Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 92 of 322
Found at i:29836409 original size:13 final size:13
Alignment explanation
Indices: 29836391--29836423 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
29836381 TTAGGGCTAA
29836391 TTTAAAATT-TCTT
1 TTTAAAATTAT-TT
29836404 TTTAAAATTATTT
1 TTTAAAATTATTT
29836417 TTTAAAA
1 TTTAAAA
29836424 GTGCTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 18 0.95
14 1 0.05
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTAAAATTATTT
Found at i:29836430 original size:26 final size:26
Alignment explanation
Indices: 29836391--29836477 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 26
29836381 TTAGGGCTAA
* * *
29836391 TTTAAAATTTCTTTTTAAAATTATTT
1 TTTAAAAGTGCTTTTTAAAAATATTT
* * *
29836417 TTTAAAAGTGCTTTTAAAAAATAATG
1 TTTAAAAGTGCTTTTTAAAAATATTT
**
29836443 TGAAAAAGTGC-TTTTAACAAATATTT
1 TTTAAAAGTGCTTTTTAA-AAATATTT
*
29836469 TTGAAAAGT
1 TTTAAAAGT
29836478 TTGGTTTAAG
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
25 5 0.11
26 42 0.89
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (26 bp):
TTTAAAAGTGCTTTTTAAAAATATTT
Found at i:29836696 original size:20 final size:20
Alignment explanation
Indices: 29836673--29836713 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
29836663 TATATGAAAT
29836673 ATAAATTTTAAATATTTTTA
1 ATAAATTTTAAATATTTTTA
29836693 ATAAATTTTAAATATTTTTA
1 ATAAATTTTAAATATTTTTA
29836713 A
1 A
29836714 GCAATTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAAATTTTAAATATTTTTA
Found at i:29836719 original size:20 final size:20
Alignment explanation
Indices: 29836675--29836719 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
29836665 TATGAAATAT
*
29836675 AAATTTTAAATATTTTTAAT
1 AAATTTTAAATATTTTTAAG
29836695 AAATTTTAAATATTTTTAAG
1 AAATTTTAAATATTTTTAAG
*
29836715 CAATT
1 AAATT
29836720 AATATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
AAATTTTAAATATTTTTAAG
Found at i:29840494 original size:18 final size:18
Alignment explanation
Indices: 29840454--29840495 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
29840444 AAAAACTCCT
29840454 GGAGAAAATGAAAGAAGAA
1 GGAG-AAATGAAAGAAGAA
29840473 -GAGAAATGAAAG-AGAA
1 GGAGAAATGAAAGAAGAA
29840489 GGGAGAA
1 -GGAGAA
29840496 CCAAAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 9 0.43
18 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.05
Consensus pattern (18 bp):
GGAGAAATGAAAGAAGAA
Found at i:29845387 original size:42 final size:44
Alignment explanation
Indices: 29845286--29845416 Score: 135
Period size: 43 Copynumber: 3.0 Consensus size: 44
29845276 AGCTCATACA
* * ** * *
29845286 ATGCCAACGGCCCAGACGTGGTGTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGACAAGGTCTTACACGTAAATCAAATATCG
* *
29845329 ATGCCACTGTCCCAGACAAGGTCTTACACG-AAATCATATA-CG
1 ATGCCAATGTCCCAGACAAGGTCTTACACGTAAATCAAATATCG
* *
29845371 ATGCCAATGTCTCAGACATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAATGTCCCAGACAAGGTCTTACACGTAAATCA-AATATCG
29845415 AT
1 AT
29845417 AACAACGCCC
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
42 29 0.40
43 38 0.53
44 5 0.07
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACAAGGTCTTACACGTAAATCAAATATCG
Found at i:29850029 original size:32 final size:32
Alignment explanation
Indices: 29849988--29850059 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
29849978 GGCATTACAG
29849988 TGTGGGCCACACGGGCAAGGCCAATCTGGGCA
1 TGTGGGCCACACGGGCAAGGCCAATCTGGGCA
* * *
29850020 TGTGGGCCACTCGGGCAAGGCCAATTTGGGCG
1 TGTGGGCCACACGGGCAAGGCCAATCTGGGCA
*
29850052 TCTGGGCC
1 TGTGGGCC
29850060 CAAGATTCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.17, C:0.28, G:0.39, T:0.17
Consensus pattern (32 bp):
TGTGGGCCACACGGGCAAGGCCAATCTGGGCA
Found at i:29854165 original size:19 final size:20
Alignment explanation
Indices: 29854136--29854180 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
29854126 AAAAATGATA
*
29854136 AAAAATAATTAAATTTTAAT
1 AAAAATAATTAAAATTTAAT
*
29854156 AAAAAT-ATTAAAATTTATT
1 AAAAATAATTAAAATTTAAT
29854175 AAAAAT
1 AAAAAT
29854181 TATAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATAATTAAAATTTAAT
Found at i:29854188 original size:20 final size:19
Alignment explanation
Indices: 29854154--29854207 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
29854144 TTAAATTTTA
*
29854154 ATAAAAA-TATTAAAATTT
1 ATAAAAATTATAAAAATTT
*
29854172 ATTAAAAATTATAAAAATCGT
1 A-TAAAAATTATAAAAAT-TT
*
29854193 AAAAAAATTATAAAA
1 ATAAAAATTATAAAA
29854208 TATATCGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 1 0.03
19 6 0.20
20 21 0.70
21 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAAATTATAAAAATTT
Found at i:29854275 original size:20 final size:20
Alignment explanation
Indices: 29854252--29854303 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
29854242 ATAAAATCAT
29854252 AAGAAAATTATAAAA-ATGTA
1 AAGAAAA-TATAAAATATGTA
*
29854272 AAG-AAATATAAAATTTGTA
1 AAGAAAATATAAAATATGTA
*
29854291 AAAAAAATATAAA
1 AAGAAAATATAAA
29854304 TTATCGTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.25
19 9 0.32
20 12 0.43
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (20 bp):
AAGAAAATATAAAATATGTA
Found at i:29854476 original size:19 final size:18
Alignment explanation
Indices: 29854454--29854516 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 18
29854444 TTTTGATGCA
29854454 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTAT-AT
* * *
29854473 TTTTTTAAATTTTTAAATT
1 TTTTATAATTTTTTATA-T
29854492 TTTTATAATTCTTTTATAT
1 TTTTATAATT-TTTTATAT
29854511 TTTTAT
1 TTTTAT
29854517 TTTTATAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 1 0.03
19 29 0.81
20 6 0.17
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTATAATTTTTTATAT
Found at i:29854493 original size:7 final size:8
Alignment explanation
Indices: 29854474--29854546 Score: 53
Period size: 9 Copynumber: 8.6 Consensus size: 8
29854464 TTTTATGATT
29854474 TTTTTAAA
1 TTTTTAAA
29854482 TTTTTAAA
1 TTTTTAAA
29854490 TTTTTTATAA
1 -TTTTTA-AA
*
29854500 TTCTTTTATA
1 -T-TTTTAAA
29854510 TTTTT--A
1 TTTTTAAA
29854516 TTTTTATAA
1 TTTTTA-AA
29854525 TTTTT-AA
1 TTTTTAAA
29854532 TGTTTTAATA
1 T-TTTTAA-A
29854542 TTTTT
1 TTTTT
29854547 TATTAAAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 17
0.75 0.01 0.23
Matches are distributed among these distances:
6 6 0.11
7 3 0.05
8 16 0.29
9 18 0.33
10 7 0.13
11 5 0.09
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (8 bp):
TTTTTAAA
Found at i:29854508 original size:11 final size:10
Alignment explanation
Indices: 29854454--29854514 Score: 74
Period size: 10 Copynumber: 6.3 Consensus size: 10
29854444 TTTTGATGCA
29854454 TTTTATAATT
1 TTTTATAATT
*
29854464 TTTTATGATT
1 TTTTATAATT
*
29854474 TTTT-TAAAT
1 TTTTATAATT
29854483 TTTTA-AATT
1 TTTTATAATT
29854492 TTTTATAATT
1 TTTTATAATT
29854502 CTTTTAT-ATT
1 -TTTTATAATT
29854512 TTT
1 TTT
29854515 ATTTTTATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
9 18 0.41
10 20 0.45
11 6 0.14
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTATAATT
Found at i:29854918 original size:84 final size:83
Alignment explanation
Indices: 29854760--29854917 Score: 212
Period size: 83 Copynumber: 1.9 Consensus size: 83
29854750 AAAATAGGGA
* * **
29854760 CTTAATTTTTTTTTTAATTTTGAGGGCCTTTATGATAAATTTTGAAAGTTCAAGTACCCAATTTT
1 CTTAATTTTTTTTTTAAATTTGAGGGCCTTTATGATAAATTTTGAAAATTCAAGTACCCAATTGA
*
29854825 GTGCAAAAAATGCAGGAG
66 ATGCAAAAAATGCAGGAG
** *
29854843 CTTAATTTTTTTTTTTAAATTTGAGGGCCTTT-TGATGCATTTT-AAATATTCAAGTACCTAATT
1 CTTAA-TTTTTTTTTTAAATTTGAGGGCCTTTATGATAAATTTTGAAA-ATTCAAGTACCCAATT
29854906 GAATGCAAAAAA
64 GAATGCAAAAAA
29854918 AAATACAGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
82 3 0.05
83 37 0.57
84 25 0.38
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (83 bp):
CTTAATTTTTTTTTTAAATTTGAGGGCCTTTATGATAAATTTTGAAAATTCAAGTACCCAATTGA
ATGCAAAAAATGCAGGAG
Found at i:29854931 original size:84 final size:85
Alignment explanation
Indices: 29854721--29854940 Score: 209
Period size: 84 Copynumber: 2.6 Consensus size: 85
29854711 TTGACAGTTT
* * *
29854721 AAGTACCCAATTGAGTGCAAAAAAAAAATAAAATAGGGACTTAA-TTTTTTTTTTAATTTTGAGG
1 AAGTACCCAATTGAATGC-AAAAAAAAAT---ACA--GACTTAATTTTTTTTTTTAAATTTGAGG
*
29854785 GCCTTTATGATAAATTTTGAAAGTTC
60 GCCTTTATGATAAATTTTGAAAATTC
*** *
29854811 AAGTACCCAATTTTGTGC---AAAAAATGCAGGAGCTTAATTTTTTTTTTTAAATTTGAGGGCCT
1 AAGTACCCAATTGAATGCAAAAAAAAATACA-GA-CTTAATTTTTTTTTTTAAATTTGAGGGCCT
**
29854873 TT-TGATGCATTTT-AAATATTC
64 TTATGATAAATTTTGAAA-ATTC
* *
29854894 AAGTACCTAATTGAATGCAAAAAAAAATACAGACTTAATTATTTTTT
1 AAGTACCCAATTGAATGCAAAAAAAAATACAGACTTAATTTTTTTTT
29854941 AAAAAATTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
82 6 0.05
83 32 0.29
84 38 0.35
85 2 0.02
86 16 0.15
90 16 0.15
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.38
Consensus pattern (85 bp):
AAGTACCCAATTGAATGCAAAAAAAAATACAGACTTAATTTTTTTTTTTAAATTTGAGGGCCTTT
ATGATAAATTTTGAAAATTC
Found at i:29854939 original size:83 final size:84
Alignment explanation
Indices: 29854721--29854940 Score: 207
Period size: 83 Copynumber: 2.6 Consensus size: 84
29854711 TTGACAGTTT
* * *
29854721 AAGTACCCAATTGAGTGCAAAAAAAAAATAAAATAGGGACTTAATTTTTTTTTTAATTTTGAGGG
1 AAGTACCCAATTGAATGC-AAAAAAAAAT---ACA--GACTTAATTTTTTTTTTAAATTTGAGGG
*
29854786 CCTTTATGATAAATTTTGAAAGTTC
60 CCTTTATGATAAATTTTGAAAATTC
*** *
29854811 AAGTACCCAATTTTGTGC---AAAAAATGCAGGAGCTTAATTTTTTTTTTTAAATTTGAGGGCCT
1 AAGTACCCAATTGAATGCAAAAAAAAATACA-GA-CTTAA-TTTTTTTTTTAAATTTGAGGGCCT
**
29854873 TT-TGATGCATTTT-AAATATTC
63 TTATGATAAATTTTGAAA-ATTC
* *
29854894 AAGTACCTAATTGAATGCAAAAAAAAATACAGACTTAATTATTTTTT
1 AAGTACCCAATTGAATGCAAAAAAAAATACAGACTTAATTTTTTTTT
29854941 AAAAAATTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
82 6 0.05
83 40 0.36
84 30 0.27
85 2 0.02
86 16 0.15
90 16 0.15
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.38
Consensus pattern (84 bp):
AAGTACCCAATTGAATGCAAAAAAAAATACAGACTTAATTTTTTTTTTAAATTTGAGGGCCTTTA
TGATAAATTTTGAAAATTC
Found at i:29863168 original size:30 final size:30
Alignment explanation
