Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 161 of 240
Found at i:50552934 original size:7 final size:7
Alignment explanation
Indices: 50552909--50552990 Score: 51
Period size: 7 Copynumber: 11.9 Consensus size: 7
50552899 CAAAAAATAT
50552909 GGTTTA-
1 GGTTTAG
*
50552915 GGTTTAC
1 GGTTTAG
*
50552922 GATTTAG
1 GGTTTAG
*
50552929 GGTTTAC
1 GGTTTAG
50552936 GGTTTAG
1 GGTTTAG
*
50552943 AGTTTAG
1 GGTTTAG
*
50552950 AGTTTTA-
1 -GGTTTAG
*
50552957 GGTTTGG
1 GGTTTAG
50552964 GGTTTAG
1 GGTTTAG
**
50552971 TATTTAG
1 GGTTTAG
* *
50552978 GATTTAA
1 GGTTTAG
50552985 GGTTTA
1 GGTTTA
50552991 TGGTATATTG
Statistics
Matches: 57, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
6 10 0.18
7 43 0.75
8 4 0.07
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:50552941 original size:21 final size:20
Alignment explanation
Indices: 50552909--50552961 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
50552899 CAAAAAATAT
50552909 GGTTTAGGTTTACGA-TTTAG
1 GGTTTAGGTTTA-GAGTTTAG
50552929 GGTTTACGGTTTAGAGTTTAG
1 GGTTTA-GGTTTAGAGTTTAG
*
50552950 AGTTTTAGGTTT
1 -GGTTTAGGTTT
50552962 GGGGTTTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.28
21 16 0.55
22 5 0.17
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.47
Consensus pattern (20 bp):
GGTTTAGGTTTAGAGTTTAG
Found at i:50553571 original size:115 final size:115
Alignment explanation
Indices: 50553447--50553677 Score: 383
Period size: 115 Copynumber: 2.0 Consensus size: 115
50553437 GAAAAAACGT
* ** *
50553447 CGCTAAAGGTGATATATTA-CTGGCATTTTGTGAAGAAACGCCGCAAATTTCCTTTAACTGTAAC
1 CGCTAAAGGTGATACATTAGC-GGCATTTTACGAAGAAACACCGCAAATTTCCTTTAACTGTAAC
50553511 AAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGAATTTGAAAAACAC
65 AAAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGAATTTGAAAAACAC
*
50553562 CGCTAAAGGTGATACATTAGCGGCGTTTTACGAAGAAACACCGCAAATTTCCTTTAACTGTAACA
1 CGCTAAAGGTGATACATTAGCGGCATTTTACGAAGAAACACCGCAAATTTCCTTTAACTGTAACA
* *
50553627 AAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGCATTTTAAAAACAC
66 AAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGAATTTGAAAAACAC
50553677 C
1 C
50553678 ACAAATATTT
Statistics
Matches: 108, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
115 107 0.99
116 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (115 bp):
CGCTAAAGGTGATACATTAGCGGCATTTTACGAAGAAACACCGCAAATTTCCTTTAACTGTAACA
AAGACGGTGCCGTTTTGTTGTTTTCTTTTAGTGGCGAATTTGAAAAACAC
Found at i:50554966 original size:21 final size:21
Alignment explanation
Indices: 50554942--50554990 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
50554932 CAACAACTTA
*
50554942 AAGCAGAAGCAGTAGCGAGGG
1 AAGCAGAAGCAGTAACGAGGG
** *
50554963 AAGCAGCGGCTGTAACGAGGG
1 AAGCAGAAGCAGTAACGAGGG
50554984 AAGCAGA
1 AAGCAGA
50554991 GGTTGCAGCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.16, G:0.41, T:0.06
Consensus pattern (21 bp):
AAGCAGAAGCAGTAACGAGGG
Found at i:50555002 original size:21 final size:21
Alignment explanation
Indices: 50554955--50555012 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
50554945 CAGAAGCAGT
* *
50554955 AGCGAGGGAAGCAGCGGCTGT
1 AGCGAGGGAAGCAGAGGCTGC
* *
50554976 AACGAGGGAAGCAGAGGTTGC
1 AGCGAGGGAAGCAGAGGCTGC
*
50554997 AGCGAGAGAAGCAGAG
1 AGCGAGGGAAGCAGAG
50555013 CAGAGCAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.16, G:0.45, T:0.07
Consensus pattern (21 bp):
AGCGAGGGAAGCAGAGGCTGC
Found at i:50555435 original size:42 final size:43
Alignment explanation
Indices: 50555336--50555502 Score: 171
Period size: 42 Copynumber: 3.9 Consensus size: 43
50555326 TTATAAAAAA
* *** *
50555336 CGCCGCTAAAGAACA--ATTCTTTTAGCGGCATTTGTGAATAAAG
1 CGCCGCTAAAGAACATGA-TC-TTTAGCGGCATTTATTTTTGAAG
*
50555379 CGCTGCTAAAGAACATGATCTTTAGCGGCATTT-TTTTTGAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCATTTATTTTTGAAG
* * * *
50555421 CGCCGCTAAAGAACATGACCTTTAGCAGCGTTT-TTTTTCAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCATTTATTTTTGAAG
* * *
50555463 TGCCGCTAAAGAACATGATCTTTAGCTGCGTTTATTTTTG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCATTTATTTTTG
50555503 TAAACGTTGC
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 72 0.67
43 32 0.30
44 2 0.02
45 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (43 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCATTTATTTTTGAAG
Found at i:50555536 original size:15 final size:15
Alignment explanation
Indices: 50555516--50555545 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50555506 ACGTTGCAAA
*
50555516 CGTTAGCGACGTTTT
1 CGTTAGCGACCTTTT
50555531 CGTTAGCGACCTTTT
1 CGTTAGCGACCTTTT
50555546 TTGCGGCGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.40
Consensus pattern (15 bp):
CGTTAGCGACCTTTT
Found at i:50557101 original size:19 final size:19
Alignment explanation
Indices: 50557010--50557101 Score: 55
Period size: 19 Copynumber: 4.8 Consensus size: 19
50557000 GAAAAAACAT
*
50557010 TTTTATATATATTTTA-TA
1 TTTTATATATTTTTTATTA
* * *
50557028 TTTTCTAGA-TTTTTATATG
1 TTTTATATATTTTTTAT-TA
* ** *
50557047 TTTTATTGTACGTTTTATCA
1 TTTTA-TATATTTTTTATTA
*
50557067 TTTT-TATCATTATTTATTA
1 TTTTATAT-ATTTTTTATTA
50557086 TTTTATATATTTTTTA
1 TTTTATATATTTTTTA
50557102 ATTTCTTTTT
Statistics
Matches: 52, Mismatches: 16, Indels: 11
0.66 0.20 0.14
Matches are distributed among these distances:
17 5 0.10
18 9 0.17
19 23 0.44
20 9 0.17
21 6 0.12
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTTATATATTTTTTATTA
Found at i:50557119 original size:19 final size:19
Alignment explanation
Indices: 50557097--50557148 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
50557087 TTTATATATT
50557097 TTTTAATTTCTTTTTACAA
1 TTTTAATTTCTTTTTACAA
* **
50557116 TTTTAAATAATTTTTACAA
1 TTTTAATTTCTTTTTACAA
* *
50557135 TTTTTATATCTTTT
1 TTTTAATTTCTTTT
50557149 ATGATTTATA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAATTTCTTTTTACAA
Found at i:50557166 original size:18 final size:19
Alignment explanation
Indices: 50557140--50557186 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
50557130 TACAATTTTT
*
50557140 ATATCTTTTATGATTTAT-A
1 ATATTTTTTATGATTT-TCA
*
50557159 AT-TTTTTTATTATTTTCA
1 ATATTTTTTATGATTTTCA
50557177 ATATTTTTTA
1 ATATTTTTTA
50557187 AAAAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 1 0.04
18 14 0.58
19 9 0.38
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (19 bp):
ATATTTTTTATGATTTTCA
Found at i:50557223 original size:39 final size:41
Alignment explanation
Indices: 50557154--50557245 Score: 102
Period size: 40 Copynumber: 2.3 Consensus size: 41
50557144 CTTTTATGAT
*
50557154 TTATAATTTTTTTATTATTTTCAATATTTTT-TAAA-AAAA
1 TTATAATTTTTATATTATTTTCAATATTTTTATAAAGAAAA
*
50557193 TTATAAGTTTTTATATT-TTTATTAAT-TTTTTATAAAGAAAA
1 TTATAA-TTTTTATATTATTT-TCAATATTTTTATAAAGAAAA
*
50557234 ATATCAATTTTT
1 TTAT-AATTTTT
50557246 GTCCTATTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
39 14 0.31
40 17 0.38
41 12 0.27
42 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (41 bp):
TTATAATTTTTATATTATTTTCAATATTTTTATAAAGAAAA
Found at i:50557392 original size:15 final size:16
Alignment explanation
Indices: 50557366--50557395 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50557356 AATTAGATGT
50557366 GAAAAAAGAAAAAGAA
1 GAAAAAAGAAAAAGAA
50557382 GAAAAAA-AAAAAGA
1 GAAAAAAGAAAAAGA
50557396 GTAAGGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
GAAAAAAGAAAAAGAA
Found at i:50561325 original size:35 final size:35
Alignment explanation
Indices: 50561258--50561325 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
50561248 TATAACTTAT
* * *
50561258 CATATCATAACAAAACGTAACATGTCACATCATGC
1 CATATCATAACAAAACATAACATATCAAATCATGC
* * *
50561293 CATATCGTAACATAACATAGCATATCAAATCAT
1 CATATCATAACAAAACATAACATATCAAATCAT
50561326 ATCATGACCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (35 bp):
CATATCATAACAAAACATAACATATCAAATCATGC
Found at i:50563840 original size:2 final size:2
Alignment explanation
Indices: 50563833--50563863 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
50563823 TTCTAAGCGT
50563833 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
50563864 TTAAAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:50567817 original size:35 final size:35
Alignment explanation
Indices: 50567764--50567846 Score: 139
Period size: 35 Copynumber: 2.4 Consensus size: 35
50567754 TACTATCTTT
* *
50567764 TTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTTGATTGGACTAGCTCTTATGAGCA
50567799 TTGGTGTGTTTTGATTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTTGATTGGACTAGCTCTTATGAGCA
*
50567834 TTGTTGTGTTTTG
1 TTGGTGTGTTTTG
50567847 GAGGGATTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.13, C:0.11, G:0.30, T:0.46
Consensus pattern (35 bp):
TTGGTGTGTTTTGATTGGACTAGCTCTTATGAGCA
Found at i:50578610 original size:43 final size:44
Alignment explanation
Indices: 50578455--50578619 Score: 175
Period size: 43 Copynumber: 3.8 Consensus size: 44
50578445 TCCGATATAC
* *
50578455 GATTT-CGTGTAAGACCATGTATGGGACATTGGCATC-A-ATTT
1 GATTTACGTGTAAGACCATGTCTGGGACAGTGGCATCTATATTT
*
50578496 GAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATA--T
1 --GATTTACGTGTAAGACCATGTCTGGGACAGTGGCATC-TATATTT
* *
50578541 GATTTACGTGTAAGACCCTGTGTGGGACAGTGGCATCTATATTT
1 GATTTACGTGTAAGACCATGTCTGGGACAGTGGCATCTATATTT
*
50578585 GA-TTACATGTAAGACC-TCGTCTGGGAC-GATGGCAT
1 GATTTACGTGTAAGACCAT-GTCTGGGACAG-TGGCAT
50578620 TGTACAAGCT
Statistics
Matches: 108, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
42 6 0.06
43 66 0.61
44 33 0.31
45 1 0.01
46 1 0.01
47 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (44 bp):
GATTTACGTGTAAGACCATGTCTGGGACAGTGGCATCTATATTT
Found at i:50578618 original size:86 final size:85
Alignment explanation
Indices: 50578450--50578619 Score: 213
Period size: 86 Copynumber: 2.0 Consensus size: 85
50578440 AGAATTCCGA
* *
50578450 TATACGATTTCGTGTAAGACCATGTATGGGACATTGGCATCAATTTGAGATTTACGTGTAAGACC
1 TATACGATTTCGTGTAAGACCATGTATGGGACAGTGGCATCAATTT-AGATTTACATGTAAGACC
50578515 ATGTCTGGGACATTGGCATCG
65 ATGTCTGGGACATTGGCATCG
* * *
50578536 TATATGATTTACGTGTAAGACCCTGTGTGGGACAGTGGCATCTATATTT-GA-TTACATGTAAGA
1 TATACGATTT-CGTGTAAGACCATGTATGGGACAGTGGCATC-A-ATTTAGATTTACATGTAAGA
50578599 CC-TCGTCTGGGACGA-TGGCAT
63 CCAT-GTCTGGGAC-ATTGGCAT
50578620 TGTACAAGCT
Statistics
Matches: 74, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
85 1 0.01
86 37 0.50
87 31 0.42
88 1 0.01
89 4 0.05
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (85 bp):
TATACGATTTCGTGTAAGACCATGTATGGGACAGTGGCATCAATTTAGATTTACATGTAAGACCA
TGTCTGGGACATTGGCATCG
Found at i:50586548 original size:43 final size:43
Alignment explanation
Indices: 50586458--50586604 Score: 149
Period size: 43 Copynumber: 3.4 Consensus size: 43
50586448 AAGAGACCAA
* * *
50586458 GTCTAGGACATTGGCAACG-ATTTGAGATTTACGTGTAAGACCAT
1 GTCTAGGACATTGGCATCGTATAT--GATTTACGTGTAAGACCTT
50586502 GTCTAGGACATTGGCATCGTATATGATTTACGTGTAAGACCTT
1 GTCTAGGACATTGGCATCGTATATGATTTACGTGTAAGACCTT
* * * *
50586545 GTCTGGGACAGTGGCATC-TATATTTGA-TTACATGTAAGACCTC
1 GTCTAGGACATTGGCATCGTATA--TGATTTACGTGTAAGACCTT
*
50586588 GTCTGGGACGA-TGGCAT
1 GTCTAGGAC-ATTGGCAT
50586605 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
42 4 0.04
43 63 0.68
44 22 0.24
45 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
GTCTAGGACATTGGCATCGTATATGATTTACGTGTAAGACCTT
Found at i:50594818 original size:47 final size:47
Alignment explanation
