Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 70 of 103
Found at i:26243413 original size:47 final size:47
Alignment explanation
Indices: 26243344--26243481 Score: 249
Period size: 47 Copynumber: 2.9 Consensus size: 47
26243334 CACATAGAGA
26243344 AACACAACATAACTAAATATATCCCAAAATAATTCTTCTAAATTTGC
1 AACACAACATAACTAAATATATCCCAAAATAATTCTTCTAAATTTGC
26243391 AACACAACATAACTAAATATATCCCAAAATAATTCTTCTAAATTTGC
1 AACACAACATAACTAAATATATCCCAAAATAATTCTTCTAAATTTGC
* * *
26243438 AACACAACATAACTCAATATATCCTAAGATAATTCTTCTAAATT
1 AACACAACATAACTAAATATATCCCAAAATAATTCTTCTAAATT
26243482 GCCACTTAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.30
Consensus pattern (47 bp):
AACACAACATAACTAAATATATCCCAAAATAATTCTTCTAAATTTGC
Found at i:26244082 original size:21 final size:21
Alignment explanation
Indices: 26244056--26244129 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
26244046 CTGGGCAGGC
* *
26244056 AGTATCGATGCTCATGAAGAA
1 AGTATCGATACTCATGAAGGA
*
26244077 AGTATCGATACCCATGAAGGA
1 AGTATCGATACTCATGAAGGA
*
26244098 GGTATCGATACTCATGAAGGA
1 AGTATCGATACTCATGAAGGA
*
26244119 AGTATTGATAC
1 AGTATCGATAC
26244130 CTGGAAGGCA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (21 bp):
AGTATCGATACTCATGAAGGA
Found at i:26247445 original size:15 final size:15
Alignment explanation
Indices: 26247425--26247462 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
26247415 ATGATATATA
26247425 TTATAATTAATAA-TT
1 TTATAATT-ATAATTT
26247440 TTATAAGTTATAATTT
1 TTATAA-TTATAATTT
26247456 TTATAAT
1 TTATAAT
26247463 GTTAACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATAATTATAATTT
Found at i:26247696 original size:11 final size:11
Alignment explanation
Indices: 26247680--26247717 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
26247670 ATTTAATTAT
26247680 TTAAATAATAA
1 TTAAATAATAA
* *
26247691 TTAAATATTTA
1 TTAAATAATAA
26247702 -TAAATAATAA
1 TTAAATAATAA
26247712 TTAAAT
1 TTAAAT
26247718 TTGAAAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAAATAATAA
Found at i:26253888 original size:13 final size:13
Alignment explanation
Indices: 26253870--26253894 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26253860 TTTCAGAAAA
26253870 TTTATAAAATCAT
1 TTTATAAAATCAT
26253883 TTTATAAAATCA
1 TTTATAAAATCA
26253895 CAATTTTTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:26255143 original size:19 final size:19
Alignment explanation
Indices: 26255119--26255156 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
26255109 ACTTCTAAAC
26255119 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
26255138 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
26255157 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:26257657 original size:18 final size:19
Alignment explanation
Indices: 26257629--26257676 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
26257619 GTGACGGGTG
*
26257629 AAAAGAATATTTTA-GAAT
1 AAAATAATATTTTATGAAT
*
26257647 ATAATAATATTTTATGAAT
1 AAAATAATATTTTATGAAT
26257666 AAAATAATATT
1 AAAATAATATT
26257677 AAAATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
AAAATAATATTTTATGAAT
Found at i:26258589 original size:4 final size:4
Alignment explanation
Indices: 26258580--26258631 Score: 97
Period size: 4 Copynumber: 13.2 Consensus size: 4
26258570 AGATCGGCTT
26258580 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
26258627 GAAA G
1 GAAA G
26258632 GAAAAGGGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 3 0.06
4 44 0.94
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:26261420 original size:25 final size:26
Alignment explanation
Indices: 26261391--26261452 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
26261381 TAATTAGTTC
26261391 TAATATTTATAT-TTAAA-AGTATTAA
1 TAATATTTATATATTAAATA-TATTAA
*
26261416 TAATATTTATATATTAAATATATTAC
1 TAATATTTATATATTAAATATATTAA
26261442 TAATAGTTTAT
1 TAATA-TTTAT
26261453 TTTTGATCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
25 12 0.36
26 15 0.45
27 6 0.18
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (26 bp):
TAATATTTATATATTAAATATATTAA
Found at i:26262407 original size:8 final size:8
Alignment explanation
Indices: 26262396--26262956 Score: 598
Period size: 8 Copynumber: 71.9 Consensus size: 8
26262386 CAATTTAAAT
*
26262396 ATATATAT
1 ATATATAC
*
26262404 ATATATAT
1 ATATATAC
*
26262412 ATATATAT
1 ATATATAC
26262420 ATATATAC
1 ATATATAC
26262428 ATATATAC
1 ATATATAC
* *
26262436 --ACACAC
1 ATATATAC
*
26262442 ACATATAC
1 ATATATAC
*
26262450 ATATATAT
1 ATATATAC
*
26262458 ATATATNC
1 ATATATAC
26262466 ATATATAC
1 ATATATAC
*
26262474 ATATACAC
1 ATATATAC
* *
26262482 ATATACAT
1 ATATATAC
26262490 ATATATAC
1 ATATATAC
26262498 ATATATAC
1 ATATATAC
26262506 ATATATAC
1 ATATATAC
*
26262514 ATATACAC
1 ATATATAC
* *
26262522 ATATACAT
1 ATATATAC
26262530 ATATATAC
1 ATATATAC
26262538 ATATATAC
1 ATATATAC
26262546 ATATATAC
1 ATATATAC
*
26262554 ATATACAC
1 ATATATAC
* *
26262562 ATATACAT
1 ATATATAC
26262570 ATATATAC
1 ATATATAC
26262578 ATATATAC
1 ATATATAC
26262586 ATATATAC
1 ATATATAC
*
26262594 ATATACAC
1 ATATATAC
* *
26262602 ATATACAT
1 ATATATAC
26262610 ATATATAC
1 ATATATAC
26262618 ATATATAC
1 ATATATAC
*
26262626 ATATACAC
1 ATATATAC
* *
26262634 ATATACAT
1 ATATATAC
26262642 ATATATAC
1 ATATATAC
26262650 ATATATAC
1 ATATATAC
26262658 --ATATAC
1 ATATATAC
*
26262664 ACATATAC
1 ATATATAC
*
26262672 ATATATAT
1 ATATATAC
*
26262680 ACATATAC
1 ATATATAC
26262688 ATATATAC
1 ATATATAC
* *
26262696 ATACATAT
1 ATATATAC
*
26262704 ACATATAC
1 ATATATAC
*
26262712 ATATATGC
1 ATATATAC
* *
26262720 ATACATAT
1 ATATATAC
*
26262728 ACATATAC
1 ATATATAC
26262736 ATATAT--
1 ATATATAC
26262742 ATATATAC
1 ATATATAC
26262750 ATATATAC
1 ATATATAC
26262758 --ATATAC
1 ATATATAC
26262764 ATATATAC
1 ATATATAC
26262772 ATATATAC
1 ATATATAC
*
26262780 ATATATAT
1 ATATATAC
*
26262788 ACATATAC
1 ATATATAC
*
26262796 ACATATAC
1 ATATATAC
26262804 ATATATAC
1 ATATATAC
*
26262812 ATATACAC
1 ATATATAC
* *
26262820 ATATACAT
1 ATATATAC
26262828 ATATATAC
1 ATATATAC
*
26262836 ATATATGC
1 ATATATAC
26262844 --ATATAC
1 ATATATAC
*
26262850 ACATATAC
1 ATATATAC
26262858 ATATATAC
1 ATATATAC
*
26262866 ATATACATC
1 ATATATA-C
26262875 -TATATAC
1 ATATATAC
26262882 ATATATAC
1 ATATATAC
26262890 --ATATAC
1 ATATATAC
26262896 ATATATAC
1 ATATATAC
26262904 ATACATATAC
1 AT--ATATAC
26262914 ATATATAC
1 ATATATAC
26262922 --ATATAC
1 ATATATAC
26262928 ATATATAC
1 ATATATAC
26262936 --ATATAC
1 ATATATAC
26262942 ATATATAC
1 ATATATAC
26262950 ATATATA
1 ATATATA
26262957 TAGTTAACCC
Statistics
Matches: 471, Mismatches: 62, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
6 45 0.10
7 1 0.00
8 416 0.88
9 1 0.00
10 8 0.02
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.35
Consensus pattern (8 bp):
ATATATAC
Found at i:26262459 original size:40 final size:40
Alignment explanation
Indices: 26262404--26262958 Score: 668
Period size: 40 Copynumber: 13.7 Consensus size: 40
26262394 ATATATATAT
* * *
26262404 ATATATATATATATATATATATACATATATACACACACAC
1 ATATACATATATATATATATATACATATATACATATACAC
*
26262444 ATATAC--ATATATATATATATNCATATATACATATACAC
1 ATATACATATATATATATATATACATATATACATATACAC
*
26262482 ATATACATATATATACATATATACATATATACATATACAC
1 ATATACATATATATATATATATACATATATACATATACAC
*
26262522 ATATACATATATATACATATATACATATATACATATACAC
1 ATATACATATATATATATATATACATATATACATATACAC
*
26262562 ATATACATATATATACATATATACATATATACATATACAC
1 ATATACATATATATATATATATACATATATACATATACAC
* * *
26262602 ATATACATATATATACATATATACATATACACATATACAT
1 ATATACATATATATATATATATACATATATACATATACAC
* * * * * * *
26262642 ATATATACATATATACATATACACATATACATATATATAC
1 ATATACATATATATATATATATACATATATACATATACAC
* * * * *
26262682 ATATACATATATACATACATATACATATACATATATGCATAC
1 ATATACATATATATATATATATACATATATACATAT--ACAC
*
26262724 ATATACATATACATATATATATATACATATATACATATACAT
1 ATATACATAT--ATATATATATATACATATATACATATACAC
* * *
26262766 ATATACATATATACATATATATACATATACACATATACAT
1 ATATACATATATATATATATATACATATATACATATACAC
*
26262806 ATATACATATACACATATACATATATATACATATATGCATATACAC
1 ATATACATAT----ATAT--ATATATATACATATATACATATACAC
* * *
26262852 ATATACATATATACATATACAT-C-TATATACATATATAC
1 ATATACATATATATATATATATACATATATACATATACAC
* * *
26262890 ATATACATATATACATACATATACATATATACATATACAT
1 ATATACATATATATATATATATACATATATACATATACAC
* * *
26262930 ATATACATATACATATATACATATATATA
1 ATATACATATATATATATATATACATATA
26262959 GTTAACCCTT
Statistics
Matches: 456, Mismatches: 45, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
38 68 0.15
39 2 0.00
40 299 0.66
42 29 0.06
44 25 0.05
46 33 0.07
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.35
Consensus pattern (40 bp):
ATATACATATATATATATATATACATATATACATATACAC
Found at i:26270391 original size:28 final size:29
Alignment explanation
Indices: 26270333--26270396 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
26270323 GTAAATTTTT
** *
26270333 AAAAATTAAACTTTTACCCCCGTAAAGTG
1 AAAAATTAAACTTTTACCCCCAAAAACTG
* *
26270362 AAAAATTACATTTTTA-CCCCAAAAACTG
1 AAAAATTAAACTTTTACCCCCAAAAACTG
26270390 AAAAATT
1 AAAAATT
26270397 GCCCATAGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (29 bp):
AAAAATTAAACTTTTACCCCCAAAAACTG
Found at i:26275912 original size:22 final size:23
Alignment explanation
Indices: 26275884--26275930 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
26275874 ATTTCTATGC
26275884 ATTACTATAAAAACTAAGCT-AA
1 ATTACTATAAAAACTAAGCTCAA
* *
26275906 ATTACTATCAAAATTAAGCTCAA
1 ATTACTATAAAAACTAAGCTCAA
26275929 AT
1 AT
26275931 AACTCTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.30
Consensus pattern (23 bp):
ATTACTATAAAAACTAAGCTCAA
Found at i:26288705 original size:15 final size:15
Alignment explanation
Indices: 26288681--26288716 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
26288671 CAATGCAATG
*
26288681 TGATTACAAGTAATA
1 TGATTGCAAGTAATA
*
26288696 TGATTGCAAGTAATG
1 TGATTGCAAGTAATA
26288711 TGATTG
1 TGATTG
26288717 TAAGGAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (15 bp):
TGATTGCAAGTAATA
Found at i:26288979 original size:33 final size:32
Alignment explanation
Indices: 26288934--26289019 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 32
26288924 TTTTAATGTC
* **
26288934 ATATGTTATATTTTTATTTTTTATTATAATATT
1 ATATATTATATTTTTATTTTTTAAAATAAT-TT
*
26288967 ATATATTTTATTTTTATTTTTTAAAATAATTT
1 ATATATTATATTTTTATTTTTTAAAATAATTT
*
26288999 TTATATTATATATTTTATTTT
1 ATATATTATAT-TTTTATTTT
26289020 AATTTCTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 11 0.24
33 35 0.76
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (32 bp):
ATATATTATATTTTTATTTTTTAAAATAATTT
Found at i:26289042 original size:31 final size:29
Alignment explanation
Indices: 26289007--26289110 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 29
26288997 TTTTATATTA
26289007 TATATTTTATTTTAATTTCTTTTACCTATAT
1 TATATTTTATTTTAATTTC-TTTA-CTATAT
**
26289038 TATA-TAAATTTTAATTTC-TTA-TAT-T
1 TATATTTTATTTTAATTTCTTTACTATAT
26289063 T-TATTTTATTTTAATTTCTAATT-CTTATAT
1 TATATTTTATTTTAATTTCT--TTAC-TATAT
26289093 TATATGTTTTATTTTAAT
1 TATA--TTTTATTTTAAT
26289111 ATTTTTATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
