGTGCAAATTCTACAAAAAATCACACCCGACACG
1 TTTGAAAA-AATCTAAAGGAGCATAATAGATGGTGCAAATTCTACAAAAAATCACACCCAACACG
*
36932300 TTAAGGCACAATTCTTTGAAATTTTCACACAAAAGGATCTTGCCTTGAT
65 TTAAGGCACAATTCTTTGAAATTTTCACACAAAAGGATATTGCCTTGAT
36932349 AAAAAACTCT
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
112 8 0.08
113 31 0.31
114 61 0.61
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (113 bp):
TTTGAAAAAATCTAAAGGAGCATAATAGATGGTGCAAATTCTACAAAAAATCACACCCAACACGT
TAAGGCACAATTCTTTGAAATTTTCACACAAAAGGATATTGCCTTGAT
Found at i:36934092 original size:18 final size:18
Alignment explanation
Indices: 36934069--36934107 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
36934059 AGAAGGCCTT
36934069 GGGTAGCAGAAGAA-TCTC
1 GGGTAG-AGAAGAAGTCTC
*
36934087 GGGTAGAGGAGAAGTCTC
1 GGGTAGAGAAGAAGTCTC
36934105 GGG
1 GGG
36934108 AGTAGACGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.28, C:0.13, G:0.44, T:0.15
Consensus pattern (18 bp):
GGGTAGAGAAGAAGTCTC
Found at i:36941505 original size:2 final size:2
Alignment explanation
Indices: 36941498--36941531 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
36941488 GCATATCTTG
*
36941498 AT AT AT AT AT AT AT AT AT AT GT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36941532 ATTATTTCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36943496 original size:28 final size:27
Alignment explanation
Indices: 36943464--36943522 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
36943454 AAACGGGACC
*
36943464 TTTGAATATCCGAGGGC-AAAATGGTAAT
1 TTTGAATAT-CGAGGACAAAAAT-GTAAT
* *
36943492 TTTGACTCTCGAGGACAAAAATGTAAT
1 TTTGAATATCGAGGACAAAAATGTAAT
36943519 TTTG
1 TTTG
36943523 GGAAAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (27 bp):
TTTGAATATCGAGGACAAAAATGTAAT
Found at i:36943579 original size:59 final size:58
Alignment explanation
Indices: 36943532--36943932 Score: 511
Period size: 59 Copynumber: 6.8 Consensus size: 58
36943522 GGGAAAATTT
* *
36943532 GGGGTTAAAAATGAGATTTTGGAAGGTTCGAGGGTAAAATGATAA-TTTTGGTGAAATC
1 GGGGTTAAAAATG-GATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
* * * * * * *
36943590 GAGGTCAAAAATGAAGTTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGATGAAATC
1 GGGGTTAAAAATGGA-TTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
* * *
36943649 GAGGTTAAAAATGGAATTTTGGAAAGTTCAAGGATAAAATGGTAATTTTTGGTGAAATC
1 GGGGTTAAAAATGG-ATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
* * * *
36943708 GAGGTTAAAAACGGGATTTTAGAAAGTTCGAGGGTAAAACGGTAATTTTTGGTGAAATC
1 GGGGTTAAAAA-TGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
* *
36943767 GGGGTTAAAAATGGGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATT
1 GGGGTTAAAAAT-GGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
*
36943826 GGGGTT-AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATC
1 GGGGTTAAAAATGG-ATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
* * *
36943884 AGGGTTAAAAATGGAATTTTGGAAAGTTCG-GGGATAAAACGATAATTTT
1 GGGGTTAAAAATGG-ATTTTGGAAAGTTCGAGGG-TAAAATGGTAATTTT
36943933 CGAAAGTTTC
Statistics
Matches: 303, Mismatches: 32, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
57 3 0.01
58 91 0.30
59 206 0.68
60 3 0.01
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.31
Consensus pattern (58 bp):
GGGGTTAAAAATGGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATC
Found at i:36943658 original size:117 final size:117
Alignment explanation
Indices: 36943534--36943932 Score: 522
Period size: 117 Copynumber: 3.4 Consensus size: 117
36943524 GAAAATTTGG
*
36943534 GGTTAAAAAT-GAGATTTTGGAAGGTTCGAGGGTAAAATGATAA-TTTTGGTGAAATCGAGGTCA
1 GGTTAAAAATGGA-ATTTTGGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAATCGAGGT-A
* *
36943597 AAAATGAAGTTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGATGAAATCGA
64 AAAATGAAGTTTTGGAAAGTTCGGGGGTAAAACGGTAATTTTTGGTGAAATCGA
* * *
36943651 GGTTAAAAATGGAATTTTGGAAAGTTCAAGGATAAAATGGTAATTTTTGGTGAAATCGAGGTTAA
1 GGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAATCGAGG-TAA
* * * * *
36943716 AAACG-GGATTTTAGAAAGTTCGAGGGTAAAACGGTAATTTTTGGTGAAATCGG
65 AAATGAAG-TTTTGGAAAGTTCGGGGGTAAAACGGTAATTTTTGGTGAAATCGA
* * * * * *
36943769 GGTTAAAAATGGGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAA
1 GGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAATCGAGGTAAA
*
36943834 AATGGAA-TTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATC-A
