Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 87 of 189
Found at i:23998120 original size:51 final size:51
Alignment explanation
Indices: 23997935--23998209 Score: 299
Period size: 51 Copynumber: 5.4 Consensus size: 51
23997925 ATAAAAAAAT
* *
23997935 AAAAAATTTTTGGGTGCTAGCCTGTCAATGGCCGACACTAGCAGTAC--AA
1 AAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGACACCAGCAGTACGAAA
*** * * *
23997984 AAATTTTTTTTGGGTGCTGGTCTGTCAATGGCCTG-CACCAACAATACGAAA
1 AAAAAATTTTTGGGTGCTGGCCTGTCAATGGCC-GACACCAGCAGTACGAAA
* * *
23998035 AAGAAATTTTTTTTGGGTGCTGGCCTGTTAATGGCCGTCACCAGCAGTACGAAA
1 AA-AAA--ATTTTTGGGTGCTGGCCTGTCAATGGCCGACACCAGCAGTACGAAA
*
23998089 AAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGACACCAACAGTACGAAA
1 AAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGACACCAGCAGTACGAAA
* ** * * *
23998140 AAAAACTTTTTTTTTGTGCTGGCCTGTCAATGGCCGGCACTAGTA-TACGAAA
1 AAAAA--ATTTTTGGGTGCTGGCCTGTCAATGGCCGACACCAGCAGTACGAAA
23998192 AAAAAA-TTTTGGGTGCTG
1 AAAAAATTTTTGGGTGCTG
23998210 ACCTTCTAAT
Statistics
Matches: 189, Mismatches: 28, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
49 47 0.25
50 1 0.01
51 51 0.27
52 13 0.07
53 35 0.19
54 42 0.22
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGACACCAGCAGTACGAAA
Found at i:23999225 original size:31 final size:31
Alignment explanation
Indices: 23999166--23999226 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
23999156 AAAATATAAA
* *
23999166 AATTTAAAAATAAAAGAAATATTTACAGAAT
1 AATTTAAAAATAAAAGAAAAATTAACAGAAT
*
23999197 AATTTTAAAAT-AAAGTAAAAATTAACAGAA
1 AATTTAAAAATAAAAG-AAAAATTAACAGAA
23999227 AAAAATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (31 bp):
AATTTAAAAATAAAAGAAAAATTAACAGAAT
Found at i:24001386 original size:33 final size:33
Alignment explanation
Indices: 24001308--24001386 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
24001298 ATGGAGTGAT
*
24001308 CGGTGGTCGTCGACGATGGTTGAAGGTGAACAA
1 CGGTGGTCGTCGGCGATGGTTGAAGGTGAACAA
* **
24001341 CGGTGGTCGTCGGCGGTGGTTG-AGGATGAACCG
1 CGGTGGTCGTCGGCGATGGTTGAAGG-TGAACAA
24001374 CGGTGGTCGTCGG
1 CGGTGGTCGTCGG
24001387 AATTGCCTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 3 0.07
33 38 0.93
ACGTcount: A:0.15, C:0.18, G:0.46, T:0.22
Consensus pattern (33 bp):
CGGTGGTCGTCGGCGATGGTTGAAGGTGAACAA
Found at i:24001815 original size:14 final size:14
Alignment explanation
Indices: 24001773--24001815 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
24001763 ATTTCATTTT
24001773 TTTTCATTTA-ATA
1 TTTTCATTTATATA
* *
24001786 TTTTTATTTAAATA
1 TTTTCATTTATATA
*
24001800 TTTTCATTTATTTA
1 TTTTCATTTATATA
24001814 TT
1 TT
24001816 ATTTTTGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTCATTTATATA
Found at i:24002033 original size:5 final size:5
Alignment explanation
Indices: 24002025--24002102 Score: 59
Period size: 5 Copynumber: 14.6 Consensus size: 5
24002015 AACCTTTTTT
* *
24002025 TTTCA TTTCA TTTTA TTTCA TTTTTA TTTCA TTTCA -TTCAAA TTTCA
1 TTTCA TTTCA TTTCA TTTCA -TTTCA TTTCA TTTCA TTTC--A TTTCA
* *
24002072 TTTCCA TTACCA TTTCCC TTTCA TTTCA TTT
1 TTT-CA TT-TCA TTT-CA TTTCA TTTCA TTT
24002103 AAAAAATATA
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
4 3 0.05
5 35 0.60
6 17 0.29
7 3 0.05
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (5 bp):
TTTCA
Found at i:24002049 original size:11 final size:11
Alignment explanation
Indices: 24002023--24002058 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
24002013 TCAACCTTTT
24002023 TTTTTCATTTCA
1 TTTTT-ATTTCA
24002035 -TTTTATTTCA
1 TTTTTATTTCA
24002045 TTTTTATTTCA
1 TTTTTATTTCA
24002056 TTT
1 TTT
24002059 CATTCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.26
11 17 0.74
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTTATTTCA
Found at i:24002143 original size:21 final size:21
Alignment explanation
Indices: 24002111--24002212 Score: 63
Period size: 20 Copynumber: 5.0 Consensus size: 21
24002101 TTAAAAAATA
24002111 TATTTTTT-TCAATTTCAATT
1 TATTTTTTCTCAATTTCAATT
24002131 TATTTTTTCTCAA-TTC-ATT
1 TATTTTTTCTCAATTTCAATT
* * *
24002150 TATATTATTTTTTAATTTAAATT
1 TAT-TT-TTTCTCAATTTCAATT
*
24002173 TAACTTTTTCCTC-ATTTC-ATT
1 T-A-TTTTTTCTCAATTTCAATT
** *
24002194 TAAATTTTCT-ATTTTCAAT
1 TATTTTTTCTCAATTTCAAT
24002213 GCAAATTTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
19 15 0.24
20 16 0.26
21 14 0.23
22 6 0.10
23 7 0.11
24 3 0.05
25 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTTCTCAATTTCAATT
Found at i:24002150 original size:19 final size:20
Alignment explanation
Indices: 24002111--24002174 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
24002101 TTAAAAAATA
24002111 TATTTTTTTCAATTTCAATT
1 TATTTTTTTCAATTTCAATT
*
24002131 TATTTTTTCTCAA-TTCATTT
1 TATTTTTT-TCAATTTCAATT
* *
24002151 ATATTATTTTTTAATTTAAATT
1 -TATT-TTTTTCAATTTCAATT
24002173 TA
1 TA
24002175 ACTTTTTCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
20 14 0.39
21 13 0.36
22 9 0.25
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTTTTTCAATTTCAATT
Found at i:24002154 original size:41 final size:43
Alignment explanation
Indices: 24002109--24002246 Score: 129
Period size: 46 Copynumber: 3.1 Consensus size: 43
24002099 ATTTAAAAAA
*
24002109 TATATT-TTTTTCAATTTCAATTTA-TTTTTTCTCAATTCATT
1 TATATTATTTTTCAATTTCAATTTACTTTTTTCTCATTTCATT
* * *
24002150 TATATTATTTTTTAATTTAAATTTAACTTTTTCCTCATTTCATT
1 TATATTATTTTTCAATTTCAATTT-ACTTTTTTCTCATTTCATT
* * * *
24002194 TAAATTTTCTATTTTCAA-TGCAAATTTATTTTTTTCTCATTTCATTT
1 T--ATATTAT-TTTTCAATTTC-AATTTACTTTTTTCTCATTTCA-TT
24002241 TATATT
1 TATATT
24002247 TAAATTTTCT
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
41 6 0.08
42 15 0.19
43 1 0.01
44 16 0.21
45 4 0.05
46 21 0.27
47 14 0.18
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.62
Consensus pattern (43 bp):
TATATTATTTTTCAATTTCAATTTACTTTTTTCTCATTTCATT
Found at i:24002228 original size:27 final size:27
Alignment explanation
Indices: 24002198--24002277 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 27
24002188 TTCATTTAAA
*
24002198 TTTTCTATTTTCAATGCAAATTTATTT
1 TTTTCTATTTTCAATTCAAATTTATTT
* * * **
24002225 TTTTCTCA-TTTCATTTTATATTTA-AA
1 TTTTCT-ATTTTCAATTCAAATTTATTT
24002251 TTTTCTATTTTCAATTCAAATTT-TTT
1 TTTTCTATTTTCAATTCAAATTTATTT
24002277 T
1 T
24002278 CTCCTCATTT
Statistics
Matches: 39, Mismatches: 11, Indels: 7
0.68 0.19 0.12
Matches are distributed among these distances:
25 1 0.03
26 19 0.49
27 18 0.46
28 1 0.03
ACGTcount: A:0.25, C:0.11, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTTCTATTTTCAATTCAAATTTATTT
Found at i:24002240 original size:20 final size:20
Alignment explanation
Indices: 24002111--24002240 Score: 57
Period size: 22 Copynumber: 6.0 Consensus size: 20
24002101 TTAAAAAATA
*
24002111 TATTTTTTTC-AATTTCAATT
1 TATTTTTTTCTCATTTC-ATT
*
24002131 TA-TTTTTTCTCAATTCATT
1 TATTTTTTTCTCATTTCATT
* * *
24002150 TATATTATTTTTTAATTTAAATT
1 TAT-TT-TTTTCTCATTT-CATT
* *
24002173 TAACTTTTTCCTCATTTCATT
1 T-ATTTTTTTCTCATTTCATT
* * *
24002194 TAAATTTTCTATTTTCAATGCAAATT
1 T--ATTTT-T-TTCTCATTTC--ATT
24002220 TATTTTTTTCTCATTTCATT
1 TATTTTTTTCTCATTTCATT
24002240 T
1 T
24002241 TATATTTAAA
Statistics
Matches: 80, Mismatches: 19, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
19 12 0.15
20 10 0.12
21 6 0.08
22 28 0.35
23 8 0.10
24 12 0.15
26 4 0.05
ACGTcount: A:0.25, C:0.12, G:0.01, T:0.62
Consensus pattern (20 bp):
TATTTTTTTCTCATTTCATT
Found at i:24005279 original size:49 final size:49
Alignment explanation
Indices: 24005204--24005693 Score: 367
Period size: 49 Copynumber: 9.9 Consensus size: 49
24005194 TTGATAAATT
* *
24005204 TGGTGCTGGTCATTGACAGGCCAGCACTCAAAATTTTTTTTTCGTA-TAC
1 TGGTGCAGGCCATTGACAGGCCAGCAC-CAAAATTTTTTTTTCGTACTAC
* * * *
24005253 TGGTGCAGGGCATTGATAGGCTAGCACCCAACAA--TTTTTTTCGTA-TAT
1 TGGTGCAGGCCATTGACAGGCCAGCA-CCAA-AATTTTTTTTTCGTACTAC
* *
24005301 TGGTGCTA-GCCATTGACAGGCCAACACCAACAA-ATTTTTTTCGTA-TAC
1 TGGTGC-AGGCCATTGACAGGCCAGCACCAA-AATTTTTTTTTCGTACTAC
* * *
24005349 TGTTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTTCGTACTGC
1 TGGTGCAGGCCATTGACAGGCCAGCACCAAAA-TTTTTTTTTCGTACTAC
* ** * * *
24005399 TGGTGCTGGTTATTGACAGGCCAACACCCAAACAAAAATTTTTTTTCGTACTAG
1 TGGTGCAGGCCATTGACAGGCCAGCA--C---CAAAATTTTTTTTTCGTACTAC
* *** *
24005453 TGTTGCCA-ATTATTGACAGGCTAGCACCCAAAAATTCTTTTTTTCGTACTAC
1 TGGTG-CAGGCCATTGACAGGCCAGCA-CC-AAAATT-TTTTTTTCGTACTAC
* * * *
24005505 AGGTG-ACGGCCATTGATAGGCCAGCATC--AATTTTTTTTT-GTATTAC
1 TGGTGCA-GGCCATTGACAGGCCAGCACCAAAATTTTTTTTTCGTACTAC
* ** * * * * **
24005551 CGGTGTTGGCCATTGACAAGCTAGCACCCAAATTTTTTTTTTGTACTGG
1 TGGTGCAGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTCGTACTAC
* * * **
24005600 TGGTGCCGGCCATTGACAGGCCAGCACCCAATTTTTTTTTTCGTACTGT
1 TGGTGCAGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTCGTACTAC
* *
24005649 TGGTGCAGGCCATTGACAGGCCTGCACC-CAATTTTTTTTTCGTAC
1 TGGTGCAGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTCGTAC
24005694 CCAAAATTTT
Statistics
Matches: 359, Mismatches: 60, Indels: 45
0.77 0.13 0.10
Matches are distributed among these distances:
46 27 0.08
47 16 0.04
48 102 0.28
49 108 0.30
50 28 0.08
51 6 0.02
52 31 0.09
53 2 0.01
54 33 0.09
55 6 0.02
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (49 bp):
TGGTGCAGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTCGTACTAC
