Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 169 of 410
Found at i:51665903 original size:20 final size:20
Alignment explanation
Indices: 51665875--51665915 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
51665865 ATCCCCTATA
* *
51665875 TTTTGAAAAATTTTCTAAGT
1 TTTTCAAAAATTTCCTAAGT
51665895 TTTTCAAAAATTTCCTAAGT
1 TTTTCAAAAATTTCCTAAGT
51665915 T
1 T
51665916 ATCAGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (20 bp):
TTTTCAAAAATTTCCTAAGT
Found at i:51671984 original size:29 final size:28
Alignment explanation
Indices: 51671950--51672052 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
51671940 TACTCAATCA
*
51671950 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
51671979 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
51672008 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
51672037 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
51672053 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:51679604 original size:29 final size:28
Alignment explanation
Indices: 51679570--51679672 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
51679560 TACTCAATCA
*
51679570 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
51679599 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
51679628 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
51679657 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
51679673 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:51689342 original size:50 final size:49
Alignment explanation
Indices: 51689212--51689400 Score: 227
Period size: 50 Copynumber: 3.8 Consensus size: 49
51689202 AGCCGAAGCT
* *
51689212 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAAC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACTCAAC
* * * * *
51689260 AATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCATC
1 -ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CTCAAC
* * * *
51689311 ATCTGATACACGTTGTAGCCTGCACTTAGTACTACACATGCGACTTAAC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACTCAAC
* *
51689360 AGTATGGTACACATAGTAGCCTGCACTTAGTACTACACACG
1 A-TCTGATACACATAGTAGCCTGCACTTAGTACTACACACG
51689401 TGTATTCACA
Statistics
Matches: 118, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
49 42 0.36
50 73 0.62
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACTCAAC
Found at i:51696672 original size:50 final size:48
Alignment explanation
Indices: 51696614--51696800 Score: 212
Period size: 50 Copynumber: 3.8 Consensus size: 48
51696604 AACAATCCGG
* * *
51696614 TACACGTAGTAGCCTGCACTTTGTACTACACACGTGACCTCACCATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAAACAT-TGA
* * *
51696664 TACACGTAGTAGCCTGCATTTAGTACTACACACGTGATCGAAGTCATTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAA-ACATTGA
* * * * *
51696714 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACTTAACAGTATGG
1 -TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAAACA-T-TGA
51696765 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
51696801 TATTCACAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
49 2 0.02
50 76 0.66
51 38 0.33
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (48 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAAACATTGA
Found at i:51698350 original size:46 final size:46
Alignment explanation
Indices: 51698203--51698415 Score: 207
Period size: 46 Copynumber: 4.6 Consensus size: 46
51698193 TGTTTTTGAA
* * * *
51698203 CTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTATGAGAA
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAG
* * * * *
51698249 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATACGAGAG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAG
* * *
51698297 CTAGTGTAAGACATTTCTAGGACATGCATTGGCCTCGAGATGTA-AG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAG
* * *
51698343 CTAGTGTAGGACATGTCTGGGACATGCATCGG-GTACGAGATGATAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAG
*
51698389 TTAGTGTAAGACCATGTCTGGGACATG
1 CTAGTGTAAGA-CATGTCTGGGACATG
51698416 GCATTGACTG
Statistics
Matches: 138, Mismatches: 22, Indels: 13
0.80 0.13 0.08
Matches are distributed among these distances:
45 2 0.01
46 70 0.51
47 41 0.30
48 24 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAG
Found at i:51703997 original size:28 final size:28
Alignment explanation
Indices: 51703936--51704033 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
51703926 TCACAAATTG
** * *
51703936 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
51703965 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
51703993 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
51704021 GCACTAAGTGTGC
1 GCACTAAGTGTGC
51704034 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:51711675 original size:28 final size:28
Alignment explanation
Indices: 51711614--51711711 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
51711604 TCACAAATTG
** * *
51711614 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
51711643 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
51711671 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
51711699 GCACTAAGTGTGC
1 GCACTAAGTGTGC
51711712 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:51719997 original size:28 final size:28
Alignment explanation
Indices: 51719936--51720033 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
51719926 TCACAAATTG
** * *
51719936 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
51719965 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
51719993 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
51720021 GCACTAAGTGTGC
1 GCACTAAGTGTGC
51720034 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:51727662 original size:28 final size:28
Alignment explanation
Indices: 51727601--51727698 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
51727591 TCACAAATTG
** * *
51727601 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
51727630 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
51727658 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
51727686 GCACTAAGTGTGC
1 GCACTAAGTGTGC
51727699 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:51737349 original size:33 final size:33
Alignment explanation
Indices: 51737312--51737379 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
51737302 TGGGCAGGCC
51737312 GTGTGGTCGCACACACCCGTGTCCCTAACCCAT
1 GTGTGGTCGCACACACCCGTGTCCCTAACCCAT
51737345 GTGTGGTCGCACACACCCGTGTCCCTAACCCAT
1 GTGTGGTCGCACACACCCGTGTCCCTAACCCAT
51737378 GT
1 GT
51737380 AACTCTCTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.18, C:0.38, G:0.22, T:0.22
Consensus pattern (33 bp):
GTGTGGTCGCACACACCCGTGTCCCTAACCCAT
Found at i:51739064 original size:23 final size:24
Alignment explanation
Indices: 51738947--51739075 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
51738937 CAGGAGGCCT
*
51738947 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
51738972 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
51738996 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
51739020 AGCCCTTTTGATAACTGAGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
51739044 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
51739067 AGCCCTTTT
1 AGCCCTTTT
51739076 TCACTTCCTC
Statistics
Matches: 98, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
23 21 0.21
24 73 0.74
25 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:51739150 original size:20 final size:20
Alignment explanation
Indices: 51739125--51739163 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
51739115 TATGATTACA
51739125 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
51739145 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
51739164 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:51739169 original size:20 final size:20
Alignment explanation
Indices: 51739126--51739170 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
51739116 ATGATTACAT
**
51739126 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
51739146 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
51739166 CATGT
1 CATGT
51739171 TTATCAAAAT
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:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:51740446 original size:27 final size:27
Alignment explanation
Indices: 51740411--51740465 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
51740401 GGGCATATTC
*
51740411 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
51740438 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
51740465 G
1 G
51740466 GTTTTTTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:51740559 original size:27 final size:27
Alignment explanation
Indices: 51740506--51740758 Score: 150
Period size: 27 Copynumber: 9.3 Consensus size: 27
51740496 TTTCATCCTA
* * * * * *
51740506 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
51740533 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* ** *
51740560 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-T
** * *
51740589 CAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
51740616 CAGGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
** * *
51740643 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
51740669 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTATAAAT
* * *
51740696 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTCGGTAATTTTATAAAT
** * *
51740724 TGAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
