Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 27 of 145
Found at i:10084161 original size:7 final size:7
Alignment explanation
Indices: 10084149--10084184 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
10084139 ATACATAATG
10084149 CTAAATA
1 CTAAATA
10084156 CTAAATA
1 CTAAATA
10084163 CTAAATA
1 CTAAATA
10084170 CTAAATA
1 CTAAATA
10084177 CTAAATA
1 CTAAATA
10084184 C
1 C
10084185 CAATCGACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.28
Consensus pattern (7 bp):
CTAAATA
Found at i:10084390 original size:20 final size:20
Alignment explanation
Indices: 10084353--10084390 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10084343 TTTATTTTTA
*
10084353 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
10084373 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
10084391 TACCTCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:10085361 original size:51 final size:51
Alignment explanation
Indices: 10085317--10085414 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
10085307 AATTATTTAA
10085317 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
10085368 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
10085415 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:10085390 original size:11 final size:11
Alignment explanation
Indices: 10085376--10085452 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
10085366 ATAAATATGG
10085376 ATTTGAGAGAA
1 ATTTGAGAGAA
*
10085387 ATTTTGA-AGGA
1 A-TTTGAGAGAA
10085398 ATTTGAGAGCAA
1 ATTTGAGAG-AA
10085410 A-TTGAGAGGAA
1 ATTTGAGA-GAA
10085421 ATTT-AGAAGAA
1 ATTTGAG-AGAA
10085432 A-TTGAGAAGAA
1 ATTTGAG-AGAA
10085443 ATTTGAGAGA
1 ATTTGAGAGA
10085453 GGATTAGTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
10 7 0.12
11 33 0.59
12 16 0.29
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:10085415 original size:33 final size:33
Alignment explanation
Indices: 10085376--10085452 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 33
10085366 ATAAATATGG
* *
10085376 ATTTGAGAGAAATTTTGAAGGAATTTGAG-AGCAA
1 ATTTGAGAGAAATTTAGAA-GAAATTGAGAAG-AA
10085410 A-TTGAGAGGAAATTTAGAAGAAATTGAGAAGAA
1 ATTTGAGA-GAAATTTAGAAGAAATTGAGAAGAA
10085443 ATTTGAGAGA
1 ATTTGAGAGA
10085453 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
33 19 0.50
34 19 0.50
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAGAAGAAATTGAGAAGAA
Found at i:10088364 original size:39 final size:39
Alignment explanation
Indices: 10088305--10088392 Score: 131
Period size: 39 Copynumber: 2.3 Consensus size: 39
10088295 ATTTATTTAA
*
10088305 AGGAGTAGTTTTCTATATTATAGGAAGTAGAAGATGAAT
1 AGGAGTAGTTTTCTATATTATAGGAAGTAGAAGACGAAT
* * * *
10088344 AGGAATAGTTTTTTATATTATAGGAAGTAGAGGGCGAAT
1 AGGAGTAGTTTTCTATATTATAGGAAGTAGAAGACGAAT
10088383 AGGAGTAGTT
1 AGGAGTAGTT
10088393 CTCCTATTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.33
Consensus pattern (39 bp):
AGGAGTAGTTTTCTATATTATAGGAAGTAGAAGACGAAT
Found at i:10089814 original size:22 final size:22
Alignment explanation
Indices: 10089789--10089865 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
10089779 TTTTAGTGTT
10089789 TTTGTTTTCTTTAATTTCTAGA
1 TTTGTTTTCTTTAATTTCTAGA
** * *
10089811 TTTGTTTAT-TTCTTCTTTCAAGTCTT
1 TTTGTTT-TCTT-TAATTTCTAG---A
10089837 TTTGTTTTCTTTAATTTCTAGA
1 TTTGTTTTCTTTAATTTCTAGA
10089859 TTTGTTT
1 TTTGTTT
10089866 ATTTCTTCTT
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
25 8 0.20
26 9 0.22
ACGTcount: A:0.14, C:0.10, G:0.09, T:0.66
Consensus pattern (22 bp):
TTTGTTTTCTTTAATTTCTAGA
Found at i:10089845 original size:48 final size:48
Alignment explanation
Indices: 10089771--10089882 Score: 199
Period size: 48 Copynumber: 2.4 Consensus size: 48
10089761 TAGTTCTTAA
* *
10089771 ATTTCTTCTTT-TAGTGTTTTTGTTTTCTTTAATTTCTAGATTTGTTT
1 ATTTCTTCTTTCAAGTCTTTTTGTTTTCTTTAATTTCTAGATTTGTTT
10089818 ATTTCTTCTTTCAAGTCTTTTTGTTTTCTTTAATTTCTAGATTTGTTT
1 ATTTCTTCTTTCAAGTCTTTTTGTTTTCTTTAATTTCTAGATTTGTTT
10089866 ATTTCTTCTTTCAAGTC
1 ATTTCTTCTTTCAAGTC
10089883 AGATCCAAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
47 11 0.18
48 51 0.82
ACGTcount: A:0.14, C:0.12, G:0.09, T:0.64
Consensus pattern (48 bp):
ATTTCTTCTTTCAAGTCTTTTTGTTTTCTTTAATTTCTAGATTTGTTT
Found at i:10089870 original size:25 final size:25
Alignment explanation
Indices: 10089794--10089872 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 25
10089784 GTGTTTTTGT
10089794 TTTCTTTAATTTCTAGATTTGTTTA
1 TTTCTTTAATTTCTAGATTTGTTTA
* * *
10089819 TTTC-TT-CTTTCAAG-TCTT-TTTGT
1 TTTCTTTAATTTCTAGAT-TTGTTT-A
10089842 TTTCTTTAATTTCTAGATTTGTTTA
1 TTTCTTTAATTTCTAGATTTGTTTA
10089867 TTTCTT
1 TTTCTT
10089873 CTTTCAAGTC
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
22 4 0.10
23 12 0.29
24 4 0.10
25 18 0.43
26 4 0.10
ACGTcount: A:0.15, C:0.11, G:0.08, T:0.66
Consensus pattern (25 bp):
TTTCTTTAATTTCTAGATTTGTTTA
Found at i:10089896 original size:48 final size:48
Alignment explanation
Indices: 10089796--10089905 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 48
10089786 GTTTTTGTTT
*** *****
10089796 TCTTTAATTTCTAGATTTGTTTATTTCTTCTTTCAAGTCTTTTTGTTT
1 TCTTTAATTTCTAGATTTGTTTATTTCTTCTTTCAAGTCAGATCCAAA
10089844 TCTTTAATTTCTAGATTTGTTTATTTCTTCTTTCAAGTCAGATCCAAA
1 TCTTTAATTTCTAGATTTGTTTATTTCTTCTTTCAAGTCAGATCCAAA
*
10089892 TCTTT-CTTTCTAGA
1 TCTTTAATTTCTAGA
10089906 GTCAAACAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 8 0.15
48 45 0.85
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.57
Consensus pattern (48 bp):
TCTTTAATTTCTAGATTTGTTTATTTCTTCTTTCAAGTCAGATCCAAA
Found at i:10094092 original size:85 final size:85
Alignment explanation
Indices: 10093944--10094193 Score: 466
Period size: 85 Copynumber: 3.0 Consensus size: 85
10093934 TACTATTCTC
* * *
10093944 ATTAATTAAACATACATTTAATAACAAAAA-TTATAACTTCCTTTGATATTAAAGAAAGCTAATT
1 ATTAATTAATCATACATTTAATAAAAAAAATTTAGAACTTCCTTTGATATTAAAGAAAGCTAATT
10094008 CATTCCATATATATATATAT
66 CATTCCATATATATATATAT
10094028 ATTAATTAATCATACATTTAATAAAAAAAATTTAGAACTTCCTTTGATATTAAAGAAAGCTAATT
1 ATTAATTAATCATACATTTAATAAAAAAAATTTAGAACTTCCTTTGATATTAAAGAAAGCTAATT
10094093 CATTCCATATATATATATAT
66 CATTCCATATATATATATAT
10094113 ATTAATTAATCATACATTTAATAAAAAAAATTTAGAACTTCCTTTGATATTAAAGAAAGCTAATT
1 ATTAATTAATCATACATTTAATAAAAAAAATTTAGAACTTCCTTTGATATTAAAGAAAGCTAATT
10094178 CATTCCATATATATAT
66 CATTCCATATATATAT
10094194 TTTTTATTAA
Statistics
Matches: 162, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
84 28 0.17
85 134 0.83
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.38
Consensus pattern (85 bp):
ATTAATTAATCATACATTTAATAAAAAAAATTTAGAACTTCCTTTGATATTAAAGAAAGCTAATT
CATTCCATATATATATATAT
Found at i:10094747 original size:27 final size:27
Alignment explanation
Indices: 10094728--10094836 Score: 173
Period size: 27 Copynumber: 4.0 Consensus size: 27
10094718 CAACGGCAGT
* *
10094728 CAAGGATGGTAACGTGCCAATTCCAGG
1 CAAGGATGGTAACATGCCAATGCCAGG
*
10094755 CACGGATGGTAACATGCCAATGCCAGG
1 CAAGGATGGTAACATGCCAATGCCAGG
*
10094782 CAAAGATGGTAACATGCCAATGCCAGG
1 CAAGGATGGTAACATGCCAATGCCAGG
*
10094809 CAAGGATGGTAATATGCCAATGCCAGG
1 CAAGGATGGTAACATGCCAATGCCAGG
10094836 C
1 C
10094837 GTGGCTGGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (27 bp):
CAAGGATGGTAACATGCCAATGCCAGG
Found at i:10094805 original size:33 final size:33
Alignment explanation
Indices: 10094795--10094950 Score: 207
Period size: 33 Copynumber: 4.9 Consensus size: 33
10094785 AGATGGTAAC
*
10094795 ATGCCAATGCCAGGCAAGGATGGTAA--T----
1 ATGCCAATGCCAGGCATGGATGGTAATTTGCCA
* * *
10094822 ATGCCAATGCCAGGCGTGGCTGGTAATTTGCCT
1 ATGCCAATGCCAGGCATGGATGGTAATTTGCCA
*
10094855 ATGCCAATGCCAGGCATGGCTGGTAATTTGCCA
1 ATGCCAATGCCAGGCATGGATGGTAATTTGCCA
* *
10094888 ATGCCCATGCCAGGCATGGCTGGTAATTTGCCA
1 ATGCCAATGCCAGGCATGGATGGTAATTTGCCA
10094921 ATGCCAATGCCAGGCATGGATGGTAATTTG
1 ATGCCAATGCCAGGCATGGATGGTAATTTG
10094951 TCTGGCATCA
Statistics
Matches: 115, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
27 23 0.20
29 1 0.01
33 91 0.79
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (33 bp):
ATGCCAATGCCAGGCATGGATGGTAATTTGCCA
Found at i:10094845 original size:27 final size:27
Alignment explanation
Indices: 10094706--10094892 Score: 167
Period size: 27 Copynumber: 6.7 Consensus size: 27
10094696 GTGCCAGTTA
* * * *
10094706 ATGGTAATATACCAACGGCAGTCAAGG
1 ATGGTAATATGCCAATGCCAGGCAAGG
** * *
10094733 ATGGTAACGTGCCAATTCCAGGCACGG
1 ATGGTAATATGCCAATGCCAGGCAAGG
* *
10094760 ATGGTAACATGCCAATGCCAGGCAAAG
1 ATGGTAATATGCCAATGCCAGGCAAGG
*
10094787 ATGGTAACATGCCAATGCCAGGCAAGG
1 ATGGTAATATGCCAATGCCAGGCAAGG
**
10094814 ATGGTAATATGCCAATGCCAGGCGTGG
1 ATGGTAATATGCCAATGCCAGGCAAGG
* *
10094841 CTGGTAATTTGCCTATGCCAATGCCAGGCATGG
1 ATGGTAA------TATGCCAATGCCAGGCAAGG
* *
10094874 CTGGTAATTTGCCAATGCC
1 ATGGTAATATGCCAATGCC
10094893 CATGCCAGGC
Statistics
Matches: 135, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
27 109 0.81
33 26 0.19
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (27 bp):
ATGGTAATATGCCAATGCCAGGCAAGG
Found at i:10106978 original size:24 final size:24
Alignment explanation
Indices: 10106921--10106988 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
10106911 TTACTACCAA
* *
10106921 ATTGAGTGGCTTGTCCACAACAGT
1 ATTGAGTGGCTTGACCACAACAAT
*** *
10106945 AACAATTGGCTTGACCACAACAAT
1 ATTGAGTGGCTTGACCACAACAAT
*
10106969 ATTGAGTGGCTTGGCCACAA
1 ATTGAGTGGCTTGACCACAA
10106989 TGTAAATGAG
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (24 bp):
ATTGAGTGGCTTGACCACAACAAT
Found at i:10111897 original size:41 final size:41
Alignment explanation
Indices: 10111852--10111955 Score: 111
Period size: 41 Copynumber: 2.5 Consensus size: 41
10111842 GACTTTAAGT
* * * *
10111852 CTAGCAGGCAAAGTGCTGGTGATCTTAACCAGGTTGTAAAC
1 CTAGCAGGCAAAGTGCCGGTGATCTGAACCAGGCTATAAAC
* * * *
10111893 CTAGCAGGCTACA-TGCCGATGATCTGAATCAGGCTATAAGC