24 2 0.03
25 14 0.24
26 3 0.05
28 5 0.08
29 3 0.05
30 14 0.24
31 6 0.10
33 12 0.20
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (29 bp):
TATATTTTATTTTAATTTCTTTACTATAT
Found at i:26289093 original size:55 final size:56
Alignment explanation
Indices: 26288993--26289097 Score: 153
Period size: 55 Copynumber: 1.9 Consensus size: 56
26288983 TTTTTTAAAA
*
26288993 TAATTTTTATATTATATATTTTATTTTAATTTCTTTTACCTATATTATATAAATTT
1 TAATTTTTATATTATATATTTTATTTTAATTTCTATTACCTATATTATATAAATTT
*
26289049 TAATTTCTTATATT-T-TATTTTATTTTAATTTCTAATT-CTTATATTATAT
1 TAATTT-TTATATTATATATTTTATTTTAATTTCT-ATTACCTATATTATAT
26289098 GTTTTATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
55 29 0.64
56 9 0.20
57 7 0.16
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (56 bp):
TAATTTTTATATTATATATTTTATTTTAATTTCTATTACCTATATTATATAAATTT
Found at i:26289116 original size:14 final size:15
Alignment explanation
Indices: 26289094--26289124 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
26289084 TTCTTATATT
26289094 ATATGTTTTATTTTA
1 ATATGTTTTATTTTA
26289109 ATAT-TTTTATTTTA
1 ATATGTTTTATTTTA
26289123 AT
1 AT
26289125 TATAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
ATATGTTTTATTTTA
Found at i:26290676 original size:69 final size:69
Alignment explanation
Indices: 26290565--26290700 Score: 254
Period size: 69 Copynumber: 2.0 Consensus size: 69
26290555 CATCAGGGAA
* *
26290565 TTAAGATCCTTCGAATTACAGCTGTATCAGTCATGGGAATTGTAATTTCTGAGACTTTTGAGTTG
1 TTAAGATCCTTCGAATTACAGCTGTATCAGTAATGGGAATTGTAATTTCTGAGACTTTTGAATTG
26290630 AAAT
66 AAAT
26290634 TTAAGATCCTTCGAATTACAGCTGTATCAGTAATGGGAATTGTAATTTCTGAGACTTTTGAATTG
1 TTAAGATCCTTCGAATTACAGCTGTATCAGTAATGGGAATTGTAATTTCTGAGACTTTTGAATTG
26290699 AA
66 AA
26290701 TTTCAACCAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (69 bp):
TTAAGATCCTTCGAATTACAGCTGTATCAGTAATGGGAATTGTAATTTCTGAGACTTTTGAATTG
AAAT
Found at i:26291890 original size:28 final size:31
Alignment explanation
Indices: 26291811--26291890 Score: 94
Period size: 33 Copynumber: 2.6 Consensus size: 31
26291801 TTTTAATGCC
26291811 ATATATTTTATTTTCATTTCTTATTATAATCTT
1 ATATATTTTATTTTCATTTCTTA-TATAA-CTT
**
26291844 ATATATTTTACATTCATTTCTTA-AT-A-TT
1 ATATATTTTATTTTCATTTCTTATATAACTT
*
26291872 ATATATTTTATTTTAATTT
1 ATATATTTTATTTTCATTT
26291891 TTTTAAAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
28 18 0.43
30 1 0.02
31 2 0.05
33 21 0.50
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (31 bp):
ATATATTTTATTTTCATTTCTTATATAACTT
Found at i:26296477 original size:69 final size:69
Alignment explanation
Indices: 26296355--26296493 Score: 251
Period size: 69 Copynumber: 2.0 Consensus size: 69
26296345 TAGCTACAAC
*
26296355 CAAGCTTCTATTTGATTGGAAAACATGTAAGGTTTAAACCCAGGATTTACTGCCCATCTGCATCT
1 CAAGCTTCTATTTGATTGGAAAACATGTAAGGTTTAAACCCAGGACTTACTGCCCATCTGCATCT
26296420 TTTT
66 TTTT
* *
26296424 CAAGCTTCTATTTGATTGGAAAACATGTAAGGTTTAAACCCATGACTTGCTGCCCATCTGCATCT
1 CAAGCTTCTATTTGATTGGAAAACATGTAAGGTTTAAACCCAGGACTTACTGCCCATCTGCATCT
26296489 TTTT
66 TTTT
26296493 C
1 C
26296494 TTTCTCTTTG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (69 bp):
CAAGCTTCTATTTGATTGGAAAACATGTAAGGTTTAAACCCAGGACTTACTGCCCATCTGCATCT
TTTT
Found at i:26297071 original size:2 final size:2
Alignment explanation
Indices: 26297064--26297099 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
26297054 AAGCAGACAA
26297064 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
26297100 AAATGTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:26299056 original size:217 final size:215
Alignment explanation
Indices: 26298683--26299108 Score: 708
Period size: 217 Copynumber: 2.0 Consensus size: 215
26298673 AAGTAAACTC
* * *
26298683 GTAACAAGTGACATCAGAACCTTTTCAACTCACACCTATGAAAGATACTAAGTTCGAGATAGACT
1 GTAACAAGTGACATAAGAACCTTTTCAACTCACACCTATGAAAGATACTAAGTTCGAGATAAACC
*
26298748 CAAATCAAGGTGAGTTCATCTCATTTATGGATAAGAGCCAATACAATACAAATCTTGCATCAGTA
66 CAAATCAAGGTGAGTTCATCTCATTTATAGATAAGAGCCAATACAATACAAATCTTGCATCAGTA
* * *
26298813 AACGATCAAATAAATCTTTGACATATGAGTAAGGATTTTCCTCCCCTTAACACTACTAAAAAAAC
131 AACGATCAAATAAATCTTTAACATATGAGTAAGAATTTTCCTCCCCATAACACTACTAAAAAAAC
26298878 AAGGTATCATCGACTGAAAA
196 AAGGTATCATCGACTGAAAA
* **
26298898 GTAACAAGTGATATAAGAACCTTTTCAACTCACACTCCTATGATCGATACTAAGTTCGAGATAAA
1 GTAACAAGTGACATAAGAACCTTTTCAACTCACA--CCTATGAAAGATACTAAGTTCGAGATAAA
* *
26298963 CCCAGATCAAGGTGAGTTCATCTCCTTTATAGATAAGAGCCAATACAATACAAATCTTGCATCAG
64 CCCAAATCAAGGTGAGTTCATCTCATTTATAGATAAGAGCCAATACAATACAAATCTTGCATCAG
* *
26299028 TGAACGATCAAATAAATCTTTAACATATGAGTAAGAATTTTCCTCCCCATAACACTACTAAAAGA
129 TAAACGATCAAATAAATCTTTAACATATGAGTAAGAATTTTCCTCCCCATAACACTACTAAAAAA
26299093 ACAAGGTATCATCGAC
194 ACAAGGTATCATCGAC
26299109 AAAAAATTTT
Statistics
Matches: 195, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
215 32 0.16
217 163 0.84
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (215 bp):
GTAACAAGTGACATAAGAACCTTTTCAACTCACACCTATGAAAGATACTAAGTTCGAGATAAACC
CAAATCAAGGTGAGTTCATCTCATTTATAGATAAGAGCCAATACAATACAAATCTTGCATCAGTA
AACGATCAAATAAATCTTTAACATATGAGTAAGAATTTTCCTCCCCATAACACTACTAAAAAAAC
AAGGTATCATCGACTGAAAA
Found at i:26303773 original size:30 final size:31
Alignment explanation
Indices: 26303728--26303804 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
26303718 TTTATTACGT
* * * *
26303728 TCAATTAAATCCTTATAA-TTTTACTTTGAG
1 TCAAATAAATTCTTATAACTTTTACTTTAAA
*
26303758 TCAAATAAATTCTTATAACTTTTATTTTAAA
1 TCAAATAAATTCTTATAACTTTTACTTTAAA
*
26303789 TCAAATAAACTCTTAT
1 TCAAATAAATTCTTAT
26303805 TACTAATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 16 0.40
31 24 0.60
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (31 bp):
TCAAATAAATTCTTATAACTTTTACTTTAAA
Found at i:26304473 original size:16 final size:17
Alignment explanation
Indices: 26304443--26304475 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26304433 TTTTTTTTAT
26304443 TTTTTTAAATATAATAA
1 TTTTTTAAATATAATAA
*
26304460 TTTTTTATAT-TAATAA
1 TTTTTTAAATATAATAA
26304476 ATAAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTTTAAATATAATAA
Found at i:26312105 original size:188 final size:189
Alignment explanation
Indices: 26311644--26312140 Score: 572
Period size: 188 Copynumber: 2.6 Consensus size: 189
26311634 TTCAAATTGG
* * * *
26311644 TCATTCATCT-TATCTGTTAT-TGTCAATGGCCCTGATTAATTAGTTTCTAAGCAATATTTTAAC
1 TCATTCATTTCTATCT-TTATCTATCAATGGCCCTGATTAATTAGTTTCTAATCAATATTTTGAC
* * * * *
26311707 CAACA-ATAGAATGATTTACATTATAGAAGCAGGATTGATGTGGTTGTAGATCATACATTAGTAT
65 CAACATTTGGAATGATTTACATAATAGAAGCAGGATTGATGTGGTTGTATATCATACATGAGTAT
* * *
26311771 CCAATAATCTAAGTATGAAAACATGCTTCAGTGAGCCTTTAAATAGGTCTTTCATCTTATCCAT
130 CCAATAATCTAAGTATG---ACATGC-TCAATGAGCCTTCAAATAGGCCTTTCATCTTATCCAT
** * *
26311835 T-ATTCA-TTC-ATCTTTATCTATCGTTGTCCCTGATTAATTAGTTTCTGATCAATATTTTGACC
1 TCATTCATTTCTATCTTTATCTATCAATGGCCCTGATTAATTAGTTTCTAATCAATATTTTGACC
* * *
26311897 AACATTTGGAATGATTTACATCATAGAAGCAGGATTGGTGTGGTTGTATATCATATATGAGTATC
66 AACATTTGGAATGATTTACATAATAGAAGCAGGATTGATGTGGTTGTATATCATACATGAGTATC
26311962 CAATAATC-AAGGTATG-C-T-C-CAATG-GACCTTCAAATTA-GCCTTTCATCTTATCCAAT
131 CAATAATCTAA-GTATGACATGCTCAATGAG-CCTTCAAA-TAGGCCTTTCATCTTATCC-AT
*
26312018 ATGCATTCATTTCTATCTATTATCT-TCAATGGCCCTGATTAATTAGTTTCCAATCAATATTTTG
1 -T-CATTCATTTCTATCT-TTATCTATCAATGGCCCTGATTAATTAGTTTCTAATCAATATTTTG
* * * *
26312082 ACCAACATTTGGAATGGTTTACATAATAGAAGCAGTATTCATGTGGTTTTATATCATAC
63 ACCAACATTTGGAATGATTTACATAATAGAAGCAGGATTGATGTGGTTGTATATCATAC
26312141 CATAAGCCTT
Statistics
Matches: 263, Mismatches: 30, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
181 1 0.00
182 26 0.10
183 4 0.02
184 2 0.01
185 1 0.00
186 6 0.02
187 3 0.01
188 94 0.36
189 54 0.21
190 71 0.27
191 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (189 bp):
TCATTCATTTCTATCTTTATCTATCAATGGCCCTGATTAATTAGTTTCTAATCAATATTTTGACC
AACATTTGGAATGATTTACATAATAGAAGCAGGATTGATGTGGTTGTATATCATACATGAGTATC
CAATAATCTAAGTATGACATGCTCAATGAGCCTTCAAATAGGCCTTTCATCTTATCCAT
Found at i:26337371 original size:27 final size:29
Alignment explanation
Indices: 26337319--26337386 Score: 95
Period size: 27 Copynumber: 2.4 Consensus size: 29
26337309 TGAAATTATA
*
26337319 AAAATTTTTAAAAAATAATAACAAAACTAT
1 AAAA-TTTTAAAAAATAAGAACAAAACTAT
*
26337349 AAAATTTTAAAAAA-AAGAA-AAAATTAT
1 AAAATTTTAAAAAATAAGAACAAAACTAT
26337376 AAAATTTTAAA
1 AAAATTTTAAA
26337387 GCTTTTTGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 18 0.50
28 4 0.11
29 10 0.28
30 4 0.11
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.29
Consensus pattern (29 bp):
AAAATTTTAAAAAATAAGAACAAAACTAT
Found at i:26339894 original size:35 final size:36
Alignment explanation
Indices: 26339844--26339916 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 36
26339834 TTGAGTTTCT
26339844 ATAGTTTATAGATTTTGT-TTAAATAAAA-TAATAA
1 ATAGTTTATAGATTTTGTATTAAATAAAATTAATAA
* *
26339878 ATAGATTTATATATTTTGTATTAATTAAAATTAATAA
1 ATAG-TTTATAGATTTTGTATTAAATAAAATTAATAA
26339915 AT
1 AT
26339917 TAAATTCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
34 4 0.12
35 13 0.38
36 9 0.26
37 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (36 bp):
ATAGTTTATAGATTTTGTATTAAATAAAATTAATAA
Found at i:26341357 original size:14 final size:14
Alignment explanation
Indices: 26341338--26341370 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26341328 AAGTGATATT
26341338 TTAATTAA-TAATAA
1 TTAATTAATTAAT-A
26341352 TTAATTAATTAATA
1 TTAATTAATTAATA
26341366 TTAAT
1 TTAAT
26341371 AAAAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAATTAATTAATA
Found at i:26344155 original size:30 final size:30
Alignment explanation
Indices: 26344119--26344175 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
26344109 TTTTTATTAC
26344119 TTTATTAATAAAACTTTCAACAAGGCTTTT
1 TTTATTAATAAAACTTTCAACAAGGCTTTT
26344149 TTTATTAATAAAACTTTCAACAAGGCT
1 TTTATTAATAAAACTTTCAACAAGGCT
26344176 CTGTTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTATTAATAAAACTTTCAACAAGGCTTTT
Found at i:26344705 original size:93 final size:91
Alignment explanation
Indices: 26344467--26344708 Score: 272
Period size: 93 Copynumber: 2.6 Consensus size: 91
26344457 AAATTTACGG
* * * * *
26344467 TAGAATATGTAGTAACTT-AA-TCTCTCAAAATTCTATCTTTAGCTGGTTGATTTGCACCACTTT
1 TAGAATATGTAGTAA-TTCAACTCTCTCAAAATCCTATATTTAGCTAGCTGATATGCACCACTTT
* * *
26344530 TCATTAGTTACATTTAACATTGAAAAA
65 ACATTAATTACATTTAACATTAAAAAA
* * * * * *
26344557 TAGCATATATAATAACTCAATCTCTCTCAAAATCCTATATTTAGTTAGGTGATATGCACCACTTT
1 TAGAATATGTAGTAATTCAA-CTCTCTCAAAATCCTATATTTAGCTAGCTGATATGCACCACTTT
*
26344622 ACATTAATTACATTTAATACTTAAAAAA
65 ACATTAATTACATTTAACA-TTAAAAAA
* * *
26344650 TAGAATATGTAGTAATTCAACCTCTCTAAAAACCCTATTTTTAGCTAGCTGATATGCAC
1 TAGAATATGTAGTAATTCAA-CTCTCTCAAAATCCTATATTTAGCTAGCTGATATGCAC
26344709 TCTTAGTTAC
Statistics
Matches: 124, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
89 1 0.01
90 14 0.11
92 53 0.43
93 56 0.45
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (91 bp):
TAGAATATGTAGTAATTCAACTCTCTCAAAATCCTATATTTAGCTAGCTGATATGCACCACTTTA
CATTAATTACATTTAACATTAAAAAA
