Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 81 of 172
Found at i:26924872 original size:36 final size:36
Alignment explanation
Indices: 26924832--26924937 Score: 161
Period size: 36 Copynumber: 3.1 Consensus size: 36
26924822 CCTTGGTTTG
26924832 TAAATTTACCAAAACACCCTTGTAGGATGAAATGAC
1 TAAATTTACCAAAACACCCTTGTAGGATGAAATGAC
*
26924868 TAAATTTACCAAAACACCCTTGTAGG-T---TTG--
1 TAAATTTACCAAAACACCCTTGTAGGATGAAATGAC
26924898 TAAATTTACCAAAACACCCTTGTAGGATGAAATGAC
1 TAAATTTACCAAAACACCCTTGTAGGATGAAATGAC
26924934 TAAA
1 TAAA
26924938 ATACCCCTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
30 26 0.42
31 1 0.02
32 2 0.03
34 2 0.03
35 1 0.02
36 30 0.48
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (36 bp):
TAAATTTACCAAAACACCCTTGTAGGATGAAATGAC
Found at i:26924904 original size:30 final size:30
Alignment explanation
Indices: 26924826--26924923 Score: 133
Period size: 30 Copynumber: 3.1 Consensus size: 30
26924816 AAATACCCTT
26924826 GGTTTGTAAATTTACCAAAACACCCTTGTA
1 GGTTTGTAAATTTACCAAAACACCCTTGTA
*
26924856 GGATGAAATGACTAAATTTACCAAAACACCCTTGTA
1 GG-T---TTG--TAAATTTACCAAAACACCCTTGTA
26924892 GGTTTGTAAATTTACCAAAACACCCTTGTA
1 GGTTTGTAAATTTACCAAAACACCCTTGTA
26924922 GG
1 GG
26924924 ATGAAATGAC
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
30 28 0.47
31 1 0.02
32 2 0.03
34 2 0.03
35 1 0.02
36 26 0.43
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (30 bp):
GGTTTGTAAATTTACCAAAACACCCTTGTA
Found at i:26924980 original size:27 final size:27
Alignment explanation
Indices: 26924937--26925010 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
26924927 AAATGACTAA
*
26924937 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
26924964 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
26924991 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
26925011 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:26925014 original size:27 final size:27
Alignment explanation
Indices: 26924950--26925014 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
26924940 ACCCCTAATA
*
26924950 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
26924977 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
26925004 GGTAAAATGAC
1 GGTAAAATGAC
26925015 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:26925862 original size:25 final size:25
Alignment explanation
Indices: 26925824--26925918 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
26925814 AGGAAGTGCT
* *
26925824 AAAAGGGCTATGCCTCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
26925849 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
26925874 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
26925899 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
26925919 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:26925931 original size:24 final size:24
Alignment explanation
Indices: 26925824--26925931 Score: 128
Period size: 25 Copynumber: 4.4 Consensus size: 24
26925814 AGGAAGTGCT
* * *
26925824 AAAAGGGCTATGCCTCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
26925848 GAAAAGGGCTTTGCCCCAGTTTACC
1 -AAAAGGGCTTTGCCCCAGTTTATC
26925873 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
26925898 AAAAAGGGCTTTGCCCCAG-TTATT
1 -AAAAGGGCTTTGCCCCAGTTTATC
26925922 AAAAGAGGCT
1 AAAAG-GGCT
26925932 AGCCCTCCAG
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
23 5 0.06
24 8 0.10
25 64 0.83
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:26925942 original size:50 final size:50
Alignment explanation
Indices: 26925822--26925954 Score: 139
Period size: 50 Copynumber: 2.6 Consensus size: 50
26925812 GGAGGAAGTG
* *
26925822 CTAAAAGGGCTATGCCT-CAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAC
1 CTAAAAGGGCTA-GCCTCCAGTTTATCAAAAAGGGCTTTGCCCCAGTTTAC
* *
26925872 CGAAAAGGGCTTTGCC-CCAGTTTATCAAAAAGGGCTTTGCCCCAG-TTA-
1 CTAAAAGGGC-TAGCCTCCAGTTTATCAAAAAGGGCTTTGCCCCAGTTTAC
* *
26925920 TTAAAAGAGGCTAGCCCTCCAGTTATATGAAAAAG
1 CTAAAAG-GGCTAG-CCTCCAGTT-TATCAAAAAG
26925955 TAGCTATGCT
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
48 7 0.10
49 8 0.12
50 44 0.64
51 10 0.14
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (50 bp):
CTAAAAGGGCTAGCCTCCAGTTTATCAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:26926125 original size:42 final size:42
Alignment explanation
Indices: 26926066--26926157 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
26926056 TAGTCTCCCC
*
26926066 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
26926108 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
26926150 AAATGGGC
1 AAATGGGC
26926158 CTATGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:26926298 original size:28 final size:28
Alignment explanation
Indices: 26926245--26926301 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
26926235 CGAGACTGAA
* *
26926245 TTAAGGCTTAGGCCCATACTGCTACTGT
1 TTAAGGCTAAGGCCCAGACTGCTACTGT
*
26926273 TTAAGGGCTAAGGCCTAGACTG-TACTGT
1 TTAA-GGCTAAGGCCCAGACTGCTACTGT
26926301 T
1 T
26926302 ACTGAATAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (28 bp):
TTAAGGCTAAGGCCCAGACTGCTACTGT
Found at i:26928592 original size:6 final size:6
Alignment explanation
Indices: 26928581--26928647 Score: 73
Period size: 6 Copynumber: 10.8 Consensus size: 6
26928571 TATCAGAGCT
* *
26928581 AGAATC AGAATC AGAATC AAAATC AGAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
*
26928630 AGAATC AAAAATC AGAAT
1 AGAATC -AGAATC AGAAT
26928648 GTGAATGCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
5 2 0.04
6 40 0.78
7 8 0.16
8 1 0.02
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:26929448 original size:27 final size:27
Alignment explanation
Indices: 26929418--26929773 Score: 459
Period size: 27 Copynumber: 13.2 Consensus size: 27
26929408 GGGGTAAATG
* * * *
26929418 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
26929445 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
26929472 GTAATTCTACCC-ACGGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
26929498 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
26929525 GTAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
26929552 GTAATTCTACCCAACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
26929579 GTAATTCTACCCTACAAGGGTATTGC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
26929605 GATAATTCTACCCTACAGGGGTA-TTCTG
1 G-TAATTCTACCCTACAGGGGTATTTC-A
* * *
26929633 GTAATTCTACCATACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCA
26929660 GTAATTCTACCCTACAGGGGTA-TTCTA
1 GTAATTCTACCCTACAGGGGTATTTC-A
26929687 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
26929714 GTAATTCTACCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
26929741 ATAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
26929768 GTAATT
1 GTAATT
26929774 TCACAAATCA
Statistics
Matches: 292, Mismatches: 30, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
26 28 0.10
27 258 0.88
28 6 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:26929800 original size:54 final size:53
Alignment explanation
Indices: 26929418--26929827 Score: 393
Period size: 54 Copynumber: 7.6 Consensus size: 53
26929408 GGGGTAAATG
* * * * *
26929418 GTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTAT-AGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CC-ATCAGGGGTATTTCA
* *
26929472 GTAATTCTACCC-ACGGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCAT-CAGGGGTATTTCA
* * *
26929525 GTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCAACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCATCAGGGGTATTTCA
* * * * *
26929579 GTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTA-TTCTG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCAT-CAGGGGTATTTC-A
* * *
26929633 GTAATTCTACCATACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTA-TTCTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCAT-CAGGGGTATTTC-A
* *
26929687 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAT-AAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CC-ATCAGGGGTATTTCA
* * * **
26929741 ATAATTCTACCCTACAAGGGTATTTCGGTAATT-TCACAAATCAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCT-AC-CATCAGGGGTATTTCA
* ** *
26929795 GTAATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 GTAATTCTACCCTA-CAGGGGTATTTCGGTAATT
26929828 TTATTGATCG
Statistics
Matches: 304, Mismatches: 39, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
51 1 0.00
52 2 0.01
53 54 0.18
54 239 0.79
55 7 0.02
56 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (53 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCATCAGGGGTATTTCA
Found at i:26929816 original size:81 final size:81
Alignment explanation
Indices: 26929417--26929827 Score: 465
Period size: 81 Copynumber: 5.1 Consensus size: 81
26929407 AGGGGTAAAT
* * * * * *
26929417 GGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTAC
* *
26929482 C-CACGGGGGTATTTC
66 CAAACAGGGGTATTTC
*
26929497 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTAC
*
26929562 CCAACAGGGGTATTTC
66 CAAACAGGGGTATTTC
* *
26929578 GGTAATTCTACCCTACAAGGGTATTGC-GATAATTCTACCCTACAGGGGTATTCTGGTAATTCTA
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTCCGGTAATTCTA
* *
26929642 CCATACAGGGGTATTCC
65 CCAAACAGGGGTATTTC
* * *
26929659 GGTAATTCTACCCTACAGGGGTA-TTCTAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTA
1 GGTAATTCTACCCTACAAGGGTATTTC-AGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTA
** * *
26929723 CCCTATAAGGGTATTTC
65 CCAAACAGGGGTATTTC
** * ** ** *
26929740 AATAATTCTACCCTACAAGGGTATTTCGGTAATT-T-CACAAATCAGGGGTATTTTGGTAATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC-CCTA-CAGGGGTATTCCGGTAATTCT
*
26929803 A-CAAACCAGGGGTATTTT
64 ACCAAA-CAGGGGTATTTC
26929821 GGTAATT
1 GGTAATT
26929828 TTATTGATCG
Statistics
Matches: 283, Mismatches: 40, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.00
80 67 0.24
81 211 0.75
82 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTAC
CAAACAGGGGTATTTC
Found at i:26929829 original size:27 final size:27
Alignment explanation
Indices: 26929758--26929883 Score: 119
Period size: 27 Copynumber: 4.7 Consensus size: 27
26929748 TACCCTACAA
* * *
26929758 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
26929785 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*** *
26929812 GGGTATTTTGGTAATTTTATTGATC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
26929838 AGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTACAAACCAG
* **
26929866 AGGTATTTCAGTAATTTT
1 GGGTATTTTGGTAATTTT