1 CTAGCAGGC-AAAGTGCCGGTGATCTGAACCAGGCTATAAAC
*
10111934 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCAAAGTGCCGGTGA
10111956 ATATGTTAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
40 1 0.02
41 47 0.94
42 2 0.04
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (41 bp):
CTAGCAGGCAAAGTGCCGGTGATCTGAACCAGGCTATAAAC
Found at i:10121534 original size:28 final size:28
Alignment explanation
Indices: 10121498--10121554 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
10121488 ATTACAATCT
10121498 TATAACAAAGAAAACATGATTTAGATTA
1 TATAACAAAGAAAACATGATTTAGATTA
10121526 TATAACAAAGAAAACATGATTTAGATTA
1 TATAACAAAGAAAACATGATTTAGATTA
10121554 T
1 T
10121555 CTACCCTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.30
Consensus pattern (28 bp):
TATAACAAAGAAAACATGATTTAGATTA
Found at i:10135004 original size:9 final size:9
Alignment explanation
Indices: 10134935--10135020 Score: 59
Period size: 9 Copynumber: 9.6 Consensus size: 9
10134925 ACCAGCATAT
10134935 ACAGCAG-A
1 ACAGCAGCA
*
10134943 AGCAGCAGCT
1 A-CAGCAGCA
* *
10134953 ACTGCAACA
1 ACAGCAGCA
* *
10134962 ACAACAACA
1 ACAGCAGCA
*
10134971 ACAGCAACA
1 ACAGCAGCA
*
10134980 ACAGCGGCA
1 ACAGCAGCA
*
10134989 GCAGCAGCA
1 ACAGCAGCA
10134998 ACAGCAGCA
1 ACAGCAGCA
*
10135007 AGCA-AAGCA
1 A-CAGCAGCA
10135016 ACAGC
1 ACAGC
10135021 TGTCCACTCA
Statistics
Matches: 60, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
8 3 0.05
9 54 0.90
10 3 0.05
ACGTcount: A:0.45, C:0.31, G:0.21, T:0.02
Consensus pattern (9 bp):
ACAGCAGCA
Found at i:10140770 original size:15 final size:15
Alignment explanation
Indices: 10140745--10140779 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10140735 GACTCTATTT
*
10140745 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
10140759 TAATTAATATTAAGA
1 TAATTAATATTAAGA
10140774 TAATTA
1 TAATTA
10140780 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:10144773 original size:31 final size:34
Alignment explanation
Indices: 10144717--10144787 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 34
10144707 ATTTTTATTT
*
10144717 TTATTTATTATTTTATTATTCTATTATAT-TTACC
1 TTATTTATTACTTTATTATTCTATTATATATTA-C
*
10144751 TTATTTATTACTTTA-T-TT-TATTATTTATTAC
1 TTATTTATTACTTTATTATTCTATTATATATTAC
10144782 TTATTT
1 TTATTT
10144788 GTATATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 14 0.41
32 5 0.15
33 1 0.03
34 14 0.41
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (34 bp):
TTATTTATTACTTTATTATTCTATTATATATTAC
Found at i:10144776 original size:20 final size:19
Alignment explanation
Indices: 10144709--10144787 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 19
10144699 GCAACCCAAT
10144709 TTTTATT-TTTATTTA-TTA
1 TTTTATTATTTA-TTACTTA
10144727 TTTTATTATTCTATTA--TA
1 TTTTATTATT-TATTACTTA
10144745 -TTTACCTTATTTATTACTTTA
1 TTTTA--TTATTTATTAC-TTA
10144766 TTTTATTATTTATTACTTA
1 TTTTATTATTTATTACTTA
10144785 TTT
1 TTT
10144788 GTATATTAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
17 4 0.08
18 14 0.26
19 16 0.30
20 13 0.25
21 2 0.04
22 4 0.08
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATTATTTATTACTTA
Found at i:10144993 original size:22 final size:21
Alignment explanation
Indices: 10144934--10144993 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
10144924 GCCCAGAATG
*
10144934 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCCAAAC-ACCCTATC
*
10144956 CCTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAAACACCC-TATC
10144978 CCTGCA-CCTAAACACC
1 CCTGCAGCC-AAACACC
10144994 ACCCCTCAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 6 0.18
22 27 0.82
ACGTcount: A:0.27, C:0.47, G:0.08, T:0.18
Consensus pattern (21 bp):
CCTGCAGCCAAACACCCTATC
Found at i:10146692 original size:15 final size:15
Alignment explanation
Indices: 10146667--10146701 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10146657 GACTCTATTT
*
10146667 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
10146681 TAATTAATATTAAGA
1 TAATTAATATTAAGA
10146696 TAATTA
1 TAATTA
10146702 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:10148565 original size:15 final size:15
Alignment explanation
Indices: 10148545--10148594 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
10148535 TAATTGTAGT
10148545 GTTTAATGTGTCTTA
1 GTTTAATGTGTCTTA
* *
10148560 GTTTAATGTATGTTA
1 GTTTAATGTGTCTTA
*
10148575 --TTAATATGTCTTA
1 GTTTAATGTGTCTTA
*
10148588 GCTTAAT
1 GTTTAAT
10148595 ACCGATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 10 0.36
15 18 0.64
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (15 bp):
GTTTAATGTGTCTTA
Found at i:10154973 original size:61 final size:61
Alignment explanation
Indices: 10154892--10155008 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 61
10154882 AAGGAATTTA
* *
10154892 ATATTAAATTAAATTAAATATTTATCTAGATAGTATTTTATTAATTTAACATTAATATGTG
1 ATATTAAATTAAATTAAATATTTATCTACATAATATTTTATTAATTTAACATTAATATGTG
* * *
10154953 ATATTAAATTTAATTTAATATTTATCTACATAATATTTTATTAATTTAATATTAAT
1 ATATTAAATTAAATTAAATATTTATCTACATAATATTTTATTAATTTAACATTAAT
10155009 GTGATTAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (61 bp):
ATATTAAATTAAATTAAATATTTATCTACATAATATTTTATTAATTTAACATTAATATGTG
Found at i:10155000 original size:31 final size:31
Alignment explanation
Indices: 10154903--10155005 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 31
10154893 TATTAAATTA
* * *
10154903 AATTAAATATTTATCTAGATAGTATTTTATT
1 AATTTAATATTTATCTACATAATATTTTATT
* * ** * **
10154934 AATTTAACA-TTA-ATATGTGATATTAAATTT
1 AATTTAATATTTATCTACATAATATTTTA-TT
10154964 AATTTAATATTTATCTACATAATATTTTATT
1 AATTTAATATTTATCTACATAATATTTTATT
10154995 AATTTAATATT
1 AATTTAATATT
10155006 AATGTGATTA
Statistics
Matches: 53, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
29 8 0.15
30 13 0.25
31 23 0.43
32 9 0.17
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (31 bp):
AATTTAATATTTATCTACATAATATTTTATT
Found at i:10155245 original size:17 final size:17
Alignment explanation
Indices: 10155223--10155278 Score: 112
Period size: 17 Copynumber: 3.3 Consensus size: 17
10155213 TCGTGATTTT
10155223 GTGAAATCTCATTCGAA
1 GTGAAATCTCATTCGAA
10155240 GTGAAATCTCATTCGAA
1 GTGAAATCTCATTCGAA
10155257 GTGAAATCTCATTCGAA
1 GTGAAATCTCATTCGAA
10155274 GTGAA
1 GTGAA
10155279 CCCACACTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (17 bp):
GTGAAATCTCATTCGAA
Found at i:10155966 original size:12 final size:12
Alignment explanation
Indices: 10155949--10155974 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10155939 TATCTCTTTA
10155949 AATTTTGAATTT
1 AATTTTGAATTT
10155961 AATTTTGAATTT
1 AATTTTGAATTT
10155973 AA
1 AA
10155975 ATATTTTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (12 bp):
AATTTTGAATTT
Found at i:10163790 original size:3 final size:3
Alignment explanation
Indices: 10163784--10163821 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10163774 TTCAAAGCAA
10163784 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10163822 GATACTTGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10170968 original size:15 final size:15
Alignment explanation
Indices: 10170950--10170980 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10170940 AAAAATGACG
10170950 AAATGAAAAAATAAA
1 AAATGAAAAAATAAA
*
10170965 AAATGAAAAAGTAAA
1 AAATGAAAAAATAAA
10170980 A
1 A
10170981 TAAAGAGGCT
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:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (15 bp):
AAATGAAAAAATAAA
Found at i:10172820 original size:132 final size:132
Alignment explanation
Indices: 10172578--10172960 Score: 613
Period size: 132 Copynumber: 2.9 Consensus size: 132
10172568 NNAGCGGAGT
* **
10172578 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCAT
1 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGGCAAATCAT
*
10172643 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGCAGA
66 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAACAGA
10172708 GA
131 GA
* * *
10172710 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAATACGGTAAATCTT
1 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGGCAAATCAT
* * * * *
10172775 ATCTTTCCAAGATGGTGGGAAGCAGATTTAAGCCACTAAGTCTTGTCTCCTTGAGCAGCAACAGA
66 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAACAGA
*
10172840 GT
131 GA
*
10172842 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGACAAATCAT
1 AGGTTGAAGATTGTAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGGCAAATCAT
* * *
10172907 ATCTTTCCAAGATAGTGGGAAGCAAATTTAAGCCACCAAACCTTATCTCCCTGA
66 ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGA
10172961 AGTTGCAGTG
Statistics
Matches: 227, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 227 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (132 bp):
AGGTTGAAGATTGTAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGGCAAATCAT
ATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAACAGA
GA
Found at i:10173166 original size:84 final size:84
Alignment explanation
Indices: 10172951--10173176 Score: 212
Period size: 84 Copynumber: 2.7 Consensus size: 84
10172941 ACCAAACCTT
* * *
10172951 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-TTGGATCTTATCCTT-CTGAAGTTGCAGA
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT-AATCTTAT-CTTCCTGAAGTTGCAGA
* * ** * **
10173014 GAGCAGATTGCATCTAGTCTT
64 GAGCAGACTGAAGATAGGCAA
* * * *
10173035 ATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAGCAAGCA-AGTCTTATCTTCCTGAAGTTGCATT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-CG-ATAATCTTATCTTCCTGAAGTTGCA--
10173098 GA-AGCAGACTGAAGAT-GGCAA
62 GAGAGCAGACTGAAGATAGGCAA
* *
10173119 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCTTATCTTCCTGAAGTT
10173177 ACAGTGGAGC
Statistics
Matches: 114, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
83 7 0.06
84 91 0.80
85 14 0.12