Indices: 29863060--29863175 Score: 133
Period size: 30 Copynumber: 3.9 Consensus size: 30
29863050 GGAATTTTAC
* * *
29863060 ATCCTATTATAATGTTAGTTTGTGTGAGAA
1 ATCCTATTATAATGTCAGCTTGTGTGAGCA
* * * *
29863090 ATCTTATTGTAATATCAGTTTGTGTGAGCA
1 ATCCTATTATAATGTCAGCTTGTGTGAGCA
** *
29863120 AAACTATTATAATGTCAGCTTATGTGAGCA
1 ATCCTATTATAATGTCAGCTTGTGTGAGCA
*
29863150 ATCCTATTATAATGTCAGCCTGTGTG
1 ATCCTATTATAATGTCAGCTTGTGTG
29863176 TCCCAGTTCG
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (30 bp):
ATCCTATTATAATGTCAGCTTGTGTGAGCA
Found at i:29863964 original size:41 final size:42
Alignment explanation
Indices: 29863916--29864039 Score: 128
Period size: 41 Copynumber: 3.0 Consensus size: 42
29863906 TTTTTGAAAA
*
29863916 TTCTAAATTTTTTATAATTTTTAAAAATTCTATATTT-TATT
1 TTCTAAATTTTTTATAATTTTTAAAAATTATATATTTCTATT
* * *
29863957 TTCTAAATGATTTTAT-ATTTTTAAAAA-AATATTTTTCTATT
1 TTCTAAAT-TTTTTATAATTTTTAAAAATTATATATTTCTATT
* ** * *
29863998 TTTTTCATTTTTTATAATTTTTCAAAATTTTATAATTTCTAT
1 TTCTAAATTTTTTATAATTTTTAAAAATTATAT-ATTTCTAT
29864040 AATTTTTATA
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
40 12 0.18
41 38 0.58
42 9 0.14
43 7 0.11
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (42 bp):
TTCTAAATTTTTTATAATTTTTAAAAATTATATATTTCTATT
Found at i:29864018 original size:9 final size:9
Alignment explanation
Indices: 29864006--29864050 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
29863996 TTTTTTTCAT
29864006 TTTTTATAA
1 TTTTTATAA
29864015 TTTTTCA-AA
1 TTTTT-ATAA
*
29864024 ATTTTATAA
1 TTTTTATAA
*
29864033 TTTCTATAA
1 TTTTTATAA
29864042 TTTTTATAA
1 TTTTTATAA
29864051 ATTCTATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
8 1 0.03
9 28 0.93
10 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:29864046 original size:18 final size:18
Alignment explanation
Indices: 29864006--29864057 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
29863996 TTTTTTTCAT
*
29864006 TTTTTATAATTTTTCA-AA
1 TTTTTATAATTTCT-ATAA
*
29864024 ATTTTATAATTTCTATAA
1 TTTTTATAATTTCTATAA
*
29864042 TTTTTATAAATTCTAT
1 TTTTTATAATTTCTAT
29864058 TGTTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 1 0.03
18 28 0.97
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTATAATTTCTATAA
Found at i:29875576 original size:46 final size:46
Alignment explanation
Indices: 29875524--29875797 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
29875514 GCTTTCTGAA
** *
29875524 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
29875570 ATGAAATGTGTATGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
29875616 ATGAAATGAACAAGACGATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
29875662 GA-AAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 -ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
29875708 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * * *
29875754 AGGAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
29875798 TCAAAGATAA
Statistics
Matches: 201, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
45 1 0.00
46 199 0.99
47 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:29875681 original size:92 final size:92
Alignment explanation
Indices: 29875535--29875792 Score: 401
Period size: 92 Copynumber: 2.8 Consensus size: 92
29875525 TGAAATGTGT
* * * *
29875535 AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTATGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGAT
29875600 ACCATGGCAACGTGACATGAAATGAAC
66 ACCATGGCAACGTGACATGAAATGAAC
* * * *
29875627 AAGACGATGGTTGAAAGATACCATGGCAACATGAC-GAAAAATAAATAAGACCATGGTTGAAAGA
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAG-GAAATGAGTAAGACCATGGTTGAAAGA
29875691 TACCATGGCAACGTGACATGAAATGAAC
65 TACCATGGCAACGTGACATGAAATGAAC
* *
29875719 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATAGTTGAAAGAC
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGAT
*
29875784 ACTATGGCA
66 ACCATGGCA
29875793 TCATGTCAAA
Statistics
Matches: 149, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
92 148 0.99
93 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.19
Consensus pattern (92 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGAT
ACCATGGCAACGTGACATGAAATGAAC
Found at i:29875782 original size:138 final size:137
Alignment explanation
Indices: 29875534--29875815 Score: 402
Period size: 138 Copynumber: 2.1 Consensus size: 137
29875524 ATGAAATGTG
* *** *
29875534 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTATGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGA
* * * * *
29875599 TACCATGGCAACGTGACATGAAATGAACAAGACGATGGTTGAAAGATACCATGGCAACATGACGA
66 TACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAACATGAC-A
29875664 AAAATAAA
130 AAAATAAA
*
29875672 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAACAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGA
** * * *
29875737 TACCATGGCAACATGACAGGAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCAA
66 TACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAACATGACAA
*
29875802 AGATAAA
131 AAATAAA
29875809 TAAGACC
1 TAAGACC
29875816 GTGGATGGGA
Statistics
Matches: 127, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
137 15 0.12
138 112 0.88
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.20
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAACATGACAA
AAATAAA
Found at i:29879600 original size:17 final size:17
Alignment explanation
Indices: 29879578--29879618 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
29879568 TTTTGCTCGT
29879578 GAGGCATTAACTATCTC
1 GAGGCATTAACTATCTC
*
29879595 GAGGCATTAACTGTCTC
1 GAGGCATTAACTATCTC
*
29879612 AAGGCAT
1 GAGGCAT
29879619 AATCAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (17 bp):
GAGGCATTAACTATCTC
Found at i:29879713 original size:32 final size:32
Alignment explanation
Indices: 29879677--29879740 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
29879667 GGGATGCATT
29879677 ACTATAAACAATAAACTCTTTCCCGATTTTAG
1 ACTATAAACAATAAACTCTTTCCCGATTTTAG
*
29879709 ACTATAAACAATAATCTCTTTCCCGATTTTAG
1 ACTATAAACAATAAACTCTTTCCCGATTTTAG
29879741 GTTGAGTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (32 bp):
ACTATAAACAATAAACTCTTTCCCGATTTTAG
Found at i:29896639 original size:47 final size:47
Alignment explanation
Indices: 29896588--29896763 Score: 237
Period size: 47 Copynumber: 3.7 Consensus size: 47
29896578 TTAGGATTCT
* * *
29896588 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
29896635 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
29896682 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
29896729 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29896764 TCCCGAAGGG
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 1 0.01
47 114 0.99
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:29908230 original size:19 final size:19
Alignment explanation
Indices: 29908203--29908269 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 19
29908193 ATATATAAAA
29908203 TTTGTAATTTTTATAAA-TAT
1 TTTG-AATTTTTA-AAATTAT
* *
29908223 TTTGAATTTTAAAAATTAG
1 TTTGAATTTTTAAAATTAT
29908242 TTTGAATTTTTGAAAATTAT
1 TTTGAATTTTT-AAAATTAT
29908262 TTTGAATT
1 TTTGAATT
29908270 ATTTTGTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.07
19 19 0.46
20 19 0.46
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTGAATTTTTAAAATTAT
Found at i:29916340 original size:54 final size:54
Alignment explanation
Indices: 29916280--29916452 Score: 206
Period size: 54 Copynumber: 3.1 Consensus size: 54
29916270 GGATAATGTT
* * *
29916280 AATAAAATGATAATAGTAATTGTGATGCATCAATTAAATCGAATGAGTAATTAC
1 AATAAAATGATAATAGTAATTGTGGTGCATCAATTAAATTGCATGAGTAATTAC
* *
29916334 AATAAAAATTAATTAAT-GCAAAATTGTGGTGCATCAATTAAATTGCATGAGTAATTAC
1 AAT-AAAA-TGA-TAATAG--TAATTGTGGTGCATCAATTAAATTGCATGAGTAATTAC
* * *
29916392 AATAAAATGATAATAATAATTGTGGTGAATTAATTAAATTGCATG-GATAATTAC
1 AATAAAATGATAATAGTAATTGTGGTGCATCAATTAAATTGCATGAG-TAATTAC
29916446 AATAAAA
1 AATAAAA
29916453 ATTAATTAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
53 1 0.01
54 43 0.42
55 8 0.08
56 5 0.05
57 8 0.08
58 37 0.36
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.32
Consensus pattern (54 bp):
AATAAAATGATAATAGTAATTGTGGTGCATCAATTAAATTGCATGAGTAATTAC
Found at i:29916367 original size:58 final size:57
Alignment explanation
Indices: 29916297--29916469 Score: 230
Period size: 58 Copynumber: 3.1 Consensus size: 57
29916287 TGATAATAGT
* * *
29916297 AATTGTGATGCATCAATTAAATCGAATGAGTAATTACAATAAAAATTAATTAATGCAA
1 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAAATTAATTAATG-AA
*
29916355 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAAT-AAAA-TGA-TAAT-AA
1 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAAATTAATTAATGAA
* *
29916408 TAATTGTGGTGAATTAATTAAATTGCATG-GATAATTACAATAAAAATTAATTAATGAA
1 -AATTGTGGTGCATCAATTAAATTGCATGAG-TAATTACAATAAAAATTAATTAATGAA
29916466 AATT
1 AATT
29916470 CTTTTAATTG
Statistics
Matches: 102, Mismatches: 7, Indels: 13
0.84 0.06 0.11
Matches are distributed among these distances:
53 3 0.03
54 36 0.35
55 8 0.08
56 4 0.04
57 12 0.12
58 39 0.38
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (57 bp):
AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAAATTAATTAATGAA
Found at i:29925394 original size:18 final size:18
Alignment explanation
Indices: 29925371--29925414 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
29925361 TTCTCTTTTG
*
29925371 TTTATTTTAAAAGTATGT
1 TTTATTTTAAAAGTATAT
*
29925389 TTTATTTTAGAAGTATAT
1 TTTATTTTAAAAGTATAT
*
29925407 TTTCTTTT
1 TTTATTTT
29925415 TGGTTTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.61
Consensus pattern (18 bp):
TTTATTTTAAAAGTATAT
Found at i:29927473 original size:76 final size:75
Alignment explanation
Indices: 29927295--29927484 Score: 220
Period size: 75 Copynumber: 2.5 Consensus size: 75
29927285 TTATTGGTGA
* * * * *
29927295 GCAAATCTTCGTTAGTTTACCTTACTAGTGCTGGGAACATCATTATAGTCATCGATTTATCCGAC
1 GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACATCATTATAGTCAACGATTTATCCGAC
*
29927360 TAGCACTGGT
66 TAGCACTGGC
* * *
