Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold20
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: 3599867
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 51021 characters in sequence are not A, C, G, or T
File 1 of 25
Found at i:109 original size:18 final size:18
Alignment explanation
Indices: 88--152 Score: 51
Period size: 23 Copynumber: 3.4 Consensus size: 18
78 TTTTTGAAAA
88 TAAATTAATTTTATATAT
1 TAAATTAATTTTATATAT
* * *
106 TAAATTACACATATTTTTTAAAA
1 TAAATT----A-ATTTTATATAT
129 TAAATTAATTTTA-ATAT
1 TAAATTAATTTTATATAT
146 TAAATTA
1 TAAATTA
153 TATAAAGGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 11
0.68 0.11 0.21
Matches are distributed among these distances:
17 9 0.25
18 11 0.31
19 1 0.03
22 1 0.03
23 14 0.39
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAATTAATTTTATATAT
Found at i:121 original size:41 final size:39
Alignment explanation
Indices: 72--152 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 39
62 ATAATTTGCA
72 ACACTATTTTTGAAAATAAATTAATTTTATATATTAAATT
1 ACACTATTTTTGAAAATAAATTAATTTTA-ATATTAAATT
*
112 ACACATATTTTTTAAAATAAATTAATTTTAATATTAAATT
1 ACAC-TATTTTTGAAAATAAATTAATTTTAATATTAAATT
152 A
1 A
153 TATAAAGGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 15 0.38
41 24 0.62
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (39 bp):
ACACTATTTTTGAAAATAAATTAATTTTAATATTAAATT
Found at i:2100 original size:93 final size:93
Alignment explanation
Indices: 1941--2127 Score: 374
Period size: 93 Copynumber: 2.0 Consensus size: 93
1931 GATGTAAGAC
1941 TCTCCTAACTAGTAACTATAATTAGAAAAGTGCAAGTTAAAGCTGGCTATTTTGAACAAACGTTA
1 TCTCCTAACTAGTAACTATAATTAGAAAAGTGCAAGTTAAAGCTGGCTATTTTGAACAAACGTTA
2006 TTACATGATCTTAAAAAAAATACGAACA
66 TTACATGATCTTAAAAAAAATACGAACA
2034 TCTCCTAACTAGTAACTATAATTAGAAAAGTGCAAGTTAAAGCTGGCTATTTTGAACAAACGTTA
1 TCTCCTAACTAGTAACTATAATTAGAAAAGTGCAAGTTAAAGCTGGCTATTTTGAACAAACGTTA
2099 TTACATGATCTTAAAAAAAATACGAACA
66 TTACATGATCTTAAAAAAAATACGAACA
2127 T
1 T
2128 TATATAAATA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (93 bp):
TCTCCTAACTAGTAACTATAATTAGAAAAGTGCAAGTTAAAGCTGGCTATTTTGAACAAACGTTA
TTACATGATCTTAAAAAAAATACGAACA
Found at i:7299 original size:40 final size:40
Alignment explanation
Indices: 7244--7324 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
7234 ATTGCAATTG
7244 TCAAGTCACCCCTAAAACCCATTTACTCTCTTGTTCTAGA
1 TCAAGTCACCCCTAAAACCCATTTACTCTCTTGTTCTAGA
7284 TCAAGTCACCCCTAAAACCCATTTACTCTCTTGTTCTAGA
1 TCAAGTCACCCCTAAAACCCATTTACTCTCTTGTTCTAGA
7324 T
1 T
7325 AACCCTAAAA
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:0.27, C:0.32, G:0.07, T:0.33
Consensus pattern (40 bp):
TCAAGTCACCCCTAAAACCCATTTACTCTCTTGTTCTAGA
Found at i:14657 original size:12 final size:12
Alignment explanation
Indices: 14636--14665 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14626 CTGCCTTCTT
*
14636 CCTCTTCCCCTA
1 CCTCTACCCCTA
14648 CCTCTACCCCTA
1 CCTCTACCCCTA
14660 CCTCTA
1 CCTCTA
14666 ATCATACCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.57, G:0.00, T:0.30
Consensus pattern (12 bp):
CCTCTACCCCTA
Found at i:15810 original size:15 final size:16
Alignment explanation
Indices: 15792--15821 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15782 AAAAATTAAA
15792 ATATTTAAAA-AATAT
1 ATATTTAAAATAATAT
15807 ATATTTAAAATAATA
1 ATATTTAAAATAATA
15822 AAAATATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATTTAAAATAATAT
Found at i:15830 original size:8 final size:9
Alignment explanation
Indices: 15813--15841 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15803 ATATATATTT
15813 AAAATAATA
1 AAAATAATA
15822 AAAAT-ATA
1 AAAATAATA
15830 AAAATAATA
1 AAAATAATA
15839 AAA
1 AAA
15842 TTATTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAATAATA
Found at i:18083 original size:23 final size:24
Alignment explanation
Indices: 18050--18098 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
18040 TCTTCATTAG
18050 ACATTAATAACAATTATAAT-AAA
1 ACATTAATAACAATTATAATGAAA
* *
18073 ACATTAGTAACAATTATGATGAAA
1 ACATTAATAACAATTATAATGAAA
18097 AC
1 AC
18099 TTATGGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (24 bp):
ACATTAATAACAATTATAATGAAA
Found at i:19580 original size:167 final size:166
Alignment explanation
Indices: 19365--19770 Score: 457
Period size: 166 Copynumber: 2.4 Consensus size: 166
19355 TTTTGAGAGG
* * * *
19365 ATTTTTTTAGTTTATAAATTTTAAAATTCATTAAATATTATTATTTAA-TCATCATTAAATTAGT
1 ATTTTCTTAGTTTA-AATTTTTAAAATTCATAAAATATTATCATTTAACTCATCATTAAATTAGT
* * ***
19429 TTTGAAAAATTTATTTATTTTCAC-AAGTTTTTTAGTTTTTTCCTTGAAATTTTTCTGT-TTT-T
65 TTTGAAAAATTCATTTATTTTC-CTAAGTTTTTCA-TTTTTTCCTTGAAA-TGCCCT-TATTTCT
* * **
19491 GAAAAACCGAGTTTTCTATTTTATAAAAATTTTTGAGGGAA
126 AAAAAACCGAATTTTCTATTCCATAAAAATTTTTGAGGGAA
* *
19532 ATTTTCTTGGTTTACAATTTTTAAAATTCATAAAATATTATCATTTAATTCAT-ATTAAA-TATG
1 ATTTTCTTAGTTTA-AATTTTTAAAATTCATAAAATATTATCATTTAACTCATCATTAAATTA-G
19595 TTTTGAAAAATTCATTTATTTTCCTAAGTTTTTCATTTTTTCCTTGAAATGCCCTTATTTCTAAA
64 TTTTGAAAAATTCATTTATTTTCCTAAGTTTTTCATTTTTTCCTTGAAATGCCCTTATTTCTAAA
* ** * *
19660 AAATCGAATTTTCTATTCCATAAAGGTTTTTGGGGGGA
129 AAACCGAATTTTCTATTCCATAAAAATTTTTGAGGGAA
* * * * *
19698 TTTTTCTTAGTTTAAAGTTTTTAAAATTCATATAATATTTTCATTAAACTC-TCATTAAATCAGT
1 ATTTTCTTAGTTTAAA-TTTTTAAAATTCATAAAATATTATCATTTAACTCATCATTAAATTAGT
*
19762 TTTAAAAAA
65 TTTGAAAAA
19771 AATCAATTTA
Statistics
Matches: 203, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
164 1 0.00
165 9 0.04
166 108 0.53
167 81 0.40
168 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (166 bp):
ATTTTCTTAGTTTAAATTTTTAAAATTCATAAAATATTATCATTTAACTCATCATTAAATTAGTT
TTGAAAAATTCATTTATTTTCCTAAGTTTTTCATTTTTTCCTTGAAATGCCCTTATTTCTAAAAA
ACCGAATTTTCTATTCCATAAAAATTTTTGAGGGAA
Found at i:20310 original size:10 final size:10
Alignment explanation
Indices: 20297--20331 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
20287 AAAAAGAGAG
20297 GAAAAAAAAA
1 GAAAAAAAAA
*
20307 GAAAAAACAA
1 GAAAAAAAAA
*
20317 GAAAAAAAAG
1 GAAAAAAAAA
20327 GAAAA
1 GAAAA
20332 TAGGAAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:21379 original size:142 final size:141
Alignment explanation
Indices: 21220--21873 Score: 751
Period size: 142 Copynumber: 4.6 Consensus size: 141
21210 ATTTTACCAC
* * * *
21220 TAAATGAAAATTATTATCTAAATTTCTCAAGATTTATAATATTCCTATAGTTTTTTTTAGAGGTA
1 TAAATAAAAATTATTATCTTAATTTCTCAAGATTTCTAATATTCCTATAGTTTTTTGTAGAGGTA
* **
21285 TAGAAATCTTCAAAA-TATTTCGTATCTTTCCGGTTCTTTATTAAGGTACGAAATGAATTTTCTT
66 TAGAAATCTTCAAAACT-TTTCGTATCTTTTCGGTTCTCCATTAAGGTACGAAATGAATTTT-TT
21349 AAAAATTAAAAAT
129 AAAAATTAAAAAT
*
21362 TAAATAAAAATTATTATCTTAATTTCTCAAGATTTCTAATATTCCTAT-GATTTTTTGTAGGGGT
1 TAAATAAAAATTATTATCTTAATTTCTCAAGATTTCTAATATTCCTATAG-TTTTTTGTAGAGGT
* * *
21426 ATAGAAATCTTCAAAACTTTTCATATCTTTTCGGTTCTCCATTAAGGTACAAAATGAATTTTTTG
65 ATAGAAATCTTCAAAACTTTTCGTATCTTTTCGGTTCTCCATTAAGGTACGAAATGAATTTTTTA
*
21491 AAAATTAAAAAAA
130 AAAATT-AAAAAT
* * * * *
21504 TAAAT-AAAATCATTATCTTAATTTCTCAAGATTTTTAATATTCTTATGGTTTTCTGTAG-GAGT
1 TAAATAAAAATTATTATCTTAATTTCTCAAGATTTCTAATATTCCTATAGTTTTTTGTAGAG-GT
* * * * *
21567 ATAGAAATCTTTGAAAA-TTTTCGTATCTTTTCGATTCTCCATTAAAGAAAGAAATGAATTTTTT
65 ATAGAAATC-TTCAAAACTTTTCGTATCTTTTCGGTTCTCCATTAAGGTACGAAATGAA---TTT
21631 TTTAAAAAATTAAAAAT
126 TTT-AAAAATTAAAAAT
* * *
21648 TAAATAAAAATTATTACCTTAATTTCTTAAAATTTCTAATATTCCTATAGTTTTTTGTA-AGGTA
1 TAAATAAAAATTATTATCTTAATTTCTCAAGATTTCTAATATTCCTATAGTTTTTTGTAGAGGTA
* * *
21712 TAGAAATCTTCAAAACTTTTCTTATCTTTTCAGTTCTCTATTAAGGTACGAAATGAAATTTTTT-
66 TAGAAATCTTCAAAACTTTTCGTATCTTTTCGGTTCTCCATTAAGGTACGAAATG-AATTTTTTA
*
21776 ----TTTAAAAT
130 AAAATTAAAAAT
* * * * * ** *
21784 TTAA-AAAACTTATTATCTTAATTTTTTAAAATTTCTAATATT-CT-TACGATTTTCCGTAGAGA
1 TAAATAAAAATTATTATCTTAATTTCTCAAGATTTCTAATATTCCTATA-G-TTTTTTGTAGAGG
*
21846 TATAGAAATTTTCAAAACTTTTCGTATC
64 TATAGAAATCTTCAAAACTTTTCGTATC
21874 CTCTAGTTTT
Statistics
Matches: 444, Mismatches: 51, Indels: 40
0.83 0.10 0.07
Matches are distributed among these distances:
133 2 0.00
134 3 0.01
135 42 0.09
136 38 0.09
140 1 0.00
141 103 0.23
142 135 0.30
143 7 0.02
144 59 0.13
145 54 0.12
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.44
Consensus pattern (141 bp):
TAAATAAAAATTATTATCTTAATTTCTCAAGATTTCTAATATTCCTATAGTTTTTTGTAGAGGTA
TAGAAATCTTCAAAACTTTTCGTATCTTTTCGGTTCTCCATTAAGGTACGAAATGAATTTTTTAA
AAATTAAAAAT
Found at i:22457 original size:155 final size:153
Alignment explanation
Indices: 22153--22697 Score: 441
Period size: 155 Copynumber: 3.5 Consensus size: 153
22143 CCTATCGTTG
* * * * ** * * ** *
22153 TACCTTTTTAAGTCCTTTAGGGATACTA-GCATTTTTATATCAAAGGTATCCCCTAGGGGTATTT
1 TACCTTTTTAAGTCATTTAGGGGTGCTAGGCACTTTTACGTCGAAGGTATCCCTTAAAGGCATTT
** * * * * * ** * ** *
22217 TTATAATTTTTCAAAATCGAGTCCTAGGTTGCCACCGGGTTTGCTTTTATGCCAAAAAATTGGTA
66 TCGTAATTTTTTAAAACCGAGTCCTAAGTTACCA-CGAGTTCACTTTTATG-CGAAAGGTGGGTA
*
22282 TTTAGAATAGGTTTATCCCATCATTT
129 TTTAGGATAGGTTTATCCCATC-TTT
* * * *
22308 TACCTTTTTAAGTCATTTAGGGGTGCTGGGCATTTTTACGTCGAAGGTATCCTTTAAAGGCGTTT
1 TACCTTTTTAAGTCATTTAGGGGTGCTAGGCACTTTTACGTCGAAGGTATCCCTTAAAGGCATTT
* ** * *
22373 TCGTAATTTTTTAAAACCGAGTCTTAAGTTACCATCGAGTTTGCTTTTATATCG-AATGTGGGTA
66 TCGTAATTTTTTAAAACCGAGTCCTAAGTTACCA-CGAGTTCACTTTTAT-GCGAAAGGTGGGTA
*
22437 TTTAGGATAGGTTCATCCCATCCTTT
129 TTTAGGATAGGTTTATCCCAT-CTTT
* * * * * *
22463 TACCATTTTAAGTCTTTTAGGGGTGTTAGGTACTTTTACGTCGAAGGTATCCCTTAAGGGTATTT
1 TACCTTTTTAAGTCATTTAGGGGTGCTAGGCACTTTTACGTCGAAGGTATCCCTTAAAGGCATTT
* ** ** *
22528 TTGTAATTTTTTAGTACCGAGTCCTAAGTTGTCACGGGTTCACTTTTATGCGAAAGGTGGGTATT
66 TCGTAATTTTTTAAAACCGAGTCCTAAGTTACCACGAGTTCACTTTTATGCGAAAGGTGGGTATT
*
22593 TAGGATAGGTTTATCCCATCTAT
131 TAGGATAGGTTTATCCCATCTTT
* * * * * * * * ** * *
22616 TATCATTTTTAAGTCCTTTAAGAGT-ATCAGGCACTTCTAAGTTGAAAATATCCCATT-GAGACA
1 TA-CCTTTTTAAGTCATTTAGGGGTGCT-AGGCACTTTTACGTCGAAGGTATCCC-TTAAAGGCA
22679 TTTTCGTAATTTTTTAAAA
63 TTTTCGTAATTTTTTAAAA
22698 ACTGTGTCCT
Statistics
Matches: 312, Mismatches: 71, Indels: 15
0.78 0.18 0.04
Matches are distributed among these distances:
153 8 0.03
154 96 0.31
155 138 0.44
156 70 0.22
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (153 bp):
TACCTTTTTAAGTCATTTAGGGGTGCTAGGCACTTTTACGTCGAAGGTATCCCTTAAAGGCATTT
TCGTAATTTTTTAAAACCGAGTCCTAAGTTACCACGAGTTCACTTTTATGCGAAAGGTGGGTATT
TAGGATAGGTTTATCCCATCTTT
Found at i:26980 original size:13 final size:13
Alignment explanation
Indices: 26962--26987 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26952 CAAGGTAATT
26962 TTGTATCGATACA
1 TTGTATCGATACA
26975 TTGTATCGATACA
1 TTGTATCGATACA
26988 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:27738 original size:61 final size:60
Alignment explanation
Indices: 27641--27777 Score: 186
Period size: 61 Copynumber: 2.2 Consensus size: 60
27631 AAAGATGATG
* * *
27641 AAGATAAGAAGAGTGATAAAGATGCTAATATGCTGATTC-AGGTCCAGCGATATTGGGCTTA
1 AAGAT-AGAAGAATGATAAAGATGCCAATATACTGATTCAAGG-CCAGCGATATTGGGCTTA
* *
27702 AAGATGAGAAGAATGATAAAGGTGCCAATATACTGATTCAAGGCTAGCGATATTGGGCTTA
1 AAGAT-AGAAGAATGATAAAGATGCCAATATACTGATTCAAGGCCAGCGATATTGGGCTTA
27763 AAGATACGAAGAATG
1 AAGATA-GAAGAATG
27778 TCAATGTGCT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
60 1 0.01
61 64 0.94
62 3 0.04
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (60 bp):
AAGATAGAAGAATGATAAAGATGCCAATATACTGATTCAAGGCCAGCGATATTGGGCTTA
Found at i:27883 original size:52 final size:49
Alignment explanation
Indices: 27713--28019 Score: 226
Period size: 52 Copynumber: 6.0 Consensus size: 49
27703 AGATGAGAAG
* * * * *
27713 AATGATAAAGGTGCCAATATACTGATTCAAGGCTAGCGATATTGGGCTTA
1 AATGATAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGCTTA
* * * * *
27763 AA-GATACGAAGAATGTCAATGTGCTAATTCACGGCTAGCGACA-TGAAACTTGA
1 AATGATA--AAG-ATGCCAATGTGCTGATTCAAGGCCAGCGACATTG--GCTT-A
*
27816 AGATGA-AAAGAATGCCAATGTGCTGATTAAAGGCCAGCGACATTAGGCTTA
1 A-ATGATAAAG-ATGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGCTTA
* * * * *
27867 GGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGAACTTA
1 --AATGATAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTG-GCTTA
* * *
27919 AA-GATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACAATGGACTTAA
1 AATGATAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-CTT-A
* * * *
27969 AGATGGTAAAGGTGCAAATGTACTGATTCAAGGCCAGCGACATTGGGCTTA
1 A-ATGATAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGCTTA
28020 GAAGGAGATG
Statistics
Matches: 205, Mismatches: 33, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
49 41 0.20
50 7 0.03
51 8 0.04
52 134 0.65
53 10 0.05
54 3 0.01
55 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (49 bp):
AATGATAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGCTTA
Found at i:27979 original size:101 final size:101
Alignment explanation
Indices: 27828--28013 Score: 250
Period size: 101 Copynumber: 1.8 Consensus size: 101
27818 ATGAAAAGAA
* * * * *
27828 TGCCAATGTGCTGATTAAAGGCCAGCGACATTAGGCTTAGGAATGTTAAAGATGCCAATATGCTG
1 TGCCAATGTGCTGATTAAAGGCCAGCGACAATAGGCTTAAGAATGGTAAAGATGCAAATATACTG
*
27893 ATTCAAGGCCAACGATATTGAACTTAAAGATGAAGG
66 ATTCAAGGCCAACGACATTGAACTTAAAGATGAAGG
* * *
27929 TGCCAATGTGCTGATTCAAGGCCAGCGACAAT-GGACTTAA-AGATGGTAAAGGTGCAAATGTAC
1 TGCCAATGTGCTGATTAAAGGCCAGCGACAATAGG-CTTAAGA-ATGGTAAAGATGCAAATATAC
*
27992 TGATTCAAGGCCAGCGACATTG
64 TGATTCAAGGCCAACGACATTG
28014 GGCTTAGAAG
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
100 3 0.04
101 70 0.96
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (101 bp):
TGCCAATGTGCTGATTAAAGGCCAGCGACAATAGGCTTAAGAATGGTAAAGATGCAAATATACTG
ATTCAAGGCCAACGACATTGAACTTAAAGATGAAGG
Found at i:28074 original size:32 final size:32
Alignment explanation
Indices: 28028--28251 Score: 242
Period size: 32 Copynumber: 7.0 Consensus size: 32
28018 TAGAAGGAGA
* *
28028 TGCCACTAATTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
*
28060 TGCCACCAACTTGTGTGGGC-TTTAAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGA-AAGGGT
* ** *
28092 TACCACCAGTTTGTGTGGG-TTTTGAAGGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
* *
28123 TGCCATCGACTTGTGTGGGCTTTT-AAAGAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAG-GGT
* * *
28155 TACCACCAACTTGTGTAGGC-TTTGAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAA-AGGGT
*
28187 TGCCACCAACTTGTGTGGGCTTTGGAGAA-GGT
1 TGCCACCAACTTGTGTGGGCTTTTGA-AAGGGT
* *
28219 TGCCACCAACTTGTGTGGGCTTTGGAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
28251 T
1 T
28252 TTTCCACTGG
Statistics
Matches: 161, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
31 31 0.19
32 123 0.76
33 6 0.04
34 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.32
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
Found at i:28193 original size:95 final size:96
Alignment explanation
Indices: 28028--28251 Score: 283
Period size: 95 Copynumber: 2.3 Consensus size: 96
28018 TAGAAGGAGA
* * * *
28028 TGCCACTAATTTGTGTGGGCTTTTGAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAGAAGGGTT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGTTACCACCAACTTGTGTAGGCTTTAAGAAGGGTT
** * *
28093 ACCACCAGTTTGTGTGGGTTTTGAAG-GGGT
66 ACCACCAACTTGTGTGGGCTTTGAAGAAGGT
* *
28123 TGCCATCGACTTGTGTGGGCTTTT-AAAGAGGTTACCACCAACTTGTGTAGGCTTTGAAGAA-GG
1 TGCCACCAACTTGTGTGGGCTTTTGAAAG-GGTTACCACCAACTTGTGTAGGCTTT-AAGAAGGG
* *
28186 TTGCCACCAACTTGTGTGGGCTTTGGAGAAGGT
64 TTACCACCAACTTGTGTGGGCTTTGAAGAAGGT
* *
28219 TGCCACCAACTTGTGTGGGCTTTGGAAAAGGTT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGTT
28252 TTTCCACTGG
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
94 4 0.04
95 69 0.63
96 33 0.30
97 3 0.03
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.32
Consensus pattern (96 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAGGGTTACCACCAACTTGTGTAGGCTTTAAGAAGGGTT
ACCACCAACTTGTGTGGGCTTTGAAGAAGGT
Found at i:28202 original size:64 final size:63
Alignment explanation
Indices: 28038--28251 Score: 252
Period size: 63 Copynumber: 3.3 Consensus size: 63
28028 TGCCACTAAT
* * **
28038 TTGTGTGGGCTTTTGAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAGAAG-GGTTACCACCAGT
1 TTGTGTGGGC-TTTGAAAAGGTTGCCACCAACTTGTGTGGGCTTTTA-AAGAGGTTACCACCAAC
* ** * *
28102 TTGTGTGGGTTTTGAAGGGGTTGCCATCGACTTGTGTGGGCTTTTAAAGAGGTTACCACCAAC
1 TTGTGTGGGCTTTGAAAAGGTTGCCACCAACTTGTGTGGGCTTTTAAAGAGGTTACCACCAAC
* ** *
28165 TTGTGTAGGCTTTGAAGAAGGTTGCCACCAACTTGTGTGGGC-TTTGGAGAAGGTTGCCACCAAC
1 TTGTGTGGGCTTTGAA-AAGGTTGCCACCAACTTGTGTGGGCTTTTAAAG-AGGTTACCACCAAC
28229 TTGTGTGGGCTTTGGAAAAGGTT
1 TTGTGTGGGCTTT-GAAAAGGTT
28252 TTTCCACTGG
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
62 3 0.02
63 62 0.48
64 61 0.47
65 3 0.02
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.32
Consensus pattern (63 bp):
TTGTGTGGGCTTTGAAAAGGTTGCCACCAACTTGTGTGGGCTTTTAAAGAGGTTACCACCAAC
Found at i:28531 original size:14 final size:13
Alignment explanation
Indices: 28512--28593 Score: 58
Period size: 14 Copynumber: 6.2 Consensus size: 13
28502 GAAGCGATTC
28512 TTCTTGACAAACAT
1 TTCTTGACAAA-AT
** *
28526 TTCTTGATGAAGT
1 TTCTTGACAAAAT
* **
28539 TTC-TGACACACG
1 TTCTTGACAAAAT
* *
28551 TTCTCGACAAAAG
1 TTCTTGACAAAAT
28564 TTCTTGACGAAAAT
1 TTCTTGAC-AAAAT
28578 TTCTTGACAACAAT
1 TTCTTGACAA-AAT
28592 TT
1 TT
28594 TGTTGACAAT
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
12 7 0.13
13 19 0.37
14 26 0.50
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (13 bp):
TTCTTGACAAAAT
Found at i:29869 original size:11 final size:9
Alignment explanation
Indices: 29838--29883 Score: 56
Period size: 9 Copynumber: 4.8 Consensus size: 9
29828 CTTTCTTCCC
29838 TTTTTTTGT
1 TTTTTTTGT
*
29847 TTGTTGTTGT
1 TT-TTTTTGT
29857 TTTTGTATTGT
1 TTTT-T-TTGT
29868 TTTTTTTGT
1 TTTTTTTGT
29877 TTTTTTT
1 TTTTTTT
29884 ACGAATGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 15 0.47
10 9 0.28
11 8 0.25
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.83
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:35164 original size:20 final size:19
Alignment explanation
Indices: 35117--35171 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
35107 TCGATACATT
*
35117 AAGTATCGATACATAATTCA
1 AAGTATCGATACAT-GTTCA
*
35137 AAGCATCGATACATGTTGCA
1 AAGTATCGATACATGTT-CA
*
35157 ATGTATCGATACATG
1 AAGTATCGATACATG
35172 AAAAAGATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (19 bp):
AAGTATCGATACATGTTCA
Found at i:35259 original size:13 final size:13
Alignment explanation
Indices: 35241--35266 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35231 TACACAAAGT
35241 ATGTATCGATACA
1 ATGTATCGATACA
35254 ATGTATCGATACA
1 ATGTATCGATACA
35267 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:37531 original size:21 final size:21
Alignment explanation
Indices: 37498--37547 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
37488 TTGCAAGTTG
*
37498 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
37520 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
37541 AAATAAA
1 AAATAAA
37548 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:41475 original size:13 final size:13
Alignment explanation
Indices: 41457--41494 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
41447 CATTTTTCTT
41457 TGTATCGATACAA
1 TGTATCGATACAA
*
41470 TGTATCGATACAC
1 TGTATCGATACAA
41483 TGTATCGATACA
1 TGTATCGATACA
41495 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:43396 original size:39 final size:40
Alignment explanation
Indices: 43329--43419 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 40
43319 GGGAGATTTT
* * *
43329 TTTAGTAAAAGGGGAGAATGCATAAATTTGCTAAAATTA-
1 TTTAGTTAAGGGGGAGAATGCACAAATTTGCTAAAATTAC
* * *
43368 TCTTA-TTAAGGGGGAGAATGTACGAATTTGTTAAAATTAC
1 T-TTAGTTAAGGGGGAGAATGCACAAATTTGCTAAAATTAC
43408 TTTAGTTAAGGG
1 TTTAGTTAAGGG
43420 AGAAAGAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.74
40 11 0.26
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.34
Consensus pattern (40 bp):
TTTAGTTAAGGGGGAGAATGCACAAATTTGCTAAAATTAC
Found at i:43985 original size:20 final size:21
Alignment explanation
Indices: 43962--44016 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
43952 ACAATTCAAA
**
43962 GTATCGATACATGTTGCA-AT
1 GTATCGATACATGTTAAAGAT
*
43982 GTATCGATACATGATAAAGAT
1 GTATCGATACATGTTAAAGAT
44003 GTATCGATACATGT
1 GTATCGATACATGT
44017 CATTGGGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (21 bp):
GTATCGATACATGTTAAAGAT
Found at i:44087 original size:32 final size:33
Alignment explanation
Indices: 44046--44107 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
44036 TAGCCAAACT
**
44046 TGTATCGATACACAAAGTA-TGTATCGATATAA
1 TGTATCGATACACAAAAAATTGTATCGATATAA
44078 TGTATCGATACACAAAAAATTGTATCGATA
1 TGTATCGATACACAAAAAATTGTATCGATA
44108 CATTGGCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATATAA
Found at i:46106 original size:21 final size:20
Alignment explanation
Indices: 46072--46114 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
46062 TATTAAAAAG
*
46072 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAACAA-GAA
46093 TTAGCTAA-GAAAAACAAGAA
1 TTAGCTAATG-AAAACAAGAA
46113 TT
1 TT
46115 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (20 bp):
TTAGCTAATGAAAACAAGAA
Found at i:46113 original size:20 final size:21
Alignment explanation
Indices: 46072--46114 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
46062 TATTAAAAAG
*
46072 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAATAAAGAA
46093 TTAGCTAA-GAAAA-ACAAGAA
1 TTAGCTAATGAAAATA-AAGAA
46113 TT
1 TT
46115 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (21 bp):
TTAGCTAATGAAAATAAAGAA
Found at i:49781 original size:13 final size:13
Alignment explanation
Indices: 49763--49815 Score: 88
Period size: 13 Copynumber: 4.1 Consensus size: 13
49753 ACAACATTCC
49763 TTGTATCGATACA
1 TTGTATCGATACA
49776 TTGTATCGATACA
1 TTGTATCGATACA
*
49789 TTTTATCGATACA
1 TTGTATCGATACA
*
49802 TTTTATCGATACA
1 TTGTATCGATACA
49815 T
1 T
49816 GGGTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:51730 original size:22 final size:22
Alignment explanation
Indices: 51686--51741 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
51676 AGATTTGACA
*
51686 AAGGGGGAGAAATGCCTTGATT
1 AAGGGGGAGAAATGCCTTAATT
* *
51708 AAGGGGGAGAAATTCTTTAATT
1 AAGGGGGAGAAATGCCTTAATT
51730 AAGGGGGAGAAA
1 AAGGGGGAGAAA
51742 AATGAAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (22 bp):
AAGGGGGAGAAATGCCTTAATT
Found at i:63508 original size:18 final size:18
Alignment explanation
Indices: 63481--63517 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
63471 ATTCAATCCA
*
63481 TGATTTAGACCTTGTATT
1 TGATTCAGACCTTGTATT
63499 TGATTCAGACCTTGTATT
1 TGATTCAGACCTTGTATT
63517 T
1 T
63518 TGGTCATTTC
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:0.22, C:0.14, G:0.16, T:0.49
Consensus pattern (18 bp):
TGATTCAGACCTTGTATT
Found at i:63939 original size:61 final size:61
Alignment explanation
Indices: 63833--63982 Score: 185
Period size: 61 Copynumber: 2.5 Consensus size: 61
63823 AAAGATGATG
* * * * *
63833 AAGATGAGAAGAGTGATAAATATGCCAATATGCTAATTCAGGGCCAGTGATATTAGGCTTA
1 AAGATAAGAAGAATGATAAATGTGCTAATATGCTAATTCAAGGCCAGTGATATTAGGCTTA
* * * *
63894 AATATAAGAAGAATGATAAAGGTGCTAATATGCTGATTCAAGGCCAGTGATATTGGGCTTA
1 AAGATAAGAAGAATGATAAATGTGCTAATATGCTAATTCAAGGCCAGTGATATTAGGCTTA
** *
63955 AAGATGTGAAGAATG-TCAATGTGCTAAT
1 AAGATAAGAAGAATGATAAATGTGCTAAT
63983 TCACAACTAA
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 11 0.15
61 64 0.85
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (61 bp):
AAGATAAGAAGAATGATAAATGTGCTAATATGCTAATTCAAGGCCAGTGATATTAGGCTTA
Found at i:64050 original size:52 final size:51
Alignment explanation
Indices: 63924--64266 Score: 213
Period size: 52 Copynumber: 6.7 Consensus size: 51
63914 GGTGCTAATA
* * * * * *
63924 TGCTGATTCAAGGCCAGTGATATTGGGCTTAAAGATGTGAAGAATGTCAATG
1 TGCTGATTCAAGGCCAGCGACATTAGACTTAAAGAT-AGAAGAATGCCAATG
* * * * *
63976 TGCTAATTCACA-ACTAACGACATTAGACTTGAAGATAAGAAGAATGCCAATG
1 TGCTGATTCA-AGGCCAGCGACATTAGACTTAAAGAT-AGAAGAATGCCAATG
* * * * *
64028 TGCTGATTCAAGGCCAGTGACATTAGGCTTTGGAATG-T-GAA-AGATGCTAATA
1 TGCTGATTCAAGGCCAGCGACATTAGAC-TT--AAAGATAGAAGA-ATGCCAATG
* * * *
64080 TGCTGATTCAATGTCAGC-A-ATATCGAACTTAAAGAT-GAAG-GTGCCAATG
1 TGCTGATTCAAGGCCAGCGACAT-TAG-ACTTAAAGATAGAAGAATGCCAATG
* * * * * *
64129 TGCTAATTTAAGGCCAGCGACATTGGACTTAAAGATGGTAA-AGTTGCTAATG
1 TGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATAG-AAGA-ATGCCAATG
* *
64181 TGCTGATTCAAGGCCAGCGACATTAGACTTAAA-AGTGGTAA-AAGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTAGACTTAAAGA-TAG-AAGAA-TGCCAATG
* *
64233 TGCTGATTCAAGGCCAGCCATATTAGACTTAAAG
1 TGCTGATTCAAGGCCAGCGACATTAGACTTAAAG
64267 GTGCCAATAT
Statistics
Matches: 226, Mismatches: 46, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
49 33 0.15
50 10 0.04
51 12 0.05
52 165 0.73
53 3 0.01
54 1 0.00
55 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (51 bp):
TGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATAGAAGAATGCCAATG
Found at i:64211 original size:101 final size:103
Alignment explanation
Indices: 63908--64266 Score: 267
Period size: 104 Copynumber: 3.5 Consensus size: 103
63898 TAAGAAGAAT
* * * * *
63908 GATA-AAGGTGCTAATATGCTGATTCAAGGCCAGTGATATTGGGCTTAAAG-ATGTG-AAGAATG