26929884 GTAAGTCGAG
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 81 0.99
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:26929893 original size:54 final size:54
Alignment explanation
Indices: 26929759--26929897 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 54
26929749 ACCCTACAAG
* * * * **
26929759 GGTATTTCGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTCAGTAATTTTATAGATCGA-GGGTATTTTGGTAATTTTACAAACCAAA
** * **
26929813 GGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAA
1 GGTATTTCAGTAATTTTATAGATCGAGGGTATTTTGGTAATTTTACAAACCAAA
*
26929867 GGTATTTCAGTAATTTTGTA-AGTCGAGGGTA
1 GGTATTTCAGTAATTTTATAGA-TCGAGGGTA
26929898 AAATGGTAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
53 1 0.01
54 68 0.97
55 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.40
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTATAGATCGAGGGTATTTTGGTAATTTTACAAACCAAA
Found at i:26929897 original size:27 final size:27
Alignment explanation
Indices: 26929834--26929951 Score: 76
Period size: 27 Copynumber: 4.4 Consensus size: 27
26929824 AATTTTATTG
**
26929834 ATCGAGGGTATTTTGGTAATTTTGTAA
1 ATCGAGGGTATTTCAGTAATTTTGTAA
* * *
26929861 ACCAAAGGTATTTCAGTAATTTTGTAA
1 ATCGAGGGTATTTCAGTAATTTTGTAA
* ** * *
26929888 GTCGAGGGTAAAAT-GGTAATTCTGTAA
1 ATCGAGGGT-ATTTCAGTAATTTTGTAA
* *** * *
26929915 TTCGAGGGTAAGACGGTAATTCTGTAA
1 ATCGAGGGTATTTCAGTAATTTTGTAA
26929942 ATCGAGGGTA
1 ATCGAGGGTA
26929952 AAATGGTAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
26 2 0.03
27 68 0.94
28 2 0.03
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.34
Consensus pattern (27 bp):
ATCGAGGGTATTTCAGTAATTTTGTAA
Found at i:26929905 original size:54 final size:54
Alignment explanation
Indices: 26929847--26930072 Score: 213
Period size: 54 Copynumber: 4.2 Consensus size: 54
26929837 GAGGGTATTT
* *** * *
26929847 TGGTAATTTTGTAAACCAAAGGTATTTCAGTAATTTTGTAAGTCGAGGGTAAAA
1 TGGTAATTCTGTAAACCAAAGGTAAGACAGTAATTCTGTAAATCGAGGGTAAAA
** * * *
26929901 TGGTAATTCTGTAATTCGAGGGTAAGACGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAACCAAAGGTAAGACAGTAATTCTGTAAATCGAGGGTAAAA
* * * * * *
26929955 TGGTAATTCTATAAATCGAGGGTAAAAC-GATAATTCTGTAAATCGAAGGTAAAA
1 TGGTAATTCTGTAAACCAAAGGTAAGACAG-TAATTCTGTAAATCGAGGGTAAAA
* *** * *
26930009 TGGTAATTCTGTAAATCTTGGGTAAAAC-GATAATTCTGTAAATTGAGGGTAAAA
1 TGGTAATTCTGTAAACCAAAGGTAAGACAG-TAATTCTGTAAATCGAGGGTAAAA
26930063 TGGTAATTCT
1 TGGTAATTCT
26930073 ATCTTACAGG
Statistics
Matches: 151, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 1 0.01
54 150 0.99
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.32
Consensus pattern (54 bp):
TGGTAATTCTGTAAACCAAAGGTAAGACAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:26929933 original size:81 final size:81
Alignment explanation
Indices: 26929848--26930072 Score: 193
Period size: 81 Copynumber: 2.8 Consensus size: 81
26929838 AGGGTATTTT
* ** * * * * *
26929848 GGTAATTTTGTAAACCAAAGGT-ATTTCAGTAATTTTGTAAGTCGAGGGTAAAATGGTAATTCTG
1 GGTAATTCTGTAAACCAAAGGTAAAAT-AGTAATTCTATAAATCGAGGGTAAAACGATAATTCTG
* * *
26929912 TAATTCGAGGGTAAGAC
65 TAAATCGAAGGTAAAAC
* * * *
26929929 GGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGT
1 GGTAATTCTGTAAACCAAAGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGT
*
26929994 AAATCGAAGGTAAAAT
66 AAATCGAAGGTAAAAC
* *** * * * * *
26930010 GGTAATTCTGTAAATCTTGGGTAAAA-CGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCT
1 GGTAATTCTGTAAACCAAAGGTAAAATAG-TAATTCTATAAATCGAGGGTAAAACGATAATTCT
26930073 ATCTTACAGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
80 1 0.01
81 116 0.97
82 2 0.02
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.32
Consensus pattern (81 bp):
GGTAATTCTGTAAACCAAAGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGT
AAATCGAAGGTAAAAC
Found at i:26929952 original size:27 final size:27
Alignment explanation
Indices: 26929876--26930072 Score: 268
Period size: 27 Copynumber: 7.3 Consensus size: 27
26929866 AGGTATTTCA
* *
26929876 GTAATTTTGTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
26929903 GTAATTCTGTAATTCGAGGGTAAGACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
26929930 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
26929957 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
26929984 ATAATTCTGTAAATCGAAGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
** *
26930011 GTAATTCTGTAAATCTTGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
26930038 ATAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
26930065 GTAATTCT
1 GTAATTCT
26930073 ATCTTACAGG
Statistics
Matches: 146, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:26930115 original size:27 final size:26
Alignment explanation
Indices: 26930085--26930205 Score: 120
Period size: 27 Copynumber: 4.5 Consensus size: 26
26930075 CTTACAGGAA
26930085 TATTTCAGTAATTTTACAAATCGAGGG
1 TATTTCAGTAATTTTACAAA-CGAGGG
*
26930112 TATTTCAGTAATTTTGCAAACTGAGGG
1 TATTTCAGTAATTTTACAAAC-GAGGG
* * *
26930139 TATTTCGGTAATTTTATAAACCAGGGG
1 TATTTCAGTAATTTTACAAACGA-GGG
* * *
26930166 TACTTT-GGCAATTTTAC-AACTAGGGG
1 TA-TTTCAGTAATTTTACAAACGA-GGG
26930192 TATTTCAGTAATTT
1 TATTTCAGTAATTT
26930206 GGTAAACTGA
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
25 3 0.04
26 18 0.22
27 56 0.70
28 3 0.04
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.39
Consensus pattern (26 bp):
TATTTCAGTAATTTTACAAACGAGGG
Found at i:26931851 original size:27 final size:27
Alignment explanation
Indices: 26931821--26931910 Score: 153
Period size: 27 Copynumber: 3.3 Consensus size: 27
26931811 TACTGAAATG
*
26931821 CCCTCGATTTGTAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
26931848 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
26931875 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
26931902 CCCTCGATT
1 CCCTCGATT
26931911 GTGAAATTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:26931972 original size:27 final size:27
Alignment explanation
Indices: 26931942--26932092 Score: 196
Period size: 27 Copynumber: 5.6 Consensus size: 27
26931932 TGTAGGATAG
26931942 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
26931969 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
26931996 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
26932023 AATTACCGACATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
**
26932050 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
*
26932077 AATTACAAAAATACCC
1 AATTACCAAAATACCC
26932093 TTGACTTTCT
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:26932029 original size:81 final size:81
Alignment explanation
Indices: 26931942--26932091 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
26931932 TGTAGGATAG
* ** *
26931942 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGA-TTTACAAAATTACAAAA
26932006 ATACCACTGGTTTGTGA
65 ATACCACTGGTTTGTGA
* * *
26932023 AATTACCGACATACCCTTAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAAA
26932088 TACC
66 TACC
26932092 CTTGACTTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 60 0.98
82 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAAA
TACCACTGGTTTGTGA
Found at i:26932093 original size:54 final size:54
Alignment explanation
Indices: 26931942--26932175 Score: 193
Period size: 54 Copynumber: 4.3 Consensus size: 54
26931932 TGTAGGATAG
** *
26931942 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTACAAAATTACCAAAATACCCTTAGTTTGTAA
* * *** * * *
26931996 AATTACCAAAATACCACTGGTTTGTGAAATTACCGACATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCTTAGTTTGTAA
* * *
26932050 AATTACCAAAATACCCCTGATTTACAAAATTACAAAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCTT-AGTTTGT-AA
* ** * ** * * *
26932106 AATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAGTACCCTTGGTTTGTAG
1 AATTACCA-AAATACCCCTGATTTACAAAATTACCAAAATACCCTTAGTTTGTAA
* *
26932160 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
26932176 TTGTAGGATG
Statistics
Matches: 143, Mismatches: 32, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
54 94 0.66
55 11 0.08
56 38 0.27
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCTTAGTTTGTAA
Found at i:26932147 original size:27 final size:27
Alignment explanation
Indices: 26932104--26932155 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
26932094 TGACTTTCTA
26932104 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
* *
26932131 AAAATTACT-GAAGTACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
26932156 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:26933121 original size:25 final size:25
Alignment explanation
Indices: 26933083--26933172 Score: 128
Period size: 25 Copynumber: 3.6 Consensus size: 25
26933073 AGGAAGTGCT
* *
26933083 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
26933108 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
26933133 AAAAGGGCTTTG-CCTCAGTTTATCA
1 AAAAGGGCTTTGCCCT-AGTTTACCA
26933158 AAAAGGGCTTTGCCC
1 AAAAGGGCTTTGCCC
26933173 CAATTATTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
24 2 0.03
25 54 0.93
26 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:26933384 original size:42 final size:42
Alignment explanation
Indices: 26933325--26933416 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
26933315 TAGTCTCCCC
*
26933325 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
26933367 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
26933409 AAATGGGC
1 AAATGGGC
26933417 CTATGGGCTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:26940259 original size:20 final size:20
Alignment explanation
Indices: 26940188--26940259 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
26940178 CATAAGTGAA
26940188 CTCGGACTCAACTCAATGAG
1 CTCGGACTCAACTCAATGAG
* * * *
26940208 CTCGGGCGTTTGCATCCACAAGTGAA
1 CTCGGAC---T-CA-ACTCAA-TGAG
26940234 CTCGGACTCAACTCAATGAG
1 CTCGGACTCAACTCAATGAG
26940254 CTCGGA
1 CTCGGA
26940260 TGCCTAGTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
20 15 0.39
21 4 0.11
22 2 0.05
23 2 0.05
24 2 0.05
25 4 0.11
26 9 0.24
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (20 bp):
CTCGGACTCAACTCAATGAG
Found at i:26940302 original size:47 final size:47
Alignment explanation
Indices: 26940231--26940492 Score: 245
Period size: 47 Copynumber: 5.6 Consensus size: 47
26940221 ATCCACAAGT
*
26940231 GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * * *
26940278 GAACTCGGACTCAACTTAACGAGCTC--A-GAC-ATTTGCATC-CATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC-T---C
*