66 AAT-GAAGTTTTGGAAAGTTCGGGGGTAAAACGGTAATTTTTGGTGAAATCGA
*
36943885 GGGTTAAAAATGGAATTTTGGAAAGTTCG-GGGATAAAACGATAATTTT
1 -GGTTAAAAATGGAATTTTGGAAAGTTCGAGGG-TAAAATGATAATTTT
36943933 CGAAAGTTTC
Statistics
Matches: 247, Mismatches: 27, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
116 3 0.01
117 122 0.49
118 121 0.49
119 1 0.00
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (117 bp):
GGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAATCGAGGTAAA
AATGAAGTTTTGGAAAGTTCGGGGGTAAAACGGTAATTTTTGGTGAAATCGA
Found at i:36943930 original size:29 final size:29
Alignment explanation
Indices: 36943509--36943961 Score: 133
Period size: 29 Copynumber: 15.5 Consensus size: 29
36943499 CTCGAGGACA
* * *
36943509 AAAATG-TAATTTTGGGAAAATTTGGGGTT
1 AAAATGATAATTTT-GGAAAGTTCGGGGGT
* * *
36943538 AAAAATGA-GATTTTGGAAGGTTCGAGGGT
1 -AAAATGATAATTTTGGAAAGTTCGGGGGT
*
36943567 AAAATGATAATTTTGGTGAAA--TC-GAGGT
1 AAAATGATAATTTT-G-GAAAGTTCGGGGGT
* *
36943595 CAAAAATGA-AGTTTTGGAAAGTTTGGGGGT
1 --AAAATGATAATTTTGGAAAGTTCGGGGGT
* * * *
36943625 AAAACGGTAATTTTTGATGAAA--TCGAGGTT
1 AAAATGATAA-TTTTG--GAAAGTTCGGGGGT
* ** *
36943655 AAAAATG-GAATTTTGGAAAGTTCAAGGAT
1 -AAAATGATAATTTTGGAAAGTTCGGGGGT
* * *
36943684 AAAATGGTAATTTTTGGTGAAA--TCGAGGTT
1 AAAATGATAA-TTTT-G-GAAAGTTCGGGGGT
* ** * *
36943714 AAAAACG-GGATTTTAGAAAGTTCGAGGGT
1 -AAAATGATAATTTTGGAAAGTTCGGGGGT
* * *
36943743 AAAACGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGATAA-TTTT-G-GAAAGTTCGGGGGT
**
36943773 AAAAATG-GGATTTTGGAAAGTTCGGGGGT
1 -AAAATGATAATTTTGGAAAGTTCGGGGGT
* *
36943802 AAAATGGTAATTTTTGGTGAAA-TT-GGGGTT
1 AAAATGATAA-TTTT-G-GAAAGTTCGGGGGT
*
36943832 AAAATG-GAATTTTGGAAAGTTCGGGGGT
1 AAAATGATAATTTTGGAAAGTTCGGGGGT
* * *
36943860 AAAATGGTAATTTTTGGTGAAA--TCAGGGTT
1 AAAATGATAA-TTTT-G-GAAAGTTCGGGGGT
* *
36943890 AAAAATG-GAATTTTGGAAAGTTCGGGGAT
1 -AAAATGATAATTTTGGAAAGTTCGGGGGT
* * *
36943919 AAAACGATAATTTTCGAAAGTTTC-GAGGT
1 AAAATGATAATTTTGGAAAG-TTCGGGGGT
36943948 CAAAATG-TAATTTT
1 -AAAATGATAATTTT
36943962 TTGAAATTTT
Statistics
Matches: 320, Mismatches: 57, Indels: 93
0.68 0.12 0.20
Matches are distributed among these distances:
26 4 0.01
27 23 0.07
28 56 0.17
29 96 0.30
30 92 0.29
31 29 0.09
32 20 0.06
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.32
Consensus pattern (29 bp):
AAAATGATAATTTTGGAAAGTTCGGGGGT
Found at i:36943976 original size:117 final size:115
Alignment explanation
Indices: 36943533--36943993 Score: 504
Period size: 117 Copynumber: 3.9 Consensus size: 115
36943523 GGAAAATTTG
* *
36943533 GGGTTAAAAAT-GAGATTTTGGAAGGTTCGAGGG-TAAAATGATAATTTTGGTGAAATCGAGGTC
1 GGGTTAAAAATGGA-ATTTTGGAAAGTTCG-GGGATAAAATGATAATTTTTGTGAAATCGAGGTC
*
36943596 AAAAAT-GAAGTTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGATGAAATC
64 -AAAATGGAA-TTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGGTGAAATC
** *
36943649 GAGGTTAAAAATGGAATTTTGGAAAGTTCAAGGATAAAATGGTAATTTTTGGTGAAATCGAGGTT
1 G-GGTTAAAAATGGAATTTTGGAAAGTTCGGGGATAAAATGATAATTTTT-GTGAAATCGAGG-T
* * * * * *
36943714 AAAAACGGGATTTTAGAAAGTTCGAGGGTAAAACGGTAATTTTTGGTGAAATC
63 CAAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGGTGAAATC
* * * * * *
36943767 GGGGTTAAAAATGGGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTT
1 -GGGTTAAAAATGGAATTTTGGAAAGTTCGGGGATAAAATGATAATTTTT-GTGAAATCGAGGTC
* *
36943832 AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTGAAATC
64 AAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGGTGAAATC
* *
36943884 AGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGATAAAACGATAA-TTTT-CGAAAGTTTCGAGG
1 -GGGTTAAAAATGGAATTTTGGAAAGTTCGGGGATAAAATGATAATTTTTGTGAAA---TCGAGG
* * * *
36943947 TCAAAATGTAATTTTTTGAAA-TTTTGGGGTCAAAA-TGTAATTTTTGG
62 TCAAAATGGAA-TTTTGGAAAGTTTGGGGGT-AAAACGGTAATTTTTGG
36943994 ACTGTTTGGG
Statistics
Matches: 295, Mismatches: 38, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
114 4 0.01
116 7 0.02
117 156 0.53
118 124 0.42
119 4 0.01
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (115 bp):
GGGTTAAAAATGGAATTTTGGAAAGTTCGGGGATAAAATGATAATTTTTGTGAAATCGAGGTCAA
AATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGGTGAAATC
Found at i:36945962 original size:11 final size:11
Alignment explanation
Indices: 36945946--36946012 Score: 75
Period size: 11 Copynumber: 6.0 Consensus size: 11
36945936 TACAAATAAT