1 GATAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAATGTGAAAG-ATG
* * * * * *
63970 -TCAATGTGCTAATTCACA-ACTAACGACATTAGACTTGAA
65 CT-AATATGCTGATTCA-AGGCCAGCGACATTAGACTTAAA
* * **
64009 GATAAGAAGAATGCCAATGTGCTGATTCAAGGCCAGTGACATTAGG-CTT-TGGAATGTGAAAGA
1 GAT-AGAAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAATGTGAAAGA
* * *
64072 TGCTAATATGCTGATTCAATGTCAGC-A-ATATCGAACTTAAA
63 TGCTAATATGCTGATTCAAGGCCAGCGACAT-TAG-ACTTAAA
* * *
64113 GAT-GAAGGTGCCAATGTGCTAATTTAAGGCCAGCGACATTGGACTTAAAG-ATG-GTAAAGTTG
1 GATAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAATGTG-AAAGATG
*
64175 CTAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAA
65 CTAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAA
* * * * * *
64214 -AGTGGTAAAAGTGCCAATATGCTGATTCAAGGCCAGCCATATTAGACTTAAAG
1 GA-TAG--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
64267 GTGCCAATAT
Statistics
Matches: 207, Mismatches: 32, Indels: 35
0.76 0.12 0.13
Matches are distributed among these distances:
100 4 0.02
101 73 0.35
102 12 0.06
103 10 0.05
104 102 0.49
105 6 0.03
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (103 bp):
GATAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAATGTGAAAGATGC
TAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAA
Found at i:64263 original size:153 final size:154
Alignment explanation
Indices: 63905--64266 Score: 360
Period size: 153 Copynumber: 2.3 Consensus size: 154
63895 ATATAAGAAG
* ** * *
63905 AATGATAAAGGTGCTAATATGCTGATTCAAGGCCAGTGATATTGGGCTTAAAGATGTGAAGAATG
1 AATG-TAAAAGTGCTAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGA-GTGAAGAATG
* * *
63970 TCAATGTGCTAATTCACAACTAACGACATTAGACTTGAAGATAAGAAGAATGCCAATGTGCTGAT
64 CCAATGTGCTAATTCACAACCAACGACATTAGACTTAAAGATAAGAAGAATGCCAATGTGCTGAT
* * **
64035 TCAAGGCCAGTGACATTAGGCTTTGG
129 TCAAGGCCAGCGACATTAGACTTTAA
* * * * *
64061 AATGTGAAAGATGCTAATATGCTGATTCAATGTCAGCAATA-TCGAACTTAAAGA-TGAAG-GTG
1 AATGTAAAAG-TGCTAATATGCTGATTCAAGGCCAGCAATATTAG-ACTTAAAGAGTGAAGAATG
* * * * * * *
64123 CCAATGTGCTAATTTA-AGGCCAGCGACATTGGACTTAAAGAT-GGTAA-AGTTGCTAATGTGCT
64 CCAATGTGCTAATTCACA-ACCAACGACATTAGACTTAAAGATAAG-AAGA-ATGCCAATGTGCT
64185 GATTCAAGGCCAGCGACATTAGAC-TTAA
126 GATTCAAGGCCAGCGACATTAGACTTTAA
* *
64213 AAGTGGTAAAAGTGCCAATATGCTGATTCAAGGCCAGCCATATTAGACTTAAAG
1 AA-T-GTAAAAGTGCTAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAG
64267 GTGCCAATAT
Statistics
Matches: 169, Mismatches: 29, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
152 7 0.04
153 105 0.62
154 13 0.08
155 6 0.04
156 38 0.22
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (154 bp):
AATGTAAAAGTGCTAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGAGTGAAGAATGCC
AATGTGCTAATTCACAACCAACGACATTAGACTTAAAGATAAGAAGAATGCCAATGTGCTGATTC
AAGGCCAGCGACATTAGACTTTAA
Found at i:64288 original size:21 final size:21
Alignment explanation
Indices: 64224--64288 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
64214 AGTGGTAAAA
*
64224 GTGCCAATATGCTGATTCAAG
1 GTGCCAATATGTTGATTCAAG
* * *
64245 GCCAGCC-ATAT-TAGACTTAAAG
1 G--TGCCAATATGTTGA-TTCAAG
64267 GTGCCAATATGTTGATTCAAG
1 GTGCCAATATGTTGATTCAAG
64288 G
1 G
64289 CCAGTGGCAT
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
20 3 0.09
21 13 0.41
22 13 0.41
23 3 0.09
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (21 bp):
GTGCCAATATGTTGATTCAAG
Found at i:64291 original size:95 final size:95
Alignment explanation
Indices: 64167--64394 Score: 251
Period size: 95 Copynumber: 2.4 Consensus size: 95
64157 TTAAAGATGG
* * * *** *
64167 TAAAGTTGCTAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAA-AGTGGTAAAAGTGCCAA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGA-TAACAAAAGCGCCAA
*
64231 TATGCTGATTCAAGGCCAGCCATATTAGACT
65 TATACTGATTCAAGGCCAGCCATATTAGACT
* * * ** * *
64262 TAAAGGTGCCAATATGTTGATTCAAGGCCAGTGGCATCGGACTTAAAGATAACAAAGGCGTCAAT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATAACAAAAGCGCCAAT
* * *
64327 ATATTGATTCAAGGCCAGCGATATTCGACT
66 ATACTGATTCAAGGCCAGCCATATTAGACT
* * *
64357 TAAAGGTGCCAATGTGCTAATTCAAGGCTAGCGACATT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATT
64395 GGGCTTAGAA
Statistics
Matches: 107, Mismatches: 25, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
95 106 0.99
96 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (95 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATAACAAAAGCGCCAAT
ATACTGATTCAAGGCCAGCCATATTAGACT
Found at i:64528 original size:32 final size:31
Alignment explanation
Indices: 64439--64649 Score: 214
Period size: 32 Copynumber: 6.7 Consensus size: 31
64429 CTTTTAAAAG
* * *
64439 GTGTGGGCTTT-AAGAAGGGTTACCACTAGTTT
1 GTGTGGGCTTTGAAGAA-GGTTGCCACCA-CTT
* *
64471 TTGTGGGCTTTGAAG-GGGTTGCCACCGACTT
1 GTGTGGGCTTTGAAGAAGGTTGCCACC-ACTT
*
64502 GTGTGGGCTTTTCAAG-AGGTTGCCACCAACTT
1 GTGTGGGC-TTTGAAGAAGGTTGCCACC-ACTT
* *
64534 GTGTGGACTTTGAAGAAGGTTGCCACCAGTT
1 GTGTGGGCTTTGAAGAAGGTTGCCACCACTT
64565 -TGTGTGGCTTTGAAGAAGGTTGCCACCAGCTT
1 GTGTG-GGCTTTGAAGAAGGTTGCCACCA-CTT
* * *
64597 GTGTGGGCTTTGGAGAAGATTGCAACCAACTT
1 GTGTGGGCTTTGAAGAAGGTTGCCACC-ACTT
*
64629 GTGTGGGCTTTGGAGAAGGTT
1 GTGTGGGCTTTGAAGAAGGTT
64650 CTCCACTAGG
Statistics
Matches: 153, Mismatches: 18, Indels: 16
0.82 0.10 0.09
Matches are distributed among these distances:
30 4 0.03
31 48 0.31
32 93 0.61
33 8 0.05
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.31
Consensus pattern (31 bp):
GTGTGGGCTTTGAAGAAGGTTGCCACCACTT
Found at i:64539 original size:63 final size:64
Alignment explanation
Indices: 64472--64639 Score: 209
Period size: 63 Copynumber: 2.6 Consensus size: 64
64462 CACTAGTTTT
*
64472 TGTGGGCTTTGAAG-GGGTTGCCACCGACTTGTGTGGGCTTTTCAAG-AGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAGAAGGTTGCCACC-ACTTGTGTGGGCTTTTCAAGAAGGTTGCCACCAACTTG
* * * *
64535 TGTGGACTTTGAAGAAGGTTGCCACCAGTT-TGTGTGGC-TTTGAAGAAGGTTGCCACCAGCTTG
1 TGTGGGCTTTGAAGAAGGTTGCCACCACTTGTGTG-GGCTTTTCAAGAAGGTTGCCACCAACTTG
* * *
64598 TGTGGGCTTTGGAGAAGATTGCAACCAACTTGTGTGGGCTTT
1 TGTGGGCTTTGAAGAAGGTTGCCACC-ACTTGTGTGGGCTTT
64640 GGAGAAGGTT
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
62 10 0.11
63 57 0.64
64 16 0.18
65 6 0.07
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.31
Consensus pattern (64 bp):
TGTGGGCTTTGAAGAAGGTTGCCACCACTTGTGTGGGCTTTTCAAGAAGGTTGCCACCAACTTG
Found at i:64602 original size:95 final size:95
Alignment explanation
Indices: 64439--64649 Score: 268
Period size: 95 Copynumber: 2.2 Consensus size: 95
64429 CTTTTAAAAG
* * *
64439 GTGTGGGCTTT-AAGAAGGGTTACCACTAGTTTTTGTGGGCTTTGAAGGGGTTGCCACCGACTTG
1 GTGTGGGCTTTGAAGAA-GGTTACCACCAGTTTGTGTGGGCTTTGAAGAGGTTGCCACCGACTTG
* *
64503 TGTGGGCTTTTCAAG-AGGTTGCCACCAACTT
65 TGTGGGC-TTTCAAGAAGATTGCAACCAACTT
* *
64534 GTGTGGACTTTGAAGAAGGTTGCCACCAGTTTGTGT-GGCTTTGAAGAAGGTTGCCACC-AGCTT
1 GTGTGGGCTTTGAAGAAGGTTACCACCAGTTTGTGTGGGCTTTGAAG-AGGTTGCCACCGA-CTT
**
64597 GTGTGGGCTTTGGAGAAGATTGCAACCAACTT
64 GTGTGGGCTTTCAAGAAGATTGCAACCAACTT
*
64629 GTGTGGGCTTTGGAGAAGGTT
1 GTGTGGGCTTTGAAGAAGGTT
64650 CTCCACTAGG
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
94 16 0.16
95 80 0.79
96 5 0.05
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.31
Consensus pattern (95 bp):
GTGTGGGCTTTGAAGAAGGTTACCACCAGTTTGTGTGGGCTTTGAAGAGGTTGCCACCGACTTGT
GTGGGCTTTCAAGAAGATTGCAACCAACTT
Found at i:64879 original size:28 final size:27
Alignment explanation
Indices: 64820--64879 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
64810 TATACGGCAA
64820 GTGCCACTAATTGTGGACTTCAAAAAG
1 GTGCCACTAATTGTGGACTTCAAAAAG
* * *
64847 ATGCCACTAACTTGTGGACTTCGAAGAG
1 GTGCCACTAA-TTGTGGACTTCAAAAAG
64875 GTGCC
1 GTGCC
64880 CTTGACTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (27 bp):
GTGCCACTAATTGTGGACTTCAAAAAG
Found at i:66640 original size:164 final size:161
Alignment explanation
Indices: 66461--66906 Score: 368
Period size: 163 Copynumber: 2.7 Consensus size: 161
66451 TCAAAATCCC
*
66461 TTTTATTTTATGAGTTTTTCATTTTCCCTTAAATTCCTTT-TGATTTTGAAATATAAAATTTTCT
1 TTTTATTTTATGAGTTTTTCATTTTCCCTTAAATT--TTTCTGATTTTGAAATACAAAATTTT-T
* * *
66525 T-CTCCGTAAATTTGTTTTGGGAGCA-TTTTCATCGGTTCAAAATTTTTAATATTCATCAAACAT
63 TACTCCGTAAATAT-TTTCGGG-GCATTTTTC-TCGGTTCAAAATTTTTAAAATTC-TCAAACAT
* * * *
66588 TATTATTTAACTCATATTAAATCAATTTT-AAAATTTA
124 CATCATGTAACTCATATTAAATCAATTTTGAAAAATTA
* *
66625 -TTTATTTTCATGAGTTATTT-ATTTTTTCCCTTAAATTTTTCTGTTTTTGAAATACAAAGTTTT
1 TTTTATTTT-ATGAGTT-TTTCA--TTTTCCCTTAAATTTTTCTGATTTTGAAATACAAAATTTT
* * * * * * * * *
66688 TTATTCCGTCAATATTTTCGGGGGATTTTTCTTGGTTTATATTTTTTAAAATTCTCAAATATCGT
62 TTACTCCGTAAATATTTTCGGGGCATTTTTCTCGGTTCAAAATTTTTAAAATTCTCAAACATCAT
* *
66753 CATGTAATTCATATTAAATCATTTTTGAAAAATTA
127 CATGTAACTCATATTAAATCAATTTTGAAAAATTA
* * * * *** *
66788 TTTTATTTTTATAAGTTTTTCATTTTTCTTTGAAA-TTTTCTTG-TTTTCGAAAAATTGAGTTTT
1 TTTTA-TTTTATGAGTTTTTCATTTTCCCTT-AAATTTTTC-TGATTTT-GAAATACAAAATTTT
* * * * * *
66851 TTATTGCATAAATGTTTTCGGGGGGGATTTTTCTCGGTTTAAAATTTTTAAAATTC
62 TTACTCCGTAAATATTTTC--GGGGCATTTTTCTCGGTTCAAAATTTTTAAAATTC
66907 ATCTAATATT
Statistics
Matches: 231, Mismatches: 35, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
162 46 0.20
163 69 0.30
164 35 0.15
165 67 0.29
166 14 0.06
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (161 bp):
TTTTATTTTATGAGTTTTTCATTTTCCCTTAAATTTTTCTGATTTTGAAATACAAAATTTTTTAC
TCCGTAAATATTTTCGGGGCATTTTTCTCGGTTCAAAATTTTTAAAATTCTCAAACATCATCATG
TAACTCATATTAAATCAATTTTGAAAAATTA
Found at i:66826 original size:163 final size:164
Alignment explanation
Indices: 66550--66915 Score: 393
Period size: 163 Copynumber: 2.2 Consensus size: 164
66540 TTTGGGAGCA
* * * ** * * *
66550 TTTTCATCGGTTCAAAATTTTTAATATTCATCAAACATTATTATTTAACTCATATTAAATCAATT
1 TTTTC-TCGGTTTAAAATTTTTAAAATTCATCAAATATCGTCATGTAATTCATATTAAATCAATT
* * * *
66615 TTAAAATTTATTTATTTTCATGAGTTATTTATTTTTTCCCTTAAATTTT-TCTGTTTTTGAAATA
65 TTAAAAATTATTTATTTTCATAAGTTATTTATTTTTTCCCTTAAATTTTCT-TGTTTTCGAAAAA
* *
66679 CAAAGTTTTTTATTCCGTCAATATTTTC-GGGGGAT
129 CAAAGTTTTTTATTCCATAAATATTTTCGGGGGGAT
* * * *
66714 TTTTCTTGGTTTATATTTTTTAAAATTC-TCAAATATCGTCATGTAATTCATATTAAATCATTTT
1 TTTTCTCGGTTTAAAATTTTTAAAATTCATCAAATATCGTCATGTAATTCATATTAAATCAATTT
* *
66778 TGAAAAATTATTTTATTTTTATAAGTT-TTTCA-TTTTT-CTTTGAAATTTTCTTGTTTTCGAAA
66 T-AAAAATTA-TTTATTTTCATAAGTTATTT-ATTTTTTCCCTT-AAATTTTCTTGTTTTCGAAA
*** * *
66840 AATTGAGTTTTTTATTGCATAAATGTTTTCGGGGGGGAT
127 AACAAAGTTTTTTATTCCATAAATATTTTC-GGGGGGAT
*
66879 TTTTCTCGGTTTAAAATTTTTAAAATTCATCTAATAT
1 TTTTCTCGGTTTAAAATTTTTAAAATTCATCAAATAT
66916 TTTCATTGAA
Statistics
Matches: 165, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
162 33 0.20
163 72 0.44
164 21 0.13
165 32 0.19
166 7 0.04
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (164 bp):
TTTTCTCGGTTTAAAATTTTTAAAATTCATCAAATATCGTCATGTAATTCATATTAAATCAATTT
TAAAAATTATTTATTTTCATAAGTTATTTATTTTTTCCCTTAAATTTTCTTGTTTTCGAAAAACA
AAGTTTTTTATTCCATAAATATTTTCGGGGGGAT
Found at i:68373 original size:22 final size:22
Alignment explanation
Indices: 68348--68393 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
68338 TTCTTGTGAT
*
68348 TTTAGGTACTGATTTTGATATG
1 TTTAAGTACTGATTTTGATATG
68370 TTTAAGTACTGATTTTGATATG
1 TTTAAGTACTGATTTTGATATG
68392 TT
1 TT
68394 GATATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.52
Consensus pattern (22 bp):
TTTAAGTACTGATTTTGATATG
Found at i:74203 original size:20 final size:19
Alignment explanation
Indices: 74132--74205 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
74122 AAAAAGACAT
74132 AATGTATCGAT-CATTGAA
1 AATGTATCGATACATTGAA
* *
74150 TAATGTATCGACACATTCATA
1 -AATGTATCGATACATTGA-A
* * *
74171 CATGCATCTATACATTGAA
1 AATGTATCGATACATTGAA
*
74190 GGATGTATCGATACAT
1 -AATGTATCGATACAT
74206 CTGGGTAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
19 11 0.26
20 30 0.71
21 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:76643 original size:31 final size:30
Alignment explanation
Indices: 76611--76997 Score: 132
Period size: 29 Copynumber: 13.4 Consensus size: 30
76601 CATTGAGTTT
*
76611 AGAAGAGTTGCCAGCAACTTGTGTGGGCTTTAG
1 AGAAG-GTTGCCACCAA-TT-TGTGGGCTTTAG
76644 AGAAGGTTGCCACCAATTTGTGGGCTTTA-
1 AGAAGGTTGCCACCAATTTGTGGGCTTTAG
* ** * *
76673 A-AAGGATGCCACTGATTTGTGGG-ATTCG
1 AGAAGGTTGCCACCAATTTGTGGGCTTTAG
* * * *
76701 A-AAGGGTGCCACTAACTTATGGGCTTT-G
1 AGAAGGTTGCCACCAATTTGTGGGCTTTAG
* * *
76729 A-AAGGGTGCCA-CTATCTTATGGGC-TTA-
1 AGAAGGTTGCCACCAAT-TTGTGGGCTTTAG
* * * *
76756 A-AGGGGTGCCACTAACTTGTGGGCTTT-G
1 AGAAGGTTGCCACCAATTTGTGGGCTTTAG
* * ** *
76784 AAAAGGATGCCACTGACTTGTGGGCTTT-G
1 AGAAGGTTGCCACCAATTTGTGGGCTTTAG
* * * *
