Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 62 of 136
Found at i:20626220 original size:16 final size:16
Alignment explanation
Indices: 20626195--20626232 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
20626185 AGGATTACCT
*
20626195 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
20626211 GTTACACCTCTATTCC
1 ATTACACCTCTATTCC
20626227 ATTACA
1 ATTACA
20626233 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.24, C:0.34, G:0.05, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:20627219 original size:22 final size:20
Alignment explanation
Indices: 20627174--20627219 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
20627164 AGAGGGGTCA
*
20627174 ACACGCCTATGCGGAGGGGC
1 ACACGCCTAAGCGGAGGGGC
*
20627194 ACACGCCTAAGTGGAAGGAGGC
1 ACACGCCTAAGCGG-AGG-GGC
20627216 ACAC
1 ACAC
20627220 ACCCGTGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 3 0.14
22 7 0.32
ACGTcount: A:0.28, C:0.28, G:0.35, T:0.09
Consensus pattern (20 bp):
ACACGCCTAAGCGGAGGGGC
Found at i:20630201 original size:39 final size:40
Alignment explanation
Indices: 20630064--20630202 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
20630054 TGGCGTTTGG
*
20630064 ACAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
* *
20630104 ACACAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
* * * *
20630144 -CAGGAAAGCACCGCTAAAAAT-GAGCATTAGCGGCGTTTTT
1 ACA-AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG-CTTT
20630184 ACAAAAAACGCCG-TAAAAA
1 ACAAAAAACGCCGCTAAAAA
20630203 ACCTAAGCCC
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
39 22 0.26
40 61 0.72
41 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (40 bp):
ACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
Found at i:20630295 original size:41 final size:41
Alignment explanation
Indices: 20630235--20630556 Score: 437
Period size: 41 Copynumber: 7.9 Consensus size: 41
20630225 TTCTGACCTT
* * * *
20630235 TCAGGGCTTTAGTGGCGTTTTTAAAAAACCGTCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * *
20630276 TCAGGGCTTTAGCGTCGTTTTTGGAGAAGCACCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
20630317 TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCTCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
20630358 TTAGGGCTTTAGCGTCGTTTTTGAAAAAGCGCCGCTAATCC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
20630399 TCAGGGATTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
20630440 TCAAGGCTTTAGCGGCGTTTTTGTAAAAGCGCCGCCAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
20630481 TTAGGGCGTTAGCGGCGTTTTTGAAAAAGCGTCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
20630522 TCAGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
1 TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
20630557 AAAAACATTT
Statistics
Matches: 245, Mismatches: 36, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 245 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (41 bp):
TCAGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:20631094 original size:7 final size:7
Alignment explanation
Indices: 20631072--20631106 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
20631062 TATTAAATAA
20631072 GGTTTATG
1 GGTTTA-G
20631080 GG-TTAG
1 GGTTTAG
20631086 GGTTTAG
1 GGTTTAG
20631093 GGTTTAG
1 GGTTTAG
20631100 GGTTTAG
1 GGTTTAG
20631107 ATTAATTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 3 0.12
7 21 0.81
8 2 0.08
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:20631162 original size:69 final size:67
Alignment explanation
Indices: 20631015--20631176 Score: 220
Period size: 69 Copynumber: 2.4 Consensus size: 67
20631005 TGGATTCGGT
* * *
20631015 GTTAG-GTTAAGGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATTAAATAAGGTTTAT
1 GTTAGAGTTAGGGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATTAAATAAAGTTTAG
20631079 GG
66 GG
*
20631081 GTTAGGGTTTAGGGTTTAGGGTTTAGATTAATTAGTGT-TTTTAATTTATATATTAAATAAAGTT
1 GTTAGAG-TTAGGGTTTAGGGTTTAGATTAATTAGTGTATTTTAA-TT-TATATTAAATAAAGTT
20631145 TAGGG
63 TAGGG
* *
20631150 GTTAGTAGTTAGGGGTTAGGGGTTAGA
1 GTTAG-AGTTAGGGTTTAGGGTTTAGA
20631177 GGTTACGAGT
Statistics
Matches: 85, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
66 5 0.06
67 7 0.08
68 31 0.36
69 41 0.48
70 1 0.01
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.44
Consensus pattern (67 bp):
GTTAGAGTTAGGGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATTAAATAAAGTTTAG
GG
Found at i:20631174 original size:14 final size:14
Alignment explanation
Indices: 20631144--20631188 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
20631134 TAAATAAAGT
*
20631144 TTAGGGGTTAGTAG
1 TTAGGGGTTAGGAG
*
20631158 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGAG
* *
20631172 TTAGAGGTTACGAG
1 TTAGGGGTTAGGAG
20631186 TTA
1 TTA
20631189 CTGATTTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.22, C:0.02, G:0.42, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAGGAG
Found at i:20631188 original size:21 final size:21
Alignment explanation
Indices: 20631144--20631188 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20631134 TAAATAAAGT
* *
20631144 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGTAGTTACGAG
20631165 TTAGGGGTTAG-AGGTTACGAG
1 TTAGGGGTTAGTA-GTTACGAG
20631186 TTA
1 TTA
20631189 CTGATTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.22, C:0.02, G:0.42, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTACGAG
Found at i:20632032 original size:78 final size:78
Alignment explanation
Indices: 20631950--20632249 Score: 600
Period size: 78 Copynumber: 3.8 Consensus size: 78
20631940 TCTCTGTCTA
20631950 TTTGTTTGTTTATTGTCTATTTGGCTTTAATAAGTAGGTTAATGTGTCTGTCTATTTGTTTACAG
1 TTTGTTTGTTTATTGTCTATTTGGCTTTAATAAGTAGGTTAATGTGTCTGTCTATTTGTTTACAG
20632015 CTTAATCTATTTG
66 CTTAATCTATTTG
20632028 TTTGTTTGTTTATTGTCTATTTGGCTTTAATAAGTAGGTTAATGTGTCTGTCTATTTGTTTACAG
1 TTTGTTTGTTTATTGTCTATTTGGCTTTAATAAGTAGGTTAATGTGTCTGTCTATTTGTTTACAG
20632093 CTTAATCTATTTG
66 CTTAATCTATTTG
20632106 TTTGTTTGTTTATTGTCTATTTGGCTTTAATAAGTAGGTTAATGTGTCTGTCTATTTGTTTACAG
1 TTTGTTTGTTTATTGTCTATTTGGCTTTAATAAGTAGGTTAATGTGTCTGTCTATTTGTTTACAG
20632171 CTTAATCTATTTG
66 CTTAATCTATTTG
20632184 TTTGTTTGTTTATTGTCTATTTGGCTTTAATAAGTAGGTTAATGTGTCTGTCTATTTGTTTACAG
1 TTTGTTTGTTTATTGTCTATTTGGCTTTAATAAGTAGGTTAATGTGTCTGTCTATTTGTTTACAG
20632249 C
66 C
20632250 AATATATGAT
Statistics
Matches: 222, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 222 1.00
ACGTcount: A:0.19, C:0.09, G:0.18, T:0.54
Consensus pattern (78 bp):
TTTGTTTGTTTATTGTCTATTTGGCTTTAATAAGTAGGTTAATGTGTCTGTCTATTTGTTTACAG
CTTAATCTATTTG
Found at i:20632964 original size:148 final size:150
Alignment explanation
Indices: 20632685--20632982 Score: 557
Period size: 148 Copynumber: 2.0 Consensus size: 150
20632675 GCAAATAACC
20632685 GGCTTAAGTTGTTTTATGCACATGTGCTAAGTACATGTGCCTTATACACAGTATTTGCACTTAGT
1 GGCTTAAGTTGTTTTATGCACATGTGCTAAGTACATGTGCCTTATACACAGTATTTGCACTTAGT
*
20632750 TACATACTAGTTCATAGGCTCAAATTAATGGGGTTCTATTTTATTTTTTTTTTTGCTTTACCCTT
66 TACATACTAGTTCATAGGCTCAAATTAATAGGGTTCTATTTTATTTTTTTTTTTGCTTTACCCTT
20632815 TCAAGCTGTTTGGGGTTGAA
131 TCAAGCTGTTTGGGGTTGAA
20632835 GGCTTAAG-T-TTTTATGCACATGTGCTAAGTACATGTGCCTTATACACAGTATTTGCACTTAGT
1 GGCTTAAGTTGTTTTATGCACATGTGCTAAGTACATGTGCCTTATACACAGTATTTGCACTTAGT
20632898 TACATACTAGTTCATAGGCTCAAATT-ATAAGGGTTCTATTTTATTTTTTTTTTTGCTTTACCCT
66 TACATACTAGTTCATAGGCTCAAATTAAT-AGGGTTCTATTTTATTTTTTTTTTTGCTTTACCCT
20632962 TTCAAGCTGTTTGGGGTTGAA
130 TTCAAGCTGTTTGGGGTTGAA
20632983 AGGTAACATG
Statistics
Matches: 146, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
147 2 0.01
148 135 0.92
149 1 0.01
150 8 0.05
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.43
Consensus pattern (150 bp):
GGCTTAAGTTGTTTTATGCACATGTGCTAAGTACATGTGCCTTATACACAGTATTTGCACTTAGT
TACATACTAGTTCATAGGCTCAAATTAATAGGGTTCTATTTTATTTTTTTTTTTGCTTTACCCTT
TCAAGCTGTTTGGGGTTGAA
Found at i:20637052 original size:43 final size:43
Alignment explanation
Indices: 20636981--20637165 Score: 219
Period size: 43 Copynumber: 4.3 Consensus size: 43
20636971 GTCAATGTTA
* * * *
20636981 TAGCGGCGTTTGTA-GAAAAAGTGTCGCTAAAGGTCTTGTTCTT
1 TAGCGGCGTTTTTAGGAAAAA-CGCCGCTAAAGGTCTTGGTCTT
* * * *
20637024 TAGCGGCTTTTTTGGGAAAAATGCCGCTAAAGGTATTGGTCTT
1 TAGCGGCGTTTTTAGGAAAAACGCCGCTAAAGGTCTTGGTCTT
* *
20637067 TAGCGGCGTTTCTAGGAAAAACGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTAGGAAAAACGCCGCTAAAGGTCTTGGTCTT
** * * *
20637110 TAGCGGCGTTTGAAGGACAAGCACCGCTAAAGGTCTTGGTCTT
1 TAGCGGCGTTTTTAGGAAAAACGCCGCTAAAGGTCTTGGTCTT
20637153 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
20637166 TTCTAAAAGC
Statistics
Matches: 121, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
43 115 0.95
44 6 0.05
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
TAGCGGCGTTTTTAGGAAAAACGCCGCTAAAGGTCTTGGTCTT
Found at i:20642391 original size:25 final size:25
Alignment explanation
Indices: 20642360--20642407 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
20642350 AAATTCATTG
* * *
20642360 TCTATTAAAGATTTCATTCATTTCT
1 TCTATTAAAAATATCATCCATTTCT
20642385 TCTATTAAAAATATCATCCATTT
1 TCTATTAAAAATATCATCCATTT
20642408 TGCTTGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (25 bp):
TCTATTAAAAATATCATCCATTTCT
Found at i:20646654 original size:7 final size:7
Alignment explanation
Indices: 20646638--20646670 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
20646628 NNNNNNNNNN
*
20646638 TATTTAA
1 TATTTTA
20646645 TATTTTA
1 TATTTTA
20646652 TATTTTA
1 TATTTTA
20646659 TATTTTA
1 TATTTTA
20646666 TATTT
1 TATTT
20646671 AAATATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TATTTTA
Found at i:20646661 original size:14 final size:14
Alignment explanation
Indices: 20646638--20646677 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
20646628 NNNNNNNNNN
20646638 TATTTAATATTTTA
1 TATTTAATATTTTA
*
20646652 TATTTTATATTTTA
1 TATTTAATATTTTA
20646666 TATTTAAATATT
1 TATTT-AATATT
20646678 ATTCTTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTAATATTTTA
Found at i:20646715 original size:20 final size:21
Alignment explanation
Indices: 20646670--20646715 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
20646660 ATTTTATATT
*
20646670 TAAATATTATTCTTTTGATAG
1 TAAATATTATTCTTTTAATAG
*
20646691 AAAATATTATTC-TTTAATAG
1 TAAATATTATTCTTTTAATAG
20646711 TAAAT
1 TAAAT
20646716 TGATGTGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAATATTATTCTTTTAATAG
Found at i:20646983 original size:32 final size:33
Alignment explanation
Indices: 20646930--20646995 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
20646920 GAACACTACA
20646930 CCAAAACAGGTCTTTAGCGGCATTTTTTTAGGCC
1 CCAAAACAGG-CTTTAGCGGCATTTTTTTAGGCC
20646964 CCAAAACAGG-TTTAGCGGCATTTTTTTAGGCC
1 CCAAAACAGGCTTTAGCGGCATTTTTTTAGGCC
20646996 TTTAGCGGCG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 22 0.69
34 10 0.31
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (33 bp):
CCAAAACAGGCTTTAGCGGCATTTTTTTAGGCC
Found at i:20647184 original size:41 final size:42
Alignment explanation
Indices: 20647099--20647207 Score: 136
Period size: 41 Copynumber: 2.6 Consensus size: 42
20647089 CAATGTTTAC
