Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008311.1 Hibiscus syriacus cultivar Beakdansim tig00111002_pilon, whole genome shotgun sequence
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: 1790494
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:454762 original size:82 final size:82
Alignment explanation
Indices: 454559--454919 Score: 516
Period size: 82 Copynumber: 4.4 Consensus size: 82
454549 CCAAATAATG
454559 GTGGTGCATTATCATCTTCTGCAACTTTTCAGAGGTCATTCAATGCATAATTTAAACAACTTTTC
1 GTGGTGCATTATCATCTTCTGCAACTTTTCAGAGGTCATTCAATGCATAATTTAAACAACTTTTC
*
454624 AAAAAAAAGGGTGAAATA
66 -AAAAAATGGGTGAAATA
454642 GTGGTGCATTATCATCTTCTGCAACTTTTCAGAGGTCATTCAATGCATAATTTAAACAACTTTTC
1 GTGGTGCATTATCATCTTCTGCAACTTTTCAGAGGTCATTCAATGCATAATTTAAACAACTTTTC
*
454707 AAAAAATGGGTCAAATA
66 AAAAAATGGGTGAAATA
* * *
454724 GTGGTGCATTATCATCTTCTGCAACTTTTCAAAGGTCATTCAATGCATAATTTAAACAAATTTTT
1 GTGGTGCATTATCATCTTCTGCAACTTTTCAGAGGTCATTCAATGCATAATTTAAACAACTTTTC
* *
454789 AGAAAATTGGTGAAATA
66 AAAAAATGGGTGAAATA
* * *
454806 GTAGTGCATTATCATCTTCTACAACTTGTT-AGAGATCATTCAATGCATAATTTAAACAACTTTT
1 GTGGTGCATTATCATCTTCTGCAACTT-TTCAGAGGTCATTCAATGCATAATTTAAACAACTTTT
* *
454870 TAGACAACAT--GTGAAATA
65 CA-A-AAAATGGGTGAAATA
*
454888 GTGGTGTC-TTGTCATCTT-TAGCAACTTTTCAG
1 GTGGTG-CATTATCATCTTCT-GCAACTTTTCAG
454920 TGATGTATCA
Statistics
Matches: 254, Mismatches: 18, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
81 3 0.01
82 179 0.70
83 68 0.27
84 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (82 bp):
GTGGTGCATTATCATCTTCTGCAACTTTTCAGAGGTCATTCAATGCATAATTTAAACAACTTTTC
AAAAAATGGGTGAAATA
Found at i:459824 original size:2 final size:2
Alignment explanation
Indices: 459817--459850 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
459807 ACTAAGATAC
459817 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
459851 CATGTTGTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:460131 original size:30 final size:32
Alignment explanation
Indices: 460079--460137 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
460069 ATCTAAAATT
*
460079 AAATAAAAAATGAAAGTGATCATATATTAATA
1 AAATAAAAAATGAAAATGATCATATATTAATA
460111 AAAT-AAAAAT-AAAATGATCATATATTA
1 AAATAAAAAATGAAAATGATCATATATTA
460138 TATTTTTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 16 0.62
31 6 0.23
32 4 0.15
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (32 bp):
AAATAAAAAATGAAAATGATCATATATTAATA
Found at i:461625 original size:49 final size:49
Alignment explanation
Indices: 461566--461870 Score: 212
Period size: 49 Copynumber: 6.2 Consensus size: 49
461556 ACTGCTCTAA
* * * *
461566 AATGAAAGTTAAATGCCTAACTATGCATTTTTGGTAGAAAGT-TACCACT
1 AATGCAAGTTAAATG-CTAACTGTGCATTTTTGGCAGAAAGTGTGCCACT
* ** * *
461615 AATGCAAGTTAGATGAAAAATGGTACA-TTTTGGCAGAAA-TGTGCCACT
1 AATGCAAGTTAAATGCTAACT-GTGCATTTTTGGCAGAAAGTGTGCCACT
* * *
461663 AATACAAGTTAAATGCCTAACTGTGCATTTTTTGTAGAAAG-GTGCCACT
1 AATGCAAGTTAAATG-CTAACTGTGCATTTTTGGCAGAAAGTGTGCCACT
* * ** * * * *
461712 AATGCCAGTTAGATGAAAAATGGTGTATTTTTTGCAGAAA-TGTGTCACT
1 AATGCAAGTTAAATGCTAACT-GTGCATTTTTGGCAGAAAGTGTGCCACT
***
461761 AATGCAAGTTAAATGTCTAAC-GATGCATTTTTTTTATAGAAA-TGTGCCACT
1 AATGCAAGTTAAATG-CTAACTG-TGCA--TTTTTGGCAGAAAGTGTGCCACT
* ** * * *
461812 AATGCAAGTTAGATGAAAAATGGTGCATCTTTGGCAGAAAG-ATGCCACT
1 AATGCAAGTTAAATGCTAACT-GTGCATTTTTGGCAGAAAGTGTGCCACT
461861 AATGCAAGTT
1 AATGCAAGTT
461871 TTAACTAAAA
Statistics
Matches: 198, Mismatches: 44, Indels: 28
0.73 0.16 0.10
Matches are distributed among these distances:
47 1 0.01
48 41 0.21
49 114 0.58
50 4 0.02
51 37 0.19
52 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (49 bp):
AATGCAAGTTAAATGCTAACTGTGCATTTTTGGCAGAAAGTGTGCCACT
Found at i:461742 original size:97 final size:97
Alignment explanation
Indices: 461566--461870 Score: 416
Period size: 100 Copynumber: 3.1 Consensus size: 97
461556 ACTGCTCTAA
* * * * *
461566 AATGAAAGTTAAATGCCTAACTATGCATTTTTGGTAGAAAGTTACCACTAATGCAAGTTAGATGA
1 AATGCAAGTTAAATGCCTAACTGTGCATTTTTTGTAGAAAGGTGCCACTAATGCAAGTTAGATGA
*
461631 AAAATGGTACATTTTGGCAGAAATGTGCCACT
66 AAAATGGTGCATTTTGGCAGAAATGTGCCACT
* *
461663 AATACAAGTTAAATGCCTAACTGTGCATTTTTTGTAGAAAGGTGCCACTAATGCCAGTTAGATGA
1 AATGCAAGTTAAATGCCTAACTGTGCATTTTTTGTAGAAAGGTGCCACTAATGCAAGTTAGATGA
* * *
461728 AAAATGGTGTATTTTTTGCAGAAATGTGTCACT
66 AAAATGGTGCA-TTTTGGCAGAAATGTGCCACT
* * *
461761 AATGCAAGTTAAATGTCTAAC-GATGCATTTTTTTTATAGAAATGTGCCACTAATGCAAGTTAGA
1 AATGCAAGTTAAATGCCTAACTG-TGCA--TTTTTTGTAGAAAGGTGCCACTAATGCAAGTTAGA
461825 TGAAAAATGGTGCATCTTTGGCAGAAA-GATGCCACT
63 TGAAAAATGGTGCAT-TTTGGCAGAAATG-TGCCACT
461861 AATGCAAGTT
1 AATGCAAGTT
461871 TTAACTAAAA
Statistics
Matches: 183, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
97 68 0.37
98 42 0.23
99 2 0.01
100 71 0.39
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (97 bp):
AATGCAAGTTAAATGCCTAACTGTGCATTTTTTGTAGAAAGGTGCCACTAATGCAAGTTAGATGA
AAAATGGTGCATTTTGGCAGAAATGTGCCACT
Found at i:469804 original size:15 final size:15
Alignment explanation
Indices: 469784--469833 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 15
469774 TTTTTCTTTA
469784 ATTATATAATTTAAT
1 ATTATATAATTTAAT
469799 ATTATATATATATTAAT
1 ATTATATA-AT-TTAAT
*
469816 ATTATAT-ATTTTAT
1 ATTATATAATTTAAT
469830 ATTA
1 ATTA
469834 ACAAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 8 0.25
15 10 0.31
16 2 0.06
17 12 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTATATAATTTAAT
Found at i:469834 original size:20 final size:17
Alignment explanation
Indices: 469784--469824 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
469774 TTTTTCTTTA
469784 ATTATATA-AT-TTAAT
1 ATTATATATATATTAAT
469799 ATTATATATATATTAAT
1 ATTATATATATATTAAT
469816 ATTATATAT
1 ATTATATAT
469825 TTTATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.33
16 2 0.08
17 14 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTATATATATATTAAT
Found at i:469928 original size:30 final size:30
Alignment explanation
Indices: 469892--469995 Score: 124
Period size: 29 Copynumber: 3.5 Consensus size: 30
469882 AAAAATATTT
469892 TTTTATTTTTATCTTAAACTATTAAATATA
1 TTTTATTTTTATCTTAAACTATTAAATATA
* *
469922 TTTTATTATT-TCTTAACCTATTAAATATA
1 TTTTATTTTTATCTTAAACTATTAAATATA
* *
469951 TTTTATTTTTAT-TTTAA-TATAAAATATATA
1 TTTTATTTTTATCTTAAACTAT-TAA-ATATA
*
469981 TTTTATCTTTATCTT
1 TTTTATTTTTATCTT
469996 CACTTAAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
28 3 0.05
29 32 0.51
30 26 0.41
31 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTATTTTTATCTTAAACTATTAAATATA
Found at i:470007 original size:59 final size:58
Alignment explanation
Indices: 469880--470035 Score: 144
Period size: 59 Copynumber: 2.7 Consensus size: 58
469870 TTCTTAAATT
* *
469880 TTAAAAATATTTTTTTATTTTTATCTTAA-ACTATTAA-ATATATTTTATTATTTCTTAAC
1 TTAAAAATA-TTTTTTATTTTTATTTTAATA-TA-AAATATATATTTTATTATTTCTTAAC
* * * *
469939 CTATTAAATATATTTTATTTTTATTTTAATATAAAATATATATTTTATCT-TTATCTTCAC
1 TTA-AAAATATTTTTTATTTTTATTTTAATATAAAATATATATTTTAT-TATT-TCTTAAC
* *
469999 TTAAAAATATTTTTTATCTTAATTTT--TA-AAAATATAT
1 TTAAAAATATTTTTTATTTTTATTTTAATATAAAATATAT
470036 TAACTTAAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 13
0.77 0.10 0.12
Matches are distributed among these distances:
56 9 0.11
57 2 0.02
58 2 0.02
59 53 0.65
60 15 0.19
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.56
Consensus pattern (58 bp):
TTAAAAATATTTTTTATTTTTATTTTAATATAAAATATATATTTTATTATTTCTTAAC
Found at i:470016 original size:29 final size:29
Alignment explanation
Indices: 469944--470023 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
469934 TTAACCTATT
* *
469944 AAATATATTTTATTTTTATTTTAATATAA
1 AAATATATTTTATCTTTATTTCAATATAA
*
469973 AATATATATTTTATCTTTATCTTCACT-TAA
1 AA-ATATATTTTATCTTTAT-TTCAATATAA
* *
470003 AAATATTTTTTATCTTAATTT
1 AAATATATTTTATCTTTATTT
470024 TTAAAAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 2 0.05
29 17 0.39
30 21 0.48
31 4 0.09
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (29 bp):
AAATATATTTTATCTTTATTTCAATATAA
Found at i:470054 original size:9 final size:9
Alignment explanation
Indices: 470040--470087 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
470030 ATATATTAAC
470040 TTAAATATT
1 TTAAATATT
470049 TTAAATATT
1 TTAAATATT
*
470058 TTATTATTATT
1 TTA--AATATT
470069 TTAATATATT
1 TTAA-ATATT
*
470079 TTATATATT
1 TTAAATATT
470088 CTTATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 18 0.55
10 7 0.21
11 8 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTAAATATT
Found at i:470084 original size:28 final size:27
Alignment explanation
Indices: 470040--470097 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
470030 ATATATTAAC
*
470040 TTAAATATTTTAAATATTTTATTATTATT
1 TTAAATATTTT-AATATATTATTATT-TT
*
470069 TTAATATATTTT-ATATATTCTTATTTT
1 TTAA-ATATTTTAATATATTATTATTTT
470096 TT
1 TT
470098 GTTTATGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 4 0.15
28 11 0.42
29 4 0.15
30 7 0.27
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (27 bp):
TTAAATATTTTAATATATTATTATTTT
Found at i:474581 original size:20 final size:20
Alignment explanation
Indices: 474558--474598 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
474548 ATGAACCGTC
* *
474558 TGAAAACCGGTAGAACCGGT
1 TGAAAACCGGCAAAACCGGT
*
474578 TGAAAATCGGCAAAACCGGT
1 TGAAAACCGGCAAAACCGGT
474598 T
1 T
474599 TGAACCGCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.17
Consensus pattern (20 bp):
TGAAAACCGGCAAAACCGGT
Found at i:475733 original size:19 final size:20
Alignment explanation
Indices: 475705--475746 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
475695 TTATCTTAAT
475705 AAATAAAAATATATTAA-ATA
1 AAATAAAAATATA-TAATATA
*
475725 AAAT-AAAATTTATAATATA
1 AAATAAAAATATATAATATA
475744 AAA
1 AAA
475747 AATAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 3 0.15
19 13 0.65
20 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATAAAAATATATAATATA
Found at i:475751 original size:12 final size:12
Alignment explanation
Indices: 475720--475762 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
475710 AAAATATATT
475720 AAATAAAATAAA
1 AAATAAAATAAA
* *
475732 ATTTATAATATAAA
1 A--AATAAAATAAA
475746 AAATAAAATAAA
1 AAATAAAATAAA
475758 AAATA
1 AAATA
475763 TGTCACCCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 15 0.60
14 10 0.40
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:475762 original size:21 final size:23
Alignment explanation
Indices: 475705--475763 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 23
475695 TTATCTTAAT
475705 AAATAAAAATATATTAAATAAAATA
1 AAATAAAAA-ATA-TAAATAAAATA
** *
475730 AAATTTATAATAT-AA-AAAATA
