Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 302 of 344
Found at i:100131898 original size:27 final size:28
Alignment explanation
Indices: 100131844--100131898 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
100131834 TTTTTATTTT
*
100131844 TTAAATAAAAGCATAAAACAAAACAAAA
1 TTAAATAAAAGCATAAAACAAAAAAAAA
100131872 TTAAA-AAAAGCATAAAA-AAATAAAAAA
1 TTAAATAAAAGCATAAAACAAA-AAAAAA
100131899 GGGAAATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 3 0.12
27 17 0.68
28 5 0.20
ACGTcount: A:0.75, C:0.07, G:0.04, T:0.15
Consensus pattern (28 bp):
TTAAATAAAAGCATAAAACAAAAAAAAA
Found at i:100132570 original size:21 final size:22
Alignment explanation
Indices: 100132534--100132574 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
100132524 ATTTTAATCC
*
100132534 TTTACTTTACTTTATTTTATTG
1 TTTAATTTACTTTATTTTATTG
100132556 TTTAATTTA-TTTATTTTAT
1 TTTAATTTACTTTATTTTAT
100132575 AATGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTAATTTACTTTATTTTATTG
Found at i:100132728 original size:3 final size:3
Alignment explanation
Indices: 100132722--100132772 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
100132712 TTCTTCTCAC
* * *
100132722 TAT TAT TA- TAT TAT T-T TAT CTAT TAT TAT TAG TAT TAG TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
100132766 TAT TAT T
1 TAT TAT T
100132773 TGTTTATGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:100132757 original size:12 final size:12
Alignment explanation
Indices: 100132722--100132772 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
100132712 TTCTTCTCAC
100132722 TATTATTA-TAT
1 TATTATTAGTAT
*
100132733 TATT-TTATCTAT
1 TATTATTA-GTAT
100132745 TATTATTAGTAT
1 TATTATTAGTAT
*
100132757 TAGTATTAGTAT
1 TATTATTAGTAT
100132769 TATT
1 TATT
100132773 TGTTTATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 3 0.09
11 4 0.12
12 24 0.71
13 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (12 bp):
TATTATTAGTAT
Found at i:100132885 original size:12 final size:13
Alignment explanation
Indices: 100132868--100132904 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
100132858 AAACAAACTG
100132868 TTTTATTTATT-A
1 TTTTATTTATTCA
100132880 TTTTATTTATTCA
1 TTTTATTTATTCA
*
100132893 -TTTATTTCTTCA
1 TTTTATTTATTCA
100132905 ACTTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 22 0.96
13 1 0.04
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATTTATTCA
Found at i:100132980 original size:3 final size:3
Alignment explanation
Indices: 100132958--100133006 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
100132948 TGTACTTTTA
* *
100132958 TAT T-T TAT TAT CAT TGT TAT TAT TAT TAT TAT TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
100133003 TAT T
1 TAT T
100133007 TTCCTCTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:100136811 original size:144 final size:144
Alignment explanation
Indices: 100136543--100136844 Score: 498
Period size: 144 Copynumber: 2.1 Consensus size: 144
100136533 CATGGAAGTT
*
100136543 GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTGCTAT
1 GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
* *
100136608 GGAATCAGGGATGACACCAGTGAGATTATTCTCCGACAACTGCAAGTCGAAAAGAGATTTGAGCA
66 GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAAGTCGAAAAGAGATTTGAGCA
100136673 TTCCTATCTCACTG
131 TTCCTATCTCACTG
* *
100136687 GGGATAGAACCAGAAAGCCCATTAGAATCAAGCTCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
1 GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
* * * * *
100136752 GGAAACAGGGATGACACCAGTGAGATTGTTTTTCAACAACTGCAA-TACGGAAAGCGATTTGAGC
66 GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAAGT-CGAAAAGAGATTTGAGC
100136816 ATTCCTATCTCACTG
130 ATTCCTATCTCACTG
100136831 GGGATAGAACCAGA
1 GGGATAGAACCAGA
100136845 GAGATAATTA
Statistics
Matches: 147, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
143 1 0.01
144 146 0.99
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (144 bp):
GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAAGTCGAAAAGAGATTTGAGCA
TTCCTATCTCACTG
Found at i:100136889 original size:144 final size:144
Alignment explanation
Indices: 100136543--100136895 Score: 399
Period size: 144 Copynumber: 2.5 Consensus size: 144
100136533 CATGGAAGTT
* * * * ** * * *
100136543 GGGATAGAACCAGAAAGCCCATTAGAATAAAGCCCAAGATTGTCCAAGTTAGTCAAGTTTGCTAT
1 GGGATAGAACCAGAAAGACAATTACAATCAAGATCAAGATTATCCAAGTTACTCAAGTTTCCTAT
* *
100136608 GGAATCAGGGATGACACCAGTGAGATTATTCTCCGACAACTGCAAGTCGAAAAGAGATTTGAGCA
66 GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAAGTCGAAAAGAGATTTGAGCA
100136673 TTCCTATCTCACTG
131 TTCCTATCTCACTG
* * * * * *
100136687 GGGATAGAACCAGAAAGCCCATTAGAATCAAGCTCAAGATTGTCCAAGTTAGTCAAGTTTCCTAT
1 GGGATAGAACCAGAAAGACAATTACAATCAAGATCAAGATTATCCAAGTTACTCAAGTTTCCTAT
* * * * *
100136752 GGAAACAGGGATGACACCAGTGAGATTGTTTTTCAACAACTGCAA-TACGGAAAGCGATTTGAGC
66 GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAAGT-CGAAAAGAGATTTGAGC
100136816 ATTCCTATCTCACTG
130 ATTCCTATCTCACTG
* * * * *
100136831 GGGATAGAACCAGAGAGATAATTACCAT-ACAGAT-AGAGATATAT-CATGTTACTTAAGTTTCC
1 GGGATAGAACCAGAAAGACAATTACAATCA-AGATCA-AGAT-TATCCAAGTTACTCAAGTTTCC
100136893 TAT
63 TAT
100136896 ACATGTTGGG
Statistics
Matches: 184, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
143 3 0.02
144 179 0.97
145 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (144 bp):
GGGATAGAACCAGAAAGACAATTACAATCAAGATCAAGATTATCCAAGTTACTCAAGTTTCCTAT
GGAAACAGGGATGACACCAGTGAGATTATTCTCCAACAACTGCAAGTCGAAAAGAGATTTGAGCA
TTCCTATCTCACTG
Found at i:100138127 original size:34 final size:34
Alignment explanation
Indices: 100138089--100138156 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
100138079 AAAAGAATGT
100138089 GTAAATGTTGATAACTAAATATGTAGTTATACTA
1 GTAAATGTTGATAACTAAATATGTAGTTATACTA
100138123 GTAAATGTTGATAACTAAATATGTAGTTATACTA
1 GTAAATGTTGATAACTAAATATGTAGTTATACTA
100138157 AGTGAAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (34 bp):
GTAAATGTTGATAACTAAATATGTAGTTATACTA
Found at i:100138156 original size:17 final size:17
Alignment explanation
Indices: 100138102--100138157 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
100138092 AATGTTGATA
100138102 ACTAAATATGTAGTTAT
1 ACTAAATATGTAGTTAT
* *
100138119 ACTAGTAA-ATGTTGATA-
1 ACTA--AATATGTAGTTAT
100138136 ACTAAATATGTAGTTAT
1 ACTAAATATGTAGTTAT
100138153 ACTAA
1 ACTAA
100138158 GTGAAAAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 2 0.06
16 7 0.23
17 13 0.42
18 7 0.23
19 2 0.06
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (17 bp):
ACTAAATATGTAGTTAT
Found at i:100138592 original size:14 final size:14
Alignment explanation
Indices: 100138573--100138600 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100138563 GGTGTACTTG
100138573 AATATGACAAGTCT
1 AATATGACAAGTCT
100138587 AATATGACAAGTCT
1 AATATGACAAGTCT
100138601 TCGTCGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
AATATGACAAGTCT
Found at i:100138752 original size:20 final size:20
Alignment explanation
Indices: 100138701--100138752 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
100138691 TATAAGTGAG
100138701 TAAAA-TAATTAAATATTAA
1 TAAAATTAATTAAATATTAA
* * *
100138720 TAAATTTATTTAATTA-TAA
1 TAAAATTAATTAAATATTAA
100138739 TTAAAATTAATTAA
1 -TAAAATTAATTAA
100138753 CTTTTTTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAATTAATTAAATATTAA
Found at i:100141279 original size:25 final size:26
Alignment explanation
Indices: 100141251--100141299 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
100141241 TATTTGAAGA
*
100141251 CTGTCTTTTTGACACGA-GTTTTTGT
1 CTGTCCTTTTGACACGAGGTTTTTGT
100141276 CTGTCCTTTTGACACGAGGTTTTT
1 CTGTCCTTTTGACACGAGGTTTTT
100141300 TTGTTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.49
Consensus pattern (26 bp):
CTGTCCTTTTGACACGAGGTTTTTGT
Found at i:100146987 original size:19 final size:20
Alignment explanation
Indices: 100146937--100146987 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
100146927 GTTGAGTGAG
*
100146937 AGGTTAATTAGATTTTAATTA
1 AGGTTAATTAGA-CTTAATTA
*
100146958 A-GTAAATTTAG-CTTAATTA
1 AGGTTAA-TTAGACTTAATTA
100146977 AGGTTAATTAG
1 AGGTTAATTAG
100146988 GTATAAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 12 0.48
20 8 0.32
21 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (20 bp):
AGGTTAATTAGACTTAATTA
Found at i:100147292 original size:16 final size:17
Alignment explanation
Indices: 100147264--100147307 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 17
100147254 CACGAATAGC
100147264 AGGGAAAGAAAGAAGGAAAA
1 AGGGAAAGAAA-AA-G-AAA
100147284 AGGGAAAGAAAAAGAAA
1 AGGGAAAGAAAAAGAAA
100147301 AGGGAAA
1 AGGGAAA
100147308 ATTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 2 0.08
20 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AGGGAAAGAAAAAGAAA
Found at i:100150247 original size:290 final size:290
Alignment explanation
Indices: 100149727--100150309 Score: 1139
Period size: 290 Copynumber: 2.0 Consensus size: 290
100149717 TTTCTTATAG
*
100149727 TTTATGACTAGAAGAAACCTGTCAGGACCATTACTTTTTGATGAAGAAATCGATCGTATAGTTTA
1 TTTATGACTAGAAGAAACCTGTCAGGACCATTACTTTTTGACGAAGAAATCGATCGTATAGTTTA
100149792 CAGAAATCAAAGAGAAATAAGGCGAAGCTTACGATACACAGAGAACGAGCAAGAAGACAATATTC
66 CAGAAATCAAAGAGAAATAAGGCGAAGCTTACGATACACAGAGAACGAGCAAGAAGACAATATTC
100149857 AACCTCCAATCGAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGCAATTGTGGCTAAT
131 AACCTCCAATCGAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGCAATTGTGGCTAAT
100149922 CAAAATCCTGCTCCACGCACTATGTATTATTATGCTAAACCTTCTTTAACTGGAACTGAATCTAG
196 CAAAATCCTGCTCCACGCACTATGTATTATTATGCTAAACCTTCTTTAACTGGAACTGAATCTAG
100149987 CATAGTTAGACCTGCTGTAGCTGCAAATAC
261 CATAGTTAGACCTGCTGTAGCTGCAAATAC
100150017 TTTATGACTAGAAGAAACCTGTCAGGACCATTACTTTTTGACGAAGAAATCGATCGTATAGTTTA
1 TTTATGACTAGAAGAAACCTGTCAGGACCATTACTTTTTGACGAAGAAATCGATCGTATAGTTTA
100150082 CAGAAATCAAAGAGAAATAAGGCGAAGCTTACGATACACAGAGAACGAGCAAGAAGACAATATTC
66 CAGAAATCAAAGAGAAATAAGGCGAAGCTTACGATACACAGAGAACGAGCAAGAAGACAATATTC
**
100150147 AACCTCCAATCGAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTTTTGCAATTGTGGCTAAT
131 AACCTCCAATCGAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGCAATTGTGGCTAAT
100150212 CAAAATCCTGCTCCACGCACTATGTATTATTATGCTAAACCTTCTTTAACTGGAACTGAATCTAG
196 CAAAATCCTGCTCCACGCACTATGTATTATTATGCTAAACCTTCTTTAACTGGAACTGAATCTAG
100150277 CATAGTTAGACCTGCTGTAGCTGCAAATAC
261 CATAGTTAGACCTGCTGTAGCTGCAAATAC
100150307 TTT
1 TTT
100150310 TGAATTAAAA
Statistics