*
20647099 AAGAACATGTT-TTTAGCGGCGCTTAGAAAAAAAAACGCCTCTA
1 AAGACCATGTTCTTTAGCGGCGCTT--AAAAAAAAACGCCTCTA
20647142 AAGACCATGTTCTTTAGCGGCGCTT-AAAAAAAACG-CTACTA
1 AAGACCATGTTCTTTAGCGGCGCTTAAAAAAAAACGCCT-CTA
*
20647183 AAGACCAAT-TTCTTTAGCAGCGCTT
1 AAGACC-ATGTTCTTTAGCGGCGCTT
20647208 TTGTGAAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
40 2 0.03
41 34 0.56
42 2 0.03
43 10 0.16
44 13 0.21
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (42 bp):
AAGACCATGTTCTTTAGCGGCGCTTAAAAAAAAACGCCTCTA
Found at i:20660116 original size:124 final size:125
Alignment explanation
Indices: 20659967--20660217 Score: 495
Period size: 124 Copynumber: 2.0 Consensus size: 125
20659957 TTTTTTTCTA
20659967 ATATAAATTTGATGAGAATAATTTTTTAAATAAAAATAATAATATTTTAAAATTTCTTAAAAGTG
1 ATATAAATTTGATGAGAATAATTTTTTAAATAAAAATAATAATATTTTAAAATTTCTTAAAAGTG
20660032 CTTATATGCATGACACATTTAATCACTTTTTTAAAAATTTTAATTACTCTTTTATGTTTT
66 CTTATATGCATGACACATTTAATCACTTTTTTAAAAATTTTAATTACTCTTTTATGTTTT
20660092 ATATAAATTT-ATGAGAATAATTTTTTAAATAAAAATAATAATATTTTAAAATTTCTTAAAAGTG
1 ATATAAATTTGATGAGAATAATTTTTTAAATAAAAATAATAATATTTTAAAATTTCTTAAAAGTG
20660156 CTTATATGCATGACACATTTAATCACTTTTTTAAAAATTTTAATTACTCTTTTATGTTTT
66 CTTATATGCATGACACATTTAATCACTTTTTTAAAAATTTTAATTACTCTTTTATGTTTT
20660216 AT
1 AT
20660218 GTTGATGTTA
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
124 116 0.92
125 10 0.08
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (125 bp):
ATATAAATTTGATGAGAATAATTTTTTAAATAAAAATAATAATATTTTAAAATTTCTTAAAAGTG
CTTATATGCATGACACATTTAATCACTTTTTTAAAAATTTTAATTACTCTTTTATGTTTT
Found at i:20661869 original size:99 final size:98
Alignment explanation
Indices: 20661744--20661933 Score: 362
Period size: 99 Copynumber: 1.9 Consensus size: 98
20661734 GTCGCCACCG
20661744 ATTTTAACCCGGAATGGATTTAAAATGACAAAACATTCTCATTTCAAAGAAATAAAACACCACAC
1 ATTTTAACCCGGAATGGATTTAAAATGACAAAACATTCTCATTTCAAAGAAATAAAACACCACAC
*
20661809 CCAGTAAGTTAGGGCACAATATTTTAAATAAAA
66 CCAGTAAGTTAAGGCACAATATTTTAAATAAAA
20661842 ATTTTAACCCGTGAATGGATTTAAAATGACAAAACATTCTCATTTCAAAGAAATAAAACACCACA
1 ATTTTAACCCG-GAATGGATTTAAAATGACAAAACATTCTCATTTCAAAGAAATAAAACACCACA
20661907 CCCAGTAAGTTAAGGCACAATATTTTA
65 CCCAGTAAGTTAAGGCACAATATTTTA
20661934 TATTTTCAAA
Statistics
Matches: 90, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
98 11 0.12
99 79 0.88
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (98 bp):
ATTTTAACCCGGAATGGATTTAAAATGACAAAACATTCTCATTTCAAAGAAATAAAACACCACAC
CCAGTAAGTTAAGGCACAATATTTTAAATAAAA
Found at i:20662638 original size:25 final size:26
Alignment explanation
Indices: 20662592--20662651 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
20662582 TAAACATATG
20662592 AATTATAAAACATGAAAATATA-AAT
1 AATTATAAAACATGAAAATATATAAT
* **
20662617 AATTATAAAATATGAATGTATATAAT
1 AATTATAAAACATGAAAATATATAAT
20662643 -ATATATAAA
1 AAT-TATAAA
20662652 CTATATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 21 0.70
26 9 0.30
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AATTATAAAACATGAAAATATATAAT
Found at i:20663321 original size:17 final size:18
Alignment explanation
Indices: 20663288--20663321 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20663278 ACAAGATGGA
*
20663288 AAATGAAAAAGGAAAAAC
1 AAATGAAAAAGAAAAAAC
20663306 AAAT-AAAAAGAAAAAA
1 AAATGAAAAAGAAAAAA
20663322 GGAACAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (18 bp):
AAATGAAAAAGAAAAAAC
Found at i:20664641 original size:131 final size:132
Alignment explanation
Indices: 20664378--20664731 Score: 476
Period size: 131 Copynumber: 2.7 Consensus size: 132
20664368 AGGAAACAGG
* * * * * * *
20664378 ATCCGCCGTCATCAGTCTACTCCACTACTGCTTAGGGAGATAAGATCTGCTATTCTTCGATCGAT
1 ATCCGCCATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTG-AAATCTTCAATCTAT
* * *
20664443 TCCACTGTCGACCAGGGAGATAGAATTACTAGCTTCAATGTACTTCACTGTAACCCCAGGGAGGT
65 TCCACTGCCAACCAGGGAGATAGAATTACTAGCTTCAATGTACTACACTGTAACCCCAGGGAGGT
20664508 AAA
130 AAA
* * *
20664511 ATCCGCCATCTTCAATCTGCTCCACTACCGCTTAGGGAAATAAGATCTGAAATCTTCAATCTATT
1 ATCCGCCATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATT
* * *
20664576 CCACTGCCAACCAGGGGGATAGAATTAC-GGCTTCAATGTACTACACTGTAACCTCAGGGAGGTA
66 CCACTGCCAACCAGGGAGATAGAATTACTAGCTTCAATGTACTACACTGTAACCCCAGGGAGGTA
20664640 AA
131 AA
* ** * * * *
20664642 ATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTATT
1 ATCCGCCATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATT
*
20664707 CCACTGCCAACTAGGGAGATAGAAT
66 CCACTGCCAACCAGGGAGATAGAAT
20664732 CTGAAATCTT
Statistics
Matches: 193, Mismatches: 28, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
131 113 0.59
132 37 0.19
133 43 0.22
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (132 bp):
ATCCGCCATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATT
CCACTGCCAACCAGGGAGATAGAATTACTAGCTTCAATGTACTACACTGTAACCCCAGGGAGGTA
AA
Found at i:20664725 original size:44 final size:45
Alignment explanation
Indices: 20664544--20664918 Score: 189
Period size: 44 Copynumber: 8.6 Consensus size: 45
20664534 ACTACCGCTT
*
20664544 AGGGAAATAAG-ATCTGAAATCTTCAATCTATTCCACTGCCAACC
1 AGGGAGATAAGAATCTGAAATCTTCAATCTATTCCACTGCCAACC
* *** * * * *
20664588 AGGGGGAT-AGAAT-T-ACGGCTTCAATGTACTACACTG-TAACCTC
1 AGGGAGATAAGAATCTGAAATCTTCAATCTATTCCACTGCCAA-C-C
* ** ** * *
20664631 AGGGAGGTAA-AATCTGCCATCTTTGATCTACTCTACT---AATGCC
1 AGGGAGATAAGAATCTGAAATCTTCAATCTATTCCACTGCCAA--CC
* *
20664674 TAAGGAGATAAG-ATCTGAAATCTTCAATCTATTCCACTGCCAACT
1 -AGGGAGATAAGAATCTGAAATCTTCAATCTATTCCACTGCCAACC
20664719 AGGGAGAT-AGAATCTGAAATCTTCAATCTATTCCACTGCCAACC
1 AGGGAGATAAGAATCTGAAATCTTCAATCTATTCCACTGCCAACC
*** * * * *
20664763 AGGGAGAT-AGAAT-T-ACGGCTTCAATGTACTACACTG-TAACCTC
1 AGGGAGATAAGAATCTGAAATCTTCAATCTATTCCACTGCCAA-C-C
* ** ** * *
20664806 AGGGAGGTAA-AATCTGCCATCTTTGATCTACTCTACT---AATGCC
1 AGGGAGATAAGAATCTGAAATCTTCAATCTATTCCACTGCCAA--CC
* * *
20664849 TAAGGAGATAAG-ATCTGAAATCTTCAATCTATTCTATTGCCAACC
1 -AGGGAGATAAGAATCTGAAATCTTCAATCTATTCCACTGCCAACC
*
20664894 AGGGAGAT-AGAATCTAAAATCTTCA
1 AGGGAGATAAGAATCTGAAATCTTCA
20664919 TAGAATCTGA
Statistics
Matches: 248, Mismatches: 58, Indels: 50
0.70 0.16 0.14
Matches are distributed among these distances:
41 4 0.02
42 34 0.14
43 35 0.14
44 142 0.57
45 29 0.12
47 4 0.02
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (45 bp):
AGGGAGATAAGAATCTGAAATCTTCAATCTATTCCACTGCCAACC
Found at i:20664759 original size:175 final size:175
Alignment explanation
Indices: 20664555--20665275 Score: 1172
Period size: 175 Copynumber: 4.0 Consensus size: 175
20664545 GGGAAATAAG
*
20664555 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACGGCTTCAATGTACTAC
1 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTAC
20664620 ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
66 ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
*
20664685 GATCTGAAATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGA
131 GATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGA
20664730 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTAC
1 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTAC
20664795 ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
66 ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
* *
20664860 GATCTGAAATCTTCAATCTATTCTATTGCCAACCAGGGAGATAGAATCTAAAATCTTCATAGA
131 GATCTGAAATCTTCAATCTATTCCACTGCCAACCA-GG-G--AG--------------ATAGA
*
20664923 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTC
1 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTAC-GGCTTCAATGTACTA
20664988 CACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATA
65 CACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATA
* *
20665053 AGATCTGAAATCTTCAATATATTCTACTGCCAACCAGGGAGATAGA
130 AGATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGA
* *
20665099 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGACTTCAATGTACTCC
1 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTAC
* *
20665164 ACTGTAACCTCAGGGAGGTAAAATCTGCCATTTTTGATCTACTCTACTAATGCCTAGGGAGATAA
66 ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
20665229 GATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGA
131 GATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGA
20665274 AT
1 AT
20665276 TAGTATCTTC
Statistics
Matches: 515, Mismatches: 12, Indels: 38
0.91 0.02 0.07
Matches are distributed among these distances:
175 284 0.55
176 56 0.11
177 1 0.00
179 2 0.00
190 2 0.00
192 1 0.00
193 56 0.11
194 113 0.22
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (175 bp):
ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTAC
ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
GATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGA
Found at i:20664923 original size:18 final size:18
Alignment explanation
Indices: 20664900--20664936 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
20664890 AACCAGGGAG
20664900 ATAGAATCTAAAATCTTC
1 ATAGAATCTAAAATCTTC
*
20664918 ATAGAATCTGAAATCTTC
1 ATAGAATCTAAAATCTTC
20664936 A
1 A
20664937 ATCTATTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.32
Consensus pattern (18 bp):
ATAGAATCTAAAATCTTC
Found at i:20664968 original size:44 final size:44
Alignment explanation
Indices: 20664918--20665275 Score: 199
Period size: 44 Copynumber: 8.2 Consensus size: 44
20664908 TAAAATCTTC
*
20664918 ATAGAATCTGAAATCTTCAATCTATTCCACTGCCAA-CCAGGGAG
1 ATAGAATCTGAAATCTTCAATCTACTCCACTG-CAACCCAGGGAG
* * *
20664962 ATAGAATTACTG---GCTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATAGAA-T-CTGAAATCTTCAATCTACTCCACTGCAACC-CAGGGAG
* * ** ** * * *
20665006 GTAAAATCTGCCATCTTTGATCTACTCTACT--AATGCCTAAGGAG
1 ATAGAATCTGAAATCTTCAATCTACTCCACTGCAA--CCCAGGGAG
* * *
20665050 ATA-AGATCTGAAATCTTCAATATATTCTACTGCCAA-CCAGGGAG
1 ATAGA-ATCTGAAATCTTCAATCTACTCCACTG-CAACCCAGGGAG
*
20665094 ATAGAATCTGAAATCTTCAATCTATTCCACTGCCAA-CCAGGGAG
1 ATAGAATCTGAAATCTTCAATCTACTCCACTG-CAACCCAGGGAG
* * *
20665138 ATAGAAT-T-ACGA-CTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATAGAATCTGA-AATCTTCAATCTACTCCACTGCAACC-CAGGGAG
* * ** * ** * *
20665181 GTAAAATCTGCCATTTTTGATCTACTCTACT--AATGCCTAGGGAG
1 ATAGAATCTGAAATCTTCAATCTACTCCACTGCAA--CCCAGGGAG
*
20665225 ATA-AGATCTGAAATCTTCAATCTATTCCACTGCCAA-CCAGGGAG
1 ATAGA-ATCTGAAATCTTCAATCTACTCCACTG-CAACCCAGGGAG
20665269 ATAGAAT
1 ATAGAAT
20665276 TAGTATCTTC
Statistics
Matches: 240, Mismatches: 47, Indels: 54
0.70 0.14 0.16
Matches are distributed among these distances:
41 2 0.01
42 23 0.10
43 38 0.16
44 138 0.57
45 32 0.13
46 3 0.01
47 4 0.02
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (44 bp):
ATAGAATCTGAAATCTTCAATCTACTCCACTGCAACCCAGGGAG
Found at i:20665233 original size:369 final size:368
Alignment explanation
Indices: 20664555--20665275 Score: 1334
Period size: 369 Copynumber: 2.0 Consensus size: 368
20664545 GGGAAATAAG
*
20664555 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGGGATAGAATTACGGCTTCAATGTACTAC
1 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTAC
20664620 ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
66 ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
* *
20664685 GATCTGAAATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATCTGAAATCTTCAATCTAT
131 GATCTGAAATCTTCAATATATTCCACTGCCAACCAGGGAGATAGAATCTGAAATCTTCAATCTAT
*
20664750 TCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTACACTGTAACCTCAGGGAGGTA
196 TCCACTGCCAACCAGGGAGATAGAATTACGACTTCAATGTACTACACTGTAACCTCAGGGAGGTA
20664815 AAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTA
261 AAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTA
* *
20664880 TTCTATTGCCAACCAGGGAGATAGAATCTAAAATCTTCATAGA
326 TTCCACTGCCAACCAGGGAGATAGAATCTAAAATCTTCATAGA
*
20664923 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTC
1 ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTAC-GGCTTCAATGTACTA
20664988 CACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATA
65 CACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATA
*
20665053 AGATCTGAAATCTTCAATATATTCTACTGCCAACCAGGGAGATAGAATCTGAAATCTTCAATCTA
130 AGATCTGAAATCTTCAATATATTCCACTGCCAACCAGGGAGATAGAATCTGAAATCTTCAATCTA
*
20665118 TTCCACTGCCAACCAGGGAGATAGAATTACGACTTCAATGTACTCCACTGTAACCTCAGGGAGGT
195 TTCCACTGCCAACCAGGGAGATAGAATTACGACTTCAATGTACTACACTGTAACCTCAGGGAGGT
* *
20665183 AAAATCTGCCATTTTTGATCTACTCTACTAATGCCTAGGGAGATAAGATCTGAAATCTTCAATCT
260 AAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCT
20665248 ATTCCACTGCCAACCAGGGAGATAGAAT
325 ATTCCACTGCCAACCAGGGAGATAGAAT
20665276 TAGTATCTTC
Statistics
Matches: 341, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
368 48 0.14
369 293 0.86
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (368 bp):
ATCTGAAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACGGCTTCAATGTACTAC
ACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAA
GATCTGAAATCTTCAATATATTCCACTGCCAACCAGGGAGATAGAATCTGAAATCTTCAATCTAT
TCCACTGCCAACCAGGGAGATAGAATTACGACTTCAATGTACTACACTGTAACCTCAGGGAGGTA
AAATCTGCCATCTTTGATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTA
TTCCACTGCCAACCAGGGAGATAGAATCTAAAATCTTCATAGA
Found at i:20678588 original size:26 final size:24
Alignment explanation
Indices: 20678544--20678591 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
20678534 CCAGGAAAAT
20678544 AATATTATTAGATTATTAAATAAA
1 AATATTATTAGATTATTAAATAAA
20678568 AATATTTATTGAGCATT-TTAAATA
1 AATA-TTATT-AG-ATTATTAAATA
20678592 TTCGAATGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.19
25 5 0.24
26 9 0.43
27 3 0.14
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (24 bp):
AATATTATTAGATTATTAAATAAA
Found at i:20681177 original size:32 final size:34
Alignment explanation
Indices: 20681106--20681185 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
20681096 AAAAATTTAT
* *
20681106 ATTTCTTAAA-AA-ATATATATAAATTTTAAAATA
1 ATTTC-TAAATAATATATAAATAAATGTTAAAATA
*
20681139 AATTCTAAATAATATATAAATAAA-GTTAAAA-A
1 ATTTCTAAATAATATATAAATAAATGTTAAAATA
20681171 ATTTCTAAAATAATA
1 ATTTCT-AAATAATA
20681186 ATTTTGAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 10 0.25
33 20 0.50
34 10 0.25
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (34 bp):
ATTTCTAAATAATATATAAATAAATGTTAAAATA
Found at i:20681181 original size:22 final size:22
Alignment explanation
Indices: 20681126--20681183 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
20681116 AAATATATAT
*
20681126 AAATTTTAAAATAAATTCTAAA
1 AAATTTTAAAATAAAGTCTAAA
* *
20681148 TAA-TATATAAATAAAGT-TAAA
1 AAATTTTA-AAATAAAGTCTAAA
20681169 AAATTTCTAAAATAA
1 AAATTT-TAAAATAA
20681184 TAATTTTGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
21 9 0.32
22 17 0.61
23 2 0.07
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATTTTAAAATAAAGTCTAAA
Found at i:20684838 original size:35 final size:35
Alignment explanation
Indices: 20684799--20684996 Score: 105
Period size: 35 Copynumber: 5.4 Consensus size: 35
20684789 GTGCCCAACA
20684799 CTAGTCAGATAAACTGACAGAATTTGCGCCCAGCG
1 CTAGTCAGATAAACTGACAGAATTTGCGCCCAGCG
* * * * ***
20684834 CTAGTCGGATATACTGA-TGATTATAATAATGTGCCCAATA
1 CTAGTCAGATAAACTGACAGA--AT--T--TGCGCCCAGCG
* * * *
20684874 CTAGTCAGATGAACTAACAGAAGTTGCGCCCAGTG
1 CTAGTCAGATAAACTGACAGAATTTGCGCCCAGCG
* * *
20684909 CTAGTCAGATAAACAGACA-AATACAATGGTGTGCCCAGCA
1 CTAGTCAGATAAACTGACAGAAT----T--TGCGCCCAGCG
* *
20684949 CTAGTCAGATAAACTGAC-GAAAGTTGCACCCAGCG
1 CTAGTCAGATAAACTGACAG-AATTTGCGCCCAGCG
*
20684984 CTAGTCGGATAAA
1 CTAGTCAGATAAA
20684997 TCAACAAATA
Statistics
Matches: 119, Mismatches: 29, Indels: 30
0.67 0.16 0.17
Matches are distributed among these distances:
34 4 0.03
35 59 0.50
36 2 0.02
37 2 0.02
38 2 0.02
39 1 0.01
40 45 0.38
41 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (35 bp):
CTAGTCAGATAAACTGACAGAATTTGCGCCCAGCG
Found at i:20684901 original size:75 final size:74
Alignment explanation
Indices: 20684746--20685068 Score: 369
Period size: 75 Copynumber: 4.3 Consensus size: 74
20684736 TAACTAAACT
* * * *
20684746 TTGCGCCTAGCGCTAGTCAGATGAACTGACAAATATAAAGAGCGTGCCCAACACTAGTCAGATAA
1 TTGCGCCCAGCGCTAGTCGGAT-AACTGACAAATATAATG-GTGTGCCCAACACTAGTCAGATAA
*
20684811 ACTGACAGAAT
64 ACTGACAGAAG
** * ** * *
20684822 TTGCGCCCAGCGCTAGTCGGATATACTGATGATTATAATAATGTGCCCAATACTAGTCAGATGAA
1 TTGCGCCCAGCGCTAGTCGGATA-ACTGACAAATATAATGGTGTGCCCAACACTAGTCAGATAAA
*
20684887 CTAACAGAAG
65 CTGACAGAAG
* * * * *
20684897 TTGCGCCCAGTGCTAGTCAGATAAACAGACAAATACAATGGTGTGCCCAGCACTAGTCAGATAAA
1 TTGCGCCCAGCGCTAGTCGGAT-AACTGACAAATATAATGGTGTGCCCAACACTAGTCAGATAAA
20684962 CTGAC-GAAAG
65 CTGACAG-AAG
* * *
20684972 TTGCACCCAGCGCTAGTCGGATAAATCAACAAATATAATGGTGTGCCCAACACTAGTCAGATAAA
1 TTGCGCCCAGCGCTAGTCGGATAACT-GACAAATATAATGGTGTGCCCAACACTAGTCAGATAAA
*
20685037 CTGACAAAAG
65 CTGACAGAAG
* *
20685047 TTGCGCCTAGCACTAGTCGGAT
1 TTGCGCCCAGCGCTAGTCGGAT
20685069 GAATCGACAA
Statistics
Matches: 204, Mismatches: 38, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
74 3 0.01
75 169 0.83
76 32 0.16
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (74 bp):
TTGCGCCCAGCGCTAGTCGGATAACTGACAAATATAATGGTGTGCCCAACACTAGTCAGATAAAC
TGACAGAAG
Found at i:20684956 original size:40 final size:39
Alignment explanation
Indices: 20684909--20685044 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
20684899 GCGCCCAGTG
20684909 CTAGTCAGATAAACAGACAAATACAATGGTGTGCCCAGCA
1 CTAGTCAGATAAACAGACAAATA-AATGGTGTGCCCAGCA
* * * ** *
20684949 CTAGTCAGATAAACTGAC---GAAA-GTTGCACCCAGCG
1 CTAGTCAGATAAACAGACAAATAAATGGTGTGCCCAGCA
* *
20684984 CTAGTCGGATAAATCA-ACAAATATAATGGTGTGCCCAACA
1 CTAGTCAGATAAA-CAGACAAATA-AATGGTGTGCCCAGCA
*
20685024 CTAGTCAGATAAACTGACAAA
1 CTAGTCAGATAAACAGACAAA
20685045 AGTTGCGCCT
Statistics
Matches: 73, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
35 23 0.32
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 42 0.58
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (39 bp):
CTAGTCAGATAAACAGACAAATAAATGGTGTGCCCAGCA
Found at i:20685078 original size:150 final size:151
Alignment explanation
Indices: 20684746--20685071 Score: 406
Period size: 150 Copynumber: 2.2 Consensus size: 151
20684736 TAACTAAACT
* *
20684746 TTGCGCCTAGCGCTAGTCAGATGAACTGACAAATATAAAGAGCGTGCCCAACACTAGTCAGATAA
1 TTGCGCCTAGCGCTAGTCAGATGAACAGACAAATACAAAGAGCGTGCCCAACACTAGTCAGATAA
* * * * ** * *
20684811 ACTGACAGAATTTGCGCCCAGCGCTAGTCGGATATACTGATGATTATAATAATGTGCCCAATACT
66 ACTGACAGAAGTTGCACCCAGCGCTAGTCGGATAAACTAACAAATATAATAATGTGCCCAACACT
* *
20684876 AGTCAGATGAACTAACAGAAG
131 AGTCAGATAAACTAACAAAAG
* * * * * *
20684897 TTGCGCCCAGTGCTAGTCAGATAAACAGACAAATACAATG-GTGTGCCCAGCACTAGTCAGATAA
1 TTGCGCCTAGCGCTAGTCAGATGAACAGACAAATACAAAGAGCGTGCCCAACACTAGTCAGATAA
**
20684961 ACTGAC-GAAAGTTGCACCCAGCGCTAGTCGGATAAA-TCAACAAATATAATGGTGTGCCCAACA
66 ACTGACAG-AAGTTGCACCCAGCGCTAGTCGGATAAACT-AACAAATATAATAATGTGCCCAACA
*
20685024 CTAGTCAGATAAACTGACAAAAG
129 CTAGTCAGATAAACTAACAAAAG
* *
20685047 TTGCGCCTAGCACTAGTCGGATGAA
1 TTGCGCCTAGCGCTAGTCAGATGAA
20685072 TCGACAATGG
Statistics
Matches: 147, Mismatches: 26, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
149 2 0.01
150 111 0.76
151 34 0.23
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (151 bp):
TTGCGCCTAGCGCTAGTCAGATGAACAGACAAATACAAAGAGCGTGCCCAACACTAGTCAGATAA
ACTGACAGAAGTTGCACCCAGCGCTAGTCGGATAAACTAACAAATATAATAATGTGCCCAACACT
AGTCAGATAAACTAACAAAAG
Found at i:20687689 original size:42 final size:42
Alignment explanation
Indices: 20687625--20687734 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
20687615 TGTGTCTCAA
* * *
20687625 CCACGCAATCGTGCATCACTGTCACACGGGCGTGT-CATTCAG
1 CCACGCGATCGTGTATCTCTGTCACACGGGCGTGTCCATT-AG
* * * *
20687667 CCACGCGACCGTGTATCTCTGTCACATGGGTGTGTCCCTTAG
1 CCACGCGATCGTGTATCTCTGTCACACGGGCGTGTCCATTAG
*
20687709 CCACACGATCGTGTAT-TCCTGTCACA
1 CCACGCGATCGTGTATCT-CTGTCACA
20687735 TGGTTTGGAC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.02
42 53 0.93
43 3 0.05
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.25
Consensus pattern (42 bp):
CCACGCGATCGTGTATCTCTGTCACACGGGCGTGTCCATTAG
Found at i:20691441 original size:21 final size:22
Alignment explanation
Indices: 20691417--20691459 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20691407 TTTTAAATGA
*
20691417 TAAA-TATGTTTTTTAATAAAT
1 TAAATTATATTTTTTAATAAAT
*
20691438 TAAATTATATTTTTTTATAAAT
1 TAAATTATATTTTTTAATAAAT
20691460 ATTAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TAAATTATATTTTTTAATAAAT
Found at i:20696645 original size:418 final size:421
Alignment explanation
Indices: 20695828--20696619 Score: 1128
Period size: 418 Copynumber: 1.9 Consensus size: 421
20695818 TGGTAAGTTC
* * * *
20695828 TAAGACTTAAATCATTCATTGTACATTGTTGAAATAGTGGGTTGATTCTCTAAGCAAGGCATTGT
1 TAAGACTTAAATCATTCACTGTACATGGTTGAAATAGCGGGTTGATTCTCTAAGCAAGGCACTGT
* * ** * *
20695893 AGTCATTGGTGTTTATCGAACAACATAACCAATTGTTTTTGTATTACTGTTCTTTATTTGTTATA
66 AGACATAGGTGTTTATCGAACAACATAACCAATTACTTTTGTATTACTGTTATTCATTTGTTATA
* *
20695958 CACCTCAAGTATAACTGCTCATATAATATTACTTACAAAATTAAACTATTCTTGCATTTGATATT
131 CACCTCAAGTATAACTGCTCATATAATATTACTTACAAAATTAAACTATTCTTACATTTGACATT
* * *
20696023 AAAATCTAACACTTGACATAGTAAGTGGTGTTTCTGGTGTTGATTTTTGCTAGTAATAGAAGGTT
196 AAAATCTAACACTTGACATAGTAAGTGATGTTTCTAGTGTTGATTTTTGCTAGCAATAGAAGGTT
* * * * * *
20696088 CATCTGTTTCATGTCCCTTAGTGTTGGATGGATCCAATTACACGTACTAGAGGGCAAAGATGAAT
261 CATCTGTCTCATGTCCATTAGTGTTGGATGGATCCAACTACACGTAATAGAAGGCAAAGATGAAG
* * ** *
20696153 GCACTTATAAAGTTAATGGATGAACAGGCCTGGTGTACAATTTTTACTAAATAGGAGCCACCTAC
326 GCACTTATAAACTTAATGGATGAAAAGGCCTGGCATACAATTCTTACTAAATAGGAGCCACCTAC
20696218 AACTAAAACCAATTGCTACACAGGTGAGTGG
391 AACTAAAACCAATTGCTACACAGGTGAGTGG
* *
20696249 TAAGACTTAAATCATTCACTGTACATGGTTGAAATAGCGGGTTGATTCTTTAAGTAAGGCACTGT
1 TAAGACTTAAATCATTCACTGTACATGGTTGAAATAGCGGGTTGATTCTCTAAGCAAGGCACTGT
* *
20696314 AGACATAGGTGTTTA-CTGAACAACATAACCAATTACTTTTGTATTATTGTTATTCATTTTTTAT
66 AGACATAGGTGTTTATC-GAACAACATAACCAATTACTTTTGTATTACTGTTATTCATTTGTTAT
* *
20696378 ACACCTCAAGTATAACTGCTCA-ATAATATTACTTGC-AAA-TAGACTATTCTTACATTTGACAT
130 ACACCTCAAGTATAACTGCTCATATAATATTACTTACAAAATTAAACTATTCTTACATTTGACAT
* * *
20696440 TAGAGTCTAACACTTGACGTAGTAAGTGATGTTTCTAGTGTTGATTTTTGCTAGCAAT-GAAAGG
195 TAAAATCTAACACTTGACATAGTAAGTGATGTTTCTAGTGTTGATTTTTGCTAGCAATAG-AAGG
* * * *
20696504 TTCGTTTGTCTCATGTCCATTAGTGTTGGATGGATCCAACTACATGTAATAGAAGGCAAGGATGA
259 TTCATCTGTCTCATGTCCATTAGTGTTGGATGGATCCAACTACACGTAATAGAAGGCAAAGATGA
* * * *