29927370 GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACATCATTATATTCAAC-AGTTTCTCTGA
1 GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACATCATTATAGTCAACGA-TTTATCCGA
**
29927434 CTAGTGCTGGAC
65 CTAGCACTGG-C
* * **
29927446 GCAAATCTTCGTCAGTTTATCTGACTAGTTTTGGGCACA
1 GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACA
29927485 ACCTCTATAA
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
74 1 0.01
75 62 0.63
76 35 0.36
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (75 bp):
GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACATCATTATAGTCAACGATTTATCCGAC
TAGCACTGGC
Found at i:29931270 original size:79 final size:81
Alignment explanation
Indices: 29931168--29931352 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
29931158 GCTCCTCGTT
* *
29931168 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
29931231 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
29931248 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
29931312 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
29931328 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29931353 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:29931352 original size:40 final size:40
Alignment explanation
Indices: 29931168--29931352 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
29931158 GCTCCTCGTT
* *
29931168 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
29931208 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
29931248 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
29931287 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
29931328 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29931353 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:29934391 original size:33 final size:33
Alignment explanation
Indices: 29934344--29934409 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
29934334 ATGTAAAAAC
**
29934344 GACAACACGGGTCAACTATTCCGTAACTTTGTT
1 GACAACACAAGTCAACTATTCCGTAACTTTGTT
29934377 GACAACACAAGTCAACTATTCCGTAACTTTGTT
1 GACAACACAAGTCAACTATTCCGTAACTTTGTT
29934410 CTTTCCCCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (33 bp):
GACAACACAAGTCAACTATTCCGTAACTTTGTT
Found at i:29943561 original size:38 final size:38
Alignment explanation
Indices: 29943519--29943591 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
29943509 ATGCAGAATA
29943519 CATATTAATGATGTTCAAACTATGACATAATTAAAACT
1 CATATTAATGATGTTCAAACTATGACATAATTAAAACT
29943557 CATATTAATGATGTTCAAACTATGACATAATTAAA
1 CATATTAATGATGTTCAAACTATGACATAATTAAA
29943592 GACACAATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.34
Consensus pattern (38 bp):
CATATTAATGATGTTCAAACTATGACATAATTAAAACT
Found at i:29946081 original size:25 final size:25
Alignment explanation
Indices: 29946049--29946101 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
29946039 AAACACTCTC
*
29946049 TTGAGCCATATAACAGGAAGCTCAT
1 TTGAGCCATATAAAAGGAAGCTCAT
* *
29946074 TTGAGCCATGTAAAAGGAAGCTTAT
1 TTGAGCCATATAAAAGGAAGCTCAT
29946099 TTG
1 TTG
29946102 GGCTATAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (25 bp):
TTGAGCCATATAAAAGGAAGCTCAT
Found at i:29947852 original size:41 final size:41
Alignment explanation
Indices: 29947806--29947887 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
29947796 ATTCTTCGAA
* *
29947806 TGCCGAGTCCAGTCCTAATTTTGAGGTTTACTTGAAAATTT
1 TGCCGAGCCCAGTCCTAATTTTGAGGTTTACCTGAAAATTT
* *
29947847 TGCCGAGCCCGGTCCTAATTTTGAGGTTTACCTGGAAATTT
1 TGCCGAGCCCAGTCCTAATTTTGAGGTTTACCTGAAAATTT
29947888 AAACACTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (41 bp):
TGCCGAGCCCAGTCCTAATTTTGAGGTTTACCTGAAAATTT
Found at i:29953492 original size:17 final size:17
Alignment explanation
Indices: 29953470--29953508 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
29953460 ACATTTTAAC
* *
29953470 ACAATATCTTTTTGTTT
1 ACAATATATTTCTGTTT
29953487 ACAATATATTTCTGTTT
1 ACAATATATTTCTGTTT
29953504 ACAAT
1 ACAAT
29953509 TTACCACGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (17 bp):
ACAATATATTTCTGTTT
Found at i:29966812 original size:25 final size:25
Alignment explanation
Indices: 29966784--29966835 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
29966774 GCTATTATCA
29966784 TATTTAATTATTTAAAATTCCAATT
1 TATTTAATTATTTAAAATTCCAATT
*
29966809 TATTTAATTATTTCAAATTCCAATT
1 TATTTAATTATTTAAAATTCCAATT
29966834 TA
1 TA
29966836 GTCCTTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTTAATTATTTAAAATTCCAATT
Found at i:29976512 original size:11 final size:12
Alignment explanation
Indices: 29976498--29976529 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
29976488 TTAGTTTCTC
29976498 CTTT-TTCTTTT
1 CTTTCTTCTTTT
29976509 CTTTCTTC-TTT
1 CTTTCTTCTTTT
29976520 CTTTCTTCTT
1 CTTTCTTCTT
29976530 ATTTCCGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
CTTTCTTCTTTT
Found at i:29984184 original size:20 final size:20
Alignment explanation
Indices: 29984159--29984206 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
29984149 AGTAATTATC
*
29984159 TAAAATTAATATCTCAAAA-T
1 TAAAATTAATAACT-AAAATT
*
29984179 TAAAATGAAATAACTAAAATT
1 TAAAAT-TAATAACTAAAATT
29984200 TAAAATT
1 TAAAATT
29984207 TAAAAAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAATTAATAACTAAAATT
Found at i:29986200 original size:20 final size:19
Alignment explanation
Indices: 29986177--29986229 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
29986167 AAAATTACAA
29986177 AAAAATCTAAAATAAATTT-T
1 AAAAATCTAAAAT--ATTTAT
29986197 AAAAAT-TCAAAATATTTAT
1 AAAAATCT-AAAATATTTAT
29986216 AAAAATTCTAAAAT
1 AAAAA-TCTAAAAT
29986230 TTATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 4 0.14
19 7 0.24
20 17 0.59
21 1 0.03
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATCTAAAATATTTAT
Found at i:29986218 original size:19 final size:18
Alignment explanation
Indices: 29986190--29986234 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
29986180 AATCTAAAAT
29986190 AAATTT-TAAAAATTCAA
1 AAATTTATAAAAATTCAA
*
29986207 AATATTTATAAAAATTCTA
1 AA-ATTTATAAAAATTCAA
29986226 AAATTTATA
1 AAATTTATA
29986235 TATTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 2 0.08
18 11 0.44
19 12 0.48
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTTATAAAAATTCAA
Found at i:29986237 original size:26 final size:28
Alignment explanation
Indices: 29986208--29986260 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
29986198 AAAATTCAAA
*
29986208 ATATTTAT-AAAAATTCTAAAA-TTTAT
1 ATATTTATAAAAAATTATAAAAGTTTAT
*
29986234 ATATTTTTAAAAAATTATAAAAGTTTA
1 ATATTTATAAAAAATTATAAAAGTTTA
29986261 AAAAAATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 12 0.52
28 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
ATATTTATAAAAAATTATAAAAGTTTAT
Found at i:29991761 original size:28 final size:28
Alignment explanation
Indices: 29991675--29991788 Score: 106
Period size: 28 Copynumber: 4.0 Consensus size: 28
29991665 TACCTGTATT
* *
29991675 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* * *
29991703 TGGCCCATTAGGCACAAATCACCTGT-TTA
1 TGGCCCATTAGGC-CCAATCACAT-TCATA
* *
29991732 T-GACCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
29991760 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
29991788 T
1 T
29991789 TCATGCTCAC
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
27 2 0.03
28 44 0.65
29 21 0.31
30 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:29992026 original size:8 final size:8
Alignment explanation
Indices: 29992003--29992041 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
29991993 CCCAACTTTA
29992003 GGCTTTTC
1 GGCTTTTC
*
29992011 GGCATTTC
1 GGCTTTTC
*
29992019 AGCTTTTC
1 GGCTTTTC
29992027 GGCTTTTC
1 GGCTTTTC
29992035 GGCTTTT
1 GGCTTTT
29992042 GCCGATTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.05, C:0.23, G:0.23, T:0.49
Consensus pattern (8 bp):
GGCTTTTC
Found at i:29998963 original size:20 final size:21
Alignment explanation
Indices: 29998940--29998979 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29998930 CCCTTGAAAT
29998940 AGGGC-ACACGCCCATGTGGA
1 AGGGCAACACGCCCATGTGGA
*
29998960 AGGGCAACACGCCCTTGTGG
1 AGGGCAACACGCCCATGTGG
29998980 TCACTAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.35, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:30000317 original size:48 final size:47
Alignment explanation
Indices: 30000251--30000419 Score: 171
Period size: 48 Copynumber: 3.6 Consensus size: 47
30000241 AAGCTAATGC
* * * * *
30000251 CATGTCCCAAACAGGTCTTACACTAGCTTGTCCATCGCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATCTATCG-AAGGCCGATG
* ** *
30000299 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCAAGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATCTATCGA-AGGCCGATG
* * * * *
30000347 CATGTCCCAGACACGTCTTACACTGGC-TCTCATATTG-TGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATC-TATCGAAGGCCGATG
30000393 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
30000420 ACACATATCA
Statistics
Matches: 101, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 33 0.33
47 2 0.02
48 66 0.65
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATCTATCGAAGGCCGATG
Found at i:30000411 original size:46 final size:47
Alignment explanation
Indices: 30000290--30000416 Score: 177
Period size: 48 Copynumber: 2.7 Consensus size: 47
30000280 GTCCATCGCA
*
30000290 AGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCAAG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATAT-AAG
* * *
30000338 AGGCCGATGCATGTCCCAGACACGTCTTACACTGGCTCT-CATAT-TG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TAAATATAAG
*
30000384 TGGCCGATGCATGTCCCAGACATGTCTTACACT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACT
30000417 AGCACACATA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 32 0.44
48 39 0.54
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (47 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATAAG
Found at i:30000427 original size:46 final size:47
Alignment explanation
Indices: 30000290--30000427 Score: 179
Period size: 46 Copynumber: 2.9 Consensus size: 47
30000280 GTCCATCGCA
* * *
