Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 1 of 199
Found at i:464 original size:8 final size:8
Alignment explanation
Indices: 451--475 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
441 GGTGTTCGGC
451 GCAAGTGG
1 GCAAGTGG
459 GCAAGTGG
1 GCAAGTGG
467 GCAAGTGG
1 GCAAGTGG
475 G
1 G
476 GGGTAGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:1818 original size:23 final size:23
Alignment explanation
Indices: 1778--1822 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1768 CCATATAACA
** *
1778 GGAAGCTCATGAAGAGCCTATCG
1 GGAAGCTCACAAAAAGCCTATCG
1801 GGAAGCTCACAAAAAGCCTATC
1 GGAAGCTCACAAAAAGCCTATC
1823 AAGAAGCTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (23 bp):
GGAAGCTCACAAAAAGCCTATCG
Found at i:1896 original size:26 final size:26
Alignment explanation
Indices: 1867--1921 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1857 ATAAGAGCCA
* * *
1867 TAATTAGAAAGTTCACAAAGAACTTT
1 TAATCAGAAAGCTCACAAAGAACCTT
* *
1893 TAATCAGGAAGCTCACGAAGAACCTT
1 TAATCAGAAAGCTCACAAAGAACCTT
1919 TAA
1 TAA
1922 ACATGAGCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (26 bp):
TAATCAGAAAGCTCACAAAGAACCTT
Found at i:2065 original size:64 final size:64
Alignment explanation
Indices: 1987--2109 Score: 201
Period size: 64 Copynumber: 1.9 Consensus size: 64
1977 TCCGGAGAGC
*
1987 CATATAACAAGACGCTCATAAAGAGCTGCGATATGTCCGCAACACATGCAGGATCACTATCGAT
1 CATATAACAAGACGCTCATAAAGAGCTGCGATATGTCCACAACACATGCAGGATCACTATCGAT
* * **
2051 CATATAACAGGACGCTCATAAAGAGCTGCGGTATGTGTACAACACATGCAGGATCACTA
1 CATATAACAAGACGCTCATAAAGAGCTGCGATATGTCCACAACACATGCAGGATCACTA
2110 CTGATCGGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (64 bp):
CATATAACAAGACGCTCATAAAGAGCTGCGATATGTCCACAACACATGCAGGATCACTATCGAT
Found at i:11548 original size:14 final size:15
Alignment explanation
Indices: 11512--11548 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
11502 CAAACATTTG
11512 TCAACATTAATTATT
1 TCAACATTAATTATT
*
11527 T-AATATTAATTATT
1 TCAACATTAATTATT
11541 TCAA-ATTA
1 TCAACATTA
11549 CATTTTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (15 bp):
TCAACATTAATTATT
Found at i:11629 original size:61 final size:61
Alignment explanation
Indices: 11563--11750 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
11553 TTATAGTATC
11563 ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * ** * *
11624 ATATATTTTAATTATAATATATTTA-ATAATAATTATGTTAA--ATT-A-TCTTTTA-TAGTATC
1 ATATATTATGATTTTAATAAATTCATATAAGAA-TA--TTAATTATTAAGAATTTTATTA-AATT
* * *
11683 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
11744 ATATATT
1 ATATATT
11751 TTAATTATAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 30 0.32
60 14 0.15
61 39 0.41
62 2 0.02
63 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:11645 original size:16 final size:16
Alignment explanation
Indices: 11624--11669 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
11614 TTATTAAATT
11624 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
11640 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
11655 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
11670 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:11736 original size:120 final size:120
Alignment explanation
Indices: 11519--11787 Score: 454
Period size: 120 Copynumber: 2.2 Consensus size: 120
11509 TTGTCAACAT
* *
11519 TAAT-TATTTAATATTAATTAT-TTCAAATTACATTTTATAGTATCATATATTATGATTTTAATA
1 TAATATATTTAATAATAATTATGTT-AAATTACATTTTATAGTATCATATATTATGATTTGAATA
11582 AATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
65 AATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
*
11638 TAATATATTTAATAATAATTATGTTAAATTATC-TTTTATAGTATCATATATTATGATTTGAGTA
1 TAATATATTTAATAATAATTATGTTAAATTA-CATTTTATAGTATCATATATTATGATTTGAATA
*
11702 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTA
65 AATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
11758 TAATATATTTAATAATAATTATGTTTAAAT
1 TAATATATTTAATAATAATTATG-TTAAAT
11788 ATGATTAAAT
Statistics
Matches: 142, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
119 4 0.03
120 129 0.91
121 9 0.06
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
TAATATATTTAATAATAATTATGTTAAATTACATTTTATAGTATCATATATTATGATTTGAATAA
ATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
Found at i:11747 original size:59 final size:58
Alignment explanation
Indices: 11564--11747 Score: 139
Period size: 57 Copynumber: 3.1 Consensus size: 58
11554 TATAGTATCA
*
11564 TATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTAAATAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * *
11623 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTA-TGTTAA-ATTATCTTT-TATAGTA
1 TATATTATGATTTAAATA-AAT-TCATATAAGAAT-ATTATTATTAAGA--AT-TTTAT-TA-AA
11681 T
58 T
* *
11682 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAATAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
11743 TATAT
1 TATAT
11748 ATTTTAATTA
Statistics
Matches: 95, Mismatches: 12, Indels: 36
0.66 0.08 0.25
Matches are distributed among these distances:
55 1 0.01
56 11 0.12
57 15 0.16
58 12 0.13
59 11 0.12
61 6 0.06
62 12 0.13
63 15 0.16
64 11 0.12
65 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (58 bp):
TATATTATGATTTAAATAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:11765 original size:16 final size:16
Alignment explanation
Indices: 11744--11785 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11734 TTATTAAATT
*
11744 ATATATTTTAATTATA
1 ATATATTTTAATAATA
11760 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
11775 AT-TATGTTTAA
1 ATATAT-TTTAA
11786 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:11770 original size:15 final size:15
Alignment explanation
Indices: 11735--11776 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11725 TTAAGAATTT
*
11735 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11749 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11763 TATTTAATAATAAT
1 TATTTAATTATAAT
11777 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:12022 original size:16 final size:16
Alignment explanation
Indices: 12001--12052 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
11991 GATTTGCAAT
*
12001 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
12017 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
12033 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12049 TACA
1 TACA
12053 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:21439 original size:14 final size:14
Alignment explanation
Indices: 21420--21449 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21410 GTATACTTTC
*
21420 ATATATATGTGTAT
1 ATATATACGTGTAT
21434 ATATATACGTGTAT
1 ATATATACGTGTAT
21448 AT
1 AT
21450 TATTGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (14 bp):
ATATATACGTGTAT
Found at i:24709 original size:106 final size:106
Alignment explanation
Indices: 24524--24724 Score: 375
Period size: 106 Copynumber: 1.9 Consensus size: 106
24514 AAGCTTTAAG
24524 AGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGA
1 AGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGA
24589 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
* *
24630 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGA
*
24695 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATCGCCTTATTTA
24725 GAAAAATTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGA
TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
Found at i:27480 original size:44 final size:44
Alignment explanation
Indices: 27267--27560 Score: 249
Period size: 44 Copynumber: 6.7 Consensus size: 44
27257 TCCACTGCCA
* *
27267 AATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCACGCC
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCACC
* * * *
27309 AATACATGAAGACAAAATCTGCTTTCTGCAATCTACTTCGCCACC
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCG-CACC
** * *
27354 AATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACC
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGC-ACC
* * * ** *
27397 AATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCGCGCC
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCACC
* * *
27441 AATACATGAAGACAAGCTCTACTTTCTTCGATCTACTTCGCCACC
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCG-CACC
** * * *
27486 AATATGGGAAGACAAGATCTG-TATCTTTGATCCACTTC-CTACC
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGC-ACC
* * * **
27529 AATATAGGAAGATAGGATCTGCTACCTTCGAT
1 AATACAGGAAGACAAGATCTGCTTTCTTCGAT
27561 GAAGACAAGA
Statistics
Matches: 201, Mismatches: 42, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
42 9 0.04
43 43 0.21
44 108 0.54
45 41 0.20
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCACC
Found at i:27518 original size:132 final size:132
Alignment explanation
Indices: 27280--27924 Score: 605
Period size: 132 Copynumber: 5.0 Consensus size: 132
27270 ACAGGGACAA
** *
27280 GATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAAATCTGCTTTCTGCAATCTAC
1 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAAATCTACTTTCTGCAATCTAC
27345 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
27410 AG
131 AG
* ** * *
27412 GATCTGCTACCTTCGATCTACTTCGCGCCAATACATGAAGACAAGCTCTACTTTCTTCGATCTAC
1 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAAATCTACTTTCTGCAATCTAC
* *
27477 TTCGCCACCAATATGGGAAGACAAGATCTGTATCTTTGATCCACTTCCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
27542 AG
131 AG
* * * ** * ** *
27544 GATCTGCTACCTTCGAT-GA----A-GACAAGATC-T----AC--TTTCTGCAATCT---A-CTT
1 GATCTGCTACCTTCGATCTACTTCACGCCAATA-CATGAAGACAAAATCTACTTTCTGCAATCTA
27592 C---GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGA
65 CTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGA
27654 TAG
130 TAG
* * *** * * * * * *
27657 GATCTGCTACCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
1 GATCTGCTACCTTCGATCTACTTC-ACGCCAATACATGAAGACAAAATCTACTTTCTGCAATCTA
* * * * * * * *
27721 CTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCGCCACCAATATGGGAA
65 CTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAA
* *
27785 GACAA
128 GATAG
** * * * * *** * *
27790 GATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTGCAATCTA
1 GATCTGCTACCTTCGATCTACTTC-ACGCCAATACATGAAGACAAAATCTACTTTCTGCAATCTA
* * *
27855 CTTCGCCACCAATATGGGAAGACAAGATTTGTATCTTTGATCCACTTCCTACCAATATAGGAAGA
