Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 218 of 255
Found at i:72746745 original size:34 final size:33
Alignment explanation
Indices: 72746698--72746819 Score: 131
Period size: 33 Copynumber: 3.7 Consensus size: 33
72746688 TTTTTTAAGA
* *
72746698 AAAATT-TTGTGTTTCAAAAAAATGTCTTGTTTT
1 AAAATTCTCGTGTTTC-AAAAAATGTCGTGTTTT
72746731 AAAATTCTCGTGTTTCAAAAAATGTCGTGTTTT
1 AAAATTCTCGTGTTTCAAAAAATGTCGTGTTTT
* ** * *
72746764 AAAAATTTTCGTGTTTC-TGAAATTTCCGTGTTTA
1 -AAAATTCTCGTGTTTCAAAAAATGT-CGTGTTTT
*
72746798 AAAATTCTCGTGTTTTAAAAAA
1 AAAATTCTCGTGTTTCAAAAAA
72746820 AAACTTTCAT
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
33 41 0.55
34 33 0.45
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (33 bp):
AAAATTCTCGTGTTTCAAAAAATGTCGTGTTTT
Found at i:72746833 original size:20 final size:20
Alignment explanation
Indices: 72746810--72746847 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
72746800 AATTCTCGTG
72746810 TTTTAAAAAAAAACTTTCAT
1 TTTTAAAAAAAAACTTTCAT
*
72746830 TTTTAAAAAAAAATTTTC
1 TTTTAAAAAAAAACTTTC
72746848 GTGCTTCAAA
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:0.00, T:0.42
Consensus pattern (20 bp):
TTTTAAAAAAAAACTTTCAT
Found at i:72746858 original size:17 final size:17
Alignment explanation
Indices: 72746838--72746875 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
72746828 ATTTTTAAAA
*
72746838 AAAAATTTTCGTG-CTT
1 AAAAATTCTCGTGTCTT
*
72746854 CAAAATTCTCGTGTCTT
1 AAAAATTCTCGTGTCTT
72746871 AAAAA
1 AAAAA
72746876 AAGTTTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (17 bp):
AAAAATTCTCGTGTCTT
Found at i:72763134 original size:192 final size:192
Alignment explanation
Indices: 72762807--72763825 Score: 1923
Period size: 192 Copynumber: 5.3 Consensus size: 192
72762797 CTTTCCAAGG
72762807 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
72762872 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
72762937 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
72762999 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
72763064 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
* *
72763129 TTTATGTTTTAGATTGACTCATATTGCGAGAGGTGAGTTAAGCATTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
72763191 AAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
72763256 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
72763321 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
72763383 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
72763448 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
72763513 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
72763575 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
* *
72763640 TAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTA-TTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
72763704 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* ** * *
72763766 AAAAATCAACTCATATTGCGAGAAATGAATTGAGCCTCGGGGCACGTCGAGGTATTTTTA
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTA
72763826 GTTTATGTTT
Statistics
Matches: 811, Mismatches: 15, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
191 68 0.08
192 743 0.92
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.35
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:72763770 original size:123 final size:122
Alignment explanation
Indices: 72763644--72763961 Score: 521
Period size: 123 Copynumber: 2.6 Consensus size: 122
72763634 AATTTTTAAA
72763644 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTAGTTTAT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTAGTTTAT
72763709 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* *
72763766 AAAAATCAACTCATATTGCGAGAAATGAATTGAGCCTCGGGGCACG-TCGAGGTATTTTTAGTTT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT-GAGGTA-TTTTAGTTT
72763830 ATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
64 ATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* * ** *
72763889 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCAC--GCTGAGGTATTTT-AGTT
72763954 TATGTTTT
63 TATGTTTT
72763962 TTCAATCTAT
Statistics
Matches: 181, Mismatches: 9, Indels: 9
0.91 0.05 0.05
Matches are distributed among these distances:
121 1 0.01
122 50 0.28
123 107 0.59
124 4 0.02
125 18 0.10
126 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (122 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTAGTTTAT
GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:72763784 original size:54 final size:54
Alignment explanation
Indices: 72763720--72763925 Score: 160
Period size: 54 Copynumber: 3.5 Consensus size: 54
72763710 TTTTAAATTG
72763720 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
** * * ** ***
72763774 ACTCATATTGCGAGAAATGAATTGAGCCTCGGGGCACGTCGAGGTATTTTTAGTTTATGTTTTAA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---ATTTTT-GTTT-T-TCAAAA
**
72763839 ATTG
51 ATCA
72763843 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
* *
72763897 ACTCATATTGCAAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
72763926 CGGCTCACAT
Statistics
Matches: 113, Mismatches: 24, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
54 57 0.50
55 1 0.01
56 4 0.04
57 6 0.05
60 2 0.02
63 2 0.02
66 6 0.05
67 4 0.04
68 1 0.01
69 30 0.27
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (54 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
Found at i:72763965 original size:15 final size:16
Alignment explanation
Indices: 72763945--72763977 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
72763935 TGCTGAGGTA
*
72763945 TTTTCAATTTATG-TT
1 TTTTCAATCTATGCTT
72763960 TTTTCAATCTATGCTT
1 TTTTCAATCTATGCTT
72763976 TT
1 TT
72763978 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (16 bp):
TTTTCAATCTATGCTT
Found at i:72764141 original size:85 final size:88
Alignment explanation
Indices: 72763884--72764141 Score: 316
Period size: 90 Copynumber: 2.9 Consensus size: 88
72763874 TAATTTTTGT
*
72763884 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
* *
72763948 TCAATTTATGTTTTTTCAA-TCTATGC
64 TCAATTTCTGCTTTTT-AATTCTA-GC
* *
72763974 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
*
72764036 TCAATTTCTGCTTTACTAATTCTA-C
64 TCAATTTCTGCTTT-TTAATTCTAGC
* *
72764061 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
72764125 AAATTCTG-TTTTTAATT
66 AATTTCTGCTTTTTAATT
72764142 TCTGTTTTTT
Statistics
Matches: 149, Mismatches: 12, Indels: 19
0.83 0.07 0.11
Matches are distributed among these distances:
84 3 0.02
85 38 0.26
86 3 0.02
87 29 0.19
88 28 0.19
89 5 0.03
90 41 0.28
92 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGCTTTTTAATTCTAGC
Found at i:72764144 original size:13 final size:13
Alignment explanation
Indices: 72764128--72764168 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 13
72764118 TCTTTTCAAA
72764128 TTCTGTTTTTAAT
1 TTCTGTTTTTAAT
72764141 TTCTGTTTTTTTAAT
1 TTCTG--TTTTTAAT
72764156 TTCTGTGTTTTAA
1 TTCTGT-TTTTAA
72764169 AAAAAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.24
14 6 0.24
15 13 0.52
ACGTcount: A:0.15, C:0.07, G:0.10, T:0.68
Consensus pattern (13 bp):
TTCTGTTTTTAAT
Found at i:72764153 original size:15 final size:16
Alignment explanation
Indices: 72764133--72764166 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
72764123 TCAAATTCTG
72764133 TTTTTAATTTCTGT-T
1 TTTTTAATTTCTGTGT
72764148 TTTTTAATTTCTGTGT
1 TTTTTAATTTCTGTGT
72764164 TTT
1 TTT
72764167 AAAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTTTAATTTCTGTGT
Found at i:72764322 original size:54 final size:56
Alignment explanation
Indices: 72764238--72764457 Score: 321
Period size: 54 Copynumber: 4.1 Consensus size: 56
72764228 TCAATTTCTA
*
72764238 CTTTTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
72764293 CTTTT-AATTTCTATTTTTC-AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
72764347 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGTGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
72764398 CTTTTGCAAATTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
72764455 CTT
1 CTT
72764458 AGCTCACGTG
Statistics
Matches: 150, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
50 12 0.08
51 34 0.23
52 2 0.01
53 2 0.01
54 48 0.32
55 5 0.03
57 47 0.31
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (56 bp):
CTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:72764723 original size:13 final size:15
Alignment explanation
Indices: 72764699--72764732 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
72764689 TTTAATTTTC
72764699 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
72764713 AAAATTT-AAAAATA
1 AAAATTTCAAAAATA
72764727 AAAATT
1 AAAATT
72764733 ACATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:72764768 original size:30 final size:29
Alignment explanation
Indices: 72764728--72764847 Score: 104
Period size: 30 Copynumber: 4.1 Consensus size: 29
72764718 TTAAAAATAA
*
72764728 AAATTACATTTTGACCCTTAAATTTTTCCT
1 AAATTTCATTTTGACCCTTAAATTTTT-CT
72764758 AAATTTCATTTTGACCCTTAAACTTTCTT-T
1 AAATTTCATTTTGACCCTTAAA-TTT-TTCT
* * * *
72764788 AAATTTCACTTAGACCCCTAAA-CTTTCATT
1 AAATTTCATTTTGACCCTTAAATTTTTC--T
* *
72764818 AAATTTCATTTTAATCC-TAAA-TTTTCT
1 AAATTTCATTTTGACCCTTAAATTTTTCT
72764845 AAA
1 AAA
72764848 AATTACATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
27 6 0.08
28 1 0.01
29 8 0.11
30 55 0.73
31 3 0.04
32 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.45
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTTAAATTTTTCT
