Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007925.1 Hibiscus syriacus cultivar Beakdansim tig00110331_pilon, whole genome shotgun sequence
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: 1316088
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:384077 original size:63 final size:63
Alignment explanation
Indices: 383981--384171 Score: 339
Period size: 63 Copynumber: 3.0 Consensus size: 63
383971 GTTCAATGTC
*
383981 ACAACCAACTTATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
1 ACAACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
* *
384044 ACAACCAACTGATCACTTCACATTTATTTAATTTTTCCATAACATTTTATCCAATTTATTCAA
1 ACAACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
384107 ACAA-CAACCTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
1 ACAACCAA-CTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
384170 AC
1 AC
384172 TTCACATAAC
Statistics
Matches: 122, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
62 3 0.02
63 119 0.98
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.39
Consensus pattern (63 bp):
ACAACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
Found at i:384549 original size:138 final size:138
Alignment explanation
Indices: 384301--385097 Score: 1188
Period size: 138 Copynumber: 5.7 Consensus size: 138
384291 CCATCCATCT
384301 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *** *
384366 GGAAGGTGTGCCCCCGGGAACGTAATTTAACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
66 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
384431 TGACATGA
131 TGACATGA
* *
384439 ATAGTTTCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
384504 GGAAGGCGCGCCCTCGGGAACGCGCTTTCACCACTTTGTCAAGT-CCCTCAGAAATAATAGGTAC
66 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
384568 TGACATGA
131 TGACATGA
* *
384576 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGACAATGATAATATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * * * *
384641 GGAAGGAGCGCCCCCGGGAATGCGCTTTCACTACTTTGCCAAATCCTCTTAGAAATAATAGGTAC
66 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
*
384706 TAACATGA
131 TGACATGA
* *
384714 ATAGTTCCTCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTTTATTCTTTGACAAA
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAAC--A---TATTCTCTGACAAA
* * * * *
384779 GTAATCGAAGGCGCACCCCTGGGAACGCACTTTCACCACTTTGCCAAGTCCCCTCA-AACATAAT
61 ATAATGGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAA-ATAAT
384843 AGGTACTGACATGA
125 AGGTACTGACATGA
* *
384857 ATAGTTTCTCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAA-
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
** *
384921 GGAAGGCGCGCCCGTGGGAACGCGCTTTCACCACTTTGCCAAGTCTCCTCA-AACATAATAGGTA
66 GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAA-ATAATAGGTA
384985 CTGACATGA
130 CTGACATGA
*
384994 ATAGTTCCCCTGGGGGACATGAGTGACATAATAGGGCAATGATAGCATATTCTCTGACAAAATAA
1 ATAGTTCCCC-GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAA
* *
385059 TCGAAGGCGCGCCCCCGGGAATGCGCTTTCACCACTTTG
65 TGGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTG
385098 GGTACTGACA
Statistics
Matches: 596, Mismatches: 54, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
137 203 0.34
138 235 0.39
139 34 0.06
140 1 0.00
141 1 0.00
142 2 0.00
143 120 0.20
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (138 bp):
ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCCGGGAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAGAAATAATAGGTAC
TGACATGA
Found at i:390583 original size:55 final size:55
Alignment explanation
Indices: 390516--391083 Score: 852
Period size: 55 Copynumber: 10.3 Consensus size: 55
390506 TTCATTAAGC
* * * * * ** *
390516 TGCACACTTAGTGCCTATACAG-TAGTTCATTAACTTATGATGAATTATGTGGGTT
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATT
*
390571 TGCACACATAGTGTCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
390626 TGTACACATAGTGCATGTAC-GTTATTCATCAACTCATGATGAATTCCGTGAATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * **
390680 TGTACACATATTGAATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
**
390735 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTATGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
*
390790 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
*
390845 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * *
390900 TGCATACATAGTGCATGTACGGTTATTCATCAACTCATGACGAATTCTGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
390955 TGTACACATAGTGTCTGTACGGTTATTCATCAGCTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* *
391010 TGCACACATAGTGTCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
391065 TGCACACATAGTGCCTGTA
1 TGCACACATAGTGCCTGTA
391084 GTACACATAA
Statistics
Matches: 472, Mismatches: 39, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
54 51 0.11
55 419 0.89
56 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (55 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
Found at i:394045 original size:15 final size:14
Alignment explanation
Indices: 394025--394062 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
394015 AAATATGGAT
394025 TGATTTATTTTAAAA
1 TGATTTATTTT-AAA
394040 TGATTTATTTTAAA
1 TGATTTATTTTAAA
*
394054 TAATTTATT
1 TGATTTATT
394063 AGTATGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (14 bp):
TGATTTATTTTAAA
Found at i:394090 original size:22 final size:22
Alignment explanation
Indices: 394065--394107 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