76813 AGAAGGATGCCACTAACTCGTGGGCTTTCA-
1 AGAAGGTTGCCACCAATTTGTGGGCTTT-AG
* *** ** *
76843 A-AAGGATGCCATTGACATGTGGGCTTT-C
1 AGAAGGTTGCCACCAATTTGTGGGCTTTAG
* ** *
76871 A-AAGGATGCCACTGACTTGTGGGCTTT-G
1 AGAAGGTTGCCACCAATTTGTGGGCTTTAG
* * * *
76899 AGAAGGATGCCACTAACTTGTAGGCTTT-G
1 AGAAGGTTGCCACCAATTTGTGGGCTTTAG
* * **
76928 AGAAGGATGCCACTAACATGTGGGCTTT-G
1 AGAAGGTTGCCACCAATTTGTGGGCTTTAG
* ** *
76957 A-AAGGATGCCATTAACTTGTGGGCTTT-G
1 AGAAGGTTGCCACCAATTTGTGGGCTTTAG
*
76985 AGAAGGATGCCAC
1 AGAAGGTTGCCAC
76998 TGACTTATGG
Statistics
Matches: 302, Mismatches: 39, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
27 22 0.07
28 114 0.38
29 137 0.45
30 12 0.04
31 2 0.01
32 10 0.03
33 5 0.02
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (30 bp):
AGAAGGTTGCCACCAATTTGTGGGCTTTAG
Found at i:76654 original size:32 final size:31
Alignment explanation
Indices: 76611--76672 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
76601 CATTGAGTTT
*
76611 AGAAGAGTTGCCAGCAACTTGTGTGGGCTTTAG
1 AGAAGAGTTGCCACCAA-TT-TGTGGGCTTTAG
76644 AGAAG-GTTGCCACCAATTTGTGGGCTTTA
1 AGAAGAGTTGCCACCAATTTGTGGGCTTTA
76673 AAAGGATGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 11 0.39
31 2 0.07
32 10 0.36
33 5 0.18
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (31 bp):
AGAAGAGTTGCCACCAATTTGTGGGCTTTAG
Found at i:76797 original size:29 final size:29
Alignment explanation
Indices: 76632--77103 Score: 505
Period size: 28 Copynumber: 16.6 Consensus size: 29
76622 CAGCAACTTG
* * * *
76632 TGTGGGCTTTAGAGAAGGTTGCCACCAATT
1 TGTGGGCTTT-GAAAAGGATGCCACTAACT
* *
76662 TGTGGGCTTT-AAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
* * *
76690 TGTGGGATTCG-AAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
* * *
76718 TATGGGCTTTG-AAAGGGTGCCACTATCT
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
* * *
76746 TATGGGC-TT-AAAGGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
*
76773 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
*
76802 TGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
* * * * *
76831 CGTGGGCTTTCAAAAGGATGCCATTGACA
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
* *
76860 TGTGGGCTTT-CAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
*
76888 TGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
* * *
76917 TGTAGGCTTTGAGAAGGATGCCACTAACA
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
*
76946 TGTGGGCTTTG-AAAGGATGCCATTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
* *
76974 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
* * * *
77003 TATGGGCTTTG-AAAGGATGCCATTGACA
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
* * *
77031 TGTGGGCTTTG-AAAGGATGCCATTGACA
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
* *
77059 TGTGGGCTTT-AAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
77087 TGTGGGCTTTGAAAAGG
1 TGTGGGCTTTGAAAAGG
77104 GCCGTATTGA
Statistics
Matches: 382, Mismatches: 52, Indels: 17
0.85 0.12 0.04
Matches are distributed among these distances:
27 23 0.06
28 194 0.51
29 155 0.41
30 10 0.03
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGATGCCACTAACT
Found at i:78389 original size:21 final size:21
Alignment explanation
Indices: 78348--78389 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
78338 CATCTAGACC
* *
78348 TTTCTTTTTTTTGTTTGTTTG
1 TTTCTTTTGTTTATTTGTTTG
*
78369 TTTCTTTTGTTTATTTTTTTG
1 TTTCTTTTGTTTATTTGTTTG
78390 GTACAAAGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.81
Consensus pattern (21 bp):
TTTCTTTTGTTTATTTGTTTG
Found at i:83264 original size:40 final size:40
Alignment explanation
Indices: 83203--83293 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
83193 TAACTAGATG
* * *
83203 TATCGATACATTATTCAATGTATCGATACATTGAAGAATA
1 TATCGATACATTATACAATGTATCAATACATTGAAAAATA
* *
83243 TATCGATACATTCATAC-ATGTATCAATATATTGAAAAATG
1 TATCGATACATT-ATACAATGTATCAATACATTGAAAAATA
*
83283 CATCGATACAT
1 TATCGATACAT
83294 ATGGGTGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
40 41 0.93
41 3 0.07
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (40 bp):
TATCGATACATTATACAATGTATCAATACATTGAAAAATA
Found at i:83266 original size:20 final size:19
Alignment explanation
Indices: 83200--83266 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
83190 TTTTAACTAG
*
83200 ATGTATCGATACATTATTC
1 ATGTATCGATACATTATAC
*
83219 AATGTATCGATACATTGA-AGA
1 -ATGTATCGATACATT-ATA-C
*
83240 ATATATCGATACATTCATAC
1 ATGTATCGATACATT-ATAC
83260 ATGTATC
1 ATGTATC
83267 AATATATTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 36 0.95
21 2 0.05
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (19 bp):
ATGTATCGATACATTATAC
Found at i:85751 original size:13 final size:13
Alignment explanation
Indices: 85733--85757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85723 ACACACAGTA
85733 TGTATCGATACAT
1 TGTATCGATACAT
85746 TGTATCGATACA
1 TGTATCGATACA
85758 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:85754 original size:32 final size:33
Alignment explanation
Indices: 85713--85779 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
85703 GTAGCCAAAC
**
85713 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
85745 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
85778 TT
1 TT
85780 AGGTTGTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:93575 original size:21 final size:21
Alignment explanation
Indices: 93551--93594 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
93541 AAGGGGGAGA
93551 GAATCTTTGTAAAATAAATTT
1 GAATCTTTGTAAAATAAATTT
93572 GAATCTTTGTAAAATAAATTT
1 GAATCTTTGTAAAATAAATTT
93593 GA
1 GA
93595 TTGAGGGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (21 bp):
GAATCTTTGTAAAATAAATTT
Found at i:93659 original size:22 final size:21
Alignment explanation
Indices: 93634--93677 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
93624 CGAAAGTGTT
*
93634 AAATTGTTTTACAAAGGGGGAG
1 AAATT-TTTGACAAAGGGGGAG
**
93656 AAATTTTTGATTAAGGGGGAG
1 AAATTTTTGACAAAGGGGGAG
93677 A
1 A
93678 GAAAAGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.32, T:0.30
Consensus pattern (21 bp):
AAATTTTTGACAAAGGGGGAG
Found at i:104083 original size:20 final size:20
Alignment explanation
Indices: 104011--104136 Score: 90
Period size: 20 Copynumber: 5.8 Consensus size: 20
104001 AAAAAGATAG
* *
104011 AATGTATCGATAAATTGAAG
1 AATGTATCGATACATTGAAA
* * * *
104031 AATGTATCAATATATTCATA
1 AATGTATCGATACATTGAAA
*
104051 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
104071 AATGTATCGATACATCTGGGTAAAAGATA
1 AATGTATCGATACAT-T--G----A-A-A
104100 GAATGTATCGATACATTGAAA
1 -AATGTATCGATACATTGAAA
*
104121 AATATATCGATACATT
1 AATGTATCGATACATT
104137 TCGGTAAAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 20
0.72 0.10 0.17
Matches are distributed among these distances:
20 59 0.70
21 2 0.02
22 1 0.01
23 2 0.02
27 2 0.02
28 1 0.01
29 2 0.02
30 15 0.18
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:105890 original size:21 final size:21
Alignment explanation
Indices: 105865--105904 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
105855 ATCCTTGATT
105865 AAAACAAAACAAAACTAAATA
1 AAAACAAAACAAAACTAAATA
*
105886 AAAACAAAACAAAGCTAAA
1 AAAACAAAACAAAACTAAA
105905 GATGAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.75, C:0.15, G:0.03, T:0.07
Consensus pattern (21 bp):
AAAACAAAACAAAACTAAATA
Found at i:111154 original size:21 final size:21
Alignment explanation
Indices: 111128--111177 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
111118 TGCCAGGGTT
*
111128 CATTCTTTATCCTCATTCCTC
1 CATTCTTTACCCTCATTCCTC
*
111149 CATTCTTTACCCTCATTCCTT
1 CATTCTTTACCCTCATTCCTC
111170 CATTCTTT
1 CATTCTTT
111178 CCAAGTGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.14, C:0.36, G:0.00, T:0.50
Consensus pattern (21 bp):
CATTCTTTACCCTCATTCCTC
Found at i:114020 original size:11 final size:11
Alignment explanation
Indices: 114004--114076 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
113994 TGTCAAAAGT
114004 AAAAACACAAA
1 AAAAACACAAA
114015 AAAAAC-C---
1 AAAAACACAAA
*
114022 -AAAACAAAAA
1 AAAAACACAAA
114032 AAAAACACAAA
1 AAAAACACAAA
114043 AAAAA-ACAAA
1 AAAAACACAAA
*
114053 AACAA-A-AAA
1 AAAAACACAAA
*
114062 AAAACCACAAA
1 AAAAACACAAA
114073 AAAA
1 AAAA
114077 GAGAGTGCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
6 5 0.10
9 6 0.12
10 12 0.24
11 27 0.54
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACACAAA
Found at i:114025 original size:17 final size:17
Alignment explanation
Indices: 114005--114068 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 17
113995 GTCAAAAGTA
114005 AAAACACAAAAAAAACC
1 AAAACACAAAAAAAACC
114022 -AAA-ACAAAAAAAA--
1 AAAACACAAAAAAAACC
* *
114035 AACACA-AAAAAAAACA
1 AAAACACAAAAAAAACC
*
114051 AAAACAAAAAAAAAACC
1 AAAACACAAAAAAAACC
114068 A
1 A
114069 CAAAAAAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.26
15 11 0.28
16 8 0.21
17 10 0.26
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAACACAAAAAAAACC
Found at i:114030 original size:12 final size:11
Alignment explanation
Indices: 114004--114066 Score: 65
Period size: 11 Copynumber: 5.5 Consensus size: 11
113994 TGTCAAAAGT
114004 AAAAACACAAA-
1 AAAAACA-AAAC
114015 AAAAACCAAAAC
1 AAAAA-CAAAAC
*
114027 AAAAAAAAAAC
1 AAAAACAAAAC
*
114038 ACAAAAAAAAAC
1 A-AAAACAAAAC
*
114050 AAAAACAAAAA
1 AAAAACAAAAC
114061 AAAAAC
1 AAAAAC
114067 CACAAAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
11 28 0.61
12 18 0.39
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAC
Found at i:114040 original size:28 final size:28
Alignment explanation
Indices: 114004--114076 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 28
113994 TGTCAAAAGT
*
114004 AAAAACACAAAAAAAACCAAAACAAAAA
1 AAAAACACAAAAAAAACAAAAACAAAAA
114032 AAAAACACAAAAAAAAACAAAAACAAAAA
1 AAAAACAC-AAAAAAAACAAAAACAAAAA
114061 AAAAACCACAAAAAAA
1 AAAAA-CACAAAAAAA
114077 GAGAGTGCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
28 8 0.19
29 31 0.74
30 3 0.07
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (28 bp):
AAAAACACAAAAAAAACAAAAACAAAAA
Found at i:114061 original size:18 final size:17
Alignment explanation
Indices: 114012--114065 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
114002 GTAAAAACAC
* *
114012 AAAAAAAACCAAAACAA
1 AAAAAAAACAAAAAAAA
114029 AAAAAAAACACAAAAAAA
1 AAAAAAAACA-AAAAAAA
*
114047 AACAAAAACAAAAAAAA
1 AAAAAAAACAAAAAAAA
114064 AA
1 AA
114066 CCACAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 18 0.55
18 15 0.45
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAA
Found at i:115494 original size:31 final size:30
Alignment explanation
Indices: 115352--115689 Score: 352
Period size: 30 Copynumber: 10.8 Consensus size: 30
115342 TCTTCAAATC
115352 TCTCTTCTCAAAGTCCACGACTCAGTGGCAA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGC-A
* * * *
115383 TCTCTTTTTTCAAAGTCCATGGCTCAGTGACA
1 TCTC--TTCTCAAAGTCCACGACTCAGTGGCA
*
115415 TCTCTTCCCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
115445 TCTTTTTTTCTTCAAAGTCCACGACTCAATGGCAA
1 TC---TCTTC-TCAAAGTCCACGACTCAGTGGC-A
*
115480 TCTCTTCTCAAAGTCCATGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
115510 TCTCTTCCCAAAGTCCATGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * * *
115540 TCCTTTTTTTTTCAAAGTCCACAACTTAGTGGCAA
1 T-C---TCTTCTCAAAGTCCACGACTCAGTGGC-A
*
115575 TCTCTTTTCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
115605 TCTCTTCCCAAAGTCCACGACTTAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * *
115635 TATTTTCTTCAAAGTCCACGACTCAGTAGCAA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGC-A
*
115667 TCCCTTCTCAAAGTCCACGACTC
1 TCTCTTCTCAAAGTCCACGACTC
115690 CGAGACACTT
Statistics
Matches: 257, Mismatches: 36, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
30 87 0.34
31 84 0.33
32 14 0.05
33 25 0.10
34 42 0.16
35 5 0.02
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (30 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:115524 original size:95 final size:95
Alignment explanation
Indices: 115359--115689 Score: 481
Period size: 95 Copynumber: 3.5 Consensus size: 95
115349 ATCTCTCTTC
* * * *
115359 TCAAAGTCCACGACTCAGTGGCAATCTCTTTTTTCAAAGTCCATGGCTCAGTGACATCTCTTCCC
1 TCAAAGTCCACGACTCAGTGGCAATCTC--TTCTCAAAGTCCACGACTCAGTGGCATCTCTTCCC
115424 AAAGTCCACGACTCAGTGGCATCTTTTTTTCT
64 AAAGTCCACGACTCAGTGGCATCTTTTTTTCT
* *
115456 TCAAAGTCCACGACTCAATGGCAATCTCTTCTCAAAGTCCATGACTCAGTGGCATCTCTTCCCAA
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAA
*
115521 AGTCCATGACTCAGTGGCATCCTTTTTTT-T
66 AGTCCACGACTCAGTGGCAT-CTTTTTTTCT
* * *