Indices: 50594745--50594869 Score: 178
Period size: 47 Copynumber: 2.7 Consensus size: 47
50594735 CGGGACTTAC
* * * * * *
50594745 CACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGT
1 CACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTAT
* *
50594792 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTAT
50594839 CACATATATACACTTTCACATTCATCACATC
1 CACATATATACACTTTCACATTCATCACATC
50594870 ACACTTTCAC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.28, C:0.33, G:0.08, T:0.31
Consensus pattern (47 bp):
CACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTAT
Found at i:50594876 original size:22 final size:22
Alignment explanation
Indices: 50594848--50594891 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
50594838 TCACATATAT
50594848 ACACTTTCACATTCATCACATC
1 ACACTTTCACATTCATCACATC
50594870 ACACTTTCACATTCATCACATC
1 ACACTTTCACATTCATCACATC
50594892 GGCCATTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (22 bp):
ACACTTTCACATTCATCACATC
Found at i:50594958 original size:116 final size:117
Alignment explanation
Indices: 50594754--50594987 Score: 380
Period size: 116 Copynumber: 2.0 Consensus size: 117
50594744 CCACATTTAT
* * * *
50594754 ACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCA
1 ACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCA
50594819 CATCGGCCATTAGGCCTTATCACATATAT-ACACTTTCACATTCATCACATC
66 CATCGGCCATTAGGCCTTATCACATATATAACACTTTCACATTCATCACATC
* * *
50594870 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
1 ACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCA
*
50594935 CATCGGCTATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATC
66 CATCGGCCATTAGGCCTTATCACATATATA-ACACTTTCACATTCATCACATC
50594988 GGCCATTAGG
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
116 86 0.80
118 22 0.20
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (117 bp):
ACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATATAACACTTTCACATTCATCACATC
Found at i:50594959 original size:69 final size:69
Alignment explanation
Indices: 50594801--50594938 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
50594791 TCACATATAT
50594801 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
50594866 CATC
66 CATC
50594870 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
50594935 CATC
66 CATC
50594939 GGCTATTAGG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.30, C:0.32, G:0.06, T:0.32
Consensus pattern (69 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
CATC
Found at i:50594983 original size:49 final size:49
Alignment explanation
Indices: 50594869--50595114 Score: 424
Period size: 49 Copynumber: 5.1 Consensus size: 49
50594859 TTCATCACAT
50594869 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
50594917 -ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
50594965 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* *
50595014 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACCTATATA
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* * *
50595063 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
1 CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
50595112 CAC
1 CAC
50595115 TTCCACATTT
Statistics
Matches: 188, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
47 46 0.24
49 142 0.76
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:50599361 original size:23 final size:23
Alignment explanation
Indices: 50599335--50599382 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
50599325 CCGAGAGCAA
50599335 AAAAAGCATGTCA-ACAGACAGAG
1 AAAAAGCATGTCATA-AGACAGAG
50599358 AAAAAGCATGTCATAAGACAGAG
1 AAAAAGCATGTCATAAGACAGAG
50599381 AA
1 AA
50599383 CTTCATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.54, C:0.15, G:0.21, T:0.10
Consensus pattern (23 bp):
AAAAAGCATGTCATAAGACAGAG
Found at i:50602229 original size:30 final size:30
Alignment explanation
Indices: 50602195--50602369 Score: 116
Period size: 30 Copynumber: 5.9 Consensus size: 30
50602185 GAAAAAATAT
50602195 AAATTACATTTTAGCCCCTAAACTTTTTAA
1 AAATTACATTTTAGCCCCTAAACTTTTTAA
* *
50602225 AAATTACATTTT-GACCCC-CAACTTTTTCTA
1 AAATTACATTTTAG-CCCCTAAACTTTTT-AA
* * *
50602255 AATTTACATATT-GACCCCTAATA-TTTTT-T
1 AAATTACATTTTAG-CCCCTAA-ACTTTTTAA
* **
50602284 AAATTACA-TTTAGGCCCTAAACTTTCCAA
1 AAATTACATTTTAGCCCCTAAACTTTTTAA
* * * *
50602313 AAATTTCATTTTTGCCCC-ATATTTTTCTAA
1 AAATTACATTTTAGCCCCTAAACTTTT-TAA
*
50602343 AAATT-CACTTTTA-CCCCTAAAATTTTT
1 AAATTACA-TTTTAGCCCCTAAACTTTTT
50602370 GCATCTTCTG
Statistics
Matches: 112, Mismatches: 22, Indels: 23
0.71 0.14 0.15
Matches are distributed among these distances:
27 1 0.01
28 11 0.10
29 36 0.32
30 57 0.51
31 6 0.05
32 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (30 bp):
AAATTACATTTTAGCCCCTAAACTTTTTAA
Found at i:50602692 original size:34 final size:34
Alignment explanation
Indices: 50602631--50602695 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
50602621 GCGAAAAGCC
50602631 CACCCCACCGTCGATCCCACAACCACCGTCGTCT
1 CACCCCACCGTCGATCCCACAACCACCGTCGTCT
*
50602665 CACCGCCACCGT-GA-CACCACCACCACCGTCG
1 CACC-CCACCGTCGATC-CCACAACCACCGTCG
50602696 CACCTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 1 0.04
34 20 0.71
35 7 0.25
ACGTcount: A:0.22, C:0.54, G:0.14, T:0.11
Consensus pattern (34 bp):
CACCCCACCGTCGATCCCACAACCACCGTCGTCT
Found at i:50602699 original size:17 final size:18
Alignment explanation
Indices: 50602630--50602699 Score: 60
Period size: 17 Copynumber: 4.1 Consensus size: 18
50602620 AGCGAAAAGC
50602630 CCACC-CCACCGTCGATC-
1 CCACCACCACCGTCGA-CA
* *
50602647 CCACAACCACCGTCGTC-
1 CCACCACCACCGTCGACA
* *
50602664 TCACCGCCACCGT-GACA
1 CCACCACCACCGTCGACA
50602681 CCACCACCACCGTCG-CA
1 CCACCACCACCGTCGACA
50602698 CC
1 CC
50602700 TACACAAACA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
16 2 0.05
17 30 0.71
18 10 0.24
ACGTcount: A:0.21, C:0.56, G:0.13, T:0.10
Consensus pattern (18 bp):
CCACCACCACCGTCGACA
Found at i:50602911 original size:23 final size:24
Alignment explanation
Indices: 50602884--50602940 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
50602874 TGGCCCGAAG
50602884 AAGAAGAAAAAGA-A-AAAAAAAGA
1 AAGAAGAAAAAGAGAGAAAAAAA-A
*
50602907 AAGAAGAAAAAGAGAGAAGAAAAA
1 AAGAAGAAAAAGAGAGAAAAAAAA
50602931 AAG-AGAAAAA
1 AAGAAGAAAAA
50602941 ATATATATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 20 0.65
24 5 0.16
25 6 0.19
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (24 bp):
AAGAAGAAAAAGAGAGAAAAAAAA
Found at i:50602918 original size:13 final size:13
Alignment explanation
Indices: 50602884--50602930 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
50602874 TGGCCCGAAG
50602884 AAGAAGAAAAAG-
1 AAGAAGAAAAAGA
50602896 AA-AA-AAAAAGA
1 AAGAAGAAAAAGA
50602907 AAGAAGAAAAAGA
1 AAGAAGAAAAAGA
*
50602920 GAGAAGAAAAA
1 AAGAAGAAAAA
50602931 AAGAGAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
10 6 0.19
11 4 0.13
12 4 0.13
13 17 0.55
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAAAGA
Found at i:50602935 original size:13 final size:13
Alignment explanation
Indices: 50602882--50602941 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 13
50602872 TTTGGCCCGA
50602882 AGAAGAAGAAAAAG
1 AGAAGAA-AAAAAG
*
50602896 A-AA-AAAAAAGAA
1 AGAAGAAAAAA-AG
*
50602908 AGAAGAAAAAGAG
1 AGAAGAAAAAAAG
50602921 AGAAGAAAAAAAG
1 AGAAGAAAAAAAG
50602934 AGAA-AAAA
1 AGAAGAAAA
50602942 TATATATCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 4 0.10
12 8 0.21
13 21 0.54
14 6 0.15
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AGAAGAAAAAAAG
Found at i:50603219 original size:15 final size:16
Alignment explanation
Indices: 50603199--50603243 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
50603189 CCCAATCTGC
50603199 AGAAAAA-AAAAAAGA
1 AGAAAAACAAAAAAGA
*
50603214 AGAAAAAGAAAAAA-A
1 AGAAAAACAAAAAAGA
*
50603229 ACAAAAACAAAAAAG
1 AGAAAAACAAAAAAG
50603244 GCCCGAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 20 0.77
16 6 0.23
ACGTcount: A:0.84, C:0.04, G:0.11, T:0.00
Consensus pattern (16 bp):
AGAAAAACAAAAAAGA
Found at i:50603240 original size:21 final size:21
Alignment explanation
Indices: 50603199--50603241 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
50603189 CCCAATCTGC
*
50603199 AGAAAAAAAAAAAGAAGAAAA
1 AGAAAAAAAAAAAGAACAAAA
50603220 AGAAAAAAAACAAA-AACAAAA
1 AGAAAAAAAA-AAAGAACAAAA
50603241 A
1 A
50603242 AGGCCCGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAAAAAGAACAAAA
Found at i:50603786 original size:54 final size:53
Alignment explanation
Indices: 50603724--50603966 Score: 215
Period size: 54 Copynumber: 4.4 Consensus size: 53
50603714 ACGTCTTTTC
* *
50603724 AAAAATTTTCGTGTTTCAAAAATTTCTCGTGTTTTCAAAAGAATTCTTGTATTT
1 AAAAATTTTCGTGTTTCAAAAATTT-TCGTGTTTTCAAAAAAATTCTCGTATTT
* * *
50603778 AAAAATTTTTGTATTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTC-AAAAAAATTCTCGTATTT
* ** * *
50603832 AAAAATTTTTCGCGTTTTCAAAAAAATTTTCGTG-TTTCAAAAATTTTCGCGT-TCTCAA
1 AAAAA-TTTTCGTG-TTTC--AAAAATTTTCGTGTTTTCAAAAAAATTCTCGTAT-T--T
** *
50603890 AAAAAAATTCAG-GTTTCAAAGAATTTT-GTGTTTTCAAAAAAAATTCTCGTGTTT
1 AAAAATTTTC-GTGTTTCAAA-AATTTTCGTGTTTTC-AAAAAAATTCTCGTATTT
*
50603944 AAAAATTTTTGTGTTTTCAAAAA
1 AAAAATTTTCGTG-TTTCAAAAA
50603967 AAAAAGTTCT
Statistics
Matches: 153, Mismatches: 21, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
53 11 0.07
54 59 0.39
55 23 0.15
56 32 0.21
57 9 0.06
58 19 0.12
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (53 bp):
AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAATTCTCGTATTT
Found at i:50603819 original size:37 final size:38
Alignment explanation
Indices: 50603778--50604024 Score: 258
Period size: 37 Copynumber: 6.6 Consensus size: 38
50603768 TCTTGTATTT
* *
50603778 AAAAATTTTTGTATTTCAAAAATTTTCGTGTTTTCAAA
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
* *
50603816 AAAAATTCTCGTGTTT-AAAAATTTTTCGCGTTTTC-AA
1 AAAAATTTTCGTGTTTCAAAAA-TTTTCGTGTTTTCAAA
* *
50603853 AAAAATTTTCGTGTTTCAAAAATTTTCGCGTTCTCAAA
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
*
50603891 AAAAA-ATTCAG-GTTTCAAAGAATTTT-GTGTTTTCAAA
1 AAAAATTTTC-GTGTTTCAAA-AATTTTCGTGTTTTCAAA
* *
50603928 AAAAATTCTCGTGTTT-AAAAATTTTTGTGTTTTCAAAA
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTC-AAA
** * * *
50603966 AAAAAAGTTCTTGTTTCAAAAGTTTTCGTGTTTT--TA
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
*
50604002 AAAAAGTTTCGTGTTTCCAAAAA
1 AAAAATTTTCGTGTTT-CAAAAA
50604025 AATTTCTCGT
Statistics
Matches: 176, Mismatches: 22, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
36 20 0.11
37 76 0.43
38 65 0.37
39 15 0.09
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (38 bp):
AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
Found at i:50603870 original size:75 final size:74
Alignment explanation
Indices: 50603778--50604024 Score: 272
Period size: 75 Copynumber: 3.3 Consensus size: 74
50603768 TCTTGTATTT
* *
50603778 AAAAATTTTTGTATTTCAAAAATTTTCGTGTTTTC-AAAAAAAATTCTCGTGTTTAAAAATTTTT
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAAATTCT-GTGTTTAAAAA-TTTT
*
50603842 CGCGTTTTCAA
64 CGTGTTTTCAA
* * *
50603853 AAAAATTTTCGTGTTTCAAAAATTTTCGCGTTCTCAAAAAAAAATTCAG-GTTTCAAAGAATTTT
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAAATTCTGTGTTT-AAA-AATTTT
50603917 -GTGTTTTCAAA
64 CGTGTTTTC-AA
* * *
50603928 AAAAATTCTCGTGTTT-AAAAATTTTTGTGTTTTCAAAAAAAAAAGTTCT-TGTTTCAAAAGTTT