26940324 GAACTCGGAATCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * * * * ***
26940371 GAACTCAGACTCAAGTCAACGAGTTTGGACATTCGC-A--TCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATCTCTC
26940417 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
*
26940464 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
26940493 CATTCGCATC
Statistics
Matches: 167, Mismatches: 32, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
42 1 0.01
43 9 0.05
44 6 0.04
45 1 0.01
46 53 0.32
47 80 0.48
48 1 0.01
49 6 0.04
50 9 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:26940302 original size:93 final size:93
Alignment explanation
Indices: 26940185--26940542 Score: 563
Period size: 93 Copynumber: 3.8 Consensus size: 93
26940175 GCCCATAAGT
* * * * *
26940185 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCATCCACAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
26940250 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
26940278 GAACTCGGACTCAACTTAACGAGCTCAGACATTTGCATCCATAAGTGAACTCGGAATCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
26940343 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
26940371 GAACTCAGACTCAAGTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
26940436 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
26940464 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
26940529 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
26940543 CAAATATCCT
Statistics
Matches: 244, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 244 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:26940538 original size:46 final size:46
Alignment explanation
Indices: 26940177--26940538 Score: 265
Period size: 46 Copynumber: 7.8 Consensus size: 46
26940167 TGTAACCCGC
* * * *
26940177 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
26940223 CCACAAGTGAACTCGGACTCAACTCAATGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * * *
26940269 ACATCTCTCGAACTCGGACTCAACTTAACGAGCTCAGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
26940316 CCATAAGTGAACTCGGAATCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * * * *
26940362 ACATCTCTCGAACTCAGACTCAAGTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
26940409 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
26940455 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
26940502 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
26940539 TGCCCAAATA
Statistics
Matches: 243, Mismatches: 52, Indels: 42
0.72 0.15 0.12
Matches are distributed among these distances:
43 3 0.01
44 9 0.04
46 127 0.52
47 90 0.37
49 11 0.05
50 3 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:26948913 original size:40 final size:40
Alignment explanation
Indices: 26948839--26949700 Score: 1663
Period size: 40 Copynumber: 21.6 Consensus size: 40
26948829 AACCCAAGTA
* * *
26948839 CCTTCGGGATTTAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
* * *
26948878 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26948918 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26948958 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26948998 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949038 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949078 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949118 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949158 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949198 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949238 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949278 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949318 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949358 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949398 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949438 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949478 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949518 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949558 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949598 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949638 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
26949678 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
26949701 CATTCGAATA
Statistics
Matches: 814, Mismatches: 8, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
39 12 0.01
40 802 0.99
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
Found at i:26978516 original size:40 final size:40
Alignment explanation
Indices: 26978442--26978663 Score: 342
Period size: 40 Copynumber: 5.6 Consensus size: 40
26978432 AACCCAAGTA
* *
26978442 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
26978481 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
26978521 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
26978561 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
26978601 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
26978641 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
26978664 TATTCGAATA
Statistics
Matches: 169, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 15 0.09
40 148 0.88
41 6 0.04
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:26978574 original size:80 final size:80
Alignment explanation
Indices: 26978442--26978663 Score: 383
Period size: 80 Copynumber: 2.8 Consensus size: 80
26978432 AACCCAAGTA
* *
26978442 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
26978506 TCAATAGCACAAAAG
66 TCAATAGCACAAAAG
26978521 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
26978586 TCAATAGCACAAATG
66 TCAATAGCACAAAAG
** *
26978601 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
26978664 TATTCGAATA
Statistics
Matches: 136, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 13 0.10
80 123 0.90
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:26990838 original size:27 final size:26
Alignment explanation
Indices: 26990808--26990984 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 26
26990798 AAATTGTACA
*
26990808 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
26990835 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
26990862 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
*
26990889 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
26990917 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * * *
26990944 GCACTAAGTGTACGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
26990971 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
26990985 GGCTCAATGT
Statistics
Matches: 125, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.78
28 26 0.21
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:26990948 original size:82 final size:81
Alignment explanation
Indices: 26990808--26990963 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
26990798 AAATTGTACA
* * *
26990808 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
*
26990873 GCGAATTGACCATGCG
66 ACGAATTGACCATGCG
** *
26990889 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAGT
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
26990953 GTACGAGTTGA
64 GTACGAATTGA
26990964 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
ACGAATTGACCATGCG
Found at i:26990975 original size:82 final size:81
Alignment explanation
Indices: 26990804--26990984 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
26990794 GATTAAATTG
* * *
26990804 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
26990869 GTGTGCGAATTGACCA
66 GTGTACGAATTGACCA
* * ** *
26990885 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
26990949 AAGTGTACGAGTTGATTA
64 AAGTGTACGAATTGACCA
* *
26990967 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
26990985 GGCTCAATGT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTACGAATTGACCA
Found at i:27006795 original size:27 final size:27
Alignment explanation
Indices: 27006765--27006942 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
27006755 ATATTGAGCC
* *
27006765 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
27006792 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
27006819 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
27006847 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
27006874 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
27006901 CGCACACTTAGTACAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
27006928 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27006943 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:27006904 original size:82 final size:81
Alignment explanation
Indices: 27006786--27006941 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
27006776 TGCTATATAA
* * * *
27006786 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTACAACATAGTC-GAATCGCA
27006851 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27006868 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTACAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTACAACATAGTCGAATCGCA
27006932 CACTTAGTGC
65 CACTTAGTGC
27006942 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTACAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27016694 original size:49 final size:50
Alignment explanation
Indices: 27016635--27016765 Score: 158
Period size: 49 Copynumber: 2.7 Consensus size: 50
27016625 GGGTAAAGTT
* * * *
27016635 CCGATGCCATGCCCCAAACATGGTCTTACACTGGCTATCATCTTAGAG-G
1 CCGATTCCATGTCCCAAACATGGTCTTACACTGGCTATCATATAAGAGTG
* * * **
27016684 CCGATTCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAATCGTG
1 CCGATTCCATGTCCCAAACATGGTCTTACACTGGCTATCATATAAGAGTG
*
27016734 CCGA-TACATGTCCCAAACATGGTCTTACACTG
1 CCGATTCCATGTCCCAAACATGGTCTTACACTG
27016766 ACACATCTCG
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
49 64 0.93
50 5 0.07
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (50 bp):
CCGATTCCATGTCCCAAACATGGTCTTACACTGGCTATCATATAAGAGTG
Found at i:27019149 original size:49 final size:50
Alignment explanation
Indices: 27019069--27019301 Score: 267
Period size: 49 Copynumber: 4.7 Consensus size: 50
27019059 ATCTATTGTG
* *
27019069 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
* * * * *
27019119 -GGTCGCATGTGTAGTTCTAAGTGTAGGCTACTATGCGTACCT-GATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CTGGATAA-TT
* * * * **
27019169 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-GGATAATT
*
27019219 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
* *
27019269 -GGTCGCATGTGTAGTACTAAGTGCAGGATACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
27019302 TGCGTACCAG