36945946 ATTAAATTTAA
1 ATTAAATTTAA
*
36945957 ATTAAATTCAA
1 ATTAAATTTAA
36945968 ACTTAAA-TTAA
1 A-TTAAATTTAA
36945979 ATTTAAA-TTAA
1 A-TTAAATTTAA
36945990 ATTAAAATTTAA
1 ATT-AAATTTAA
*
36946002 AATAAATTTAA
1 ATTAAATTTAA
36946013 TTTCAAAGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
10 2 0.04
11 36 0.73
12 11 0.22
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:36945963 original size:5 final size:5
Alignment explanation
Indices: 36945946--36946014 Score: 66
Period size: 5 Copynumber: 12.6 Consensus size: 5
36945936 TACAAATAAT
36945946 ATTAA ATTTAA ATTAA ATTCAA ACTTAA ATTAA ATTTAA ATTAA ATTAAA
1 ATTAA A-TTAA ATTAA ATT-AA A-TTAA ATTAA A-TTAA ATTAA ATT-AA
* *
36945996 ATTTAA AATAA ATTTA ATT
1 A-TTAA ATTAA ATTAA ATT
36946015 TCAAAGTAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
5 29 0.53
6 22 0.40
7 4 0.07
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (5 bp):
ATTAA
Found at i:36945975 original size:17 final size:16
Alignment explanation
Indices: 36945953--36946026 Score: 76
Period size: 17 Copynumber: 4.4 Consensus size: 16
36945943 AATATTAAAT
36945953 TTAAATTAAATTCAAA
1 TTAAATTAAATTCAAA
*
36945969 CTTAAATTAAATTTAAA
1 -TTAAATTAAATTCAAA
*
36945986 TTAAATTAAAATTTAAA
1 TTAAATT-AAATTCAAA
* *
36946003 ATAAATTTAATTTCAAA
1 TTAAA-TTAAATTCAAA
*
36946020 GTAAATT
1 TTAAATT
36946027 CTAAAACGGT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
16 9 0.18
17 39 0.78
18 2 0.04
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (16 bp):
TTAAATTAAATTCAAA
Found at i:36945980 original size:28 final size:28
Alignment explanation
Indices: 36945946--36946012 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
36945936 TACAAATAAT
*
36945946 ATTAAATTTAAATTAAATTCAAACTTAA
1 ATTAAATTTAAATTAAATTAAAACTTAA
*
36945974 ATTAAATTTAAATTAAATTAAAATTTAA
1 ATTAAATTTAAATTAAATTAAAACTTAA
*
36946002 AATAAATTTAA
1 ATTAAATTTAA
36946013 TTTCAAAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (28 bp):
ATTAAATTTAAATTAAATTAAAACTTAA
Found at i:36950015 original size:43 final size:43
Alignment explanation
Indices: 36949954--36950043 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
36949944 ACATTTAGAT
36949954 ATGTTGTTCAAGTCTGAGTGTAGTTACTTCTCCCCAATCTTGA
1 ATGTTGTTCAAGTCTGAGTGTAGTTACTTCTCCCCAATCTTGA
36949997 ATGTTGTTCAAGTCTGAGTGTAGTTACTTCTCCCCAATCTTGA
1 ATGTTGTTCAAGTCTGAGTGTAGTTACTTCTCCCCAATCTTGA
36950040 ATGT
1 ATGT
36950044 CTTTTGTCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (43 bp):
ATGTTGTTCAAGTCTGAGTGTAGTTACTTCTCCCCAATCTTGA
Found at i:36962705 original size:13 final size:13
Alignment explanation
Indices: 36962689--36962713 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36962679 ATTTAAACCC
36962689 ATTTTAAAGATTT
1 ATTTTAAAGATTT
36962702 ATTTTAAAGATT
1 ATTTTAAAGATT
36962714 AAATTTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
ATTTTAAAGATTT
Found at i:36962721 original size:18 final size:17
Alignment explanation
Indices: 36962698--36962740 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
36962688 CATTTTAAAG
36962698 ATTTATTTTAAAGATTAA
1 ATTTATTTTAAA-ATTAA
* *
36962716 ATTTATTTTGAATTTAA
1 ATTTATTTTAAAATTAA
36962733 ATTTATTT
1 ATTTATTT
36962741 GAATTCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
ATTTATTTTAAAATTAA
Found at i:36962743 original size:16 final size:17
Alignment explanation
Indices: 36962698--36962745 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
36962688 CATTTTAAAG
* *
36962698 ATTTATTTTAAAGATTAA
1 ATTTATTTTGAA-TTTAA
36962716 ATTTATTTTGAATTTAA
1 ATTTATTTTGAATTTAA
36962733 ATTTA-TTTGAATT
1 ATTTATTTTGAATT
36962746 CATATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.29
17 9 0.32
18 11 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
ATTTATTTTGAATTTAA
Found at i:36962752 original size:16 final size:17
Alignment explanation
Indices: 36962714--36962753 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
36962704 TTTAAAGATT
*
36962714 AAATTTATTTTGAATTT
1 AAATTTATTTTGAATTC
36962731 AAATTTA-TTTGAATTC
1 AAATTTATTTTGAATTC
*
36962747 ATATTTA
1 AAATTTA
36962754 AATTTAAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (17 bp):
AAATTTATTTTGAATTC
Found at i:36964572 original size:30 final size:29
Alignment explanation
Indices: 36964478--36964630 Score: 93
Period size: 30 Copynumber: 5.1 Consensus size: 29
36964468 CAAACTTTCT