1 AAATAAAAAATATAAATAAAATA
475751 AAATAAAAAATAT
1 AAATAAAAAATAT
475764 GTCACCCCCA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
21 16 0.57
22 2 0.07
23 1 0.04
24 3 0.11
25 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
AAATAAAAAATATAAATAAAATA
Found at i:478870 original size:30 final size:31
Alignment explanation
Indices: 478836--478896 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
478826 ATCTTGTTGG
478836 TACTAA-TTCATTT-TTCTCTTTTGTTTGTGT
1 TACTAACTT-ATTTCTTCTCTTTTGTTTGTGT
*
478866 TACTAACTTATTTCTTTTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
478897 CATTTTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.64
Consensus pattern (31 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGT
Found at i:480910 original size:19 final size:19
Alignment explanation
Indices: 480886--480927 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
480876 TTCAGATGAG
480886 ATACCGAAATGTGAACCAA
1 ATACCGAAATGTGAACCAA
480905 ATACCGAAATGTGAACCAA
1 ATACCGAAATGTGAACCAA
480924 ATAC
1 ATAC
480928 AAAGTGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (19 bp):
ATACCGAAATGTGAACCAA
Found at i:480988 original size:19 final size:19
Alignment explanation
Indices: 480964--481012 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
480954 AGAGAAAAAT
480964 AGCAAAGAAAAAAATAAAG
1 AGCAAAGAAAAAAATAAAG
*
480983 AGCAAAGGAAAAAATAAAG
1 AGCAAAGAAAAAAATAAAG
*
481002 AGTAAA-AAAAA
1 AGCAAAGAAAAA
481013 GAAAAAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.73, C:0.04, G:0.16, T:0.06
Consensus pattern (19 bp):
AGCAAAGAAAAAAATAAAG
Found at i:481017 original size:7 final size:7
Alignment explanation
Indices: 481007--481070 Score: 67
Period size: 7 Copynumber: 8.9 Consensus size: 7
480997 TAAAGAGTAA
481007 AAAAAAG
1 AAAAAAG
481014 AAAAAAAG
1 -AAAAAAG
481022 AAAAAA-
1 AAAAAAG
**
481028 ATCAAAG
1 AAAAAAG
481035 AAAAAAG
1 AAAAAAG
*
481042 AACAAAG
1 AAAAAAG
481049 AACAAAAG
1 AA-AAAAG
481057 AAAGAAAG
1 AAA-AAAG
481065 AAAAAA
1 AAAAAA
481071 CAAGAAGCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
6 4 0.09
7 23 0.49
8 20 0.43
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:481019 original size:8 final size:8
Alignment explanation
Indices: 481006--481070 Score: 60
Period size: 8 Copynumber: 7.8 Consensus size: 8
480996 ATAAAGAGTA
481006 AAAAAAAG
1 AAAAAAAG
481014 AAAAAAAG
1 AAAAAAAG
*
481022 AAAAAAATC
1 AAAAAAA-G
481031 AAAGAAAA-
1 AAA-AAAAG
481039 AAGAACAAAG
1 AA-AA-AAAG
*
481049 AACAAAAG
1 AAAAAAAG
*
481057 AAAGAAAG
1 AAAAAAAG
481065 AAAAAA
1 AAAAAA
481071 CAAGAAGCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
8 33 0.70
9 8 0.17
10 6 0.13
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:481025 original size:31 final size:34
Alignment explanation
Indices: 480956--481059 Score: 83
Period size: 33 Copynumber: 3.1 Consensus size: 34
480946 CAAAACAAAG
* * **
480956 AGAAAAATAGCAAAG-AAAAA-AATAAAGAGCAAA
1 AGAAAAA-ATCAAAGAAAAAAGAACAAAGAAAAAA
* **
480989 GGAAAAAAT-AAAGAGTAAA-AA-AAAGAAAAAA
1 AGAAAAAATCAAAGAAAAAAGAACAAAGAAAAAA
*
481020 AGAAAAAAATCAAAGAAAAAAGAACAAAGAACAAA
1 AG-AAAAAATCAAAGAAAAAAGAACAAAGAAAAAA
481055 AGAAA
1 AGAAA
481060 GAAAGAAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
31 13 0.23
32 13 0.23
33 14 0.25
34 5 0.09
35 11 0.20
ACGTcount: A:0.76, C:0.05, G:0.14, T:0.05
Consensus pattern (34 bp):
AGAAAAAATCAAAGAAAAAAGAACAAAGAAAAAA
Found at i:482419 original size:64 final size:63
Alignment explanation
Indices: 482236--482432 Score: 251
Period size: 61 Copynumber: 3.1 Consensus size: 63
482226 TATCAGTATC
*
482236 CTTTGAG-TTGTTTCTCTCGAAACAAATTTTGTCTCTCGAGACAGTTTCTTTT-A-CAAAAAT
1 CTTTGAGTTTGTTTCTCTCGAAACAAATTTTGTCTCTCGAGACAGTTTCTTTTGAGAAAAAAT
* * * * *
482296 CTTTGAGTCTGTTTCTCTGGAAACAAACTTTCGTCTCTCTTGAGACAATTTATTTTGAGAAATAA
1 CTTTGAGTTTGTTTCTCTCGAAACAAA-TTTTGTCTCTC--GAGACAGTTTCTTTTGAG-AA-AA
482361 AAT
61 AAT
*
482364 CTTTGAGTTTGTTTC-CTTGAAACAAATTTTGTCTCTCGAGACAGTTTCTTTTGAG-AAAAAT
1 CTTTGAGTTTGTTTCTCTCGAAACAAATTTTGTCTCTCGAGACAGTTTCTTTTGAGAAAAAAT
482425 CTTTGAGT
1 CTTTGAGT
482433 CTGTAACTTT
Statistics
Matches: 118, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
60 7 0.06
61 30 0.25
62 11 0.09
64 29 0.25
65 1 0.01
66 10 0.08
67 11 0.09
68 19 0.16
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (63 bp):
CTTTGAGTTTGTTTCTCTCGAAACAAATTTTGTCTCTCGAGACAGTTTCTTTTGAGAAAAAAT
Found at i:482848 original size:134 final size:131
Alignment explanation
Indices: 482587--482944 Score: 427
Period size: 134 Copynumber: 2.7 Consensus size: 131
482577 TGAAACCATT
* * * * *
482587 ATCCCTAAAGATGGTA-GCCGTCCTGATCACGTAGGAACCGTGTCATCCCCCCGAACAGATCTCC
1 ATCCCTAAAGATGGTATGTCATCCTCATCACGTAGGAACCGTGTCAT-CCACCGACCAGATCTCC
** * * * * *
482651 TCATCACGTAGGAGCTATTTCACCCC-TAGATAACCAGCCATCCTCATCGCATAGGAACTGTGTT
65 TCATCACGTAGGAGCCGTGTCACCCCTTA-ATAACCAGCCATCCCCATCACATAAGAACCGTGTT
482715 ATC
129 ATC
* * * *
482718 ACCCTCCCTAAAGATGGTATGTCATCCTCATCTCATAGGAACCGTGTAATCCACCGACCAGATAT
1 A---TCCCTAAAGATGGTATGTCATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
* *
482783 CCTCATCACGTAGGAGCCGTGTCACCCCTTAATAACCAGCCGTCCCCATCATATAAGAACCGTGT
63 CCTCATCACGTAGGAGCCGTGTCACCCCTTAATAACCAGCCATCCCCATCACATAAGAACCGTGT
482848 TATC
128 TATC
* ** *
482852 ATCCCTAAAAATGGCCT-TCCATCCTCATCACGTAGGAACCGTGTCATCCACCGACCATATCTCC
1 ATCCCTAAAGATGGTATGT-CATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCTCC
*
482916 TCATCACGTAGGAGTCGTGTCA-CCCTTAA
65 TCATCACGTAGGAGCCGTGTCACCCCTTAA
482945 CTGACCATAA
Statistics
Matches: 194, Mismatches: 27, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
130 8 0.04
131 75 0.39
134 85 0.44
135 26 0.13
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (131 bp):
ATCCCTAAAGATGGTATGTCATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCTCCT
CATCACGTAGGAGCCGTGTCACCCCTTAATAACCAGCCATCCCCATCACATAAGAACCGTGTTAT
C
Found at i:482917 original size:131 final size:132
Alignment explanation
Indices: 482607--482944 Score: 414
Period size: 131 Copynumber: 2.6 Consensus size: 132
482597 ATGGTAGCCG
* * * ** *
482607 TCCTGATCACGTAGGAACCGTGTCATCCCCCCGAACAGATCTCCTCATCACGTAGGAGCTATTTC
1 TCCTCATCACGTAGGAACCGTGTCAT-CCACCGACCAGATCTCCTCATCACGTAGGAGCCGTGTC
* * * * * *
482672 ACCCC-TAGATAACCAGCCATCCTCATCGCATAGGAACTGTGTTATCACCCTCCCTAAAGATGGT
65 ACCCCTTA-ATAACCAGCCATCCCCATCACATAAGAACCGTGTTATCA--CTCCCTAAAAATGGC
482736 ATGTCA
127 ATGTCA
* * * *
482742 TCCTCATCTCATAGGAACCGTGTAATCCACCGACCAGATATCCTCATCACGTAGGAGCCGTGTCA
1 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
* * *
482807 CCCCTTAATAACCAGCCGTCCCCATCATATAAGAACCGTGTTATCA-TCCCTAAAAATGGCCT-T
66 CCCCTTAATAACCAGCCATCCCCATCACATAAGAACCGTGTTATCACTCCCTAAAAATGGCATGT
482870 CCA
131 -CA
* *
482873 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCATATCTCCTCATCACGTAGGAGTCGTGTCA
1 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
482938 -CCCTTAA
66 CCCCTTAA
482945 CTGACCATAA
Statistics
Matches: 176, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
130 8 0.05
131 74 0.42
134 70 0.40
135 24 0.14
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.24
Consensus pattern (132 bp):
TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
CCCCTTAATAACCAGCCATCCCCATCACATAAGAACCGTGTTATCACTCCCTAAAAATGGCATGT
CA
Found at i:484573 original size:15 final size:15
Alignment explanation
Indices: 484542--484581 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
484532 ACCACTAAAT
484542 TTTTTA-TT-TTTTA
1 TTTTTATTTATTTTA
484555 -TTTTATTTATTTTA
1 TTTTTATTTATTTTA
*
484569 TTTTTATATATTT
1 TTTTTATTTATTT
484582 GTTTGTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 5 0.22
13 2 0.09
14 5 0.22
15 11 0.48
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTATTTATTTTA
Found at i:486914 original size:34 final size:35
Alignment explanation
Indices: 486867--486955 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 35
486857 TGCATTGCAT
* * *
486867 TTAATTCATCTAGTTCATTTAGGGAAA-TAGTTCA
1 TTAATTAAACTAGTTCATTTAAGGAAACTAGTTCA
**
486901 TTAATTAAACTAGTTCA-TTAATTAAACTAGTTCA
1 TTAATTAAACTAGTTCATTTAAGGAAACTAGTTCA
* * *
486935 TTCATCAAACTAGTTCGTTTA
1 TTAATTAAACTAGTTCATTTA
486956 TTAAATTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
33 6 0.13
34 36 0.80
35 3 0.07
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (35 bp):
TTAATTAAACTAGTTCATTTAAGGAAACTAGTTCA
Found at i:486938 original size:21 final size:17
Alignment explanation
Indices: 486894--486960 Score: 98
Period size: 17 Copynumber: 3.9 Consensus size: 17
486884 TTTAGGGAAA
486894 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
486911 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
486928 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
* *
486945 TAGTTCGTTTATTAAA
1 TAGTTCATTAATTAAA
486961 TTAAATCTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:489619 original size:26 final size:26
Alignment explanation
Indices: 489590--489639 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
489580 AAACTATGTA
489590 ATTTATATATATA-TATATAATATAAG
1 ATTTATATATATAGTATAT-ATATAAG
*
489616 ATTTATGTATATAGTATATATATA
1 ATTTATATATATAGTATATATATA
489640 GTATATTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (26 bp):
ATTTATATATATAGTATATATATAAG
Found at i:489651 original size:9 final size:11
Alignment explanation
Indices: 489593--489669 Score: 56
Period size: 11 Copynumber: 7.4 Consensus size: 11
489583 CTATGTAATT
489593 TATATA-TATA
1 TATATAGTATA
*
489603 TATATAATATA
1 TATATAGTATA
* * *
489614 -AGAT-TTATG
1 TATATAGTATA
489623 TATATAGTATA
1 TATATAGTATA
489634 TATATAGTATA
1 TATATAGTATA
*
489645 T-TA-AGTACA
1 TATATAGTATA
*
489654 TATATATTACTA
1 TATATAGTA-TA
489666 TATA
1 TATA
489670 AATAGTTTAC
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
9 9 0.17
10 16 0.31
11 22 0.42
12 5 0.10
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (11 bp):
TATATAGTATA
Found at i:489756 original size:9 final size:9
Alignment explanation
Indices: 489742--489774 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
489732 ATGTAAACAA
*
489742 TATATAAAC
1 TATATAAAG
489751 TATATAAAG
1 TATATAAAG
489760 TAT-TAAAG
1 TATATAAAG
489768 TATATAA
1 TATATAA
489775 TTTATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (9 bp):
TATATAAAG
Found at i:489831 original size:15 final size:15
Alignment explanation
Indices: 489813--489904 Score: 64
Period size: 15 Copynumber: 5.9 Consensus size: 15
489803 ATAAACAACA
489813 TATATAAACTATATTT
1 TATATAAACTATA-TT
489829 ATATTATAAACTATATAAT
1 -TA-TATAAACTATAT--T
489848 TAT-TACAAGCTATA--
1 TATATA-AA-CTATATT
* *
489862 TATATAAATTATGTT
1 TATATAAACTATATT
*