Statistics
Matches: 155, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
49 70 0.45
50 49 0.32
51 36 0.23
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
Found at i:27019206 original size:28 final size:28
Alignment explanation
Indices: 27019174--27019257 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
27019164 AACTTCGATC
27019174 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
27019202 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
27019224 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
27019252 ACGTGT
1 ACGTGT
27019258 ACTGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:27025861 original size:12 final size:12
Alignment explanation
Indices: 27025844--27025869 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27025834 GTGGTCTCAA
27025844 AACTACCATTCT
1 AACTACCATTCT
27025856 AACTACCATTCT
1 AACTACCATTCT
27025868 AA
1 AA
27025870 ATAGGGTCTA
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:0.31, G:0.00, T:0.31
Consensus pattern (12 bp):
AACTACCATTCT
Found at i:27035412 original size:26 final size:26
Alignment explanation
Indices: 27035360--27035483 Score: 160
Period size: 26 Copynumber: 4.8 Consensus size: 26
27035350 CCTCTTTAAT
* **
27035360 AACTGGGGCA-AAACCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
27035385 AACTGGGGCATAAGCCCTCTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
27035411 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
27035437 AACTAGGGCACAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
***
27035463 AACTACAGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
27035484 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 10 0.11
26 78 0.89
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:27035558 original size:20 final size:20
Alignment explanation
Indices: 27035533--27035589 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
27035523 TTATCATTAC
*
27035533 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
27035552 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
27035573 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
27035590 CCACATATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:27035957 original size:20 final size:21
Alignment explanation
Indices: 27035932--27035971 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27035922 TGGGCCCGAA
*
27035932 AGCCCAT-TAGGCCCAACTTC
1 AGCCCATCGAGGCCCAACTTC
27035952 AGCCCATCGAGGCCCAACTT
1 AGCCCATCGAGGCCCAACTT
27035972 ACCGTCATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.40, G:0.17, T:0.17
Consensus pattern (21 bp):
AGCCCATCGAGGCCCAACTTC
Found at i:27041128 original size:28 final size:27
Alignment explanation
Indices: 27041096--27041247 Score: 89
Period size: 27 Copynumber: 5.6 Consensus size: 27
27041086 TTAGTTTACC
27041096 AAATTACTGAAATACCCTCGACTTATAA
1 AAATTACTGAAATACCCTCGA-TTATAA
*
27041124 AAATTAC-CAAAGTACCCTCGATT-TATA
1 AAATTACTGAAA-TACCCTCGATTATA-A
* ***
27041151 GAATTACTGTTTTACCCTCGATT-TACA
1 AAATTACTGAAATACCCTCGATTATA-A
*** *
27041178 AAATTACTGTTTTACCCTTGATT-TACA
1 AAATTACTGAAATACCCTCGATTATA-A
* *** * *
27041205 AAATTACCGTTTTACCCTCGATTGT-G
1 AAATTACTGAAATACCCTCGATTATAA
27041231 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
27041248 CTATAGGGAT
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
26 15 0.14
27 72 0.69
28 17 0.16
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTATAA
Found at i:27041166 original size:27 final size:27
Alignment explanation
Indices: 27041136--27041227 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
27041126 ATTACCAAAG
* *
27041136 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
27041163 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
27041190 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
27041217 TACCCTCGATT
1 TACCCTCGATT
27041228 GTGAAATTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:27041249 original size:27 final size:26
Alignment explanation
Indices: 27041219--27041362 Score: 85
Period size: 27 Copynumber: 5.3 Consensus size: 26
27041209 TACCGTTTTA
**
27041219 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* * *
27041246 CCCT-ATAGGGATAGAATTACCAAAACAC
1 CCCTGATTGTG--A-AATTACCAAAATAC
* *
27041274 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* * **
27041301 CACTAGTTTGTGAAATTACTGAAATA-
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
27041327 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTGAAATTACCAAAATAC
27041355 CCCTGATT
1 CCCTGATT
27041363 TACAAAATTA
Statistics
Matches: 88, Mismatches: 22, Indels: 15
0.70 0.18 0.12
Matches are distributed among these distances:
25 4 0.05
26 5 0.06
27 57 0.65
28 20 0.23
30 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.28
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCAAAATAC
Found at i:27041363 original size:27 final size:26
Alignment explanation
Indices: 27041260--27041372 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
27041250 ATAGGGATAG
*
27041260 AATTACCAAAACACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTA-TTTGTAA
* *
27041287 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTA-TTTGTAA
** *
27041314 AATTACTGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCC-CTATTTGTAA
**
27041341 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCT-ATTTGTAA
27041368 AATTA
1 AATTA
27041373 GAGAAATACC
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 68 0.96
28 2 0.03
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (26 bp):
AATTACCAAAATACCCCTATTTGTAA
Found at i:27041370 original size:81 final size:81
Alignment explanation
Indices: 27041190--27041372 Score: 192
Period size: 81 Copynumber: 2.3 Consensus size: 81
27041180 ATTACTGTTT
* **** * *
27041190 TACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTGTGAAATTACTGAAATACCCCTATAGG
1 TACCCCTGATTTACAAAATTACCAAAATACCCTAGATTGTGAAATTACTGAAATACCCCAATAGG
*
27041255 GATAGAATTACCAAAA
66 GATAAAATTACCAAAA
* ** *
27041271 CACCCCT-AGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACTGAAATACCCTCAAT
1 TACCCCTGA-TTTACAAAATTACCAAAATACC-CTAGATTGTGAAATTACTGAAATACCC-CAAT
**
27041335 -TTG-TAAAATTACCAAAA
63 AGGGATAAAATTACCAAAA
27041352 TACCCCTGATTTACAAAATTA
1 TACCCCTGATTTACAAAATTA
27041373 GAGAAATACC
Statistics
Matches: 81, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
80 1 0.01
81 50 0.62
82 27 0.33
83 3 0.04
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (81 bp):
TACCCCTGATTTACAAAATTACCAAAATACCCTAGATTGTGAAATTACTGAAATACCCCAATAGG
GATAAAATTACCAAAA
Found at i:27041371 original size:54 final size:54
Alignment explanation
Indices: 27041280--27041410 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 54
27041270 ACACCCCTAG
* *** *
27041280 TTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACTGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAATACCCTCAA
* * **
27041334 TTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTAGAGAAATACCTTTGA
1 TTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAGAAATACCCTCAA
***
27041388 TTTGTAGTTTTACCAAAATACCC
1 TTTGTAAAATTACCAAAATACCC
27041411 TTGTAGGATG
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 63 0.98
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAATACCCTCAA
Found at i:27041523 original size:25 final size:27
Alignment explanation
Indices: 27041463--27041523 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
27041453 ATTGTAAAGC
* *
27041463 CCCTGTAGGGTAAAGTGACCGTAATAT
1 CCCTGTATGGTAAAATGACCGTAATAT
27041490 CCCTGTATGGTAAAATGA-CG-AATAT
1 CCCTGTATGGTAAAATGACCGTAATAT
27041515 GCCCT-TATG
1 -CCCTGTATG
27041524 TTCCATATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 9 0.29
26 6 0.19
27 16 0.52
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (27 bp):
CCCTGTATGGTAAAATGACCGTAATAT
Found at i:27042356 original size:25 final size:25
Alignment explanation
Indices: 27042317--27042411 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
27042307 AGGAAGTGCT
**
27042317 AAAAGGGCTACGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
27042342 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
27042367 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
27042392 AAAAGGGTTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
27042412 ATTAAAGGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:27042618 original size:42 final size:42
Alignment explanation
Indices: 27042559--27042650 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
27042549 TAGTCTCCCC
*
27042559 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
27042601 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
27042643 AAATGGGC
1 AAATGGGC
27042651 CTGTGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:27042712 original size:31 final size:31
Alignment explanation
Indices: 27042674--27042752 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
27042664 CGTTTGCAAT
*
27042674 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
27042705 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
27042736 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
27042753 AATCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:27045804 original size:26 final size:26
Alignment explanation
Indices: 27045739--27045835 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
27045729 CCTCTTTAAT
27045739 AACTGGGGCA-AAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
27045764 AA-TTGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
27045789 AACTGGGGCATAAGCCCTATTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
27045815 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
27045836 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.09
25 19 0.29
26 40 0.62
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:27045910 original size:20 final size:20
Alignment explanation
Indices: 27045885--27045959 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
27045875 TTATGATTAC
*
27045885 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
27045905 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
27045925 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
27045945 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
27045960 TCCCACATAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:27045916 original size:11 final size:11
Alignment explanation
Indices: 27045885--27045940 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
27045875 TTATGATTAC
27045885 ATCATGTGCAT
1 ATCATGTGCAT
* *
27045896 TTCA--TACAT
1 ATCATGTGCAT