86 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (84 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCTTATCTTCCTGAAGTTGCAGAGA
GCAGACTGAAGATAGGCAA
Found at i:10173207 original size:128 final size:127
Alignment explanation
Indices: 10173034--10173273 Score: 283
Period size: 128 Copynumber: 1.9 Consensus size: 127
10173024 CATCTAGTCT
** *
10173034 TATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGCAAGCAAGTCTTATCT-TCCTGAAGTTGCATT
1 TATCTCCCTGAAGTTACAGTGGAGCAGACTAA-CAAGCAAGTCTTATCTCT-CTAAAGTTGCA--
10173098 GA-AGCAGA-CTGAAGATGG-CAAATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAAT
62 GAGAGCAGATC-GAAGATGGTCAAATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAAT
10173160 CC
126 CC
* * *
10173162 TATCTCCCTGAAGTTACAGTGGAGCGGATTAA-AATCACAGATCTTATCTCTCTAAAGTTGCAGA
1 TATCTCCCTGAAGTTACAGTGGAGCAGACTAACAAGCA-AG-TCTTATCTCTCTAAAGTTGCAGA
* ** **
10173226 GAGCAGATCGCATCTGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
64 GAGCAGATCGAAGATGGTCAAATCTCCCTGAAGTTGCAGTGGAGCAGA
10173274 CTGAGTAAGA
Statistics
Matches: 95, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
126 6 0.06
127 13 0.14
128 75 0.79
129 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (127 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGACTAACAAGCAAGTCTTATCTCTCTAAAGTTGCAGAGA
GCAGATCGAAGATGGTCAAATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCC
Found at i:10173299 original size:44 final size:45
Alignment explanation
Indices: 10173029--10173357 Score: 171
Period size: 44 Copynumber: 7.6 Consensus size: 45
10173019 GATTGCATCT
*
10173029 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AA-GCAAGC-A
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATG-AA-CAA
* * *
10173073 AGTCTTATCTTCCTGAAGTTGCATTGAAGCAGACTGAA-G----A
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATGAACAA
* * ** * * *
10173113 TGGCAAATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAG-CCGATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATGAAC-A-A
* * * * *
10173158 A-TCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA--AATCAC
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATGAA-CAA
* * * * *
10173200 AGATCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-TCGCAT---C-T
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAATGAACAA
* * *
10173241 GGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGT-AAGAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATGAACAA
* * *
10173285 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTGAATGAACAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATGAACAA
* * *
10173330 A-TCCTATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
10173358 TGGATTAGAA
Statistics
Matches: 217, Mismatches: 49, Indels: 38
0.71 0.16 0.12
Matches are distributed among these distances:
39 3 0.01
40 48 0.22
41 10 0.05
42 3 0.01
43 8 0.04
44 136 0.63
45 9 0.04
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATGAACAA
Found at i:10173694 original size:17 final size:18
Alignment explanation
Indices: 10173680--10173742 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 18
10173670 ATAATCTTCG
10173680 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
10173698 TATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
* *
10173717 TATGATATGTAATCTTAGA
1 -AGGATATGCAATCTTAGA
10173736 A-GATATG
1 AGGATATG
10173743 ATTTTGTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.14
18 1 0.02
19 35 0.83
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:10173706 original size:19 final size:19
Alignment explanation
Indices: 10173682--10173735 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
10173672 AATCTTCGAG
10173682 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10173701 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
10173720 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
10173736 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:10173761 original size:22 final size:22
Alignment explanation
Indices: 10173695--10173758 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 22
10173685 ATGCAATCTT
*
10173695 AGATATGATATGCAATCTT---
1 AGATATGATATGTAATCTTAGA
10173714 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
10173736 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
10173759 GATCTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.46
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:10173768 original size:22 final size:23
Alignment explanation
Indices: 10173724--10173768 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10173714 AGATATGATA
*
10173724 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
10173747 TGTAATCTTAG-AGATCTAATTT
1 TGTAATCTTAGAAGATATAATTT
10173769 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:10173771 original size:21 final size:23
Alignment explanation
Indices: 10173714--10173771 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
10173704 ATGCAATCTT
*
10173714 AGATATG-ATATGTAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
10173736 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
10173758 AGATCT-AATTTGTA
1 AGATATGAATTTGTA
10173772 GATACCCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 7 0.23
22 12 0.39
23 12 0.39
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:10182158 original size:10 final size:12
Alignment explanation
Indices: 10182130--10182172 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
10182120 AAAGATATAT
10182130 AATATATTCCTA
1 AATATATTCCTA
10182142 AATATATTCCTA
1 AATATATTCCTA
*
10182154 AATATATTCTTA
1 AATATATTCCTA
10182166 AATATAT
1 AATATAT
10182173 GGAAAGATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (12 bp):
AATATATTCCTA
Found at i:10191940 original size:3 final size:3
Alignment explanation
Indices: 10191934--10191987 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
10191924 TTAATTTTCC
* *
10191934 TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TTT TAC TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
10191979 TAT T-T TAT T
1 TAT TAT TAT T
10191988 TTCATTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 37 0.84
4 3 0.07
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:10192000 original size:6 final size:6
Alignment explanation
Indices: 10191934--10192002 Score: 59
Period size: 6 Copynumber: 11.2 Consensus size: 6
10191924 TTAATTTTCC
* * * *
10191934 TATTAT TATTAT TATTAT TATTAT TATTATT TATTTT TACTATTT TA-TTT
1 TATTTT TATTTT TATTTT TATTTT TATT-TT TATTTT TA-T-TTT TATTTT
*
10191984 TATTTT CATTTT TATTTT T
1 TATTTT TATTTT TATTTT T
10192003 GCAGGAAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
5 5 0.09
6 40 0.71
7 6 0.11
8 5 0.09
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (6 bp):
TATTTT
Found at i:10192198 original size:3 final size:3
Alignment explanation
Indices: 10192190--10192246 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
10192180 TTAATTTTCC
* *
10192190 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TTT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
10192236 T-T TAT T-T TAT T
1 TAT TAT TAT TAT T
10192247 TTTGTAGGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 40 0.85
4 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:10192236 original size:13 final size:14
Alignment explanation
Indices: 10192178--10192243 Score: 53
Period size: 15 Copynumber: 4.6 Consensus size: 14
10192168 AAGAAAAAAT
* *
10192178 TTTTAATTTTCCTA
1 TTTTATTTTTACTA
* *
10192192 TTATTATTATTATTA
1 TT-TTATTTTTACTA
* *
10192207 TTATTATTATTATTA
1 TT-TTATTTTTACTA
10192222 -TTTATTTTTACTA
1 TTTTATTTTTACTA
10192235 TTTTATTTT
1 TTTTATTTT
10192244 ATTTTTGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.23
14 11 0.25
15 23 0.52
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTATTTTTACTA
Found at i:10205803 original size:5 final size:5
Alignment explanation
Indices: 10205793--10205832 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
10205783 TACAGAAGCA
10205793 TTCAC TTCAC TTCAC TTCAC TTCAC TTCAC TTCAC TTCAC
1 TTCAC TTCAC TTCAC TTCAC TTCAC TTCAC TTCAC TTCAC
10205833 CCTACAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (5 bp):
TTCAC
Found at i:10212115 original size:37 final size:37
Alignment explanation
Indices: 10212023--10212216 Score: 187
Period size: 37 Copynumber: 5.3 Consensus size: 37
10212013 GTGTTGTATG
* **
10212023 CTGAATGAAGCTCAAAC-GAGCAAAATCTACTAATATA
1 CTGAATAAAGCTC-AACTGAGCAAAATCTACGGATATA
* * *
10212060 CT-AA-AAAGCTTAAGTGAGCCAAATCTACGGATATA
1 CTGAATAAAGCTCAACTGAGCAAAATCTACGGATATA
* *
10212095 GTGAATAAAGCTCAACTGAGCAAAATCTATGGATATA
1 CTGAATAAAGCTCAACTGAGCAAAATCTACGGATATA
* * * *
10212132 TTGAATAAATCTCAATTGAGCGAAATCTACGGATATA
1 CTGAATAAAGCTCAACTGAGCAAAATCTACGGATATA
* * *** *
10212169 CTAAATAAAGCTAAACTGAGCGTTATCTACTGATATA
1 CTGAATAAAGCTCAACTGAGCAAAATCTACGGATATA
*
10212206 CTAAATAAAGC
1 CTGAATAAAGC
10212217 CCAATCGAGC
Statistics
Matches: 130, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
34 2 0.02
35 23 0.18
36 4 0.03
37 101 0.78
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (37 bp):
CTGAATAAAGCTCAACTGAGCAAAATCTACGGATATA
Found at i:10212197 original size:74 final size:74
Alignment explanation
Indices: 10212030--10212214 Score: 207
Period size: 74 Copynumber: 2.5 Consensus size: 74
10212020 ATGCTGAATG
* * * *
10212030 AAGCTCAAAC-GAGCAAAATCTACTAATATACT-AA-AAAGCTTAAGTGAGCCAAATCTACGGAT
1 AAGCT-AAACTGAGCAAAATCTACTGATATACTAAATAAATCTCAATTGAGCCAAATCTACGGAT
* *
10212092 ATAGTGAATA
65 ATACTAAATA
* * * *
10212102 AAGCTCAACTGAGCAAAATCTA-TGGATATATTGAATAAATCTCAATTGAGCGAAATCTACGGAT
1 AAGCTAAACTGAGCAAAATCTACT-GATATACTAAATAAATCTCAATTGAGCCAAATCTACGGAT
10212166 ATACTAAATA
65 ATACTAAATA
***
10212176 AAGCTAAACTGAGCGTTATCTACTGATATACTAAATAAA
1 AAGCTAAACTGAGCAAAATCTACTGATATACTAAATAAA
10212215 GCCCAATCGA
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