489877 TATATAAACTATATA
1 TATATAAACTATATT
*
489892 TGTATAAACTATA
1 TATATAAACTATA
489905 AAAGGTATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
13 3 0.05
14 5 0.08
15 26 0.43
16 2 0.03
17 6 0.10
18 18 0.30
19 1 0.02
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (15 bp):
TATATAAACTATATT
Found at i:489851 original size:18 final size:19
Alignment explanation
Indices: 489815--489873 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
489805 AAACAACATA
*
489815 TATAAACTATAT-TTATAT
1 TATAAACTATATAATATAT
489833 TATAAACTATATAAT-TAT
1 TATAAACTATATAATATAT
* * *
489851 TACAAGCTATATATATAAAT
1 TATAAACTATATA-ATATAT
489871 TAT
1 TAT
489874 GTTTATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 26 0.79
19 3 0.09
20 4 0.12
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (19 bp):
TATAAACTATATAATATAT
Found at i:490000 original size:25 final size:25
Alignment explanation
Indices: 489877--490007 Score: 72
Period size: 25 Copynumber: 5.2 Consensus size: 25
489867 AAATTATGTT
*
489877 TATATAAACTATATA-TGTATAAAC
1 TATATAAAGTATATAGTGTATAAAC
* *
489901 TATA-AAAGGTATATAATTTATAAAC
1 TATATAAA-GTATATAGTGTATAAAC
* * * *
489926 TATAATTTATATTAATATAGTGTACATA-
1 TAT-A--TAAAGT-ATATAGTGTATAAAC
* * *
489954 TATAT-ATGTATGTATGTATATAAAC
1 TATATAAAGTATATA-GTGTATAAAC
* *
489979 TATATAAAGTATATAGTTTATAAAT
1 TATATAAAGTATATAGTGTATAAAC
490004 TATA
1 TATA
490008 ATTTATATTA
Statistics
Matches: 78, Mismatches: 19, Indels: 19
0.67 0.16 0.16
Matches are distributed among these distances:
23 7 0.09
24 17 0.22
25 29 0.37
26 8 0.10
27 1 0.01
28 4 0.05
29 12 0.15
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (25 bp):
TATATAAAGTATATAGTGTATAAAC
Found at i:490318 original size:83 final size:83
Alignment explanation
Indices: 490231--490425 Score: 190
Period size: 77 Copynumber: 2.3 Consensus size: 83
490221 TTTATAAACA
* *
490231 ATAGTTAATATATGTAACATATAGTATATGTTTACATGTAAAC-TATATATGTAACTTATAGTAC
1 ATAGTTAATATATGTAAC-TATAGTATATG--TACATGTAAACATATATATATAACATATAGTAC
*
490295 ATGTATGTATA-AA-CTATTT
63 ATGTATATATACAATCTATTT
* * *
490314 ATAG-T-ATATAT-AAACTAT-GTATA-GTATATGTAAACTATATATATATAACATATAGTATAT
1 ATAGTTAATATATGTAACTATAGTATATGTACATGTAAAC-ATATATATATAACATATAGTACAT
490374 GTATATATACAATCTATTT
65 GTATATATACAATCTATTT
*
490393 ATATGTAAACTATATATGTAACCTATAGTATAT
1 ATA-GT-TA--ATATATGTAA-CTATAGTATAT
490426 ATTATGTATA
Statistics
Matches: 90, Mismatches: 8, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
75 10 0.11
77 29 0.32
78 7 0.08
79 12 0.13
80 4 0.04
81 6 0.07
82 1 0.01
83 4 0.04
85 6 0.07
86 2 0.02
87 4 0.04
88 5 0.06
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (83 bp):
ATAGTTAATATATGTAACTATAGTATATGTACATGTAAACATATATATATAACATATAGTACATG
TATATATACAATCTATTT
Found at i:490320 original size:20 final size:20
Alignment explanation
Indices: 490297--490467 Score: 87
Period size: 20 Copynumber: 8.9 Consensus size: 20
490287 TATAGTACAT
* *
490297 GTATGTATAAACTATTTATA
1 GTATATATAAACTATATATA
*
490317 GTATATATAAACTATGTATA
1 GTATATATAAACTATATATA
*
490337 GTATATGTAAACTATATATA
1 GTATATATAAACTATATATA
* *
490357 -TATA-ACATA-TAGTATAT-
1 GTATATATAAACTA-TATATA
*
490374 GTATATATACAA-TCTAT-T-
1 GTATATATA-AACTATATATA
*
490392 -TATATGTAAACTATATAT-
1 GTATATATAAACTATATATA
** * *
490410 GTA-ACCTATAGTATATATTA
1 GTATATATAAACTATATA-TA
* *
490430 TGTATATA-CAA-TCTATATA
1 -GTATATATAAACTATATATA
*
490449 GTTTATATAAACTATATAT
1 GTATATATAAACTATATAT
490468 TAACTTATAG
Statistics
Matches: 114, Mismatches: 24, Indels: 26
0.70 0.15 0.16
Matches are distributed among these distances:
16 2 0.02
17 13 0.11
18 29 0.25
19 16 0.14
20 49 0.43
21 4 0.04
22 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.43
Consensus pattern (20 bp):
GTATATATAAACTATATATA
Found at i:490354 original size:13 final size:13
Alignment explanation
Indices: 490338--490419 Score: 53
Period size: 13 Copynumber: 6.2 Consensus size: 13
490328 CTATGTATAG
490338 TATATGTAAACTA
1 TATATGTAAACTA
*
490351 TATATATATAAC-A
1 TATATGTA-AACTA
* *
490364 TATA-GTATA-TG
1 TATATGTAAACTA
*
490375 TATATATACAATCTA
1 TATATGTA-AA-CTA
490390 TTTATATGTAAACTA
1 --TATATGTAAACTA
*
490405 TATATGTAACCTA
1 TATATGTAAACTA
490418 TA
1 TA
490420 GTATATATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
11 5 0.10
12 4 0.08
13 27 0.52
14 3 0.06
15 4 0.08
16 2 0.04
17 7 0.13
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
TATATGTAAACTA
Found at i:490402 original size:54 final size:54
Alignment explanation
Indices: 490338--490483 Score: 154
Period size: 52 Copynumber: 2.6 Consensus size: 54
490328 CTATGTATAG
490338 TATATGTAAACTATATATATATAACATATAGTATAT-GTA-TATATACAATCTATT
1 TATATGTAAAC--TATATATATAACATATAGTATATAGTAGTATATACAATCTATT
* * *
490392 TATATGTAAACTATATATGTAACCTATAGTATATATTATGTATATACAATCTATAT
1 TATATGTAAACTATATATATAACATATAGTATATAGTA-GTATATACAATCTAT-T
* * * *
490448 AGTTTATATAAACTATATAT-TAACTTATAGTTTATA
1 --TATATGTAAACTATATATATAACATATAGTATATA
490484 AACAATAGTT
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
52 21 0.27
53 2 0.03
54 11 0.14
55 14 0.18
56 1 0.01
57 14 0.18
58 16 0.20
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (54 bp):
TATATGTAAACTATATATATAACATATAGTATATAGTAGTATATACAATCTATT
Found at i:490516 original size:64 final size:59
Alignment explanation
Indices: 490442--490577 Score: 170
Period size: 57 Copynumber: 2.3 Consensus size: 59
490432 TATATACAAT
*
490442 CTATATAGTTTATATAAACTATA-TATTAACTTATAGTTTATAAACAATAGTTTATATTAGTGTA
1 CTATATAGTTTATATAAACTATAGTA-T-A--TA-A-TTTATAAACAATAGTTTATATTAATGTA
* *
490506 CTATATAG-TT-TATAACCTATAGTATATAATTTATAAACTATAGTTTATATTAATGTA
1 CTATATAGTTTATATAAACTATAGTATATAATTTATAAACAATAGTTTATATTAATGTA
490563 CTATATAGTTTATAT
1 CTATATAGTTTATAT
490578 TATTATTAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
57 34 0.52
58 3 0.05
59 5 0.08
61 1 0.02
62 11 0.17
63 4 0.06
64 8 0.12
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (59 bp):
CTATATAGTTTATATAAACTATAGTATATAATTTATAAACAATAGTTTATATTAATGTA
Found at i:490533 original size:21 final size:21
Alignment explanation
Indices: 490507--490554 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
490497 ATTAGTGTAC
* *
490507 TATATAGTTTATAACCTATAG
1 TATATAATTTATAAACTATAG
490528 TATATAATTTATAAACTATAG
1 TATATAATTTATAAACTATAG
*
490549 TTTATA
1 TATATA
490555 TTAATGTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (21 bp):
TATATAATTTATAAACTATAG
Found at i:490550 original size:57 final size:56
Alignment explanation
Indices: 490473--490636 Score: 192
Period size: 57 Copynumber: 2.9 Consensus size: 56
490463 TATATTAACT
* * *
490473 TATAGTTTATAAACAATAGTTTATATTAGTGTACTATATAGTTTATAACCTATAGTA
1 TATAATTTATAAACTATAGTTTATATTAATGTACTATATAGTTTATAA-CTATAGTA
*
490530 TATAATTTATAAACTATAGTTTATATTAATGTACTATATAGTTTAT-A-T-TATTA
1 TATAATTTATAAACTATAGTTTATATTAATGTACTATATAGTTTATAACTATAGTA
* * * * *
490583 T-TAATTATCTTAACTATAATTTATATTAATATAGTATATAGTTTATAAACTATA
1 TATAATT-TATAAACTATAGTTTATATTAATGTACTATATAGTTTAT-AACTATA
490637 ATTTGTATTA
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
52 5 0.05
53 39 0.42
54 1 0.01
55 1 0.01
56 2 0.02
57 45 0.48
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (56 bp):
TATAATTTATAAACTATAGTTTATATTAATGTACTATATAGTTTATAACTATAGTA
Found at i:490615 original size:15 final size:15
Alignment explanation
Indices: 490565--490615 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
490555 TTAATGTACT
*
490565 ATATAGTTTATATTA
1 ATATAATTTATATTA
* *
490580 TTATTAA-TTATCTTA
1 ATA-TAATTTATATTA
490595 ACTATAATTTATATTA
1 A-TATAATTTATATTA
490611 ATATA
1 ATATA
490616 GTATATAGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (15 bp):
ATATAATTTATATTA
Found at i:490634 original size:36 final size:36
Alignment explanation
Indices: 490594--490726 Score: 152
Period size: 36 Copynumber: 3.9 Consensus size: 36
490584 TAATTATCTT
490594 AACTATAATTTATATTAATATAGTATATAGTTTATA
1 AACTATAATTTATATTAATATAGTATATAGTTTATA
* * *
490630 AACTATAATTTGTATTAATGTAGTAGATAGTTTATA
1 AACTATAATTTATATTAATATAGTATATAGTTTATA
* * *
490666 AACTATAATTTACATTAATAT--TA-A-A--ATATT
1 AACTATAATTTATATTAATATAGTATATAGTTTATA
* *
490696 AACTATAGTTTATATTAAAATAGTATATAGT
1 AACTATAATTTATATTAATATAGTATATAGT
490727 ATTAATATTA
Statistics
Matches: 80, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
30 21 0.26
32 3 0.04
33 2 0.03
34 3 0.04
36 51 0.64
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (36 bp):
AACTATAATTTATATTAATATAGTATATAGTTTATA
Found at i:490710 original size:89 final size:88
Alignment explanation
Indices: 490523--490709 Score: 213
Period size: 89 Copynumber: 2.1 Consensus size: 88
490513 GTTTATAACC
* * * *
490523 TATAGTATATAATTTATAAACTATAGTTTATATTAATGTACTATATAGTTTATATTATTATTAAT
1 TATAGTATATAATTTATAAACTATAATTTATATTAATGTACTAGATAGTTTATATAACTATTAAT
*
490588 TATCTTAACTATAATTTATATTAA
66 TATCTTAACTATAA-TAATATTAA
* * *
490612 TATAGTATATAGTTTATAAACTATAATTTGTATTAATGTAGTAGATAGTTTATA-AACTA-TAAT
1 TATAGTATATAATTTATAAACTATAATTTATATTAATGTACTAGATAGTTTATATAACTATTAAT
490675 T-TACATTAA-TATTAA-AATATTAA
66 TAT-C-TTAACTA-TAATAATATTAA
*
490698 CTATAGTTTATA
1 -TATAGTATATA
490710 TTAAAATAGT
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
86 8 0.09
87 18 0.21
88 10 0.12
89 49 0.58
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (88 bp):
TATAGTATATAATTTATAAACTATAATTTATATTAATGTACTAGATAGTTTATATAACTATTAAT
TATCTTAACTATAATAATATTAA
Found at i:490734 original size:24 final size:26
Alignment explanation
Indices: 490679--490737 Score: 81
Period size: 24 Copynumber: 2.4 Consensus size: 26
490669 TATAATTTAC
*
490679 ATTAATATTAAAATATTAACTATAGT
1 ATTAATATTAAAATAGTAACTATAGT
490705 -TT-ATATTAAAATAGT-A-TATAGT
1 ATTAATATTAAAATAGTAACTATAGT
490727 ATTAATATTAA
1 ATTAATATTAA
490738 TTATAGTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 3 0.10
24 19 0.63
25 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (26 bp):
ATTAATATTAAAATAGTAACTATAGT
Found at i:490743 original size:40 final size:36
Alignment explanation
Indices: 490690--490778 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 36
490680 TTAATATTAA
* *
490690 AATATTAACTATAGTTTATATTAA-AATAGTATATAGTATT
1 AATATTAATTATAGTCTATA--AACAATA-TAT-TA-TATT
*
490730 AATATTAATTATAGTCTATAAACCATATATTATATT
1 AATATTAATTATAGTCTATAAACAATATATTATATT
490766 AATATTAATTATA
1 AATATTAATTATA
490779 TTAACTATAG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
36 17 0.38
37 2 0.04
38 5 0.11
39 3 0.07
40 18 0.40
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (36 bp):
AATATTAATTATAGTCTATAAACAATATATTATATT
Found at i:490859 original size:31 final size:30
Alignment explanation
Indices: 490754--490872 Score: 96