51740751 CAAGGGTA
1 CAAGGGTA
51740759 AAATAGTAAT
Statistics
Matches: 176, Mismatches: 45, Indels: 10
0.76 0.19 0.04
Matches are distributed among these distances:
26 2 0.01
27 146 0.83
28 14 0.08
29 14 0.08
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAT
Found at i:51740767 original size:27 final size:27
Alignment explanation
Indices: 51740737--51741012 Score: 212
Period size: 27 Copynumber: 9.8 Consensus size: 27
51740727 GGGTATTTCT
* * *
51740737 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
51740764 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
51740791 GTAATTCTATAAATCGATGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
51740817 GATAATTTTGTAAATCGAGGGTAAAACG
1 G-TAATTCTGTAAATCGAGGGTAAAACA
*
51740845 GTAATTCTGTAAGTCGAGGGTAAAACGAGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAAC---------A
* * **
51740881 TGGTAATTATGTAAATCGGGGGTAAAATG
1 --GTAATTCTGTAAATCGAGGGTAAAACA
* *
51740910 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
51740937 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
51740964 GTACTTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
51740991 GTAATTATGTAAGTCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
51741013 CTTTGGTAAT
Statistics
Matches: 205, Mismatches: 31, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.00
27 181 0.88
28 1 0.00
38 22 0.11
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:51740768 original size:81 final size:81
Alignment explanation
Indices: 51740617--51740769 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
51740607 TTTGTAAATC
* ***
51740617 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACAAGTGGTAAAAT
*
51740682 GGTAATTTTACAAACT
66 AGTAATTTTACAAACT
* * ***
51740698 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCAAG-GGTAAAA
1 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAA-CAAGTGGTAAAA
51740762 TAGTAATT
65 TAGTAATT
51740770 CTGTAAATCA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 58 0.95
82 3 0.05
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAACAAGTGGTAAAAT
AGTAATTTTACAAACT
Found at i:51740785 original size:81 final size:80
Alignment explanation
Indices: 51740609--51740866 Score: 198
Period size: 81 Copynumber: 3.2 Consensus size: 80
51740599 TTTGTAACTT
* *** *
51740609 TGTAAATCAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAG
1 TGTAAATCAAGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTC-GTAATTTTGTAAATCAAG
***
51740673 TGGTATTTTGGTAATT-
65 -GGTAAAATGGTAATTC
* * *
51740689 T-TACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCA
1 TGTA-AATC-AAGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTC-GTAATTTTGTAAATCA
*
51740753 AGGGTAAAATAGTAATTC
63 AGGGTAAAATGGTAATTC
*** * * * * * *** *
51740771 TGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGATGGTAAAACGATAATTTTGTAAATCGAG
1 TGTAAATCAAGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCG-TAATTTTGTAAATCAAG
*
51740836 GGTAAAACGGTAATTC
65 GGTAAAATGGTAATTC
* *
51740852 TGTAAGTCGAGGGTA
1 TGTAAATCAAGGGTA
51740867 AAACGAGGGT
Statistics
Matches: 143, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
79 2 0.01
80 5 0.03
81 127 0.89
82 7 0.05
83 2 0.01
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.36
Consensus pattern (80 bp):
TGTAAATCAAGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGTAATTTTGTAAATCAAGG
GTAAAATGGTAATTC
Found at i:51740868 original size:38 final size:38
Alignment explanation
Indices: 51740826--51740907 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
51740816 CGATAATTTT
* * *
51740826 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
* *
51740864 GTAAAACGAGGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
51740902 GTAAAA
1 GTAAAA
51740908 TGGTAATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.07, G:0.30, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
Found at i:51740888 original size:65 final size:65
Alignment explanation
Indices: 51740800--51740935 Score: 182
Period size: 65 Copynumber: 2.1 Consensus size: 65
51740790 AGTAATTCTA
* * * * *
51740800 TAAATCGATGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGG
1 TAAAACGAGGGTAAAACGATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGG
* * * * *
51740865 TAAAACGAGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGGG
1 TAAAACGAGGGTAAAACGATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGG
51740930 TAAAAC
1 TAAAAC
51740936 AGTAATTCTA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.40, C:0.07, G:0.26, T:0.27
Consensus pattern (65 bp):
TAAAACGAGGGTAAAACGATAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGG
Found at i:51740896 original size:92 final size:92
Alignment explanation
Indices: 51740780--51740963 Score: 260
Period size: 92 Copynumber: 2.0 Consensus size: 92
51740770 CTGTAAATCA
* * * *
51740780 AGGGTAAAATAGTAATTCTATAAATCGATGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACG
1 AGGGTAAAATAGTAATTATATAAATCGAGGGTAAAACGATAATTTTGTAAATCAAGGGTAAAACA
* * *
51740845 GTAATTCTGTAAGTCGAGGGTAAAACG
66 GTAATTCTATAAATCAAGGGTAAAACG
* * * * *
51740872 AGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACA
1 AGGGTAAAATAGTAATTATATAAATCGAGGGTAAAACGATAATTTTGTAAATCAAGGGTAAAACA
51740937 GTAATTCTATAAATCAAGGGTAAAACG
66 GTAATTCTATAAATCAAGGGTAAAACG
51740964 GTACTTCTAT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (92 bp):
AGGGTAAAATAGTAATTATATAAATCGAGGGTAAAACGATAATTTTGTAAATCAAGGGTAAAACA
GTAATTCTATAAATCAAGGGTAAAACG
Found at i:51740904 original size:146 final size:146
Alignment explanation
Indices: 51740737--51741012 Score: 426
Period size: 146 Copynumber: 1.9 Consensus size: 146
51740727 GGGTATTTCT
* *
51740737 GTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTATGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
* * * * *
51740802 AATCGATGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTA
66 AATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAGTCGAGGGTA
51740867 AAACGAGGGTAAAATG
131 AAACGAGGGTAAAATG
** * *
51740883 GTAATTATGTAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTATGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
* * *
51740948 AATCAAGGGTAAAACGGTACTTCTATAAATCGAGGGTAAAACGGTAATTATGTAAGTCGGGGGTA
66 AATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAGTCGAGGGTA
51741013 CTTTGGTAAT
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
146 116 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (146 bp):
GTAATTATGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
AATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAGTCGAGGGTA
AAACGAGGGTAAAATG
Found at i:51740957 original size:119 final size:119
Alignment explanation
Indices: 51740753--51740990 Score: 325
Period size: 119 Copynumber: 2.0 Consensus size: 119
51740743 TTGTAAATCA
* * *
51740753 AGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGATGGTAAAACG
1 AGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACG
* * * * *
51740818 ATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACG
66 ATAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* ** * * *
51740872 AGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAAC-
1 AGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACG
*
51740936 AGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAAATCGAGGGTAAAACG
66 A-TAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
51740991 GTAATTATGT
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
118 1 0.01
119 102 0.99
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.27
Consensus pattern (119 bp):
AGGGTAAAATAGTAATTATGTAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACG
ATAATTCTATAAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
Found at i:51743326 original size:42 final size:42
Alignment explanation
Indices: 51743262--51743416 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 42
51743252 CTGAGACTAT
* * * * * * *
51743262 GTGTAAGACCATATATGAGATATGGAATCAATGTGAAATTTT
1 GTGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTC
51743304 GTGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTC
1 GTGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTC
** * **
51743346 GTGTAAGACCATACCTGGGCTATTGGCATCGATATGAGATCCC
1 GTGTAAGACCATATTTGGGATA-TGGCATCGATATGAGATTTC
*
51743389 ATGTAAGACCATATTTGGGATATGGCAT
1 GTGTAAGACCATATTTGGGATATGGCAT
51743417 TGGTATGATA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 60 0.62
43 36 0.38
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTC
Found at i:51757613 original size:25 final size:25
Alignment explanation
Indices: 51757576--51757634 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
51757566 CAACTCGAGA
*
51757576 GAGCTTACTGATATTAAGCTC-TCAT
1 GAGCTTACCGATATTAAGCTCGT-AT
*
51757601 GAGCTTACCGATATTCAGCTCGTAT
1 GAGCTTACCGATATTAAGCTCGTAT
51757626 GAGCTTACC
1 GAGCTTACC
51757635 ATTTACATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (25 bp):
GAGCTTACCGATATTAAGCTCGTAT
Found at i:51759394 original size:40 final size:39
Alignment explanation
Indices: 51759325--51759461 Score: 168
Period size: 40 Copynumber: 3.4 Consensus size: 39
51759315 ACTCGATATC
* * *
51759325 TCGCACACTAAGTGTCATACATAGTCGAAGCTATCTCAGA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCT-AGA
*
51759365 TCGCACACTAAGTGCCATATATAGCCGAAGTTAGGTCTA-A
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTA--TCTAGA
* *