65 CTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGA
27920 TAG
130 TAG
27923 GA
1 GA
27925 CCTATTTACG
Statistics
Matches: 423, Mismatches: 64, Indels: 51
0.79 0.12 0.09
Matches are distributed among these distances:
113 79 0.19
114 1 0.00
116 3 0.01
117 1 0.00
120 11 0.03
122 2 0.00
124 2 0.00
125 4 0.01
126 11 0.03
127 1 0.00
128 1 0.00
129 2 0.00
131 24 0.06
132 153 0.36
133 82 0.19
134 25 0.06
135 21 0.05
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAAATCTACTTTCTGCAATCTAC
TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
AG
Found at i:27540 original size:88 final size:88
Alignment explanation
Indices: 27275--27919 Score: 329
Period size: 88 Copynumber: 7.0 Consensus size: 88
27265 CAAATACAGG
* * * * * * * *
27275 GACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAAATCTGCTTTCTGCAA
1 GACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGA
*
27340 TCTACTTCGCCACCAATATGGGAA
66 TCTACTTCG-CACCAATATAGGAA
* * * * * *
27364 GACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGA
* * *
27428 TCTACTTCGCGCCAATACATGAA
66 TCTACTTCGCACCAATATAGGAA
* * * *
27451 GACAAGCTCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-TATCTTTG
1 GACAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCG
*
27515 ATCCACTTC-CTACCAATATAGGAA
65 ATCTACTTCGC-ACCAATATAGGAA
* * * * ** * **** *
27539 GATAGGATCTGCTACCTTCGATGAAGACAAGATCTACTT-TCTGCAATCTACTTCGCCACCA-AT
1 GACAAGATCTGCT---TTC--T----TC--GATCTACTTCCCACCAATATAGGAAG--ACAAGAT
* ** ***
27602 ATGGGA-AGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAA
53 CTGCTATCTTC--GATCT--A-CTTCG---------C-ACCAATATAGGAA
* * ** *
27652 GATAGGATCTGCTACCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCG
1 GACAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCG
*
27716 ATCCACTTC-CTACCAATATAGGAA
65 ATCTACTTCGC-ACCAATATAGGAA
* * ** * * * *
27740 GATAGGATCTGCTACCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTGCA
1 GACAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCG
*
27805 ATCTACTTCGCCACCAATATGGGAA
65 ATCTACTTCG-CACCAATATAGGAA
* * * * *
27830 GACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATTTG-TATCTTTG
1 GACAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCG
*
27894 ATCCACTTC-CTACCAATATAGGAA
65 ATCTACTTCGC-ACCAATATAGGAA
27918 GA
1 GA
27920 TAGGACCTAT
Statistics
Matches: 425, Mismatches: 91, Indels: 81
0.71 0.15 0.14
Matches are distributed among these distances:
87 22 0.05
88 180 0.42
89 58 0.14
90 61 0.14
91 4 0.01
93 1 0.00
97 8 0.02
98 8 0.02
99 14 0.03
100 4 0.01
101 4 0.01
102 14 0.03
103 9 0.02
104 8 0.02
108 1 0.00
110 1 0.00
113 28 0.07
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (88 bp):
GACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGA
TCTACTTCGCACCAATATAGGAA
Found at i:27644 original size:113 final size:113
Alignment explanation
Indices: 27446--27673 Score: 411
Period size: 113 Copynumber: 2.0 Consensus size: 113
27436 GCGCCAATAC
* * * *
27446 ATGAAGACAAGCTCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATC
1 ATGAAGACAAGATCTACTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
*
27511 TTTGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
66 TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
27559 ATGAAGACAAGATCTACTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
1 ATGAAGACAAGATCTACTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
27624 TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
66 TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
27672 AT
1 AT
27674 CTACTTCGCC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 110 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (113 bp):
ATGAAGACAAGATCTACTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
Found at i:27697 original size:45 final size:45
Alignment explanation
Indices: 27561--27919 Score: 433
Period size: 45 Copynumber: 8.1 Consensus size: 45
27551 TACCTTCGAT
* * * *
27561 GAAGACAAGATCTACTTTCTGCAATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * *
27606 GAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * *
27649 GAAGATAGGATCTGCTACCTTCGATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * *
27694 GAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * *
27737 GAAGATAGGATCTGCTACCTTCGATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * *
27782 GAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * *
27827 GAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * * * *
27872 GAAGACAAGATTTG-TATCTTTGATCCACTTC-CTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
27915 GAAGA
1 GAAGA
27920 TAGGACCTAT
Statistics
Matches: 271, Mismatches: 39, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
43 61 0.23
44 66 0.24
45 144 0.53
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (45 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
Found at i:27809 original size:133 final size:131
Alignment explanation
Indices: 27596--27919 Score: 396
Period size: 133 Copynumber: 2.4 Consensus size: 131
27586 CTACTTCGCC
* * * * *
27596 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATC
1 ACCAATATAGGAAGACAAGATCTGCACCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATC
* *
27661 TGCTACCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
66 TGCTACCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
27726 T
131 T
* * * *
27727 ACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGA
1 ACCAATATAGGAAGACAAGATCTGC-ACCTTCGATCCACTTC-CCACCAATATAGGAAGACAAGA
** * * * *
27792 TCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTGCAATCTACT
64 TCTGCTACCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACT
*
27857 TCGCC
128 TC-CT
* * * * * *
27862 ACCAATATGGGAAGACAAGATTTGTATCTTTGATCCACTTCCTACCAATATAGGAAGA
1 ACCAATATAGGAAGACAAGATCTGCACCTTCGATCCACTTCCCACCAATATAGGAAGA
27920 TAGGACCTAT
Statistics
Matches: 161, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
131 22 0.14
132 14 0.09
133 79 0.49
134 25 0.16
135 21 0.13
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (131 bp):
ACCAATATAGGAAGACAAGATCTGCACCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATC
TGCTACCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
T
Found at i:27881 original size:178 final size:176
Alignment explanation
Indices: 27584--27924 Score: 529
Period size: 178 Copynumber: 1.9 Consensus size: 176
27574 ACTTTCTGCA
* * *
27584 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAG
1 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTGCAATCCACTTCCCACCAATATAG
* * * *
27649 GAAGATAGGATCTGCTACCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTACCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
27714 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
131 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
* *
27760 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATAT
1 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTGCAATCCACTTC-CCACCAATAT
* ** * *
27825 GGGAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATTTGTATC
64 AGGAAGACAAGATCTGCTACCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
*
27890 TTTGATCCACTTCCTACCAATATAGGAAGATAGGA
129 TTCGATCCACTTCCTACCAATATAGGAAGATAGGA
27925 CCTATTTACG
Statistics
Matches: 148, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
176 37 0.25
177 12 0.08
178 99 0.67
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (176 bp):
ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTGCAATCCACTTCCCACCAATATAG
GAAGACAAGATCTGCTACCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
Found at i:28727 original size:1 final size:1
Alignment explanation
Indices: 28721--28750 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
28711 GGCCTCTCCC
28721 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
28751 AGGCAAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:32720 original size:22 final size:23
Alignment explanation
Indices: 32683--32725 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
32673 AATGTGCTCT
* *
32683 TCTCTTTTCCTGCTTTTCCTCCA
1 TCTCTTTTCCTCCTTTCCCTCCA
32706 TCTC-TTTCCTCCTTTCCCTC
1 TCTCTTTTCCTCCTTTCCCTC
32726 GCATTAGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.02, C:0.44, G:0.02, T:0.51
Consensus pattern (23 bp):
TCTCTTTTCCTCCTTTCCCTCCA
Found at i:39565 original size:25 final size:26
Alignment explanation
Indices: 39532--39591 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
39522 TAAGTATAAA
39532 ATAAGAAATGCATATAAAT-TATAGAT
1 ATAA-AAATGCATATAAATATATAGAT
* *
39558 ATAAAAATGTATATAAATATATATAT
1 ATAAAAATGCATATAAATATATAGAT
39584 ATAAAAAT
1 ATAAAAAT
39592 TGTAAGTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 13 0.42
26 18 0.58
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (26 bp):
ATAAAAATGCATATAAATATATAGAT
Found at i:39861 original size:7 final size:7
Alignment explanation
Indices: 39843--39879 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
39833 ATATCTATGT
39843 ATATAAAA
1 ATAT-AAA
*
39851 ATATGAA
1 ATATAAA
39858 ATATAAA
1 ATATAAA
39865 ATATAAA
1 ATATAAA
39872 ATATAAA
1 ATATAAA
39879 A
1 A
39880 AGTATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 23 0.85
8 4 0.15
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (7 bp):
ATATAAA
Found at i:40952 original size:1 final size:1
Alignment explanation
Indices: 40942--41016 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
40932 AGAAAACACC
* * *** * * * **
40942 TTTTTCTTTTTTTTTTTGTTTTTTTACATCTATTTTTTCTTTTTGATTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
41007 TTTGTTTTTT
1 TTTTTTTTTT
41017 CAGACGACAG
Statistics
Matches: 55, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.05, C:0.05, G:0.04, T:0.85
Consensus pattern (1 bp):
T
Found at i:40990 original size:14 final size:12
Alignment explanation
Indices: 40974--41016 Score: 61
Period size: 11 Copynumber: 3.5 Consensus size: 12
40964 TTTACATCTA
40974 TTTTTTCTTTTTG
1 TTTTTT-TTTTTG
40987 ATTTTTTTTTTT-
1 -TTTTTTTTTTTG
40999 TTTTTTTTTTTG
1 TTTTTTTTTTTG
41011 TTTTTT
1 TTTTTT
41017 CAGACGACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.39
12 6 0.21
13 5 0.18
14 6 0.21
ACGTcount: A:0.02, C:0.02, G:0.05, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:43346 original size:74 final size:75
Alignment explanation