27045905 ATCATGTGCAT
1 ATCATGTGCAT
*
27045916 ATCA--TACAT
1 ATCATGTGCAT
27045925 ATCATGTGCAT
1 ATCATGTGCAT
27045936 ATCAT
1 ATCAT
27045941 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:27045957 original size:9 final size:10
Alignment explanation
Indices: 27045902--27045958 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
27045892 GCATTTCATA
27045902 CATATCATGT
1 CATATCATGT
*
27045912 GCATATCAT-A
1 -CATATCATGT
27045922 CATATCATGT
1 CATATCATGT
*
27045932 GCATATCATAT
1 -CATATCATGT
27045943 CA-ATCATGT
1 CATATCATGT
27045952 -ATATCAT
1 CATATCAT
27045959 ATCCCACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:27051838 original size:13 final size:14
Alignment explanation
Indices: 27051810--27051843 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
27051800 TAATATATTG
*
27051810 ATTATTTTTATGTT
1 ATTATATTTATGTT
27051824 ATTATATTT-TGTT
1 ATTATATTTATGTT
27051837 ATTATAT
1 ATTATAT
27051844 GAGATGTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (14 bp):
ATTATATTTATGTT
Found at i:27052098 original size:50 final size:50
Alignment explanation
Indices: 27051979--27052273 Score: 252
Period size: 50 Copynumber: 5.9 Consensus size: 50
27051969 ACTGTGAGAA
* *** *
27051979 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTGAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGT
*
27052031 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * *** * * * *
27052081 CGCATATGTAGTACTAAGTGTAGGCTACTATACATACCTGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
* * ** *
27052132 CACGTGTGCAGTACTAAGTGCAGGCTACTATGTGTATTAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * * * *
27052182 CACGTGTTTAGTACTAAGTACAGGCTATTACGTATACCAAATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* **
27052231 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
27052274 ACTTTAGTTT
Statistics
Matches: 189, Mismatches: 51, Indels: 9
0.76 0.20 0.04
Matches are distributed among these distances:
49 38 0.20
50 78 0.41
51 34 0.18
52 39 0.21
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:27052303 original size:150 final size:151
Alignment explanation
Indices: 27051988--27052306 Score: 385
Period size: 150 Copynumber: 2.1 Consensus size: 151
27051978 ACACATGTGT
* *
27051988 AGTACTATGTGCAGGCTACTATGTGTTGAAGATGGTTTTAGGTCACATGTGTAGTACTAAGTGCA
1 AGTAATATGTGCAGGCTACTATGTGTTGAAGATGG-TTTAGGTCACATGTGTAGTACTAAGTACA
* * *
27052053 GGCTACTACGTGTACCAGATAGTTAGGTCGCATATGTAGTACTAAGTGTAGGCTACTATACATAC
65 GGCTACTACGTATACCAAATAGTTAGGTCGCATATGTAGTACTAAGTGCAGGCTACTATACATAC
* * *
27052118 CTGACAACTTCAATCACGTGTG
130 CAGACAACTTCAATCAAGGGTG
* * * * *
27052140 CAGTACTAAGTGCAGGCTACTATGTGTAT-TAGATGG-TTAGGTCACGTGTTTAGTACTAAGTAC
1 -AGTAATATGTGCAGGCTACTATGTGT-TGAAGATGGTTTAGGTCACATGTGTAGTACTAAGTAC
* * * *
27052203 AGGCTATTACGTATACCAAATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATA
64 AGGCTACTACGTATACCAAATAGTTAGGTCGCATATGTAGTACTAAGTGCAGGCTACTATACATA
* * *
27052267 CCAGATAACTTTAGTTTCAAGGGTG
129 CCAGACAACTTCA--ATCAAGGGTG
27052292 -GTAATATGTGCAGGC
1 AGTAATATGTGCAGGC
27052307 AACTGTGTAT
Statistics
Matches: 143, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
150 59 0.41
151 45 0.31
152 7 0.05
153 31 0.22
154 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (151 bp):
AGTAATATGTGCAGGCTACTATGTGTTGAAGATGGTTTAGGTCACATGTGTAGTACTAAGTACAG
GCTACTACGTATACCAAATAGTTAGGTCGCATATGTAGTACTAAGTGCAGGCTACTATACATACC
AGACAACTTCAATCAAGGGTG
Found at i:27055899 original size:39 final size:39
Alignment explanation
Indices: 27055845--27056022 Score: 293
Period size: 39 Copynumber: 4.6 Consensus size: 39
27055835 ATCATAATTG
*
27055845 TATGTGCTAGAATTATATCCGGACTTCAGGTCCACAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCACAGGC
27055884 TATGTGCTGGAATTATATCCGGACTTCAGGTCCACAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCACAGGC
* *
27055923 TATGTGCTGAAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCACAGGC
* * *
27055962 TATATGCTGGAATTATATCCGGACTTCAGATCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCACAGGC
*
27056001 TATGAGCTGGAATTATATCCGG
1 TATGTGCTGGAATTATATCCGG
27056023 GCTTAAATTC
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 131 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (39 bp):
TATGTGCTGGAATTATATCCGGACTTCAGGTCCACAGGC
Found at i:27060766 original size:29 final size:29
Alignment explanation
Indices: 27060732--27060805 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
27060722 TAATCAACCG
*
27060732 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
27060761 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
27060790 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
27060806 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:27066672 original size:39 final size:39
Alignment explanation
Indices: 27066618--27067068 Score: 866
Period size: 39 Copynumber: 11.6 Consensus size: 39
27066608 ATCATAATTG
*
27066618 TATGTGCTAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
27066657 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
27066696 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
27066735 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
27066774 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
27066813 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
27066852 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
27066891 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
27066930 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
27066969 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
27067008 TATATGCTGGAATTATATCCGGACTTCAGATCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
*
27067047 TATGAGCTGGAATTATATCCGG
1 TATGTGCTGGAATTATATCCGG
27067069 GCTTAAATTC
Statistics
Matches: 407, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 407 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (39 bp):
TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:27081485 original size:27 final size:27
Alignment explanation
Indices: 27081455--27081592 Score: 158
Period size: 27 Copynumber: 5.1 Consensus size: 27
27081445 ACGAAGTCAA
27081455 CAGATATAGATATTGTGGCAGAGCCAC
1 CAGATATAGATATTGTGGCAGAGCCAC
* *
27081482 CAGA-ACAGATATATGTGGCAAAGCCAC
1 CAGATATAGATAT-TGTGGCAGAGCCAC
*
27081509 CAGAT-TAGATAATTGTGGCATAGCCAC
1 CAGATATAGAT-ATTGTGGCAGAGCCAC
*
27081536 CAG-GATAGATATATGTGGCAGAGCCAC
1 CAGATATAGATAT-TGTGGCAGAGCCAC
* *
27081563 CAGAT-CAGATAATTGTGGCATAGCCAC
1 CAGATATAGAT-ATTGTGGCAGAGCCAC
27081590 CAG
1 CAG
27081593 GACACTTCCT
Statistics
Matches: 95, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
26 9 0.09
27 82 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATAGATATTGTGGCAGAGCCAC
Found at i:27081593 original size:54 final size:54
Alignment explanation
Indices: 27081462--27081596 Score: 218
Period size: 54 Copynumber: 2.5 Consensus size: 54
27081452 CAACAGATAT
* * *
27081462 AGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAAAGCCACCAGATT
1 AGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAAAGCCACCAGATC
* *
27081515 AGATAATTGTGGCATAGCCACCAGGATAGATATATGTGGCAGAGCCACCAGATC
1 AGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAAAGCCACCAGATC
27081569 AGATAATTGTGGCATAGCCACCAGGACA
1 AGATAATTGTGGCATAGCCACCAGGACA
27081597 CTTCCTCCAT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
53 4 0.05
54 71 0.95
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (54 bp):
AGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAAAGCCACCAGATC
Found at i:27084449 original size:26 final size:26
Alignment explanation
Indices: 27084404--27084527 Score: 205
Period size: 26 Copynumber: 4.8 Consensus size: 26
27084394 CCTCTTTAAT
**
27084404 AACTGGGGCA-AAGCCCTTTTCTGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
27084429 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
27084455 AACTAGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
27084481 AACTGAGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
27084507 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
27084528 GCACTTCCTC
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 10 0.11
26 82 0.89
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:27084602 original size:20 final size:20
Alignment explanation
Indices: 27084577--27084651 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
27084567 TTATGATTAC
*
27084577 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
27084597 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
27084617 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
27084637 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
27084652 TCCCACATAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:27084608 original size:11 final size:11
Alignment explanation
Indices: 27084577--27084632 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
27084567 TTATGATTAC
27084577 ATCATGTGCAT
1 ATCATGTGCAT
* *
27084588 TTCA--TACAT
1 ATCATGTGCAT
27084597 ATCATGTGCAT
1 ATCATGTGCAT
*
27084608 ATCA--TACAT
1 ATCATGTGCAT
27084617 ATCATGTGCAT
1 ATCATGTGCAT
27084628 ATCAT
1 ATCAT
27084633 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:27084649 original size:9 final size:10
Alignment explanation
Indices: 27084594--27084650 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
27084584 GCATTTCATA
27084594 CATATCATGT
1 CATATCATGT
*
27084604 GCATATCAT-A
1 -CATATCATGT
27084614 CATATCATGT
1 CATATCATGT
*
27084624 GCATATCATAT
1 -CATATCATGT
27084635 CA-ATCATGT
1 CATATCATGT
27084644 -ATATCAT
1 CATATCAT
27084651 ATCCCACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:27092559 original size:26 final size:26
Alignment explanation
Indices: 27092517--27092640 Score: 189
Period size: 26 Copynumber: 4.8 Consensus size: 26
27092507 CCTCTTTAAT
**
27092517 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
27092542 AATTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
27092568 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
27092594 AACTAGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
27092620 AACT-GGGCTATAAGCCCTTTT
1 AACTGGGGC-ATAAGCCCTTTT
27092641 GCACTTCCTC
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
25 13 0.14
26 79 0.86
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:27092715 original size:20 final size:20
Alignment explanation
Indices: 27092690--27092746 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
27092680 TTATGATTAC
*
27092690 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