115551 TCAAAGTCCACAACTTAGTGGCAATCTCTTTTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAA
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAA
* *
115616 AGTCCACGACTTAGTGGCA---TATTTTCT
66 AGTCCACGACTCAGTGGCATCTTTTTTTCT
* *
115643 TCAAAGTCCACGACTCAGTAGCAATCCCTTCTCAAAGTCCACGACTC
1 TCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTC
115690 CGAGACACTT
Statistics
Matches: 214, Mismatches: 18, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
91 5 0.02
92 43 0.20
95 131 0.61
96 8 0.04
97 27 0.13
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (95 bp):
TCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAA
AGTCCACGACTCAGTGGCATCTTTTTTTCT
Found at i:115725 original size:35 final size:36
Alignment explanation
Indices: 115669--115759 Score: 116
Period size: 35 Copynumber: 2.6 Consensus size: 36
115659 AGTAGCAATC
* *
115669 CCTTCTCAAAGTCCACGACTCCGAGACACT-TTTTT
1 CCTTTTCAAAGTCCACAACTCCGAGACACTCTTTTT
* * *
115704 CCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTCAAAGTCCACAACTCCGAGACACTCTTTTT
115740 CCTTTT--AAGTCCACAACTCC
1 CCTTTTCAAAGTCCACAACTCC
115760 ATGGTAACCT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
34 13 0.27
35 25 0.51
36 11 0.22
ACGTcount: A:0.22, C:0.36, G:0.10, T:0.32
Consensus pattern (36 bp):
CCTTTTCAAAGTCCACAACTCCGAGACACTCTTTTT
Found at i:115786 original size:96 final size:91
Alignment explanation
Indices: 115677--115854 Score: 241
Period size: 96 Copynumber: 1.9 Consensus size: 91
115667 TCCCTTCTCA
* *
115677 AAGTCCACGACTCCGAGACA-CTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 AAGTCCACAACTCCGAGACATC-TTTTTCCTTTT--AAGCCCACAACTCCGTGACAC-CTTTTT-
115741 CTTTTAAGTCCACAACTCCATGGTAACCTTTT
61 -TTTTAAGTCCACAACTCCATGGTAACCTTTT
* * *
115773 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGACACCTTTTTTTTTA
1 AAGTCCACAACTCCGAGACATCTTTTTCCTTTTAAGCCCACAACTCCGTGACACCTTTTTTTTTA
*
115838 AGTCCACGACTCCATGG
66 AGTCCACAACTCCATGG
115855 CACACTTTTC
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
91 21 0.28
93 6 0.08
94 19 0.25
96 28 0.37
97 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.34
Consensus pattern (91 bp):
AAGTCCACAACTCCGAGACATCTTTTTCCTTTTAAGCCCACAACTCCGTGACACCTTTTTTTTTA
AGTCCACAACTCCATGGTAACCTTTT
Found at i:115799 original size:27 final size:27
Alignment explanation
Indices: 115740--115792 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
115730 CACTCTTTTT
*
115740 CCTTTTAAGTCCACAACTCCATGGTAA
1 CCTTTTAAGTCCACAACTCCATGGCAA
*
115767 CCTTTTAAGTCCACAACTCCGTGGCA
1 CCTTTTAAGTCCACAACTCCATGGCA
115793 TCTTTTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCATGGCAA
Found at i:115988 original size:49 final size:49
Alignment explanation
Indices: 115927--116391 Score: 344
Period size: 49 Copynumber: 9.9 Consensus size: 49
115917 TCCGTGGCAC
* * * *
115927 CTTTAAGTCCAATATCGTTGGTCTTGAATTAGCATATTGGCACCTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* *
115976 CGTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGG------CA-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * *
116018 ---TAAGCCCAATATCGCTGACCTTGAATCAGCATATTAGCACCTT-AT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * * *
116063 CTTTAAGACCAATGTCGTTGGCCTTGAATTAGCACATT---A--GT-A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * *
116105 C---AAGCCCAATATCGCTGGCCTTGAATAAGAATATTGGCACCTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * *
116151 CTTTAAGACCGATTTCGTTGGCCTTGAATCAGCACATTGGCACCTTAACCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT---CAT
* * * * * *
116203 TTTTAAGTCCGATATC-ATCGGCCTTGAATCAGCACATTGGCATCTTCAT
1 CTTTAAGACCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTTCAT
** * ** * * *
116252 CTTTAAGTTCGATATCGCTAACCTTAAATTAGCATATTGGCACCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* * * *
116301 CTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACAGTGGCACCTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
* ** * *
116350 CTTTAAGTCTGATATTGTTGGCCTTGAATCAGCATATTGGCA
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
116392 TCTTTAACAT
Statistics
Matches: 326, Mismatches: 65, Indels: 50
0.74 0.15 0.11
Matches are distributed among these distances:
39 61 0.19
42 2 0.01
43 4 0.01
44 2 0.01
45 2 0.01
46 1 0.00
48 29 0.09
49 181 0.56
50 1 0.00
51 1 0.00
52 42 0.13
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (49 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
Found at i:116110 original size:87 final size:88
Alignment explanation
Indices: 115935--116193 Score: 358
Period size: 87 Copynumber: 3.0 Consensus size: 88
115925 ACCTTTAAGT
* * * * *
115935 CCAATATCGTTGGTCTTGAATTAGCATATTGGCACCTTCATCGTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATAAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTTGGCCT
* * *
116000 TGAATCAGCATATTGGCATAAGC
66 TGAATCAGCACATTAGCACAAGC
* * *
116023 CCAATATCGCTGACCTTGAATCAGCATATTAGCACCTT-ATCTTTAAGACCAATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATAAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTTGGCCT
* *
116087 TGAATTAGCACATTAGTACAAGC
66 TGAATCAGCACATTAGCACAAGC
* * *
116110 CCAATATCGCTGGCCTTGAATAAGAATATTGGCACCTTCATCTTTAAGACCGATTTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATAAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTTGGCCT
*
116175 TGAATCAGCACATTGGCAC
66 TGAATCAGCACATTAGCAC
116194 CTTAACCATT
Statistics
Matches: 149, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
87 76 0.51
88 73 0.49
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (88 bp):
CCAATATCGCTGGCCTTGAATAAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTTGGCCT
TGAATCAGCACATTAGCACAAGC
Found at i:116420 original size:150 final size:148
Alignment explanation
Indices: 116106--116484 Score: 399
Period size: 150 Copynumber: 2.5 Consensus size: 148
116096 ACATTAGTAC
* * * ** * *
116106 AAGCCCAATATCGCTGGCCTTGAATAAGAATATTGGCACCTTCATCTTTAAGACCGATTTCGTTG
1 AAGCCCAATATCGCTAGCCTTGAATAAGCATATTGGCACCTTTATCTTTAAGACTAATGTCGCTG
* *
116171 GCCTTGAATCAGCACATTGGCACCTTAACCATTTTTAAGTCCGATATCATCGGCCTTGAATCAGC
66 GCCTTGAATCAGCACAGTGGCACCTT-A-CATCTTTAAGTCCGATATCATCGGCCTTGAATCAGC
*
116236 ACATTGGCATCTTCATCTTT
129 ACATTGGCATCTTCAACTTT
** * * * *
116256 AAGTTCGATATCGCTAACCTTAAATTAGCATATTGGCACCTTTATCTTTAAGACTAATGTCGCTG
1 AAGCCCAATATCGCTAGCCTTGAATAAGCATATTGGCACCTTTATCTTTAAGACTAATGTCGCTG
* ** * *
116321 GCCTTGAATCAGCACAGTGGCACCTT-CATCTTTAAGTCTGATATTGTTGGCCTTGAATCAGCAT
66 GCCTTGAATCAGCACAGTGGCACCTTACATCTTTAAGTCCGATATCATCGGCCTTGAATCAGCAC
*
116385 ATTGGCATCTTTAACATTCCT
131 ATTGGCATCTTCAAC-TT--T
* ** * *
116406 AAGCCCAATGTCGCTAGCCTTGTCTCAA-CATATTGGCA--TTCT-TCTTCAAGTCTAATGTCGC
1 AAGCCCAATATCGCTAGCCTTGAAT-AAGCATATTGGCACCTT-TATCTTTAAGACTAATGTCGC
* *
116467 TAGCCATGAATCAGCACA
64 TGGCCTTGAATCAGCACA
116485 TTGTCATTCT
Statistics
Matches: 189, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
147 45 0.24
148 37 0.20
149 1 0.01
150 105 0.56
151 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (148 bp):
AAGCCCAATATCGCTAGCCTTGAATAAGCATATTGGCACCTTTATCTTTAAGACTAATGTCGCTG
GCCTTGAATCAGCACAGTGGCACCTTACATCTTTAAGTCCGATATCATCGGCCTTGAATCAGCAC
ATTGGCATCTTCAACTTT
Found at i:121441 original size:13 final size:13
Alignment explanation
Indices: 121408--121444 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
121398 GCATTTGATC
*
121408 ATGTATCAATACA
1 ATGTATCGATACA
121421 ATGTATCGATACA
1 ATGTATCGATACA
*
121434 CTGTATCGATA
1 ATGTATCGATA
121445 ATGAGTGAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:124269 original size:95 final size:94
Alignment explanation
Indices: 124119--124296 Score: 257
Period size: 95 Copynumber: 1.9 Consensus size: 94
124109 AAAGTTCTCT
* * * * *
124119 TAAAAAAAATTTCTCCCCCTCGATAATATAATAAAGGTAGAATTTTATCTCATCTCTTTTATCAA
1 TAAAAAAAATTTCTCCCCCTCGATAAAATAATAAAGGCAAAAATTTATCTCATCTCCTTTATCAA
*
124184 ATTTATTTTTAGAAATTTATATACCACCC
66 ATTTATTTTCAGAAATTTATATACCACCC
* * * *
124213 TAAAAAAAATTTCTCCCCCCTTGATAAAATAATGAAGGCAAAAATTTATTTTATCTCCTTTATCA
1 TAAAAAAAATTTCT-CCCCCTCGATAAAATAATAAAGGCAAAAATTTATCTCATCTCCTTTATCA
124278 AATTTATTTTCAGAAATTT
65 AATTTATTTTCAGAAATTT
124297 CTCCCCCTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
94 14 0.19
95 59 0.81
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (94 bp):
TAAAAAAAATTTCTCCCCCTCGATAAAATAATAAAGGCAAAAATTTATCTCATCTCCTTTATCAA
ATTTATTTTCAGAAATTTATATACCACCC
Found at i:132348 original size:13 final size:13
Alignment explanation
Indices: 132330--132355 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132320 CAATTTTTTG
132330 TGTATCGATACAT
1 TGTATCGATACAT
132343 TGTATCGATACAT
1 TGTATCGATACAT
132356 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:132367 original size:32 final size:33
Alignment explanation
Indices: 132310--132373 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
132300 TGCAAGCCAA
**
132310 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
*
132343 TGTATCGATAC-ATACTTTGTGTATCGTTACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
132374 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:135125 original size:43 final size:43
Alignment explanation
Indices: 135063--135336 Score: 314
Period size: 43 Copynumber: 6.1 Consensus size: 43
135053 TAAAGATGGA
* * * *
135063 AAAGGTGCAAATATACTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
135106 AAAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
*
135149 AATGAAGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -A--AAG--G-TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* *
135198 AAAGGTGCCAATGTACTGATTCAAGGCTAGCGATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* *
135241 AAAGGTGAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
1 AAA---G--G-TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* *
135290 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
135333 AAAG
1 AAAG
135337 ACAAAGATGC
Statistics
Matches: 199, Mismatches: 20, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
43 114 0.57
44 3 0.02
46 8 0.04
48 3 0.02
49 71 0.36
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:135183 original size:49 final size:48
Alignment explanation
Indices: 135014--135348 Score: 288
Period size: 43 Copynumber: 7.1 Consensus size: 48
135004 TGAGAAAAAG
* * * * *
135014 GATGTCAATGTGCTGATTCAAGGCCTGCTACATTGAACTTAAAGATGGAAAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT-AAGA---AGAA
* * * *
135066 GGTGCAAATATACTGATTCAAGGCCAGCTATATTGGACTT-A-AAG--
1 GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAGAAGAA
* *
135110 G-TGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAATGAAGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAA-GAAGAA
* *
135158 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A-AAG--
1 GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAGAAGAA
* * * **
135202 G-TGCCAATGTACTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT-AAGAAGAA
* * *
135250 GATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT-A-AAG--
1 GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAGAAGAA
*
135294 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACA-AA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT-AAGA-AGAA
135342 GATGCCA
1 GATGCCA
135349 CCAACTTATG
Statistics
Matches: 231, Mismatches: 33, Indels: 41
0.76 0.11 0.13
Matches are distributed among these distances:
43 102 0.44
44 4 0.02
45 2 0.01
46 10 0.04
47 2 0.01
48 4 0.02
49 74 0.32
50 1 0.00
52 32 0.14
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (48 bp):
GATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAGAAGAA
Found at i:135197 original size:92 final size:91
Alignment explanation
Indices: 135010--135348 Score: 462
Period size: 92 Copynumber: 3.6 Consensus size: 91
135000 AAGATGAGAA
* * * * *
135010 AAAGGATGTCAATGTGCTGATTCAAGGCCTGCTACATTGAACTTAAAGATGGAAAAGGTGCAAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A--GAAAAGATGCCAAT
* *
135075 ATACTGATTCAAGGCCAGCTATATTGGACTT
61 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
135106 AAAGGTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGACTTAATGAAGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAA-AAGATGCCAATATGC
135171 TGATTCAAGGCCAGCGATATTGGACTT
65 TGATTCAAGGCCAGCGATATTGGACTT
* * * * **
135198 AAAGGTGCCAATGTACTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA-GAAAAGATGCCAATATGC
*
135263 TGATTCAAGGCCAACGATATTGGACTT
65 TGATTCAAGGCCAGCGATATTGGACTT
135290 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACAAAGATGCCA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AAAGATGCCA
135349 CCAACTTATG
Statistics