20696569 AGGTA-TTCATAAACTTAATGGATGAAAAGGCTTGGCATATAGTTCTTACTA
324 AGGCACTT-ATAAACTTAATGGATGAAAAGGCCTGGCATACAATTCTTACTA
20696620 GATGAGAGTT
Statistics
Matches: 325, Mismatches: 43, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
417 3 0.01
418 170 0.52
419 3 0.01
420 14 0.04
421 135 0.42
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (421 bp):
TAAGACTTAAATCATTCACTGTACATGGTTGAAATAGCGGGTTGATTCTCTAAGCAAGGCACTGT
AGACATAGGTGTTTATCGAACAACATAACCAATTACTTTTGTATTACTGTTATTCATTTGTTATA
CACCTCAAGTATAACTGCTCATATAATATTACTTACAAAATTAAACTATTCTTACATTTGACATT
AAAATCTAACACTTGACATAGTAAGTGATGTTTCTAGTGTTGATTTTTGCTAGCAATAGAAGGTT
CATCTGTCTCATGTCCATTAGTGTTGGATGGATCCAACTACACGTAATAGAAGGCAAAGATGAAG
GCACTTATAAACTTAATGGATGAAAAGGCCTGGCATACAATTCTTACTAAATAGGAGCCACCTAC
AACTAAAACCAATTGCTACACAGGTGAGTGG
Found at i:20699570 original size:43 final size:41
Alignment explanation
Indices: 20699507--20699620 Score: 131
Period size: 41 Copynumber: 2.7 Consensus size: 41
20699497 TGATTTCATG
* *
20699507 TAAGACCATGT-TTGGAACATTGGCACCGAAGTGAGAGAACGTA
1 TAAGACCATGTCTTGG-ACATTGGCATCGAA-TAAGAG-ACGTA
* *
20699550 TAAGACCATGTCTTGGACATTGGCATCGTATAAGAGTCGTA
1 TAAGACCATGTCTTGGACATTGGCATCGAATAAGAGACGTA
* * *
20699591 TAAGACCTTGTCTGGGACAATGGCATCGAA
1 TAAGACCATGTCTTGGACATTGGCATCGAA
20699621 ATGTGTTAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 30 0.48
42 5 0.08
43 23 0.37
44 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (41 bp):
TAAGACCATGTCTTGGACATTGGCATCGAATAAGAGACGTA
Found at i:20701458 original size:56 final size:57
Alignment explanation
Indices: 20701278--20701475 Score: 263
Period size: 57 Copynumber: 3.5 Consensus size: 57
20701268 ATTATTTTGG
* * * * * **
20701278 TAATAAACAACAATGGACAACAACAATTAAATACCATTTTTGACAGTTTAATTCCAA
1 TAATAAATAACAATGAACAACAACAATAAAACACCCTTTTTGACAACTTAATTCCAA
* * * * * *
20701335 AAATAAATAAAAATGAAGAACAATAATTAAACACCCTTTTTGACAACTTAATTCCAG
1 TAATAAATAACAATGAACAACAACAATAAAACACCCTTTTTGACAACTTAATTCCAA
20701392 TAATAAATAACAATGAACAACAACAATAAAACACCCTTTTT-ACAACTTAATTCCAA
1 TAATAAATAACAATGAACAACAACAATAAAACACCCTTTTTGACAACTTAATTCCAA
*
20701448 TAATAAATAACAATAAACAACAACAATA
1 TAATAAATAACAATGAACAACAACAATA
20701476 TGAACAAAAA
Statistics
Matches: 123, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
56 41 0.33
57 82 0.67
ACGTcount: A:0.53, C:0.18, G:0.05, T:0.25
Consensus pattern (57 bp):
TAATAAATAACAATGAACAACAACAATAAAACACCCTTTTTGACAACTTAATTCCAA
Found at i:20713117 original size:26 final size:26
Alignment explanation
Indices: 20713088--20713139 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
20713078 TTGGGTTGTA
20713088 ATCAACTAAAAAGCTACCTTTTAACT
1 ATCAACTAAAAAGCTACCTTTTAACT
*
20713114 ATCAACTGAAAAGCTACCTTTTAACT
1 ATCAACTAAAAAGCTACCTTTTAACT
20713140 GAGAGAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCAACTAAAAAGCTACCTTTTAACT
Found at i:20716908 original size:63 final size:64
Alignment explanation
Indices: 20716815--20716944 Score: 253
Period size: 63 Copynumber: 2.0 Consensus size: 64
20716805 TGCCAAAATC
20716815 TTTTCCCAACATATACATATGGAAAAACACAATATTAAGGGTCCGTTTGTTTGACTGAAAATAG
1 TTTTCCCAACATATACATATGGAAAAACACAATATTAAGGGTCCGTTTGTTTGACTGAAAATAG
20716879 TTTT-CCAACATATACATATGGAAAAACACAATATTAAGGGTCCGTTTGTTTGACTGAAAATAG
1 TTTTCCCAACATATACATATGGAAAAACACAATATTAAGGGTCCGTTTGTTTGACTGAAAATAG
20716942 TTT
1 TTT
20716945 CCGGAAAATG
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 62 0.94
64 4 0.06
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (64 bp):
TTTTCCCAACATATACATATGGAAAAACACAATATTAAGGGTCCGTTTGTTTGACTGAAAATAG
Found at i:20718151 original size:17 final size:17
Alignment explanation
Indices: 20718129--20718163 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
20718119 TAGCTTTAAT
*
20718129 ATTAATTGTATAACACA
1 ATTAATTATATAACACA
*
20718146 ATTAATTATATAATACA
1 ATTAATTATATAACACA
20718163 A
1 A
20718164 ATTTGTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (17 bp):
ATTAATTATATAACACA
Found at i:20718180 original size:6 final size:6
Alignment explanation
Indices: 20718169--20718196 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
20718159 TACAAATTTG
20718169 TAATAT TAATAT TAATAT TAATAT TAAT
1 TAATAT TAATAT TAATAT TAATAT TAAT
20718197 TGTATAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATAT
Found at i:20723437 original size:33 final size:33
Alignment explanation
Indices: 20723394--20723456 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
20723384 AAATTTATAG
20723394 TTTTTAATATTTATTTCAAAATTTTTAAAATGT
1 TTTTTAATATTTATTTCAAAATTTTTAAAATGT
* * * **
20723427 TTTTTTATATTTTTTTGAATTTTTTTAAAA
1 TTTTTAATATTTATTTCAAAATTTTTAAAA
20723457 AAAATTAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (33 bp):
TTTTTAATATTTATTTCAAAATTTTTAAAATGT
Found at i:20724383 original size:29 final size:29
Alignment explanation
Indices: 20724350--20724408 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
20724340 TTTGTGTGTT
*
20724350 CAATTTCTCAATTTCTTTTGGTATTTTTA
1 CAATTCCTCAATTTCTTTTGGTATTTTTA
20724379 CAATTCCTCAATTTCTTTTGGTATTTTTA
1 CAATTCCTCAATTTCTTTTGGTATTTTTA
20724408 C
1 C
20724409 TTGTTCGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.56
Consensus pattern (29 bp):
CAATTCCTCAATTTCTTTTGGTATTTTTA
Found at i:20726204 original size:24 final size:23
Alignment explanation
Indices: 20726176--20726221 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
20726166 TTTGGAGAAT
20726176 TTTGTGTTT-ACGTTTTGTGGGTTC
1 TTTGT-TTTCACGTTTTG-GGGTTC
*
20726200 TTTGTTTTCAGGTTTTGGGGTT
1 TTTGTTTTCACGTTTTGGGGTT
20726222 TAATTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.04, C:0.07, G:0.30, T:0.59
Consensus pattern (23 bp):
TTTGTTTTCACGTTTTGGGGTTC
Found at i:20728184 original size:119 final size:120
Alignment explanation
Indices: 20728048--20728286 Score: 471
Period size: 119 Copynumber: 2.0 Consensus size: 120
20728038 TTAAATCTGG
20728048 TATTATTTTAATAATTAAACTTATTATTATAAATTTATTGTTGATATTGTTTTTATAGTTTTATA
1 TATTATTTTAATAATTAAACTTATTATTATAAATTTATTGTTGATATTGTTTTTATAGTTTTATA
20728113 ATAATTTTTTATTTCTCTTTTATATCCTTATATTTTAAAAATCTATATGATAATA
66 ATAATTTTTTATTTCTCTTTTATATCCTTATATTTTAAAAATCTATATGATAATA
20728168 TATTATTTT-ATAATTAAACTTATTATTATAAATTTATTGTTGATATTGTTTTTATAGTTTTATA
1 TATTATTTTAATAATTAAACTTATTATTATAAATTTATTGTTGATATTGTTTTTATAGTTTTATA
20728232 ATAATTTTTTATTTCTCTTTTATATCCTTATATTTTAAAAATCTATATGATAATA
66 ATAATTTTTTATTTCTCTTTTATATCCTTATATTTTAAAAATCTATATGATAATA
20728287 CTTTCATACT
Statistics
Matches: 119, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 110 0.92
120 9 0.08
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (120 bp):
TATTATTTTAATAATTAAACTTATTATTATAAATTTATTGTTGATATTGTTTTTATAGTTTTATA
ATAATTTTTTATTTCTCTTTTATATCCTTATATTTTAAAAATCTATATGATAATA
Found at i:20745941 original size:5 final size:5
Alignment explanation
Indices: 20745926--20745956 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
20745916 GAAAGTTGCT
20745926 AAAGAA AAAGA AAAGA AAAGA AAAGA AAAGA
1 AAAG-A AAAGA AAAGA AAAGA AAAGA AAAGA
20745957 GCTTTGAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:20746927 original size:84 final size:84
Alignment explanation
Indices: 20746774--20746929 Score: 196
Period size: 84 Copynumber: 1.9 Consensus size: 84
20746764 ATGTATTTTC
* * *
20746774 GTGTAAGACCACATCTGGGACGTTGGCATCGACTTGTGTATACGTGGAAGACCATGTCTGGGACA
1 GTGTAAGACCACATCTGGGACGTTGGCATCGACTTGTGTATACATGGAAGACCACGTCTAGGACA
20746839 TTGGCATCGTATTTGATTT
66 TTGGCATCGTATTTGATTT
20746858 GTGTAAGACC-CTATCTGGGACAG-TGGCATCGA-TATGTG-ATTACATGTG-AGACCACGTCTA
1 GTGTAAGACCAC-ATCTGGGAC-GTTGGCATCGACT-TGTGTA-TACATG-GAAGACCACGTCTA
*
20746918 GGACGTTGGCAT
61 GGACATTGGCAT
20746930 TGTACGAGCC
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
83 3 0.05
84 58 0.92
85 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (84 bp):
GTGTAAGACCACATCTGGGACGTTGGCATCGACTTGTGTATACATGGAAGACCACGTCTAGGACA
TTGGCATCGTATTTGATTT
Found at i:20746928 original size:43 final size:43
Alignment explanation
Indices: 20746759--20746929 Score: 133
Period size: 43 Copynumber: 4.0 Consensus size: 43
20746749 ACATAGGATT
* *
20746759 TCGATATGT-ATTTTCGTGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGA-TTACGTGTGAGACCACATCTGGGACGTTGGCA
** *
20746802 TCGACT-TGTG-TATACGTG-GAAGACCATGTCTGGGACATTGGCA
1 TCGA-TATGTGAT-TACGTGTG-AGACCACATCTGGGACGTTGGCA
* * *
20746845 TCG-TATTTGATT-TGTGTAAGACC-CTATCTGGGACAG-TGGCA
1 TCGATATGTGATTACGTGTGAGACCAC-ATCTGGGAC-GTTGGCA
* * *
20746886 TCGATATGTGATTACATGTGAGACCACGTCTAGGACGTTGGCA
1 TCGATATGTGATTACGTGTGAGACCACATCTGGGACGTTGGCA
20746929 T
1 T
20746930 TGTACGAGCC
Statistics
Matches: 98, Mismatches: 17, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
41 25 0.26
42 14 0.14
43 57 0.58
44 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTGAGACCACATCTGGGACGTTGGCA
Found at i:20747119 original size:16 final size:17
Alignment explanation
Indices: 20747090--20747121 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
20747080 TGAATTGATG
20747090 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
20747107 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
20747122 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:20752790 original size:44 final size:44
Alignment explanation
Indices: 20752692--20752927 Score: 188
Period size: 44 Copynumber: 5.5 Consensus size: 44
20752682 TAAATCACAG
** * * * *
20752692 ATCTTATCTCTTTGAAGTTGCAGTAGAGTAGA-TCATG--GCGA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAA
*
20752733 ATCTTATCTCCCTGAAGTTGCAGTAGA-TCAGATTAAAGCCA-ATA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGT-AGATTAAAGCTACA-A
* * * *
20752777 ATCTTATCTCCC------TGCAGTGGAGTGGATTGAAGTTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAA
* * * *
20752815 GTCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTAAAGATAGCGA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTA-CAA
* * * *
20752860 ATCTTATCTCCCTGAATTTGTAGTGGAGTAGATTGAAGCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAA
*
20752904 ATCCTATCTCCCTGAAGTTGCAGT
1 ATCTTATCTCCCTGAAGTTGCAGT
20752928 GGAGCGGATT
Statistics
Matches: 152, Mismatches: 29, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
38 28 0.18
39 2 0.01
40 1 0.01
41 28 0.18
42 3 0.02
44 54 0.36
45 36 0.24
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGCTACAA
Found at i:20752951 original size:44 final size:45
Alignment explanation
Indices: 20752819--20753032 Score: 127
Period size: 44 Copynumber: 4.7 Consensus size: 45
20752809 TTACAAGTCT
* * * *
20752819 TATCTCCCTGAAGTTGCAGTAGAGTAGACT-AAA-GATAGCGAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGATA--GAATCC
* * * * * * *
20752864 TATCTCCCTGAATTTGTAGTGGAGTAGATTGAAGCTACA-AATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGATAGAATCC
*
20752908 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACGAT-GAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGATAGAATCC
* * * * * *
20752952 TATAC-CTCTAAAGTTGCAGTAGG-TCGGATTAAATCTACCATAGCAAGCC
1 TAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTAAA---ACGATAG-AATCC
*
20753001 TTATCTCTCTGAAGTTGCAGTGGAGCA-ATTAA
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
20753033 CCCTATCTCC
Statistics