1 AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTC-AAAAAAAAA-TTCTGTGTTT-AAAAATTT
*
50603991 TCGTGTTTT-TA
63 TCGTGTTTTCAA
*
50604002 AAAAAGTTTCGTGTTTCCAAAAA
1 AAAAATTTTCGTGTTT-CAAAAA
50604025 AATTTCTCGT
Statistics
Matches: 147, Mismatches: 15, Indels: 19
0.81 0.08 0.10
Matches are distributed among these distances:
74 41 0.28
75 70 0.48
76 36 0.24
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (74 bp):
AAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAAATTCTGTGTTTAAAAATTTTCG
TGTTTTCAA
Found at i:50604024 original size:20 final size:19
Alignment explanation
Indices: 50603795--50604044 Score: 96
Period size: 20 Copynumber: 13.2 Consensus size: 19
50603785 TTTGTATTTC
*
50603795 AAAAATTTTCGTGTTTTCAA
1 AAAAAGTTTCGTG-TTTCAA
*
50603815 AAAAAATTCTCGTGTTT--A
1 AAAAAGTT-TCGTGTTTCAA
** *
50603833 AAAATTTTTCGCGTTTTCAA
1 AAAAAGTTTCGTG-TTTCAA
*
50603853 AAAAATTTTCGTGTTTC--
1 AAAAAGTTTCGTGTTTCAA
* *
50603870 AAAAATTTTCGCGTTCTCAA
1 AAAAAGTTTCGTGTT-TCAA
**
50603890 AAAAAAATTCAG-GTTTC-A
1 AAAAAGTTTC-GTGTTTCAA
* *
50603908 AAGAA-TTTTGTGTTTTCAA
1 AAAAAGTTTCGTG-TTTCAA
*
50603927 AAAAAATTCTCGTGTTT---
1 AAAAAGTT-TCGTGTTTCAA
* *
50603944 AAAAATTTTTGTGTTTTCAAAAA
1 AAAAAGTTTCGTG-TTTC---AA
*
50603967 AAAAAG-TTCTTGTTTC--
1 AAAAAGTTTCGTGTTTCAA
**
50603983 -AAAAGTTTTCGTGTTTTTA
1 AAAAAG-TTTCGTGTTTCAA
50604002 AAAAAGTTTCGTGTTTCCAA
1 AAAAAGTTTCGTGTTT-CAA
* *
50604022 AAAAATTTCTCGTGGTTCAA
1 AAAAAGTT-TCGTGTTTCAA
50604042 AAA
1 AAA
50604045 TTTCCGTGTT
Statistics
Matches: 178, Mismatches: 25, Indels: 54
0.69 0.10 0.21
Matches are distributed among these distances:
15 5 0.03
16 5 0.03
17 39 0.22
18 21 0.12
19 21 0.12
20 57 0.32
21 21 0.12
22 4 0.02
23 5 0.03
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (19 bp):
AAAAAGTTTCGTGTTTCAA
Found at i:50604080 original size:39 final size:37
Alignment explanation
Indices: 50604002--50604084 Score: 94
Period size: 38 Copynumber: 2.2 Consensus size: 37
50603992 CGTGTTTTTA
*
50604002 AAAAAGTTTCGTGTTTCCAAAAAAATTTCTCGTGGTTC
1 AAAAA-TTTCGTGTTTCCAAAAAAATTTATCGTGGTTC
* * * *
50604040 AAAAATTTCCGTGTTTTCAAAAAATTATTATGGTGTTTC
1 AAAAATTT-CGTGTTTCCAAAAAAAT-TTATCGTGGTTC
50604079 AAAAAT
1 AAAAAT
50604085 CTACTATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
37 3 0.08
38 20 0.53
39 15 0.39
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (37 bp):
AAAAATTTCGTGTTTCCAAAAAAATTTATCGTGGTTC
Found at i:50612533 original size:76 final size:75
Alignment explanation
Indices: 50612316--50612970 Score: 796
Period size: 75 Copynumber: 8.7 Consensus size: 75
50612306 AGAATTATAT
50612316 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC
1 TTTTC-ATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC
*
50612381 ATCTTGAGGTA
65 ATCCTGAGGTA
* *
50612392 TTTTCATTTCTGTTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACA
1 TTTTCATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACA
50612457 TCCTGAGGTA
66 TCCTGAGGTA
*
50612467 TTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTTGGGTCAC
1 TTTTCATTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC
50612532 ATCCTGAGGTA
65 ATCCTGAGGTA
* * * *
50612543 TTTTTATTT-TGTTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCATTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC
*
50612607 --GCTGAGGTA
65 ATCCTGAGGTA
* ** * *
50612616 -TTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCA-
1 TTTTC-ATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC
*
50612679 A-GCTGAGGTA
65 ATCCTGAGGTA
*
50612689 TTTTCAATTTCTATTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTT
1 TTTTC-ATTTCTATTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGG-T
*
50612754 GCAC-GCC-GAGGTA
62 -CACATCCTGAGGTA
* * *
50612767 TTTTTAATTTCT-TTTTT-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTAGGGTCAC
1 -TTTTCATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCAC
*
50612830 ATGCTGAGGTATA
65 ATCCTGAGG--TA
* * * * * *
50612843 TTTTAATTTCTATTTTCCAAAAAATCAACTTATATTGCAAAAGGTGAGTTGAGCCTTGGGTCATA
1 TTTTCATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACA
50612908 TGCC-GAGGTA
66 T-CCTGAGGTA
** * *
50612918 TTTTTCAATTTCTATTTTTC-AAAGGTCAACTCATAAT-CTGAGAAGTGAGTTGA
1 -TTTTC-ATTTCTATTTTTCAAAAAATCAACTCATATTGC-GAGAGGTGAGTTGA
50612971 ACTTTGGATC
Statistics
Matches: 514, Mismatches: 43, Indels: 44
0.86 0.07 0.07
Matches are distributed among these distances:
72 6 0.01
73 66 0.13
74 66 0.13
75 149 0.29
76 143 0.28
77 64 0.12
78 15 0.03
79 5 0.01
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (75 bp):
TTTTCATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACA
TCCTGAGGTA
Found at i:50612590 original size:151 final size:151
Alignment explanation
Indices: 50612313--50612970 Score: 831
Period size: 151 Copynumber: 4.4 Consensus size: 151
50612303 TCAAGAATTA
50612313 TATTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGT
1 TATTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGT
* * *
50612378 CACATCTTGAGGTATTTTCATTTCTGTTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTT
66 CACATCCTGAGGTATTTTTATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
50612442 GAGCCTTGGGTCACATCCTGAGG
131 GAGCCTCGGGTCAC-TCC-GAGG
*
50612465 TA-TTTTC-ATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTTGGG
1 TATTTTTCAATTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGG
*
50612528 TCACATCCTGAGGTATTTTTATTT-TGTTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGT
65 TCACATCCTGAGGTATTTTTATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
* *
50612592 TGAGCCTCGGGTCACGCTGAGG
130 TGAGCCTCGGGTCACTCCGAGG
* ** * *
50612614 TA--TTTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAT
1 TATTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGT
* * *
50612677 CA-A-GCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAG
66 CACATCCTGAGGTATTTT-TATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAG
*
50612740 TTGAGCCTCGGGTTGCACGCCGAGG
129 TTGAGCCTCGGG-T-CACTCCGAGG
* *
50612765 TATTTTT-AATTTCT-TTTTT-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTAGGGT
1 TATTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGT
* * * * * *
50612827 CACATGCTGAGGTATATTTTAATTTCT-ATTTTCCAAAAAATCAACTTATATTGCAAAAGGTGAG
66 CACATCCTGAGGTAT-TTTT-ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
* *
50612891 TTGAGCCTTGGGTCATATGCCGAGG
129 TTGAGCCTCGGGTCA-CT-CCGAGG
** * *
50612916 TATTTTTCAATTTCTATTTTTC-AAAGGTCAACTCATAAT-CTGAGAAGTGAGTTGA
1 TATTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGC-GAGAGGTGAGTTGA
50612971 ACTTTGGATC
Statistics
Matches: 450, Mismatches: 36, Indels: 39
0.86 0.07 0.07
Matches are distributed among these distances:
146 12 0.03
147 5 0.01
148 53 0.12
149 60 0.13
150 66 0.15
151 178 0.40
152 31 0.07
153 45 0.10
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (151 bp):
TATTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGT
CACATCCTGAGGTATTTTTATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCGGGTCACTCCGAGG
Found at i:50613320 original size:30 final size:30
Alignment explanation
Indices: 50613286--50613447 Score: 109
Period size: 30 Copynumber: 5.4 Consensus size: 30
50613276 TACAAAATAC
50613286 AAATTACATTTTAGCCCCTAAATTTTTCAA
1 AAATTACATTTTAGCCCCTAAATTTTTCAA
* * *
50613316 AAATTACATTTTAACCCCTAACTTTTTCTA
1 AAATTACATTTTAGCCCCTAAATTTTTCAA
* **
50613346 AATTTACATAGT-GACCCCTAATATTTTGT---
1 AAATTACATTTTAG-CCCCTAA-ATTTT-TCAA
** * * *
50613375 AAATTACATTTGGGCCTCTAAACTTTACAA
1 AAATTACATTTTAGCCCCTAAATTTTTCAA
* * * *
50613405 AAATTACATTTTGGCCTC-ATATTTTTCTA
1 AAATTACATTTTAGCCCCTAAATTTTTCAA
*
50613434 AAATTGCACTTTTA
1 AAATTACA-TTTTA
50613448 CACTAGAAAT
Statistics
Matches: 102, Mismatches: 22, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
28 4 0.04
29 28 0.27
30 65 0.64
31 4 0.04
32 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.41
Consensus pattern (30 bp):
AAATTACATTTTAGCCCCTAAATTTTTCAA
Found at i:50614002 original size:22 final size:21
Alignment explanation
Indices: 50613976--50614030 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
50613966 CCCGAAGAAG
50613976 AAGAAGAAAAAGAAAAAAAAGA
1 AAGAAGAAAAAGAAAAAAAA-A
*
50613998 AAGAAGACAAAGAGAAAGAAAAA
1 AAGAAGA-AAA-AGAAAAAAAAA
50614021 AAG-AGAAAAA
1 AAGAAGAAAAA
50614031 AAATATATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.03
21 3 0.10
22 10 0.33
23 7 0.23
24 9 0.30
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (21 bp):
AAGAAGAAAAAGAAAAAAAAA
Found at i:50614010 original size:28 final size:29
Alignment explanation
Indices: 50613970--50614028 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
50613960 GTTCGGCCCG
50613970 AAGAAGAAGAAGAAAAAGAAAAAAA-AGA
1 AAGAAGAAGAAGAAAAAGAAAAAAAGAGA
*
50613998 AAGAAGACA-AAGAGAAAGAAAAAAAGAGA
1 AAGAAGA-AGAAGAAAAAGAAAAAAAGAGA
50614027 AA
1 AA
50614029 AAAAATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (29 bp):
AAGAAGAAGAAGAAAAAGAAAAAAAGAGA
Found at i:50614336 original size:6 final size:6
Alignment explanation
Indices: 50614327--50614359 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
50614317 AAAAAAGAAA
50614327 AAAAAC -AAAAC -AAAAC AAAAAC AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
50614360 TGCCCGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:50614872 original size:18 final size:17
Alignment explanation
Indices: 50614836--50615251 Score: 207
Period size: 17 Copynumber: 22.5 Consensus size: 17
50614826 CAATACGTCT
*
50614836 TTTCAAAAATTTTCATG
1 TTTCAAAAATTTTCGTG
50614853 TTTCAAAAATTTCTCGTG
1 TTTCAAAAATTT-TCGTG
50614871 TTTTCAAAAAAATTCTT-GTG
1 -TTTC--AAAAATT-TTCGTG
* *
50614891 TTT-AAAAATTTTCCTA
1 TTTCAAAAATTTTCGTG
50614907 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
* *
50614924 TTTTAAAAAAAATTCTCGTG
1 -TTT--CAAAAATTTTCGTG
* *
50614944 TTT-ACAAATTTTTCGCG
1 TTTCA-AAAATTTTCGTG
50614961 TTTTCAAAAAATTTTTCGTG
1 -TTTC-AAAAA-TTTTCGTG
*
50614981 TTTCAAAAATTTTCGCG
1 TTTCAAAAATTTTCGTG
*
50614998 TTTTCAAAAAAAATTTCGTG
1 -TTTC--AAAAATTTTCGTG
50615018 -TTCAAAGAA-TTTCGTG
1 TTTCAAA-AATTTTCGTG
*
50615034 CTTTCAAAAAAAATTCTCGTG
1 -TTTC---AAAAATTTTCGTG
*
50615055 TTT-AAAAATTTTCATG
1 TTTCAAAAATTTTCGTG
** *
50615071 TTTTCAAAAAAAAGTTCTTG
1 -TTTC--AAAAATTTTCGTG
* *
50615091 TTTTAAAAGTTTTCGTG
1 TTTCAAAAATTTTCGTG
*
50615108 TTTTCAAAAAAGTTTCGTG
1 -TTTC-AAAAATTTTCGTG
50615127 TTTCCAAAAAAAATTTCTCGTG
1 TTT-C---AAAAATTT-TCGTG
* *
50615149 TTTCAAAAATTTCCATG
1 TTTCAAAAATTTTCGTG
*
50615166 TTTTCAAAAAATTATTATGGTG
1 -TTTC-AAAAA-T-TT-TCGTG
*
50615188 TTTCAAAAA-TCTCGTGG
1 TTTCAAAAATTTTCGT-G
* *
50615205 TTTAAAAAAAATATATCGTG
1 TTT--CAAAAAT-TTTCGTG
*
50615225 TTTCAAAAATTTCCGTG
1 TTTCAAAAATTTTCGTG
50615242 TTTTCAAAAA
1 -TTTCAAAAA
50615252 ATTATTATGG
Statistics
Matches: 311, Mismatches: 42, Indels: 91
0.70 0.09 0.20
Matches are distributed among these distances:
15 2 0.01
16 36 0.12
17 66 0.21
18 58 0.19
19 42 0.14
20 59 0.19
21 37 0.12
22 11 0.04
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.43
Consensus pattern (17 bp):
TTTCAAAAATTTTCGTG
Found at i:50614935 original size:37 final size:37
Alignment explanation
Indices: 50614836--50615136 Score: 232
Period size: 37 Copynumber: 8.2 Consensus size: 37
50614826 CAATACGTCT
* *
50614836 TTTCAAAAATTTTCATG-TTT--CAAAAATTTCTCGTG
1 TTTCAAAAATTTTCGTGTTTTAAAAAAAATTT-TCGTG
** * * *
50614871 TTTTCAAAAAAATTCTTGTGTTT---AAAAATTTTCCTA
1 -TTTCAAAAATTTTCGTGT-TTTAAAAAAAATTTTCGTG
*
50614907 TTTCAAAAATTTTCGTGTTTTAAAAAAAATTCTCGTG