Matches: 216, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
91 4 0.02
92 170 0.79
93 1 0.00
94 2 0.01
95 34 0.16
96 5 0.02
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (91 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAGATGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTT
Found at i:135202 original size:22 final size:22
Alignment explanation
Indices: 135177--135245 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
135167 ATGCTGATTC
135177 AAGGCCAGCGATATTGGACTTA
1 AAGGCCAGCGATATTGGACTTA
** * *
135199 AAGGTGCCAATG-TACT-GA-TTC
1 AA-G-GCCAGCGATATTGGACTTA
*
135220 AAGGCTAGCGATATTGGACTTA
1 AAGGCCAGCGATATTGGACTTA
135242 AAGG
1 AAGG
135246 TGAAGATGCC
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.18
22 10 0.30
23 4 0.12
24 5 0.15
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (22 bp):
AAGGCCAGCGATATTGGACTTA
Found at i:135307 original size:135 final size:133
Alignment explanation
Indices: 135063--135336 Score: 340
Period size: 135 Copynumber: 2.0 Consensus size: 133
135053 TAAAGATGGA
* * *
135063 AAAGGTGCAAATATACTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAGTGTGCTGATTC
1 AAAGGTGCAAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATATGCTGATTC
* * *
135128 AAGGCCAGCTACATTGGACTTAATGAAGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTG
66 AAGGCCAACGACATTGGACTTAA-GAAG-AGATGCCAATATGCTGATTCAAGGCCAGCGACATTG
135193 GACTT
129 GACTT
* * *
135198 AAAGGTGCCAATGTACTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGAAGATGCCAATATGC
1 AAAGGTGCAAATATACTGATTCAAGGCCAGCGATATTGGACTTAAA---G--G-TGCCAATATGC
* * *
135263 TGATTCAAGGCCAACGATATTGGACTT-A-AAG-G-TGCCAATGTGCTGATTCAAGGCCAGCTAC
60 TGATTCAAGGCCAACGACATTGGACTTAAGAAGAGATGCCAATATGCTGATTCAAGGCCAGCGAC
135324 ATTGGACTT
125 ATTGGACTT
135333 AAAG
1 AAAG
135337 ACAAAGATGC
Statistics
Matches: 121, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
135 81 0.67
136 1 0.01
138 4 0.03
140 2 0.02
141 33 0.27
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (133 bp):
AAAGGTGCAAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATATGCTGATTC
AAGGCCAACGACATTGGACTTAAGAAGAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGA
CTT
Found at i:135399 original size:29 final size:28
Alignment explanation
Indices: 135339--136042 Score: 327
Period size: 29 Copynumber: 24.1 Consensus size: 28
135329 ACTTAAAGAC
* *
135339 AAAGATGCCACCAACTTATGTGGGCTTTTG
1 AAAGTTGCCACCGAC-T-TGTGGGCTTTTG
* *
135369 AAAGGGTTG-CACCGACTTGTGTGCTTCTG
1 AAA--GTTGCCACCGACTTGTGGGCTTTTG
*
135398 AAAGTTGCCACTGACTTGTGGGCTTTTG
1 AAAGTTGCCACCGACTTGTGGGCTTTTG
* * ** *
135426 AAGAGATACCATTGACTTGTGGGCTTTAG
1 AA-AGTTGCCACCGACTTGTGGGCTTTTG
* * *
135455 AAAAGGGTGCCACTGACTTGTGGGCTTTGG
1 -AAA-GTTGCCACCGACTTGTGGGCTTTTG
* * * *
135485 AAAAGATGCCACTGACTTATGGGC-TTCG
1 -AAAGTTGCCACCGACTTGTGGGCTTTTG
* ** * **
135513 AAAAAGATGCCATTGACTTATGGGCTTCGG
1 --AAAGTTGCCACCGACTTGTGGGCTTTTG
* **
135543 AAAAGGGTGCCATTGACTTGTGGGCTTTTG
1 -AAA-GTTGCCACCGACTTGTGGGCTTTTG
* * ** *
135573 AAAAGATACCACTAACTTGTGGGCTTTGG
1 -AAAGTTGCCACCGACTTGTGGGCTTTTG
* * ** *
135602 AAAAGGGTGCCGCTAACTTGTGGGCTTTGG
1 -AAA-GTTGCCACCGACTTGTGGGCTTTTG
* * * *
135632 AAAAGATGCCACTGACTTATGGGCTTTGG
1 -AAAGTTGCCACCGACTTGTGGGCTTTTG
* * *
135661 AAAAGAGTGCCACTGACTTGTGGGCTTTGG
1 -AAAG-TTGCCACCGACTTGTGGGCTTTTG
* **
135691 AAAATATGCCACTAACTTGTGGGCTTTTG
1 AAAGT-TGCCACCGACTTGTGGGCTTTTG
* **
135720 AAAAGATGCCACTAACTTGTGGGC-TTTG
1 -AAAGTTGCCACCGACTTGTGGGCTTTTG
* *
135748 AAAAAGATGCCACTGACTTGTGGGCTTTTG
1 --AAAGTTGCCACCGACTTGTGGGCTTTTG
* * ** *
135778 AAAAGATACCACTAACTTGTGGGCTTTGG
1 -AAAGTTGCCACCGACTTGTGGGCTTTTG
* ** *
135807 AAAAGGGTGCCACTAACTTGTGGGCTTTGG
1 -AAA-GTTGCCACCGACTTGTGGGCTTTTG
* ** *
135837 AAATGATGCCATTGACTTGTGGGCTTTGG
1 AAA-GTTGCCACCGACTTGTGGGCTTTTG
* * *
135866 AAAAGGGTGCCACTGACTTGTGGGCTTTGG
1 -AAA-GTTGCCACCGACTTGTGGGCTTTTG
* **
135896 AAAAGATGCCACTAACTTGTGGGCTTTTG
1 -AAAGTTGCCACCGACTTGTGGGCTTTTG
* * *
135925 AAAAGATGCCACTGACTTGTGGGCTTTGG
1 -AAAGTTGCCACCGACTTGTGGGCTTTTG
* * * *
135954 AAAAGATGCCACTGACTTGTGGGCATTGG
1 -AAAGTTGCCACCGACTTGTGGGCTTTTG
* *
135983 AAAAGGGTGCCACTGACTTGTGGGC-TTTG
1 -AAA-GTTGCCACCGACTTGTGGGCTTTTG
* * * *
136012 AAAAGATACCACTGACTTGCGGGCTTTTG
1 -AAAGTTGCCACCGACTTGTGGGCTTTTG
136041 AA
1 AA
136043 GGGTGAGGAA
Statistics
Matches: 586, Mismatches: 69, Indels: 40
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.01
28 45 0.08
29 343 0.59
30 185 0.32
31 6 0.01
32 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (28 bp):
AAAGTTGCCACCGACTTGTGGGCTTTTG
Found at i:135501 original size:59 final size:58
Alignment explanation
Indices: 135382--136038 Score: 843
Period size: 59 Copynumber: 11.2 Consensus size: 58
135372 GGGTTGCACC
* * * * * *
135382 GACTTGTGTGCTTCT-G-AAAGTTGCCACTGACTTGTGGGCTTTTGAAGAGATACCATT
1 GACTTGTGGGCTT-TGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
* *
135439 GACTTGTGGGCTTTAGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
1 GACTTGTGGGCTTTGGAAAA-GATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
* * * * * * * *
135498 GACTTATGGGCTTCGAAAAAGATGCCATTGACTTATGGGCTTCGGAAAAGGGTGCCATT
1 GACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAA-GATGCCACT
* * * * *
135557 GACTTGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTGGAAAAGGGTGCCGCT
1 GACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAA-GATGCCACT
* *
135616 AACTTGTGGGCTTTGGAAAAGATGCCACTGACTTATGGGCTTTGGAAAAGAGTGCCACT
1 GACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGA-TGCCACT
* * *
135675 GACTTGTGGGCTTTGGAAAATATGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACT
1 GACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
* * * *
135733 AACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGATACCACT
1 GACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
* * * * *
135791 AACTTGTGGGCTTTGGAAAAGGGTGCCACTAACTTGTGGGCTTTGGAAATGATGCCATT
1 GACTTGTGGGCTTTGGAAAA-GATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
*
135850 GACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
1 GACTTGTGGGCTTTGGAAAA-GATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
* *
135909 AACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
1 GACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
* * *
135967 GACTTGTGGGCATTGGAAAAGGGTGCCACTGACTTGTGGGCTTT-GAAAAGATACCACT
1 GACTTGTGGGCTTTGGAAAA-GATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
*
136025 GACTTGCGGGCTTT
1 GACTTGTGGGCTTT
136039 TGAAGGGTGA
Statistics
Matches: 528, Mismatches: 65, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
56 1 0.00
57 13 0.02
58 187 0.35
59 327 0.62
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (58 bp):
GACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACT
Found at i:135508 original size:88 final size:88
Alignment explanation
Indices: 135339--136038 Score: 876
Period size: 88 Copynumber: 8.0 Consensus size: 88
135329 ACTTAAAGAC
** * * *
135339 AAAGATGCCACCAACTTATGTGGGCTTTTG-AAAGGGTTG-CACCGACTTGTGTGCTTCT-G-AA
1 AAAGATGCCACTGAC-T-TGTGGGCTTTGGAAAAGGG-TGCCACTGACTTGTGGGCTT-TGGAAA
* *
135400 AGTTGCCACTGACTTGTGGGCTTTTGA
62 AGATGCCACTGACTTGTGGGCTTTGGA
* * * *
135427 AGAGATACCATTGACTTGTGGGCTTTAGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGAT
1 AAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGAT
* * *
135492 GCCACTGACTTATGGGCTTCGAA
66 GCCACTGACTTGTGGGCTTTGGA
* * * * *
135515 AAAGATGCCATTGACTTATGGGCTTCGGAAAAGGGTGCCATTGACTTGTGGGCTTTTGAAAAGAT
1 AAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGAT
* *
135580 ACCACTAACTTGTGGGCTTTGGA
66 GCCACTGACTTGTGGGCTTTGGA
* * * * *
135603 AAAGGGTGCCGCTAACTTGTGGGCTTTGGAAAA-GATGCCACTGACTTATGGGCTTTGGAAAAGA
1 AAA-GATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGA
135667 GTGCCACTGACTTGTGGGCTTTGGA
65 -TGCCACTGACTTGTGGGCTTTGGA
* * * * * *
135692 AAATATGCCACTAACTTGTGGGCTTTTGAAAA-GATGCCACTAACTTGTGGGCTTTGAAAAAGAT
1 AAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGAT
*
135756 GCCACTGACTTGTGGGCTTTTGA
66 GCCACTGACTTGTGGGCTTTGGA
* * * *
135779 AAAGATACCACTAACTTGTGGGCTTTGGAAAAGGGTGCCACTAACTTGTGGGCTTTGGAAATGAT
1 AAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGAT
*
135844 GCCATTGACTTGTGGGCTTTGGA
66 GCCACTGACTTGTGGGCTTTGGA
* * * *
135867 AAAGGGTGCCACTGACTTGTGGGCTTTGGAAAA-GATGCCACTAACTTGTGGGCTTTTGAAAAGA
1 AAA-GATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGA
135931 TGCCACTGACTTGTGGGCTTTGGA
65 TGCCACTGACTTGTGGGCTTTGGA
*
135955 AAAGATGCCACTGACTTGTGGGCATTGGAAAAGGGTGCCACTGACTTGTGGGCTTT-GAAAAGAT
1 AAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGAT
* *
136019 ACCACTGACTTGCGGGCTTT
66 GCCACTGACTTGTGGGCTTT
136039 TGAAGGGTGA
Statistics
Matches: 537, Mismatches: 66, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
86 14 0.03
87 128 0.24
88 321 0.60
89 74 0.14
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (88 bp):
AAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGAT
GCCACTGACTTGTGGGCTTTGGA
Found at i:137491 original size:6 final size:5
Alignment explanation
Indices: 137478--137530 Score: 65
Period size: 5 Copynumber: 10.8 Consensus size: 5
137468 TGCGGACCCT
* *
137478 TTTTG TTGTTG TTGT- TTTTG TTTTG TTTTG TTTT- TTTTG TTTTT TTTTG
1 TTTTG TT-TTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
137527 TTTT
1 TTTT
137531 TTTCTTCTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 7 0.17
5 29 0.71
6 5 0.12
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (5 bp):
TTTTG
Found at i:137498 original size:9 final size:9
Alignment explanation
Indices: 137480--137531 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
137470 CGGACCCTTT
*
137480 TTGTTGTTG
1 TTGTTTTTG
137489 TTGTTTTTG
1 TTGTTTTTG
*
137498 TTTTGTTTTG
1 TTGT-TTTTG
*
137508 TTTTTTTTG
1 TTGTTTTTG
137517 TT-TTTTT-
1 TTGTTTTTG
137524 TTGTTTTT
1 TTGTTTTT
137532 TTCTTCTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
7 2 0.05
8 10 0.26
9 18 0.46
10 9 0.23
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (9 bp):
TTGTTTTTG
Found at i:137514 original size:19 final size:19
Alignment explanation
Indices: 137478--137533 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
137468 TGCGGACCCT
*
137478 TTTTGTTGTTGTTGTTTTTG
1 TTTTGTT-TTGTTTTTTTTG
137498 TTTTGTTTTGTTTTTTTTG
1 TTTTGTTTTGTTTTTTTTG
*
137517 TTTTTTTTTGTTTTTTT
1 TTTTGTTTTGTTTTTTT
137534 CTTCTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 27 0.79
20 7 0.21
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (19 bp):
TTTTGTTTTGTTTTTTTTG
Found at i:137531 original size:11 final size:11
Alignment explanation
Indices: 137489--137545 Score: 60
Period size: 11 Copynumber: 5.0 Consensus size: 11
137479 TTTGTTGTTG
*
137489 TTGTTTTTGTT
1 TTGTTTTTTTT
137500 TTGTTTTGTTTT
1 TTGTTTT-TTTT
*
137512 TTTTGTTTTTTT
1 TTGT-TTTTTTT
*
137524 TTGTTTTTTTC
1 TTGTTTTTTTT
*
137535 TTCTTTTTTTT
1 TTGTTTTTTTT
137546 GGTTTATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
11 22 0.58
12 13 0.34
13 3 0.08
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.86
Consensus pattern (11 bp):
TTGTTTTTTTT
Found at i:137532 original size:9 final size:9
Alignment explanation
Indices: 137486--137533 Score: 69
Period size: 9 Copynumber: 5.1 Consensus size: 9
137476 CTTTTTGTTG
*
137486 TTGTTGTTT
1 TTGTTTTTT
137495 TTGTTTTGTT
1 TTGTTTT-TT
137505 TTGTTTTTT
1 TTGTTTTTT
137514 TTGTTTTTTT
1 TTG-TTTTTT
137524 TTGTTTTTT
1 TTGTTTTTT
137533 T
1 T
137534 CTTCTTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
9 18 0.50
10 18 0.50
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (9 bp):
TTGTTTTTT
Found at i:137541 original size:19 final size:19
Alignment explanation
Indices: 137486--137544 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
137476 CTTTTTGTTG
*
137486 TTGTTGTTTTTGT-TTTGTT
1 TTGTTTTTTTTGTCTTT-TT
*
137505 TTGTTTTTTTTGTTTTTTT
1 TTGTTTTTTTTGTCTTTTT
137524 TTGTTTTTTTCT-TCTTTTT
1 TTGTTTTTTT-TGTCTTTTT
137543 TT
1 TT
137545 TGGTTTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 32 0.89
20 4 0.11
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (19 bp):
TTGTTTTTTTTGTCTTTTT
Found at i:152417 original size:7 final size:7
Alignment explanation
Indices: 152405--152456 Score: 74
Period size: 7 Copynumber: 7.9 Consensus size: 7
152395 GTTCCCTTAA
152405 AAAAAAC
1 AAAAAAC
152412 AAAAAAC
1 AAAAAAC
152419 AAAAAAC
1 AAAAAAC
152426 AAAAAA-
1 AAAAAAC
*
152432 AACAAA-
1 AAAAAAC
152438 AAAAAAC
1 AAAAAAC
152445 -AAAAAC
1 AAAAAAC
152451 AAAAAA
1 AAAAAA
152457 AAACACAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 16 0.39
7 25 0.61
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:152460 original size:16 final size:16