Matches: 290, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
290 290 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (290 bp):
TTTATGACTAGAAGAAACCTGTCAGGACCATTACTTTTTGACGAAGAAATCGATCGTATAGTTTA
CAGAAATCAAAGAGAAATAAGGCGAAGCTTACGATACACAGAGAACGAGCAAGAAGACAATATTC
AACCTCCAATCGAAGAGATGGCTGAAAACCAAGACAATCAGCTACCTCCTGCAATTGTGGCTAAT
CAAAATCCTGCTCCACGCACTATGTATTATTATGCTAAACCTTCTTTAACTGGAACTGAATCTAG
CATAGTTAGACCTGCTGTAGCTGCAAATAC
Found at i:100160243 original size:17 final size:18
Alignment explanation
Indices: 100160216--100160249 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
100160206 TCTATTTTAT
100160216 ATTTTTAAAATTATATAC
1 ATTTTTAAAATTATATAC
100160234 ATTTTT-AAATTATATA
1 ATTTTTAAAATTATATA
100160250 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTAAAATTATATAC
Found at i:100160257 original size:17 final size:16
Alignment explanation
Indices: 100160213--100160257 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
100160203 CTTTCTATTT
*
100160213 TATATTTTTAAAATTA
1 TATATTTTTTAAATTA
*
100160229 TATACATTTTTAAATTA
1 TATA-TTTTTTAAATTA
100160246 TATATTTCTTTA
1 TATATTT-TTTA
100160258 TTTTATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (16 bp):
TATATTTTTTAAATTA
Found at i:100160338 original size:22 final size:21
Alignment explanation
Indices: 100160290--100160339 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
100160280 AACAAATTTT
*
100160290 AAAATTTTATATTTTTGAAAA
1 AAAAATTTATATTTTTGAAAA
*
100160311 ATAAAATTTATATGTTTTACAAAA
1 A-AAAATTTATAT-TTTT-GAAAA
100160335 AAAAA
1 AAAAA
100160340 GGTCACGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.04
22 10 0.42
23 8 0.33
24 5 0.21
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAAATTTATATTTTTGAAAA
Found at i:100160339 original size:23 final size:22
Alignment explanation
Indices: 100160290--100160339 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
100160280 AACAAATTTT
*
100160290 AAAATTTTATATTTTTGAAAAA
1 AAAAATTTATATTTTTGAAAAA
*
100160312 TAAAATTTATATGTTTT-ACAAAA
1 AAAAATTTATAT-TTTTGA-AAAA
100160335 AAAAA
1 AAAAA
100160340 GGTCACGTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
AAAAATTTATATTTTTGAAAAA
Found at i:100162165 original size:45 final size:45
Alignment explanation
Indices: 100162114--100162220 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
100162104 GCAGCAGTAG
* *
100162114 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAA
* * * *
100162159 TAGTAACGGTAATAGTATTCGACACACAAAGTGTTGAATCGGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAA
100162204 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
100162221 ACAGTAGTCG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAA
Found at i:100162215 original size:12 final size:12
Alignment explanation
Indices: 100162198--100162222 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100162188 AGTGTTGAAT
100162198 CGGTAACAGTAA
1 CGGTAACAGTAA
100162210 CGGTAACAGTAA
1 CGGTAACAGTAA
100162222 C
1 C
100162223 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:100162871 original size:18 final size:18
Alignment explanation
Indices: 100162848--100162889 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
100162838 CTTTTGTTTC
* *
100162848 TTCTTTACTTTGTTTTAT
1 TTCTTTACTTTATTTCAT
*
100162866 TTCTTTATTTTATTTCAT
1 TTCTTTACTTTATTTCAT
100162884 TTCTTT
1 TTCTTT
100162890 TATTCTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (18 bp):
TTCTTTACTTTATTTCAT
Found at i:100162876 original size:13 final size:14
Alignment explanation
Indices: 100162860--100162906 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 14
100162850 CTTTACTTTG
100162860 TTTTATTTC-TTTA
1 TTTTATTTCATTTA
*
100162873 TTTTATTTCATTTC
1 TTTTATTTCATTTA
*
100162887 TTTTA-TTCTTTTA
1 TTTTATTTCATTTA
100162900 TTTTATT
1 TTTTATT
100162907 AACTTTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 20 0.69
14 9 0.31
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTCATTTA
Found at i:100165250 original size:16 final size:16
Alignment explanation
Indices: 100165229--100165260 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
100165219 TATCCATAGG
100165229 CGCTGCCTCAAATTCA
1 CGCTGCCTCAAATTCA
100165245 CGCTGCCTCAAATTCA
1 CGCTGCCTCAAATTCA
100165261 ACTCTTTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.12, T:0.25
Consensus pattern (16 bp):
CGCTGCCTCAAATTCA
Found at i:100173764 original size:23 final size:22
Alignment explanation
Indices: 100173714--100173764 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
100173704 TAGTTCATTA
*
100173714 ATTTGATAAATTTTTTTAATTT
1 ATTTTATAAATTTTTTTAATTT
* * *
100173736 AATTTATATATTTTTTTTATATT
1 ATTTTATAAATTTTTTTAAT-TT
100173759 ATTTTA
1 ATTTTA
100173765 CATTAATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTTATAAATTTTTTTAATTT
Found at i:100180076 original size:38 final size:38
Alignment explanation
Indices: 100179962--100180200 Score: 307
Period size: 38 Copynumber: 6.2 Consensus size: 38
100179952 ATATTCGATG
100179962 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
100180000 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* * *
100180040 AATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
100180078 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* *
100180118 AATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
** * * *
100180156 TATATCTAGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
100180194 TATATCC
1 TATATCC
100180201 AGGCCTTCGT
Statistics
Matches: 171, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
38 94 0.55
39 20 0.12
40 57 0.33
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:100180092 original size:78 final size:78
Alignment explanation
Indices: 100179963--100180161 Score: 362
Period size: 78 Copynumber: 2.6 Consensus size: 78
100179953 TATTCGATGT
100179963 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
*
100180028 TCGTGTTGGTAAA
66 TCGTGCTGGTAAA
* *
100180041 ATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
100180106 TCGTGCTGGTAAA
66 TCGTGCTGGTAAA
*
100180119 ATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTATTATATC
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
100180162 TAGGATAAAT
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 115 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (78 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCT
TCGTGCTGGTAAA
Found at i:100180171 original size:116 final size:116
Alignment explanation
Indices: 100179962--100180200 Score: 320
Period size: 116 Copynumber: 2.1 Consensus size: 116
100179952 ATATTCGATG
* **
100179962 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGC
1 TATATCCGGGTTAAAACCCGCAGGCTTCGTGCTGGTAAAATATCCGGGCTTAAAGACCCGCAGGC
* * * * * *
100180027 TTCGTGTTGGTAAAATATCCGGGTTAAATCTCGCAGGCTTTGTGCTGGTAT
66 TTCGTGCTGGTAAAATATCCAGGATAAATCCCGCAGGCCTAGTGCTGGTAT
* *
100180078 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAATATCCGGG-TTAAA-TCCCGTAG
1 TATATCCGGG-TTAAA-ACCCGCAGGCTTCGTGCTGGTAAAATATCCGGGCTTAAAGACCCGCAG
** *
100180141 GCTTCGTGCTGGTATTATATCTAGGATAAATCCCGCAGGCCTAGTGCTGGTAT
64 GCTTCGTGCTGGTAAAATATCCAGGATAAATCCCGCAGGCCTAGTGCTGGTAT
100180194 TATATCC
1 TATATCC
100180201 AGGCCTTCGT
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
116 67 0.63
117 10 0.09
118 30 0.28
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (116 bp):
TATATCCGGGTTAAAACCCGCAGGCTTCGTGCTGGTAAAATATCCGGGCTTAAAGACCCGCAGGC
TTCGTGCTGGTAAAATATCCAGGATAAATCCCGCAGGCCTAGTGCTGGTAT
Found at i:100187488 original size:42 final size:43
Alignment explanation
Indices: 100187404--100187491 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 43
100187394 ACATTGGATT
* *
100187404 TCATATCGATGCCAATAGCATAGCTATAGTCTTACACAAAAAC
1 TCATATCGATGCCAATAGCACAGATATAGTCTTACACAAAAAC
* * * *
100187447 TCATATCGATGCC-ATATCCCAGATATGGTCTTACACGAAAAC
1 TCATATCGATGCCAATAGCACAGATATAGTCTTACACAAAAAC
100187489 TCA
1 TCA
100187492 AATAACCCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 26 0.67
43 13 0.33
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.26
Consensus pattern (43 bp):
TCATATCGATGCCAATAGCACAGATATAGTCTTACACAAAAAC
Found at i:100194294 original size:11 final size:11
Alignment explanation
Indices: 100194280--100194331 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
100194270 TCTTTCAATA
100194280 TTCTCTCAAAT
1 TTCTCTCAAAT
*
100194291 TTCTCTTAAA-
1 TTCTCTCAAAT
100194301 -TCTCTCAAAT
1 TTCTCTCAAAT
*
100194311 TTCTCTTAAAT
1 TTCTCTCAAAT
*
100194322 TCCTCTCAAA
1 TTCTCTCAAA
100194332 ACTCTCGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
11 26 0.76
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:100194303 original size:31 final size:31
Alignment explanation
Indices: 100194263--100194337 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
100194253 ATCCTTTCAA
* * *
100194263 TCTTCAATCTTTC-AATATTCTCTCAAATTTC
1 TCTTAAATCTCTCAAAT-TTCTCTCAAATTCC
*
100194294 TCTTAAATCTCTCAAATTTCTCTTAAATTCC
1 TCTTAAATCTCTCAAATTTCTCTCAAATTCC
* *
100194325 TCTCAAAACTCTC
1 TCTTAAATCTCTC
100194338 GTTAATTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
31 34 0.92
32 3 0.08
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (31 bp):
TCTTAAATCTCTCAAATTTCTCTCAAATTCC
Found at i:100194306 original size:20 final size:21
Alignment explanation
Indices: 100194279--100194331 Score: 90
Period size: 20 Copynumber: 2.5 Consensus size: 21
100194269 ATCTTTCAAT
100194279 ATTCTCTCAAATTTCTCTTAA
1 ATTCTCTCAAATTTCTCTTAA
100194300 A-TCTCTCAAATTTCTCTTAA
1 ATTCTCTCAAATTTCTCTTAA
100194320 ATTCCTCTCAAA
1 ATT-CTCTCAAA
100194332 ACTCTCGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 20 0.67
21 2 0.07
22 8 0.27
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTCTCTCAAATTTCTCTTAA
Found at i:100194344 original size:22 final size:22
Alignment explanation
Indices: 100194282--100194342 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
100194272 TTTCAATATT
**
100194282 CTCTCAAATTTCTCTTAAA-T-
1 CTCTCAAAACTCTCTTAAATTC
**
100194302 CTCTCAAATTTCTCTTAAATTC
1 CTCTCAAAACTCTCTTAAATTC
100194324 CTCTCAAAACTCTCGTTAA
1 CTCTCAAAACTCTC-TTAA
100194343 TTTTTTCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 19 0.53
21 1 0.03
22 12 0.33
23 4 0.11
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.41
Consensus pattern (22 bp):
CTCTCAAAACTCTCTTAAATTC
Found at i:100194388 original size:17 final size:16
Alignment explanation
Indices: 100194358--100194389 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
100194348 TCAAAAAAGC
*