* *
36964478 AAAATTCTATTTTTGATCCCGATTTCACCC
1 AAAATTCCATTTTT-ACCCCGATTTCACCC
* *
36964508 AAAATTACCA-TTTTA-CCC--TTTAAACTTTCT
1 AAAATT-CCATTTTTACCCCGATTT-CAC---CC
36964538 AAAATTCCATTTTTAACCCCGATTTCACCC
1 AAAATTCCATTTTT-ACCCCGATTTCACCC
** **
36964568 AAAATTACCA-TTTTACCCTCGA-ACCTTCC
1 AAAATT-CCATTTTTACCC-CGATTTCACCC
*
36964597 AAAATTTCATTTTTGACCCCGATTTCACCC
1 AAAATTCCATTTTT-ACCCCGATTTCACCC
36964627 AAAA
1 AAAA
36964631 ATTATCATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
26 3 0.03
27 2 0.02
28 5 0.05
29 24 0.26
30 46 0.49
31 6 0.06
32 3 0.03
33 2 0.02
34 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.36
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCCGATTTCACCC
Found at i:36964630 original size:59 final size:59
Alignment explanation
Indices: 36964468--36964821 Score: 410
Period size: 59 Copynumber: 6.0 Consensus size: 59
36964458 TTCTAGTCCC
* * * *
36964468 CAAACTTTCTAAAATTCTATTTTTGATCCCGATTTCACCCAAAATTACCATTTTACCCTT
1 CAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACCATTTTACCC-T
* * * *
36964528 TAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTTACCCT
1 CAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACCATTTTACCCT
* * * *
36964587 CGAACCTTCCAAAATTTCATTTTTGACCCCGATTTCACCCAAAAATTATCATTTTACCC-
1 CAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCA-CCAAAAATTACCATTTTACCCT
* * * *
36964646 CAAACTTTCCAAAATCCCATTTTT-ACCCTCGGTTTTACCAAAAATTACTATTTTACCCT
1 CAAACTTTCCAAAATTCCATTTTTGACCC-CGATTTCACCAAAAATTACCATTTTACCCT
* * * * ** *
36964705 CGAACCTTCCAAAATCCCATTTTTAACCTTGATTTCA-CAAAAATTACCATTTTACCCC
1 CAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACCATTTTACCCT
* * *
36964763 CAAACTTTCCAAAATTCCATTTTTGACCTCAATTTTACCAAAAATTA-CATTTTTACCCT
1 CAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACCA-TTTTACCCT
36964822 TAAAAGTTAA
Statistics
Matches: 252, Mismatches: 36, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
58 74 0.29
59 102 0.40
60 76 0.30
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.37
Consensus pattern (59 bp):
CAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACCATTTTACCCT
Found at i:36964646 original size:30 final size:30
Alignment explanation
Indices: 36964548--36964646 Score: 89
Period size: 29 Copynumber: 3.3 Consensus size: 30
36964538 AAAATTCCAT
*
36964548 TTTTAACCCCGATTTCACCCAAAATTACCA
1 TTTTAACCCCGATTTCACCCAAAATTATCA
** **
36964578 TTTT-ACCCTCGA-ACCTTCCAAAATT-TCA
1 TTTTAACCC-CGATTTCACCCAAAATTATCA
*
36964606 TTTTTGACCCCGATTTCACCCAAAAATTATCA
1 -TTTTAACCCCGATTTCACCC-AAAATTATCA
36964638 TTTT-ACCCC
1 TTTTAACCCC
36964647 AAACTTTCCA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
28 2 0.04
29 20 0.37
30 19 0.35
31 10 0.19
32 3 0.06
ACGTcount: A:0.29, C:0.32, G:0.04, T:0.34
Consensus pattern (30 bp):
TTTTAACCCCGATTTCACCCAAAATTATCA
Found at i:36964717 original size:30 final size:30
Alignment explanation
Indices: 36964568--36964785 Score: 102
Period size: 29 Copynumber: 7.5 Consensus size: 30
36964558 GATTTCACCC
36964568 AAAATTACCATTTTACCCTCGAACCTTCC-
1 AAAATTACCATTTTACCCTCGAACCTTCCA
* ** **
36964597 AAAATT-TCATTTTTGACCC-CGATTTCACCCA
1 AAAATTACCA-TTTT-ACCCTCGA-ACCTTCCA
* * *
36964628 AAAATTATCATTTTACCC-CAAACTTTCC-
1 AAAATTACCATTTTACCCTCGAACCTTCCA
* ***
36964656 AAAA-TCCCATTTTTACCCTCG-GTTTTACCA
1 AAAATTACCA-TTTTACCCTCGAACCTT-CCA
*
36964686 AAAATTACTATTTTACCCTCGAACCTTCC-
1 AAAATTACCATTTTACCCTCGAACCTTCCA
* * * *
36964715 AAAA-TCCCATTTTTAACCTTG-A-TTTCACA
1 AAAATTACCA-TTTTACCCTCGAACCTTC-CA
* * *
36964744 AAAATTACCATTTTACCCCCAAACTTTCC-
1 AAAATTACCATTTTACCCTCGAACCTTCCA
36964773 AAAATT-CCATTTT
1 AAAATTACCATTTT
36964786 TGACCTCAAT
Statistics
Matches: 141, Mismatches: 31, Indels: 35
0.68 0.15 0.17
Matches are distributed among these distances:
27 6 0.04
28 29 0.21
29 48 0.34
30 36 0.26
31 19 0.13
32 3 0.02
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTACCATTTTACCCTCGAACCTTCCA
Found at i:36968270 original size:51 final size:51
Alignment explanation
Indices: 36968207--36968330 Score: 140
Period size: 51 Copynumber: 2.4 Consensus size: 51
36968197 CGTATAGAAG
* ** * * * *
36968207 TTCATATACTCACGATGACACTAAGCCATCGGACCTATAGTTTATCATGGA
1 TTCATTTACTCACGATGACACTAAGCCATCAAACCTATAATTCATAAAGGA
* * * * *
36968258 TTCATTTACTCACGATAACACTTAGTCATCAAACCTTTAATTCGTAAAGGA
1 TTCATTTACTCACGATGACACTAAGCCATCAAACCTATAATTCATAAAGGA