1 TTTCAAAAATTTTCGTGTTTTAAAAAAAATTTTCGTG
* * * *
50614944 TTT-ACAAATTTTTCGCGTTTTCAAAAAATTTTTCGTG
1 TTTCA-AAAATTTTCGTGTTTTAAAAAAAATTTTCGTG
*
50614981 TTTCAAAAATTTTCGCGTTTTCAAAAAAAA-TTTCGTG
1 TTTCAAAAATTTTCGTGTTTT-AAAAAAAATTTTCGTG
* *
50615018 -TTCAAAGAA-TTTCGTGCTTTCAAAAAAAATTCTCGTG
1 TTTCAAA-AATTTTCGTG-TTTTAAAAAAAATTTTCGTG
* * *
50615055 TTT-AAAAATTTTCATGTTTTCAAAAAAAA-GTTCTTG
1 TTTCAAAAATTTTCGTGTTTT-AAAAAAAATTTTCGTG
* * * *
50615091 TTTTAAAAGTTTTCGTGTTTT-CAAAAAAGTTTCGTG
1 TTTCAAAAATTTTCGTGTTTTAAAAAAAATTTTCGTG
50615127 TTTCCAAAAA
1 TTT-CAAAAA
50615137 AAATTTCTCG
Statistics
Matches: 214, Mismatches: 34, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
34 3 0.01
35 21 0.10
36 58 0.27
37 120 0.56
38 12 0.06
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (37 bp):
TTTCAAAAATTTTCGTGTTTTAAAAAAAATTTTCGTG
Found at i:50614993 original size:74 final size:74
Alignment explanation
Indices: 50614836--50615136 Score: 284
Period size: 74 Copynumber: 4.1 Consensus size: 74
50614826 CAATACGTCT
* * * ** *
50614836 TTTCAAAAATTTTCATG-TTTC--AAAAATTTCTCGTGTTTTCAAAAAAATTCTTGTGTTT--AA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTAC-AAAATTTTCGTGT-TTTCAAA
* *
50614896 AAATTTTCCTA
64 AAATTTTCGTG
* *
50614907 TTTCAAAAATTTTCGTGTTTT-AAAAAAAATTCTCGTGTTTACAAATTTTTCGCGTTTTCAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTACAAAATTTTCGTGTTTTCAAAAA
50614971 ATTTTTCGTG
66 A-TTTTCGTG
* * *
50614981 TTTCAAAAATTTTCGCGTTTTCAAAAAAAATT-TCGTG-TT-CAAAGAATTTCGTGCTTTCAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTACAAA-ATTTTCGTGTTTTC--AA
*
50615043 AAAATTCTCGTG
63 AAAATTTTCGTG
* * *
50615055 TTT-AAAAATTTTCATGTTTTCAAAAAAAAGTTCTTGT-TTTA-AAAGTTTTCGTGTTTTCAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAA-TTCTCGTGTTTACAAAATTTTCGTGTTTTCAAAA
*
50615117 AAGTTTCGTG
65 AATTTTCGTG
50615127 TTTCCAAAAA
1 TTT-CAAAAA
50615137 AAATTTCTCG
Statistics
Matches: 190, Mismatches: 24, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
71 19 0.10
72 30 0.16
73 58 0.31
74 59 0.31
75 24 0.13
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (74 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTACAAAATTTTCGTGTTTTCAAAAA
ATTTTCGTG
Found at i:50615147 original size:22 final size:20
Alignment explanation
Indices: 50614911--50615157 Score: 85
Period size: 20 Copynumber: 13.1 Consensus size: 20
50614901 TTCCTATTTC
* *
50614911 AAAAATTTTCGTGTTTTAAA
1 AAAAAGTTTCGTGTTTCAAA
50614931 AAAAA-TTCTCGTGTTT---A
1 AAAAAGTT-TCGTGTTTCAAA
* ** *
50614948 CAAATTTTTCGCGTTTTC-AA
1 AAAAAGTTTCGTG-TTTCAAA
**
50614968 AAAATTTTTCGTGTTTC---
1 AAAAAGTTTCGTGTTTCAAA
* *
50614985 AAAAATTTTCGCGTTTTCAAA
1 AAAAAGTTTCGTG-TTTCAAA
50615006 AAAAA-TTTCGTG-TTC--A
1 AAAAAGTTTCGTGTTTCAAA
*
50615022 AAGAA-TTTCGTGCTTTCAAA
1 AAAAAGTTTCGTG-TTTCAAA
50615042 AAAAA-TTCTCGTGTTT----
1 AAAAAGTT-TCGTGTTTCAAA
* *
50615058 AAAAATTTTCATGTTTTCAAA
1 AAAAAGTTTCGTG-TTTCAAA
*
50615079 AAAAAG-TTCTTGTTT----
1 AAAAAGTTTCGTGTTTCAAA
*
50615094 TAAAAGTTTTCGTGTTTTC--A
1 AAAAAG-TTTCGTG-TTTCAAA
50615114 AAAAAGTTTCGTGTTTCCAAA
1 AAAAAGTTTCGTGTTT-CAAA
*
50615135 AAAAATTTCTCGTGTTTCAAA
1 AAAAAGTT-TCGTGTTTCAAA
50615156 AA
1 AA
50615158 TTTCCATGTT
Statistics
Matches: 181, Mismatches: 17, Indels: 57
0.71 0.07 0.22
Matches are distributed among these distances:
15 5 0.03
16 21 0.12
17 29 0.16
18 21 0.12
19 17 0.09
20 51 0.28
21 29 0.16
22 8 0.04
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (20 bp):
AAAAAGTTTCGTGTTTCAAA
Found at i:50615168 original size:39 final size:38
Alignment explanation
Indices: 50615095--50615306 Score: 200
Period size: 38 Copynumber: 5.5 Consensus size: 38
50615085 TTCTTGTTTT
* *
50615095 AAAAGTTT-TCGTGTTTTCAAAAAAGTTTCGTGTTTCCAAA
1 AAAAATTTATCGTG-TTTC-AAAAA-TTTCGTGTTTTCAAA
* *
50615135 AAAAATTTCTCGTGTTTCAAAAATTTCCATGTTTTC-AA
1 AAAAATTTATCGTGTTTCAAAAATTT-CGTGTTTTCAAA
* * * *
50615173 AAAATTATTATGGTGTTTCAAAAATCTCGTGGTTT-AAA
1 AAAAAT-TTATCGTGTTTCAAAAATTTCGTGTTTTCAAA
*
50615211 AAAAATATATCGTGTTTCAAAAATTTCCGTGTTTTC-AA
1 AAAAATTTATCGTGTTTCAAAAATTT-CGTGTTTTCAAA
* * * *
50615249 AAAATTATTATGGTGTTTCAAAAATCTCGTGGTTT-AAA
1 AAAAAT-TTATCGTGTTTCAAAAATTTCGTGTTTTCAAA
*
50615287 AAAAATATATCGTGTTTCAA
1 AAAAATTTATCGTGTTTCAA
50615307 TCGGATCACG
Statistics
Matches: 142, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
37 29 0.20
38 51 0.36
39 46 0.32
40 11 0.08
41 5 0.04
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (38 bp):
AAAAATTTATCGTGTTTCAAAAATTTCGTGTTTTCAAA
Found at i:50615226 original size:76 final size:76
Alignment explanation
Indices: 50615132--50615306 Score: 323
Period size: 76 Copynumber: 2.3 Consensus size: 76
50615122 TCGTGTTTCC
* *
50615132 AAAAAAAATTTCTCGTGTTTCAAAAATTTCCATGTTTTCAAAAAATTATTATGGTGTTTCAAAAA
1 AAAAAAAATATATCGTGTTTCAAAAATTTCCATGTTTTCAAAAAATTATTATGGTGTTTCAAAAA
50615197 TCTCGTGGTTT
66 TCTCGTGGTTT
*
50615208 AAAAAAAATATATCGTGTTTCAAAAATTTCCGTGTTTTCAAAAAATTATTATGGTGTTTCAAAAA
1 AAAAAAAATATATCGTGTTTCAAAAATTTCCATGTTTTCAAAAAATTATTATGGTGTTTCAAAAA
50615273 TCTCGTGGTTT
66 TCTCGTGGTTT
50615284 AAAAAAAATATATCGTGTTTCAA
1 AAAAAAAATATATCGTGTTTCAA
50615307 TCGGATCACG
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 96 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (76 bp):
AAAAAAAATATATCGTGTTTCAAAAATTTCCATGTTTTCAAAAAATTATTATGGTGTTTCAAAAA
TCTCGTGGTTT
Found at i:50621138 original size:34 final size:34
Alignment explanation
Indices: 50621045--50621139 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 34
50621035 AATGATCAGC
* * **
50621045 TGTCCATTGATGTGCCCGAATAACCTTGTTGATA
1 TGTCCATTGATGTGCACGAATAGCCTTGAAGATA
* *
50621079 TGTCCATTGATGTGTACGAACAGCCTTGAAGATA
1 TGTCCATTGATGTGCACGAATAGCCTTGAAGATA
** *
50621113 TGTCTTTTGATGTGCACGAGTAGCCTT
1 TGTCCATTGATGTGCACGAATAGCCTT
50621140 TGATAGTTGC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (34 bp):
TGTCCATTGATGTGCACGAATAGCCTTGAAGATA
Found at i:50630590 original size:12 final size:12
Alignment explanation
Indices: 50630573--50630597 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50630563 TAGATAAATG
50630573 ATTATTGTTATT
1 ATTATTGTTATT
50630585 ATTATTGTTATT
1 ATTATTGTTATT
50630597 A
1 A
50630598 AATTTTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
ATTATTGTTATT
Found at i:50630624 original size:18 final size:16
Alignment explanation
Indices: 50630601--50630642 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
50630591 GTTATTAAAT
50630601 TTTAATTATTAAAAAAA
1 TTTAATTATT-AAAAAA
*
50630618 GTTTAA-TAATAAAAAA
1 -TTTAATTATTAAAAAA
50630634 TTTAATTAT
1 TTTAATTAT
50630643 ATTTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 5 0.24
16 8 0.38
17 3 0.14
18 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TTTAATTATTAAAAAA
Found at i:50630665 original size:52 final size:53
Alignment explanation
Indices: 50630605--50630704 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 53
50630595 TTAAATTTTA
** *
50630605 ATTATTAAAAAAAGTTTAATAATAAA-AAATTTAAT-TATATTTTAATATAATT
1 ATTATTAAAAAAAGTTTAATAA-AAATAAAAATAATATATAATTTAATATAATT
* *
50630657 ATTATTAAATATAGTTTAATAAAAATAAAAATAATATATAATTTAATA
1 ATTATTAAAAAAAGTTTAATAAAAATAAAAATAATATATAATTTAATA
50630705 ATATTTTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 3 0.07
52 27 0.66
53 11 0.27
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (53 bp):
ATTATTAAAAAAAGTTTAATAAAAATAAAAATAATATATAATTTAATATAATT
Found at i:50630700 original size:64 final size:66
Alignment explanation
Indices: 50630622--50630746 Score: 175
Period size: 65 Copynumber: 1.9 Consensus size: 66
50630612 AAAAAAGTTT
*
50630622 AATAATAAAAAATTTAATTATA-TTTTAATATAATTATTATTA-AATATAGTT-TAATAAAAATA
1 AATAATAAAAAATTTAATAATATTTTTAATATAATTATTATTATAATATA-TTATAATAAAAATA
50630684 AA
65 AA
* * * *
50630686 AATAATATATAATTTAATAATATTTTTAATATAATTATTTTTATATTATATTATAATAAAA
1 AATAATAAAAAATTTAATAATATTTTTAATATAATTATTATTATAATATATTATAATAAAA
50630747 TATTTTATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
64 19 0.36
65 21 0.40
66 13 0.25
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (66 bp):
AATAATAAAAAATTTAATAATATTTTTAATATAATTATTATTATAATATATTATAATAAAAATAA
A
Found at i:50630744 original size:25 final size:25
Alignment explanation
Indices: 50630716--50630793 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 25
50630706 TATTTTTAAT
50630716 ATAATTATTTTTATATTATATTATA
1 ATAATTATTTTTATATTATATTATA
*
50630741 ATAAAATATTTTATATTAAATTATATTA-A
1 AT-AATTATTTT-TA-T--ATTATATTATA
* *
50630770 A-AATTAGTTTTATATTAAATTATA
1 ATAATTATTTTTATATTATATTATA
50630794 TTAAAATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
23 8 0.19
24 1 0.02
25 3 0.07
26 10 0.23
27 9 0.21
28 1 0.02
29 2 0.05
30 9 0.21
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (25 bp):
ATAATTATTTTTATATTATATTATA
Found at i:50630787 original size:28 final size:27
Alignment explanation
Indices: 50630718--50630799 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 27
50630708 TTTTTAATAT
* *
50630718 AATTATTTTTATATTATATTATAAT-AA
1 AATTA-TTTTATATTAAATTATATTAAA
50630745 AA-TATTTTATATTAAATTATATTAAA
1 AATTATTTTATATTAAATTATATTAAA
50630771 AATTAGTTTTATATTAAATTATATTAAA
1 AATTA-TTTTATATTAAATTATATTAAA
50630799 A
1 A
50630800 TATTTCAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
25 17 0.34
26 6 0.12
27 4 0.08
28 23 0.46
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
AATTATTTTATATTAAATTATATTAAA
Found at i:50636462 original size:26 final size:28
Alignment explanation
Indices: 50636431--50636485 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
50636421 GCACAAAGAG
*
50636431 AAAATAA-T-GATAAGCATCGAAGTGCA
1 AAAATAATTAGATAAGCACCGAAGTGCA
50636457 AAAATAATTACGATAAGCACCGAAGTGCA
1 AAAATAATTA-GATAAGCACCGAAGTGCA
50636486 TATCTTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 7 0.28
27 1 0.04
29 17 0.68
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (28 bp):
AAAATAATTAGATAAGCACCGAAGTGCA
Found at i:50642780 original size:3 final size:3
Alignment explanation
Indices: 50642774--50642824 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
50642764 ACTATTGTTG
* *
50642774 TAT TAT TAAT TAT TAT TAT TAT AAT TAT AAT TA- TAT TAT ATAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
50642820 TAT TA
1 TAT TA
50642825 CACCTATAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:50655295 original size:50 final size:49
Alignment explanation
Indices: 50655171--50655805 Score: 357
Period size: 50 Copynumber: 12.7 Consensus size: 49
50655161 TATCTCTTTG
* * * * *
50655171 GCAATTAAAAAGATTGAAGCCATAACGGCGGATCT-TACTTCCCTGGCGGT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTGT-TTTCCC-GACAGC
* ** ** * * *
50655221 GCAGTGGAGCAGATCGAAGTCACAATGGCGGATCTGGTTTTCCCGACAGC
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCT-GTTTTCCCGACAGC
* * * * *
50655271 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCT-TACTTCCCTGGCGGT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTGT-TTTCCC-GACAGC
* ** ** * *
50655321 GCAGTGGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCT-GTTTTCCCGACAGC
* * * *
50655371 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCT-TACTTCCCTGGCGGT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTGT-TTTCCC-GACAGC
* ** ** * *
50655421 GCAGTGGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCT-GTTTTCCCGACAGC
* * *
50655471 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCT-TACTTCCCTGGC-GAT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTGT-TTTCCC-GACAG-C