Found at i:72765120 original size:27 final size:27
Alignment explanation
Indices: 72765090--72765143 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
72765080 ATTTTTTCGA
72765090 AGGAAAAAAGAAGAAAAGAGAA-AGGAG
1 AGGAAAAAAGAA-AAAAGAGAAGAGGAG
* *
72765117 AGGAAGAAAGGAAAAAGAGAAGAGGAG
1 AGGAAAAAAGAAAAAAGAGAAGAGGAG
72765144 GAGTCGGCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (27 bp):
AGGAAAAAAGAAAAAAGAGAAGAGGAG
Found at i:72765136 original size:19 final size:20
Alignment explanation
Indices: 72765099--72765136 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
72765089 AAGGAAAAAA
*
72765099 GAAGAAAAGAGAAAGGAGAG
1 GAAGAAAAGAGAAAAGAGAG
*
72765119 GAAGAAAGGA-AAAAGAGA
1 GAAGAAAAGAGAAAAGAGA
72765137 AGAGGAGGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (20 bp):
GAAGAAAAGAGAAAAGAGAG
Found at i:72765225 original size:3 final size:3
Alignment explanation
Indices: 72765217--72765288 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
72765207 GCTAGACTTT
*
72765217 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAA -AA GAG GAA GAA GAAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA G-AA
*
72765264 GAAA GAA -AA -AA GAA AAA GAA -AA GAA
1 G-AA GAA GAA GAA GAA GAA GAA GAA GAA
72765289 ATAATAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:72765235 original size:10 final size:10
Alignment explanation
Indices: 72765220--72765248 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
72765210 AGACTTTGAA
72765220 GAAGAAGAAG
1 GAAGAAGAAG
72765230 GAAGAAGAAG
1 GAAGAAGAAG
72765240 GAAGAAGAA
1 GAAGAAGAA
72765249 AAGAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:72765235 original size:13 final size:13
Alignment explanation
Indices: 72765217--72765262 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
72765207 GCTAGACTTT
72765217 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
72765230 GAAGAAGAAGGAA-
1 GAAGAAGAA-GAAG
72765243 GAAGAA-AAG-AG
1 GAAGAAGAAGAAG
72765254 GAAGAAGAA
1 GAAGAAGAA
72765263 AGAAAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 4 0.13
13 15 0.50
14 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Found at i:72765584 original size:22 final size:21
Alignment explanation
Indices: 72765550--72765615 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 21
72765540 GGCCCAGCAG
72765550 AGAA-AAAAAAGAAAAGAAAA
1 AGAAGAAAAAAGAAAAGAAAA
*
72765570 AGAAG-AAAAAGAGAAGGAAAAA
1 AGAAGAAAAAAGA-AAAG-AAAA
72765592 AGAAGGAAAAAAGAAAA-AAAA
1 AGAA-GAAAAAAGAAAAGAAAA
72765613 AGA
1 AGA
72765616 GGTTCAATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 11 0.28
21 10 0.26
22 8 0.21
23 3 0.08
24 7 0.18
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (21 bp):
AGAAGAAAAAAGAAAAGAAAA
Found at i:72765989 original size:18 final size:18
Alignment explanation
Indices: 72765945--72766331 Score: 242
Period size: 17 Copynumber: 21.5 Consensus size: 18
72765935 TCAATAATCC
*
72765945 TCGTGCTTTT-AAAAATTC
1 TCGTG-TTTTCAAAAATTT
* *
72765963 TCATG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
*
72765980 TCGTGTTTTC-AAAATTC
1 TCGTGTTTTCAAAAATTT
*
72765997 TAGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
*
72766014 TCTTGTTTTCAGAAAAAATTT
1 TCGTGTTTTC---AAAAATTT
*
72766035 TCGTGTTTT-ATAAATTT
1 TCGTGTTTTCAAAAATTT
* * ***
72766052 CCGTATTTTCAAAAAAAA
1 TCGTGTTTTCAAAAATTT
*
72766070 TCATGTCTTTCAAAAATTT
1 TCGTGT-TTTCAAAAATTT
**
72766089 TCGTGTTTTCAAAAAAAATGA
1 TCGTGTTTTC---AAAAATTT
*
72766110 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *** *
72766127 CCGTGTTAAAAAAAATCT
1 TCGTGTTTTCAAAAATTT
*
72766145 TCGTATTTTCAAAAAATTT
1 TCGTGTTTTC-AAAAATTT
*
72766164 TCGTG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
72766181 TCGTGTTTTCAAAAA-TT
1 TCGTGTTTTCAAAAATTT
*
72766198 TCG-GTGTTTCAAATATTT
1 TCGTGT-TTTCAAAAATTT
*
72766216 TCGTGTTTTCAAAAA-CT
1 TCGTGTTTTCAAAAATTT
* * ***
72766233 CCGGTGATTTTAAAAAAAAA
1 TC-GTG-TTTTCAAAAATTT
* *
72766253 TCGT-TTTCTAAAAAAATT
1 TCGTGTTT-TCAAAAATTT
*
72766271 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
72766288 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
72766305 TCGTGTTTTTAAAAATTC
1 TCGTGTTTTCAAAAATTT
*
72766323 TCGTATTTT
1 TCGTGTTTT
72766332 AAATTTTTTT
Statistics
Matches: 285, Mismatches: 59, Indels: 50
0.72 0.15 0.13
Matches are distributed among these distances:
16 9 0.03
17 111 0.39
18 96 0.34
19 38 0.13
20 5 0.02
21 26 0.09
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:72765994 original size:34 final size:34
Alignment explanation
Indices: 72765933--72766024 Score: 114
Period size: 34 Copynumber: 2.7 Consensus size: 34
72765923 AAATTTGTAA
* * *
72765933 TTTCAATAATCCTCGTGCTTTTAAAAATTCTCA-TG
1 TTTCAAAAATCTTCGTG-TTTTCAAAATTCT-AGTG
72765968 TTTCAAAAATCTTCGTGTTTTCAAAATTCTAGTG
1 TTTCAAAAATCTTCGTGTTTTCAAAATTCTAGTG
* *
72766002 TTTCAAAAATTTTCTTGTTTTCA
1 TTTCAAAAATCTTCGTGTTTTCA
72766025 GAAAAAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
33 1 0.02
34 35 0.69
35 15 0.29
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (34 bp):
TTTCAAAAATCTTCGTGTTTTCAAAATTCTAGTG
Found at i:72766007 original size:16 final size:16
Alignment explanation
Indices: 72765956--72766009 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
72765946 CGTGCTTTTA
72765956 AAAATTCTCA-TGTTTC
1 AAAATTCT-AGTGTTTC
* *
72765972 AAAAATCTTCGTGTTTTC
1 AAAATTC-TAGTG-TTTC
72765990 AAAATTCTAGTGTTTC
1 AAAATTCTAGTGTTTC
72766006 AAAA
1 AAAA
72766010 ATTTTCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 14 0.45
17 7 0.23
18 10 0.32
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (16 bp):
AAAATTCTAGTGTTTC
Found at i:72766082 original size:19 final size:18
Alignment explanation
Indices: 72766057--72766107 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
72766047 AATTTCCGTA
72766057 TTTTCAAAAAAAATCATG
1 TTTTCAAAAAAAATCATG
*** *
72766075 TCTTTCAAAAATTTTCGTG
1 T-TTTCAAAAAAAATCATG
72766094 TTTTCAAAAAAAAT
1 TTTTCAAAAAAAAT
72766108 GACCGTGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (18 bp):
TTTTCAAAAAAAATCATG
Found at i:72766087 original size:37 final size:38
Alignment explanation
Indices: 72766046--72766130 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 38
72766036 CGTGTTTTAT
*
72766046 AAATTTCCGTATTTTCAAAAAAAATCA-TGTCTTTCAA
1 AAATTTCCGTATTTTCAAAAAAAATCACCGTCTTTCAA
* * * *
72766083 AAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAA
1 AAATTTCCGTATTTTCAAAAAAAATCACCGTCTTTCAA
72766121 AAATTTCCGT
1 AAATTTCCGT
72766131 GTTAAAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
37 24 0.59
38 17 0.41
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (38 bp):
AAATTTCCGTATTTTCAAAAAAAATCACCGTCTTTCAA
Found at i:72766098 original size:75 final size:73
Alignment explanation
Indices: 72766002--72766205 Score: 211
Period size: 75 Copynumber: 2.8 Consensus size: 73
72765992 AATTCTAGTG
* * * *
72766002 TTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAAAAA
1 TTTCAAAAATTTTCGTGTTTTCA-AAAAAATCTTCGTGTTTTAAAAATTTCCG--TGTT-AAAAA
72766067 AAATCAT-GT-C
62 AAATCATCGTAC
*** *
72766077 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAAAAAA
1 TTTCAAAAATTTTCGTGTTTTC-AAAAAAATCTTCGTGTTTTAAAAATTTCCGTGTTAAAAAAAA
* *
72766142 TCTTCGTAT
65 TCATCGTAC
*
72766151 TTTCAAAAAATTTTCGTG-TTTC--AAAAATCTTCGTGTTTTCAAAAATTTCGGTGTT
1 TTTC-AAAAATTTTCGTGTTTTCAAAAAAATCTTCGTGTTTT-AAAAATTTCCGTGTT
72766206 TCAAATATTT
Statistics
Matches: 110, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
71 13 0.12
72 25 0.23
73 5 0.05
74 8 0.07
75 58 0.53
76 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (73 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAATCTTCGTGTTTTAAAAATTTCCGTGTTAAAAAAAAT
CATCGTAC
Found at i:72766195 original size:54 final size:54
Alignment explanation
Indices: 72765968--72766319 Score: 235
Period size: 54 Copynumber: 6.5 Consensus size: 54
72765958 AATTCTCATG
* * * *
72765968 TTTCAAAAATCTTCGTGTTTTC--AAAA-TTCTAGTGTTTCAAAAATTTTCTTGT
1 TTTCAAAAATTTTCGTGTTTTCAAAAAATTTC-CGTGTTTCAAAAATCTTCGTGT
* * *** *
72766020 TTTCAGAAAAAATTTTCGTGTTTT--ATAAATTTCCGTATTTTCAAAAAAAATCATGT
1 TTTC---AAAAATTTTCGTGTTTTCAAAAAATTTCCGT-GTTTCAAAAATCTTCGTGT
**
72766076 CTTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAAT-TTCCGTGT
1 -TTTCAAAAATTTTCGTGTTTTC--AAAAAATTTCCGTGTTTCAAAAATCTT-CGTGT
*** * * *
72766133 TAAAAAAAATCTTCGTATTTTCAAAAAATTTTCGTGTTTCAAAAATCTTCGTGT
1 TTTCAAAAATTTTCGTGTTTTCAAAAAATTTCCGTGTTTCAAAAATCTTCGTGT
* * *
72766187 TTTCAAAAA-TTTCG-GTGTTTC-AAATATTTTCGTGTTTTCAAAAA-CTCCGGTGAT
1 TTTCAAAAATTTTCGTGT-TTTCAAAAAATTTCCGTG-TTTCAAAAATCTTC-GTG-T
* *** * *
72766241 TTTAAAAAAAAATC--GTTTTCTAAAAAAATTCCGTGTTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGTTTTC-AAAAAATTTCCGTGTTTCAAAAATCTTCGTGT
*
72766294 TTT-AAAAATTTTCGTGTTTTTAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAA
72766320 TTCTCGTATT
Statistics
Matches: 235, Mismatches: 42, Indels: 45
0.73 0.13 0.14
Matches are distributed among these distances:
52 27 0.11
53 33 0.14
54 77 0.33
55 37 0.16
56 35 0.15
57 17 0.07
58 9 0.04
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (54 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAATTTCCGTGTTTCAAAAATCTTCGTGT
Found at i:72766319 original size:35 final size:35
Alignment explanation
Indices: 72765945--72766419 Score: 201
Period size: 35 Copynumber: 13.4 Consensus size: 35
72765935 TCAATAATCC
* * * *
72765945 TCGTGCTTTT-AAAAATTCTCATGTTTCAAAAATCT