36968309 TTCATTTACTCACGATGACACT
1 TTCATTTACTCACGATGACACT
36968331 TACTCACGAT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (51 bp):
TTCATTTACTCACGATGACACTAAGCCATCAAACCTATAATTCATAAAGGA
Found at i:36968335 original size:16 final size:16
Alignment explanation
Indices: 36968314--36968348 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
36968304 AAGGATTCAT
36968314 TTACTCACGATGACAC
1 TTACTCACGATGACAC
36968330 TTACTCACGATGACAC
1 TTACTCACGATGACAC
36968346 TTA
1 TTA
36968349 GTCATCGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (16 bp):
TTACTCACGATGACAC
Found at i:36968371 original size:67 final size:67
Alignment explanation
Indices: 36968263--36968399 Score: 238
Period size: 67 Copynumber: 2.0 Consensus size: 67
36968253 ATGGATTCAT
*
36968263 TTACTCACGATAACACTTAGTCATCAAACCTTTAATTCGTAAAGGATTCATTTACTCACGATGAC
1 TTACTCACGATAACACTTAGTCATCAAACCTTTAATCCGTAAAGGATTCATTTACTCACGATGAC
36968328 AC
66 AC
* **
36968330 TTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGAC
1 TTACTCACGATAACACTTAGTCATCAAACCTTTAATCCGTAAAGGATTCATTTACTCACGATGAC
36968395 AC
66 AC
36968397 TTA
1 TTA
36968400 GTCATCGGAC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (67 bp):
TTACTCACGATAACACTTAGTCATCAAACCTTTAATCCGTAAAGGATTCATTTACTCACGATGAC
AC
Found at i:36973913 original size:89 final size:89
Alignment explanation
Indices: 36973791--36973964 Score: 287
Period size: 89 Copynumber: 2.0 Consensus size: 89
36973781 AAAAGGAGAG
* *
36973791 GAAAAAAAGAAAAAAGCCACCAAACCTTGAAACTCTTTCCTT-CTTCTTCCATCTTTCCCCAAAT
1 GAAAAAAAGAAAAAAGCCACCAAACCCTAAAACTCTTT-CTTCCTTCTTCCATCTTTCCCCAAAT
36973855 TCAAAAAGAAAAAAACCTTAGCCTT
65 TCAAAAAGAAAAAAACCTTAGCCTT
* *
36973880 GAAAAAAGGAAAAAAGCCACCAAACCCTAAAACTCTTTCTTCCTTCTTTCATCTTTCCCCAAATT
1 GAAAAAAAGAAAAAAGCCACCAAACCCTAAAACTCTTTCTTCCTTCTTCCATCTTTCCCCAAATT
*
36973945 CAAAAAGAAAATAACCTTAG
66 CAAAAAGAAAAAAACCTTAG
36973965 TCCTCACCTT
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 3 0.04
89 76 0.96
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.25
Consensus pattern (89 bp):
GAAAAAAAGAAAAAAGCCACCAAACCCTAAAACTCTTTCTTCCTTCTTCCATCTTTCCCCAAATT
CAAAAAGAAAAAAACCTTAGCCTT
Found at i:36990922 original size:21 final size:21
Alignment explanation
Indices: 36990892--36990948 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
36990882 ACCTCCATCA
* *
36990892 ATAAT-TTTAATTTCACTATT
1 ATAATATTTAATTTCACCAGT
36990912 ATAATATTTAATCTT-ACCAGT
1 ATAATATTTAAT-TTCACCAGT
*
36990933 ATAATAATTAATTTCA
1 ATAATATTTAATTTCA
36990949 TCATCACTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 7 0.23
21 22 0.71
22 2 0.06
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (21 bp):
ATAATATTTAATTTCACCAGT
Found at i:36991172 original size:18 final size:20
Alignment explanation
Indices: 36991139--36991175 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
36991129 CAAATTTTAA
36991139 TTTAAATATATATTAAATAT
1 TTTAAATATATATTAAATAT
36991159 TTTAAAT-T-TATTAAATA
1 TTTAAATATATATTAAATA
36991176 AATGTATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAATATATATTAAATAT
Found at i:36996048 original size:18 final size:18
Alignment explanation
Indices: 36996014--36996072 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
36996004 TTATTTTTAC
36996014 AAATT-AAATAAATTATTA
1 AAATTAAAATAAA-TATTA
36996032 AAATTAAAATAAATATTTA
1 AAATTAAAATAAATA-TTA
* *
36996051 AAAATATAAA-CAATATTA
1 AAATTA-AAATAAATATTA
36996069 AAAT
1 AAAT
36996073 AAATTATTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 13 0.37
19 19 0.54
20 3 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTAAAATAAATATTA
Found at i:36996051 original size:19 final size:17
Alignment explanation
Indices: 36996008--36996053 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
36995998 TTATCATTAT
36996008 TTTTACAAATTAAATAAA
1 TTTTA-AAATTAAATAAA
36996026 TTATTAAAATTAAAATAAA
1 TT-TTAAAATT-AAATAAA
36996045 TATTTAAAA
1 T-TTTAAAA
36996054 ATATAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 7 0.28
19 17 0.68
20 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
TTTTAAAATTAAATAAA
Found at i:36996525 original size:11 final size:11
Alignment explanation
Indices: 36996487--36996526 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
36996477 AAAAAACTAA
36996487 TTTAAATATATT
1 TTTAAATATA-T
36996499 TTTAAATTATAT
1 TTTAAA-TATAT
*