51759405 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTTGTA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTAG-A
*
51759445 TTGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
51759462 CAAATAACTG
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.02
40 79 0.93
41 1 0.01
42 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (39 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTAGA
Found at i:51764567 original size:43 final size:43
Alignment explanation
Indices: 51764498--51764618 Score: 170
Period size: 43 Copynumber: 2.8 Consensus size: 43
51764488 TATGTGATTC
* *
51764498 CGATATGTGATTACGTGTAAGCCCACATCTGGGATGTTGGTAT
1 CGATATGTGATTACGTGTAAGACCACATCTGGGATGTTGGCAT
* * * *
51764541 CGATATGTGATTACCTGCAAGACCACATATGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACATCTGGGATGTTGGCAT
* *
51764584 CGATATGTGATTACGTGTAAGACCACGTCTAGGAT
1 CGATATGTGATTACGTGTAAGACCACATCTGGGAT
51764619 TGTAACACCC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACATCTGGGATGTTGGCAT
Found at i:51765810 original size:27 final size:27
Alignment explanation
Indices: 51765652--51765808 Score: 199
Period size: 27 Copynumber: 5.8 Consensus size: 27
51765642 ATTACCAAAG
* *
51765652 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
51765679 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
51765706 TACCCTCGATTTACAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
51765733 TACTCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
51765760 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
51765787 TACCCTCGATTTACTA-AATTAC
1 TACCCTCGATTTAC-AGAATTAC
51765809 TAAAATACCC
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
27 114 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:51765817 original size:27 final size:27
Alignment explanation
Indices: 51765760--51765899 Score: 69
Period size: 27 Copynumber: 5.2 Consensus size: 27
51765750 ATTACTGTTT
* ***
51765760 TACCCTTGATTTAC-AGAATTACTATTT
1 TACCCTCGATTTACTA-AATTACTAAAA
51765787 TACCCTCGATTTACTAAATTACTAAAA
1 TACCCTCGATTTACTAAATTACTAAAA
* *
51765814 TACCCTAG-TCTGTA--AAATTGCTAAAA
1 TACCCTCGAT-T-TACTAAATTACTAAAA
* * *
51765840 TACCCTTGGTTT-GTAAAATTAC-AGAAA
1 TACCCTCGATTTACT-AAATTACTA-AAA
* * *
51765867 TACCCTCAATTT-GTAAAATTACCAAAA
1 TACCCTCGATTTACT-AAATTACTAAAA
51765894 TACCCT
1 TACCCT
51765900 TAGTTTGTAA
Statistics
Matches: 93, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
25 1 0.01
26 21 0.23
27 67 0.72
28 4 0.04
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACTAAATTACTAAAA
Found at i:51765818 original size:54 final size:54
Alignment explanation
Indices: 51765625--51765819 Score: 140
Period size: 54 Copynumber: 3.6 Consensus size: 54
51765615 ATTATTGAAA
* * * * * * * * *
51765625 TACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTAAAATACCCTCGATTTACAGAAGTACCATTT
* * ***** *
51765679 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAGAAGTACCGTTT
1 TACCCTCGATTTATAGAATTACTAAAATACCCTCGATTTACAGAAGTACCATTT
* * **** * * *
51765733 TACTCTTGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTAAAATACCCTCGATTTACAGAAGTACCATTT
51765787 TACCCTCGATTTACTA-AATTACTAAAATACCCT
1 TACCCTCGATTTA-TAGAATTACTAAAATACCCT
51765820 AGTCTGTAAA
Statistics
Matches: 115, Mismatches: 25, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
54 113 0.98
55 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACTAAAATACCCTCGATTTACAGAAGTACCATTT
Found at i:51765906 original size:27 final size:27
Alignment explanation
Indices: 51765802--51765979 Score: 209
Period size: 27 Copynumber: 6.6 Consensus size: 27
51765792 TCGATTTACT
* *
51765802 AAATTACTAAAATACCC-TAGTCTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* * *
51765828 AAATTGCTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* *
51765855 AAATTA-CAGAAATACCCTCAATTTGTA
1 AAATTACCA-AAATACCCTTAGTTTGTA
51765882 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* *
51765909 AAATTACCAAAATACCAC-TGGTTTGTG
1 AAATTACCAAAATACC-CTTAGTTTGTA
* * *
51765936 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
51765963 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
51765980 CTGATTTACA
Statistics
Matches: 129, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
26 18 0.14
27 108 0.84
28 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTAGTTTGTA
Found at i:51765940 original size:81 final size:80
Alignment explanation
Indices: 51765802--51765979 Score: 277
Period size: 81 Copynumber: 2.2 Consensus size: 80
51765792 TCGATTTACT
* * *
51765802 AAATTACTAAAATACCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACAGAAA
1 AAATTACCAAAATACCCTAGTCTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACAGAAA
51765867 TACCCTCAATTTGTA
66 TACCCTCAATTTGTA
* * *
51765882 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGA
1 AAATTACCAAAATACCC-TAGTCTGTAAAATTACCAAAATACC-CTTGGTTTGTAAAATTACAGA
51765946 AATACCCTCAATTTGTA
64 AATACCCTCAATTTGTA
51765963 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
51765980 CTGATTTACA
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
80 16 0.18
81 73 0.81
82 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AAATTACCAAAATACCCTAGTCTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACAGAAA
TACCCTCAATTTGTA
Found at i:51766002 original size:54 final size:54
Alignment explanation
Indices: 51765849--51766007 Score: 148
Period size: 54 Copynumber: 2.9 Consensus size: 54
51765839 ATACCCTTGG
* * * *
51765849 TTTGTAAAATTA-CAGAAATACC-CTCAATTTGTA-AAATTACCA-AAATACCCTTAG
1 TTTGTAAAATTACCA-AAATACCACT-GATTTG-ACAAATCA-CAGAAATACCCTCAA
* ** * *
51765903 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGATTTGACAAATCACAGAAATACCCTCAA
*
51765957 TTTGTAAAATTACCAAAATACCCCTGATTT-ACAAAGTCACAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCACTGATTTGACAAA-TCACAGAAATACCCT
51766008 TGACTTTCTA
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
53 4 0.05
54 80 0.91
55 4 0.05
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGATTTGACAAATCACAGAAATACCCTCAA
Found at i:51766003 original size:81 final size:81
Alignment explanation
Indices: 51765802--51766034 Score: 253
Period size: 81 Copynumber: 2.9 Consensus size: 81
51765792 TCGATTTACT
* ** *
51765802 AAATTACTAAAATA-CCCTAG-TCTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACAGA
1 AAATTACCAAAATACCCCTAGAT-TGTAAAATCACCAAAATACCCTTGGTTTGTAAAATTACAGA
51765865 AATACCCTCAATTTGTA
65 AATACCCTCAATTTGTA
* * * * *
51765882 AAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGA
1 AAATTACCAAAATACCCCTAGATTGTAAAATCACCAAAATACC-CTTGGTTTGTAAAATTACAGA
51765946 AATACCCTCAATTTGTA
65 AATACCCTCAATTTGTA
* *
51765963 AAATTACCAAAATACCCCT-GATT-TACAAAGTCA-CAGAAATACCCTTGACTTTCTAAAAATTA
1 AAATTACCAAAATACCCCTAGATTGTA-AAA-TCACCA-AAATACCCTTG-GTTTGT-AAAATTA
*
51766025 TAGAAATACC
61 CAGAAATACC
51766035 TTTGGTTTAC
Statistics
Matches: 130, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
79 2 0.02
80 22 0.17
81 86 0.66
82 6 0.05
83 14 0.11
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGATTGTAAAATCACCAAAATACCCTTGGTTTGTAAAATTACAGAA
ATACCCTCAATTTGTA
Found at i:51766079 original size:27 final size:27
Alignment explanation
Indices: 51766018--51766069 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
51766008 TGACTTTCTA
51766018 AAAATTA-TAGAAATACCTTTGGTTTAC
1 AAAATTACT-GAAATACCTTTGGTTTAC
51766045 AAAATTACTGAAATACCTTTGGTTT
1 AAAATTACTGAAATACCTTTGGTTT
51766070 GTAGATTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (27 bp):
AAAATTACTGAAATACCTTTGGTTTAC
Found at i:51766214 original size:27 final size:27
Alignment explanation
Indices: 51766123--51766214 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
51766113 ACCCCTCTTA
*
51766123 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
51766150 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
51766177 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
51766204 GGTAAAATGAC
1 GGTAAAATGAC
51766215 GAATATGCCC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:51768485 original size:29 final size:29
Alignment explanation
Indices: 51768451--51768582 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
51768441 TACTCGATTT
** * *
51768451 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
51768480 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
51768509 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
51768538 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51768567 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
51768583 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:51776428 original size:29 final size:29
Alignment explanation
Indices: 51776394--51776525 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
51776384 TACTCGATTT
** * *
51776394 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
51776423 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
51776452 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
51776481 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51776510 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
51776526 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:51779111 original size:29 final size:27
Alignment explanation
Indices: 51779077--51779179 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
51779067 TACTCGATCA
*
51779077 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
51779106 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
51779135 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