1 TCGTG-TTTTAAAAAATTTTCGTGTTTTAAAAATTT
* * * *
72765980 TCGTGTTTT-CAAAATTCTAGTGTTTCAAAAATTT
1 TCGTGTTTTAAAAAATTTTCGTGTTTTAAAAATTT
* *
72766014 TCTTGTTTTCAGAAAAAATTTTCGTGTTTTATAAATTT
1 TCGTGTTTT---AAAAAATTTTCGTGTTTTAAAAATTT
* * ** *
72766052 CCGTATTTTCAAAAAA-AATCATGTCTTTCAAAAATTT
1 TCGTGTTTT-AAAAAATTTTCGTGT-TTT-AAAAATTT
*** *
72766089 TCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTT
1 TCGTGTTTT---AAAAAATTTTCGTGTTTTAAAAATTT
* ** * *
72766127 CCGTGTTAAAAAAAATCTTCGTATTTTCAAAAAATTT
1 TCGTGTTTTAAAAAATTTTCGTGTTTT--AAAAATTT
* *
72766164 TCGTG-TTTCAAAAATCTTCGTGTTTTCAAAAA-TT
1 TCGTGTTTTAAAAAATTTTCGTGTTTT-AAAAATTT
* * *
72766198 TCG-GTGTTTCAAATATTTTCGTGTTTTCAAAAA-CT
1 TCGTGT-TTTAAAAAATTTTCGTGTTTT-AAAAATTT
* *** *
72766233 CCGGTGATTTTAAAAAAAAATCGT-TTTCTAAAAAAATT
1 TC-GTG-TTTTAAAAAATTTTCGTGTTT-T-AAAAATTT
* *
72766271 CCGTG-TTTCAAAAATTTTCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAAATTTTCGTGTTTTAAAAATTT
* * *
72766305 TCGTGTTTTTAAAAATTCTCGTATTTT--AAATTT
1 TCGTGTTTTAAAAAATTTTCGTGTTTTAAAAATTT
* ** * * *
72766338 T--T-TTTAAGAAAAAAATT-GTGTTTCAAAAAAAATG
1 TCGTGTTTTA-AAAAATTTTCGTGTTT--TAAAAATTT
* * *
72766372 TCTTGTTTT-AAAAATTTCCGTG-TTTAAAAATTC
1 TCGTGTTTTAAAAAATTTTCGTGTTTTAAAAATTT
72766405 TCGTGTTTTAAAAAA
1 TCGTGTTTTAAAAAA
72766420 AACTTTCATT
Statistics
Matches: 334, Mismatches: 76, Indels: 61
0.71 0.16 0.13
Matches are distributed among these distances:
30 8 0.02
31 7 0.02
33 22 0.07
34 59 0.18
35 94 0.28
36 37 0.11
37 50 0.15
38 44 0.13
39 8 0.02
40 5 0.01
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.43
Consensus pattern (35 bp):
TCGTGTTTTAAAAAATTTTCGTGTTTTAAAAATTT
Found at i:72766395 original size:17 final size:17
Alignment explanation
Indices: 72766375--72766418 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
72766365 AAAAATGTCT
72766375 TGTTTTAAAAATT-TCCG
1 TGTTTTAAAAATTCT-CG
72766392 TG-TTTAAAAATTCTCG
1 TGTTTTAAAAATTCTCG
72766408 TGTTTTAAAAA
1 TGTTTTAAAAA
72766419 AAACTTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (17 bp):
TGTTTTAAAAATTCTCG
Found at i:72766457 original size:20 final size:20
Alignment explanation
Indices: 72766397--72766449 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
72766387 TTCCGTGTTT
72766397 AAAAATTCTCGTGTTTTAAAA
1 AAAAATT-TCGTGTTTTAAAA
* * *
72766418 AAAACTTTCATTTTTTAAAA
1 AAAAATTTCGTGTTTTAAAA
72766438 AAAAATTTCGTG
1 AAAAATTTCGTG
72766450 CTTCAAAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (20 bp):
AAAAATTTCGTGTTTTAAAA
Found at i:72770441 original size:9 final size:9
Alignment explanation
Indices: 72770427--72770451 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
72770417 GAAATATTTA
72770427 TTTTAATAT
1 TTTTAATAT
72770436 TTTTAATAT
1 TTTTAATAT
72770445 TTTTAAT
1 TTTTAAT
72770452 GTATTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTAATAT
Found at i:72771116 original size:31 final size:30
Alignment explanation
Indices: 72771069--72771128 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
72771059 TATTTTTTTG
*
72771069 TTAATTTTCTTATTATTTTA-AAGACATTTA
1 TTAATTTTATTATTATTTTAGAA-ACATTTA
72771099 TTAATTTTTATTATTATTTTAGAAACATTT
1 TTAA-TTTTATTATTATTTTAGAAACATTT
72771129 GTTTATTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 21 0.78
32 2 0.07
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAGAAACATTTA
Found at i:72775203 original size:9 final size:9
Alignment explanation
Indices: 72775189--72775237 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
72775179 AACTTGAGAA
72775189 AATTAAGAG
1 AATTAAGAG
72775198 AATTAAGAG
1 AATTAAGAG
* *
72775207 AGTTGAGAG
1 AATTAAGAG
*
72775216 -ATTAGAAAG
1 AATTA-AGAG
72775225 AATTAAGAG
1 AATTAAGAG
72775234 AATT
1 AATT
72775238 GGATTTGAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
8 2 0.06
9 26 0.81
10 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (9 bp):
AATTAAGAG
Found at i:72775212 original size:27 final size:27
Alignment explanation
Indices: 72775182--72775234 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
72775172 AGAACAGAAC
*
72775182 TTGAGAAAATTA-AGAGAATTAAGAGAG
1 TTGAG-AAATTAGAAAGAATTAAGAGAG
*
72775209 TTGAGAGATTAGAAAGAATTAAGAGA
1 TTGAGAAATTAGAAAGAATTAAGAGA
72775235 ATTGGATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (27 bp):
TTGAGAAATTAGAAAGAATTAAGAGAG
Found at i:72783270 original size:28 final size:28
Alignment explanation
Indices: 72783237--72783301 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
72783227 TCAGTGCACG
*
72783237 AAATATTGAGAATGGCACATAATGTGCA
1 AAATATTGAGAATGACACATAATGTGCA
* * *
72783265 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACATAATGTGCA
72783293 AAATATTGA
1 AAATATTGA
72783302 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.28
Consensus pattern (28 bp):
AAATATTGAGAATGACACATAATGTGCA
Found at i:72783418 original size:39 final size:39
Alignment explanation
Indices: 72783374--72783635 Score: 418
Period size: 39 Copynumber: 6.7 Consensus size: 39
72783364 AACTTTATAA
72783374 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
72783413 TGGTGTTATATCCGGGCTAAGTCCCAAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
72783452 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
72783491 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
72783530 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTTGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
72783569 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
72783608 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
72783636 CATGCTTTGT
Statistics
Matches: 214, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
39 193 0.90
40 21 0.10
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.28
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:72784889 original size:16 final size:16
Alignment explanation
Indices: 72784851--72784896 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
72784841 AAAAAAATTG
*
72784851 ATGAAGAAAA-T-AAG
1 ATGAAGAAAAGTAAAA
*
72784865 ATAAAGAAAAGTAAAA
1 ATGAAGAAAAGTAAAA
*
72784881 ATGAAGAAATGTAAAA
1 ATGAAGAAAAGTAAAA
72784897 GGAAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 9 0.35
15 1 0.04
16 16 0.62
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.15
Consensus pattern (16 bp):
ATGAAGAAAAGTAAAA
Found at i:72796645 original size:47 final size:47
Alignment explanation
Indices: 72796578--72796732 Score: 148
Period size: 47 Copynumber: 3.1 Consensus size: 47
72796568 ATGAATCACT
* * * * *
72796578 TATCTCACTGATGTCATATCCCAAATATGGTCTTATACAGTAGCATA
1 TATCACACCGATGCCATATCCCAAATATGGTCTTATACAGAAGCACA
*
72796625 TATCACACCGATGCCATATCCCAAATATAGTCTTATACAGAAGCACA
1 TATCACACCGATGCCATATCCCAAATATGGTCTTATACAGAAGCACA
** * * *
72796672 TAATCACATCTCTCCGATGCCATAGGCCAACTATGGTCTTATACGGAAATCACA
1 T-ATCACA-----CCGATGCCATATCCCAAATATGGTCTTATACAG-AAGCACA
72796726 TATCACA
1 TATCACA
72796733 TGTTGCCATG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
47 42 0.47
48 6 0.07
53 34 0.38
54 7 0.08
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (47 bp):
TATCACACCGATGCCATATCCCAAATATGGTCTTATACAGAAGCACA
Found at i:72798668 original size:23 final size:23
Alignment explanation
Indices: 72798638--72798681 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
72798628 GACAATAAAC
72798638 TTTAGGATAAGACGTGTATTTAA
1 TTTAGGATAAGACGTGTATTTAA
* *
72798661 TTTAGGATAGGATGTGTATTT
1 TTTAGGATAAGACGTGTATTT
72798682 GGCATCCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (23 bp):
TTTAGGATAAGACGTGTATTTAA
Found at i:72803797 original size:11 final size:11
Alignment explanation
Indices: 72803783--72803828 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
72803773 TTTTTTCTCT
*
72803783 TTTTTCTATTA
1 TTTTACTATTA
72803794 TTTTACTATTA
1 TTTTACTATTA
* *
72803805 TGTTACTATAA
1 TTTTACTATTA
*
72803816 TTTTATTATTA
1 TTTTACTATTA
72803827 TT
1 TT
72803829 ATTTAGATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTTACTATTA
Found at i:72806890 original size:280 final size:280
Alignment explanation
Indices: 72806389--72806948 Score: 1021
Period size: 280 Copynumber: 2.0 Consensus size: 280
72806379 GTGGCTGACA
* * *
72806389 CCACTTTTTAAGATAAAAACTATTTTTTTAAGTATTGGTACACTCATGACCGACATTCATTTTAT
1 CCACTTTTTAAGATAAAAACTAATTTTTTAAGTATCGGTACACTCATGACCGACATCCATTTTAT
*
72806454 CAAATAAAAAAATTAAAAAAATTTACCGATAAATAAGCCTAAAACCGGCCATTAATTGAAGCCGA
66 CAAATAAAAAAATTAAAAAAATTCACCGATAAATAAGCCTAAAACCGGCCATTAATTGAAGCCGA
72806519 CCATCTATACACCAAGGCCTAAAGACCCGTCCCATCATTTCCTTTTTTTTAATTAAAATCTATTC
131 CCATCTATACACCAAGGCCTAAAGACCCGTCCCATCATTTCCTTTTTTTTAATTAAAATCTATTC
72806584 AATATAATTTAAATATGTTATCATTTCCCTTTATATAAATATATGTCATGTATTAAATGATGAGA
196 AATATAATTTAAATATGTTATCATTTCCCTTTATATAAATATATGTCATGTATTAAATGATGAGA
72806649 CGGGTCTTTAATATCATAAC
261 CGGGTCTTTAATATCATAAC
*
72806669 CCACTTTTTAAGATAAAAACTAATTTTTTAAGTGTCGGTACACTCATGACCGACATCCATTTTAT
1 CCACTTTTTAAGATAAAAACTAATTTTTTAAGTATCGGTACACTCATGACCGACATCCATTTTAT
* * * *
72806734 CAATTAAAAAAATTAAAAAAATTCACCGATAAATAGGCCTGAAACTGGCCATTAATTGAAGCCGA
66 CAAATAAAAAAATTAAAAAAATTCACCGATAAATAAGCCTAAAACCGGCCATTAATTGAAGCCGA
72806799 CCATCTATACACCAAGGCCTAAAGACCCGTCCCATCATTTCCTTTTTTTTAATTAAAATCTATTC
131 CCATCTATACACCAAGGCCTAAAGACCCGTCCCATCATTTCCTTTTTTTTAATTAAAATCTATTC
* *
72806864 AATATAATTTAAATATGTTATCATTTCCCTTTATATAAATATATGTCATTTATTAAATGATGGGA
196 AATATAATTTAAATATGTTATCATTTCCCTTTATATAAATATATGTCATGTATTAAATGATGAGA
72806929 CGGGTCTTTAATATCATAAC
261 CGGGTCTTTAATATCATAAC
72806949 TCATTCCAAA
Statistics