Found at i:24005495 original size:54 final size:52
Alignment explanation
Indices: 24005215--24005503 Score: 178
Period size: 48 Copynumber: 5.8 Consensus size: 52
24005205 GGTGCTGGTC
* ***
24005215 ATTGACAGGCCAGCACTC-AAAATTTTTTTTTCGTA-TA-CTGGTG-CAGGGC
1 ATTGACAGGCCAGCACCCAAAAATTTTTTTTTCGTACTAGCTGGTGCCA-ATT
* * * * * ***
24005264 ATTGATAGGCTAGCACCCAACAA--TTTTTTTCGTA-TA-TTGGTGCTAGCC
1 ATTGACAGGCCAGCACCCAAAAATTTTTTTTTCGTACTAGCTGGTGCCAATT
* * ****
24005312 ATTGACAGGCCAACA-CCAACAAA--TTTTTTTCGTA-TA-CTGTTGCCGGCC
1 ATTGACAGGCCAGCACCCAA-AAATTTTTTTTTCGTACTAGCTGGTGCCAATT
* ***
24005360 ATTGACAGGCCAGCA-CCAAAATTTTTTTTTTCGTACT-GCTGGTGCTGGTT
1 ATTGACAGGCCAGCACCCAAAAATTTTTTTTTCGTACTAGCTGGTGCCAATT
* * *
24005410 ATTGACAGGCCAACACCCAAACAAAAATTTTTTTTCGTACTAG-TGTTGCCAATT
1 ATTGACAGGCCAGCACCC--A-AAAATTTTTTTTTCGTACTAGCTGGTGCCAATT
*
24005464 ATTGACAGGCTAGCACCCAAAAATTCTTTTTTTCGTACTA
1 ATTGACAGGCCAGCACCCAAAAATT-TTTTTTTCGTACTA
24005504 CAGGTGACGG
Statistics
Matches: 196, Mismatches: 31, Indels: 23
0.78 0.12 0.09
Matches are distributed among these distances:
47 6 0.03
48 73 0.37
49 27 0.14
50 26 0.13
51 7 0.04
52 15 0.08
53 1 0.01
54 40 0.20
55 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (52 bp):
ATTGACAGGCCAGCACCCAAAAATTTTTTTTTCGTACTAGCTGGTGCCAATT
Found at i:24005624 original size:95 final size:98
Alignment explanation
Indices: 24005464--24005639 Score: 250
Period size: 95 Copynumber: 1.8 Consensus size: 98
24005454 GTTGCCAATT
* *
24005464 ATTGACAGGCTAGCACCCAAAAATTCTTTTTTTCGTACTACAGGTGACGGCCATTGATAGGCCAG
1 ATTGACAAGCTAGCACCC-AAAATTCTTTTTTTCGTACTACAGGTGACGGCCATTGACAGGCCAG
*
24005529 CA-TCAATTTTTTTTTGTATTACCGGTGTTGGCC
65 CACCCAATTTTTTTTTGTATTACCGGTGTTGGCC
* *** *
24005562 ATTGACAAGCTAGCACCC-AAATT-TTTTTTTTGTACTGGTGGTGCCGGCCATTGACAGGCCAGC
1 ATTGACAAGCTAGCACCCAAAATTCTTTTTTTCGTACTACAGGTGACGGCCATTGACAGGCCAGC
24005625 ACCCAATTTTTTTTT
66 ACCCAATTTTTTTTT
24005640 TCGTACTGTT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
95 35 0.51
96 17 0.25
98 17 0.25
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (98 bp):
ATTGACAAGCTAGCACCCAAAATTCTTTTTTTCGTACTACAGGTGACGGCCATTGACAGGCCAGC
ACCCAATTTTTTTTTGTATTACCGGTGTTGGCC
Found at i:24005752 original size:70 final size:69
Alignment explanation
Indices: 24005629--24005763 Score: 175
Period size: 70 Copynumber: 1.9 Consensus size: 69
24005619 GCCAGCACCC
* * * **
24005629 AATTTTTTTTTTCGTACTGTTGGTGCAGGCCATTGACAGGCCTGCACCCAATTTTTTTTTCGTAC
1 AATTTTTTTTTTCATACTGCTGGTGCAGGCCATTGACAAGCCTGCACAAAATTTTTTTTTCGTAC
24005694 CCAA
66 CCAA
*
24005698 AATTTTTTTTTTCAATACTGCTGGTGCCA-GCCATTGGCAAGCCAT-CACAAAATTTTTTTTTCG
1 AATTTTTTTTTTC-ATACTGCTGGTG-CAGGCCATTGACAAGCC-TGCACAAAATTTTTTTTTCG
24005761 TAC
63 TAC
24005764 TGGTGGTGCC
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
69 13 0.23
70 41 0.72
71 3 0.05
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (69 bp):
AATTTTTTTTTTCATACTGCTGGTGCAGGCCATTGACAAGCCTGCACAAAATTTTTTTTTCGTAC
CCAA
Found at i:24005771 original size:48 final size:49
Alignment explanation
Indices: 24005695--24005806 Score: 127
Period size: 48 Copynumber: 2.3 Consensus size: 49
24005685 TTTTCGTACC
* * *
24005695 CAAAATTTTTTTTTTCAATACTGCTGGTGCCAGCCATTGGCAAGCCATCA
1 CAAAA-TTTTTTTTTCAATACTGCTGGTGCCAGCCACTGACAAGCCAACA
* * * *
24005745 CAAAATTTTTTTTTC-GTACTGGTGGTGCCGGCCACTGACAGGCCAACA
1 CAAAATTTTTTTTTCAATACTGCTGGTGCCAGCCACTGACAAGCCAACA
**
24005793 CCCAATTTTTTTTT
1 CAAAATTTTTTTTT
24005807 TAATTTTTGT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 38 0.72
49 10 0.19
50 5 0.09
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (49 bp):
CAAAATTTTTTTTTCAATACTGCTGGTGCCAGCCACTGACAAGCCAACA
Found at i:24007239 original size:21 final size:21
Alignment explanation
Indices: 24007215--24007258 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
24007205 AATAGTTTTC
24007215 TTTTAAAATAATAAGATTTAA
1 TTTTAAAATAATAAGATTTAA
** * *
24007236 TTTTTTAATATTAATATTTAA
1 TTTTAAAATAATAAGATTTAA
24007257 TT
1 TT
24007259 CAATTTTAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTTAAAATAATAAGATTTAA
Found at i:24016130 original size:12 final size:10
Alignment explanation
Indices: 24016100--24016142 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
24016090 TAAGAGTAAT
*
24016100 TTGAGAGGAA
1 TTGAGAGAAA
24016110 TTCGAGAGAATA
1 TT-GAGAGAA-A
24016122 TTAGAGAGAAA
1 TT-GAGAGAAA
24016133 TTGAGAGAAA
1 TTGAGAGAAA
24016143 GGATTTAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 10 0.34
11 9 0.31
12 10 0.34
ACGTcount: A:0.47, C:0.02, G:0.30, T:0.21
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:24016138 original size:10 final size:11
Alignment explanation
Indices: 24016092--24016142 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
24016082 GCTTTTTTTA
* *
24016092 AGAGTAATTTG
1 AGAGAAATTAG
* *
24016103 AGAGGAATTCG
1 AGAGAAATTAG
24016114 AGAGAATATTAG
1 AGAGAA-ATTAG
24016126 AGAGAAATT-G
1 AGAGAAATTAG
24016136 AGAGAAA
1 AGAGAAA
24016143 GGATTTAGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.23
11 17 0.49
12 10 0.29
ACGTcount: A:0.47, C:0.02, G:0.29, T:0.22
Consensus pattern (11 bp):
AGAGAAATTAG
Found at i:24016220 original size:18 final size:17
Alignment explanation
Indices: 24016193--24016236 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
24016183 CAATAATGCC
*
24016193 CGGGCACAAACCAATAAA
1 CGGGCCCAAACC-ATAAA
*
24016211 CGGGCCCAAACCATTAA
1 CGGGCCCAAACCATAAA
*
24016228 CAGGCCCAA
1 CGGGCCCAA
24016237 CAACTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.41, C:0.34, G:0.18, T:0.07
Consensus pattern (17 bp):
CGGGCCCAAACCATAAA
Found at i:24018315 original size:13 final size:13
Alignment explanation
Indices: 24018297--24018321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24018287 AAGAGATTTA
24018297 TTTTCTAGTAAAG
1 TTTTCTAGTAAAG
24018310 TTTTCTAGTAAA
1 TTTTCTAGTAAA
24018322 AAATCGAACA
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:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (13 bp):
TTTTCTAGTAAAG
Found at i:24020302 original size:22 final size:22
Alignment explanation
Indices: 24020277--24020321 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
24020267 TGAGCAAATG
24020277 TTCTTTCATTCTTTACGATTTT
1 TTCTTTCATTCTTTACGATTTT
**
24020299 TTCTTTCATTCTTTTGGATTTT
1 TTCTTTCATTCTTTACGATTTT
24020321 T
1 T
24020322 CTGCCAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.16, G:0.07, T:0.67
Consensus pattern (22 bp):
TTCTTTCATTCTTTACGATTTT
Found at i:24022639 original size:44 final size:44
Alignment explanation
Indices: 24022591--24022788 Score: 143
Period size: 44 Copynumber: 4.5 Consensus size: 44
24022581 CCAGTAATTC
* *
24022591 TATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
* * ** * **** *
24022635 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGGATTT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
* * * * * *
24022679 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAATAGATTGAAG--ATTACAGATCT
*
24022723 TATCTCCCTAGGCAGCAGTGGAATATATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
* *
24022767 TATCTCCCTAAGCAGTAGTGGA
1 TATCTCCCTAGGCAGCAGTGGA
24022789 GCAGATCAAG
Statistics
Matches: 113, Mismatches: 33, Indels: 16
0.70 0.20 0.10
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 21 0.19
44 68 0.60
45 17 0.15
46 1 0.01
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
Found at i:24022779 original size:132 final size:131
Alignment explanation
Indices: 24022542--24022876 Score: 582
Period size: 132 Copynumber: 2.5 Consensus size: 131
24022532 GTTAATGGCA
*
24022542 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGTAGC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT-GGCAGC
24022607 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATG
65 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAGGATG
**
24022671 GTG
129 ACG
24022674 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAGC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT-GGCAGC
*
24022739 AGTGGAATATATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGA
65 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGA
24022804 CG
130 CG
*
24022806 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGAGCAAC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG-GCAGC
24022871 AGTGGA
65 AGTGGA
24022877 GTAGCAGTAG
Statistics
Matches: 195, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
131 3 0.02
132 192 0.98
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (131 bp):
GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGCAGCA
GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGAC
G
Found at i:24023359 original size:89 final size:89
Alignment explanation
Indices: 24022885--24023325 Score: 702
Period size: 89 Copynumber: 5.0 Consensus size: 89
24022875 GAGTAGCAGT
** *
24022885 AGATCTTGTCTTCATGTACTGGCACGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
*
24022950 GTGGCGAAGTAGATCGAAGAAAAC
66 GTGGCGAAGTAGATCGAAGAAAGC
* *
24022974 ATATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
* *
24023039 GTGGCGAAGCAGATAGAAGAAAGC
66 GTGGCGAAGTAGATCGAAGAAAGC
*
24023063 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
* **
24023128 GTGGCGAAGCAGATAAAAGAAAGC
66 GTGGCGAAGTAGATCGAAGAAAGC
* * * *
24023152 AGATCTTGTCTTCATGTACTTGCATGAAGTAGATCAAAGAGAACATATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