51779164 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
51779180 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:51781630 original size:25 final size:25
Alignment explanation
Indices: 51781601--51781648 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
51781591 TTATAACATG
* * *
51781601 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
51781626 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
51781649 GTTTATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:51781909 original size:25 final size:24
Alignment explanation
Indices: 51781762--51781953 Score: 250
Period size: 23 Copynumber: 8.0 Consensus size: 24
51781752 AGGAAGTGCA
51781762 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
51781785 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
51781808 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
51781831 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
51781856 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
51781881 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
* * * *
51781905 AAAAGGCTTTTTCCCCAATTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
51781929 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
51781954 GATAAAGCAG
Statistics
Matches: 153, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
23 68 0.44
24 26 0.17
25 59 0.39
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:51782182 original size:31 final size:31
Alignment explanation
Indices: 51782146--51782209 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
51782136 CATTTACAGT
51782146 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCTAGTAATATGAAATATGA
**
51782177 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCTAGTAATATGAAATATGA
51782208 AA
1 AA
51782210 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCTAGTAATATGAAATATGA
Found at i:51783648 original size:31 final size:31
Alignment explanation
Indices: 51783613--51783676 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
51783603 CCTTTTCATG
51783613 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
51783644 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
51783675 TT
1 TT
51783677 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:51783919 original size:24 final size:24
Alignment explanation
Indices: 51783868--51784034 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
51783858 GCTTTATCAT
* *
51783868 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
51783893 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
51783917 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
51783940 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
51783964 ATAACTGGGGCATAAGCCCGTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
51783988 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
51784012 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
51784035 TCACTTCCTC
Statistics
Matches: 133, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 23 0.17
24 98 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:51783968 original size:71 final size:71
Alignment explanation
Indices: 51783867--51784034 Score: 250
Period size: 71 Copynumber: 2.3 Consensus size: 71
51783857 TGCTTTATCA
*
51783867 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCC-TTTCAATAACTGGGGCAT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCGTTT-AATAACTGGGGCAT
51783930 AAGCCCTTT
63 AAGCCCTTT
* * *
51783939 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCGTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCGTTTAATAACTGGGGCATAAG
51784004 CCCTTT
66 CCCTTT
51784010 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
51784035 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
71 50 0.56
72 39 0.44
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCGTTTAATAACTGGGGCATAAG
CCCTTT
Found at i:51784109 original size:20 final size:20
Alignment explanation
Indices: 51784084--51784144 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
51784074 TTATGATTAC
51784084 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
51784104 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* * *
51784124 GTCATGTGCATCTCATTCAT
1 ATCATGTGCATATCATACAT
51784144 A
1 A
51784145 CCATATTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:51784219 original size:25 final size:25
Alignment explanation
Indices: 51784187--51784234 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
51784177 ATACATAAAC
* * *
51784187 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
51784212 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
51784235 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:51792038 original size:24 final size:24
Alignment explanation
Indices: 51791987--51792153 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
51791977 GCTTTATCAT
* *
51791987 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
51792012 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
51792036 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
51792059 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
51792083 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
51792107 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
51792131 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
51792154 TCACTTCCTC
Statistics
Matches: 132, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
23 20 0.15
24 100 0.76
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:51792087 original size:71 final size:72
Alignment explanation
Indices: 51792001--51792153 Score: 245
Period size: 71 Copynumber: 2.1 Consensus size: 72
51791991 CTGGAGGCCT
51792001 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCC-TTTGATAACT
1 AGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTTGATAACT
51792065 AGGGCATA
65 AGGGCATA
* * ** *
51792073 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTG
1 AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTTGATAACTA
51792138 GGGCATA
66 GGGCATA
51792145 AGCCCTTTT
1 AGCCCTTTT
51792154 TCACTTCCTC
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTTGATAACTA
GGGCATA
Found at i:51792228 original size:20 final size:20
Alignment explanation
Indices: 51792203--51792263 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
51792193 TTATGATTAC
51792203 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
51792223 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
51792243 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
51792263 A
1 A
51792264 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:51795272 original size:2 final size:2
Alignment explanation
Indices: 51795265--51795296 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
51795255 TTAAATTATG
51795265 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51795297 AACTTGTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51799480 original size:43 final size:43
Alignment explanation
Indices: 51799413--51799717 Score: 423
Period size: 43 Copynumber: 7.0 Consensus size: 43
51799403 TATGTGATTC
*
51799413 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCAT
* *
51799456 CGATATGTGATTACGTGCAGGACCACGTCTGGGATGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCAT
* *
51799499 CGATATGTGATTACGTGTAAGACCACATCTGGGATGTTGGTAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCAT
* *
51799542 CGTTATGTGATTACGTGTAAGACCACGTCTAGGATGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCAT
*
51799585 CGATATGTGATTACGTGTAAGACCACATCTGGGATGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCAT
* * ** *
51799628 TGATATGTGATTACGTGTAAGTCCTTGTCTGGGCCA-GACAGTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGG--ATG---TTGGCAT
* *
51799675 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCAT
51799718 TGTATGATAT
Statistics
Matches: 230, Mismatches: 26, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
43 192 0.83
44 1 0.00
45 2 0.01
46 1 0.00
47 34 0.15
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCAT
Found at i:51799942 original size:28 final size:28
Alignment explanation
Indices: 51799905--51799961 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
51799895 TGAGAACTAT
*
51799905 GTGTATGCATATGTGAATGCACACAGTC
1 GTGTATGCATATGGGAATGCACACAGTC
*
51799933 GTGTATGCATATGGGAATGTACACAGTC
1 GTGTATGCATATGGGAATGCACACAGTC
51799961 G
1 G
51799962 ACTAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (28 bp):
GTGTATGCATATGGGAATGCACACAGTC
Found at i:51802075 original size:28 final size:29
Alignment explanation
Indices: 51802021--51802075 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
51802011 ATAAGGGTTT
* * *
51802021 TCACACGGCCGGGCACACGCGCTTGTCCC
1 TCACACGGCCAGGCACACGCCCATGTCCC
*
51802050 TCACACGGCCATG-ACACGCCCATGTC
1 TCACACGGCCAGGCACACGCCCATGTC
51802076 GCAGCTCGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 11 0.50
29 11 0.50
ACGTcount: A:0.18, C:0.44, G:0.24, T:0.15
Consensus pattern (29 bp):
TCACACGGCCAGGCACACGCCCATGTCCC
Found at i:51803459 original size:48 final size:48
Alignment explanation
Indices: 51803400--51803614 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 48
51803390 AAGCTGACGC
* *
51803400 CATGTCCCAGACAGGTCTTACACTAGCTTTTATATCTCGAGGTTAATG
1 CATGTCACAGACAGGTCTTACACTAGCTTTTATATCTCGAGGCTAATG
* * * ** ** * *
51803448 CATGTCTCAGACAAGTCTTACACTAGC-TCT-CGTCTTAATGCCAATG
1 CATGTCACAGACAGGTCTTACACTAGCTTTTATATCTCGAGGCTAATG
* * *