100194358 TCTAATTTTATTTTTT
1 TCTAAATTTATTTTTT
100194374 TCTAAATTTATTTTTT
1 TCTAAATTTATTTTTT
100194390 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
TCTAAATTTATTTTTT
Found at i:100196151 original size:18 final size:18
Alignment explanation
Indices: 100196128--100196170 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
100196118 TGCCAGGTAC
*
100196128 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
100196146 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
100196164 GTTTCCT
1 GTATCCT
100196171 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:100196759 original size:116 final size:116
Alignment explanation
Indices: 100196555--100196823 Score: 475
Period size: 116 Copynumber: 2.3 Consensus size: 116
100196545 TATTTGTACA
*
100196555 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
* * *
100196620 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
* *
100196671 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
100196736 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
*
100196787 AATATTTTGAATATTTTTATATTATTTCATGTAATAA
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAA
100196824 AATATAAATA
Statistics
Matches: 145, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 145 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
Found at i:100196784 original size:54 final size:54
Alignment explanation
Indices: 100196604--100196785 Score: 172
Period size: 54 Copynumber: 3.2 Consensus size: 54
100196594 TAAAAGGTTG
* *
100196604 TTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
* * * * * *
100196658 TTTTAAATAAGGCAACATTTTGAATATT--TTTATATTATTTCATGTGATAATAT-AAAAGGTTG
1 TTTTAAATAAAG-TA-ATTAT-AAT-TTACTTT-TA-TATTT--T-TAATAAAATGAAAA--TTA
100196720 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
100196774 TTTTAAATAAAG
1 TTTTAAATAAAG
100196786 CAATATTTTG
Statistics
Matches: 101, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
54 25 0.25
55 8 0.08
56 12 0.12
57 5 0.05
58 14 0.14
59 5 0.05
60 11 0.11
61 8 0.08
62 13 0.13
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (54 bp):
TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
Found at i:100196826 original size:55 final size:54
Alignment explanation
Indices: 100196558--100196826 Score: 154
Period size: 55 Copynumber: 4.7 Consensus size: 54
100196548 TTGTACAAAC
* *
100196558 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAG-TA
1 ATTTTGAATATTTTTATATTATTTCATG----TA-ATAAAA--TTATTTTAAATAAAGCAA
* * * ** * *
100196618 ATTGT-AATTTACTTTTATATT-TTTAATAAAATGGAAATTATTTTAAATAAGGCAA
1 ATTTTGAA--TATTTTTATATTATTTCATGTAAT-AAAATTATTTTAAATAAAGCAA
* *
100196673 CATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAG-TA
1 -ATTTTGAATATTTTTATATTATTTCA--TG-T-A-ATAAAA--TTATTTTAAATAAAGCAA
* * * **
100196734 ATTAT-AATTTACTTTTATATT-TTTAATAAAATGAAAATTATTTTAAATAAAGCAA
1 ATTTTGAA--TATTTTTATATTATTTCATGTAAT-AAAATTATTTTAAATAAAGCAA
100196789 TATTTTGAATATTTTTATATTATTTCATGTAATAAAAT
1 -ATTTTGAATATTTTTATATTATTTCATGTAATAAAAT
100196827 ATAAATAATA
Statistics
Matches: 158, Mismatches: 30, Indels: 47
0.67 0.13 0.20
Matches are distributed among these distances:
54 27 0.17
55 33 0.21
56 29 0.18
57 4 0.03
58 2 0.01
59 4 0.03
60 21 0.13
61 25 0.16
62 13 0.08
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.48
Consensus pattern (54 bp):
ATTTTGAATATTTTTATATTATTTCATGTAATAAAATTATTTTAAATAAAGCAA
Found at i:100200278 original size:245 final size:245
Alignment explanation
Indices: 100199848--100200339 Score: 781
Period size: 245 Copynumber: 2.0 Consensus size: 245
100199838 TTTCAGAAAC
* *
100199848 CACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGC
1 CACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGC
** * *
100199913 TTGAAGCGTTTTTGACACTATTTATGCAGACATGTCTTCTCAAAATTATTTTTTCAGAGACCATT
66 TTGAAGCGTTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTATTTTTTCAGAGACCACT
*
100199978 GTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCTAGTAATTTTGCTGAAAATGCATCCTGCTTGA
131 GTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCTAGTAATTTTGCTGAAAATGCATCCTACTTGA
100200043 AGCG-TTTTGACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTT
196 AGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTT
*
100200093 CACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGC
1 CACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGC
* * * * * *
100200158 TTGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTTAAAATTATTTTTTTAGATACTACT
66 TTGAAGCGTTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTATTTTTTCAGAGACCACT
* * * *
100200223 GTAGCGAAAGAGCGTCCACGTGGGAGCTTCTT-TCAGTACTTTTGCTGACAATGCATCCTACTTG
131 GTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCT-AGTAATTTTGCTGAAAATGCATCCTACTTG
*
100200287 AAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTT
195 AAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTT
100200338 CA
1 CA
100200340 AAGACTACTG
Statistics
Matches: 226, Mismatches: 19, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
244 1 0.00
245 220 0.97
246 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (245 bp):
CACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGC
TTGAAGCGTTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTATTTTTTCAGAGACCACT
GTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCTAGTAATTTTGCTGAAAATGCATCCTACTTGA
AGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTT
Found at i:100200377 original size:126 final size:126
Alignment explanation
Indices: 100199838--100200369 Score: 776
Period size: 126 Copynumber: 4.3 Consensus size: 126
100199828 GCCCAAGTTA
* * *
100199838 TTTCAGAAACCACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
** *
100199903 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACATGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
100199964 TTTCAGAGACCATTGTAGCAAAAGAGCATCCACGTGGGAGCTTC-TTCTAGTAATTTTGCTGAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTC-AGTACTTTTGCTGAAA
100200028 ATGCATCCTGCTTGAAGCG-TTTTGACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
65 ATGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
100200090 TTT------C-ACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
100200148 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTTAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
100200209 TTTTAGATACTACTGTAGCGAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
100200274 TGCATCCTACTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
100200335 TTTCAAAGACTACTGCAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
100200370 AGAAGCTTTT
Statistics
Matches: 369, Mismatches: 26, Indels: 22
0.88 0.06 0.05
Matches are distributed among these distances:
119 100 0.27
120 9 0.02
125 10 0.03
126 250 0.68
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:100200655 original size:96 final size:97
Alignment explanation
Indices: 100200456--100200661 Score: 265
Period size: 96 Copynumber: 2.1 Consensus size: 97
100200446 TTAAATATCC
* * * **
100200456 TAAAACCCTAAACCCTAAAATCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTA
1 TAAAACCCTAAACACTAAAATCCTAATCTAATTTTTTTAAAATTGATAATTAATTTAATCAACAA
* *
100200521 ACCCTAAACCCTAATTTATTTGATTTTTTCCT
66 ACACTAAACCCTAATTTATTTAATTTTTTCCT
* * *
100200553 TAAAAACCATAAACACT-AAA-CCATAATCTAA-TTTTTTAAAATTGGTAATTAATTTAATTAAC
1 T-AAAACCCTAAACACTAAAATCC-TAATCTAATTTTTTTAAAATTGATAATTAATTTAATCAAC
*
100200615 AAATACTAAACCCTAATTTATTTAATTTTTTTCCT
64 AAACACTAAACCCTAATTTATTTAA-TTTTTTCCT
100200650 TAAAACCCTAAA
1 TAAAACCCTAAA
100200662 ATTTAAAAAC
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
96 59 0.63
97 22 0.23
98 13 0.14
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (97 bp):
TAAAACCCTAAACACTAAAATCCTAATCTAATTTTTTTAAAATTGATAATTAATTTAATCAACAA
ACACTAAACCCTAATTTATTTAATTTTTTCCT
Found at i:100201372 original size:6 final size:6
Alignment explanation
Indices: 100201363--100201392 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
100201353 TTTTATGTTC
*
100201363 TAAATT TAAATT TAAATT TAAATT TGAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT
100201393 GAATTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TAAATT
Found at i:100202132 original size:31 final size:31
Alignment explanation
Indices: 100202058--100202132 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
100202048 TCAAAAAATA
* *
100202058 ACAAATCAGTCAATAATGTTATTGAAAAGTG
1 ACAAATCAGTCACTAATATTATTGAAAAGTG
100202089 ACAAATCAGTCACTAATATTATTGAAAAGTG
1 ACAAATCAGTCACTAATATTATTGAAAAGTG
*
100202120 ACAAACCAGTCAC
1 ACAAATCAGTCAC
100202133 CCATTAACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (31 bp):
ACAAATCAGTCACTAATATTATTGAAAAGTG
Found at i:100203304 original size:5 final size:5
Alignment explanation
Indices: 100203296--100203343 Score: 89
Period size: 5 Copynumber: 9.8 Consensus size: 5
100203286 TTTTATTTTA
100203296 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT-TT TTCT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCT
100203344 AAAAATTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:100203406 original size:18 final size:18
Alignment explanation
Indices: 100203392--100203427 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
100203382 TTCTTTTCTT
100203392 CTTTCTTTCCTTTTTCTGA
1 CTTT-TTTCCTTTTTCTGA
*
100203411 CTTTTTTCCTTTCTCTG
1 CTTTTTTCCTTTTTCTG
100203428 TAAAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.03, C:0.28, G:0.06, T:0.64
Consensus pattern (18 bp):
CTTTTTTCCTTTTTCTGA
Found at i:100208504 original size:29 final size:27
Alignment explanation
Indices: 100208478--100208588 Score: 82
Period size: 29 Copynumber: 3.9 Consensus size: 27
100208468 ATATTATTGC
*
100208478 TATTATTATTATGTTTCTATTTATATT
1 TATTATTATTATATTTCTATTTATATT
* * * *
100208505 TAGTTTTTTATTCTAATACTA-TTATTATT
1 TA--TTATTATTATATTTCTATTTA-TATT
100208534 TATCTAATTATTAT-TTATCTATTTATATTT
1 TAT-T-ATTATTATATT-TCTATTTATA-TT
*
100208564 CTACTATTATTATATTTCTATTTAT
1 -TATTATTATTATATTTCTATTTAT
100208589 TATATTTTTG
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
27 3 0.05
28 5 0.08
29 46 0.72
30 8 0.12
31 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (27 bp):
TATTATTATTATATTTCTATTTATATT
Found at i:100208545 original size:15 final size:15
Alignment explanation
Indices: 100208525--100208591 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
100208515 TTCTAATACT
100208525 ATTATTATTTATCTA
1 ATTATTATTTATCTA
100208540 ATTATTATTTATCTA
1 ATTATTATTTATCTA
