Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 82 of 135
Found at i:25332249 original size:26 final size:25
Alignment explanation
Indices: 25332183--25332253 Score: 70
Period size: 30 Copynumber: 2.5 Consensus size: 25
25332173 TAGGTAAAAA
25332183 TTTTAATATAAAGATTAATTTATTTTT
1 TTTTAATA-AAA-ATTAATTTATTTTT
25332210 TATCTAATATATAAAAATTAATTTATTTATT
1 T-T-T--TA-ATAAAAATTAATTTATTT-TT
25332241 TTTTAATAAAAAT
1 TTTTAATAAAAAT
25332254 AAAATATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
26 8 0.21
27 3 0.08
28 1 0.03
29 2 0.05
30 13 0.34
31 8 0.21
32 3 0.08
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (25 bp):
TTTTAATAAAAATTAATTTATTTTT
Found at i:25333206 original size:3 final size:3
Alignment explanation
Indices: 25333198--25333232 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
25333188 AATTTTTAAA
25333198 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25333233 ACAATAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25333953 original size:70 final size:67
Alignment explanation
Indices: 25333829--25333961 Score: 178
Period size: 70 Copynumber: 1.9 Consensus size: 67
25333819 ATAAACAATA
* * *
25333829 TAATGGTTTTGACTTTTAACTTAATGGGTAAATTTTTACTAAAACAACGTAGTTTTGCCTTTTAA
1 TAATGGTTTTGACTTTTAACTTAAAGGGTAAATATTTACTAAAACAACGTAGTTTTACCTTTTAA
25333894 CT
66 CT
* *
25333896 TAATGGTTTTGATTTTTAACTTTAGAAGAGGTAAATATTTA-TCAAAACGACGTAGTTTTACCTT
1 TAATGGTTTTGACTTTTAAC-TTA-AAG-GGTAAATATTTACT-AAAACAACGTAGTTTTACCTT
25333960 TT
62 TT
25333962 TTATTCGGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
67 19 0.33
68 3 0.05
69 3 0.05
70 32 0.56
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAACTTAAAGGGTAAATATTTACTAAAACAACGTAGTTTTACCTTTTAA
CT
Found at i:25335986 original size:24 final size:24
Alignment explanation
Indices: 25335958--25336021 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
25335948 AAAAATAATC
*
25335958 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
*
25335982 TTTCAATTAAACTCTATTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
* *
25336006 TTTGAGTCAAACTCTA
1 TTTCAGTTAAACTCTA
25336022 ATTAGACTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.50
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTATTTG
Found at i:25337945 original size:24 final size:24
Alignment explanation
Indices: 25337917--25337980 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
25337907 AGAAATAATC
* *
25337917 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTATTTATTTA
*
25337941 TTTCAATTAAACTCTATTTATTTA
1 TTTCAGTTAAACTCTATTTATTTA
* *
25337965 TTTGAGTCAAACTCTA
1 TTTCAGTTAAACTCTA
25337981 ATTAGTCTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTATTTA
Found at i:25346620 original size:63 final size:63
Alignment explanation
Indices: 25346532--25346676 Score: 188
Period size: 63 Copynumber: 2.3 Consensus size: 63
25346522 AACACGCACT
* * * *
25346532 AATTTATTTTACACCAGCACAACATCATATGCATTCATT-CTCTACACCAACACAGTCATCACC
1 AATTTATTTTACACAAGCACAACATCATATACAATCATTCCT-TACACCAACACAATCATCACC
* * *
25346595 AATTTATTTTACACAAGCATC-ACATCATGTACAATCATTCCTTGCACCAACACAATCATTACC
1 AATTTATTTTACACAAGCA-CAACATCATATACAATCATTCCTTACACCAACACAATCATCACC
25346658 AATTTATTTTACA-AAGCAC
1 AATTTATTTTACACAAGCAC
25346677 CATCGCATGC
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
61 1 0.01
62 5 0.07
63 64 0.88
64 3 0.04
ACGTcount: A:0.37, C:0.28, G:0.05, T:0.30
Consensus pattern (63 bp):
AATTTATTTTACACAAGCACAACATCATATACAATCATTCCTTACACCAACACAATCATCACC
Found at i:25346699 original size:63 final size:62
Alignment explanation
Indices: 25346532--25346703 Score: 172
Period size: 63 Copynumber: 2.7 Consensus size: 62
25346522 AACACGCACT
* *** * * *
25346532 AATTTATTTTACACCAGCA-CAACATCATATGCATTCATTCTCTACACCAACACAGTCATCACC
1 AATTTATTTTACACAAGCATC-ACATCATGCACAATCATTC-CTGCACCAACACAATCATCACC
* *
25346595 AATTTATTTTACACAAGCATCACATCATGTACAATCATTCCTTGCACCAACACAATCATTACC
1 AATTTATTTTACACAAGCATCACATCATGCACAATCATTCC-TGCACCAACACAATCATCACC
*
25346658 AATTTATTTTACA-AAGCA-C-CATCGCATGCACAATCTTTTCCTGCAC
1 AATTTATTTTACACAAGCATCACAT--CATGCACAATC-ATTCCTGCAC
25346704 TGACACATTC
Statistics
Matches: 95, Mismatches: 9, Indels: 11
0.83 0.08 0.10
Matches are distributed among these distances:
60 3 0.03
61 1 0.01
62 21 0.22
63 69 0.73
64 1 0.01
ACGTcount: A:0.34, C:0.30, G:0.06, T:0.30
Consensus pattern (62 bp):
AATTTATTTTACACAAGCATCACATCATGCACAATCATTCCTGCACCAACACAATCATCACC
Found at i:25347690 original size:23 final size:23
Alignment explanation
Indices: 25347660--25347707 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
25347650 GTGATTAGAC
25347660 TATTAGAGCGACTTGAGTATCTA
1 TATTAGAGCGACTTGAGTATCTA
25347683 TATTAGAGCGACTTGAGTATCTA
1 TATTAGAGCGACTTGAGTATCTA
25347706 TA
1 TA
25347708 ACCAATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (23 bp):
TATTAGAGCGACTTGAGTATCTA
Found at i:25359697 original size:11 final size:11
Alignment explanation
Indices: 25359681--25359721 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
25359671 AAACAATGCC
25359681 AAACAATACAA
1 AAACAATACAA
*
25359692 AAACAATGCAA
1 AAACAATACAA
25359703 AAACAA-AGCAA
1 AAACAATA-CAA
25359714 AAACAATA
1 AAACAATA
25359722 AATAATAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 25 0.96
12 1 0.04
ACGTcount: A:0.71, C:0.17, G:0.05, T:0.07
Consensus pattern (11 bp):
AAACAATACAA
Found at i:25359697 original size:21 final size:22
Alignment explanation
Indices: 25359671--25359720 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
25359661 TTATATAAAC
*
25359671 AAACAATGC-CAAACAATA-CAA
1 AAACAATGCAAAAACAA-AGCAA
25359692 AAACAATGCAAAAACAAAGCAA
1 AAACAATGCAAAAACAAAGCAA
25359714 AAACAAT
1 AAACAAT
25359721 AAATAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.66, C:0.20, G:0.06, T:0.08
Consensus pattern (22 bp):
AAACAATGCAAAAACAAAGCAA
Found at i:25360208 original size:6 final size:6
Alignment explanation
Indices: 25360194--25360245 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
25360184 AAATAGTAGC
* * * *
25360194 AATCAA AATCCA AATCAA AATTGAA AATGAA AATCAA AATCCA AATCAA
1 AATCAA AATCAA AATCAA AA-TCAA AATCAA AATCAA AATCAA AATCAA
25360243 AAT
1 AAT
25360246 AGAATAAACC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
6 34 0.87
7 5 0.13
ACGTcount: A:0.62, C:0.15, G:0.04, T:0.19
Consensus pattern (6 bp):
AATCAA
Found at i:25360262 original size:47 final size:47
Alignment explanation
Indices: 25360211--25360301 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
25360201 ATCCAAATCA
*
25360211 AAATTGAAAATGAAAATCAAAATCCAAATCAAAATAGAATAAACCTT
1 AAATTGAAAATCAAAATCAAAATCCAAATCAAAATAGAATAAACCTT
* * * * * *
25360258 AAATTGAAAATCACAATCAATATCGACATCAAATTTGAATAAAC
1 AAATTGAAAATCAAAATCAAAATCCAAATCAAAATAGAATAAAC
25360302 ACAAAATAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.56, C:0.14, G:0.07, T:0.23
Consensus pattern (47 bp):
AAATTGAAAATCAAAATCAAAATCCAAATCAAAATAGAATAAACCTT
Found at i:25363052 original size:13 final size:13
Alignment explanation
Indices: 25363034--25363061 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25363024 GAGAGCCATT
25363034 AGCAAAGGAGCGA
1 AGCAAAGGAGCGA
25363047 AGCAAAGGAGCGA
1 AGCAAAGGAGCGA
25363060 AG
1 AG
25363062 GAGTCTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.39, T:0.00
Consensus pattern (13 bp):
AGCAAAGGAGCGA
Found at i:25374254 original size:16 final size:16
Alignment explanation
Indices: 25374233--25374265 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25374223 ATTATGCTTG
25374233 CTTAATTCATATCCGA
1 CTTAATTCATATCCGA
25374249 CTTAATTCATATCCGA
1 CTTAATTCATATCCGA
25374265 C
1 C
25374266 CTAGAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.36
Consensus pattern (16 bp):
CTTAATTCATATCCGA
Found at i:25374544 original size:44 final size:46
Alignment explanation
Indices: 25374450--25374544 Score: 133
Period size: 44 Copynumber: 2.1 Consensus size: 46
25374440 ATAGAGCTGT
*
25374450 AATGGAATAGAGCTATAATTAGTAATTCAGTTGTTTGGTTGAATGA
1 AATGGAATAGAGCTATAATTACTAATTCAGTTGTTTGGTTGAATGA
* *
25374496 AATGGAATAGAGCTATAA-TACT-ATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAGCTATAATTACTAATTCAGT-TGTTTGGTTGAATGA
25374540 AATGG
1 AATGG
25374545 TACTATAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 3 0.07
46 18 0.40
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGCTATAATTACTAATTCAGTTGTTTGGTTGAATGA
Found at i:25374740 original size:38 final size:37
Alignment explanation
Indices: 25374677--25374748 Score: 117
Period size: 38 Copynumber: 1.9 Consensus size: 37
25374667 AATAATAAAT
*
25374677 AATTTAATTATATTTTAACATAATTATTATTAAATAC
1 AATTTAATAATATTTTAACATAATTATTATTAAATAC
*
25374714 AATTTAATAATATTTTTAATATAATTATTATTAAA
1 AATTTAATAATA-TTTTAACATAATTATTATTAAA
25374749 ATATGAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 11 0.34
38 21 0.66
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (37 bp):
AATTTAATAATATTTTAACATAATTATTATTAAATAC
Found at i:25374773 original size:39 final size:38
Alignment explanation
Indices: 25374696--25374775 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 38
25374686 ATATTTTAAC
* * *
25374696 ATAATTATTATTAAATACAATTTAATAATATTTTTAAT
1 ATAATTATTATTAAATACAATTTAATAAAAATTATAAT
* *
25374734 ATAATTATTATTAAAATATGAA-TTAGTAAAAATTATAAT
1 ATAATTATTATT-AAATA-CAATTTAATAAAAATTATAAT
25374773 ATA
1 ATA
25374776 TAATATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
38 12 0.34
39 21 0.60
40 2 0.06
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (38 bp):
ATAATTATTATTAAATACAATTTAATAAAAATTATAAT
Found at i:25377766 original size:24 final size:24
Alignment explanation
Indices: 25377739--25377794 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
25377729 GACTAATAAG
* *
25377739 AGTTTTACTCAAACAACTAAACAA
1 AGTTTAACTCAAACAAATAAACAA
* * *
25377763 AGTTTAATTGAAACAAATAAACAG
1 AGTTTAACTCAAACAAATAAACAA
25377787 AGTTTAAC
1 AGTTTAAC
25377795 CGAAAGACTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.27
Consensus pattern (24 bp):
AGTTTAACTCAAACAAATAAACAA
Found at i:25382297 original size:36 final size:36
Alignment explanation
Indices: 25382250--25382350 Score: 132
Period size: 36 Copynumber: 2.8 Consensus size: 36
25382240 TATAATCAGT
* *
25382250 CACATGACATGAAGAACATACTCACATATTTTTTGC
1 CACATGGCATGAAGAACATACCCACATATTTTTTGC
* * *
25382286 CTCATGGCATGAAGAACATACCCACATATCTTTTGT
1 CACATGGCATGAAGAACATACCCACATATTTTTTGC
* *
25382322 CACATAGTA-GAAGAACATACCCACATATT
1 CACATGGCATGAAGAACATACCCACATATT
25382351 CACTTTCACA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
35 19 0.34
36 37 0.66
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.28
Consensus pattern (36 bp):
CACATGGCATGAAGAACATACCCACATATTTTTTGC
Found at i:25382465 original size:23 final size:23
Alignment explanation
Indices: 25382437--25383034 Score: 747
Period size: 23 Copynumber: 26.1 Consensus size: 23
25382427 TTCTTTAATG
*
25382437 ACAAATCACATTAATATTTAATC
1 ACAAATCACATTAATATTTAAGC
* * *
25382460 ATAAATCATATT-A-ATTAAAGC
1 ACAAATCACATTAATATTTAAGC
*
25382481 ACAAATCACATTAATATTTGAGC
1 ACAAATCACATTAATATTTAAGC
* *
25382504 ACAAATCATATTAATATTTGAGC
1 ACAAATCACATTAATATTTAAGC
* *
25382527 ACAAATCATATTAATATGTAAGC
1 ACAAATCACATTAATATTTAAGC
*
25382550 ACAAATCACATTAATATTTGAGC
1 ACAAATCACATTAATATTTAAGC
* *
25382573 ACAAACCATATTAATATTTAAGC
1 ACAAATCACATTAATATTTAAGC
25382596 ACAAATCACATTAATATTTAAGC
1 ACAAATCACATTAATATTTAAGC
*
25382619 ACAAATCACATTAATATTTAAGT
1 ACAAATCACATTAATATTTAAGC
* * *
25382642 ATAAATCATATTAATATCTAAGC
1 ACAAATCACATTAATATTTAAGC
* * *
25382665 ACAAATCACATTAGTATTTGAGT
1 ACAAATCACATTAATATTTAAGC
*
25382688 ACAAATCATATTAATATTTACA-C
1 ACAAATCACATTAATATTTA-AGC
* *
25382711 ACAAATCACATTAATATTGAAGA
1 ACAAATCACATTAATATTTAAGC
* * *
25382734 AAAAATCAAATTAATATTTAAGA
1 ACAAATCACATTAATATTTAAGC
* * *
25382757 ATAAAT-ATATTAATATCTAAGC
1 ACAAATCACATTAATATTTAAGC
*
25382779 ACAAATCACATTAATATTTGAGC
1 ACAAATCACATTAATATTTAAGC
*
25382802 ACAAATCATATTAATATTTAAGC
1 ACAAATCACATTAATATTTAAGC
*
25382825 ACAAATCACATTAATATTGAAGC
1 ACAAATCACATTAATATTTAAGC
*
25382848 AAAAATCACATTAATATTTAAGC
1 ACAAATCACATTAATATTTAAGC
25382871 ACAAATCACATTAATATTTAAGC
1 ACAAATCACATTAATATTTAAGC
* * *