*
24023217 GTGGCGAAGTGGATCGAAGAAAGC
66 GTGGCGAAGTAGATCGAAGAAAGC
* * *
24023241 AGATCTTGTCTTTATGTACTGGCGTGAAGTAGATCAAAGAGAGCAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
24023306 GTGGCGAAGTAGATCGAAGA
66 GTGGCGAAGTAGATCGAAGA
24023326 TACAAGTTTT
Statistics
Matches: 327, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 327 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (89 bp):
AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
GTGGCGAAGTAGATCGAAGAAAGC
Found at i:24024040 original size:18 final size:17
Alignment explanation
Indices: 24024013--24024056 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
24024003 CAATAATGTC
*
24024013 CGGGCACAAACCAATAAA
1 CGGGCCCAAACC-ATAAA
*
24024031 CGGGCCCAAACCATTAA
1 CGGGCCCAAACCATAAA
*
24024048 CAGGCCCAA
1 CGGGCCCAA
24024057 CAACTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.41, C:0.34, G:0.18, T:0.07
Consensus pattern (17 bp):
CGGGCCCAAACCATAAA
Found at i:24025324 original size:16 final size:16
Alignment explanation
Indices: 24025303--24025336 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24025293 TATTGTACAT
* *
24025303 ATATATATGTATTTGA
1 ATATATACGTATATGA
24025319 ATATATACGTATATGA
1 ATATATACGTATATGA
24025335 AT
1 AT
24025337 TTTCACGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATATACGTATATGA
Found at i:24028720 original size:20 final size:19
Alignment explanation
Indices: 24028663--24028731 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 19
24028653 AAAAATATTT
24028663 TTTAAAATACTAATTATAAATA
1 TTTAAAATA-T-ATT-TAAATA
**
24028685 TTTAATGTTATATTTAAATA
1 TTTAA-AATATATTTAAATA
*
24028705 TTTAAAATATAGTTTATATA
1 TTTAAAATATA-TTTAAATA
24028725 TTCTAAA
1 TT-TAAA
24028732 TAATTAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 4 0.10
20 20 0.51
21 7 0.18
22 6 0.15
23 2 0.05
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (19 bp):
TTTAAAATATATTTAAATA
Found at i:24028979 original size:13 final size:13
Alignment explanation
Indices: 24028963--24029012 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
24028953 TTTAAACCAA
*
24028963 ACTTTTCAAAATC
1 ACTTTTTAAAATC
*
24028976 ACTTCTTAAAAGT-
1 ACTTTTTAAAA-TC
*
24028989 ACTTTTTAAAAGC
1 ACTTTTTAAAATC
24029002 ACTTTTTAAAA
1 ACTTTTTAAAA
24029013 AAATGATGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 30 0.97
14 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
ACTTTTTAAAATC
Found at i:24028993 original size:26 final size:26
Alignment explanation
Indices: 24028963--24029012 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
24028953 TTTAAACCAA
*
24028963 ACTTTTCAAAATCACTTCTTAAAAGT
1 ACTTTTCAAAAGCACTTCTTAAAAGT
* *
24028989 ACTTTTTAAAAGCACTTTTTAAAA
1 ACTTTTCAAAAGCACTTCTTAAAA
24029013 AAATGATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTTAAAAGT
Found at i:24029873 original size:22 final size:23
Alignment explanation
Indices: 24029848--24029903 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
24029838 TAAATGTGTT
24029848 AAAATTATTAATTAAAAATAA-A
1 AAAATTATTAATTAAAAATAATA
* *
24029870 AAAAATATT--TTTAAAATAATA
1 AAAATTATTAATTAAAAATAATA
*
24029891 CAAATGTATTAAT
1 AAAAT-TATTAAT
24029904 ATCTAATTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
20 9 0.35
21 4 0.15
22 12 0.46
24 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAATTATTAATTAAAAATAATA
Found at i:24030023 original size:24 final size:24
Alignment explanation
Indices: 24029970--24030023 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
24029960 TTCTAATTAA
* *
24029970 ATTTTATAAATAATTAATATTTAT
1 ATTTTAAAAATAATTAAAATTTAT
*
24029994 -TGTTTAAAAATATTTAAAATTTAT
1 AT-TTTAAAAATAATTAAAATTTAT
24030018 ATTTTA
1 ATTTTA
24030024 TATATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 23 0.92
25 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTAAAAATAATTAAAATTTAT
Found at i:24030418 original size:18 final size:18
Alignment explanation
Indices: 24030392--24030426 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24030382 GAGTTAAACG
*
24030392 AATCGAGTTATTCGAGTT
1 AATCAAGTTATTCGAGTT
24030410 AATCAAGTTATTCGAGT
1 AATCAAGTTATTCGAGT
24030427 CAACTCGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (18 bp):
AATCAAGTTATTCGAGTT
Found at i:24030495 original size:9 final size:9
Alignment explanation
Indices: 24030478--24030514 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
24030468 TAAATTTTCG
24030478 AATTCGAAT
1 AATTCGAAT
*
24030487 AACTCGAAT
1 AATTCGAAT
24030496 AATTCGAAT
1 AATTCGAAT
24030505 AATTCGAAT
1 AATTCGAAT
24030514 A
1 A
24030515 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:24037231 original size:154 final size:154
Alignment explanation
Indices: 24036951--24037255 Score: 583
Period size: 154 Copynumber: 2.0 Consensus size: 154
24036941 AATTTTTGGT
*
24036951 AATCAAACCGAAAATATTGCTACAAATGAAATAAAATCTGAAAATTTAGGAGAATCATCTACTCA
1 AATCAAACCGAAAATATTGCTACAAATGAAATAAAATCTGAAAATTTAGGAAAATCATCTACTCA
*
24037016 ACCAGTTCCATATAGAATAGATGATCTAAACAAAAGAAATGATGTTCAATGAGGAATATATTTAG
66 ACCAATTCCATATAGAATAGATGATCTAAACAAAAGAAATGATGTTCAATGAGGAATATATTTAG
24037081 ATCTAACTAATATTCCTATAGCAG
131 ATCTAACTAATATTCCTATAGCAG
*
24037105 AATCAAACCGACAATATTGCTACAAATGAAATAAAATCTGAAAATTTAGGAAAATCATCTACTCA
1 AATCAAACCGAAAATATTGCTACAAATGAAATAAAATCTGAAAATTTAGGAAAATCATCTACTCA
24037170 ACCAATTCCATATAGAATAGATGATCTAAACAAAAGAAATGATGTTCAATGAGGAATATATTTAG
66 ACCAATTCCATATAGAATAGATGATCTAAACAAAAGAAATGATGTTCAATGAGGAATATATTTAG
24037235 ATCTAACTAATATTCCTATAG
131 ATCTAACTAATATTCCTATAG
24037256 TAGACTATGA
Statistics
Matches: 148, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
154 148 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (154 bp):
AATCAAACCGAAAATATTGCTACAAATGAAATAAAATCTGAAAATTTAGGAAAATCATCTACTCA
ACCAATTCCATATAGAATAGATGATCTAAACAAAAGAAATGATGTTCAATGAGGAATATATTTAG
ATCTAACTAATATTCCTATAGCAG
Found at i:24039872 original size:42 final size:43
Alignment explanation
Indices: 24039782--24039920 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 43
24039772 CTCCTAGATT
* * *
24039782 TGGTCTTACATGTAATCAAATATCGATGCCATTGTCCCAAACA
1 TGGTCTTACACGTAATCAAATATCGATGCCAATGTACCAAACA
* * *
24039825 GGGTCTTACACG-AAGTCAAATA-CGATGCCAATGTACTAGACA
1 TGGTCTTACACGTAA-TCAAATATCGATGCCAATGTACCAAACA
* * * *
24039867 TGGTCTTACACGTAATTCTCAA-ATCGATGCCAACGTCCCAAACG
1 TGGTCTTACACGTAA-TC-AAATATCGATGCCAATGTACCAAACA
*
24039911 TGGTTTTACA
1 TGGTCTTACA
24039921 TGAAATCACA
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 29 0.38
43 22 0.29
44 26 0.34
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
TGGTCTTACACGTAATCAAATATCGATGCCAATGTACCAAACA
Found at i:24044163 original size:26 final size:26
Alignment explanation
Indices: 24044134--24044185 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
24044124 AGTAATAATG
24044134 ACGCAGCAA-AGCTGCCAATAACAGTA
1 ACGCAGCAAGA-CTGCCAATAACAGTA
*
24044160 ACGCAGCAAGACTGCCAGTAACAGTA
1 ACGCAGCAAGACTGCCAATAACAGTA
24044186 TATGTGGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.40, C:0.27, G:0.21, T:0.12
Consensus pattern (26 bp):
ACGCAGCAAGACTGCCAATAACAGTA
Found at i:24044394 original size:27 final size:27
Alignment explanation
Indices: 24044364--24044662 Score: 318
Period size: 27 Copynumber: 11.1 Consensus size: 27
24044354 ACAGTTATTC
*
24044364 TACCCATCAAGGGTATTTCGGTCATTT
1 TACCCATCAAGGGTATTTCGATCATTT
* * *
24044391 TACCCATCGAGAGTATTTC-AGTAATTT
1 TACCCATCAAGGGTATTTCGA-TCATTT
* *
24044418 TACCCGTCAAGGGCATTTCGATCATTT
1 TACCCATCAAGGGTATTTCGATCATTT
24044445 TACCCATCAAGGGTATTTCGATCATTT
1 TACCCATCAAGGGTATTTCGATCATTT
* **
24044472 TACCCTTCGGGGGTATTTC-ATTCATTT
1 TACCCATCAAGGGTATTTCGA-TCATTT
* *
24044499 TACCTATTAAGGGTATTTC-AGTCATTT
1 TACCCATCAAGGGTATTTCGA-TCATTT
*
24044526 TACCCATCAAGGGTATTTCAATCATTT
1 TACCCATCAAGGGTATTTCGATCATTT
* * *
24044553 TACCCTTCAAGGGTATTTCAATAATTT
1 TACCCATCAAGGGTATTTCGATCATTT
* ** *
24044580 TACCCTTTGAGGGTATTTCGGTCATTT
1 TACCCATCAAGGGTATTTCGATCATTT
* *
24044607 TACCCTTCGAGGGTATTTCGATCATTT
1 TACCCATCAAGGGTATTTCGATCATTT
** *
24044634 TACCCATTGAGGGTGATTT-GGTCATTT
1 TACCCATCAAGGGT-ATTTCGATCATTT
24044661 TA
1 TA
24044663 GGCCCATTAC
Statistics
Matches: 233, Mismatches: 34, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.00
27 226 0.97
28 6 0.03
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (27 bp):
TACCCATCAAGGGTATTTCGATCATTT
Found at i:24044662 original size:81 final size:81
Alignment explanation
Indices: 24044364--24044652 Score: 384
Period size: 81 Copynumber: 3.6 Consensus size: 81
24044354 ACAGTTATTC
* * * * *
24044364 TACCCATCAAGGGTATTTCGGTCATTTTACCCATCGAGAGTATTTCAGTAATTTTACCCGTCAAG
1 TACCCATCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTAAG
* *
24044429 GGCATTTCGATCATTT
66 GGTATTTCGGTCATTT
* * *
24044445 TACCCATCAAGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTCATTCATTTTA-CCTATTAA
1 TACCCATCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCT-TTAA
*
24044509 GGGTATTTCAGTCATTT
65 GGGTATTTCGGTCATTT
* * * *
24044526 TACCCATCAAGGGTATTTCAATCATTTTACCCTTCAAGGGTATTTCAATAATTTTACCCTTTGAG
1 TACCCATCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTAAG
24044591 GGTATTTCGGTCATTT
66 GGTATTTCGGTCATTT
* *
24044607 TACCCTTCGAGGGTATTTCGATCATTTTACCCATT-GAGGGTGATTT
1 TACCCATCAAGGGTATTTCGATCATTTTACCC-TTCGAGGGT-ATTT
24044653 GGTCATTTTA
Statistics
Matches: 182, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