* *
100208555 TTTA-TATTTCTACT-
1 ATTATTATTTAT-CTA
100208569 ATTATTATATT-TCTA
1 ATTATTAT-TTATCTA
*
100208584 TTTATTAT
1 ATTATTAT
100208592 ATTTTTGTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.25
15 31 0.70
16 2 0.05
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTATCTA
Found at i:100208559 original size:44 final size:44
Alignment explanation
Indices: 100208481--100208591 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 44
100208471 TTATTGCTAT
* *
100208481 TATTATTATGTTTCTATTTA-TATTTAGTTTTTTAT-TCTAATAC
1 TATTATTATATTTCTATTTATTATTTAGTTATTTATAT-TAATAC
* **
100208524 TATTATTAT-TTATCTAATTATTATTTA-TCTATTTATATTTCTAC
1 TATTATTATATT-TCTATTTATTATTTAGT-TATTTATATTAATAC
100208568 TATTATTATATTTCTATTTATTAT
1 TATTATTATATTTCTATTTATTAT
100208592 ATTTTTGTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.03
43 17 0.29
44 36 0.62
45 3 0.05
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (44 bp):
TATTATTATATTTCTATTTATTATTTAGTTATTTATATTAATAC
Found at i:100208776 original size:25 final size:26
Alignment explanation
Indices: 100208748--100208841 Score: 75
Period size: 25 Copynumber: 3.7 Consensus size: 26
100208738 CTCATTTCAA
*
100208748 ATTTTTATACATTATTTACTTT-AAT
1 ATTTTTATACATTATTTATTTTAAAT
* * *
100208773 ATTTTCATATATTATGTATTTTAAACT
1 ATTTTTATACATTATTTATTTTAAA-T
* * * *
100208800 TTTTTTACACATTATATATTTTGAAT
1 ATTTTTATACATTATTTATTTTAAAT
* *
100208826 -TGTTTATATATTATTT
1 ATTTTTATACATTATTT
100208842 TTAAGGAGTT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
25 30 0.57
26 3 0.06
27 20 0.38
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (26 bp):
ATTTTTATACATTATTTATTTTAAAT
Found at i:100213390 original size:21 final size:21
Alignment explanation
Indices: 100213364--100213405 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
100213354 AGTTTCCCCC
100213364 GTTTGCAGTGGCTATACAATT
1 GTTTGCAGTGGCTATACAATT
*
100213385 GTTTGCAGTGGCTATATAATT
1 GTTTGCAGTGGCTATACAATT
100213406 AATTTACAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (21 bp):
GTTTGCAGTGGCTATACAATT
Found at i:100214798 original size:16 final size:16
Alignment explanation
Indices: 100214777--100214845 Score: 74
Period size: 16 Copynumber: 4.4 Consensus size: 16
100214767 TAAGTTAATA
100214777 TAAGAATATTAATTAT
1 TAAGAATATTAATTAT
*
100214793 TAAGAATATT-ATGATT
1 TAAGAATATTAATTA-T
*
100214809 TGAGTAA-ATTAA-TA-
1 TAAG-AATATTAATTAT
100214823 TAAGAATATTAATTAT
1 TAAGAATATTAATTAT
100214839 TAAGAAT
1 TAAGAAT
100214846 TTTATTAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
13 2 0.05
14 8 0.19
15 5 0.12
16 25 0.58
17 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (16 bp):
TAAGAATATTAATTAT
Found at i:100215180 original size:121 final size:120
Alignment explanation
Indices: 100214798--100215259 Score: 775
Period size: 120 Copynumber: 3.8 Consensus size: 120
100214788 ATTATTAAGA
* *
100214798 ATATTATGATTTGAGTAAATTAATAT-AAGAATATTAATTATTAAGAATTTTATTAAATTATATT
1 ATATTATGATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTT-TTAAATTATATA
* * *
100214862 GTTCAATTAATATATATTTAATCATATATTATGTTAATTTATA-TTTACAGTATCAT
65 GTTTAATTAAAATATATTTAATAATA-ATTATGTTAATTTATATTTTACAGTATCAT
100214918 ATATTATGATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAATTATATAG
1 ATATTATGATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAATTATATAG
*
100214983 TTTAATTAAAATTTATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
66 TTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
* *
100215038 ATATTATGATGTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAATTATATAG
1 ATATTATGATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAATTATATAG
*
100215103 TTTAATTAAAATTTATTTAATAATAAATTATGTTAATTTATATTTTACAGTATCAT
66 TTTAATTAAAATATATTTAATAAT-AATTATGTTAATTTATATTTTACAGTATCAT
* *
100215159 ATATTATGATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAATTATATAT
1 ATATTATGATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAATTATATAG
100215224 TTTAATTAAAATATATTTAATAATAATTATGATTAA
66 TTTAATTAAAATATATTTAATAATAATTATG-TTAA
100215260 ATATGATTAA
Statistics
Matches: 325, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
119 16 0.05
120 165 0.51
121 144 0.44
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATTATGATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAATTATATAG
TTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
Found at i:100215220 original size:241 final size:241
Alignment explanation
Indices: 100214798--100215259 Score: 802
Period size: 241 Copynumber: 1.9 Consensus size: 241
100214788 ATTATTAAGA
* *
100214798 ATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATTG
1 ATATTATGATGTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAG
* * *
100214863 TTCAATTAATATATATTTAATCATATATTATGTTAATTTATATTTACAGTATCATATATTATGAT
66 TTCAATTAAAATATATTTAATAATAAATTATGTTAATTTATATTTACAGTATCATATATTATGAT
100214928 TTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAA
131 TTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAA
*
100214993 ATTTATTTAATAATAATTATG-TTAATTTATATTTTACAGTATCAT
196 ATATATTTAATAATAATTATGATTAATTTATATTTTACAGTATCAT
100215038 ATATTATGATGTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTT-TTAAATTATATA
1 ATATTATGATGTGAGTAAATTAATAT-AAGAATATTAATTATTAAGAATTTTATTAAATTATATA
* *
100215102 GTTTAATTAAAATTTATTTAATAATAAATTATGTTAATTTATATTTTACAGTATCATATATTATG
65 GTTCAATTAAAATATATTTAATAATAAATTATGTTAATTTATA-TTTACAGTATCATATATTATG
* *
100215167 ATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAATTATATATTTTAATTA
129 ATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTA
100215232 AAATATATTTAATAATAATTATGATTAA
194 AAATATATTTAATAATAATTATGATTAA
100215260 ATATGATTAA
Statistics
Matches: 209, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
240 74 0.35
241 131 0.63
242 4 0.02
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (241 bp):
ATATTATGATGTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAG
TTCAATTAAAATATATTTAATAATAAATTATGTTAATTTATATTTACAGTATCATATATTATGAT
TTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAA
ATATATTTAATAATAATTATGATTAATTTATATTTTACAGTATCAT
Found at i:100215509 original size:16 final size:16
Alignment explanation
Indices: 100215475--100215527 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
100215465 GATTAGCTAT
100215475 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
100215492 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
100215508 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
100215524 TACA
1 TACA
100215528 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 24 0.67
17 12 0.33
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:100218354 original size:23 final size:22
Alignment explanation
Indices: 100218328--100218376 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
100218318 TATTTTTTAA
100218328 AAAATATTTAT-AAAAAAGTATTT
1 AAAAT-TTTATCAAAAAA-TATTT
* *
100218351 AAAATTTTGTCAAATAATATTT
1 AAAATTTTATCAAAAAATATTT
100218373 AAAA
1 AAAA
100218377 GTAATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (22 bp):
AAAATTTTATCAAAAAATATTT
Found at i:100219749 original size:83 final size:83
Alignment explanation
Indices: 100219625--100219790 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
100219615 GGAAAGCATG
100219625 TCAAAAAATAAAATTTGTTTTGCGTTCTCCAATAGCAGTGGTGGTGACAATAGTCCAATTTGTTT
1 TCAAAAAATAAAATTTGTTTTGCGTTCTCCAATAGCAGTGGTGGTGACAATAGTCCAATTTGTTT
100219690 TATCTGAAAGGGCTGGTA
66 TATCTGAAAGGGCTGGTA
*
100219708 TCAAAAAATAAAATTTGTTTTGCGTTCTCCAATAGCAGTGGTGGTGACAATAGTCCATTTTGTTT
1 TCAAAAAATAAAATTTGTTTTGCGTTCTCCAATAGCAGTGGTGGTGACAATAGTCCAATTTGTTT
100219773 TATCTGAAAGGGCTGGTA
66 TATCTGAAAGGGCTGGTA
100219791 ATATTAATAA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.36
Consensus pattern (83 bp):
TCAAAAAATAAAATTTGTTTTGCGTTCTCCAATAGCAGTGGTGGTGACAATAGTCCAATTTGTTT
TATCTGAAAGGGCTGGTA
Found at i:100220201 original size:14 final size:14
Alignment explanation
Indices: 100220182--100220209 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100220172 AAACCATGGC
100220182 TTCTTTTCTACATA
1 TTCTTTTCTACATA
100220196 TTCTTTTCTACATA
1 TTCTTTTCTACATA
100220210 AATGTGAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.57
Consensus pattern (14 bp):
TTCTTTTCTACATA
Found at i:100221523 original size:29 final size:32
Alignment explanation
Indices: 100221491--100221568 Score: 83
Period size: 36 Copynumber: 2.4 Consensus size: 32
100221481 TGTTTTCATA
100221491 TTATTTTATGTA-A-A-TATTTTCTTTTAAAT
1 TTATTTTATGTATATATTATTTTCTTTTAAAT
*
100221520 TTATTATATATATGTATATATTTTTTTCTTTTAAAT
1 TTA-T-T-T-TATGTATATATTATTTTCTTTTAAAT
100221556 TTA-TTTATGTATA
1 TTATTTTATGTATA
100221569 ATTTGGTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
29 3 0.07
30 1 0.02
31 9 0.22
32 2 0.05
33 7 0.17
34 1 0.02
35 1 0.02
36 17 0.41
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (32 bp):
TTATTTTATGTATATATTATTTTCTTTTAAAT
Found at i:100221568 original size:31 final size:34
Alignment explanation
Indices: 100221507--100221572 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 34
100221497 TATGTAAATA
100221507 TTTTCTTTTAAATTTATTATATATATGTATATATTT
1 TTTTCTTTTAAA-TTATTATATATATGTATA-ATTT
100221543 TTTTCTTTTAAA-T-TTAT-T-TATGTATAATTT
1 TTTTCTTTTAAATTATTATATATATGTATAATTT
100221573 GGTTTTCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
30 4 0.13
31 8 0.27
32 1 0.03
33 4 0.13
34 1 0.03
36 12 0.40
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (34 bp):
TTTTCTTTTAAATTATTATATATATGTATAATTT
Found at i:100222390 original size:128 final size:127
Alignment explanation
Indices: 100222176--100222492 Score: 517
Period size: 128 Copynumber: 2.5 Consensus size: 127
100222166 AAATTTTTCG
* * *
100222176 TCGCGTGTTTTGGAAATCATGAGGTGGTTTCAGTTTTTGGAGGCTTAAAATATCGTGTCCTAACA
1 TCGCATGTTTTGGAAATCATGAGGTGATCTCAGTTTTTGGAGGCTTAAAATATCGTGTCCTAACA
*
100222241 TGCTGGATGTGGTATTCTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTT
66 TGCTGGATGTGGTATTCTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTC
* * *
100222303 TTGCATGTTTTGGAAATCATGAGATGATCTCAGTTTTTGAAGGCTTAAAAATATCGTGTCCTAAC
1 TCGCATGTTTTGGAAATCATGAGGTGATCTCAGTTTTTGGAGGCTT-AAAATATCGTGTCCTAAC
* *
100222368 ATGCTGGATGTGTTATTTTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTC
65 ATGCTGGATGTGGTATTCTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTC
* *
100222431 TCGCGTGTTTTGGAAATCATGAGGTGATCTCAATTTTTTGGAGGCTTAAAATATCGTGTCCT
1 TCGCATGTTTTGGAAATCATGAGGTGATCTC-AGTTTTTGGAGGCTTAAAATATCGTGTCCT