30000290 AGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCAAG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATAT-AAG
* * *
30000338 AGGCCGATGCATGTCCCAGACACGTCTTACACTGGCTCTCATAT-TG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATATAAG
* * *
30000384 TGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACACATAT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATAT
30000428 CACCCAATAT
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 40 0.51
48 39 0.49
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (47 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATATAAG
Found at i:30002626 original size:67 final size:69
Alignment explanation
Indices: 30002471--30002714 Score: 221
Period size: 68 Copynumber: 3.6 Consensus size: 69
30002461 TTGTCCAAGT
* * * * * *
30002471 GGACTCCATATGTTGCCATAGTCAAGCTACGGGCTTACACAATGTAACCCCATGTTTACTGTCCT
1 GGACTCCATATATTACCATAGTCAAGCTATGGTCTTACACAATGTAACACCATGATTACTGTCCT
30002536 GGCA
66 GGCA
* * * * *
30002540 -GACTCCATATTTTTA-CATAGTTAAGCCATGGTCTTACACAATGTAATACCAT-ATTATTGTCC
1 GGACTCCATA-TATTACCATAGTCAAGCTATGGTCTTACACAATGTAACACCATGATTACTGTCC
30002602 TGG-A
65 TGGCA
* * * **
30002606 GGACTCCATATATTACCATAG-CAGAGCTATGATCTTACACAATGTAACCCCATGTTTTTTGTCC
1 GGACTCCATATATTACCATAGTCA-AGCTATGGTCTTACACAATGTAACACCATGATTACTGTCC
*
30002670 TAGC-
65 TGGCA
* * * * * *
30002674 GGACTCTATATGTTGCTATAGCCGAGCTATGGTCTTACACA
1 GGACTCCATATATTACCATAGTCAAGCTATGGTCTTACACA
30002715 TTAAACCCCT
Statistics
Matches: 143, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
66 6 0.04
67 50 0.35
68 83 0.58
69 4 0.03
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (69 bp):
GGACTCCATATATTACCATAGTCAAGCTATGGTCTTACACAATGTAACACCATGATTACTGTCCT
GGCA
Found at i:30002706 original size:135 final size:135
Alignment explanation
Indices: 30002471--30002714 Score: 312
Period size: 135 Copynumber: 1.8 Consensus size: 135
30002461 TTGTCCAAGT
* * *
30002471 GGACTCCATATGTTGCCATAGTCAAGCTACGGGCTTACACAATGTAACCCCATGTTTACTGTCCT
1 GGACTCCATATATTACCATAGTCAAGCTACGAGCTTACACAATGTAACCCCATGTTTACTGTCCT
* * **
30002536 GGCAGACTCCATATTTTTACATAGTTAAGCCATGGTCTTACACAATGTAATACCATATTATTGTC
66 AGCAGACTCCATATTGTTACATAGCCAAGCCATGGTCTTACACAATGTAATACCATATTATTGTC
30002601 CTGGA
131 CTGGA
* * **
30002606 GGACTCCATATATTACCATAG-CAGAGCTATGATCTTACACAATGTAACCCCATGTTTTTTGTCC
1 GGACTCCATATATTACCATAGTCA-AGCTACGAGCTTACACAATGTAACCCCATGTTTACTGTCC
* * * * *
30002670 TAGCGGACTCTATA-TGTTGCTATAGCCGAGCTATGGTCTTACACA
65 TAGCAGACTCCATATTGTTAC-ATAGCCAAGCCATGGTCTTACACA
30002715 TTAAACCCCT
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
134 6 0.07
135 85 0.93
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (135 bp):
GGACTCCATATATTACCATAGTCAAGCTACGAGCTTACACAATGTAACCCCATGTTTACTGTCCT
AGCAGACTCCATATTGTTACATAGCCAAGCCATGGTCTTACACAATGTAATACCATATTATTGTC
CTGGA
Found at i:30007526 original size:27 final size:28
Alignment explanation
Indices: 30007465--30007543 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
30007455 AAAATAACTG
* *
30007465 AAATACCCTCAAAGGGTAAAATGA-TCA
1 AAATACCCCCATAGGGTAAAATGACTCA
**
30007492 AAATACCCCCATAGGGTAAAATGACTTT
1 AAATACCCCCATAGGGTAAAATGACTCA
***
30007520 AAA-ACCCTTGTAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
30007544 GGTTTTGGCC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 40 0.91
28 4 0.09
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (28 bp):
AAATACCCCCATAGGGTAAAATGACTCA
Found at i:30007566 original size:27 final size:27
Alignment explanation
Indices: 30007533--30007776 Score: 222
Period size: 27 Copynumber: 9.0 Consensus size: 27
30007523 ACCCTTGTAG
** *
30007533 GGTAAAATGACGGTTTTGGCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
*
30007560 GGCAAAATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* *
30007587 GGCAAAATGACTATTTTTCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* * * *
30007614 GTTAAATTGACGATTTTGCCCTTGTGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* *
30007641 GTTAAAATGA-TGATTTTTCCCTTATGT
1 GGTAAAATGACT-ATTTTGCCCTTATGT
* * *
30007668 GATAAAATGACTGTTTTGCCATTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
** * * *
30007695 GACAAAAAGACTATTTTGCCATTATAT
1 GGTAAAATGACTATTTTGCCCTTATGT
** * *
30007722 GGTAAAATGACTGA-AATGCCCCTACGT
1 GGTAAAATGACT-ATTTTGCCCTTATGT
* *
30007749 GGTAAATTGACTATTTTGCCCCTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
30007776 G
1 G
30007777 ATGTATGTTT
Statistics
Matches: 177, Mismatches: 36, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 174 0.98
28 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTAAAATGACTATTTTGCCCTTATGT
Found at i:30010043 original size:17 final size:18
Alignment explanation
Indices: 30010005--30010043 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30009995 GGTTTTGAGG
30010005 TTTTGCTCTTCAATTCAT
1 TTTTGCTCTTCAATTCAT
*
30010023 TTTTGGCTCTTC-TTTCAT
1 TTTT-GCTCTTCAATTCAT
30010041 TTT
1 TTT
30010044 ATTTTCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.10, C:0.21, G:0.08, T:0.62
Consensus pattern (18 bp):
TTTTGCTCTTCAATTCAT
Found at i:30012478 original size:40 final size:40
Alignment explanation
Indices: 30012408--30012642 Score: 375
Period size: 40 Copynumber: 5.9 Consensus size: 40
30012398 AAACCAAGTA
** * * *
30012408 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAATTG
*
30012447 CCTTTGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
30012487 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
*
30012527 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
30012567 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
*
30012607 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACA
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
30012643 TATAGTAACT
Statistics
Matches: 184, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 12 0.07
40 172 0.93
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
Found at i:30012648 original size:16 final size:16
Alignment explanation
Indices: 30012627--30012658 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30012617 TTGGCCCGGT
30012627 TATAGTAACTCGCACA
1 TATAGTAACTCGCACA
30012643 TATAGTAACTCGCACA
1 TATAGTAACTCGCACA
30012659 AATGCCTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (16 bp):
TATAGTAACTCGCACA
Found at i:30020652 original size:40 final size:40
Alignment explanation
Indices: 30020604--30020791 Score: 306
Period size: 40 Copynumber: 4.7 Consensus size: 40
30020594 GCTACTCACT
*
30020604 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
30020644 CAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
30020684 CAATTGCCTTCGGGACTTGGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
30020724 CAAATGCCTTTGGGACTTGGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
30020764 CAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
30020792 CAATCCGAAT
Statistics
Matches: 139, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 12 0.09
40 127 0.91
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:30020707 original size:80 final size:80
Alignment explanation
Indices: 30020571--30020791 Score: 313
Period size: 80 Copynumber: 2.8 Consensus size: 80
30020561 AAACCAAGTA
** * * *
30020571 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCACTCAAATGCCTTTGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
*
30020634 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* * *
30020650 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
30020715 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* *
30020730 CCTTTGGGACTTGGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
30020792 CAATCCGAAT
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
79 26 0.21
80 100 0.79
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:30022700 original size:27 final size:27
Alignment explanation
Indices: 30022670--30022758 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
30022660 TATTTACTTG
* *
30022670 AAAATGACCGAAATACCCCCACAGGGT
1 AAAATGACCAAAATACCCCCATAGGGT
*
30022697 AAAATGACCAAAATACCCCCATTGGGT
1 AAAATGACCAAAATACCCCCATAGGGT
*** **
30022724 AAAATGACTTTAATACCCCTGTAGGGT
1 AAAATGACCAAAATACCCCCATAGGGT
30022751 AAAATGAC
1 AAAATGAC
30022759 GGTTTTACCC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (27 bp):
AAAATGACCAAAATACCCCCATAGGGT
Found at i:30022767 original size:27 final size:25
Alignment explanation
Indices: 30022719--30022784 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 25
30022709 ATACCCCCAT
30022719 TGGGTAAAATGACTTTAATACCCCTGTA
1 TGGGTAAAATGACTTT-ATA-CCCT-TA
30022747 -GGGTAAAATGACGGTTT-TACCCTTA
1 TGGGTAAAATGAC--TTTATACCCTTA
30022772 TGTGGTAAAATGA
1 TG-GGTAAAATGA
30022785 TTATTTTGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
25 2 0.06
26 5 0.15
27 24 0.71
29 3 0.09
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (25 bp):
TGGGTAAAATGACTTTATACCCTTA
Found at i:30022791 original size:27 final size:27
Alignment explanation
Indices: 30022761--30022948 Score: 196
Period size: 27 Copynumber: 7.0 Consensus size: 27
30022751 AAAATGACGG
*
30022761 TTTTACCCTTATGTGGTAAAATGATTA
1 TTTTGCCCTTATGTGGTAAAATGATTA
* * *
30022788 TTTTGCCTTTATGTGTTAAAATGACTA
1 TTTTGCCCTTATGTGGTAAAATGATTA
* * * ***
30022815 TTTTGCCCTTATATGTTAAATTGACGG
1 TTTTGCCCTTATGTGGTAAAATGATTA
* * *
30022842 TTTTGCCCTTGTGTGTTAAAATGATGA
1 TTTTGCCCTTATGTGGTAAAATGATTA
*
30022869 TTTTGCCCTTATGTGATAAAATGATTA
1 TTTTGCCCTTATGTGGTAAAATGATTA
* * * * *
30022896 TTTTGTCCTTGTGTGGCAAAAAGAATA
1 TTTTGCCCTTATGTGGTAAAATGATTA
*
30022923 TTTTGCCCTTCTGTGGTAAAATGATT
1 TTTTGCCCTTATGTGGTAAAATGATT
30022949 GAAATGCCCC
Statistics
Matches: 133, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (27 bp):
TTTTGCCCTTATGTGGTAAAATGATTA
Found at i:30022809 original size:81 final size:81
Alignment explanation
Indices: 30022723--30022897 Score: 208
Period size: 81 Copynumber: 2.2 Consensus size: 81
30022713 CCCCATTGGG
* *
30022723 TAAAATGACT-TTAATACCCCTGTAGGGTAAAATGACGGTTTTACCCTTATGTGGTAAAATGATT
1 TAAAATGACTATT-ATACCCCTATAGGGTAAAATGACGGTTTTACCCTTATGTGGTAAAATGATG
* *
30022787 ATTTTGCCTTTATGTGT