80 2 0.01
81 171 0.94
82 9 0.05
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.39
Consensus pattern (81 bp):
TACCCATCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTAAG
GGTATTTCGGTCATTT
Found at i:24050518 original size:43 final size:43
Alignment explanation
Indices: 24050467--24050562 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 43
24050457 TCCCAAACGT
24050467 GGTCTTACATGGAA-TCAAATATCGATGAC-ACTGTCCCAGACAG
1 GGTCTTACATGGAAGTCAAATA-CGATGACGA-TGTCCCAGACAG
* * * *
24050510 GGTTTTACA-CGAAGTCAAATACGATGCCGATGTCCCAGACAT
1 GGTCTTACATGGAAGTCAAATACGATGACGATGTCCCAGACAG
24050552 GGTCTTACATG
1 GGTCTTACATG
24050563 TAATTCTCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
42 28 0.64
43 16 0.36
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGGAAGTCAAATACGATGACGATGTCCCAGACAG
Found at i:24057401 original size:13 final size:13
Alignment explanation
Indices: 24057383--24057419 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
24057373 AGAACGAAAC
24057383 AGAGAAGAAAAAG
1 AGAGAAGAAAAAG
24057396 AGAGAAAGAAAAAG
1 AGAG-AAGAAAAAG
24057410 -GAGAA-AAAAA
1 AGAGAAGAAAAA
24057420 AATTAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.22
12 2 0.09
13 7 0.30
14 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AGAGAAGAAAAAG
Found at i:24057401 original size:25 final size:25
Alignment explanation
Indices: 24057360--24057420 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
24057350 GAATAGAAAA
* * *
24057360 AGAAGAACAAAGTAGAACGAAACA-G
1 AGAAGAA-AAAGGAGAAAGAAAAAGG
24057385 AGAAGAAAAAGAGAGAAAGAAAAAGG
1 AGAAGAAAAAG-GAGAAAGAAAAAGG
*
24057411 AGAAAAAAAA
1 AGAAGAAAAA
24057421 ATTAGGGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.13
25 16 0.53
26 10 0.33
ACGTcount: A:0.69, C:0.05, G:0.25, T:0.02
Consensus pattern (25 bp):
AGAAGAAAAAGGAGAAAGAAAAAGG
Found at i:24057406 original size:14 final size:14
Alignment explanation
Indices: 24057383--24057420 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
24057373 AGAACGAAAC
24057383 AGAG-AAGAAAAAG
1 AGAGAAAGAAAAAG
24057396 AGAGAAAGAAAAAG
1 AGAGAAAGAAAAAG
24057410 -GAGAAA-AAAAA
1 AGAGAAAGAAAAA
24057421 ATTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 10 0.42
14 9 0.38
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAGAAAGAAAAAG
Found at i:24061720 original size:69 final size:71
Alignment explanation
Indices: 24061594--24061724 Score: 185
Period size: 69 Copynumber: 1.9 Consensus size: 71
24061584 GTTCTGGACA
* * *
24061594 TTGTTTTGATAGTCTGCTGGAAAATGTTATTTTAGTTTGTTAGTGAGTAGAAGATGAAACTGTTG
1 TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAGTAGAAGATGAAACTGTTG
24061659 TGGCAG
66 TGGCAG
* ** *
24061665 TTGTTTTGATTGTCTGCTGGAACTTGTT-CTTGA-TTTGTTAGTCAGTAGAATATGAAACTG
1 TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAGTAGAAGATGAAACTG
24061725 GAACTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
69 25 0.47
70 3 0.06
71 25 0.47
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.43
Consensus pattern (71 bp):
TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAGTAGAAGATGAAACTGTTG
TGGCAG
Found at i:24062930 original size:18 final size:18
Alignment explanation
Indices: 24062907--24062941 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24062897 TTTTGGTCAA
24062907 TTATACATACACCAACAG
1 TTATACATACACCAACAG
24062925 TTATACATACACCAACA
1 TTATACATACACCAACA
24062942 ATGTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.29, G:0.03, T:0.23
Consensus pattern (18 bp):
TTATACATACACCAACAG
Found at i:24063005 original size:33 final size:33
Alignment explanation
Indices: 24062926--24063031 Score: 110
Period size: 33 Copynumber: 3.2 Consensus size: 33
24062916 CACCAACAGT
*
24062926 TATACATACACCAACAATGT-TTTTTAGGGT-AAA
1 TATACATACACCAACAA-GTAATTTTA-GGTCAAA
* * *
24062959 TA-AAATTAAACCAACAAGTAATTTTAGGTCAAC
1 TATACA-TACACCAACAAGTAATTTTAGGTCAAA
* *
24062992 TATACATACACCAACAATTAATTTTAGGTCAAT
1 TATACATACACCAACAAGTAATTTTAGGTCAAA
24063025 TATACAT
1 TATACAT
24063032 GCTTTATAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
32 7 0.11
33 52 0.85
34 2 0.03
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.32
Consensus pattern (33 bp):
TATACATACACCAACAAGTAATTTTAGGTCAAA
Found at i:24066132 original size:26 final size:27
Alignment explanation
Indices: 24066092--24066173 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
24066082 TAAGAACATT
*
24066092 TTATGAAATTATATTTAATAATAATTA
1 TTATTAAATTATATTTAATAATAATTA
* *
24066119 TT-TTAAATTGTATTTAATCATATATT-
1 TTATTAAATTATATTTAATAATA-ATTA
* *
24066145 TTAATTAAAATATATTTAATATTAATTA
1 TT-ATTAAATTATATTTAATAATAATTA
24066173 T
1 T
24066174 AGTATCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 17 0.39
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TTATTAAATTATATTTAATAATAATTA
Found at i:24066255 original size:18 final size:17
Alignment explanation
Indices: 24066227--24066261 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24066217 ATTATTAAGA
*
24066227 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
24066244 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
24066262 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:24066352 original size:120 final size:120
Alignment explanation
Indices: 24066174--24066638 Score: 905
Period size: 120 Copynumber: 3.9 Consensus size: 120
24066164 TATTAATTAT
24066174 AGTATCATATATTATGATTTGAGTAAATT-ATATAAGAATATGAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
24066238 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
24066293 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
24066358 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
*
24066413 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
24066478 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
*
24066533 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAAATTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
24066598 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
24066639 TAAATATGAT
Statistics
Matches: 342, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
119 29 0.08
120 313 0.92
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.47
Consensus pattern (120 bp):
AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
Found at i:24066375 original size:18 final size:17
Alignment explanation
Indices: 24066347--24066381 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24066337 ATTATTAAGA
*
24066347 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
24066364 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
24066382 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:24066495 original size:18 final size:17
Alignment explanation
Indices: 24066467--24066501 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24066457 ATTATTAAGA
*
24066467 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
24066484 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
24066502 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:24066878 original size:16 final size:16
Alignment explanation
Indices: 24066857--24066892 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
24066847 GATTTGCTAT
24066857 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24066873 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24066889 TACA
1 TACA
24066893 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:24070647 original size:14 final size:14
Alignment explanation
Indices: 24070628--24070659 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
24070618 ATGTTATCCC
24070628 AATTTTCATGATAG
1 AATTTTCATGATAG
24070642 AATTTTCATGATAG
1 AATTTTCATGATAG
24070656 AATT
1 AATT
24070660 AACTTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (14 bp):
AATTTTCATGATAG
Found at i:24077301 original size:41 final size:41
Alignment explanation
Indices: 24077244--24077370 Score: 236
Period size: 41 Copynumber: 3.1 Consensus size: 41
24077234 ACCTTTAATA
*
24077244 AAAGTCCTAGTACAATGACTCATACAAACTTTAATAAAAGT
1 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
24077285 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
1 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
*
24077326 AAAGTCTTAGTACAATGACTCATACAACCTTTAATAAAAGT
1 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
24077367 AAAG
1 AAAG
24077371 GATAATAATT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (41 bp):
AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
Found at i:24085768 original size:21 final size:21
Alignment explanation
Indices: 24085744--24085784 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24085734 AGAGAAAAAG
24085744 AAATACAAAACCTTAAGGAAC
1 AAATACAAAACCTTAAGGAAC
* **
24085765 AAATTCAAATTCTTAAGGAA
1 AAATACAAAACCTTAAGGAA
24085785 ACGGGAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.22
Consensus pattern (21 bp):
AAATACAAAACCTTAAGGAAC
Found at i:24090338 original size:41 final size:41
Alignment explanation
Indices: 24090281--24090448 Score: 300
Period size: 41 Copynumber: 4.1 Consensus size: 41
24090271 GATTTTTATC
24090281 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
* *
24090322 CTTTACTTTTATTAAAGGTTGTATAAGTCATTGTATTAGGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
*
24090363 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTGCTAGGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