* ** ** * * *
50655521 GCAGTGGAGCAGATTGAAGTCACAACGACGGATCTGGTTTCCCCGACAGC
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCT-GTTTTCCCGACAGC
* * * * * *
50655571 ACAATTAAAAAGATTGAAGCCACAACGGCAGATCT-TACTTCCCTAGCGGT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTGT-TTTCCCGA-CAGC
* ** ** * * *
50655621 GCAGTGGAGCAGATTGAAGTCACAACGACGGATCTGGTTTCCCCGACAGC
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCT-GTTTTCCCGACAGC
* * * * * *
50655671 GCAATTAAAAAGATTGAAGCCACAACGACGTATCT-TACTTCCCTGGCGGT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTGT-TTTCCC-GACAGC
* * ** ** * * * *
50655721 ACAGTGGAGCAGATTGAAGTCACAACGACGGATCTTGTTTCCCCGATAGC
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATC-TGTTTTCCCGACAGC
50655771 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCT
50655806 TACCTCCTTA
Statistics
Matches: 418, Mismatches: 143, Indels: 49
0.69 0.23 0.08
Matches are distributed among these distances:
48 5 0.01
49 24 0.06
50 355 0.85
51 28 0.07
52 6 0.01
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (49 bp):
GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTGTTTTCCCGACAGC
Found at i:50655889 original size:100 final size:100
Alignment explanation
Indices: 50655171--50655868 Score: 1137
Period size: 100 Copynumber: 7.0 Consensus size: 100
50655161 TATCTCTTTG
* *
50655171 GCAATTAAAAAGATTGAAGCCATAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATC
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* *
50655236 GAAGTCACAATGGCGGATCTGGTTTTCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
*
50655271 GCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
50655336 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
50655371 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
50655436 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
*
50655471 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGATGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
*
50655536 GAAGTCACAACGACGGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* * *
50655571 ACAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTAGCGGTGCAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
*
50655636 GAAGTCACAACGACGGATCTGGTTTCCCCGACAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* * *
50655671 GCAATTAAAAAGATTGAAGCCACAACGACGTATCTTACTTCCCTGGCGGTACAGTGGAGCAGATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* * *
50655736 GAAGTCACAACGACGGATCTTGTTTCCCCGATAGC
66 GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
* * * * * *
50655771 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACCTCCTTAGCGGTGCAGTTGAACAAATT
1 GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
* * * *
50655836 GAAG-CTACGATGGCGGATCTTGTTTCCTCGACA
66 GAAGTC-ACAACGGCGGATCTGGTTTCCCCGACA
50655869 TTGTAATTGG
Statistics
Matches: 563, Mismatches: 34, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
99 1 0.00
100 562 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (100 bp):
GCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATT
GAAGTCACAACGGCGGATCTGGTTTCCCCGACAGC
Found at i:50657284 original size:3 final size:3
Alignment explanation
Indices: 50657278--50657328 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
50657268 ACTATTATTG
* *
50657278 TAT TAT TAAT TAT TAT TAT TAT AAT TAT AAT TA- TAT TAT ATAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
50657324 TAT TA
1 TAT TA
50657329 CACCTATAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:50660821 original size:15 final size:14
Alignment explanation
Indices: 50660801--50660862 Score: 61
Period size: 14 Copynumber: 4.2 Consensus size: 14
50660791 CTTTTATACT
*
50660801 TTAATTTAAGCTTAA
1 TTAA-TTAAACTTAA
*
50660816 TTAATTAAAATTAA
1 TTAATTAAACTTAA
50660830 TTAATTAAACTTAAA
1 TTAATTAAACTT-AA
* *
50660845 TTAACTAAGCCTTAA
1 TTAATTAA-ACTTAA
50660860 TTA
1 TTA
50660863 GTAATTAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 19 0.47
15 18 0.45
16 3 0.08
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (14 bp):
TTAATTAAACTTAA
Found at i:50665845 original size:3 final size:3
Alignment explanation
Indices: 50665837--50665861 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
50665827 AAATTGATGG
50665837 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
50665862 TTTGGCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:50674891 original size:22 final size:22
Alignment explanation
Indices: 50674863--50674907 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
50674853 CAAAAGCATA
50674863 CACATGAAAGTAACGTGTGTTT
1 CACATGAAAGTAACGTGTGTTT
50674885 CACATGAAAGTAACGTGTGTTT
1 CACATGAAAGTAACGTGTGTTT
50674907 C
1 C
50674908 TATCTCCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (22 bp):
CACATGAAAGTAACGTGTGTTT
Found at i:50683698 original size:16 final size:15
Alignment explanation
Indices: 50683671--50683709 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
50683661 ATATCTAGTA
*
50683671 TATAATTATATTTAT
1 TATAATTATATTAAT
50683686 TATAATATATATTAAT
1 TATAAT-TATATTAAT
*
50683702 TATTATTA
1 TATAATTA
50683710 ACTTTGCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:50685226 original size:3 final size:3
Alignment explanation
Indices: 50685218--50685301 Score: 159
Period size: 3 Copynumber: 27.7 Consensus size: 3
50685208 TGAGGATCTC
50685218 GAA GAA GAA GAA GAA GAA GAA GAAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA
50685264 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
50685302 TCCTACAAAG
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 77 0.96
4 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:50691142 original size:72 final size:72
Alignment explanation
Indices: 50691025--50691166 Score: 248
Period size: 72 Copynumber: 2.0 Consensus size: 72
50691015 TCTCGGATTT
* * *
50691025 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAAGGATAATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
50691090 CTTGAGA
66 CTTGAGA
*
50691097 AAAAAAAGGATAATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCTCGAGATCGTTTAAAA
1 AAAAAAAGGATAATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
50691162 CTTGA
66 CTTGA
50691167 ATTGGACAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (72 bp):
AAAAAAAGGATAATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
CTTGAGA
Found at i:50691647 original size:82 final size:82
Alignment explanation
Indices: 50691546--50691729 Score: 214
Period size: 82 Copynumber: 2.2 Consensus size: 82
50691536 TAAAAGGTAT
* * *
50691546 ATGTATGTACATATATATATAAATTATAGGATATAATAAAAATATATAAGTA-TGTA-A-TTATA
1 ATGTATATACATATATATATAAATTATA--AAAT-ATAAAAATATATAAGTAGTGTATACATATA
50691608 TATTCATAAAAATTAAAAAA
63 TATTCATAAAAATTAAAAAA
* * *
50691628 ATGTATATAGATATGTATATAAGTTATAAAATATAAAAATATATAAGTATGTGTATACATATATA
1 ATGTATATACATATATATATAAATTATAAAATATAAAAATATATAAGTA-GTGTATACATATATA
*
50691693 TTTATAAAAATTAAAAAA
65 TTCATAAAAATTAAAAAA
* * *
50691711 A-ATATGTACGTATATATAT
1 ATGTATATACATATATATAT
50691730 TATAAAAACG
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
79 17 0.20
80 3 0.03
81 4 0.05
82 38 0.44
83 24 0.28
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (82 bp):
ATGTATATACATATATATATAAATTATAAAATATAAAAATATATAAGTAGTGTATACATATATAT
TCATAAAAATTAAAAAA
Found at i:50692014 original size:3 final size:3
Alignment explanation
Indices: 50691938--50691995 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
50691928 AAATGAAAAT
* * * * *
50691938 ATA ATG ATA ATA ATA TTA ATA TTA ATA ATA ATA ATA CTA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
50691986 AAA AT- ATA AT
1 ATA ATA ATA AT
50691996 TTATTATTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:50693448 original size:44 final size:44
Alignment explanation
Indices: 50693388--50693471 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
50693378 GACTTGCATA
* * *
50693388 TTCAACCTGCCCTATTGCAACTTCAGGGGGATAAGGTTTGCAAC
1 TTCAACCTGCCATATTGCAACTTCAGAGAGATAAGGTTTGCAAC
* *
50693432 TTCAACCTGCTATATTGTAACTTCAGAGAGATAAGGTTTG
1 TTCAACCTGCCATATTGCAACTTCAGAGAGATAAGGTTTG
50693472 ATATGATCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (44 bp):
TTCAACCTGCCATATTGCAACTTCAGAGAGATAAGGTTTGCAAC
Found at i:50693677 original size:45 final size:45
Alignment explanation
Indices: 50693604--50694003 Score: 350
Period size: 45 Copynumber: 9.0 Consensus size: 45
50693594 GTGTCTTTGA
* * *
50693604 TCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTACTATCTTCAG
1 TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* *** * * *
50693649 TCTGCTCCGCTGTAAACCCAGGGAGGCAAGA-CTGGTGTCTTC-G
1 TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
** * * *
50693692 ATCTGCTTTGCTGTCAGTACGGGAAGGCGAGATCTGTTATCTTCAG
1 -TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* * *
50693738 TCTGCTCCGCTGTCAGTACAGGAAGGCAAG-GCTAG-TGTCTTCAA
1 TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCT-GCTATCTTCAG
*
50693782 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
1 TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* * *
50693827 TCTGCTCCGCTATCAGTACAGGAAGGCAAG-GCTAG-TGTCTTC-G
1 TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCT-GCTATCTTCAG
* * * * *
50693870 ATCTGCTTCGTTGTCAGTATAGGAAGGAAAGATCTGCTATCTTTAG
1 -TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* * ** * * * *
50693916 TCTGTTTCGCTGTCAACACAGGAAGGTAAG-GCTGGTGTCTTC-G
1 TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* * *
50693959 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCA
1 -TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
50694004 CTGATCTGTT
Statistics
Matches: 278, Mismatches: 63, Indels: 27
0.76 0.17 0.07
Matches are distributed among these distances:
43 3 0.01
44 135 0.49
45 138 0.50
46 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (45 bp):
TCTGCTCCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
Found at i:50693743 original size:89 final size:89
Alignment explanation
Indices: 50693592--50694003 Score: 572
Period size: 89 Copynumber: 4.6 Consensus size: 89
50693582 CTGCAAACTA
* * *
50693592 TGGTGTCTTTGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTACTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * * *
50693657 GCTGTAAACCCAGGGAGGCAAGAC
66 GCTGTCAACACAGGAAGGCAAGGC
* * * *
50693681 TGGTGTCTTCGATCTGCTTTGCTGTCAGTACGGGAAGGCGAGATCTGTTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
**
50693746 GCTGTCAGTACAGGAAGGCAAGGC
66 GCTGTCAACACAGGAAGGCAAGGC
* *
50693770 TAGTGTCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* **
50693835 GCTATCAGTACAGGAAGGCAAGGC
66 GCTGTCAACACAGGAAGGCAAGGC
* * * * * * *
50693859 TAGTGTCTTCGATCTGCTTCGTTGTCAGTATAGGAAGGAAAGATCTGCTATCTTTAGTCTGTTTC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
*
50693924 GCTGTCAACACAGGAAGGTAAGGC
66 GCTGTCAACACAGGAAGGCAAGGC
* *
50693948 TGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCA
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
50694004 CTGATCTGTT
Statistics
Matches: 285, Mismatches: 38, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 285 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (89 bp):
TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
GCTGTCAACACAGGAAGGCAAGGC
Found at i:50695220 original size:6 final size:6
Alignment explanation
Indices: 50695209--50695234 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
50695199 AGCCTCTCCA