25382894 ATAAATCACATTAATATTTGAGA
1 ACAAATCACATTAATATTTAAGC
*
25382917 ACAAATCATATTAATATTTAAGC
1 ACAAATCACATTAATATTTAAGC
*
25382940 ACAAATCACATTAATATTTTAGC
1 ACAAATCACATTAATATTTAAGC
* *
25382963 ATAAATCATATTAATATTTAAGC
1 ACAAATCACATTAATATTTAAGC
* **
25382986 ATAAATCGTATTAATATTTAA-C
1 ACAAATCACATTAATATTTAAGC
* *
25383008 AATAAATCATATTAATATTTAAGC
1 -ACAAATCACATTAATATTTAAGC
25383032 ACA
1 ACA
25383035 GATATAAGAA
Statistics
Matches: 498, Mismatches: 70, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
21 16 0.03
22 22 0.04
23 458 0.92
24 2 0.00
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.33
Consensus pattern (23 bp):
ACAAATCACATTAATATTTAAGC
Found at i:25384850 original size:3 final size:3
Alignment explanation
Indices: 25384844--25384881 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
25384834 AAAATCAACA
25384844 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25384882 CAATGATGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:25386555 original size:50 final size:49
Alignment explanation
Indices: 25386501--25386867 Score: 202
Period size: 50 Copynumber: 7.3 Consensus size: 49
25386491 GCCCCATGGT
*
25386501 AACTTCATGGAGATAAGATTTGTCATTGTAGCTTCACTCCATTCCACTGC
1 AACTTCAGGGAGATAAGATTTGT-ATTGTAGCTTCACTCCATTCCACTGC
* * * ** * * * * *
25386551 AACTTCAAGGAGATTGAGATTCGCTATCATAGTTTTAATTCGA-TCCACCGC
1 AACTTCAGGGAGA-TAAGATTTG-TATTGTAG-CTTCACTCCATTCCACTGC
* * * * * * *
25386602 AACTTTAGGGATATAGGATTTGGTATTGTAACTTTACTCTATTCCACTAC
1 AACTTCAGGGAGATAAGATTT-GTATTGTAGCTTCACTCCATTCCACTGC
* * ** * * * *
25386652 AACTTCAGGGAGATTGAGATTCAT-TATCGTAATTTTAATTCGA-TCCACTAC
1 AACTTCAGGGAGA-TAAGATT--TGTATTGT-AGCTTCACTCCATTCCACTGC
* * * *
25386703 AACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCACTGC
1 AACTTCAGGGAGATAAGATTT-GTATTGTAGCTTCACTCCATTCCACTGC
* * * * * * *
25386753 AACTTCAGAGAAATTGAGATTTGTTATCGTAGTTTTAATCCGA-TCCACTGC
1 AACTTCAGGGAGA-TAAGATTTG-TATTGTAGCTTCACTCC-ATTCCACTGC
* * * * *
25386804 AACTTCAAGGATATAGGATTTGGTGTTGTACCTTCACTCCATTCCACTGC
1 AACTTCAGGGAGATAAGATTT-GTATTGTAGCTTCACTCCATTCCACTGC
25386854 AACTTCAGGGAGAT
1 AACTTCAGGGAGAT
25386868 TGAGATCCAT
Statistics
Matches: 231, Mismatches: 69, Indels: 34
0.69 0.21 0.10
Matches are distributed among these distances:
48 1 0.00
49 14 0.06
50 104 0.45
51 96 0.42
52 15 0.06
53 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (49 bp):
AACTTCAGGGAGATAAGATTTGTATTGTAGCTTCACTCCATTCCACTGC
Found at i:25386647 original size:101 final size:101
Alignment explanation
Indices: 25386501--25386926 Score: 520
Period size: 101 Copynumber: 4.2 Consensus size: 101
25386491 GCCCCATGGT
* * * *
25386501 AACTTCATGGAGATAAGATTT-GTCATTGTAGCTTCACTCCATTCCACTGCAACTTCAAGGAGAT
1 AACTTCAGGGATATAGGATTTGGT-ATTGTAACTTCACTCCATTCCACTGCAACTTCAAGGAGAT
* * *
25386565 TGAGATTCGCTATCATAGTTTTAATTCGATCCACCGC
65 TGAGATTCGTTATCGTAGTTTTAATTCGATCCACTGC
* * * * *
25386602 AACTTTAGGGATATAGGATTTGGTATTGTAACTTTACTCTATTCCACTACAACTTCAGGGAGATT
1 AACTTCAGGGATATAGGATTTGGTATTGTAACTTCACTCCATTCCACTGCAACTTCAAGGAGATT
* * *
25386667 GAGATTCATTATCGTAATTTTAATTCGATCCACTAC
66 GAGATTCGTTATCGTAGTTTTAATTCGATCCACTGC
* *
25386703 AACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCACTGCAACTTC-AGAGAAAT
1 AACTTCAGGGATATAGGATTTGGTATTGTAACTTCACTCCATTCCACTGCAACTTCAAG-GAGAT
* *
25386767 TGAGATTTGTTATCGTAGTTTTAATCCGATCCACTGC
65 TGAGATTCGTTATCGTAGTTTTAATTCGATCCACTGC
* * * *
25386804 AACTTCAAGGATATAGGATTTGGTGTTGTACCTTCACTCCATTCCACTGCAACTTCAGGGAGATT
1 AACTTCAGGGATATAGGATTTGGTATTGTAACTTCACTCCATTCCACTGCAACTTCAAGGAGATT
** * *
25386869 GAGA-TCCATAACTGTAATTTTAA-TCTGATCCACTGC
66 GAGATTCGTTATC-GTAGTTTTAATTC-GATCCACTGC
*
25386905 AACTTC-GTTGATATAGGATTTG
1 AACTTCAG-GGATATAGGATTTG
25386927 TTGTTTCACT
Statistics
Matches: 280, Mismatches: 39, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
100 6 0.02
101 271 0.97
102 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (101 bp):
AACTTCAGGGATATAGGATTTGGTATTGTAACTTCACTCCATTCCACTGCAACTTCAAGGAGATT
GAGATTCGTTATCGTAGTTTTAATTCGATCCACTGC
Found at i:25386705 original size:51 final size:51
Alignment explanation
Indices: 25386543--25386910 Score: 230
Period size: 51 Copynumber: 7.3 Consensus size: 51
25386533 TTCACTCCAT
* * * * *
25386543 TCCACTGCAACTTCAAGGAGATTGAGATTCGCTATCATAGTTTTAATTCGA
1 TCCACTGCAACTTCAGGGAGATTGAGATTTGGTATCGTAATTTTAATTCGA
* * * * * * * *
25386594 TCCACCGCAACTTTAGGGATATAG-GATTTGGTATTGTAACTTT-ACTCTA
1 TCCACTGCAACTTCAGGGAGATTGAGATTTGGTATCGTAATTTTAATTCGA
* ***
25386643 TTCCACTACAACTTCAGGGAGATTGAGATTCATTATCGTAATTTTAATTCGA
1 -TCCACTGCAACTTCAGGGAGATTGAGATTTGGTATCGTAATTTTAATTCGA
* * * * * * * * *
25386695 TCCACTACAACTTCAGGGATATAG-GATTTGGTGTTGTAA-CTTCACTCCA
1 TCCACTGCAACTTCAGGGAGATTGAGATTTGGTATCGTAATTTTAATTCGA
* * * * *
25386744 TTCCACTGCAACTTCAGAGAAATTGAGATTTGTTATCGTAGTTTTAATCCGA
1 -TCCACTGCAACTTCAGGGAGATTGAGATTTGGTATCGTAATTTTAATTCGA
* * * * * ** * * *
25386796 TCCACTGCAACTTCAAGGATATAG-GATTTGGTGTTGT-ACCTTCACTCCA
1 TCCACTGCAACTTCAGGGAGATTGAGATTTGGTATCGTAATTTTAATTCGA
*** *
25386845 TTCCACTGCAACTTCAGGGAGATTGAGA-TCCATAACTGTAATTTTAA-TCTGA
1 -TCCACTGCAACTTCAGGGAGATTGAGATTTGGTATC-GTAATTTTAATTC-GA
25386897 TCCACTGCAACTTC
1 TCCACTGCAACTTC
25386911 GTTGATATAG
Statistics
Matches: 230, Mismatches: 76, Indels: 22
0.70 0.23 0.07
Matches are distributed among these distances:
49 15 0.07
50 95 0.41
51 106 0.46
52 14 0.06
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (51 bp):
TCCACTGCAACTTCAGGGAGATTGAGATTTGGTATCGTAATTTTAATTCGA
Found at i:25386850 original size:202 final size:202
Alignment explanation
Indices: 25386526--25386931 Score: 577
Period size: 202 Copynumber: 2.0 Consensus size: 202
25386516 AGATTTGTCA
* * *
25386526 TTGTAGCTTCACTCCATTCCACTGCAACTTCAAGGAGATTGAGATTCGCTATCATAGTTTTAATT
1 TTGTAACTTCACTCCATTCCACTGCAACTTCAAGGAAATTGAGATTCGCTATCATAGTTTTAATC
* * * *
25386591 CGATCCACCGCAACTTTAGGGATATAGGATTTGGTATTGTAACTTTACTCTATTCCACTACAACT
66 CGATCCACCGCAACTTCAAGGATATAGGATTTGGTATTGTAACTTCACTCCATTCCACTACAACT
* *
25386656 TCAGGGAGATTGAGATTCATTA-TCGTAATTTTAAT-TCGATCCACTACAACTTCAG-GGATATA
131 TCAGGGAGATTGAGATCCATAACT-GTAATTTTAATCT-GATCCACTACAACTTC-GTGGATATA
25386718 GGATTTGGTG
193 GGATTTGGTG
* * *
25386728 TTGTAACTTCACTCCATTCCACTGCAACTTC-AGAGAAATTGAGATTTGTTATCGTAGTTTTAAT
1 TTGTAACTTCACTCCATTCCACTGCAACTTCAAG-GAAATTGAGATTCGCTATCATAGTTTTAAT
* * * *
25386792 CCGATCCACTGCAACTTCAAGGATATAGGATTTGGTGTTGTACCTTCACTCCATTCCACTGCAAC
65 CCGATCCACCGCAACTTCAAGGATATAGGATTTGGTATTGTAACTTCACTCCATTCCACTACAAC
* *
25386857 TTCAGGGAGATTGAGATCCATAACTGTAATTTTAATCTGATCCACTGCAACTTCGTTGATATAGG
130 TTCAGGGAGATTGAGATCCATAACTGTAATTTTAATCTGATCCACTACAACTTCGTGGATATAGG
*
25386922 ATTTGTTG
195 ATTTGGTG
25386930 TT
1 TT
25386932 TCACTGGCCC
Statistics
Matches: 181, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
201 3 0.02
202 176 0.97
203 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (202 bp):
TTGTAACTTCACTCCATTCCACTGCAACTTCAAGGAAATTGAGATTCGCTATCATAGTTTTAATC
CGATCCACCGCAACTTCAAGGATATAGGATTTGGTATTGTAACTTCACTCCATTCCACTACAACT
TCAGGGAGATTGAGATCCATAACTGTAATTTTAATCTGATCCACTACAACTTCGTGGATATAGGA
TTTGGTG
Found at i:25400302 original size:3 final size:3
Alignment explanation
Indices: 25400294--25400348 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
25400284 AAAATAAACA
25400294 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25400342 AAT AAT A
1 AAT AAT A
25400349 GCAATGATGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25410191 original size:15 final size:16
Alignment explanation
Indices: 25410168--25410200 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25410158 AGGTAGACGA
25410168 CAAAACAAATCAA-AT
1 CAAAACAAATCAATAT
*
25410183 CAAATCAAATCAATAT
1 CAAAACAAATCAATAT
25410199 CA
1 CA
25410201 CAAAATCGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.61, C:0.21, G:0.00, T:0.18
Consensus pattern (16 bp):
CAAAACAAATCAATAT
Found at i:25411169 original size:27 final size:27
Alignment explanation
Indices: 25411132--25411204 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 27
25411122 AACTAAAACT
* *
25411132 TTTAAATTTTTTTTAAAAAAACTTAAT
1 TTTAAAGTTTTTTTAAAAAAACTTAAA
* *
25411159 TTTTAAG-TTTTTAAATTAAAAACTTAAA
1 TTTAAAGTTTTTTTAA--AAAAACTTAAA
*
25411187 TTTAAAGTTTTATTAAAA
1 TTTAAAGTTTTTTTAAAA
25411205 TATAAATACT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
26 7 0.19
27 7 0.19
28 16 0.44
29 6 0.17
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (27 bp):
TTTAAAGTTTTTTTAAAAAAACTTAAA
Found at i:25416770 original size:26 final size:25
Alignment explanation
Indices: 25416713--25416786 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 25
25416703 AAAAGATTTG
*
25416713 ACTCTTGACCTTTCACTTACT-AAAA
1 ACTCTTGATCTTTCAC-TACTAAAAA
*
25416738 ACTCTTGATCTTTTATCTACTAAAAA
1 ACTCTTGATCTTTCA-CTACTAAAAA
25416764 ACTCTTGATCTTTCACCTACTAA
1 ACTCTTGATCTTTCA-CTACTAA
25416787 CTACTAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 17 0.40
26 26 0.60
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.39
Consensus pattern (25 bp):
ACTCTTGATCTTTCACTACTAAAAA
Found at i:25420162 original size:12 final size:12
Alignment explanation
Indices: 25420136--25420185 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
25420126 TCAGGGAGGT
* *
25420136 AAGAGAAGGATG
1 AAGAAAAGGAAG
*
25420148 AAGAAAAAGAAG
1 AAGAAAAGGAAG
*
25420160 AAGGAAAGGAAG
1 AAGAAAAGGAAG
*
25420172 AAGAGAAGGAAG
1 AAGAAAAGGAAG
25420184 AA
1 AA
25420186 ACTGAACCTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (12 bp):
AAGAAAAGGAAG
Found at i:25431008 original size:21 final size:21
Alignment explanation
Indices: 25430982--25431021 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
25430972 ACCATCATCC
25430982 AACCAATTGCTTTTTTAAAGA
1 AACCAATTGCTTTTTTAAAGA
25431003 AACCAATTGCTTTTTTAAA
1 AACCAATTGCTTTTTTAAA
25431022 TTTCTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (21 bp):
AACCAATTGCTTTTTTAAAGA
Found at i:25440385 original size:16 final size:17
Alignment explanation
Indices: 25440364--25440397 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25440354 CTTGAAACCC
*
25440364 TAAATA-CTAACCATTA
1 TAAATATCTAAACATTA
25440380 TAAATATCTAAACATTA
1 TAAATATCTAAACATTA
25440397 T
1 T
25440398 TCTAACTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAATATCTAAACATTA
Found at i:25440819 original size:37 final size:37
Alignment explanation
Indices: 25440726--25440819 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 37
25440716 ATTTTTGGAA
* *
25440726 TGCACCCAAGACTGTCACTGCATAAATATTCTTCAAAT
1 TGCACCC-AGAATGTCGCTGCATAAATATTCTTCAAAT
* * * *
25440764 TGCATCCAGAACTATCGCTGCATAAGTATTCTTC-GAT
1 TGCACCCAGAA-TGTCGCTGCATAAATATTCTTCAAAT
25440801 TGCACCCAGGAATGTCGCT
1 TGCACCCA-GAATGTCGCT
25440820 ATATAAACAT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
37 18 0.39
38 28 0.61
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (37 bp):
TGCACCCAGAATGTCGCTGCATAAATATTCTTCAAAT
Found at i:25444023 original size:16 final size:15
Alignment explanation
Indices: 25443996--25444037 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
25443986 CCTCAATCTC
25443996 ATAAAA-AAAAGAAGA
1 ATAAAAGAAAAGAA-A
25444011 ATAAAAGAAAAGAAA
1 ATAAAAGAAAAGAAA
*
25444026 AGAAAAAGAAAA
1 A-TAAAAGAAAA
25444038 ATATTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (15 bp):
ATAAAAGAAAAGAAA
Found at i:25445431 original size:16 final size:16
Alignment explanation
Indices: 25445410--25445440 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25445400 TTGTGGATCC
25445410 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
25445426 CATTTTATCTTTATT
1 CATTTTACCTTTATT
25445441 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:25456167 original size:27 final size:28
Alignment explanation
Indices: 25456136--25456189 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
25456126 TGAAAATTGT
*
25456136 TTATGTTTTATATAAAAA-AATAAAATG
1 TTATGTTTTATACAAAAAGAATAAAATG
25456163 TTATGTTTTATACAAAAATGAATAAAA
1 TTATGTTTTATACAAAAA-GAATAAAA
25456190 AAATTACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
29 7 0.29
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (28 bp):
TTATGTTTTATACAAAAAGAATAAAATG
Found at i:25456238 original size:12 final size:12