Indices: 43186--43693 Score: 847
Period size: 74 Copynumber: 6.9 Consensus size: 75
43176 GAACAATAGT
* * *
43186 AGAGGAAGCAAATGTGGTACTTGCCACAAGCCAAGTACAAGAAG-AGCGCTGCATGGGG-AAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
*
43249 AAACAATTGA
66 AAACCATTGA
43259 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGG-AAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
43323 AAACCATTGA
66 AAACCATTGA
43333 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCAT-GGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
43397 -AACCATTGA
66 AAACCATTGA
* * * *
43406 A-AGGAAGCAAATGTGGTAATTGCAACAAACCAAGAAC-AGAAGAAGCGTTGCACGGGGAAAAGA
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
43469 AAACCATTGA
66 AAACCATTGA
43479 AGAGGAAGCAAATGT-GTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
43543 AAACCATTGA
66 AAACCATTGA
*
43553 AGAGGAAGCAAATGTGGTAATTGCCAC-AACCAAGTACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
43617 AAACCATTGA
66 AAACCATTGA
* *
43627 AGAGGAAGCAAATGT-GTAATTGCCACAAACCAAGTACAAGAAGAAACGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
43691 AAA
66 AAA
43694 TCGCAACACC
Statistics
Matches: 413, Mismatches: 14, Indels: 15
0.93 0.03 0.03
Matches are distributed among these distances:
71 14 0.03
72 43 0.10
73 96 0.23
74 249 0.60
75 11 0.03
ACGTcount: A:0.44, C:0.16, G:0.28, T:0.13
Consensus pattern (75 bp):
AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
AAACCATTGA
Found at i:43586 original size:219 final size:224
Alignment explanation
Indices: 43186--43689 Score: 846
Period size: 219 Copynumber: 2.3 Consensus size: 224
43176 GAACAATAGT
* * *
43186 AGAGGAAGCAAATGTGGTACTTGCCACAAGCCAAGTACAAGAAG-AGCGCTGCATGGGG-AAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGTACAAGAAGAAGCGCTGCATGGGGAAAAGA
43249 AAACAATTGAAGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCAT
66 AAACAATTGAAGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCAT
43314 GGGGAAAGGAAACCATTGAAGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAA
131 GGGGAAAGGAAACCATTGAAGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAA
43379 GCGCTGCAT-GGGAAAAGG-AACCATTGA
196 GCGCTGCATGGGGAAAAGGAAACCATTGA
* * * *
43406 A-AGGAAGCAAATGTGGTAATTGCAACAAACCAAGAAC-AGAAGAAGCGTTGCACGGGGAAAAGA
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGTACAAGAAGAAGCGCTGCATGGGGAAAAGA
*
43469 AAACCATTGAAGAGGAAGCAAATGT-GTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCAT
66 AAACAATTGAAGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCAT
*
43533 GGGGAAAAGGAAACCATTGAAGAGGAAGCAAATGTGGTAATTGCCAC-AACCAAGTACAAGAAGA
131 GGGG-AAAGGAAACCATTGAAGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGA
43597 AGCGCTGCATGGGGAAAAGGAAACCATTGA
195 AGCGCTGCATGGGGAAAAGGAAACCATTGA
*
43627 AGAGGAAGCAAATGT-GTAATTGCCACAAACCAAGTACAAGAAGAAACGCTGCATGGGGAAAAG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGTACAAGAAGAAGCGCTGCATGGGGAAAAG
43690 GAAATCGCAA
Statistics
Matches: 263, Mismatches: 14, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
218 5 0.02
219 113 0.43
220 80 0.30
221 30 0.11
222 35 0.13
ACGTcount: A:0.43, C:0.16, G:0.28, T:0.13
Consensus pattern (224 bp):
AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGTACAAGAAGAAGCGCTGCATGGGGAAAAGA
AAACAATTGAAGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCAT
GGGGAAAGGAAACCATTGAAGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAA
GCGCTGCATGGGGAAAAGGAAACCATTGA
Found at i:54395 original size:9 final size:9
Alignment explanation
Indices: 54377--54412 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
54367 TAGTTTCTCA
54377 TTTC-TTTC
1 TTTCTTTTC
54385 TTTCTTTTC
1 TTTCTTTTC
*
54394 TTTCTTTCC
1 TTTCTTTTC
54403 TTTCTTTTC
1 TTTCTTTTC
54412 T
1 T
54413 CCCTGCTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 4 0.16
9 21 0.84
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:54395 original size:13 final size:13
Alignment explanation
Indices: 54377--54409 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
54367 TAGTTTCTCA
*
54377 TTTCTTTCTTTCT
1 TTTCTTTCTTTCC
54390 TTTCTTTCTTTCC
1 TTTCTTTCTTTCC
54403 TTTCTTT
1 TTTCTTT
54410 TCTCCCTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCTTTCC
Found at i:54484 original size:22 final size:22
Alignment explanation
Indices: 54447--54506 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
54437 CTTTCTATTC
54447 TTTA-TTTATT-TCATTTACTTA
1 TTTATTTTATTAT-ATTTACTTA
54468 TTTATTTTATTATATTTACTTA
1 TTTATTTTATTATATTTACTTA
*
54490 TATTATATTA-TATATTT
1 T-TTATTTTATTATATTT
54507 TATTAATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
21 4 0.11
22 23 0.66
23 8 0.23
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTATTTTATTATATTTACTTA
Found at i:56498 original size:18 final size:18
Alignment explanation
Indices: 56460--56495 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
56450 TTATTATTTT
*
56460 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
56478 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
56496 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:69308 original size:45 final size:44
Alignment explanation
Indices: 69253--69338 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 44
69243 TACATTCAAT
*
69253 ATCTTTACCTGATTCAAAC-CACCTAATCAAGCTTTATTACATACA
1 ATCTCTACCTGATTC-AACTCACCTAATCAAGCTTTA-TACATACA
69298 ATCTCTACCTGATTCAACTCACCTAATCAAGCTTTATACAT
1 ATCTCTACCTGATTCAACTCACCTAATCAAGCTTTATACAT
69339 TAGGTCTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
44 8 0.21
45 31 0.79
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.34
Consensus pattern (44 bp):
ATCTCTACCTGATTCAACTCACCTAATCAAGCTTTATACATACA
Found at i:72782 original size:14 final size:14
Alignment explanation
Indices: 72763--72792 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
72753 TATTCATTTG
*
72763 TTTCAGGTAAATAA
1 TTTCAGATAAATAA
72777 TTTCAGATAAATAA
1 TTTCAGATAAATAA
72791 TT
1 TT
72793 AATAGATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (14 bp):
TTTCAGATAAATAA
Found at i:73634 original size:19 final size:20
Alignment explanation
Indices: 73612--73650 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
73602 ACTTTTTTAG
73612 ATTCATATCTTTT-TTTTTT
1 ATTCATATCTTTTCTTTTTT
* *
73631 ATTCTTTTCTTTTCTTTTTT
1 ATTCATATCTTTTCTTTTTT
73651 GTTTCAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (20 bp):
ATTCATATCTTTTCTTTTTT
Found at i:84461 original size:22 final size:21
Alignment explanation
Indices: 84418--84494 Score: 91
Period size: 22 Copynumber: 3.6 Consensus size: 21
84408 TTTCACAAAC
*
84418 AAATTCTCTCAATTTCTTCAA
1 AAATTCTCTCAATTCCTTCAA
84439 AAATTCTCTCAATTCCCTTCAA
1 AAATTCTCTCAATT-CCTTCAA
* * *
84461 AAGTTCTTTCAATTTCCTTCCA
1 AAATTCTCTCAA-TTCCTTCAA
*
84483 AAATTATCTCAA
1 AAATTCTCTCAA
84495 ACTCTCAAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
21 14 0.30
22 31 0.66
23 2 0.04
ACGTcount: A:0.32, C:0.26, G:0.01, T:0.40
Consensus pattern (21 bp):
AAATTCTCTCAATTCCTTCAA
Found at i:84521 original size:22 final size:22
Alignment explanation
Indices: 84496--84537 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
84486 TTATCTCAAA
*
84496 CTCTCAAGTTCCTTCCAAAATC
1 CTCTCAAGTTCCTTCAAAAATC
*
84518 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAGTTCCTTCAAAAA
84538 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.33, G:0.02, T:0.33
Consensus pattern (22 bp):
CTCTCAAGTTCCTTCAAAAATC
Found at i:84762 original size:14 final size:15
Alignment explanation
Indices: 84733--84766 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
84723 AAATTTTAAA
84733 TTTTATTTAAGCTAT
1 TTTTATTTAAGCTAT
*
84748 TTTTATTTATG-TAT
1 TTTTATTTAAGCTAT
84762 TTTTA
1 TTTTA
84767 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGCTAT
Found at i:86927 original size:19 final size:19
Alignment explanation
Indices: 86900--86960 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 19
86890 TTTTGACATT
* *
86900 ATTTGATTAAAACCCCTAA
1 ATTTAATTAAAAACCCTAA
86919 ATTTAATTAAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT-A---A
*
86942 ATTGAATTAAAAACCCTAA
1 ATTTAATTAAAAACCCTAA
86961 CATAACCTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
19 16 0.46
20 1 0.03
22 1 0.03
23 17 0.49
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (19 bp):
ATTTAATTAAAAACCCTAA
Found at i:86944 original size:18 final size:19
Alignment explanation
Indices: 86905--86944 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
86895 ACATTATTTG
* *
86905 ATTAAAACCCCTAAATTTA
1 ATTAAAAACCCTAAACTTA
86924 ATTAAAAACCCT-AACTTA
1 ATTAAAAACCCTAAACTTA
86942 ATT
1 ATT
86945 GAATTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAACCCTAAACTTA
Found at i:86949 original size:23 final size:23
Alignment explanation
Indices: 86918--87040 Score: 120
Period size: 23 Copynumber: 4.9 Consensus size: 23
86908 AAAACCCCTA
*
86918 AATTTAATTAAAAACCCTAACTT
1 AATTGAATTAAAAACCCTAACTT
86941 AATTGAATTAAAAACCCTAACATAACCT
1 AATTGAATTAAAAACCCTAAC-T----T
*
86969 AATTGAATTAAAACCCCTAACCTAACTT
1 AATTGAATTAAAA-----ACCCTAACTT
*
86997 AATTTAATTAAAAACCCTAACTT
1 AATTGAATTAAAAACCCTAACTT
*
87020 AATTGAATTGAAAACCCTAAC
1 AATTGAATTAAAAACCCTAAC
87041 CTAACCTAAC
Statistics
Matches: 84, Mismatches: 6, Indels: 20
0.76 0.05 0.18
Matches are distributed among these distances:
23 48 0.57
24 1 0.01
28 27 0.32
32 1 0.01
33 7 0.08
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.29
Consensus pattern (23 bp):
AATTGAATTAAAAACCCTAACTT
Found at i:86966 original size:28 final size:28
Alignment explanation
Indices: 86933--87045 Score: 146
Period size: 28 Copynumber: 4.2 Consensus size: 28
86923 AATTAAAAAC
86933 CCTAACTTAATTGAATTAAAAACCCTAA
1 CCTAACTTAATTGAATTAAAAACCCTAA
* * *
86961 CATAACCTAATTGAATTAAAACCCCTAA
1 CCTAACTTAATTGAATTAAAAACCCTAA
*
86989 CCTAACTTAATTTAATTAAAAA--C---
1 CCTAACTTAATTGAATTAAAAACCCTAA
*
87012 CCTAACTTAATTGAATTGAAAACCCTAA
1 CCTAACTTAATTGAATTAAAAACCCTAA
87040 CCTAAC
1 CCTAAC
87046 CTAACCTAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
23 20 0.28
25 1 0.01
26 1 0.01
28 49 0.69
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (28 bp):
CCTAACTTAATTGAATTAAAAACCCTAA
Found at i:87043 original size:5 final size:5
Alignment explanation
Indices: 87035--87059 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
87025 AATTGAAAAC