100222493 TCCTCGTATG
Statistics
Matches: 174, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
127 40 0.23
128 121 0.70
129 13 0.07
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (127 bp):
TCGCATGTTTTGGAAATCATGAGGTGATCTCAGTTTTTGGAGGCTTAAAATATCGTGTCCTAACA
TGCTGGATGTGGTATTCTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTC
Found at i:100223234 original size:24 final size:24
Alignment explanation
Indices: 100223177--100223228 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
100223167 TTTCTAGAAG
*
100223177 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
100223201 ATTTAGCATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
100223225 ATTT
1 ATTT
100223229 GACATTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:100223239 original size:24 final size:24
Alignment explanation
Indices: 100223177--100223240 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
100223167 TTTCTAGAAG
* *
100223177 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTGATTAGTATAATAT
*
100223201 ATTTAGCATTTATTAGTATAATAT
1 ATTTAGCATTGATTAGTATAATAT
100223225 ATTT-GACATTGATTAG
1 ATTTAG-CATTGATTAG
100223241 AATTAGGCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 1 0.03
24 36 0.97
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTGATTAGTATAATAT
Found at i:100227675 original size:24 final size:24
Alignment explanation
Indices: 100227618--100227669 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
100227608 TTTCTATAAG
* * *
100227618 ATTTAGTAATTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
100227642 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
100227666 ATTT
1 ATTT
100227670 GACATTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:100227680 original size:24 final size:24
Alignment explanation
Indices: 100227629--100227681 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
100227619 TTTAGTAATT
* *
100227629 ATTAGTATAATATATTTAGCATTT
1 ATTAGCATAATATATTTAGCATTG
100227653 ATTAGCATAATATATTT-GACATTG
1 ATTAGCATAATATATTTAG-CATTG
100227677 ATTAG
1 ATTAG
100227682 AATTAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (24 bp):
ATTAGCATAATATATTTAGCATTG
Found at i:100237832 original size:5 final size:5
Alignment explanation
Indices: 100237822--100237897 Score: 59
Period size: 5 Copynumber: 15.0 Consensus size: 5
100237812 AACATGTAAG
* * *
100237822 AAAAT AAAAT AGAAA- AATAT AAAAT AAAAT AAAAT ATAA- AATAT AAAAT
1 AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
*
100237871 AATAA- AAAGAA AAAAT ATAAAT AAAAT
1 AA-AAT AAA-AT AAAAT A-AAAT AAAAT
100237898 TAGGTTGCCT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
4 5 0.09
5 39 0.68
6 13 0.23
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:100237845 original size:7 final size:7
Alignment explanation
Indices: 100237825--100237891 Score: 53
Period size: 7 Copynumber: 8.7 Consensus size: 7
100237815 ATGTAAGAAA
100237825 ATAAAAT
1 ATAAAAT
*
100237832 AGAAAAAT
1 A-TAAAAT
100237840 ATAAAAT
1 ATAAAAT
100237847 AAAATAAAAT
1 ---ATAAAAT
100237857 ATAAAAT
1 ATAAAAT
100237864 ATAAAAT
1 ATAAAAT
*
100237871 AATAAAAAG
1 -AT-AAAAT
*
100237880 AAAAAAT
1 ATAAAAT
100237887 ATAAA
1 ATAAA
100237892 TAAAATTAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
7 28 0.58
8 9 0.19
9 4 0.08
10 7 0.15
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (7 bp):
ATAAAAT
Found at i:100237845 original size:15 final size:15
Alignment explanation
Indices: 100237825--100237891 Score: 66
Period size: 15 Copynumber: 4.3 Consensus size: 15
100237815 ATGTAAGAAA
100237825 ATAAAATAGAAAAAT
1 ATAAAATAGAAAAAT
*
100237840 ATAAAATAAAATAAAAT
1 ATAAAAT-AGA-AAAAT
*
100237857 ATAAAATA-TAAAAT
1 ATAAAATAGAAAAAT
100237871 AATAAAA-AGAAAAAAT
1 -ATAAAATAG-AAAAAT
100237887 ATAAA
1 ATAAA
100237892 TAAAATTAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
14 6 0.14
15 18 0.41
16 8 0.18
17 12 0.27
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
ATAAAATAGAAAAAT
Found at i:100239451 original size:16 final size:17
Alignment explanation
Indices: 100239430--100239461 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
100239420 AGGTCTCACT
100239430 AAAATATAA-ATTTCTC
1 AAAATATAAGATTTCTC
100239446 AAAATATAAGATTTCT
1 AAAATATAAGATTTCT
100239462 TTACTTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (17 bp):
AAAATATAAGATTTCTC
Found at i:100241573 original size:28 final size:28
Alignment explanation
Indices: 100241533--100241588 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
100241523 AACAATATTG
* *
100241533 GCCAAATCACTAGTTATTGCAGCGTGAT
1 GCCAAATCACTAGATATTACAGCGTGAT
100241561 GCCAAATCACTAGATATTACAGCGTGAT
1 GCCAAATCACTAGATATTACAGCGTGAT
100241589 CTTTCCCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (28 bp):
GCCAAATCACTAGATATTACAGCGTGAT
Found at i:100245563 original size:3 final size:3
Alignment explanation
Indices: 100245557--100245814 Score: 131
Period size: 3 Copynumber: 85.3 Consensus size: 3
100245547 TTCTTTTTAC
*
100245557 TAT TATT TAT TAT CAT TAT TAT TAT TACCT TCAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TA--T T-AT TAT TAT TAT TAT TAT
* * * * * *
100245606 T-T TCT T-T TAC CAT TCT TAT TAC TACT T-T TGT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * *
100245648 CTAA TA- TAT TAT TAC CAT TAT TAT TAT TAT T-T TAC TAT TAT TACT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * * *
100245693 TA- TAT TAGT TAG TAT CAT TAT TAA TCT TAT CT-T TAT T-T TCTT TAC
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-AT TAT
* * * *
100245738 TAT TAT TTT TAT TAT CAT TAAT TATT TAT TAT TAC TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TA-T TAT TAT TAT TAT TAT TAT TAT
* *
100245785 TAT TAT TAT TAT TGT CA- TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
100245815 TTCATATATG
Statistics
Matches: 192, Mismatches: 41, Indels: 44
0.69 0.15 0.16
Matches are distributed among these distances:
2 18 0.09
3 148 0.77
4 23 0.12
5 2 0.01
6 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:100245658 original size:32 final size:32
Alignment explanation
Indices: 100245621--100245692 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 32
100245611 TTTACCATTC
*
100245621 TTATTACTA-C-TT-TTGTTATTATTTTATCTAA
1 TTATTACTACCATTATTATTATTATTTTA-CT-A
*
100245652 TATATTATTACCATTATTATTATTATTTTACTA
1 T-TATTACTACCATTATTATTATTATTTTACTA
100245685 TTATTACT
1 TTATTACT
100245693 TATATTAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
31 1 0.03
32 13 0.38
33 3 0.09
34 4 0.12
35 13 0.38
ACGTcount: A:0.29, C:0.10, G:0.01, T:0.60
Consensus pattern (32 bp):
TTATTACTACCATTATTATTATTATTTTACTA
Found at i:100245819 original size:17 final size:17
Alignment explanation
Indices: 100245785--100245821 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
100245775 TTACTATTAT
100245785 TATTATTATTATTGTCA
1 TATTATTATTATTGTCA
*
100245802 TATTATTATTATTTTCA
1 TATTATTATTATTGTCA
100245819 TAT
1 TAT
100245822 ATGTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTATTATTATTGTCA
Found at i:100266735 original size:23 final size:23
Alignment explanation
Indices: 100266715--100266759 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
100266705 ATATTTATTT
100266715 ATTACATACATAAACAATTATAA
1 ATTACATACATAAACAATTATAA
* *
100266738 ATTGCATACATAAATAATTATA
1 ATTACATACATAAACAATTATA
100266760 TTTATCCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.33
Consensus pattern (23 bp):
ATTACATACATAAACAATTATAA
Found at i:100266874 original size:29 final size:30
Alignment explanation
Indices: 100266820--100266877 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
100266810 GATTAAACCG
* *
100266820 AAATTAAAGTTTCACGTGTATAATTGCACC
1 AAATTAAAGTTTCACGTATACAATTGCACC
*
100266850 AAATTAAAG-TTCATGTATACAATTGCAC
1 AAATTAAAGTTTCACGTATACAATTGCAC
100266878 ATTAAATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCACGTATACAATTGCACC
Found at i:100266902 original size:29 final size:27
Alignment explanation
Indices: 100266836--100266902 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
100266826 AAGTTTCACG
* *
100266836 TGTATAATTGCACCAAATTAAAGTTCA
1 TGTATAATTGCACCAAATCAAAGTTAA
*
100266863 TGTATACAATTGCACATTAAATCAAAGTTAA
1 TGTAT--AATTGCAC--CAAATCAAAGTTAA
100266894 TGTATAATT
1 TGTATAATT
100266903 TTGATATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
29 12 0.36
31 16 0.48
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (27 bp):
TGTATAATTGCACCAAATCAAAGTTAA
Found at i:100267055 original size:63 final size:62
Alignment explanation
Indices: 100266971--100267116 Score: 168
Period size: 63 Copynumber: 2.3 Consensus size: 62
100266961 TTTAGTAAAT
* * * **
100266971 TAATACAAACTAGTATCTAAATATTAATTTGGA-AAAAAGTAATGTTAAATAATTACAATATC
1 TAATACAAATTAGTATTTAAATATTAATTT-GATAAAAAATAAACTTAAATAATTACAATATC
* * * *
100267033 TAAATATAAATTAGTATTTAAATATTAGTTTGATAAAAAATAAACTTAAATAATTGCATTATC
1 T-AATACAAATTAGTATTTAAATATTAATTTGATAAAAAATAAACTTAAATAATTACAATATC
*
100267096 TAATACAAATTGAGTAGTTAA
1 TAATACAAATT-AGTATTTAA
100267117 CCTACTTTGG
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
62 12 0.17
63 58 0.83
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.36
Consensus pattern (62 bp):
TAATACAAATTAGTATTTAAATATTAATTTGATAAAAAATAAACTTAAATAATTACAATATC
Found at i:100269394 original size:48 final size:47
Alignment explanation
Indices: 100269278--100269406 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 47
100269268 ATACGATAAG
* * * * * *
100269278 TACCTATACCATGGCCCATAGCCAACTCAAGGTAACTTATCCTGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAA
*
100269325 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCCCCGAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCAT-CCCGAAA
* * *
100269373 TACCTATGCCATGGCCTGTAGCAAAATCAAGGTA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
100269407 TCACTCGCAC
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 36 0.51
48 35 0.49
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAA
Found at i:100274308 original size:20 final size:21
Alignment explanation
Indices: 100274269--100274308 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
100274259 GTGTCCCCTA
100274269 TTTTTGGAAAACTTTACTAAG
1 TTTTTGGAAAACTTTACTAAG
* *
100274290 TTTTTTGAAAA-TTTCCTAA
1 TTTTTGGAAAACTTTACTAA
100274309 ATTATCAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (21 bp):
TTTTTGGAAAACTTTACTAAG
Found at i:100277256 original size:35 final size:36
Alignment explanation
Indices: 100277217--100277284 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
