Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1054
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: 77301
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:706 original size:13 final size:13
Alignment explanation
Indices: 688--712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
678 CATTTTATAG
688 TGTATCGATACAA
1 TGTATCGATACAA
701 TGTATCGATACA
1 TGTATCGATACA
713 TTTGGTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:709 original size:33 final size:33
Alignment explanation
Indices: 667--733 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
657 ATTTGCCTGT
*
667 ATGTATCGATACATTT-TATAGTGTATCGATACA
1 ATGTATCGATACATTTGT-TAATGTATCGATACA
700 ATGTATCGATACATTTGGTTAATGTATCGATACA
1 ATGTATCGATACATTT-GTTAATGTATCGATACA
734 TTTCTTGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 16 0.52
34 14 0.45
35 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (33 bp):
ATGTATCGATACATTTGTTAATGTATCGATACA
Found at i:801 original size:13 final size:13
Alignment explanation
Indices: 783--870 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 13
773 ACAAACTTGT
783 GTATCGATACATA
1 GTATCGATACATA
*
796 GTATCGATACAACACTTGT
1 GTATCGAT---ACA--T-A
815 GTATCGATACATA
1 GTATCGATACATA
*
828 GTATCGATACAACACTTGT
1 GTATCGAT---ACA--T-A
847 GTATCGATACATA
1 GTATCGATACATA
860 GTATCGATACA
1 GTATCGATACA
871 ACACTTTTGT
Statistics
Matches: 59, Mismatches: 4, Indels: 24
0.68 0.05 0.28
Matches are distributed among these distances:
13 27 0.46
14 2 0.03
16 12 0.20
18 2 0.03
19 16 0.27
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (13 bp):
GTATCGATACATA
Found at i:818 original size:32 final size:32
Alignment explanation
Indices: 756--889 Score: 234
Period size: 32 Copynumber: 4.2 Consensus size: 32
746 AGCTTCGTAG
* *
756 CGATATATTGTATCGATACAA-ACTTGTGTAT
1 CGATACATAGTATCGATACAACACTTGTGTAT
787 CGATACATAGTATCGATACAACACTTGTGTAT
1 CGATACATAGTATCGATACAACACTTGTGTAT
819 CGATACATAGTATCGATACAACACTTGTGTAT
1 CGATACATAGTATCGATACAACACTTGTGTAT
*
851 CGATACATAGTATCGATACAACACTTTTGTAT
1 CGATACATAGTATCGATACAACACTTGTGTAT
883 CGATACA
1 CGATACA
890 ACACTTGTGT
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
31 19 0.19
32 80 0.81
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (32 bp):
CGATACATAGTATCGATACAACACTTGTGTAT
Found at i:883 original size:51 final size:51
Alignment explanation
Indices: 828--941 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
818 TCGATACATA
*
828 GTATCGATACAACACTTGTGTATCGATACATAGTATCGATACAACACTTTT
1 GTATCGATACAACACTTGTGTATCGATACATAGTATCGATACAACACTTGT
* *
879 GTATCGATACAACACTTGTGTATCGATACATTGTATCGATACAATACTTGT
1 GTATCGATACAACACTTGTGTATCGATACATAGTATCGATACAACACTTGT
930 GTATCGATACAA
1 GTATCGATACAA
942 ATCGTTGAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (51 bp):
GTATCGATACAACACTTGTGTATCGATACATAGTATCGATACAACACTTGT
Found at i:913 original size:32 final size:32
Alignment explanation
Indices: 877--940 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
867 TACAACACTT
877 TTGTATCGATACAACACTTGTGTATCGATACA
1 TTGTATCGATACAACACTTGTGTATCGATACA
*
909 TTGTATCGATACAATACTTGTGTATCGATACA
1 TTGTATCGATACAACACTTGTGTATCGATACA
941 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAACACTTGTGTATCGATACA
Found at i:915 original size:13 final size:13
Alignment explanation
Indices: 897--921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
887 ACAACACTTG
897 TGTATCGATACAT
1 TGTATCGATACAT
910 TGTATCGATACA
1 TGTATCGATACA
922 ATACTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1982 original size:49 final size:48
Alignment explanation
Indices: 1855--2649 Score: 823
Period size: 43 Copynumber: 16.8 Consensus size: 48
1845 TGACGAAAGC
* * * *
1855 GCCAATATGCTGATTTAAGGCCAGCGACATTGGACTTAAAAGATGACAAAAGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGAT----AAGGT
1908 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGT
* * *
1957 GCCAATGTGCTGATTCAAGGACAGCGACATTGGACTTAAAGATGACAAAGGC
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT----AAGGT
* *
2009 GCCAATATGTTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGT
2052 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT---G--AAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGT
* * *
2095 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGC
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGAT----AAGGT
* *
2148 GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTT----A-AAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGT
*
2191 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGT
* * *
2240 GACAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGACAAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT----AAGGT
* *
2292 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTT----A-AAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGT
* *
2335 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGT
*
2384 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGT
* * * *
2427 GCTAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATAAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGT
* *
2476 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGT
* *
2519 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-AAGGT
* * *
2568 GCCAATATGCTAATTCAAGGCCAGCGATATTGGACTT----A-CAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGT
*
2611 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
1 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAA
2650 GGAAATGCCA
Statistics
Matches: 635, Mismatches: 64, Indels: 94
0.80 0.08 0.12
Matches are distributed among these distances:
43 268 0.42
45 3 0.00
47 5 0.01
48 3 0.00
49 202 0.32
52 83 0.13
53 71 0.11
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (48 bp):
GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGGT
Found at i:2071 original size:21 final size:21
Alignment explanation
Indices: 2047--2114 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
2037 ATTGGACTTA
2047 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
2068 AAGGCCAGCGATAT-TG--GACTTG
1 AAGG--TGCCA-ATGTGCTGA-TTC
2090 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
2111 AAGG
1 AAGG
2115 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:2416 original size:92 final size:92
Alignment explanation
Indices: 1855--2649 Score: 948
Period size: 92 Copynumber: 8.4 Consensus size: 92
1845 TGACGAAAGC
* * * *
1855 GCCAATATGCTGATTTAAGGCCAGCGACATTGGACTTAAAAGATGACAAAAGTGCCAATGTGCTG
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGAT---AAAGGTGCCAATATGCTG
1920 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGT
62 ATTCAAGGCCAGCGATATTGGACTT----A--AAGGT
* * *
1957 GCCAATGTGCTGATTCAAGGACAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGTTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGA
2022 TTCAAGGCCAGCGATATTGGACTTAAAGGT
63 TTCAAGGCCAGCGATATTGGACTTAAAGGT
* *
2052 GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT---G---AAGGTGCCAATGTGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTC
* * *
2111 AAGGCCAGCTACATTGGACTTAAAAGATGACAAAGGC
66 AAGGCCAGCGATATTGGAC-T------T---AAAGGT
* * * *
2148 GCCAATATGCTGATTCAAGGCCAGCGATATTAGAC-T-----TAAAGGTGCCAATGTGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTC
*
2207 AAGGCCAGCGACATTGGACTTAAAGATAAAGGT
66 AAGGCCAGCGATATTGGAC-T-----TAAAGGT
* * * *
2240 GACAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGACAAAGGTGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGA
*
2305 TTCAAGGCCAACGATATTGGACTTAAAGGT
63 TTCAAGGCCAGCGATATTGGACTTAAAGGT
*
2335 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTC
2400 AAGGCCAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* * * *
2427 GCTAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATAAAGGTGCCAATATACTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTC
2492 AAGGCCAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* *
2519 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTAATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTC
*
2584 AAGGCCAGCGATATTGGACTTACAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
2611 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
2650 GGAAATGCCA
Statistics
Matches: 632, Mismatches: 40, Indels: 52
0.87 0.06 0.07
Matches are distributed among these distances:
86 35 0.06
87 1 0.00
92 300 0.47
93 2 0.00
95 92 0.15
96 79 0.12
97 1 0.00
98 1 0.00
100 1 0.00
101 86 0.14
102 34 0.05
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGT
Found at i:2700 original size:33 final size:33
Alignment explanation
Indices: 2655--2775 Score: 181
Period size: 33 Copynumber: 3.7 Consensus size: 33
2645 CTTAAGGAAA
*
2655 TGCCACCAACTTGTGTGGGCTTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAGGGT
* *
2688 TGCCACCGACTTGTGTGGGCTTTAGAG-GGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAGGGT
* *
2720 TGCCACCAACTTGTGTGGGCTTTAGAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAGGGT
*
2753 TGCCACCGACTTGTGTGGGCTTT
1 TGCCACCAACTTGTGTGGGCTTT
2776 GGAAAAAGGT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
32 29 0.37
33 50 0.63
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (33 bp):
TGCCACCAACTTGTGTGGGCTTTAGAGAAGGGT
Found at i:2827 original size:34 final size:33