Alignment explanation
Indices: 25456223--25456254 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
25456213 ATAAATAAAT
25456223 ACAATTAATAAC
1 ACAATTAATAAC
*
25456235 ACAATTAATACC
1 ACAATTAATAAC
25456247 ACAATTAA
1 ACAATTAA
25456255 ATAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (12 bp):
ACAATTAATAAC
Found at i:25456414 original size:30 final size:33
Alignment explanation
Indices: 25456378--25456437 Score: 90
Period size: 30 Copynumber: 1.9 Consensus size: 33
25456368 AAATCAAACA
*
25456378 TAATTAAAT-CAAGG-AAAAAATA-AAAATATG
1 TAATTAAATAAAAGGCAAAAAATATAAAATATG
25456408 TAATTAAATAAAAGGCAAAAAATATAAAAT
1 TAATTAAATAAAAGGCAAAAAATATAAAAT
25456438 GACATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 9 0.35
31 4 0.15
32 8 0.31
33 5 0.19
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.23
Consensus pattern (33 bp):
TAATTAAATAAAAGGCAAAAAATATAAAATATG
Found at i:25456454 original size:4 final size:4
Alignment explanation
Indices: 25456445--25456536 Score: 54
Period size: 4 Copynumber: 23.8 Consensus size: 4
25456435 AATGACATAA
* *
25456445 AAAT AAAT -AAC AAAT AAAT AAAT AAA- AACA- AAAT AAAA AAAT AAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT
* * *
25456490 AATT AAAT -ACT AAAAT AAAT GAAT AAAT ACAAAT AAA- AAAT -AAT AAA
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT --AAAT AAAT AAAT AAAT AAA
25456537 AGGGACTAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 20
0.69 0.10 0.20
Matches are distributed among these distances:
3 15 0.22
4 47 0.69
5 2 0.03
6 4 0.06
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:25456459 original size:11 final size:10
Alignment explanation
Indices: 25456427--25456536 Score: 55
Period size: 11 Copynumber: 10.3 Consensus size: 10
25456417 AAAAGGCAAA
25456427 AAATATAAAAT
1 AAATA-AAAAT
*
25456438 GACATAAAAAT
1 -AAATAAAAAT
25456449 AAATAACAAAT
1 AAATAA-AAAT
*
25456460 AAATAAATAAA
1 AAATAAA-AAT
* *
25456471 AACAAAATAAAA
1 AA-ATAA-AAAT
25456483 AAATAAAAATT
1 AAATAAAAA-T
25456494 AAATACTAAAAT
1 AAATA--AAAAT
*
25456506 AAAT--GAAT
1 AAATAAAAAT
*
25456514 AAATACAAAT
1 AAATAAAAAT
25456524 AAA-AAATAAT
1 AAATAAA-AAT
25456534 AAA
1 AAA
25456537 AGGGACTAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
8 7 0.09
9 2 0.03
10 21 0.27
11 27 0.34
12 17 0.22
13 5 0.06
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.20
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:25456469 original size:19 final size:19
Alignment explanation
Indices: 25456443--25456491 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
25456433 AAAATGACAT
25456443 AAAAATAAATAAC-AAATAA
1 AAAAATAAA-AACAAAATAA
*
25456462 ATAAATAAAAACAAAATAA
1 AAAAATAAAAACAAAATAA
25456481 AAAAATAAAAA
1 AAAAATAAAAA
25456492 TTAAATACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 3 0.11
19 24 0.89
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (19 bp):
AAAAATAAAAACAAAATAA
Found at i:25456508 original size:46 final size:43
Alignment explanation
Indices: 25456441--25456529 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 43
25456431 ATAAAATGAC
25456441 ATAAAAATAAATAACAAATAAATAAATAAAAACAAAATAAAAAA
1 ATAAAAATAAATAACAAATAAATAAATAAAAAC-AAATAAAAAA
* *
25456485 ATAAAAATTAAAT-ACTAAAATAAATGAATAAATACAAATAAAAAA
1 ATAAAAA-TAAATAAC--AAATAAATAAATAAAAACAAATAAAAAA
25456530 TAATAAAAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
44 9 0.22
45 15 0.38
46 16 0.40
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (43 bp):
ATAAAAATAAATAACAAATAAATAAATAAAAACAAATAAAAAA
Found at i:25457426 original size:6 final size:6
Alignment explanation
Indices: 25457415--25457439 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25457405 AAGAAAAAAA
25457415 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
25457440 TTTAGCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:25458370 original size:50 final size:51
Alignment explanation
Indices: 25458316--25458439 Score: 146
Period size: 50 Copynumber: 2.4 Consensus size: 51
25458306 ACTCTACTGC
* * *
25458316 AACTTCAGAGAGATAAAGATTTGCTACTG-TAGCTTTAATTTGATTCA-TGT
1 AACTTTAG-GAGATAAAGATTTGCTACTGTTAGCTTTAATCTGATCCATTGT
** *
25458366 AACTTTAGGGAGATTGAGATCTGCTACTGTTAGCTTTAATCTGATCCATTGT
1 AACTTTA-GGAGATAAAGATTTGCTACTGTTAGCTTTAATCTGATCCATTGT
25458418 AACTTTAGG-GATATAAGATTTG
1 AACTTTAGGAGATA-AAGATTTG
25458440 GTGTTGTGGT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
50 26 0.43
51 25 0.41
52 10 0.16
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (51 bp):
AACTTTAGGAGATAAAGATTTGCTACTGTTAGCTTTAATCTGATCCATTGT
Found at i:25458428 original size:52 final size:50
Alignment explanation
Indices: 25458332--25458428 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 50
25458322 AGAGAGATAA
* * *
25458332 AGATTTGCTACTGTAGCTTTAATTTGATTCATGTAACTTTAGGGAGATTG
1 AGATCTGCTACTGTAGCTTTAATCTGATCCATGTAACTTTAGGGAGATTG
25458382 AGATCTGCTACTGTTAGCTTTAATCTGATCCATTGTAACTTTAGGGA
1 AGATCTGCTACTG-TAGCTTTAATCTGATCCA-TGTAACTTTAGGGA
25458429 TATAAGATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 12 0.29
51 16 0.38
52 14 0.33
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (50 bp):
AGATCTGCTACTGTAGCTTTAATCTGATCCATGTAACTTTAGGGAGATTG
Found at i:25458489 original size:102 final size:100
Alignment explanation
Indices: 25458382--25458682 Score: 354
Period size: 102 Copynumber: 3.0 Consensus size: 100
25458372 AGGGAGATTG
* *
25458382 AGATCTGCTACTGTTAGCTTTAATCTGATCCATTGTAACTTTAGGGATATAAGATTTGGTGTTGT
1 AGATCTACTACTGTTAG-TTTAATCTGATCCATTGTAACTTTAGGGATATAGGATTTGG-GTTGT
*
25458447 GGTTTCACTCCATTCAACTGCAACTTCAAGGAGACTA
64 GGTTTCACTCCATTCCACTGCAACTTCAAGGAGACTA
*
25458484 AGATCTACTACTGTTAGTTTTAAT-TCGATCCATTGCAA-TTGTAGGGATATAGGATTTGGGATT
1 AGATCTACTACTGTTAG-TTTAATCT-GATCCATTGTAACTT-TAGGGATATAGGATTTGGG-TT
*** * * * *
25458547 GTGCCCTCACTCCATTCCACTACAACTTCAGGGAGATTG
62 GTGGTTTCACTCCATTCCACTGCAACTTCAAGGAGACTA
* * * * * *
25458586 GGATCTACTACTGTTCGTTATAATCCGATCCACTGTAACTTCAAGGATATAGGATTTGGGGTTGT
1 AGATCTACTACTGTTAGTT-TAATCTGATCCATTGTAACTTTAGGGATATAGGATTT-GGGTTGT
*
25458651 GGTTTCACTCCATTCCACTGCAACCTCAAGGA
64 GGTTTCACTCCATTCCACTGCAACTTCAAGGA
25458683 TATAGGATTT
Statistics
Matches: 167, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
101 6 0.04
102 156 0.93
103 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (100 bp):
AGATCTACTACTGTTAGTTTAATCTGATCCATTGTAACTTTAGGGATATAGGATTTGGGTTGTGG
TTTCACTCCATTCCACTGCAACTTCAAGGAGACTA
Found at i:25458689 original size:50 final size:50
Alignment explanation
Indices: 25458614--25458724 Score: 186
Period size: 50 Copynumber: 2.2 Consensus size: 50
25458604 TATAATCCGA
* * *
25458614 TCCACTGTAACTTCAAGGATATAGGATTTGGGGTTGTGGTTTCACTCCAT
1 TCCACTGCAACCTCAAGGATATAGGATTTGGGGTTGTGGCTTCACTCCAT
25458664 TCCACTGCAACCTCAAGGATATAGGATTTGGGGTTGTGGCTTCACTCCAT
1 TCCACTGCAACCTCAAGGATATAGGATTTGGGGTTGTGGCTTCACTCCAT
*
25458714 TCCACTACAAC
1 TCCACTGCAAC
25458725 TTTAAAGAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (50 bp):
TCCACTGCAACCTCAAGGATATAGGATTTGGGGTTGTGGCTTCACTCCAT
Found at i:25458711 original size:152 final size:152
Alignment explanation
Indices: 25458528--25458841 Score: 421
Period size: 152 Copynumber: 2.1 Consensus size: 152
25458518 GCAATTGTAG
** * *
25458528 GGATATAGGATTTGGGATTGTGCCCTCACTCCATTCCACTACAACTTCAGGGAGATTGGGATCTA
1 GGATATAGGATTTGGGATTGTGCCCTCACTCCATTCCACTACAACTTCAAAGAGATTGAGATATA
* * ** * * * *
25458593 CTACTGTTCGTTATAATCCGATCCACTGTAACTTCAAGGATATAGGATTTGGGGTTGTGGTTTCA
66 CTACTGTTAGTTATAATCAGATCCACTACAAATTCAAGGATACAGGATTTGGGCTTGTGGCTTCA
25458658 CTCCATTCCACTGCAACCTCAA
131 CTCCATTCCACTGCAACCTCAA
* * * *
25458680 GGATATAGGATTTGGGGTTGTGGCTTCACTCCATTCCACTACAACTTTAAAGAGATTGAGATATA
1 GGATATAGGATTTGGGATTGTGCCCTCACTCCATTCCACTACAACTTCAAAGAGATTGAGATATA
* * * * *
25458745 TTACTGTTAGTTTTAATTAGATCCACTACAAATTCAGGGATACAGGATTTGGTCTTGTGGCTTCA
66 CTACTGTTAGTTATAATCAGATCCACTACAAATTCAAGGATACAGGATTTGGGCTTGTGGCTTCA
* *
25458810 CTCCATTCCACTGCAACTTCAG
131 CTCCATTCCACTGCAACCTCAA
25458832 GGATATAGGA
1 GGATATAGGA
25458842 GTTGTTGTTT
Statistics
Matches: 139, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
152 139 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (152 bp):
GGATATAGGATTTGGGATTGTGCCCTCACTCCATTCCACTACAACTTCAAAGAGATTGAGATATA
CTACTGTTAGTTATAATCAGATCCACTACAAATTCAAGGATACAGGATTTGGGCTTGTGGCTTCA
CTCCATTCCACTGCAACCTCAA
Found at i:25459424 original size:19 final size:19
Alignment explanation
Indices: 25459402--25459456 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
25459392 GAAAAGATTA
25459402 AAAATAACAAACATTGGTC
1 AAAATAACAAACATTGGTC
***
25459421 AAAATGTTAAACATTGGTC
1 AAAATAACAAACATTGGTC
25459440 AAAA-AAGGCAAACATTG
1 AAAATAA--CAAACATTG
25459457 ATAAAAAATG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.22
Consensus pattern (19 bp):
AAAATAACAAACATTGGTC
Found at i:25459462 original size:19 final size:20
Alignment explanation
Indices: 25459409--25459502 Score: 81
Period size: 19 Copynumber: 4.9 Consensus size: 20
25459399 TTAAAAATAA
* *
25459409 CAAACATTGGTC-AAAATGT
1 CAAACATTGGTCAAAAAAGG
*
25459428 TAAACATTGGTCAAAAAAGG
1 CAAACATTGGTCAAAAAAGG
*
25459448 CAAACATTGAT-AAAAAATGG
1 CAAACATTGGTCAAAAAA-GG
* *
25459468 CAAA-A-TAGTCAAAAATGG
1 CAAACATTGGTCAAAAAAGG
*
25459486 CTAACATTGGT-AAAAAA
1 CAAACATTGGTCAAAAAA
25459503 TTGCTAAACA
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
18 7 0.12
19 29 0.49
20 23 0.39
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (20 bp):
CAAACATTGGTCAAAAAAGG
Found at i:25459481 original size:18 final size:19
Alignment explanation
Indices: 25459437--25459492 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
25459427 TTAAACATTG
* *
25459437 GTCAAAAAAGGCAAACATT
1 GTCAAAAATGGCAAACATA
*
25459456 GATAAAAAATGGCAAA-ATA
1 G-TCAAAAATGGCAAACATA
*
25459475 GTCAAAAATGGCTAACAT
1 GTCAAAAATGGCAAACAT
25459493 TGGTAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 12 0.40
19 6 0.20
20 12 0.40
ACGTcount: A:0.54, C:0.12, G:0.16, T:0.18
Consensus pattern (19 bp):
GTCAAAAATGGCAAACATA
Found at i:25459503 original size:20 final size:20
Alignment explanation
Indices: 25459430--25459509 Score: 76
Period size: 20 Copynumber: 4.1 Consensus size: 20
25459420 CAAAATGTTA
*
25459430 AACATTGGTCAAAAAA-GGCA
1 AACATTGGT-AAAAAATGGCT
*
25459450 AACATTGATAAAAAATGGC-
1 AACATTGGTAAAAAATGGCT
* * *
25459469 AA-AATAGTCAAAAATGGCT
1 AACATTGGTAAAAAATGGCT
*
25459488 AACATTGGTAAAAAATTGCT
1 AACATTGGTAAAAAATGGCT
25459508 AA
1 AA
25459510 ACACAAGGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
18 12 0.25
19 10 0.21
20 26 0.54
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.21
Consensus pattern (20 bp):
AACATTGGTAAAAAATGGCT
Found at i:25464751 original size:18 final size:17
Alignment explanation
Indices: 25464707--25464756 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
25464697 ATAAAATGAC
*
25464707 ATAAAAA-TAAATAACAG
1 ATAAAAATTAAA-AACAA
25464724 ATAAATAATTAAAAACAAA
1 ATAAA-AATTAAAAAC-AA
25464743 ATAAAAATTAAAAA
1 ATAAAAATTAAAAA
25464757 TTAAATACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 14 0.48
19 10 0.34
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (17 bp):
ATAAAAATTAAAAACAA
Found at i:25464799 original size:20 final size:20
Alignment explanation
Indices: 25464741--25464801 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
25464731 ATTAAAAACA
* *
25464741 AAATAAAAATTAAAAAT--T
1 AAATACAAATAAAAAATAAT
* *
25464759 AAATACTAA-AATAAATGAAT
1 AAATACAAATAAAAAAT-AAT
25464779 AAATACAAATAAAAAATAAT
1 AAATACAAATAAAAAATAAT
25464799 AAA
1 AAA
25464802 AGGGACTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 5 0.15
18 7 0.21
20 15 0.45
21 6 0.18
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (20 bp):
AAATACAAATAAAAAATAAT
Found at i:25464947 original size:13 final size:14
Alignment explanation
Indices: 25464902--25464947 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 14
25464892 TTGCAAAAAA
*
25464902 AAATTAAAAGTA-T
1 AAATTAAAAATAGT
25464915 AAATTAAAAATAGT
1 AAATTAAAAATAGT
25464929 -AA-TAAAAA-AGT
1 AAATTAAAAATAGT
25464940 AAATTAAA
1 AAATTAAA
25464948 TTAAAACGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 3 0.10
12 8 0.28