Period size: 31 Copynumber: 3.7 Consensus size: 30
490744 TCTATAAACC
* *
490754 ATATATTATATTAATATTAATTATATTAACT
1 ATATTTTATATTAATATTAATTTTA-TAACT
* * *
490785 ATAGTTTGTAAACTATACTATATAA-TTTATAAAAT
1 ATA-TTT-TATA-T-TAATAT-TAATTTTAT-AACT
*
490820 ATAGTTTATATTAATATTAATTTTATAGACT
1 ATATTTTATATTAATATTAATTTTATA-ACT
*
490851 ATATTTTATATTAATTTTAATT
1 ATATTTTATATTAATATTAATT
490873 ACAAATTACA
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
30 4 0.06
31 35 0.51
32 3 0.04
33 6 0.09
34 4 0.06
35 14 0.20
36 3 0.04
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (30 bp):
ATATTTTATATTAATATTAATTTTATAACT
Found at i:490930 original size:15 final size:15
Alignment explanation
Indices: 490910--490938 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
490900 ACAAGTTAAT
490910 ATTAATATTAATTAC
1 ATTAATATTAATTAC
490925 ATTAATATTAATTA
1 ATTAATATTAATTA
490939 TAATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAATATTAATTAC
Found at i:491500 original size:18 final size:18
Alignment explanation
Indices: 491463--491589 Score: 74
Period size: 18 Copynumber: 7.4 Consensus size: 18
491453 CATCTTTTGT
491463 AACCTAAA-CC-AACCCTG
1 AACCTAAACCCAAACCC-G
491480 AACCTAAACCCAAACCCG
1 AACCTAAACCCAAACCCG
*
491498 AACCTAAACCCGAACCC-
1 AACCTAAACCCAAACCCG
* * * *
491515 AAACTCGAATCTAAA--C-
1 AACCT-AAACCCAAACCCG
*
491531 --CC-AAACCCAAACTCG
1 AACCTAAACCCAAACCCG
* *
491546 AATCTGAACCCAAACCCG
1 AACCTAAACCCAAACCCG
* * *
491564 AACCCAAATCCAAACCCA
1 AACCTAAACCCAAACCCG
491582 AACCTAAA
1 AACCTAAA
491590 AAAAACCCTA
Statistics
Matches: 82, Mismatches: 19, Indels: 17
0.69 0.16 0.14
Matches are distributed among these distances:
12 6 0.07
14 2 0.02
16 1 0.01
17 13 0.16
18 55 0.67
19 5 0.06
ACGTcount: A:0.45, C:0.40, G:0.06, T:0.09
Consensus pattern (18 bp):
AACCTAAACCCAAACCCG
Found at i:491513 original size:6 final size:6
Alignment explanation
Indices: 491480--491585 Score: 77
Period size: 6 Copynumber: 17.7 Consensus size: 6
491470 ACCAACCCTG
* * * * * * * *
491480 AACCTA AACCCA AACCCG AACCTA AACCCG AACCCA AACTCG AATCTA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * * ** * *
491528 AACCCA AACCCA AACTCG AATCTG AACCCA AACCCG AACCCA AATCCA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
491576 AACCCA AACC
1 AACCCA AACC
491586 TAAAAAAAAC
Statistics
Matches: 73, Mismatches: 27, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
6 73 1.00
ACGTcount: A:0.44, C:0.42, G:0.06, T:0.08
Consensus pattern (6 bp):
AACCCA
Found at i:491513 original size:24 final size:24
Alignment explanation
Indices: 491480--491585 Score: 115
Period size: 24 Copynumber: 4.4 Consensus size: 24
491470 ACCAACCCTG
*
491480 AACCTAAACCCAAACCCGAACCTA
1 AACCCAAACCCAAACCCGAACCTA
* * *
491504 AACCCGAACCCAAACTCGAATCTA
1 AACCCAAACCCAAACCCGAACCTA
* * *
491528 AACCCAAACCCAAACTCGAATCTG
1 AACCCAAACCCAAACCCGAACCTA
* *
491552 AACCCAAACCCGAACCCAAATCC-A
1 AACCCAAACCCAAACCCGAA-CCTA
491576 AACCCAAACC
1 AACCCAAACC
491586 TAAAAAAAAC
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
24 69 0.99
25 1 0.01
ACGTcount: A:0.44, C:0.42, G:0.06, T:0.08
Consensus pattern (24 bp):
AACCCAAACCCAAACCCGAACCTA
Found at i:495098 original size:24 final size:24
Alignment explanation
Indices: 495046--495123 Score: 149
Period size: 24 Copynumber: 3.3 Consensus size: 24
495036 TTTTTTTTTC
495046 TTTACATAAATTAAACTATA-TAA
1 TTTACATAAATTAAACTATATTAA
495069 TTTACATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
495093 TTTACATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
495117 TTTACAT
1 TTTACAT
495124 TTAATCATTG
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 20 0.37
24 34 0.63
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTACATAAATTAAACTATATTAA
Found at i:495118 original size:14 final size:13
Alignment explanation
Indices: 495054--495118 Score: 52
Period size: 12 Copynumber: 5.3 Consensus size: 13
495044 TCTTTACATA
495054 AATTAAACTATAT
1 AATTAAACTATAT
*
495067 AATT-TAC-ATA-
1 AATTAAACTATAT
495077 AATTAAACTATATT
1 AATTAAACTATA-T
*
495091 AATT-TAC-ATA-
1 AATTAAACTATAT
495101 AATTAAACTATATT
1 AATTAAACTATA-T
495115 AATT
1 AATT
495119 TACATTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 15
0.68 0.07 0.25
Matches are distributed among these distances:
10 8 0.20
11 7 0.17
12 11 0.28
13 6 0.15
14 8 0.20
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (13 bp):
AATTAAACTATAT
Found at i:495392 original size:16 final size:16
Alignment explanation
Indices: 495354--495386 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
495344 GGTAATATAT
495354 AAGTCAGGTAAATGTC
1 AAGTCAGGTAAATGTC
495370 AAGTCAGGTAAATGTC
1 AAGTCAGGTAAATGTC
495386 A
1 A
495387 GATCAGATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (16 bp):
AAGTCAGGTAAATGTC
Found at i:496183 original size:90 final size:91
Alignment explanation
Indices: 496029--496210 Score: 330
Period size: 90 Copynumber: 2.0 Consensus size: 91
496019 TTTGAATAAT
**
496029 TTGAATGTAATCAATCACTTGTAGTTAAAAAACAAATGGTATAATTGATGGGGTTATTATTGATT
1 TTGAATGTAATCAATCACTTGTAGTTAAAAAACAAATGGTATAATTGATAAGGTTATTATTGATT
496094 AGCGTGAGTCAAAAGTCCACATCAAC
66 AGCGTGAGTCAAAAGTCCACATCAAC
*
496120 TTGAATGTAATCAATCACTTGTA-TTTAAAAACAAATGGTATAATTGATAAGGTTATTATTGATT
1 TTGAATGTAATCAATCACTTGTAGTTAAAAAACAAATGGTATAATTGATAAGGTTATTATTGATT
496184 AGCGTGAGTCAAAAGTCCACATCAAC
66 AGCGTGAGTCAAAAGTCCACATCAAC
496210 T
1 T
496211 ACACCATTTG
Statistics
Matches: 88, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
90 65 0.74
91 23 0.26
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (91 bp):
TTGAATGTAATCAATCACTTGTAGTTAAAAAACAAATGGTATAATTGATAAGGTTATTATTGATT
AGCGTGAGTCAAAAGTCCACATCAAC
Found at i:501265 original size:23 final size:22
Alignment explanation
Indices: 501231--501273 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
501221 CGAAATATCA
501231 TTCATGATACAT-ATCATATATG
1 TTCATGATACATCAT-ATATATG
501253 TTCATGATAACATCATATATA
1 TTCATGAT-ACATCATATATA
501274 ACAATCAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 9 0.47
24 2 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (22 bp):
TTCATGATACATCATATATATG
Found at i:501272 original size:21 final size:22
Alignment explanation
Indices: 501231--501272 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
501221 CGAAATATCA
*
501231 TTCATGATACATATCATATATG
1 TTCATGATACACATCATATATG
501253 TTCATGATA-ACATCATATAT
1 TTCATGATACACATCATATAT
501273 AACAATCAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (22 bp):
TTCATGATACACATCATATATG
Found at i:502610 original size:30 final size:31
Alignment explanation
Indices: 502541--502608 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
502531 CAATAGTACA
* *
502541 CAACTTTTCTAAAATTATAGATTTGGTCCCT
1 CAACTTTTCAAAAATTATAGATATGGTCCCT
*
502572 AAACTTTTCAAAAATTATAGA-ATGGTCCC-
1 CAACTTTTCAAAAATTATAGATATGGTCCCT
502601 CAACTTTT
1 CAACTTTT
502609 TCTAAGGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 7 0.21
30 7 0.21
31 19 0.58
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (31 bp):
CAACTTTTCAAAAATTATAGATATGGTCCCT
Found at i:505706 original size:21 final size:20
Alignment explanation
Indices: 505688--505727 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
505678 CGAAATATCA
*
505688 TTCATGATACATATCATATATG
1 TTCATGATA-ACATCATATA-G
505710 TTCATGATAACATCATAT
1 TTCATGATAACATCATAT
505728 GTAACAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (20 bp):
TTCATGATAACATCATATAG
Found at i:511718 original size:5 final size:5
Alignment explanation
Indices: 511708--511778 Score: 52
Period size: 5 Copynumber: 13.6 Consensus size: 5
511698 TGTTCGAAGA
* **
511708 AAAAT AAAAT AAAATT AAGCAT ATGAT AAAAT AAAAT GAAAAT AAAAT
1 AAAAT AAAAT AAAA-T AA-AAT AAAAT AAAAT AAAAT -AAAAT AAAAT
* * * *
511756 AGAAT AAACT TAAAT GAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAA
511779 GTGTGCTAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
5 40 0.78
6 10 0.20
7 1 0.02
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:524235 original size:33 final size:33
Alignment explanation
Indices: 524193--524258 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
524183 ACATAAAGAA
524193 AGTTACAATAGAAATACAACACACCAAAACACC
1 AGTTACAATAGAAATACAACACACCAAAACACC
524226 AGTTACAATAGAAATACAACACACCAAAACACC
1 AGTTACAATAGAAATACAACACACCAAAACACC
524259 CTTTACGGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.55, C:0.27, G:0.06, T:0.12
Consensus pattern (33 bp):
AGTTACAATAGAAATACAACACACCAAAACACC
Found at i:530552 original size:15 final size:15
Alignment explanation
Indices: 530532--530561 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
530522 TAAGGAAAGT
530532 GAGGTAATGACATTC
1 GAGGTAATGACATTC
530547 GAGGTAATGACATTC
1 GAGGTAATGACATTC
530562 CCAGTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (15 bp):
GAGGTAATGACATTC
Found at i:533652 original size:14 final size:14
Alignment explanation
Indices: 533633--533677 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
533623 TTGTAAGTAT
533633 TATTAAAAATAAAA
1 TATTAAAAATAAAA
533647 TATTAAAAATAAAA
1 TATTAAAAATAAAA
*
533661 TATTAAAAATAATA
1 TATTAAAAATAAAA
533675 TAT
1 TAT
533678 CAAACATACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TATTAAAAATAAAA
Found at i:535582 original size:16 final size:17
Alignment explanation
Indices: 535561--535592 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
535551 AGGATAGTCT
535561 AGGCAACT-GATTGCCA
1 AGGCAACTCGATTGCCA
535577 AGGCAACTCGATTGCC
1 AGGCAACTCGATTGCC
535593 TTAACAACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (17 bp):
AGGCAACTCGATTGCCA
Found at i:537170 original size:18 final size:17
Alignment explanation
Indices: 537147--537212 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
537137 TTCAGAAAGG
*
537147 AAAAATAATAAAATATAA
1 AAAAATAATAAAACA-AA
* *
537165 AAAAATATTAAAAGAGAA
1 AAAAATAATAAAACA-AA
537183 AATAAA-AATAAAACAAA
1 AA-AAATAATAAAACAAA
537200 ACAAAATAA-AAAA
1 A-AAAATAATAAAA
537213 GAAGTAGGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
17 10 0.25
18 27 0.68
19 3 0.08
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAATAATAAAACAAA
Found at i:537236 original size:35 final size:35
Alignment explanation
Indices: 537187--537253 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
537177 AGAGAAAATA
537187 AAAATAAAACAAAACAAAAT-AAAAAAGAAGTAGG
1 AAAATAAAACAAAACAAAATAAAAAAAGAAGTAGG
*
537221 AAAATAAAGATAAAACAAAATAAAAAAAGAAGT
1 AAAATAAA-ACAAAACAAAATAAAAAAAGAAGT
537254 GTTAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 8 0.27
35 11 0.37
36 11 0.37
ACGTcount: A:0.75, C:0.04, G:0.10, T:0.10