Alignment explanation
Indices: 152403--152461 Score: 93
Period size: 16 Copynumber: 3.6 Consensus size: 16
152393 AAGTTCCCTT
152403 AAAAAAAACAAAAAACA
1 AAAAAAAAC-AAAAACA
152420 AAAAACAAA-AAAAACA
1 AAAAA-AAACAAAAACA
152436 AAAAAAAACAAAAACA
1 AAAAAAAACAAAAACA
152452 AAAAAAAACA
1 AAAAAAAACA
152462 CAGAAAAAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.08
16 29 0.73
17 5 0.12
18 3 0.08
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAACA
Found at i:152461 original size:26 final size:24
Alignment explanation
Indices: 152403--152458 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 24
152393 AAGTTCCCTT
*
152403 AAAAAAAAC-AAAAAACAAAAAAC
1 AAAAAAAACAAAAAAAAAAAAAAC
152426 AAAAAAAACAAAAAAAAACAAAAAC
1 AAAAAAAACAAAAAAAAA-AAAAAC
152451 AAAAAAAA
1 AAAAAAAA
152459 ACACAGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 9 0.30
24 7 0.23
25 14 0.47
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAAAAAACAAAAAAAAAAAAAAC
Found at i:152468 original size:26 final size:25
Alignment explanation
Indices: 152403--152469 Score: 84
Period size: 24 Copynumber: 2.6 Consensus size: 25
152393 AAGTTCCCTT
152403 AAAAAAA-ACAAAAAACAAAAAACA
1 AAAAAAACACAAAAAACAAAAAACA
*
152427 AAAAAAACA-AAAAAAAACAAAAACAA
1 AAAAAAACACAAAAAACA-AAAAAC-A
152453 AAAAAAACACAGAAAAA
1 AAAAAAACACA-AAAAA
152470 AGGTGCAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
24 14 0.38
25 7 0.19
26 10 0.27
27 1 0.03
28 5 0.14
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (25 bp):
AAAAAAACACAAAAAACAAAAAACA
Found at i:152470 original size:1 final size:1
Alignment explanation
Indices: 152403--152459 Score: 60
Period size: 1 Copynumber: 57.0 Consensus size: 1
152393 AAGTTCCCTT
* * * * * *
152403 AAAAAAAACAAAAAACAAAAAACAAAAAAAACAAAAAAAAACAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
152460 CACAGAAAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:152731 original size:16 final size:16
Alignment explanation
Indices: 152710--152763 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
152700 TTCTTTTCCA
* *
152710 AAAAAAGAAACAAAAC
1 AAAAAAGAAAAAAAAG
152726 AAAAAAGAAAAAAAAG
1 AAAAAAGAAAAAAAAG
* *
152742 AAGAAACAAAAAAAAG
1 AAAAAAGAAAAAAAAG
152758 AAAAAA
1 AAAAAA
152764 AAAGAAGGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:152775 original size:28 final size:28
Alignment explanation
Indices: 152709--152770 Score: 94
Period size: 26 Copynumber: 2.3 Consensus size: 28
152699 GTTCTTTTCC
152709 AAAAA-AAGAAACAAAACAAAAAAGAAA
1 AAAAAGAAGAAACAAAACAAAAAAGAAA
*
152736 AAAAAGAAGAAACAAAA-AAAAGA-AAA
1 AAAAAGAAGAAACAAAACAAAAAAGAAA
152762 AAAAAGAAG
1 AAAAAGAAG
152771 GGAAAAACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 12 0.36
27 10 0.30
28 11 0.33
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (28 bp):
AAAAAGAAGAAACAAAACAAAAAAGAAA
Found at i:152777 original size:25 final size:25
Alignment explanation
Indices: 152709--152770 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 25
152699 GTTCTTTTCC
152709 AAAAAAAGAA-ACAA-AACAAAAAAGA
1 AAAAAAAGAAGA-AACAA-AAAAAAGA
152734 AAAAAAAGAAGAAACAAAAAAAAGAA
1 AAAAAAAGAAGAAACAAAAAAAAG-A
152760 AAAAAAAGAAG
1 AAAAAAAGAAG
152771 GGAAAAACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (25 bp):
AAAAAAAGAAGAAACAAAAAAAAGA
Found at i:153800 original size:33 final size:33
Alignment explanation
Indices: 153741--154067 Score: 246
Period size: 33 Copynumber: 10.0 Consensus size: 33
153731 AGTGGCATCA
* *
153741 TTTT-CTTCAAAGCCCACAACTACGTGGCACTT
1 TTTTCCTTCTAAGCCCACAACTCCGTGGCACTT
* *
153773 TTTTCCTTCTAAGTCCACAACTCCGTGGCACCT
1 TTTTCCTTCTAAGCCCACAACTCCGTGGCACTT
* * *
153806 TGTTCCTTCTAAGCCCACAACTTCGTGGGACTCT
1 TTTTCCTTCTAAGCCCACAACTCCGTGGCACT-T
* *
153840 TTTTCCATTTTAAGCCCACAACTCCATGGCAC--
1 TTTTCC-TTCTAAGCCCACAACTCCGTGGCACTT
153872 ----CCGTT-TAAGCCCACAACTCCGTGGCACTCT
1 TTTTCC-TTCTAAGCCCACAACTCCGTGGCACT-T
* * * *
153902 TTTTCCTTTTAAGTCCACGACTCCGTGGCACCT
1 TTTTCCTTCTAAGCCCACAACTCCGTGGCACTT
* * * * * *
153935 TCTT--TTCAAAGTCCGCGACTCCGTGGCACCT
1 TTTTCCTTCTAAGCCCACAACTCCGTGGCACTT
* * *
153966 TCTT--TTCAAAGCCCACAACTCCGTGACACTCT
1 TTTTCCTTCTAAGCCCACAACTCCGTGGCACT-T
* *
153998 TTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCT
1 TTTT-CCTTCT-AAGCCCACAACTCCGTGGCACTT
* * * *
154033 TGTTCCTTTTAAGTCCACAACTTCGTGGCATCTT
1 TTTTCCTTCTAAGCCCACAACTCCGTGGCA-CTT
154067 T
1 T
154068 CACCCTTTTC
Statistics
Matches: 241, Mismatches: 37, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
27 21 0.09
28 4 0.02
31 49 0.20
32 8 0.03
33 75 0.31
34 37 0.15
35 27 0.11
36 20 0.08
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (33 bp):
TTTTCCTTCTAAGCCCACAACTCCGTGGCACTT
Found at i:153954 original size:31 final size:31
Alignment explanation
Indices: 153710--153990 Score: 133
Period size: 33 Copynumber: 8.8 Consensus size: 31
153700 TTCAAATATC
* * *
153710 TCTTCTCAAAGTCCACGACTCAGTGGCATCAT
1 TCTTTTCAAAGTCCACGACTCCGTGGCA-CCT
* * * *
153742 T-TTCTTCAAAGCCCACAACTACGTGGCACTT
1 TCTT-TTCAAAGTCCACGACTCCGTGGCACCT
* * *
153773 TTTTCCTTCTAAGTCCACAACTCCGTGGCACCT
1 TCTT--TTCAAAGTCCACGACTCCGTGGCACCT
* * * * * *
153806 TGTTCCTTCTAAGCCCACAACTTCGTGGGACTCT
1 TCTT--TTCAAAGTCCACGACTCCGTGGCAC-CT
* * * *
153840 T-TTTCCATTTTAAGCCCACAACTCCATGGCACC-
1 TCTTTTCA----AAGTCCACGACTCCGTGGCACCT
* * *
153873 -CGTTT--AAGCCCACAACTCCGTGGCACTCT
1 TCTTTTCAAAGTCCACGACTCCGTGGCAC-CT
* **
153902 TTTTCCTTTTAAGTCCACGACTCCGTGGCACCT
1 TCTT--TTCAAAGTCCACGACTCCGTGGCACCT
*
153935 TCTTTTCAAAGTCCGCGACTCCGTGGCACCT
1 TCTTTTCAAAGTCCACGACTCCGTGGCACCT
* *
153966 TCTTTTCAAAGCCCACAACTCCGTG
1 TCTTTTCAAAGTCCACGACTCCGTG
153991 ACACTCTTTT
Statistics
Matches: 200, Mismatches: 33, Indels: 33
0.75 0.12 0.12
Matches are distributed among these distances:
27 20 0.10
28 1 0.00
30 1 0.00
31 53 0.26
32 24 0.12
33 60 0.30
34 23 0.12
35 18 0.09
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.30
Consensus pattern (31 bp):
TCTTTTCAAAGTCCACGACTCCGTGGCACCT
Found at i:154015 original size:36 final size:37
Alignment explanation
Indices: 153878--154085 Score: 170
Period size: 31 Copynumber: 6.2 Consensus size: 37
153868 GCACCCGTTT
153878 AAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT--
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCA
* *
153912 AAGTCCACGACTCCGTGGCAC-C---TT--CTTTTCA
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCA
* * *
153943 AAGTCCGCGACTCCGTGGCAC-C---TT--CTTTTCA
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCA
*
153974 AAGCCCACAACTCCGTGACACTCTTTTTCCCTTTT-A
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCA
*
154010 AAGCCCACAACTCCGTGGCAC-CTTGTT-CCTTTT--
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCA
* * **
154043 AAGTCCACAACTTCGTGGCA-TCTTTCACCCTTTTCA
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCA
154079 AAGCCCA
1 AAGCCCA
154086 TACAAGTCGG
Statistics
Matches: 147, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
29 5 0.03
30 2 0.01
31 47 0.32
32 1 0.01
33 22 0.15
34 31 0.21
35 7 0.05
36 27 0.18
37 5 0.03
ACGTcount: A:0.20, C:0.36, G:0.13, T:0.31
Consensus pattern (37 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCA
Found at i:154069 original size:96 final size:96
Alignment explanation
Indices: 153787--154069 Score: 301
Period size: 96 Copynumber: 3.0 Consensus size: 96
153777 CCTTCTAAGT
* * * * *
153787 CCACAACTCCGTGGCAC-CTTGTTCCTTCTAAGCCCACAACTTCGTGGGACTCTTTTTCCATTTT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC-CTTCTTCC-TTTT
* * *
153851 AAGCCCACAACTCCATGGCACCCGTTT--AAGC
64 AAGTCCACAACTCCGTGGCACTCGTTTCAAAGC
* * **
153882 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTT--TTCAAA
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTCTTCCTTTTAA
* * *
153945 GTCCGCGACTCCGTGGCACCTTCTTTTCAAAGC
66 GTCCACAACTCCGTGGCA-C-TCGTTTCAAAGC
* *
153978 CCACAACTCCGTGACACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT
1 CCACAACTCCGTGGCACTCTTTTT-CCTTTT-AAGCCCACAACTCCGTGGCACCTTCTTCCTTTT
*
154043 AAGTCCACAACTTCGTGGCA-TC-TTTCA
64 AAGTCCACAACTCCGTGGCACTCGTTTCA
154070 CCCTTTTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
92 18 0.12
93 1 0.01
94 4 0.03
95 22 0.14
96 59 0.38
97 8 0.05
98 24 0.15
100 19 0.12
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.31
Consensus pattern (96 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTCTTCCTTTTAA
GTCCACAACTCCGTGGCACTCGTTTCAAAGC
Found at i:154084 original size:69 final size:68
Alignment explanation
Indices: 153936--154119 Score: 169
Period size: 68 Copynumber: 2.7 Consensus size: 68
153926 GTGGCACCTT
* * * *
153936 CTTTTCAAAGTCCGCGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGACACTCTTTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGACACTCTTTC
*
154001 TCC
66 ACC
* ** * * *
154004 CTTTT-AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTTCGTGGCA-TCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT--TTCAAAGCCCACAACTCCGTGACACTCTT
154067 TCACC
64 TCACC
* * *
154072 CTTTTCAAAGCCCATACAAGTCGGTGGCAACC--CTTCTCAAAGCCCACA
1 CTTTTCAAAGCCC--ACAACTCCGTGGC-ACCTTCTTTTCAAAGCCCACA
154120 CAAGTCGGTG
Statistics
Matches: 92, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
67 24 0.26
68 26 0.28
69 26 0.28
70 2 0.02
71 11 0.12
72 3 0.03
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.29
Consensus pattern (68 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGACACTCTTTC
ACC
Found at i:154184 original size:33 final size:33
Alignment explanation
Indices: 154069--154401 Score: 502
Period size: 33 Copynumber: 10.2 Consensus size: 33
154059 GGCATCTTTC
* *
154069 ACCCTT-TTCAAAGCCCATACAAGTCGGTGGCA
1 ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCA
*
154101 ACCCTTC-TCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCA
*
154133 ACCCTTC-TCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCA
154165 ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCA
154198 A-CCTTCTTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTT-TAAAGCCCACACAAGTCGGTGGCA
*
154231 ACCCTTC-TCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCA
154263 A-CCTTCTTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTT-TAAAGCCCACACAAGTCGGTGGCA
154296 A-CCTTCTTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTT-TAAAGCCCACACAAGTCGGTGGCA
* *
154329 ACCC-TCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCA
* *
154361 ACCATTCTTTAAAGCCCACACAAGTCGGTGGTA
1 ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCA
154394 ACCCTTCT
1 ACCCTTCT
154402 AAGCCCAATA
Statistics
Matches: 282, Mismatches: 11, Indels: 15
0.92 0.04 0.05
Matches are distributed among these distances:
31 5 0.02
32 127 0.45
33 143 0.51
34 7 0.02
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (33 bp):
ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCA
Found at i:154232 original size:98 final size:96
Alignment explanation
Indices: 154069--154408 Score: 544
Period size: 98 Copynumber: 3.5 Consensus size: 96
154059 GGCATCTTTC
* *
154069 ACCCTT-TTCAAAGCCCATACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCAACCCTTCT-AAAGCCCACACAAGTCGGTGGCA
154133 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
65 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
154165 ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCAACC--CTTCTAAAGCCCACACAAGTCGGTGGC
154230 AACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
64 AACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
154263 A-CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGG
1 ACCCTTCTT-TAAAGCCCACACAAGTCGGTGGCAACC--CTTCTAAAGCCCACACAAGTCGGTGG
*
154327 CAACCC-TCTCTAAAGCCCACACAAGTTGGTGGCA
63 CAACCCTTCTC-AAAGCCCACACAAGTCGGTGGCA
* *
154361 ACCATTCTTTAAAGCCCACACAAGTCGGTGGTAACCCTTCT-AAGCCCA
1 ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCA
154409 ATATAGCTGG
Statistics
Matches: 233, Mismatches: 5, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
95 7 0.03
96 11 0.05
97 38 0.16
98 166 0.71
99 11 0.05
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (96 bp):
ACCCTTCTTTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGTCGGTGGCAA
CCCTTCTCAAAGCCCACACAAGTCGGTGGCA
Found at i:154244 original size:65 final size:66
Alignment explanation
Indices: 154071--154408 Score: 518
Period size: 65 Copynumber: 5.3 Consensus size: 66
154061 CATCTTTCAC
*
154071 CCTT-TTC-AAAGCCCATACAAGTCGGTGGCAACCCTTC-TCAAAGCCCACACAAGTCGGTGGCA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTTCAAAGCCCACACAAGTCGGTGGCA
154133 A
66 A
*
154134 CC--CTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTTTAAAGCCCACACAAGTCGGTGGC