51803494 CATGTCACAGA-TGTGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
1 CATGTCACAGACAG-GTCTTACACTAGCTTTTATATCTCGAGGCTAATG
* * * * * * * *
51803542 CATGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGCTGATG
1 CATGTCACAGACAGGTCTTACACTAGCTTTTATATCTCGAGGCTAATG
*
51803588 CATGTCACAGACATGTCTTACACTAGC
1 CATGTCACAGACAGGTCTTACACTAGC
51803615 ACACATATCA
Statistics
Matches: 131, Mismatches: 32, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
46 66 0.50
47 5 0.04
48 60 0.46
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (48 bp):
CATGTCACAGACAGGTCTTACACTAGCTTTTATATCTCGAGGCTAATG
Found at i:51803589 original size:94 final size:94
Alignment explanation
Indices: 51803400--51803614 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 94
51803390 AAGCTGACGC
* * * * *
51803400 CATGTCCCAGACAGGTCTTACACTAGCTTTTATATCTCGAGGTTAATGCATGTCTCAGACAAGTC
1 CATGTCACAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTAATGCATGTCCCAGACAAGTC
* **
51803465 TTACACTAGCTCTCGTCTTAATGCCAATG
66 TTACACTAGCTCTCATAATAATGCCAATG
** * *
51803494 CATGTCACAGATGTGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATGTCCCAGACATGTC
1 CATGTCACAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTAATGCATGTCCCAGACAAGTC
* * **
51803559 TTACACTGGCTCTCATAAT-GTGGCTGATG
66 TTACACTAGCTCTCATAATAAT-GCCAATG
51803588 CATGTCACAGACATGTCTTACACTAGC
1 CATGTCACAGACATGTCTTACACTAGC
51803615 ACACATATCA
Statistics
Matches: 102, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
93 1 0.01
94 101 0.99
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (94 bp):
CATGTCACAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTAATGCATGTCCCAGACAAGTC
TTACACTAGCTCTCATAATAATGCCAATG
Found at i:51810506 original size:50 final size:49
Alignment explanation
Indices: 51810396--51810525 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 49
51810386 CTGGTACGCA
* * * ** *
51810396 TAGTAGCCTGCACATAGTACTACATATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACATACGTGACCAACCATCCGATACACG
*
51810445 TAGTAGCCTGCACTTAGTACTACATACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACATACGTGACC-AACCATCCGATACACG
*
51810495 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACATACGTGA
51810526 TCACAGTTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 30 0.42
50 42 0.58
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACATACGTGACCAACCATCCGATACACG
Found at i:51810579 original size:101 final size:99
Alignment explanation
Indices: 51810396--51810579 Score: 242
Period size: 101 Copynumber: 1.8 Consensus size: 99
51810386 CTGGTACGCA
* * *
51810396 TAGTAGCCTGCACATAGTACTACATATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
51810461 GTACTACATACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * * * *
51810495 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACATAGTACTACACACGCGA-C-CAATTATCCGGTACACATAGTAGCCTGCACT
*
51810560 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
51810580 CACAATAGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 27 0.38
100 1 0.01
101 43 0.61
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:51813881 original size:46 final size:45
Alignment explanation
Indices: 51813831--51814006 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
51813821 TGGTTGAGCA
51813831 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATG
* * *** * * * *
51813877 TCCGAACTCGTTGCGTTGAGTCCGAGTTCGAGAAATGTA-ACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC-ACTTATGGATGCAATG
*
51813922 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATG
* * *
51813970 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
51814007 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
45 2 0.02
46 68 0.65
47 32 0.31
48 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
Found at i:51813988 original size:93 final size:93
Alignment explanation
Indices: 51813828--51813998 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
51813818 GGATGGTTGA
* *
51813828 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGCGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
51813893 TGAGTCCGAGTTCGAGAAATGTAACTAG
66 TGAGTCCGAGTTCGAGAAATGTAACTAG
* * *
51813921 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
51813986 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51813999 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAAATGTAACTAG
Found at i:51815977 original size:29 final size:29
Alignment explanation
Indices: 51815949--51816050 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
51815939 CCTCCGAGCT
** * * *
51815949 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
51815978 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51816007 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51816036 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
51816051 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:51823835 original size:29 final size:29
Alignment explanation
Indices: 51823807--51823908 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
51823797 CCTCCGAGCT
** * * *
51823807 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
51823836 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51823865 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
51823894 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
51823909 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:51827877 original size:15 final size:15
Alignment explanation
Indices: 51827838--51827917 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
51827828 GTATCTTGGG
*
51827838 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
51827853 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
51827868 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
51827883 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
51827898 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
51827912 TTTCTT
1 TTTCTT
51827918 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:51827907 original size:30 final size:30
Alignment explanation
Indices: 51827829--51827916 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
51827819 CATAGTATCG
* * *
51827829 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
51827859 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
51827889 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
51827917 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:51837205 original size:40 final size:39
Alignment explanation
Indices: 51837161--51837379 Score: 199
Period size: 40 Copynumber: 5.5 Consensus size: 39
51837151 GCTCGATTGT
* * * *
51837161 CTTCGGGACATAGCCCGGTTATAGTAATTTGCACAATTGC
1 CTTCGGGACATAACCCGGTT-TAGTAACTCGCACAAATGC
*
51837201 CTTCGGGA-ATTAACCCGGATTTAGTAACTCGTACAAATGC
1 CTTCGGGACA-TAACCCGG-TTTAGTAACTCGCACAAATGC
* *
51837241 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAACCCGG-TTTAGTAACTCGCACAAATGC
* * * *
51837281 CTTCGGGACTTAACCTGGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACATAACCCGG-TTTAGTAACTCGCACAAATGC
* * * *
51837321 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACA-TAACCCGG-TTTAGTAAC-TCGCACAAATGC
* *
51837362 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAACCCGG
51837380 ACATCATTCG
Statistics
Matches: 150, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 124 0.83
41 25 0.17
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (39 bp):
CTTCGGGACATAACCCGGTTTAGTAACTCGCACAAATGC
Found at i:51837258 original size:80 final size:79
Alignment explanation
Indices: 51837161--51837380 Score: 242
Period size: 80 Copynumber: 2.7 Consensus size: 79
51837151 GCTCGATTGT
* * * * *
51837161 CTTCGGGACATAGCCCGGTTATAGTAATTTGCACAATTGCCTTCGGGAATTAACCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGT
**
51837226 AACTCGTACAAATGC
65 AACTCACACAAATGC
* * * * * *
51837241 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCTGGTTTTGGT
1 CTTCGGGACTTAACCCGG-TTTAGTAATTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGT
51837306 AACTCACACAAATGC
65 AACTCACACAAATGC
* * * * *
51837321 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTAGCACAAATGCCTTCGGGACTTAACCCGGA
51837381 CATCATTCGA
Statistics
Matches: 115, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 86 0.75
81 29 0.25
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
ACTCACACAAATGC
Found at i:51839651 original size:28 final size:28
Alignment explanation
Indices: 51839611--51839667 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
51839601 GATAAGTGAT
51839611 AAATTTTGGACTGGGCTATGTAGGTCAC
1 AAATTTTGGACTGGGCTATGTAGGTCAC
51839639 AAATTTTGGACTGGGCTATGTAGGTCAC
1 AAATTTTGGACTGGGCTATGTAGGTCAC
51839667 A
1 A
51839668 TAGCCGTAGC
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:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (28 bp):
AAATTTTGGACTGGGCTATGTAGGTCAC
Found at i:51841219 original size:56 final size:57
Alignment explanation
Indices: 51841148--51841256 Score: 141
Period size: 56 Copynumber: 1.9 Consensus size: 57
51841138 TCTATATATA
* * * *
51841148 TGGCCCACTAAGCCC-AATCTCTTTCATATGGCCCATTAGGCCC-ATTCACATTTATG
1 TGGCCCACTAAGCCCAAATCACATTCATATGG-CCACTAGGCCCAAATCACATTTATG
* *
51841204 TGGCCCATTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATT
1 TGGCCCACTAAGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATT
51841257 ACAGTCATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 23 0.51
57 22 0.49
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.27
Consensus pattern (57 bp):
TGGCCCACTAAGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTATG
Found at i:51841254 original size:28 final size:28
Alignment explanation
Indices: 51841145--51841256 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
51841135 ACCTCTATAT
* * *
51841145 ATATGGCCCACTAAGCCCAATCTCTTTC
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
51841173 ATATGGCCCATTAGGCCCATTCACATTT
1 ATATGGCCCACTAGGCCCAATCACATTC
* *
51841201 ATGTGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCACTAGGCCC-AATCACATTC
51841230 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCC-AATCACATT
51841257 ACAGTCATGC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 59 0.82
29 13 0.18
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:51841537 original size:16 final size:16
Alignment explanation
Indices: 51841479--51841529 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
51841469 ACTTTCAGCC
**
51841479 TTTCGGCATTTCAACT
1 TTTCGGCATTTCGGCT
* *
51841495 TTTTGACATTTCGGCT
1 TTTCGGCATTTCGGCT
51841511 TTTCGGCATTTCGGCT
1 TTTCGGCATTTCGGCT
51841527 TTT
1 TTT
51841530 TGGGATTTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.12, C:0.22, G:0.18, T:0.49
Consensus pattern (16 bp):
TTTCGGCATTTCGGCT
Found at i:51850240 original size:13 final size:13
Alignment explanation
Indices: 51850222--51850246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51850212 CTACGCACAC
51850222 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
51850235 GCCCGTGTCCTT
1 GCCCGTGTCCTT
51850247 CACACGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:51855816 original size:47 final size:44
Alignment explanation
Indices: 51855749--51855897 Score: 122
Period size: 49 Copynumber: 3.2 Consensus size: 44
51855739 CCCAGACATT
*
51855749 GTCTTACACTGGCTAGCATATCAAAGTCGATGCCATGTCCCAGTCAG
1 GTCTTACACTGACTA-CATATC-AAGTCGATGCCATGTCCCAG-CAG
* * * * *
51855796 GTCTTACACTGACTTTCATATATCGAGGTCGATGTCGTGTCCTAGACAG
1 GTCTTACACTGAC--T-ACATATC-AAGTCGATGCCATGTCCCAG-CAG
* * *
51855845 GTCTTACACTGAC-ACACAACAAG-CTGACGCCATGTCCCAGCAG
1 GTCTTACACTGACTACATATCAAGTC-GATGCCATGTCCCAGCAG
51855888 GTCTTACACT
1 GTCTTACACT
51855898 AGCTCGTATA
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
43 14 0.17
44 13 0.16
45 4 0.05
47 12 0.15
49 38 0.46
50 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (44 bp):
GTCTTACACTGACTACATATCAAGTCGATGCCATGTCCCAGCAG
Found at i:51855940 original size:48 final size:48
Alignment explanation
Indices: 51855875--51856088 Score: 208
Period size: 46 Copynumber: 4.6 Consensus size: 48
51855865 AAGCTGACGC
* *
51855875 CATGTCCCAG-CAGGTCTTACACTAGCTCGTATATCTCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGGCCGATG
* ** * **
51855922 CATGTCACAGACATGTCTTACACTAGCTC-T-CGTCTCAATGAGGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGGCCGATG
* * *
51855968 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGGCCGATG
* * * *
51856016 TATGTCCCAGACATGTCTTACACTGGCT-ATCATAAT-T--TGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCGT-AT-ATCTCAAGGCCGATG
* *
51856062 CATGTCCCAGACTTGGCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
51856089 ACACATATCA
Statistics
Matches: 137, Mismatches: 25, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
46 68 0.50
47 12 0.09
48 55 0.40
49 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGGCCGATG
Found at i:51856062 original size:94 final size:93
Alignment explanation
Indices: 51855875--51856088 Score: 247
Period size: 94 Copynumber: 2.3 Consensus size: 93
51855865 AAGCTGACGC
* * *
51855875 CATGTCCCAG-CAGGTCTTACACTAGCTCGTATATCTCAAGGCTGATGCATGTCACAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGACCGATGCATGTCACAGACATGTC
* *
51855939 TTACACTAGCTCTCGTCTCAATGAGGATG
66 TTACACTAGCTATCG-ATCAATGAGGATG
* * * *
51855968 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGACCGATGTATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGACCGATGCATGTCACAGACATGTC
*
51856033 TTACACTGGCTATC-AT-AATTTG-GCCGATG
66 TTACACTAGCTATCGATCAA--TGAG--GATG
* *
51856062 CATGTCCCAGACTTGGCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
51856089 ACACATATCA
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
91 2 0.02
92 2 0.02
93 12 0.12
94 88 0.85
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTCGTATATCTCAAGACCGATGCATGTCACAGACATGTC
TTACACTAGCTATCGATCAATGAGGATG
Found at i:51861531 original size:30 final size:30
Alignment explanation
Indices: 51861481--51861540 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
51861471 GCGAGAAGTA
51861481 GCCATGGTTGCCAAAGAGCAAG-TGCATGGC
1 GCCATGGTTGCCAAAGAGCAAGCT-CATGGC
*
51861511 GCCATGGTTGCTGAAA-AGCAAGCTCATGGC
1 GCCATGGTTGC-CAAAGAGCAAGCTCATGGC
51861541 AAGGCTCGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.27, C:0.23, G:0.32, T:0.18
Consensus pattern (30 bp):
GCCATGGTTGCCAAAGAGCAAGCTCATGGC
Found at i:51861932 original size:20 final size:19
Alignment explanation
Indices: 51861907--51861956 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
51861897 ATTCTTTAGA
51861907 ATTTTGGAATTTTTATAAA-T
1 ATTTTGG-ATTTTTA-AAATT
51861927 ATTTT-GATTTTTAAAATT
1 ATTTTGGATTTTTAAAATT
51861945 ATTTT-GATTTTT
1 ATTTTGGATTTTT
51861957 TTTGTAATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.10
18 20 0.69
19 1 0.03
20 5 0.17
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
ATTTTGGATTTTTAAAATT
Found at i:51861938 original size:18 final size:18
Alignment explanation
Indices: 51861915--51861956 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
51861905 GAATTTTGGA
51861915 ATTTTTATAAA-TATTTTG
1 ATTTTTA-AAATTATTTTG
51861933 ATTTTTAAAATTATTTTG
1 ATTTTTAAAATTATTTTG
51861951 ATTTTT
1 ATTTTT
51861957 TTTGTAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTTTAAAATTATTTTG
Found at i:51865852 original size:21 final size:21
Alignment explanation
Indices: 51865814--51865853 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
51865804 ATACACGTTT
*
51865814 ATATTTTTATTATTTAATACA
1 ATATTTTTATTATGTAATACA
51865835 ATATTTTTATT-TCGTAATA
1 ATATTTTTATTAT-GTAATA
51865854 TATAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
ATATTTTTATTATGTAATACA
Found at i:51866571 original size:36 final size:37
Alignment explanation
Indices: 51866524--51866595 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
51866514 ATGATTAAAC
* *
51866524 AATTCAATAATATAAATAGTACA-AAATATGAAATTT
1 AATTCAATAATATAAATAATACATAAAAATGAAATTT
* *
51866560 AATTTAATAATATAAATAATAGATAAAAATGAAATT
1 AATTCAATAATATAAATAATACATAAAAATGAAATT
51866596 ATTATTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 20 0.65
37 11 0.35
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (37 bp):
AATTCAATAATATAAATAATACATAAAAATGAAATTT
Found at i:51866579 original size:17 final size:17
Alignment explanation
Indices: 51866519--51866579 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
51866509 TTAATATGAT
*
51866519 TAAACAATTCAATAATA
1 TAAATAATTCAATAATA
* *
51866536 TAAATAGTACAA-AATA
1 TAAATAATTCAATAATA
*
51866552 TGAAATTTAATTTAATAATA
1 T-AAA--TAATTCAATAATA
51866572 TAAATAAT
1 TAAATAAT
51866580 AGATAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
16 5 0.15
17 16 0.47
19 8 0.24
20 5 0.15
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (17 bp):
TAAATAATTCAATAATA
Found at i:51867471 original size:19 final size:18
Alignment explanation
Indices: 51867404--51867471 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
51867394 ATATAATTTT
*
51867404 AAAT-TTTAAATAGTTAAA
1 AAATATTTAAA-AATTAAA
* *
51867422 ATAATATATATAAATTAAA
1 A-AATATTTAAAAATTAAA
*
51867441 AAATGTTATAAAAATTTAAA
1 AAATATT-TAAAAA-TTAAA
51867461 AAATATTTAAA
1 AAATATTTAAA
51867472 TTTCAAGTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.13
19 19 0.49
20 15 0.38
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AAATATTTAAAAATTAAA
Found at i:51867539 original size:23 final size:23
Alignment explanation
Indices: 51867513--51867558 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
51867503 TTTAAATATC
*
51867513 TTTTAGAATTTTATAATTGCATA
1 TTTTAGAATTTCATAATTGCATA
* *
51867536 TTTTATAATTTCATAATTTCATA
1 TTTTAGAATTTCATAATTGCATA
51867559 AAAAAATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTTAGAATTTCATAATTGCATA
Found at i:51867540 original size:15 final size:15
Alignment explanation
Indices: 51867520--51867550 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
51867510 ATCTTTTAGA
51867520 ATTTTATAATTGCAT
1 ATTTTATAATTGCAT
*
51867535 ATTTTATAATTTCAT
1 ATTTTATAATTGCAT
51867550 A
1 A
51867551 ATTTCATAAA
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:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (15 bp):
ATTTTATAATTGCAT
Found at i:51867701 original size:23 final size:22
Alignment explanation
Indices: 51867621--51867722 Score: 77
Period size: 21 Copynumber: 4.7 Consensus size: 22
51867611 TTCTTTTCAA
*
51867621 TTAT-TATAT-TTTTTGTAAATT
1 TTATATATATATTTTTAT-AATT
* *
51867642 TTATTTTTATATTTTTAATAA-T
1 TTATATATATATTTTT-ATAATT
* * *
51867664 TTATATGTTTCTTTTTATAGATT
1 TTATATATATATTTTTATA-ATT
*
51867687 TTATATATATATTTTT-GAATT
1 TTATATATATATTTTTATAATT
*
51867708 TTATATATTTATTTT
1 TTATATATATATTTT
51867723 CATTTTTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
21 24 0.37
22 19 0.29
23 21 0.32
24 1 0.02
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (22 bp):
TTATATATATATTTTTATAATT
Found at i:51869018 original size:11 final size:11
Alignment explanation