87035 CCTAA CCTAA CCTAA CCTAA CCTAA
1 CCTAA CCTAA CCTAA CCTAA CCTAA
87060 TTGAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
CCTAA
Found at i:87087 original size:89 final size:86
Alignment explanation
Indices: 86918--87910 Score: 442
Period size: 89 Copynumber: 11.2 Consensus size: 86
86908 AAAACCCCTA
*
86918 AATTTAATTAAAAACCCTAACTTAATTGAATTAAAAACCCT----AA-C-A--TAACCTAATTGA
1 AATTTAATTAAAAACCCTAACTTAATT-AATT-AAAACCCTAACCAACCAACCTAACCTAATTTA
*
86975 ATTAAAACCCCTAA-CCTAACTT
64 ATTAAAAACCCTAACCCTAACTT
86997 AATTTAATTAAAAACCCTAACTTAATTGAATTGAAAACCCTAACCTAACCTAACCTAACCTAATT
1 AATTTAATTAAAAACCCTAACTTAATT-AATT-AAAACCCTAACC-AACC-AACCTAACCTAATT
*
87062 GAATTAAAAACCCTAA-CCTAACTT
62 TAATTAAAAACCCTAACCCTAACTT
* * * * * * **** *
87086 AATGTAATTATAGACCCTAAAACCTAACCTAATT-GAATTAAAACC--CCTAACCTAACTTAATT
1 AATTTAATTAAAAACCCT--AACTTAA-TTAATTAAAACCCTAACCAACC-AACCTAACCTAATT
* * *
87148 TAATTAAAAACGCTAACTCTAACCT
62 TAATTAAAAACCCTAACCCTAACTT
*
87173 AATTTAATTATAAACCCTAACCCTAACTTAATTTAATTACAAACCCTAAACCCTAA--ACCCTAA
1 AATTTAA-T-TAAA----AACCCTAACTTAA-TTAATTA-AAACCCT-AA-CC-AACCAACCTAA
* *
87236 CTTAATTTAATTAAAAACCCTAACCCTAACCT
55 CCTAATTTAATTAAAAACCCTAACCCTAACTT
* * * *** * *
87268 AATTTAATTATAAACCCTAACCCTAACTTAATT-TAATTATAAACC--CTAACCCTAACTTAATT
1 AATTTAATTAAAAACCCTAA-CTTAA-TTAATTAAAACCCT-AACCAACCAA-CCTAACCTAATT
*
87330 TAATTAAAAACCCTAAACCCTAACCT
62 TAATTAAAAACCCT-AACCCTAACTT
* *
87356 AATTTAATTATAAACCCTAACCCTAACTTAATTTAATTATAAA-CCTTA--AA-C--CCTAACTT
1 AATTTAA-T-TAAA----AACCCTAACTTAA-TTAATTA-AAACCCTAACCAACCAACCTAACCT
*
87415 AATTTAATTATAAACCCTAAACCCTAACTT
58 AATTTAATTAAAAACCCT-AACCCTAACTT
87445 AATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTATAAACCCT-A--AA-C--CCTAACC
1 AATTTAATTAAAAACCCT-AA--CT----TAA-TTAATTA-AAACCCTAACCAACCAACCTAACC
* *
87504 TAATTTAATTATAAACCTTAACCCTAACTT
57 TAATTTAATTAAAAACCCTAACCCTAACTT
87534 AATTTAATTAAAAACCTTAACCCTAACTTAATTTAATTATAAACCCT-A--AACC--CC-AACCT
1 AATTTAATT--AAA----AACCCTAACTTAA-TTAATTA-AAACCCTAACCAACCAACCTAACCT
*
87593 AATTTAATTATAAACCCTAAACCCTAACTT
58 AATTTAATTAAAAACCCT-AACCCTAACTT
* * *** * *
87623 AATTTAATTAAAAACCCTAAACCCTAACTTAATT-TAATTATAAACC--CTAACACTAACTTAAT
1 AATTTAATTAAAAACCCT-AA-CTTAA-TTAATTAAAACCCT-AACCAACCAAC-CTAACCTAAT
*
87685 TTAATTATAAACCCTAAACCCTAACTT
61 TTAATTAAAAACCCT-AACCCTAACTT
* * * * * * * * *
87712 AATTTAATTACAAACCCTAAACCCTAACCTAACCTAATTA---TAAAC-TCTAACCCTAACTTAA
1 AATTTAATTAAAAACCCT-AA-CTTAA-TTAA-TTAA-AACCCTAACCAACCAA-CCTAACCTAA
* *
87773 TTTAATTATAAACCCTAAACCCTAACCT
60 TTTAATTAAAAACCCT-AACCCTAACTT
* * * *
87801 AATTTAATTATAAACCCTAAACCTTAACTTAATT-TAA--TTAA-AAACCCTAAACCCTAACCTA
1 AATTTAATTAAAAACCCT-AA-CTTAA-TTAATTAAAACCCTAACCAA-CC--AA-CCTAACCTA
* *
87862 ATTTAATTATAAACCCTAACCCTAACCT
59 ATTTAATTAAAAACCCTAACCCTAACTT
* *
87890 AAATTAATTATAAACCCTAAC
1 AATTTAATTAAAAACCCTAAC
87911 CCTAACTTAA
Statistics
Matches: 758, Mismatches: 78, Indels: 148
0.77 0.08 0.15
Matches are distributed among these distances:
79 40 0.05
83 15 0.02
84 6 0.01
85 13 0.02
86 34 0.04
87 53 0.07
88 78 0.10
89 314 0.41
90 86 0.11
91 27 0.04
92 4 0.01
93 21 0.03
94 14 0.02
95 53 0.07
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.31
Consensus pattern (86 bp):
AATTTAATTAAAAACCCTAACTTAATTAATTAAAACCCTAACCAACCAACCTAACCTAATTTAAT
TAAAAACCCTAACCCTAACTT
Found at i:87112 original size:30 final size:30
Alignment explanation
Indices: 87050--87945 Score: 1250
Period size: 30 Copynumber: 30.2 Consensus size: 30
87040 CCTAACCTAA
* * *
87050 CCTAACCTAATTGAATTAAAAACCCT-AA-
1 CCTAACTTAATTTAATTATAAACCCTAAAC
* * *
87078 CCTAACTTAATGTAATTATAGACCCTAAAA
1 CCTAACTTAATTTAATTATAAACCCTAAAC
* *
87108 CCTAACCTAATTGAATTA-AAACCCCT-AA-
1 CCTAACTTAATTTAATTATAAA-CCCTAAAC
* *
87136 CCTAACTTAATTTAATTAAAAACGCT-AAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
* *
87165 TCTAACCTAATTTAATTATAAACCCT-AAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
87194 CCTAACTTAATTTAATTACAAACCCTAAACCCTAAAC
1 CCTAACTTAATTTAATT----A---TAAACCCTAAAC
*
87231 CCTAACTTAATTTAATTAAAAACCCT-AAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
*
87260 CCTAACCTAATTTAATTATAAACCCT-AAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
87289 CCTAACTTAATTTAATTATAAACCCT-AAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
*
87318 CCTAACTTAATTTAATTAAAAACCCTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
*
87348 CCTAACCTAATTTAATTATAAACCCT-AAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
*
87377 CCTAACTTAATTTAATTATAAACCTTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
87407 CCTAACTTAATTTAATTATAAACCCTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
*
87437 CCTAACTTAATTTAATTAAAAACCCTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
*
87467 CCTAACCTAATTTAATTATAAACCCTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
* *
87497 CCTAACCTAATTTAATTATAAA-CCTTAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
* *
87526 CCTAACTTAATTTAATTA-AAAACCTTAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
87555 CCTAACTTAATTTAATTATAAACCCTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
* *
87585 CCCAACCTAATTTAATTATAAACCCTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
*
87615 CCTAACTTAATTTAATTAAAAACCCTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
87645 CCTAACTTAATTTAATTATAAACCCT-AAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
*
87674 ACTAACTTAATTTAATTATAAACCCTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
*
87704 CCTAACTTAATTTAATTACAAACCCTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
* ** *
87734 CCTAACCTAACCTAATTATAAACTCT-AAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
87763 CCTAACTTAATTTAATTATAAACCCTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
*
87793 CCTAACCTAATTTAATTATAAACCCTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
* *
87823 CTTAACTTAATTTAATTAAAAACCCTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
*
87853 CCTAACCTAATTTAATTATAAACCCT-AAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
* *
87882 CCTAACCTAAATTAATTATAAACCCT-AAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
*
87911 CCTAACTTAATTTGATTATAAACCCTAAAC
1 CCTAACTTAATTTAATTATAAACCCTAAAC
87941 CCTAA
1 CCTAA
87946 ACCCTAACCC
Statistics
Matches: 784, Mismatches: 64, Indels: 38
0.88 0.07 0.04
Matches are distributed among these distances:
28 45 0.06
29 314 0.40
30 395 0.50
33 2 0.00
36 8 0.01
37 20 0.03
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.31
Consensus pattern (30 bp):
CCTAACTTAATTTAATTATAAACCCTAAAC
Found at i:87466 original size:119 final size:118
Alignment explanation
Indices: 86930--87945 Score: 1313
Period size: 119 Copynumber: 8.6 Consensus size: 118
86920 TTTAATTAAA
* * * * *
86930 AACCCTAACTTAATTGAATTAAAAACCCTAA-CATAACCTAATTGAATTA-AAACCCCT-AA-CC
1 AACCCTAACTTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATTATAAA-CCCTAAACCC
* * * * * *
86991 TAACTTAATTTAATTAAAAACCCT-AA-CTTAA-TTGAATTGAA-AACCCTAACCTAACCT
65 TAACCTAATTTAATTAAAAACCCTAAACCCTAACCT-AATTTAATTA---TAA---ACCCT
* * * * * *
87048 AA-CCTAACCTAATTGAATTAAAAACCCTAA-CCTAACTTAATGTAATTATAGACCCTAAAACCT
1 AACCCTAACTTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATTATAAACCCTAAACCCT
* * * * *
87111 AACCTAATTGAATTAAAACCCCT-AA-CCTAACTTAATTTAATTAAAAACGCT
66 AACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTATAAACCCT
* *
87162 AACTCTAACCTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATTACAAACCCTAAACCCT
1 AACCCTAACTTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATT----A---TAAACCCT
*
87227 AAACCCTAACTTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTATAAACCCT
59 AAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTATAAACCCT
*
87286 AACCCTAACTTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACTTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATTATAAACCCTAAACCCT
* * *
87351 AACCTAATTTAATTATAAACCCT-AACCCTAACTTAATTTAATTATAAACCTT
66 AACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTATAAACCCT
*
87403 AAACCCTAACTTAATTTAATTATAAACCCTAAACCCTAACTTAATTTAATTAAAAACCCTAAACC
1 -AACCCTAACTTAATTTAATTATAAACCCT-AACCCTAACTTAATTTAATTATAAACCCTAAACC
* *
87468 CTAACCTAATTTAATTATAAACCCTAAACCCTAACCTAATTTAATTATAAACCTT
64 CTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTATAAACCCT
* * *
87523 AACCCTAACTTAATTTAATTAAAAACCTTAACCCTAACTTAATTTAATTATAAACCCTAAACCCC
1 AACCCTAACTTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATTATAAACCCTAAACCCT
* * *
87588 AACCTAATTTAATTATAAACCCTAAACCCTAACTTAATTTAATTAAAAACCCT
66 AACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTATAAACCCT
*
87641 AAACCCTAACTTAATTTAATTATAAACCCTAACACTAACTTAATTTAATTATAAACCCTAAACCC
1 -AACCCTAACTTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATTATAAACCCTAAACCC
* * ** *
87706 TAACTTAATTTAATTACAAACCCTAAACCCTAACCTAACCTAATTATAAACTCT
65 TAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTATAAACCCT
* *
87760 AACCCTAACTTAATTTAATTATAAACCCTAAACCCTAACCTAATTTAATTATAAACCCTAAACCT
1 AACCCTAACTTAATTTAATTATAAACCCT-AACCCTAACTTAATTTAATTATAAACCCTAAACCC
*
87825 TAACTTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTATAAACCCT
65 TAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTATAAACCCT
* * *
87879 AACCCTAACCTAAATTAATTATAAACCCTAACCCTAACTTAATTTGATTATAAACCCTAAACCCT
1 AACCCTAACTTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATTATAAACCCTAAACCCT
87944 AA
66 AA
87946 ACCCTAACCC
Statistics
Matches: 813, Mismatches: 65, Indels: 40
0.89 0.07 0.04
Matches are distributed among these distances:
114 5 0.01
115 25 0.03
116 16 0.02
117 109 0.13
118 183 0.23
119 337 0.41
120 33 0.04
123 35 0.04
124 70 0.09
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.31
Consensus pattern (118 bp):
AACCCTAACTTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATTATAAACCCTAAACCCT
AACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTATAAACCCT
Found at i:87948 original size:14 final size:13
Alignment explanation
Indices: 87929--87958 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
87919 AATTTGATTA
87929 TAAACCCTAAACCC
1 TAAACCCT-AACCC
87943 TAAACCCTAACCC
1 TAAACCCTAACCC
87956 TAA
1 TAA
87959 CATACAACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (13 bp):
TAAACCCTAACCC
Found at i:87959 original size:6 final size:7
Alignment explanation