65 ATTTTGCCCTTATGTGA
* * * * * * * * *
30022804 TAAAATGACTATTTTGCCCTTATATGTTAAATTGACGGTTTTGCCCTTGTGTGTTAAAATGATGA
1 TAAAATGACTATTATACCCCTATAGGGTAAAATGACGGTTTTACCCTTATGTGGTAAAATGATGA
30022869 TTTTGCCCTTATGTGA
66 TTTTGCCCTTATGTGA
*
30022885 TAAAATGATTATT
1 TAAAATGACTATT
30022898 TTGTCCTTGT
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 77 0.97
82 2 0.03
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.42
Consensus pattern (81 bp):
TAAAATGACTATTATACCCCTATAGGGTAAAATGACGGTTTTACCCTTATGTGGTAAAATGATGA
TTTTGCCCTTATGTGA
Found at i:30022898 original size:81 final size:81
Alignment explanation
Indices: 30022750--30022905 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
30022740 CCCTGTAGGG
* * *
30022750 TAAAATGACGGTTTTACCCTTATGTGGTAAAATGATTATTTTGCCTTTATGTGTTAAAATGACTA
1 TAAAATGACGGTTTTACCCTTATGTGGTAAAATGATGATTTTGCCCTTATGTGATAAAATGACTA
30022815 TTTTGCCCTTATATGT
66 TTTTGCCCTTATATGT
* * * * *
30022831 TAAATTGACGGTTTTGCCCTTGTGTGTTAAAATGATGATTTTGCCCTTATGTGATAAAATGATTA
1 TAAAATGACGGTTTTACCCTTATGTGGTAAAATGATGATTTTGCCCTTATGTGATAAAATGACTA
*
30022896 TTTTGTCCTT
66 TTTTGCCCTT
30022906 GTGTGGCAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (81 bp):
TAAAATGACGGTTTTACCCTTATGTGGTAAAATGATGATTTTGCCCTTATGTGATAAAATGACTA
TTTTGCCCTTATATGT
Found at i:30023297 original size:18 final size:19
Alignment explanation
Indices: 30023270--30023320 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
30023260 TGTTTGCATT
*
30023270 CTGCACTGATTACT-TTTA
1 CTGCACTGATTACTGGTTA
* *
30023288 CTGCATTGATCA-TGGTTA
1 CTGCACTGATTACTGGTTA
30023306 CTGCACTGATTACTG
1 CTGCACTGATTACTG
30023321 CCACTACTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.88
19 2 0.08
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (19 bp):
CTGCACTGATTACTGGTTA
Found at i:30031178 original size:40 final size:40
Alignment explanation
Indices: 30030260--30031164 Score: 1638
Period size: 40 Copynumber: 22.6 Consensus size: 40
30030250 TTGAATGATG
* * * * *
30030260 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
30030300 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30030340 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030379 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030419 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030459 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030499 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030539 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030579 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030619 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030659 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030699 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030739 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030779 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030819 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030859 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030899 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030939 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30030979 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30031019 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30031059 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
30031099 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
30031140 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
30031165 AACGAGTAGC
Statistics
Matches: 846, Mismatches: 14, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
39 35 0.04
40 801 0.95
41 10 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30041710 original size:15 final size:16
Alignment explanation
Indices: 30041687--30041721 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
30041677 TGAATATGAG
*
30041687 ATGAGAAAATATTGAA
1 ATGAGAAAATATAGAA
30041703 ATGA-AAAATATAGAA
1 ATGAGAAAATATAGAA
30041718 ATGA
1 ATGA
30041722 TTATGAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (16 bp):
ATGAGAAAATATAGAA
Found at i:30041721 original size:42 final size:45
Alignment explanation
Indices: 30041652--30041751 Score: 134
Period size: 42 Copynumber: 2.3 Consensus size: 45
30041642 TATGTGATTG
* *
30041652 ATATTGAATTGACAAAGATGAGAAATGAATATGAGATGAG-AA-A
1 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAATA
* *
30041695 ATATTGAAATGAAAAATAT-AGAAATGATTATGAGATGAGAAATA
1 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAATA
30041739 ATATGTGAAATGA
1 ATAT-TGAAATGA
30041752 TGAATTGAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 19 0.38
43 18 0.36
44 5 0.10
45 8 0.16
ACGTcount: A:0.52, C:0.01, G:0.21, T:0.26
Consensus pattern (45 bp):
ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAATA
Found at i:30043313 original size:28 final size:29
Alignment explanation
Indices: 30043285--30043384 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 29
30043275 AATTAAACCC
* *
30043285 AATCATATTCGTATGGCCCATTAGGCCCA
1 AATCACATTCATATGGCCCATTAGGCCCA
*
30043314 AATCAC-TTGTATATGGCCCATTAGGCCCA
1 AATCACATT-CATATGGCCCATTAGGCCCA
* *
30043343 AATCACATTTATATGGCCCGTTAGGCCC-
1 AATCACATTCATATGGCCCATTAGGCCCA
*
30043371 AGTCACATTCATAT
1 AATCACATTCATAT
30043385 TCATGCTCAC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
28 14 0.22
29 47 0.75
30 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (29 bp):
AATCACATTCATATGGCCCATTAGGCCCA
Found at i:30043328 original size:29 final size:29
Alignment explanation
Indices: 30043296--30043384 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
30043286 ATCATATTCG
30043296 TATGGCCCATTAGGCCCAAATCAC-TTGTA
1 TATGGCCCATTAGGCCCAAATCACATT-TA
30043325 TATGGCCCATTAGGCCCAAATCACATTTA
1 TATGGCCCATTAGGCCCAAATCACATTTA
* * *
30043354 TATGGCCCGTTAGGCCC-AGTCACATTCA
1 TATGGCCCATTAGGCCCAAATCACATTTA
30043382 TAT
1 TAT
30043385 TCATGCTCAC
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 12 0.21
29 42 0.75
30 2 0.04
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATCACATTTA
Found at i:30047858 original size:21 final size:20
Alignment explanation
Indices: 30047834--30047881 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
30047824 AAAAGAAATG
* *
30047834 AGCTGAAACGATATGAAATCA
1 AGCTCAAACGAGATGAAA-CA
*
30047855 AGCTCAAACGAGCTGAAACA
1 AGCTCAAACGAGATGAAACA
30047875 AGCTCAA
1 AGCTCAA
30047882 GTGAGCTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.46, C:0.21, G:0.19, T:0.15
Consensus pattern (20 bp):
AGCTCAAACGAGATGAAACA
Found at i:30047887 original size:20 final size:21
Alignment explanation
Indices: 30047847--30047890 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
30047837 TGAAACGATA
30047847 TGAAATCAAGCTCAAACGAGC
1 TGAAATCAAGCTCAAACGAGC
**
30047868 TGAAA-CAAGCTCAAGTGAGC
1 TGAAATCAAGCTCAAACGAGC
30047888 TGA
1 TGA
30047891 TTGGAGCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (21 bp):
TGAAATCAAGCTCAAACGAGC
Found at i:30050075 original size:24 final size:19
Alignment explanation
Indices: 30050069--30050110 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
30050059 TCTCGATCTT
30050069 TTTTTCTTTTTC-CTTCTC
1 TTTTTCTTTTTCACTTCTC
30050087 TTTTTCTTTTTCACTT-TC
1 TTTTTCTTTTTCACTTCTC
30050105 TTTTTC
1 TTTTTC
30050111 AATTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTCTTTTTCACTTCTC
Found at i:30050080 original size:6 final size:6
Alignment explanation
Indices: 30050069--30050127 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
30050059 TCTCGATCTT
* * ** **
30050069 TTTTTC TTTTTC CTTCTC TTTTTC TTTTTC ACTTTC TTTTTC -AATT-
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
30050115 TTTTTC TTTTTC T
1 TTTTTC TTTTTC T
30050128 CATTCTCTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
5 4 0.10
6 35 0.90
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTC
Found at i:30050105 original size:30 final size:30
Alignment explanation
Indices: 30050071--30050148 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
30050061 TCGATCTTTT
30050071 TTTCTTTTTCCTTCTCTTTTTCTTTTTCAC-
1 TTTCTTTTTCCTT-TCTTTTTCTTTTTCACA
** *
30050101 TTTCTTTTTCAATT-TTTTTCTTTTTCTCA
1 TTTCTTTTTCCTTTCTTTTTCTTTTTCACA
*
30050130 TTCTCTTTTTGCTTTCTTT
1 TT-TCTTTTTCCTTTCTTT
30050149 CACACTCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 13 0.33
29 3 0.08
30 20 0.51
31 3 0.08
ACGTcount: A:0.05, C:0.22, G:0.01, T:0.72
Consensus pattern (30 bp):
TTTCTTTTTCCTTTCTTTTTCTTTTTCACA
Found at i:30050174 original size:15 final size:15
Alignment explanation
Indices: 30050154--30050184 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30050144 TCTTTCACAC
30050154 TCTTTTTCTGTCATT
1 TCTTTTTCTGTCATT
*
30050169 TCTTTTTCTTTCATT
1 TCTTTTTCTGTCATT
30050184 T
1 T
30050185 TTTCATTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.71
Consensus pattern (15 bp):
TCTTTTTCTGTCATT
Found at i:30053196 original size:52 final size:52
Alignment explanation
Indices: 30053118--30053218 Score: 193
Period size: 52 Copynumber: 1.9 Consensus size: 52
30053108 GTAGAGGACA
*
30053118 AAACAGAAGATGCTTGGGAAGCCATTGAATGTAACAGTCCGGTTTAGACACG
1 AAACAGAAGATGCTTGGGAAGCCATTGAATATAACAGTCCGGTTTAGACACG
30053170 AAACAGAAGATGCTTGGGAAGCCATTGAATATAACAGTCCGGTTTAGAC
1 AAACAGAAGATGCTTGGGAAGCCATTGAATATAACAGTCCGGTTTAGAC
30053219 CCTAGTCGGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.22
Consensus pattern (52 bp):
AAACAGAAGATGCTTGGGAAGCCATTGAATATAACAGTCCGGTTTAGACACG
Found at i:30054518 original size:42 final size:42
Alignment explanation
Indices: 30054402--30054521 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
30054392 GTCTGAGACA
* * * *
30054402 TCGTATAAGACCGTGTCTGCGACACAGGCCTCGATTGAGATT
1 TCGTATAAGACCATGTCTGGGACACAGGCATCGATTCAGATT
*** * *
30054444 TACGTATAAGACCATGTCTGGGACATTCGCATCGTTTCTGATT
1 T-CGTATAAGACCATGTCTGGGACACAGGCATCGATTCAGATT
* * *
30054487 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 TCGTATAAGACCATGTCTGGGACACAGGCATCGAT
30054522 ATTGAATTAC
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (42 bp):
TCGTATAAGACCATGTCTGGGACACAGGCATCGATTCAGATT
Found at i:30058257 original size:7 final size:7
Alignment explanation