50695209 TTTTCT TTTTCT TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TT
50695235 ACTATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:50696478 original size:32 final size:32
Alignment explanation
Indices: 50696440--50696508 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
50696430 CAAGTCCAAA
50696440 AATAGGCTACAATCTATGTCATATTCAAAGTC
1 AATAGGCTACAATCTATGTCATATTCAAAGTC
50696472 AATAGGCTACAATCTATGTCATATTCAAAGTC
1 AATAGGCTACAATCTATGTCATATTCAAAGTC
50696504 AATAG
1 AATAG
50696509 ATCCCTCTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (32 bp):
AATAGGCTACAATCTATGTCATATTCAAAGTC
Found at i:50701245 original size:73 final size:73
Alignment explanation
Indices: 50701123--50701258 Score: 236
Period size: 73 Copynumber: 1.9 Consensus size: 73
50701113 TTTAAAAAAG
* * * *
50701123 GGATCATGTCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCTAGATCGTTTAAAACTTGAGA
1 GGATCATGCCCAGCAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAACTTGAGA
50701188 AAAACAAA
66 AAAACAAA
50701196 GGATCATGCCCAGCAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAACTTGA
1 GGATCATGCCCAGCAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAACTTGA
50701259 ATTGGAAAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 59 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (73 bp):
GGATCATGCCCAGCAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAACTTGAGA
AAAACAAA
Found at i:50701816 original size:48 final size:46
Alignment explanation
Indices: 50701676--50701819 Score: 108
Period size: 48 Copynumber: 3.2 Consensus size: 46
50701666 AGGATATAAT
*
50701676 AAAAATATATAAGTA-TGTAT--T-TATATATTCATAAAAATTAAA
1 AAAAATATATAAGTATTGTATAATATATATATTTATAAAAATTAAA
** * * *
50701718 AAATGTATAT-AG-ATATATATAGATATGTATATAAGTTAT-AAAA-T-AT
1 AAAAATATATAAGTAT-TGTATA-ATA--TATAT-ATTTATAAAAATTAAA
50701764 AAAAATATATAAGTATGTGTATACATATATATATTTATAAAAATTAAA
1 AAAAATATATAAGTAT-TGTATA-ATATATATATTTATAAAAATTAAA
50701812 AAAAATAT
1 AAAAATAT
50701820 GTACGTATAT
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
40 1 0.01
41 2 0.03
42 12 0.16
45 6 0.08
46 18 0.24
47 4 0.05
48 28 0.37
49 4 0.05
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (46 bp):
AAAAATATATAAGTATTGTATAATATATATATTTATAAAAATTAAA
Found at i:50702073 original size:3 final size:3
Alignment explanation
Indices: 50702067--50702125 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
50702057 ATATTAATAA
50702067 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
50702115 TAC TAC TAC TA
1 TAC TAC TAC TA
50702126 ATAATAATAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:50708667 original size:20 final size:20
Alignment explanation
Indices: 50708642--50708680 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50708632 ATAATTAAGA
* *
50708642 AAATATTTTGAAACTCAAAT
1 AAATATCTTAAAACTCAAAT
50708662 AAATATCTTAAAACTCAAA
1 AAATATCTTAAAACTCAAA
50708681 AATTTCATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (20 bp):
AAATATCTTAAAACTCAAAT
Found at i:50721827 original size:23 final size:23
Alignment explanation
Indices: 50721796--50721844 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
50721786 CCGAAATATG
*
50721796 GGCCTGAGATTTTACCCAGGCCC
1 GGCCCGAGATTTTACCCAGGCCC
50721819 GGCCCGAGATTTTACCCAGGCCC
1 GGCCCGAGATTTTACCCAGGCCC
50721842 GGC
1 GGC
50721845 TCGAAGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.16, C:0.37, G:0.29, T:0.18
Consensus pattern (23 bp):
GGCCCGAGATTTTACCCAGGCCC
Found at i:50721947 original size:22 final size:23
Alignment explanation
Indices: 50721894--50721949 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
50721884 CCCGTTTTTA
* * *
50721894 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
50721917 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
50721939 ATTAAAATTAA
1 ATTAAAATTAA
50721950 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:50721962 original size:16 final size:16
Alignment explanation
Indices: 50721925--50721964 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
50721915 TTAATAAAAT
* *
50721925 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
50721941 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
50721957 TAAAATTA
1 TAAAATTA
50721965 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:50722043 original size:59 final size:59
Alignment explanation
Indices: 50721975--50722144 Score: 313
Period size: 59 Copynumber: 2.9 Consensus size: 59
50721965 TCAAATTATT
* *
50721975 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAATTTATCA
*
50722034 AATTATTAATTTTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAATTTATCA
50722093 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
50722145 ACAAACTTGA
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 107 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:50722050 original size:29 final size:29
Alignment explanation
Indices: 50722013--50722103 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 29
50722003 AAAATCTAAC
50722013 ATTTGATTAGTAAATTTATCAAATTATTA
1 ATTTGATTAGTAAATTTATCAAATTATTA
* * ** * * * *
50722042 ATTTTATTAAT-TGTTGTAACAAAATCTAA
1 ATTTGATTAGTAAATT-TATCAAATTATTA
50722071 CATTTGATTAGTAAATTTATCAAATTATTA
1 -ATTTGATTAGTAAATTTATCAAATTATTA
50722101 ATT
1 ATT
50722104 GTATTAATTG
Statistics
Matches: 43, Mismatches: 16, Indels: 6
0.66 0.25 0.09
Matches are distributed among these distances:
28 2 0.05
29 21 0.49
30 18 0.42
31 2 0.05
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (29 bp):
ATTTGATTAGTAAATTTATCAAATTATTA
Found at i:50722251 original size:22 final size:24
Alignment explanation
Indices: 50722211--50722254 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
50722201 AAATAAACTT
50722211 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
50722235 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
50722255 AATATTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:50722367 original size:31 final size:33
Alignment explanation
Indices: 50722316--50722385 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 33
50722306 ATTTTTTAAA
*
50722316 CGGGCCTAAAATTTTGCCC-AA-GCCCATATTT
1 CGGGCCTAAAATTTTACCCAAACGCCCATATTT
* * *
50722347 CGGGCCTATATTTTTACCCAAACCTCCCATATTT
1 CGGGCCTAAAATTTTACCCAAA-CGCCCATATTT
50722381 CGGGC
1 CGGGC
50722386 GGGCTGTCGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 16 0.50
32 2 0.06
34 14 0.44
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (33 bp):
CGGGCCTAAAATTTTACCCAAACGCCCATATTT
Found at i:50723606 original size:29 final size:29
Alignment explanation
Indices: 50723553--50723608 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
50723543 GGCCTAGACC
*
50723553 GTGTGTCACACACGGCCCAATACACGGTT
1 GTGTGTCACACACGGCCCAACACACGGTT
* * *
50723582 GTGTGTCACACATGGCCTACCACACGG
1 GTGTGTCACACACGGCCCAACACACGG
50723609 CTGGGTAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.20
Consensus pattern (29 bp):
GTGTGTCACACACGGCCCAACACACGGTT
Found at i:50724554 original size:38 final size:38
Alignment explanation
Indices: 50724503--50724632 Score: 192
Period size: 38 Copynumber: 3.4 Consensus size: 38
50724493 ACCACTTTGA
50724503 CCACCCTGCACACCACATATGAGCTATAACGAGCCCAT
1 CCACCCTGCACACCACATATGAGCTATAACGAGCCCAT
50724541 CCACCCTGCACACCACATATGAGCTATAACGAGCCCAT
1 CCACCCTGCACACCACATATGAGCTATAACGAGCCCAT
* * * *
50724579 CCACCCTGCACACCACATA-GAACTTTGAAAG-GCTCAT
1 CCACCCTGCACACCACATATGAGCTAT-AACGAGCCCAT
*
50724616 CCACCCTACACACCACA
1 CCACCCTGCACACCACA
50724633 ATTTAGAACT
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
37 26 0.30
38 60 0.70
ACGTcount: A:0.32, C:0.41, G:0.12, T:0.15
Consensus pattern (38 bp):
CCACCCTGCACACCACATATGAGCTATAACGAGCCCAT
Found at i:50730374 original size:113 final size:113
Alignment explanation
Indices: 50730099--50730392 Score: 471
Period size: 113 Copynumber: 2.6 Consensus size: 113
50730089 CGCAAAATAC
*
50730099 CTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCATTTACGAGAAAACGC
1 CTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAGAAAACGC
* *
50730164 CGCTAAAGAACAGTATTAGCGGCGTATTACAAAAAGGGCCACAAAGAT
66 CGCTAAAGAACAGTATTAGCGGCATATTACAAAAAGCGCCACAAAGAT
*
50730212 CTTAACCAAAACACAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAGAAAACGC
1 CTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAGAAAACGC
*
50730277 CGCTAAAGAACAGTATTAGCGGCATATTACAAAAAGCGCCGCAAAGAT
66 CGCTAAAGAACAGTATTAGCGGCATATTACAAAAAGCGCCACAAAGAT
* * * * * ** *
50730325 CTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAGTTAGTGGCGCTTATTAAAAAACGC
1 CTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAGAAAACGC
50730390 CGC
66 CGC
50730393 AAAATATTGG
Statistics
Matches: 167, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
113 167 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (113 bp):
CTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAGAAAACGC
CGCTAAAGAACAGTATTAGCGGCATATTACAAAAAGCGCCACAAAGAT
Found at i:50733341 original size:23 final size:23
Alignment explanation
Indices: 50733315--50733365 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
50733305 TGTTATTGAT
50733315 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
*
50733338 CAGTGGTAGCTTCGGCTACATAT
1 CAGTGGTAGCTTCGGCTACATAA
50733361 CAGTG
1 CAGTG
50733366 TTGCACTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACATAA
Found at i:50740468 original size:13 final size:13
Alignment explanation
Indices: 50740450--50740474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50740440 TATTCAAGTG
50740450 ATAAAGTGTTAAA
1 ATAAAGTGTTAAA
50740463 ATAAAGTGTTAA
1 ATAAAGTGTTAA
50740475 GTGTAAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (13 bp):
ATAAAGTGTTAAA
Found at i:50740668 original size:23 final size:23
Alignment explanation
Indices: 50740641--50740739 Score: 155
Period size: 23 Copynumber: 4.3 Consensus size: 23
50740631 AATGTTATTG
*
50740641 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
50740664 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
50740687 AAT-AGTGGTAGCTTCGGCTACAT
1 -ATCAGTGGTAGCTTCGGCTACAT
*
50740710 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
50740733 ATCAGTG
1 ATCAGTG
50740740 TTGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
22 1 0.01
23 67 0.97
24 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:50742895 original size:15 final size:16
Alignment explanation
Indices: 50742865--50742899 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
50742855 ATTTATCAAT
*
50742865 TTTAATATTGATAGTA
1 TTTAATATTGAGAGTA
50742881 TTTAA-ATTGAGAGTA
1 TTTAATATTGAGAGTA
50742896 TTTA
1 TTTA
50742900 TAAATTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTAATATTGAGAGTA
Found at i:50746082 original size:17 final size:17
Alignment explanation
Indices: 50746060--50746092 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
50746050 TTATTTTCTA
50746060 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
50746077 TATAAGTTTTCTAAAT
1 TATAAGTTTTCTAAAT
50746093 AATTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:50746088 original size:30 final size:30
Alignment explanation
Indices: 50746053--50746109 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
50746043 AAAAATTTTA
* *
50746053 TTTTCTATATAAGTTTTCTAAATTTATAAG
1 TTTTCTAAATAAGTTTTATAAATTTATAAG
*
50746083 TTTTCTAAATAATTTTTATAAATTTAT
1 TTTTCTAAATAAGTTTTATAAATTTAT
50746110 TAGTATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (30 bp):
TTTTCTAAATAAGTTTTATAAATTTATAAG