Consensus pattern (35 bp):
AAAATAAAACAAAACAAAATAAAAAAAGAAGTAGG
Found at i:537314 original size:12 final size:12
Alignment explanation
Indices: 537286--537337 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
537276 AGTAAAGAAA
537286 AAAAT-AAAGGT
1 AAAATAAAAGGT
537297 AAAATAAAAGGT
1 AAAATAAAAGGT
*
537309 ATAATAAAA--T
1 AAAATAAAAGGT
**
537319 AAAATAAAAAAT
1 AAAATAAAAGGT
537331 AAAATAA
1 AAAATAA
537338 TAAAATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
10 9 0.25
11 5 0.14
12 22 0.61
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (12 bp):
AAAATAAAAGGT
Found at i:537339 original size:8 final size:8
Alignment explanation
Indices: 537309--537354 Score: 60
Period size: 7 Copynumber: 5.8 Consensus size: 8
537299 AATAAAAGGT
537309 ATAATAAA
1 ATAATAAA
537317 ATAAAATAAA
1 AT--AATAAA
537327 A-AATAAA
1 ATAATAAA
537334 ATAATAAA
1 ATAATAAA
537342 ATAAT-AA
1 ATAATAAA
537349 ATAATA
1 ATAATA
537355 GTAGTAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 14 0.41
8 13 0.38
10 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATAATAAA
Found at i:537339 original size:20 final size:21
Alignment explanation
Indices: 537309--537372 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 21
537299 AATAAAAGGT
537309 ATAATAA-AATAAAATAAAAA
1 ATAATAATAATAAAATAAAAA
*
537329 ATAA-AATAATAAAATAATAA
1 ATAATAATAATAAAATAAAAA
* *
537349 ATAATAGTAGTAAAGATAAAAA
1 ATAATAATAATAAA-ATAAAAA
537371 AT
1 AT
537373 GATTTTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.05
20 20 0.54
21 7 0.19
22 8 0.22
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
ATAATAATAATAAAATAAAAA
Found at i:537415 original size:18 final size:18
Alignment explanation
Indices: 537394--537436 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
537384 GTTGTTTTTA
*
537394 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
537412 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
537430 AAATAAA
1 AAATAAA
537437 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:538020 original size:5 final size:5
Alignment explanation
Indices: 538012--538061 Score: 55
Period size: 5 Copynumber: 9.2 Consensus size: 5
538002 CTAAAATACC
*
538012 TAAAA TAAAGA TAAAA TAAAAA TAAAA TAAAA TAATATT TAAAA TAAAA
1 TAAAA TAAA-A TAAAA T-AAAA TAAAA TAAAA TAA-A-A TAAAA TAAAA
538061 T
1 T
538062 CCTAATTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 24 0.62
6 12 0.31
7 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (5 bp):
TAAAA
Found at i:538028 original size:11 final size:10
Alignment explanation
Indices: 538012--538061 Score: 55
Period size: 11 Copynumber: 4.6 Consensus size: 10
538002 CTAAAATACC
538012 TAAAATAAAGA
1 TAAAATAAA-A
538023 TAAAATAAAAA
1 TAAAAT-AAAA
538034 TAAAATAAAA
1 TAAAATAAAA
*
538044 TAATATTTAAAA
1 TAA-A-ATAAAA
538056 TAAAAT
1 TAAAAT
538062 CCTAATTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
10 8 0.24
11 15 0.44
12 11 0.32
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:538040 original size:22 final size:22
Alignment explanation
Indices: 538012--538061 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
538002 CTAAAATACC
538012 TAAAATAAAGATAA-AATAAAAA
1 TAAAATAAA-ATAATAATAAAAA
* *
538034 TAAAATAAAATAATATTTAAAA
1 TAAAATAAAATAATAATAAAAA
538056 TAAAAT
1 TAAAAT
538062 CCTAATTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (22 bp):
TAAAATAAAATAATAATAAAAA
Found at i:538054 original size:17 final size:17
Alignment explanation
Indices: 538034--538098 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
538024 AAAATAAAAA
538034 TAAAATAAAATAATATT
1 TAAAATAAAATAATATT
** *
538051 TAAAATAAAATCCTAAT
1 TAAAATAAAATAATATT
* *
538068 TGAAATACTAATATATATT
1 TAAAATA-AAATA-ATATT
*
538087 TAAACTAAAATA
1 TAAAATAAAATA
538099 CAAAGATAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 3
0.71 0.22 0.06
Matches are distributed among these distances:
17 20 0.57
18 7 0.20
19 8 0.23
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (17 bp):
TAAAATAAAATAATATT
Found at i:538834 original size:199 final size:199
Alignment explanation
Indices: 538368--539108 Score: 930
Period size: 200 Copynumber: 3.7 Consensus size: 199
538358 TCTTCTTGGT
* * * * * **
538368 TTAAAGACCTCGGTTTGAAAATTCAAC-CGAAAATAGTTCCTCGATGCTACCATATGGTTGATAT
1 TTAAAGACCTCAGTTT-AAACTTCAACAGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATAT
* * * * * *
538432 GCCCTCAAGCTGAATAGAATCGAACTCGAAGGTTTTTGTTGACAAATATCCCTTCTCGTCTTGAG
65 GCCTTCGAGCTGAATAGAATCGAACTCGAAAG-TTTTGTTGACAGATAGCCCTTCTCGCCTTGAG
* * * * *
538497 CTATGCTGTAAATTCGACTGAGAGATAGTTCATTATTGCTAAATCGCAGCCAACCTAGGTCTTCT
129 CTATACTGTAAATTCGACTG-GAGATAGTTCATTGTTGCTAAATCGTAGCTAACCTAGGTATTCT
538562 TATTGAC
193 TATTGAC
* * **
538569 TTAAAGACCTCAGTTTAAACTTTAACCA-GAAAGTAGTTCGTTATTGCTACCATGCGGTTGATAT
1 TTAAAGACCTCAGTTTAAACTTCAA-CAGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATAT
* * * *
538633 GCCTTCGAGCTGAATATAATCGAACTCGAAAGTTTTGTTGATAGATAGCCCTTATCGCCTTGAGT
65 GCCTTCGAGCTGAATAGAATCGAACTCGAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGC
* * * *
538698 TATACTATAAATTCGGCTAGGAGATAGTTCCTTGTTGCTAAATCGTAACTAACCTAGGT-TTCTT
130 TATACTGTAAATTCGACT-GGAGATAGTTCATTGTTGCTAAATCGTAGCTAACCTAGGTATTCTT
* *
538762 CTTAAC
194 ATTGAC
* * *
538768 TTAAAGACCTCAGTTTAAACTTCAACAGGAAAGTAGTTCCTTGTTGCTATCATGCGGTTTATATG
1 TTAAAGACCTCAGTTTAAACTTCAACAGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATG
* * * * *
538833 CCTTCGACCTGAATGGAATCGAGCTCGAAAATTTTGTTGACAGATAGCTCTTCTCGCCTTGAGCT
66 CCTTCGAGCTGAATAGAATCGAACTCGAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCT
* * *
538898 ATACTGTAAATTCGATTGGGAGATAGTTCATTGTTGCTAAATCATAGCTAACCTAGGTATTCTTT
131 ATACTGTAAATTCGACT-GGAGATAGTTCATTGTTGCTAAATCGTAGCTAACCTAGGTATTCTTA
538963 TTGAC
195 TTGAC
* * * *
538968 TTAAATACCTCAGTTTAAACTTCAACTGGAAAGTAGTTCCTCGTTGCTACTACGCGGTTGATATG
1 TTAAAGACCTCAGTTTAAACTTCAACAGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATG
* * * *
539033 CCTTCGAGCTGAATGGAATCAAACTCAAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTTAGCT
66 CCTTCGAGCTGAATAGAATCGAACTCGAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCT
**
539098 ATGTTGTAAAT
131 ATACTGTAAAT
539109 GGTTCCTCCA
Statistics
Matches: 466, Mismatches: 69, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
198 2 0.00
199 173 0.37
200 217 0.47
201 74 0.16
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (199 bp):
TTAAAGACCTCAGTTTAAACTTCAACAGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATG
CCTTCGAGCTGAATAGAATCGAACTCGAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCT
ATACTGTAAATTCGACTGGAGATAGTTCATTGTTGCTAAATCGTAGCTAACCTAGGTATTCTTAT
TGAC
Found at i:539393 original size:86 final size:86
Alignment explanation
Indices: 539172--539536 Score: 516
Period size: 86 Copynumber: 4.3 Consensus size: 86
539162 CTTTAGTTGT
* * * * * *
539172 CTCCCCTTTACGGGAGAGTCAAGTGGTATATTCTTCAGGTGCTTCCCCTTTGTGGGTCTGAACCA
1 CTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGTAGGTCTGAACCA
539237 GGTGAGATGATCTTTGGATGA
66 GGTGAGATGATCTTTGGATGA
539258 CT-CCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGTAGGTCTGAACCA
1 CTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGTAGGTCTGAACCA
* *
539322 GATGAGATGATCTTTGGATGT
66 GGTGAGATGATCTTTGGATGA
* *
539343 CTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCTCCTTCGCAGGTCTGAACCA
1 CTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGTAGGTCTGAACCA
539408 GGTGAGATGATCTTTGGATGA
66 GGTGAGATGATCTTTGGATGA
* * * * * * * * * *
539429 CTCCTCTTCACGGGAAAGTCATGTGATGTATTCTTTAGGCGGTTCTCTTTCATGGGTCTGAATCA
1 CTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGTAGGTCTGAACCA
* *
539494 GGTGAGATTATCTTTGGAGGA
66 GGTGAGATGATCTTTGGATGA
*
539515 CTCCCTTTCACGGGAAAGTCAT
1 CTCCCCTTCACGGGAAAGTCAT
539537 ATGAGATGTT
Statistics
Matches: 252, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
85 77 0.31
86 175 0.69
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (86 bp):
CTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGTAGGTCTGAACCA
GGTGAGATGATCTTTGGATGA
Found at i:541735 original size:52 final size:52
Alignment explanation
Indices: 541657--541760 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
541647 TATTTGACTA
*
541657 AATCCTCTAAACCCCGAACAACTTCTAATAGGTTGACAAGTCTTATTCCTTT
1 AATCCTCTAAACCCCGAACAACTTCTAATAGGTTGACAAGTCGTATTCCTTT
541709 AATCCTCTAAACCCCGAACAACTTCTAATAGGTTGACAAGTCGTATTCCTTT
1 AATCCTCTAAACCCCGAACAACTTCTAATAGGTTGACAAGTCGTATTCCTTT
541761 CTCTGTCACT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.32
Consensus pattern (52 bp):
AATCCTCTAAACCCCGAACAACTTCTAATAGGTTGACAAGTCGTATTCCTTT
Found at i:545847 original size:82 final size:82
Alignment explanation
Indices: 545695--545947 Score: 316
Period size: 82 Copynumber: 3.1 Consensus size: 82
545685 CCACTCTTTT
* * * * *
545695 TTCAGGGCAGATCATACTTGATCTGCT-CCT-TTTTT-GGGTAATCAGGTCAATTTTGGAAGATG
1 TTCAGGGGAGATCAAACTTGATCTG-TGCCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGATG
*
545757 TGTATGCTCCACTATTCA
65 TGTCTGCTCCACTATTCA
**
545775 TTCAGGGGAGATCAAACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTTTTAAGATGT
1 TTCAGGGGAGATCAAACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGATGT
*
545840 GTCTGCTCCATTATTCA
66 GTCTGCTCCACTATTCA
** * * **
545857 TTCAAAGGAGATCAGACTTGA-CATGTGTCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGACA
1 TTCAGGGGAGATCAAACTTGATC-TGTGCCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGATG
*
545921 TTTCTGCTCCACTATTCA
65 TGTCTGCTCCACTATTCA
545939 TTCAGGGGA
1 TTCAGGGGA
545948 TTTTTCATGT
Statistics
Matches: 149, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 26 0.17
81 6 0.04
82 116 0.78
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37
Consensus pattern (82 bp):
TTCAGGGGAGATCAAACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGATGT
GTCTGCTCCACTATTCA
Found at i:546069 original size:142 final size:142
Alignment explanation
Indices: 545814--546089 Score: 390
Period size: 142 Copynumber: 1.9 Consensus size: 142
545804 TCTTTTTCGG
* ** * * *
545814 GTAGTCAGATCAATTTTTTAAGATGTGTCTGCTCCATTATTCATTCAAAGGAGATCAGACTTGAC
1 GTAGTCAGATAAATTTTGAAAGACGTGTCTGCTCCACTATTCATTCAAAGGAGATCAAACTTGAC
* * * *
545879 ATGTGTCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGACATTTCTGCTCCACTATTCATTCAG
66 ATGTGCCTCTTTTTCGGGTAGTCAAATCAATTTTAGAAGACATGTCTGCTCCACTATTCATTCAA
545944 GGGATTTTTCAT
131 GGGATTTTTCAT
** *
545956 GTAGTCAGATAAATTTTGAAAGACGTGTCTGCTCCACTATTCATTCAGGGGAGATCAAACTTGAT
1 GTAGTCAGATAAATTTTGAAAGACGTGTCTGCTCCACTATTCATTCAAAGGAGATCAAACTTGAC
* * * * *
546021 ATGTGCCTCTTTTTTGGGTAGTCAAATTAATTTTGGAAGACGTGTCTGCTCCACTATTTATTCAA