*
24090404 CTTTACTTTTATTAAAGTTTGTATGAGTCATTGTACTAGGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
24090445 CTTT
1 CTTT
24090449 TATTAAAGGT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 120 1.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (41 bp):
CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
Found at i:24093233 original size:17 final size:16
Alignment explanation
Indices: 24093211--24093246 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24093201 AAGACAAGTA
24093211 TCAAAATCGTTTTAGGG
1 TCAAAA-CGTTTTAGGG
*
24093228 TCAAAACTTTTTAGGG
1 TCAAAACGTTTTAGGG
24093244 TCA
1 TCA
24093247 CAAAAAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (16 bp):
TCAAAACGTTTTAGGG
Found at i:24094936 original size:39 final size:40
Alignment explanation
Indices: 24094893--24095060 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
24094883 CTCGTTCAAG
* * * *
24094893 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
24094932 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
24094972 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
24095012 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
24095052 TGCCTTCGG
1 TGCCTTCGG
24095061 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:24095044 original size:80 final size:80
Alignment explanation
Indices: 24094928--24095113 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
24094918 AGTAACTCAT
* * *
24094928 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
24094992 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
24095007 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
24095071 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
24095088 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
24095114 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:24095073 original size:40 final size:40
Alignment explanation
Indices: 24094930--24095113 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
24094920 TAACTCATAC
* *
24094930 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
24094970 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
24095010 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
24095050 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
24095091 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24095114 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:24102866 original size:39 final size:40
Alignment explanation
Indices: 24102823--24102990 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
24102813 CTCGTTCAAG
* * * *
24102823 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
24102862 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
24102902 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
24102942 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
24102982 TGCCTTCGG
1 TGCCTTCGG
24102991 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:24102974 original size:80 final size:80
Alignment explanation
Indices: 24102858--24103043 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
24102848 AGTAACTCAT
* * *
24102858 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
24102922 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
24102937 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
24103001 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
24103018 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
24103044 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:24103003 original size:40 final size:40
Alignment explanation
Indices: 24102860--24103043 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
24102850 TAACTCATAC
* *
24102860 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
24102900 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
24102940 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
24102980 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
24103021 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24103044 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:24108526 original size:15 final size:15
Alignment explanation
Indices: 24108506--24108554 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
24108496 GGATCATATG
* *
24108506 TACTAGCATGTTGCA
1 TACTAGCGTGTTCCA
24108521 TACTAGCGTGTTCCA
1 TACTAGCGTGTTCCA
24108536 TACTAGCGTGTTCCA
1 TACTAGCGTGTTCCA
24108551 TACT
1 TACT
24108555 TTGAAGAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (15 bp):
TACTAGCGTGTTCCA
Found at i:24115259 original size:20 final size:20
Alignment explanation
Indices: 24115226--24115295 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
24115216 AAAAGTTTAG
24115226 AAAAT-TTTTATAAAATAATT
1 AAAATATTTT-TAAAATAATT
24115246 AAAATATTTTTAAACA-AATT
1 AAAATATTTTTAAA-ATAATT
* * *
24115266 GAAA-GTTTTAAAAATAATTT
1 AAAATATTTTTAAAATAA-TT
24115286 AAAATCATTT
1 AAAAT-ATTT
24115296 AGAACTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 1 0.03
19 9 0.23
20 21 0.54
21 5 0.13
22 3 0.08
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAATATTTTTAAAATAATT
Found at i:24119617 original size:10 final size:10
Alignment explanation
Indices: 24119602--24119626 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24119592 TAGCACTTTG
24119602 ATTTCCTAAC
1 ATTTCCTAAC
24119612 ATTTCCTAAC
1 ATTTCCTAAC
24119622 ATTTC
1 ATTTC
24119627 GTGTTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTTCCTAAC
Found at i:24128953 original size:20 final size:20
Alignment explanation
Indices: 24128928--24128965 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24128918 GTAGAAATTA
24128928 TTATTCCTAGAAAATAAAAT
1 TTATTCCTAGAAAATAAAAT
*
24128948 TTATTCTTAGAAAATAAA
1 TTATTCCTAGAAAATAAA
24128966 TTCTCACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (20 bp):
TTATTCCTAGAAAATAAAAT
Found at i:24131341 original size:16 final size:16
Alignment explanation
Indices: 24131295--24131346 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
24131285 TGGTACACTA
*
24131295 TAATGGAATAGAGTTG
1 TAATGGAATAGAGCTG
*
24131311 TAATTTG-ATAGAGCTG
1 TAA-TGGAATAGAGCTG
*
24131327 TAATGGAATAAAGCTG
1 TAATGGAATAGAGCTG
24131343 TAAT
1 TAAT
24131347 CAGGAATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 2 0.07
16 26 0.87
17 2 0.07
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:24131605 original size:58 final size:59
Alignment explanation
Indices: 24131526--24131679 Score: 187
Period size: 58 Copynumber: 2.7 Consensus size: 59
24131516 TTTTAATAAG
* *
24131526 ATTATTACTAAAAATAATTTAATAAAAATAATATATAATTTAACC-ATATT-TTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAACCAAT-TTCTTAACATA
**
24131584 ATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATTAATTTCTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAACCAATTTCTTAACATA
24131642 ATTATTATT--ATATGAA-TTAA-AAAATCATAATATATAAT
1 ATTATTATTAAATAT-AATTTAATAAAA--ATAATATATAAT
24131680 ACTATAAAAA
Statistics
Matches: 86, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
56 11 0.13
57 23 0.27
58 52 0.60
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.43
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAACCAATTTCTTAACATA
Found at i:24131724 original size:13 final size:13
Alignment explanation
Indices: 24131706--24131731 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24131696 ATAATCTACT
24131706 TTATTATTTTTAA
1 TTATTATTTTTAA
24131719 TTATTATTTTTAA
1 TTATTATTTTTAA
24131732 ACTGCAATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTATTTTTAA
Found at i:24138492 original size:28 final size:27
Alignment explanation
Indices: 24138431--24138492 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
24138421 ATAACATAAA
* *
24138431 TTAAAGATATCGAAAATAAAAATAGTT
1 TTAAATATATCAAAAATAAAAATAGTT
* *
24138458 TAAAAATATATCAAAAGATTAAAATAGTT
1 T-TAAATATATCAAAA-ATAAAAATAGTT
24138487 TTAAAT
1 TTAAAT
24138493 TAAACATATC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.04
28 15 0.54
29 12 0.43
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.32
Consensus pattern (27 bp):
TTAAATATATCAAAAATAAAAATAGTT
Found at i:24138508 original size:16 final size:16
Alignment explanation
Indices: 24138489--24138529 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
24138479 AAATAGTTTT
24138489 AAATTAAACATATCAA
1 AAATTAAACATATCAA
*
24138505 AAATAAAAACATATCAA
1 AAAT-TAAACATATCAA
24138522 AAATTAAA
1 AAATTAAA
24138530 TATAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATTAAACATATCAA
Found at i:24141128 original size:20 final size:20
Alignment explanation
Indices: 24141103--24141140 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
24141093 AAAGTCTTGT
24141103 TAGGGTTTGTCAAAGGGAGA
1 TAGGGTTTGTCAAAGGGAGA
24141123 TAGGGTTTGTCAAAGGGA
1 TAGGGTTTGTCAAAGGGA
24141141 TATAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.39, T:0.26
Consensus pattern (20 bp):
TAGGGTTTGTCAAAGGGAGA
Found at i:24143998 original size:27 final size:27
Alignment explanation
Indices: 24143968--24144145 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24143958 ATATTGAGTC
* * * *
24143968 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24143995 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24144022 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24144050 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24144077 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24144104 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24144131 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24144146 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24144107 original size:82 final size:81