Indices: 87929--87958 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
87919 AATTTGATTA
87929 TAAACCC
1 TAAACCC
87936 TAAACCC
1 TAAACCC
87943 TAAACCC
1 TAAACCC
87950 T-AACCC
1 TAAACCC
87956 TAA
1 TAA
87959 CATACAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:88866 original size:125 final size:124
Alignment explanation
Indices: 88651--88906 Score: 318
Period size: 125 Copynumber: 2.1 Consensus size: 124
88641 CCACGAGGGC
**
88651 GCGATTTGACACTATTTGCTCAGAAATGTAAAAAAAAATTATTTCCAGCATGACCAACTGTAGCG
1 GCGATTTGACACTATTTGCTCAGAAACATAAAAAAAAATTATTTCCAGCATGACCAACTGTAGCG
* * ** * **
88716 AAGTCGCGTCCAAGAGGGCGTGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
66 AAATCGCGTCCAAGAGGCCACGATTTAACAATTTCTGCCCAA-ATAGCATCCTAGTAGAA
* * * *
88776 GCGATTTTATACTATTTGCTCAGAAAACATCAAAAAAAATTATTTCTTA-CATGACC-ACTGTAG
1 GCGATTTGACACTATTTGCTCAG-AAACATAAAAAAAAATTATTTC-CAGCATGACCAACTGTAG
* * * *
88839 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
64 CGAAATCGCGTCCAAGAGGCCACGATTTAACAATTTCTGCCCAAATAGCATCCTAGTAGAA
88900 GCGATTT
1 GCGATTT
88907 CCCATTATTT
Statistics
Matches: 112, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
124 21 0.19
125 64 0.57
126 26 0.23
127 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (124 bp):
GCGATTTGACACTATTTGCTCAGAAACATAAAAAAAAATTATTTCCAGCATGACCAACTGTAGCG
AAATCGCGTCCAAGAGGCCACGATTTAACAATTTCTGCCCAAATAGCATCCTAGTAGAA
Found at i:89619 original size:16 final size:16
Alignment explanation
Indices: 89580--89624 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
89570 ATATCCCCTT
89580 GAATGGGATATCCCAA
1 GAATGGGATATCCCAA
* * *
89596 G-CTGGGATATTCCTA
1 GAATGGGATATCCCAA
89611 GAATGGGATATCCC
1 GAATGGGATATCCC
89625 TGACTGGAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (16 bp):
GAATGGGATATCCCAA
Found at i:107546 original size:9 final size:9
Alignment explanation
Indices: 107519--107556 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
107509 ATTTAGTCTT
107519 AATTTT-AA
1 AATTTTAAA
*
107527 AATTATAAAA
1 AATT-TTAAA
107537 AATTTTAAA
1 AATTTTAAA
107546 AATTTTAAA
1 AATTTTAAA
107555 AA
1 AA
107557 AATTATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 4 0.15
9 16 0.62
10 6 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
AATTTTAAA
Found at i:109427 original size:13 final size:13
Alignment explanation
Indices: 109389--109427 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
109379 AAGCGTGGGA
109389 TGAGGTTTCAATT
1 TGAGGTTTCAATT
**
109402 TG-GGTTTTTATT
1 TGAGGTTTCAATT
109414 TGAGGTTTCAATT
1 TGAGGTTTCAATT
109427 T
1 T
109428 CGATTTTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.18, C:0.05, G:0.23, T:0.54
Consensus pattern (13 bp):
TGAGGTTTCAATT
Found at i:110865 original size:21 final size:21
Alignment explanation
Indices: 110835--110875 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
110825 AATAAATACC
*
110835 AAAAATTTATTTTAAAAATAA
1 AAAAAATTATTTTAAAAATAA
110856 AAAAAATTATTTTAAAAATA
1 AAAAAATTATTTTAAAAATA
110876 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAAATTATTTTAAAAATAA
Found at i:110924 original size:30 final size:30
Alignment explanation
Indices: 110890--110961 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
110880 AAAATTAAAA
** *
110890 AAAATTAAAAATGTATTTTAAAAA-TATTTT
1 AAAATTAAAAA-AAATTTAAAAAAGTATTTT
110920 AAAATTAAAAAAAATTTAAAAAAGTATTTT
1 AAAATTAAAAAAAATTTAAAAAAGTATTTT
110950 AAAATTAAAAAA
1 AAAATTAAAAAA
110962 TAAAAATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 9 0.24
30 29 0.76
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTAAAAAAAATTTAAAAAAGTATTTT
Found at i:110954 original size:40 final size:40
Alignment explanation
Indices: 110856--110953 Score: 169
Period size: 40 Copynumber: 2.4 Consensus size: 40
110846 TTAAAAATAA
*
110856 AAAAAATTATTTTAAAAATATTTTAAAATTAAAAAAAATT
1 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATT
*
110896 AAAAATGTATTTTAAAAATATTTTAAAATTAAAAAAAATTT
1 AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAA-TT
110937 AAAAAAGTATTTTAAAA
1 AAAAAAGTATTTTAAAA
110954 TTAAAAAATA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 36 0.67
41 18 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (40 bp):
AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATT
Found at i:123397 original size:22 final size:22
Alignment explanation
Indices: 123341--123418 Score: 56
Period size: 22 Copynumber: 3.5 Consensus size: 22
123331 CCCAAACAAA
*
123341 AAAATTTAGAAATAATGAA-TTC
1 AAAATTT-GAAATAATAAATTTC
*
123363 ATAAATCAT-AAATAATAAATTTC
1 A-AAAT-TTGAAATAATAAATTTC
*
123386 AAAATTTGAAAT-TTGAAATTT-
1 AAAATTTGAAATAAT-AAATTTC
*
123407 GAAATTTGAAAT
1 AAAATTTGAAAT
123419 CCAAATTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
21 13 0.28
22 24 0.52
23 8 0.17
24 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.36
Consensus pattern (22 bp):
AAAATTTGAAATAATAAATTTC
Found at i:123431 original size:7 final size:7
Alignment explanation
Indices: 123387--123418 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
123377 ATAAATTTCA
123387 AAATTTG
1 AAATTTG
123394 AAATTTG
1 AAATTTG
123401 AAATTTG
1 AAATTTG
123408 AAATTTG
1 AAATTTG
123415 AAAT
1 AAAT
123419 CCAAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (7 bp):
AAATTTG
Found at i:137712 original size:23 final size:23
Alignment explanation
Indices: 137668--137713 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
137658 TATATACCAT
*
137668 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
137691 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
137714 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:137980 original size:19 final size:19
Alignment explanation
Indices: 137945--137981 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
137935 ATATGTTACC
**
137945 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
137964 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
137982 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:141621 original size:47 final size:46
Alignment explanation
Indices: 141551--141648 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 46
141541 TTAATACAAC
* * *
141551 TACATACAATATTTTTACCTGATTC-ACACCACCTAATCAATCTTTGT
1 TACATACAATATCTCTACCTGATTCGA-ACCACCTAATCAAGCTTT-T
* * *
141598 TACATACAATATCTCTACTTGATTCGATCCTCCTAATCAAGCTTTT
1 TACATACAATATCTCTACCTGATTCGAACCACCTAATCAAGCTTTT
141644 TACAT
1 TACAT
141649 TAGGTCTATG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
46 6 0.14
47 37 0.84
48 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.39
Consensus pattern (46 bp):
TACATACAATATCTCTACCTGATTCGAACCACCTAATCAAGCTTTT
Found at i:149557 original size:20 final size:19
Alignment explanation
Indices: 149486--149559 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
149476 AGCTAATAAC
*
149486 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGACTT
* * *
149505 GAGCTTGAATCAGCTAACTT
1 GAGC-TCAATGAGCTGACTT
149525 GAGCTCAAATGAGCTGACTT
1 GAGCTC-AATGAGCTGACTT
149545 GAGCTCAAGTGAGCT
1 GAGCTCAA-TGAGCT
149560 AAACCAAGGA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.16
20 38 0.84
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (19 bp):
GAGCTCAATGAGCTGACTT
Found at i:151269 original size:18 final size:18
Alignment explanation
Indices: 151248--151282 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
151238 TTTGTTTTTT
151248 AATTT-TTTTCTCAATTTC
1 AATTTCTTTT-TCAATTTC
151266 AATTTCTTTTTCAATTT
1 AATTTCTTTTTCAATTT
151283 TCTTTTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (18 bp):
AATTTCTTTTTCAATTTC
Found at i:151289 original size:18 final size:17
Alignment explanation
Indices: 151268--151379 Score: 68
Period size: 18 Copynumber: 6.2 Consensus size: 17
151258 TCAATTTCAA
151268 TTTCTTTTTCAATTTTCT
1 TTTCTTTTTC-ATTTTCT
151286 TTTCTTCGTTTTCATTTT-T
1 TTTC-T--TTTTCATTTTCT
*
151305 TCTCACTTTTTCGATTTT-T
1 T-T-TCTTTTTC-ATTTTCT
*
151324 TTTCTTTTGT-AATTTCTT
1 TTTCTTTT-TCATTTTC-T
*
151342 TTTCTTTTTCGTTTTCTT
1 TTTCTTTTTCATTTTC-T
* *
151360 TTTCTTCTTCACTTTCT
1 TTTCTTTTTCATTTTCT
151377 TTT
1 TTT
151380 TCGATTTCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
16 4 0.05
17 10 0.13
18 39 0.51
19 10 0.13
20 7 0.09
21 6 0.08
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (17 bp):
TTTCTTTTTCATTTTCT
Found at i:151345 original size:6 final size:6
Alignment explanation
Indices: 151336--151381 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
151326 TCTTTTGTAA
* * **
151336 TTTCTT TTTCTT TTTCGT TTTCTT TTTCTT CTTCAC TTTCTT TTTC
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC
151382 GATTTCATTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTCTT
Found at i:152245 original size:10 final size:10
Alignment explanation
Indices: 152234--152290 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
152224 TTTTACTCAC
*
152234 TTTTTTTTAC
1 TTTTTTTTAA
152244 TTTTTTTTGAA
1 TTTTTTTT-AA
152255 -TTTTTTTAA
1 TTTTTTTTAA
*
152264 ATTTTTTTAA
1 TTTTTTTTAA
**
152274 TATTTTTCGAA
1 T-TTTTTTTAA
152285 TTTTTT
1 TTTTTT
152291 ATAGACTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 2 0.05
10 29 0.73
11 9 0.22
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:153832 original size:10 final size:11
Alignment explanation
Indices: 153813--153852 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
153803 TCAATGAACT
153813 GAATTGAGCTC
1 GAATTGAGCTC
153824 GAA-TGAGCT-
1 GAATTGAGCTC
153833 GAATTGAGCTC
1 GAATTGAGCTC
*
153844 -AAGTGAGCT
1 GAATTGAGCT
153853 GAACCAAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
9 3 0.12
10 20 0.77
11 3 0.12
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (11 bp):
GAATTGAGCTC
Found at i:153834 original size:20 final size:19
Alignment explanation
Indices: 153799--153855 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 19
153789 AGCTAATAAC
*
153799 GAGCTCAATGAACTGAATT
1 GAGCTCAATGAGCTGAATT
153818 GAGCTCGAATGAGCTGAATT
1 GAGCTC-AATGAGCTGAATT
153838 GAGCTCAAGTGAGCTGAA
1 GAGCTCAA-TGAGCTGAA
153856 CCAAGGACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 8 0.23
20 27 0.77
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:154965 original size:10 final size:10
Alignment explanation
Indices: 154936--154974 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
154926 ACATCCGTTT
154936 ATTTAGTTTTA
1 ATTTA-TTTTA
154947 ATTTCATTTTA
1 ATTT-ATTTTA