Alignment explanation
Indices: 2789--3043 Score: 289
Period size: 34 Copynumber: 7.7 Consensus size: 33
2779 AAAAGGTAAT
*
2789 GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAA
* *
2823 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAAGAAAAA
*
2856 GAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAA
1 G-GTGCCACGGAGTTGTGGACTTAAAAAGAAAAA
* * * * *
2890 GTTACCACGGAGTCGTGGACTT-GAAAGGAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAAGAAAAA
* *
2922 TGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAAGAAAAA
* *
2955 GAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAA
1 G-GTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAA
* * *
2990 GGTGCCATGGAGTCGTGGACTT-GAAAGAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAAGAAAAA
* * *
3022 GATGCCACTGAGTCGTGGACTT
1 GGTGCCACGGAGTTGTGGACTT
3044 TGAGACAAAA
Statistics
Matches: 186, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
32 54 0.29
33 38 0.20
34 81 0.44
35 13 0.07
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (33 bp):
GGTGCCACGGAGTTGTGGACTTAAAAAGAAAAA
Found at i:2940 original size:99 final size:100
Alignment explanation
Indices: 2766--3043 Score: 353
Period size: 100 Copynumber: 2.8 Consensus size: 100
2756 CACCGACTTG
** * * * * * *
2766 TGTGGGCTTTGGAAAAAGGTAATGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCAC
1 TGTGGGCTTT--AAAAAGAAAAAGGTACCACGGAGTCGTGGAC-TTGAAAGGAAAAA-GTGCCAC
* *
2831 GGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGT
62 GGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGT
* *
2870 TGTGGGC-TTAAAAAGAAAAAGTTACCACGGAGTCGTGGACTTGAAAGGAAAATGTGCCACGGAG
1 TGTGGGCTTTAAAAAGAAAAAGGTACCACGGAGTCGTGGACTTGAAAGGAAAAAGTGCCACGGAG
2934 TTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGT
66 TTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGT
* * *
2969 TGTGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTCGTGGACTTGAAA-GAAAAAGATGCCACTGA
1 TGTGGGCTTTAAAAAGAAAAAGGTACCACGGAGTCGTGGACTTGAAAGGAAAAAG-TGCCACGGA
*
3033 GTCGTGGACTT
65 GTTGTGGACTT
3044 TGAGACAAAA
Statistics
Matches: 154, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
99 57 0.37
100 64 0.42
101 24 0.16
103 2 0.01
104 7 0.05
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (100 bp):
TGTGGGCTTTAAAAAGAAAAAGGTACCACGGAGTCGTGGACTTGAAAGGAAAAAGTGCCACGGAG
TTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGT
Found at i:3061 original size:30 final size:30
Alignment explanation
Indices: 2999--3141 Score: 173
Period size: 30 Copynumber: 4.7 Consensus size: 30
2989 AGGTGCCATG
*
2999 GAGTCGTGGAC-TTGAAAGAAAAAGATGCCACT
1 GAGTCGTGGACTTTG--AGAAGAA-ATGCCACT
*
3031 GAGTCGTGGACTTTGAGACA-AAACGCCACT
1 GAGTCGTGGACTTTGAGA-AGAAATGCCACT
*
3061 GAGTCGTGGACTTTGAGAAGAGATGCCACT
1 GAGTCGTGGACTTTGAGAAGAAATGCCACT
* *
3091 GAGTCGTGGGCTTTGAGAAGAGATTGCCACT
1 GAGTCGTGGACTTTGAGAAGA-AATGCCACT
*
3122 GAGTCGTGGACTTTAAGAAG
1 GAGTCGTGGACTTTGAGAAG
3142 GTATTTGAAG
Statistics
Matches: 99, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
29 1 0.01
30 53 0.54
31 30 0.30
32 12 0.12
33 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (30 bp):
GAGTCGTGGACTTTGAGAAGAAATGCCACT
Found at i:11521 original size:52 final size:52
Alignment explanation
Indices: 11371--11501 Score: 226
Period size: 52 Copynumber: 2.5 Consensus size: 52
11361 CCCGAAATAT
11371 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
* ** *
11423 GCAAATTTGCCTATATGTATCGATACATTTTATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
11475 GAAAATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
11502 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
Found at i:11528 original size:13 final size:13
Alignment explanation
Indices: 11510--11534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11500 CAAAGATCAG
11510 TGTATCGATACAA
1 TGTATCGATACAA
11523 TGTATCGATACA
1 TGTATCGATACA
11535 TTCGGGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:11579 original size:21 final size:21
Alignment explanation
Indices: 11521--11579 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
11511 GTATCGATAC
*
11521 AATGTATCGATACATTCGGGT
1 AATGTATCGATACATTTGGGT
*
11542 GATGTATCGATACATTTGGGT
1 AATGTATCGATACATTTGGGT
* *
11563 AATGTATTGATATATTT
1 AATGTATCGATACATTT
11580 CTTGGCAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (21 bp):
AATGTATCGATACATTTGGGT
Found at i:11617 original size:13 final size:13
Alignment explanation
Indices: 11599--11681 Score: 67
Period size: 13 Copynumber: 5.5 Consensus size: 13
11589 AGCTTCGTAG
11599 CGATACATTGTAT
1 CGATACATTGTAT
11612 CGATACAAACTTATGTAT
1 CGATAC--A--T-TGTAT
11630 CGATACATTGTAT
1 CGATACATTGTAT
11643 CGATACAACACTTGTGTAT
1 CGAT---ACA--T-TGTAT
11662 CGATACATTGTAT
1 CGATACATTGTAT
11675 CGATACA
1 CGATACA
11682 ACATTTTTGT
Statistics
Matches: 59, Mismatches: 0, Indels: 22
0.73 0.00 0.27
Matches are distributed among these distances:
13 27 0.46
14 2 0.03
15 1 0.02
16 7 0.12
17 1 0.02
18 12 0.20
19 9 0.15
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:11662 original size:19 final size:17
Alignment explanation
Indices: 11606--11701 Score: 75
Period size: 19 Copynumber: 5.8 Consensus size: 17
11596 TAGCGATACA
11606 TTGTATCGATACAA-ACT
1 TTGTATCGATACAACA-T
11623 TATGTATCGAT---ACA-
1 T-TGTATCGATACAACAT
11637 TTGTATCGATACAACACT
1 TTGTATCGATACAACA-T
11655 TGTGTATCGAT---ACA-
1 T-TGTATCGATACAACAT
11669 TTGTATCGATACAACATTT
1 TTGTATCGATACAACA--T
11688 TTGTATCGATACAA
1 TTGTATCGATACAA
11702 ATCGTTGAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 18 0.28
14 2 0.03
15 1 0.02
16 10 0.15
17 1 0.02
18 10 0.15
19 23 0.35
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (17 bp):
TTGTATCGATACAACAT
Found at i:11666 original size:32 final size:32
Alignment explanation
Indices: 11599--11700 Score: 170
Period size: 32 Copynumber: 3.2 Consensus size: 32
11589 AGCTTCGTAG
11599 CGATACATTGTATCGATACAA-ACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
11630 CGATACATTGTATCGATACAACACTTGTGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
* *
11662 CGATACATTGTATCGATACAACATTTTTGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
11694 CGATACA
1 CGATACA
11701 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
31 21 0.31
32 46 0.69
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:13854 original size:19 final size:18
Alignment explanation
Indices: 13829--13893 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
13819 ATTTCAACGA
13829 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
13847 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
13863 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
13879 TTTTGTATCGATACA
1 -TTTGTATCGATACA
13894 ATGTATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:13867 original size:32 final size:32
Alignment explanation
Indices: 13831--13906 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
13821 TTCAACGATT
13831 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
13863 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
13895 TGTATCGCTACA
1 TGTATCGATACA
13907 AAGCTACTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:13868 original size:13 final size:13
Alignment explanation
Indices: 13850--13907 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
13840 ACATAAGTGT
13850 TGTATCGATACAA
1 TGTATCGATACAA
13863 TGTATCGATACATAA
1 TGTATCGATAC--AA
13878 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
*
13895 TGTATCGCTACAA
1 TGTATCGATACAA
13908 AGCTACTGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:13964 original size:13 final size:13
Alignment explanation
Indices: 13946--13970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13936 ATTACCCAAA
13946 TGTATCGATACAT
1 TGTATCGATACAT
13959 TGTATCGATACA
1 TGTATCGATACA
13971 CTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:14023 original size:52 final size:52
Alignment explanation
Indices: 13979--14107 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
13969 CACTGATTTT
13979 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* * *
14031 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
14083 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
14108 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:21079 original size:9 final size:9
Alignment explanation
Indices: 21067--21092 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21057 ACAAAAGTAA
21067 AAAAAAAAC
1 AAAAAAAAC
21076 AAAAAAAAC
1 AAAAAAAAC
21085 AAAAAAAA
1 AAAAAAAA
21093 AACACACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:21080 original size:18 final size:18
Alignment explanation
Indices: 21040--21091 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
21030 ATGAAAAAGT
* *
21040 CAAAAGTAAACACACAAA
1 CAAAAGTAAACAAAAAAA
21058 CAAAAGTAAA-AAAAAAA
1 CAAAAGTAAACAAAAAAA
*
21075 CAAAA-AAAACAAAAAAA
1 CAAAAGTAAACAAAAAAA
21092 AAACACACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.10
17 17 0.57
18 10 0.33
ACGTcount: A:0.79, C:0.13, G:0.04, T:0.04
Consensus pattern (18 bp):
CAAAAGTAAACAAAAAAA
Found at i:21083 original size:13 final size:13
Alignment explanation
Indices: 21055--21105 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
21045 GTAAACACAC
*
21055 AAACAAAAGTAAAA