13 17 0.59
14 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATTAAAAATAGT
Found at i:25466718 original size:50 final size:50
Alignment explanation
Indices: 25466662--25466820 Score: 119
Period size: 50 Copynumber: 3.1 Consensus size: 50
25466652 TGATTCATGT
*
25466662 AACTTCAGGGATATAGGATTTAGGTTTGTAACTTCACTCCATTCCACTAC
1 AACTTCAAGGATATAGGATTTAGGTTTGTAACTTCACTCCATTCCACTAC
* * * * * * * * * * *
25466712 AACTTCAAGAAGATTGAGATTCGCTA-CTATG-AGCTTTAATCTAATCTACTAC
1 AACTTCAAGGATATAG-GATT---TAGGTTTGTAACTTCACTCCATTCCACTAC
*
25466764 AACCTT-AAGGATATAGGATTT-GGTCTTGTAACGTCACTCCATTCCACTAC
1 AA-CTTCAAGGATATAGGATTTAGGT-TTGTAACTTCACTCCATTCCACTAC
25466814 AACTTCA
1 AACTTCA
25466821 GGGAGATTGA
Statistics
Matches: 76, Mismatches: 24, Indels: 18
0.64 0.20 0.15
Matches are distributed among these distances:
48 2 0.03
49 5 0.07
50 29 0.38
51 8 0.11
52 24 0.32
53 6 0.08
54 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (50 bp):
AACTTCAAGGATATAGGATTTAGGTTTGTAACTTCACTCCATTCCACTAC
Found at i:25466794 original size:102 final size:101
Alignment explanation
Indices: 25466662--25467130 Score: 358
Period size: 102 Copynumber: 4.6 Consensus size: 101
25466652 TGATTCATGT
* *
25466662 AACTTCAGGGATATAGGATTTAGGTTTGTAACTTCACTCCATTCCACTACAACTTCAAGAAGATT
1 AACTTCAAGGATATAGGATTT-GGTTTGTAACTTCACTCCATTCCACTACAACTTCAAGGAGATT
25466727 GAGATTCGCTACTATGAGCTTTAATCTAATCTACTAC
65 GAGATTCGCTACTATGAGCTTTAATCTAATCTACTAC
* *
25466764 AACCTT-AAGGATATAGGATTTGGTCTTGTAACGTCACTCCATTCCACTACAACTTCAGGGAGAT
1 AA-CTTCAAGGATATAGGATTTGGT-TTGTAACTTCACTCCATTCCACTACAACTTCAAGGAGAT
* * * * *
25466828 TGAGA-TCTGTTACTGTTAGTTTTAATCTGATCTACTAC
64 TGAGATTC-GCTACTATGAGCTTTAATCTAATCTACTAC
* * *** * *
25466866 AACTTCAGGGATACAGGATTTGGTGTTGTGGTTTCACTCCATTCCACTGCAACTTCAAGGAGACT
1 AACTTCAAGGATATAGGATTTGGT-TTGTAACTTCACTCCATTCCACTACAACTTCAAGGAGATT
* * * * * ** * **
25466931 AAGATTTGCTACTGTTAGTTTTAAT-TCGGTCCACTGT
65 GAGATTCGCTACTATGAGCTTTAATCT-AATCTACTAC
* * * ** * * *
25466968 AA-TTGTAGGGATATAGGATTTGGGGTTGTGCCCTCACTCCATTCCACTGCAACTTCAGGGAGAT
1 AACTT-CAAGGATATAGGATTT-GGTTTGTAACTTCACTCCATTCCACTACAACTTCAAGGAGAT
** ** * **
25467032 TGAGA-T--CTACTACTGTTCGTTATAATCCGATCCACTGT
64 TGAGATTCGCTACTA-TGAGC-TT-TAATCTAATCTACTAC
* *** * *
25467070 AACTTCAAGGATATAGGATTTGGGGTTGTGGTTTCACTCCATTCCACTGCAACCTCAAGGA
1 AACTTCAAGGATATAGGATTT-GGTTTGTAACTTCACTCCATTCCACTACAACTTCAAGGA
25467131 TATAGGATTT
Statistics
Matches: 305, Mismatches: 49, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
99 5 0.02
100 1 0.00
101 14 0.05
102 277 0.91
103 8 0.03
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (101 bp):
AACTTCAAGGATATAGGATTTGGTTTGTAACTTCACTCCATTCCACTACAACTTCAAGGAGATTG
AGATTCGCTACTATGAGCTTTAATCTAATCTACTAC
Found at i:25466904 original size:204 final size:204
Alignment explanation
Indices: 25466662--25467128 Score: 562
Period size: 204 Copynumber: 2.3 Consensus size: 204
25466652 TGATTCATGT
*** * *
25466662 AACTTCAGGGATATAGGATTTAGGT-TTGTAACTTCACTCCATTCCACTACAACTTCAAGAAGAT
1 AACTTCAGGGATATAGGATTT-GGTGTTGTGGTTTCACTCCATTCCACTGCAACTTCAAGAAGAC
* * *
25466726 TGAGATTCGCTACTATGAGCTTTAA-TCTAATCTACTACAACCT-TAAGGATATAGGATTTGGTC
65 TAAGATTCGCTACTATGAGCTTTAATTC-AATCCACTACAA-CTGTAAGGATATAGGATTTGGGC
* ** *
25466789 TTGTAACGTCACTCCATTCCACTACAACTTCAGGGAGATTGAGATCTGTTACTGTTAGTTTTAAT
128 TTGTAACCTCACTCCATTCCACTACAACTTCAGGGAGATTGAGATCTACTACTGTTAGTTATAAT
* *
25466854 CTGATCTACTAC
193 CCGATCCACTAC
* *
25466866 AACTTCAGGGATACAGGATTTGGTGTTGTGGTTTCACTCCATTCCACTGCAACTTCAAGGAGACT
1 AACTTCAGGGATATAGGATTTGGTGTTGTGGTTTCACTCCATTCCACTGCAACTTCAAGAAGACT
* * * * ** ** * * *
25466931 AAGATTTGCTACTGTTAGTTTTAATTCGGTCCACTGTAATTGTAGGGATATAGGATTTGGGGTTG
66 AAGATTCGCTACTATGAGCTTTAATTCAATCCACTACAACTGTAAGGATATAGGATTTGGGCTTG
** * *
25466996 TGCCCTCACTCCATTCCACTGCAACTTCAGGGAGATTGAGATCTACTACTGTTCGTTATAATCCG
131 TAACCTCACTCCATTCCACTACAACTTCAGGGAGATTGAGATCTACTACTGTTAGTTATAATCCG
**
25467061 ATCCACTGT
196 ATCCACTAC
* * *
25467070 AACTTCAAGGATATAGGATTTGGGGTTGTGGTTTCACTCCATTCCACTGCAACCTCAAG
1 AACTTCAGGGATATAGGATTTGGTGTTGTGGTTTCACTCCATTCCACTGCAACTTCAAG
25467129 GATATAGGAT
Statistics
Matches: 223, Mismatches: 37, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
203 4 0.02
204 217 0.97
205 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (204 bp):
AACTTCAGGGATATAGGATTTGGTGTTGTGGTTTCACTCCATTCCACTGCAACTTCAAGAAGACT
AAGATTCGCTACTATGAGCTTTAATTCAATCCACTACAACTGTAAGGATATAGGATTTGGGCTTG
TAACCTCACTCCATTCCACTACAACTTCAGGGAGATTGAGATCTACTACTGTTAGTTATAATCCG
ATCCACTAC
Found at i:25467028 original size:50 final size:50
Alignment explanation
Indices: 25466976--25467167 Score: 179
Period size: 50 Copynumber: 3.8 Consensus size: 50
25466966 GTAATTGTAG
* *
25466976 GGATATAGGATTTGGGGTTGTGCCCTCACTCCATTCCACTGCAACTTCAG
1 GGATATAGGATTTGGGGTTGTGCCTTCACTCCATTCCACTGCAACTTCAA
* * * ***** * * * * *
25467026 GGAGATTGAGATCTACTACTGTTCGTTATAATCCGA-TCCACTGTAACTTCAA
1 GGATATAG-GATTTGGGGTTGTGCCTT-CACTCC-ATTCCACTGCAACTTCAA
** *
25467078 GGATATAGGATTTGGGGTTGTGGTTTCACTCCATTCCACTGCAACCTCAA
1 GGATATAGGATTTGGGGTTGTGCCTTCACTCCATTCCACTGCAACTTCAA
*
25467128 GGATATAGGATTTGGGGTTGTGGCTTCACTCCATTCCACT
1 GGATATAGGATTTGGGGTTGTGCCTTCACTCCATTCCACT
25467168 ACAATTTTAG
Statistics
Matches: 107, Mismatches: 31, Indels: 8
0.73 0.21 0.05
Matches are distributed among these distances:
49 1 0.01
50 63 0.59
51 18 0.17
52 24 0.22
53 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.32
Consensus pattern (50 bp):
GGATATAGGATTTGGGGTTGTGCCTTCACTCCATTCCACTGCAACTTCAA
Found at i:25467112 original size:306 final size:303
Alignment explanation
Indices: 25466561--25467122 Score: 659
Period size: 306 Copynumber: 1.8 Consensus size: 303
25466551 CGACACACCG
* * * *
25466561 CAACTTCAGGGGTATAGGATTTGGTGTAGTAGCTTCATCTTATTCTACTGCAACTTCAGAGAGAA
1 CAACTTCAGGGATACAGGATTTGGTGTAGTAGCTTCATCTCATTCCACTGCAACTTCAGAGAGAA
* * *
25466626 AAAGAATTGCTACTGTAGCTTTAATTTGATTCATGTAACTTCAGGGATATAGGATTTAGGTTTGT
66 AAAGAATTGCTACTGTAGCTTTAATTCGATCCATGTAACTTCAGGGATATAGGATTTAGGGTTGT
* *
25466691 AACTTCACTCCATTCCACTACAACTTCAAGAAGATTGAGATTCGCTACTATGAGCTTTAATCTAA
131 AACCTCACTCCATTCCACTACAACTTCAAGAAGATTGAGATTC-CTACTATGAGCTTTAATCCAA
* *
25466756 TCTACTACAACCTTAAGGATATAGGATTTGGTCTTGTAACGTCACTCCATTCCACTACAACTTCA
195 TCCACTACAACCTTAAGGATATAGGATTTGGGCTTGTAACGTCACTCCATTCCACTACAACTTCA
25466821 GGGAGATTGAGATCTGTTACTGTTAGTTTTAATCTGATCTACTA
260 GGGAGATTGAGATCTGTTACTGTTAGTTTTAATCTGATCTACTA
* * *
25466865 CAACTTCAGGGATACAGGATTTGGTGTTGTGGTTTCA-CTCCATTCCACTGCAACTTCA-AGGAG
1 CAACTTCAGGGATACAGGATTTGGTGTAGTAGCTTCATCT-CATTCCACTGCAACTTCAGA-GAG
** * * * * *
25466928 ACTAAGATTTGCTACTGTTAGTTTTAATTCGGTCCACTGTAA-TTGTAGGGATATAGGATTTGGG
64 AAAAAGAATTGCTACTG-TAGCTTTAATTCGATCCA-TGTAACTT-CAGGGATATAGGATTTAGG
** * * * **
25466992 GTTGTGCCCTCACTCCATTCCACTGCAACTTCAGGGAGATTGAGA-T-CTACTACTGTTCGTTAT
126 GTTGTAACCTCACTCCATTCCACTACAACTTCAAGAAGATTGAGATTCCTACTA-TGAGC-TT-T
* ** * **** *
25467055 AATCCGATCCACTGTAA-CTTCAAGGATATAGGATTTGGGGTTGTGGTTTCACTCCATTCCACTG
188 AATCCAATCCACTACAACCTT-AAGGATATAGGATTTGGGCTTGTAACGTCACTCCATTCCACTA
25467119 CAAC
252 CAAC
25467123 CTCAAGGATA
Statistics
Matches: 212, Mismatches: 37, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
303 9 0.04
304 68 0.32
305 22 0.10
306 113 0.53
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (303 bp):
CAACTTCAGGGATACAGGATTTGGTGTAGTAGCTTCATCTCATTCCACTGCAACTTCAGAGAGAA
AAAGAATTGCTACTGTAGCTTTAATTCGATCCATGTAACTTCAGGGATATAGGATTTAGGGTTGT
AACCTCACTCCATTCCACTACAACTTCAAGAAGATTGAGATTCCTACTATGAGCTTTAATCCAAT
CCACTACAACCTTAAGGATATAGGATTTGGGCTTGTAACGTCACTCCATTCCACTACAACTTCAG
GGAGATTGAGATCTGTTACTGTTAGTTTTAATCTGATCTACTA
Found at i:25467149 original size:152 final size:152
Alignment explanation
Indices: 25466976--25467289 Score: 448
Period size: 152 Copynumber: 2.1 Consensus size: 152
25466966 GTAATTGTAG
* * *
25466976 GGATATAGGATTTGGGGTTGTGCCCTCACTCCATTCCACTGCAACTTCAGGGAGATTGAGATCTA
1 GGATATAGGATTTGGGGTTGTGCCCTCACTCCATTCCACTACAACTTCAGAGAGATTGAGATATA
* * * * * * *
25467041 CTACTGTTCGTTATAATCCGATCCACTGTAACTTCAAGGATATAGGATTTGGGGTTGTGGTTTCA
66 CTACTGTTAGTTATAATCAGATCCACTGCAAATTCAAGGATACAGGATTTGGGCTTGTGGCTTCA
25467106 CTCCATTCCACTGCAACCTCAA
131 CTCCATTCCACTGCAACCTCAA
* * * *
25467128 GGATATAGGATTTGGGGTTGTGGCTTCACTCCATTCCACTACAATTTTAGAGAGATTGAGATATA
1 GGATATAGGATTTGGGGTTGTGCCCTCACTCCATTCCACTACAACTTCAGAGAGATTGAGATATA
* * * *
25467193 TTACTGTTAGTTTTAATCAGATCCACTGCAAATTCAGGGATACAGGATTTGGTCTTGTGGCTTCA
66 CTACTGTTAGTTATAATCAGATCCACTGCAAATTCAAGGATACAGGATTTGGGCTTGTGGCTTCA
* *
25467258 CTCCATTCCACTGCAACTTCAG
131 CTCCATTCCACTGCAACCTCAA
25467280 GGATATAGGA
1 GGATATAGGA
25467290 GTTGTTGTTT
Statistics
Matches: 142, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
152 142 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (152 bp):
GGATATAGGATTTGGGGTTGTGCCCTCACTCCATTCCACTACAACTTCAGAGAGATTGAGATATA
CTACTGTTAGTTATAATCAGATCCACTGCAAATTCAAGGATACAGGATTTGGGCTTGTGGCTTCA
CTCCATTCCACTGCAACCTCAA
Found at i:25467894 original size:20 final size:19
Alignment explanation
Indices: 25467856--25467904 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
25467846 ATTAAAAGTA
25467856 ACAAACATTGGTCAAAATG
1 ACAAACATTGGTCAAAATG
**
25467875 TTAAACATTGGTCAAAAATG
1 ACAAACATTGGTC-AAAATG
25467895 ACAAACATTG
1 ACAAACATTG
25467905 ACAAAAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.24
Consensus pattern (19 bp):
ACAAACATTGGTCAAAATG
Found at i:25468279 original size:14 final size:13
Alignment explanation
Indices: 25468260--25468289 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
25468250 TTTCTTTTCC
25468260 TTTTTATTATTTAT
1 TTTTTATT-TTTAT
25468274 TTTTTATTTTTAT
1 TTTTTATTTTTAT
25468287 TTT
1 TTT
25468290 CTCTTTTTTT
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:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:25471699 original size:11 final size:10
Alignment explanation
Indices: 25471681--25471768 Score: 51
Period size: 11 Copynumber: 8.6 Consensus size: 10
25471671 ATAAAATGGC
25471681 ATAAAAATAA
1 ATAAAAATAA
25471691 ATAACAAATAA
1 ATAA-AAATAA
25471702 ATAAATAA-ACTA
1 ATAAA-AATA--A
25471714 ATAAAAATTAA
1 ATAAAAA-TAA
25471725 ATACTAAAATAA
1 ATA--AAAATAA
*
25471737 AT--GAATAA
1 ATAAAAATAA
*
25471745 ATACAAAT-A
1 ATAAAAATAA
*
25471754 ATAATAAT-A
1 ATAAAAATAA
25471763 ATAAAA
1 ATAAAA
25471769 GGGACTAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 21
0.71 0.06 0.24
Matches are distributed among these distances:
8 7 0.11
9 13 0.21
10 9 0.14
11 18 0.29
12 11 0.17
13 5 0.08
ACGTcount: A:0.70, C:0.05, G:0.01, T:0.24
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:25482642 original size:22 final size:21
Alignment explanation
Indices: 25482598--25482644 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
25482588 AATAACAATA
* * *
25482598 AAATGTAACAAAATAATAGCG
1 AAATGTAACAAAACAACAACG
25482619 AAATGATAACAAAACAACAACG
1 AAATG-TAACAAAACAACAACG
25482641 AAAT
1 AAAT
25482645 AGCAGCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.62, C:0.13, G:0.11, T:0.15
Consensus pattern (21 bp):
AAATGTAACAAAACAACAACG
Found at i:25483057 original size:18 final size:17
Alignment explanation
Indices: 25483029--25483063 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25483019 ATTTAAATAT
*
25483029 AATATTTAATTACTAAA
1 AATATTTAATTAATAAA
25483046 AATATTTAAATTAATAAA
1 AATATTT-AATTAATAAA
25483064 TGATATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
AATATTTAATTAATAAA
Found at i:25499619 original size:69 final size:70
Alignment explanation
Indices: 25499527--25499677 Score: 218
Period size: 71 Copynumber: 2.2 Consensus size: 70
25499517 AATGGTAAGA
* * *
25499527 AATGGCAGTATATTTTTTCTTT-A-ATATACATGAATTTAATGACTTTTTCTTTCATGTGTTGAG
1 AATGGAAGTATATTTTTTCTTTAATATATACATGAATTTAATGACATTTTCTTTCATATGTTGAG
*
25499590 AGAAT
66 AGAAC
*
25499595 AATGGAAGTATATTTTTTTCTTTAATATATACATGAATTTTATGACATTTTCTTTCATATGTTGA
1 AATGGAAGTATA-TTTTTTCTTTAATATATACATGAATTTAATGACATTTTCTTTCATATGTTGA
25499660 GAGAAC
65 GAGAAC
25499666 AAT-GACAGTATA
1 AATGGA-AGTATA
25499678 GGAAATTTAT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
68 11 0.15
69 10 0.14
70 3 0.04
71 50 0.68
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (70 bp):