Indices: 30058245--30058278 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
30058235 AAATTTTGTG
30058245 TGTTTAC
1 TGTTTAC
30058252 TGTTTAC
1 TGTTTAC
30058259 TGTTTAC
1 TGTTTAC
30058266 TGTTTAC
1 TGTTTAC
30058273 TGTTTA
1 TGTTTA
30058279 GGGATTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.59
Consensus pattern (7 bp):
TGTTTAC
Found at i:30058328 original size:17 final size:18
Alignment explanation
Indices: 30058296--30058329 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30058286 AACTTTGATT
30058296 TGAAGAAATAAGAAGAAG
1 TGAAGAAATAAGAAGAAG
*
30058314 TGAAGAAGT-AGAAGAA
1 TGAAGAAATAAGAAGAA
30058330 TATTAAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.29, T:0.12
Consensus pattern (18 bp):
TGAAGAAATAAGAAGAAG
Found at i:30064244 original size:39 final size:39
Alignment explanation
Indices: 30064201--30064300 Score: 148
Period size: 40 Copynumber: 2.5 Consensus size: 39
30064191 AATATAAATC
*
30064201 AACAATAATAA-TAACTAACAATAATTAGGGTTTTTTACT
1 AACAATAATAACTAAC-AACAATAATAAGGGTTTTTTACT
* *
30064240 AACAATAACTAACTAACAATAATAATAAGGTTTTTTTACT
1 AACAATAA-TAACTAACAACAATAATAAGGGTTTTTTACT
30064280 AACAATAATAACTAACAACAA
1 AACAATAATAACTAACAACAA
30064301 AAAAACAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
39 20 0.36
40 31 0.56
41 4 0.07
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (39 bp):
AACAATAATAACTAACAACAATAATAAGGGTTTTTTACT
Found at i:30064448 original size:23 final size:23
Alignment explanation
Indices: 30064384--30064453 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
30064374 AAAATTATAC
*
30064384 CTTCT-CTTTTCTATTTTTTTTC-
1 CTTCTCCTTTTCT-TTCTTTTTCT
*
30064406 CTTCTCC--TT-TTTCTTCTTCT
1 CTTCTCCTTTTCTTTCTTTTTCT
30064426 CTTCTCCTTTTCTTTCTTTTTCT
1 CTTCTCCTTTTCTTTCTTTTTCT
30064449 CTTCT
1 CTTCT
30064454 TCTCCTTGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
19 7 0.17
20 8 0.20
21 2 0.05
22 7 0.17
23 16 0.40
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (23 bp):
CTTCTCCTTTTCTTTCTTTTTCT
Found at i:30068088 original size:25 final size:25
Alignment explanation
Indices: 30068059--30068114 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
30068049 AGATTAATTT
* *
30068059 ATATTTTATGTATCATTATATTTAA
1 ATATTTTATGTAGCATTATATTCAA
*
30068084 ATATTTTCTGTAGCATTATATTCAA
1 ATATTTTATGTAGCATTATATTCAA
*
30068109 TTATTT
1 ATATTT
30068115 AAATATCATT
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:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (25 bp):
ATATTTTATGTAGCATTATATTCAA
Found at i:30070312 original size:34 final size:34
Alignment explanation
Indices: 30070251--30070318 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
30070241 GCATATCTGA
*
30070251 TACTAAAACTGAAAAGGGCTAAAGCCCAGATTGC
1 TACTAAAACTGAAAAGGACTAAAGCCCAGATTGC
* * * *
30070285 TACTGAAACTGAAATGGACTTAGGCCCAGATTGC
1 TACTAAAACTGAAAAGGACTAAAGCCCAGATTGC
30070319 ATTTGGCTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (34 bp):
TACTAAAACTGAAAAGGACTAAAGCCCAGATTGC
Found at i:30071699 original size:46 final size:46
Alignment explanation
Indices: 30071649--30071824 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30071639 TGGTTGAGCA
30071649 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30071695 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30071740 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30071788 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30071825 GCGAGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30071805 original size:93 final size:93
Alignment explanation
Indices: 30071646--30071817 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30071636 GGATGGTTGA
* *
30071646 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30071711 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30071739 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30071804 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
30071818 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30074294 original size:54 final size:53
Alignment explanation
Indices: 30074212--30074319 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 53
30074202 ATCTCAGAAT
30074212 ACTTCTGCAGCCAGTGTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCG
1 ACTTCTGCAGCCAGTGTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCG
30074265 NACTTCTGCAGCCAGTGTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCG
1 -ACTTCTGCAGCCAGTGTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCG
30074319 A
1 A
30074320 TGTGGTAGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 1 0.02
54 53 0.98
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (53 bp):
ACTTCTGCAGCCAGTGTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAGCG
Found at i:30078804 original size:68 final size:68
Alignment explanation
Indices: 30078721--30078855 Score: 243
Period size: 68 Copynumber: 2.0 Consensus size: 68
30078711 TTTGAAAATC
*
30078721 CTATAGGCTAAATTGAAGTGGCCAAATAAATACAAGTGCAAAATAGGAGGATTTGCATGACAAAC
1 CTATAGGCCAAATTGAAGTGGCCAAATAAATACAAGTGCAAAATAGGAGGATTTGCATGACAAAC
30078786 CTG
66 CTG
**
30078789 CTATAGGCCAAATTGAAGTGGCCAAATAAATAGGAGTGCAAAATAGGAGGATTTGCATGACAAAC
1 CTATAGGCCAAATTGAAGTGGCCAAATAAATACAAGTGCAAAATAGGAGGATTTGCATGACAAAC
30078854 CT
66 CT
30078856 CCCATTTTAC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (68 bp):
CTATAGGCCAAATTGAAGTGGCCAAATAAATACAAGTGCAAAATAGGAGGATTTGCATGACAAAC
CTG
Found at i:30078985 original size:26 final size:26
Alignment explanation
Indices: 30078946--30079055 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
30078936 TGATACAAAT
30078946 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
30078972 TGATAATAGATTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
30078998 TGATAAT-GGCTTAGGTAAATGTTTCA
1 TGATAATAGG-TTAGGTAAATGTTCCA
* *
30079024 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
30079050 TGATAA
1 TGATAA
30079056 GAATTTCATG
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
25 1 0.01
26 76 0.96
27 2 0.03
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:30080488 original size:92 final size:92
Alignment explanation
Indices: 30080331--30080515 Score: 370
Period size: 92 Copynumber: 2.0 Consensus size: 92
30080321 TGGTAAGCTG
30080331 TAAAATTTGGACTGCAAAGTACATGATTTCTGTGCCCTCGATATTTTTGGGCTTAATGGGCCAAA
1 TAAAATTTGGACTGCAAAGTACATGATTTCTGTGCCCTCGATATTTTTGGGCTTAATGGGCCAAA
30080396 ATTGGAATGATGGGCCAACGGGCCCAA
66 ATTGGAATGATGGGCCAACGGGCCCAA
30080423 TAAAATTTGGACTGCAAAGTACATGATTTCTGTGCCCTCGATATTTTTGGGCTTAATGGGCCAAA
1 TAAAATTTGGACTGCAAAGTACATGATTTCTGTGCCCTCGATATTTTTGGGCTTAATGGGCCAAA
30080488 ATTGGAATGATGGGCCAACGGGCCCAA
66 ATTGGAATGATGGGCCAACGGGCCCAA
30080515 T
1 T
30080516 TCGGTAAGAA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (92 bp):
TAAAATTTGGACTGCAAAGTACATGATTTCTGTGCCCTCGATATTTTTGGGCTTAATGGGCCAAA
ATTGGAATGATGGGCCAACGGGCCCAA
Found at i:30081178 original size:137 final size:137
Alignment explanation
Indices: 30080932--30081218 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
30080922 GAGTAGTCTC
30080932 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTCGAAATGGGCCTATGGGCCACAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTCGAAATGGGCCTATGGGCCACAC
30080997 TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
30081062 ACTATTA
131 ACTATTA
30081069 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTCGAAATGGGCCTATGGGCCACAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTCGAAATGGGCCTATGGGCCACAC
30081134 TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
30081199 ACTATTA
131 ACTATTA
**
30081206 CCTGAATGGGCTT
1 CCCAAATGGGCTT
30081219 AGGCCCAATG
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTCGAAATGGGCCTATGGGCCACAC
TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTATTA
Found at i:30084665 original size:100 final size:100
Alignment explanation
Indices: 30084492--30084692 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
30084482 CGTCTGAGTC
30084492 TGTATGATGATGGAAGTCTGTTGGCTGAGTTGCAAGTGAGGCCAACCTGGGTAGATCAGATTAAG
1 TGTATGATGATGGAAGTCTGTTGGCTGAGTTGCAAGTGAGGCCAACCTGGGTAGATCAGATTAAG
30084557 GAAAAGCAATTGAACGATGAGTCTTTAGTTGCTTG
66 GAAAAGCAATTGAACGATGAGTCTTTAGTTGCTTG
30084592 TGTATGATGATGGAAGTCTGTTGGCTGAGTTGCAAGTGAGGCCAACCTGGGTAGATCAGATTAAG
1 TGTATGATGATGGAAGTCTGTTGGCTGAGTTGCAAGTGAGGCCAACCTGGGTAGATCAGATTAAG
30084657 GAAAAGCAATTGAACGATGAGTCTTTAGTTGCTTG
66 GAAAAGCAATTGAACGATGAGTCTTTAGTTGCTTG
30084692 T
1 T
30084693 TTCCAACAAG
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.29
Consensus pattern (100 bp):
TGTATGATGATGGAAGTCTGTTGGCTGAGTTGCAAGTGAGGCCAACCTGGGTAGATCAGATTAAG
GAAAAGCAATTGAACGATGAGTCTTTAGTTGCTTG
Found at i:30097373 original size:26 final size:26
Alignment explanation
Indices: 30097337--30097446 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
30097327 TGATACAAAT
30097337 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
30097363 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
30097389 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
30097415 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
30097441 TGATAA
1 TGATAA
30097447 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:30098961 original size:26 final size:26
Alignment explanation
Indices: 30098931--30098983 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
30098921 TTTATAGTTT
30098931 TACCCCTAGGAGATAAATT-ACTGAAA
1 TACCCCTAGG-GATAAATTGACTGAAA
* *
30098957 TACCCCTAGGGTTAAATTGACTTAAA
1 TACCCCTAGGGATAAATTGACTGAAA
30098983 T
1 T
30098984 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACTGAAA
Found at i:30099477 original size:137 final size:137
Alignment explanation
Indices: 30099231--30099804 Score: 1094
Period size: 137 Copynumber: 4.2 Consensus size: 137
30099221 AAGTAGTCTC
*
30099231 CCCAAATGGGCTTGCATATGTTTTCTGATGTTGCATGTATTTCGAAATGGGCCTATGGGCCACAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTCGAAATGGGCCTATGGGCCACAC
30099296 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
30099361 ACTATTA
131 ACTATTA
30099368 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTCGAAATGGGCCTATGGGCCACAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTCGAAATGGGCCTATGGGCCACAC