1 AAACAAAA-AAAAA
*
21069 AAA-AAACAAAAA
1 AAACAAAAAAAAA
21081 AAACAAAAAAAAA
1 AAACAAAAAAAAA
21094 ACACACAAAAAA
1 A-A-ACAAAAAA
21106 GGTGCAAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 7 0.23
13 12 0.39
14 4 0.13
15 8 0.26
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (13 bp):
AAACAAAAAAAAA
Found at i:21083 original size:21 final size:21
Alignment explanation
Indices: 21053--21106 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
21043 AAGTAAACAC
* *
21053 ACAAACAAAAGTAAAAAAAAA
1 ACAAAAAAAAGCAAAAAAAAA
21074 ACAAAAAAAA-CAAAAAAAAA
1 ACAAAAAAAAGCAAAAAAAAA
21094 ACACACAAAAAAG
1 ACA-A-AAAAAAG
21107 GTGCAAAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.43
21 10 0.36
22 6 0.21
ACGTcount: A:0.81, C:0.13, G:0.04, T:0.02
Consensus pattern (21 bp):
ACAAAAAAAAGCAAAAAAAAA
Found at i:21103 original size:11 final size:11
Alignment explanation
Indices: 21065--21105 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
21055 AAACAAAAGT
*
21065 AAAAAAAAAAC
1 AAAAAAAACAC
*
21076 AAAAAAAACAA
1 AAAAAAAACAC
21087 AAAAAAAACAC
1 AAAAAAAACAC
21098 ACAAAAAA
1 A-AAAAAA
21106 GGTGCAAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 20 0.77
12 6 0.23
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAC
Found at i:21375 original size:20 final size:21
Alignment explanation
Indices: 21346--21388 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
21336 GTTCTTTTCC
* *
21346 AAACACAAAAA-AAAAGAGAA
1 AAACAAAAAAACAAAACAGAA
21366 AAACAAAAAAACAAAACAGAA
1 AAACAAAAAAACAAAACAGAA
21387 AA
1 AA
21389 TCTCGGTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.81, C:0.12, G:0.07, T:0.00
Consensus pattern (21 bp):
AAACAAAAAAACAAAACAGAA
Found at i:21446 original size:10 final size:10
Alignment explanation
Indices: 21431--21463 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
21421 AATCTTCAAC
21431 AAAAAAAACA
1 AAAAAAAACA
21441 AAAAAAAACA
1 AAAAAAAACA
21451 AACAAAAAA-A
1 AA-AAAAAACA
21461 AAA
1 AAA
21464 GGAAAAACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.05
10 15 0.68
11 6 0.27
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:21453 original size:14 final size:13
Alignment explanation
Indices: 21431--21463 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
21421 AATCTTCAAC
21431 AAAAAAAACAAAA
1 AAAAAAAACAAAA
21444 AAAAACAAACAAAA
1 AAAAA-AAACAAAA
21458 AAAAAA
1 AAAAAA
21464 GGAAAAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:22457 original size:30 final size:30
Alignment explanation
Indices: 22412--22495 Score: 125
Period size: 30 Copynumber: 2.8 Consensus size: 30
22402 ATACCTTCTT
*
22412 AAAGTCCA-GACTCAGTGGCATTTTGTCCC
1 AAAGCCCACGACTCAGTGGCATTTTGTCCC
*
22441 AAAGCCCACGATTCAGTGGCATTTTGTCCC
1 AAAGCCCACGACTCAGTGGCATTTTGTCCC
* *
22471 AAAGTCCACGACTCAGTGACATTTT
1 AAAGCCCACGACTCAGTGGCATTTT
22496 TTTCTCCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 7 0.14
30 42 0.86
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (30 bp):
AAAGCCCACGACTCAGTGGCATTTTGTCCC
Found at i:22606 original size:34 final size:34
Alignment explanation
Indices: 22528--22955 Score: 318
Period size: 34 Copynumber: 12.9 Consensus size: 34
22518 AATGGCAATC
* * ** *
22528 TCTTTTCAAAGTCCACGACTTAGTGGCATC-TTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* *
22561 TC--TTCAAAGCCCACAATTTCGTGGCACCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* *
22593 TCTTTTCAAAGCCCACAACTTCGTGGCA-TTTTGT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTT-T
* * ** * * *
22627 TCCTTTCAAGGTTCACGACTCCATGGCACATTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
*
22661 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTGT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* ** * *
22695 TCCTTTC-AAGTTCACAACTTCGTGGCACATTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* **
22728 TCTTTTTAAAGCCCACAACTCTATGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
*
22763 TCCTTTT--AAGTCCACAACTCCGTGGCACC-TTT
1 T-CTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* * *
22795 TCCTTTC-AAGTCCACAACTCCGTGGCAACTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* *
22828 TCTTTTTAAAGCCCACAATTCCGTGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
*
22863 TCCCTTTT--AAGTCCACAACTCCGTGGCACC----
1 T--CTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* * *
22893 -CTTTT--AAGTCCACAACTCCGTGGCATCTTTC
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* * *
22924 TCTTTT-TAAGCCCACAAGTCAGTGGCAACCTT
1 TCTTTTCAAAGCCCACAACTCCGTGGC-ACCTT
22956 CAAAAGCCCA
Statistics
Matches: 320, Mismatches: 54, Indels: 41
0.77 0.13 0.10
Matches are distributed among these distances:
27 26 0.08
31 25 0.08
32 35 0.11
33 56 0.17
34 135 0.42
35 33 0.10
36 5 0.02
37 5 0.02
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (34 bp):
TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
Found at i:22728 original size:135 final size:133
Alignment explanation
Indices: 22572--22821 Score: 335
Period size: 135 Copynumber: 1.9 Consensus size: 133
22562 CTTCAAAGCC
* * *
22572 CACAATTTCGTGGCACCTTTTTCTTTTCAAAGCCCACAACT-TCGTGGCA-T-TTTGTTCCTTTC
1 CACAACTTCGTGGCACATTTTTCTTTTCAAAGCCCACAACTCT-ATGGCACTCTTT-TTCCTTTC
* * * *
22634 AAGGTTCACGACTCCATGGCACATTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTGTTCCT
64 AA-GTCCACAACTCCATGGCAC-CTTTTCCTTTC-AAGCCCACAACTCCGTGGCACCTTGTTCCT
22699 TTCAAGTT
126 TTCAAGTT
* *
22707 CACAACTTCGTGGCACATTTTTCTTTTTAAAGCCCACAACTCTATGGCACTCTTTTTCCTTTTAA
1 CACAACTTCGTGGCACATTTTTCTTTTCAAAGCCCACAACTCTATGGCACTCTTTTTCCTTTCAA
* *
22772 GTCCACAACTCCGTGGCACCTTTTCCTTTCAAGTCCACAACTCCGTGGCA
66 GTCCACAACTCCATGGCACCTTTTCCTTTCAAGCCCACAACTCCGTGGCA
22822 ACTTTTTCTT
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
133 19 0.19
134 9 0.09
135 59 0.58
136 11 0.11
137 3 0.03
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (133 bp):
CACAACTTCGTGGCACATTTTTCTTTTCAAAGCCCACAACTCTATGGCACTCTTTTTCCTTTCAA
GTCCACAACTCCATGGCACCTTTTCCTTTCAAGCCCACAACTCCGTGGCACCTTGTTCCTTTCAA
GTT
Found at i:22780 original size:101 final size:99
Alignment explanation
Indices: 22571--22940 Score: 398
Period size: 101 Copynumber: 3.7 Consensus size: 99
22561 TCTTCAAAGC
* * * * * * *
22571 CCACAATTTCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTTCGTGGCATTTTGTTCCTTTCAA
1 CCACAACTCCGTGGCACC-TTTTCCTTTC-AAGTCCACAACTTCGTGGCAATTT-TTCTTTTTAA
* ** * * *
22636 GGTTCACGACTCCATGGCAC-ATTTTT-CTTTTCAAAGC
63 AGCCCACAACTCCATGGCACTCTTTTTCCTTTT--AAGT
*
22673 CCACAACTCCGTGGCACCTTGTTCCTTTCAAGTTCACAACTTCGTGGCACATTTTTCTTTTTAAA
1 CCACAACTCCGTGGCACCTT-TTCCTTTCAAGTCCACAACTTCGTGGCA-ATTTTTCTTTTTAAA
*
22738 GCCCACAACTCTATGGCACTCTTTTTCCTTTTAAGT
64 GCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGT
*
22774 CCACAACTCCGTGGCACCTTTTCCTTTCAAGTCCACAACTCCGTGGCAACTTTTTCTTTTTAAAG
1 CCACAACTCCGTGGCACCTTTTCCTTTCAAGTCCACAACTTCGTGGCAA-TTTTTCTTTTTAAAG
* *
22839 CCCACAATTCCGTGGCACTCTTTTTCCCTTTTAAGT
65 CCCACAACTCCATGGCACTCTTTTT-CCTTTTAAGT
* *
22875 CCACAACTCCGTGGCA-C----CCTTTTAAGTCCACAACTCCGTGGC-ATCTTTCTCTTTTT-AA
1 CCACAACTCCGTGGCACCTTTTCCTTTCAAGTCCACAACTTCGTGGCAAT-TTT-TCTTTTTAAA
22933 GCCCACAA
64 GCCCACAA
22941 GTCAGTGGCA
Statistics
Matches: 239, Mismatches: 21, Indels: 23
0.84 0.07 0.08
Matches are distributed among these distances:
94 1 0.00
95 14 0.06
96 31 0.13
99 1 0.00
100 64 0.27
101 92 0.38
102 31 0.13
103 5 0.02
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.35
Consensus pattern (99 bp):
CCACAACTCCGTGGCACCTTTTCCTTTCAAGTCCACAACTTCGTGGCAATTTTTCTTTTTAAAGC
CCACAACTCCATGGCACTCTTTTTCCTTTTAAGT
Found at i:22793 original size:26 final size:27
Alignment explanation
Indices: 22764--22827 Score: 67
Period size: 32 Copynumber: 2.2 Consensus size: 27
22754 CACTCTTTTT
22764 CCTTTT-AAGTCCACAACTCCGTGGCA
1 CCTTTTCAAGTCCACAACTCCGTGGCA
22790 CCTTTTCCTTTCAAGTCCACAACTCCGTGGCA
1 CC---T--TTTCAAGTCCACAACTCCGTGGCA
*
22822 ACTTTT
1 CCTTTT
22828 TCTTTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
26 2 0.06
27 3 0.10
29 2 0.06
31 3 0.10
32 21 0.68
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (27 bp):
CCTTTTCAAGTCCACAACTCCGTGGCA
Found at i:22894 original size:27 final size:27
Alignment explanation
Indices: 22864--22917 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
22854 CACTCTTTTT
22864 CCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
22891 CCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
22918 TCTTTCTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (27 bp):
CCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:23058 original size:49 final size:49
Alignment explanation
Indices: 22984--23554 Score: 541
Period size: 49 Copynumber: 11.7 Consensus size: 49
22974 AGTGGCATCT
* * *
22984 TCTTCTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTTG
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* * *
23034 TCTTTAAGACCAATGTCGCCGGCCTTGAATCAGCACATTGGCA-C----
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* * *
23078 -CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTT
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* * *
23126 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGTACATTGGCACC----
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* * *
23171 TC--CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTG
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
*
23218 TCATCTTTTAA-TACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C----
1 ---TC-TTTAAGT-CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* *
23266 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTG
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* * **
23314 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTCA
1 ---TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* * **
23366 TCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTG
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* **
23415 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 ---TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
* * * *
23467 TCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-G
** *
23519 TCTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCA
1 TCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCA
23555 CATCGGCATT
Statistics
Matches: 427, Mismatches: 60, Indels: 65
0.77 0.11 0.12
Matches are distributed among these distances:
43 108 0.25
44 4 0.01
45 2 0.00
48 1 0.00
49 156 0.37
50 6 0.01
52 92 0.22
53 58 0.14
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTG
Found at i:23344 original size:52 final size:52
Alignment explanation
Indices: 23266--23554 Score: 392
Period size: 52 Copynumber: 5.7 Consensus size: 52
23256 ACATTGGCAC
23266 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * * *
23318 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACC--T-TCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* *
23367 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * *
23419 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* *
23468 CTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
** * *
23520 CTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCA
1 CTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCA
23555 CATCGGCATT
Statistics
Matches: 205, Mismatches: 25, Indels: 13
0.84 0.10 0.05
Matches are distributed among these distances:
49 86 0.42
50 2 0.01
51 1 0.00
52 91 0.44
53 25 0.12
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
Found at i:23417 original size:101 final size:99
Alignment explanation
Indices: 22976--23562 Score: 791
Period size: 101 Copynumber: 6.1 Consensus size: 99
22966 CACAAGTTAG
* * * *
22976 TGGCATCT-TCTTCTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTTG---TCT
1 TGGCACCTCTCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
* *
23037 TTAAGACCAATGTCGCCGGCCTTGAATCAGCACAT
65 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
23072 TGGCA---C-CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTT-T--TCTT
1 TGGCACCTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
* *
23130 TAAGTCCAATGTAGCTGGCCTTGAATCAGTACAT
66 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
23164 TGGCACCTC-C---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TGGCACCTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC-T
23225 TTAA-TACCAATGTCGCTGGCCTTGAATCAGCACAT
65 TTAAGT-CCAATGTCGCTGGCCTTGAATCAGCACAT
23260 TGGCA---C-CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TGGCACCTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
*
23321 TAAGTCCAATGTCGCTGGCCTTGAATCAGTACAT
66 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
23355 TGGCACCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATC
1 TGGCACC-TC-TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
23420 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
64 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
* *
23456 TGGCACCTTCATCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATC
1 TGGCACC-TC-TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
** *
23521 TTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACAT
64 TTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
*
23558 CGGCA
1 TGGCA
23563 TTCTTCTCAT
Statistics
Matches: 447, Mismatches: 23, Indels: 36
0.88 0.05 0.07
Matches are distributed among these distances:
92 121 0.27
93 6 0.01
95 43 0.10
96 92 0.21
99 1 0.00
101 150 0.34
102 34 0.08
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (99 bp):
TGGCACCTCTCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
Found at i:26390 original size:156 final size:155
Alignment explanation
Indices: 26099--26412 Score: 493
Period size: 156 Copynumber: 2.0 Consensus size: 155
26089 ACTTATATCC
** *
26099 GAAACTCATTTAATTCTTAGATGATGATCGTTATTTACATGCCAATTGTACACAATTCTTTGTTG
1 GAAACTCATTTAATTCCGAGATGATGATCGTTATTTACATGCCAATAGTACACAATTCTTTGTTG
26164 GGGTCTATAAACCTAGATGTAAACCTCATAATTAATGTATTTTTTTTGACATATACGTATATATT
66 GGGTCTATAAACCTAGATGTAAACCTCATAATTAATGTATTTTTTTTGACATATACG-ATATATT
26229 CATTCAACTAAATTTATACGTTCATA
130 CATTCAACTAAATTTATACGTTCATA
*
26255 GAAACTCATTTGATTCCGAGATGATGATCGTTATTTACATGCCAATAGTACACAATTCTTTGTTG
1 GAAACTCATTTAATTCCGAGATGATGATCGTTATTTACATGCCAATAGTACACAATTCTTTGTTG
** *
26320 GGGTCTATAAACCTAGATGTAAACCTCATAATTAATGTATTTATTTATTTTGGTATATACATATA
66 GGGTCTATAAACCTAGATGTAAACCTCATAATTAATGTA--T-TTT-TTTTGACATATAC-GATA
* *
26385 TATTCATTCAAATAAATTTATATGTTCA
126 TATTCATTCAACTAAATTTATACGTTCA
26413 ATATAGTTGT
Statistics
Matches: 144, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
156 100 0.69
158 1 0.01
159 3 0.02
160 40 0.28
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (155 bp):
GAAACTCATTTAATTCCGAGATGATGATCGTTATTTACATGCCAATAGTACACAATTCTTTGTTG
GGGTCTATAAACCTAGATGTAAACCTCATAATTAATGTATTTTTTTTGACATATACGATATATTC
ATTCAACTAAATTTATACGTTCATA
Found at i:27499 original size:16 final size:16
Alignment explanation
Indices: 27474--27543 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 16
27464 AGACCCTTAT
27474 AATATTTATATT-TTA
1 AATATTTATATTATTA
27489 AATATTTTATATTATT-
1 AATA-TTTATATTATTA
27505 AAT-TTTGATA-TATT-
1 AATATTT-ATATTATTA
*
27519 AATAATTAATATTATATA
1 AAT-ATTTATATTAT-TA
27537 AAT-TTTA
1 AATATTTA
27544 AAATATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
14 10 0.22
15 10 0.22
16 19 0.42
17 3 0.07
18 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (16 bp):
AATATTTATATTATTA
Found at i:27568 original size:18 final size:17
Alignment explanation
Indices: 27547--27601 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
27537 AATTTTAAAA
27547 TATATATTTATATTATAT
1 TATATATTTATATTA-AT
27565 TATAT-TTTA-ATTAAAT
1 TATATATTTATATT-AAT
27581 ATATTATATTTAT-TTAAT
1 -TA-TATATTTATATTAAT
27599 TAT
1 TAT
27602 TATGAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
16 6 0.19
17 9 0.28
18 11 0.34
19 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATATATTTATATTAAT
Found at i:27596 original size:23 final size:25
Alignment explanation
Indices: 27555--27600 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
27545 AATATATATT
27555 TATATTATATTATATTTTAATTAAA
1 TATATTATATTATATTTTAATTAAA
27580 TATATTATATT-TA-TTTAATTA
1 TATATTATATTATATTTTAATTA
27601 TTATGAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 8 0.38
24 2 0.10
25 11 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TATATTATATTATATTTTAATTAAA
Found at i:34278 original size:40 final size:40
Alignment explanation
Indices: 34174--34285 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 40
34164 GCACTTTATT
* * * *
34174 TTTTAAAGTTTTCTATTGCCTTTTTAGG-TTCTTTATTATC
1 TTTTAAAGCTTTCTATTGCCTTTTTAGGCTT-GTTATAACC
* * * * * *
34214 TTTTCAGGCTTACCATAGCTTTTTTAGGCTTGTTATAACC
1 TTTTAAAGCTTTCTATTGCCTTTTTAGGCTTGTTATAACC
*
34254 TTTTAAAGCTTTCTATTGCCTTTTTAAGCTTG
1 TTTTAAAGCTTTCTATTGCCTTTTTAGGCTTG
34286 CCATTATCTT
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
40 52 0.96
41 2 0.04
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (40 bp):
TTTTAAAGCTTTCTATTGCCTTTTTAGGCTTGTTATAACC
Found at i:34297 original size:40 final size:40
Alignment explanation
Indices: 34169--34297 Score: 100
Period size: 40 Copynumber: 3.2 Consensus size: 40
34159 TTTAGGCACT
* * *
34169 TTATTTTTTAAAGTTTTCTATTGCCTTTTT-AGGTT-CTTTA
1 TTATCTTTTAAAGCTTTCTATTGCCTTTTTAAGCTTGC--TA
* * * * * * * *
34209 TTATCTTTTCAGGCTTACCATAGCTTTTTTAGGCTTGTTA
1 TTATCTTTTAAAGCTTTCTATTGCCTTTTTAAGCTTGCTA
* * *
34249 TAACCTTTTAAAGCTTTCTATTGCCTTTTTAAGCTTGCCA
1 TTATCTTTTAAAGCTTTCTATTGCCTTTTTAAGCTTGCTA
34289 TTATCTTTT
1 TTATCTTTT
34298 TAGACTTGCT
Statistics
Matches: 63, Mismatches: 24, Indels: 4
0.69 0.26 0.04
Matches are distributed among these distances:
40 60 0.95
41 3 0.05
ACGTcount: A:0.19, C:0.16, G:0.11, T:0.54
Consensus pattern (40 bp):
TTATCTTTTAAAGCTTTCTATTGCCTTTTTAAGCTTGCTA
Found at i:34337 original size:20 final size:21
Alignment explanation
Indices: 34307--34345 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
34297 TTAGACTTGC
*
34307 TAAATGCCTTTTCACGCTCGT
1 TAAATGCCTTTTCAAGCTCGT
34328 TAAATG-CTTTTCAAGCTC
1 TAAATGCCTTTTCAAGCTC
34346 AAATGCCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (21 bp):
TAAATGCCTTTTCAAGCTCGT
Found at i:36110 original size:21 final size:20
Alignment explanation
Indices: 36060--36128 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
36050 GCTTAAAAGG
* *
36060 AAAAAAAA-CATTTTTTTTT
1 AAAAAAAATCATTCTTTCTT
36079 AAAAAAAATCATTCTTTCTT
1 AAAAAAAATCATTCTTTCTT
* *
36099 AAAAAAAGATCAATCTTTTTT
1 AAAAAAA-ATCATTCTTTCTT
*
36120 ATAAAAAAT