Matches: 269, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
280 269 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (280 bp):
CCACTTTTTAAGATAAAAACTAATTTTTTAAGTATCGGTACACTCATGACCGACATCCATTTTAT
CAAATAAAAAAATTAAAAAAATTCACCGATAAATAAGCCTAAAACCGGCCATTAATTGAAGCCGA
CCATCTATACACCAAGGCCTAAAGACCCGTCCCATCATTTCCTTTTTTTTAATTAAAATCTATTC
AATATAATTTAAATATGTTATCATTTCCCTTTATATAAATATATGTCATGTATTAAATGATGAGA
CGGGTCTTTAATATCATAAC
Found at i:72807505 original size:22 final size:22
Alignment explanation
Indices: 72807475--72807534 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
72807465 GAGGGTAGGA
72807475 TATGATATGTTATAAGATATGC
1 TATGATATGTTATAAGATATGC
* ** **
72807497 TCTGATATGAAATCTGATATGC
1 TATGATATGTTATAAGATATGC
72807519 TATGATATGTTATAAG
1 TATGATATGTTATAAG
72807535 TTATATTTTG
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (22 bp):
TATGATATGTTATAAGATATGC
Found at i:72807525 original size:44 final size:44
Alignment explanation
Indices: 72807475--72807585 Score: 150
Period size: 44 Copynumber: 2.5 Consensus size: 44
72807465 GAGGGTAGGA
72807475 TATGATATGTTATAAGATATGCTCTGATATGAAATCTGATATGC
1 TATGATATGTTATAAGATATGCTCTGATATGAAATCTGATATGC
* ** * * *
72807519 TATGATATGTTATAAGTTATATTTTGTTATGAAATCTTATATGC
1 TATGATATGTTATAAGATATGCTCTGATATGAAATCTGATATGC
* *
72807563 TATGATATGTTGTAAGATGTGCT
1 TATGATATGTTATAAGATATGCT
72807586 TCAATATGAA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (44 bp):
TATGATATGTTATAAGATATGCTCTGATATGAAATCTGATATGC
Found at i:72810754 original size:25 final size:27
Alignment explanation
Indices: 72810717--72810769 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
72810707 TCAAACATGC
72810717 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
72810743 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
72810769 A
1 A
72810770 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:72812290 original size:26 final size:26
Alignment explanation
Indices: 72812254--72812363 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
72812244 CATGAAATTC
*
72812254 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCGA
72812280 TTATCATGAAACATTTACCTAACCGA
1 TTATCATGAAACATTTACCTAACCGA
*
72812306 TTATCATGGAACATTTACCTAACCGA
1 TTATCATGAAACATTTACCTAACCGA
* *
72812332 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCGA
72812358 TTATCA
1 TTATCA
72812364 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCGA
Found at i:72814168 original size:20 final size:18
Alignment explanation
Indices: 72814121--72814176 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
72814111 ATTCATCCAC
*
72814121 TAAGTTACTTAATTACAAT
1 TAAGTTAATTAATTA-AAT
72814140 TAAGTTTAATTAATTAAACTT
1 TAAG-TTAATTAATTAAA--T
*
72814161 TAAGTTAAATAATTAA
1 TAAGTTAATTAATTAA
72814177 CGTTTATTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 6 0.19
20 21 0.66
21 5 0.16
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
TAAGTTAATTAATTAAAT
Found at i:72815870 original size:38 final size:38
Alignment explanation
Indices: 72815819--72815891 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
72815809 TGAATGCTTG
*
72815819 AAGTATTGATGATGAATGCTTTGATGAGAAGTTTAGTT
1 AAGTATTGATGATGAATGCTTCGATGAGAAGTTTAGTT
72815857 AAGTATTGATGATGAATGCTTCGATGAGAAGTTTA
1 AAGTATTGATGATGAATGCTTCGATGAGAAGTTTA
72815892 TGTGGTAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (38 bp):
AAGTATTGATGATGAATGCTTCGATGAGAAGTTTAGTT
Found at i:72818603 original size:100 final size:100
Alignment explanation
Indices: 72818426--72818625 Score: 276
Period size: 100 Copynumber: 2.0 Consensus size: 100
72818416 GGGGTCACAC
* * *
72818426 GGCCGTCTGGCCAGGATGTGTGACATAGCCCAGGCCTTGTAACAATCGAACTAAGGACACACAGC
1 GGCCGTCTGACCAGGACGTGTGACATAGCCCAGGCCGTGTAACAATCGAACTAAGGACACACAGC
*
72818491 CGTGTTCCAGCCTATGTCCTCAAC-CATGTAACTCA
66 CATGTTCCAGCCTATGTCCTC-ACTCATGTAACTCA
* * * *
72818526 GGCCGTGTGACCAGGACGTGTGACATAGCCTAGGCCGTGTAACAATCGAACTAGGGACACACGGC
1 GGCCGTCTGACCAGGACGTGTGACATAGCCCAGGCCGTGTAACAATCGAACTAAGGACACACAGC
** * *
72818591 CATGTTTTAGCCTGTGTCCTCACTCGTGTAACTCA
66 CATGTTCCAGCCTATGTCCTCACTCATGTAACTCA
72818626 CTAAACAAGG
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 2 0.02
100 85 0.98
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (100 bp):
GGCCGTCTGACCAGGACGTGTGACATAGCCCAGGCCGTGTAACAATCGAACTAAGGACACACAGC
CATGTTCCAGCCTATGTCCTCACTCATGTAACTCA
Found at i:72834882 original size:18 final size:18
Alignment explanation
Indices: 72834854--72834917 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
72834844 GAACAATTAA
* *
72834854 TTATTTAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
* * *
72834872 TTATTCGGTAACAATCAA
1 TTATTCAGTAATAATCAG
*
72834890 TTATTCAATAATAATCAG
1 TTATTCAGTAATAATCAG
72834908 TTATTCAGTA
1 TTATTCAGTA
72834918 TCAATCAACT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:72834885 original size:36 final size:36
Alignment explanation
Indices: 72834832--72834925 Score: 109
Period size: 36 Copynumber: 2.6 Consensus size: 36
72834822 TTCATTAACG
* * * * *
72834832 ATCAGTCAATCAG-AACAATTAATTATTTAGTAATA
1 ATCAGTTATTCAGTAACAATCAATTATTCAATAATA
* *
72834867 GTCAGTTATTCGGTAACAATCAATTATTCAATAATA
1 ATCAGTTATTCAGTAACAATCAATTATTCAATAATA
*
72834903 ATCAGTTATTCAGTATCAATCAA
1 ATCAGTTATTCAGTAACAATCAA
72834926 CTAATCGGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 9 0.19
36 39 0.81
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (36 bp):
ATCAGTTATTCAGTAACAATCAATTATTCAATAATA
Found at i:72834931 original size:26 final size:24
Alignment explanation
Indices: 72834894--72834943 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
72834884 AATCAATTAT
*
72834894 TCAATAATAATCAGTTATTCAGTA
1 TCAATAATAATCAGTTATCCAGTA
*
72834918 TCAATCAACTAATCGGTTATCCAGTA
1 TCAAT-AA-TAATCAGTTATCCAGTA
72834944 ACAGTCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 2 0.09
26 15 0.68
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (24 bp):
TCAATAATAATCAGTTATCCAGTA
Found at i:72834951 original size:26 final size:26
Alignment explanation
Indices: 72834901--72834960 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
72834891 TATTCAATAA
* *
72834901 TAATCAGTTATTCAGTATCAATCAAC
1 TAATCAGTTATCCAGTAACAATCAAC
* * *
72834927 TAATCGGTTATCCAGTAACAGTCAAT
1 TAATCAGTTATCCAGTAACAATCAAC
*
72834953 TATTCAGT
1 TAATCAGT
72834961 AAAAATCAGA
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:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (26 bp):
TAATCAGTTATCCAGTAACAATCAAC
Found at i:72834999 original size:19 final size:19
Alignment explanation
Indices: 72834872--72835006 Score: 71
Period size: 18 Copynumber: 6.9 Consensus size: 19
72834862 TAATAGTCAG
*
72834872 TTATTCGGTAACAATC-AA
1 TTATTCAGTAACAATCAAA
* * *
72834890 TTATTCAATAATAATC-AG
1 TTATTCAGTAACAATCAAA
*
72834908 TTATTCAGTATCAATCAACTAA
1 TTATTCAGTAACAATC-A--AA
* *
72834930 TCGGTTATCCAGTAACAGTC-AA
1 ----TTATTCAGTAACAATCAAA
* *
72834952 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAACAATCAAA
* *
72834971 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAATCAAA
*
72834989 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
72835007 TCTTTCCAGT
Statistics
Matches: 85, Mismatches: 22, Indels: 19
0.67 0.17 0.15
Matches are distributed among these distances:
18 54 0.64
19 15 0.18
22 3 0.04
26 13 0.15
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.33
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:72835183 original size:53 final size:53
Alignment explanation
Indices: 72835123--72835247 Score: 196
Period size: 53 Copynumber: 2.4 Consensus size: 53
72835113 TCGGAACAGT
*
72835123 AACAGTAACAGTAGCAGTACGGTACACAGAGTACCTAATCGGAACAAATCCGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTAATCGGAACAAATCCGA
* * * *
72835176 AACAGTAACAGTAACATTGCGGTACACAGAGTACCTCATCGGAACAAATTCGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTAATCGGAACAAATCCGA
*
72835229 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
72835248 ATAGTAGTCG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 64 1.00
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.17
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAGAGTACCTAATCGGAACAAATCCGA
Found at i:72836293 original size:12 final size:12
Alignment explanation
Indices: 72836278--72836322 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
72836268 ACCTTCAATT
*
72836278 TTTCCTTTCTTC
1 TTTCCTTTCTCC
*
72836290 TTTCTTTTCTCC
1 TTTCCTTTCTCC
*
72836302 TTTCTTTTCTCC
1 TTTCCTTTCTCC
72836314 TTT-CTTTCT
1 TTTCCTTTCT
72836323 TTCTTTCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 5 0.17
12 25 0.83
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTCCTTTCTCC
Found at i:72836328 original size:12 final size:13
Alignment explanation
Indices: 72836289--72836333 Score: 60
Period size: 12 Copynumber: 3.7 Consensus size: 13
72836279 TTCCTTTCTT
72836289 CTTTCTTT-TCTC
1 CTTTCTTTCTCTC
72836301 CTTTCTTT-TCTC
1 CTTTCTTTCTCTC
*
72836313 CTTTCTTTCT-TT
1 CTTTCTTTCTCTC
72836325 CTTTCTTTC
1 CTTTCTTTC
72836334 CCTGCTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 30 0.97
13 1 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (13 bp):
CTTTCTTTCTCTC
Found at i:72836389 original size:2 final size:2
Alignment explanation
Indices: 72836382--72836407 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
72836372 TCTTTTTCTT
72836382 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