154958 ATTTATTTTA
1 ATTTATTTTA
*
154968 TTTTATT
1 ATTTATT
154975 GCAATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 12 0.46
11 13 0.50
12 1 0.04
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (10 bp):
ATTTATTTTA
Found at i:154971 original size:26 final size:26
Alignment explanation
Indices: 154933--155009 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 26
154923 ATCACATCCG
154933 TTTA-TTTAGTTTTAATTTC-ATTTTAA
1 TTTATTTTA-TTTT-ATTTCAATTTTAA
* *
154959 TTTATTTTATTTTATTGCAATTTTTA
1 TTTATTTTATTTTATTTCAATTTTAA
*
154985 TTT-TTTTATTTT-TTTCTATTTTAA
1 TTTATTTTATTTTATTTCAATTTTAA
155009 T
1 T
155010 CAGATTTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 10 0.23
25 13 0.30
26 17 0.39
27 4 0.09
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (26 bp):
TTTATTTTATTTTATTTCAATTTTAA
Found at i:156132 original size:16 final size:16
Alignment explanation
Indices: 156099--156132 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
156089 AGTTGATGTT
* *
156099 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
156115 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
156131 AA
1 AA
156133 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:158959 original size:21 final size:21
Alignment explanation
Indices: 158933--158973 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
158923 AGACGAGCAA
* *
158933 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
158954 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
158974 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:160912 original size:16 final size:16
Alignment explanation
Indices: 160879--160912 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
160869 GGAGATTGTT
* *
160879 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
160895 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
160911 AA
1 AA
160913 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:165813 original size:41 final size:41
Alignment explanation
Indices: 165721--165800 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
165711 GCTAATTGGG
*
165721 AAAATGATTCCCTTATTCTAATAAACTACTAAAAGATAAGA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAGA
165762 AAAATAATTCCCTTTATTCT-ATAAACTACTAAAAGATAA
1 AAAATAATTCCC-TTATTCTAATAAACTACTAAAAGATAA
165801 AATAAACTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
41 30 0.81
42 7 0.19
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (41 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAGA
Found at i:165866 original size:19 final size:19
Alignment explanation
Indices: 165842--165878 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
165832 TTATTCTAAT
165842 ATTTATCTACCTAAATAAG
1 ATTTATCTACCTAAATAAG
165861 ATTTATCTACCTAAATAA
1 ATTTATCTACCTAAATAA
165879 CTTTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (19 bp):
ATTTATCTACCTAAATAAG
Found at i:170478 original size:43 final size:43
Alignment explanation
Indices: 170380--170578 Score: 195
Period size: 43 Copynumber: 4.7 Consensus size: 43
170370 CAATGTCATA
*** * * *
170380 TCCTAGATATGGTCTTACATGTAATCTCTTATCAATGCCAAAAG
1 TCCTAGATATGGTCTTACACAAAATCTCATATCGATGCC-AATG
* ** * *
170424 -CCCAGCCATGGTCTTACACAAAATCACATATCGATACCAATG
1 TCCTAGATATGGTCTTACACAAAATCTCATATCGATGCCAATG
* * *
170466 TCCTAGATATGGTCTTACACGAATTCTCATATCGATGCCATTG
1 TCCTAGATATGGTCTTACACAAAATCTCATATCGATGCCAATG
* * * *
170509 TCCTAGACATGGTCTTACACGAATTCTCATATCGATGCC-ATA
1 TCCTAGATATGGTCTTACACAAAATCTCATATCGATGCCAATG
* *
170551 TCCCAGATATGGTCTTACACATAATCTC
1 TCCTAGATATGGTCTTACACAAAATCTC
170579 GGTAACCCTA
Statistics
Matches: 127, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 27 0.21
43 100 0.79
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (43 bp):
TCCTAGATATGGTCTTACACAAAATCTCATATCGATGCCAATG
Found at i:170525 original size:86 final size:85
Alignment explanation
Indices: 170376--170578 Score: 239
Period size: 86 Copynumber: 2.4 Consensus size: 85
170366 GTTACAATGT
* * *
170376 CATATCCTAGATATGGTCTTACATGTAATCTCTTATCAATGCCAAAAGCCCAGCCATGGTCTTAC
1 CATATCCTAGATATGGTCTTACACGTAATCTCATATCAATGCCAAAAGCCCAGACATGGTCTTAC
170441 ACAAAATCACATATCGATAC
66 ACAAAATCACATATCGATAC
* * ** *
170461 CAATGTCCTAGATATGGTCTTACACG-AATTCTCATATCGATGCC-ATTGTCCTAGACATGGTCT
1 C-ATATCCTAGATATGGTCTTACACGTAA-TCTCATATCAATGCCAAAAG-CCCAGACATGGTCT
* * * *
170524 TACACGAATTCTCATATCGATGC
63 TACACAAAATCACATATCGATAC
* *
170547 CATATCCCAGATATGGTCTTACACATAATCTC
1 CATATCCTAGATATGGTCTTACACGTAATCTC
170579 GGTAACCCTA
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
85 30 0.30
86 69 0.70
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (85 bp):
CATATCCTAGATATGGTCTTACACGTAATCTCATATCAATGCCAAAAGCCCAGACATGGTCTTAC
ACAAAATCACATATCGATAC
Found at i:172734 original size:26 final size:26
Alignment explanation
Indices: 172708--172758 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
172698 GAAAAATAAT
172708 TTCT-TTATTCTAATAAACTACTAAA
1 TTCTCTTATTCTAATAAACTACTAAA
172733 TTCTCTTATTCTAATAAACTACTAAA
1 TTCTCTTATTCTAATAAACTACTAAA
172759 AGATAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (26 bp):
TTCTCTTATTCTAATAAACTACTAAA
Found at i:175599 original size:13 final size:13
Alignment explanation
Indices: 175556--175599 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
175546 ACATTAAAAA
*
175556 TTTTCAAAAACAC
1 TTTTCACAAACAC
175569 TTTTC-CAAATCAC
1 TTTTCACAAA-CAC
*
175582 CTTTCACAAACAC
1 TTTTCACAAACAC
175595 TTTTC
1 TTTTC
175600 TAAGCTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 3 0.12
13 19 0.73
14 4 0.15
ACGTcount: A:0.34, C:0.30, G:0.00, T:0.36
Consensus pattern (13 bp):
TTTTCACAAACAC
Found at i:175616 original size:20 final size:20
Alignment explanation
Indices: 175591--175631 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
175581 CCTTTCACAA
*
175591 ACACTTTTCTAAGCTTTTAG
1 ACACTTTTCAAAGCTTTTAG
175611 ACACTTTTCAAAGCTTTTAG
1 ACACTTTTCAAAGCTTTTAG
175631 A
1 A
175632 TAACGCTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (20 bp):
ACACTTTTCAAAGCTTTTAG
Found at i:179958 original size:19 final size:19
Alignment explanation
Indices: 179917--179958 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
179907 GTGTTTTTTA
***
179917 CCAACACCAAAACAATGGT
1 CCAACACCAAAACAATAAC
179936 CCAACACCAAAACAATAAC
1 CCAACACCAAAACAATAAC
179955 CCAA
1 CCAA
179959 TTACTCATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.52, C:0.36, G:0.05, T:0.07
Consensus pattern (19 bp):
CCAACACCAAAACAATAAC
Found at i:186365 original size:18 final size:17
Alignment explanation
Indices: 186324--186366 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
186314 AAGGGCCAAT
186324 TAAATTATATATAATTA
1 TAAATTATATATAATTA
186341 TATAATTATATTATATATTA
1 TA-AATTATA-TATA-ATTA
186361 -AAATTA
1 TAAATTA
186367 AAAATTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.09
18 12 0.52
19 5 0.22
20 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATTATATATAATTA
Found at i:186814 original size:7 final size:6
Alignment explanation
Indices: 186779--186813 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
186769 AATATTATAA
186779 TTTTCTT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT TTTT
186814 TTGAATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:196679 original size:40 final size:41
Alignment explanation
Indices: 196620--196836 Score: 200
Period size: 40 Copynumber: 5.5 Consensus size: 41
196610 AACACACCCG
* * *
196620 TTTGGCACCCAGTGCCTCATCGGA-TGATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
* * *
196660 TTTGACACCTAGTGTCTCATC-GACTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
* * * *
196698 -TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
* * *
196738 TTTGACACCTAGTGTCTCATC-GACTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
* * * * *
196776 -TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATAC
1 TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
*
196816 TTTGACACCCAGTGTCTCATC
1 TTTGACACCCAGTGCCTCATC
196837 AACTTGAAGT
Statistics
Matches: 137, Mismatches: 31, Indels: 17
0.74 0.17 0.09
Matches are distributed among these distances:
37 32 0.23
38 26 0.19
39 6 0.04
40 40 0.29
41 33 0.24
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (41 bp):
TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
Found at i:196749 original size:78 final size:78
Alignment explanation
Indices: 196621--196836 Score: 371
Period size: 78 Copynumber: 2.8 Consensus size: 78
196611 ACACACCCGT
* * * *
196621 TTGGCACCCAGTGCCTCATCGGA-TGATTCGAAGTAATAATTTGACACCTAGTGTCTCATCGACT
1 TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATAATTTGACACCTAGTGTCTCATCGACT
196685 AAACCGAAGTAAA
66 AAACCGAAGTAAA
196698 TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATAATTTGACACCTAGTGTCTCATCGACT
1 TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATAATTTGACACCTAGTGTCTCATCGACT
196763 AAACCGAAGTAAA
66 AAACCGAAGTAAA
* *
196776 TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATACTTTGACACCCAGTGTCTCATC
1 TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATAATTTGACACCTAGTGTCTCATC
196837 AACTTGAAGT
Statistics
Matches: 132, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 21 0.16
78 111 0.84
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (78 bp):
TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATAATTTGACACCTAGTGTCTCATCGACT
AAACCGAAGTAAA
Found at i:196797 original size:37 final size:38
Alignment explanation
Indices: 196675--196812 Score: 163
Period size: 38 Copynumber: 3.6 Consensus size: 38
196665 CACCTAGTGT
196675 CTCATCG-ACTAAACCGAAGTAAATTGGCACCCAATGC
1 CTCATCGAACTAAACCGAAGTAAATTGGCACCCAATGC
* * * * * *
196712 CTCATCGAATTAATCCGAAGTAATAATTTGACACCTAGTGT
1 CTCATCGAACTAAACCGAAGT-A-AA-TTGGCACCCAATGC
196753 CTCATCG-ACTAAACCGAAGTAAATTGGCACCCAATGC
1 CTCATCGAACTAAACCGAAGTAAATTGGCACCCAATGC
* *
196790 CTCATCGAATTAATCCGAAGTAA
1 CTCATCGAACTAAACCGAAGTAA
196813 TACTTTGACA
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
37 24 0.29
38 26 0.32
39 2 0.02
40 13 0.16
41 17 0.21
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (38 bp):
CTCATCGAACTAAACCGAAGTAAATTGGCACCCAATGC
Found at i:197777 original size:17 final size:17
Alignment explanation
Indices: 197755--197790 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
197745 TTTTGTTTCG
197755 TTTCTATGCTCTTTCTT