Matches: 132, Mismatches: 24, Indels: 22
0.74 0.13 0.12
Matches are distributed among these distances:
44 64 0.48
45 29 0.22
46 2 0.02
47 6 0.05
48 1 0.01
49 12 0.09
50 18 0.14
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGATAGAATCC
Found at i:20764570 original size:36 final size:36
Alignment explanation
Indices: 20764528--20764599 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
20764518 ACATTTATTA
*
20764528 GTATAAAAATCTTTGTTATTTCTTTTCATATTTAGG
1 GTATAAAAATCTTTGTAATTTCTTTTCATATTTAGG
20764564 GTATAAAAATCTTTGTAATTTCTTTTCATATTTAGG
1 GTATAAAAATCTTTGTAATTTCTTTTCATATTTAGG
20764600 AGTTTTTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.51
Consensus pattern (36 bp):
GTATAAAAATCTTTGTAATTTCTTTTCATATTTAGG
Found at i:20769668 original size:2 final size:2
Alignment explanation
Indices: 20769661--20769689 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20769651 CATTAAGAAA
20769661 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
20769690 AAAACATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:20771662 original size:16 final size:17
Alignment explanation
Indices: 20771631--20771663 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20771621 AAACATTAAA
20771631 ATATTTAAATTTATTAT
1 ATATTTAAATTTATTAT
*
20771648 ATATTTACA-TTATTAT
1 ATATTTAAATTTATTAT
20771664 TTATACTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTTAAATTTATTAT
Found at i:20771832 original size:162 final size:163
Alignment explanation
Indices: 20771646--20771971 Score: 645
Period size: 162 Copynumber: 2.0 Consensus size: 163
20771636 TAAATTTATT
20771646 ATATATTTACATTATTATTTATACTATTAAATATTTAATATTATAAAAATTATCAAACAATAGCG
1 ATATATTTACATTATTATTTATACTATTAAATATTTAATATTATAAAAATTATCAAACAATAGCG
20771711 TATAATAAAGGGTAATTGGCATTTACAGTTTTATATGTTATATCTTTATGGGTAGACGTCACTAT
66 TATAATAAAGGGTAATTGGCATTTACAGTTTTATATGTTATATCTTTATGGGTAGACGTCACTAT
20771776 GCTCACAGTCGGTCAATTCCTATGAGATGACAG
131 GCTCACAGTCGGTCAATTCCTATGAGATGACAG
20771809 ATATATTTACA-TATTATTTATACTATTAAATATTTAATATTATAAAAATTATCAAACAATAGCG
1 ATATATTTACATTATTATTTATACTATTAAATATTTAATATTATAAAAATTATCAAACAATAGCG
20771873 TATAATAAAGGGTAATTGGCATTTACAGTTTTATATGTTATATCTTTATGGGTAGACGTCACTAT
66 TATAATAAAGGGTAATTGGCATTTACAGTTTTATATGTTATATCTTTATGGGTAGACGTCACTAT
20771938 GCTCACAGTCGGTCAATTCCTATGAGATGACAG
131 GCTCACAGTCGGTCAATTCCTATGAGATGACAG
20771971 A
1 A
20771972 CAATGAGTTG
Statistics
Matches: 163, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
162 152 0.93
163 11 0.07
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (163 bp):
ATATATTTACATTATTATTTATACTATTAAATATTTAATATTATAAAAATTATCAAACAATAGCG
TATAATAAAGGGTAATTGGCATTTACAGTTTTATATGTTATATCTTTATGGGTAGACGTCACTAT
GCTCACAGTCGGTCAATTCCTATGAGATGACAG
Found at i:20772170 original size:22 final size:21
Alignment explanation
Indices: 20772125--20772171 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
20772115 CAAAATTTTG
* * *
20772125 AACCCTAAATCTAAAATCTCA
1 AACCCTAAATCAAAAAACTAA
20772146 AACCCTAAACTCAAAAAACTAA
1 AACCCTAAA-TCAAAAAACTAA
20772168 AACC
1 AACC
20772172 ACAAAACATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (21 bp):
AACCCTAAATCAAAAAACTAA
Found at i:20772236 original size:20 final size:20
Alignment explanation
Indices: 20772211--20772274 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
20772201 CATAACTTCG
20772211 AAACCCTGAACCTAAATCTT
1 AAACCCTGAACCTAAATCTT
* *
20772231 AAACCCTGAA-CTCAAAGCTC
1 AAACCCTGAACCT-AAATCTT
**
20772251 AAGTCCTGAACCTTAAATCTT
1 AAACCCTGAACC-TAAATCTT
20772272 AAA
1 AAA
20772275 TCCAAACCCT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
19 2 0.06
20 23 0.68
21 8 0.24
22 1 0.03
ACGTcount: A:0.41, C:0.28, G:0.08, T:0.23
Consensus pattern (20 bp):
AAACCCTGAACCTAAATCTT
Found at i:20773158 original size:3 final size:3
Alignment explanation
Indices: 20773150--20773184 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
20773140 ATTTTTAAGT
20773150 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
20773185 CAAGTTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:20774695 original size:36 final size:35
Alignment explanation
Indices: 20774576--20774692 Score: 144
Period size: 35 Copynumber: 3.3 Consensus size: 35
20774566 TACTTTTTGT
* *
20774576 TTGGTGTGTTTCGAAGGGACTAGCTCTTTTGAGCA
1 TTGGTGTGTTTCGGAGGGACTAGCTCTTATGAGCA
**
20774611 TTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGAGGGACTAGCTCTTATGAGCA
* * * * *
20774646 ATGGTGTGTTTTGGAGGGATTAGCTCGTGTGAGCA
1 TTGGTGTGTTTCGGAGGGACTAGCTCTTATGAGCA
20774681 TCTGGTGTGTTT
1 T-TGGTGTGTTT
20774693 TGGTTGGACT
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
35 59 0.86
36 10 0.14
ACGTcount: A:0.15, C:0.12, G:0.34, T:0.39
Consensus pattern (35 bp):
TTGGTGTGTTTCGGAGGGACTAGCTCTTATGAGCA
Found at i:20775223 original size:32 final size:32
Alignment explanation
Indices: 20775187--20775252 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
20775177 GATGTTTCAA
*
20775187 TGCAACTAGAAATGGTATGTATTAATGATATG
1 TGCAACTAGAAATGGTACGTATTAATGATATG
20775219 TGCAACTAGAAATGGTACGTATTAATGATATG
1 TGCAACTAGAAATGGTACGTATTAATGATATG
20775251 TG
1 TG
20775253 TATTTTAGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (32 bp):
TGCAACTAGAAATGGTACGTATTAATGATATG
Found at i:20776263 original size:22 final size:23
Alignment explanation
Indices: 20776238--20776281 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
20776228 GTAGTTGCTG
20776238 ACTCGTTTAAACGAT-TGGGATT
1 ACTCGTTTAAACGATGTGGGATT
*
20776260 ACTCGTTTAAACGGTGTGGGAT
1 ACTCGTTTAAACGATGTGGGAT
20776282 AACTTGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (23 bp):
ACTCGTTTAAACGATGTGGGATT
Found at i:20783165 original size:24 final size:25
Alignment explanation
Indices: 20783116--20783197 Score: 82
Period size: 23 Copynumber: 3.4 Consensus size: 25
20783106 TTTAGTTTTT
*
20783116 TTTAATATTT-ATATTTTTTGAA-A
1 TTTAATATTTAATATTTTTTAAATA
20783139 TTTAATATTTAATA-TTTTTAAATA
1 TTTAATATTTAATATTTTTTAAATA
** *
20783163 TTTTTTATTAAATATTCTTTTAATATA
1 TTTAATATTTAATATT-TTTTAA-ATA
20783190 TTT-ATATT
1 TTTAATATT
20783198 ATAGTATTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
23 17 0.35
24 15 0.31
25 1 0.02
26 10 0.20
27 6 0.12
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (25 bp):
TTTAATATTTAATATTTTTTAAATA
Found at i:20783173 original size:14 final size:15
Alignment explanation
Indices: 20783156--20783184 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20783146 TTTAATATTT
20783156 TTAAATATT-TTTTA
1 TTAAATATTCTTTTA
20783170 TTAAATATTCTTTTA
1 TTAAATATTCTTTTA
20783185 ATATATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAAATATTCTTTTA
Found at i:20783197 original size:26 final size:25
Alignment explanation
Indices: 20783138--20783198 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
20783128 ATTTTTTGAA
*
20783138 ATTTAATATTTAATATTTTTAAATAT
1 ATTT-ATATTAAATATTTTTAAATAT
* *
20783164 -TTTTTATTAAATATTCTTTTAATAT
1 ATTTATATTAAATATT-TTTAAATAT
20783189 ATTTATATTA
1 ATTTATATTA
20783199 TAGTATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 10 0.34
25 11 0.38
26 8 0.28
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
ATTTATATTAAATATTTTTAAATAT
Found at i:20783267 original size:94 final size:95
Alignment explanation
Indices: 20783147--20783335 Score: 371
Period size: 94 Copynumber: 2.0 Consensus size: 95
20783137 AATTTAATAT
20783147 TTAATATTTTTAAATATTTTTTATTAAATATTCTTTTAATATATTTATATTATAGTATTATTTAT
1 TTAATATTTTTAAATATTTTTTATTAAATATTCTTTTAATATATTTATATTATAGTATTATTTAT
20783212 TACTATAAATTTATTTTTTATGCCATAGAA
66 TACTATAAATTTATTTTTTATGCCATAGAA
20783242 TTAATA-TTTTAAATATTTTTTATTAAATATTCTTTTAATATATTTATATTATAGTATTATTTAT
1 TTAATATTTTTAAATATTTTTTATTAAATATTCTTTTAATATATTTATATTATAGTATTATTTAT
20783306 TACTATAAATTTATTTTTTATGCCATAGAA
66 TACTATAAATTTATTTTTTATGCCATAGAA
20783336 ACTACTTAAT
Statistics
Matches: 94, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
94 88 0.94
95 6 0.06
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (95 bp):
TTAATATTTTTAAATATTTTTTATTAAATATTCTTTTAATATATTTATATTATAGTATTATTTAT
TACTATAAATTTATTTTTTATGCCATAGAA
Found at i:20783269 original size:14 final size:15
Alignment explanation
Indices: 20783250--20783278 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20783240 AATTAATATT
20783250 TTAAATATT-TTTTA
1 TTAAATATTCTTTTA
20783264 TTAAATATTCTTTTA
1 TTAAATATTCTTTTA
20783279 ATATATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAAATATTCTTTTA
Found at i:20786527 original size:79 final size:80
Alignment explanation
Indices: 20786395--20786553 Score: 295
Period size: 79 Copynumber: 2.0 Consensus size: 80
20786385 TAAAATCTGC
20786395 CTCGTTGTAATATATATATATATATATTTACTAAAATGTATTGTTTTTAAATTTTATTATTGCCG
1 CTCGTTGTAATATATATATATATATATTTACTAAAATGTATTGTTTTTAAATTTTATTATTGCCG
20786460 AGTGGGTCGATTGAT
66 AGTGGGTCGATTGAT
20786475 CTCGTTGTAA-ATATATATATATATAATTTACT-AAATGTATTGTTTTTAAATTTTATTATTGCC
1 CTCGTTGTAATATATATATATATAT-ATTTACTAAAATGTATTGTTTTTAAATTTTATTATTGCC
20786538 GAGTGGGTCGATTGAT
65 GAGTGGGTCGATTGAT
20786554 TCGGGAGAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
79 61 0.78
80 17 0.22
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (80 bp):
CTCGTTGTAATATATATATATATATATTTACTAAAATGTATTGTTTTTAAATTTTATTATTGCCG
AGTGGGTCGATTGAT
Found at i:20792724 original size:48 final size:48
Alignment explanation
Indices: 20792666--20792762 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
20792656 GTTTGGTGAG
20792666 GCATCGGTTCAAGAGGAAAATGTACTAAAAACTATTTTACGAGAGTAT
1 GCATCGGTTCAAGAGGAAAATGTACTAAAAACTATTTTACGAGAGTAT
* * * *
20792714 GCATCTGTTCAAGGGGAAAGTGTGCTAAAAACTATTTTACGAGAGTAT
1 GCATCGGTTCAAGAGGAAAATGTACTAAAAACTATTTTACGAGAGTAT
20792762 G
1 G
20792763 AGCAATGTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (48 bp):
GCATCGGTTCAAGAGGAAAATGTACTAAAAACTATTTTACGAGAGTAT
Found at i:20795106 original size:19 final size:19
Alignment explanation
Indices: 20795082--20795119 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20795072 AATTCAAATT
*
20795082 TATATTAATATTAAATAAA
1 TATATTAACATTAAATAAA
20795101 TATATTAACATTAAATAAA
1 TATATTAACATTAAATAAA
20795120 ATAAAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
TATATTAACATTAAATAAA
Found at i:20795276 original size:6 final size:6
Alignment explanation
Indices: 20795267--20795293 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20795257 GATTTTATAC
20795267 TAATAT TAATAT TAATAT TAATAT TAA
1 TAATAT TAATAT TAATAT TAATAT TAA
20795294 ATAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAATAT
Found at i:20795300 original size:179 final size:177
Alignment explanation
Indices: 20794978--20795310 Score: 465
Period size: 178 Copynumber: 1.9 Consensus size: 177
20794968 AAATTAACCT
* * * * *
20794978 TCAAATATTAAAAATAGTTTCAATTTAATCCTAATTCTATAAAATTCAAAAAAATGTATAAAATT
1 TCAAATATTAAAAATAATTTCAATTTAATCCTAATTCTAAAAAATTCAAAAAAATATACAAAAAT
* *
20795043 ACATAAATATTTTGAAAAATATAATAATAAATTCAAATTTATATTAATATTAAATAAATATATTA
66 ACATAAATATTTTAAAAAATATAATAATAAATTCAAATTTATACTAATATTAAATAAATATATTA
20795108 ACATTAAATAAAATAAAAATTCCCCCTTCTACCCTATCCCACTCCCCC
131 ACATTAAATAAAATAAAAA-TCCCCCTTCTACCCTATCCCACTCCCCC
* * *
20795156 TCAAATTTTACAAATAATTTCAATTTAATCCTAATTCTAAAAAATTC-AAAATATATACAAAAAT