66 ATGTGCCTCTTTTTCGGGTAGTCAAATCAATTTTAGAAGACATGTCTGCTCCACTATTCATTCAA
546086 GGGA
131 GGGA
546090 GATCAGACTT
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
142 116 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (142 bp):
GTAGTCAGATAAATTTTGAAAGACGTGTCTGCTCCACTATTCATTCAAAGGAGATCAAACTTGAC
ATGTGCCTCTTTTTCGGGTAGTCAAATCAATTTTAGAAGACATGTCTGCTCCACTATTCATTCAA
GGGATTTTTCAT
Found at i:546090 original size:82 final size:82
Alignment explanation
Indices: 545956--546183 Score: 316
Period size: 82 Copynumber: 2.8 Consensus size: 82
545946 GATTTTTCAT
* * * *
545956 GTAGTCAGATAAATTTTGAAAGACGTGTCTGCTCCACTATTCATTCAGGGGAGATCAAACTTGAT
1 GTAGTCAGATAAATTTTGGAAGACGTGTCTGCTCCACTATTAATTCAAGGGAGATCAGACTTGAT
*
546021 ATGTGCCTCTTTTTTGG
66 ATATGCCTCTTTTTTGG
* * *
546038 GTAGTCAAATTAATTTTGGAAGACGTGTCTGCTCCACTATTTATTCAAGGGAGATCAGACTTGAT
1 GTAGTCAGATAAATTTTGGAAGACGTGTCTGCTCCACTATTAATTCAAGGGAGATCAGACTTGAT
*
546103 CTATGCCTCTTTTTTGG
66 ATATGCCTCTTTTTTGG
* * *
546120 GTAGTCAGATCAAA-TTTGGAAGATGTGTCTGCTTCACTATTAATT-AAGGGGATATCAGACTTG
1 GTAGTCAGAT-AAATTTTGGAAGACGTGTCTGCTCCACTATTAATTCAA-GGGAGATCAGACTTG
546183 A
64 A
546184 GAAATCTTTG
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
81 2 0.02
82 126 0.97
83 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (82 bp):
GTAGTCAGATAAATTTTGGAAGACGTGTCTGCTCCACTATTAATTCAAGGGAGATCAGACTTGAT
ATATGCCTCTTTTTTGG
Found at i:546160 original size:224 final size:224
Alignment explanation
Indices: 545743--546172 Score: 628
Period size: 224 Copynumber: 1.9 Consensus size: 224
545733 TAATCAGGTC
* * *
545743 AATTTTGGAAGATGTGTATGCTCCACTATTCATTCAGGGGAGATCAAACTTGATCTGTGCCTCTT
1 AATTTTGAAAGACGTGTATGCTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTT
* ** * *
545808 TTTCGGGTAGTCAGATCAATTTTTTAAGATGTGTCTGCTCCATTATTCATTCAAAGGAGATCAGA
66 TTTCGGGTAGTCAAATCAATTTTGGAAGACGTGTCTGCTCCACTATTCATTCAAAGGAGATCAGA
* * * * *
545873 CTTGACATGTGTCTCTTTTTCGGGTAGTCAGATCAATTTTAGAAGACATTTCTGCTCCACTATTC
131 CTTGACATATGCCTCTTTTTCGGGTAGTCAGATCAAATTTAGAAGACATGTCTGCTCCACTATTA
*
545938 ATTCAGGGGATTTTTCATGTAGTCAGATA
196 ATTAAGGGGATTTTTCATGTAGTCAGATA
*
545967 AATTTTGAAAGACGTGTCTGCTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTT
1 AATTTTGAAAGACGTGTATGCTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTT
* * * *
546032 TTTTGGGTAGTCAAATTAATTTTGGAAGACGTGTCTGCTCCACTATTTATTCAAGGGAGATCAGA
66 TTTCGGGTAGTCAAATCAATTTTGGAAGACGTGTCTGCTCCACTATTCATTCAAAGGAGATCAGA
* * ** *
546097 CTTGATC-TATGCCTCTTTTTTGGGTAGTCAGATCAAATTTGGAAGATGTGTCTGCTTCACTATT
131 CTTGA-CATATGCCTCTTTTTCGGGTAGTCAGATCAAATTTAGAAGACATGTCTGCTCCACTATT
546161 AATTAAGGGGAT
195 AATTAAGGGGAT
546173 ATCAGACTTG
Statistics
Matches: 181, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
224 180 0.99
225 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (224 bp):
AATTTTGAAAGACGTGTATGCTCCACTATTCATTCAGGGGAGATCAAACTTGATATGTGCCTCTT
TTTCGGGTAGTCAAATCAATTTTGGAAGACGTGTCTGCTCCACTATTCATTCAAAGGAGATCAGA
CTTGACATATGCCTCTTTTTCGGGTAGTCAGATCAAATTTAGAAGACATGTCTGCTCCACTATTA
ATTAAGGGGATTTTTCATGTAGTCAGATA
Found at i:561504 original size:19 final size:19
Alignment explanation
Indices: 561480--561532 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
561470 AGAATGCCAT
561480 TAGTGCATCGATGCATAAG
1 TAGTGCATCGATGCATAAG
*
561499 TAGTGCATCGATACATAAG
1 TAGTGCATCGATGCATAAG
561518 TAGTGCATCGATGCA
1 TAGTGCATCGATGCA
561533 CCCCCTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (19 bp):
TAGTGCATCGATGCATAAG
Found at i:567315 original size:21 final size:20
Alignment explanation
Indices: 567279--567322 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
567269 TATTTAAACC
567279 ATACATAAATAATAAATAAA
1 ATACATAAATAATAAATAAA
*
567299 ATACATACATAAATAAATAAA
1 ATACATAAAT-AATAAATAAA
567320 ATA
1 ATA
567323 TTCTTCGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (20 bp):
ATACATAAATAATAAATAAA
Found at i:567372 original size:23 final size:24
Alignment explanation
Indices: 567346--567400 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
567336 ATATTAAAAG
*
567346 TTATAAAAATA-AATTATAAATTA
1 TTATAAAAATATAATTATAAAATA
*
567369 TTAT-AAAATATATTTATAAAATA
1 TTATAAAAATATAATTATAAAATA
*
567392 TTAAAAAAA
1 TTATAAAAA
567401 ATTAAACACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.22
23 17 0.63
24 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TTATAAAAATATAATTATAAAATA
Found at i:580320 original size:35 final size:35
Alignment explanation
Indices: 580279--580353 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
580269 TTCATGTTCA
* *
580279 AAATTCCAAAACACTTCAATTATATTATAATCCCC
1 AAATTCCAAAACACTTCAATTACATTATAAACCCC
* * * *
580314 AAATTCCAAAATACTTTAATTACATTCTAAACCCT
1 AAATTCCAAAACACTTCAATTACATTATAAACCCC
580349 AAATT
1 AAATT
580354 AAAGTATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTATAAACCCC
Found at i:580404 original size:35 final size:35
Alignment explanation
Indices: 580349--580426 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
580339 TCTAAACCCT
* * *
580349 AAATTAAAGTATTTTAGAATTTAGGATTTAAAATG
1 AAATTGAATTATTTTAGAATTTAGGATTTAAAATA
* * * *
580384 TAATTGAATTATTTTGGAATTTGGGGTTTAAAATA
1 AAATTGAATTATTTTAGAATTTAGGATTTAAAATA
580419 AAATTGAA
1 AAATTGAA
580427 GATTGTTGCA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.41
Consensus pattern (35 bp):
AAATTGAATTATTTTAGAATTTAGGATTTAAAATA
Found at i:581162 original size:21 final size:22
Alignment explanation
Indices: 581113--581163 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
581103 GATAAATTGG
* *
581113 TATTTATAATTTTTTTTAATTTT
1 TATTTA-AATTTTTTATAATTAT
*
581136 TTTTTAAATTTTTTAT-ATTAT
1 TATTTAAATTTTTTATAATTAT
581157 TATTTAA
1 TATTTAA
581164 TTAATTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 10 0.42
22 9 0.38
23 5 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTTAAATTTTTTATAATTAT
Found at i:581996 original size:19 final size:19
Alignment explanation
Indices: 581965--582005 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
581955 AAATAATAAT
*
581965 AATATAAATAATATTTTAA
1 AATATAAATAATAATTTAA
581984 AATATTAAA-AATAATTTAA
1 AATA-TAAATAATAATTTAA
582003 AAT
1 AAT
582006 GCCACTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AATATAAATAATAATTTAA
Found at i:582971 original size:42 final size:40
Alignment explanation
Indices: 582922--583070 Score: 122
Period size: 41 Copynumber: 3.6 Consensus size: 40
582912 CCACAAACGA
* *
582922 TACTTTAGTGGCGTTTCTTAAACAAACGCCGCGATAGTATAG
1 TACTTTAGCGGCGTTT-TTATACAAACGCCGCGATAG-ATAG
* * * * * *
582964 TACTTTAGCAGCGCTTTTATATAAATGCCGCAATAGGGATCG
1 TACTTTAGCGGCGTTTTTATACAAACGCCGCGATA--GATAG
* ** *
583006 T--TTATAGTGGCGTTTTTCCACAAACGCCGTGATAGATTAG
1 TACTT-TAGCGGCGTTTTTATACAAACGCCGCGATAGA-TAG
583046 TACTTTAGCGGCGTTTTTATACAAA
1 TACTTTAGCGGCGTTTTTATACAAA
583071 TGCCACAAAA
Statistics
Matches: 80, Mismatches: 21, Indels: 13
0.70 0.18 0.11
Matches are distributed among these distances:
39 2 0.03
40 5 0.06
41 53 0.66
42 19 0.24
43 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (40 bp):
TACTTTAGCGGCGTTTTTATACAAACGCCGCGATAGATAG
Found at i:583040 original size:82 final size:82
Alignment explanation
Indices: 582927--583121 Score: 241
Period size: 82 Copynumber: 2.4 Consensus size: 82
582917 AACGATACTT
** *
582927 TAGTGGCGTTTCTTAAACAAACGCCGCGATAG-TATAGTACTTTAGCAGCGCTTTTATATAAATG
1 TAGTGGCGTTT-TTCCACAAACGCCGCGATAGAT-TAGTACTTTAGCAGCGCTTTTATACAAATG
* * *
582991 CCGCAATAGGGATCGTTTA
64 CCACAAAAGGGATCGTTCA
* * *
583010 TAGTGGCGTTTTTCCACAAACGCCGTGATAGATTAGTACTTTAGCGGCGTTTTTATACAAATGCC
1 TAGTGGCGTTTTTCCACAAACGCCGCGATAGATTAGTACTTTAGCAGCGCTTTTATACAAATGCC
*
583075 ACAAAAGGGTTCGTTCA
66 ACAAAAGGGATCGTTCA
* *
583092 TAGTGGCG-TTTTCCAACAAATGTCGCGATA
1 TAGTGGCGTTTTTCC-ACAAACGCCGCGATA
583122 AAGAGTACTT
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
81 6 0.06
82 79 0.81
83 12 0.12
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (82 bp):
TAGTGGCGTTTTTCCACAAACGCCGCGATAGATTAGTACTTTAGCAGCGCTTTTATACAAATGCC
ACAAAAGGGATCGTTCA
Found at i:584502 original size:10 final size:10
Alignment explanation
Indices: 584487--584545 Score: 53
Period size: 10 Copynumber: 6.7 Consensus size: 10
584477 CATTTAATAA
584487 ATAAACGAAC
1 ATAAACGAAC
584497 ATAAACGAAC
1 ATAAACGAAC
584507 ----ACGAAC
1 ATAAACGAAC
584513 ATAAACGAAC
1 ATAAACGAAC
*
584523 ----ACAAAC
1 ATAAACGAAC
584529 ATAAACGAAC
1 ATAAACGAAC
584539 ATAAACG
1 ATAAACG
584546 TTGGAGACCC
Statistics
Matches: 39, Mismatches: 2, Indels: 16
0.68 0.04 0.28
Matches are distributed among these distances:
6 11 0.28
10 28 0.72
ACGTcount: A:0.59, C:0.22, G:0.10, T:0.08
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:584512 original size:16 final size:16
Alignment explanation
Indices: 584491--584539 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
584481 TAATAAATAA
584491 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
584507 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
584523 ACAAACATAAACGAAC
1 ACGAACATAAACGAAC
584539 A
1 A
584540 TAAACGTTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.59, C:0.24, G:0.10, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:584523 original size:26 final size:26
Alignment explanation
Indices: 584487--584545 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
584477 CATTTAATAA
* *
584487 ATAAACGAACATAAACGA-ACACGAAC
1 ATAAACGAACACAAAC-ATAAACGAAC
584513 ATAAACGAACACAAACATAAACGAAC
1 ATAAACGAACACAAACATAAACGAAC
584539 ATAAACG
1 ATAAACG
584546 TTGGAGACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 1 0.03
26 29 0.97
ACGTcount: A:0.59, C:0.22, G:0.10, T:0.08
Consensus pattern (26 bp):
ATAAACGAACACAAACATAAACGAAC
Found at i:585276 original size:10 final size:10
Alignment explanation
Indices: 585261--585293 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
585251 AAATGAATGA
585261 AACATAAACG
1 AACATAAACG
585271 AACATAAACG
1 AACATAAACG
*
585281 AACATAACCG
1 AACATAAACG
585291 AAC
1 AAC
585294 GTTCACGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.58, C:0.24, G:0.09, T:0.09
Consensus pattern (10 bp):
AACATAAACG
Found at i:588315 original size:19 final size:19
Alignment explanation
Indices: 588293--588348 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
588283 TTCTATAATA
588293 TTAAAAATATAATTATGTT
1 TTAAAAATATAATTATGTT
* *
588312 TTAAAAAT-T-ATCTATAATA
1 TTAAAAATATAAT-TAT-GTT
588331 TT-AAAATATAATTATGTT
1 TTAAAAATATAATTATGTT
588349 CTACCTCCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 9
0.69 0.10 0.21
Matches are distributed among these distances:
17 2 0.07
18 10 0.34
19 15 0.52
20 2 0.07
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (19 bp):