72836408 ATAACTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:72836577 original size:21 final size:21
Alignment explanation
Indices: 72836540--72836580 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
72836530 TTAATAATAA
*
72836540 TATATAATTTAATAATATACT
1 TATATAATTAAATAATATACT
72836561 TATATAA-TAAATAAATATAC
1 TATATAATTAAAT-AATATAC
72836581 ATGTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
TATATAATTAAATAATATACT
Found at i:72838431 original size:29 final size:29
Alignment explanation
Indices: 72838389--72838623 Score: 299
Period size: 29 Copynumber: 8.1 Consensus size: 29
72838379 AAGCACAAAG
*
72838389 ACTTGGTGGACTCATACATGCAGATTCAT
1 ACTTGGTGAACTCATACATGCAGATTCAT
* **
72838418 ACTTGGTGGACTCATACATGTGGATTCAT
1 ACTTGGTGAACTCATACATGCAGATTCAT
* *** *
72838447 ACTTGGTGAACTTATACATATGGATTTAT
1 ACTTGGTGAACTCATACATGCAGATTCAT
* *
72838476 ACTTAGTGGACTCATACATGCAGATTCAT
1 ACTTGGTGAACTCATACATGCAGATTCAT
72838505 ACTTGGTGAACTCATACATGCAGATTCAT
1 ACTTGGTGAACTCATACATGCAGATTCAT
* * *
72838534 ACTTGGTGGACCCATATATGCAGATTCAT
1 ACTTGGTGAACTCATACATGCAGATTCAT
*
72838563 ACTTGGTGAACTCATACATACAGATTCAT
1 ACTTGGTGAACTCATACATGCAGATTCAT
* * * *
72838592 ACTTGGTGAACCCATATATGCCGATGCAT
1 ACTTGGTGAACTCATACATGCAGATTCAT
72838621 ACT
1 ACT
72838624 CACAATTTGT
Statistics
Matches: 179, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 179 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (29 bp):
ACTTGGTGAACTCATACATGCAGATTCAT
Found at i:72838709 original size:29 final size:29
Alignment explanation
Indices: 72838677--72838741 Score: 114
Period size: 29 Copynumber: 2.2 Consensus size: 29
72838667 CAGATCCTTT
72838677 CTTGAAAAGTTAGT-TCATGCGGACTCTTG
1 CTTGAAAAGTTAGTCT-ATGCGGACTCTTG
72838706 CTTGAAAAGTTAGTCTATGCGGACTCTTG
1 CTTGAAAAGTTAGTCTATGCGGACTCTTG
72838735 CTTGAAA
1 CTTGAAA
72838742 GATAGTCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 34 0.97
30 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (29 bp):
CTTGAAAAGTTAGTCTATGCGGACTCTTG
Found at i:72838758 original size:28 final size:29
Alignment explanation
Indices: 72838639--72838759 Score: 79
Period size: 29 Copynumber: 4.2 Consensus size: 29
72838629 TTTGTTCTTG
* * *
72838639 CAGACTCTTTCTTG-AAAGTTAGTTTC-TA
1 CAGACTCTTGCTTGAAAAGATAG-TCCATA
* * * *
72838667 CAGA-TCCTTTCTTGAAAAGTTAGTTCATG
1 CAGACT-CTTGCTTGAAAAGATAGTCCATA
* * * *
72838696 CGGACTCTTGCTTGAAAAGTTAGTCTATG
1 CAGACTCTTGCTTGAAAAGATAGTCCATA
*
72838725 CGGACTCTTGCTTG-AAAGATAGTCCATA
1 CAGACTCTTGCTTGAAAAGATAGTCCATA
*
72838753 TAGACTC
1 CAGACTC
72838760 CTATTTGGAT
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
27 1 0.01
28 31 0.39
29 46 0.58
30 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (29 bp):
CAGACTCTTGCTTGAAAAGATAGTCCATA
Found at i:72838807 original size:41 final size:41
Alignment explanation
Indices: 72838750--72838831 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
72838740 AAGATAGTCC
72838750 ATATAGACTCCTATTTGGATGAATGTCCTTGTGGACTCATA
1 ATATAGACTCCTATTTGGATGAATGTCCTTGTGGACTCATA
72838791 ATATAGACTCCTATTTGGATGAATGTCCTTGTGGACTCATA
1 ATATAGACTCCTATTTGGATGAATGTCCTTGTGGACTCATA
72838832 CTTGAAGGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (41 bp):
ATATAGACTCCTATTTGGATGAATGTCCTTGTGGACTCATA
Found at i:72838828 original size:28 final size:28
Alignment explanation
Indices: 72838811--72838947 Score: 109
Period size: 28 Copynumber: 4.9 Consensus size: 28
72838801 CTATTTGGAT
*
72838811 GAATGTCCTTGTGGACTCATACTTGAAG
1 GAATGTCCCTGTGGACTCATACTTGAAG
* * *
72838839 GAATTTCCCTGTGGACTAATACTTGGAG
1 GAATGTCCCTGTGGACTCATACTTGAAG
* * *
72838867 AAATGTCCCTACT-GACTCATACTTGGAG
1 GAATGTCCCT-GTGGACTCATACTTGAAG
* * *
72838895 GAATG-CACCTG-CGAGCTAATACTTGGAG
1 GAATGTC-CCTGTGGA-CTCATACTTGAAG
***
72838923 GAATGTCCCTGCAAACTCATACTTG
1 GAATGTCCCTGTGGACTCATACTTG
72838948 TAACTTGAGG
Statistics
Matches: 89, Mismatches: 14, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
27 3 0.03
28 83 0.93
29 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (28 bp):
GAATGTCCCTGTGGACTCATACTTGAAG
Found at i:72838891 original size:56 final size:56
Alignment explanation
Indices: 72838824--72838947 Score: 153
Period size: 56 Copynumber: 2.2 Consensus size: 56
72838814 TGTCCTTGTG
* * *
72838824 GACTCATACTTGAAGGAATTTC-CCTGTG-GACTAATACTTGGAGAAATGTCCCTACT
1 GACTCATACTTGAAGGAA-TGCACCTGCGAG-CTAATACTTGGAGAAATGTCCCTACA
* * *
72838880 GACTCATACTTGGAGGAATGCACCTGCGAGCTAATACTTGGAGGAATGTCCCTGCA
1 GACTCATACTTGAAGGAATGCACCTGCGAGCTAATACTTGGAGAAATGTCCCTACA
*
72838936 AACTCATACTTG
1 GACTCATACTTG
72838948 TAACTTGAGG
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
55 2 0.03
56 56 0.95
57 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (56 bp):
GACTCATACTTGAAGGAATGCACCTGCGAGCTAATACTTGGAGAAATGTCCCTACA
Found at i:72846524 original size:9 final size:9
Alignment explanation
Indices: 72846507--72846549 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
72846497 TAGTTGGAAT
72846507 TTAAAAATA
1 TTAAAAATA
*
72846516 TTAACAATA
1 TTAAAAATA
72846525 TTAAAAATAA
1 TTAAAAAT-A
*
72846535 TTAATAAAAA
1 TTAA-AAATA
72846545 TTAAA
1 TTAAA
72846550 TTGACGTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 16 0.55
10 10 0.34
11 3 0.10
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAAAAATA
Found at i:72849781 original size:19 final size:19
Alignment explanation
Indices: 72849743--72849781 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
72849733 AAATTTTAAC
* *
72849743 TTTTGCTCAAAAATATTTT
1 TTTTGCTCAAAAACACTTT
72849762 TTTTGCTCAAAAACACTTT
1 TTTTGCTCAAAAACACTTT
72849781 T
1 T
72849782 GAAAAACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTTGCTCAAAAACACTTT
Found at i:72856679 original size:25 final size:25
Alignment explanation
Indices: 72856645--72856694 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
72856635 AAAAAAAAAA
72856645 GAGCTTGGTCCCGCAATTTTACAAT
1 GAGCTTGGTCCCGCAATTTTACAAT
72856670 GAGCTTGGTCCCGCAATTTTACAAT
1 GAGCTTGGTCCCGCAATTTTACAAT
72856695 CATCTCAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
GAGCTTGGTCCCGCAATTTTACAAT
Found at i:72860855 original size:23 final size:25
Alignment explanation
Indices: 72860829--72860875 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
72860819 TATCATTCAT
*
72860829 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
72860852 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
72860876 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:72861304 original size:46 final size:46
Alignment explanation
Indices: 72861136--72861355 Score: 233
Period size: 46 Copynumber: 5.0 Consensus size: 46
72861126 TTTAACGTGA
* * * * * *
72861136 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * **
72861182 TGCCATGGTATCTTTCAACCATAGTCTTATTCTTTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
72861228 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
72861274 TGCCATGGTATCTTTCAACCATGGT-TT-TACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
72861312 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
72861356 AGAGCACACT
Statistics
Matches: 147, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
38 30 0.20
39 3 0.02
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 7 0.05
46 99 0.67
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:72861320 original size:38 final size:38
Alignment explanation
Indices: 72861269--72861344 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
72861259 CATCTCATAT
*
72861269 CAGGTTGCCATGGTATCTTTCAACCATGGTTTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
72861307 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
72861345 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:72861507 original size:25 final size:25
Alignment explanation
Indices: 72861479--72861535 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
72861469 CTGCAACGAC
*
72861479 AATTACTCTAATGAGCTTGGATCTG
1 AATTACCCTAATGAGCTTGGATCTG
72861504 AATTACCCTAATGAGCTTGGATCTG
1 AATTACCCTAATGAGCTTGGATCTG
72861529 AATTACC
1 AATTACC
72861536 AGTCCAGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (25 bp):
AATTACCCTAATGAGCTTGGATCTG
Found at i:72868177 original size:40 final size:40
Alignment explanation
Indices: 72868123--72868206 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
72868113 CGCCCAGTGC
72868123 CTCA-TCAAACAAATTGAAGTAATCCAACTGCACCCATAG
1 CTCATTCAAACAAATTGAAGTAATCCAACTGCACCCATAG
* * * *
72868162 CTCATTCAGACAAATTGAAGTAATCCAATTGCGCCCATCG
1 CTCATTCAAACAAATTGAAGTAATCCAACTGCACCCATAG
72868202 CTCAT
1 CTCAT
72868207 CGATTTAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 4 0.10
40 36 0.90
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.24
Consensus pattern (40 bp):
CTCATTCAAACAAATTGAAGTAATCCAACTGCACCCATAG
Found at i:72876594 original size:30 final size:30
Alignment explanation
Indices: 72876558--72876616 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
72876548 TTTGTCATCC
* *
72876558 CGGATTGCTTGATAACAATGACTTACCACT
1 CGGATTGCTCGACAACAATGACTTACCACT
* *
72876588 CGGATTGCTCGACAATAATGGCTTACCAC
1 CGGATTGCTCGACAACAATGACTTACCAC
72876617 GCTAGATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (30 bp):
CGGATTGCTCGACAACAATGACTTACCACT
Found at i:72878381 original size:52 final size:53
Alignment explanation
Indices: 72878237--72878392 Score: 147
Period size: 52 Copynumber: 2.9 Consensus size: 53
72878227 TATGGTCTTA
* * *
72878237 CACAG-ATCACATATCATACCGATGCCATATCCCAGATATGGTCTTATACGGAAT
1 CACAGTATCACAT-T-ACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAT
* * ** * * * *
72878291 CACATTATCACATTATATTGATGCCTTGGCCCAACTATGGTCTTATATGGGAA-
1 CACAGTATCACATTACACCGATGCCATAGCCCAGCTATGGTCTTATA-CGGAAT
* *
72878344 CAC-GTATCACATTGCACCGATGCCATAGCCTAGCTATGGTCTTATACGG
1 CACAGTATCACATTACACCGATGCCATAGCCCAGCTATGGTCTTATACGG
72878393 GCATAAATAT
Statistics
Matches: 81, Mismatches: 19, Indels: 7
0.76 0.18 0.07
Matches are distributed among these distances:
51 2 0.02
52 34 0.42
53 29 0.36
54 9 0.11
55 7 0.09
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (53 bp):
CACAGTATCACATTACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAT
Found at i:72880816 original size:23 final size:23
Alignment explanation
Indices: 72880790--72880850 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
72880780 AAAAAATTTG
72880790 GAATATGCCACAAAGGCATTACA
1 GAATATGCCACAAAGGCATTACA
* * *
72880813 GAATCTGCAACTAAGGCATTACA
1 GAATATGCCACAAAGGCATTACA
*
72880836 GAATACGCCACAAAG
1 GAATATGCCACAAAG
72880851 ACCCTATTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (23 bp):
GAATATGCCACAAAGGCATTACA
Found at i:72883079 original size:46 final size:46
Alignment explanation
Indices: 72883002--72883125 Score: 176
Period size: 46 Copynumber: 2.7 Consensus size: 46
72882992 CTCGCACCCT
* * *
72883002 AAGTGCCAATACATAGCCGAAGCTATTTCAATGAATCTTACACACG
1 AAGTGCCAATACATAGCTGAAGCTATCTCAATGAATCTCACACACG
* * **
72883048 AAGTGCCAATACATAGCTGAATCTATGTCAATGAATCTCGTACACG
1 AAGTGCCAATACATAGCTGAAGCTATCTCAATGAATCTCACACACG
*
72883094 AAGTGCCAATGCATAGCTGAAGCTATCTCAAT
1 AAGTGCCAATACATAGCTGAAGCTATCTCAAT
72883126 TATGCTCACT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (46 bp):
AAGTGCCAATACATAGCTGAAGCTATCTCAATGAATCTCACACACG
Found at i:72886135 original size:50 final size:51
Alignment explanation
Indices: 72886074--72886173 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 51
72886064 AAAAGAACTA
72886074 AATTGCATTAACCAATTGAAAGTTTAAGCTTTG-AAATCCCTAGGATGAAC
1 AATTGCATTAACCAATTGAAAGTTTAAGCTTTGAAAATCCCTAGGATGAAC
*
72886124 AATTGCGTTAACCAATTGAAAGTTTAAGCTTTGAAAATCCCTAGGATGAA
1 AATTGCATTAACCAATTGAAAGTTTAAGCTTTGAAAATCCCTAGGATGAA
72886174 ACTTTTCTCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 32 0.67
51 16 0.33
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (51 bp):
AATTGCATTAACCAATTGAAAGTTTAAGCTTTGAAAATCCCTAGGATGAAC
Found at i:72889204 original size:49 final size:49
Alignment explanation
Indices: 72889138--72889312 Score: 215
Period size: 49 Copynumber: 3.5 Consensus size: 49
72889128 CTGGTATGCA
* * * *
72889138 TAGTAGCTTGCAATTAGTACTACACATGCGACCAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* *** * * * * *
72889187 TAGTAGCCTGCATTTAGTACTACACACATGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCCGGTACACG
72889238 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
72889287 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
72889313 CGTGACCTCA
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 64 0.62
50 2 0.02
51 38 0.37
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:72889255 original size:100 final size:100
Alignment explanation
Indices: 72889130--72889313 Score: 314
Period size: 100 Copynumber: 1.8 Consensus size: 100
72889120 GAAGCTATCT
* * *
72889130 GGTATGCATAGTAGCTTGCAATTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCAATTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
72889195 TGCATTTAGTACTACACACATGATCACAGTTTTCG
66 TGCACTTAGTACTACACACATGATCACAGTTTTCG
* *
72889230 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCAATTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
72889295 TGCACTTAGTACTACACAC
66 TGCACTTAGTACTACACAC
72889314 GTGACCTCAT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCAATTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACATGATCACAGTTTTCG
Found at i:72899516 original size:24 final size:22
Alignment explanation
Indices: 72899489--72899532 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
72899479 ATTTGTTAAT
72899489 TTTACTATTTAAATATATAAAATA
1 TTTA-TATTTAAAT-TATAAAATA
* *
72899513 TTTATTTTTACATTATAAAA
1 TTTATATTTAAATTATAAAA
72899533 ATTGTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 7 0.39
24 4 0.22
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTATATTTAAATTATAAAATA
Found at i:72902728 original size:3 final size:3
Alignment explanation
Indices: 72902720--72902748 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
72902710 TTATATTCTT
72902720 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
72902749 TTCATTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:72903144 original size:23 final size:21
Alignment explanation
Indices: 72903118--72903168 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
72903108 GAAAATAATG
*
72903118 AAAAAAAGTTAAAAAACATAAA
1 AAAAAAAATTAAAAAAC-TAAA
**
72903140 AAAAATAAATTAAATTACTAAA
1 AAAAA-AAATTAAAAAACTAAA
72903162 AAAAAAA
1 AAAAAAA
72903169 TGAGGGACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 14 0.56
23 9 0.36
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAAAAAATTAAAAAACTAAA
Found at i:72903330 original size:14 final size:15
Alignment explanation
Indices: 72903309--72903350 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
72903299 CGTAAATGAC
72903309 TAAAATATAACATT-
1 TAAAATATAACATTA
*
72903323 TCAAATATAA-ATTA
1 TAAAATATAACATTA
72903337 CTAAAATATAACAT
1 -TAAAATATAACAT
72903351 GAGATAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.13
14 9 0.39
15 9 0.39
16 2 0.09
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAATATAACATTA
Found at i:72903345 original size:15 final size:15
Alignment explanation
Indices: 72903301--72903347 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
72903291 TACGTTAACG
*
72903301 TAAATGACTAAAATA
1 TAAATTACTAAAATA
*
72903316 TAACATT--TCAAATA
1 TAA-ATTACTAAAATA
72903330 TAAATTACTAAAATA
1 TAAATTACTAAAATA
72903345 TAA
1 TAA
72903348 CATGAGATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
13 3 0.12
14 9 0.35
15 12 0.46
16 2 0.08
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (15 bp):
TAAATTACTAAAATA
Found at i:72907362 original size:31 final size:31
Alignment explanation
Indices: 72907327--72907385 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
72907317 GTTCGTTTTG
*
72907327 ATTTTTCTATGTATTAC-TTATGTTAAAATAT
1 ATTTTTCTATATATT-CTTTATGTTAAAATAT
* *
72907358 ATTTTTTTATATATTCTTTATTTTAAAA
1 ATTTTTCTATATATTCTTTATGTTAAAA
72907386 CTTTTATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (31 bp):
ATTTTTCTATATATTCTTTATGTTAAAATAT
Found at i:72913664 original size:28 final size:29
Alignment explanation
Indices: 72913623--72913692 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
72913613 AAATATTTAA
*
72913623 TTAATTTATTAAAATA-ATTTTAAAATTTT
1 TTAATTT-TTAAAAAATATTTTAAAATTTT
* *
72913652 TT-ATTTTTAAAAAATATTTTATATTTTT
1 TTAATTTTTAAAAAATATTTTAAAATTTT
72913680 TTGAATTTTTAAA
1 TT-AATTTTTAAA
72913693 TTTTAAGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 7 0.20
28 17 0.49
29 2 0.06
30 9 0.26
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (29 bp):
TTAATTTTTAAAAAATATTTTAAAATTTT
Found at i:72915932 original size:6 final size:6
Alignment explanation
Indices: 72915922--72915951 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
72915912 CAATGCCAAC
*
72915922 GCTAAG ACTAAG GCTAAG GCTAAG GCTAAG
1 GCTAAG GCTAAG GCTAAG GCTAAG GCTAAG
72915952 CCATTGCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.30, T:0.17
Consensus pattern (6 bp):
GCTAAG
Found at i:72916868 original size:20 final size:21
Alignment explanation
Indices: 72916835--72916877 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
72916825 ATTTGAATTA
72916835 TTTCAAGAGAAAAAATCTGAT
1 TTTCAAGAGAAAAAATCTGAT
72916856 TTTCAAGAG-AAAAATCTGAT
1 TTTCAAGAGAAAAAATCTGAT
72916876 TT
1 TT
72916878 GTCATTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (21 bp):
TTTCAAGAGAAAAAATCTGAT
Found at i:72918265 original size:17 final size:17
Alignment explanation
Indices: 72918240--72918273 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
72918230 TTATAGATAG
72918240 TATAGATACATATATAA
1 TATAGATACATATATAA
*
72918257 TATATATACATATATAA
1 TATAGATACATATATAA
72918274 CAAATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
TATAGATACATATATAA
Found at i:72918280 original size:17 final size:17
Alignment explanation
Indices: 72918245--72918281 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
72918235 GATAGTATAG
* *
72918245 ATACATATATAATATAT
1 ATACATATATAACAAAT
72918262 ATACATATATAACAAAT
1 ATACATATATAACAAAT
72918279 ATA
1 ATA
72918282 TTTATTAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (17 bp):
ATACATATATAACAAAT
Found at i:72924949 original size:10 final size:10
Alignment explanation
Indices: 72924934--72924999 Score: 61
Period size: 9 Copynumber: 6.9 Consensus size: 10
72924924 AATATTAATT
72924934 ATTATAAAAA
1 ATTATAAAAA
72924944 ATTAT-AAAA
1 ATTATAAAAA
72924953 ATTAT--AAA
1 ATTATAAAAA
72924961 A-TATAAAAGA
1 ATTATAAAA-A
*
72924971 ATTATGAAAA
1 ATTATAAAAA
72924981 ATTA-AAAAA
1 ATTATAAAAA
*
72924990 TTTATGAAAA
1 ATTAT-AAAA
72925000 GACTAGACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
7 3 0.06
8 4 0.09
9 18 0.38
10 12 0.26
11 10 0.21
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:72924961 original size:18 final size:19
Alignment explanation
Indices: 72924934--72924991 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
72924924 AATATTAATT
72924934 ATTATAAAAAATTATAAAA