Indices: 51869004--51869043 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
51868994 TGTTTTATCT
51869004 CTATTTTGCTA
1 CTATTTTGCTA
*
51869015 CTATTTTACTA
1 CTATTTTGCTA
*
51869026 -TATGTTGCTA
1 CTATTTTGCTA
51869036 CTATTTTG
1 CTATTTTG
51869044 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.55
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:51869114 original size:30 final size:30
Alignment explanation
Indices: 51869080--51869142 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
51869070 ACTTATTTTA
51869080 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
51869110 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
51869140 TTG
1 TTG
51869143 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:51875281 original size:18 final size:18
Alignment explanation
Indices: 51875260--51875319 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
51875250 AAATTAACTA
51875260 AATTAACTGAAGTAACCG
1 AATTAACTGAAGTAACCG
* * *
51875278 AATTAACTGACGCAACTG
1 AATTAACTGAAGTAACCG
* * *
51875296 AATCAACCGAATTAACCG
1 AATTAACTGAAGTAACCG
*
51875314 ACTTAA
1 AATTAA
51875320 AGTATTGAAT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.22
Consensus pattern (18 bp):
AATTAACTGAAGTAACCG
Found at i:51880537 original size:191 final size:191
Alignment explanation
Indices: 51880213--51880590 Score: 648
Period size: 191 Copynumber: 2.0 Consensus size: 191
51880203 GTTGAAGGTG
* * * *
51880213 TTGGAGAGGGTCGCTGGACCCCATTCTAGATCTTAGTGTCGTGGGTCAGTAACTGAACGACTCTG
1 TTGGAGAGGGTCACTAGACCCCATTCTAGATCTGAGTGTCGTAGGTCAGTAACTGAACGACTCTG
* **
51880278 GTCTAATGGAGCTGAGCTGTTTAGGGGTATCACTAGAGTCGCCCCTGCTATGGCTGTGTATTGGT
66 GTCCAATGGAGCTGAGCTGTTTAGGGGTATCACTAGAGTCGCCCCTGCTATGGCTAAGTATTGGT
51880343 TGGAGGCAGCCGAGAGGATCATGAACGACATTGATTGAACTCCTAAGCAGAAACTTAGGAT
131 TGGAGGCAGCCGAGAGGATCATGAACGACATTGATTGAACTCCTAAGCAGAAACTTAGGAT
* *
51880404 TTGGAGAGGGTCACTAGACCCCATTCTGGATCTGAGTGTCGTAGGTCAGTAACTGAATGACTCTG
1 TTGGAGAGGGTCACTAGACCCCATTCTAGATCTGAGTGTCGTAGGTCAGTAACTGAACGACTCTG
* *
51880469 GTCCAATGGAGCTGAGCTGTTTAGGGGTGTCACTAGAGTCGCCCCTGCTGTGGCTAAGTATTGGT
66 GTCCAATGGAGCTGAGCTGTTTAGGGGTATCACTAGAGTCGCCCCTGCTATGGCTAAGTATTGGT
*
51880534 TGGAGGCAGCCGAGAGGATCATGAACGACATTGATTGAACTCCTAAGTAGAAACTTA
131 TGGAGGCAGCCGAGAGGATCATGAACGACATTGATTGAACTCCTAAGCAGAAACTTA
51880591 AAGGTGTAGT
Statistics
Matches: 175, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
191 175 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (191 bp):
TTGGAGAGGGTCACTAGACCCCATTCTAGATCTGAGTGTCGTAGGTCAGTAACTGAACGACTCTG
GTCCAATGGAGCTGAGCTGTTTAGGGGTATCACTAGAGTCGCCCCTGCTATGGCTAAGTATTGGT
TGGAGGCAGCCGAGAGGATCATGAACGACATTGATTGAACTCCTAAGCAGAAACTTAGGAT
Found at i:51882524 original size:20 final size:20
Alignment explanation
Indices: 51882499--51882544 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
51882489 CTGAAAATGA
51882499 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
51882519 TTTCT-GAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
51882538 TTTCTGG
1 TTTCTGG
51882545 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:51885558 original size:39 final size:40
Alignment explanation
Indices: 51885511--51885649 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 40
51885501 GGACTAGGAT
*
51885511 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
* * * *
51885550 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
* * **
51885590 CCGAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTAATA-AACCCGGGCTAAGTC
* * *
51885630 TCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
51885650 CGTTATATCC
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 33 0.39
40 49 0.58
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
Found at i:51885622 original size:79 final size:81
Alignment explanation
Indices: 51885462--51885642 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 81
51885452 ATGATGTCCC
* * *
51885462 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTCGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGTG
*
51885526 CGAGTTAATAAATCCG
66 CGAGTCAATAAATCCG
* **
51885542 GGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTCGT
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTCGT
*
51885604 GCGAGTCACTATAA-CCG
65 GCGAGTCAATA-AATCCG
** *
51885621 GGCTTCGTCTCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
51885643 AGCGAGTCGT
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 56 0.65
80 29 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGTG
CGAGTCAATAAATCCG
Found at i:51887241 original size:32 final size:32
Alignment explanation
Indices: 51887195--51887255 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
51887185 TGTCAATCAT
51887195 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
51887227 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
51887256 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:51887262 original size:27 final size:30
Alignment explanation
Indices: 51887195--51887265 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 30
51887185 TGTCAATCAT
*
51887195 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
51887227 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
51887255 -TCAATATCTAA
1 TTCAATATCTAA
51887266 GAAATTCAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
27 11 0.30
28 2 0.05
29 2 0.05
32 22 0.59
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.28
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:51891187 original size:29 final size:29
Alignment explanation
Indices: 51891154--51891214 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
51891144 CATGCAGTAC
*
51891154 AAATA-GAACAAGAACAAGAAGAAGAAGAA
1 AAATATGAACAAGAA-AAGAACAAGAAGAA
* *
51891183 AAATATGGACAAGTAAAGAACAAGAAGAA
1 AAATATGAACAAGAAAAGAACAAGAAGAA
51891212 AAA
1 AAA
51891215 AAAACAGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.67, C:0.07, G:0.20, T:0.07
Consensus pattern (29 bp):
AAATATGAACAAGAAAAGAACAAGAAGAA
Found at i:51895715 original size:13 final size:13
Alignment explanation
Indices: 51895699--51895723 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51895689 ATCTTTTATT
51895699 TTTTTATTTTTTA
1 TTTTTATTTTTTA
51895712 TTTTTATTTTTT
1 TTTTTATTTTTT
51895724 CAAATTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:51895731 original size:21 final size:21
Alignment explanation
Indices: 51895692--51895731 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
51895682 ATAGGATATC
* **
51895692 TTTTATTTTTTTATTTTTTAT
1 TTTTATTTTTTCAAATTTTAT
51895713 TTTTATTTTTTCAAATTTT
1 TTTTATTTTTTCAAATTTT
51895732 TAATTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTATTTTTTCAAATTTTAT
Found at i:51897730 original size:28 final size:28
Alignment explanation
Indices: 51897690--51897753 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
51897680 TGGGAAGTAG
* * *
51897690 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATACGAACGAGA
*
51897718 TTGGGCCTGATGGGCCATGCGAACGAGA
1 TTGGGCCTGATGGGCCATACGAACGAGA
51897746 TTGGGCCT
1 TTGGGCCT
51897754 AAAGGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.25
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATACGAACGAGA
Found at i:51898154 original size:26 final size:27
Alignment explanation
Indices: 51898092--51898302 Score: 250
Period size: 27 Copynumber: 7.9 Consensus size: 27
51898082 TACCATTGGT
** *
51898092 TTTGTAAAATTACTAAAATACCCTCAA
1 TTTGTAAAATTACCGAAATACCCTCGA
*
51898119 TTTGTAAAATTATCGAAATACCC-CGA
1 TTTGTAAAATTACCGAAATACCCTCGA
*
51898145 TTTGTAAAATTATCGAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTCGA
*
51898172 -TTGTAAAATTACTGAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTCGA
* *
51898198 TTTGTAAAATTACCGAAATATGCC-CAA
1 TTTGTAAAATTACCGAAATA-CCCTCGA
* * *
51898225 TTTTTGAAATTACCGAAACACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTCGA
* *
51898252 TTTGTAAAATTATCGAAATACCCT-TA
1 TTTGTAAAATTACCGAAATACCCTCGA
*
51898278 TAGTGTAAAATTACCGAAATACCCT
1 T-TTGTAAAATTACCGAAATACCCT
51898303 TGTAGTGTGA
Statistics
Matches: 158, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
26 53 0.34
27 103 0.65
28 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCTCGA
Found at i:51898308 original size:27 final size:26
Alignment explanation
Indices: 51898093--51898329 Score: 210
Period size: 27 Copynumber: 8.9 Consensus size: 26
51898083 ACCATTGGTT
** *
51898093 TTGTAAAATTACTAAAATACCCTCAA
1 TTGTAAAATTACCGAAATACCCTCGA
*
51898119 TTTGTAAAATTATCGAAATACCC-CGA
1 -TTGTAAAATTACCGAAATACCCTCGA
*
51898145 TTTGTAAAATTATCGAAATACCCTCGA
1 -TTGTAAAATTACCGAAATACCCTCGA
*
51898172 TTGTAAAATTACTGAAATACCCTCGA
1 TTGTAAAATTACCGAAATACCCTCGA
* *
51898198 TTTGTAAAATTACCGAAATATGCC-CAA
1 -TTGTAAAATTACCGAAATA-CCCTCGA
* * *
51898225 TTTTTGAAATTACCGAAACACCCTCGA
1 -TTGTAAAATTACCGAAATACCCTCGA
* *
51898252 TTTGTAAAATTATCGAAATACCCT-TA
1 -TTGTAAAATTACCGAAATACCCTCGA
*
51898278 TAGTGTAAAATTACCGAAATACCCTTGTA
1 T--TGTAAAATTACCGAAATACCCTCG-A
* * * *
51898307 GTGTGAAATGACCGACATACCCT
1 TTGTAAAATTACCGAAATACCCT
51898330 TGTAGGGTAA
Statistics
Matches: 177, Mismatches: 25, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
25 1 0.01
26 52 0.29
27 121 0.68
28 2 0.01
29 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACCGAAATACCCTCGA
Found at i:51898330 original size:27 final size:27
Alignment explanation
Indices: 51898254--51898343 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
51898244 ACCCTCGATT
* * *