Found at i:50746140 original size:61 final size:61
Alignment explanation
Indices: 50746075--50746218 Score: 166
Period size: 61 Copynumber: 2.4 Consensus size: 61
50746065 GTTTTCTAAA
* *
50746075 TTTATAAGTTTTCTAAATAATTTTTATAAATTTATTAGT-ATAAAAATTTAGT-AGTATTAAT
1 TTTATAAGTTTTCTAAATAATTGTTATAAATTTATTAGTAAT-AAAATTTA-TAAGTATCAAT
* * * * *
50746136 TTTATAAGTTTTCTAAAAAAGTGTTCTAGATTTATTATTAATAAAATTTATAAGTATCAAT
1 TTTATAAGTTTTCTAAATAATTGTTATAAATTTATTAGTAATAAAATTTATAAGTATCAAT
* * *
50746197 TTTACACGTTTTGTAAATAATT
1 TTTATAAGTTTTCTAAATAATT
50746219 ATATTTTTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
60 1 0.01
61 66 0.96
62 2 0.03
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (61 bp):
TTTATAAGTTTTCTAAATAATTGTTATAAATTTATTAGTAATAAAATTTATAAGTATCAAT
Found at i:50746453 original size:8 final size:7
Alignment explanation
Indices: 50746440--50746485 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
50746430 TAACTTATAT
50746440 ATAATAAC
1 ATAAT-AC
50746448 ATAATA-
1 ATAATAC
*
50746454 A-ATTAC
1 ATAATAC
50746460 ATAATAC
1 ATAATAC
50746467 ATAATAAC
1 ATAAT-AC
50746475 ATAATAC
1 ATAATAC
50746482 ATAA
1 ATAA
50746486 CTTATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 16 0.48
8 12 0.36
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:50746478 original size:15 final size:15
Alignment explanation
Indices: 50746440--50746485 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
50746430 TAACTTATAT
50746440 ATAATAACATAAT--
1 ATAATAACATAATAC
*
50746453 A-AATTACATAATAC
1 ATAATAACATAATAC
50746467 ATAATAACATAATAC
1 ATAATAACATAATAC
50746482 ATAA
1 ATAA
50746486 CTTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 1 0.04
15 16 0.57
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAACATAATAC
Found at i:50746527 original size:9 final size:9
Alignment explanation
Indices: 50746515--50747254 Score: 529
Period size: 9 Copynumber: 82.4 Consensus size: 9
50746505 AACTTACATA
*
50746515 ATAACTTCC
1 ATAACTTAC
50746524 ATAACTTAC
1 ATAACTTAC
*
50746533 ATAGCTTAC
1 ATAACTTAC
*
50746542 TTAA--TAC
1 ATAACTTAC
50746549 ATAACTT--
1 ATAACTTAC
*
50746556 ATACACATAC
1 ATA-ACTTAC
50746566 ATAACTTAC
1 ATAACTTAC
*
50746575 ATAA--TAT
1 ATAACTTAC
*
50746582 ATAAACATATAT
1 AT-AAC-T-TAC
* *
50746594 AGAAACTCAC
1 A-TAACTTAC
* *
50746604 ATAAATTAA
1 ATAACTTAC
50746613 ATAACTTAC
1 ATAACTTAC
50746622 ATAACTTAC
1 ATAACTTAC
* *
50746631 ATAAATTAA
1 ATAACTTAC
50746640 ATAACTTAC
1 ATAACTTAC
* *
50746649 ATAAATTAA
1 ATAACTTAC
*
50746658 ATAATTTAC
1 ATAACTTAC
50746667 ATAACTTAC
1 ATAACTTAC
* *
50746676 ATAAATTAA
1 ATAACTTAC
*
50746685 ATAACTTAA
1 ATAACTTAC
50746694 ATAACTTAC
1 ATAACTTAC
*
50746703 ATAAATTA-
1 ATAACTTAC
50746711 ATTAACTTAC
1 A-TAACTTAC
50746721 ATAACTTAC
1 ATAACTTAC
*
50746730 ATAAAC-TAA
1 AT-AACTTAC
50746739 ATAACTTAC
1 ATAACTTAC
50746748 ATAACTTAC
1 ATAACTTAC
* *
50746757 ATAAATTAA
1 ATAACTTAC
50746766 ATAACTTAC
1 ATAACTTAC
50746775 ATAACTTAC
1 ATAACTTAC
* **
50746784 ATAAATTTT
1 ATAACTTAC
50746793 ATAACTTAC
1 ATAACTTAC
50746802 ATAACTTAC
1 ATAACTTAC
* *
50746811 ATAAATTAA
1 ATAACTTAC
50746820 ATAACTTAC
1 ATAACTTAC
*
50746829 ATAACTTCC
1 ATAACTTAC
* *
50746838 GTGGACTTAC
1 AT-AACTTAC
*
50746848 ATAACCTAC
1 ATAACTTAC
* *
50746857 ATAAATTAA
1 ATAACTTAC
50746866 ATAACTTAC
1 ATAACTTAC
* *
50746875 ATAAACTGGCATT
1 AT-AACT--TA-C
50746888 ATTAACTTAC
1 A-TAACTTAC
*
50746898 ATAAGTTAC
1 ATAACTTAC
* *
50746907 ATAAATTAA
1 ATAACTTAC
*
50746916 ATAGCTTAC
1 ATAACTTAC
50746925 ATAACTTAC
1 ATAACTTAC
*
50746934 ATAAAC-TAA
1 AT-AACTTAC
50746943 ATAACTTAC
1 ATAACTTAC
50746952 ATAACTTAC
1 ATAACTTAC
* *
50746961 ATAAATTAA
1 ATAACTTAC
50746970 ATAACTTAC
1 ATAACTTAC
*
50746979 ATAACTGAC
1 ATAACTTAC
* **
50746988 ATAAATTTT
1 ATAACTTAC
50746997 ATAACTTAC
1 ATAACTTAC
* *
50747006 ATAAATTCC
1 ATAACTTAC
*
50747015 ATGGACTTAC
1 AT-AACTTAC
*
50747025 ATAACCTAC
1 ATAACTTAC
* *
50747034 ATAAATTAA
1 ATAACTTAC
50747043 ATAACTTAC
1 ATAACTTAC
* *
50747052 ATAAACTGCATT
1 AT-AACT-TA-C
50747064 ATTAACTTAC
1 A-TAACTTAC
50747074 ATAACTTAC
1 ATAACTTAC
* *
50747083 ATAAATTAA
1 ATAACTTAC
50747092 ATAACTTAC
1 ATAACTTAC
50747101 ATAACTTAC
1 ATAACTTAC
*
50747110 ATTA--TAC
1 ATAACTTAC
50747117 ATAACCTT-C
1 ATAA-CTTAC
*
50747126 TTAACTTAC
1 ATAACTTAC
*
50747135 ATTA--TAC
1 ATAACTTAC
* *
50747142 ACAACTCAC
1 ATAACTTAC
50747151 ATAA-TTA-
1 ATAACTTAC
*
50747158 AT-ATTATAC
1 ATAACT-TAC
*
50747167 ACAACTTAC
1 ATAACTTAC
50747176 ATAA--TAC
1 ATAACTTAC
*
50747183 ATTACTTAC
1 ATAACTTAC
50747192 ATAACTTAC
1 ATAACTTAC
*
50747201 ATTACTTAC
1 ATAACTTAC
50747210 AGT-ACTTAC
1 A-TAACTTAC
50747219 ATAA--TAC
1 ATAACTTAC
50747226 ATAA--TAC
1 ATAACTTAC
50747233 ATAACTTAC
1 ATAACTTAC
50747242 ATAACTTAC
1 ATAACTTAC
50747251 ATAA
1 ATAA
50747255 TACATAAAAA
Statistics
Matches: 566, Mismatches: 121, Indels: 88
0.73 0.16 0.11
Matches are distributed among these distances:
6 1 0.00
7 47 0.08
8 20 0.04
9 436 0.77
10 38 0.07
11 4 0.01
12 13 0.02
13 6 0.01
14 1 0.00
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:50746527 original size:21 final size:21
Alignment explanation
Indices: 50746446--50746982 Score: 127
Period size: 18 Copynumber: 28.3 Consensus size: 21
50746436 ATATATAATA
*
50746446 ACATAATAAATTACATAA--T
1 ACATAATAACTTACATAACTT
50746465 ACATAATAACATAATACATAACTT
1 ACATAATAAC-T--TACATAACTT
* **
50746489 ATAT-ATAAGCTTGTATAACTT
1 ACATAATAA-CTTACATAACTT
*
50746510 ACATAATAACTTCCATAACTT
1 ACATAATAACTTACATAACTT
* * *
50746531 ACATAGCTTACTTA-AT-ACAT
1 ACATA-ATAACTTACATAACTT
* *
50746551 A-ACTTATACACATACATAACTT
1 ACA-TAATA-ACTTACATAACTT
* *
50746573 ACATAAT-A--TATA-AACAT
1 ACATAATAACTTACATAACTT
* * *
50746590 ATATAGA-AACTCACATAAATT
1 ACATA-ATAACTTACATAACTT
50746611 --A-AATAACTTACATAACTT
1 ACATAATAACTTACATAACTT
*
50746629 ACAT-A-AA-TTAAATAACTT
1 ACATAATAACTTACATAACTT
* *
50746647 ACAT-A-AA-TTAAATAATTT
1 ACATAATAACTTACATAACTT
*
50746665 AC---ATAACTTACATAAATT
1 ACATAATAACTTACATAACTT
*
50746683 --A-AATAACTTAAATAACTT
1 ACATAATAACTTACATAACTT
50746701 ACAT-A-AA-TTA-ATTAACTT
1 ACATAATAACTTACA-TAACTT
50746719 AC---ATAACTTACATAA---
1 ACATAATAACTTACATAACTT
50746734 AC-TAAATAACTTACATAACTT
1 ACAT-AATAACTTACATAACTT
*
50746755 ACAT-A-AA-TTAAATAACTT
1 ACATAATAACTTACATAACTT
*
50746773 AC---ATAACTTACATAAATT
1 ACATAATAACTTACATAACTT
*
50746791 ---TTATAACTTACATAACTT
1 ACATAATAACTTACATAACTT
*
50746809 ACAT-A-AA-TTAAATAACTT
1 ACATAATAACTTACATAACTT
* * *
50746827 AC---ATAACTTCCGTGGACTT
1 ACATAATAACTTACAT-AACTT
* *
50746846 AC---ATAACCTACATAAATT
1 ACATAATAACTTACATAACTT
*
50746864 --A-AATAACTTACATAAACTG
1 ACATAATAACTTACAT-AACTT
* * *
50746883 GCATTATTAACTTACATAAGTT
1 ACA-TAATAACTTACATAACTT
* *
50746905 ACAT-A-AA-TTAAATAGCTT
1 ACATAATAACTTACATAACTT
50746923 AC---ATAACTTACATAA---
1 ACATAATAACTTACATAACTT
50746938 AC-TAAATAACTTACATAACTT
1 ACAT-AATAACTTACATAACTT
*
50746959 ACAT-A-AA-TTAAATAACTT
1 ACATAATAACTTACATAACTT
50746977 ACATAA
1 ACATAA
50746983 CTGACATAAA
Statistics
Matches: 391, Mismatches: 60, Indels: 134
0.67 0.10 0.23
Matches are distributed among these distances:
15 4 0.01
16 5 0.01
17 20 0.05
18 207 0.53
19 43 0.11
20 20 0.05
21 40 0.10
22 30 0.08
23 17 0.04
24 5 0.01
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (21 bp):
ACATAATAACTTACATAACTT
Found at i:50747192 original size:25 final size:25
Alignment explanation
Indices: 50747066--50747259 Score: 127
Period size: 25 Copynumber: 7.7 Consensus size: 25
50747056 ACTGCATTAT
* * *
50747066 TAACTTACATAACTTACATAAATTAAA
1 TAACTTACATAA--TACATTACTTACA
50747093 TAACTTACATAACTTACATTA--TACA
1 TAACTTACATAA--TACATTACTTACA
*
50747118 TAACCTT-CTTAACTTACATTA--TACA
1 TAA-CTTACATAA--TACATTACTTACA
* * *
50747143 CAACTCACATAATTA-A-TATTATACA
1 TAACTTACATAA-TACATTACT-TACA
*
50747168 CAACTTACATAATACATTACTTACA
1 TAACTTACATAATACATTACTTACA
* *
50747193 TAACTTACATTACTTACAGTACTTACA
1 TAACTTACA-TA-ATACATTACTTACA
*
50747220 TAA--TACATAATACATAACTTACA
1 TAACTTACATAATACATTACTTACA
50747243 TAACTTACATAATACAT
1 TAACTTACATAATACAT
50747260 AAAAATATAT
Statistics
Matches: 142, Mismatches: 14, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
22 2 0.01
23 15 0.11
24 9 0.06
25 73 0.51
26 8 0.06
27 35 0.25
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.35
Consensus pattern (25 bp):
TAACTTACATAATACATTACTTACA
Found at i:50747194 original size:41 final size:42
Alignment explanation
Indices: 50747128--50747243 Score: 123
Period size: 41 Copynumber: 2.8 Consensus size: 42
50747118 TAACCTTCTT
* * *
50747128 AACTTACATTATACACAACTCACATAA-TTAATATTA-TACAC
1 AACTTACATAATACATAACTCACATAACTT-ACATTACTACAC
* * *
50747169 AACTTACATAATACATTACTTACATAACTTACATTACTTACAG
1 AACTTACATAATACATAACTCACATAACTTACATTAC-TACAC
*
50747212 TACTTACATAATACATAA-T-ACATAACTTACAT
1 AACTTACATAATACATAACTCACATAACTTACAT
50747244 AACTTACATA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 41 0.64
42 3 0.05
43 20 0.31
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.34
Consensus pattern (42 bp):
AACTTACATAATACATAACTCACATAACTTACATTACTACAC
Found at i:50747228 original size:7 final size:7
Alignment explanation
Indices: 50747216--50747261 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
50747206 TTACAGTACT
50747216 TACATAA
1 TACATAA
50747223 TACATAA
1 TACATAA
50747230 TACATAA
1 TACATAA
50747237 CTTACATAA
1 --TACATAA
50747246 CTTACATAA
1 --TACATAA
50747255 TACATAA
1 TACATAA
50747262 AAATATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 21 0.57
9 16 0.43
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.30
Consensus pattern (7 bp):
TACATAA
Found at i:50752805 original size:21 final size:21
Alignment explanation
Indices: 50752781--50752820 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
50752771 AGCAAACGCG
**
50752781 GCAGCGAGGGAAGCAGAGGCT
1 GCAGCGAGAAAAGCAGAGGCT
50752802 GCAGCGAGAAAAGCAGAGG
1 GCAGCGAGAAAAGCAGAGG
50752821 TTCAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.17, G:0.45, T:0.03
Consensus pattern (21 bp):
GCAGCGAGAAAAGCAGAGGCT
Found at i:50753251 original size:43 final size:43
Alignment explanation
Indices: 50753202--50753368 Score: 203
Period size: 43 Copynumber: 3.9 Consensus size: 43
50753192 GTTTTTGTAC
* *
50753202 AAAAGCGCCGCTAAAGAACATGTTCTGTAGCGGCGTTTGTAAA
1 AAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTAAA
* * *
50753245 AAAAGCGCCGCTAAA-AATCATGTTCTTCAGCGGCGTTTTTATA
1 AAAAGCGCCGCTAAAGAA-CATGTTCTTTAGCGGCGTTTCTAAA
* * *
50753288 CAAAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGCTTACTAAA
1 AAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTCTAAA
* * *
50753332 AAAA-CGCCACTAAATATCATGTTCTTTAGCGGCGTTT
1 AAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTT
50753369 TTGGTTGTAA
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
42 4 0.04
43 91 0.87
44 10 0.10
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTAAA
Found at i:50753319 original size:86 final size:87
Alignment explanation
Indices: 50753189--50753370 Score: 269
Period size: 86 Copynumber: 2.1 Consensus size: 87
50753179 CAAAAATAGT
* **
50753189 GGCGTTTTTGTACAAAAGCGCCGCTAAAGAACATGTTCTGTAGCGGCG-TTTGTAAAAAAAGCGC
1 GGCGTTTTTATACAAAAGCGCCGCTAAAGAACATGTTCTGTAGCGGCGCTTACTAAAAAAA-CGC
*
50753253 CGCTAAAAATCATGTTCTTCAGC
65 CACTAAAAATCATGTTCTTCAGC
* *
50753276 GGCGTTTTTATAC-AAAGCGCCGTTAAAGAACATGTTCTTTAGCGGCGCTTACTAAAAAAACGCC
1 GGCGTTTTTATACAAAAGCGCCGCTAAAGAACATGTTCTGTAGCGGCGCTTACTAAAAAAACGCC
* *