1 AAAAAAAAT
36129 ATCGATTCTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 8 0.19
20 18 0.42
21 17 0.40
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (20 bp):
AAAAAAAATCATTCTTTCTT
Found at i:36441 original size:13 final size:13
Alignment explanation
Indices: 36423--36447 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36413 ACTATTGATG
36423 TACTAAAAATATA
1 TACTAAAAATATA
36436 TACTAAAAATAT
1 TACTAAAAATAT
36448 TTTTTACTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
TACTAAAAATATA
Found at i:36457 original size:16 final size:16
Alignment explanation
Indices: 36436--36477 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
36426 TAAAAATATA
*
36436 TACTAAAAATATTTTT
1 TACTAAAAATAATTTT
36452 TACTAAAAATAATTTT
1 TACTAAAAATAATTTT
36468 TACTAAAAAT
1 TACTAAAAAT
36478 TATTATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TACTAAAAATAATTTT
Found at i:36486 original size:17 final size:16
Alignment explanation
Indices: 36436--36486 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
36426 TAAAAATATA
36436 TACTAAAAA-TATTTTT
1 TACTAAAAATTA-TTTT
*
36452 TACTAAAAATAATTTT
1 TACTAAAAATTATTTT
36468 TACTAAAAATTATTATT
1 TACTAAAAATTATT-TT
36485 TA
1 TA
36487 TATTTCATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
16 26 0.84
17 5 0.16
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
TACTAAAAATTATTTT
Found at i:39775 original size:20 final size:20
Alignment explanation
Indices: 39750--39787 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
39740 GTAAAAACAC
*
39750 AGAATGTATCGATACATTGA
1 AGAATGTATCAATACATTGA
39770 AGAATGTATCAATACATT
1 AGAATGTATCAATACATT
39788 TGCGTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (20 bp):
AGAATGTATCAATACATTGA
Found at i:40269 original size:45 final size:46
Alignment explanation
Indices: 40157--40363 Score: 197
Period size: 45 Copynumber: 4.5 Consensus size: 46
40147 AGAGGATTGC
** * *
40157 CAATGTGCCAATTCAAGGCCAGCGACATTG-GACTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAG-CTAA--GTAAAGTGGA
* * *
40205 CCAATGTGATGATTTAAGGCCAACGACATTGGGCTAA-TAAAGTGGA
1 -CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGTAAAGTGGA
* * * *
40251 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGGAAAATGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAA-GTAAAGTGGA
* *
40298 CAATGTGCTGATTCAAGGCCAATGACATTGAGCTAA-TAAAG-GTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGTAAAGTG-GA
* *
40343 CAATATGCTGATTCAATGCCA
1 CAATGTGCTGATTCAAGGCCA
40364 GCGATATCGG
Statistics
Matches: 133, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
44 1 0.01
45 54 0.41
46 8 0.06
47 40 0.30
49 29 0.22
50 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.22
Consensus pattern (46 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGTAAAGTGGA
Found at i:40311 original size:47 final size:47
Alignment explanation
Indices: 40157--40333 Score: 207
Period size: 47 Copynumber: 3.8 Consensus size: 47
40147 AGAGGATTGC
** *
40157 CAATGTGCCAATTCAAGGCCAGCGACATTG-GACTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAG-CTAAGGGAAAA-TGGA
* * * * *
40205 CCAATGTGATGATTTAAGGCCAACGACATTGGGCTAA--TAAAGTGGA
1 -CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGGGAAAATGGA
* *
40251 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGGAAAATGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGGGAAAATGGA
*
40298 CAATGTGCTGATTCAAGGCCAATGACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAA
40334 TAAAGGTGCC
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
45 31 0.29
46 4 0.04
47 43 0.40
49 29 0.27
50 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.21
Consensus pattern (47 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGGGAAAATGGA
Found at i:40352 original size:92 final size:94
Alignment explanation
Indices: 40167--40365 Score: 280
Period size: 92 Copynumber: 2.1 Consensus size: 94
40157 CAATGTGCCA
* *
40167 ATTCAAGGCCAGCGACATTGGACTAAGGGAAAAGTGGACCAATGTGATGATTTAAGGCCAACGAC
1 ATTCAAGGCCAGCAACATTGGACTAAGGGAAAAGTGGACCAATGTGATGATTCAAGGCCAACGAC
* *
40232 ATTGGGCTAATAAAGTGGACAATGTGCTG
66 ATTGAGCTAATAAAGTGGACAATATGCTG
* *
40261 ATTCAAGGCCAGCAACATT-GAGCTAAGGGAAAA-TGGA-CAATGTGCTGATTCAAGGCCAATGA
1 ATTCAAGGCCAGCAACATTGGA-CTAAGGGAAAAGTGGACCAATGTGATGATTCAAGGCCAACGA
*
40323 CATTGAGCTAATAAAG-GTGCCAATATGCTG
65 CATTGAGCTAATAAAGTG-GACAATATGCTG
*
40353 ATTCAATGCCAGC
1 ATTCAAGGCCAGC
40366 GATATCGGAT
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
91 1 0.01
92 59 0.62
93 6 0.06
94 29 0.31
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.22
Consensus pattern (94 bp):
ATTCAAGGCCAGCAACATTGGACTAAGGGAAAAGTGGACCAATGTGATGATTCAAGGCCAACGAC
ATTGAGCTAATAAAGTGGACAATATGCTG
Found at i:40547 original size:56 final size:56
Alignment explanation
Indices: 40458--41253 Score: 648
Period size: 56 Copynumber: 13.6 Consensus size: 56
40448 CACTAACTTC
* * *
40458 TGTGGGCTTTG-AAGAGATACCACTAACTTGTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
40514 CGTGGGCTTTGGAAGGATGCCACTGACTCGTGGGCTTTGAAAAGTTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * * * * *
40570 CGTGGGCTTTGAAAAGTTGCCACTAACTTATGGGCTTGGAAAAGATACCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
40626 TGTGGGCTTTGAAAAGATGCCACCGACTTGTGGACATTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* *
40682 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGAC-T
* * * * * **
40739 GTGTGGGCTTTAAAATAGGTTGCCACCGACTTGTGTTGGCTTTCAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTT-GAA-AGGATGCCACTGACTTGTG--GGCTTTGAAA--GGATGCCACTGAC-T
* * * *
40803 GTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTT
1 -TGTGGGCTTTG-AA-AGGATGCCACTGAC-T-TGTGGGCTTTG-AA-AGGATGCCACTGAC-T
* * * * * *
40867 GTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTACCACCGACTT
1 -TGTGGGCTTTG-AA-AGGATGCCACTGAC-T-TGTGGGCTTTGAAA-G-GATGCCACTGAC-T
* * * * *
40931 GTGTGGGCTTTCAAATGAGTTGCCACCGACTTTTGTGGGCTTTGAAAGGGTGCCACCGACTT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGAC--TTGTGGGCTTTGAAAGGATGCCACTGAC-T
* * * * * ** *
40993 GTGTGGGCTTTGAAAAGATACCACCGACTTGTGGGCTTTAAAATGGGCTATCACCGACTT
1 -TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACTGAC-T
* *
41053 GTGTGGGCTTTG-AAGTGATGCCACTAACTTGTGGGC-TTGAAATGATGCCACTGACT
1 -TGTGGGCTTTGAAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
*
41109 TGTGGGCTTTGAAATGG-TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * *
41165 TGTGGGCTTTGAAAAGATGTCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACT
* *
41222 TGTGGGCTTTGAAAGG-TGCCACGGAGTTGTGG
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGG
41254 ACTTAAAAAG
Statistics
Matches: 633, Mismatches: 80, Indels: 54
0.83 0.10 0.07
Matches are distributed among these distances:
55 29 0.05
56 255 0.40
57 43 0.07
58 24 0.04
59 9 0.01
60 68 0.11
62 37 0.06
63 7 0.01
64 151 0.24
65 5 0.01
66 5 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (56 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:40770 original size:32 final size:32
Alignment explanation
Indices: 40626--41235 Score: 502
Period size: 32 Copynumber: 20.4 Consensus size: 32
40616 ACCATTGACT
*
40626 TGTGGGCTTTGAAA-A-GATGCCACCGAC-T-
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* * * *
40654 TGTGGACATTG-AA-AGGATGCCACTGAC-T-
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* *
40682 TGTGGGCTTTG-AA-AGGGTGCCACTGAC-T-
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* *
40710 TGTGGGCTTTGAAA-A-GATGCCACTGACTTG
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
*
40740 TGTGGGCTTTAAAATAGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* * * *
40772 TGTTGGCTTTCAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
40804 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
40836 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
40868 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* *
40900 TGTGGGCTTTCAAAT-GAGTTACCACCGACTTG
1 TGTGGGCTTTGAAATAG-GTTGCCACCGACTTG
* *
40932 TGTGGGCTTTCAAAT-GAGTTGCCACCGACTTT
1 TGTGGGCTTTGAAATAG-GTTGCCACCGACTTG
*
40964 TGTGGGCTTTG-AA-AGGGTGCCACCGACTTG
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* *
40994 TGTGGGCTTTGAAA-A-GATACCACCGAC-T-
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* * * **
41022 TGTGGGCTTTAAAATGGGCTATCACCGACTTG
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* * **
41054 TGTGGGCTTTGAAGT--GATGCCACTAAC-T-
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* *
41082 TGTGGGC-TTGAAAT--GATGCCACTGAC-T-
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
*
41109 TGTGGGCTTTGAAAT-GG-TGCCACTGAC-T-
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* *
41137 TGTGGGCTTTGAAA-A-GATGCCACTGAC-T-
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* * **
41165 TGTGGGCTTTGAAA-A-GATGTCACTAAC-T-
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* * *
41193 TGTGGGCTTTGAGA-AGGATGCCACTGAC-T-
1 TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
41222 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
41236 GGTGCCACGG
Statistics
Matches: 518, Mismatches: 46, Indels: 35
0.86 0.08 0.06
Matches are distributed among these distances:
27 29 0.06
28 171 0.33
29 31 0.06
30 64 0.12
31 9 0.02
32 214 0.41