36996511 TTTAAATAGAT
1 TTTAAATATAT
36996522 TTTAA
1 TTTAA
36996527 GTTAAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 9 0.35
12 13 0.50
13 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (11 bp):
TTTAAATATAT
Found at i:37002634 original size:15 final size:16
Alignment explanation
Indices: 37002604--37002645 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
37002594 TATTTTAAAA
37002604 TTAAAAAATATTATTT
1 TTAAAAAATATTATTT
*
37002620 TTAAATAAT-TTATTT
1 TTAAAAAATATTATTT
*
37002635 TT-TAAAATATT
1 TTAAAAAATATT
37002646 TAAATTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 4 0.18
15 10 0.45
16 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAAAAATATTATTT
Found at i:37004522 original size:7 final size:7
Alignment explanation
Indices: 37004510--37004534 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
37004500 AATTCGAAAA
37004510 AATTTCG
1 AATTTCG
37004517 AATTTCG
1 AATTTCG
37004524 AATTTCG
1 AATTTCG
37004531 AATT
1 AATT
37004535 ATTCGAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (7 bp):
AATTTCG
Found at i:37004553 original size:23 final size:23
Alignment explanation
Indices: 37004527--37004571 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
37004517 AATTTCGAAT
**
37004527 TTCGAATTATTCGAATCGAGTTA
1 TTCGAATTAAACGAATCGAGTTA
*
37004550 TTCGAGTTAAACGAATCGAGTT
1 TTCGAATTAAACGAATCGAGTT
37004572 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (23 bp):
TTCGAATTAAACGAATCGAGTTA
Found at i:37004826 original size:34 final size:34
Alignment explanation
Indices: 37004781--37004856 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
37004771 CATAAACTAA
*
37004781 ACCCAAATATTTTTAATTTTTTACCTTTTATCTT
1 ACCCAAATATTTTTAATTTTTTACCTTTTACCTT
*
37004815 ATCCAAATATTTTTAATTTTTTACCTTTTACCTT
1 ACCCAAATATTTTTAATTTTTTACCTTTTACCTT
37004849 ACCCAAAT
1 ACCCAAAT
37004857 GTTATTTACT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (34 bp):
ACCCAAATATTTTTAATTTTTTACCTTTTACCTT
Found at i:37007847 original size:3 final size:3
Alignment explanation
Indices: 37007839--37007865 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
37007829 CACAATATAC
37007839 TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA
37007866 AATCTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:37010830 original size:87 final size:86
Alignment explanation
Indices: 37010683--37010847 Score: 226
Period size: 87 Copynumber: 1.9 Consensus size: 86
37010673 AAATTTAAAT
* *
37010683 TCGATGAATTCATTAAGCCTATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGA
1 TCGATGAATTCATCAAGCCTATCTCAATAAGACCACCCAAACTCTAGGATATGAACTCATTAAGA
37010748 GTAAGAAACTTAACTTCACAGG
66 GTAA-AAACTTAACTTCACAGG
* * * *
37010770 TCGATGAATTCATCAAGTCC-GTCTCGATAAGACCACCCACACTCT-GGACTATGAATTCATTAA
1 TCGATGAATTCATCAAG-CCTATCTCAATAAGACCACCCAAACTCTAGGA-TATGAACTCATTAA
*
37010833 GAGTAACAACTTAAC
64 GAGTAAAAACTTAAC
37010848 CTTATGCATG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 11 0.16
87 56 0.81
88 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (86 bp):
TCGATGAATTCATCAAGCCTATCTCAATAAGACCACCCAAACTCTAGGATATGAACTCATTAAGA
GTAAAAACTTAACTTCACAGG
Found at i:37013931 original size:18 final size:18
Alignment explanation
Indices: 37013908--37013942 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
37013898 TGAATTTTAC
37013908 AATTCGAATAACTCAAAA
1 AATTCGAATAACTCAAAA
37013926 AATTCGAATAACTCAAA
1 AATTCGAATAACTCAAA
37013943 TAACATATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (18 bp):
AATTCGAATAACTCAAAA
Found at i:37014068 original size:19 final size:19
Alignment explanation
Indices: 37014027--37014082 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
37014017 AATACAAAAA
*
37014027 AAAAAATCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
37014046 -AAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
37014064 AAAAATTCTAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
37014082 A
1 A
37014083 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 4 0.12
18 19 0.58
19 10 0.30
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:37014115 original size:20 final size:20
Alignment explanation
Indices: 37014082--37014120 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37014072 TAAAATTTAT
*
37014082 ATTTTTAAAAAATTATAAAA
1 ATTTTAAAAAAATTATAAAA
*
37014102 ATTTTAAAAAAATTCTAAA
1 ATTTTAAAAAAATTATAAA