51898254 TGTAAAATTATCGAAATACCCTTATAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
51898281 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
51898308 TGTGAAATGACCGACATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
51898335 GGTAAAATG
1 TGTAAAATG
51898344 GCTGTTTTGC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.29
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:51899868 original size:13 final size:11
Alignment explanation
Indices: 51899841--51899874 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
51899831 CTTCGGATTG
51899841 TTTGGATTTAT
1 TTTGGATTTAT
51899852 TTTGGATTTGGAT
1 TTTGGATTT--AT
51899865 TTTGGATTTA
1 TTTGGATTTA
51899875 ACTCTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.48
13 11 0.52
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.59
Consensus pattern (11 bp):
TTTGGATTTAT
Found at i:51905321 original size:28 final size:28
Alignment explanation
Indices: 51905287--51905348 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
51905277 AACATTTATC
*
51905287 ATTTAAAAAT-AATTTCAAATTATTATTT
1 ATTTAAAAATCAA-TACAAATTATTATTT
* *
51905315 ATTT-AAATTCAATACCAATTATTATTT
1 ATTTAAAAATCAATACAAATTATTATTT
51905342 ATTTAAA
1 ATTTAAA
51905349 TTCAGTCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTTAAAAATCAATACAAATTATTATTT
Found at i:51907452 original size:93 final size:93
Alignment explanation
Indices: 51907340--51907511 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51907330 GCCCATAAGT
* *
51907340 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51907405 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
51907433 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51907498 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
51907512 CAAATATCCA
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51907507 original size:46 final size:46
Alignment explanation
Indices: 51907332--51907507 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
51907322 TGTAACCCGC
* * *
51907332 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
51907378 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
51907428 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
51907471 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51907508 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:51909932 original size:30 final size:30
Alignment explanation
Indices: 51909888--51909976 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
51909878 CAAAGATAAC
51909888 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
51909917 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
51909947 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
51909977 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:51909936 original size:15 final size:15
Alignment explanation
Indices: 51909888--51909967 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
51909878 CAAAGATAAC
*
51909888 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
51909902 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
51909917 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
51909932 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
51909947 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
51909962 AAGAAA
1 AAGAAA
51909968 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:51909976 original size:15 final size:15
Alignment explanation
Indices: 51909899--51909976 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
51909889 AGAAAACCGA
51909899 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
51909914 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
51909928 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
51909943 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
51909959 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
51909974 ATA
1 ATA
51909977 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:51913044 original size:93 final size:93
Alignment explanation
Indices: 51912932--51913103 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51912922 GCCCATAAGT
* *
51912932 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51912997 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
51913025 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
51913090 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
51913104 CAAATATCCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51913099 original size:46 final size:46
Alignment explanation
Indices: 51912924--51913099 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
51912914 TGTAACCCGC
* * *
51912924 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
51912970 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
51913020 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
51913063 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51913100 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:51915439 original size:20 final size:20
Alignment explanation
Indices: 51915414--51915455 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
51915404 CTATTTGAAC
51915414 TTACCAAACTTTCTTTAAAG
1 TTACCAAACTTTCTTTAAAG
51915434 TTACCAAACTTTCTTTAAAG
1 TTACCAAACTTTCTTTAAAG
51915454 TT
1 TT
51915456 TGTGGCATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (20 bp):
TTACCAAACTTTCTTTAAAG
Found at i:51916591 original size:33 final size:32
Alignment explanation
Indices: 51916552--51916632 Score: 139
Period size: 33 Copynumber: 2.6 Consensus size: 32
51916542 CTTAAGGTTG
51916552 TTAAATTATTAATAAGTTTATATTTTGGTAAT
1 TTAAATTATTAATAAGTTTATATTTTGGTAAT
51916584 TTAAAATTATTAATAAGTTTATATTTTGGTAAT
1 TT-AAATTATTAATAAGTTTATATTTTGGTAAT
51916617 TT-AATT-TTAATAAGTT
1 TTAAATTATTAATAAGTT
51916633 ATAAAATAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
30 10 0.21
31 4 0.08
32 2 0.04
33 32 0.67
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (32 bp):
TTAAATTATTAATAAGTTTATATTTTGGTAAT
Found at i:51916623 original size:14 final size:15
Alignment explanation
Indices: 51916568--51916624 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
51916558 TATTAATAAG
51916568 TTTATATTTTGGTAA
1 TTTATATTTTGGTAA
* **
51916583 TTTAAAATTATTAATAA
1 TTT-ATATT-TTGGTAA
51916600 GTTTATATTTTGGTAA
1 -TTTATATTTTGGTAA
51916616 TTTA-ATTTT
1 TTTATATTTT
51916625 AATAAGTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 9 0.27
17 9 0.27
18 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (15 bp):
TTTATATTTTGGTAA
Found at i:51917346 original size:18 final size:18
Alignment explanation
Indices: 51917323--51917361 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
51917313 ATTTTAACCC
51917323 CTTAAAACAAATATCTGG
1 CTTAAAACAAATATCTGG
51917341 CTTAAAACAAATATCTGG
1 CTTAAAACAAATATCTGG
51917359 CTT
1 CTT
51917362 CACTTCTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (18 bp):
CTTAAAACAAATATCTGG
Found at i:51917593 original size:30 final size:30
Alignment explanation
Indices: 51917559--51917616 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
51917549 AATTTTTTAA
* *
51917559 TTATTATTTAACATTAATATAATTTTAAAG
1 TTATTATATAACATAAATATAATTTTAAAG
* *
51917589 TTATTATATAATATAAATATGATTTTAA
1 TTATTATATAACATAAATATAATTTTAA
51917617 TATTTTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (30 bp):
TTATTATATAACATAAATATAATTTTAAAG
Found at i:51917942 original size:2 final size:2
Alignment explanation
Indices: 51917935--51917966 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
51917925 GAAGAAATGG
51917935 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
51917967 TTGATTACGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51921671 original size:15 final size:15
Alignment explanation
Indices: 51921642--51921691 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 15
51921632 ATAACTTTTG
*
51921642 TTTTTAAAGTAATATC
1 TTTTTAATGT-ATATC
51921658 TTTTTAATGTATA--
1 TTTTTAATGTATATC
51921671 --TTTAATGTATATC
1 TTTTTAATGTATATC
51921684 TTTTTAAT
1 TTTTTAAT
51921692 TATTTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
11 11 0.38
15 9 0.31
16 9 0.31
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTTTAATGTATATC
Found at i:51923403 original size:15 final size:14
Alignment explanation
Indices: 51923374--51923400 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51923364 ACATATAATA
51923374 AAATATTAAAAAAT
1 AAATATTAAAAAAT
51923388 AAATATTAAAAAA
1 AAATATTAAAAAA
51923401 ATAGAGAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:51925902 original size:16 final size:16
Alignment explanation
Indices: 51925881--51925922 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
51925871 AATTTATTTT
* *
51925881 AAAATATAAGTAATTA
1 AAAATATAAATAAATA
51925897 AAAATA-AAATAAATA
1 AAAATATAAATAAATA
51925912 AATAATATAAA
1 AA-AATATAAA
51925923 AATTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 9 0.41
16 10 0.45
17 3 0.14
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (16 bp):
AAAATATAAATAAATA
Found at i:51927582 original size:13 final size:13
Alignment explanation
Indices: 51927558--51927611 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 13
51927548 CAAATTCTAA
51927558 TTTTTATT-ATAT
1 TTTTTATTAATAT
51927570 TTTTTATTAATA-
1 TTTTTATTAATAT
* **
51927582 TTTTCAAGAA-AT
1 TTTTTATTAATAT
*
51927594 TTTTTATTAAAAT
1 TTTTTATTAATAT
51927607 TTTTT
1 TTTTT
51927612 CGTGTTCTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
11 1 0.03
12 22 0.67
13 10 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (13 bp):
TTTTTATTAATAT
Done.