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (32 bp):
TGTGGGCTTTGAAATAGGTTGCCACCGACTTG
Found at i:40859 original size:96 final size:90
Alignment explanation
Indices: 40453--41252 Score: 640
Period size: 84 Copynumber: 9.1 Consensus size: 90
40443 GGTGTCACTA
* * * ** * * *
40453 ACTTCTGTGGGCTTTGAAGAGATACCACTAACTTGTGGGCTTTG-GA-AGGATGCCACTGAC-T-
1 ACTTGTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* * * *
40514 CGTGGGCTTTGGAAGGATGCCACTG
66 TGTGGGCTTTGAAAGGGTGCCACCG
* * * * **
40539 AC-T-CGTGGGCTTTGAAAAGTTGCCACTGACTCGTGGGCTTTGAAA-A-GTTGCCACTAAC-T-
1 ACTTGTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* * * * * **
40598 TATGGGCTTGGAAAAGATACCATTG
66 TGTGGGCTTTGAAAGGGTGCCACCG
* * * *
40623 AC-T-TGTGGGCTTTGAAAAGATGCCACCGACTTGTGGACATTG-AA-AGGATGCCACTGAC-T-
1 ACTTGTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTG
*
40682 TGTGGGCTTTGAAAGGGTGCCACTG
66 TGTGGGCTTTGAAAGGGTGCCACCG
* *
40707 AC-T-TGTGGGCTTTGAAAAGATGCCACTGACTTGTGTGGGCTTTAAAATAGGTTGCCACCGACT
1 ACTTGTGTGGGCTTTGAAAAGATGCCACCGAC-T-TGTGGGCTTTGAAATAGGTTGCCACCGACT
* * *
40770 TGTGTTGGCTTTCAAATGGGTTGCCACCA
64 TGTGTGGGCTTTGAAA-GGG-TGCCACCG
*
40799 ACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGA
1 ACTTGTGTGGGCTTTGAAA-A-GATGCCACCGAC-T-TGTGGGCTTTGAAATAGGTTGCCACCGA
*
40864 CTTGTGTGGGCTTTGAAATAGGTTGCCACCG
62 CTTGTGTGGGCTTTG-AA-AGGGTGCCACCG
* * * *
40895 ACTTGTGTGGGCTTTCAAATGAGTTACCACCGACTTGTGTGGGCTTTCAAAT-GAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAA--AGATGCCACCGAC-T-TGTGGGCTTTGAAATAG-GTTGCCACCG
*
40959 ACTTTTGTGGGCTTTGAAAGGGTGCCACCG
61 ACTTGTGTGGGCTTTGAAAGGGTGCCACCG
* * * * **
40989 ACTTGTGTGGGCTTTGAAAAGATACCACCGACTTGTGGGCTTTAAAATGGGCTATCACCGACTTG
1 ACTTGTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* **
41054 TGTGGGCTTTG-AAGTGATGCCACTA
66 TGTGGGCTTTGAAAG-GGTGCCACCG
* * *
41079 AC-T-TGTGGGC-TTGAAATGATGCCACTGACTTGTGGGCTTTGAAAT-GG-TGCCACTGAC-T-
1 ACTTGTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTG
* * *
41137 TGTGGGCTTTGAAAAGATGCCACTG
66 TGTGGGCTTTGAAAGGGTGCCACCG
* ** * * *
41162 AC-T-TGTGGGCTTTGAAAAGATGTCACTAACTTGTGGGCTTTGAGA-AGGATGCCACTGAC-T-
1 ACTTGTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTG
*
41222 TGTGGGCTTTGAAA-GGTGCCACGG
66 TGTGGGCTTTGAAAGGGTGCCACCG
*
41246 AGTTGTG
1 ACTTGTG
41253 GACTTAAAAA
Statistics
Matches: 609, Mismatches: 79, Indels: 52
0.82 0.11 0.07
Matches are distributed among these distances:
83 33 0.05
84 201 0.33
85 37 0.06
86 14 0.02
87 33 0.05
88 19 0.03
89 5 0.01
90 57 0.09
91 5 0.01
92 20 0.03
93 1 0.00
94 43 0.07
95 4 0.01
96 131 0.22
97 5 0.01
98 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (90 bp):
ACTTGTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAATAGGTTGCCACCGACTTG
TGTGGGCTTTGAAAGGGTGCCACCG
Found at i:41251 original size:27 final size:27
Alignment explanation
Indices: 40440--41253 Score: 554
Period size: 28 Copynumber: 27.8 Consensus size: 27
40430 TTTTTAAAAA
* *
40440 AAAGGTGTCACTAACTTCTGTGGGCTTTG
1 AAAGGTGCCACTGAC-T-TGTGGGCTTTG
* * *
40469 AAGAGATACCACTAACTTGTGGGCTTTG
1 AA-AGGTGCCACTGACTTGTGGGCTTTG
* *
40497 GAAGGATGCCACTGACTCGTGGGCTTTG
1 AAAGG-TGCCACTGACTTGTGGGCTTTG
* *
40525 GAAGGATGCCACTGACTCGTGGGCTTTG
1 AAAGG-TGCCACTGACTTGTGGGCTTTG
* *
40553 AAAAGTTGCCACTGACTCGTGGGCTTTG
1 -AAAGGTGCCACTGACTTGTGGGCTTTG
* * * *
40581 AAAAGTTGCCACTAACTTATGGGCTTGG
1 -AAAGGTGCCACTGACTTGTGGGCTTTG
* * *
40609 AAAAGATACCATTGACTTGTGGGCTTTG
1 -AAAGGTGCCACTGACTTGTGGGCTTTG
* * * *
40637 AAAAGATGCCACCGACTTGTGGACATTG
1 -AAAGGTGCCACTGACTTGTGGGCTTTG
40665 AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGG-TGCCACTGACTTGTGGGCTTTG
40693 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAA-GGTGCCACTGACTTGTGGGCTTTG
* *
40721 AAAAGATGCCACTGACTTGTGTGGGCTTTAA
1 -AAAGGTGCCACTGAC-T-TGTGGGCTTT-G
* *
40752 AATAGGTTGCCACCGACTTGTGTTGGCTTTC
1 AA-AGG-TGCCACTGACTTGTG--GGCTTTG
**
40783 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAA--GG-TGCCACTGAC-T-TGTGGGCTTTG
*
40815 AAATAGGTTGCCACCGACTTGTGTGGGCTTTG
1 -AA-AGG-TGCCACTGAC-T-TGTGGGCTTTG
*
40847 AAATAGGTTGCCACCGACTTGTGTGGGCTTTG
1 -AA-AGG-TGCCACTGAC-T-TGTGGGCTTTG
* *
40879 AAATAGGTTGCCACCGACTTGTGTGGGCTTTC
1 -AA-AGG-TGCCACTGAC-T-TGTGGGCTTTG
* * *
40911 AAATGAGTTACCACCGACTTGTGTGGGCTTTC
1 AAA-G-G-TGCCACTGAC-T-TGTGGGCTTTG
*
40943 AAATGAGTTGCCACCGACTTTTGTGGGCTTTG
1 AAA-G-G-TGCCACTGAC--TTGTGGGCTTTG
*
40975 AAAGGGTGCCACCGACTTGTGTGGGCTTTG
1 AAA-GGTGCCACTGAC-T-TGTGGGCTTTG
* * * *
41005 AAAAGATACCACCGACTTGTGGGCTTTA
1 -AAAGGTGCCACTGACTTGTGGGCTTTG
*
41033 AAATGG-GCTATCACCGACTTGTGTGGGCTTTG
1 AAA-GGTGC---CACTGAC-T-TGTGGGCTTTG
*
41065 -AAGTGATGCCACTAACTTGTGGGC-TTG
1 AAAG-G-TGCCACTGACTTGTGGGCTTTG
*
41092 AAATGATGCCACTGACTTGTGGGCTTTG
1 AAA-GGTGCCACTGACTTGTGGGCTTTG
41120 AAATGGTGCCACTGACTTGTGGGCTTTG
1 AAA-GGTGCCACTGACTTGTGGGCTTTG
*
41148 AAAAGATGCCACTGACTTGTGGGCTTTG
1 -AAAGGTGCCACTGACTTGTGGGCTTTG
* * *
41176 AAAAGATGTCACTAACTTGTGGGCTTTG
1 -AAAGGTGCCACTGACTTGTGGGCTTTG
41204 AGAAGGATGCCACTGACTTGTGGGCTTTG
1 A-AAGG-TGCCACTGACTTGTGGGCTTTG
* *
41233 AAAGGTGCCACGGAGTTGTGG
1 AAAGGTGCCACTGACTTGTGG
41254 ACTTAAAAAG
Statistics
Matches: 685, Mismatches: 61, Indels: 80
0.83 0.07 0.10
Matches are distributed among these distances:
27 45 0.07
28 311 0.45
29 41 0.06
30 72 0.11
31 16 0.02
32 188 0.27
33 7 0.01
34 5 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:41300 original size:28 final size:27
Alignment explanation
Indices: 41206--41671 Score: 515
Period size: 27 Copynumber: 17.1 Consensus size: 27
41196 GGGCTTTGAG
* * * **
41206 AAGGATGCCACTGACTTGTGGGCTTTGA
1 AAGG-TGCCACGGAGTTGTGGACTTAAA
41234 AAGGTGCCACGGAGTTGTGGACTTAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAA
* * * ** * *
41261 AAGATGTCACGGAATTGCAGATTTCAA
1 AAGGTGCCACGGAGTTGTGGACTTAAA
41288 AAGAGTGCCACGGAGTTGTGGACTTAAA
1 AAG-GTGCCACGGAGTTGTGGACTTAAA
41316 AAGGTGCCACGGAGTTGTGGACTT-AA
1 AAGGTGCCACGGAGTTGTGGACTTAAA
*
41342 AGGGTGCCACGGAGTTGTGGACTTAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAA
* * *
41369 AAGGTACCACGAAATTGTGGACTTTAAA
1 AAGGTGCCACGGAGTTGTGGAC-TTAAA
*
41397 AGGGTGCCACGGAGTTGTGGACTTAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAA
*
41424 AGGGTGCCACGGAGTTGTGGACTTAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAA
* ** *
41451 AGGGTGCCACAAAATTGTGGACTTAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAA
41478 AAGGTGCCACGGAGTTGTGGACTTAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAA
* * * *
41505 AGGGTGCTACGGAGTTGTGGATTTTAA
1 AAGGTGCCACGGAGTTGTGGACTTAAA
* * *
41532 AGGGTACCACGGAGTTGTGGACTTTAA
1 AAGGTGCCACGGAGTTGTGGACTTAAA
41559 AAGGATGCCACGGAGTTGTGGACTT-AA
1 AAGG-TGCCACGGAGTTGTGGACTTAAA
* * *
41586 AAGGACGCCACGAAGTTGTGGACTTTAA
1 AAGG-TGCCACGGAGTTGTGGACTTAAA
*
41614 AAGGATGCCACGGAGTAGTGGACTT-AA
1 AAGG-TGCCACGGAGTTGTGGACTTAAA
* * *
41641 AAGGATACGACAGAGTTGTGGACTTTAAA
1 AAGG-TGCCACGGAGTTGTGGAC-TTAAA
41670 AA
1 AA
41672 AAATACCACT
Statistics
Matches: 378, Mismatches: 53, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
26 25 0.07
27 257 0.68
28 92 0.24
29 4 0.01
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (27 bp):
AAGGTGCCACGGAGTTGTGGACTTAAA
Found at i:41320 original size:82 final size:80
Alignment explanation
Indices: 41206--41670 Score: 529
Period size: 82 Copynumber: 5.7 Consensus size: 80
41196 GGGCTTTGAG
* * * ** * * *
41206 AAGGATGCCACTGACTTGTGGGCTTTGAAAGGTGCCACGGAGTTGTGGACTTAAAAAGATGTCAC
1 AAGG-TGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
* **
41271 GGAATTGCAGATTTCAA
65 GGAGTTGTGGATTT-AA
41288 AAGAGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTT-AAAGGGTGCCAC
1 AAG-GTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
*
41352 GGAGTTGTGGACTTAAA
65 GGAGTTGTGGA-TTTAA
* * * *
41369 AAGGTACCACGAAATTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
1 AAGGTGCCACGGAGTTGTGGAC-TTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
*
41434 GGAGTTGTGGACTTAA
65 GGAGTTGTGGATTTAA
** * *
41450 AAGGGTGCCACAAAATTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCTAC
1 AA-GGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
41515 GGAGTTGTGGATTTTAA
65 GGAGTTGTGGA-TTTAA
* * * **
41532 AGGGTACCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGACGCCAC
1 AAGGTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
*
41597 GAAGTTGTGGACTTTAA
65 GGAGTTGTGGA-TTTAA
* * * *
41614 AAGGATGCCACGGAGTAGTGGACTT-AAAAGGATACGACAGAGTTGTGGACTTTAAAA
1 AAGG-TGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGAC-TTAAAA
41671 AAAATACCAC
Statistics
Matches: 334, Mismatches: 40, Indels: 17
0.85 0.10 0.04
Matches are distributed among these distances:
80 16 0.05
81 130 0.39
82 163 0.49
83 25 0.07
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (80 bp):
AAGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
GAGTTGTGGATTTAA
Found at i:41327 original size:55 final size:54
Alignment explanation
Indices: 41236--41670 Score: 525
Period size: 55 Copynumber: 8.0 Consensus size: 54
41226 GGCTTTGAAA
* * * **
41236 GGTGCCACGGAGTTGTGGACTTAAAAAGATGTCACGGAATTGCAGATTTCAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGATTT-AAAAG
* *
41291 AGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTT-AAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGATTTAAAAG
* * *