Found at i:26350199 original size:100 final size:102
Alignment explanation
Indices: 26350041--26350256 Score: 296
Period size: 100 Copynumber: 2.1 Consensus size: 102
26350031 TTCAAAATGC
* * *
26350041 ACTCGGAGGTTTTCATAAGAAAAGGTTGCTCTTCATCTCAAAGTGAGGCTACATAACTTTAAAAA
1 ACTCAGAGGTTTTCATAAG-AAAGGTTGCTCTTCATCTCAAAGCGAGGCTACACAACTTTAAAAA
*
26350106 AATATTGAAACTAATTA-CTCGAAGGTTTTGGAGAATAT
65 AATATTGAAACTAATTACCT-GAAGGTTTTGAAGAATAT
* *
26350144 ACTCAGAGGTTTT-ATAAG-AAGGTTGCTCTTTATCTCTAAA-CGAGGCTACGCAACTTTAAAAA
1 ACTCAGAGGTTTTCATAAGAAAGGTTGCTCTTCATCTC-AAAGCGAGGCTACACAACTTTAAAAA
* *
26350206 AATCTTGAAACTAATTACCTGGAGGTTTTGAAGAATAT
65 AATATTGAAACTAATTACCTGAAGGTTTTGAAGAATAT
*
26350244 ACTCAAAGGTTTT
1 ACTCAGAGGTTTT
26350257 GAAGATGTAC
Statistics
Matches: 102, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
100 80 0.78
101 5 0.05
102 5 0.05
103 12 0.12
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (102 bp):
ACTCAGAGGTTTTCATAAGAAAGGTTGCTCTTCATCTCAAAGCGAGGCTACACAACTTTAAAAAA
ATATTGAAACTAATTACCTGAAGGTTTTGAAGAATAT
Found at i:26350276 original size:21 final size:22
Alignment explanation
Indices: 26350227--26350276 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
26350217 TAATTACCTG
*
26350227 GAGGTTTTGAAGAATATACTCA
1 GAGGTTTTGAAGAATATACCCA
* *
26350249 AAGGTTTTGAAG-ATGTACCCA
1 GAGGTTTTGAAGAATATACCCA
26350270 GAGGTTT
1 GAGGTTT
26350277 CCATAAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (22 bp):
GAGGTTTTGAAGAATATACCCA
Found at i:26350348 original size:124 final size:122
Alignment explanation
Indices: 26350121--26350517 Score: 344
Period size: 124 Copynumber: 3.2 Consensus size: 122
26350111 TGAAACTAAT
* * * *
26350121 TACTCGAAGGTTTTGGAGAATATACTCAGAGGTTTTATAAG--AAGGTTGCTCTTT-ATCTCTAA
1 TACTCAAAGGTTTTGAAGAATGTACCCAGAGGTTTTATAAGAAAAGGTTGCT-TTTCATCTCTAA
* * * * ** * *
26350183 ACGAGGCTACGCAACTTTAAAAAAATCTTGAAACTAATTACCTGGAGGTTTTGAAGAATA
65 ATGAGGCTACGTAACTTTAAAGAAATATT-AAGTTAGTTACCTGGAGGTTTT-AAGAATG
*
26350243 TACTCAAAGGTTTTGAAG-ATGTACCCAGAGGTTTCCATAAGAAAAGGTTGCTTTTCATCTCTAA
1 TACTCAAAGGTTTTGAAGAATGTACCCAGAGGTTT-TATAAGAAAAGGTTGCTTTTCATCTCTAA
* * *
26350307 ATGAGGCTACGTAACTTTAAAGAAATATTAATGTTAGTTACCCGGAGGTGTCATAAGGATG
65 ATGAGGCTACGTAACTTTAAAGAAATATTAA-GTTAGTTACCTGGAGGT-T-TTAAGAATG
*** * * * * * **
26350368 TACTTGGAGATTTTG-AGAATGTACTC-GAAGGATTTTAAAAGAAAATGTTAC-TACCATCTCTA
1 TACTCAAAGGTTTTGAAGAATGTACCCAG-AGG-TTTTATAAGAAAAGGTTGCTTTTCATCTCTA
* * *
26350430 AATGAGGCTATGTAACTTTAAAGAAATATTAACGTTAGTCACCTGGAGGTTTCTTAAAAATG
64 AATGAGGCTACGTAACTTTAAAGAAATATTAA-GTTAGTTACCTGGAGG-TT-TTAAGAATG
*
26350492 TAC-CTAGAGGTTTTGAA-AATGTACCC
1 TACTC-AAAGGTTTTGAAGAATGTACCC
26350518 GTAGATTTTC
Statistics
Matches: 224, Mismatches: 38, Indels: 24
0.78 0.13 0.08
Matches are distributed among these distances:
121 14 0.06
122 21 0.09
123 5 0.02
124 139 0.62
125 41 0.18
126 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (122 bp):
TACTCAAAGGTTTTGAAGAATGTACCCAGAGGTTTTATAAGAAAAGGTTGCTTTTCATCTCTAAA
TGAGGCTACGTAACTTTAAAGAAATATTAAGTTAGTTACCTGGAGGTTTTAAGAATG
Found at i:26350496 original size:23 final size:22
Alignment explanation
Indices: 26350470--26350573 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 22
26350460 AACGTTAGTC
26350470 ACCTGGAGGTTTCTTAAAAATGT
1 ACCTGGAGGTTT-TTAAAAATGT
* *
26350493 ACCTAGAGG-TTTTGAAAATGT
1 ACCTGGAGGTTTTTAAAAATGT
* * * *
26350514 ACCCGTAGATTTTCAAAAATGT
1 ACCTGGAGGTTTTTAAAAATGT
** *
26350536 ATCC-GGAGG-TTTTGGAGATGT
1 A-CCTGGAGGTTTTTAAAAATGT
*
26350557 ACCTGAAGG-TTTTAAAA
1 ACCTGGAGGTTTTTAAAA
26350574 GAAAAGATTG
Statistics
Matches: 60, Mismatches: 18, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
20 2 0.03
21 32 0.53
22 16 0.27
23 10 0.17
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (22 bp):
ACCTGGAGGTTTTTAAAAATGT
Found at i:26350681 original size:21 final size:20
Alignment explanation
Indices: 26350640--26350698 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 20
26350630 GTTAATTACT
*
26350640 CAGAGATTTTATAAGAATGTAC
1 CAGAGGTTTTA-AA-AATGTAC
26350662 CTAGAGGTTTTAAAAATGTAC
1 C-AGAGGTTTTAAAAATGTAC
26350683 CAGGAGGTTTTAAAAA
1 CA-GAGGTTTTAAAAA
26350699 ATATATTCGG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 1 0.03
21 21 0.62
22 3 0.09
23 9 0.26
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (20 bp):
CAGAGGTTTTAAAAATGTAC
Found at i:26352149 original size:20 final size:20
Alignment explanation
Indices: 26352104--26352141 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
26352094 TTTTGGCCCC
26352104 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
26352124 ATTTGACTTATTTGAGTA
1 ATTTGACTTATTGGAGTA
26352142 AGATTTGAGG
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:0.29, C:0.05, G:0.18, T:0.47
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:26352532 original size:30 final size:31
Alignment explanation
Indices: 26352498--26352556 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
26352488 CCCTAGAGAG
26352498 AGAAAATCAA-AGAAAAAGTGTGA-ATTTTCA
1 AGAAAATCAAGAGAAAAAG-GTGAGATTTTCA
* *
26352528 AGAAAATTAAGTGAAAAAGGTGAGATTTT
1 AGAAAATCAAGAGAAAAAGGTGAGATTTT
26352557 TTCTATTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.51, C:0.03, G:0.20, T:0.25
Consensus pattern (31 bp):
AGAAAATCAAGAGAAAAAGGTGAGATTTTCA
Found at i:26353384 original size:13 final size:13
Alignment explanation
Indices: 26353366--26353390 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26353356 AGAGAAATTG
26353366 TAATTTTATAAAA
1 TAATTTTATAAAA
26353379 TAATTTTATAAA
1 TAATTTTATAAA
26353391 TTTTTAAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTTTATAAAA
Found at i:26362517 original size:14 final size:14
Alignment explanation
Indices: 26362498--26362534 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
26362488 TTATGAGAGA
26362498 GAAAAAAA-GATAAG
1 GAAAAAAATGA-AAG
26362512 GAAAAAAATGAAAG
1 GAAAAAAATGAAAG
26362526 GAAAAAAAT
1 GAAAAAAAT
26362535 CATTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 20 0.91
15 2 0.09
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (14 bp):
GAAAAAAATGAAAG
Found at i:26368390 original size:12 final size:12
Alignment explanation
Indices: 26368375--26368406 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
26368365 AAAATAAAAG
*
26368375 AAATGTTCAATA
1 AAATATTCAATA
26368387 AAATATTCAATA
1 AAATATTCAATA
26368399 AAATATTC
1 AAATATTC
26368407 TATTTTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.34
Consensus pattern (12 bp):
AAATATTCAATA
Found at i:26372579 original size:36 final size:36
Alignment explanation
Indices: 26372553--26372645 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
26372543 TTTCACATAG
26372553 CACATAGTTATCATCGTCATGTGCACTCGTACACCA
1 CACATAGTTATCATCGTCATGTGCACTCGTACACCA
* *
26372589 CACATAGTTATCATCGTCATGTGCACTCCTACACCG
1 CACATAGTTATCATCGTCATGTGCACTCGTACACCA
* *
26372625 CACATAGTTATTATCATCATG
1 CACATAGTTATCATCGTCATG
26372646 AGCTCCCATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (36 bp):
CACATAGTTATCATCGTCATGTGCACTCGTACACCA
Found at i:26378791 original size:17 final size:17
Alignment explanation
Indices: 26378759--26378792 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26378749 ATAAGAATTC
* *
26378759 ATGTATATGTATATATT
1 ATGTATATATAGATATT
26378776 ATGTATATATAGATATT
1 ATGTATATATAGATATT
26378793 TTCAAACATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
ATGTATATATAGATATT
Found at i:26378935 original size:36 final size:36
Alignment explanation
Indices: 26378878--26378989 Score: 161
Period size: 36 Copynumber: 3.1 Consensus size: 36
26378868 TAAACTCAAG
* * * *
26378878 CATGTGCAGTCTCACAACGCACATAGCTATTATCGT
1 CATGTGCACTCCCACACCGCACATAGTTATTATCGT
* *
26378914 TATGTGCACTCCCACACCGCACATAGTTATCATCGT
1 CATGTGCACTCCCACACCGCACATAGTTATTATCGT
*
26378950 CATGTGCACTCCCACACCGCACATAGTTATTATCAT
1 CATGTGCACTCCCACACCGCACATAGTTATTATCGT
26378986 CATG
1 CATG
26378990 AGCTCCCATA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (36 bp):
CATGTGCACTCCCACACCGCACATAGTTATTATCGT
Found at i:26381395 original size:17 final size:17
Alignment explanation
Indices: 26381375--26381407 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26381365 TCCTCTTCTT
26381375 CTTTCT-TCTTTCTTTTC
1 CTTTCTCTC-TTCTTTTC
26381392 CTTTCTCTCTTCTTTT
1 CTTTCTCTCTTCTTTT
26381408 TTATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
CTTTCTCTCTTCTTTTC
Found at i:26384048 original size:18 final size:18
Alignment explanation
Indices: 26384014--26384051 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
26384004 ACAAATCACT
26384014 AAAAACAAAAATCAATAAA
1 AAAAACAAAAA-CAATAAA
26384033 AAAAACTAAAAA-AATAAA
1 AAAAAC-AAAAACAATAAA
26384051 A
1 A
26384052 TACAAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 6 0.33
20 5 0.28
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAAACAAAAACAATAAA
Found at i:26384106 original size:37 final size:36
Alignment explanation
Indices: 26384030--26384106 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 36
26384020 AAAAATCAAT
* * *
26384030 AAAAAAAACTAAAAAAATAAAATACAAAAGTAATTGA
1 AAAAAAAACAAAAAAAATAAAACACAAAAGGAA-TGA
*
26384067 AAAAAAAACAAAAAAAATACAAACCCAAAAAGGAA-GA
1 AAAAAAAACAAAAAAAATA-AAACAC-AAAAGGAATGA
26384104 AAA
1 AAA
26384107 TGTGCTCTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
37 23 0.68
38 4 0.12
39 7 0.21
ACGTcount: A:0.75, C:0.09, G:0.06, T:0.09
Consensus pattern (36 bp):
AAAAAAAACAAAAAAAATAAAACACAAAAGGAATGA
Found at i:26385738 original size:26 final size:26
Alignment explanation
Indices: 26385709--26385764 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
26385699 TAGTTTGAAC
26385709 TTTTAAATTATACTAATA-TAAAAATA
1 TTTTAAATTATACTAATAGT-AAAATA
** **
26385735 TTTTTTATTATTTTAATAGTAAAATA
1 TTTTAAATTATACTAATAGTAAAATA
26385761 TTTT
1 TTTT
26385765 GTGCATATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTTAAATTATACTAATAGTAAAATA
Found at i:26389198 original size:31 final size:31
Alignment explanation
Indices: 26389163--26389227 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
26389153 AGACATTTGG
* *
26389163 TAACAGAATTATTAGTGTATTTATCTTAATA
1 TAACAAAATTATTAATGTATTTATCTTAATA
*
26389194 TAACAAAATTGTTAATGTATTTATCTTAATA
1 TAACAAAATTATTAATGTATTTATCTTAATA
26389225 TAA
1 TAA
26389228 ATTTGTGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.45
Consensus pattern (31 bp):
TAACAAAATTATTAATGTATTTATCTTAATA
Found at i:26390989 original size:19 final size:19
Alignment explanation
Indices: 26390962--26391000 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
26390952 CCAAAATTTT
* * *
26390962 TAAATTTTTTTATATCATA
1 TAAAATTTTTAATATAATA
26390981 TAAAATTTTTAATATAATA
1 TAAAATTTTTAATATAATA
26391000 T
1 T
26391001 CTTAATGGGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TAAAATTTTTAATATAATA
Found at i:26391540 original size:15 final size:15
Alignment explanation
Indices: 26391522--26391553 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
26391512 TCGTATTTAA
26391522 ATAT-TTATA-TTTT
1 ATATATTATAGTTTT
26391535 ATATATTATAGTTTT
1 ATATATTATAGTTTT
26391550 ATAT
1 ATAT
26391554 TTAGCATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 5 0.29