1 ATTATAAAAAATTATAAAA
*
72924953 ATTATAAAATA-TA-AAAGA
1 ATTATAAAAAATTATAAA-A
*
72924971 ATTATGAAAAATTA-AAAA
1 ATTATAAAAAATTATAAAA
72924989 ATT
1 ATT
72924992 TATGAAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 3 0.09
18 16 0.47
19 15 0.44
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
ATTATAAAAAATTATAAAA
Found at i:72924990 original size:8 final size:8
Alignment explanation
Indices: 72924938--72924991 Score: 54
Period size: 8 Copynumber: 6.1 Consensus size: 8
72924928 TTAATTATTA
72924938 TAAAAAAT
1 TAAAAAAT
72924946 TATAAAAAT
1 TA-AAAAAT
*
72924955 TATAAAAT
1 TAAAAAAT
72924963 ATAAAAGAAT
1 -TAAAA-AAT
72924973 TATGAAAAAT
1 TA--AAAAAT
72924983 TAAAAAAT
1 TAAAAAAT
72924991 T
1 T
72924992 TATGAAAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 14 0.36
9 14 0.36
10 8 0.21
11 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (8 bp):
TAAAAAAT
Found at i:72924994 original size:19 final size:18
Alignment explanation
Indices: 72924934--72924999 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 18
72924924 AATATTAATT
*
72924934 ATTATAAAAAATTATAAAA
1 ATTATGAAAAATTA-AAAA
72924953 ATTAT--AAAATATAAAAGA
1 ATTATGAAAAAT-TAAAA-A
72924971 ATTATGAAAAATTAAAAA
1 ATTATGAAAAATTAAAAA
72924989 ATTTATGAAAA
1 A-TTATGAAAA
72925000 GACTAGACTT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.19
18 10 0.24
19 19 0.45
20 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
ATTATGAAAAATTAAAAA
Found at i:72925979 original size:9 final size:10
Alignment explanation
Indices: 72925947--72926001 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
72925937 GTACAAAAAA
72925947 AATATTTTAT
1 AATATTTTAT
72925957 AA-ATTTTAT
1 AATATTTTAT
72925966 AAATATTTT-T
1 -AATATTTTAT
*
72925976 AATAAATTTAT
1 AAT-ATTTTAT
72925987 AATAAGTTTTAT
1 AAT-A-TTTTAT
72925999 AAT
1 AAT
72926002 TTGAGTGAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 10 0.26
10 9 0.24
11 11 0.29
12 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (10 bp):
AATATTTTAT
Found at i:72925985 original size:21 final size:20
Alignment explanation
Indices: 72925946--72925988 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
72925936 AGTACAAAAA
72925946 AAATATTTTATAAATTTTAT
1 AAATATTTTATAAATTTTAT
72925966 AAATATTTTTAATAAA-TTTAT
1 AAATA-TTTT-ATAAATTTTAT
72925987 AA
1 AA
72925989 TAAGTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATATTTTATAAATTTTAT
Found at i:72925996 original size:21 final size:22
Alignment explanation
Indices: 72925946--72925997 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
72925936 AGTACAAAAA
72925946 AAATA-TTTT-ATAAATTTTAT
1 AAATAGTTTTAATAAATTTTAT
*
72925966 AAATATTTTTAATAAA-TTTAT
1 AAATAGTTTTAATAAATTTTAT
72925987 -AATAAGTTTTA
1 AAAT-AGTTTTA
72925998 TAATTTGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 8 0.29
21 15 0.54
22 5 0.18
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AAATAGTTTTAATAAATTTTAT
Found at i:72926748 original size:6 final size:6
Alignment explanation
Indices: 72926737--72926772 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
72926727 TTTACCGTGC
72926737 TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT
1 TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT
72926773 CTCTCGAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (6 bp):
TTGGTT
Found at i:72931057 original size:3 final size:3
Alignment explanation
Indices: 72931044--72931087 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
72931034 CTTTTATACT
72931044 TAA TAAA TAA TAA TAA T-A TAA TAA -AA TAA TAA -AA TAA TAA -AA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
72931086 TA
1 TA
72931088 TCTTATTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
2 8 0.22
3 25 0.69
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:72931071 original size:13 final size:13
Alignment explanation
Indices: 72931044--72931087 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
72931034 CTTTTATACT
72931044 TAATAAATAATAA
1 TAATAAATAATAA
72931057 TAATATAATAA-AA
1 TAATA-AATAATAA
72931070 TAATAAAATAATAA
1 TAAT-AAATAATAA
72931084 -AATA
1 TAATA
72931088 TCTTATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 1 0.04
13 19 0.68
14 8 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TAATAAATAATAA
Found at i:72931100 original size:26 final size:26
Alignment explanation
Indices: 72931071--72931141 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
72931061 ATAATAAAAT
*
72931071 AATAAAATAATAAAATATCTTATTAA
1 AATAAAATAATAAAATATCTTATCAA
* *
72931097 AATATTACTAA-AAAATAT-TTATCAA
1 AATA-AAATAATAAAATATCTTATCAA
* *
72931122 ATTAATAATTATAAAATATC
1 AATAA-AATAATAAAATATC
72931142 ATCAACATCA
Statistics
Matches: 34, Mismatches: 7, Indels: 7
0.71 0.15 0.15
Matches are distributed among these distances:
25 12 0.35
26 18 0.53
27 4 0.12
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATAATAAAATATCTTATCAA
Found at i:72931103 original size:8 final size:8
Alignment explanation
Indices: 72931052--72931087 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
72931042 CTTAATAAAT
72931052 AATAATAA
1 AATAATAA
*
72931060 TATAATAA
1 AATAATAA
72931068 AATAATAA
1 AATAATAA
72931076 AATAATAA
1 AATAATAA
72931084 AATA
1 AATA
72931088 TCTTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
AATAATAA
Found at i:72932651 original size:235 final size:235
Alignment explanation
Indices: 72932240--72932706 Score: 873
Period size: 235 Copynumber: 2.0 Consensus size: 235
72932230 GCAGTGGTAC
72932240 TGTATATCCCAAGTAGTTTTCAGAAAAATCTAATATCTCTATTCAGAACCCATCTTCACTTATTA
1 TGTATATCCCAAGTAGTTTTCAGAAAAATCTAATATCTCTATTCAGAACCCATCTTCACTTATTA
72932305 ACTCATTCTCAGTTTTGACTACATTATCAGTTGCTCCACTATTGAACTTTTTCACTTTCACAGTT
66 ACTCATTCTCAGTTTTGACTACATTATCAGTTGCTCCACTATTGAACTTTTTCACTTTCACAGTT
* *
72932370 TTGAACTTAATCAATATAAATTTCATAAATTTCATTGCATATAACTGTACCGGTAAGGGGGTAGA
131 TTGAACTTAATCAATATAAATTTCATAAATTTCATTGCATATAACTGTACCAGTAAGGGAGTAGA
72932435 GATTATAAAGCCTAATAATTTAATTTTCATGTATTTACAT
196 GATTATAAAGCCTAATAATTTAATTTTCATGTATTTACAT
*
72932475 TGTATATCCCAAGTAGTTTTCAGAAAAATCTAATATCTCTATTCAGAACTCATCTTCACTTATTA
1 TGTATATCCCAAGTAGTTTTCAGAAAAATCTAATATCTCTATTCAGAACCCATCTTCACTTATTA
72932540 ACTCATTCTCAGTTTTGACTACATTATCAGTTGCTCCACTATTGAACTTTTTCACTTTCACAGTT
66 ACTCATTCTCAGTTTTGACTACATTATCAGTTGCTCCACTATTGAACTTTTTCACTTTCACAGTT
*
72932605 TTGAACTTAATCAATAT-AATTCTCATAAATTTCATTGCATATAACTGTACTAGTAAGGGAGTAG
131 TTGAACTTAATCAATATAAATT-TCATAAATTTCATTGCATATAACTGTACCAGTAAGGGAGTAG
*
72932669 AGATTATAAAGCCTCATAATTTAATTTTCATGTATTTA
195 AGATTATAAAGCCTAATAATTTAATTTTCATGTATTTA
72932707 ATCATAAAAT
Statistics
Matches: 226, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
234 4 0.02
235 222 0.98
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (235 bp):
TGTATATCCCAAGTAGTTTTCAGAAAAATCTAATATCTCTATTCAGAACCCATCTTCACTTATTA
ACTCATTCTCAGTTTTGACTACATTATCAGTTGCTCCACTATTGAACTTTTTCACTTTCACAGTT
TTGAACTTAATCAATATAAATTTCATAAATTTCATTGCATATAACTGTACCAGTAAGGGAGTAGA
GATTATAAAGCCTAATAATTTAATTTTCATGTATTTACAT
Found at i:72933907 original size:20 final size:21
Alignment explanation
Indices: 72933882--72933961 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
72933872 TTATCAGTAT
*
72933882 ACGACAGAT-AAGTGCCTGAA
1 ACGACACATGAAGTGCCTGAA
* *
72933902 ACGACACATGAGGTGCCTGAT
1 ACGACACATGAAGTGCCTGAA
* * * *
72933923 ATGACACACGAGGTGCCTAAAA
1 ACGACACATGAAGTGCCT-GAA
*
72933945 TACGACACATAAAGTGC
1 -ACGACACATGAAGTGC
72933962 TTGATCGGCA
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
20 8 0.17
21 25 0.54
22 1 0.02
23 12 0.26
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.16
Consensus pattern (21 bp):
ACGACACATGAAGTGCCTGAA
Found at i:72933919 original size:21 final size:21
Alignment explanation
Indices: 72933893--72933954 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
72933883 CGACAGATAA
72933893 GTGCCTGAAACGACACATGAG
1 GTGCCTGAAACGACACATGAG
* * *
72933914 GTGCCTGATATGACACACGAG
1 GTGCCTGAAACGACACATGAG
*
72933935 GTGCCTAAAATACGACACAT
1 GTGCCT-GAA-ACGACACAT
72933955 AAAGTGCTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 24 0.75
22 1 0.03
23 7 0.22
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (21 bp):
GTGCCTGAAACGACACATGAG
Found at i:72943219 original size:16 final size:15
Alignment explanation
Indices: 72943198--72943239 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
72943188 TTATATTGAG
*
72943198 TGATTATGTATTGATT
1 TGATTATGTATTG-TA
72943214 TGATTATG-ATTGTA
1 TGATTATGTATTGTA
72943228 TGATTCATGTAT
1 TGATT-ATGTAT
72943240 AATTTGAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 6 0.26
15 7 0.30
16 10 0.43
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.52
Consensus pattern (15 bp):
TGATTATGTATTGTA
Found at i:72943798 original size:27 final size:27
Alignment explanation
Indices: 72943759--72943810 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
72943749 CAACATAGAG
* * *
72943759 AGTCCATCAGGACACTAAACCCAGGGT
1 AGTCCACCAGGACAATAAACACAGGGT
*
72943786 AGTCCACCGGGACAATAAACACAGG
1 AGTCCACCAGGACAATAAACACAGG
72943811 AAAGTCTGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.37, C:0.29, G:0.23, T:0.12
Consensus pattern (27 bp):
AGTCCACCAGGACAATAAACACAGGGT
Found at i:72943816 original size:27 final size:27
Alignment explanation
Indices: 72943759--72943816 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
72943749 CAACATAGAG
* * * **
72943759 AGTCCATCAGGACACTAAACCCAGGGT
1 AGTCCACCAGGACAATAAACACAGGAA
*