41344 GGTGCCACGGAGTTGTGGACTTAAAAAGGTACCACGAAATTGTGGACTTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGA-TTTAAAAG
* *
41399 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGATTTAAAAG
** * *
41453 GGTGCCACAAAATTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGATTTAAAAG
* * * * *
41507 GGTGCTACGGAGTTGTGGATTTTAAAGGGTACCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGA-TTTAAAAG
* * *
41562 GATGCCACGGAGTTGTGGACTT-AAAAGGACGCCACGAAGTTGTGGACTTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGA-TTTAAAAG
* * * * *
41617 GATGCCACGGAGTAGTGGACTT-AAAAGGATACGACAGAGTTGTGGACTTTAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGA-TTTAAAA
41671 AAAATACCAC
Statistics
Matches: 333, Mismatches: 43, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
53 46 0.14
54 102 0.31
55 185 0.56
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (54 bp):
GGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGATTTAAAAG
Found at i:43885 original size:20 final size:20
Alignment explanation
Indices: 43839--43912 Score: 51
Period size: 20 Copynumber: 3.7 Consensus size: 20
43829 TCATACCCTG
* * *
43839 ATGTATCGATACATTTTTCA
1 ATGTATCAATACATGTATCA
* *
43859 ATATATCAATACATGTATGA
1 ATGTATCAATACATGTATCA
* * *
43879 ATGTATCGATATAT-TCTACA
1 ATGTATCAATACATGTAT-CA
*
43899 ATGTATCGATACAT
1 ATGTATCAATACAT
43913 TATGTCTTTT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 2 0.05
20 40 0.95
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCAATACATGTATCA
Found at i:43911 original size:40 final size:39
Alignment explanation
Indices: 43839--43916 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
43829 TCATACCCTG
* *
43839 ATGTATCGATACATTTTTCAATATATCAATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCAATACAT-TATGA
* * *
43879 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCAATACATTATG
43917 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCAATACATTATGA
Found at i:47703 original size:16 final size:17
Alignment explanation
Indices: 47673--47706 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47663 AGAAAAATAC
47673 ATTTTTATTAGAATTTA
1 ATTTTTATTAGAATTTA
*
47690 ATTTTTTTTA-AATTTA
1 ATTTTTATTAGAATTTA
47706 A
1 A
47707 ATAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTTTTATTAGAATTTA
Found at i:48446 original size:2 final size:2
Alignment explanation
Indices: 48400--48430 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
48390 TGTAAACTTC
48400 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48431 ACTGATGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48893 original size:37 final size:38
Alignment explanation
Indices: 48840--48914 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
48830 GCTCTGGCAA
* *
48840 TTTTATATTATTTTTTTTAATAAAATTTTTTTATAAATT
1 TTTTATATTATTTTTTTAAATAAAA-TTATTTATAAATT
48879 TTTTATATTA-TTTTTTAAATAAAATTATTTATAAAT
1 TTTTATATTATTTTTTTAAATAAAATTATTTATAAAT
48915 AAAATTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 11 0.32
38 13 0.38
39 10 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (38 bp):
TTTTATATTATTTTTTTAAATAAAATTATTTATAAATT
Found at i:48907 original size:17 final size:17
Alignment explanation
Indices: 48885--48931 Score: 78
Period size: 16 Copynumber: 2.8 Consensus size: 17
48875 AATTTTTTAT
48885 ATTATTTTTTAAATAAA
1 ATTATTTTTTAAATAAA
*
48902 ATTA-TTTATAAATAAA
1 ATTATTTTTTAAATAAA
48918 ATTATTTTTTAAAT
1 ATTATTTTTTAAAT
48932 TTATGATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTATTTTTTAAATAAA
Found at i:49089 original size:15 final size:15
Alignment explanation
Indices: 49067--49106 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
49057 ATAAAAATTC
49067 TTTT-AATATTTAAA
1 TTTTAAATATTTAAA
**
49081 TTTTAAATATTTTTA
1 TTTTAAATATTTAAA
49096 TTTTAAATATT
1 TTTTAAATATT
49107 ATTAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTAAATATTTAAA
Found at i:49158 original size:18 final size:18
Alignment explanation
Indices: 49135--49202 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 18
49125 TTTTATATTT
49135 TATTATTTAAATAATAAA
1 TATTATTTAAATAATAAA
49153 TATTATTT-AATCAAATAATAA
1 TATTATTTAAAT--AAT-A-AA
*
49174 TATTATTTGAATTATATAAA
1 TATTATTT-AAATA-ATAAA
49194 TATT-TTTAA
1 TATTATTTAA
49203 TTATTTCTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
17 3 0.07
18 10 0.24
19 6 0.14
20 7 0.17
21 12 0.29
22 2 0.05
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (18 bp):
TATTATTTAAATAATAAA
Found at i:49192 original size:22 final size:21
Alignment explanation
Indices: 49145--49206 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
49135 TATTATTTAA
* *
49145 ATAATAAATATTATTTAATCAA
1 ATAAT-AATATTATTTAATTAT
49167 ATAATAATATTATTTGAATTAT
1 ATAATAATATTATTT-AATTAT
49189 AT-A-AATATT-TTTAATTAT
1 ATAATAATATTATTTAATTAT
49207 TTCTTTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 6 0.16
19 3 0.08
20 6 0.16
21 11 0.30
22 11 0.30
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATAATAATATTATTTAATTAT
Found at i:49206 original size:18 final size:18
Alignment explanation
Indices: 49084--49206 Score: 57
Period size: 18 Copynumber: 6.9 Consensus size: 18
49074 ATTTAAATTT
49084 TAAATATTTTT-ATT-T-
1 TAAATATTTTTAATTATA
*
49099 TAAATATTATTAA--ATA
1 TAAATATTTTTAATTATA
*
49115 TAAATATCATTT--TTATA
1 TAAATAT-TTTTAATTATA
** *
49132 T-TTTATTATTTAAATA-A
1 TAAATATT-TTTAATTATA
* *
49149 TAAATATTATTTAATCAAA
1 TAAATATT-TTTAATTATA
49168 TAATAATATTATTTGAATTATA
1 T-A-AATATT-TTT-AATTATA
49190 TAAATATTTTTAATTAT
1 TAAATATTTTTAATTAT
49207 TTCTTTATTT
Statistics
Matches: 81, Mismatches: 13, Indels: 25
0.68 0.11 0.21
Matches are distributed among these distances:
15 11 0.14
16 14 0.17
17 8 0.10
18 19 0.23
19 5 0.06
20 7 0.09
21 11 0.14
22 6 0.07
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.53
Consensus pattern (18 bp):
TAAATATTTTTAATTATA
Found at i:51329 original size:30 final size:30
Alignment explanation
Indices: 51272--51330 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
51262 AATATAAAAT
* * *
51272 TAATTTGTTATAAAAAGTCAATTTATTAAA
1 TAATTTCTTATAAAAAGTAAATGTATTAAA
51302 TAATTTCTTATAAAAA-TAAGATGTATTAA
1 TAATTTCTTATAAAAAGTAA-ATGTATTAA
51331 TTATATTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (30 bp):
TAATTTCTTATAAAAAGTAAATGTATTAAA
Found at i:52379 original size:22 final size:23
Alignment explanation
Indices: 52330--52388 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
52320 CTAGCATGTA
*
52330 AATACATTATAATT-TATATTATG
1 AATACA-TATAATTATATATTACG
*
52353 TATACATATAATTATA-ATTACG
1 AATACATATAATTATATATTACG
52375 AATAC-TAATAATTA
1 AATACAT-ATAATTA
52389 AATCAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 1 0.03
22 23 0.74
23 7 0.23
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (23 bp):
AATACATATAATTATATATTACG
Found at i:53260 original size:2 final size:2
Alignment explanation
Indices: 53253--53287 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
53243 CAGTTCAATT
53253 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
53288 GAGATTGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:53763 original size:14 final size:14
Alignment explanation
Indices: 53744--53771 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
53734 AAGATAAAAT
53744 ATCAAAAAAATGAA
1 ATCAAAAAAATGAA
53758 ATCAAAAAAATGAA
1 ATCAAAAAAATGAA
53772 TTTTTATTTA
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:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (14 bp):
ATCAAAAAAATGAA
Found at i:53995 original size:8 final size:8
Alignment explanation
Indices: 53982--54009 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
53972 TTAAATATAT
53982 TATTTTTA
1 TATTTTTA
53990 TATTTTTA
1 TATTTTTA
53998 TATTTTTA
1 TATTTTTA
54006 TATT
1 TATT
54010 ATATCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTTTTA
Found at i:54259 original size:14 final size:14
Alignment explanation
Indices: 54240--54279 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
54230 CTCATAATTT
54240 TAAATATAATTATA
1 TAAATATAATTATA
54254 TAAATATAATATATA
1 TAAATATAAT-TATA
54269 TAAAT-TAATTA
1 TAAATATAATTA
54280 AAACATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 2 0.08
14 14 0.56
15 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAATATAATTATA
Found at i:54384 original size:21 final size:21
Alignment explanation
Indices: 54359--54411 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
54349 ATTTATAAAT
* *
54359 TAAAATATAATAATAATATAA
1 TAAAATATAAAAATAAAATAA
*
54380 TAAAATATAAAAATAAAATAT
1 TAAAATATAAAAATAAAATAA
*
54401 TAATATATAAA
1 TAAAATATAAA
54412 TTTTTAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAATATAAAAATAAAATAA
Found at i:54586 original size:28 final size:29
Alignment explanation
Indices: 54536--54600 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
54526 TTCAATAAAA
* * *
54536 TTTAAAAT-TATGTTTAAGTTTC-ATTTAT
1 TTTAAATTATATGTTTAAGATTCAATTT-G
54564 TTTAAATTATATGTTTAA-ATTCAATTTG
1 TTTAAATTATATGTTTAAGATTCAATTTG
54592 TTTAAATTA
1 TTTAAATTA
54601 AATAAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (29 bp):
TTTAAATTATATGTTTAAGATTCAATTTG
Found at i:60686 original size:21 final size:21
Alignment explanation
Indices: 60660--60704 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
60650 TTGGTATTTA