27092709 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
27092730 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
27092747 CCACATATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:27093114 original size:20 final size:21
Alignment explanation
Indices: 27093089--27093128 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27093079 TGGGCCCGAA
*
27093089 AGCCCATTG-GGCCCAACTTC
1 AGCCCATCGAGGCCCAACTTC
27093109 AGCCCATCGAGGCCCAACTT
1 AGCCCATCGAGGCCCAACTT
27093129 ATCGTCATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.23, C:0.40, G:0.20, T:0.17
Consensus pattern (21 bp):
AGCCCATCGAGGCCCAACTTC
Found at i:27095299 original size:46 final size:46
Alignment explanation
Indices: 27095246--27095336 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
27095236 TATATATACA
* *
27095246 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACATATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
27095292 CATCTCATACATGTTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACATATCTCACATTAGCCATTCGGCCTTACCACATAT
27095337 ATACATGTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACATATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:27095372 original size:47 final size:47
Alignment explanation
Indices: 27095310--27096444 Score: 1957
Period size: 47 Copynumber: 24.1 Consensus size: 47
27095300 ACATGTTTCG
* * * * **
27095310 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
* * * *
27095357 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
* *
27095404 CATTGGCCATTCGGTCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27095451 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27095498 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27095545 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27095592 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27095639 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27095686 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27095733 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27095780 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27095827 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27095874 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27095921 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27095968 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27096015 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27096062 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27096109 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27096156 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
27096203 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
* * *
27096250 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
* *
27096297 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
* * * ** *
27096344 CATTAGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCA--C--AGATACGCATGTTCACATTCATCA
* * * * **
27096395 CATTTGCCATTCGGCCTTATCTCATATATACA-GATTCACATTCATCA
1 CATTGGCCACTCGGCCTTATCACAGATACGCATG-TTCACATTCATCA
27096442 CAT
1 CAT
27096445 AAAATCCTAA
Statistics
Matches: 1062, Mismatches: 21, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 1019 0.96
49 2 0.00
51 40 0.04
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (47 bp):
CATTGGCCACTCGGCCTTATCACAGATACGCATGTTCACATTCATCA
Found at i:27100056 original size:27 final size:28
Alignment explanation
Indices: 27099972--27100067 Score: 131
Period size: 27 Copynumber: 3.4 Consensus size: 28
27099962 CATGAGATTG
* * * *
27099972 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
27100001 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
27100029 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
27100056 GCACTGAGTGTG
1 GCACTAAGTGTG
27100068 TGGACTTAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
29 18 0.29
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:27100080 original size:27 final size:27
Alignment explanation
Indices: 27100000--27100082 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
27099990 TAAATTGTAC
* *
27100000 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
27100028 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
* *
27100055 AGCACTGAGTGTGTGGACTT-AATATAT
1 AGCACTAAGTGTG-CGACTTGAATATAT
27100082 A
1 A
27100083 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:27100082 original size:29 final size:27
Alignment explanation
Indices: 27099972--27100083 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
27099962 CATGAGATTG
** * *
27099972 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
27100001 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
27100029 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
* *
27100056 GCACTGAGTGTGTGGACTTAATATATAT
1 GCACTAAGTGTG-CGACTTAAT-TATAT
27100084 TTTTGAATCA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.31
28 28 0.39
29 21 0.30
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:27108110 original size:27 final size:28
Alignment explanation
Indices: 27108026--27108123 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
27108016 CATGAGATTG
* * * *
27108026 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
27108055 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
27108083 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
27108110 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
27108124 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:27108134 original size:27 final size:27
Alignment explanation
Indices: 27108054--27108136 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
27108044 TAAATTGTAC
* *
27108054 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
27108082 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
27108109 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
27108136 A
1 A
27108137 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:27108137 original size:29 final size:27
Alignment explanation
Indices: 27108026--27108137 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
27108016 CATGAGATTG
** * *
27108026 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
27108055 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
27108083 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
27108110 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
27108138 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:27110127 original size:39 final size:39
Alignment explanation
Indices: 27110070--27110293 Score: 295
Period size: 39 Copynumber: 5.7 Consensus size: 39
27110060 TGTGTGAGAT
* * * *
27110070 TTATATCCGGGCTAAGTCCCAAAGGCATTCATACTGATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* * *
27110109 TTATATCCGGGTTCAGTCCCGAAGGCATTAGTGCTGATA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* * * * *
27110148 TTATATCTGGGTTAAGTCCCAAAGGCATTCGTGTTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
27110187 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* *
27110226 GTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* * *
27110265 TTATATTCGGGCTAAGTTCTGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
27110294 TGGGTTGGAA
Statistics
Matches: 161, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 161 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
Found at i:27111817 original size:27 final size:27
Alignment explanation
Indices: 27111779--27111900 Score: 176
Period size: 27 Copynumber: 4.5 Consensus size: 27
27111769 AAGTTCTCGA
27111779 TTTGCCCTTATGTGGTAGAATGACTGT
1 TTTGCCCTTATGTGGTAGAATGACTGT
27111806 TTTGCCCTTATGTGGTAGAATGACTGT
1 TTTGCCCTTATGTGGTAGAATGACTGT
* *
27111833 TTTTCCCTTATGTGGT-GAAATGATTGT
1 TTTGCCCTTATGTGGTAG-AATGACTGT
*
27111860 TTTGCCCTTATATGGTA-AGATGACTGT
1 TTTGCCCTTATGTGGTAGA-ATGACTGT
*
27111887 TTTGCCCCTATGTG
1 TTTGCCCTTATGTG
27111901 ATGTATGTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
26 2 0.02
27 83 0.98
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.43
Consensus pattern (27 bp):
TTTGCCCTTATGTGGTAGAATGACTGT
Found at i:27127157 original size:34 final size:33
Alignment explanation
Indices: 27127106--27127177 Score: 108
Period size: 34 Copynumber: 2.2 Consensus size: 33
27127096 CACCGCCCTT
*
27127106 TCAGCAGGAGCTAGCGCATTGCTATCTACATCA
1 TCAGCAGGAACTAGCGCATTGCTATCTACATCA
* *
27127139 TCAGCNAGGAACTGGCGCATTGCTCTCTACATCA
1 TCAGC-AGGAACTAGCGCATTGCTATCTACATCA
27127173 TCAGC
1 TCAGC
27127178 CATAGCTGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 5 0.14
34 30 0.86
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (33 bp):
TCAGCAGGAACTAGCGCATTGCTATCTACATCA
Found at i:27134856 original size:35 final size:34
Alignment explanation
Indices: 27134810--27134878 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 34
27134800 AATACCCGCC
* *
27134810 TAAAACCTTATTTTCATAGGTTCATAGCAGGAANT
1 TAAAACCTTATTTTCAAAGATTCATAGCAGGAA-T
* *
27134845 TAAAACCTTATTTTGAAAGATTGATAGCAGGAAT
1 TAAAACCTTATTTTCAAAGATTCATAGCAGGAAT
27134879 GAGGAGTACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 1 0.03
35 29 0.97
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (34 bp):
TAAAACCTTATTTTCAAAGATTCATAGCAGGAAT
Found at i:27142714 original size:18 final size:18
Alignment explanation
Indices: 27142691--27142728 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
27142681 GTGTCTTTCT
*
27142691 ATATTATTTCAGACAGAG
1 ATATTATTTCAGACAAAG
27142709 ATATTATTTCAGACAAAG
1 ATATTATTTCAGACAAAG
27142727 AT
1 AT
27142729 CCTTGGCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (18 bp):
ATATTATTTCAGACAAAG
Found at i:27159076 original size:37 final size:37
Alignment explanation
Indices: 27159026--27159104 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
27159016 TTATTACGAA
* * *
27159026 GTCTTACCCGGACATAA-TCTCCACATGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
27159063 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
27159100 GTCTT
1 GTCTT
27159105 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:27159293 original size:47 final size:47
Alignment explanation
Indices: 27159238--27159566 Score: 640
Period size: 47 Copynumber: 7.0 Consensus size: 47
27159228 CACATTTATG
27159238 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
1 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
27159285 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
1 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
27159332 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
1 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