71 4 0.04
72 23 0.25
73 2 0.02
74 63 0.68
75 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (74 bp):
AAGCTAAACTGAGCAAAATCTACTGATATACTAAATAAATCTCAATTGAGCCAAATCTACGGATA
TACTAAATA
Found at i:10212232 original size:37 final size:37
Alignment explanation
Indices: 10212156--10212248 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
10212146 ATTGAGCGAA
* * *
10212156 ATCTACGGATATACTAAATAAAGCTAAACTGAGCGTT
1 ATCTACTGATATACTAAATAAAGCCAAACTGAGCATT
*
10212193 ATCTACTGATATACTAAATAAAGCCCAA-TCGAGCATT
1 ATCTACTGATATACTAAATAAAGCCAAACT-GAGCATT
* *
10212230 ATCTATTGATTATATTAAA
1 ATCTACTGA-TATACTAAA
10212249 CTACTGTACT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.02
37 39 0.81
38 8 0.17
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (37 bp):
ATCTACTGATATACTAAATAAAGCCAAACTGAGCATT
Found at i:10218379 original size:22 final size:22
Alignment explanation
Indices: 10218351--10218394 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
10218341 AACCTAAGAA
10218351 CTCTAAGTAGAATGCACTACAC
1 CTCTAAGTAGAATGCACTACAC
10218373 CTCTAAGTAGAATGCACTACAC
1 CTCTAAGTAGAATGCACTACAC
10218395 TTAACCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (22 bp):
CTCTAAGTAGAATGCACTACAC
Found at i:10218591 original size:11 final size:11
Alignment explanation
Indices: 10218577--10218601 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10218567 AAACTTATAA
10218577 AACAATTTTAT
1 AACAATTTTAT
10218588 AACAATTTTAT
1 AACAATTTTAT
10218599 AAC
1 AAC
10218602 TGCAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (11 bp):
AACAATTTTAT
Found at i:10221257 original size:16 final size:16
Alignment explanation
Indices: 10221236--10221266 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10221226 TAATTTCAAA
*
10221236 TTATATGTTTTATTAT
1 TTATATGTATTATTAT
10221252 TTATATGTATTATTA
1 TTATATGTATTATTA
10221267 GTTTTAATGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTATATGTATTATTAT
Found at i:10227792 original size:22 final size:21
Alignment explanation
Indices: 10227765--10227807 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
10227755 ATAATAACAT
* *
10227765 ATGAAATATGTATAATATTAAA
1 ATGAAAAATATAT-ATATTAAA
10227787 ATGAAAAATATATATATTAAA
1 ATGAAAAATATATATATTAAA
10227808 TTACAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (21 bp):
ATGAAAAATATATATATTAAA
Found at i:10235366 original size:21 final size:22
Alignment explanation
Indices: 10235342--10235387 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
10235332 TTTTAATAAG
10235342 TTTTTATCA-CTTA--TTTTTA
1 TTTTTATCATCTTAGTTTTTTA
*
10235361 TATTTTATCATTTTAGTTTTTTA
1 T-TTTTATCATCTTAGTTTTTTA
10235384 TTTT
1 TTTT
10235388 CCCTCTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 1 0.05
20 8 0.36
21 3 0.14
22 3 0.14
23 7 0.32
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTTATCATCTTAGTTTTTTA
Found at i:10240826 original size:46 final size:46
Alignment explanation
Indices: 10240768--10240892 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
10240758 TCTGAGGCCT
* * *
10240768 AGCATTTGTTGCGAACTTGAGAATACAAGAATAGGTTCCGAGCTTC
1 AGCATATGTTGCGGACTTGAGAATACAAGAATAGGTTCCGAGCTCC
* * **
10240814 AGTA-AGTGTTGCGGACTCGAGAATACAAGTTTAGGTTCCGAGCTCC
1 AGCATA-TGTTGCGGACTTGAGAATACAAGAATAGGTTCCGAGCTCC
* *
10240860 TGCATATGTTGCGGACTTGAGAATATAAGAATA
1 AGCATATGTTGCGGACTTGAGAATACAAGAATA
10240893 TTAAGCCCTA
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
46 63 0.98
47 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (46 bp):
AGCATATGTTGCGGACTTGAGAATACAAGAATAGGTTCCGAGCTCC
Found at i:10247875 original size:2 final size:2
Alignment explanation
Indices: 10247868--10247924 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
10247858 TGAATGATGA
10247868 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10247910 AT A- AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT A
10247925 ATAAAGTAGC
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10250501 original size:14 final size:14
Alignment explanation
Indices: 10250475--10250509 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
10250465 GATTTAGGAT
10250475 TTAAGGGTTAGGGA
1 TTAAGGGTTAGGGA
*
10250489 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGA
10250503 TTAAGGG
1 TTAAGGG
10250510 GTTAATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.46, T:0.29
Consensus pattern (14 bp):
TTAAGGGTTAGGGA
Found at i:10250872 original size:15 final size:14
Alignment explanation
Indices: 10250848--10250915 Score: 55
Period size: 15 Copynumber: 4.7 Consensus size: 14
10250838 TAGGGGGTAT
*
10250848 GGATTTAGGGTTTG
1 GGATTAAGGGTTTG
*
10250862 GGATATAAGGGTTAG
1 GGAT-TAAGGGTTTG
* *
10250877 GGGTTAAGGGTTTA
1 GGATTAAGGGTTTG
* *
10250891 TGATTTAAGGGTTAG
1 GGA-TTAAGGGTTTG
*
10250906 GGGTTAAGGG
1 GGATTAAGGG
10250916 GTTAATGATT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
14 20 0.49
15 21 0.51
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.34
Consensus pattern (14 bp):
GGATTAAGGGTTTG
Found at i:10250899 original size:29 final size:30
Alignment explanation
Indices: 10250867--10250927 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
10250857 GTTTGGGATA
*
10250867 TAAGGGTTAGGGGTTAA-GGGTTTATGATT
1 TAAGGGTTAGGGGTTAAGGGGTTAATGATT
10250896 TAAGGGTTAGGGGTTAAGGGGTTAATGATT
1 TAAGGGTTAGGGGTTAAGGGGTTAATGATT
10250926 TA
1 TA
10250928 GGATTTAGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.36
Consensus pattern (30 bp):
TAAGGGTTAGGGGTTAAGGGGTTAATGATT
Found at i:10250914 original size:14 final size:14
Alignment explanation
Indices: 10250867--10250915 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
10250857 GTTTGGGATA
10250867 TAAGGGTTAGGGGT
1 TAAGGGTTAGGGGT
* **
10250881 TAAGGGTTTATGATT
1 TAAGGG-TTAGGGGT
10250896 TAAGGGTTAGGGGT
1 TAAGGGTTAGGGGT
10250910 TAAGGG
1 TAAGGG
10250916 GTTAATGATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (14 bp):
TAAGGGTTAGGGGT
Found at i:10250917 original size:15 final size:15
Alignment explanation
Indices: 10250870--10250919 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
10250860 TGGGATATAA
10250870 GGGTTAGGGGTTAAG
1 GGGTTAGGGGTTAAG
* * **
10250885 GGTTTATGATTTAA-
1 GGGTTAGGGGTTAAG
10250899 GGGTTAGGGGTTAAG
1 GGGTTAGGGGTTAAG
10250914 GGGTTA
1 GGGTTA
10250920 ATGATTTAGG
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.34
Consensus pattern (15 bp):
GGGTTAGGGGTTAAG
Found at i:10251824 original size:270 final size:270
Alignment explanation
Indices: 10251273--10251954 Score: 857
Period size: 270 Copynumber: 2.5 Consensus size: 270
10251263 TAGTTAAACT
* * * * * *
10251273 TTTAGTGGCGTTTTTTTGAAATCGCCGTAAATATTGGATGCATTAGTGACGTTTTTACAAG-AAA
1 TTTAGTGGCG-TTTTTGGAAAACGCCGAAAAT-TTGGAAGCAATAGTGGCGTTTTTAC-AGTAAA
* * ** * * * * *
10251337 CGCCGCAAAAGTGTCTTAAAATTTTGAGTAAACGACACCGTTTCTCTCCACGATTTTTAACTTAT
63 CGCCGCAAAAGGGTATTAAAATAATGAGTAAACGGCGCCGTTTCTGTACACGATTTTTAACTTAA
* * ** *
10251402 AAAAAGTTTAGAATTATTTACTTAAAACGTCACCGTTTGGCTTAAAGTACGTTAAGTATTAGTGC
128 AAAAATTTTAGAATTATTTACTTAAAACATCACCGTTTGGCTTAAAGTAAATTAAGTATTAATGC
* ** * * * **
10251467 CGTTTTAACATAAAATGCTAGAAATAATGCAATTTGAGAGTAGCAAAACGGCGCCGTTTCTGTTT
193 CATTTTAACATAAAACACTAGAAATAATGCAATTTGAGACTAACAAAACGACGCCGTTTCCCTTT
*
10251532 ACGACTTTAAATA
258 ACAACTTTAAATA
* * * *
10251545 TTT-GTGGCGTTTTTGGCAAAACGCCGGAACTTTGGAAGCAATAGCGGCGTTTGTACAGTAAACG
1 TTTAGTGGCGTTTTTGG-AAAACGCCGAAAATTTGGAAGCAATAGTGGCGTTTTTACAGTAAACG
**
10251609 CCGCAAAAGGGTATTAAAATAATGTCTAAACGGCGCCGTTTCTGTACACGATTTTTAACTTAAAA
65 CCGCAAAAGGGTATTAAAATAATGAGTAAACGGCGCCGTTTCTGTACACGATTTTTAACTTAAAA
* * *
10251674 AAATTTTAGAATTATTTATTTAAAACATCACCGTTTGGGTTAAAGTAAATTAAGTATTAATGGCA
130 AAATTTTAGAATTATTTACTTAAAACATCACCGTTTGGCTTAAAGTAAATTAAGTATTAATGCCA
* *
10251739 TTTTTACATAAAACACTAGAAATAATGCAATTTGAGACTAACAAAACGACGCTGTTTCCCTTTAC
195 TTTTAACATAAAACACTAGAAATAATGCAATTTGAGACTAACAAAACGACGCCGTTTCCCTTTAC
10251804 AACTTT-AATA
260 AACTTTAAATA
*
10251814 TTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTGGAAGCAATAGTGGCGTTTTTACAGTAAACG
1 TTTAGTGGCGTTTTT-GGAAAACGCCGAAAATTTGGAAGCAATAGTGGCGTTTTTACAGTAAACG
* * * * ** * *
10251879 CCGCAAAAGGGTATTAGAGTAATGGGTAAACGGTGCCGTTTCTGTGTACGGTTTTTAACTTAGAA
65 CCGCAAAAGGGTATTAAAATAATGAGTAAACGGCGCCGTTTCTGTACACGATTTTTAACTTAAAA
10251944 AAATTTTAGAA
130 AAATTTTAGAA
10251955 ATCAAGTATT
Statistics
Matches: 353, Mismatches: 53, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
269 9 0.03
270 322 0.91
271 19 0.05
272 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (270 bp):
TTTAGTGGCGTTTTTGGAAAACGCCGAAAATTTGGAAGCAATAGTGGCGTTTTTACAGTAAACGC
CGCAAAAGGGTATTAAAATAATGAGTAAACGGCGCCGTTTCTGTACACGATTTTTAACTTAAAAA
AATTTTAGAATTATTTACTTAAAACATCACCGTTTGGCTTAAAGTAAATTAAGTATTAATGCCAT
TTTAACATAAAACACTAGAAATAATGCAATTTGAGACTAACAAAACGACGCCGTTTCCCTTTACA
ACTTTAAATA
Found at i:10252135 original size:233 final size:233
Alignment explanation
Indices: 10251720--10252187 Score: 695
Period size: 233 Copynumber: 2.0 Consensus size: 233
10251710 GGGTTAAAGT
* * *
10251720 AAATTAAGTATTAATGGCATTTTTACATAAAACACTAGAAATAATGCAATTTGAGACTAACAAAA
1 AAATCAAGTATTAATGGCATTTTTACATAAAACACCAGAAAAAATGCAATTTGAGACTAACAAAA
**
10251785 CGACGCTGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTGG
66 CGACGCTCATTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTGG
* * * * * * **
10251850 AAGCAATAGTGGCGTTTTTACAGTAAACGCCGCAAAAGGGTATTAGAGTAATGGGTAAACGGTGC
131 AAGCAATAGCGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAGTAATGGCTAAACGACGC
* ** *
10251915 CGTTTCTGTGTACGGTTTTTAACTTAGAAAAATTTTAG
196 CGTTTCCGTAAACGATTTTTAACTTAGAAAAATTTTAG
* * * *
10251953 AAATCAAGTATTAGTGGCGTTTTTACGTAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAA
1 AAATCAAGTATTAATGGCATTTTTACATAAAACACCAGAAAAAATGCAATTTGAGACTAACAAAA
*
10252018 CGGCG-TCATTCCTCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTG
66 CGACGCTCATTCC-CTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTG
* * *
10252082 TAAGCAATAGCGGCGTTTGTACCGAAAATGCAGCAAAAGGGTATTAAAGTAATGGCTAAACGACG
130 GAAGCAATAGCGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAGTAATGGCTAAACGACG
10252147 CCGTTTCCGTAAACGATTTTTAACTTAGAAAAATTTTAG
195 CCGTTTCCGTAAACGATTTTTAACTTAGAAAAATTTTAG
10252186 AA
1 AA
10252188 TTATTTATTT
Statistics
Matches: 209, Mismatches: 25, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
232 5 0.02
233 204 0.98
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (233 bp):
AAATCAAGTATTAATGGCATTTTTACATAAAACACCAGAAAAAATGCAATTTGAGACTAACAAAA
CGACGCTCATTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAATGTGG
AAGCAATAGCGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAGTAATGGCTAAACGACGC
CGTTTCCGTAAACGATTTTTAACTTAGAAAAATTTTAG
Found at i:10252422 original size:503 final size:503
Alignment explanation
Indices: 10251455--10252443 Score: 1272
Period size: 503 Copynumber: 2.0 Consensus size: 503
10251445 AAAGTACGTT
* * * * *
10251455 AAGTATTAGTGCCGTTTTAACATAAAATGCTAGAAATAATGCAATTTGAGAGTAGCAAAACGGCG
1 AAGTATTAGTGCCGTTTTAACATAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAACGGCG
* * * * * * *
10251520 CCGTTTCTGTTTACGACTTTAAATATTTGTGGCGTTTTTGGCAAAACGCCGGAACTTTGGAAGCA
66 CCATTCCTCTTTACAACTTTAAATATTTGTGGCGTTTTTGGCAAAACGCCGAAAATGTGGAAGCA
* * * *
10251585 ATAGCGGCGTTTGTACAGTAAACGCCGCAAAAGGGTATTAAAATAATGTCTAAACGGCGCCGTTT
131 ATAGCGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAATAATGGCTAAACGACGCCGTTT
* * **
10251650 CTGTACACGATTTTTAACTTAAAAAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGGGTT
196 CCGTAAACGATTTTTAACTTAAAAAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGACTT
* * * *
10251715 AAAGTAAATTAAGTATTAATGGCATTTTTACATAAAACACTAGAAATAATGCAATTTGAGACTAA
261 AAAGTAAATTAAGTATTAATGGCATTTTTACATAAAACACCACAAAAAATGCAATTTCAGACTAA
*
10251780 CAAAACGACGCTGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAA
326 CAAAACGACGCCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAA
* *
10251845 TGTGGAAGCAATAGTGGCGTTTTTACAGTAAACGCCGCAAAAGGGTATTAGAGTAATGGGTAAAC
391 TGTGGAAGCAATAGTGGCGTTTTTACAGTAAACGCCGCAAAAGGGTATTAGAATAATGGCTAAAC
** ** *
10251910 GGTGCCGTTTCTGTGTACGGTTTTTAACTTAGAAAAATTTTAGAAATC
456 GACGCCGTTTCTCCGGACGGTTTTTAACTTAGAAAAATTTTAGAAATC
* * *
10251958 AAGTATTAGTGGCGTTTTTACGTAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAACGGCG
1 AAGTATTAGTGCCGTTTTAACATAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAACGGCG
* *
10252023 TCATTCCTCTTTACAACTTT-AATATTTAGTGGCGTTTTTAGG-AAAACGCCGAAAATGTGTAAG
66 CCATTCCTCTTTACAACTTTAAATATTT-GTGGCGTTTTT-GGCAAAACGCCGAAAATGTGGAAG
* * *
10252086 CAATAGCGGCGTTTGTACCGAAAATGCAGCAAAAGGGTATTAAAGTAATGGCTAAACGACGCCGT
129 CAATAGCGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAATAATGGCTAAACGACGCCGT
* *
10252151 TTCCGTAAACGATTTTTAACTTAGAAAAATTTTAGAATTATTTATTTAAAACGTCACCGTTTGAC
194 TTCCGTAAACGATTTTTAACTTAAAAAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGAC
* * * * *
10252216 TTAAAGTAAATTAAGTGTTAGTGGCGTTTTTACATTAAACGCCACAAAAAATGCAATTTCAGACT
259 TTAAAGTAAATTAAGTATTAATGGCATTTTTACATAAAACACCACAAAAAATGCAATTTCAGACT
* * *** * * **
10252281 AACAGAACGGCGCCGTTTTTGTTTACAAGTTTAATCTATT-GTGGCGTTTTGTCTGAAAACGCCG
324 AACAAAACGACGCCGTTTCCCTTTACAACTTTAATAT-TTAGTGGCGTTTT-TAGGAAAACGCCG
* * * * * ** *
10252345 GAAATGTGGAA-TAAGTA-TGGCGTTTGTT-CGAG-AATCGCCGCAAATGTGTATTAGAATTTTT
387 AAAATGTGGAAGCAA-TAGTGGCGTTT-TTAC-AGTAAACGCCGCAAAAGGGTATTAGAATAATG
* *
10252406 GCTGAACGACGCCGTTTCTCCGGACGTTTTTTAACTTA
449 GCTAAACGACGCCGTTTCTCCGGACGGTTTTTAACTTA
10252444 TCATTTACTC
Statistics
Matches: 413, Mismatches: 66, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
502 7 0.02
503 375 0.91
504 31 0.08
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (503 bp):
AAGTATTAGTGCCGTTTTAACATAAAACGCCAGAAAAAATGCAATTTGAGACTAACAAAACGGCG
CCATTCCTCTTTACAACTTTAAATATTTGTGGCGTTTTTGGCAAAACGCCGAAAATGTGGAAGCA
ATAGCGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAATAATGGCTAAACGACGCCGTTT
CCGTAAACGATTTTTAACTTAAAAAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGACTT
AAAGTAAATTAAGTATTAATGGCATTTTTACATAAAACACCACAAAAAATGCAATTTCAGACTAA
CAAAACGACGCCGTTTCCCTTTACAACTTTAATATTTAGTGGCGTTTTTAGGAAAACGCCGAAAA
TGTGGAAGCAATAGTGGCGTTTTTACAGTAAACGCCGCAAAAGGGTATTAGAATAATGGCTAAAC
GACGCCGTTTCTCCGGACGGTTTTTAACTTAGAAAAATTTTAGAAATC
Found at i:10252968 original size:60 final size:60
Alignment explanation
Indices: 10252897--10253020 Score: 223
Period size: 60 Copynumber: 2.1 Consensus size: 60
10252887 GTGAATTTTG
* *
10252897 TGAATTTTGGTTACAGTGTGTGAGGGATTTAGGTATAATTTGTTTATTTAGCAGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
10252957 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
10253017 -GAAT
1 TGAAT
10253021 GAATTTTGTG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 4 0.06
60 58 0.94
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (60 bp):
TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
Found at i:10253425 original size:23 final size:23
Alignment explanation
Indices: 10253373--10253425 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
10253363 TTTTTTTTTT
* *
10253373 TTTGCT-TGCATTTCTTTGCTTA
1 TTTGCTCTACATTTCTTCGCTTA
10253395 TCTT-CTCTACATTTCTTCGCTTA
1 T-TTGCTCTACATTTCTTCGCTTA
10253418 TTTGCTCT
1 TTTGCTCT
10253426 TTGTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.09, C:0.25, G:0.09, T:0.57
Consensus pattern (23 bp):
TTTGCTCTACATTTCTTCGCTTA
Found at i:10254197 original size:20 final size:19
Alignment explanation
Indices: 10254172--10254210 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
10254162 ATTGAATAAA
10254172 TTATTATATATTTTCAATAT
1 TTATTATAT-TTTTCAATAT
*
10254192 TTATTATATTTTTTAATAT
1 TTATTATATTTTTCAATAT
10254211 ATTTTTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATATTTTTCAATAT
Found at i:10254271 original size:15 final size:15
Alignment explanation
Indices: 10254233--10254262 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10254223 TAATTTAACT
*
10254233 TATTACTAATATATA
1 TATTATTAATATATA
10254248 TATTATTAATATATA
1 TATTATTAATATATA
10254263 ATTTTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTATTAATATATA
Found at i:10254368 original size:13 final size:13
Alignment explanation
Indices: 10254352--10254450 Score: 83
Period size: 13 Copynumber: 7.5 Consensus size: 13
10254342 TTACTAAAAT
*
10254352 TTACTTTAATATA
1 TTACTTAAATATA
*
10254365 TTACTTGAATATA
1 TTACTTAAATATA
*
10254378 TTACTTAAATAAA
1 TTACTTAAATATA
*
10254391 TTACTTAAATACA
1 TTACTTAAATATA
* *
10254404 TCACTTACTAAAAT-
1 TTACTTA--AATATA
** *
10254418 TTGGTTAAATTTA
1 TTACTTAAATATA
*
10254431 TTACTTAAATACA
1 TTACTTAAATATA
10254444 TTACTTA
1 TTACTTA
10254451 CTAAAATTTA
Statistics
Matches: 67, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
12 3 0.04
13 57 0.85
14 4 0.06
15 3 0.04
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.44
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:10254426 original size:40 final size:40
Alignment explanation
Indices: 10254382--10254459 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
10254372 AATATATTAC
10254382 TTAAATAAATTACTTAAATACATCACTTACTAAAATTTGG
1 TTAAATAAATTACTTAAATACATCACTTACTAAAATTTGG
** *
10254422 TTAAATTTATTACTTAAATACATTACTTACTAAAATTT
1 TTAAATAAATTACTTAAATACATCACTTACTAAAATTT
10254460 AAGTATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.42
Consensus pattern (40 bp):
TTAAATAAATTACTTAAATACATCACTTACTAAAATTTGG
Found at i:10254485 original size:9 final size:9
Alignment explanation
Indices: 10254473--10254718 Score: 149
Period size: 9 Copynumber: 27.9 Consensus size: 9
10254463 TATATATTAT
*
10254473 ATAACTTAA
1 ATAACTTAC
10254482 ATAACTTAC
1 ATAACTTAC
*
10254491 ACAACTTAC
1 ATAACTTAC
10254500 ATAACTTAC
1 ATAACTTAC
10254509 ATAA--TAC
1 ATAACTTAC
*
10254516 ATAACTCT-G
1 ATAACT-TAC
*
10254525 ATAACTAAC
1 ATAACTTAC
*
10254534 ATTA--TAC
1 ATAACTTAC
*
10254541 ACAACTTAC
1 ATAACTTAC
* *
10254550 GTAA--GAC
1 ATAACTTAC
*
10254557 ATTACTTAC
1 ATAACTTAC
10254566 ATAACTTAC
1 ATAACTTAC
10254575 ATTATGCACCCTTTAC
1 A-TA---A--C-TTAC
10254591 ATAACTTAC
1 ATAACTTAC
10254600 ATAACTTAC
1 ATAACTTAC
* *
10254609 ACAGCTTAC
1 ATAACTTAC
*
10254618 AT-TC-TAC
1 ATAACTTAC
*
10254625 ACAACTTAC
1 ATAACTTAC
*
10254634 ATAACATAC
1 ATAACTTAC
* **
10254643 ATTACTTTG
1 ATAACTTAC
10254652 ATAACTTAC
1 ATAACTTAC
10254661 ATAACTTAC
1 ATAACTTAC
10254670 ATAA--TAC
1 ATAACTTAC
*
10254677 ACAACTTAC
1 ATAACTTAC
*
10254686 ATAGCTTAC
1 ATAACTTAC
*
10254695 TTAA--TAC
1 ATAACTTAC
10254702 ATAACTTAC
1 ATAACTTAC
10254711 ATAACTTA
1 ATAACTTA
10254719 TACACGTACN
Statistics
Matches: 178, Mismatches: 38, Indels: 42
0.69 0.15 0.16
Matches are distributed among these distances:
7 31 0.17
8 2 0.01
9 131 0.74
10 4 0.02
12 1 0.01
13 1 0.01
15 3 0.02
16 5 0.03
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:10254625 original size:25 final size:26
Alignment explanation
Indices: 10254597--10254718 Score: 124
Period size: 25 Copynumber: 4.8 Consensus size: 26
10254587 TTACATAACT
* * *
10254597 TACATAACTTACACAGCTTACATT-C
1 TACATAACTTACATAACTTACATTAA
* * *
10254622 TACACAACTTACATAACATACATTACT
1 TACATAACTTACATAACTTACATTA-A
**
10254649 TTGATAACTTACATAACTTACA-TAA
1 TACATAACTTACATAACTTACATTAA
* *
10254674 TACACAACTTACATAGCTTAC-TTAA
1 TACATAACTTACATAACTTACATTAA
10254699 TACATAACTTACATAACTTA
1 TACATAACTTACATAACTTA
10254719 TACACGTACN
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
25 58 0.74
26 2 0.03
27 18 0.23
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (26 bp):
TACATAACTTACATAACTTACATTAA
Found at i:10254644 original size:52 final size:52
Alignment explanation
Indices: 10254588--10254718 Score: 149
Period size: 52 Copynumber: 2.6 Consensus size: 52
10254578 ATGCACCCTT
* **
10254588 TACATAACTTACATAACTTACACAGCTTACATTCTACACAACTTACATAACA