1 TCAAATATTAAAAATAATTTCAATTTAATCCTAATTCTAAAAAATTCAAAAAAATATACAAAAAT
* * * *
20795220 ACTTAAATATTTTCAAAAAAGTATAATAATAAATTTAGATTTTATACTAATATT-AAT-ATTAAT
66 ACATAAATATTTT-AAAAAA-TATAATAATAAATTCA-AATTTATACTAATATTAAATAAAT-AT
*
20795283 ATTAATATTAAATAAAATAAAAATCCCC
127 ATTAACATTAAATAAAATAAAAATCCCC
20795311 TCCCACCCTA
Statistics
Matches: 136, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
177 25 0.18
178 55 0.40
179 42 0.31
180 14 0.10
ACGTcount: A:0.50, C:0.13, G:0.02, T:0.36
Consensus pattern (177 bp):
TCAAATATTAAAAATAATTTCAATTTAATCCTAATTCTAAAAAATTCAAAAAAATATACAAAAAT
ACATAAATATTTTAAAAAATATAATAATAAATTCAAATTTATACTAATATTAAATAAATATATTA
ACATTAAATAAAATAAAAATCCCCCTTCTACCCTATCCCACTCCCCC
Found at i:20799868 original size:26 final size:26
Alignment explanation
Indices: 20799815--20799868 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
20799805 ATCTTCTAAG
* *
20799815 ATTGCATATGATATCTAAGATTATAT
1 ATTGCATATCATATCTAAGATTACAT
*
20799841 ATTGCATATCATATCTAAGATTGCAT
1 ATTGCATATCATATCTAAGATTACAT
20799867 AT
1 AT
20799869 CCCTGAAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (26 bp):
ATTGCATATCATATCTAAGATTACAT
Found at i:20800964 original size:132 final size:131
Alignment explanation
Indices: 20800727--20801112 Score: 621
Period size: 132 Copynumber: 2.9 Consensus size: 131
20800717 NNNNNNNNNN
* * *
20800727 TTAGGGAGATAATACCTGAAATCTTCAATCTATTCCACTATTGTCCAGGGAAGTAGAATTACTGG
1 TTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGG
*
20800792 CTTCAATGTACTCCAC-GATAACCACAGGGAGGTAAAATCCGCCATCTTCGATTTGCTCCACTAC
66 CTTCAATGTACTCCACTG-TAACCAC-GGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
20800856 TAC
129 TAC
* *
20800859 TTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTCAGGGAAATAGAATTACTGG
1 TTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGG
* *
20800924 TTTCAATGTACTCCACTGTAACCACGGAGAGGTAAAATCCGCCATCTTCGATCCGCTCCACTACT
66 CTTCAATGTACTCCACTGTAACCACGG-GAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
*
20800989 GC
130 AC
* *
20800991 TTAAGGAGATAAGATCTGAAATCTTCAATCGATTCCACTGTTGTCCAGGGAAGTAGAATTACTGG
1 TTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGG
*
20801056 CTTCAATGTACTCCACTGTAACCATAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
66 CTTCAATGTACTCCACTGTAACCA-CGGGAGGTAAAATCCGCCATCTTCGATCTGCT
20801113 TCGCTGTCAA
Statistics
Matches: 235, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
131 2 0.01
132 230 0.98
133 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (131 bp):
TTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGG
CTTCAATGTACTCCACTGTAACCACGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTA
C
Found at i:20807718 original size:26 final size:26
Alignment explanation
Indices: 20807665--20807718 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
20807655 ATCTTCTAAG
* *
20807665 ATTGCATATGATATCTAAGATTATAT
1 ATTGCATATCATATCTAAGATTACAT
*
20807691 ATTGCATATCATATCTAAGATTGCAT
1 ATTGCATATCATATCTAAGATTACAT
20807717 AT
1 AT
20807719 CCCTGAAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (26 bp):
ATTGCATATCATATCTAAGATTACAT
Found at i:20818797 original size:2 final size:2
Alignment explanation
Indices: 20818790--20818823 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
20818780 GTTTATAAAG
20818790 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
20818824 GTTGGCTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:20820824 original size:3 final size:3
Alignment explanation
Indices: 20820816--20820848 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
20820806 AAATATCCAA
20820816 AAG AAG AAG CAA- AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG
20820849 CAAGCAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.86
4 2 0.07
ACGTcount: A:0.67, C:0.03, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20820830 original size:12 final size:12
Alignment explanation
Indices: 20820813--20820851 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
20820803 GAAAAATATC
20820813 CAAAAGAAGAAG
1 CAAAAGAAGAAG
20820825 CAAAAGAAGAAG
1 CAAAAGAAGAAG
20820837 -AAGAAGAAGAAG
1 CAA-AAGAAGAAG
20820849 CAA
1 CAA
20820852 GCAACTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.67, C:0.08, G:0.26, T:0.00
Consensus pattern (12 bp):
CAAAAGAAGAAG
Found at i:20822558 original size:13 final size:13
Alignment explanation
Indices: 20822540--20822564 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20822530 TTTTTTATAG
20822540 AAATATAATAATA
1 AAATATAATAATA
20822553 AAATATAATAAT
1 AAATATAATAAT
20822565 TATTTATCAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATATAATAATA
Found at i:20822701 original size:15 final size:16
Alignment explanation
Indices: 20822676--20822706 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
20822666 CTATTAGTAG
20822676 TTTTTTAAATATTTTA
1 TTTTTTAAATATTTTA
20822692 TTTTTT-AATATTTTA
1 TTTTTTAAATATTTTA
20822707 CTATACTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTAAATATTTTA
Found at i:20823121 original size:5 final size:5
Alignment explanation
Indices: 20823111--20823147 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
20823101 TTGCATATTC
*
20823111 ATAAT ATAAT ATAAT ATAAT ATAAT GTAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
20823148 GTTACAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:20823834 original size:15 final size:16
Alignment explanation
Indices: 20823809--20823839 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
20823799 CTATTAGTAG
20823809 TTTTTTAAATATTTTA
1 TTTTTTAAATATTTTA
20823825 TTTTTT-AATATTTTA
1 TTTTTTAAATATTTTA
20823840 CTATACTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTAAATATTTTA
Found at i:20824162 original size:61 final size:61
Alignment explanation
Indices: 20823989--20824151 Score: 326
Period size: 61 Copynumber: 2.7 Consensus size: 61
20823979 CCATAAATAC
20823989 TTTAGGAAATGGGCATTTTCTGGTACTATGCCCATTTAAATTCGTTTATATTTGAAATTAG
1 TTTAGGAAATGGGCATTTTCTGGTACTATGCCCATTTAAATTCGTTTATATTTGAAATTAG
20824050 TTTAGGAAATGGGCATTTTCTGGTACTATGCCCATTTAAATTCGTTTATATTTGAAATTAG
1 TTTAGGAAATGGGCATTTTCTGGTACTATGCCCATTTAAATTCGTTTATATTTGAAATTAG
20824111 TTTAGGAAATGGGCATTTTCTGGTACTATGCCCATTTAAAT
1 TTTAGGAAATGGGCATTTTCTGGTACTATGCCCATTTAAAT
20824152 AATTGCATAT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 102 1.00
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (61 bp):
TTTAGGAAATGGGCATTTTCTGGTACTATGCCCATTTAAATTCGTTTATATTTGAAATTAG
Found at i:20824174 original size:5 final size:5
Alignment explanation
Indices: 20824164--20824200 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
20824154 TTGCATATTC
*
20824164 ATAAT ATAAT ATAAT ATAAT ATAAT GTAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
20824201 GTTACAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:20824705 original size:15 final size:14
Alignment explanation
Indices: 20824688--20824737 Score: 68
Period size: 13 Copynumber: 3.6 Consensus size: 14
20824678 TCAAAATTCA
20824688 AAAATATAAAAATT
1 AAAATATAAAAATT
20824702 AAAAT-TAATCAAATT
1 AAAATATAA--AAATT
20824717 AAAATATAAAAATT
1 AAAATATAAAAATT
20824731 -AAATATA
1 AAAATATA
20824738 CAACTCACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
13 10 0.30
14 10 0.30
15 10 0.30
16 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:20824728 original size:23 final size:23
Alignment explanation
Indices: 20824689--20824732 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
20824679 CAAAATTCAA
*
20824689 AAATATAAAAATTAAAATTAATC
1 AAATATAAAAATAAAAATTAATC
20824712 AAAT-TAAAATATAAAAATTAA
1 AAATATAAAA-ATAAAAATTAA
20824733 ATATACAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATATAAAAATAAAAATTAATC
Found at i:20826106 original size:18 final size:17
Alignment explanation
Indices: 20826085--20826118 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
20826075 AATTAAAAGT
20826085 TTAATTTAATTAAAAAAA
1 TTAATTTAA-TAAAAAAA
*
20826103 TTAATTTGATAAAAAA
1 TTAATTTAATAAAAAA
20826119 TATAAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TTAATTTAATAAAAAAA
Found at i:20828286 original size:13 final size:11
Alignment explanation
Indices: 20828258--20828300 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
20828248 AGTTAAATAT
20828258 TATTTTATTAA
1 TATTTTATTAA
20828269 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
20828282 TA-TTTATTAT
1 TATTTTATTAA
20828292 TATTTTATT
1 TATTTTATT
20828301 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:20828287 original size:23 final size:23
Alignment explanation
Indices: 20828261--20828304 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
20828251 TAAATATTAT
20828261 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
20828284 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
20828305 AAATGGTAGT
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:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:20831941 original size:11 final size:11
Alignment explanation
Indices: 20831925--20831970 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
20831915 CATTTTTCTA
20831925 AATAAAATAAT
1 AATAAAATAAT
20831936 AAT-AAATATAT
1 AATAAAATA-AT
*
20831947 AAGTAAAATATT
1 AA-TAAAATAAT
20831959 AATAAAATAAT
1 AATAAAATAAT
20831970 A
1 A
20831971 TTTAACTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 5 0.17
11 16 0.53
12 4 0.13
13 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:20833906 original size:44 final size:44
Alignment explanation
Indices: 20833849--20833939 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
20833839 ATTGAAATAA
*
20833849 AATAGAAATTGTGATAATTTTACAT-TTT-AAAATAATTATACTTT
1 AATAGAAATTGTGATAA--TTACATATTTAAAAATAATTATAATTT
*
20833893 AATAGAAGTTGTGATAATTACATATTTAAAAATAATTATAATTT
1 AATAGAAATTGTGATAATTACATATTTAAAAATAATTATAATTT
20833937 AAT
1 AAT
20833940 TTAAATTTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
42 6 0.14
43 3 0.07
44 34 0.79
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (44 bp):
AATAGAAATTGTGATAATTACATATTTAAAAATAATTATAATTT
Found at i:20835152 original size:40 final size:40
Alignment explanation
Indices: 20835097--20835177 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
20835087 TATTGTTCAC
20835097 ATTCATAAAACTATTGCTAGTTTGCATACTTGAAAATTCT
1 ATTCATAAAACTATTGCTAGTTTGCATACTTGAAAATTCT
20835137 ATTCATAAAACTATTGCTAGTTTGCATACTTGAAAATTCT
1 ATTCATAAAACTATTGCTAGTTTGCATACTTGAAAATTCT
20835177 A
1 A
20835178 ACATTATTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.40
Consensus pattern (40 bp):
ATTCATAAAACTATTGCTAGTTTGCATACTTGAAAATTCT
Found at i:20840074 original size:105 final size:104
Alignment explanation
Indices: 20839892--20840106 Score: 394
Period size: 105 Copynumber: 2.1 Consensus size: 104
20839882 GATGTTTATA
*
20839892 CTTTTCTAGGGTTGCTTTTGGTATGAAATTTTCTTTATCAAAATAAATGTTATGGAAAAGAAGTA
1 CTTTTCTAGGGTTGCTTTTGGTATGAAATTTTCTTTATCAAAATAAATGTTATGGAAAAGAAGAA
*
20839957 AGAAAACAAAGCTCATTTTCTCCCGTACGTCTCTTGTCTT
66 AGAAAACAAAGCTCATTTTCTCCCATACGTCTC-TGTCTT
*
20839997 CTTTTCTAGGGTTGCTTTTGGTATGAAATTTTCTTTCTCAAAATAAATGTTATGGAAAAGAAGAA
1 CTTTTCTAGGGTTGCTTTTGGTATGAAATTTTCTTTATCAAAATAAATGTTATGGAAAAGAAGAA