AATGGAAGTATATTTTTTCTTTAATATATACATGAATTTAATGACATTTTCTTTCATATGTTGAG
AGAAC
Found at i:25516267 original size:42 final size:42
Alignment explanation
Indices: 25516133--25516327 Score: 171
Period size: 42 Copynumber: 4.6 Consensus size: 42
25516123 TTATGCTACA
* * * * **
25516133 CCGAGTCATAAGTCTTCCATTAAACATATTCTAACACTTTTT
1 CCGAGTCATGAGTCTTCCTTTAAACATAATCTCACACTCATT
* * ** *
25516175 CCAAGTCATGAGTCTTCC-TT-AACATAGTCTCATGCTCCTT
1 CCGAGTCATGAGTCTTCCTTTAAACATAATCTCACACTCATT
* * *
25516215 CCAAGACATGAGTCTTCCTTTAAACATAATCTCATACTCATT
1 CCGAGTCATGAGTCTTCCTTTAAACATAATCTCACACTCATT
* * *
25516257 CTGAGTCATGAGTCTTCCTTTTATACATAATCTCACGCTCA-T
1 CCGAGTCATGAGTCTTCC-TTTAAACATAATCTCACACTCATT
* *
25516299 CTCGAGACATGAGTCTTCCATTTATACAT
1 C-CGAGTCATGAGTCTTCC-TTTAAACAT
25516328 CAAGTGATTC
Statistics
Matches: 128, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
40 31 0.24
41 4 0.03
42 50 0.39
43 43 0.34
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (42 bp):
CCGAGTCATGAGTCTTCCTTTAAACATAATCTCACACTCATT
Found at i:25516298 original size:43 final size:42
Alignment explanation
Indices: 25516181--25516327 Score: 174
Period size: 43 Copynumber: 3.5 Consensus size: 42
25516171 TTTTCCAAGT
* * **
25516181 CATGAGTCTTCC-TTA-ACATAGTCTCATGCTCCTTCCAAGA
1 CATGAGTCTTCCTTTATACATAATCTCATGCTCATTCTGAGA
* * *
25516221 CATGAGTCTTCCTTTAAACATAATCTCATACTCATTCTGAGT
1 CATGAGTCTTCCTTTATACATAATCTCATGCTCATTCTGAGA
*
25516263 CATGAGTCTTCCTTTTATACATAATCTCACGCTCA-TCTCGAGA
1 CATGAGTCTTCC-TTTATACATAATCTCATGCTCATTCT-GAGA
25516306 CATGAGTCTTCCATTTATACAT
1 CATGAGTCTTCC-TTTATACAT
25516328 CAAGTGATTC
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 12 0.13
41 3 0.03
42 34 0.37
43 43 0.47
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.36
Consensus pattern (42 bp):
CATGAGTCTTCCTTTATACATAATCTCATGCTCATTCTGAGA
Found at i:25537140 original size:18 final size:17
Alignment explanation
Indices: 25537114--25537188 Score: 57
Period size: 18 Copynumber: 4.4 Consensus size: 17
25537104 GTAAAATAAC
*
25537114 ATAAGAAATAAATATCAA
1 ATAAAAAATAAATA-CAA
*
25537132 ATAAAAAATAAATAATGAA
1 ATAAAAAATAAAT-A-CAA
*
25537151 TATAAAAAAT-GATA-AA
1 -ATAAAAAATAAATACAA
*
25537167 ATATAAAATAAATACAA
1 ATAAAAAATAAATACAA
25537184 A-AAAA
1 ATAAAA
25537189 TAGTAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
15 8 0.17
16 8 0.17
17 3 0.06
18 13 0.28
19 6 0.13
20 9 0.19
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (17 bp):
ATAAAAAATAAATACAA
Found at i:25538355 original size:100 final size:100
Alignment explanation
Indices: 25538251--25538786 Score: 319
Period size: 100 Copynumber: 5.4 Consensus size: 100
25538241 TGATCCATTG
* * *
25538251 CAACTTTTGGGATATAAGATTTGATGTCGTAACTTCATCTTACTCCACTGTATCTTCAAGGAGAT
1 CAACTTTAGGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCACTGCATCTTCAAGGAGAT
25538316 AAGATTTGCTTTTGTAGCTCCAACTT-GACCCACT-A
66 AAGATTTGCTTTTGTAGCTCCAA-TTCGACCC-CTGA
* * * * * *
25538351 CAACTTTAGGGGTATAGGATTTGATGT-G-AATGCTTCATTTTGCTCTACTGCAACTTCAAAGAG
1 CAACTTTAGGGATATAAGATTTGATGTCGTAA--CTTCATCTTGCTCCACTGCATCTTCAAGGAG
* * ** * *
25538414 ATAAAGATTTGCTATTGTAGTTTTAATTCGATCCTTGA
64 AT-AAGATTTGCTTTTGTAGCTCCAATTCGACCCCTGA
* * * * *
25538452 -AACTTCAGGGATATAAGATTTTATGTCGTAGCTTCATCTTGCTCCATTGCATCTTCAGGGAGAT
1 CAACTTTAGGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCACTGCATCTTCAAGGAGAT
* ** * * * *
25538516 AAGATTTGTTTTTGTAGCTTTAATTCAATCCATTA
66 AAGATTTGCTTTTGTAGCTCCAATTCGACCCCTGA
* * * * * * * * ** *
25538551 CAAATTCAGGGGTATAGGATTTGATGTTGTAGCCTCATCTTGCTCTACTGCAAATT-TAGAGAGA
1 CAACTTTAGGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCACTGCATCTTCAAG-GAGA
* * * *** * * **
25538615 TAAAATTTGCTTTCGTAACTTTTGATCCAATCTACTG-
65 TAAGATTTGCTTTTGTAGC-TCCAATTCGA-CCCCTGA
* * * * *
25538652 CAACTTGT-GGGATAT-AGATCTTAATGTTGT---TTCCTCTTGCTCCACTACAACTTCAAGGAG
1 CAACTT-TAGGGATATAAGAT-TTGATGTCGTAACTTCATCTTGCTCCACTGCATCTTCAAGGAG
*
25538712 ATCAAGATTTG-TTTCTGTAGCTTCAA-TCTGACCCACT-A
64 AT-AAGATTTGCTTT-TGTAGCTCCAATTC-GACCC-CTGA
* * * *
25538750 CAACTTTAGGGGTATAAGATTTGGTATTGTAACTTCA
1 CAACTTTAGGGATATAAGATTTGATGTCGTAACTTCA
25538787 CTCCATTCCA
Statistics
Matches: 332, Mismatches: 80, Indels: 47
0.72 0.17 0.10
Matches are distributed among these distances:
97 3 0.01
98 53 0.16
99 48 0.14
100 170 0.51
101 56 0.17
102 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (100 bp):
CAACTTTAGGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCACTGCATCTTCAAGGAGAT
AAGATTTGCTTTTGTAGCTCCAATTCGACCCCTGA
Found at i:25538516 original size:200 final size:197
Alignment explanation
Indices: 25538221--25538772 Score: 587
Period size: 200 Copynumber: 2.8 Consensus size: 197
25538211 GAGATAGGAC
* * * * * * *
25538221 TTGCTAATGTAGTTTCATTTTGATCCATTGCAACTTTTGGGATATAAGATTTGATGTCGTAACTT
1 TTGCTATTGTAGTTTTAATTCGATCC-TTGCAACTTCTGGGATATAAGATTTAATGTCGTAGCTT
* * *
25538286 CATCTTACTCCACTGTATCTTCAAGGAGATAAGATTTGCTTTTGTAGCTCCAACTTGACCCACTA
65 CATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTG-TTTTGTAGCTTCAA-TTGACCCACTA
* * *
25538351 CAACTTTAGGGGTATAGGATTTGATG-TGAATGCTTCATTTTGCTCTACTGCAACTTCAAAGAGA
128 CAACTTTAGGGGTATAGGATTTGATGTTGAA-GCCTCATCTTGCTCTACTGCAAATTCAAAGAGA
25538415 TAAAGAT
192 TAAA-AT
* * *
25538422 TTGCTATTGTAGTTTTAATTCGATCCTTGAAACTTCAGGGATATAAGATTTTATGTCGTAGCTTC
1 TTGCTATTGTAGTTTTAATTCGATCCTTGCAACTTCTGGGATATAAGATTTAATGTCGTAGCTTC
* * * * * *
25538487 ATCTTGCTCCATTGCATCTTCAGGGAGATAAGATTTGTTTTTGTAGCTTTAATTCAATCCATTAC
66 ATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTG-TTTTGTAGCTTCAATT-GACCCACTAC
* * * * *
25538552 AAATTCAGGGGTATAGGATTTGATGTTGTAGCCTCATCTTGCTCTACTGCAAATTTAGAGAGATA
129 AACTTTAGGGGTATAGGATTTGATGTTGAAGCCTCATCTTGCTCTACTGCAAATTCAAAGAGATA
25538617 AAAT
194 AAAT
* * * * *
25538621 TTGCT-TTCGTAACTTTTGATCCAAT-CTACTGCAACTTGTGGGATAT-AGATCTTAATGT--T-
1 TTGCTATT-GT-AGTTTTAATTCGATCCT--TGCAACTTCTGGGATATAAGAT-TTAATGTCGTA
* * * *
25538680 GTTTCCTCTTGCTCCACTACAACTTCAAGGAGATCAAGATTTGTTTCTGTAGCTTCAATCTGACC
61 GCTTCATCTTGCTCCACTGCATCTTCAAGGAGAT-AAGATTTGTTT-TGTAGCTTCAAT-TGACC
*
25538745 CACTACAACTTTAGGGGTATAAGATTTG
123 CACTACAACTTTAGGGGTATAGGATTTG
25538773 GTATTGTAAC
Statistics
Matches: 293, Mismatches: 48, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
198 33 0.11
199 59 0.20
200 156 0.53
201 45 0.15
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (197 bp):
TTGCTATTGTAGTTTTAATTCGATCCTTGCAACTTCTGGGATATAAGATTTAATGTCGTAGCTTC
ATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTGTTTTGTAGCTTCAATTGACCCACTACAA
CTTTAGGGGTATAGGATTTGATGTTGAAGCCTCATCTTGCTCTACTGCAAATTCAAAGAGATAAA
AT
Found at i:25538533 original size:50 final size:50
Alignment explanation
Indices: 25538155--25538814 Score: 201
Period size: 50 Copynumber: 13.2 Consensus size: 50
25538145 TCTCTGCAGG
* * * * *
25538155 TTCAGGGAAATAGGATTTGAC-ATTGTAGCCTT-ATCTTGCTCCACTACATC
1 TTCAGGGAGATAAGATTTG-CTTTTGTAG-CTTCATCTTGCTCCACTGCAAC
* * * ** * * * *
25538205 ATCAGGGAGATAGGACTTGCTAATGTAGTTTCATTTTGATCCATTGCAAC
1 TTCAGGGAGATAAGATTTGCTTTTGTAGCTTCATCTTGCTCCACTGCAAC
** * * * * * * * *
25538255 TTTTGGGATATAAGATTTGATGTCGTAACTTCATCTTACTCCACTGTATC
1 TTCAGGGAGATAAGATTTGCTTTTGTAGCTTCATCTTGCTCCACTGCAAC
* * * *
25538305 TTCAAGGAGATAAGATTTGCTTTTGTAGCTCCAACTTGAC-CCACTACAAC
1 TTCAGGGAGATAAGATTTGCTTTTGTAGCTTCATCTTG-CTCCACTGCAAC
* * * * * * *
25538355 TTTAGGG-GTATAGGATTTG-ATGTGAATGCTTCATTTTGCTCTACTGCAAC
1 TTCAGGGAG-ATAAGATTTGCTTTTGTA-GCTTCATCTTGCTCCACTGCAAC
** * * * * * * *
25538405 TTCAAAGAGATAAAGATTTGCTATTGTAGTTTTAAT-TCGATCC-TTGAAAC
1 TTCAGGGAGAT-AAGATTTGCTTTTGTAG-CTTCATCTTGCTCCACTGCAAC
* ** * * * *
25538455 TTCAGGGATATAAGATTTTATGTCGTAGCTTCATCTTGCTCCATTGCATC
1 TTCAGGGAGATAAGATTTGCTTTTGTAGCTTCATCTTGCTCCACTGCAAC
* * * * * *
25538505 TTCAGGGAGATAAGATTTGTTTTTGTAGCTTTA-ATT-CAATCCATTACAAA
1 TTCAGGGAGATAAGATTTGCTTTTGTAGCTTCATCTTGC--TCCACTGCAAC
* * * * * *
25538555 TTCAGGG-GTATAGGATTTGATGTTGTAGCCTCATCTTGCTCTACTGCAAA
1 TTCAGGGAG-ATAAGATTTGCTTTTGTAGCTTCATCTTGCTCCACTGCAAC
* * * * * * *** *
25538605 TTTAGAGAGATAAAATTTGCTTTCGTAACTTTTGATC-CAATCTACTGCAAC
1 TTCAGGGAGATAAGATTTGCTTTTGTAGC--TTCATCTTGCTCCACTGCAAC
** * * * * * *
25538656 TTGTGGGATAT-AGA--T-CTTAATGTTGTTTCCTCTTGCTCCACTACAAC
1 TTCAGGGAGATAAGATTTGCTT-TTGTAGCTTCATCTTGCTCCACTGCAAC
* *
25538703 TTCAAGGAGATCAAGATTTG-TTTCTGTAGCTTCAATC-TGAC-CCACTACAAC
1 TTCAGGGAGAT-AAGATTTGCTTT-TGTAGCTTC-ATCTTG-CTCCACTGCAAC
* * * * *
25538754 TTTAGGG-GTATAAGATTTGGTATTGTAACTTCA-C-TCCATTCCACTGCAAC
1 TTCAGGGAG-ATAAGATTTGCTTTTGTAGCTTCATCTTGC--TCCACTGCAAC
25538804 TTCAGGGAGAT
1 TTCAGGGAGAT
25538815 TGAGATCTGC
Statistics
Matches: 428, Mismatches: 146, Indels: 72
0.66 0.23 0.11
Matches are distributed among these distances:
46 4 0.01
47 20 0.05
48 10 0.02
49 34 0.08
50 279 0.65
51 66 0.15
52 15 0.04
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (50 bp):
TTCAGGGAGATAAGATTTGCTTTTGTAGCTTCATCTTGCTCCACTGCAAC
Found at i:25539017 original size:9 final size:9
Alignment explanation
Indices: 25539003--25539027 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25538993 AACTAGATGA
25539003 GTATGAATG
1 GTATGAATG
25539012 GTATGAATG
1 GTATGAATG
25539021 GTATGAA
1 GTATGAA
25539028 CGCAAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (9 bp):
GTATGAATG
Found at i:25544897 original size:22 final size:22
Alignment explanation
Indices: 25544872--25544926 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
25544862 GATGATGGCA
*
25544872 AAATAAAATAAATAACATTAAT
1 AAATAAAATAAATAACATAAAT
* *
25544894 AAATACAATTAATAACATAAAT
1 AAATAAAATAAATAACATAAAT
25544916 AAA-AAATATAA
1 AAATAAA-ATAA
25544927 TAGTAATGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.25
Consensus pattern (22 bp):
AAATAAAATAAATAACATAAAT
Found at i:25545874 original size:113 final size:113
Alignment explanation
Indices: 25545722--25545954 Score: 439
Period size: 113 Copynumber: 2.1 Consensus size: 113
25545712 GTTAGGGTAA
25545722 TTGATTTTTGGGTTGTAATTTGGATTATGAGTATTTGGGTTAGTTCGGCTTCGAGTTATTTAGGT
1 TTGATTTTTGGGTTGTAATTTGGATTATGAGTATTTGGGTTAGTTCGGCTTCGAGTTATTTAGGT
25545787 AGTTAGGTTTTGTAAAAAAAAAAAAAAAAATATTAATGGACTTAGATT
66 AGTTAGGTTTTGTAAAAAAAAAAAAAAAAATATTAATGGACTTAGATT
25545835 TTGATTTTTGGGTTGTAATTTGGATTATGAGTATTTGGGTTAGTTCGGCTTCGAGTTATTTAGGT
1 TTGATTTTTGGGTTGTAATTTGGATTATGAGTATTTGGGTTAGTTCGGCTTCGAGTTATTTAGGT
* *
25545900 AGTTAGGTTTTGTAAAAAAAAAAAAATATATATTAATGGACTTAGATT
66 AGTTAGGTTTTGTAAAAAAAAAAAAAAAAATATTAATGGACTTAGATT
*
25545948 TTTATTT
1 TTGATTT
25545955 AATTTTTTAT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
113 117 1.00
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.44
Consensus pattern (113 bp):
TTGATTTTTGGGTTGTAATTTGGATTATGAGTATTTGGGTTAGTTCGGCTTCGAGTTATTTAGGT
AGTTAGGTTTTGTAAAAAAAAAAAAAAAAATATTAATGGACTTAGATT
Found at i:25551020 original size:2 final size:2
Alignment explanation
Indices: 25551013--25551040 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25551003 TATGGTGATA
25551013 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
25551041 AAGTGATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:25551905 original size:83 final size:81
Alignment explanation
Indices: 25551801--25552035 Score: 299
Period size: 84 Copynumber: 2.8 Consensus size: 81
25551791 ATTAAAATCA
*
25551801 AATAAATCTATTTGGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTTAATTTTGTTTC
1 AATAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTTAATTTTGTTTC
*
25551866 CAATTAATAAATTAATTG
66 CAA-TAAT-AATTAAGTG
* * * * **
25551884 AATAAATCTATTTCAGGATTTATTTCTGCCGCTCAGTAGATTTTATTCTATATTTGAATTTTGTT
1 AATAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTAT-TTT-AATTTTGTT
*
25551949 TCTAGATAATAATTAAGTG
64 TCCA-ATAATAATTAAGTG
* * * * *
25551968 AATAATTCTATTTCGGGATTTATTCTCGCCGTTTAACAAATTTTATTCTATTTTGATTTTGTTTC
1 AATAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTTAATTTTGTTTC
25552033 CAA
66 CAA
25552036 AACAAGAATA
Statistics
Matches: 128, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
81 1 0.01
82 11 0.09
83 47 0.37
84 52 0.41
85 16 0.12
86 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (81 bp):
AATAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTTAATTTTGTTTC
CAATAATAATTAAGTG
Found at i:25551987 original size:84 final size:84
Alignment explanation
Indices: 25551801--25552035 Score: 300
Period size: 83 Copynumber: 2.8 Consensus size: 84
25551791 ATTAAAATCA
* * *
25551801 AATAAATCTATTTGGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTT-AATTTTGTTT
1 AATAAATCTATTTCGGGATTTATTTCTGCCGTTCAACAGATTTTATTCTATTTTGAATTTTGTTT
*
25551865 CCAATTAATAAATTAATTG
66 CCAATTAATAAATTAAGTG
* * **
25551884 AATAAATCTATTTCAGGATTTATTTCTGCCGCTCAGTAGATTTTATTCTATATTTGAATTTTGTT
1 AATAAATCTATTTCGGGATTTATTTCTGCCGTTCAACAGATTTTATTCTAT-TTTGAATTTTGTT
*
25551949 TCTAGA-TAAT-AATTAAGTG
65 TCCA-ATTAATAAATTAAGTG
* * *
25551968 AATAATTCTATTTCGGGATTTA-TTCTCGCCGTTTAACAAATTTTATTCTATTTTG-ATTTTGTT
1 AATAAATCTATTTCGGGATTTATTTCT-GCCGTTCAACAGATTTTATTCTATTTTGAATTTTGTT
25552031 TCCAA
65 TCCAA
25552036 AACAAGAATA
Statistics
Matches: 131, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
81 1 0.01
82 11 0.08
83 52 0.40
84 50 0.38
85 16 0.12
86 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (84 bp):
AATAAATCTATTTCGGGATTTATTTCTGCCGTTCAACAGATTTTATTCTATTTTGAATTTTGTTT
CCAATTAATAAATTAAGTG
Found at i:25553237 original size:7 final size:7
Alignment explanation
Indices: 25553227--25553322 Score: 52
Period size: 7 Copynumber: 13.9 Consensus size: 7
25553217 TGATCAGCCA
25553227 TTGACCG
1 TTGACCG
*
25553234 TTGACAG
1 TTGACCG
25553241 TTGACCG
1 TTGACCG
* *
25553248 TTAACTG
1 TTGACCG
*
25553255 TTGACAG
1 TTGACCG
*
25553262 TTGATCG
1 TTGACCG
*
25553269 TTGATCG
1 TTGACCG
**
25553276 TT-ATTAG
1 TTGA-CCG
25553283 TTGACCG
1 TTGACCG
* *
25553290 CTGATCG
1 TTGACCG
*
25553297 TTGACCT
1 TTGACCG
**
25553304 TTGAAAG
1 TTGACCG
25553311 TTGACC-
1 TTGACCG
25553317 TTGACC
1 TTGACC
25553323 CATTGACTTT
Statistics
Matches: 66, Mismatches: 21, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
6 7 0.11
7 58 0.88
8 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (7 bp):
TTGACCG
Found at i:25553246 original size:14 final size:14
Alignment explanation
Indices: 25553227--25553321 Score: 63
Period size: 14 Copynumber: 6.9 Consensus size: 14
25553217 TGATCAGCCA
25553227 TTGACCGTTGACAG
1 TTGACCGTTGACAG
* *
25553241 TTGACCGTTAACTG
1 TTGACCGTTGACAG
*
25553255 TTGACAGTTGATC-G
1 TTGACCGTTGA-CAG
* *
25553269 TTGATCGTT-ATTAG
1 TTGACCGTTGA-CAG
*
25553283 TTGACCGCTGATC-G
1 TTGACCGTTGA-CAG
* *
25553297 TTGACCTTTGAAAG
1 TTGACCGTTGACAG
25553311 TTGACC-TTGAC
1 TTGACCGTTGAC
25553322 CCATTGACTT
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
13 6 0.10
14 54 0.86
15 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (14 bp):
TTGACCGTTGACAG
Found at i:25564959 original size:15 final size:16
Alignment explanation
Indices: 25564936--25564968 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25564926 AGGTAGACGA
25564936 CAAAACAAATCAA-AT
1 CAAAACAAATCAATAT
*
25564951 CAAATCAAATCAATAT
1 CAAAACAAATCAATAT
25564967 CA
1 CA
25564969 CAAAATCGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.61, C:0.21, G:0.00, T:0.18
Consensus pattern (16 bp):
CAAAACAAATCAATAT
Found at i:25565937 original size:27 final size:27
Alignment explanation
Indices: 25565900--25565972 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 27
25565890 AACTAAAACT
* *
25565900 TTTAAATTTTTTTTAAAAAAACTTAAT
1 TTTAAAGTTTTTTTAAAAAAACTTAAA
* *
25565927 TTTTAAG-TTTTTAAATTAAAAACTTAAA
1 TTTAAAGTTTTTTTAA--AAAAACTTAAA
*
25565955 TTTAAAGTTTTATTAAAA
1 TTTAAAGTTTTTTTAAAA
25565973 TATAAATACT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
26 7 0.19
27 7 0.19
28 16 0.44
29 6 0.17
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (27 bp):
TTTAAAGTTTTTTTAAAAAAACTTAAA
Found at i:25571537 original size:26 final size:25
Alignment explanation
Indices: 25571480--25571553 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 25
25571470 AAAAGATTTG
*
25571480 ACTCTTGACCTTTCACTTACT-AAAA
1 ACTCTTGATCTTTCAC-TACTAAAAA
*
25571505 ACTCTTGATCTTTTATCTACTAAAAA
1 ACTCTTGATCTTTCA-CTACTAAAAA
25571531 ACTCTTGATCTTTCACCTACTAA
1 ACTCTTGATCTTTCA-CTACTAA
25571554 CTACTAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 17 0.40
26 26 0.60
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.39
Consensus pattern (25 bp):
ACTCTTGATCTTTCACTACTAAAAA
Found at i:25577358 original size:36 final size:37
Alignment explanation
Indices: 25577285--25577391 Score: 112
Period size: 37 Copynumber: 2.9 Consensus size: 37
25577275 TTTATTAGAT
* * *
25577285 AAAAATTAACAC--AATTATAATTTTTAGGAGTAAT-A
1 AAAAATAAACACATAATTGTAATTTTT-GGACTAATAA
* *
25577320 AAAAATAAGCGCATAATTGTAATTTTTGGACTAATAA
1 AAAAATAAACACATAATTGTAATTTTTGGACTAATAA
* *
25577357 AAAAATAAACATATAATTGTAATTTCTGAGACTAA
1 AAAAATAAACACATAATTGTAATTTTTG-GACTAA
25577392 CTTTAAATGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
35 9 0.15
36 7 0.12
37 37 0.63
38 6 0.10
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (37 bp):
AAAAATAAACACATAATTGTAATTTTTGGACTAATAA
Found at i:25579526 original size:11 final size:11
Alignment explanation
Indices: 25579507--25579539 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
25579497 TTAGGATATT
25579507 ATTTATATTTA
1 ATTTATATTTA
*
25579518 ATTTGTATTTA
1 ATTTATATTTA
25579529 ATTTATATTTA
1 ATTTATATTTA
25579540 TCTTTTAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
ATTTATATTTA
Found at i:25582878 original size:4 final size:4
Alignment explanation
Indices: 25582864--25582911 Score: 57
Period size: 4 Copynumber: 12.5 Consensus size: 4
25582854 TTATTTTCTT
*
25582864 TTTA CTTA TTTA TTTA TTTA --TA TTTA TTT- TTCTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA
25582910 TT
1 TT
25582912 ATATGTCTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 2 0.05
3 2 0.05
4 32 0.84
5 2 0.05
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:25584372 original size:11 final size:11
Alignment explanation
Indices: 25584353--25584385 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
25584343 TTAGAATATT
25584353 ATTTATATTTA
1 ATTTATATTTA
*
25584364 ATTTGTATTTA
1 ATTTATATTTA
25584375 ATTTATATTTA
1 ATTTATATTTA
25584386 TCTTTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
ATTTATATTTA
Found at i:25587333 original size:14 final size:14
Alignment explanation
Indices: 25587314--25587345 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25587304 GATTGTTTAA
*
25587314 TTGAAAATATTTTC
1 TTGAAAATACTTTC
25587328 TTGAAAATACTTTC
1 TTGAAAATACTTTC
25587342 TTGA
1 TTGA
25587346 TTGTTGTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.47
Consensus pattern (14 bp):
TTGAAAATACTTTC
Found at i:25587882 original size:40 final size:41
Alignment explanation
Indices: 25587838--25587932 Score: 115
Period size: 40 Copynumber: 2.3 Consensus size: 41
25587828 AGCAATTCTT
*
25587838 ACTTGTTTGAAAATCATTTTGA--TGTGTTAAAATAATTTTG
1 ACTTGTTTGAAAATCATTTTGACTTG-GTTAAAATAATTTTA
* *
25587878 ACTTGGTTG-AAATCATTTTGACTTGGTTAAAATCATTTTA
1 ACTTGTTTGAAAATCATTTTGACTTGGTTAAAATAATTTTA
*
25587918 ACTTGATTTTAAAAT
1 ACTTG-TTTGAAAAT
25587933 TCTTTCAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
39 12 0.26
40 26 0.57
41 4 0.09
42 4 0.09
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (41 bp):
ACTTGTTTGAAAATCATTTTGACTTGGTTAAAATAATTTTA
Found at i:25587895 original size:20 final size:20
Alignment explanation
Indices: 25587847--25587922 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
25587837 TACTTGTTTG
25587847 AAAATCATTTTGA--TGTGTT
1 AAAATCATTTTGACTTG-GTT
*
25587866 AAAATAATTTTGACTTGGTT
1 AAAATCATTTTGACTTGGTT
*
25587886 GAAATCATTTTGACTTGGTT
1 AAAATCATTTTGACTTGGTT
*
25587906 AAAATCATTTTAACTTG
1 AAAATCATTTTGACTTG
25587923 ATTTTAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.24
20 36 0.72
21 2 0.04
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
AAAATCATTTTGACTTGGTT
Found at i:25590152 original size:23 final size:23
Alignment explanation
Indices: 25590122--25590528 Score: 562
Period size: 23 Copynumber: 17.7 Consensus size: 23
25590112 TTATTGTATC
*
25590122 TATGCTTAAATATTATTGTGATT
1 TATGCTTAAATATTAATGTGATT
* *
25590145 TATGCTTAAATGTTAATATGATT
1 TATGCTTAAATATTAATGTGATT
*
25590168 TATGCTTAAATATTAATTTGATT
1 TATGCTTAAATATTAATGTGATT
*
25590191 TATGCTTAAATATTATTGTGATT
1 TATGCTTAAATATTAATGTGATT
25590214 TATGCTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
* * * *
25590237 TGTTCCTAAATATTAATATGATT
1 TATGCTTAAATATTAATGTGATT
* *
25590260 TATTCTTAAATATTAACGTGATT
1 TATGCTTAAATATTAATGTGATT
* *
25590283 TGTGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATGTGATT
* *
25590306 TGTGCTCAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
*
25590329 TGTGCTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
* *
25590352 TGTGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATGTGATT
* * *
25590375 TGTTCTCAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
*
25590398 TATGCTTAAATATTTATGTGATT
1 TATGCTTAAATATTAATGTGATT
*
25590421 TATGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATGTGATT
* *
25590444 TGTGCTCAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
25590467 TATGCTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
*
25590490 TATGCTTAAATATTAATATGATT
1 TATGCTTAAATATTAATGTGATT
* *
25590513 TGTGCTCAAATATTAA
1 TATGCTTAAATATTAA
25590529 GATGTAATAT
Statistics
Matches: 343, Mismatches: 41, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 343 1.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.48
Consensus pattern (23 bp):
TATGCTTAAATATTAATGTGATT
Found at i:25590236 original size:69 final size:69
Alignment explanation
Indices: 25590122--25590528 Score: 654
Period size: 69 Copynumber: 5.9 Consensus size: 69
25590112 TTATTGTATC
* * * * *
25590122 TATGCTTAAATATTATTGTGATTTATGCTTAAATGTTAATATGATTTATGCTTAAATATTAATTT
1 TATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTGTGCTCAAATATTAATGT
25590187 GATT
66 GATT
* * * *
25590191 TATGCTTAAATATTATTGTGATTTATGCTTAAATATTAATGTGATTTGTTC-CTAAATATTAATA
1 TATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTGTGCTC-AAATATTAATG
25590255 TGATT
65 TGATT
* * *
25590260 TATTCTTAAATATTAACGTGATTTGTGCTTAAATATTAATATGATTTGTGCTCAAATATTAATGT
1 TATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTGTGCTCAAATATTAATGT
25590325 GATT
66 GATT
* * *
25590329 TGTGCTTAAATATTAATGTGATTTGTGCTTAAATATTAATATGATTTGTTCTCAAATATTAATGT
1 TATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTGTGCTCAAATATTAATGT
25590394 GATT
66 GATT
*
25590398 TATGCTTAAATATTTATGTGATTTATGCTTAAATATTAATATGATTTGTGCTCAAATATTAATGT
1 TATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTGTGCTCAAATATTAATGT
25590463 GATT
66 GATT
25590467 TATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTGTGCTCAAATATTAA
1 TATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTGTGCTCAAATATTAA
25590529 GATGTAATAT
Statistics
Matches: 314, Mismatches: 22, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
69 313 1.00
70 1 0.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.48
Consensus pattern (69 bp):
TATGCTTAAATATTAATGTGATTTATGCTTAAATATTAATATGATTTGTGCTCAAATATTAATGT
GATT
Found at i:25600690 original size:88 final size:88
Alignment explanation
Indices: 25600587--25600764 Score: 320
Period size: 88 Copynumber: 2.0 Consensus size: 88
25600577 CACAAGAGAA
*
25600587 TTCTTTAAATTAAAGAATCCTCTGGTTCTTTAATAAATGTCTACATGAATTCTCAATTAAATTTC
1 TTCTTTAAATTAAAGAATCCTCTGGTTCTTTAATAAATGCCTACATGAATTCTCAATTAAATTTC
*
25600652 GCATCATATATAATCCAGGATGG
66 GCATCATATATAATCCAAGATGG
*
25600675 TTCTTTAAATTAAAGAATCCTCTGGTTCTTTAATAAATGCCTATATGAATTCTCAATTAAATTTC
1 TTCTTTAAATTAAAGAATCCTCTGGTTCTTTAATAAATGCCTACATGAATTCTCAATTAAATTTC
*
25600740 TCATCATATATAATCCAAGATGG
66 GCATCATATATAATCCAAGATGG
25600763 TT
1 TT
25600765 TAACAGGTCA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (88 bp):
TTCTTTAAATTAAAGAATCCTCTGGTTCTTTAATAAATGCCTACATGAATTCTCAATTAAATTTC
GCATCATATATAATCCAAGATGG
Found at i:25602310 original size:30 final size:30
Alignment explanation
Indices: 25602243--25602459 Score: 214
Period size: 30 Copynumber: 7.3 Consensus size: 30
25602233 GTAAAATCGA
* *
25602243 GGTTAAAA-ATGAAATTTTAGAAA-TTTTAA
1 GGTTAAAATAT-AATTTTTAGAAAGTTTTAG
* *
25602272 GGTAAAAATGTAATTTTTAGAAAGTTTTAG
1 GGTTAAAATATAATTTTTAGAAAGTTTTAG