1 TACATAACTTACATAACTTACACAACTTACATAATACACAACTTACATAACA
* ** * * *
10254640 TACATTACTTTGATAACTTACATAACTTACATAATACACAACTTACATAGCT
1 TACATAACTTACATAACTTACACAACTTACATAATACACAACTTACATAACA
* *
10254692 TACTTAA--TACATAACTTACATAACTTA
1 TACATAACTTACATAACTTACACAACTTA
10254719 TACACGTACN
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
50 18 0.27
52 48 0.73
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (52 bp):
TACATAACTTACATAACTTACACAACTTACATAATACACAACTTACATAACA
Found at i:10254717 original size:34 final size:34
Alignment explanation
Indices: 10254587--10254718 Score: 92
Period size: 34 Copynumber: 3.8 Consensus size: 34
10254577 TATGCACCCT
* * *
10254587 TTACATAACTTACATAACTTACACAGCTTACAT-TC
1 TTACATAAC-TACATAAC-TACATAACTTACATAAC
* * **
10254622 -TACACAACTTACATAACATACATTACTTTGATAAC
1 TTACATAAC-TACATAAC-TACATAACTTACATAAC
* *
10254657 TTACATAACTTACATAA-TACACAACTTACATAGC
1 TTACATAAC-TACATAACTACATAACTTACATAAC
*
10254691 TTACTTAA-TACATAACTTACATAACTTA
1 TTACATAACTACATAAC-TACATAACTTA
10254719 TACACGTACN
Statistics
Matches: 77, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
32 7 0.09
34 54 0.70
35 1 0.01
36 15 0.19
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (34 bp):
TTACATAACTACATAACTACATAACTTACATAAC
Found at i:10260377 original size:114 final size:114
Alignment explanation
Indices: 10260255--10260752 Score: 737
Period size: 114 Copynumber: 4.4 Consensus size: 114
10260245 TATTTGCAAG
* * *
10260255 CGCCGCAAAATATCTTAACCAAAACGCATCGTTAGGTCTTGAGGTATATTAGAAGTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * *
10260320 TATGCAAAAATGCCGCTAAAGCACAGTATTAGGGGCGCATTGTAAAAAA
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
*
10260369 CGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
*
10260434 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAG
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* *
10260483 CGCCACAAAATATCTTAATCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * * *
10260548 TATGGAAAAACACCGCTAAAGCACAGTATTAGCAGCGCATTATACAAAA
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* * *
10260597 CACCGTAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * * * * * *
10260662 TATGAAAAAATGCCGCTAAATCACAGTATTAGCGGCGCTTTGTGAAAAG
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* * *
10260711 CGTCGCAAAATATCTTAACCAAAAC-AAAGTGTTTGGTCTTGA
1 CGCCGCAAAATATCTTAACCAAAACGCAA-CGTTTGGTCTTGA
10260753 TTTATAGAGC
Statistics
Matches: 346, Mismatches: 37, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
113 1 0.00
114 345 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (114 bp):
CGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
Found at i:10261250 original size:7 final size:7
Alignment explanation
Indices: 10261240--10261314 Score: 64
Period size: 7 Copynumber: 11.0 Consensus size: 7
10261230 AGAGTTTTGA
10261240 GTTTAGG
1 GTTTAGG
*
10261247 GTTTATG
1 GTTTAGG
* *
10261254 ATGTA-G
1 GTTTAGG
10261260 GTTTA-G
1 GTTTAGG
*
10261266 GTTTGGG
1 GTTTAGG
*
10261273 GTTTAAG
1 GTTTAGG
*
10261280 GTTTGGG
1 GTTTAGG
*
10261287 GTTTAAG
1 GTTTAGG
*
10261294 GTTTGGG
1 GTTTAGG
10261301 GTTTAGG
1 GTTTAGG
10261308 GTTTAGG
1 GTTTAGG
10261315 CCGCTTTAGT
Statistics
Matches: 52, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
6 9 0.17
7 43 0.83
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:10261283 original size:14 final size:14
Alignment explanation
Indices: 10261259--10261311 Score: 90
Period size: 14 Copynumber: 3.9 Consensus size: 14
10261249 TTATGATGTA
10261259 GGTTT-AGGTTTGG
1 GGTTTAAGGTTTGG
10261272 GGTTTAAGGTTTGG
1 GGTTTAAGGTTTGG
10261286 GGTTTAAGGTTTGG
1 GGTTTAAGGTTTGG
*
10261300 GGTTTAGGGTTT
1 GGTTTAAGGTTT
10261312 AGGCCGCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
13 5 0.13
14 33 0.87
ACGTcount: A:0.11, C:0.00, G:0.43, T:0.45
Consensus pattern (14 bp):
GGTTTAAGGTTTGG
Found at i:10261904 original size:85 final size:83
Alignment explanation
Indices: 10261775--10261968 Score: 201
Period size: 85 Copynumber: 2.3 Consensus size: 83
10261765 GGAGTTGCTA
* * * * * * *** ***
10261775 AAAGAATATGAGCTTTAGCGGCGTTTGTTGGTATGCGTCGCTAAAGGTCATGTTCTTTAGCGGCG
1 AAAGAACATGACCTTTAGCGGCGTTTGCTGGAAAGCGCCGCTAAAAAACATAACCTTTAGCGGCG
**
10261840 TTTGTCGTAGAATTGCCGCT
66 TTT-T-GTAGAAGCGCCGCT
*
10261860 AAAGAACATTACCTTTAGCGGCGTTT-CTGAGAAAGCGCCGCTAAAAAACATAACCTTTAGCGGC
1 AAAGAACATGACCTTTAGCGGCGTTTGCTG-GAAAGCGCCGCTAAAAAACATAACCTTTAGCGGC
* *
10261924 GTTTTTTTGAAGCGCCGCT
65 GTTTTGTAGAAGCGCCGCT
10261943 AAAGAACATGACCTTTAGCGGCGTTT
1 AAAGAACATGACCTTTAGCGGCGTTT
10261969 ATTTCTGTAA
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
83 35 0.39
84 3 0.03
85 52 0.58
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (83 bp):
AAAGAACATGACCTTTAGCGGCGTTTGCTGGAAAGCGCCGCTAAAAAACATAACCTTTAGCGGCG
TTTTGTAGAAGCGCCGCT
Found at i:10261910 original size:42 final size:41
Alignment explanation
Indices: 10261829--10261968 Score: 172
Period size: 41 Copynumber: 3.3 Consensus size: 41
10261819 AGGTCATGTT
* ** *
10261829 CTTTAGCGGCGTTTGTCGTAGAATTGCCGCTAAAGAACATTAC
1 CTTTAGCGGCGTTTCT-G-AGAAGCGCCGCTAAAGAACATAAC
*
10261872 CTTTAGCGGCGTTTCTGAGAAAGCGCCGCTAAAAAACATAAC
1 CTTTAGCGGCGTTTCTGAG-AAGCGCCGCTAAAGAACATAAC
* ** *
10261914 CTTTAGCGGCGTTTTTTTGAAGCGCCGCTAAAGAACATGAC
1 CTTTAGCGGCGTTTCTGAGAAGCGCCGCTAAAGAACATAAC
10261955 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
10261969 ATTTCTGTAA
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
41 36 0.42
42 35 0.41
43 15 0.17
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTCTGAGAAGCGCCGCTAAAGAACATAAC
Found at i:10264801 original size:25 final size:24
Alignment explanation
Indices: 10264773--10264837 Score: 58
Period size: 25 Copynumber: 2.6 Consensus size: 24
10264763 TACTAAATAA
* * *
10264773 TTAATTAAATTATATAGTATTTATT
1 TTAATTAAATTATATA-AATTAAAT
* *
10264798 TTAAATAACTTATACTAAATTAAAT
1 TTAATTAAATTATA-TAAATTAAAT
*
10264823 TAAATTAAATTATAT
1 TTAATTAAATTATAT
10264838 TTTTTATTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
24 1 0.03
25 28 0.90
26 2 0.06
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (24 bp):
TTAATTAAATTATATAAATTAAAT
Found at i:10265332 original size:3 final size:3
Alignment explanation
Indices: 10265326--10265380 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
10265316 AAGAAGAGCT
10265326 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10265374 ATA ATA A
1 ATA ATA A
10265381 GTAACAAGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10273823 original size:24 final size:25
Alignment explanation
Indices: 10273783--10273837 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
10273773 GTTAGATGAC
*
10273783 TAAAATAATTAAGAATT-AATTAAA
1 TAAAATAATTAAAAATTAAATTAAA
10273807 TAAAAT-ATTAAAAAATTAGAATTAAA
1 TAAAATAATT-AAAAATTA-AATTAAA
10273833 -AAAAT
1 TAAAAT
10273838 TAGGTTAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 3 0.11
24 12 0.44
25 5 0.19
26 7 0.26
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (25 bp):
TAAAATAATTAAAAATTAAATTAAA
Found at i:10275296 original size:23 final size:22
Alignment explanation
Indices: 10275262--10275354 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 22
10275252 TATGTTGAAA
10275262 GGTATATTGGTTGTGTTTGGAG
1 GGTATATTGGTTGTGTTTGGAG
*
10275284 GGTATACTTGGTTGTGTTCGGAG
1 GGTATA-TTGGTTGTGTTTGGAG
10275307 GGTGAT-TATGGTTGTGTTTGGAG
1 GGT-ATAT-TGGTTGTGTTTGGAG
* *
10275330 GGTAGATTGGTTGTGTTTGGTG
1 GGTATATTGGTTGTGTTTGGAG
10275352 GGT
1 GGT
10275355 GATAGCTTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
22 25 0.40
23 36 0.57
24 2 0.03
ACGTcount: A:0.12, C:0.02, G:0.43, T:0.43
Consensus pattern (22 bp):
GGTATATTGGTTGTGTTTGGAG
Found at i:10275355 original size:45 final size:46
Alignment explanation
Indices: 10275269--10275357 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 46
10275259 AAAGGTATAT
*
10275269 TGGTTGTGTTTGGAGGGTATACTTGGTTGTGTTCGGAGGGTGATTA
1 TGGTTGTGTTTGGAGGGTAGACTTGGTTGTGTTCGGAGGGTGATTA
* *
10275315 TGGTTGTGTTTGGAGGGTAGA-TTGGTTGTGTTTGGTGGGTGAT
1 TGGTTGTGTTTGGAGGGTAGACTTGGTTGTGTTCGGAGGGTGAT
10275358 AGCTTTGTGC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 20 0.50
46 20 0.50
ACGTcount: A:0.11, C:0.02, G:0.44, T:0.43
Consensus pattern (46 bp):
TGGTTGTGTTTGGAGGGTAGACTTGGTTGTGTTCGGAGGGTGATTA
Found at i:10276292 original size:95 final size:96
Alignment explanation
Indices: 10276119--10276309 Score: 375
Period size: 95 Copynumber: 2.0 Consensus size: 96
10276109 CAGATATAGC
10276119 ATACTTGTATCAAATATGTCATATTAGTTCCATTTTATACTTATAACCAATTTAAACATCATTCT
1 ATACTTGTATCAAATATGTCATATTAGTTCCATTTTATACTTATAACCAATTTAAACATCATTCT
10276184 GCAATAGTAATAACAAAACTTTTATTCTTAA
66 GCAATAGTAATAACAAAACTTTTATTCTTAA
10276215 ATACTTGTA-CAAATATGTCATATTAGTTCCATTTTATACTTATAACCAATTTAAACATCATTCT
1 ATACTTGTATCAAATATGTCATATTAGTTCCATTTTATACTTATAACCAATTTAAACATCATTCT
10276279 GCAATAGTAATAACAAAACTTTTATTCTTAA
66 GCAATAGTAATAACAAAACTTTTATTCTTAA
10276310 CCTATACATC
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 86 0.91
96 9 0.09
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (96 bp):
ATACTTGTATCAAATATGTCATATTAGTTCCATTTTATACTTATAACCAATTTAAACATCATTCT
GCAATAGTAATAACAAAACTTTTATTCTTAA
Found at i:10278141 original size:26 final size:27
Alignment explanation
Indices: 10278096--10278147 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
10278086 AAATCCCAAA
*
10278096 TTTTCTTCCTTTGCTTCCCT-TTTTCT
1 TTTTCTTCCTTTGCTCCCCTGTTTTCT
10278122 TTTTCTTTCCTTT-CTCCCCTGTTTTC
1 TTTTC-TTCCTTTGCTCCCCTGTTTTC
10278148 GTTTGCCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.00, C:0.33, G:0.04, T:0.63
Consensus pattern (27 bp):
TTTTCTTCCTTTGCTCCCCTGTTTTCT
Found at i:10278374 original size:14 final size:13
Alignment explanation
Indices: 10278350--10278392 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