15 8 0.47
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATATATTATAGTTTT
Found at i:26393365 original size:25 final size:24
Alignment explanation
Indices: 26393326--26393373 Score: 62
Period size: 27 Copynumber: 1.9 Consensus size: 24
26393316 TCAATTCTTC
26393326 TTAATATATGTAAAAATATTATATATG
1 TTAATATA-GTAAAAA-A-TATATATG
26393353 TTAATATA-TAAAAAATATATA
1 TTAATATAGTAAAAAATATATA
26393374 AAAATTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 1 0.05
25 6 0.29
27 8 0.38
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (24 bp):
TTAATATAGTAAAAAATATATATG
Found at i:26398548 original size:26 final size:27
Alignment explanation
Indices: 26398519--26398572 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
26398509 ATATTTACAG
* **
26398519 TTTCCAACGGAATTTTCCGTT-GAAAA
1 TTTCCAACAGAAAATTCCGTTGGAAAA
26398545 TTTCCAACAGAAAATTCCGTTGGAAAA
1 TTTCCAACAGAAAATTCCGTTGGAAAA
26398572 T
1 T
26398573 AAAACTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (27 bp):
TTTCCAACAGAAAATTCCGTTGGAAAA
Found at i:26398634 original size:74 final size:77
Alignment explanation
Indices: 26398544--26398701 Score: 196
Period size: 86 Copynumber: 2.0 Consensus size: 77
26398534 TCCGTTGAAA
26398544 ATTTCCAACAGAAAATTCC-G-T-TGGAAAATAAAACTTTAAAAAAAATTTTACAATCTTTTTAC
1 ATTTCCAACAGAAAATTCCTGATATGGAAAATAAAACTTTAAAAAAAATTTTACAATCTTTTTAC
26398606 AGTTTCCAACAG
66 AGTTTCCAACAG
* *
26398618 ATTTCCAACGGAAAATTCCGTTGAAATTTCCAATGGAACATAAAACTTTAAAAAAAATTTTACAA
1 ATTTCCAACAGAAAATTCC--TG--A--T---ATGGAAAATAAAACTTTAAAAAAAATTTTACAA
26398683 TCTTTTTACAGTTTCCAAC
57 TCTTTTTACAGTTTCCAAC
26398702 GGAAATTTTC
Statistics
Matches: 70, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
74 18 0.26
77 1 0.01
82 1 0.01
86 50 0.71
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (77 bp):
ATTTCCAACAGAAAATTCCTGATATGGAAAATAAAACTTTAAAAAAAATTTTACAATCTTTTTAC
AGTTTCCAACAG
Found at i:26400788 original size:89 final size:88
Alignment explanation
Indices: 26400564--26400842 Score: 256
Period size: 90 Copynumber: 3.1 Consensus size: 88
26400554 CTCTCAAGGC
* * * * * * * * * *
26400564 CTTCCTTTTTCAACCGACGACACAAGGCCGAAGCCTCAACTATCTCTAAAAC-CGACGGCACAGG
1 CTTCCTTTTCCAACCGGCAACACAAGCCCGAAGCCCCAGC-CTCTCTAGAACTAG-CGGCACAGC
* **
26400628 AACCCAGATCTGGTAGGCTCTCGCTT
64 AACCCAGATCTTGT-CTCTCTCGCTT
*
26400654 CTTCCTTTTCCAACCGGCAACACAAGCCCGAAGCCCCAGCTCTCTCTAGAA-TCAGTGGCACAGC
1 CTTCCTTTTCCAACCGGCAACACAAGCCCGAAGCCCCAGC-CTCTCTAGAACT-AGCGGCACAGC
*
26400718 AACCCAGATCTTGTCTCTCTCACTT
64 AACCCAGATCTTGTCTCTCTCGCTT
* ** ** * *
26400743 CTTCCTTTTCCAATCGGTGACACAAGGTCGAATCGCCCTAGCTCTCTCTAGAACTAGCAGCACAG
1 CTTCCTTTTCCAACCGGCAACACAAGCCCGAA--GCCCCAGC-CTCTCTAGAACTAGCGGCACAG
* *
26400808 CAACCCAGATATTCTCTCTCTCGCTT
63 CAACCCAGATCTTGTCTCTCTCGCTT
26400834 CTTCCTTTT
1 CTTCCTTTT
26400843 GCCGGCGGCA
Statistics
Matches: 158, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
89 35 0.22
90 63 0.40
91 59 0.37
92 1 0.01
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (88 bp):
CTTCCTTTTCCAACCGGCAACACAAGCCCGAAGCCCCAGCCTCTCTAGAACTAGCGGCACAGCAA
CCCAGATCTTGTCTCTCTCGCTT
Found at i:26400828 original size:91 final size:89
Alignment explanation
Indices: 26400645--26400842 Score: 263
Period size: 91 Copynumber: 2.2 Consensus size: 89
26400635 ATCTGGTAGG
*
26400645 CTCTCGCTTCTTCCTTTTCCAACCGGCAACACAAGCCCGAAGCCCCAGCTCTCTCTAGAATCAGT
1 CTCTCGCTTCTTCCTTTTCCAACCGGCAACACAAGCCCGAAGCCCCAGCTCTCTCTAGAATCAGC
* * *
26400710 GGCACAGCAACCCAGATCTTGTCT
66 AGCACAGCAACCCAGATATTCTCT
* * ** ** *
26400734 CTCTCACTTCTTCCTTTTCCAATCGGTGACACAAGGTCGAATCGCCCTAGCTCTCTCTAGAA-CT
1 CTCTCGCTTCTTCCTTTTCCAACCGGCAACACAAGCCCGAA--GCCCCAGCTCTCTCTAGAATC-
26400798 AGCAGCACAGCAACCCAGATATTCTCT
63 AGCAGCACAGCAACCCAGATATTCTCT
26400825 CTCTCGCTTCTTCCTTTT
1 CTCTCGCTTCTTCCTTTT
26400843 GCCGGCGGCA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
89 35 0.37
90 1 0.01
91 58 0.62
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.28
Consensus pattern (89 bp):
CTCTCGCTTCTTCCTTTTCCAACCGGCAACACAAGCCCGAAGCCCCAGCTCTCTCTAGAATCAGC
AGCACAGCAACCCAGATATTCTCT
Found at i:26406509 original size:30 final size:28
Alignment explanation
Indices: 26406475--26406566 Score: 93
Period size: 27 Copynumber: 3.3 Consensus size: 28
26406465 ATCGATTGAG
26406475 GATGAAGAAGATGATATCGATAAAGATGAA
1 GATGAAGAAGATGA-AT-GATAAAGATGAA
* *
26406505 GATGAAGAAGATGACATG-GAAGGA-GAA
1 GATGAAGAAGATGA-ATGATAAAGATGAA
*
26406532 GAT-AATGAAGATG-ATGATGAAGATGAA
1 GATGAA-GAAGATGAATGATAAAGATGAA
26406559 GATGAAGA
1 GATGAAGA
26406567 TGAATACGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
25 3 0.06
26 5 0.10
27 21 0.40
28 6 0.12
29 1 0.02
30 16 0.31
ACGTcount: A:0.49, C:0.02, G:0.32, T:0.17
Consensus pattern (28 bp):
GATGAAGAAGATGAATGATAAAGATGAA
Found at i:26406545 original size:6 final size:6
Alignment explanation
Indices: 26406536--26406603 Score: 91
Period size: 6 Copynumber: 11.3 Consensus size: 6
26406526 GGAGAAGATA
* * *
26406536 ATGAAG ATGATG ATGAAG ATGAAG ATGAAG ATGAAT ACGAAG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* *
26406584 ATGAAA ATGAAA ATGAAG AT
1 ATGAAG ATGAAG ATGAAG AT
26406604 CATGTGGAGC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.51, C:0.01, G:0.28, T:0.19
Consensus pattern (6 bp):
ATGAAG
Found at i:26406570 original size:30 final size:30
Alignment explanation
Indices: 26406475--26406602 Score: 104
Period size: 30 Copynumber: 4.3 Consensus size: 30
26406465 ATCGATTGAG
* *
26406475 GATGAAGAAGATGAT-ATCGATAAAGATGAA
1 GATGAAGAAGATGATGA-AGATGAAGATGAA
26406505 GATGAAGAAGATGACATGGAAGGA-GAAGAT--A
1 GATGAAGAAGATG--AT-GAA-GATGAAGATGAA
*
26406536 -ATGAAGATGATGATGAAGATGAAGATGAA
1 GATGAAGAAGATGATGAAGATGAAGATGAA
* * * *
26406565 GATGAATACGAAGATGAAGATGAAAATGAA
1 GATGAAGAAGATGATGAAGATGAAGATGAA
*
26406595 AATGAAGA
1 GATGAAGA
26406603 TCATGTGGAG
Statistics
Matches: 80, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
26 2 0.03
27 9 0.11
28 2 0.03
29 1 0.01
30 55 0.69
31 1 0.01
32 2 0.03
33 5 0.06
34 3 0.04
ACGTcount: A:0.51, C:0.02, G:0.30, T:0.17
Consensus pattern (30 bp):
GATGAAGAAGATGATGAAGATGAAGATGAA
Found at i:26407989 original size:16 final size:16
Alignment explanation
Indices: 26407968--26408007 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
26407958 AGGATGGTAT
*
26407968 GAATTAATGTTACTTA
1 GAATTAATGTTACTCA
26407984 GAATTAATGTTACTCA
1 GAATTAATGTTACTCA
26408000 GAATTAAT
1 GAATTAAT
26408008 ATGTATGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (16 bp):
GAATTAATGTTACTCA
Found at i:26408103 original size:2 final size:2
Alignment explanation
Indices: 26408096--26408149 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
26408086 ATGTAGAATA
*
26408096 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26408138 AT AT AT AT AT AT
1 AT AT AT AT AT AT
26408150 CGATTATGAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26408702 original size:12 final size:12
Alignment explanation
Indices: 26408665--26408701 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
26408655 TTTGAATAAG
*
26408665 ATACGTGAGCAA
1 ATACGTGAGAAA
26408677 ATACGTGAGAAA
1 ATACGTGAGAAA
26408689 ATACGTGAAGAAA
1 ATACGTG-AGAAA
26408702 TGAGAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.49, C:0.11, G:0.24, T:0.16
Consensus pattern (12 bp):
ATACGTGAGAAA
Found at i:26409128 original size:31 final size:31
Alignment explanation
Indices: 26409087--26409145 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
26409077 TAGGTCAAAC
*
26409087 TATTACCAACGAAAAATTCCGTTGGAAAGCA
1 TATTACCAACGAAAAATTCAGTTGGAAAGCA
* *
26409118 TATTTCCAACGAAAATTTCAGTTGGAAA
1 TATTACCAACGAAAAATTCAGTTGGAAA
26409146 TGCCAACCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (31 bp):
TATTACCAACGAAAAATTCAGTTGGAAAGCA
Found at i:26410459 original size:22 final size:22
Alignment explanation
Indices: 26410423--26410504 Score: 112
Period size: 22 Copynumber: 3.8 Consensus size: 22
26410413 ACTTAATCAC
26410423 TGCGTGACTGATTTTTAGGCAT
1 TGCGTGACTGATTTTTAGGCAT
* * *
26410445 TACGTGATTG-GTTTTAGGCAT
1 TGCGTGACTGATTTTTAGGCAT
*
26410466 TGCGTGACTGATTTTTAAGCAT
1 TGCGTGACTGATTTTTAGGCAT
*
26410488 TGCGTGATTGATTTTTA
1 TGCGTGACTGATTTTTA
26410505 AGTAATGCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 18 0.35
22 33 0.65
ACGTcount: A:0.20, C:0.11, G:0.26, T:0.44
Consensus pattern (22 bp):
TGCGTGACTGATTTTTAGGCAT
Found at i:26410542 original size:23 final size:23
Alignment explanation
Indices: 26410524--26410765 Score: 211
Period size: 23 Copynumber: 10.2 Consensus size: 23
26410514 TAAGTCACAT
26410524 AATGCTTTACTAACTAGTCACGC
1 AATGCTTTACTAACTAGTCACGC
26410547 AATGCTTTACTAACTAGTCACGC
1 AATGCTTTACTAACTAGTCACGC
26410570 AATGCTTTACTAACTAGTCACGC
1 AATGCTTTACTAACTAGTCACGC
* *
26410593 AATGCCTTACTAACAAGTCACGC
1 AATGCTTTACTAACTAGTCACGC
* * *
26410616 AATGCCTTACTAGCAAGTCACGC
1 AATGCTTTACTAACTAGTCACGC
* *
26410639 AATGC-CTA-TAAACTAGTCACAC
1 AATGCTTTACT-AACTAGTCACGC
* * *
26410661 AATGCTTTATCAGAAACTAGTCGCAC
1 AATGCTTTA-C--TAACTAGTCACGC
* * *
26410687 AATGCTTTATCAGAAACTAGTCGCAC
1 AATGCTTTA-C--TAACTAGTCACGC
** *
26410713 AATGCCTTATCAAAAACTAGTTACGC
1 AATG-CTT-T-ACTAACTAGTCACGC
* *
26410739 AATGC-CTATTAACTAGTCACGC
1 AATGCTTTACTAACTAGTCACGC
26410761 AATGC
1 AATGC
26410766 CTTATCAAAA
Statistics
Matches: 192, Mismatches: 18, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.01
22 33 0.17
23 97 0.51
25 1 0.01
26 55 0.29
27 3 0.02
28 1 0.01
29 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (23 bp):
AATGCTTTACTAACTAGTCACGC
Found at i:26410677 original size:26 final size:26
Alignment explanation
Indices: 26410648--26410884 Score: 160
Period size: 26 Copynumber: 9.7 Consensus size: 26
26410638 CAATGCCTAT
* *
26410648 AAACTAGTCACACAATGCTTTATCAG
1 AAACTAGTCACACAATGCCTTATCAA
* * *
26410674 AAACTAGTCGCACAATGCTTTATCAG
1 AAACTAGTCACACAATGCCTTATCAA
*
26410700 AAACTAGTCGCACAATGCCTTATCAA
1 AAACTAGTCACACAATGCCTTATCAA
* *
26410726 AAACTAGTTACGCAATGCC-TAT---
1 AAACTAGTCACACAATGCCTTATCAA
* *
26410748 TAACTAGTCACGCAATGCCTTATCAA
1 AAACTAGTCACACAATGCCTTATCAA
* *
26410774 AAACAAGTCACGCAATGCC----CAA
1 AAACTAGTCACACAATGCCTTATCAA
** * *
26410796 AGTC-AATCACGCAATGCC----CAA
1 AAACTAGTCACACAATGCCTTATCAA
** * * *
26410817 AGTC-AATCACGCAATGCCTTATCAG
1 AAACTAGTCACACAATGCCTTATCAA
**
26410842 AAACTAGTCACGTAATGCCTTATCAA
1 AAACTAGTCACACAATGCCTTATCAA
*
26410868 AAACTAGTCACGCAATG
1 AAACTAGTCACACAATG
26410885 TCCAAAGTCA
Statistics
Matches: 182, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
21 34 0.19
22 22 0.12
23 3 0.02
25 7 0.04
26 116 0.64
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.23
Consensus pattern (26 bp):
AAACTAGTCACACAATGCCTTATCAA
Found at i:26410805 original size:21 final size:21
Alignment explanation
Indices: 26410781--26410834 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
26410771 CAAAAACAAG
26410781 TCACGCAATGCCCAAAGTCAA
1 TCACGCAATGCCCAAAGTCAA
26410802 TCACGCAATGCCCAAAGTCAA
1 TCACGCAATGCCCAAAGTCAA
26410823 TCACGCAATGCC
1 TCACGCAATGCC
26410835 TTATCAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (21 bp):
TCACGCAATGCCCAAAGTCAA