27159379 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
1 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
27159426 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
1 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
27159473 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
1 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
* *
27159520 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
27159567 GTCTTGGCTG
Statistics
Matches: 280, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 280 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
Found at i:27167067 original size:27 final size:27
Alignment explanation
Indices: 27167044--27167204 Score: 196
Period size: 27 Copynumber: 6.0 Consensus size: 27
27167034 TGAAATGATT
** *
27167044 AAAATACCCTTATAGGGTAAAATGATC
1 AAAATACCCCCATAGGGTAAAATGACC
* *
27167071 GAAATACCCTCATAGGGTAAAATGACC
1 AAAATACCCCCATAGGGTAAAATGACC
*
27167098 GAAATACCCCCATAGGGTAAAATGACC
1 AAAATACCCCCATAGGGTAAAATGACC
* *
27167125 AAAATACCCCTATAGGATAAAATGACC
1 AAAATACCCCCATAGGGTAAAATGACC
* * *
27167152 GAAATATCCCCATAGGGTAAAATGATC
1 AAAATACCCCCATAGGGTAAAATGACC
* **
27167179 AAATTACCCATATAGGGTAAAATGAC
1 AAAATACCCCCATAGGGTAAAATGAC
27167205 TGTACAGGTA
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.20
Consensus pattern (27 bp):
AAAATACCCCCATAGGGTAAAATGACC
Found at i:27167171 original size:81 final size:81
Alignment explanation
Indices: 27167044--27167204 Score: 236
Period size: 81 Copynumber: 2.0 Consensus size: 81
27167034 TGAAATGATT
* * * *
27167044 AAAATACCCTTATAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGACCGAAA-TACCCC
1 AAAATACCCCTATAGGATAAAATGACCGAAATACCCTCATAGGGTAAAATGACC-AAATTACCCA
27167108 CATAGGGTAAAATGACC
65 CATAGGGTAAAATGACC
*
27167125 AAAATACCCCTATAGGATAAAATGACCGAAATATCCC-CATAGGGTAAAATGATCAAATTACCCA
1 AAAATACCCCTATAGGATAAAATGACCGAAATA-CCCTCATAGGGTAAAATGACCAAATTACCCA
*
27167189 TATAGGGTAAAATGAC
65 CATAGGGTAAAATGAC
27167205 TGTACAGGTA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 3 0.04
81 66 0.92
82 3 0.04
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.20
Consensus pattern (81 bp):
AAAATACCCCTATAGGATAAAATGACCGAAATACCCTCATAGGGTAAAATGACCAAATTACCCAC
ATAGGGTAAAATGACC
Found at i:27177494 original size:18 final size:17
Alignment explanation
Indices: 27177462--27177495 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27177452 AAATTGGACA
27177462 GTGTGAGCCACACGGGT
1 GTGTGAGCCACACGGGT
*
27177479 GTGTGGGCCTACACGGG
1 GTGTGAGCC-ACACGGG
27177496 CAGGCCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.24, G:0.44, T:0.18
Consensus pattern (17 bp):
GTGTGAGCCACACGGGT
Found at i:27178238 original size:5 final size:5
Alignment explanation
Indices: 27178221--27178259 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
27178211 TGAGTATTGG
27178221 TTTTA TTTT- TTTTA TTTTA TTTTTA TTTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTTA TTT
27178260 GGTTAAGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 17 0.53
6 11 0.34
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTTA
Found at i:27178245 original size:11 final size:10
Alignment explanation
Indices: 27178221--27178259 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
27178211 TGAGTATTGG
27178221 TTTTA-TTTT
1 TTTTATTTTT
27178230 TTTTATTTTAT
1 TTTTATTTT-T
27178241 TTTTATTTTT
1 TTTTATTTTT
27178251 ATTTTATTT
1 -TTTTATTT
27178260 GGTTAAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
11 18 0.67
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:27187538 original size:108 final size:108
Alignment explanation
Indices: 27187349--27187777 Score: 795
Period size: 108 Copynumber: 4.0 Consensus size: 108
27187339 ATATAATTTT
* ** * *
27187349 CTCTAAGCTTGGTATAATACAAATGCGTTCGGCACTTACGCCTATACAACGCCTCATAAGGTGCC
1 CTCTAAGCTCGGTCCAATACAAACGCGTTCGGCACTTACACCTATACAACGCCTCATAAGGTGCC
27187414 ATCTTTAAACTCGACTGAAAGCTGTTGTTGTAAGCAAACTACA
66 ATCTTTAAACTCGACTGAAAGCTGTTGTTGTAAGCAAACTACA
27187457 CTCTAAGCTCGGTCCAATACAAACGCGTTCGGCACTTACACCTATACAACGCCTCATAAGGTGCC
1 CTCTAAGCTCGGTCCAATACAAACGCGTTCGGCACTTACACCTATACAACGCCTCATAAGGTGCC
27187522 ATCTTTAAACTCGACTGAAAGCTGTTGTTGTAAGCAAACTACA
66 ATCTTTAAACTCGACTGAAAGCTGTTGTTGTAAGCAAACTACA
*
27187565 CTCTAAGCTCGGTCCAATACAAATGCGTTCGGCACTTACACCTATACAACGCCTCATAAGGTGCC
1 CTCTAAGCTCGGTCCAATACAAACGCGTTCGGCACTTACACCTATACAACGCCTCATAAGGTGCC
27187630 ATCTTTAAACTCGACTGAAAGCTGTTGTTGTAAGCAAACTACA
66 ATCTTTAAACTCGACTGAAAGCTGTTGTTGTAAGCAAACTACA
27187673 CTCTAAGCTCGGTCCAATACAAACGCGTTCGGCACTTACACCTATACAACGCCTCATAAGGTGCC
1 CTCTAAGCTCGGTCCAATACAAACGCGTTCGGCACTTACACCTATACAACGCCTCATAAGGTGCC
*
27187738 ATCTTTAAACTCGACTGAAAGCTGTTGTTATAAGCAAACT
66 ATCTTTAAACTCGACTGAAAGCTGTTGTTGTAAGCAAACT
27187778 CCACCAGCGG
Statistics
Matches: 313, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 313 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (108 bp):
CTCTAAGCTCGGTCCAATACAAACGCGTTCGGCACTTACACCTATACAACGCCTCATAAGGTGCC
ATCTTTAAACTCGACTGAAAGCTGTTGTTGTAAGCAAACTACA
Found at i:27199802 original size:80 final size:80
Alignment explanation
Indices: 27199669--27199819 Score: 302
Period size: 80 Copynumber: 1.9 Consensus size: 80
27199659 GATTCGGTTT
27199669 AGCGGTCCCGAAACCGCTTTCCGACTAGGGTCAATTTAGGGCTGTCACATTAAGAATTCACACAC
1 AGCGGTCCCGAAACCGCTTTCCGACTAGGGTCAATTTAGGGCTGTCACATTAAGAATTCACACAC
27199734 TTAGTGTTCGTCCCC
66 TTAGTGTTCGTCCCC
27199749 AGCGGTCCCGAAACCGCTTTCCGACTAGGGTCAATTTAGGGCTGTCACATTAAGAATTCACACAC
1 AGCGGTCCCGAAACCGCTTTCCGACTAGGGTCAATTTAGGGCTGTCACATTAAGAATTCACACAC
27199814 TTAGTG
66 TTAGTG
27199820 CATTATTGAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 71 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
AGCGGTCCCGAAACCGCTTTCCGACTAGGGTCAATTTAGGGCTGTCACATTAAGAATTCACACAC
TTAGTGTTCGTCCCC
Found at i:27208471 original size:40 final size:40
Alignment explanation
Indices: 27208299--27208462 Score: 235
Period size: 40 Copynumber: 4.1 Consensus size: 40
27208289 AACCCAAGTA
* * *
27208299 CCTTCGGAATTTAG-CCGGATATAG-CAACTCA-CACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATG
*
27208338 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
27208378 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
27208418 CCTTTGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
27208458 CCTTC
1 CCTTC
27208463 AGATCTTAGT
Statistics
Matches: 114, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 13 0.11
40 100 0.88
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:27217990 original size:20 final size:21
Alignment explanation
Indices: 27217967--27218011 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
27217957 AAAGTTTTTA
*
27217967 AAATTTGATATTTGGT-TGTG-
1 AAATTT-ATAATTGGTGTGTGT
27217987 AAATTTATAATTGGTGTGTGT
1 AAATTTATAATTGGTGTGTGT
27218008 AAAT
1 AAAT
27218012 GGGCTTATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 10 0.45
21 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (21 bp):
AAATTTATAATTGGTGTGTGT
Found at i:27219723 original size:21 final size:21
Alignment explanation
Indices: 27219699--27219738 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27219689 ACTGATTTGT
*
27219699 ACATAATATGCCATGATATGA
1 ACATAATATGCAATGATATGA
* *
27219720 ACATGATATGTAATGATAT
1 ACATAATATGCAATGATAT
27219739 ATACATATAT
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:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (21 bp):
ACATAATATGCAATGATATGA
Found at i:27219812 original size:25 final size:25
Alignment explanation
Indices: 27219784--27219878 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
27219774 GAAGAAGTGC
*
27219784 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
27219809 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* * *
27219834 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
27219859 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
27219879 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:27219891 original size:24 final size:23
Alignment explanation
Indices: 27219783--27219905 Score: 111
Period size: 25 Copynumber: 5.0 Consensus size: 23
27219773 GGAAGAAGTG
* *
27219783 CAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAG-TTAT
*
27219807 CGAAAAGGGCTTTGCCCCAGTTTAC
1 C-AAAAGGGCTTTGCCCCAG-TTAT
*
27219832 CGAAAAGGGCTTTGCCCCAATTTAT
1 C-AAAAGGGCTTTGCCCC-AGTTAT
27219857 CAAAAAGGGCTTTGCCCCAGTTAT
1 C-AAAAGGGCTTTGCCCCAGTTAT
* **
27219881 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAG-GGCTTTGCC-CCAGTTAT
27219906 ATGATAAAGT
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
23 5 0.06
24 13 0.15
25 68 0.78
26 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (23 bp):
CAAAAGGGCTTTGCCCCAGTTAT
Found at i:27220134 original size:31 final size:31
Alignment explanation
Indices: 27220099--27220182 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
27220089 CGTTTACAAT
27220099 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
27220130 AAAGGCTTCGGCCTAGTGGTATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
27220161 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
27220183 CTGAGATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 4 0.09
31 43 0.91
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:27224781 original size:45 final size:44
Alignment explanation
Indices: 27224731--27224819 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 44
27224721 TCAACTGCCT
* * *
27224731 TCAGGATTGTTATAGCCATTAAAGGTACCACTTTGGAAGTGGGA
1 TCAGGATTGTTACAGCCAGTAAAGATACCACTTTGGAAGTGGGA
*
27224775 NTCAGGATTGTTACAGCCGGTAAAGATACCACTTTGGAAGTGGGA
1 -TCAGGATTGTTACAGCCAGTAAAGATACCACTTTGGAAGTGGGA
27224820 AAGAGTAACT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (44 bp):
TCAGGATTGTTACAGCCAGTAAAGATACCACTTTGGAAGTGGGA
Found at i:27233826 original size:39 final size:40
Alignment explanation
Indices: 27233781--27233948 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
27233771 CGGGGTTTAG
* * *
27233781 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
27233820 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
27233860 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
27233900 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
27233941 CCGGATAT
1 CCGGATAT
27233949 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:27233931 original size:41 final size:40
Alignment explanation
Indices: 27233804--27233948 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
27233794 CTCGCACAAG
* * * * *
27233804 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