20840062 AGAAAACAAAGCTCATTTTCTCCCATACGTCTCTGTCTT
66 AGAAAACAAAGCTCATTTTCTCCCATACGTCTCTGTCTT
20840101 CTTTTC
1 CTTTTC
20840107 ATGATTGATT
Statistics
Matches: 107, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
104 12 0.11
105 95 0.89
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (104 bp):
CTTTTCTAGGGTTGCTTTTGGTATGAAATTTTCTTTATCAAAATAAATGTTATGGAAAAGAAGAA
AGAAAACAAAGCTCATTTTCTCCCATACGTCTCTGTCTT
Found at i:20851280 original size:21 final size:21
Alignment explanation
Indices: 20851256--20851295 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20851246 CAACTATTCC
*
20851256 TATTTTTATATATTTTTTTTT
1 TATTTTTATATAATTTTTTTT
*
20851277 TATTTTTTTATAATTTTTT
1 TATTTTTATATAATTTTTT
20851296 AAAGTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (21 bp):
TATTTTTATATAATTTTTTTT
Found at i:20857273 original size:64 final size:65
Alignment explanation
Indices: 20857072--20857318 Score: 273
Period size: 64 Copynumber: 3.8 Consensus size: 65
20857062 TTGTTACAAG
* * *
20857072 ACTTAGATAGCACACTTGTTTAAAGTGGTTTTACCTCTTTAAGATAATACGCTTCTTTAAAGCGA
1 ACTTAGATAGCACACTTCTTTAAAGTGGTTTTACCTCTTTAAGGTAATACGCTTCTTTAAAGAGA
* * * * *
20857137 ACTTAGATAGATAACATACATCTTTAAAGTGCTTTTACCTATTTCAA-GTAATACACTTCTTTAA
1 ACTTAGATAG----CACACTTCTTTAAAGTGGTTTTACCTCTTT-AAGGTAATACGCTTCTTTAA
*
20857201 AGAAA
61 AGAGA
* * * * *
20857206 ACTTTGATAGCACACTTCTTTATAGTGGATTTACCTCTTTAAGGT-ATATGCTTCTTTAAAGTGA
1 ACTTAGATAGCACACTTCTTTAAAGTGGTTTTACCTCTTTAAGGTAATACGCTTCTTTAAAGAGA
* * * *
20857270 ACTTAAATAGCTCACTTTTTTAAAGTGGCTTTACCTCTTTAAGGTAATA
1 ACTTAGATAGCACACTTCTTTAAAGTGGTTTTACCTCTTTAAGGTAATA
20857319 ATAAAAGGTG
Statistics
Matches: 149, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
64 56 0.38
65 39 0.26
69 52 0.35
70 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (65 bp):
ACTTAGATAGCACACTTCTTTAAAGTGGTTTTACCTCTTTAAGGTAATACGCTTCTTTAAAGAGA
Found at i:20869817 original size:20 final size:21
Alignment explanation
Indices: 20869751--20869819 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
20869741 TCACTTCGTT
20869751 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
20869772 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
20869793 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
20869814 -CTTTTT
1 TCTTTTT
20869820 TCTTTGCGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:20878710 original size:30 final size:30
Alignment explanation
Indices: 20878669--20878731 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
20878659 TTTTTTTTGA
*
20878669 AAGATCCGAAACATGATCTTCAACGGTAGC
1 AAGATCCGAAACATGATCTTCAACGGTAAC
*
20878699 AAGATCGGAAACATGATCTTCAACGGTAAC
1 AAGATCCGAAACATGATCTTCAACGGTAAC
20878729 AAG
1 AAG
20878732 CTTGGCGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (30 bp):
AAGATCCGAAACATGATCTTCAACGGTAAC
Found at i:20878799 original size:81 final size:81
Alignment explanation
Indices: 20878664--20878863 Score: 328
Period size: 81 Copynumber: 2.5 Consensus size: 81
20878654 TTTTTTTTTT
* * * *
20878664 TTTGAAAGATCCGAAACATGATCTTCAACGGTAGCAAGATCGGAAACATGATCTTCAACGGTAAC
1 TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAGATCCGAAACATGATCTTCAACGGTAAC
20878729 AAGCTTGGCGGTGAAG
66 AAGCTTGGCGGTGAAG
* * *
20878745 TTTGAAATATACGAAGCAGGATCTTCAACGGTAACAAGATCCGAAACATGATCTTCAGCGGTAAC
1 TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAGATCCGAAACATGATCTTCAACGGTAAC
*
20878810 AAGCTTGGCGGTGATG
66 AAGCTTGGCGGTGAAG
20878826 TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAG
1 TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAG
20878864 CTTGGCGGTG
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 109 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.23
Consensus pattern (81 bp):
TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAGATCCGAAACATGATCTTCAACGGTAAC
AAGCTTGGCGGTGAAG
Found at i:20879914 original size:38 final size:39
Alignment explanation
Indices: 20879863--20879946 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 39
20879853 GTTGCAAATT
*
20879863 TTTTAATTGACATGTGAAAAA-TAGTCTTA-TACTTTATA
1 TTTTAATTGACATGTGAAAAATTAGTCTTATTAATTT-TA
* * *
20879901 TTTTAATTTACATGTTAAAAATTATTCTTATTAATTTTA
1 TTTTAATTGACATGTGAAAAATTAGTCTTATTAATTTTA
20879940 TTTTAAT
1 TTTTAAT
20879947 ATTCTAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
38 19 0.47
39 16 0.40
40 5 0.12
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (39 bp):
TTTTAATTGACATGTGAAAAATTAGTCTTATTAATTTTA
Found at i:20885972 original size:5 final size:6
Alignment explanation
Indices: 20885956--20885980 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20885946 AGGTTTTTGG
20885956 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
20885981 AAGGCTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:20887881 original size:19 final size:19
Alignment explanation
Indices: 20887857--20887908 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
20887847 CACCTCTTTT
*
20887857 TGCATT-CATTTTATTCATA
1 TGCATTACATTTCA-TCATA
20887876 TGCATTACATTTCATCATA
1 TGCATTACATTTCATCATA
*
20887895 TGCATTATATTTCA
1 TGCATTACATTTCA
20887909 CAAAAGACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 24 0.80
20 6 0.20
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (19 bp):
TGCATTACATTTCATCATA
Found at i:20894549 original size:51 final size:50
Alignment explanation
Indices: 20894476--20895149 Score: 305
Period size: 51 Copynumber: 14.3 Consensus size: 50
20894466 AATGGAATAA
*
20894476 ATTAAAGCTACAAGTTAAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
1 ATTAAAGCTACAAG-TACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
* *
20894527 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAATAG
1 ATTAAAGCTACAAG-TACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
* * * * * *
20894578 ATTGAA--TA-TAG--CGAATCTTATTTCCCTGAAGTTGCAATGGAACAA
1 ATTAAAGCTACAAGTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
*
20894623 ATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGT-GAAGTAG
1 ATTAAAGCTACAAG-TACAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAG
* * * * * * *
20894674 ATTGAAG--A-TAG--CGAATCTTATTTCCCTGAAGTTGTAGTGGAATAA
1 ATTAAAGCTACAAGTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
** * * * *
20894719 ATTAAAGCTACAAACCACAAATCCTATAC-CCCTGAAGTTGCAATGGGACGG
1 ATTAAAGCTAC-AAGTACAAATCTTAT-CTCCCTGAAGTTGCAGTGGAACAG
* * * * * * * * *
20894770 ATTGAAG-T-CATTA-TGGCGAATATTATCTCCTTGAAGTTGTAGAGGAGCAT
1 ATTAAAGCTACA--AGT-ACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
* **
20894820 ATTAAAGC--C----ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGTAG
1 ATTAAAGCTACAAGTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
* ** *
20894864 ATTGAAGCT---AG--CAAATCTTATCTCTATGAAGTTGCAGTAGAACAG
1 ATTAAAGCTACAAGTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
* * * * ** *
20894909 ATTGAAG---C---TACAAATCTTATCTCTCTGATGTTGTAGTATAGCAG
1 ATTAAAGCTACAAGTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
* * * *
20894953 ATTGAAGC--C----ACAAATTTTATCTCCTTGAAGTTGCAGTGGAGCAG
1 ATTAAAGCTACAAGTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
* * * * * * *
20894997 ATGAAAG--A-TA-T-CAAATTTTATTTCACT-AGAGTTGTAGTGGAATAG
1 ATTAAAGCTACAAGTACAAATCTTATCTCCCTGA-AGTTGCAGTGGAACAG
* * ** *
20895042 ATTAAAGCTACGAGTTATAAATCTTATCTCATTGAAGTTGCAGTGGAGCAG
1 ATTAAAGCTACAAG-TACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
* *
20895093 ATTGAAGCTAC---T---AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 ATTAAAGCTACAAGTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
* *
20895137 ATTGAAGCAACAA
1 ATTAAAGCTACAA
20895150 TTTCTATATC
Statistics
Matches: 485, Mismatches: 97, Indels: 87
0.72 0.14 0.13
Matches are distributed among these distances:
44 145 0.30
45 134 0.28
46 3 0.01
47 5 0.01
48 8 0.02
49 6 0.01
50 34 0.07
51 149 0.31
52 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (50 bp):
ATTAAAGCTACAAGTACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
Found at i:20894661 original size:96 final size:96
Alignment explanation
Indices: 20894495--20894921 Score: 449
Period size: 96 Copynumber: 4.5 Consensus size: 96
20894485 ACAAGTTAAA
*
20894495 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTATCTCCCT
* *
20894560 AAAGTTGCAGTGGAATAGATTGAATATAGCG
66 GAAGTTGCAGTGGAATAGATTGAAGATAGCG
* *
20894591 AATCTTATTTCCCTGAAGTTGCAATGGAACAAATTAAAGCTACAAGTTACAAATCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTATCTCCCT
20894656 GAAGTTGCAGT-GAAGTAGATTGAAGATAGCG
66 GAAGTTGCAGTGGAA-TAGATTGAAGATAGCG
* * * *** *
20894687 AATCTTATTTCCCTGAAGTTGTAGTGGAATAAATTAAAGCTACAAACCACAAATCCTATAC-CCC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTAT-CTCCC
* * **
20894751 TGAAGTTGCAATGGGACGGATTGAAGTCATTATGGCG
65 TGAAGTTGCAGTGGAATAGATTGAAG--A-TA--GCG
* * * * * * *
20894788 AATATTATCTCCTTGAAGTTGTAGAGGAGCATATTAAAGC--C-----ACAAATCTTATCTCCTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTATCTCCCT
* * *
20894846 GAAGTTGCAGTGGAGTAGATTGAAGCTAGCA
66 GAAGTTGCAGTGGAATAGATTGAAGATAGCG
** * * *
20894877 AATCTTATCTCTATGAAGTTGCAGTAGAACAGATTGAAGCTACAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAA
20894922 ATCTTATCTC
Statistics
Matches: 277, Mismatches: 41, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
89 33 0.12
91 3 0.01
93 1 0.00
94 33 0.12
95 3 0.01
96 161 0.58
97 3 0.01
98 1 0.00
99 3 0.01
101 36 0.13
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (96 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTATCTCCCT
GAAGTTGCAGTGGAATAGATTGAAGATAGCG
Found at i:20894676 original size:147 final size:146
Alignment explanation
Indices: 20894397--20894667 Score: 416
Period size: 147 Copynumber: 1.8 Consensus size: 146
20894387 GATTAAAGCC
* ** * * * *
20894397 ACAAATCTTATCTCTCTGGAGTTACATTGGAGCAGATTGAATATACGAATTTTATTTCCTTGAAC
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAACAGATTGAATATACGAATCTTATTTCCCTGAAC
* *
20894462 TTGTAATGGAATAAATTAAAGCTACAAGTTAAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
66 TTGCAATGGAACAAATTAAAGCTACAAGTTAAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
20894527 ATTAAAGCTACAAGTT
131 ATTAAAGCTACAAGTT
* *
20894543 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTGAATATAGCGAATCTTATTTCCCTGAA
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAACAGATTGAATATA-CGAATCTTATTTCCCTGAA
* *
20894608 GTTGCAATGGAACAAATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTG
65 CTTGCAATGGAACAAATTAAAGCTACAAGTTAAAAATCTTATCTCCCTGAAGTTGCAGTG
20894668 AAGTAGATTG
Statistics
Matches: 111, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
146 38 0.34
147 73 0.66
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (146 bp):
ACAAATCTTATCTCCCTAAAGTTACAGTGGAACAGATTGAATATACGAATCTTATTTCCCTGAAC
TTGCAATGGAACAAATTAAAGCTACAAGTTAAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAG
ATTAAAGCTACAAGTT
Found at i:20894752 original size:147 final size:144
Alignment explanation
Indices: 20894457--20894764 Score: 327
Period size: 147 Copynumber: 2.1 Consensus size: 144
20894447 TTTATTTCCT
* * *
20894457 TGAACTTGTAATGGAATAAATTAAAGCTACAAGTTAAAAATCTTATCTCCCTGAAGTTGCAGTGG
1 TGAAGTTGCAATGGAACAAATTAAAGCTACAAGTTAAAAATCTTATCTCCCTGAAGTTGCAGTGG