100277207 ATGTAATATA
*
100277217 AACATATAAGAAAAATA-ATAGATATA-ATATAAAGT
1 AACATATAA-AAAAATATATACATATATATATAAAGT
*
100277252 AACATATAAAACAATATATACATATATATATAA
1 AACATATAAAAAAATATATACATATATATATAA
100277285 TTAATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 6 0.21
35 17 0.59
36 6 0.21
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (36 bp):
AACATATAAAAAAATATATACATATATATATAAAGT
Found at i:100277459 original size:41 final size:41
Alignment explanation
Indices: 100277369--100277474 Score: 128
Period size: 41 Copynumber: 2.6 Consensus size: 41
100277359 CATAATAAGT
* *
100277369 AATAATAATATATAAT-TAAAATAAAACTTATAATAAAATA
1 AATAATAATATATAATATAAAATAAAACTTAAAATAAAACA
* *
100277409 ATTTTATAATATATAATATAAAAGTAAAA-TTAAAATAAAACA
1 A-ATAATAATATATAATATAAAA-TAAAACTTAAAATAAAACA
*
100277451 AATAATAATATAT-ATATAGAATAA
1 AATAATAATATATAATATAAAATAA
100277475 TAAATATAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 3 0.05
40 8 0.14
41 23 0.41
42 17 0.30
43 5 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (41 bp):
AATAATAATATATAATATAAAATAAAACTTAAAATAAAACA
Found at i:100279365 original size:119 final size:119
Alignment explanation
Indices: 100279009--100279599 Score: 1006
Period size: 119 Copynumber: 5.0 Consensus size: 119
100278999 CTTGAGTTTG
* * * * *
100279009 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAGACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
100279074 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * * *
100279128 TTTGAAAATGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACCA-AATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
100279192 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
100279246 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
100279311 CAAATCATCTTGGATTTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
100279365 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCATCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
100279430 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
100279484 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAAAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* **
100279549 CAAATCATCTTGGATCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCTGCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCT
100279600 GTCTTCAATT
Statistics
Matches: 445, Mismatches: 25, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
118 114 0.26
119 331 0.74
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:100279542 original size:238 final size:237
Alignment explanation
Indices: 100279009--100279599 Score: 1004
Period size: 237 Copynumber: 2.5 Consensus size: 237
100278999 CTTGAGTTTG
* * * * *
100279009 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAGACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
100279074 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAAAATGT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAAAACGT
* * *
100279139 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACCAAATACCAAATCATCTTG
131 CTGAGAGTCAAATCTGCTATGTCATCGATTTGTTCCTTGTAAACACAAAATACCAAATCATCTTG
* *
100279204 GATCTGCTTCAGTATAAATATCTGAAGGTTAGATCTGTTATA
196 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
100279246 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
100279311 CAAATCATCTTGGATTTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAAAACGT
100279376 CTGAGAGTCAAATCTGCTATGTCATCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
131 CTGAGAGTCAAATCTGCTATGTCATCGATTTGTTCCTTGTAAACACAA-AATACCAAATCATCTT
100279441 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
195 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
100279484 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAAAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* **
100279549 CAAATCATCTTGGATCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCTGCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCT
100279600 GTCTTCAATT
Statistics
Matches: 334, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
237 169 0.51
238 165 0.49
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (237 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAAAACGT
CTGAGAGTCAAATCTGCTATGTCATCGATTTGTTCCTTGTAAACACAAAATACCAAATCATCTTG
GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:100304280 original size:24 final size:24
Alignment explanation
Indices: 100304248--100304295 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
100304238 CGCAAGGGTT
100304248 TTTGGACATTAATTTTCACCCTAA
1 TTTGGACATTAATTTTCACCCTAA
100304272 TTTGGACATTAATTTTCACCCTAA
1 TTTGGACATTAATTTTCACCCTAA
100304296 CCCTAATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (24 bp):
TTTGGACATTAATTTTCACCCTAA
Found at i:100309051 original size:121 final size:120
Alignment explanation
Indices: 100308838--100309061 Score: 344
Period size: 121 Copynumber: 1.9 Consensus size: 120
100308828 CAAAATAACA
* * *
100308838 ATGAGAATGAGAATAGTAATGTAATGGGTATGAGGTTTTCCTAATCTCGATTTAACACGGAATGT
1 ATGAGAATAAGAATAGTAATGTAATGGGTATGAGGTTTTCCTAATCTCGATTTAACACGAAATAT
100308903 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGC
66 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGC
* * * *
100308958 ATGAGAATAAGCATAGTAATGTCATGGGTATG-GG-TTTCCTTAATAACTTGATTTAACATGAAA
1 ATGAGAATAAGAATAGTAATGTAATGGGTATGAGGTTTTCC-TAAT--CTCGATTTAACACGAAA
100309021 TATATGATAACTAACCTAAGAATGCAAATTAAATGATAGAC
63 TATATGATAACTAACCTAAGAATGCAAATTAAATGATAGAC
100309062 TAGTGAGCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
118 5 0.05
119 6 0.06
120 29 0.31
121 54 0.57
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.30
Consensus pattern (120 bp):
ATGAGAATAAGAATAGTAATGTAATGGGTATGAGGTTTTCCTAATCTCGATTTAACACGAAATAT
ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGC
Found at i:100319963 original size:17 final size:18
Alignment explanation
Indices: 100319943--100319982 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
100319933 TCATTTGTAC
100319943 TATTTAAACATTC-AAAT
1 TATTTAAACATTCAAAAT
100319960 TATTTAAACATTCAAAAT
1 TATTTAAACATTCAAAAT
100319978 TATTT
1 TATTT
100319983 TCCAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTTAAACATTCAAAAT
Found at i:100320398 original size:33 final size:33
Alignment explanation
Indices: 100320330--100320432 Score: 127
Period size: 34 Copynumber: 3.1 Consensus size: 33
100320320 TAAAAAAAAT
*
100320330 TTAAGGTTTAGAGTTTTAGTAA-AAAGTAATTAAA
1 TTAAGGTTTAGAGTTTTA--AATAAATTAATTAAA
* *
100320364 TTAAGTTTTAGGGTTTTAAATAAATTAATTAAA
1 TTAAGGTTTAGAGTTTTAAATAAATTAATTAAA
* *
100320397 TTATGGTTTAGAGTTTTTAATAAAATTAATTAAA
1 TTAAGGTTTAGAGTTTTAAAT-AAATTAATTAAA
100320431 TT
1 TT
100320433 TTGGTTTATT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
32 2 0.03
33 28 0.47
34 30 0.50
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.45
Consensus pattern (33 bp):
TTAAGGTTTAGAGTTTTAAATAAATTAATTAAA
Found at i:100320438 original size:34 final size:34
Alignment explanation
Indices: 100320334--100320440 Score: 128
Period size: 33 Copynumber: 3.2 Consensus size: 34
100320324 AAAAATTTAA
* * *
100320334 GGTTTAGAG-TTTTAGTAAAAAGTAATTAAATTAA
1 GGTTTAGAGTTTTTAAT-AAAATTAATTAAATTAT
* * *
100320368 GTTTTAGGGTTTTAAAT-AAATTAATTAAATTAT
1 GGTTTAGAGTTTTTAATAAAATTAATTAAATTAT
*
100320401 GGTTTAGAGTTTTTAATAAAATTAATTAAATTTT
1 GGTTTAGAGTTTTTAATAAAATTAATTAAATTAT
100320435 GGTTTA
1 GGTTTA
100320441 TTTAAAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
33 28 0.46
34 28 0.46
35 5 0.08
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (34 bp):
GGTTTAGAGTTTTTAATAAAATTAATTAAATTAT
Found at i:100320444 original size:29 final size:31
Alignment explanation
Indices: 100320350--100320456 Score: 83
Period size: 34 Copynumber: 3.4 Consensus size: 31
100320340 GAGTTTTAGT
* * * *
100320350 AAAAAGTAATTAAATTAAGTTTTAGGGTTTTAA
1 AAAAATTAATTAAATTATGGTTTA--ATTTTAA
*
100320383 ATAAATTAATTAAATTATGGTTTAGAGTTTTTAA
1 AAAAATTAATTAAATTATGGTTTA-A--TTTTAA
* *
100320417 TAAAATTAATTAAATTTTGGTTT-A-TTTAA
1 AAAAATTAATTAAATTATGGTTTAATTTTAA
*
100320446 AAAAACTAATT
1 AAAAATTAATT
100320457 TTTGTGTTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
29 14 0.23
32 2 0.03
33 20 0.32
34 26 0.42
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.44
Consensus pattern (31 bp):
AAAAATTAATTAAATTATGGTTTAATTTTAA
Found at i:100320818 original size:126 final size:124
Alignment explanation
Indices: 100320542--100320933 Score: 518
Period size: 126 Copynumber: 3.1 Consensus size: 124
100320532 ATTTTGTTTT
* *
100320542 TTTTTCTACAGTAGTTTC-AAAAAAATTAATTTTGAGAAGATGGTTCTAAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTTCTAAAAAAA-TAATTTTGAGAAGACGGTTCTAAAAA-ATAGTGTCAAA
** * *
100320606 AATATTTCAAGC-AGAATGTACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACACTC
64 AATGCTTCAAGCAAG-ATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTC
* * *
100320667 CTTTTCTACAGTAGTTCCTTAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAATAGTGTCAAAA
* * * *
100320732 ATGCTTCAAGCAAGATGCGCTGTCAGGAAAATTACTGAAAAAAGCTCCCATGTGGACGCTT
65 ATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTC
* * *
100320793 TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGACAGTTCAAAAAAAATGGTGTCAAAA
1 TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGACGGTTC-TAAAAAATAGTGTCAAAA
* * * * *
100320858 ACGCTTCAAGCAGGATGCATTGTCAGCAAAATTACTAAAAAAACTCTCACGTGGACGCTC
65 ATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTC
*
100320918 TTTTTATACAGTAGTT
1 TTTTTCTACAGTAGTT
100320934 CCTGCTTGGC
Statistics
Matches: 233, Mismatches: 29, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
125 110 0.47
126 123 0.53
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTGTCAAAAA
TGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTC
Found at i:100324657 original size:19 final size:19
Alignment explanation
Indices: 100324633--100324676 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
100324623 ATAAATTTAT
100324633 ATTTTA-AATCTACATA-ATA
1 ATTTTATAATCTA-ATATA-A
100324652 ATTTTATAATCTAATATAA
1 ATTTTATAATCTAATATAA
100324671 ATTTTA
1 ATTTTA
100324677 CCTCGTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTTATAATCTAATATAA
Found at i:100327427 original size:46 final size:45
Alignment explanation
Indices: 100327331--100327461 Score: 156
Period size: 46 Copynumber: 2.8 Consensus size: 45
100327321 AGTGAAAATT
* * *
100327331 TTAAATTTTCAATACTATTCGATATTTTCTTAATTTATGCAAATTTAA