TTAAAAATATAATTATGTT
Found at i:588346 original size:37 final size:38
Alignment explanation
Indices: 588274--588348 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
588264 TATTTTTTAC
* *
588274 TTAAAATTTTTCTATAATATTAAAAATATAATTATGTT
1 TTAAAAATTATCTATAATATTAAAAATATAATTATGTT
588312 TTAAAAATTATCTATAATATT-AAAATATAATTATGTT
1 TTAAAAATTATCTATAATATTAAAAATATAATTATGTT
588349 CTACCTCCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 16 0.46
38 19 0.54
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (38 bp):
TTAAAAATTATCTATAATATTAAAAATATAATTATGTT
Found at i:589447 original size:110 final size:112
Alignment explanation
Indices: 589259--589469 Score: 354
Period size: 110 Copynumber: 1.9 Consensus size: 112
589249 GCTTACACGG
* *
589259 TTGATGAAAACACATAAATTGAAATGGTAAGGAGAGAGAGAGAGTTGTTTGATTTTCTTTAAAAG
1 TTGATAAAAACACAGAAATTGAAATGGTAAGGAGAGAGAGAGAGTTGTTTGATTTTCTTTAAAAG
589324 CTCTCATAAAAAGATAACCAAATAAGAAACAAATTTAGCTTACAAAA
66 CTCTCATAAAAAGATAACCAAATAAGAAACAAATTTAGCTTACAAAA
*
589371 TTGATAAAAACACAGAAATTGAAATGGT-AGG-TAGAGAGAGAGTTGTTTGATTTTCTTTAAAAG
1 TTGATAAAAACACAGAAATTGAAATGGTAAGGAGAGAGAGAGAGTTGTTTGATTTTCTTTAAAAG
* * *
589434 CTCTCATAAAAAGATGACCAAATAAGGAATAAATTT
66 CTCTCATAAAAAGATAACCAAATAAGAAACAAATTT
589470 GATGAAATAT
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
110 64 0.69
111 3 0.03
112 26 0.28
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.28
Consensus pattern (112 bp):
TTGATAAAAACACAGAAATTGAAATGGTAAGGAGAGAGAGAGAGTTGTTTGATTTTCTTTAAAAG
CTCTCATAAAAAGATAACCAAATAAGAAACAAATTTAGCTTACAAAA
Found at i:591063 original size:57 final size:57
Alignment explanation
Indices: 590768--591043 Score: 435
Period size: 57 Copynumber: 4.8 Consensus size: 57
590758 ATGGCACTGA
* *
590768 GTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTTCGAATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTTT
*
590825 GTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTTC
1 GTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTTT
* * * * *
590882 GGGTGCAAAAAGTTAAGAAACTCATAATTTGTTTATGAATTTTCATATGGTCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTTT
* * * *
590939 GTGTGTAAAAAGTTAAGAAATTCATAATTTGTTTATTAATTTCCATATGGGTACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTTT
*
590996 GGGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTAT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTAT
591044 AAAAACTTTA
Statistics
Matches: 199, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 199 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (57 bp):
GTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTTT
Found at i:591443 original size:68 final size:68
Alignment explanation
Indices: 591250--591925 Score: 1000
Period size: 68 Copynumber: 10.0 Consensus size: 68
591240 AGATTCATGA
*
591250 CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTT
1 CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
591315 AGG
66 AGG
* * *
591318 CCTAGTCGTGCATTTGACAGAAAGGT-CCAATTATGCCAGTTAGATGAAAGGCTAAGTGCATTTG
1 CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
*
591382 AGT
66 AGG
*
591385 CCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
591450 AGG
66 AGG
* * * * **
591453 CCTAGCTATGTATTTGACAGAAATGTGTCAATTATGATAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
591518 AGG
66 AGG
* * * * * *
591521 CATAGCTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTTCCTTTG
1 CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
591586 AGG
66 AGG
** * *
591589 CCTAACTGTGCATTTGACAGAAAGGTTTCAATTATGCAAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
591654 AGG
66 AGG
* *
591657 CATAGTTGTGCATTTGACAGAAAGGTGTCAATTATG-CAGTTAGATGAAAGGCTAAATGCCTTTG
1 CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
591721 AGG
66 AGG
* * *
591724 CATA-TCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAAGCTAAGTGCCTTT
1 CCTAGT-TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
591788 GAGG
65 GAGG
* * *
591792 TCTAGTTGTGCATTTGAAAGAAAAGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
591856 AGG
66 AGG
* * * * *
591859 CATAGTTGTGCATTTGACAGAAGGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTG
1 CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
591924 AG
66 AG
591926 TAAAAGATTA
Statistics
Matches: 550, Mismatches: 53, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
66 1 0.00
67 184 0.33
68 364 0.66
69 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (68 bp):
CCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
AGG
Found at i:591768 original size:135 final size:136
Alignment explanation
Indices: 591252--591925 Score: 1000
Period size: 135 Copynumber: 5.0 Consensus size: 136
591242 ATTCATGACC
*
591252 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTTAG
1 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAG
* *
591317 GCCTAGTC-GTGCATTTGACAGAAAGGT-CCAATTATGCCAGTTAGATGAAAGGCTAAGTGCATT
66 GCCTA-TCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* *
591380 TGAGTCC
130 TGAGGCA
*
591387 TAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAG
1 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAG
* * * * **
591452 GCCTAGCTATGTATTTGACAGAAATGTGTCAATTATGATAGTTAGATGAAAGGCTAAGTGCCTTT
66 GCCTATCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
591517 GAGGCA
131 GAGGCA
* * * * *
591523 TAGCTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTTCCTTTGAG
1 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAG
* * *
591588 GCCTAACTGTGCATTTGACAGAAAGGTTTCAATTATGCAAGTTAGATGAAAGGCTAAGTGCCTTT
66 GCCTATCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
591653 GAGGCA
131 GAGGCA
*
591659 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATG-CAGTTAGATGAAAGGCTAAATGCCTTTGAG
1 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAG
* * *
591723 GCATATCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAAGCTAAGTGCCTTT
66 GCCTATCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
591788 GAGGTC-
131 GAGG-CA
* *
591794 TAGTTGTGCATTTGAAAGAAAAGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCCTTTGAG
1 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAG
* * * * *
591858 GCATAGT-TGTGCATTTGACAGAAGGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTT
66 GCCTA-TCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
591922 TGAG
130 TGAG
591926 TAAAAGATTA
Statistics
Matches: 491, Mismatches: 44, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
134 1 0.00
135 295 0.60
136 195 0.40
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (136 bp):
TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAG
GCCTATCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAGGCA
Found at i:591804 original size:203 final size:203
Alignment explanation
Indices: 591252--591925 Score: 1007
Period size: 203 Copynumber: 3.3 Consensus size: 203
591242 ATTCATGACC
* *
591252 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTTAG
1 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAG
* * * *
591317 GCCTAGTC-GTGCATTTGACAGAAAGGT-CCAATTATGCCAGTTAGATGAAAGGCTAAGTGCATT
66 GCATA-TCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAAGCTAAGTGCCTT
*
591380 TGA-GTCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG
130 TGAGGT-CTAGTTGTGCATTTGACAGAAAAGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTG
*
591444 CCTTTGAGGCC
193 CCTTTGAGGCA
* * * * ** *
591455 TAGCTATGTATTTGACAGAAATGTGTCAATTATGATAGTTAGATGAAAGGCTAAGTGCCTTTGAG
1 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAG
* * * *
591520 GCATAGCTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATG-AAAGACTAAGTTCCTT
66 GCATATCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAAG-CTAAGTGCCTT
* ** * *
591584 TGAGGCCTAACTGTGCATTTGACAGAAAGGTTTCAATTATGCAAGTTAGATGAAAGGCTAAGTGC
130 TGAGGTCTAGTTGTGCATTTGACAGAAAAGTGTCAATTATGC-AGTTAGATGAAAGGCTAAGTGC
591649 CTTTGAGGCA
194 CTTTGAGGCA
591659 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATG-CAGTTAGATGAAAGGCTAAATGCCTTTGAG
1 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAG
*
591723 GCATATCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAAGCTAAGTGCCTTT
66 GCATATCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAAGCTAAGTGCCTTT
*
591788 GAGGTCTAGTTGTGCATTTGAAAGAAAAGTGTCAATTATGCAGTTAGATGAAAGGCTAAGTGCCT
131 GAGGTCTAGTTGTGCATTTGACAGAAAAGTGTCAATTATGCAGTTAGATGAAAGGCTAAGTGCCT
591853 TTGAGGCA
196 TTGAGGCA
* * *
591861 TAGTTGTGCATTTGACAGAAGGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAG
1 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAG
591926 TAAAAGATTA
Statistics
Matches: 423, Mismatches: 41, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
202 66 0.16
203 229 0.54
204 127 0.30
205 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (203 bp):
TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAG
GCATATCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAAGCTAAGTGCCTTT
GAGGTCTAGTTGTGCATTTGACAGAAAAGTGTCAATTATGCAGTTAGATGAAAGGCTAAGTGCCT
TTGAGGCA
Found at i:592004 original size:81 final size:81
Alignment explanation
Indices: 591865--592013 Score: 226
Period size: 81 Copynumber: 1.8 Consensus size: 81
591855 GAGGCATAGT
* * * * * *
591865 TGTGCATTTGACAGAAGGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGAAAAAAAGATGTCAATCATGCCAGTTAAATGAAAGGTTAAATACCTTTGAGTAAA
591930 AGATTAATAGCCTAGC
66 AGATTAATAGCCTAGC
* *
591946 TGTGCATTTGAAAAAAAGATGTCAATCATGCCAGTTAAATGAATGGTTAAATATCTTTGAGTAAA
1 TGTGCATTTGAAAAAAAGATGTCAATCATGCCAGTTAAATGAAAGGTTAAATACCTTTGAGTAAA
592011 AGA
66 AGA
592014 CTAGATATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (81 bp):
TGTGCATTTGAAAAAAAGATGTCAATCATGCCAGTTAAATGAAAGGTTAAATACCTTTGAGTAAA
AGATTAATAGCCTAGC
Found at i:592033 original size:81 final size:81
Alignment explanation
Indices: 591884--592033 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 81
591874 GACAGAAGGG
* * * * * **
591884 TGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTGT
1 TGTCAATCATGCCAGTTAAATGAAAGGTTAAATACCTTTGAGTAAAAGACTAATAGCATAACAAT
591949 GCATTTGAAAAAAAGA
66 GCATTTGAAAAAAAGA
* * *
591965 TGTCAATCATGCCAGTTAAATGAATGGTTAAATATCTTTGAGTAAAAGACTAGATA-TATAACAA
1 TGTCAATCATGCCAGTTAAATGAAAGGTTAAATACCTTTGAGTAAAAGACTA-ATAGCATAACAA
592029 TGCAT
65 TGCAT
592034 AACGTTGTAC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 55 0.95
82 3 0.05
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (81 bp):
TGTCAATCATGCCAGTTAAATGAAAGGTTAAATACCTTTGAGTAAAAGACTAATAGCATAACAAT
GCATTTGAAAAAAAGA
Found at i:592159 original size:45 final size:46
Alignment explanation
Indices: 592045--592167 Score: 212