37014121 GAATATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTTAAAAAAATTATAAAA
Found at i:37028202 original size:24 final size:24
Alignment explanation
Indices: 37028168--37028236 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
37028158 GGTTAACCAT
*
37028168 TCTGGGTTCGTAAGAGCTAATCTT-
1 TCTGGGCTCGTAAGAGCTAAT-TTG
* *
37028192 TTTGGGCTCGTGAGAGCTAATTTGG
1 TCTGGGCTCGTAAGAGCTAATTT-G
*
37028217 TCTGGGCTCGTATGAGCTAA
1 TCTGGGCTCGTAAGAGCTAA
37028237 AATTTGGAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 2 0.05
24 18 0.49
25 17 0.46
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.35
Consensus pattern (24 bp):
TCTGGGCTCGTAAGAGCTAATTTG
Found at i:37028953 original size:21 final size:21
Alignment explanation
Indices: 37028929--37028983 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
37028919 AGAGTTTTTA
*
37028929 GTATTGGTAGAAGAGTTACTT
1 GTATTGGTAGAAGAGTCACTT
* *
37028950 GTATCGGTAGAACAGTCACTT
1 GTATTGGTAGAAGAGTCACTT
*
37028971 GTATTAGTAGAAG
1 GTATTGGTAGAAG
37028984 TCTACACTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (21 bp):
GTATTGGTAGAAGAGTCACTT
Found at i:37048447 original size:31 final size:31
Alignment explanation
Indices: 37048409--37048469 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
37048399 TCGAATCGTG
37048409 ACTTAAATGAAAACAT-TCGAATAGTCCAATA
1 ACTTAAATGAAAAC-TGTCGAATAGTCCAATA
*
37048440 ACTTAAATGAAAACTGTCGAATAGTTCAAT
1 ACTTAAATGAAAACTGTCGAATAGTCCAAT
37048470 GACTATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (31 bp):
ACTTAAATGAAAACTGTCGAATAGTCCAATA
Found at i:37049389 original size:16 final size:16
Alignment explanation
Indices: 37049346--37049391 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
37049336 TTAAAATTTT
*
37049346 AAAAATAATT-ATATT
1 AAAAATAATTAATATA
*
37049361 AAAAATAAATAATATA
1 AAAAATAATTAATATA
*
37049377 AAAAATATTTAATAT
1 AAAAATAATTAATAT
37049392 GAATATCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAAATAATTAATATA
Found at i:37053051 original size:3 final size:3
Alignment explanation
Indices: 37053035--37053079 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
37053025 TAAAGGGTTT
*
37053035 AAG AAG -AG AA- AAG AAG AAG AAG AAG AGG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
37053080 AATGGAGATG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:37053683 original size:27 final size:27
Alignment explanation
Indices: 37053653--37053710 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
37053643 GGTCAAACAC
*
37053653 CAAAATGTTTACAAAAGATACGAATGA
1 CAAAATGTTTACAAAAGAAACGAATGA
* * *
37053680 CAAACTGTTTACAAAATAAAGGAATGA
1 CAAAATGTTTACAAAAGAAACGAATGA
37053707 CAAA
1 CAAA
37053711 TTATTGTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.21
Consensus pattern (27 bp):
CAAAATGTTTACAAAAGAAACGAATGA
Found at i:37059737 original size:25 final size:25
Alignment explanation
Indices: 37059709--37059764 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
37059699 AAATAAACAA
* * *
37059709 TAAAGAACAACATATAAAATAGTAT
1 TAAAAAACAACATAGAAAATAATAT
*
37059734 TAAAAAATAACATAGAAAATAATAT
1 TAAAAAACAACATAGAAAATAATAT
37059759 TAAAAA
1 TAAAAA
37059765 GGGAACTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.23
Consensus pattern (25 bp):
TAAAAAACAACATAGAAAATAATAT
Found at i:37061449 original size:161 final size:161
Alignment explanation
Indices: 37061178--37061634 Score: 765
Period size: 161 Copynumber: 2.8 Consensus size: 161
37061168 TACTCATCAC
*
37061178 TATCAGACCAGAAACAAACATTTAATACAACACAAGCAAAAACTTTAACCATTTCTGTCAGACAA
1 TATCAGACCAGAAACAAACATTTAATACAACACAAGCAAACACTTTAACCATTTCTGTCAGACAA
**
37061243 TAACCAATGCAAAAACAATATTATATAAACAAACACTATCAAACAATACAAAAACAATATTATAC
66 TAACCAATGCAAAAACAATATTATATAAACAAACACTGCCAAACAATACAAAAACAATATTATA-
*
37061308 T-AACATTTAATACGAA-ATAGGCAAACAATAT
130 TAAACATTTAATAC-AACACAGGCAAACAATAT
* * * * *
37061339 TATCAGACTAGAAACAAACATTTAATACAACACAGGCAAACACTTTAACCATTTATGTCGGATAA
1 TATCAGACCAGAAACAAACATTTAATACAACACAAGCAAACACTTTAACCATTTCTGTCAGACAA
*
37061404 TAACCAATGCAAAAACAATATTATATAAACAAGCACTGCCAAACAATACAAAAACAATATTATAT
66 TAACCAATGCAAAAACAATATTATATAAACAAACACTGCCAAACAATACAAAAACAATATTATAT
37061469 AAACATTTAATACAACACAGGCAAACAATAT
131 AAACATTTAATACAACACAGGCAAACAATAT
* *
37061500 TATCATACCAGAAACAAACATTTAATACAACACAAACAAACACTTTAACCATTTCTGTCAGACAA
1 TATCAGACCAGAAACAAACATTTAATACAACACAAGCAAACACTTTAACCATTTCTGTCAGACAA