1 TTAAA-TTTCAATACTATTTGAT-TTTT-TTCATTTATGCAAATTCAA
100327379 TTAAATTTGCAATACTATTTGATTTTTTTCATTTATGC-AATTACAA
1 TTAAATTT-CAATACTATTTGATTTTTTTCATTTATGCAAATT-CAA
**
100327425 TTAAAATTTCAATACTGCTTGATTTTTTTCATTTATG
1 TT-AAATTTCAATACTATTTGATTTTTTTCATTTATG
100327462 ATGTTTGCAT
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
45 4 0.05
46 40 0.53
47 13 0.17
48 18 0.24
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (45 bp):
TTAAATTTCAATACTATTTGATTTTTTTCATTTATGCAAATTCAA
Found at i:100333027 original size:46 final size:46
Alignment explanation
Indices: 100332960--100333134 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
100332950 TGTAACCCGC
*
100332960 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGCTCGTAT
*
100333006 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGCTCGTAT
* *** * * * *
100333052 ACATCTCTCGAACTCGGACTTAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGCTCGTAT
*
100333099 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
100333135 ATGCCCAAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 71 0.66
47 34 0.31
48 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGCTCGTAT
Found at i:100333127 original size:93 final size:93
Alignment explanation
Indices: 100332968--100333139 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
100332958 GCCCATAAGT
* * *
100332968 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
100333033 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
100333061 GAACTCGGACTTAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
100333126 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
100333140 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:100333154 original size:46 final size:45
Alignment explanation
Indices: 100333011--100333154 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
100333001 CGTATCCATA
* * *
100333011 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
100333059 --TCGAACTCGGACTTAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
100333104 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
100333150 AGTGA
1 AGTGA
100333155 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
43 4 0.05
46 37 0.49
47 30 0.40
48 4 0.05
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:100335554 original size:30 final size:30
Alignment explanation
Indices: 100335509--100335597 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
100335499 CAAAGATAAC
100335509 AAGAAAACCA-AATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
100335538 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
100335568 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
100335598 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 10 0.20
30 38 0.76
31 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:100335557 original size:15 final size:15
Alignment explanation
Indices: 100335509--100335588 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
100335499 CAAAGATAAC
*
100335509 AAGAAAACCA-AATA
1 AAGAAATCCAGAATA
100335523 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
100335538 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
100335553 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
100335568 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
100335583 AAGAAA
1 AAGAAA
100335589 CCCAAGATAC
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
14 10 0.18
15 45 0.80
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:100335597 original size:15 final size:15
Alignment explanation
Indices: 100335509--100335597 Score: 85
Period size: 15 Copynumber: 6.0 Consensus size: 15
100335499 CAAAGATAAC
*
100335509 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
100335523 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
* *
100335538 GAGAAA-CCCAGAATA
1 AAGAAATCCAAG-ATA
100335553 AAGAAATCC-AGAATA
1 AAGAAATCCAAG-ATA
* *
100335568 AAGAGATCCAGGATA
1 AAGAAATCCAAGATA
*
100335583 AAGAAACCCAAGATA
1 AAGAAATCCAAGATA
100335598 CGATACTATG
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
14 14 0.23
15 45 0.73
16 3 0.05
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:100338630 original size:46 final size:46
Alignment explanation
Indices: 100338508--100338633 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 46
100338498 TGTAACCCGC
* * *
100338508 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGAT
* *** *
100338554 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-AT
100338601 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
100338634 TGGATGCCCA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
46 32 0.48
47 34 0.52
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGAT
Found at i:100338655 original size:46 final size:45
Alignment explanation
Indices: 100338512--100338656 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
100338502 ACCCGCCCAT
* *
100338512 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATC-C
* * *
100338561 ---TCGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCC
1 AAGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC
* *
100338603 ATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCCAAATATCC
1 --AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCC
100338651 AAGTGA
1 AAGTGA
100338657 CATGTCACTT
Statistics
Matches: 78, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
46 38 0.49
47 31 0.40
48 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (45 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC
Found at i:100341972 original size:40 final size:40
Alignment explanation
Indices: 100341928--100342186 Score: 292
Period size: 39 Copynumber: 6.7 Consensus size: 40
100341918 GCTCCTCGTT
* *
100341928 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
100341968 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
100342008 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
100342047 C-AA--CCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
100342083 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
100342122 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
100342163 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
100342187 CATCATTCAA
Statistics
Matches: 196, Mismatches: 12, Indels: 23
0.85 0.05 0.10
Matches are distributed among these distances:
36 34 0.17
37 2 0.01
38 4 0.02
39 83 0.42
40 62 0.32
41 11 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:100342085 original size:75 final size:76
Alignment explanation
Indices: 100341928--100342124 Score: 265
Period size: 75 Copynumber: 2.6 Consensus size: 76
100341918 GCTCCTCGTT
* *
100341928 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATACCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCAC--A-ACCTTCGGGACTTAACCC
*
100341991 GGATTTAGTAACTCGCA
60 GGAATTAGTAACTCGCA
*
100342008 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAACCTTCGGG-CTTAGCCCGGAATT
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAACCTTCGGGACTTAACCCGGAATT
*
100342072 AGTATCTCGCA
66 AGTAACTCGCA
*
100342083 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCACAA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAA
100342125 ATGCCTTCGG
Statistics
Matches: 109, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
75 63 0.58
76 9 0.08
77 1 0.01
78 2 0.02
79 19 0.17
80 15 0.14
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (76 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAACCTTCGGGACTTAACCCGGAATT
AGTAACTCGCA
Found at i:100357745 original size:26 final size:26
Alignment explanation
Indices: 100357684--100357745 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
100357674 GGAATGGGTT
*
100357684 TTTTTTAAA-TTTTTCTCAAAATTTGG
1 TTTTTAAAAGTTTTTCT-AAAATTTGG
*
100357710 TTTTCAAAAGTTTTTCT-AAATCTTGG
1 TTTTTAAAAGTTTTTCTAAAAT-TTGG
*
100357736 TTTTTGAAAG
1 TTTTTAAAAG
100357746 AGACGATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 4 0.13
26 19 0.63
27 7 0.23
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.53
Consensus pattern (26 bp):
TTTTTAAAAGTTTTTCTAAAATTTGG
Found at i:100360545 original size:27 final size:27
Alignment explanation
Indices: 100360511--100360737 Score: 244
Period size: 27 Copynumber: 8.4 Consensus size: 27
100360501 ACCCCAAAAT
* *
100360511 AGGT-AAATGATCATAATGCCCCTATA
1 AGGTAAAATGACCATAATGCCCCTGTA
* *
100360537 AGGTAAAATGATCGTAATGCCCCTGTA
1 AGGTAAAATGACCATAATGCCCCTGTA
* * * *
100360564 GGGTAAAATAACCGTAATGCCCCTAT-
1 AGGTAAAATGACCATAATGCCCCTGTA
*
100360590 AGGATAAAATGACCGTAATGCCCCTGTA
1 AGG-TAAAATGACCATAATGCCCCTGTA
* *
100360618 CGGTAAAATGACCATAATGCCCCTATA
1 AGGTAAAATGACCATAATGCCCCTGTA
* *
100360645 GGGTAAAATTACCATAATGCCCCTGT-
1 AGGTAAAATGACCATAATGCCCCTGTA
100360671 AGCGTAAAATGACCATAATGCCCCTGTA
1 AG-GTAAAATGACCATAATGCCCCTGTA
* * * * *
100360699 GGGTAAAATGATCGTAATACCCTTGTA
1 AGGTAAAATGACCATAATGCCCCTGTA
*
100360726 TGGTAAAATGAC
1 AGGTAAAATGAC
100360738 AATTATGGCC
Statistics
Matches: 172, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.04
27 162 0.94
28 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (27 bp):
AGGTAAAATGACCATAATGCCCCTGTA
Found at i:100360598 original size:54 final size:54
Alignment explanation
Indices: 100360515--100360737 Score: 311
Period size: 54 Copynumber: 4.1 Consensus size: 54
100360505 CAAAATAGGT
* * *
100360515 AAATGATCATAATGCCCCTATAAGGTAAAATGATCGTAATGCCCCTGTAGGGTA
1 AAATGACCATAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGGGTA
* * * *
100360569 AAATAACCGTAATGCCCCTATAGGATAAAATGACCGTAATGCCCCTGTACGGTA
1 AAATGACCATAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGGGTA
* * *
100360623 AAATGACCATAATGCCCCTATAGGGTAAAATTACCATAATGCCCCTGTAGCGTA
1 AAATGACCATAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGGGTA
* * * * *
100360677 AAATGACCATAATGCCCCTGTAGGGTAAAATGATCGTAATACCCTTGTATGGTA
1 AAATGACCATAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGGGTA
100360731 AAATGAC
1 AAATGAC
100360738 AATTATGGCC
Statistics
Matches: 147, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 147 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (54 bp):
AAATGACCATAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGGGTA
Found at i:100360731 original size:81 final size:81
Alignment explanation
Indices: 100360515--100360734 Score: 298
Period size: 81 Copynumber: 2.7 Consensus size: 81
100360505 CAAAATAGGT
* * *
100360515 AAATGATCATAATGCCCCTATAAGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATAACCGTA
1 AAATGACCATAATGCCCCTGTAAGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATAACCATA
100360580 ATGCCCCTATAGGATA
66 ATGCCCCTATAGGATA
* * * * * *
100360596 AAATGACCGTAATGCCCCTGTACGGTAAAATGACCATAATGCCCCTATAGGGTAAAATTACCATA
1 AAATGACCATAATGCCCCTGTAAGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATAACCATA
*
100360661 ATGCCCCTGTAGCG-TA
66 ATGCCCCTATAG-GATA
* * * *
100360677 AAATGACCATAATGCCCCTGTAGGGTAAAATGATCGTAATACCCTTGTATGGTAAAAT
1 AAATGACCATAATGCCCCTGTAAGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAAT
100360735 GACAATTATG
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
81 119 0.99
82 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (81 bp):
AAATGACCATAATGCCCCTGTAAGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATAACCATA
ATGCCCCTATAGGATA
Found at i:100362152 original size:15 final size:15
Alignment explanation
Indices: 100362132--100362165 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
100362122 AAACCTGAGT
100362132 GGCAACATTGCGGTA
1 GGCAACATTGCGGTA
100362147 GGCAACATTGCGGTA
1 GGCAACATTGCGGTA
100362162 GGCA
1 GGCA
100362166 TCATCTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.35, T:0.18
Consensus pattern (15 bp):
GGCAACATTGCGGTA
Found at i:100364663 original size:17 final size:17
Alignment explanation
Indices: 100364641--100364673 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
100364631 GTTTGTATCA
100364641 AAATGTTTAATTTGTTG
1 AAATGTTTAATTTGTTG
100364658 AAATGTTTAATTTGTT
1 AAATGTTTAATTTGTT
100364674 ACCAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (17 bp):
AAATGTTTAATTTGTTG
Found at i:100371078 original size:47 final size:47
Alignment explanation
Indices: 100370830--100371097 Score: 190
Period size: 46 Copynumber: 5.6 Consensus size: 47
100370820 GGTATAATGT
** * * * *
100370830 CGATGCCATGTCCCAGACATGGTCTTACACTGATTATCAAAATTGAGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCCATA-TGTGGC
* * * *
100370879 TGACGCCATGTCCCATGACATGGTCTTACACTAGCTCTCCCATATCTGTGC
1 CGATG-CATGTCCCA-GACATGGTCTTACACTGGCTCT-CCATATGTG-GC
* * * * * *
100370930 CGATGCCATGTCCCAGACATGGTCCTACATTGACACAT-C-T-CGTAGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTC-TCCATATGTGGC
* * * *
100370976 CGATGCATGTTCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCCATAT-GTGGC
100371022 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCCAT-ATGTGGC
* * *
100371069 CAATACATGTCCCAGAC-TTGTCTTACACT
1 CGATGCATGTCCCAGACATGGTCTTACACT
100371098 AGCACACAGA
Statistics
Matches: 174, Mismatches: 34, Indels: 25
0.75 0.15 0.11
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 11 0.06
45 13 0.07
46 39 0.22
47 37 0.21
48 3 0.02
49 14 0.08
50 36 0.21
51 19 0.11
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCCATATGTGGC
Found at i:100376750 original size:74 final size:76
Alignment explanation
Indices: 100376637--100376790 Score: 208
Period size: 74 Copynumber: 2.1 Consensus size: 76
100376627 GCTGAGATTG
*
100376637 TATCCGGGCTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAAT-CCGC-AGGCTA
1 TATCCGGGCTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATGCCGCAAGCCTA
100376700 GTGCTGGTAATA
66 GTGCTGGT-ATA
* * * * *
100376712 TATCCGGGTTAAA-TCCCGCAGGCT-TCGTGCTGGTATTATATCTGGGTTAAATGCCGCAAGCCT
1 TATCCGGGCTAAAGACCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATGCCGCAAGCCT
100376775 AGTGCTGGTATA
65 AGTGCTGGTATA
100376787 TATC
1 TATC
100376791 TGAGTTTAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
73 1 0.01
74 33 0.47
75 23 0.33
76 13 0.19
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (76 bp):
TATCCGGGCTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATGCCGCAAGCCTA
GTGCTGGTATA
Found at i:100376752 original size:38 final size:38
Alignment explanation
Indices: 100376637--100376790 Score: 181
Period size: 38 Copynumber: 4.1 Consensus size: 38
100376627 GCTGAGATTG
* * *
100376637 TATCCGGGCTAAAGACCCGCAGGCTATA-TGCTGGAATTA
1 TATCCGGGTTAAA-TCCCGCAGGCT-TAGTGCTGGTATTA
*
100376676 TATCCGGGTTAAAT-CCGCAGGC-TAGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
*
100376712 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
* * * *
100376750 TATCTGGGTTAAATGCCGCAAGCCTAGTGCTGGTA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
100376787 TATC
1 TATC
100376791 TGAGTTTAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
35 2 0.02
36 23 0.23
37 22 0.22
38 42 0.42
39 12 0.12
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
Found at i:100397303 original size:23 final size:23
Alignment explanation
Indices: 100397273--100397318 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
100397263 CGCAAGGGTT
100397273 TTTGGACATTAATTTCACCCTAA
1 TTTGGACATTAATTTCACCCTAA
100397296 TTTGGACATTAATTTCACCCTAA
1 TTTGGACATTAATTTCACCCTAA
100397319 CCCTAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (23 bp):
TTTGGACATTAATTTCACCCTAA
Found at i:100402036 original size:122 final size:120
Alignment explanation
Indices: 100401821--100402045 Score: 344
Period size: 122 Copynumber: 1.9 Consensus size: 120
100401811 CAAAATAACA
* * * *
100401821 ATGAGAATGAGAATAGTAATGTAATGGGTATGAGGTTTTCCTAATCTCGATTTAACACGGAATGT
1 ATGAGAATAAGAATAGTAATGTAATGGGTATGAGGGTTTCCTAATCTCGATTTAACACGAAATAT
100401886 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGC
66 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGC
* * * *
100401941 ATGAGAATAAGCATAGTAATGTCATGGGTATG-GGGTTTCCTTAATAACTTGATTTAACATGAAA
1 ATGAGAATAAGAATAGTAATGTAATGGGTATGAGGGTTTCC-TAAT--CTCGATTTAACACGAAA
100402005 TATATGATAACTAACCTAAGAATGCAAATTAAATGATAGAC
63 TATATGATAACTAACCTAAGAATGCAAATTAAATGATAGAC
100402046 TAGTGAGCAA
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
119 7 0.07
120 33 0.35
122 54 0.57
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.30
Consensus pattern (120 bp):
ATGAGAATAAGAATAGTAATGTAATGGGTATGAGGGTTTCCTAATCTCGATTTAACACGAAATAT
ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGC
Found at i:100412941 original size:17 final size:18
Alignment explanation
Indices: 100412921--100412960 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
100412911 TCATTTGTAC
100412921 TATTTAAACATTC-AAAT
1 TATTTAAACATTCAAAAT
100412938 TATTTAAACATTCAAAAT
1 TATTTAAACATTCAAAAT
100412956 TATTT
1 TATTT
100412961 TCCAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTTAAACATTCAAAAT
Found at i:100413401 original size:34 final size:34
Alignment explanation
Indices: 100413311--100413418 Score: 130
Period size: 33 Copynumber: 3.2 Consensus size: 34
100413301 AAAAATTTAA
* *
100413311 GGTTTAGAGTTTTAGTAA-AAAAGTAATTAAATTAA
1 GGTTTAGAGTTTT--TAATAAAATTAATTAAATTAT
* * *
100413346 GTTTTAGGGTTTTAAAT-AAATTAATTAAATTAT
1 GGTTTAGAGTTTTTAATAAAATTAATTAAATTAT
*
100413379 GGTTTAGAGTTTTTAATAAAATTAATTAAATTTT
1 GGTTTAGAGTTTTTAATAAAATTAATTAAATTAT
100413413 GGTTTA
1 GGTTTA
100413419 TTTAAAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
33 30 0.48
34 21 0.34
35 11 0.18
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (34 bp):
GGTTTAGAGTTTTTAATAAAATTAATTAAATTAT
Found at i:100413422 original size:29 final size:31
Alignment explanation
Indices: 100413327--100413434 Score: 85
Period size: 34 Copynumber: 3.4 Consensus size: 31
100413317 GAGTTTTAGT
* * * *
100413327 AAAAAAGTAATTAAATTAAGTTTTAGGGTTTTA
1 AAAAAATTAATTAAATTATGGTTTA--ATTTTA
*
100413360 AATAAATTAATTAAATTATGGTTTAGAGTTTTTA
1 AAAAAATTAATTAAATTATGGTTTA-A--TTTTA
* *
100413394 ATAAAATTAATTAAATTTTGGTTT-A-TTTA
1 AAAAAATTAATTAAATTATGGTTTAATTTTA
*
100413423 AAAAAACTAATT
1 AAAAAATTAATT
100413435 TTTGTGTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
29 14 0.22
32 2 0.03
33 21 0.33
34 26 0.41
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.44
Consensus pattern (31 bp):
AAAAAATTAATTAAATTATGGTTTAATTTTA
Found at i:100413796 original size:126 final size:124
Alignment explanation
Indices: 100413520--100413911 Score: 518
Period size: 126 Copynumber: 3.1 Consensus size: 124
100413510 ATTTTGTTTT
* *
100413520 TTTTTCTACAGTAGTTTC-AAAAAAATTAATTTTGAGAAGATGGTTCTAAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTTCTAAAAAAA-TAATTTTGAGAAGACGGTTCTAAAAA-ATAGTGTCAAA
** * *
100413584 AATATTTCAAGC-AGAATGTACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACACTC
64 AATGCTTCAAGCAAG-ATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTC
* * *
100413645 CTTTTCTACAGTAGTTCCTTAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAATAGTGTCAAAA
* * * *
100413710 ATGCTTCAAGCAAGATGCGCTGTCAGGAAAATTACTGAAAAAAGCTCCCATGTGGACGCTT
65 ATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCACGTGGACGCTC
* * *
100413771 TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGACAGTTCAAAAAAAATGGTGTCAAAA
1 TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGACGGTTC-TAAAAAATAGTGTCAAAA
* * * * *
100413836 ACGCTTCAAGCAGGATGCATTGTCAGCAAAATTACTAAAAAAACTCTCACGTGGACGCTC
65 ATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTC
*
100413896 TTTTTATACAGTAGTT
1 TTTTTCTACAGTAGTT
100413912 CCTGCTTGGC
Statistics
Matches: 233, Mismatches: 29, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
125 110 0.47
126 123 0.53
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTGTCAAAAA
TGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTAAAAAAGCTCCCACGTGGACGCTC
Found at i:100417641 original size:19 final size:19
Alignment explanation
Indices: 100417617--100417660 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
100417607 ATAAATTTAT
100417617 ATTTTA-AATCTACATA-ATA
1 ATTTTATAATCTA-ATATA-A
100417636 ATTTTATAATCTAATATAA
1 ATTTTATAATCTAATATAA
100417655 ATTTTA
1 ATTTTA
100417661 CCTCGTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTTATAATCTAATATAA
Found at i:100418321 original size:24 final size:24
Alignment explanation
Indices: 100418294--100418344 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
100418284 GCTGTTATAA
* *
100418294 AAAATTATA-AAATAAAAATTAATT
1 AAAATTACATAAATAAAAAAT-ATT
100418318 AAAATTACATAAATAAAAAATATT
1 AAAATTACATAAATAAAAAATATT
100418342 AAA
1 AAA
100418345 TAATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATTACATAAATAAAAAATATT
Found at i:100418321 original size:25 final size:25
Alignment explanation
Indices: 100418293--100418344 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
100418283 AGCTGTTATA
* *
100418293 AAAAATTATA-AAATAAAAATTAATT
1 AAAAATTACATAAATAAAAAAT-ATT
100418318 -AAAATTACATAAATAAAAAATATT
1 AAAAATTACATAAATAAAAAATATT
100418342 AAA
1 AAA
100418345 TAATATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAAATTACATAAATAAAAAATATT
Done.