1 TTTCTATGCTCTTTCTT
* *
197772 TTTCTATTCTTTTTCTT
1 TTTCTATGCTCTTTCTT
197789 TT
1 TT
197791 ATTTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTCTATGCTCTTTCTT
Found at i:197879 original size:30 final size:29
Alignment explanation
Indices: 197828--197886 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
197818 TATACTTAAC
* *
197828 TTTTAAGTTTTAATATTATAATATATATA
1 TTTTAACTTTAAATATTATAATATATATA
197857 TTTTAACTTTAAATATTTATAATATATATA
1 TTTTAACTTTAAATA-TTATAATATATATA
197887 CACTTATGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (29 bp):
TTTTAACTTTAAATATTATAATATATATA
Found at i:199328 original size:30 final size:30
Alignment explanation
Indices: 199294--199351 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
199284 TGTTCATTTA
* **
199294 TTCATCTAGTCATTCATTAAGTGTTTTTTT
1 TTCATCAAGTCATTCAACAAGTGTTTTTTT
*
199324 TTCATCAAGTCTTTCAACAAGTGTTTTT
1 TTCATCAAGTCATTCAACAAGTGTTTTT
199352 CAACAAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (30 bp):
TTCATCAAGTCATTCAACAAGTGTTTTTTT
Found at i:199420 original size:23 final size:24
Alignment explanation
Indices: 199387--199437 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
199377 TTACCAAGTT
*
199387 TTTTTTATTAAG-TTTTGCATCAAG
1 TTTTTTATTAAGCTTTT-CATAAAG
199411 TTTTTT-TTAAGCTTTTCATAAAG
1 TTTTTTATTAAGCTTTTCATAAAG
199434 TTTT
1 TTTT
199438 CCATCAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.59
Consensus pattern (24 bp):
TTTTTTATTAAGCTTTTCATAAAG
Found at i:202463 original size:37 final size:37
Alignment explanation
Indices: 202406--202557 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
202396 TATGATCACT
*
202406 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
202441 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
202478 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
202523 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
202558 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:202541 original size:46 final size:46
Alignment explanation
Indices: 202474--202840 Score: 437
Period size: 46 Copynumber: 7.6 Consensus size: 46
202464 TAAGTGTAGC
* **
202474 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
202520 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
202566 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
202618 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
202664 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
202716 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
202762 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
202814 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
202841 AGTACTCAAA
Statistics
Matches: 281, Mismatches: 22, Indels: 36
0.83 0.06 0.11
Matches are distributed among these distances:
46 152 0.54
48 2 0.01
49 2 0.01
50 2 0.01
52 123 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:202593 original size:52 final size:52
Alignment explanation
Indices: 202517--202834 Score: 399
Period size: 52 Copynumber: 6.3 Consensus size: 52
202507 TAGCTAAAGC
* *
202517 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
202570 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
202622 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
202668 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
202720 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
202766 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
202818 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
202835 ATCAGAAGTA
Statistics
Matches: 228, Mismatches: 24, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
46 83 0.36
49 1 0.00
52 126 0.55
53 18 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:202639 original size:98 final size:98
Alignment explanation
Indices: 202485--202840 Score: 640
Period size: 98 Copynumber: 3.6 Consensus size: 98
202475 ACTTATCACT
* * *
202485 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
* *
202550 GTATAGCCGAAGCTATCACTTATCACTTTTCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
** *
202583 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
202648 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
202681 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
202746 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
202779 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
202841 AGTACTCAAA
Statistics
Matches: 249, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 249 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCCGAAGCTATTACTTATCACTTTCCAC
Found at i:208691 original size:28 final size:26
Alignment explanation
Indices: 208659--208722 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 26
208649 TGTTCATTTA
**
208659 TTCATCAAGTCATTCATTAAGTGTTTTT
1 TTCATCAAGTCATTCACCAAGTG--TTT
* *
208687 TTCATCAAGCCTTTCACCAAGTGTTT
1 TTCATCAAGTCATTCACCAAGTGTTT
208713 TTCATCAAGT
1 TTCATCAAGT
208723 TTTTAATCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 12 0.39
28 19 0.61
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (26 bp):
TTCATCAAGTCATTCACCAAGTGTTT
Found at i:208724 original size:12 final size:12
Alignment explanation
Indices: 208684--208820 Score: 71
Period size: 12 Copynumber: 10.8 Consensus size: 12
208674 ATTAAGTGTT
208684 TTTTTCATCAAG
1 TTTTTCATCAAG
** *
208696 CCTTTCACCAAGTG
1 TTTTTCATCAA--G
208710 TTTTTCATCAAG
1 TTTTTCATCAAG
*
208722 TTTTTAATCAAG
1 TTTTTCATCAAG
*
208734 TTTTTAATTACCAAG
1 TTTTTCA-T--CAAG
* *
208749 TTTTCTTTTATTAAG
1 --TT-TTTCATCAAG
*
208764 TTTTGCATCAAG
1 TTTTTCATCAAG
*
208776 TTCTTT--TTAAG
1 TT-TTTCATCAAG
*
208787 CTTTTCATCAAG
1 TTTTTCATCAAG
*
208799 TTTTCCATCAAG
1 TTTTTCATCAAG
*
208811 TTTTTAATCA
1 TTTTTCATCA
208821 TTAAGTTTTT
Statistics
Matches: 94, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
10 3 0.03
11 5 0.05
12 58 0.62
13 5 0.05
14 9 0.10
15 7 0.07
17 3 0.03
18 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (12 bp):
TTTTTCATCAAG
Found at i:208733 original size:26 final size:25
Alignment explanation
Indices: 208683--208738 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
208673 CATTAAGTGT
*
208683 TTTTTTCATCAAGCCTTTCACCAAG
1 TTTTTTCATCAAGCCTTTAACCAAG
** *
208708 TGTTTTTCATCAAGTTTTTAATCAAG
1 T-TTTTTCATCAAGCCTTTAACCAAG
208734 TTTTT
1 TTTTT
208739 AATTACCAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.23, C:0.18, G:0.09, T:0.50
Consensus pattern (25 bp):
TTTTTTCATCAAGCCTTTAACCAAG
Found at i:212699 original size:25 final size:25
Alignment explanation
Indices: 212671--212730 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
212661 GAGCAAGAAA
* * *
212671 CGGTAAGCTCCTCCGACCTGAATAT
1 CGGTAAGCTCCTACGACCTAAAAAT
* *
212696 CGGTGAGCTCCTACGAGCTAAAAAT
1 CGGTAAGCTCCTACGACCTAAAAAT
212721 CGGTAAGCTC
1 CGGTAAGCTC
212731 ATATGAGATG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (25 bp):
CGGTAAGCTCCTACGACCTAAAAAT
Found at i:218032 original size:9 final size:9
Alignment explanation
Indices: 218020--218052 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
218010 ATTATCAAAT
218020 TATTAATTG
1 TATTAATTG
218029 TATTAATTG
1 TATTAATTG
218038 --TTAATTG
1 TATTAATTG
218045 TATTAATT
1 TATTAATT
218053 ATTATAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.32
9 15 0.68
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (9 bp):
TATTAATTG
Found at i:218041 original size:16 final size:16
Alignment explanation
Indices: 218017--218056 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
218007 AAAATTATCA
218017 AATTATTAATTGTATT
1 AATTATTAATTGTATT
*
218033 AATTGTTAATTGTATT
1 AATTATTAATTGTATT
218049 AATTATTA
1 AATTATTA
218057 TAACAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (16 bp):
AATTATTAATTGTATT
Found at i:218848 original size:22 final size:24
Alignment explanation
Indices: 218808--218851 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
218798 GTAAAGTATT
218808 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
218832 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
218852 AATATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:230772 original size:16 final size:16
Alignment explanation
Indices: 230748--230796 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
230738 TTCGCTGAAT
*
230748 TGGATTAGAGATGTAA
1 TGGATTAGAGGTGTAA
* *
230764 TGGAATAGAGGTGTAT
1 TGGATTAGAGGTGTAA
230780 TGGATTAGAGGTGTAA
1 TGGATTAGAGGTGTAA
230796 T
1 T
230797 AGCAAATCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.33
Consensus pattern (16 bp):
TGGATTAGAGGTGTAA
Found at i:231062 original size:17 final size:17
Alignment explanation
Indices: 231022--231085 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 17
231012 AACATAATTA
231022 TTATT-AAATATAT--T
1 TTATTAAAATATATAAT
*
231036 TT-TTATAATATATAAT
1 TTATTAAAATATATAAT
231052 TTGA-TAAAATATATGAAT
1 TT-ATTAAAATATAT-AAT
231070 TTATTAAAAT-TATAAT
1 TTATTAAAATATATAAT
231086 ATATAATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 2 0.05
14 9 0.22
16 6 0.15
17 13 0.32
18 11 0.27
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTATTAAAATATATAAT
Found at i:231089 original size:24 final size:22
Alignment explanation
Indices: 231059--231107 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
231049 AATTTGATAA
231059 AATATATGAAT-TTATTAAAATTAT
1 AATATAT-AATATTA-TAAAA-TAT
231083 AATATATAATATTATAAAATAT
1 AATATATAATATTATAAAATAT
231105 AAT
1 AAT
231108 TTAACATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATAATATTATAAAATAT
Found at i:231098 original size:15 final size:15
Alignment explanation
Indices: 231078--231107 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
231068 ATTTATTAAA
*
231078 ATTATAATATATAAT
1 ATTATAAAATATAAT
231093 ATTATAAAATATAAT
1 ATTATAAAATATAAT
231108 TTAACATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:231128 original size:26 final size:25
Alignment explanation
Indices: 231088--231139 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 25
231078 ATTATAATAT
231088 ATAATATTATAAAATATAATTTAAC
1 ATAATATTATAAAATATAATTTAAC
*
231113 ATAATTATTATTAAATATAATTTAAC
1 ATAA-TATTATAAAATATAATTTAAC
231139 A
1 A
231140 AAAATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAC
Found at i:231205 original size:98 final size:99
Alignment explanation
Indices: 231001--231271 Score: 268
Period size: 108 Copynumber: 2.7 Consensus size: 99
230991 TAAATAATTT