*
30099433 TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
30099498 ACTATTA
131 ACTATTA
* *
30099505 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTCGAAATGGGCCTATGGGCCACAC
30099570 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
30099635 ACTATTA
131 ACTATTA
* *
30099642 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTCGAAATGGGCCTATGGGCCACAC
30099707 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
30099772 ACTATTA
131 ACTATTA
30099779 CCCAAATGGGCTTGCATATGTTTACT
1 CCCAAATGGGCTTGCATATGTTTACT
30099805 ATGGTTTTAA
Statistics
Matches: 432, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 432 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTCGAAATGGGCCTATGGGCCACAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTATTA
Found at i:30101424 original size:41 final size:41
Alignment explanation
Indices: 30101364--30101511 Score: 120
Period size: 41 Copynumber: 3.5 Consensus size: 41
30101354 CCTACTCCAT
* *
30101364 TGCAACTTCAAAGAGATAAGACTTGTTTTGATCTATTCTGC
1 TGCAACTTCAGAGAAATAAGACTTGTTTTGATCTATTCTGC
* ** ** ***
30101405 TGCAACTTTAGAGAAATAAGATCCGCTAT-TTTTGGCCTGCTCCAT
1 TGCAACTTCAGAGAAATAAGA----CT-TGTTTTGATCTATTCTGC
* *
30101450 TGTAACTTCA-AGGAGATAAGACTTGTTTTGATCTATTCTGC
1 TGCAACTTCAGA-GAAATAAGACTTGTTTTGATCTATTCTGC
30101491 TGCAACTTCAGAGAAATAAGA
1 TGCAACTTCAGAGAAATAAGA
30101512 TCTGGAATTT
Statistics
Matches: 77, Mismatches: 22, Indels: 16
0.67 0.19 0.14
Matches are distributed among these distances:
40 1 0.01
41 46 0.60
42 1 0.01
44 1 0.01
45 27 0.35
46 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (41 bp):
TGCAACTTCAGAGAAATAAGACTTGTTTTGATCTATTCTGC
Found at i:30101429 original size:86 final size:86
Alignment explanation
Indices: 30101318--30101513 Score: 329
Period size: 86 Copynumber: 2.3 Consensus size: 86
30101308 GTCTACTTTA
* *
30101318 CTGCAACTTCAGAGAGATAAAATCCGCTATTTTCGGCCTACTCCATTGCAACTTCAAAGAGATAA
1 CTGCAACTTCAGAGAAATAAGATCCGCTATTTTCGGCCTACTCCATTGCAACTTCAAAGAGATAA
30101383 GACTTGTTTTGATCTATTCTG
66 GACTTGTTTTGATCTATTCTG
* * * * *
30101404 CTGCAACTTTAGAGAAATAAGATCCGCTATTTTTGGCCTGCTCCATTGTAACTTCAAGGAGATAA
1 CTGCAACTTCAGAGAAATAAGATCCGCTATTTTCGGCCTACTCCATTGCAACTTCAAAGAGATAA
30101469 GACTTGTTTTGATCTATTCTG
66 GACTTGTTTTGATCTATTCTG
30101490 CTGCAACTTCAGAGAAATAAGATC
1 CTGCAACTTCAGAGAAATAAGATC
30101514 TGGAATTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 102 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (86 bp):
CTGCAACTTCAGAGAAATAAGATCCGCTATTTTCGGCCTACTCCATTGCAACTTCAAAGAGATAA
GACTTGTTTTGATCTATTCTG
Found at i:30101638 original size:97 final size:97
Alignment explanation
Indices: 30101526--30101736 Score: 359
Period size: 97 Copynumber: 2.2 Consensus size: 97
30101516 GAATTTATAG
*
30101526 CTTCAATCTGTTCCACTACTCCACTGCGACCTCAGGGAGACAAGATTGATGGCTTTAATCAACTT
1 CTTCAATCTGATCCACTACTCCACTGCGACCTCAGGGAGACAAGATTGATGGCTTTAATCAACTT
30101591 CACTGCAACTTCAGGAAGATAAAATTCACCAT
66 CACTGCAACTTCAGGAAGATAAAATTCACCAT
* * * *
30101623 CTTCAATCTGATCCACTACTCCTCTGCGACCTTAGGGAGATAAGATTGATGGCTTTAATCTACTT
1 CTTCAATCTGATCCACTACTCCACTGCGACCTCAGGGAGACAAGATTGATGGCTTTAATCAACTT
*
30101688 CACTGCAACTTCAGGAAGATAAAATTCGCCAT
66 CACTGCAACTTCAGGAAGATAAAATTCACCAT
*
30101720 CTTCAATCTGCTCCACT
1 CTTCAATCTGATCCACT
30101737 GCAACTTCAA
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 107 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (97 bp):
CTTCAATCTGATCCACTACTCCACTGCGACCTCAGGGAGACAAGATTGATGGCTTTAATCAACTT
CACTGCAACTTCAGGAAGATAAAATTCACCAT
Found at i:30101838 original size:95 final size:96
Alignment explanation
Indices: 30101720--30101902 Score: 271
Period size: 96 Copynumber: 1.9 Consensus size: 96
30101710 AATTCGCCAT
* **
30101720 CTTCAATCTGCTCCACTGCAACTTCAAAGAGGTAAGACTT-G-TAACTTCAACCTACTCCACTAC
1 CTTCAATCTGCCCCACTGCAACTTCAAAGAAATAAGA-TTAGCTAACTTCAACCTACTCCACTAC
30101783 ATCTTCAGGGAGATAAGGATAGTGATTTGTAG
65 ATCTTCAGGGAGATAAGGATAGTGATTTGTAG
* * * *
30101815 CTTCAATCTGCCCCACTGCAACTTCAGAGAAATAAGATTAGCTATCTTCGACCTACTCCACTGCA
1 CTTCAATCTGCCCCACTGCAACTTCAAAGAAATAAGATTAGCTAACTTCAACCTACTCCACTACA
*
30101880 TCTTCAGGGAGATAAGGTTAGTG
66 TCTTCAGGGAGATAAGGATAGTG
30101903 GCTTTGATCC
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
94 2 0.03
95 34 0.44
96 42 0.54
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (96 bp):
CTTCAATCTGCCCCACTGCAACTTCAAAGAAATAAGATTAGCTAACTTCAACCTACTCCACTACA
TCTTCAGGGAGATAAGGATAGTGATTTGTAG
Found at i:30101878 original size:45 final size:43
Alignment explanation
Indices: 30101826--30101953 Score: 116
Period size: 45 Copynumber: 2.9 Consensus size: 43
30101816 TTCAATCTGC
30101826 CCCACTGCAACTTCAGAGAAATAAGATTAGCTATCTTCGA-CCTA
1 CCCACTGCAACTTCAG-GAAATAAGATTAGCTATCTTCGATCC-A
* * * ** *
30101870 CTCCACTGCATCTTCAGGGAGATAAGGTTAG-TGGCTTTGATCCA
1 C-CCACTGCAACTTCA-GGAAATAAGATTAGCTATCTTCGATCCA
* *
30101914 CCTCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCG
1 CC-CACTGCAACTTCAGGAA-ATAAGATTAGCTATCTTCG
30101954 TAGTTATAAT
Statistics
Matches: 64, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
43 4 0.06
44 29 0.45
45 30 0.47
46 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (43 bp):
CCCACTGCAACTTCAGGAAATAAGATTAGCTATCTTCGATCCA
Found at i:30114243 original size:29 final size:28
Alignment explanation
Indices: 30114211--30114285 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
30114201 TACACAAAGA
*
30114211 TTTAAAATAAATCATATGTGGAAAAA-AAT
1 TTTAAAATAAATAATATGT--AAAAATAAT
*
30114240 TTTAAAATAATTAATATGTAAAAATAAT
1 TTTAAAATAAATAATATGTAAAAATAAT
*
30114268 TTTAAAAATACATAATAT
1 TTT-AAAATAAATAATAT
30114286 ATATATATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 5 0.12
28 6 0.15
29 29 0.73
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (28 bp):
TTTAAAATAAATAATATGTAAAAATAAT
Found at i:30114798 original size:39 final size:39
Alignment explanation
Indices: 30114744--30114823 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
30114734 ATAACATTTG
30114744 AAGGTATAGAAGATATACACAAACATATGATAAAAAGAT
1 AAGGTATAGAAGATATACACAAACATATGATAAAAAGAT
*
30114783 AAGGTATAGAAGATATACACAAATATATGATAAAAAGAT
1 AAGGTATAGAAGATATACACAAACATATGATAAAAAGAT
30114822 AA
1 AA
30114824 TAATGAGGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.57, C:0.06, G:0.15, T:0.21
Consensus pattern (39 bp):
AAGGTATAGAAGATATACACAAACATATGATAAAAAGAT
Found at i:30115750 original size:26 final size:26
Alignment explanation
Indices: 30115711--30115822 Score: 172
Period size: 26 Copynumber: 4.3 Consensus size: 26
30115701 TGATACAAAT
30115711 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
30115737 TGATAATAGATTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
30115763 TGATAAT-GGCTTAGGTAAATGTTTCA
1 TGATAATAGG-TTAGGTAAATGTTCCA
* *
30115789 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
30115815 TGATAATA
1 TGATAATA
30115823 ATTTCATGTC
Statistics
Matches: 80, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
25 1 0.01
26 77 0.96
27 2 0.03
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:30117358 original size:26 final size:25
Alignment explanation
Indices: 30117306--30117358 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
30117296 TTTACAGTTT
30117306 TACCCCTAGTAGATAAATTACCGAAA
1 TACCCCTAG-AGATAAATTACCGAAA
*
30117332 TACCCCTA-AGATTAAATTGACCTAAA
1 TACCCCTAGAGA-TAAATT-ACCGAAA
30117358 T
1 T
30117359 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 6 0.25
26 15 0.62
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGATAAATTACCGAAA
Found at i:30120385 original size:6 final size:6
Alignment explanation
Indices: 30120365--30120402 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
30120355 GATAAAGAAT
30120365 ATAAAA ATAATAAA ATAAAA ATAAAA ATAAAA ATAAAA
1 ATAAAA AT-A-AAA ATAAAA ATAAAA ATAAAA ATAAAA
30120403 GAATGATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 23 0.77
7 2 0.07
8 5 0.17
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:30136283 original size:43 final size:42
Alignment explanation
Indices: 30136193--30136314 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
30136183 TAGGGTTAGT
*
30136193 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGACA
** * *
30136235 TGAGATTTTGTGTAAGACCATAGT-TGGGCTATTGGCATTGACA
1 TGAGATTACGTGTAAGACCATA-TCTGGGATA-TGGCATCGACA
** * * *
30136278 TGAGATCCCATGCAAGACCATATATGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
30136315 TGGTATGGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGACA
Found at i:30137829 original size:40 final size:40
Alignment explanation
Indices: 30137773--30137910 Score: 192
Period size: 40 Copynumber: 3.5 Consensus size: 40
30137763 CGGATGATAA
30137773 CCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGACTAAG-TCCCGAAGGCATTTGTGCTAGTTACTATAT
* *
30137813 CCGGACTAAGTCCCGAAGGCATTTGTGCTAGTGATTATAT
1 CCGGACTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* *
30137853 CC-GAGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGA-CTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
*
30137893 CCGG-CTAAATCCCGAAGG
1 CCGGACTAAGTCCCGAAGG
30137911 TACTTGGGTT
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
39 16 0.18
40 71 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
CCGGACTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:30145165 original size:39 final size:39
Alignment explanation
Indices: 30145051--30146053 Score: 1811
Period size: 39 Copynumber: 25.6 Consensus size: 39
30145041 GCTCCTCGTT
* * *
30145051 CAAATGCCTTCGGGACATAGCCTGGTTATT-GTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
* *
30145091 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