Found at i:26410841 original size:168 final size:169
Alignment explanation
Indices: 26410558--26410876 Score: 407
Period size: 168 Copynumber: 1.9 Consensus size: 169
26410548 ATGCTTTACT
* *
26410558 AACTAGTCACGCAATGCTTTACTAACTAGTCACGCAATGCCTTACTAACAAGTCACGCAATGCCT
1 AACTAGTCACGCAATGCTCTACTAACTAGTCACGCAATGCCTTACAAACAAGTCACGCAATGCCT
* * * * * *
26410623 TACTAGCAAGTCACGCAATGCCTATAAACTAGTCACACAATGCTTTATCAGAAACTAGTCGCACA
66 CACAAGCAAGTCACGCAATGCCCATAAACTAATCACACAATGCCTTATCAGAAACTAGTCACACA
* *
26410688 ATGCTTTATCAGAAACTAGTCGCACAATGCCTTATCAAA
131 ATGCCTTATCAAAAACTAGTCGCACAATGCCTTATCAAA
* *
26410727 AACTAGTTACGCAATGC-CTATTAACTAGTCACGCAATGCCTTATCAAAAACAAGTCACGCAATG
1 AACTAGTCACGCAATGCTCTACTAACTAGTCACGCAATGCCTTA-C--AAACAAGTCACGCAATG
* *
26410791 CC-CA-AAGTCAA-TCACGCAATGCCC--AAAGTCAATCACGCAATGCCTTATCAGAAACTAGTC
63 CCTCACAAG-CAAGTCACGCAATGCCCATAAACT-AATCACACAATGCCTTATCAGAAACTAGTC
**
26410851 ACGTAATGCCTTATCAAAAACTAGTC
126 ACACAATGCCTTATCAAAAACTAGTC
26410877 ACGCAATGTC
Statistics
Matches: 129, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
167 4 0.03
168 72 0.56
169 31 0.24
170 4 0.03
171 18 0.14
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (169 bp):
AACTAGTCACGCAATGCTCTACTAACTAGTCACGCAATGCCTTACAAACAAGTCACGCAATGCCT
CACAAGCAAGTCACGCAATGCCCATAAACTAATCACACAATGCCTTATCAGAAACTAGTCACACA
ATGCCTTATCAAAAACTAGTCGCACAATGCCTTATCAAA
Found at i:26413395 original size:17 final size:17
Alignment explanation
Indices: 26413373--26413406 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
26413363 ATGTTTTTAC
26413373 TCGTTATAATGGAATGA
1 TCGTTATAATGGAATGA
26413390 TCGTTATAATGGAATGA
1 TCGTTATAATGGAATGA
26413407 GCTATTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (17 bp):
TCGTTATAATGGAATGA
Found at i:26415775 original size:19 final size:19
Alignment explanation
Indices: 26415751--26415787 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
26415741 CCATTTGACT
*
26415751 TATTGGAGTATGATTTGAG
1 TATTGGAATATGATTTGAG
26415770 TATTGGAATATGATTTGA
1 TATTGGAATATGATTTGA
26415788 AATTTAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (19 bp):
TATTGGAATATGATTTGAG
Found at i:26417043 original size:13 final size:13
Alignment explanation
Indices: 26417025--26417050 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26417015 AGGAGAAATT
26417025 ATGATTTTATAAA
1 ATGATTTTATAAA
26417038 ATGATTTTATAAA
1 ATGATTTTATAAA
26417051 TTTTCTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:26418270 original size:15 final size:15
Alignment explanation
Indices: 26418250--26418289 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
26418240 CAAAGATTTT
*
26418250 GATTTTAAAACTTTG
1 GATTTTAAAACTTTC
**
26418265 GATTTTAAAGTTTTC
1 GATTTTAAAACTTTC
26418280 GATTTTAAAA
1 GATTTTAAAA
26418290 TTGTTTTAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.47
Consensus pattern (15 bp):
GATTTTAAAACTTTC
Found at i:26423174 original size:13 final size:12
Alignment explanation
Indices: 26423108--26423174 Score: 50
Period size: 13 Copynumber: 5.5 Consensus size: 12
26423098 AGACAGTATA
*
26423108 TTTAAAATGTTT
1 TTTAAAATATTT
26423120 TATTAAAA-ATATT
1 T-TTAAAATAT-TT
26423133 TTTAATAATATTT
1 TTTAA-AATATTT
**
26423146 TTT--TGTATTT
1 TTTAAAATATTT
26423156 TTTAAAATATTT
1 TTTAAAATATTT
26423168 TTATAAA
1 TT-TAAA
26423175 TTTGACTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
10 8 0.19
12 13 0.30
13 20 0.47
14 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
TTTAAAATATTT
Found at i:26437729 original size:77 final size:77
Alignment explanation
Indices: 26437648--26437802 Score: 301
Period size: 77 Copynumber: 2.0 Consensus size: 77
26437638 TAAAAAAAAG
*
26437648 TTCATTACCAGAAAATATTAAACATAGAACAAAGCATGAAGGATATTAAAAGAAACAATGAGTTA
1 TTCATTACCAGAAAATATTAAACATAGAACAAAGCATGAAAGATATTAAAAGAAACAATGAGTTA
26437713 CAATTAAACAAA
66 CAATTAAACAAA
26437725 TTCATTACCAGAAAATATTAAACATAGAACAAAGCATGAAAGATATTAAAAGAAACAATGAGTTA
1 TTCATTACCAGAAAATATTAAACATAGAACAAAGCATGAAAGATATTAAAAGAAACAATGAGTTA
26437790 CAATTAAACAAA
66 CAATTAAACAAA
26437802 T
1 T
26437803 AAAACAAACC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.55, C:0.12, G:0.11, T:0.23
Consensus pattern (77 bp):
TTCATTACCAGAAAATATTAAACATAGAACAAAGCATGAAAGATATTAAAAGAAACAATGAGTTA
CAATTAAACAAA
Found at i:26439898 original size:2 final size:2
Alignment explanation
Indices: 26439891--26439925 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
26439881 TATATTAGGT
26439891 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
26439926 TATGATTTAT
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:26440986 original size:21 final size:21
Alignment explanation
Indices: 26440949--26440989 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26440939 CTCATTCTCC
*
26440949 TTCAATATATAATTTTTCTTT
1 TTCAATATATAAATTTTCTTT
26440970 TTCAATAT-TGAAATTTTCTT
1 TTCAATATAT-AAATTTTCTT
26440990 CTTCGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (21 bp):
TTCAATATATAAATTTTCTTT
Found at i:26450237 original size:41 final size:41
Alignment explanation
Indices: 26450175--26450287 Score: 181
Period size: 41 Copynumber: 2.7 Consensus size: 41
26450165 AAACGTTGTG
* *
26450175 AGTTGTATTCAGAACACCCCCAAGAAAAGAAGACACATTATC
1 AGTTATATTCTGAACA-CCCCAAGAAAAGAAGACACATTATC
* *
26450217 AGTTATATTCTGAACACCCCAATAAAAGAAGACACATTATG
1 AGTTATATTCTGAACACCCCAAGAAAAGAAGACACATTATC
26450258 AGTTATATTCTGAACACCCCAAGAAAAGAA
1 AGTTATATTCTGAACACCCCAAGAAAAGAA
26450288 AAAGCATTGG
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
41 52 0.79
42 14 0.21
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.21
Consensus pattern (41 bp):
AGTTATATTCTGAACACCCCAAGAAAAGAAGACACATTATC
Found at i:26450326 original size:124 final size:126
Alignment explanation
Indices: 26450131--26450358 Score: 286
Period size: 124 Copynumber: 1.8 Consensus size: 126
26450121 TAAGCATTGC
* * *
26450131 GAGTTATATTTAAAACACCCCTAAGAGAAAAAAAAAACGTTGTGAGTTGTATTCAGAACACCCCC
1 GAGTTATATTTAAAACACCCCTAAGAGAAAAAAAAAACATTGGGAGTTGTATTCAGAACACCCCA
*
26450196 AAGAAAAGAAGAC-ACATTATC-AGTTATATTCTGAACACCCCAATAAAAGAAGACACATTAT
66 AAGAAAAGAAGACGA-ATT-TCGAGTTATATTCGGAACACCCCAATAAAAGAAGACACATTAT
* * * ** **
26450257 GAGTTATATTCT-GAACACCCC-AAGA-AAAGAAAAAGCATTGGGAGTTGTATTTGGAACACTTC
1 GAGTTATATT-TAAAACACCCCTAAGAGAAAAAAAAAACATTGGGAGTTGTATTCAGAACACCCC
*
26450319 AAAGAAAAGAAGACGAATTTCGAGTTGTATTCGGAACACC
65 AAAGAAAAGAAGACGAATTTCGAGTTATATTCGGAACACC
26450359 TCTAAGAGAA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
123 2 0.02
124 61 0.70
125 5 0.06
126 18 0.21
127 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.23
Consensus pattern (126 bp):
GAGTTATATTTAAAACACCCCTAAGAGAAAAAAAAAACATTGGGAGTTGTATTCAGAACACCCCA
AAGAAAAGAAGACGAATTTCGAGTTATATTCGGAACACCCCAATAAAAGAAGACACATTAT
Found at i:26450394 original size:84 final size:85
Alignment explanation
Indices: 26450240--26450483 Score: 252
Period size: 84 Copynumber: 2.9 Consensus size: 85
26450230 ACACCCCAAT
* * * * *
26450240 AAAAGAAGACACATTAT-GAGTTATATTCTGAACACC-CCAAGAAAAGAAAAAGCATTGGGAGTT
1 AAAAGAAGACA-ATT-TCGAGTTGTATTCGGAACACCTCTAAGAGAAGAAAAAGCATTGCGAGTT
26450303 GTATTTGGAACAC-TTCAA-AG
64 GTATTTGGAACACTTTCAAGAG
26450323 AAAAGAAGACGAATTTCGAGTTGTATTCGGAACACCTCTAAGAGAAGAAAAAGCATTGCGAGTTG
1 AAAAGAAGAC-AATTTCGAGTTGTATTCGGAACACCTCTAAGAGAAGAAAAAGCATTGCGAGTTG
26450388 TATTTGGAA-ACTTTTCAAGAG
65 TATTTGGAACAC-TTTCAAGAG
* * * * * ** *
26450409 AAGAATAA-AC-ATTGCGAGTTGTATTTGGAACACCTCCT-AGAGAAGAATAAGTATTATGAGTA
1 AA-AAGAAGACAATTTCGAGTTGTATTCGGAACACCT-CTAAGAGAAGAAAAAGCATTGCGAGTT
*
26450471 GTATTTAGAACAC
64 GTATTTGGAACAC
26450484 CCTCGAGAGA
Statistics
Matches: 138, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
82 1 0.01
83 32 0.23
84 86 0.62
85 9 0.07
86 6 0.04
87 4 0.03
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (85 bp):
AAAAGAAGACAATTTCGAGTTGTATTCGGAACACCTCTAAGAGAAGAAAAAGCATTGCGAGTTGT
ATTTGGAACACTTTCAAGAG
Found at i:26450451 original size:42 final size:41
Alignment explanation
Indices: 26450114--26450539 Score: 217
Period size: 42 Copynumber: 10.2 Consensus size: 41
26450104 TCCCCTCAGA
* * * *
26450114 AGAAGAATAAGCATTGCGAGTTATATTTAAAACACCCCTAAG
1 AGAAGAAGAAACATTGCGAGTTGTATTTAGAACACCCC-AAG
* * * * *
26450156 AGAAAAAAAAAACGTTGTGAGTTGTATTCAGAACACCCCCAAG
1 AG-AAGAAGAAACATTGCGAGTTGTATTTAGAACA-CCCCAAG
* * * * *
26450199 AAAAGAAGACACATTATC-AGTTATATTCT-GAACACCCCAAT
1 AGAAGAAGAAACATT-GCGAGTTGTATT-TAGAACACCCCAAG
* * ** *
26450240 AAAAGAAGACACATTATGAGTTATATTCT-GAACACCCCAAG
1 AGAAGAAGAAACATTGCGAGTTGTATT-TAGAACACCCCAAG
* * * **
26450281 AAAAGAA-AAAGCATTGGGAGTTGTATTTGGAACACTTCAA-
1 AGAAGAAGAAA-CATTGCGAGTTGTATTTAGAACACCCCAAG
* ** *
26450321 AGAA-AAGAAGACGAATTTCGAGTTGTATTCGGAACACCTCTAAG
1 AGAAGAAGAA-AC--ATTGCGAGTTGTATTTAGAACACC-CCAAG
* **
26450365 AGAAGAA-AAAGCATTGCGAGTTGTATTTGGAA-ACTTTTCAAG
1 AGAAGAAGAAA-CATTGCGAGTTGTATTTAGAACAC--CCCAAG
* * *
26450407 AGAAGAATAAACATTGCGAGTTGTATTTGGAACACCTCCTAG
1 AGAAGAAGAAACATTGCGAGTTGTATTTAGAACACC-CCAAG
* ** ** *
26450449 AGAAGAATAAGTATTATGAGTAGTATTTAGAACACCCTC--G
1 AGAAGAAGAAACATTGCGAGTTGTATTTAGAACACCC-CAAG
* * * * *
26450489 AG-AGAAGAAACATTGTGAGTAGTATTTAGAACATCTCGAGG
1 AGAAGAAGAAACATTGCGAGTTGTATTTAGAACA-CCCCAAG
26450530 AGAAGAAGAA
1 AGAAGAAGAA
26450540 GCATAAATAT
Statistics
Matches: 305, Mismatches: 54, Indels: 50
0.75 0.13 0.12
Matches are distributed among these distances:
39 29 0.10
40 14 0.05
41 79 0.26
42 134 0.44
43 36 0.12
44 11 0.04
45 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.24
Consensus pattern (41 bp):
AGAAGAAGAAACATTGCGAGTTGTATTTAGAACACCCCAAG
Found at i:26450519 original size:39 final size:38
Alignment explanation
Indices: 26450410--26450536 Score: 128
Period size: 39 Copynumber: 3.2 Consensus size: 38
26450400 TTTCAAGAGA
* * * * *
26450410 AGAATAAACATTGCGAGTTGTATTTGGAACACCTCCTAG
1 AGAAGAAACATTGTGAGTAGTATTTAGAACACCT-CGAG
* *
26450449 AGAAGAATAAGTATTATGAGTAGTATTTAGAACACCCTCGAG
1 AGAAG-A-AA-CATTGTGAGTAGTATTTAGAACA-CCTCGAG
*
26450491 AGAAGAAACATTGTGAGTAGTATTTAGAACATCTCGAGG
1 AGAAGAAACATTGTGAGTAGTATTTAGAACACCTCGA-G
26450530 AGAAGAA
1 AGAAGAA
26450537 GAAGCATAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
38 5 0.07
39 33 0.45
40 3 0.04
41 3 0.04
42 26 0.36
43 3 0.04
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (38 bp):
AGAAGAAACATTGTGAGTAGTATTTAGAACACCTCGAG
Found at i:26456139 original size:889 final size:886
Alignment explanation
Indices: 26453694--26456367 Score: 3467
Period size: 889 Copynumber: 3.0 Consensus size: 886
26453684 TGCTTTTTCC
* * * *
26453694 ATAACAAGCACGTTCTTCCATAATTGAACATATTCTCCTAAAAGTACT-CTTTTACCAATTGCCA
1 ATAACAGGCACATTCTTCCATGATTGAACATGTTCTCCT-AAAGTACTCCTTTTACCAATTGCCA
* * * *
26453758 CTCTTATTTAGTATAAATATGAGAGTTTAGAAAGTTGGGAGGAAATCAAAAAATAATCAAAACTA
65 CTCTTATTTAGTATAAATATGAGAGTTTAGAAAGTTGGAAGGCAATCAAAAAATAATAAAAACTC
* * * * ** * * **
26453823 AGTAGAGATTAATCTCAAAACTCCCTCATAGTTCTCCCAAATATTCTCTCTACTCAGCCCTTTCC
130 AGTAAAGATTACTCTCAAAACTCCCTCAAAGCTCTCTGAAATATTCTCTTTACTCAACCCTTTTT
* * * * * *
26453888 ATTTGTTGTG-TTATGTTGCTTTCTCCACCTTTCTTATTCCTCACCGTCTGCCACTAAAGCACTT