*
37061565 TAACCAATGCAAAATCAATATTATATAAACAAACACTGCCAAACAATACAAAAACAATATTATAT
66 TAACCAATGCAAAAACAATATTATATAAACAAACACTGCCAAACAATACAAAAACAATATTATAT
37061630 AAACA
131 AAACA
37061635 CAGTTGCATG
Statistics
Matches: 275, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
160 3 0.01
161 272 0.99
ACGTcount: A:0.52, C:0.20, G:0.06, T:0.22
Consensus pattern (161 bp):
TATCAGACCAGAAACAAACATTTAATACAACACAAGCAAACACTTTAACCATTTCTGTCAGACAA
TAACCAATGCAAAAACAATATTATATAAACAAACACTGCCAAACAATACAAAAACAATATTATAT
AAACATTTAATACAACACAGGCAAACAATAT
Found at i:37061547 original size:23 final size:22
Alignment explanation
Indices: 37061469--37061547 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
37061459 AATATTATAT
**
37061469 AAACATTTAATACAACACAGGC
1 AAACATTTAATACAACACAAAC
*
37061491 AAACAATATT-AT-CATACCAGAAAC
1 AAAC-AT-TTAATACA-A-CACAAAC
37061515 AAACATTTAATACAACACAAAC
1 AAACATTTAATACAACACAAAC
37061537 AAACACTTTAA
1 AAACA-TTTAA
37061548 CCATTTCTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
22 19 0.41
23 15 0.33
24 12 0.26
ACGTcount: A:0.54, C:0.22, G:0.04, T:0.20
Consensus pattern (22 bp):
AAACATTTAATACAACACAAAC
Found at i:37061757 original size:7 final size:7
Alignment explanation
Indices: 37061745--37061776 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
37061735 AAGCAATGTC
37061745 AAACAAT
1 AAACAAT
37061752 AAACAAT
1 AAACAAT
37061759 --ACAAT
1 AAACAAT
37061764 AAACAAT
1 AAACAAT
37061771 AAACAA
1 AAACAA
37061777 ATTTGCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.22
7 18 0.78
ACGTcount: A:0.72, C:0.16, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACAAT
Found at i:37061764 original size:12 final size:12
Alignment explanation
Indices: 37061747--37061771 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37061737 GCAATGTCAA
37061747 ACAATAAACAAT
1 ACAATAAACAAT
37061759 ACAATAAACAAT
1 ACAATAAACAAT
37061771 A
1 A
37061772 AACAAATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (12 bp):
ACAATAAACAAT
Found at i:37061814 original size:25 final size:25
Alignment explanation
Indices: 37061780--37061835 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
37061770 TAAACAAATT
*
37061780 TGCATATATATAGAGCACATATATC
1 TGCATATATAGAGAGCACATATATC
37061805 TGCATATATAGAGAGCACATATATC
1 TGCATATATAGAGAGCACATATATC
37061830 TGCATA
1 TGCATA
37061836 AACAATAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (25 bp):
TGCATATATAGAGAGCACATATATC
Found at i:37062036 original size:12 final size:12
Alignment explanation
Indices: 37062019--37062062 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
37062009 ATGAAATCAA
*
37062019 AATACAAACCAG
1 AATACAAACTAG
37062031 AATACAAACTAG
1 AATACAAACTAG
* *
37062043 GATACAAAGTAG
1 AATACAAACTAG
37062055 AATACAAA
1 AATACAAA
37062063 AAATAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.59, C:0.16, G:0.11, T:0.14
Consensus pattern (12 bp):
AATACAAACTAG
Found at i:37062382 original size:35 final size:35
Alignment explanation
Indices: 37062343--37062426 Score: 114
Period size: 35 Copynumber: 2.4 Consensus size: 35
37062333 AATAGCATTC
* *
37062343 AAAATCCAAATCAAAATCGAATAAACCTTAAATTT
1 AAAATCAAAATCAAAATCGAATAAACCCTAAATTT
* **
37062378 AAAATCAAAATCAAAATTGAATAAACCCTAAATAA
1 AAAATCAAAATCAAAATCGAATAAACCCTAAATTT
*
37062413 AAAATCATAATCAA
1 AAAATCAAAATCAA
37062427 TATTGACATC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (35 bp):
AAAATCAAAATCAAAATCGAATAAACCCTAAATTT
Found at i:37063430 original size:13 final size:13
Alignment explanation
Indices: 37063408--37063437 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
37063398 CCTTGAAAAT
37063408 TTGCAATTTTTTG
1 TTGCAATTTTTTG
*
37063421 TTGCATTTTTTTG
1 TTGCAATTTTTTG
37063434 TTGC
1 TTGC
37063438 CTTGCTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.10, G:0.17, T:0.63
Consensus pattern (13 bp):
TTGCAATTTTTTG
Found at i:37072674 original size:14 final size:13
Alignment explanation
Indices: 37072657--37072699 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
37072647 CAAATTATTT
37072657 TTCTCGATTTCTTA
1 TTCTCGATTT-TTA
* *
37072671 TTCTCAATTTTCAA
1 TTCTCGATTTT-TA
37072685 TTCTCGATTTTTA
1 TTCTCGATTTTTA
37072698 TT
1 TT
37072700 TTAAATTCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.19, C:0.19, G:0.05, T:0.58
Consensus pattern (13 bp):
TTCTCGATTTTTA
Done.