27233844 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
27233884 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
27233925 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
27233949 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:27241028 original size:20 final size:20
Alignment explanation
Indices: 27241003--27241110 Score: 164
Period size: 20 Copynumber: 5.5 Consensus size: 20
27240993 AGGCTTATGC
27241003 TAAGTAAATGGAATGAAAAG
1 TAAGTAAATGGAATGAAAAG
*
27241023 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGAAAAG
*
27241043 TAAGTAAATGAAATGAAAAG
1 TAAGTAAATGGAATGAAAAG
*
27241063 TAAGTAAATGAAATGAAAAG
1 TAAGTAAATGGAATGAAAAG
**
27241083 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGGAATGAAAAG
27241103 TAAG-AAAT
1 TAAGTAAAT
27241111 AGAGTGGTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
19 4 0.05
20 78 0.95
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGGAATGAAAAG
Found at i:27244009 original size:20 final size:21
Alignment explanation
Indices: 27243947--27244014 Score: 75
Period size: 23 Copynumber: 3.1 Consensus size: 21
27243937 CATGTTAATG
*
27243947 TATAATATAATAATTAATTTT
1 TATAATAAAATAATTAATTTT
* *
27243968 TAATTATAAAATTAAATAATTTT
1 T-ATAATAAAA-TAATTAATTTT
27243991 T-TAATAAAATAATTAATTTAT
1 TATAATAAAATAATTAATTT-T
27244012 TAT
1 TAT
27244015 TTGATCGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 9 0.24
21 10 0.26
22 8 0.21
23 11 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATAATAAAATAATTAATTTT
Found at i:27253390 original size:70 final size:70
Alignment explanation
Indices: 27253277--27253416 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
27253267 GAAGTTGCGG
*
27253277 CATCTCTTGGGTTTTCATTTTTTGGGTCAGCCTCTTTTGAGGAAGTAAAGTTAGGCACCTTTGAA
1 CATCTCTTGGGTTTTCATTTTGTGGGTCAGCCTCTTTTGAGGAAGTAAAGTTAGGCACCTTTGAA
27253342 TATTT
66 TATTT
27253347 CATCTCTTGGGTTTTCATTTTGTGGGTCAGCCTCTTTTGAGGAAGTAAAGTTAGGCACCTTTGAA
1 CATCTCTTGGGTTTTCATTTTGTGGGTCAGCCTCTTTTGAGGAAGTAAAGTTAGGCACCTTTGAA
27253412 TATTT
66 TATTT
27253417 GATCAGAAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (70 bp):
CATCTCTTGGGTTTTCATTTTGTGGGTCAGCCTCTTTTGAGGAAGTAAAGTTAGGCACCTTTGAA
TATTT
Found at i:27257174 original size:40 final size:40
Alignment explanation
Indices: 27257080--27257370 Score: 274
Period size: 40 Copynumber: 7.3 Consensus size: 40
27257070 TATTCGAATG
* * *
27257080 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
* * *
27257121 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTGCT
* *
27257161 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
* * * **
27257201 A-ATTCCGGGATAA-ACCCGAAGGCAATTGTGCGAGTTATT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
* *
27257240 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTT-AT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
* *
27257279 -TGAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 AT-ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
* * * * *
27257319 ATAACCGGG-TCAAGTCCCGAAGGCATTTGAGCAAGTAGTT
1 ATATCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTGCT
27257359 ATATCC-GGCTAA
1 ATATCCGGGCTAA
27257371 ATTTCGAAGG
Statistics
Matches: 208, Mismatches: 30, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.00
39 72 0.35
40 103 0.50
41 31 0.15
42 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
Found at i:27257253 original size:79 final size:79
Alignment explanation
Indices: 27257080--27257347 Score: 312
Period size: 79 Copynumber: 3.4 Consensus size: 79
27257070 TATTCGAATG
* * *
27257080 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACC-GGACTAAGATCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTA-ATCCGGGA-TAAGACCCGAAGG
*
27257144 C-ATTCGTGCGAGTTGCT
63 CAATT-GTGCGAGTTACT
*
27257161 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGATAA-ACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAA-TCCGGGATAAGACCCGAAGGCA
*
27257225 ATTGTGCGAGTTATT
65 ATTGTGCGAGTTACT
* * * * * *
27257240 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTGAA-CCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT-AATCCGGGATAAGACCCGAAGGCA
*
27257304 TTTGTGCGAGTTACT
65 ATTGTGCGAGTTACT
*
27257319 ATAACCGGG-TCAAGTCCCGAAGGCATTTG
1 ATATCCGGGCT-AAGTCCCGAAGGCATTTG
27257348 AGCAAGTAGT
Statistics
Matches: 164, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
78 9 0.05
79 103 0.63
80 17 0.10
81 35 0.21
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATCCGGGATAAGACCCGAAGGCAA
TTGTGCGAGTTACT
Found at i:27259210 original size:14 final size:14
Alignment explanation
Indices: 27259191--27259218 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27259181 TTTCTCTCCC
27259191 CCTAATGTAGGGAA
1 CCTAATGTAGGGAA
27259205 CCTAATGTAGGGAA
1 CCTAATGTAGGGAA
27259219 AACTATCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (14 bp):
CCTAATGTAGGGAA
Found at i:27260011 original size:41 final size:41
Alignment explanation
Indices: 27259946--27260025 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
27259936 TACAGGGGTT
*
27259946 TTCACACGGCATGGCACACGCCCGTGTCCATGGCCCGTGTCC
1 TTCACACGGCATGGCACACGCCCGTGTCC-TAGCCCGTGTCC
27259988 TTCACACGGCCAT-G-ACACGCCCGTGTCCTAGCCCGTGT
1 TTCACACGG-CATGGCACACGCCCGTGTCCTAGCCCGTGT
27260026 GTAAAAACCT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
40 9 0.25
41 14 0.39
42 10 0.28
43 3 0.08
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (41 bp):
TTCACACGGCATGGCACACGCCCGTGTCCTAGCCCGTGTCC
Found at i:27261015 original size:47 final size:47
Alignment explanation
Indices: 27260940--27261143 Score: 163
Period size: 46 Copynumber: 4.4 Consensus size: 47
27260930 GCCGTGGCCT
* * * *
27260940 AGACACGGTCTTACACTGGCTCAT-ATCTC-AAGTCGAAGCCATGTCCC
1 AGACATGGTCTTACACTGACT-ATCATCTCGAAGCCGATG-CATGTCCC
* *
27260987 AGACATGGTCTTACACTGACTATCATCTCGTAGCCGACGCATGTCCC
1 AGACATGGTCTTACACTGACTATCATCTCGAAGCCGATGCATGTCCC
* * **
27261034 AGACAT-GTCTTACACTGGCT-TACATCTCGAAGCCGATGCATTTCTT
1 AGACATGGTCTTACACTGACTAT-CATCTCGAAGCCGATGCATGTCCC
* * * *
27261080 AGACAT-GTCTTATACT-AGC-ACTCGTCTC-AATGCTGATGCCACGTCCC
1 AGACATGGTCTTACACTGA-CTA-TCATCTCGAA-GCCGATG-CATGTCCC
27261127 AGACATGGTCTTACACT
1 AGACATGGTCTTACACT
27261144 AGCTCACACA
Statistics
Matches: 128, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
45 3 0.02
46 61 0.48
47 49 0.38
48 15 0.12
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
AGACATGGTCTTACACTGACTATCATCTCGAAGCCGATGCATGTCCC
Found at i:27271401 original size:42 final size:42
Alignment explanation
Indices: 27271295--27271450 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 42
27271285 AGTATCGTAC
* * * * *
27271295 CAATGCCATATCCTAGATATAGTCTTACATGTAATCTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
* * * * *
27271337 CGATGGCAATAGCCCAGCTATGGTCTTACACGAAATATCATAT
1 CAAT-GCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
* *
27271380 CAATGCCATATCCCAGATATGGTCTTAAACGACATCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
27271422 CAATGCCATATCCCAGATATGGTCTTACA
1 CAATGCCATATCCCAGATATGGTCTTACA
27271451 TGTAATCTTA
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
42 63 0.66
43 32 0.34
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
Found at i:27273326 original size:42 final size:42
Alignment explanation
Indices: 27273144--27273308 Score: 172
Period size: 42 Copynumber: 4.0 Consensus size: 42
27273134 GCCTAGTTTA
* * * * * *
27273144 ATACACCGGCAT-AGAGCCTGCTAGTCAATAAACCTGATTTA
1 ATACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTAATATC
* * * * *
27273185 ATAAACCGACAT-AAAGCTTGATAGGCAATAAGCCTGATATC
1 ATACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTAATATC
** * *
27273226 ATACACTAGCATCAAAGCCTGTTAGGCAATAAGCCTGATATC
1 ATACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTAATATC
*
27273268 ATACACCGGCATCAAAGCCTGCTAGGCAATAAGTCTAATAT
1 ATACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTAATAT
27273309 TATATCACTG
Statistics
Matches: 103, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 40 0.39
42 63 0.61
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (42 bp):
ATACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTAATATC
Found at i:27273326 original size:84 final size:83
Alignment explanation
Indices: 27273158--27273317 Score: 194
Period size: 83 Copynumber: 1.9 Consensus size: 83
27273148 ACCGGCATAG
* * * *
27273158 AGCCTGCTAGTCAATAAACCTGATTTAATAAACCGACATAAAGCTTGATAGGCAATAAGCCTGAT
1 AGCCTGCTAGGCAATAAACCTGATATAATAAACCGACATAAAGCCTGATAGGCAATAAGCCTAAT
27273223 ATCATACACTAGCATCAA
66 ATCATACACTAGCATCAA
* * * * * * *
27273241 AGCCTGTTAGGCAATAAGCCTGATATCATACACCGGCATCAAAGCCTGCTAGGCAATAAGTCTAA
1 AGCCTGCTAGGCAATAAACCTGATATAATAAACCGACAT-AAAGCCTGATAGGCAATAAGCCTAA
*
27273306 TATTATATCACT
65 TATCATA-CACT
27273318 GTTACAAAGT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
83 32 0.51
84 27 0.43
85 4 0.06
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.25
Consensus pattern (83 bp):
AGCCTGCTAGGCAATAAACCTGATATAATAAACCGACATAAAGCCTGATAGGCAATAAGCCTAAT
ATCATACACTAGCATCAA
Found at i:27278491 original size:32 final size:32
Alignment explanation
Indices: 27278452--27278517 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
27278442 GAATTTTTAA
27278452 ATCATATTATATTGTTATTACACTTTAAAACT
1 ATCATATTATATTGTTATTACACTTTAAAACT
27278484 ATCATATTATATTGTTATTACACTTTAAAACT
1 ATCATATTATATTGTTATTACACTTTAAAACT
27278516 AT
1 AT
27278518 GTTTGTTGCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (32 bp):
ATCATATTATATTGTTATTACACTTTAAAACT
Found at i:27278940 original size:34 final size:34
Alignment explanation
Indices: 27278888--27278952 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
27278878 AGATGCTGTT
* *
27278888 TGGGCTTGAGCCCGTTACAGTATCAGTATCAACG
1 TGGGCTTGAGCCCATTACAGTAACAGTATCAACG
*
27278922 TGGGTCTT-AGCCCATTACAGTAAGAGTATCA
1 TGGG-CTTGAGCCCATTACAGTAACAGTATCA
27278953 GTGCAGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 24 0.89
35 3 0.11
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (34 bp):
TGGGCTTGAGCCCATTACAGTAACAGTATCAACG
Found at i:27287956 original size:14 final size:14
Alignment explanation
Indices: 27287926--27287966 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
27287916 AATTAGGTAA
*
27287926 ATAATATAAATGTT
1 ATAATATAAATGAT
27287940 ATAATATAACAT-AT
1 ATAATATAA-ATGAT
27287954 ATAATA-AAATGAT
1 ATAATATAAATGAT
27287967 GTTCATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 2 0.08
13 4 0.17
14 16 0.67
15 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (14 bp):
ATAATATAAATGAT
Done.