195 ATTTGTCGTGCTT-TGTTGCTTTCTCCACCTTTCTTATTTCTTACCGCCTACCACCAAAGCACTT
** * * * *
26453952 ACGCTTCAAGGACTTCTCCAATTTTCCTCTCTGTCGCCTCTAGTGCATTCCATTTTACTTATTAC
259 ACGCTTCAAGGA-TTCTTTAATCTTCCTCTCTGTCGCCTCTAGTGCATTCTAGTTTACTTATTGC
* * *
26454017 AACACGTCATCTCTCTCTACCAGAAGAACCCTTTACATAAAAAAAAAAAAGAAAAGGTCTCCAAA
323 AACACGTCATCTCTCTTTACTAGAAGAACCC--T-C-T-ACAAAAAAAAAG-AAAGGTCTCCAAA
** * * * * * *
26454082 TGCAACATCAATTAGCTTCAATACCTGAAGATGGTGATTAAGGAATTCTCAAGACTACATCCTCT
382 TGTGACATCAATTAGCTTCAATACCTGAAGATGGTGGTTAACGAATCCTTAAGACTGCATCCTCC
* * *
26454147 AGGGGCACTTTTACTTCCAAGAGAACCCATGTCTCAATTTAACATAGTTGGTTACAACGTTTACC
447 A-AGGCACTTTTACTTCCAAGAGAACCCATGTCTTAATTTAACATAGATGGTTACAACGTTTACC
* * * * *
26454212 CCAAAACTCGCATCCTAGTAAACATTTAGGCAACAAGAAGAGATCCTGAGAATTGGAAAAACACA
511 CCAAAACTCGCATCCTAGTCAACATTTAGGCAACAAGAAGAGATCTTGAGAATTGGGAAAACCCC
* * * * * * * * * *
26454277 AAGTACTTCTACCTAGAAAGGTTTATGGATAG-CCTCATTGATCTCAAAGACTAGAATTTTGGGT
576 GAGCAATTCTACCCAAAAAAGTTTATGGATAGCCCT-ATTGATTTCAAAGCCTAGAATTTCGAGT
*
26454341 TTTTACAGTTTGTTTCCAGTCGAAGAGGGTGCCCTGAAATTTCTATGGCAATTTTAACTATGGAG
640 TTTTACAGTTTGGTTCCAGTCGAAGAGGGTGCCCTGAAATTTCTATGGCAATTTTAACTATGGAG
* ** *
26454406 CTTGCACTTGCGAATCTCTTATATCATTTTGATTGAAAATTGCCAAATAGGTGAAAAGTAGAAGA
705 CTTGCACTTGCGAATCTCTTATATCATTTTGATTGGAAATTGCCAAATAGGCAAAAAGCAGAAGA
** * * * * * **
26454471 TCTCAATGTGGAAAAGGCAGTTGGCATCACAAATTATAAGAAATAAGCTTTATAACTTGTTTTTA
770 TCTCAACATGGAAAAGGCAGCTGGTATAACAAATTATAAGAAAAAAGCTTTACAACTTGTTCCTA
*
26454536 TCAATTACCACTATTCATAGGCCTTGTAAGCTTTAGTACATATATCAAATGT
835 TCAATTACCACTATTCGTAGGCCTTGTAAGCTTTAGTACATATATCAAATGT
* *
26454588 ATAACAGGCACGTTCTTCCATGATTGAACATGTTCTCCTAAATGTACTCTCTTTATATCAATTGC
1 ATAACAGGCACATTCTTCCATGATTGAACATGTTCTCCTAAA-GTACTC-CTTT-TACCAATTGC
*
26454653 AACTCTTATTTAGTATAAATATGAGAGTTTAGAAAGTTGGAAGGCAATCAAAAAATAATCAAAAA
63 CACTCTTATTTAGTATAAATATGAGAGTTTAGAAAGTTGGAAGGCAATCAAAAAATAAT-AAAAA
* * *
26454718 CTCAATAAAGATTTCTCTCAAAACTCTCTCAAAGCTCTCTGAAATATTCTCTTTACTCAA-CCTT
127 CTCAGTAAAGATTACTCTCAAAACTCCCTCAAAGCTCTCTGAAATATTCTCTTTACTCAACCCTT
* **
26454782 TTCTATTTGCCGTGCCGTGTTGCTTTCTCCACCTTTCTTATTTCTTACCGCCTACCACCAAAGCA
192 TT-TATTTGTCGTGCTTTGTTGCTTTCTCCACCTTTCTTATTTCTTACCGCCTACCACCAAAGCA
* * *
26454847 CTTACGCTTCAAGGACTACCTTAATCTTCCTCTCTGTCGCCTCTAGTGCATTCTAGTTTTCTTAT
256 CTTACGCTTCAAGGA-TTCTTTAATCTTCCTCTCTGTCGCCTCTAGTGCATTCTAGTTTACTTAT
* * * * * *
26454912 TGCAACACGTCATCTCTTTTTACTAGAGGAACCCTCTACATAAAGAAATAAAGGTCTCCAAATCT
320 TGCAACACGTCATCTCTCTTTACTAGAAGAACCCTCTACAAAAAAAAAGAAAGGTCTCCAAATGT
* *
26454977 GACATCAATTAGCTTTAATACTTGAAGATGGTGGTTAACGAATCCTTAAGACTGCATCCTCCAAG
385 GACATCAATTAGCTTCAATACCTGAAGATGGTGGTTAACGAATCCTTAAGACTGCATCCTCCAAG
* ** *
26455042 TGCACTTTTACTTCCAAGAAAAGACATGT-TTCAATTTAACATAGATGGTTGCAACGTTTACCCC
450 -GCACTTTTACTTCCAAGAGAACCCATGTCTT-AATTTAACATAGATGGTTACAACGTTTACCCC
* * * *
26455106 AAAACTCGCATCCTAGTCAACATTTAGGTAACAGGGAGAGATCTTGAGAATTAGGAAAACCCCGA
513 AAAACTCGCATCCTAGTCAACATTTAGGCAACAAGAAGAGATCTTGAGAATTGGGAAAACCCCGA
* * *
26455171 GCAGTTCTGCCCATAAAAGTTTATGGATAGCCCTATTGATTTCAAAGCCTAGAATTTCGAGTTTT
578 GCAATTCTACCCAAAAAAGTTTATGGATAGCCCTATTGATTTCAAAGCCTAGAATTTCGAGTTTT
* * * * *
26455236 TACTGTTTGGTTCCAGTCGAAGAGGGTGCCCTGAAATTTCTGTGGCAACTTTAAGTATGGAGTTT
643 TACAGTTTGGTTCCAGTCGAAGAGGGTGCCCTGAAATTTCTATGGCAATTTTAACTATGGAGCTT
* * *
26455301 GCACTTGCGAATCTTTTACATCATTTTGATTGGAAATTGCCAAATTGGCAAAAAGCAGAAGATCT
708 GCACTTGCGAATCTCTTATATCATTTTGATTGGAAATTGCCAAATAGGCAAAAAGCAGAAGATCT
* *
26455366 CAACATGGAAAAAGCA-CTAGTATAACAAATTATAAGAAAAAAGCTTTACAACTTGTTCCTATCA
773 CAACATGGAAAAGGCAGCTGGTATAACAAATTATAAGAAAAAAGCTTTACAACTTGTTCCTATCA
* *
26455430 ATTACCACTAGTCGTAAGCCTTGTAAGCTTTAGTACATATATCAAATGT
838 ATTACCACTATTCGTAGGCCTTGTAAGCTTTAGTACATATATCAAATGT
* *
26455479 ATAACAGGCACATTTTTTCATGATTGAACATGTTCTCCTAAAGTACTCCCTTTGTACCAATTGCC
1 ATAACAGGCACATTCTTCCATGATTGAACATGTTCTCCTAAAGTACT-CCTTT-TACCAATTGCC
* *
26455544 ACTCTTATTTAGTATAAATATGAGAGTTTGGAAAGTTGGAAGTCAAT-AAAACAATAATAAAAAA
64 ACTCTTATTTAGTATAAATATGAGAGTTTAGAAAGTTGGAAGGCAATCAAAA-AATAAT-AAAAA
* * *
26455608 TTCAGTAAAGATTACTCTCAAAACTCCCTCAAAGCTCTTTGAAATATTTTCTTTACTCAACCCTT
127 CTCAGTAAAGATTACTCTCAAAACTCCCTCAAAGCTCTCTGAAATATTCTCTTTACTCAACCCTT
* * * *
26455673 TTTATCTGTCATGCTTTGTTGCTTTCTTCACCTTTCTTATTTCTTACTGCCTACCACCAAAGCAC
192 TTTATTTGTCGTGCTTTGTTGCTTTCTCCACCTTTCTTATTTCTTACCGCCTACCACCAAAGCAC
* * ** * *
26455738 TTACGCTTCAAGGATTGCTTTAATCTTCCTTTTTACCACCTCTACTGCATTCT-GATTTACTTAT
257 TTACGCTTCAAGGATT-CTTTAATCTTCCTCTCTGTCGCCTCTAGTGCATTCTAG-TTTACTTAT
* * * * *
26455802 TGCAACACGTCCTTTCTCTTTACTA-AAAAACCCTGTACAAAAAAAAAGAAAGATCTCCAAATGT
320 TGCAACACGTCATCTCTCTTTACTAGAAGAACCCTCTACAAAAAAAAAGAAAGGTCTCCAAATGT
* * * * *
26455866 GACATCAATCAACTTCAATACCTGAAGATGGTGGTTAATGAATCCTTGAGATTGCATCCTCCAAT
385 GACATCAATTAGCTTCAATACCTGAAGATGGTGGTTAACGAATCCTTAAGACTGCATCCTCCAA-
* * ** * *
26455931 GGCACTTTTACTTCCAAGAGTATCCATGTCTTAATTTAACATAGATAATTACAATGTTTATCCCA
449 GGCACTTTTACTTCCAAGAGAACCCATGTCTTAATTTAACATAGATGGTTACAACGTTTACCCCA
* * * *
26455996 AAACTCACATCCTAGTCAACATTTGGGCAATAAGAAGAGATCTTGAGAACTGGGAAAACCCCGAG
514 AAACTCGCATCCTAGTCAACATTTAGGCAACAAGAAGAGATCTTGAGAATTGGGAAAACCCCGAG
* * *
26456061 CAATTCTACCCAAAAAAGTTTATGGATAGCCCTATCGATTTCAAAGCCCAAAATTTCGAGTTTTT
579 CAATTCTACCCAAAAAAGTTTATGGATAGCCCTATTGATTTCAAAGCCTAGAATTTCGAGTTTTT
* * * * *
26456126 ACCGTTTGGTTCCAGTCGAAGAAGGTGCCTTGAAATTTCTATGGCAATTTTGACTGTGGAGCTTG
644 ACAGTTTGGTTCCAGTCGAAGAGGGTGCCCTGAAATTTCTATGGCAATTTTAACTATGGAGCTTG
* * *
26456191 CACTTGCAAATCTCTTATATCATTTTGATTGGAAATTGCCAAATGGGCAAAAAGCAAAAGATCTC
709 CACTTGCGAATCTCTTATATCATTTTGATTGGAAATTGCCAAATAGGCAAAAAGCAGAAGATCTC
* * * * * * *
26456256 AACATAGAAAAGGCAGCCGGTATGACAAATTATAAGACAGAAGCTTTACTACTTGTTCCAATCAA
774 AACATGGAAAAGGCAGCTGGTATAACAAATTATAAGAAAAAAGCTTTACAACTTGTTCCTATCAA
* * *
26456321 TTACCACCATTAGTAGGCCTTGTAAGCTTTTAGTACGTATATCAAAT
839 TTACCACTATTCGTAGGCCTTGTAAGC-TTTAGTACATATATCAAAT
26456368 ATGCTAAGTT
Statistics
Matches: 1548, Mismatches: 213, Indels: 41
0.86 0.12 0.02
Matches are distributed among these distances:
889 391 0.25
890 325 0.21
891 152 0.10
892 359 0.23
893 14 0.01
894 42 0.03
895 1 0.00
896 5 0.00
897 70 0.05
898 189 0.12
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (886 bp):
ATAACAGGCACATTCTTCCATGATTGAACATGTTCTCCTAAAGTACTCCTTTTACCAATTGCCAC
TCTTATTTAGTATAAATATGAGAGTTTAGAAAGTTGGAAGGCAATCAAAAAATAATAAAAACTCA
GTAAAGATTACTCTCAAAACTCCCTCAAAGCTCTCTGAAATATTCTCTTTACTCAACCCTTTTTA
TTTGTCGTGCTTTGTTGCTTTCTCCACCTTTCTTATTTCTTACCGCCTACCACCAAAGCACTTAC
GCTTCAAGGATTCTTTAATCTTCCTCTCTGTCGCCTCTAGTGCATTCTAGTTTACTTATTGCAAC
ACGTCATCTCTCTTTACTAGAAGAACCCTCTACAAAAAAAAAGAAAGGTCTCCAAATGTGACATC
AATTAGCTTCAATACCTGAAGATGGTGGTTAACGAATCCTTAAGACTGCATCCTCCAAGGCACTT
TTACTTCCAAGAGAACCCATGTCTTAATTTAACATAGATGGTTACAACGTTTACCCCAAAACTCG
CATCCTAGTCAACATTTAGGCAACAAGAAGAGATCTTGAGAATTGGGAAAACCCCGAGCAATTCT
ACCCAAAAAAGTTTATGGATAGCCCTATTGATTTCAAAGCCTAGAATTTCGAGTTTTTACAGTTT
GGTTCCAGTCGAAGAGGGTGCCCTGAAATTTCTATGGCAATTTTAACTATGGAGCTTGCACTTGC
GAATCTCTTATATCATTTTGATTGGAAATTGCCAAATAGGCAAAAAGCAGAAGATCTCAACATGG
AAAAGGCAGCTGGTATAACAAATTATAAGAAAAAAGCTTTACAACTTGTTCCTATCAATTACCAC
TATTCGTAGGCCTTGTAAGCTTTAGTACATATATCAAATGT
Found at i:26467320 original size:24 final size:24
Alignment explanation
Indices: 26467293--26467342 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
26467283 TATTATTTAC
*
26467293 TTTTTTATCCAAATGCATCTCTAT
1 TTTTTTATCCAAAGGCATCTCTAT
* **
26467317 TTTTTTTTTTAAAGGCATCTCTAT
1 TTTTTTATCCAAAGGCATCTCTAT
26467341 TT
1 TT
26467343 AAATTTATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.56
Consensus pattern (24 bp):
TTTTTTATCCAAAGGCATCTCTAT
Found at i:26469986 original size:40 final size:40
Alignment explanation
Indices: 26469931--26470006 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
26469921 TGAAAAACAT
*
26469931 CAATCGTGGCGAGGTTAAAAACCCCACTAAGGTGAATCAC
1 CAATCGTGGCAAGGTTAAAAACCCCACTAAGGTGAATCAC
* *
26469971 CAATCTTGGCAAGGTTGAAAACCCCACTAAGGTGAA
1 CAATCGTGGCAAGGTTAAAAACCCCACTAAGGTGAA
26470007 AAATAGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (40 bp):
CAATCGTGGCAAGGTTAAAAACCCCACTAAGGTGAATCAC
Found at i:26478247 original size:40 final size:41
Alignment explanation
Indices: 26478189--26478265 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 41
26478179 TTATGAAAGA
*
26478189 CACCAATCGTGGCGAGGTTG-AAAACCCCACTAAGGTGAAT
1 CACCAATCGTGGCAAGGTTGAAAAACCCCACTAAGGTGAAT
* *
26478229 CACCAATCTTGGTAAGGTTGAAAAACCCCACTAAGGT
1 CACCAATCGTGGCAAGGTTGAAAAACCCCACTAAGGT
26478266 AAAAAATAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 17 0.52
41 16 0.48
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (41 bp):
CACCAATCGTGGCAAGGTTGAAAAACCCCACTAAGGTGAAT
Found at i:26479822 original size:38 final size:39
Alignment explanation
Indices: 26479724--26479829 Score: 117
Period size: 38 Copynumber: 2.7 Consensus size: 39
26479714 CACACTCGGC
* *
26479724 TCATGTACATCCCCCCACATTGTGCACATAGCCGGCACCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCAGG-ACCA
* *
26479764 TCATGTGCATCCCCCCACATCGTGCACA-ATCAGTG-CCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCAG-GACCA
** *
26479802 TTGTGTACATCCCCCCACATCATGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
26479830 CAGGCACTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
38 27 0.47
39 3 0.05
40 27 0.47
ACGTcount: A:0.25, C:0.40, G:0.14, T:0.22
Consensus pattern (39 bp):
TCATGTACATCCCCCCACATCGTGCACATAGCAGGACCA
Found at i:26486326 original size:27 final size:27
Alignment explanation
Indices: 26486295--26486372 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
26486285 TCTCTACAAG
*
26486295 TTTTATTTCTATCAAAATAGTGCACTC
1 TTTTATTTCTATCAAAATAGTGCACTA
* * *
26486322 TTTTATTTCCATCAAAACAGTACACTA
1 TTTTATTTCTATCAAAATAGTGCACTA
* *
26486349 ATTTATTTCTATCAAAATAATGCA
1 TTTTATTTCTATCAAAATAGTGCA
26486373 TTGTATATAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (27 bp):
TTTTATTTCTATCAAAATAGTGCACTA
Found at i:26486551 original size:39 final size:39
Alignment explanation
Indices: 26486497--26486574 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
26486487 TTAATGTACA
26486497 ATATTTGATAAAAAGAAAACTCACCAAAAAATGACTACT
1 ATATTTGATAAAAAGAAAACTCACCAAAAAATGACTACT
26486536 ATATTTGATAAAAAGAAAACTCACCAAAAAATGACTACT
1 ATATTTGATAAAAAGAAAACTCACCAAAAAATGACTACT
26486575 TTTACCCTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (39 bp):
ATATTTGATAAAAAGAAAACTCACCAAAAAATGACTACT
Found at i:26486702 original size:22 final size:22
Alignment explanation
Indices: 26486659--26486702 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
26486649 TCATGTAATA
**
26486659 TCCAAAAACTAATCACGCAATG
1 TCCAAAAACTAATCACAAAATG
*
26486681 TCCAAAAACTAGTCACAAAATG
1 TCCAAAAACTAATCACAAAATG
26486703 CCCTATCAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.25, G:0.09, T:0.18
Consensus pattern (22 bp):
TCCAAAAACTAATCACAAAATG
Found at i:26486929 original size:51 final size:50
Alignment explanation
Indices: 26486820--26486930 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 50
26486810 CTTGGCGAAT
* * * *
26486820 AATGCTCAAAATGCTCAAAGGTTTTTTTCATGTATCAAAAGCCACTTCAA