*
25602302 GGTTAAAATATAA-TTTTAAAGAAG-TTTAG
1 GGTTAAAATATAATTTTTAGA-AAGTTTTAG
*
25602331 GTGTTAAAATATAATTTTTAAAAAGTTTTAG
1 G-GTTAAAATATAATTTTTAGAAAGTTTTAG
* * *
25602362 GGTCAAAATATAATTTTGA-AGAAGTTTAAG
1 GGTTAAAATATAATTTTTAGA-AAGTTTTAG
* *
25602392 GGTCAAAATATAATTTTTAGAAAGTTTTAC
1 GGTTAAAATATAATTTTTAGAAAGTTTTAG
* *
25602422 GGTCAAAATATAA-TTTTGGAGAAG-TTTAGG
1 GGTTAAAATATAATTTTTAGA-AAGTTTTA-G
25602452 GGTTAAAA
1 GGTTAAAA
25602460 CACTATTTTT
Statistics
Matches: 162, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
29 41 0.25
30 107 0.66
31 14 0.09
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (30 bp):
GGTTAAAATATAATTTTTAGAAAGTTTTAG
Found at i:25602478 original size:60 final size:60
Alignment explanation
Indices: 25602276--25602459 Score: 287
Period size: 60 Copynumber: 3.1 Consensus size: 60
25602266 TTTTAAGGTA
* * * *
25602276 AAAATGTAATTTTTAGAAAGTTTTAGGGTTAAAATATAATTTTAAAGAAGTTTAGGTGTT
1 AAAATATAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTGAAGAAGTTTAGGGGTT
* * *
25602336 AAAATATAATTTTTAAAAAGTTTTAGGGTCAAAATATAATTTTGAAGAAGTTTAAGGGTC
1 AAAATATAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTGAAGAAGTTTAGGGGTT
* *
25602396 AAAATATAATTTTTAGAAAGTTTTACGGTCAAAATATAATTTTGGAGAAGTTTAGGGGTT
1 AAAATATAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTGAAGAAGTTTAGGGGTT
25602456 AAAA
1 AAAA
25602460 CACTATTTTT
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 112 1.00
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (60 bp):
AAAATATAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTGAAGAAGTTTAGGGGTT
Found at i:25602478 original size:90 final size:88
Alignment explanation
Indices: 25602284--25602479 Score: 191
Period size: 90 Copynumber: 2.2 Consensus size: 88
25602274 TAAAAATGTA
* * * * *
25602284 ATTTTTAGAAAGTTTTAGGGTTAAAATATAATTTTAAAGAAGTTTAGGTGTTAAAATATAATTTT
1 ATTTTT-GGAAGTTTAAGGGTCAAAATATAATTTTAAAGAAGTTTACGTGTCAAAATATAATTTT
* *
25602349 TAAAAAGTTTTAGGGTCAAAATAT
65 GAAAAAGTTTTAGGGTCAAAACAT
* *
25602373 AATTTTGAAGAAGTTTAAGGGTCAAAATATAATTTT-TAGAAAGTTTTACG-GTCAAAATATAAT
1 ATTTTTG--GAAGTTTAAGGGTCAAAATATAATTTTAAAG-AAG-TTTACGTGTCAAAATATAAT
* * *
25602436 TTTGGAGAAG-TTTAGGGGTTAAAACACT
62 TTTGAAAAAGTTTTA-GGGTCAAAACA-T
25602464 ATTTTTGGATAGTTTA
1 ATTTTTGGA-AGTTTA
25602480 GGGACTCTCA
Statistics
Matches: 87, Mismatches: 13, Indels: 13
0.77 0.12 0.12
Matches are distributed among these distances:
88 1 0.01
89 13 0.15
90 61 0.70
91 12 0.14
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.40
Consensus pattern (88 bp):
ATTTTTGGAAGTTTAAGGGTCAAAATATAATTTTAAAGAAGTTTACGTGTCAAAATATAATTTTG
AAAAAGTTTTAGGGTCAAAACAT
Found at i:25603316 original size:9 final size:9
Alignment explanation
Indices: 25603302--25603331 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
25603292 TGCTTCATGC
25603302 TTTTATTTG
1 TTTTATTTG
25603311 TTTTATTTG
1 TTTTATTTG
25603320 TTTTATTTG
1 TTTTATTTG
25603329 TTT
1 TTT
25603332 CAAGATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (9 bp):
TTTTATTTG
Found at i:25604178 original size:12 final size:12
Alignment explanation
Indices: 25604163--25604195 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25604153 AATTGGACTT
25604163 TTAATTTTAATA
1 TTAATTTTAATA
*
25604175 TTAAGTTTAATA
1 TTAATTTTAATA
25604187 TT-ATTTTAA
1 TTAATTTTAA
25604196 ATTTGATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:25604213 original size:6 final size:6
Alignment explanation
Indices: 25604202--25604260 Score: 59
Period size: 6 Copynumber: 9.8 Consensus size: 6
25604192 TTAAATTTGA
* *
25604202 TTAAAT TTAAAT TTAAA- GTAAAT TTAAAT AGATAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
25604250 ATAAAT TTAAA
1 TTAAAT TTAAA
25604261 ATCAATTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 8 0.19
6 30 0.70
8 5 0.12
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:25604223 original size:17 final size:16
Alignment explanation
Indices: 25604191--25604260 Score: 81
Period size: 17 Copynumber: 4.4 Consensus size: 16
25604181 TTAATATTAT
* *
25604191 TTTAAATTTGATTAAA
1 TTTAAATTTAAATAAA
25604207 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAA-TAAA
*
25604224 TTTAAA--TAGATAAA
1 TTTAAATTTAAATAAA
25604238 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
25604255 TTTAAA
1 TTTAAA
25604261 ATCAATTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
14 10 0.22
15 3 0.07
16 11 0.24
17 22 0.48
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:25604225 original size:11 final size:11
Alignment explanation
Indices: 25604209--25604271 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
25604199 TGATTAAATT
*
25604209 TAAATTTAAAG
1 TAAATTTAAAA
25604220 TAAATTT-AAA
1 TAAATTTAAAA
* *
25604230 TAGA--TAAATT
1 TAAATTTAAA-A
25604240 TAAATTTAAAA
1 TAAATTTAAAA
25604251 TAAATTTAAAA
1 TAAATTTAAAA
*
25604262 TCAATTTAAA
1 TAAATTTAAA
25604272 CTTTTAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 1 0.02
9 2 0.05
10 8 0.19
11 27 0.64
12 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:25604973 original size:205 final size:204
Alignment explanation
Indices: 25604613--25604986 Score: 554
Period size: 205 Copynumber: 1.8 Consensus size: 204
25604603 TCTGATTTCA
* * * *
25604613 TTGATCTGGTCTTCTTCTCTGTGTCTCATCAGGAAGATGACCGCAATTATCTGTTTTAATTCGCT
1 TTGATCTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCAATGATCTGTTTTAATTCGCT
*
25604678 TCTCTAGATCTCCTCAGGGAGACGAATTTAGTCCACTTCTATGTCTCATCAGGAAGCTAACCATT
66 TCTCTAGATCTCCTCAGGAAGACGAATTTAGTCCACTTCTATGTCTCATCAGGAAGCTAACCATT
* * *
25604743 TCATTGTTTCGACTTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTTGCATTG
131 TCATTGCTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTTGCATTG
25604808 AGCGTTGGT
196 AGCGTTGGT
* * *
25604817 TTGATTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGC-CTCGCT-TGTTTTAATTCGC
1 TTGATCTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCAAT-GATCTGTTTTAATTCGC
* * * * *
25604880 TTCTCTGGATCTCCTTAGGAAGATGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACC
65 TTCTCTAGATCTCCTCAGGAAGACGAATTTAGTCCAC-T-TCTATGTCTCATCAGGAAGCTAACC
*
25604945 ATTTTATTGCTTCAACCTGCTTCTCAGTGTCTCATCAGGAAG
128 ATTTCATTGCTTCAACCTGCTTCTCAGTGTCTCATCAGGAAG
25604987 ATGACCGCCT
Statistics
Matches: 150, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
203 46 0.31
204 42 0.28
205 62 0.41
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (204 bp):
TTGATCTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCAATGATCTGTTTTAATTCGCT
TCTCTAGATCTCCTCAGGAAGACGAATTTAGTCCACTTCTATGTCTCATCAGGAAGCTAACCATT
TCATTGCTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTTGCATTG
AGCGTTGGT
Found at i:25605070 original size:134 final size:134
Alignment explanation
Indices: 25604830--25605120 Score: 467
Period size: 134 Copynumber: 2.2 Consensus size: 134
25604820 ATTTGGTCTT
* *
25604830 CTTCTCAGTATCTCATCAAGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTCCT
1 CTTCTCAGTGTCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTCCT
* * *
25604895 TAGGAAGATGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTG-CTTCA
66 CAGAAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGTCTT-A
25604959 ACCTG
130 ACCTG
* *
25604964 CTTCTCAGTGTCTCATCAGGAAGATGACCGCCTGGGTTGTTTTAATTCGCTTCTCTGGATCTCCT
1 CTTCTCAGTGTCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTCCT
* *
25605029 CAGAAAGACGAATTTGGTCCACTTCTTTGTGTCTCATCAGGAAGCTAACCATTTTATTGTCTTGA
66 CAGAAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGTCTTAA
*
25605094 CCTT
131 CCTG
*
25605098 ATTCTCAGTGTCTCATCAGGAAG
1 CTTCTCAGTGTCTCATCAGGAAG
25605121 CTGAGGATCG
Statistics
Matches: 145, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
134 142 0.98
135 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (134 bp):
CTTCTCAGTGTCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTCCT
CAGAAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGTCTTAA
CCTG
Found at i:25605281 original size:340 final size:337
Alignment explanation
Indices: 25604626--25605325 Score: 1021
Period size: 340 Copynumber: 2.1 Consensus size: 337
25604616 ATCTGGTCTT
* *
25604626 CTTCTCTGTGTCTCATCAGGAAGATGACCGCAATTATCTGTTTTAATTCGCTTCTCTAGATCTCC
1 CTTCTCAGTGTCTCATCAGGAAGATGACCGCAATGATCTGTTTTAATTCGCTTCTCTAGATCTCC
**
25604691 TCAGGGAGACGAATTTAGTCCACTTCTATGTCTCATCAGGAAGCTAACCATTTCATTGTTTCGAC
66 TCAGAAAGACGAATTTAGTCCACTTCTATGTCTCATCAGGAAGCTAACCATTTCATTGTTTCGAC
* * * * * *
25604756 TTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTTGCATTGAGCGTTGGTTTGA
131 TTGATTCTCAGTGTCTCATCAGGAAGCTGGGATCGAAGATTTACTCGCATTGAGCCTAGGTTTGA
* *
25604821 TTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCT
196 TTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCT
* * * ** *
25604886 GGATCTCCTTAGGAAGATGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTA
261 GGATCTCCTCAGGAAGACGAATTTAGTCCACTTCTCAATGTCTCATCAAGAAGCTAACCA-TTTA
25604951 TTGCTTCAACCTG
325 TTGCTTCAACCTG
* * *
25604964 CTTCTCAGTGTCTCATCAGGAAGATGACCGC-CTGGGT-TGTTTTAATTCGCTTCTCTGGATCTC
1 CTTCTCAGTGTCTCATCAGGAAGATGACCGCAAT-GATCTGTTTTAATTCGCTTCTCTAGATCTC
* * *
25605027 CTCAGAAAGACGAATTTGGTCCACTTCTTTGTGTCTCATCAGGAAGCTAACCATTTTATTGTCTT
65 CTCAGAAAGACGAATTTAGTCCACTTC--TATGTCTCATCAGGAAGCTAACCATTTCATTGT-TT
*
25605092 -GACCTT-ATTCTCAGTGTCTCATCAGGAAGCTGAGGATCGAAGATTTACTCGTATTGAGCCTAG
127 CGA-CTTGATTCTCAGTGTCTCATCAGGAAGCTG-GGATCGAAGATTTACTCGCATTGAGCCTAG
* *
25605155 GTTTGATTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGC
190 GTTTGATTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTTAATTCGC
* *
25605220 TTCTTTGGATCTCCTCAGGGAGACGAATTTAGTCCACTTCTCAATGTCTCATCAAGAAGCTAACC
255 TTCTCTGGATCTCCTCAGGAAGACGAATTTAGTCCACTTCTCAATGTCTCATCAAGAAGCTAACC
* *
25605285 ATTTATTGCTTCGACTTG
320 ATTTATTGCTTCAACCTG
*
25605303 CTTCTTAGTGTCTCATCAGGAAG
1 CTTCTCAGTGTCTCATCAGGAAG
25605326 TTGGGGTTCG
Statistics
Matches: 324, Mismatches: 32, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
337 50 0.15
338 31 0.10
339 95 0.29
340 148 0.46
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (337 bp):
CTTCTCAGTGTCTCATCAGGAAGATGACCGCAATGATCTGTTTTAATTCGCTTCTCTAGATCTCC
TCAGAAAGACGAATTTAGTCCACTTCTATGTCTCATCAGGAAGCTAACCATTTCATTGTTTCGAC
TTGATTCTCAGTGTCTCATCAGGAAGCTGGGATCGAAGATTTACTCGCATTGAGCCTAGGTTTGA
TTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCT
GGATCTCCTCAGGAAGACGAATTTAGTCCACTTCTCAATGTCTCATCAAGAAGCTAACCATTTAT
TGCTTCAACCTG
Found at i:25605406 original size:205 final size:206
Alignment explanation
Indices: 25604964--25605416 Score: 660
Period size: 205 Copynumber: 2.2 Consensus size: 206
25604954 CTTCAACCTG
* ***
25604964 CTTCTCAGTGTCTCATCAGGAAGATGACCGCCTGGGTTGTTTTAATTCGCTTCTCTGGATCTCCT
1 CTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCT
* *** *
25605029 CAGAAAGACGAATTTGGTCCACTTCTTTGTGTCTCATCAGGAAGCTAACCATTTTATTGTCTTGA
66 CAGAAAGACGAATTTAGTCCACTTCTCAATGTCTCATCAAGAAGCTAACCATTTTATTGTCTTGA
*
25605094 CCTTATTCTCAGTGTCTCATCAGGAAGCTGAGGATCGAAGATTTACTCGTATTGAGCCTAGGTTT
131 CCTTATTCTCAGTGTCTCATCAGGAAGCTGAGGATCGAAGATTTACTCGCATTGAGCCTAGGTTT
25605159 GATTTGGTCTT
196 GATTTGGTCTT
*
25605170 CTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTTTGGATCTCCT
1 CTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCT
**
25605235 CAGGGAGACGAATTTAGTCCACTTCTCAATGTCTCATCAAGAAGCTAACCA-TTTATTG-CTTCG
66 CAGAAAGACGAATTTAGTCCACTTCTCAATGTCTCATCAAGAAGCTAACCATTTTATTGTCTT-G
* * * * * * * *
25605298 A-CTTGCTTCTTAGTGTCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTTGCATTGAGCCTGGGT
130 ACCTT-ATTCTCAGTGTCTCATCAGGAAGCTGAGGATCGAAGATTTACTCGCATTGAGCCTAGGT
25605362 TTGATTTGGTCTT
194 TTGATTTGGTCTT
* *
25605375 CTTCTTAGTGTCTCATCAGGAAAATGACCGCATCACTTGTTT
1 CTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTT
25605417 GTGTAAAATC
Statistics
Matches: 222, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
204 6 0.03
205 112 0.50
206 104 0.47
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (206 bp):
CTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTGGATCTCCT
CAGAAAGACGAATTTAGTCCACTTCTCAATGTCTCATCAAGAAGCTAACCATTTTATTGTCTTGA
CCTTATTCTCAGTGTCTCATCAGGAAGCTGAGGATCGAAGATTTACTCGCATTGAGCCTAGGTTT
GATTTGGTCTT
Found at i:25605857 original size:49 final size:49