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAACCCTTCTTCAAAGCCCACACAAGTCGGTGGC
154197 AA
65 AA
154199 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTC-TCAAAGCCCACACAAGTCGGTGGCA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTTCAAAGCCCACACAAGTCGGTGGCA
154263 A
66 A
154264 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA-CCTTCTTCTAAAGCCCACACAAGTCGGTGGC
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTTC-AAAGCCCACACAAGTCGGTGGC
154328 AA
65 AA
* * * * *
154330 CCCTC-TCTAAAGCCCACACAAGTTGGTGGCAACCATTCTTTAAAGCCCACACAAGTCGGTGGTA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTTCAAAGCCCACACAAGTCGGTGGCA
154394 A
66 A
154395 CC--CTTCT-AAGCCCA
1 CCTTCTTCTAAAGCCCA
154409 ATATAGCTGG
Statistics
Matches: 257, Mismatches: 8, Indels: 20
0.90 0.03 0.07
Matches are distributed among these distances:
62 3 0.01
63 10 0.04
64 37 0.14
65 138 0.54
66 64 0.25
67 5 0.02
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (66 bp):
CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTTCAAAGCCCACACAAGTCGGTGGCA
A
Found at i:154558 original size:92 final size:88
Alignment explanation
Indices: 154447--154951 Score: 593
Period size: 92 Copynumber: 5.5 Consensus size: 88
154437 GCACCTTCAT
* * **
154447 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA-C-CTTTAAGCCCAATACAGCTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGTCCAATGTAGCTG
*
154510 GCCTTGAATCAGCATATTGGCACCTTC
66 GCCTTGAATCAGCACATTGGCA----C
* * *
154537 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCTAATG
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--C-TCTTTAAGTCCAATG
* *
154602 TAGCTGGCCTTCAATCAGCATATTGGCAC
60 TAGCTGGCCTTGAATCAGCACATTGGCAC
* *
154631 CTTTAAGCCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--C-TCTTTAAGTCCAATGTA
*
154696 GGC-GGCCTTGAATTAGCACATTGGCAC
62 -GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
154723 CTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATAGGCACTTTCATATTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC---C-TCTTTAAGTCCAATGTA
154788 GCTGGCCTTGAATCAGCACATTGGCAC
62 GCTGGCCTTGAATCAGCACATTGGCAC
* *
154815 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--C-TCTTTAAGTCCAATGTA
154880 GCTGGCCTTGAATCAGCACATTGGCAC
62 GCTGGCCTTGAATCAGCACATTGGCAC
* *
154907 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGTCACCT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT
154952 TCTTCTTAGA
Statistics
Matches: 376, Mismatches: 27, Indels: 24
0.88 0.06 0.06
Matches are distributed among these distances:
88 1 0.00
89 1 0.00
91 4 0.01
92 328 0.87
93 3 0.01
94 1 0.00
96 1 0.00
98 37 0.10
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (88 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGTCCAATGTAGCTG
GCCTTGAATCAGCACATTGGCAC
Found at i:154633 original size:21 final size:21
Alignment explanation
Indices: 154609--154678 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
154599 ATGTAGCTGG
154609 CCTTCAATCAGCATATTGGCA
1 CCTTCAATCAGCATATTGGCA
* * * *
154630 CCTTTAAGC-CCA-ATATAGCTA
1 CCTTCAATCAGCATAT-TGGC-A
*
154651 GCCTTGAATCAGCATATTGGCA
1 -CCTTCAATCAGCATATTGGCA
154673 CCTTCA
1 CCTTCA
154679 TCTTTAAGTC
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.37
22 8 0.23
23 5 0.14
24 2 0.06
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (21 bp):
CCTTCAATCAGCATATTGGCA
Found at i:154660 original size:141 final size:141
Alignment explanation
Indices: 154401--154958 Score: 737
Period size: 141 Copynumber: 4.0 Consensus size: 141
154391 GTAACCCTTC
* *
154401 TAAGCCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
154466 GGCCTTGAATCAGCATATTGGCACCTTTAAGCCCAATACAGCTGGCCTTGAATCAGCATATTGGC
66 GGCCTTGAATCAGCATATTGGCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGC
154531 ACCTTCATCTT
131 ACCTTCATCTT
* * *
154542 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCTAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* *
154607 GGCCTTCAATCAGCATATTGGCACCTTTAAGCCCAATATAGCTAGCCTTGAATCAGCATATTGGC
66 GGCCTTGAATCAGCATATTGGCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGC
154672 ACCTTCATCTT
131 ACCTTCATCTT
* * * * *
154683 TAAGTCCAATGTAGGC-GGCCTTGAATTAGCACATTGGCA----C--CTTTAAGTCCAATATCGC
1 TAAGTCCAATATA-GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
* * * *
154741 TGGCCTTGAATCAACATATAGGCACTTTCATATTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
65 TGGCCTTGAATCAGCATATTGGCAC---C---TTTAAGCCCAATATAGCTGGCCTTGAATCAGCA
*
154806 CATTGGCA----C--CTT
124 TATTGGCACCTTCATCTT
* *
154818 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * * *
154883 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGTC
66 GGCCTTGAATCAGCATATTGGCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGC
*
154948 ACCTTCTTCTT
131 ACCTTCATCTT
154959 AGATTTTTAG
Statistics
Matches: 362, Mismatches: 35, Indels: 40
0.83 0.08 0.09
Matches are distributed among these distances:
134 2 0.01
135 108 0.30
137 2 0.01
138 2 0.01
139 2 0.01
141 244 0.67
142 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (141 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCATATTGGCACCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGC
ACCTTCATCTT
Found at i:154751 original size:184 final size:184
Alignment explanation
Indices: 154401--154958 Score: 734
Period size: 184 Copynumber: 3.0 Consensus size: 184
154391 GTAACCCTTC
* * *
154401 TAAGCCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTAAATCAGCATATTGGCA----C--CTTTAAGTCCAATATAGCT
* * ** *
154466 GGCCTTGAATCAGCATATTGGCA----C--CTTTAAGCCCAATACAGCTGGCCTTGAATCAGCAT
60 AGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
* *
154525 ATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGACACCTTCATCT
125 ATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATCT
154590 T
184 T
* * *
154591 TAAGTCTAATGTAGCTGGCCTTCAATCAGCATATTGGCACCTTTAAGCCCAATATAGCTAGCCTT
1 TAAGTCCAATGTAGCTGGCCTTAAATCAGCATATTGGCACCTTTAAGTCCAATATAGCTAGCCTT
*
154656 GAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGGC-GGCCTTGAATTAGCACATTGG
66 GAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA-GCTGGCCTTGAATCAGCACATTGG
* * * * *
154720 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATAGGCACTTTCATATT
130 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATCTT
* * *
154775 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCCTT
1 TAAGTCCAATGTAGCTGGCCTTAAATCAGCATATTGGCACCTTTAAGTCCAATATAGCTAGCCTT
154840 GAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
66 GAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
* *
154905 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGTCACCTTCTTCTT
131 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATCTT
154959 AGATTTTTAG
Statistics
Matches: 329, Mismatches: 31, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
183 2 0.01
184 253 0.77
186 2 0.01
188 1 0.00
190 69 0.21
191 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (184 bp):
TAAGTCCAATGTAGCTGGCCTTAAATCAGCATATTGGCACCTTTAAGTCCAATATAGCTAGCCTT
GAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATCTT
Found at i:154817 original size:21 final size:20
Alignment explanation
Indices: 154793--154860 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
154783 ATGTAGCTGG
154793 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
154814 CCTTTAAGTC--CAATATCGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
154835 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
154857 CCTT
1 CCTT
154861 CATCTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:154952 original size:92 final size:92
Alignment explanation
Indices: 154539--154958 Score: 671
Period size: 92 Copynumber: 4.6 Consensus size: 92
154529 GCACCTTCAT
* * * *
154539 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGTCTAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
* *
154604 GCTGGCCTTCAATCAGCATATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
154631 CTTTAAGCCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
154696 GGC-GGCCTTGAATTAGCACATTGGCAC
66 -GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
154723 CTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATAGGCACTTTCATATTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
154788 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
154815 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
154880 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
154907 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGTCACCTTCTTCTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
154959 AGATTTTTAG
Statistics
Matches: 302, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
91 2 0.01
92 298 0.99
93 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:155269 original size:13 final size:13
Alignment explanation
Indices: 155251--155275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
155241 ATTACTCAAA
155251 TGTATCGATACAT
1 TGTATCGATACAT
155264 TGTATCGATACA
1 TGTATCGATACA
155276 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:155412 original size:52 final size:52
Alignment explanation
Indices: 155284--155404 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
155274 CACCGATCTT
* *
155284 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
155336 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
155388 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
155405 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:158593 original size:52 final size:52
Alignment explanation
Indices: 158481--158600 Score: 145
Period size: 52 Copynumber: 2.3 Consensus size: 52
158471 CGTTACGATA
* * ***
158481 ATAGTGTATCAATACATCTGGGCAAATTTGCTTGCATGTATCGATACATTTT
1 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAGAT
* *
158533 ATAATGTATCGATACATCTGGGTAAATTTGCCTGCATGTATCGATGTA-AAGAT
1 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGA--TACAAGAT
158586 -TAGTGTATCGATACA
1 ATAGTGTATCGATACA
158601 ATGTATCGAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 54 0.93
53 2 0.03
54 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (52 bp):
ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAGAT
Found at i:158607 original size:13 final size:13
Alignment explanation
Indices: 158589--158613 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
158579 TAAAGATTAG
158589 TGTATCGATACAA
1 TGTATCGATACAA
158602 TGTATCGATACA
1 TGTATCGATACA
158614 TTTGTGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:158712 original size:33 final size:32
Alignment explanation
Indices: 158656--158720 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
158646 TAGCTTTAAT
*
158656 TGTATCGATACAAAACTTATGTATCGATACAA
1 TGTATCGACACAAAACTTATGTATCGATACAA
*
158688 TGTATCGACACAATACTTTATGTATCGATACAA
1 TGTATCGACACAAAAC-TTATGTATCGATACAA
158721 ATCATTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (32 bp):
TGTATCGACACAAAACTTATGTATCGATACAA
Found at i:163314 original size:27 final size:28
Alignment explanation
Indices: 163193--163322 Score: 101
Period size: 27 Copynumber: 4.8 Consensus size: 28
163183 CTTTAGAAGG
*
163193 AAAA-GATGCCATAAAGTATG-GG-CTTA
1 AAAAGGATGCCACAAAGT-TGTGGACTTA
** *
163219 AAAAGG-TGCCACGGAGTTATGGACTT-
1 AAAAGGATGCCACAAAGTTGTGGACTTA
* *** *
163245 AAAAGGGTGCCATGGAGTTGTAGACTTA
1 AAAAGGATGCCACAAAGTTGTGGACTTA
* **
163273 AAAAGGGTGTAACAAAGTTGTGGACTT-
1 AAAAGGATGCCACAAAGTTGTGGACTTA
163300 AAAAGGATGCCACAAAGTTGTGG
1 AAAAGGATGCCACAAAGTTGTGG
163323 GCTTTGAAAA
Statistics
Matches: 83, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.01
26 20 0.24
27 41 0.49
28 21 0.25
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.23
Consensus pattern (28 bp):
AAAAGGATGCCACAAAGTTGTGGACTTA
Found at i:163353 original size:34 final size:32
Alignment explanation
Indices: 163315--163476 Score: 118
Period size: 34 Copynumber: 4.9 Consensus size: 32
163305 GATGCCACAA
163315 AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATGG
1 AGTTGTGGGC-TT-AAAAGAAAAAGGTGCCATGG
* * **
163349 AGTTGTAGACTTAAAAG-----GGTGCCACAG
1 AGTTGTGGGCTTAAAAGAAAAAGGTGCCATGG
**
163376 AGTCATGGGCTTAAAAGGAAAAAGGGTGCCATGG
1 AGTTGTGGGCTTAAAA-GAAAAA-GGTGCCATGG
* * * *
163410 AGTTATGGACTTAAAAAGAAAAAAAGTGTCATGG
1 AGTTGTGGGCTT-AAAAG-AAAAAGGTGCCATGG
163444 AGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCAT
1 AGTTGTGGGC-TT-AAAAGAAAAA-GGTGCCAT
163477 TAAGATATAG
Statistics
Matches: 99, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
27 20 0.20
28 1 0.01
32 5 0.05
33 2 0.02
34 48 0.48
35 23 0.23
ACGTcount: A:0.37, C:0.10, G:0.31, T:0.22
Consensus pattern (32 bp):
AGTTGTGGGCTTAAAAGAAAAAGGTGCCATGG
Done.