* *** * *
231001 AATCATATTTTAACATAATTATTATTAAATAT-ATTT-TTTATAATATATAATTTGATAAAATAT
1 AATCATAATTTAACATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAAT-T
*
231064 ATGAATTTATTAAAATTATAATATATAATATTATAA
65 ATGAATGTATTAAAATTAT-ATATATAATATTATAA
*
231100 AAT-ATAATTTAACATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTC
1 AATCATAATTTAACATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTA
* *
231164 T-TA-GTATTAAATATTCT-TATATGAAT-TTACTAA
66 TGAATGTATTAAA-ATTATATATAT-AATATTA-TAA
231197 AATCATAATATATAATACTATAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTT
1 AATCATAAT-T-T-A-AC------ATAATTATTATTAAATATAATTTAACAAAAATATATAATTT
231262 AATAAAATTA
56 AATAAAATTA
231272 AATATTCTTA
Statistics
Matches: 145, Mismatches: 11, Indels: 23
0.81 0.06 0.13
Matches are distributed among these distances:
96 8 0.06
97 16 0.11
98 37 0.26
99 10 0.07
100 21 0.14
101 1 0.01
102 2 0.01
108 50 0.34
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (99 bp):
AATCATAATTTAACATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTA
TGAATGTATTAAAATTATATATATAATATTATAA
Found at i:234087 original size:48 final size:48
Alignment explanation
Indices: 234029--234120 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
234019 TTCTTTGTTT
* *
234029 AAAAATGCTTAAATCAGCCTAACTCGCAATGATAAAGGATTCAACAAC
1 AAAAACGCTTAAATCAGCCTAACTCGCAATGATAAAGAATTCAACAAC
* * *
234077 AAAAACGCTTAAGTCGGCCTAACTTGCAATGATAAAGAATTCAA
1 AAAAACGCTTAAATCAGCCTAACTCGCAATGATAAAGAATTCAA
234121 TAGAATTCCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.22
Consensus pattern (48 bp):
AAAAACGCTTAAATCAGCCTAACTCGCAATGATAAAGAATTCAACAAC
Found at i:234369 original size:19 final size:19
Alignment explanation
Indices: 234345--234417 Score: 80
Period size: 19 Copynumber: 3.9 Consensus size: 19
234335 AAAGCTGTAT
*
234345 ACAATTAGAATTCTAAGAC
1 ACAATTAGAACTCTAAGAC
234364 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* * *
234383 AAAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
234400 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
234418 TTACATAATC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
16 1 0.02
17 10 0.23
18 4 0.09
19 28 0.64
20 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:234407 original size:17 final size:17
Alignment explanation
Indices: 234327--234409 Score: 53
Period size: 17 Copynumber: 4.6 Consensus size: 17
234317 CATTAAAGGC
*
234327 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
234344 TACAATTAGAATTCTAAG-A
1 TACAATTAGAA-GCT--GTA
* *
234363 CACAATTAGAA-CTCTAA
1 TACAATTAGAAGCTGT-A
*
234380 GACAAAATTAGAAGCTGTA
1 TAC--AATTAGAAGCTGTA
234399 TACAATTAGAA
1 TACAATTAGAA
234410 CTCTAAGATT
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
17 23 0.45
18 2 0.04
19 22 0.43
20 4 0.08
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:236717 original size:15 final size:15
Alignment explanation
Indices: 236697--236725 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
236687 TTATGCCCTT
236697 ACTATGCTTATTTCA
1 ACTATGCTTATTTCA
236712 ACTATGCTTATTTC
1 ACTATGCTTATTTC
236726 TCGATCACTG
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:0.24, C:0.21, G:0.07, T:0.48
Consensus pattern (15 bp):
ACTATGCTTATTTCA
Found at i:263613 original size:6 final size:6
Alignment explanation
Indices: 263602--263630 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
263592 GCATGAAATT
263602 TGAAGG TGAAGG TGAAGG TGAAGG TGAAG
1 TGAAGG TGAAGG TGAAGG TGAAGG TGAAG
263631 ATTTGGCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.48, T:0.17
Consensus pattern (6 bp):
TGAAGG
Found at i:267687 original size:30 final size:30
Alignment explanation
Indices: 267653--267714 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
267643 GGGGGTGGGA
*
267653 TGGAAGGGAGCAAAAGTTATGAGG-GGAAAG
1 TGGAAGGGAGCAAAAATT-TGAGGAGGAAAG
* *
267683 TGGAAGGGAGTAAAAATTTTAGGAGGAAAG
1 TGGAAGGGAGCAAAAATTTGAGGAGGAAAG
267713 TG
1 TG
267715 AACAGGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.40, C:0.02, G:0.40, T:0.18
Consensus pattern (30 bp):
TGGAAGGGAGCAAAAATTTGAGGAGGAAAG
Found at i:279086 original size:5 final size:5
Alignment explanation
Indices: 279073--279106 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
279063 ACAAAATAAT
*
279073 GAAGA GAAGG GAAGA GAAGA GAAGA GAAAGA GAA
1 GAAGA GAAGA GAAGA GAAGA GAAGA G-AAGA GAA
279107 AAGAGAGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:284909 original size:3 final size:3
Alignment explanation
Indices: 284901--284934 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
284891 GACACATAAA
284901 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
284935 GATACTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:287293 original size:38 final size:38
Alignment explanation
Indices: 287251--287346 Score: 101
Period size: 38 Copynumber: 2.6 Consensus size: 38
287241 TAAAGAATAT
*
287251 ATATATATAAGTATGTATATG-ATGTA-AAATATGCATAA
1 ATATATATAAGTATGTATAAGAAT-TAGAAATATGCA-AA
* *
287289 ATATATGTAAGTA--TATAAGAATTATGAAATATGGAAA
1 ATATATATAAGTATGTATAAGAATTA-GAAATATGCAAA
*
287326 ATATATTTAAGTATGTATAAG
1 ATATATATAAGTATGTATAAG
287347 TATGTATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
36 7 0.14
37 16 0.33
38 20 0.41
39 6 0.12
ACGTcount: A:0.48, C:0.01, G:0.15, T:0.36
Consensus pattern (38 bp):
ATATATATAAGTATGTATAAGAATTAGAAATATGCAAA
Found at i:290295 original size:132 final size:132
Alignment explanation
Indices: 289276--290206 Score: 1691
Period size: 132 Copynumber: 7.1 Consensus size: 132
289266 CGCCATCGTC
* * * * *
289276 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
289341 TTCCTATCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
289406 AA
131 AA
* * *
289408 GATCTGCTTTCTGCTATCTAATTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
289473 TTCCTACCAATATAGGAAGGTAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
289538 AA
131 AA
*
289540 GATCTGCTTTTTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
289605 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
289670 AA
131 AA
*
289672 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
289737 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
289802 AA
131 AA
289804 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
289869 TTTCTACCAATATAGAAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
289934 AA
131 AA
* *
289936 GATCTGCTTTTTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
290001 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
290066 AA
131 AA
*
290068 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
290133 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
290198 AA
131 AA
290200 GATCTGC
1 GATCTGC
290207 ATCTTCGATC
Statistics
Matches: 773, Mismatches: 26, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 773 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:295822 original size:266 final size:266
Alignment explanation
Indices: 295348--295879 Score: 1019
Period size: 266 Copynumber: 2.0 Consensus size: 266
295338 GCGGATACAT
*
295348 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCGTTCGAGCGTTAAAATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAAATAAGT
*
295413 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCATTTTTACTCAATCCGGGCCGTGACTCG
* *
295478 TTGCTCACTAAACCTCATGGTTCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCGAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
295543 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
295608 TCCTTC
261 TCCTTC
*
295614 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAAATAAGT
295679 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCATTTTTACTCAATCCGGGCCGTGACTCG
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCATTTTTACTCAATCCGGGCCGTGACTCG
295744 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
295809 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
295874 TCCTTC
261 TCCTTC
295880 TCTTATCACG
Statistics
Matches: 261, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 261 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (266 bp):
ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAAATAAGT
CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCATTTTTACTCAATCCGGGCCGTGACTCG
TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
TCCTTC
Found at i:297637 original size:38 final size:38
Alignment explanation
Indices: 297595--297690 Score: 101
Period size: 38 Copynumber: 2.6 Consensus size: 38
297585 TAAAGAATAT
*
297595 ATATATATAAGTATGTATATG-ATGTA-AAATATGCATAA
1 ATATATATAAGTATGTATAAGAAT-TAGAAATATGCA-AA
* *
297633 ATATATGTAAGTA--TATAAGAATTATGAAATATGGAAA
1 ATATATATAAGTATGTATAAGAATTA-GAAATATGCAAA
*
297670 ATATATTTAAGTATGTATAAG
1 ATATATATAAGTATGTATAAG
297691 TATGTATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
36 7 0.14
37 16 0.33
38 20 0.41
39 6 0.12
ACGTcount: A:0.48, C:0.01, G:0.15, T:0.36
Consensus pattern (38 bp):
ATATATATAAGTATGTATAAGAATTAGAAATATGCAAA
Found at i:301372 original size:75 final size:75
Alignment explanation
Indices: 301293--301810 Score: 928
Period size: 75 Copynumber: 6.9 Consensus size: 75
301283 AAACAATAGT
* * *
301293 AGAGGAAGCAAATGTGGTACTTGCCACAAGCCAAGTACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
*
301358 AAACAATTGA
66 AAACCATTGA
301368 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
301433 AAACCATTGA
66 AAACCATTGA
301443 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
301508 AAACCATTGA
66 AAACCATTGA
* * * * *
301518 AAAGGAAGCAAATGTGGTAATTGCAACAAACCAAGAACAAGAAGAAGCGTTGCACGGGGAAAAGA
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
301583 AAACCATTGA
66 AAACCATTGA
301593 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
301658 AAACCATTGA
66 AAACCATTGA
*
301668 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGTACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
301733 AAACCATTGA
66 AAACCATTGA
* *
301743 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGTACAAGAAGAAACGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
301808 AAA
66 AAA
301811 TCGCAACACC
Statistics
Matches: 427, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 427 1.00
ACGTcount: A:0.44, C:0.16, G:0.28, T:0.12
Consensus pattern (75 bp):
AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
AAACCATTGA
Done.