30145131 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145170 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145209 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145248 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145287 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145326 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145365 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145404 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145443 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145482 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145521 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145560 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145599 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145638 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145677 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145716 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145755 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145794 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145833 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145872 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145911 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
30145950 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
30145989 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
30146030 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
30146054 CATCATTCAA
Statistics
Matches: 944, Mismatches: 12, Indels: 15
0.97 0.01 0.02
Matches are distributed among these distances:
39 877 0.93
40 58 0.06
41 9 0.01
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:30162941 original size:18 final size:18
Alignment explanation
Indices: 30162918--30162960 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
30162908 TGGCTTGCTA
30162918 TTTATGTTTAAATTTGTT
1 TTTATGTTTAAATTTGTT
30162936 TTTATGTTTAAATTTGTT
1 TTTATGTTTAAATTTGTT
30162954 TTTATGT
1 TTTATGT
30162961 GTGCTTAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (18 bp):
TTTATGTTTAAATTTGTT
Found at i:30163584 original size:23 final size:23
Alignment explanation
Indices: 30163556--30163604 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
30163546 TGAAAGATTG
30163556 ATTTAATGACTGAATCATAATTA
1 ATTTAATGACTGAATCATAATTA
30163579 ATTTAATGACTGAATCATAATTA
1 ATTTAATGACTGAATCATAATTA
30163602 ATT
1 ATT
30163605 AGTTTGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (23 bp):
ATTTAATGACTGAATCATAATTA
Found at i:30181436 original size:6 final size:6
Alignment explanation
Indices: 30181425--30181496 Score: 76
Period size: 6 Copynumber: 11.8 Consensus size: 6
30181415 AACCAAAATG
* *
30181425 AGAATC AGAATC AGAATC AGTAAT- AGAATT AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
*
30181473 ACGTGA-C AGAATC AGAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
30181497 GTGAATGCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
5 4 0.07
6 46 0.82
7 5 0.09
8 1 0.02
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:30181452 original size:24 final size:24
Alignment explanation
Indices: 30181425--30181496 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
30181415 AACCAAAATG
30181425 AGAATCAGAATCAGAATCAGTAA-T
1 AGAATCAGAATCAGAATCAG-AATT
*
30181449 AGAATTAGAATCAGAATCAGAATT
1 AGAATCAGAATCAGAATCAGAATT
*
30181473 ACGTGA-CAGAATCAGAATCAGAAT
1 A-G-AATCAGAATCAGAATCAGAAT
30181497 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 2 0.05
24 21 0.50
25 18 0.43
26 1 0.02
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGAATT
Found at i:30181684 original size:27 final size:27
Alignment explanation
Indices: 30181614--30181687 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
30181604 AGCATGGCTG
* *
30181614 CCAGAAT-AGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
30181640 CCAGACA-CAGATATTGTGGCAGAGCCA
1 CCAGA-ATCAGATAATGTGGCAGAGCCA
30181667 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
30181688 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 6 0.15
27 33 0.82
28 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:30181694 original size:27 final size:27
Alignment explanation
Indices: 30181638--30181695 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
30181628 GTGACAGAGT
* * *
30181638 CACCAGACACAGATATTGTGGCAGAGC
1 CACCAGACACAGATAATGTGGCAAACC
30181665 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGACA-CAGATAATGTGGCAAACC
30181692 CACC
1 CACC
30181696 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (27 bp):
CACCAGACACAGATAATGTGGCAAACC
Found at i:30182077 original size:27 final size:26
Alignment explanation
Indices: 30181998--30182080 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
30181988 TCGATCGGTC
* * *
30181998 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
30182024 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
30182051 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
30182078 AAC
1 AAC
30182081 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:30182309 original size:27 final size:27
Alignment explanation
Indices: 30182279--30182474 Score: 205
Period size: 27 Copynumber: 7.3 Consensus size: 27
30182269 GGGGCAAAAT
* * *
30182279 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* * *
30182306 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* *
30182333 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* * * *
30182360 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTATAAGGGTATTTC
*
30182387 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
*
30182414 AGTAATTCTACCCTAT-AGAGGTATTTC
1 GGTAATTCTACCCTATAAG-GGTATTTC
** * *
30182441 GAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
*
30182468 AGTAATT
1 GGTAATT
30182475 TCACAATCAA
Statistics
Matches: 139, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
26 2 0.01
27 136 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTATAAGGGTATTTC
Found at i:30182354 original size:54 final size:54
Alignment explanation
Indices: 30182279--30182474 Score: 241
Period size: 54 Copynumber: 3.6 Consensus size: 54
30182269 GGGGCAAAAT
* * * * * *
30182279 GGTAATTTTACCCCATAAGGGTATCTCGGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
30182333 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * * *
30182387 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
** *
30182441 GAAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
30182475 TCACAATCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 120 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:30182423 original size:81 final size:81
Alignment explanation
Indices: 30182297--30182474 Score: 245
Period size: 81 Copynumber: 2.2 Consensus size: 81
30182287 TACCCCATAA
* * *
30182297 GGGTATCTCGGTAATTCTACCATACAGGGGTATTTCGGTATTTCTACCCTACAAG-GGTATTTCG
1 GGGTATTTCGGTAATTCTACCATACAGGGGTATTTCAGTAATTCTACCCTA-AAGAGGTATTTCG
*
30182361 ATAATTCTACCCTACAG
65 AAAATTCTACCCTACAG
* *
30182378 GGGTATTTTGGTAATTCTATCCTATA-A-GGGTATTTCAGTAATTCTACCCTATAGAGGTATTTC
1 GGGTATTTCGGTAATTCTA-CC-ATACAGGGGTATTTCAGTAATTCTACCCTAAAGAGGTATTTC
30182441 GAAAATTCTACCCTACAG
64 GAAAATTCTACCCTACAG
*
30182459 GGGTATTTCAGTAATT
1 GGGTATTTCGGTAATT
30182475 TCACAATCAA
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
80 2 0.02
81 78 0.91
82 3 0.03
83 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCATACAGGGGTATTTCAGTAATTCTACCCTAAAGAGGTATTTCGA
AAATTCTACCCTACAG
Found at i:30182509 original size:27 final size:27
Alignment explanation
Indices: 30182479--30182914 Score: 470
Period size: 27 Copynumber: 16.2 Consensus size: 27
30182469 GTAATTTCAC
* * *
30182479 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
30182506 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
30182533 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
30182560 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
30182587 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
30182614 AATCGAGGG-AAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
30182640 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
30182667 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
30182694 AA-CTGAGGGTAAAACAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
30182721 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
30182748 AATCAAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
30182775 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
30182802 AA-CTGAGGGTAAAACGATAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
30182829 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
30182856 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
30182883 AATCGAGGGTAAAACGGAAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
30182910 AATCG
1 AATCG
30182915 GGAGTACTTT
Statistics
Matches: 347, Mismatches: 51, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.00
26 26 0.07
27 315 0.91
28 5 0.01
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:30182931 original size:81 final size:81
Alignment explanation
Indices: 30182479--30182914 Score: 531
Period size: 81 Copynumber: 5.4 Consensus size: 81
30182469 GTAATTTCAC
* * * * * * *
30182479 AATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTA
* *
30182544 AACCAGTAATTCTATA
66 AAACAGTAATTCTGTA
* * * *
30182560 AATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAA-TCGAGGG-
1 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAACT-GAGGGT
*
30182623 AAAATAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* * * *
30182640 AA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGT
1 AATC-GAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGT
*
30182704 AAAACAGTAATTTTGTA
65 AAAACAGTAATTCTGTA
* * * *
30182721 AATCAAGGGTAAAACGGTAATTTTACAAATCAAGGGTAAAATGATAATTCTATAAA-TCGAGGGT
1 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAACT-GAGGGT
* *
30182785 AAAATAGTAATTTTGTA
65 AAAACAGTAATTCTGTA
* *
30182802 AA-CTGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGT
1 AATC-GAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGT
*
30182866 AAAACGGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* *
30182883 AATCGAGGGTAAAACGGAAATTCTATAAATCG
1 AATCGAGGGTAAAACGGTAATTTTATAAATCG
30182915 GGAGTACTTT
Statistics
Matches: 308, Mismatches: 38, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
79 1 0.00
80 70 0.23
81 234 0.76
82 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTA
AAACAGTAATTCTGTA
Done.