Alignment explanation
Indices: 24143989--24144144 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24143979 TGCTATATAA
* *
24143989 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24144054 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24144071 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24144135 CACTTAGTGC
65 CACTTAGTGC
24144145 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24151974 original size:27 final size:27
Alignment explanation
Indices: 24151944--24152121 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24151934 ATATTGAGTC
* * * *
24151944 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24151971 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24151998 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24152026 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24152053 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24152080 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24152107 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24152122 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24152083 original size:82 final size:81
Alignment explanation
Indices: 24151965--24152120 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24151955 TGCTATATAA
* *
24151965 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24152030 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24152047 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24152111 CACTTAGTGC
65 CACTTAGTGC
24152121 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24160188 original size:19 final size:19
Alignment explanation
Indices: 24160166--24160205 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
24160156 ATCTTTAATA
*
24160166 GATACTAAAATTTATCATG
1 GATACCAAAATTTATCATG
*
24160185 GATACCAAAATTTCTCATG
1 GATACCAAAATTTATCATG
24160204 GA
1 GA
24160206 AGATGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (19 bp):
GATACCAAAATTTATCATG
Found at i:24160373 original size:19 final size:19
Alignment explanation
Indices: 24160349--24160448 Score: 74
Period size: 20 Copynumber: 5.1 Consensus size: 19
24160339 GATTTTTCAA
*
24160349 TATTTGTCAAAAATTTTGG
1 TATTTGTTAAAAATTTTGG
* *
24160368 TATTTGATTACAAATTTTGA
1 TATTTG-TTAAAAATTTTGG
**
24160388 TATTCATTAAAAATTTTGG
1 TATTTGTTAAAAATTTTGG
* * * **
24160407 TCTCATGTTAGAAATACTGG
1 TAT-TTGTTAAAAATTTTGG
*
24160427 TATGGTGTTAAAAATTTTGG
1 TAT-TTGTTAAAAATTTTGG
24160447 TA
1 TA
24160449 CAATCTGTTG
Statistics
Matches: 59, Mismatches: 20, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
19 19 0.32
20 40 0.68
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (19 bp):
TATTTGTTAAAAATTTTGG
Found at i:24160382 original size:20 final size:19
Alignment explanation
Indices: 24160357--24160407 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
24160347 AATATTTGTC
*
24160357 AAAAATTTTGGTATTTGATT
1 AAAAATTTTGGTA-TTCATT
* *
24160377 ACAAATTTTGATATTCATT
1 AAAAATTTTGGTATTCATT
24160396 AAAAATTTTGGT
1 AAAAATTTTGGT
24160408 CTCATGTTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (19 bp):
AAAAATTTTGGTATTCATT
Found at i:24161108 original size:18 final size:19
Alignment explanation
Indices: 24161078--24161135 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 19
24161068 TATAAAAACA
* *
24161078 TAAAAAAAT-ATTATAAAT
1 TAAAAGAATCATTAAAAAT
24161096 TAAAAG-ATCATTAAAAAT
1 TAAAAGAATCATTAAAAAT
* * *
24161114 TATAAGAATTATTAGAAAT
1 TAAAAGAATCATTAAAAAT
24161133 TAA
1 TAA
24161136 TTAAAAACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 2 0.06
18 18 0.56
19 12 0.38
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAAAGAATCATTAAAAAT
Found at i:24161498 original size:15 final size:16
Alignment explanation
Indices: 24161475--24161507 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24161465 TATATTTTTT
24161475 ATAAAA-TTTTATAAA
1 ATAAAATTTTTATAAA
*
24161490 ATAATATTTTTATAAA
1 ATAAAATTTTTATAAA
24161506 AT
1 AT
24161508 TTTATGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAAAATTTTTATAAA
Found at i:24161499 original size:26 final size:26
Alignment explanation
Indices: 24161461--24161512 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
24161451 GAAAATGAAA
24161461 AAAATATATTTTTTATAAAATTTTAT
1 AAAATATATTTTTTATAAAATTTTAT
24161487 AAAATA-ATATTTTTATAAAATTTTAT
1 AAAATATAT-TTTTTATAAAATTTTAT
24161513 GGTTTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
AAAATATATTTTTTATAAAATTTTAT
Found at i:24161671 original size:20 final size:20
Alignment explanation
Indices: 24161648--24161686 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24161638 AGTTTAATGA
*
24161648 TTTTTTATAATTTTTATAAG
1 TTTTTCATAATTTTTATAAG
**
24161668 TTTTTCATGTTTTTTATAA
1 TTTTTCATAATTTTTATAA
24161687 TTCCAAAATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTTCATAATTTTTATAAG
Found at i:24164189 original size:27 final size:27
Alignment explanation
Indices: 24164151--24164204 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
24164141 AAACGACTTG
*
24164151 CTATATTTTGAAAGATGTGCCAACTAA
1 CTATATTTTGAAAGATGGGCCAACTAA
*
24164178 CTATATTTTGAAGGATGGGCCAACTAA
1 CTATATTTTGAAAGATGGGCCAACTAA
24164205 GGCAGCATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (27 bp):
CTATATTTTGAAAGATGGGCCAACTAA
Found at i:24169984 original size:16 final size:16
Alignment explanation
Indices: 24169963--24169994 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24169953 GTTTTGTTGC
*
24169963 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
24169979 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
24169995 CTTCCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:24170283 original size:51 final size:52
Alignment explanation
Indices: 24170225--24170412 Score: 194
Period size: 51 Copynumber: 3.7 Consensus size: 52
24170215 GTTCACATAT
*
24170225 TAGCCTGCACATAGTACTACACATC-TGACCATCACTATTCGATACACGTAG
1 TAGCCTGCACATAGTACTACACATCGTGACCATCACTATTCGGTACACGTAG
* ** * * * *
24170276 TAGCCTGCACATAGTACTACA-AACGTGATTGAAC-CTATCCGGTACGCATAG
1 TAGCCTGCACATAGTACTACACATCGTGA-CCATCACTATTCGGTACACGTAG
* *
24170327 TAGCCTGCACATAGTATTACACAT-GCGACC-T-A-TAATTCTGGTACACGTAG
1 TAGCCTGCACATAGTACTACACATCGTGACCATCACT-ATTC-GGTACACGTAG
*
24170377 TAGCTTGCACATAGTACTACACA-CGTGACCATCACT
1 TAGCCTGCACATAGTACTACACATCGTGACCATCACT
24170413 TTCACTTTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 37 0.35
51 61 0.57
52 4 0.04
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (52 bp):
TAGCCTGCACATAGTACTACACATCGTGACCATCACTATTCGGTACACGTAG
Found at i:24170389 original size:101 final size:101
Alignment explanation
Indices: 24170220--24170404 Score: 268
Period size: 101 Copynumber: 1.8 Consensus size: 101
24170210 TACCGGTTCA
*
24170220 CATATTAGCCTGCACATAGTACTACACATCTGACCATCACTATTCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATCTGACCATCAC-ATTCGATACACGTAGTAGCCTGCA
24170285 CATAGTACTACAAACGTGATTGAACCTATCCGGTACG
65 CATAGTACTACAAACGTGATTGAACCTATCCGGTACG
* * *
24170322 CATAGTAGCCTGCACATAGTATTACACATGC-GACCTAT-A-ATTCTGGTACACGTAGTAGCTTG
1 CATAGTAGCCTGCACATAGTACTACACAT-CTGACC-ATCACATTC-GATACACGTAGTAGCCTG
*
24170384 CACATAGTACTACACACGTGA
63 CACATAGTACTACAAACGTGA
24170405 CCATCACTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
100 4 0.05
101 36 0.48
102 32 0.43
103 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATCTGACCATCACATTCGATACACGTAGTAGCCTGCAC
ATAGTACTACAAACGTGATTGAACCTATCCGGTACG
Found at i:24170428 original size:101 final size:101
Alignment explanation
Indices: 24170212--24170404 Score: 248
Period size: 102 Copynumber: 1.9 Consensus size: 101
24170202 ATTAACGATA
*
24170212 CCGGTTCACATATTAGCCTGCACATAGTACTACACATCTGACCATCACTATTCGATACACGTAGT
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATCTGACCATCAC-ATTCGATACACGTAGT
**
24170277 AGCCTGCACATAGTACTACAAACGTGATTGAACCTAT
65 AGCCTGCACATAGTACTACAAACGTGATCCAACCTAT
* * * *
24170314 CCGGTACGCATAGTAGCCTGCACATAGTATTACACATGC-GACCTAT-A-ATTCTGGTACACGTA
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACAT-CTGACC-ATCACATTC-GATACACGTA
* *
24170376 GTAGCTTGCACATAGTACTACACACGTGA
63 GTAGCCTGCACATAGTACTACAAACGTGA
24170405 CCATCACTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
100 4 0.05
101 36 0.44
102 38 0.47
103 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
CCGGTTCACATAGTAGCCTGCACATAGTACTACACATCTGACCATCACATTCGATACACGTAGTA
GCCTGCACATAGTACTACAAACGTGATCCAACCTAT
Found at i:24172337 original size:7 final size:7
Alignment explanation
Indices: 24172322--24172363 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
24172312 ACACAACATA
*
24172322 TTTACGG
1 TTTAGGG
24172329 TTTAGGG
1 TTTAGGG
*
24172336 TTTAGGT
1 TTTAGGG
24172343 TTTAGGG
1 TTTAGGG
24172350 TTTAGGG
1 TTTAGGG
24172357 TTTAGGG
1 TTTAGGG
24172364 ATTACACACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.14, C:0.02, G:0.38, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:24172351 original size:21 final size:21
Alignment explanation
Indices: 24172322--24172362 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
24172312 ACACAACATA
24172322 TTTACGGTTTAGGGTTTAGGT