1 AATGCTTAAAACGCTCAAAGGTTTTTTTCATATATCAAAAGCCACTCCAA
* **
26486870 AATACTTAAAACGCTCAAAGGTTTTTCTTTGTATATCTAAAA-CCACTCCAA
1 AATGCTTAAAACGCTCAAAGGTTTTT-TTCATATATC-AAAAGCCACTCCAA
26486921 AATGCTTAAA
1 AATGCTTAAA
26486931 GATTTTTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
50 23 0.45
51 24 0.47
52 4 0.08
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (50 bp):
AATGCTTAAAACGCTCAAAGGTTTTTTTCATATATCAAAAGCCACTCCAA
Found at i:26489802 original size:21 final size:21
Alignment explanation
Indices: 26489773--26489822 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
26489763 TCAGCCCTTA
*
26489773 TCATAAATGCATCAATCTTTG
1 TCATGAATGCATCAATCTTTG
* *
26489794 TTATGAATGCATCAGTCTTTG
1 TCATGAATGCATCAATCTTTG
26489815 TCATGAAT
1 TCATGAAT
26489823 TGTATGAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (21 bp):
TCATGAATGCATCAATCTTTG
Found at i:26496837 original size:81 final size:80
Alignment explanation
Indices: 26496681--26496928 Score: 318
Period size: 81 Copynumber: 3.1 Consensus size: 80
26496671 GGAAAATGCT
* * * *
26496681 CTCCTTCACCCAAGAGTGATTGAAAGTCCCCC-CCCCTCCCGCAGAAGCATTGATAACCGAATCA
1 CTCCTTCAGCCACGAGTGAGTGAAAGTCCCCCTCCCCTCCCGCAGATGCATTGATAACCGAATCA
**
26496745 GCCTCGGGAACATGGA
66 -CCTCAAGAACATGGA
* ** **
26496761 CTCCTTCAGCCACGAGTGAGTGAAGGTCCCCCTCCCCTCCCGCAGATGCATCAATAACATAATCG
1 CTCCTTCAGCCACGAGTGAGTGAAAGTCCCCCTCCCCTCCCGCAGATGCATTGATAACCGAATC-
*
26496826 ACCTCAAGAACATAGA
65 ACCTCAAGAACATGGA
* * *
26496842 CTCCTTCAGCCACGAGTGAGTGAATGTCCCTCTCCCCTCACGCAGATGCATTGATAACCGAATCA
1 CTCCTTCAGCCACGAGTGAGTGAAAGTCCCCCTCCCCTCCCGCAGATGCATTGATAACCGAATC-
*
26496907 ACCTAAAGAACATGGA
65 ACCTCAAGAACATGGA
26496923 CTCCTT
1 CTCCTT
26496929 GAGCATCATC
Statistics
Matches: 144, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 28 0.19
81 115 0.80
82 1 0.01
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (80 bp):
CTCCTTCAGCCACGAGTGAGTGAAAGTCCCCCTCCCCTCCCGCAGATGCATTGATAACCGAATCA
CCTCAAGAACATGGA
Found at i:26499254 original size:31 final size:31
Alignment explanation
Indices: 26499202--26499290 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 31
26499192 AGAAAGAAAG
*
26499202 AAATGTTGTTACACGCCATGCATATCAAGTA
1 AAATGTTGTAACACGCCATGCATATCAAGTA
* * *
26499233 AAATATTGTAACAAGCCATGCATATCAAGTC
1 AAATGTTGTAACACGCCATGCATATCAAGTA
* *
26499264 AAATGTCGTGACACGCCATGCATATCA
1 AAATGTTGTAACACGCCATGCATATCA
26499291 GTGTCGTGAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (31 bp):
AAATGTTGTAACACGCCATGCATATCAAGTA
Found at i:26499301 original size:25 final size:25
Alignment explanation
Indices: 26499267--26499331 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
26499257 TCAAGTCAAA
26499267 TGTCGTGACACGCCATGCATATCAG
1 TGTCGTGACACGCCATGCATATCAG
** *
26499292 TGTCGTGACACATCATGCATTTCAG
1 TGTCGTGACACGCCATGCATATCAG
26499317 TGTCGTGACACGCCA
1 TGTCGTGACACGCCA
26499332 ATCACTGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (25 bp):
TGTCGTGACACGCCATGCATATCAG
Found at i:26499437 original size:55 final size:55
Alignment explanation
Indices: 26499377--26499755 Score: 467
Period size: 55 Copynumber: 6.9 Consensus size: 55
26499367 GTGACATGTT
* *
26499377 AAAAACCCAAAAAATCAGTTAACCCACAGCACGCCAGGAACAGCCGTGACACGCC
1 AAAAACCCAAAAAATCAGTTAACCCACAACACGCCAAGAACAGCCGTGACACGCC
* * * * *
26499432 AAAAACCCAAAAAACCAGTTTACCCACAACACGTCAGGAACAGCCGTGACACGTC
1 AAAAACCCAAAAAATCAGTTAACCCACAACACGCCAAGAACAGCCGTGACACGCC
* * * * * * *
26499487 TACAACCC-AAAAATCCGGTTAACCCATAACACGTCAGGAACAGACGTGACACGCC
1 AAAAACCCAAAAAAT-CAGTTAACCCACAACACGCCAAGAACAGCCGTGACACGCC
* *
26499542 TAAAACCC-AAAAATCCAGTTAACCCACAACATGCCAAGAACAGCCGTGACACGCC
1 AAAAACCCAAAAAAT-CAGTTAACCCACAACACGCCAAGAACAGCCGTGACACGCC
* * * * * *
26499597 AAAAATCCAAAAAACCAGTTAACTCACAACACGTCAAGAATAGCCGTGATACGCC
1 AAAAACCCAAAAAATCAGTTAACCCACAACACGCCAAGAACAGCCGTGACACGCC
* * *
26499652 AAAAACCC-AAAAATCTAGTTAACCCACAACATGCTAAGAACAGCCGTGACACGCT
1 AAAAACCCAAAAAATC-AGTTAACCCACAACACGCCAAGAACAGCCGTGACACGCC
* *
26499707 AAAAACCCAAAAAACCAGTTAACCCACAACACGCCAAGAACAGTCGTGA
1 AAAAACCCAAAAAATCAGTTAACCCACAACACGCCAAGAACAGCCGTGA
26499756 TGTCAAGCCC
Statistics
Matches: 279, Mismatches: 41, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
54 11 0.04
55 257 0.92
56 11 0.04
ACGTcount: A:0.43, C:0.32, G:0.14, T:0.11
Consensus pattern (55 bp):
AAAAACCCAAAAAATCAGTTAACCCACAACACGCCAAGAACAGCCGTGACACGCC
Found at i:26499661 original size:165 final size:165
Alignment explanation
Indices: 26499367--26499755 Score: 532
Period size: 165 Copynumber: 2.4 Consensus size: 165
26499357 ACCAATAGCT
* * * *
26499367 GTGACATGTTAAAAACCCAAAAAAT-CAGTTAACCCACAGCACGCCAGGAACAGCCGTGACACGC
1 GTGACACGCTAAAAACCC-AAAAATCCAGTTAACCCACAACACGCCAAGAACAGCCGTGACACGC
* * * * *
26499431 CAAAAACCCAAAAAACCAGTTTACCCACAACACGTCAGGAACAGCCGTGACACGTCTACAACCCA
65 CAAAAACCCAAAAAACCAGTTAACCCACAACACGTCAAGAACAGCCGTGACACGCCAAAAACCCA
* * *
26499496 AAAATCCGGTTAACCCATAACACG-TCAGGAACAGAC
130 AAAATCCAGTTAACCCACAACACGCT-AAGAACAGAC
*
26499532 GTGACACGCCT-AAAACCCAAAAATCCAGTTAACCCACAACATGCCAAGAACAGCCGTGACACGC
1 GTGACACG-CTAAAAACCCAAAAATCCAGTTAACCCACAACACGCCAAGAACAGCCGTGACACGC
* * * *
26499596 CAAAAATCCAAAAAACCAGTTAACTCACAACACGTCAAGAATAGCCGTGATACGCCAAAAACCCA
65 CAAAAACCCAAAAAACCAGTTAACCCACAACACGTCAAGAACAGCCGTGACACGCCAAAAACCCA
* * *
26499661 AAAATCTAGTTAACCCACAACATGCTAAGAACAGCC
130 AAAATCCAGTTAACCCACAACACGCTAAGAACAGAC
* *
26499697 GTGACACGCTAAAAACCCAAAAAACCAGTTAACCCACAACACGCCAAGAACAGTCGTGA
1 GTGACACGCTAAAAACCCAAAAATCCAGTTAACCCACAACACGCCAAGAACAGCCGTGA
26499756 TGTCAAGCCC
Statistics
Matches: 197, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
164 8 0.04
165 187 0.95
166 2 0.01
ACGTcount: A:0.42, C:0.31, G:0.14, T:0.12
Consensus pattern (165 bp):
GTGACACGCTAAAAACCCAAAAATCCAGTTAACCCACAACACGCCAAGAACAGCCGTGACACGCC
AAAAACCCAAAAAACCAGTTAACCCACAACACGTCAAGAACAGCCGTGACACGCCAAAAACCCAA
AAATCCAGTTAACCCACAACACGCTAAGAACAGAC
Found at i:26503508 original size:23 final size:23
Alignment explanation
Indices: 26503480--26503542 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
26503470 CTGTGCCGTT
* *
26503480 TCACACATTATGACCCTACCATG
1 TCACACATTCTGACCATACCATG
** *
26503503 TCACACATTCTGACCATGGCGTG
1 TCACACATTCTGACCATACCATG
26503526 TCACACATTCTGACCAT
1 TCACACATTCTGACCAT
26503543 GGCGTGTCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (23 bp):
TCACACATTCTGACCATACCATG
Found at i:26503556 original size:25 final size:23
Alignment explanation
Indices: 26503501--26503555 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
26503491 GACCCTACCA
26503501 TGTCACACATTCTGACCATGGCG
1 TGTCACACATTCTGACCATGGCG
26503524 TGTCACACATTCTGACCATGGCG
1 TGTCACACATTCTGACCATGGCG
26503547 TGTCACACA
1 TGTCACACA
26503556 CTCTAAACGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (23 bp):
TGTCACACATTCTGACCATGGCG
Found at i:26503660 original size:104 final size:104
Alignment explanation
Indices: 26503475--26504048 Score: 582
Period size: 104 Copynumber: 5.5 Consensus size: 104
26503465 TGTCACTGTG
* * * * * * * * * * * **
26503475 CCGTTTCACACATTATGACCCTACCATGTCACACATTCTGACCATGGCGTGTCACACATTCTGAC
1 CCGTGTCACACATTCTCACCGTGCCATCTCACACATTATCACCCTGTCGTGTCACACGTTCCCAC
* * *
26503540 CATGGCGTGTCACACACTCTAAACGCTATTATGTCACAC
66 CATGGCGTGTCACACACTCTAAACCCTGTCATGTCACAC
* * * * * *
26503579 CCGTCTCACATATTCTCACCATGCCGTCTCACACATTATCACTCTGTCGTGTCACA-GATTCCCT
1 CCGTGTCACACATTCTCACCGTGCCATCTCACACATTATCACCCTGTCGTGTCACACG-TTCCCA
26503643 CCATGGCGTGTCACACACTCTAAACCCTGTCATGTCACAC
65 CCATGGCGTGTCACACACTCTAAACCCTGTCATGTCACAC
* * * * * **
26503683 CCGTGTCACACATTATCACTGTGCCATTTCACACATTATGACCTTGTCGTGTCACACGTTCTGAC
1 CCGTGTCACACATTCTCACCGTGCCATCTCACACATTATCACCCTGTCGTGTCACACGTTCCCAC
* * ** *
26503748 CATGGCATATCACACACTCTAAATGCTGTCGTGTCACAC
66 CATGGCGTGTCACACACTCTAAACCCTGTCATGTCACAC
* * * *
26503787 CCGTGTCACATATTCTCACCGTGCCATCTCACACATTATCACTCTGTCGTGTCACA-GATTTCCT
1 CCGTGTCACACATTCTCACCGTGCCATCTCACACATTATCACCCTGTCGTGTCACACG-TTCCCA
* * *
26503851 TCATGGCGTGTCACACACTCTAAACCCTGCCTTGTCACAC
65 CCATGGCGTGTCACACACTCTAAACCCTGTCATGTCACAC
* * * * * * * * **
26503891 CAGTGTCACACATTATCACTGTGTCGTTTCACACATTATAACCCTATCGTGTCACACGTT-TGAC
1 CCGTGTCACACATTCTCACCGTGCCATCTCACACATTATCACCCTGTCGTGTCACACGTTCCCAC
* *
26503955 CATGACGTGTCACACACTCTAAACCCTGCCATGTCACAC
66 CATGGCGTGTCACACACTCTAAACCCTGTCATGTCACAC
* * * *
26503994 CCCTGT--CACATTCTCACCGTGTCATCTCACACATTATCACCCTGACATGTCACAC
1 CCGTGTCACACATTCTCACCGTGCCATCTCACACATTATCACCCTGTCGTGTCACAC
26504049 ACTCTAAACC
Statistics
Matches: 384, Mismatches: 82, Indels: 11
0.81 0.17 0.02
Matches are distributed among these distances:
101 41 0.11
103 42 0.11
104 299 0.78
105 2 0.01
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.28
Consensus pattern (104 bp):
CCGTGTCACACATTCTCACCGTGCCATCTCACACATTATCACCCTGTCGTGTCACACGTTCCCAC
CATGGCGTGTCACACACTCTAAACCCTGTCATGTCACAC
Found at i:26503737 original size:23 final size:24
Alignment explanation
Indices: 26503683--26503748 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
26503673 CATGTCACAC
*
26503683 CCGTGTCACACATTATCA-CTGTG
1 CCGTGTCACACATTATGACCTGTG
* *
26503706 CCATTTCACACATTATGACCT-TG
1 CCGTGTCACACATTATGACCTGTG
* * *
26503729 TCGTGTCACACGTTCTGACC
1 CCGTGTCACACATTATGACC
26503749 ATGGCATATC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
23 32 0.94
24 2 0.06
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.32
Consensus pattern (24 bp):
CCGTGTCACACATTATGACCTGTG
Found at i:26503838 original size:208 final size:208
Alignment explanation
Indices: 26503475--26504047 Score: 792
Period size: 208 Copynumber: 2.8 Consensus size: 208
26503465 TGTCACTGTG
* * ** * * * * *
26503475 CCGTTTCACACATTATGACCCTACCATGTCACACATTCTGACCATGGCGTGTCACACATTCTGAC
1 CCGTGTCACACATTATCACTGTGCCATTTCACACATTATGACCATGTCGTGTCACACGTTCTGAC
* * * * *
26503540 CATGGCGTGTCACACACTCTAAACGCTATTATGTCACACCCGTCTCACATATTCTCACCATGCCG
66 CATGGCGTGTCACACACTCTAAACGCTGTCATGTCACACCCGTGTCACATATTCTCACCGTGCCA
26503605 TCTCACACATTATCACTCTGTCGTGTCACAGATTCCCTCCATGGCGTGTCACACACTCTAAACCC
131 TCTCACACATTATCACTCTGTCGTGTCACAGATTCCCTCCATGGCGTGTCACACACTCTAAACCC
*
26503670 TGTCATGTCACAC
196 TGCCATGTCACAC
*
26503683 CCGTGTCACACATTATCACTGTGCCATTTCACACATTATGACCTTGTCGTGTCACACGTTCTGAC
1 CCGTGTCACACATTATCACTGTGCCATTTCACACATTATGACCATGTCGTGTCACACGTTCTGAC
* * * *
26503748 CATGGCATATCACACACTCTAAATGCTGTCGTGTCACACCCGTGTCACATATTCTCACCGTGCCA
66 CATGGCGTGTCACACACTCTAAACGCTGTCATGTCACACCCGTGTCACATATTCTCACCGTGCCA
* *
26503813 TCTCACACATTATCACTCTGTCGTGTCACAGATTTCCTTCATGGCGTGTCACACACTCTAAACCC
131 TCTCACACATTATCACTCTGTCGTGTCACAGATTCCCTCCATGGCGTGTCACACACTCTAAACCC
*
26503878 TGCCTTGTCACAC
196 TGCCATGTCACAC
* * * * * *
26503891 CAGTGTCACACATTATCACTGTGTCGTTTCACACATTATAACCCTATCGTGTCACACGTT-TGAC
1 CCGTGTCACACATTATCACTGTGCCATTTCACACATTATGACCATGTCGTGTCACACGTTCTGAC
* * * * *
26503955 CATGACGTGTCACACACTCTAAACCCTGCCATGTCACACCCCTGTCAC--ATTCTCACCGTGTCA
66 CATGGCGTGTCACACACTCTAAACGCTGTCATGTCACACCCGTGTCACATATTCTCACCGTGCCA
* * *
26504018 TCTCACACATTATCACCCTGACATGTCACA
131 TCTCACACATTATCACTCTGTCGTGTCACA
26504048 CACTCTAAAC
Statistics
Matches: 324, Mismatches: 41, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