10278340 GTTTATTTGA
10278350 AATATATTAATAT
1 AATATATTAATAT
10278363 AATATAATTAATAT
1 AATAT-ATTAATAT
* *
10278377 AATTTA-CAATAT
1 AATATATTAATAT
10278389 AATA
1 AATA
10278393 AAATAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 8 0.31
13 6 0.23
14 12 0.46
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (13 bp):
AATATATTAATAT
Found at i:10290603 original size:25 final size:24
Alignment explanation
Indices: 10290511--10290603 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 24
10290501 AGGATTATCT
*
10290511 ATTCTCAGCTTGTATGAGCTTACCG
1 ATTCTCAGCTCGTA-GAGCTTACCG
* *
10290536 ATT-GCAACTCGTAAGAGCTTACCG
1 ATTCTCAGCTCGT-AGAGCTTACCG
*
10290560 ATTCTCAGCTCATATGAGCTTACC-
1 ATTCTCAGCTCGTA-GAGCTTACCG
*
10290584 ATTTTACAGCTCGTGAGAGC
1 ATTCT-CAGCTCGT-AGAGC
10290604 ATACTAATTC
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
24 24 0.44
25 30 0.55
26 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (24 bp):
ATTCTCAGCTCGTAGAGCTTACCG
Found at i:10293429 original size:24 final size:26
Alignment explanation
Indices: 10293391--10293444 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 26
10293381 TTATTAAAAA
10293391 TAAAAATATGAATA-TAAAAATT-AT
1 TAAAAATATGAATATTAAAAATTAAT
10293415 TAAAAATAT-ATATATTTAAAAATTAAT
1 TAAAAATATGA-ATA-TTAAAAATTAAT
10293442 TAA
1 TAA
10293445 TTGCTAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.04
24 12 0.46
26 8 0.31
27 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (26 bp):
TAAAAATATGAATATTAAAAATTAAT
Found at i:10293694 original size:4 final size:4
Alignment explanation
Indices: 10293687--10293711 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
10293677 AAAAAAAAAA
10293687 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
10293712 TCAAATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:10294331 original size:23 final size:23
Alignment explanation
Indices: 10294270--10294329 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 23
10294260 ACTTGCAATT
* * *
10294270 TTAAATT-TGAAATATAAATAAA
1 TTAAATTCTAAAATAAAAAAAAA
10294292 TTAAATTCTTTAAAATAAAAAAAATA
1 TTAAATTC--TAAAATAAAAAAAA-A
10294318 TTAAATTCTAAA
1 TTAAATTCTAAA
10294330 TATGCAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 7 0.23
24 4 0.13
25 11 0.35
26 9 0.29
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (23 bp):
TTAAATTCTAAAATAAAAAAAAA
Found at i:10296709 original size:4 final size:4
Alignment explanation
Indices: 10296700--10296782 Score: 84
Period size: 4 Copynumber: 21.0 Consensus size: 4
10296690 AGTCTTTCTC
*
10296700 CTTT CTTT CTTT CTTT CTTT CTTT CCCTT -TTT C-TT -TTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT
* *
10296746 C-TT CTTT CTGTTT CTAT CTTT CTTT CTTT ATTT CTTT
1 CTTT CTTT C--TTT CTTT CTTT CTTT CTTT CTTT CTTT
10296783 TTATTACTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
3 9 0.14
4 50 0.76
5 3 0.05
6 4 0.06
ACGTcount: A:0.02, C:0.24, G:0.01, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:10296738 original size:22 final size:22
Alignment explanation
Indices: 10296700--10296774 Score: 77
Period size: 21 Copynumber: 3.5 Consensus size: 22
10296690 AGTCTTTCTC
*
10296700 CTTTCTTTCTTTC--TTTCTTT
1 CTTTCCTTCTTTCTGTTTCTTT
*
10296720 CTTTCCCTT-TTTCTTTTTCTTT
1 CTTT-CCTTCTTTCTGTTTCTTT
*
10296742 CTTT-CTTCTTTCTGTTTCTAT
1 CTTTCCTTCTTTCTGTTTCTTT
*
10296763 CTTTCTTTCTTT
1 CTTTCCTTCTTT
10296775 ATTTCTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 11 0.24
21 18 0.39
22 17 0.37
ACGTcount: A:0.01, C:0.25, G:0.01, T:0.72
Consensus pattern (22 bp):
CTTTCCTTCTTTCTGTTTCTTT
Found at i:10298643 original size:39 final size:39
Alignment explanation
Indices: 10298590--10298704 Score: 167
Period size: 39 Copynumber: 2.9 Consensus size: 39
10298580 AATACACCAG
* * *
10298590 CACATAGCTTGCTAGGCACATAGCCTGAATAATCGCCGA
1 CACAAAGCTTGCTAGGCACATAGCCCGAATAATCACCGA
* *
10298629 CATAAAGCTTGCTAGGCACATAGCCCGAATAATCACCGG
1 CACAAAGCTTGCTAGGCACATAGCCCGAATAATCACCGA
* *
10298668 CACAAAGCCTACTAGGCACATAGCCCGAATAATCACC
1 CACAAAGCTTGCTAGGCACATAGCCCGAATAATCACC
10298705 ATATTTCTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.17
Consensus pattern (39 bp):
CACAAAGCTTGCTAGGCACATAGCCCGAATAATCACCGA
Found at i:10300353 original size:46 final size:46
Alignment explanation
Indices: 10300278--10300366 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
10300268 CCCTGAGAGA
* * * *
10300278 ATTCACTATTTTAGTACCTCATACCACAAGTGTATTCAAGCTCAAT
1 ATTCACTATCTTAATACCTCATACAACAAGTGTATCCAAGCTCAAT
* *
10300324 ATTCATTATCTTAATACCTCGTACAACAAGTGTATCCAAGCTC
1 ATTCACTATCTTAATACCTCATACAACAAGTGTATCCAAGCTC
10300367 TAACACTCAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.34
Consensus pattern (46 bp):
ATTCACTATCTTAATACCTCATACAACAAGTGTATCCAAGCTCAAT
Found at i:10304847 original size:204 final size:204
Alignment explanation
Indices: 10304490--10304899 Score: 784
Period size: 204 Copynumber: 2.0 Consensus size: 204
10304480 AATCAAAGTT
10304490 TTAGTTTGTGTGGCAATTATTGTTCATCGGTTGAAGGTAAGGTTTAGTCGCTTATGGGTTAAAAT
1 TTAGTTTGTGTGGCAATTATTGTTCATCGGTTGAAGGTAAGGTTTAGTCGCTTATGGGTTAAAAT
* *
10304555 CTCGATATGAGTTAGATTTGGGATCACTTTATGTGAGATTAAAATAGTGTTATTTGTTCAATTAT
66 CTCGATACGAGTTAGATTTGGGATCACTTTATGTAAGATTAAAATAGTGTTATTTGTTCAATTAT
* *
10304620 AGGCTTTGGAGTGCCCTGGGATTATTTTAGCATCAAACAAAACCAGGTGTGTACCAGAAATGCAG
131 AGGCTTTGGAGTGCCCGGGGATTATTTTAGCATCAAACAAAACCAGGTGTGTACCAGAAACGCAG
10304685 AAAATGGGA
196 AAAATGGGA
10304694 TTAGTTTGTGTGGCAATTATTGTTCATCGGTTGAAGGTAAGGTTTAGTCGCTTATGGGTTAAAAT
1 TTAGTTTGTGTGGCAATTATTGTTCATCGGTTGAAGGTAAGGTTTAGTCGCTTATGGGTTAAAAT
10304759 CTCGATACGAGTTAGATTTGGGATCACTTTATGTAAGATTAAAATAGTGTTATTTGTTCAATTAT
66 CTCGATACGAGTTAGATTTGGGATCACTTTATGTAAGATTAAAATAGTGTTATTTGTTCAATTAT
10304824 AGGCTTTGGAGTGCCCGGGGATTATTTTAGCATCAAACAAAACCAGGTGTGTACCAGAAACGCAG
131 AGGCTTTGGAGTGCCCGGGGATTATTTTAGCATCAAACAAAACCAGGTGTGTACCAGAAACGCAG
10304889 AAAATGGGA
196 AAAATGGGA
10304898 TT
1 TT
10304900 CGGCGAAAAG
Statistics
Matches: 202, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
204 202 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (204 bp):
TTAGTTTGTGTGGCAATTATTGTTCATCGGTTGAAGGTAAGGTTTAGTCGCTTATGGGTTAAAAT
CTCGATACGAGTTAGATTTGGGATCACTTTATGTAAGATTAAAATAGTGTTATTTGTTCAATTAT
AGGCTTTGGAGTGCCCGGGGATTATTTTAGCATCAAACAAAACCAGGTGTGTACCAGAAACGCAG
AAAATGGGA
Found at i:10317343 original size:23 final size:23
Alignment explanation
Indices: 10317313--10317357 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
10317303 ATAAAGACAT
10317313 GTGGCAAATAATTATCGTGCCAG
1 GTGGCAAATAATTATCGTGCCAG
*
10317336 GTGGCAAATAATTATTGTGCCA
1 GTGGCAAATAATTATCGTGCCA
10317358 AATGGAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (23 bp):
GTGGCAAATAATTATCGTGCCAG
Found at i:10321278 original size:29 final size:29
Alignment explanation
Indices: 10321244--10321302 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
10321234 ACTCTGAAAA
10321244 TATCCTTATTTAATATTTACGAGCTCAGT
1 TATCCTTATTTAATATTTACGAGCTCAGT
*
10321273 TATCCTTATTTAATATTTACGGGCTCAGT
1 TATCCTTATTTAATATTTACGAGCTCAGT
10321302 T
1 T
10321303 TACAAAAACG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (29 bp):
TATCCTTATTTAATATTTACGAGCTCAGT
Found at i:10321410 original size:14 final size:15
Alignment explanation
Indices: 10321394--10321426 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
10321384 GAGGAGGTAT
10321394 TATAAATATTTTATTA
1 TATAAATATTTTA-TA
10321410 TATAAATATTTTATA
1 TATAAATATTTTATA
10321425 TA
1 TA
10321427 CTTTATAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATAAATATTTTATA
Found at i:10323931 original size:16 final size:16
Alignment explanation
Indices: 10323912--10323944 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10323902 GTTCTTTTTC
10323912 ATTGTCTGATGGCTGA
1 ATTGTCTGATGGCTGA
10323928 ATTGTCTGATGGCTGA
1 ATTGTCTGATGGCTGA
10323944 A
1 A
10323945 GGCACAAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.30, T:0.36
Consensus pattern (16 bp):
ATTGTCTGATGGCTGA
Found at i:10331723 original size:20 final size:20
Alignment explanation
Indices: 10331685--10331724 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10331675 CCTTAAATTG
* *
10331685 TTTTATTTATAAGATTATTA
1 TTTTATTTATAAAACTATTA
10331705 TTTTATTTATAAAACTATTA
1 TTTTATTTATAAAACTATTA
10331725 CATTAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTATTTATAAAACTATTA
Found at i:10333420 original size:23 final size:23
Alignment explanation
Indices: 10333374--10333420 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
10333364 GAAAATGAAT
*
10333374 AATTTAAAAAATAAAGAGATTAA
1 AATTTAAAAAATAAAGAGACTAA
*
10333397 AATTTAACAAATAAA-ATGACTAA
1 AATTTAAAAAATAAAGA-GACTAA
10333420 A
1 A
10333421 TCCAAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (23 bp):
AATTTAAAAAATAAAGAGACTAA
Found at i:10336246 original size:9 final size:9
Alignment explanation
Indices: 10336232--10336268 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
10336222 TATAGTTTGA
10336232 TATTCGAAT
1 TATTCGAAT
*
10336241 TATTCGAGT
1 TATTCGAAT
*
10336250 TATTCGAGT
1 TATTCGAAT
10336259 TATTCGAAT
1 TATTCGAAT
10336268 T
1 T
10336269 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10350061 original size:21 final size:22
Alignment explanation
Indices: 10350030--10350086 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
10350020 TTTTAAAAAA
* *
10350030 TTAAAGAAATATAT-CAATATAT
1 TTAAA-AAATATATAAAATAAAT
10350052 TTAAAAAATATATAAAAATAAAT
1 TTAAAAAATATAT-AAAATAAAT
10350075 TTAAAAAATATA
1 TTAAAAAATATA
10350087 ATAACAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 8 0.26
22 5 0.16
23 18 0.58
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TTAAAAAATATATAAAATAAAT
Found at i:10350063 original size:13 final size:13
Alignment explanation
Indices: 10350045--10350086 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
10350035 GAAATATATC