1 TTTACGGTTTAGGGTTTAGGT
*
24172343 TTTAGGGTTTAGGGTTTAGG
1 TTTACGGTTTAGGGTTTAGG
24172363 GATTACACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.02, G:0.37, T:0.46
Consensus pattern (21 bp):
TTTACGGTTTAGGGTTTAGGT
Found at i:24173499 original size:3 final size:3
Alignment explanation
Indices: 24173491--24173520 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24173481 CATTTCAACG
24173491 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24173521 TTCACCTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24177872 original size:27 final size:27
Alignment explanation
Indices: 24177832--24178010 Score: 91
Period size: 27 Copynumber: 6.6 Consensus size: 27
24177822 ATGACCAAAA
* *
24177832 ACCCCCATAGGGTAAAATGA-CTGTAAT
1 ACCCCTATAAGGTAAAATGATC-GTAAT
* *
24177859 GCCCCTGTAAGGTAAAATGATCGTAAT
1 ACCCCTATAAGGTAAAATGATCGTAAT
* * *** *
24177886 ACCCCTATAGGGTACAATGATAAAAAAA
1 ACCCCTATAAGGTAAAATGAT-CGTAAT
* *
24177914 ACTCCC-ATAGGGTAAAATGACCGTAAT
1 AC-CCCTATAAGGTAAAATGATCGTAAT
* * *
24177941 GCCCCTATAGGGTAAAATGA-CTATAAT
1 ACCCCTATAAGGTAAAATGATC-GTAAT
* * *
24177968 A-CCCTCAT-AGGTTTAAATGACCGAAAT
1 ACCCCT-ATAAGG-TAAAATGATCGTAAT
24177995 ACCCCTA-AAGGGTAAA
1 ACCCCTATAA-GGTAAA
24178011 TGACTATTTT
Statistics
Matches: 115, Mismatches: 26, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
26 10 0.09
27 77 0.67
28 25 0.22
29 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (27 bp):
ACCCCTATAAGGTAAAATGATCGTAAT
Found at i:24177899 original size:54 final size:52
Alignment explanation
Indices: 24177818--24178017 Score: 163
Period size: 54 Copynumber: 3.8 Consensus size: 52
24177808 TTAAAATAAA
* * * *
24177818 TAAAATGACC-AAAAACCCCCATAGGGTAAAATGACTGTAATGCCCCTGTAAGG
1 TAAAATGACCGTAATACCCCTATAGGGTAAAATGACTATAAT-CCCCT-TAAGG
* * * * * *
24177871 TAAAATGATCGTAATACCCCTATAGGGTACAATGA-TAAAAAAAACTCCCATAGGG
1 TAAAATGACCGTAATACCCCTATAGGGTAAAATGACT---ATAATC-CCCTTAAGG
* * *
24177926 TAAAATGACCGTAATGCCCCTATAGGGTAAAATGACTATAATACCCTCATAGG
1 TAAAATGACCGTAATACCCCTATAGGGTAAAATGACTATAATCCCCTTA-AGG
* * *
24177979 TTTAAATGACCGAAATACCCCTAAAGGGT-AAATGACTAT
1 -TAAAATGACCGTAATACCCCTATAGGGTAAAATGACTAT
24178018 TTTGCCTTTC
Statistics
Matches: 116, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
52 4 0.03
53 25 0.22
54 44 0.38
55 37 0.32
56 6 0.05
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.23
Consensus pattern (52 bp):
TAAAATGACCGTAATACCCCTATAGGGTAAAATGACTATAATCCCCTTAAGG
Found at i:24178101 original size:24 final size:24
Alignment explanation
Indices: 24178033--24178129 Score: 104
Period size: 24 Copynumber: 4.0 Consensus size: 24
24178023 CTTTCGAGTG
* *
24178033 TAAATGATTGATTTGTCCGTGATG
1 TAAATGATTGATTTGTCTGTGATT
* *
24178057 TAAAAGACTGATTTGTCTGTGATT
1 TAAATGATTGATTTGTCTGTGATT
*
24178081 TAAATGATTGATTTGTTTGTGATT
1 TAAATGATTGATTTGTCTGTGATT
*** * *
24178105 GGTATGACTAATTTGTCTGTGATT
1 TAAATGATTGATTTGTCTGTGATT
24178129 T
1 T
24178130 GTATGACTAA
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.25, C:0.06, G:0.23, T:0.46
Consensus pattern (24 bp):
TAAATGATTGATTTGTCTGTGATT
Found at i:24178103 original size:48 final size:48
Alignment explanation
Indices: 24178033--24178129 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 48
24178023 CTTTCGAGTG
*
24178033 TAAATGATTGATTTGTCCGTGA-T-GTAAAAGACTGATTTGTCTGTGATT
1 TAAATGATTGATTTGTCCGTGATTGGT--AAGACTAATTTGTCTGTGATT
** *
24178081 TAAATGATTGATTTGTTTGTGATTGGTATGACTAATTTGTCTGTGATT
1 TAAATGATTGATTTGTCCGTGATTGGTAAGACTAATTTGTCTGTGATT
24178129 T
1 T
24178130 GTATGACTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 40 0.93
49 1 0.02
50 2 0.05
ACGTcount: A:0.25, C:0.06, G:0.23, T:0.46
Consensus pattern (48 bp):
TAAATGATTGATTTGTCCGTGATTGGTAAGACTAATTTGTCTGTGATT
Found at i:24178133 original size:24 final size:24
Alignment explanation
Indices: 24178062--24178141 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
24178052 TGATGTAAAA
* **
24178062 GACTGATTTGTCTGTGATTTAAAT
1 GACTAATTTGTCTGTGATTTGTAT
* * * *
24178086 GATTGATTTGTTTGTGATTGGTAT
1 GACTAATTTGTCTGTGATTTGTAT
24178110 GACTAATTTGTCTGTGATTTGTAT
1 GACTAATTTGTCTGTGATTTGTAT
24178134 GACTAATT
1 GACTAATT
24178142 CTAAGCAAGG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.49
Consensus pattern (24 bp):
GACTAATTTGTCTGTGATTTGTAT
Found at i:24178286 original size:26 final size:26
Alignment explanation
Indices: 24178257--24178314 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
24178247 TTGGCCACAT
*
24178257 ATACTATTACGGGCACCTTTGCTGTG
1 ATACTATTACGGGCACCTTTGCTGCG
* * * **
24178283 ATACTGTTGCTGGCAGTTTTGCTGCG
1 ATACTATTACGGGCACCTTTGCTGCG
24178309 ATACTA
1 ATACTA
24178315 CTGATGGCTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (26 bp):
ATACTATTACGGGCACCTTTGCTGCG
Found at i:24178418 original size:26 final size:26
Alignment explanation
Indices: 24178365--24178424 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
24178355 TTGGCCACAT
* * *
24178365 ATACTATTACGGGCAGTTTTGTTGCG
1 ATACTATTACGGGCAGCTTTGCTACG
* *
24178391 ATACTTTTACTGGCAGCTTTGCTACG
1 ATACTATTACGGGCAGCTTTGCTACG
*
24178417 ATGCTATT
1 ATACTATT
24178425 GATGGCTCTG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (26 bp):
ATACTATTACGGGCAGCTTTGCTACG
Found at i:24178428 original size:108 final size:108
Alignment explanation
Indices: 24178235--24178457 Score: 320
Period size: 108 Copynumber: 2.1 Consensus size: 108
24178225 CACAATCGCT
* * *
24178235 GTTACTGGAGGCTTGGCCACATATACTATTACGGGCACCTTTGCTGTGATACTGTTGCTGGCAGT
1 GTTACTGGAGGCTTGGCCACATATACTATTACGGGCACCTTTGCTGCGATACTGTTACTGGCAGC
* * *
24178300 TTTGCTGCGATACTACTGATGGCTTTGTGCCGGTCATAATACC
66 TTTGCTACGATACTACTGATGGCTCTGTGCCGATCATAATACC
* ** * *
24178343 GTTACTGGTGGCTTGGCCACATATACTATTACGGGCAGTTTTGTTGCGATACTTTTACTGGCAGC
1 GTTACTGGAGGCTTGGCCACATATACTATTACGGGCACCTTTGCTGCGATACTGTTACTGGCAGC
* *
24178408 TTTGCTACGATGCTATTGATGGCTCTGTGCCGATCATAATACC
66 TTTGCTACGATACTACTGATGGCTCTGTGCCGATCATAATACC
*
24178451 ATTACTG
1 GTTACTG
24178458 ATGGTTGTGT
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 101 1.00
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.35
Consensus pattern (108 bp):
GTTACTGGAGGCTTGGCCACATATACTATTACGGGCACCTTTGCTGCGATACTGTTACTGGCAGC
TTTGCTACGATACTACTGATGGCTCTGTGCCGATCATAATACC
Found at i:24178509 original size:32 final size:31
Alignment explanation
Indices: 24178418--24178515 Score: 90
Period size: 32 Copynumber: 3.1 Consensus size: 31
24178408 TTTGCTACGA
* *
24178418 TGCTATTGATGGCTCTGTGCCGATCATAATAC
1 TGCTACTGATGGCTTTGTGCCGATCAT-ATAC
*** *
24178450 CATTACTGATGG-TTGTGTGCCGGTCATATCAC
1 TGCTACTGATGGCTT-TGTGCCGATCATAT-AC
*
24178482 TGCTACTGATGGCTTTGTGCCAATCATATTAC
1 TGCTACTGATGGCTTTGTGCCGATCATA-TAC
24178514 TG
1 TG
24178516 TATTTATGAC
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
31 3 0.06
32 45 0.88
33 3 0.06
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (31 bp):
TGCTACTGATGGCTTTGTGCCGATCATATAC
Found at i:24181672 original size:27 final size:27
Alignment explanation
Indices: 24181637--24181863 Score: 158
Period size: 27 Copynumber: 8.4 Consensus size: 27
24181627 CCCCAAAATA
* *
24181637 GGTATAATGACTGAAAAACCCCTATAG
1 GGTAAAATGACTGAAATACCCCTATAG
* * *
24181664 GGTAAAATGA-TCGTAATGCCCCTATAA
1 GGTAAAATGACT-GAAATACCCCTATAG
* * * * *
24181691 TGTAAAATGTCCGTAATACCCCTGTAG
1 GGTAAAATGACTGAAATACCCCTATAG
* *
24181718 GGTAAAATGACCGAAA-ACCCCCCATAG
1 GGTAAAATGACTGAAATA-CCCCTATAG
* *
24181745 GGTAAAATGACTGTAATACCTCTATAG
1 GGTAAAATGACTGAAATACCCCTATAG
* *
24181772 GGTAAAAT-AATCGCAATA-CCCTCATAG
1 GGTAAAATGACT-GAAATACCCCT-ATAG
* * * *
24181799 GGTTAAATGACTAAAATACCCCTGTAA
1 GGTAAAATGACTGAAATACCCCTATAG
* * * *
24181826 GGTAAAATGACCGTAATGCCCCTAGAG
1 GGTAAAATGACTGAAATACCCCTATAG
*
24181853 TGT-AAATGACT
1 GGTAAAATGACT
24181864 ATTTTGCTTA
Statistics
Matches: 153, Mismatches: 39, Indels: 17
0.73 0.19 0.08
Matches are distributed among these distances:
26 14 0.09
27 132 0.86
28 7 0.05
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCCTATAG
Found at i:24181750 original size:54 final size:53
Alignment explanation
Indices: 24181637--24181838 Score: 179
Period size: 54 Copynumber: 3.8 Consensus size: 53
24181627 CCCCAAAATA
* * * * ** * *
24181637 GGTATAATGACTGAAAAACCCCTATAGGGTAAAATGATCGTAATGCCCCTATAA
1 GGTAAAATGACTGTAATACCCCTATAGGGTAAAATGACCG-AAAACCCCCATAG
* * * *
24181691 TGTAAAATGTCCGTAATACCCCTGTAGGGTAAAATGACCGAAAACCCCCCATAG
1 GGTAAAATGACTGTAATACCCCTATAGGGTAAAATGACCGAAAA-CCCCCATAG
* * * * *
24181745 GGTAAAATGACTGTAATACCTCTATAGGGTAAAATAATCGCAATACCCTCATAG
1 GGTAAAATGACTGTAATACCCCTATAGGGTAAAATGACCG-AAAACCCCCATAG
* ** * *
24181799 GGTTAAATGACTAAAATACCCCTGTAAGGTAAAATGACCG
1 GGTAAAATGACTGTAATACCCCTATAGGGTAAAATGACCG
24181839 TAATGCCCCT
Statistics
Matches: 117, Mismatches: 29, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
53 2 0.02
54 112 0.96
55 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (53 bp):
GGTAAAATGACTGTAATACCCCTATAGGGTAAAATGACCGAAAACCCCCATAG
Found at i:24181858 original size:81 final size:80
Alignment explanation
Indices: 24181637--24181858 Score: 232
Period size: 81 Copynumber: 2.7 Consensus size: 80
24181627 CCCCAAAATA
* * * *
24181637 GGTATAATGACTGAAAAACCCCTATAGGGTAAAATGATCGTAATGCCCCTATAATGTAAAATGTC
1 GGTAAAATGACT-AAAAACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGTGTAAAATATC
* *
24181702 CGTAATACCCCTGTAG