50753340 ACTAAATATCATGTTCTTTAGC
66 ACTAAAAATCATGTTCTTCAGC
50753362 GGCGTTTTT
1 GGCGTTTTT
50753371 GGTTGTAAAC
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
86 64 0.74
87 22 0.26
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (87 bp):
GGCGTTTTTATACAAAAGCGCCGCTAAAGAACATGTTCTGTAGCGGCGCTTACTAAAAAAACGCC
ACTAAAAATCATGTTCTTCAGC
Found at i:50756449 original size:24 final size:23
Alignment explanation
Indices: 50756417--50756463 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
50756407 AATATAACTC
*
50756417 TTTTTAAGAAAATATAATAAAACA
1 TTTTGAAGAAAA-ATAATAAAACA
*
50756441 TTTTGAAGAATAATAATAAAACA
1 TTTTGAAGAAAAATAATAAAACA
50756464 CTTGATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (23 bp):
TTTTGAAGAAAAATAATAAAACA
Found at i:50757485 original size:23 final size:21
Alignment explanation
Indices: 50757436--50757486 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
50757426 GGATTATAAC
*
50757436 TAATAATTCTAAATTAAATTA
1 TAATATTTCTAAATTAAATTA
*
50757457 TAAATATTTCTAAATGTCAATTA
1 T-AATATTTCTAAAT-TAAATTA
50757480 GTAATAT
1 -TAATAT
50757487 GGTAGGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 12 0.48
23 11 0.44
24 1 0.04
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (21 bp):
TAATATTTCTAAATTAAATTA
Found at i:50759647 original size:18 final size:17
Alignment explanation
Indices: 50759605--50759649 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
50759595 ACATTTATGT
50759605 TTGATTTGTTTCTTTAG
1 TTGATTTGTTTCTTTAG
*
50759622 TTGCTTTGTCTTCTTT-G
1 TTGATTTGT-TTCTTTAG
50759639 ATTGATTTGTT
1 -TTGATTTGTT
50759650 GTTAAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.09, C:0.09, G:0.18, T:0.64
Consensus pattern (17 bp):
TTGATTTGTTTCTTTAG
Found at i:50769208 original size:29 final size:27
Alignment explanation
Indices: 50769176--50769251 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 27
50769166 TTATCTTTGC
*
50769176 TTAATAGTTTTATAATTTTTAATTATATT
1 TTAATATTTTTATAATTTTTAA-TA-ATT
* *
50769205 TTAA-ATTTTTTACAATTTATAATAATT
1 TTAATA-TTTTTATAATTTTTAATAATT
*
50769232 TTCAATTTTTTTATAATTTT
1 TT-AATATTTTTATAATTTT
50769252 ATTACAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
27 5 0.13
28 16 0.42
29 17 0.45
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (27 bp):
TTAATATTTTTATAATTTTTAATAATT
Found at i:50769230 original size:39 final size:39
Alignment explanation
Indices: 50769187--50769261 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
50769177 TAATAGTTTT
*
50769187 ATAATTTTTAATTATATTTTA-AATTTT-TTACAATTTATA
1 ATAATTTTCAATT-T-TTTTATAATTTTATTACAATTTATA
50769226 ATAATTTTCAATTTTTTTATAATTTTATTACAATTT
1 ATAATTTTCAATTTTTTTATAATTTTATTACAATTT
50769262 CAATAATCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
37 5 0.15
38 7 0.21
39 21 0.64
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (39 bp):
ATAATTTTCAATTTTTTTATAATTTTATTACAATTTATA
Found at i:50769252 original size:29 final size:30
Alignment explanation
Indices: 50769183--50769253 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 30
50769173 TGCTTAATAG
50769183 TTTTATAATTTT-TAATTATATTTTAAATT
1 TTTTATAATTTTATAATTATATTTTAAATT
* *
50769212 TTTTACAA-TTTATAA-TA-ATTTTCAATTT
1 TTTTATAATTTTATAATTATATTTT-AAATT
50769240 TTTTATAATTTTAT
1 TTTTATAATTTTAT
50769254 TACAATTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 5 0.14
28 16 0.44
29 15 0.42
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTATAATTTTATAATTATATTTTAAATT
Found at i:50769262 original size:28 final size:27
Alignment explanation
Indices: 50769183--50769265 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 27
50769173 TGCTTAATAG
* * *
50769183 TTTTATAATTTTTAATTATATTTTAAATT
1 TTTTATAA-TTTT-ATTAAATTTCAATTT
* * *
50769212 TTTTACAATTTATAATAATTTTCAATTT
1 TTTTATAATTT-TATTAAATTTCAATTT
50769240 TTTTATAATTTTATTACAATTTCAAT
1 TTTTATAATTTTATTA-AATTTCAAT
50769266 AATCTATTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
27 4 0.09
28 31 0.72
29 8 0.19
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTATAATTTTATTAAATTTCAATTT
Found at i:50773675 original size:37 final size:37
Alignment explanation
Indices: 50773625--50773703 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
50773615 TTATTACGAA
* * *
50773625 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
50773662 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
50773699 GTCTT
1 GTCTT
50773704 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:50773895 original size:47 final size:47
Alignment explanation
Indices: 50773822--50774428 Score: 939
Period size: 47 Copynumber: 12.7 Consensus size: 47
50773812 CCCTTCGGGA
* * * * * *
50773822 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * *
50773869 CCTGTCACATTTATACACTTTCACATCCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
*
50773916 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50773963 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50774010 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50774059 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50774108 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50774155 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50774204 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50774253 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50774300 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50774347 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50774394 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
50774429 AGAATCCTAA
Statistics
Matches: 534, Mismatches: 19, Indels: 14
0.94 0.03 0.02
Matches are distributed among these distances:
46 3 0.01
47 345 0.65
48 1 0.00
49 185 0.35
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50774113 original size:145 final size:143
Alignment explanation
Indices: 50773822--50774428 Score: 956
Period size: 145 Copynumber: 4.2 Consensus size: 143
50773812 CCCTTCGGGA
* * * * * * * *
50773822 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACAT-T-TATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * * *
50773885 ACTTTCACATCCATCACGTTGGCCACTT-GGCCCTATCACATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCACATATATACACTTTCACATTCATCAC
50773949 ATCGGCCATTAGGC
130 ATCGGCCATTAGGC
50773963 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
50774028 ACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
50774093 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
*
50774108 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
50774173 ACTTTCACATTCATCACATTGGCCATTGGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
50774238 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
50774253 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
50774316 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
50774381 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
50774394 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
50774429 AGAATCCTAA
Statistics
Matches: 438, Mismatches: 22, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
140 1 0.00
141 119 0.27
142 3 0.01
143 81 0.18
145 234 0.53
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:50779367 original size:8 final size:8
Alignment explanation
Indices: 50779354--50779387 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
50779344 TTTTTTTAAT
50779354 AATTTTTA
1 AATTTTTA
50779362 AATTTTTA
1 AATTTTTA
*
50779370 AATTTTCA
1 AATTTTTA
50779378 ATATTTTTA
1 A-ATTTTTA
50779387 A
1 A
50779388 TTAAATCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (8 bp):
AATTTTTA
Found at i:50785245 original size:96 final size:98
Alignment explanation
Indices: 50785133--50785354 Score: 276
Period size: 96 Copynumber: 2.3 Consensus size: 98
50785123 AATTTAATTT
* *
50785133 TTTTATAATTTTTTATGGTTTTTAATTAAATTCTAACAATTTTTTAAAATTAAAT-TCTTTCTAA
1 TTTTATAATATTTTATGGTTTTTAATTAAATTCTAACAATTTTTTAAAAAT-AATGT-TTTCTAA
* *
50785197 TTTTTTTATGGTTTT-T-AA-T-TTTTTTTTCTAAA
64 -ATTTGTATGGTTTTATAAATTATTTTTTTTCTAAA
* * * * *
50785229 TTTTCTAA-ATATTTATGGTTTTTAATTAATTTCTATCAGTTTTTTAAAAATCATGTTTTCTAAA
1 TTTTATAATAT-TTTATGGTTTTTAATTAAATTCTAACAATTTTTTAAAAATAATGTTTTCTAAA
50785293 TTTGTATGGTTTTAATAAATTATTTTTTTTCTAAA
65 TTTGTATGGTTTT-ATAAATTATTTTTTTTCTAAA
50785328 TTTTATAATATTTTATGGTTTTTAATT
1 TTTTATAATATTTTATGGTTTTTAATT
50785355 TTTAATTAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
94 12 0.11
95 10 0.09
96 45 0.42
97 2 0.02
98 1 0.01
99 36 0.33
100 2 0.02
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (98 bp):
TTTTATAATATTTTATGGTTTTTAATTAAATTCTAACAATTTTTTAAAAATAATGTTTTCTAAAT
TTGTATGGTTTTATAAATTATTTTTTTTCTAAA
Found at i:50798761 original size:27 final size:28
Alignment explanation
Indices: 50798707--50798771 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
50798697 GGTTGTCACC
** *
50798707 ATCCCTTTTCATAATCGATATTCGAAACT
1 ATCCCTTTTCA-AATCGATAACCAAAACT
50798736 ATCCCTTTTC-AATCGATAACCAAAACT
1 ATCCCTTTTCAAATCGATAACCAAAACT
*
50798763 ATCGCTTTT
1 ATCCCTTTT
50798772 TATATTCGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 22 0.69
29 10 0.31
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (28 bp):
ATCCCTTTTCAAATCGATAACCAAAACT
Found at i:50798873 original size:29 final size:29
Alignment explanation
Indices: 50798620--50798890 Score: 163
Period size: 29 Copynumber: 9.4 Consensus size: 29
50798610 GTCATAACCG
* * **
50798620 TCCCTTTTCATATTCGATGGTTGAAACCA
1 TCCCTTTTCATAATCGATGGTCGTCACCA
*** *
50798649 TTTGTTTTCATTAATCGATGGTCGTTACCA
1 TCCCTTTTCA-TAATCGATGGTCGTCACCA
* * *
50798679 TCCCTTTTCATAGTTGATGGTTGTCACCA
1 TCCCTTTTCATAATCGATGGTCGTCACCA
** ** *
50798708 TCCCTTTTCATAATCGATATTCGAAACTA
1 TCCCTTTTCATAATCGATGGTCGTCACCA
*** *** *
50798737 TCCCTTTTC--AATCGATAACCAAAACTA
1 TCCCTTTTCATAATCGATGGTCGTCACCA
* * *
50798764 TCGCTTTTTATATTCGATGGTCGTCACCA
1 TCCCTTTTCATAATCGATGGTCGTCACCA
**
50798793 TCCCTTTTCATTGGT-GATGGTCGTCACCA
1 TCCCTTTTCA-TAATCGATGGTCGTCACCA
** **
50798822 TCCCTTTTCATTGTTAATGGTCGTCACCA
1 TCCCTTTTCATAATCGATGGTCGTCACCA
* * * *
50798851 TCCCTTTTAATAATCGATAGTCG-AAGCTA
1 TCCCTTTTCATAATCGATGGTCGTCA-CCA
50798880 TCCCTTTTCAT
1 TCCCTTTTCAT
50798891 TGGTTGATGA
Statistics
Matches: 186, Mismatches: 50, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
27 22 0.12
28 4 0.02
29 136 0.73
30 24 0.13
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (29 bp):
TCCCTTTTCATAATCGATGGTCGTCACCA
Found at i:50803995 original size:39 final size:39
Alignment explanation
Indices: 50803950--50804149 Score: 206
Period size: 39 Copynumber: 5.1 Consensus size: 39
50803940 AATAGAAATA
* *
50803950 CGGTGATTATTCAGGTTATGTGCCTAGCAAGCTGTGTGC
1 CGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
* * *
50803989 TGGTGATTATTC-GAGCTATGTGCCTAACAGGTTGTGTGC
1 CGGTGATTATTCAG-GCTATGTGCCTAGCAGGCTGTGTGC
* * *
50804028 CAGTGATTATTCAGGCTATGTGCTTAGTAGGCTGTGTGC
1 CGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
** * *
50804067 AAGTGATTATTCAGGCTTTGTGCCTAGTAGGCTGTGTGC
1 CGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
* * * * * *
50804106 CGATGGTTATTCGGGATATGTGCC-AGGCAAGCTATGTGC
1 CGGTGATTATTCAGGCTATGTGCCTA-GCAGGCTGTGTGC
50804145 CGGTG
1 CGGTG
50804150 TATTGAAAAT
Statistics
Matches: 133, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
38 2 0.02
39 130 0.98
40 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.32, T:0.34
Consensus pattern (39 bp):
CGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
Done.