Period size: 47 Copynumber: 2.7 Consensus size: 46
592035 ACGTTGTACC
*
592045 AAAGGCATGAAAGGATGCCATAAATGAAATATATAATAGCGTATAA
1 AAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAA
592091 AAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTAT-A
1 AAA-GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAA
*
592137 AAAGGCATGAAATGATGCCATAAATGAAATG
1 AAAGGCATGAAAGGATGCCATAAATGAAATG
592168 CATATGGGTT
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
45 27 0.36
46 7 0.09
47 40 0.54
ACGTcount: A:0.48, C:0.09, G:0.22, T:0.21
Consensus pattern (46 bp):
AAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAA
Found at i:592204 original size:45 final size:45
Alignment explanation
Indices: 592150--592262 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 45
592140 GGCATGAAAT
*
592150 GATGCCATAAATGAAATGCATATGGGTTCATTATTGGCACAAAAG
1 GATGCCATAAATGAAATGCATATGGGTGCATTATTGGCACAAAAG
* * *
592195 GATGTCATAATTGAAATGCATATGGGTGCATTATTGGCATAAAAG
1 GATGCCATAAATGAAATGCATATGGGTGCATTATTGGCACAAAAG
*
592240 AATGCCATAAATGAAAATGCATA
1 GATGCCATAAATG-AAATGCATA
592263 ATAGCGCATT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
45 51 0.85
46 9 0.15
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (45 bp):
GATGCCATAAATGAAATGCATATGGGTGCATTATTGGCACAAAAG
Found at i:595400 original size:24 final size:24
Alignment explanation
Indices: 595354--595400 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
595344 ATTTCTACAC
*
595354 GGCACTTCGGTACAAATTCTACGT
1 GGCACTTCGGTACAAATTATACGT
* * *
595378 GGCATTTCGGTGCAATTTATACG
1 GGCACTTCGGTACAAATTATACG
595401 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (24 bp):
GGCACTTCGGTACAAATTATACGT
Found at i:600623 original size:19 final size:20
Alignment explanation
Indices: 600585--600622 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
600575 AGATTACGCA
600585 GGGGGTACAGATTCCCCCCT
1 GGGGGTACAGATTCCCCCCT
600605 GGGGGTATC-GATTCCCCC
1 GGGGGTA-CAGATTCCCCC
600623 TAAATGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.13, C:0.34, G:0.32, T:0.21
Consensus pattern (20 bp):
GGGGGTACAGATTCCCCCCT
Found at i:605501 original size:57 final size:57
Alignment explanation
Indices: 605382--605505 Score: 185
Period size: 57 Copynumber: 2.2 Consensus size: 57
605372 TGGCACTAAG
** * *
605382 TGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTTCG
1 TGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATAAGAACTTCA
* * *
605439 GGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTTCGTATAAGAACTTTA
1 TGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATAAGAACTTCA
605496 TGTGCAAAAA
1 TGTGCAAAAA
605506 CTATGAAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (57 bp):
TGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATAAGAACTTCA
Found at i:605779 original size:68 final size:68
Alignment explanation
Indices: 605667--606007 Score: 556
Period size: 68 Copynumber: 5.0 Consensus size: 68
605657 AAAGATTCAT
* *
605667 GGCCTAGTTGTGCATTTGACAGAAATGTATCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
605732 TGA
66 TGA
* *
605735 GGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTT
1 GGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
605800 TGA
66 TGA
* *
605803 GGCTTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTCAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
605868 TGA
66 TGA
* *
605871 GGCCTAGCTATGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
605936 TGA
66 TGA
* * * * * *
605939 GGCCTAGCTGTACATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTT
1 GGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
606004 TGA
66 TGA
606007 G
1 G
606008 TAAAAGATTA
Statistics
Matches: 255, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 255 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (68 bp):
GGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:606183 original size:47 final size:46
Alignment explanation
Indices: 606109--606328 Score: 345
Period size: 47 Copynumber: 4.8 Consensus size: 46
606099 GCATAACGTT
* *
606109 GTATCAAA-GGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
1 GTATAAAAGGGCATGAAAGGATGTCATAAATGAAATGTATAATAGC
*
606154 GTATAAAAAGGGCATGAAAGGATGTCATAAATGAAATGTATAATAGT
1 GTAT-AAAAGGGCATGAAAGGATGTCATAAATGAAATGTATAATAGC
* *
606201 GTATAAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATATC
1 GTAT-AAAAGGGCATGAAAGGATGTCATAAATGAAATGTATAATAGC
*
606248 GTATAAAAGGGCATGAAAGGATGTCATAAATGAAATGTATAATAAC
1 GTATAAAAGGGCATGAAAGGATGTCATAAATGAAATGTATAATAGC
*
606294 GTATAAAA-TGCATGAAAGGATGTCATAAATGAAAT
1 GTATAAAAGGGCATGAAAGGATGTCATAAATGAAAT
606329 ACATATGGGT
Statistics
Matches: 164, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
45 30 0.18
46 51 0.31
47 83 0.51
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.24
Consensus pattern (46 bp):
GTATAAAAGGGCATGAAAGGATGTCATAAATGAAATGTATAATAGC
Found at i:606281 original size:93 final size:92
Alignment explanation
Indices: 606109--606328 Score: 361
Period size: 93 Copynumber: 2.4 Consensus size: 92
606099 GCATAACGTT
*
606109 GTATCAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAAAAAGGGCATGAAAG
1 GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAAAAAGGGCATGAAAG
**
606174 GATGTCATAAATGAAATGTATAATAGT
66 GATGTCATAAATGAAATGTATAATAAC
*
606201 GTATAAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATATCGTAT-AAAAGGGCATGAA
1 GTAT-AAAA-GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAAAAAGGGCATGAA
606265 AGGATGTCATAAATGAAATGTATAATAAC
64 AGGATGTCATAAATGAAATGTATAATAAC
* *
606294 GTATAAAATGCATGAAAGGATGTCATAAATGAAAT
1 GTATAAAAGGCATGAAAGGATGCCATAAATGAAAT
606329 ACATATGGGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
91 25 0.21
92 8 0.07
93 47 0.39
94 40 0.33
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.24
Consensus pattern (92 bp):
GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAAAAAGGGCATGAAAG
GATGTCATAAATGAAATGTATAATAAC
Found at i:606411 original size:45 final size:45
Alignment explanation
Indices: 606307--606424 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
606297 TAAAATGCAT
* * *
606307 GAAAGGATGTCATAAATGAAATACATATGGGTGCACTATTCGTAC
1 GAAAGGATGACATAAATGAAATGCATATGGGTGCACTATTCGCAC
* * * *
606352 GAAAGGATGACATAATTGAAATGCATATGGGTGCATTATTGGCAT
1 GAAAGGATGACATAAATGAAATGCATATGGGTGCACTATTCGCAC
**
606397 G-AAGGAATTCCATAAATGAAAATGCATA
1 GAAAGG-ATGACATAAATG-AAATGCATA
606425 ATATCGCATT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 4 0.07
45 48 0.79
46 9 0.15
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (45 bp):
GAAAGGATGACATAAATGAAATGCATATGGGTGCACTATTCGCAC
Found at i:610273 original size:2 final size:2
Alignment explanation
Indices: 610268--610334 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
610258 TTTAAAAAAT
610268 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
610310 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 T
610335 CAGGTACCCG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:611229 original size:8 final size:8
Alignment explanation
Indices: 611218--611247 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
611208 TATATTAATT
611218 TTTAATAA
1 TTTAATAA
611226 TTTAATAA
1 TTTAATAA
611234 TTTAATAA
1 TTTAATAA
611242 TTTAAT
1 TTTAAT
611248 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTTAATAA
Found at i:611302 original size:24 final size:23
Alignment explanation
Indices: 611256--611316 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
611246 ATTTTTATTT
*
611256 TTTTTATATTT-AATTTTAAAAA
1 TTTTTATATTTAAAATTTAAAAA
611278 TATTTGTATATTTAAAATTT-AAAA
1 T-TTT-TATATTTAAAATTTAAAAA
*
611302 TTTTTATTTTTAAAA
1 TTTTTATATTTAAAA
611317 AAGAAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 11 0.32
23 6 0.18
24 12 0.35
25 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTTATATTTAAAATTTAAAAA
Found at i:611846 original size:60 final size:60
Alignment explanation
Indices: 611685--611848 Score: 247
Period size: 60 Copynumber: 2.7 Consensus size: 60
611675 ACTCTTATTT
*
611685 TAAATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCCCCAAATTATGACCCTCATTC
1 TAAATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCCCTAAATTATGACCCTCATTC
* * * ** * *
611745 TACATTAGTCCTTAAATTTTTCAGCATTCTAATTTCATCCCTAAATTATGACCCTCTTTC
1 TAAATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCCCTAAATTATGACCCTCATTC
*
611805 TAAATTAGTTCTTAAACTTTTGAATATTCTAATTTTATCCCTAA
1 TAAATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCCCTAA
611849 TTAATCCAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 89 1.00
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (60 bp):
TAAATTAGTCCTTAAACTTTTGAATATTCTAATTTTATCCCTAAATTATGACCCTCATTC
Found at i:615773 original size:16 final size:16
Alignment explanation
Indices: 615752--615783 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
615742 TCGTTAAGAA
*
615752 CTCGAGTCGAGTCGAG
1 CTCGAGTCCAGTCGAG
615768 CTCGAGTCCAGTCGAG
1 CTCGAGTCCAGTCGAG
615784 TCCATTCGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.28, G:0.34, T:0.19
Consensus pattern (16 bp):
CTCGAGTCCAGTCGAG
Found at i:617419 original size:12 final size:12
Alignment explanation
Indices: 617402--617426 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
617392 TACTATTCAT
617402 TGCTACAGTAAC
1 TGCTACAGTAAC
617414 TGCTACAGTAAC
1 TGCTACAGTAAC
617426 T
1 T
617427 TCCGAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (12 bp):
TGCTACAGTAAC
Found at i:617940 original size:44 final size:44
Alignment explanation
Indices: 617837--617975 Score: 251
Period size: 44 Copynumber: 3.1 Consensus size: 44
617827 ACTATTTATC
* *
617837 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTGTT
1 CCATAAGCTCGTAAGCTTATTTTACCAATACACTTGCCA-TTGTT
617882 CCATAAGCTCGTAAGCTTATTTTACCAATACACTTGCCATTGTT
1 CCATAAGCTCGTAAGCTTATTTTACCAATACACTTGCCATTGTT
617926 CCATAAGCTCGTAAGCTTATTTTACCAATACACTTGCCATTGTT
1 CCATAAGCTCGTAAGCTTATTTTACCAATACACTTGCCATTGTT
617970 CCATAA
1 CCATAA
617976 ACCATATTCC
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
44 55 0.60
45 37 0.40
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (44 bp):
CCATAAGCTCGTAAGCTTATTTTACCAATACACTTGCCATTGTT
Found at i:620447 original size:15 final size:15
Alignment explanation
Indices: 620408--620448 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
620398 GTAAACGCAG
620408 AAAA-GTTTTTCTTA
1 AAAATGTTTTTCTTA
620422 AAAATGATTTTTCTTA
1 AAAATG-TTTTTCTTA
*
620438 AAATTGTTTTT
1 AAAATGTTTTT
620449 AAAAGATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 6 0.25
16 14 0.58
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (15 bp):
AAAATGTTTTTCTTA
Done.