65 CGCAATACCCCTATAG
* * * * * * *
24181718 GGTAAAATGACCGAAAACCCCCCATAGGGTAAAATGACTGTAATACCTCTATAGGGTAAAATAAT
1 GGTAAAATGA-CTAAAAACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGTGTAAAAT-AT
24181783 -CGCAATA-CCCTCATAG
64 CCGCAATACCCCT-ATAG
* * * *
24181799 GGTTAAATGACTAAAATACCCCTGTAAGGTAAAATGACCGTAATGCCCCTAGAGTGTAAA
1 GGTAAAATGACTAAAA-ACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGTGTAAA
24181859 TGACTATTTT
Statistics
Matches: 113, Mismatches: 24, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
80 9 0.08
81 102 0.90
82 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (80 bp):
GGTAAAATGACTAAAAACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGTGTAAAATATCC
GCAATACCCCTATAG
Found at i:24181895 original size:26 final size:25
Alignment explanation
Indices: 24181850--24181920 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 25
24181840 AATGCCCCTA
*
24181850 GAGTGTAAATGACT-ATTT-TGCTTAT
1 GAGTGTAAATGATTGATTTGT-C-TAT
*
24181875 CGAGTGTAAATGATTGATTTGTCTGT
1 -GAGTGTAAATGATTGATTTGTCTAT
*
24181901 GA-TGTAAAAGATTGATTTGT
1 GAGTGTAAATGATTGATTTGT
24181921 ATGTGATTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 17 0.43
25 2 0.05
26 15 0.38
27 5 0.12
28 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (25 bp):
GAGTGTAAATGATTGATTTGTCTAT
Found at i:24181940 original size:24 final size:24
Alignment explanation
Indices: 24181913--24181990 Score: 111
Period size: 24 Copynumber: 3.2 Consensus size: 24
24181903 TGTAAAAGAT
*
24181913 TGATTTGTATGTGATTGGTATAAC
1 TGATTTGTATGTGATTGGTATGAC
* *
24181937 TGATTTGTCTGTAATTGGTATGAC
1 TGATTTGTATGTGATTGGTATGAC
* *
24181961 TAATTTGTATGTGATTTGTATGAC
1 TGATTTGTATGTGATTGGTATGAC
24181985 TGATTT
1 TGATTT
24181991 TGAGCAAGGC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (24 bp):
TGATTTGTATGTGATTGGTATGAC
Found at i:24181941 original size:28 final size:24
Alignment explanation
Indices: 24181879--24181927 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
24181869 GCTTATCGAG
*
24181879 TGTAAATGATTGATTTGTCTGTGA
1 TGTAAATGATTGATTTGTATGTGA
*
24181903 TGTAAAAGATTGATTTGTATGTGA
1 TGTAAATGATTGATTTGTATGTGA
24181927 T
1 T
24181928 TGGTATAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (24 bp):
TGTAAATGATTGATTTGTATGTGA
Found at i:24181979 original size:11 final size:11
Alignment explanation
Indices: 24181913--24181982 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
24181903 TGTAAAAGAT
24181913 TGATTTGTATG
1 TGATTTGTATG
* *
24181924 TGATTGGTATAAC
1 TGATTTGTAT--G
*
24181937 TGATTTGTCTG
1 TGATTTGTATG
* *
24181948 TAATTGGTATG
1 TGATTTGTATG
*
24181959 ACTAATTTGTATG
1 --TGATTTGTATG
24181972 TGATTTGTATG
1 TGATTTGTATG
24181983 ACTGATTTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
11 27 0.60
13 18 0.40
ACGTcount: A:0.23, C:0.04, G:0.24, T:0.49
Consensus pattern (11 bp):
TGATTTGTATG
Found at i:24182336 original size:140 final size:140
Alignment explanation
Indices: 24182092--24182358 Score: 385
Period size: 140 Copynumber: 1.9 Consensus size: 140
24182082 TATTATTGGA
* * *
24182092 GGCTTGGCCACATATACTATTACGGGCACCTTTGCGTTGATACTGTTGCCGGCAGCTTTGCTGCG
1 GGCTTGGCCACATATACTATTACGGGCACCTTTGCGTCGATACTGTTGCCGGCAGCTTTACTGCA
* *
24182157 ATGCTACTGATGGCGTTGTGCTAGTCATATTACCATTACTAATAGCTT-TGTGCCGATCATATTA
66 ATGCTACTGATGGCGTTGTGCCAGTCATAATACCATTACTAAT-GCTTGTGTGCCGATCATATTA
24182221 CCGTTACTGGT
130 CCGTTACTGGT
* *
24182232 GGCTTGGCCACATATACTATTACGGGCAGCTTTGC-TACGATACTGTTGCTGGCAGCTTTACTGC
1 GGCTTGGCCACATATACTATTACGGGCACCTTTGCGT-CGATACTGTTGCCGGCAGCTTTACTGC
* * * * * *
24182296 AATGCTTCTGATGGCTTTGTGCCGGTCATAATACCGTTACTGATGGTTGTGTGCCGATCATAT
65 AATGCTACTGATGGCGTTGTGCCAGTCATAATACCATTACTAATGCTTGTGTGCCGATCATAT
24182359 CACTGCTATT
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
139 4 0.04
140 108 0.96
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (140 bp):
GGCTTGGCCACATATACTATTACGGGCACCTTTGCGTCGATACTGTTGCCGGCAGCTTTACTGCA
ATGCTACTGATGGCGTTGTGCCAGTCATAATACCATTACTAATGCTTGTGTGCCGATCATATTAC
CGTTACTGGT
Found at i:24188540 original size:47 final size:47
Alignment explanation
Indices: 24188471--24188562 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
24188461 GTCTTCAAAC
24188471 AATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATTAAAT
1 AATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATTAAAT
24188518 AATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATTAA
1 AATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATTAA
24188563 CACTACAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (47 bp):
AATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATTAAAT
Found at i:24193646 original size:58 final size:57
Alignment explanation
Indices: 24193514--24193648 Score: 182
Period size: 58 Copynumber: 2.3 Consensus size: 57
24193504 TTTAATTCAT
* * *
24193514 ATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTTAATTATATTTA
1 ATAATAATTATATTAA-AATATGATTAAATTATATATTATTTTATTAAATTATATTTA
* * *
24193572 ATAATAATTATGTTAAAATATGATTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGATTAAATTATATATTA-TTTTATTAAATTATATTTA
24193630 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
24193649 TTAATAACAA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
57 19 0.28
58 48 0.71
59 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:24193939 original size:20 final size:20
Alignment explanation
Indices: 24193909--24193950 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
24193899 AAGTCCTTTT
24193909 AAAATATAAAAATTAT-TAA
1 AAAATATAAAAATTATATAA
24193928 AAAATCATAAAAATTATATAA
1 AAAAT-ATAAAAATTATATAA
24193949 AA
1 AA
24193951 GTTTACAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 11 0.52
21 5 0.24
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATATAAAAATTATATAA
Found at i:24204239 original size:25 final size:24
Alignment explanation
Indices: 24204205--24204261 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 24
24204195 TTTTTCTACC
24204205 TTTTTGTTTGCTTTGCCATGTCCT
1 TTTTTGTTTGCTTTGCCATGTCCT
*
24204229 TTTTTGGTTTGCTTTGCCATGTCCG
1 TTTTT-GTTTGCTTTGCCATGTCCT
*
24204254 TTTATGTT
1 TTTTTGTT
24204262 GTGTTTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.05, C:0.18, G:0.19, T:0.58
Consensus pattern (24 bp):
TTTTTGTTTGCTTTGCCATGTCCT
Found at i:24209960 original size:15 final size:16
Alignment explanation
Indices: 24209935--24209964 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24209925 AAAAACACAT
24209935 TTTTTTCTTTTCTTTC
1 TTTTTTCTTTTCTTTC
24209951 TTTTTT-TTTTCTTT
1 TTTTTTCTTTTCTTT
24209965 TTTGGGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTCTTTTCTTTC
Found at i:24211043 original size:4 final size:4
Alignment explanation
Indices: 24211029--24211070 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
24211019 TATAGGTATC
* * *
24211029 TAAA AAAA TAAA TAAA TACA TAAA TAAA TAAA TACA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
24211071 CAAAATATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:24211055 original size:16 final size:16
Alignment explanation
Indices: 24211034--24211070 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
24211024 GTATCTAAAA
24211034 AAATAAATAAATACAT
1 AAATAAATAAATACAT
24211050 AAATAAATAAATACAT
1 AAATAAATAAATACAT
24211066 AAATA
1 AAATA
24211071 CAAAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAAATAAATACAT
Found at i:24211071 original size:8 final size:8
Alignment explanation
Indices: 24211034--24211077 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
24211024 GTATCTAAAA
*
24211034 AAATAAAT
1 AAATACAT
24211042 AAATACAT
1 AAATACAT
*
24211050 AAATAAAT
1 AAATACAT
24211058 AAATACAT
1 AAATACAT
24211066 AAATACA-
1 AAATACAT
24211073 AAATA
1 AAATA
24211078 TAAGTAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
7 5 0.15
8 28 0.85
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (8 bp):
AAATACAT
Found at i:24211124 original size:12 final size:12
Alignment explanation
Indices: 24211107--24211131 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24211097 AATTATGAAA
24211107 ATATGTATATAT
1 ATATGTATATAT
24211119 ATATGTATATAT
1 ATATGTATATAT
24211131 A
1 A
24211132 AGAAAAATAC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:24211245 original size:16 final size:16
Alignment explanation
Indices: 24211210--24211259 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
24211200 ATGTATAAAC
*
24211210 ATAT-ATAAATTATAA
1 ATATGATAAAATATAA
24211225 CATATGA-AAACATATAA
1 -ATATGATAAA-ATATAA
*
24211242 ATATTATAAAATATAA
1 ATATGATAAAATATAA
24211258 AT
1 AT
24211260 GTATATATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 20 0.69
17 9 0.31
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (16 bp):
ATATGATAAAATATAA
Found at i:24211247 original size:26 final size:26
Alignment explanation
Indices: 24211181--24211255 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
24211171 GTGTATGTAT
* *
24211181 ATATATATATTATAAAAAAATGTATAAAC
1 ATATATAAATTAT-AAAATATG-A-AAAC
*
24211210 ATATATAAATTATAACATATGAAAAC
1 ATATATAAATTATAAAATATGAAAAC
24211236 ATATA-AATATTATAAAATAT
1 ATATATAA-ATTATAAAATAT
24211256 AAATGTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.05
26 20 0.49
27 1 0.02
28 6 0.15
29 12 0.29
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.35
Consensus pattern (26 bp):
ATATATAAATTATAAAATATGAAAAC
Done.