72943786 AGTCCACCGGGACAATAAACACAGGAA
1 AGTCCACCAGGACAATAAACACAGGAA
72943813 AGTC
1 AGTC
72943817 TGTCAATACG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.28, G:0.22, T:0.12
Consensus pattern (27 bp):
AGTCCACCAGGACAATAAACACAGGAA
Found at i:72947841 original size:20 final size:19
Alignment explanation
Indices: 72947811--72947852 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
72947801 TTTGAATTTA
* *
72947811 TTAAAATTTTTCATTAACT
1 TTAAAATTTTTAATTAAAT
72947830 TTAAATATTTTTAATTAAAT
1 TTAAA-ATTTTTAATTAAAT
72947850 TTA
1 TTA
72947853 TCTCTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAAAATTTTTAATTAAAT
Found at i:72950482 original size:12 final size:12
Alignment explanation
Indices: 72950467--72950491 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
72950457 GGTTTTTGAG
72950467 AAATGATTTGTA
1 AAATGATTTGTA
72950479 AAATGATTTGTA
1 AAATGATTTGTA
72950491 A
1 A
72950492 TATTTTGATG
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:0.16, T:0.40
Consensus pattern (12 bp):
AAATGATTTGTA
Found at i:72955122 original size:46 final size:45
Alignment explanation
Indices: 72955062--72955327 Score: 295
Period size: 46 Copynumber: 5.8 Consensus size: 45
72955052 TATTTAGGCA
* * **
72955062 TCCGAACTCATTGAGTTAAGTCCGAGTTCACTTATGGATATGAAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
* * * * *
72955107 GTCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-AC
* *
72955154 ATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
*
72955200 TCCCAATCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
*
72955246 TCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 T-CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
* *
72955292 TCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 T-CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
72955328 AGGCGGGTTA
Statistics
Matches: 188, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
43 3 0.02
45 6 0.03
46 141 0.75
47 32 0.17
48 2 0.01
50 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
Found at i:72955215 original size:93 final size:94
Alignment explanation
Indices: 72955056--72955322 Score: 341
Period size: 92 Copynumber: 2.9 Consensus size: 94
72955046 TTCGGATATT
* * ** **
72955056 TAGGCATCCGAACTCATTGAGTTAAGTCCGAGTTCACTTATGGATATGAACGTCTGAACTCGTTG
1 TAGGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-TCCCAACTCGTTG
*
72955121 AGTTGAGTCCGAGTTCGTGA-GATG-TAAC
65 AGTTGAGTCCGAGTTCGTGAGGATGCGAAC
72955149 TAGGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTCCCAATCTCGTTG
1 TAGGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTCCCAA-CTCGTTG
* *
72955214 AGTTGAGTCCGAGTTCACTTATGGATGCGAAC
65 AGTTGAGTCCGAGTTC-GTGA-GGATGCGAAC
* *
72955246 T---C--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTCCCGAGCTCGTTG
1 TAGGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTCCC-AACTCGTTG
72955306 AGTTGAGTCCGAGTTCG
65 AGTTGAGTCCGAGTTCG
72955323 CTTATAGGCG
Statistics
Matches: 156, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
92 74 0.47
93 71 0.46
94 3 0.02
96 4 0.03
97 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (94 bp):
TAGGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTCCCAACTCGTTGA
GTTGAGTCCGAGTTCGTGAGGATGCGAAC
Found at i:72959060 original size:31 final size:31
Alignment explanation
Indices: 72959022--72959086 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
72959012 CTATGCATGC
72959022 TATATCTAAGATGGGCTAAGGCCCTAAGTTG
1 TATATCTAAGATGGGCTAAGGCCCTAAGTTG
72959053 TATATCTAAGATGGGCTAAGGCCCTAAGTTG
1 TATATCTAAGATGGGCTAAGGCCCTAAGTTG
72959084 TAT
1 TAT
72959087 CTGATTCTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (31 bp):
TATATCTAAGATGGGCTAAGGCCCTAAGTTG
Found at i:72960256 original size:19 final size:19
Alignment explanation
Indices: 72960234--72960271 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
72960224 AAATTATAAG
72960234 AAAAAGAAACAAAAA-AAAA
1 AAAAAGAAA-AAAAAGAAAA
72960253 AAAAAGAAAAAAAAGAAAA
1 AAAAAGAAAAAAAAGAAAA
72960272 GGGGGTCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAAAAGAAAA
Found at i:72960272 original size:14 final size:14
Alignment explanation
Indices: 72960234--72960272 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
72960224 AAATTATAAG
72960234 AAAAAGAAACA-AAA
1 AAAAAGAAA-AGAAA
*
72960248 AAAAAAAAAAGAAA
1 AAAAAGAAAAGAAA
72960262 AAAAAGAAAAG
1 AAAAAGAAAAG
72960273 GGGGTCTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAGAAA
Found at i:72961538 original size:19 final size:19
Alignment explanation
Indices: 72961514--72961554 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
72961504 CTTCTATTCT
72961514 TTCTTTTTTGTAACTGTAA
1 TTCTTTTTTGTAACTGTAA
*
72961533 TTCTTTTTTGTAAGTGTAA
1 TTCTTTTTTGTAACTGTAA
72961552 TTC
1 TTC
72961555 AAAATCTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.59
Consensus pattern (19 bp):
TTCTTTTTTGTAACTGTAA
Found at i:72963135 original size:18 final size:18
Alignment explanation
Indices: 72963108--72963204 Score: 149
Period size: 18 Copynumber: 5.4 Consensus size: 18
72963098 TACGACCGTT
72963108 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
72963126 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
72963144 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
72963162 TACGGCACTATTCACATA
1 TACGGTACTATTCACGTA
*
72963180 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
72963198 TACGGTA
1 TACGGTA
72963205 GTTGGGATTG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:72972185 original size:29 final size:29
Alignment explanation
Indices: 72972143--72972201 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
72972133 TTCCTTGTGT
72972143 AGGAGAGAACCATAATCCTTGACCATGTC
1 AGGAGAGAACCATAATCCTTGACCATGTC
72972172 AGGAGAGAACCATAATCCTTGACCATGTC
1 AGGAGAGAACCATAATCCTTGACCATGTC
72972201 A
1 A
72972202 ATTATTGTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (29 bp):
AGGAGAGAACCATAATCCTTGACCATGTC
Found at i:72980350 original size:394 final size:394
Alignment explanation
Indices: 72979615--72980400 Score: 1306
Period size: 394 Copynumber: 2.0 Consensus size: 394
72979605 ATGTAAAGCC
* * *
72979615 GGTAGGATATAAATGGCTATTTGTATGAAAACGAAATAAGAAAAATGAAGTCGTAACATATAAAT
1 GGTAGGATATAAATAGATATTTGTACGAAAACGAAATAAGAAAAATGAAGTCGTAACATATAAAT
* *
72979680 CACGACTTGTAGCACAAATATTTTCGCAAAGACCCGACATTGATTATGAAGAGACATATTCTCCT
66 CACAACTTGTAGCACAAAGATTTTCGCAAAGACCCGACATTGATTATGAAGAGACATATTCTCCT
* * *
72979745 GTGGTGGATACAATCATGTTTAGATACCTTATTAGTCTAGCAGTATGTGAAAAACTTGACATGCA
131 GTGGTGGATACAAACACGTTTAGATACCTTATTAGTCTAGCAATATGTGAAAAACTTGACATGCA
* *
72979810 CCTAATGAATGTTGTTACAACCTATTTGTATGGTACACTTAGAGGTGTTCATGGGTCGAGCTACC
196 CCTAATGAATGTTGTTACAACCTATTTGTATGGTACACTTAGAGGTGTTCATAGGCCGAGCTACC
* * *
72979875 CGGCCCAGCCTGAAAGCCCTCCCAAAATGTGGGAGGGTTTGGGCAAAAATATAGGCTCGAAAAAT
261 CGGCCCAGCCCGAAAGCCCTCCCAAAATGTGGGAGGGTTTGGGAAAAAATATAGGCTCAAAAAAT
* *
72979940 AGGCTTGGACAAAAAAATAAGACCCGTTTAAAAAATGGGTTAGGCCTCGGGTAAGGTATTTTTAG
326 AGGCTTGGAAAAAAAAATAAGACCCGTTTAAAAAATGGGTCAGGCCTCGGGTAAGGTATTTTTAG
72980005 CCCG
391 CCCG
*
72980009 GGTAGGATATAAATAGATATTTGTACGAAAATGAAATAAGAAAAATGAAGTCGTAACATATAAAT
1 GGTAGGATATAAATAGATATTTGTACGAAAACGAAATAAGAAAAATGAAGTCGTAACATATAAAT
* * *
72980074 CACAACTTGTAGCACAAGGATTTTCGCAAAGACCCGACATTGATTATGAAGAGATATATTTTCCT
66 CACAACTTGTAGCACAAAGATTTTCGCAAAGACCCGACATTGATTATGAAGAGACATATTCTCCT
* *
72980139 GTGGTGGATGCAAACACGTTTAGATACCTTATTAGTCTGGCAATATGTGAAAAACTTGACATGCA
131 GTGGTGGATACAAACACGTTTAGATACCTTATTAGTCTAGCAATATGTGAAAAACTTGACATGCA
*
72980204 CCTAATGAATGTTGTTACAACCTATTTGTATGGTACACTTAGAGGTGTTCATAGGCCGAGCTATC
196 CCTAATGAATGTTGTTACAACCTATTTGTATGGTACACTTAGAGGTGTTCATAGGCCGAGCTACC
* * *
72980269 CGGCTC-GACCCGAAGGCCCTCCCGAAATGTGGGAGGGTTTGGGAAAAAATATAGGCTCAAAAAA
261 CGGCCCAG-CCCGAAAGCCCTCCCAAAATGTGGGAGGGTTTGGGAAAAAATATAGGCTCAAAAAA
*
72980333 T-GGACTTGGAAAAAAAAATAAGGCCCGTTTAAAAAATGGGTCAGGCCTCGGGTAAGGTATTTTT
325 TAGG-CTTGGAAAAAAAAATAAGACCCGTTTAAAAAATGGGTCAGGCCTCGGGTAAGGTATTTTT
72980397 AGCC
389 AGCC
72980401 TGGGCCCGGC
Statistics
Matches: 364, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
393 3 0.01
394 361 0.99
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (394 bp):
GGTAGGATATAAATAGATATTTGTACGAAAACGAAATAAGAAAAATGAAGTCGTAACATATAAAT
CACAACTTGTAGCACAAAGATTTTCGCAAAGACCCGACATTGATTATGAAGAGACATATTCTCCT
GTGGTGGATACAAACACGTTTAGATACCTTATTAGTCTAGCAATATGTGAAAAACTTGACATGCA
CCTAATGAATGTTGTTACAACCTATTTGTATGGTACACTTAGAGGTGTTCATAGGCCGAGCTACC
CGGCCCAGCCCGAAAGCCCTCCCAAAATGTGGGAGGGTTTGGGAAAAAATATAGGCTCAAAAAAT
AGGCTTGGAAAAAAAAATAAGACCCGTTTAAAAAATGGGTCAGGCCTCGGGTAAGGTATTTTTAG
CCCG
Found at i:72980757 original size:18 final size:18
Alignment explanation
Indices: 72980721--72980758 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
72980711 GAAATATTTA
*
72980721 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
72980739 TTTTGATGTATTATA-TAT
1 TTTTGATGT-TTATAGTAT
72980757 TT
1 TT
72980759 AAAAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:72983560 original size:47 final size:47
Alignment explanation
Indices: 72983451--72983561 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
72983441 CCGGGATAAG
* * * *
72983451 CACATAGTGCTTCATCGGAATAAATCTGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
72983498 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
72983545 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
72983562 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Done.