Alignment explanation
Indices: 25605799--25606157 Score: 303
Period size: 49 Copynumber: 7.2 Consensus size: 49
25605789 GCTATTGCGA
* * ** *
25605799 CTTAAATCTTTCCCTTCAAATCTTCGTGGTACAGGATCCGCTGTCGCGG
1 CTTAGATCTTTCTCTTCATGTCTTCGTGGTACTGGATCCGCTGTCGCGG
25605848 CTTAGATCTTTCTCTTCATGTCTTCGTGGTACTGGATCCG-TCGTCGCGG
1 CTTAGATCTTTCTCTTCATGTCTTCGTGGTACTGGATCCGCT-GTCGCGG
* * * *
25605897 CTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATCAGTTGTCACGG
1 CTTAGATCTTTCTCTTCATGTCTTCGTGGTACTGGATCCGCTGTCGCGG
* * * *
25605946 CTTAGATCTTTCTC-TCCTGTCTTTTGCGGTACTGGATCCGCCGTCGCGG
1 CTTAGATCTTTCTCTTCATGTC-TTCGTGGTACTGGATCCGCTGTCGCGG
** * * *
25605995 CTTAGATCTTTCTCTTC-TGTCTTTTTGCAGTACTGAATCCGCCGTCACGG
1 CTTAGATCTTTCTCTTCATGTCTTCGTG--GTACTGGATCCGCTGTCGCGG
* * * * ** * * * * *
25606045 CTTAAATCTTTCCCTTCGTGTCTTCTGAGGTACACGATCTGCCGTTGTGA
1 CTTAGATCTTTCTCTTCATGTCTTC-GTGGTACTGGATCCGCTGTCGCGG
* * * * * *
25606095 CTTAGACCTTTCCCTT-TTGTCTTTTTGCGGTACTGGATCCGCTGTTGCGG
1 CTTAGATCTTTCTCTTCATGTC--TTCGTGGTACTGGATCCGCTGTCGCGG
25606145 TCTTAGATCTTTC
1 -CTTAGATCTTTC
25606158 CCGTCGTGTC
Statistics
Matches: 254, Mismatches: 45, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
48 11 0.04
49 142 0.56
50 81 0.32
51 19 0.07
52 1 0.00
ACGTcount: A:0.13, C:0.27, G:0.21, T:0.39
Consensus pattern (49 bp):
CTTAGATCTTTCTCTTCATGTCTTCGTGGTACTGGATCCGCTGTCGCGG
Found at i:25605934 original size:98 final size:98
Alignment explanation
Indices: 25605799--25606157 Score: 346
Period size: 98 Copynumber: 3.6 Consensus size: 98
25605789 GCTATTGCGA
* ** * *
25605799 CTTAAATCTTTCCCTTCAAATCTTCGTGGTACAGGATCCGCTGTCGCGGCTTAGATCTTTCTCTT
1 CTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCTGTCACGGCTTAGATCTTTCTCTT
* *
25605864 CATGTCTTCGTGGTACTGGATCCGTCGTCGCGG
66 CATGTCTTCGAGGTACTGGATCCGCCGTCGCGG
* *
25605897 CTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATCAGTTGTCACGGCTTAGATCTTTCTC-T
1 CTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCTGTCACGGCTTAGATCTTTCTCTT
* * *
25605961 CCTGTCTTTTGCGGTACTGGATCCGCCGTCGCGG
66 CATGTC-TTCGAGGTACTGGATCCGCCGTCGCGG
* ** * * * *
25605995 CTTAGATCTTTCTCTTC-TGTCTTTTTGCAGTACTGAATCCGCCGTCACGGCTTAAATCTTTCCC
1 CTTAGATCTTTCCCTTCATGTCTTCGTG--GTACTGGATCCGCTGTCACGGCTTAGATCTTTCTC
* ** * * * *
25606059 TTCGTGTCTTCTGAGGTACACGATCTGCCGTTGTGA
64 TTCATGTCTTC-GAGGTACTGGATCCGCCGTCGCGG
* * * * **
25606095 CTTAGACCTTTCCCTT-TTGTCTTTTTGCGGTACTGGATCCGCTGTTGCGGTCTTAGATCTTTC
1 CTTAGATCTTTCCCTTCATGTC--TTCGTGGTACTGGATCCGCTGTCACGG-CTTAGATCTTTC
25606158 CCGTCGTGTC
Statistics
Matches: 214, Mismatches: 38, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
97 14 0.07
98 96 0.45
99 31 0.14
100 58 0.27
101 11 0.05
102 4 0.02
ACGTcount: A:0.13, C:0.27, G:0.21, T:0.39
Consensus pattern (98 bp):
CTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCTGTCACGGCTTAGATCTTTCTCTT
CATGTCTTCGAGGTACTGGATCCGCCGTCGCGG
Found at i:25606106 original size:100 final size:99
Alignment explanation
Indices: 25605924--25606266 Score: 407
Period size: 101 Copynumber: 3.4 Consensus size: 99
25605914 ATGTCTTCGT
* ** * * * ** *
25605924 GGTACTGGATCAGTTGTCACGGCTTAGATCTTTCTCTCCTGTCTTTTGCGGTACTGGATCCGCCG
1 GGTACTGGATCCGCCGTCACGGCTTAGATCTTTCCCTCGTGTCTTTTGAGGTACACGATCTGCCG
* * * * * *
25605989 TCGCGGCTTAGATCTTTCTCTTCTGTCTTTTTGC
66 TTGTGACTTAGACCTTTCCCTTTTGTCTTTTTGC
* * * *
25606023 AGTACTGAATCCGCCGTCACGGCTTAAATCTTTCCCTTCGTGTCTTCTGAGGTACACGATCTGCC
1 GGTACTGGATCCGCCGTCACGGCTTAGATCTTTCCC-TCGTGTCTTTTGAGGTACACGATCTGCC
25606088 GTTGTGACTTAGACCTTTCCCTTTTGTCTTTTTGC
65 GTTGTGACTTAGACCTTTCCCTTTTGTCTTTTTGC
* ** * *
25606123 GGTACTGGATCCGCTGTTGCGGTCTTAGATCTTTCCCGTCGTGTCTTTTAAGGTACACGGTCTGC
1 GGTACTGGATCCGCCGTCACGG-CTTAGATCTTTCCC-TCGTGTCTTTTGAGGTACACGATCTGC
* *
25606188 CATTGTGACTTAGACCTTTCCCTTTTATCTTTTTGC
64 CGTTGTGACTTAGACCTTTCCCTTTTGTCTTTTTGC
*
25606224 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCATCGTGT
1 GGTACTGGATCCGCCGTCACGGCTTAGATCTTTCCC-TCGTGT
25606267 TTCATGGTGC
Statistics
Matches: 208, Mismatches: 34, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
99 29 0.14
100 88 0.42
101 91 0.44
ACGTcount: A:0.13, C:0.27, G:0.22, T:0.38
Consensus pattern (99 bp):
GGTACTGGATCCGCCGTCACGGCTTAGATCTTTCCCTCGTGTCTTTTGAGGTACACGATCTGCCG
TTGTGACTTAGACCTTTCCCTTTTGTCTTTTTGC
Found at i:25606250 original size:50 final size:50
Alignment explanation
Indices: 25605826--25606259 Score: 335
Period size: 50 Copynumber: 8.7 Consensus size: 50
25605816 AAATCTTCGT
* * * * * *
25605826 GGTACAGGATCCGCTGTCGCGGCTTAGATCTTTCTCTTCATGTC--TTCGT
1 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTT-TTGTCTTTTTGC
* * * *
25605875 GGTACTGGATCCGTCGTCGCGGCTTAGATCTTTCCCTTCATGTC--TTCGT
1 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTT-TTGTCTTTTTGC
* ** * * **
25605924 GGTACTGGATCAGTTGTCACGGCTTAGATCTTTCTCTCCTGTC-TTTTGC
1 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTTTTGTCTTTTTGC
* *
25605973 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCTCTTCTGTCTTTTTGC
1 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTTTTGTCTTTTTGC
* * * * * * *
25606023 AGTACTGAATCCGCCGTCACGGCTTAAATCTTTCCCTTCGTGTC-TTCTGA
1 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTT-TTGTCTTTTTGC
** * * * * *
25606073 GGTACACGATCTGCCGTTGTGACTTAGACCTTTCCCTTTTGTCTTTTTGC
1 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTTTTGTCTTTTTGC
* * ** **
25606123 GGTACTGGATCCGCTGTTGCGGTCTTAGATCTTTCCCGTCGTGTC-TTTTAA
1 GGTACTGGATCCGCCGTCGCGG-CTTAGATCTTTCCC-TTTTGTCTTTTTGC
* * * * * * * *
25606174 GGTACACGG-TCTGCCATTGTGACTTAGACCTTTCCCTTTTATCTTTTTGC
1 GGTAC-TGGATCCGCCGTCGCGGCTTAGATCTTTCCCTTTTGTCTTTTTGC
25606224 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCC
1 GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCC
25606260 ATCGTGTTTC
Statistics
Matches: 307, Mismatches: 69, Indels: 17
0.78 0.18 0.04
Matches are distributed among these distances:
48 4 0.01
49 129 0.42
50 133 0.43
51 34 0.11
52 7 0.02
ACGTcount: A:0.12, C:0.27, G:0.23, T:0.38
Consensus pattern (50 bp):
GGTACTGGATCCGCCGTCGCGGCTTAGATCTTTCCCTTTTGTCTTTTTGC
Found at i:25607195 original size:10 final size:9
Alignment explanation
Indices: 25607182--25607247 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 9
25607172 TTTTTTCTAA
25607182 TTTTTTTTC
1 TTTTTTTTC
25607191 GTTTTTTTTC
1 -TTTTTTTTC
25607201 TTTTATCTTTTTC
1 --TT-T-TTTTTC
*
25607214 TTTTTCTTC
1 TTTTTTTTC
25607223 TCTTTTTTTC
1 T-TTTTTTTC
25607233 TTCTTCTTTTC
1 TT-TT-TTTTC
25607244 TTTT
1 TTTT
25607248 ATTCATTGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
9 7 0.15
10 22 0.47
11 11 0.23
12 1 0.02
13 6 0.13
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:25607204 original size:6 final size:6
Alignment explanation
Indices: 25607195--25607247 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
25607185 TTTTTCGTTT
*
25607195 TTTTTC TTTTATC TTTTTC TTTTTC TTCTCTT- TTTTTC TTCTTC -TTTTC
1 TTTTTC TTTT-TC TTTTTC TTTTTC TT-T-TTC TTTTTC TTTTTC TTTTTC
25607244 TTTT
1 TTTT
25607248 ATTCATTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
5 6 0.15
6 23 0.57
7 9 0.22
8 2 0.05
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:25607211 original size:13 final size:12
Alignment explanation
Indices: 25607195--25607247 Score: 56
Period size: 13 Copynumber: 4.3 Consensus size: 12
25607185 TTTTTCGTTT
25607195 TTTTTCTTTTATC
1 TTTTTCTTTT-TC
25607208 TTTTTCTTTTTC
1 TTTTTCTTTTTC
25607220 TTCTCTT-TTTTTC
1 TT-T-TTCTTTTTC
*
25607233 TTCTTC-TTTTC
1 TTTTTCTTTTTC
25607244 TTTT
1 TTTT
25607248 ATTCATTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
11 10 0.29
12 4 0.11
13 19 0.54
14 2 0.06
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCTTTTTC
Found at i:25607245 original size:19 final size:19
Alignment explanation
Indices: 25607198--25607247 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
25607188 TTCGTTTTTT
* * *
25607198 TTCTTTTATCTTTTTCTTT
1 TTCTTTTCTTTTTTTCTTC
*
25607217 TTCTTCTCTTTTTTTCTTC
1 TTCTTTTCTTTTTTTCTTC
25607236 TTCTTTTCTTTT
1 TTCTTTTCTTTT
25607248 ATTCATTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (19 bp):
TTCTTTTCTTTTTTTCTTC
Found at i:25607247 original size:16 final size:15
Alignment explanation
Indices: 25607192--25607247 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 15
25607182 TTTTTTTTCG
*
25607192 TTTTTTTTCTTTTATC
1 TTTTTTTTCTTCT-TC
25607208 TTTTTCTTT-TTCTTC
1 TTTTT-TTTCTTCTTC
25607223 TCTTTTTTTCTTCTTC
1 T-TTTTTTTCTTCTTC
25607239 TTTTCTTTT
1 TTTT-TTTT
25607248 ATTCATTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
15 9 0.26
16 23 0.66
17 3 0.09
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTTTCTTCTTC
Found at i:25607406 original size:59 final size:59
Alignment explanation
Indices: 25607310--25607427 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
25607300 ATCACAATCA
*
25607310 AAGCTTCTCCAAAAGGACTTTCTTCATCTCATTGGGCCTTTCCCAATTTGACATCCATT
1 AAGCTTCTCCAAAAGGACTTTCTTCATCTCATGGGGCCTTTCCCAATTTGACATCCATT
*
25607369 AAGCTTCTTCAAAAGGACTTTCTTCATCTCATGGGGCCTTTCCCAATTTGACATCCATT
1 AAGCTTCTCCAAAAGGACTTTCTTCATCTCATGGGGCCTTTCCCAATTTGACATCCATT
25607428 TTTCTTGAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.36
Consensus pattern (59 bp):
AAGCTTCTCCAAAAGGACTTTCTTCATCTCATGGGGCCTTTCCCAATTTGACATCCATT
Found at i:25612443 original size:30 final size:28
Alignment explanation
Indices: 25612379--25612523 Score: 164
Period size: 29 Copynumber: 4.9 Consensus size: 28
25612369 ACTCGAGGGC
* *
25612379 AAAATAGTAATTTTAGAAAGTTTGGGGGT
1 AAAATA-TAATTTTAGAAAGTTTAGGGTT
25612408 AAAATATAATTTTTAGAAAGTATTAGGGTT
1 AAAATATAA-TTTTAGAAAGT-TTAGGGTT
*
25612438 AAAATATAATTTTGGAGAAGTTTAGGGTT
1 AAAATATAATTTTAGA-AAGTTTAGGGTT
* * *
25612467 AAAATGTAAATTTTAGAAAGTTTTGAGGTC
1 AAAATAT-AATTTTAGAAAGTTTAG-GGTT
*
25612497 AAAATATAATTTTGGAGAAGTTTAGGG
1 AAAATATAATTTTAGA-AAGTTTAGGG
25612524 GTCAAAACAC
Statistics
Matches: 100, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
28 3 0.03
29 54 0.54
30 43 0.43
ACGTcount: A:0.40, C:0.01, G:0.23, T:0.37
Consensus pattern (28 bp):
AAAATATAATTTTAGAAAGTTTAGGGTT
Found at i:25612459 original size:59 final size:59
Alignment explanation
Indices: 25612373--25612530 Score: 203
Period size: 59 Copynumber: 2.7 Consensus size: 59
25612363 TTAGATACTC
* * * *
25612373 GAGGGCAAAATAGTAATTTTAGA-AAGTTTGGGGGTAAAATATAATTTTTAGAAAGTATTA
1 GAGGTCAAAATA-TAATTTTGGAGAAGTTTAGGGGTAAAATATAAATTTTAGAAAGT-TTA
* * * *
25612433 G-GGTTAAAATATAATTTTGGAGAAGTTTAGGGTTAAAATGTAAATTTTAGAAAGTTTT
1 GAGGTCAAAATATAATTTTGGAGAAGTTTAGGGGTAAAATATAAATTTTAGAAAGTTTA
25612491 GAGGTCAAAATATAATTTTGGAGAAGTTTAGGGGTCAAAA
1 GAGGTCAAAATATAATTTTGGAGAAGTTTAGGGGT-AAAA
25612531 CACTATTTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
58 12 0.14
59 68 0.80
60 5 0.06
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.34
Consensus pattern (59 bp):
GAGGTCAAAATATAATTTTGGAGAAGTTTAGGGGTAAAATATAAATTTTAGAAAGTTTA
Found at i:25612539 original size:30 final size:29
Alignment explanation
Indices: 25612378--25612539 Score: 102
Period size: 30 Copynumber: 5.4 Consensus size: 29
25612368 TACTCGAGGG
* *
25612378 CAAAATAGTAATTTTAGA-AAGTTTGGGGGT
1 CAAAATA-T-ATTTTGGAGAAGTTTAGGGGT
*
25612408 -AAAATATAATTTT-TAGAAAGTATTA-GGGT
1 CAAAATAT-ATTTTGGAG-AAGT-TTAGGGGT
*
25612437 TAAAATATAATTTTGGAGAAGTTTA-GGGT
1 CAAAATAT-ATTTTGGAGAAGTTTAGGGGT
* * * * *
25612466 TAAAATGTAAATTTTAGA-AAGTTTTGAGGT
1 CAAAA--TATATTTTGGAGAAGTTTAGGGGT
25612496 CAAAATATAATTTTGGAGAAGTTTAGGGGT
1 CAAAATAT-ATTTTGGAGAAGTTTAGGGGT
*
25612526 CAAAACACTATTTT
1 CAAAATA-TATTTT
25612540 TGGATAGTAT
Statistics
Matches: 108, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
27 1 0.01
28 9 0.08
29 39 0.36
30 54 0.50
31 5 0.05
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (29 bp):
CAAAATATATTTTGGAGAAGTTTAGGGGT
Found at i:25614232 original size:12 final size:12
Alignment explanation
Indices: 25614217--25614249 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25614207 AATTGGACTT
25614217 TTAATTTTAATA
1 TTAATTTTAATA
*
25614229 TTAAGTTTAATA
1 TTAATTTTAATA
25614241 TT-ATTTTAA
1 TTAATTTTAA
25614250 ATTTGATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
TTAATTTTAATA
Done.