10350045 AATATATTTAAAA
1 AATATATTTAAAA
10350058 AATATA--T-AAA
1 AATATATTTAAAA
*
10350068 AATAAATTTAAAA
1 AATATATTTAAAA
10350081 AATATA
1 AATATA
10350087 ATAACAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 8 0.33
11 1 0.04
12 1 0.04
13 14 0.58
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATATATTTAAAA
Found at i:10350071 original size:23 final size:25
Alignment explanation
Indices: 10350045--10350106 Score: 85
Period size: 23 Copynumber: 2.6 Consensus size: 25
10350035 GAAATATATC
10350045 AATATATTTAAAAAATAT-ATAA-A
1 AATATATTTAAAAAATATAATAACA
*
10350068 AATAAATTTAAAAAATATAATAACA
1 AATATATTTAAAAAATATAATAACA
*
10350093 AATAT-TATAAAAAA
1 AATATATTTAAAAAA
10350107 AAGTATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.50
24 12 0.35
25 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
AATATATTTAAAAAATATAATAACA
Found at i:10350087 original size:21 final size:21
Alignment explanation
Indices: 10350030--10350105 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 21
10350020 TTTTAAAAAA
** *
10350030 TTAAAGAAATATATCAATATAT
1 TTAAA-AAATATAAAAATAAAT
10350052 TTAAAAAATATATAAAAATAAAT
1 TT-AAAAA-ATATAAAAATAAAT
* *
10350075 TTAAAAAATATAATAACAAAT
1 TTAAAAAATATAAAAATAAAT
10350096 ATTATAAAAA
1 -TTA-AAAAA
10350106 AAAGTATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 12 0.27
22 12 0.27
23 21 0.47
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (21 bp):
TTAAAAAATATAAAAATAAAT
Found at i:10351482 original size:18 final size:19
Alignment explanation
Indices: 10351454--10351492 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
10351444 TTTTTAAAAT
10351454 TTTTTATTTTGTAAA-TAAA
1 TTTTTATTTTG-AAATTAAA
10351473 TTTTTA-TTTGAAATTAAA
1 TTTTTATTTTGAAATTAAA
10351491 TT
1 TT
10351493 ATAATTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 10 0.53
19 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTATTTTGAAATTAAA
Found at i:10358223 original size:31 final size:30
Alignment explanation
Indices: 10358160--10358237 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
10358150 TAATTTTTAA
* * *
10358160 TAAATTATATTTTTATAAATTTTAAAGAAT
1 TAAATTAAAATTTTATTAATTTTAAAGAAT
* *
10358190 TAAATTAAAATTTTATTATTTTTAAGGAGAT
1 TAAATTAAAATTTTATTAATTTTAAAGA-AT
* *
10358221 TAAAATAAAAATTTATT
1 TAAATTAAAATTTTATT
10358238 TTTACTAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 23 0.57
31 17 0.43
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (30 bp):
TAAATTAAAATTTTATTAATTTTAAAGAAT
Found at i:10359124 original size:3 final size:3
Alignment explanation
Indices: 10359116--10359153 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10359106 TTAGCCCCTC
10359116 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10359154 ATCTCAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10359628 original size:9 final size:8
Alignment explanation
Indices: 10359612--10359645 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
10359602 CATTTAGACC
10359612 ATTTTAAA
1 ATTTTAAA
10359620 ATTTATAAA
1 ATTT-TAAA
10359629 ATTTATAAA
1 ATTT-TAAA
10359638 ATTTTAAA
1 ATTTTAAA
10359646 TTAGTAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTTTAAA
Found at i:10364408 original size:14 final size:14
Alignment explanation
Indices: 10364389--10364421 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
10364379 AAGCCCAAAA
10364389 CCAAATTCAGTGGC
1 CCAAATTCAGTGGC
10364403 CCAAATTCAGTGGC
1 CCAAATTCAGTGGC
10364417 CCAAA
1 CCAAA
10364422 CCAAACATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (14 bp):
CCAAATTCAGTGGC
Found at i:10374381 original size:30 final size:31
Alignment explanation
Indices: 10374336--10374395 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
10374326 GGAGGTGGGA
*
10374336 TGGGAAGGGAATAAAAGTTTTAAGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAAGGGAAAAG
* **
10374367 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAAGGGAAAA
10374396 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAAGGGAAAAG
Found at i:10374586 original size:14 final size:14
Alignment explanation
Indices: 10374567--10374599 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
10374557 AAGCCCAAAA
10374567 CCAAATTCAGTGGC
1 CCAAATTCAGTGGC
10374581 CCAAATTCAGTGGC
1 CCAAATTCAGTGGC
10374595 CCAAA
1 CCAAA
10374600 CCAAACATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (14 bp):
CCAAATTCAGTGGC
Found at i:10376166 original size:9 final size:9
Alignment explanation
Indices: 10376154--10376178 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10376144 GATGATGTAT
10376154 TTATTATTG
1 TTATTATTG
10376163 TTATTATTG
1 TTATTATTG
10376172 TTATTAT
1 TTATTAT
10376179 AGCATTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:10387881 original size:44 final size:43
Alignment explanation
Indices: 10387671--10387881 Score: 101
Period size: 44 Copynumber: 4.8 Consensus size: 43
10387661 ACACCAAGCT
* * * * * *
10387671 TTGTCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATA
1 TTGTCTCCCTAAGCAGTAGTGGAGCA-GATGAAGATCATAGATC
***
10387715 TTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGGCGAATC
1 TTGTCTCCCTAAGCAGTAGTGGAGCAGAT-GAAGATCATAG-ATC
* * * * *
10387759 TTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCA-AG-CC
1 TTGTC-TCCCTAAGCAGTAGT-GG-AGCAGA-TGAAG--ATCATAGATC
* * * * * *
10387803 TTATCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATC
1 TTGTCTCCCTAAGCAGTAGTGGAGCA-GATGAAGATCATAGATC
10387847 TTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 TTGTCTCCCTAAGCAGTAGTGGAGCAGAT-GAAGA
10387882 CGGTGAATCT
Statistics
Matches: 122, Mismatches: 29, Indels: 32
0.67 0.16 0.17
Matches are distributed among these distances:
42 6 0.05
43 13 0.11
44 89 0.73
45 8 0.07
46 5 0.04
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (43 bp):
TTGTCTCCCTAAGCAGTAGTGGAGCAGATGAAGATCATAGATC
Found at i:10387899 original size:132 final size:132
Alignment explanation
Indices: 10387662--10388028 Score: 583
Period size: 132 Copynumber: 2.8 Consensus size: 132
10387652 ACTGGTGAAA
* *
10387662 CACCAAGCTTTGTCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATATTGTCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTGTCTCCCTAA
*
10387727 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA-
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTAGGAAGCAGA-TTAG
10387791 AGC
130 AGC
*
10387794 CACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTGTCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTGTCTCCCTAA
*
10387859 GCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTAGGAAGCAGATTAGA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTAGGAAGCAGATTAGA
10387924 GC
131 GC
* * * *** * *
10387926 CACCAAGCCTTGTCTCTCTGAGTAGCAGCGGAGAAAATTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTGTCTCCCTAA
* *
10387991 GCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCT
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
10388029 CCCTGAAGTT
Statistics
Matches: 217, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
131 3 0.01
132 214 0.99
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTGTCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTAGGAAGCAGATTAGA
GC
Found at i:10388024 original size:44 final size:44
Alignment explanation
Indices: 10387718--10388032 Score: 124
Period size: 44 Copynumber: 7.2 Consensus size: 44
10387708 ATAGATATTG
*
10387718 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
* ** * ** **
10387762 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAGCCTTA
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCAAATCTTA
* * * * **** * *
10387806 TCTCCCTGAGCAGCAGTGGAGAAGGGT-GAAGATTATAGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGACGGCAAATCTTA
**
10387850 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
* * * ** ** *
10387894 TCTTTCC-AAG-A-TAGTAGGAAGCAGAT-TAGAGCCACCAAGCCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATCGA-AGACGGCAAATCTTA
* * * * * * * * ** * *
10387938 TCTCTCTGAGTAGCAGCGGAGAAAATTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
*
10387982 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
10388026 TCTCCCT
1 TCTCCCT
10388033 GAAGTTGCAG
Statistics
Matches: 183, Mismatches: 72, Indels: 32
0.64 0.25 0.11
Matches are distributed among these distances:
42 8 0.04
43 14 0.08
44 141 0.77
45 15 0.08
46 5 0.03
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
Found at i:10388072 original size:44 final size:43
Alignment explanation
Indices: 10388019--10388130 Score: 145
Period size: 44 Copynumber: 2.6 Consensus size: 43
10388009 GAAGATGGCA
*
10388019 AATCTTATCTCCCTGAAGTTGCAGT-GGAGGAGATTAAAGCCGAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGGAGG-GATTAAAACC-AC
* * *
10388063 AATCCTATCTCCCTGAAGTTGCAGTGGGATGGATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGGAGGGATTAAAACCAC
*
10388106 AGATCTTATCTCTCTGAAGTTGCAG
1 A-ATCTTATCTCCCTGAAGTTGCAG
10388131 AGAGCAGAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
43 3 0.05
44 53 0.88
45 4 0.07
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGGAGGGATTAAAACCAC
Found at i:10390852 original size:9 final size:9
Alignment explanation
Indices: 10390838--10390874 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10390828 TATAGTTTGA
10390838 TATTCGAAT
1 TATTCGAAT
10390847 TATTCGAAT
1 TATTCGAAT
*
10390856 TATTCGAGT
1 TATTCGAAT
10390865 TATTCGAAT
1 TATTCGAAT
10390874 T
1 T
10390875 GGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10396417 original size:18 final size:18
Alignment explanation
Indices: 10396394--10396432 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
10396384 AAAACAACAA
10396394 AATAAAAATACTAATAAT
1 AATAAAAATACTAATAAT
*
10396412 AATAAAAATAGTAATAAT
1 AATAAAAATACTAATAAT
10396430 AAT
1 AAT
10396433 TATAATAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
AATAAAAATACTAATAAT
Done.