60660 TATACCCTATTTTCTCCTTAG
1 TATACCCTATTTTCTCCTTAG
60681 TATACCCTATTTTCTCCTTAG
1 TATACCCTATTTTCTCCTTAG
60702 TAT
1 TAT
60705 TTAGGGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.27, G:0.04, T:0.49
Consensus pattern (21 bp):
TATACCCTATTTTCTCCTTAG
Found at i:64319 original size:16 final size:16
Alignment explanation
Indices: 64239--64327 Score: 50
Period size: 14 Copynumber: 5.9 Consensus size: 16
64229 AAATATAAGT
*
64239 ATATATTT-TATATGA
1 ATATATTTATATATAA
* *
64254 TTATATTTAATATTTTAA
1 ATATATTT-ATA-TATAA
64272 AT-TA--TATATATAA
1 ATATATTTATATATAA
*
64285 ATA-A-TTATAT-T-C
1 ATATATTTATATATAA
*
64297 ATTTATTTATATATAA
1 ATATATTTATATATAA
*
64313 ATATATTTAAATATA
1 ATATATTTATATATA
64328 CATTAAACAT
Statistics
Matches: 55, Mismatches: 10, Indels: 17
0.67 0.12 0.21
Matches are distributed among these distances:
12 2 0.04
13 9 0.16
14 14 0.25
15 9 0.16
16 13 0.24
17 4 0.07
18 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (16 bp):
ATATATTTATATATAA
Found at i:64718 original size:20 final size:22
Alignment explanation
Indices: 64685--64727 Score: 56
Period size: 20 Copynumber: 2.0 Consensus size: 22
64675 GATGAGCCTA
64685 TTTTTAGTTATATTATTTA-ATT
1 TTTTTAGTTATATT-TTTATATT
64707 TTTTTA-TT-TATTTTTATATT
1 TTTTTAGTTATATTTTTATATT
64727 T
1 T
64728 AACATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.20
20 8 0.40
21 2 0.10
22 6 0.30
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTAGTTATATTTTTATATT
Found at i:65900 original size:13 final size:13
Alignment explanation
Indices: 65882--65906 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65872 TATTTTTTAA
65882 AATATTTATATTT
1 AATATTTATATTT
65895 AATATTTATATT
1 AATATTTATATT
65907 CGATATATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:66622 original size:3 final size:3
Alignment explanation
Indices: 66614--66646 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
66604 TTGTCAAAAT
66614 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
66647 GCTAAGGACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:66860 original size:77 final size:78
Alignment explanation
Indices: 66727--66870 Score: 245
Period size: 77 Copynumber: 1.9 Consensus size: 78
66717 CAGTAACCAT
* * *
66727 CCAATCAATAAAGGTGTATAAACCCATTTAACTCTCAGTCAACTAGCTCCGCCATTAAAAGTATA
1 CCAAGCAATAAAGGTGTATAAACCCATTTAACTCTCAATCAACTAGCTCCACCATTAAAAGTATA
66792 ATCATTAAGCCAC
66 ATCATTAAGCCAC
*
66805 CCAAGCAATAAAGGTGTATAAACCCA-TTAACTCTCAATCAACTAGCTCCACCATTAAAATTATA
1 CCAAGCAATAAAGGTGTATAAACCCATTTAACTCTCAATCAACTAGCTCCACCATTAAAAGTATA
66869 AT
66 AT
66871 TCTTTCCATG
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
77 37 0.60
78 25 0.40
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.26
Consensus pattern (78 bp):
CCAAGCAATAAAGGTGTATAAACCCATTTAACTCTCAATCAACTAGCTCCACCATTAAAAGTATA
ATCATTAAGCCAC
Found at i:67123 original size:19 final size:20
Alignment explanation
Indices: 67095--67143 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
67085 GTTGATTTAA
67095 TTTAATTTAAAATAATATAT
1 TTTAATTTAAAATAATATAT
67115 TTTAA-TTAAAATAATATAT
1 TTTAATTTAAAATAATATAT
*
67134 TTTTATTTAA
1 TTTAATTTAA
67144 TTTTAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTAATTTAAAATAATATAT
Found at i:67479 original size:29 final size:30
Alignment explanation
Indices: 67403--67469 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 30
67393 TAAGATATGA
*
67403 TATAAAAAAATAATTAAAAATATAATATAAAT
1 TATAATAAAAT-A-TAAAAATATAATATAAAT
*
67435 TATGATAAAATATAAAAAT-TAATATAAA-
1 TATAATAAAATATAAAAATATAATATAAAT
67463 TATAATA
1 TATAATA
67470 TGATTATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 6 0.19
29 9 0.28
30 7 0.22
31 1 0.03
32 9 0.28
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (30 bp):
TATAATAAAATATAAAAATATAATATAAAT
Found at i:67906 original size:14 final size:14
Alignment explanation
Indices: 67889--67927 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
67879 ATTTAATTAA
67889 TTTATAAAATTATT
1 TTTATAAAATTATT
* *
67903 TTTAAAAAATAATT
1 TTTATAAAATTATT
*
67917 TTTATTAAATT
1 TTTATAAAATT
67928 TAAATTTTAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTATAAAATTATT
Found at i:67974 original size:20 final size:21
Alignment explanation
Indices: 67945--67984 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
67935 TAAATTTTAC
67945 TATTTATAATATAT-ATTTTT
1 TATTTATAATATATGATTTTT
* *
67965 TATTTTTAATTTATGATTTT
1 TATTTATAATATATGATTTT
67985 CTTTGTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TATTTATAATATATGATTTTT
Found at i:68187 original size:24 final size:23
Alignment explanation
Indices: 68160--68215 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
68150 AATATAATAA
*
68160 AATATTTAAAAATTATTTTTAATT
1 AATATTTAAAAATT-TTTATAATT
* *
68184 AATATTTATATATTTTTATAATT
1 AATATTTAAAAATTTTTATAATT
68207 AA-ATTTAAA
1 AATATTTAAA
68216 TAAAAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 6 0.21
23 10 0.36
24 12 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTTAAAAATTTTTATAATT
Found at i:68231 original size:18 final size:18
Alignment explanation
Indices: 68208--68243 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
68198 TTTATAATTA
68208 AATTTAAATAAAAATATT
1 AATTTAAATAAAAATATT
* *
68226 AATTTAATTAATAATATT
1 AATTTAAATAAAAATATT
68244 TTATTAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTTAAATAAAAATATT
Found at i:71827 original size:18 final size:19
Alignment explanation
Indices: 71804--71861 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
71794 AAACTCAACC
71804 TAATTATATAATAA-AAAA
1 TAATTATATAATAATAAAA
*
71822 TAATTATAAAATAATAAAA
1 TAATTATATAATAATAAAA
*
71841 T-ATAATATAAT-ATAAATA
1 TAATTATATAATAATAAA-A
71859 TAA
1 TAA
71862 AAATATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 5 0.15
18 23 0.68
19 6 0.18
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAATTATATAATAATAAAA
Found at i:71847 original size:10 final size:10
Alignment explanation
Indices: 71809--71855 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
71799 CAACCTAATT
71809 ATATAATAAA
1 ATATAATAAA
*
71819 AAATAATTATAA
1 ATATAA-TA-AA
71831 A-ATAATAAA
1 ATATAATAAA
*
71840 ATATAATATA
1 ATATAATAAA
71850 ATATAA
1 ATATAA
71856 ATATAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 3 0.09
10 20 0.62
11 6 0.19
12 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
ATATAATAAA
Found at i:71847 original size:24 final size:25
Alignment explanation
Indices: 71820--71883 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 25
71810 TATAATAAAA
71820 AATAATTATAAAATAATAAA-ATA-T
1 AATAATTATAAAATAA-AAATATATT
*
71844 AATATAATATAAATATAAAAATATATT
1 AATA-ATTATAAA-ATAAAAATATATT
71871 AA-AATTTATAAAA
1 AATAA-TTATAAAA
71884 CATAAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
24 4 0.12
25 12 0.36
26 14 0.42
27 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
AATAATTATAAAATAAAAATATATT
Found at i:71850 original size:15 final size:16
Alignment explanation
Indices: 71821--71863 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
71811 ATAATAAAAA
*
71821 ATAATTATAAAATAAT
1 ATAAATATAAAATAAT
*
71837 A-AAATATAATATAAT
1 ATAAATATAAAATAAT
71852 ATAAATATAAAA
1 ATAAATATAAAA
71864 ATATATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAATATAAAATAAT
Found at i:71905 original size:8 final size:8
Alignment explanation
Indices: 71821--71906 Score: 54
Period size: 8 Copynumber: 10.5 Consensus size: 8
71811 ATAATAAAAA
*
71821 ATAATTAT
1 ATAAATAT
71829 A-AAATA-
1 ATAAATAT
71835 ATAAA-AT
1 ATAAATAT
71842 ATAATATAAT
1 ATAA-AT-AT
71852 ATAAATAT
1 ATAAATAT
*
71860 AAAAATAT
1 ATAAATAT
*
71868 ATTAAAATTT
1 A-T-AAATAT
*
71878 ATAAA-AC
1 ATAAATAT
71885 ATAAATTTAT
1 ATAAA--TAT
71895 ATAAATAT
1 ATAAATAT
71903 ATAA
1 ATAA
71907 TATTTTAAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
6 2 0.03
7 16 0.26
8 22 0.36
9 3 0.05
10 18 0.30
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (8 bp):
ATAAATAT
Found at i:74734 original size:18 final size:16
Alignment explanation
Indices: 74711--74746 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
74701 AGTATTAATT
74711 ATATTTAATATTTATTTA
1 ATATTTAA-ATTT-TTTA
74729 ATATTTAAATTTTTTA
1 ATATTTAAATTTTTTA
74745 AT
1 AT
74747 GCGATTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
18 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTTAAATTTTTTA
Found at i:76817 original size:16 final size:15
Alignment explanation
Indices: 76798--76842 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
76788 GATTAAATAA
76798 TTATAAATATAATTTT
1 TTAT-AATATAATTTT
76814 TTAT--TATAATTATT
1 TTATAATATAATT-TT
76828 TTATAATATAATTTT
1 TTATAATATAATTTT
76843 AATGTAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 2 0.08
16 11 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATAATATAATTTT
Found at i:76823 original size:13 final size:14
Alignment explanation
Indices: 76804--76842 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
76794 ATAATTATAA
76804 ATATAATTTTTTAT
1 ATATAATTTTTTAT
76818 -TATAATTATTTTAT
1 ATATAATT-TTTTAT
76832 AATATAATTTT
1 -ATATAATTTT
76843 AATGTAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.32
14 6 0.27
15 2 0.09
16 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATAATTTTTTAT
Done.