* * *
20894522 AACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTGAATAT
66 AACAGATTAAAGC-ACAAG-T-CAAATCTTATCTCCCTAAAGTTGCAGTGGAATAAATTAAATAA
* * * **
20894587 AGCGAATCTTATTTCCC
128 AACAAATCCTATACCCC
*
20894604 TGAAGTTGCAATGGAACAAATTAAAGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGCAGT-G
1 TGAAGTTGCAATGGAACAAATTAAAGCTACAAGTTAAAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * * * *
20894668 AAGTAGATTGAAG-A-TAG-CGAATCTTATTTCCCTGAAGTTGTAGTGGAATAAATTAAAGCTAC
66 AA-CAGATTAAAGCACAAGTCAAATCTTATCTCCCTAAAGTTGCAGTGGAATAAATTAAA--T--
20894730 AAACCACAAATCCTATACCCC
126 AAA--ACAAATCCTATACCCC
20894751 TGAAGTTGCAATGG
1 TGAAGTTGCAATGG
20894765 GACGGATTGA
Statistics
Matches: 135, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
141 34 0.25
143 1 0.01
144 2 0.01
145 3 0.02
146 3 0.02
147 92 0.68
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.29
Consensus pattern (144 bp):
TGAAGTTGCAATGGAACAAATTAAAGCTACAAGTTAAAAATCTTATCTCCCTGAAGTTGCAGTGG
AACAGATTAAAGCACAAGTCAAATCTTATCTCCCTAAAGTTGCAGTGGAATAAATTAAATAAAAC
AAATCCTATACCCC
Found at i:20894954 original size:44 final size:44
Alignment explanation
Indices: 20894792--20895149 Score: 244
Period size: 44 Copynumber: 7.9 Consensus size: 44
20894782 ATGGCGAATA
* * *
20894792 TTATCTC-CTTGAAGTTGTAG-AGGAGCATATTAAAGCCACAAATC
1 TTATCTCTC-TGAAGTTGCAGTA-GAGCAGATTGAAGCCACAAATC
* * *
20894836 TTATCTC-CTTGAAGTTGCAGTGGAGTAGATTGAAGCTAGCAAATC
1 TTATCTCTC-TGAAGTTGCAGTAGAGCAGATTGAAGCCA-CAAATC
* * *
20894881 TTATCTCTATGAAGTTGCAGTAGAACAGATTGAAGCTACAAATC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATC
* * * *
20894925 TTATCTCTCTGATGTTGTAGTATAGCAGATTGAAGCCACAAATT
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATC
* ** *
20894969 TTATCTC-CTTGAAGTTGCAGTGGAGCAGA-TGAAAGATATCAAATT
1 TTATCTCTC-TGAAGTTGCAGTAGAGCAGATTG-AAGCCA-CAAATC
* * * * ** * *
20895014 TTATTTCACT-AGAGTTGTAGTGGAATAGATTAAAGCTACGAGTTATAAATC
1 TTATCTCTCTGA-AGTTGCAGTAGAGCAGATTGAAGC--C-----ACAAATC
* * *
20895065 TTATCTCAT-TGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATC
1 TTATCTC-TCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATC
* * *
20895109 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCAACAA
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAA
20895150 TTTCTATATC
Statistics
Matches: 251, Mismatches: 44, Indels: 38
0.75 0.13 0.11
Matches are distributed among these distances:
43 3 0.01
44 144 0.57
45 69 0.27
46 2 0.01
51 31 0.12
52 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.31
Consensus pattern (44 bp):
TTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATC
Found at i:20894980 original size:133 final size:134
Alignment explanation
Indices: 20894792--20895144 Score: 376
Period size: 133 Copynumber: 2.6 Consensus size: 134
20894782 ATGGCGAATA
* * * *
20894792 TTATCTCCTTGAAGTTGTAG-AGGAGCATATTAAAGCCACAAATCTTATCTCCTTGAAGTTGCAG
1 TTATCTCATTGAAGTTGCAGTA-GAGCAGATTGAAGCCACAAATCTTATCTCCTTGAAGTTGCAG
* *
20894856 TGGAGTAGATTGAAGCTAGCAAATCTTATCT--CTATGAAGTTGCAGTAGAACAGATTGAAGCTA
65 TGGAGCAGATTGAAGCTAGCAAATCTTATCTCACTA-G-AGTTGCAGTAGAACAGATTAAAGCTA
20894919 C-AAATC
128 CTAAATC
* * * *
20894925 TTATCTC-TCTGATGTTGTAGTATAGCAGATTGAAGCCACAAATTTTATCTCCTTGAAGTTGCAG
1 TTATCTCAT-TGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATCTTATCTCCTTGAAGTTGCAG
* * * * * * *
20894989 TGGAGCAGA-TGAAAGATATCAAATTTTATTTCACTAGAGTTGTAGTGGAATAGATTAAAGCTAC
65 TGGAGCAGATTG-AAGCTAGCAAATCTTATCTCACTAGAGTTGCAGTAGAACAGATTAAAGCTAC
20895053 GAGTTATAAATC
129 ------TAAATC
* * * *
20895065 TTATCTCATTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCATTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATCTTATCTCCTTGAAGTTGCAGT
20895130 GGAGCAGATTGAAGC
66 GGAGCAGATTGAAGC
20895145 AACAATTTCT
Statistics
Matches: 183, Mismatches: 23, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
132 3 0.02
133 101 0.55
134 2 0.01
135 3 0.02
140 71 0.39
141 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (134 bp):
TTATCTCATTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAATCTTATCTCCTTGAAGTTGCAGT
GGAGCAGATTGAAGCTAGCAAATCTTATCTCACTAGAGTTGCAGTAGAACAGATTAAAGCTACTA
AATC
Found at i:20896580 original size:51 final size:51
Alignment explanation
Indices: 20896515--20896636 Score: 156
Period size: 51 Copynumber: 2.4 Consensus size: 51
20896505 GATAGGTCGC
* * **
20896515 ATGTGTCAGGCTACTATGTGTACCGGATAGT-TTCGATCACGTGTGTAGTACT
1 ATGTG-CAGGCTACTATGTGTACCGGATAGTAATAG-TCACACGTGTAGTACT
* * *
20896567 ATGTGCAGGCTACTACGTGTATCGGATGGTAATAGTCACACGTGTAGTACT
1 ATGTGCAGGCTACTATGTGTACCGGATAGTAATAGTCACACGTGTAGTACT
20896618 ATGTGCAGGCTACTATGTG
1 ATGTGCAGGCTACTATGTG
20896637 AACCAAACAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
51 54 0.89
52 7 0.11
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (51 bp):
ATGTGCAGGCTACTATGTGTACCGGATAGTAATAGTCACACGTGTAGTACT
Found at i:20897142 original size:10 final size:11
Alignment explanation
Indices: 20897120--20897146 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
20897110 CTGACTTTGG
20897120 AAAATTGTAAA
1 AAAATTGTAAA
20897131 AAAATTGTAAA
1 AAAATTGTAAA
20897142 AAAAT
1 AAAAT
20897147 AATTATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (11 bp):
AAAATTGTAAA
Found at i:20899879 original size:5 final size:5
Alignment explanation
Indices: 20899864--20899904 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
20899854 TCCTAGATTA
20899864 TTTATT TTTAT TTTAT TTTA- TTTA- TTTAT TATTAT TTTAT T
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT T
20899905 ATCATCAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 8 0.24
5 16 0.48
6 9 0.27
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:20899906 original size:11 final size:10
Alignment explanation
Indices: 20899864--20899904 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
20899854 TCCTAGATTA
20899864 TTTATTTTTAT
1 TTTA-TTTTAT
20899875 TTTATTTTA-
1 TTTATTTTAT
20899884 TTTA-TTTAT
1 TTTATTTTAT
20899893 TATTATTTTAT
1 T-TTATTTTAT
20899904 T
1 T
20899905 ATCATCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 4 0.15
9 5 0.19
10 8 0.30
11 10 0.37
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:20900008 original size:122 final size:122
Alignment explanation
Indices: 20899868--20900126 Score: 518
Period size: 122 Copynumber: 2.1 Consensus size: 122
20899858 AGATTATTTA
20899868 TTTTTATTTTATTTTATTTATTTATTATTATTTTATTATCATCAATATATTTAATTTTTTTACAC
1 TTTTTATTTTATTTTATTTATTTATTATTATTTTATTATCATCAATATATTTAATTTTTTTACAC
20899933 ATACTTATTATACACATGCTTTTATTGGCACATATTATTATTATTGTCATTGTTATT
66 ATACTTATTATACACATGCTTTTATTGGCACATATTATTATTATTGTCATTGTTATT
20899990 TTTTTATTTTATTTTATTTATTTATTATTATTTTATTATCATCAATATATTTAATTTTTTTACAC
1 TTTTTATTTTATTTTATTTATTTATTATTATTTTATTATCATCAATATATTTAATTTTTTTACAC
20900055 ATACTTATTATACACATGCTTTTATTGGCACATATTATTATTATTGTCATTGTTATT
66 ATACTTATTATACACATGCTTTTATTGGCACATATTATTATTATTGTCATTGTTATT
20900112 TTTTTATTTTATTTT
1 TTTTTATTTTATTTT
20900127 TATGTTTTTG
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 137 1.00
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (122 bp):
TTTTTATTTTATTTTATTTATTTATTATTATTTTATTATCATCAATATATTTAATTTTTTTACAC
ATACTTATTATACACATGCTTTTATTGGCACATATTATTATTATTGTCATTGTTATT
Found at i:20900011 original size:14 final size:13
Alignment explanation
Indices: 20899985--20900022 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
20899975 ATTGTCATTG
20899985 TTATTTT-TTTATT
1 TTATTTTATTTA-T
20899998 TTATTTTATTTAT
1 TTATTTTATTTAT
20900011 TTATTATTATTT
1 TTATT-TTATTT
20900023 TATTATCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTTTATTTAT
Found at i:20900142 original size:17 final size:17
Alignment explanation
Indices: 20900107--20900161 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
20900097 ATTGTCATTG
20900107 TTAT-TTTTTTATTTTATT
1 TTATATTTTTTA--TTATT
*
20900125 TT-TATGTTTTTGTTATT
1 TTATAT-TTTTTATTATT
20900142 TTACTATTTTTTATTATT
1 TTA-TATTTTTTATTATT
20900160 TT
1 TT
20900162 CGGCATTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 8 0.26
18 15 0.48
19 8 0.26
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (17 bp):
TTATATTTTTTATTATT
Found at i:20901760 original size:21 final size:23
Alignment explanation
Indices: 20901734--20901783 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
20901724 ATTTCATGGC
*
20901734 TTTTTTAG-AAATTTGGG-TTTT
1 TTTTTTAGAAAATTTGGGATATT
*
20901755 TTTTTTGGAAAATTTGGGATATT
1 TTTTTTAGAAAATTTGGGATATT
20901778 TTTTTT
1 TTTTTT
20901784 GTAATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
22 9 0.36
23 9 0.36
ACGTcount: A:0.20, C:0.00, G:0.18, T:0.62
Consensus pattern (23 bp):
TTTTTTAGAAAATTTGGGATATT
Found at i:20901767 original size:22 final size:22
Alignment explanation
Indices: 20901734--20901784 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
20901724 ATTTCATGGC
* *
20901734 TTTTTTAGAAATTTGGG-TTTT
1 TTTTTTGGAAATTTGGGATATT
20901755 TTTTTTGGAAAATTTGGGATATT
1 TTTTTTGG-AAATTTGGGATATT
20901778 TTTTTTG
1 TTTTTTG
20901785 TAATTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 7 0.27
22 9 0.35
23 10 0.38
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.61
Consensus pattern (22 bp):
TTTTTTGGAAATTTGGGATATT
Found at i:20901789 original size:21 final size:20
Alignment explanation
Indices: 20901734--20901790 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
20901724 ATTTCATGGC
* *
20901734 TTTTTTAGAAATTTGGGTTT
1 TTTTTTTGAAATTTGGGTAT
20901754 TTTTTTTGGAAAATTTGGGATAT
1 TTTTTTT-G-AAATTTGGG-TAT
*
20901777 TTTTTTTGTAATTT
1 TTTTTTTGAAATTT
20901791 TTATAGGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 6 0.19
21 6 0.19
22 10 0.32
23 9 0.29
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (20 bp):
TTTTTTTGAAATTTGGGTAT
Found at i:20902933 original size:83 final size:83
Alignment explanation
Indices: 20902824--20903000 Score: 329
Period size: 83 Copynumber: 2.1 Consensus size: 83
20902814 GATAAATTAT
20902824 TAATACTAAAAAAATATCGGATTTATAAAATTAAAATAATATATATATACACCAAATAATCATTT
1 TAATACT-AAAAAATATCGGATTTATAAAATTAAAATAATATATATATACACCAAATAATCATTT
20902889 GTTTTCAAATTCAATTAAG
65 GTTTTCAAATTCAATTAAG
20902908 TAATACTAAAAAATATCGGATTTATAAAATTAAAATAATATATATATACACCAAATAATCATTTG
1 TAATACTAAAAAATATCGGATTTATAAAATTAAAATAATATATATATACACCAAATAATCATTTG
20902973 TTTTCAAATTCAATTAAG
66 TTTTCAAATTCAATTAAG
*
20902991 T-ATAATAAAA
1 TAATACTAAAA
20903001 TTTTGAAAGG
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
82 8 0.09
83 77 0.84
84 7 0.08
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.36
Consensus pattern (83 bp):
TAATACTAAAAAATATCGGATTTATAAAATTAAAATAATATATATATACACCAAATAATCATTTG
TTTTCAAATTCAATTAAG
Found at i:20918811 original size:31 final size:29
Alignment explanation
Indices: 20918768--20918826 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
20918758 AGAATAGTTT
20918768 ATTAAATAAAAATAAAATAATATTTTTTGAA
1 ATTAAATAAAAATAAAA-AAT-TTTTTTGAA
*
20918799 ATTAAA-ACAAAATAATAAATTTTTTTGA
1 ATTAAATA-AAAATAAAAAATTTTTTTGA
20918827 CAATGCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 8 0.31
30 4 0.15
31 14 0.54
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (29 bp):
ATTAAATAAAAATAAAAAATTTTTTTGAA
Done.