205 41 0.13
207 44 0.14
208 239 0.74
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.28
Consensus pattern (208 bp):
CCGTGTCACACATTATCACTGTGCCATTTCACACATTATGACCATGTCGTGTCACACGTTCTGAC
CATGGCGTGTCACACACTCTAAACGCTGTCATGTCACACCCGTGTCACATATTCTCACCGTGCCA
TCTCACACATTATCACTCTGTCGTGTCACAGATTCCCTCCATGGCGTGTCACACACTCTAAACCC
TGCCATGTCACAC
Found at i:26503940 original size:23 final size:23
Alignment explanation
Indices: 26503893--26503947 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
26503883 TGTCACACCA
* ** *
26503893 GTGTCACACATTATCACTGTGTC
1 GTGTCACACATTATAACCCTATC
*
26503916 GTTTCACACATTATAACCCTATC
1 GTGTCACACATTATAACCCTATC
26503939 GTGTCACAC
1 GTGTCACAC
26503948 GTTTGACCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (23 bp):
GTGTCACACATTATAACCCTATC
Found at i:26504094 original size:23 final size:23
Alignment explanation
Indices: 26504000--26504117 Score: 87
Period size: 23 Copynumber: 5.1 Consensus size: 23
26503990 ACACCCCTGT
* * *
26504000 CACATTCTCACCGTGTCATCTCA
1 CACATTCTCACCATGACATGTCA
* *
26504023 CACATTATCACCCTGACATGTCA
1 CACATTCTCACCATGACATGTCA
* * * *
26504046 CACACTCTAAACC-TTACCGTGTCA
1 CACATTCT-CACCATGA-CATGTCA
*
26504070 CATATTCTCACCATGACATGTCA
1 CACATTCTCACCATGACATGTCA
* *
26504093 CACATTGCT-ACCATGCCGTGTCA
1 CACATT-CTCACCATGACATGTCA
26504116 CA
1 CA
26504118 AACTCTATAT
Statistics
Matches: 74, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
23 55 0.74
24 19 0.26
ACGTcount: A:0.27, C:0.36, G:0.10, T:0.27
Consensus pattern (23 bp):
CACATTCTCACCATGACATGTCA
Found at i:26534352 original size:19 final size:20
Alignment explanation
Indices: 26534328--26534367 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
26534318 CCATTTGACT
*
26534328 TATTGGAGTATGATTT-AAG
1 TATTGGAGCATGATTTGAAG
26534347 TATTGGAGCATGATTTGAAG
1 TATTGGAGCATGATTTGAAG
26534367 T
1 T
26534368 TTAGAAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.30, C:0.03, G:0.28, T:0.40
Consensus pattern (20 bp):
TATTGGAGCATGATTTGAAG
Found at i:26538042 original size:24 final size:24
Alignment explanation
Indices: 26537997--26538044 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
26537987 AATCAAGCTA
* *
26537997 TTGTTCCTACTATCGAGTTTTTCT
1 TTGTTCCTACTATCAAGCTTTTCT
26538021 TTGTTCCTA-TAATCAAGCTTTTCT
1 TTGTTCCTACT-ATCAAGCTTTTCT
26538045 CATAACGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.17, C:0.21, G:0.10, T:0.52
Consensus pattern (24 bp):
TTGTTCCTACTATCAAGCTTTTCT
Found at i:26540393 original size:7 final size:6
Alignment explanation
Indices: 26540361--26540389 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
26540351 AAGAGGAGAG
26540361 GGGGGA GGGGGA GGGGGA GGGGGA GGGGG
1 GGGGGA GGGGGA GGGGGA GGGGGA GGGGG
26540390 GAGGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.86, T:0.00
Consensus pattern (6 bp):
GGGGGA
Found at i:26547676 original size:23 final size:25
Alignment explanation
Indices: 26547628--26547677 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
26547618 TCGTAAGAAG
26547628 TAAGCACAATTAAGAAACATATATA
1 TAAGCACAATTAAGAAACATATATA
*
26547653 TAAGCACAATTAAGAAATATATATA
1 TAAGCACAATTAAGAAACATATATA
26547678 CTTTTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (25 bp):
TAAGCACAATTAAGAAACATATATA
Found at i:26547884 original size:283 final size:283
Alignment explanation
Indices: 26547377--26547919 Score: 1041
Period size: 283 Copynumber: 1.9 Consensus size: 283
26547367 GGTCCTCCTG
*
26547377 AATTAAGAAATATATATACTTTTAGAAAATAAAATTTTAACTAGTGAGAATGACCATCACCAGAA
1 AATTAAGAAATATATATACTTTTAAAAAATAAAATTTTAACTAGTGAGAATGACCATCACCAGAA
26547442 TAAAGTCCATCATATTAACATGTAACTACATAAGCACCTCTTTCTTCTATACAGCAAACAAGACA
66 TAAAGTCCATCATATTAACATGTAACTACATAAGCACCTCTTTCTTCTATACAGCAAACAAGACA
*
26547507 TATGGAAGCTACGATTAGGAAAGTAATGAAAAACGGGATATAAATTCAATGTAGAGAACACACCG
131 TATGGAAGCTACGATTAGGAAAGTAATGAAAAACAGGATATAAATTCAATGTAGAGAACACACCG
*
26547572 AATGAAGTAGATATTGTCACTGCTATATGAGTTAGAAGCCAATTCATCGTAAGAAGTAAGCACAA
196 AATGAAGTAGATATTGTCACCGCTATATGAGTTAGAAGCCAATTCATCGTAAGAAGTAAGCACAA
26547637 TTAAGAAACATATATATAAGCAC
261 TTAAGAAACATATATATAAGCAC
26547660 AATTAAGAAATATATATACTTTTAAAAAATAAAATTTTAACTAGTGAGAATGACCATCACCAGAA
1 AATTAAGAAATATATATACTTTTAAAAAATAAAATTTTAACTAGTGAGAATGACCATCACCAGAA
*
26547725 TAAAGTCCATCATATTAACATGTAACTACATAAGCACCTCTTTCTTCTATACAGCAAACACGACA
66 TAAAGTCCATCATATTAACATGTAACTACATAAGCACCTCTTTCTTCTATACAGCAAACAAGACA
*
26547790 TATGGAAGCTACGATTAGGAAAGTAATGAAAAACAGGATATAAATTCAATGTAGAGAACACGCCG
131 TATGGAAGCTACGATTAGGAAAGTAATGAAAAACAGGATATAAATTCAATGTAGAGAACACACCG
26547855 AATGAAGTAGATATTGTCACCGCTATATGAGTTAGAAGCCAATTCATCGTAAGAAGTAAGCACAA
196 AATGAAGTAGATATTGTCACCGCTATATGAGTTAGAAGCCAATTCATCGTAAGAAGTAAGCACAA
26547920 CAAATTATAA
Statistics
Matches: 255, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
283 255 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.26
Consensus pattern (283 bp):
AATTAAGAAATATATATACTTTTAAAAAATAAAATTTTAACTAGTGAGAATGACCATCACCAGAA
TAAAGTCCATCATATTAACATGTAACTACATAAGCACCTCTTTCTTCTATACAGCAAACAAGACA
TATGGAAGCTACGATTAGGAAAGTAATGAAAAACAGGATATAAATTCAATGTAGAGAACACACCG
AATGAAGTAGATATTGTCACCGCTATATGAGTTAGAAGCCAATTCATCGTAAGAAGTAAGCACAA
TTAAGAAACATATATATAAGCAC
Found at i:26554149 original size:2 final size:2
Alignment explanation
Indices: 26554136--26554167 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
26554126 TTAAAGAGTG
*
26554136 CA CA CT CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
26554168 ATGATTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.50, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:26557851 original size:22 final size:22
Alignment explanation
Indices: 26557826--26557874 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
26557816 TATTTTAAAA
* *
26557826 TAATTTTAAAAATATTTATTTT
1 TAATTTTAAAAAGATTTATTAT
* *
26557848 TAATTTTTATAAGATTTATTAT
1 TAATTTTAAAAAGATTTATTAT
26557870 TAATT
1 TAATT
26557875 GTTTAATATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TAATTTTAAAAAGATTTATTAT
Found at i:26557855 original size:23 final size:23
Alignment explanation
Indices: 26557829--26557880 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
26557819 TTTAAAATAA
* *
26557829 TTTTAAAAATATTTATTTTTAAT
1 TTTTAAAAAGATTTATTATTAAT
*
26557852 TTTT-ATAAGATTTATTATTAAT
1 TTTTAAAAAGATTTATTATTAAT
26557874 TGTTTAA
1 T-TTTAA
26557881 TATGATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 16 0.67
23 7 0.29
24 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTTAAAAAGATTTATTATTAAT
Found at i:26557894 original size:22 final size:21
Alignment explanation
Indices: 26557839--26557894 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
26557829 TTTTAAAAAT
26557839 ATTTATTTTTAATTTTTATAAG
1 ATTTA-TTTTAATTTTTATAAG
*
26557861 ATTTATTATTAATTGTTTAATATG
1 ATTTATT-TTAATT-TTT-ATAAG
26557885 A-TTATTTTAA
1 ATTTATTTTAA
26557895 AGATAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.07
22 15 0.50
23 8 0.27
24 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
ATTTATTTTAATTTTTATAAG
Found at i:26560355 original size:2 final size:2
Alignment explanation
Indices: 26560348--26560404 Score: 75
Period size: 2 Copynumber: 29.5 Consensus size: 2
26560338 TTTTTATTTC
26560348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T ACT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
*
26560389 AT -T TT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
26560405 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
1 3 0.06
2 46 0.92
3 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:26560929 original size:2 final size:2
Alignment explanation
Indices: 26560922--26560952 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26560912 TCAAATACTC
26560922 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
26560953 ATTAATAAAA
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:26562771 original size:14 final size:14
Alignment explanation
Indices: 26562752--26562788 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
26562742 TGTGCATATA
26562752 TATATATATGTATG
1 TATATATATGTATG
26562766 TATATATATGTATG
1 TATATATATGTATG
*
26562780 TATGTATAT
1 TATATATAT
26562789 ATATTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (14 bp):
TATATATATGTATG
Found at i:26562771 original size:18 final size:18
Alignment explanation
Indices: 26562748--26562792 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
26562738 AGTGTGTGCA
26562748 TATATATATATATGTATG
1 TATATATATATATGTATG
*
26562766 TATATATATGTATGTATG
1 TATATATATATATGTATG
26562784 TATATATAT
1 TATATATAT
26562793 TAATTATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
TATATATATATATGTATG
Found at i:26563645 original size:106 final size:100
Alignment explanation
Indices: 26563496--26563707 Score: 246
Period size: 106 Copynumber: 2.1 Consensus size: 100
26563486 AAATATTTTG
* * * * *
26563496 CATTGATAATAGTTGAAATAAAGAATAAATGATGAAAATGAAAAAGTATAAAATTAATGTAACTA
1 CATTGATAATAGTTAAAAGAAAGAATAAATGATGAAAAGGAAAAA-AATAAAATTAATATAACTA
* *
26563561 AAT-ATAATTTTTTTTTCAGGAATAAAAATTGACTTAATA
65 AATAATAATATTTTATT-A--AAT-AAAATTGACTTAATA
* * * *
26563600 CATTGATAATAGTTAAAAAGAGAAGAATAAATGGTTAAAAGGAAAAAAATAAGATTAATATAATT
1 CATTGATAATAGTT-AAAAGA-AAGAATAAATGATGAAAAGGAAAAAAATAAAATTAATATAACT
*
26563665 AAATAATAATATTTTATTAAATAAAATTGATTTAATA
64 AAATAATAATATTTTATTAAATAAAATTGACTTAATA
26563702 CATTGA
1 CATTGA
26563708 GTTTCTAAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
102 20 0.22
103 3 0.03
104 14 0.15
105 23 0.25
106 33 0.35
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.33
Consensus pattern (100 bp):
CATTGATAATAGTTAAAAGAAAGAATAAATGATGAAAAGGAAAAAAATAAAATTAATATAACTAA
ATAATAATATTTTATTAAATAAAATTGACTTAATA
Found at i:26565728 original size:27 final size:27
Alignment explanation
Indices: 26565694--26565748 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
26565684 CATACATGTA
26565694 AGAAGAATTATTAGAGTGGTGATAAAG
1 AGAAGAATTATTAGAGTGGTGATAAAG
26565721 AGAAGAATTATTAGAGTGGTGATAAAG
1 AGAAGAATTATTAGAGTGGTGATAAAG
26565748 A
1 A
26565749 AATTTTACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.25
Consensus pattern (27 bp):
AGAAGAATTATTAGAGTGGTGATAAAG
Found at i:26566382 original size:22 final size:22
Alignment explanation
Indices: 26566349--26566390 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
26566339 TATATTTTTT
26566349 AAAATAATATTTAAATATTATC
1 AAAATAATATTTAAATATTATC
*
26566371 AAAA-AATAATTTATATATTA
1 AAAATAAT-ATTTAAATATTA
26566391 ATTTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATAATATTTAAATATTATC
Found at i:26567772 original size:18 final size:18
Alignment explanation
Indices: 26567746--26567802 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
26567736 TCAAAATTGA
26567746 TAATATCATTTCAATCAT
1 TAATATCATTTCAATCAT
* ** *
26567764 TAATGTCATTAAAAAT-TT
1 TAATATCATT-TCAATCAT
26567782 TAATATCATTTCAATCAT
1 TAATATCATTTCAATCAT
26567800 TAA
1 TAA
26567803 CGACATTAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
17 3 0.10
18 23 0.79
19 3 0.10
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (18 bp):
TAATATCATTTCAATCAT
Done.