394055 AATTTATTAG
*
394065 TATGAATTGATTTGTTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
394087 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
394108 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:394167 original size:31 final size:31
Alignment explanation
Indices: 394132--394190 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
394122 AGTTGTATGG
* *
394132 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
394163 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
394191 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:396583 original size:16 final size:15
Alignment explanation
Indices: 396559--396601 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
396549 CCTCTCTGAT
396559 TTGGCATTTGTTAATG
1 TTGG-ATTTGTTAATG
* *
396575 TTGGTATTTTTTTATG
1 TTGG-ATTTGTTAATG
396591 TTGGATTTGTT
1 TTGGATTTGTT
396602 GGCATTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.14, C:0.02, G:0.23, T:0.60
Consensus pattern (15 bp):
TTGGATTTGTTAATG
Found at i:401309 original size:76 final size:76
Alignment explanation
Indices: 401183--402213 Score: 1881
Period size: 76 Copynumber: 13.6 Consensus size: 76
401173 GGTCTTATGA
* *
401183 ATGACCCCG-AGGGTTTAAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 ATGA-CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
*
401247 CAGGACTTACAG
65 AAGGACTTACAG
* *
401259 ATGACCCTG-AGGATTTGAAATCATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 ATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
401323 AAGGACTTACAG
65 AAGGACTTACAG
401335 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
401400 AGGACTTACAG
66 AGGACTTACAG
* *
401411 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTTCTGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
401476 AGGACTTACAG
66 AGGACTTACAG
* *
401487 ATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
401552 AGGACTTACAG
66 AGGACTTACAG
*
401563 ATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
401628 AGGACTTACAG
66 AGGACTTACAG
* *
401639 ATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCGTGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
401704 AGGACTTACAG
66 AGGACTTACAG
401715 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
401780 AGGACTTACAG
66 AGGACTTACAG
*
401791 ATGACCCAAAGGCTTTG-AAACATCAAAAAGCT-CCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
401854 AGGACTTATAG
66 AGGACTTACAG
401865 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
401930 AGGACTTACAG
66 AGGACTTACAG
*
401941 ATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
402006 AGGACTTACAG
66 AGGACTTACAG
402017 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
402082 AGGACTTACAG
66 AGGACTTACAG
402093 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
402158 AGGACTTACAG
66 AGGACTTACAG
402169 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTT
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTT
402214 GAAAACATCA
Statistics
Matches: 931, Mismatches: 20, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
74 57 0.06
75 34 0.04
76 840 0.90
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (76 bp):
ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGACTTACAG
Found at i:402206 original size:29 final size:29
Alignment explanation
Indices: 402173--402242 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
402163 TTACAGATGA
402173 CCCGAAGGCTTTGAAAACATCAAAAAGCT
1 CCCGAAGGCTTTGAAAACATCAAAAAGCT
402202 CCCGAAGGCTTTGAAAACATCAAAAAGCT
1 CCCGAAGGCTTTGAAAACATCAAAAAGCT
*
402231 CCCAAAGGCTTT
1 CCCGAAGGCTTT
402243 TTGGAAACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.19
Consensus pattern (29 bp):
CCCGAAGGCTTTGAAAACATCAAAAAGCT
Found at i:402215 original size:181 final size:181
Alignment explanation
Indices: 402021--402394 Score: 730
Period size: 181 Copynumber: 2.1 Consensus size: 181
402011 TTACAGATGA
*
402021 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGA
1 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGA
*
402086 CTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
66 CTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
402151 GCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
131 GCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
402202 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGA
1 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGA
402267 CTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
66 CTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
402332 GCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
131 GCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
402383 CCCGAAGGCTTT
1 CCCGAAGGCTTT
402395 TTGGAAACAT
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 191 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (181 bp):
CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGA
CTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAT
GCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
Found at i:402217 original size:105 final size:105
Alignment explanation
Indices: 402097--402318 Score: 426
Period size: 105 Copynumber: 2.1 Consensus size: 105
402087 TTACAGATGA
*
402097 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGA
1 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGA
*
402162 CTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
66 CTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCT
402202 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGA
1 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGA
402267 CTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCT
66 CTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCT
402307 CCCGAAGGCTTT
1 CCCGAAGGCTTT
402319 TTGGAAACAT
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 115 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (105 bp):
CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGA
CTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCT
Found at i:402531 original size:76 final size:76
Alignment explanation
Indices: 402202--402504 Score: 570
Period size: 76 Copynumber: 4.0 Consensus size: 76
402192 TCAAAAAGCT
*
402202 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGA
1 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGA
402267 CTTACAGATGA
66 CTTACAGATGA
*
402278 CCCAAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGA
1 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGA
402343 CTTACAGATGA
66 CTTACAGATGA
402354 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGA
1 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGA
*
402419 CTTATAGATGA
66 CTTACAGATGA
*
402430 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAGAAACATCATGCACTGAAGGA
1 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGA
402495 CTTACAGATG
66 CTTACAGATG
402505 TGAGAAATAG
Statistics
Matches: 221, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 221 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (76 bp):
CCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGA
CTTACAGATGA
Found at i:403208 original size:22 final size:22
Alignment explanation
Indices: 403180--403259 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
403170 CATAAAGCTT
*
403180 TCATCTTTTAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
* * *
403202 TCATCTTTAAAAAGAAAATTTG
1 TCATCTTTAAAAAGAGAATCTA
* * **
403224 TCATCTCTGAAGTGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
*
403246 TTATCTTTAAAAAG
1 TCATCTTTAAAAAG
403260 TGTAGATGTA
Statistics
Matches: 42, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:403769 original size:54 final size:55
Alignment explanation
Indices: 403623--403783 Score: 216
Period size: 59 Copynumber: 2.9 Consensus size: 55
403613 ATAATCACTG
* * * *
403623 GTTCGTAAAACATTTGACAATACATTCATCTTTTCCTGTGGTTTCTGCTCGGATT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATT
* * *
403678 ATTGGTCAAGGAAGCATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGTTCAGA-T
1 GTTCGT-AA--AA-CATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATT
403736 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
403784 CAAGATTTCT
Statistics
Matches: 92, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
54 37 0.40
55 6 0.07
56 2 0.02
57 2 0.02
58 7 0.08
59 38 0.41
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (55 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATT
Found at i:406064 original size:115 final size:115
Alignment explanation
Indices: 405862--406088 Score: 364
Period size: 115 Copynumber: 2.0 Consensus size: 115
405852 GATCATGCAG
* * * * *
405862 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTAACGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATCGATTCTGGAGTTCATAACAAATCAGATCAGATAACTCAAAGA
*
405927 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAAA
66 ACACTTCCAGAAGATACTATTGGGTCTCCTTATTTCTACTATGAGCAAAA
* * * *
405977 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAATTCAAAGA
1 TTCATCTTTCAAATCCAATGATCGATTCTGGAGTTCATAACAAATCAGATCAGATAACTCAAAGA
406042 ACACTTCCAGAAGATACTATTGGGTCTCCTTATTTCTACTATGAGCA
66 ACACTTCCAGAAGATACTATTGGGTCTCCTTATTTCTACTATGAGCA
406089 CATGGCACTT
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
115 102 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATCGATTCTGGAGTTCATAACAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATACTATTGGGTCTCCTTATTTCTACTATGAGCAAAA
Found at i:415103 original size:13 final size:13
Alignment explanation
Indices: 415085--415131 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
415075 TATATATATT
415085 TAATAATAAATAA
1 TAATAATAAATAA
415098 TAATAAT-AAT-A
1 TAATAATAAATAA
*
415109 TATTATATAAATAA
1 TAATA-ATAAATAA
*
415123 TAATTATAA
1 TAATAATAA
415132 TTATTATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 5 0.18
12 5 0.18
13 14 0.50
14 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATAATAAATAA
Found at i:415118 original size:28 final size:29
Alignment explanation
Indices: 415078--415141 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
415068 ATATATATAT
415078 ATATATT-TAAT-AATAAATAATAATAATA
1 ATATATTATAATAAAT-AATAATAATAATA
* *
415106 ATATATTAT-ATAAATAATAATTATAATT
1 ATATATTATAATAAATAATAATAATAATA
415134 AT-TATTAT
1 ATATATTAT
415142 GAAAAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 6 0.19
28 22 0.69
29 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
ATATATTATAATAAATAATAATAATAATA
Found at i:415124 original size:25 final size:24
Alignment explanation
Indices: 415090--415138 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
415080 ATATTTAATA
415090 ATAAATAATAATAATAATATATTAT
1 ATAAATAATAATAATAAT-TATTAT
*
415115 ATAAATAATAATTATAATTATTAT
1 ATAAATAATAATAATAATTATTAT
415139 TATGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATAAATAATAATAATAATTATTAT
Found at i:415298 original size:68 final size:67
Alignment explanation
Indices: 415213--415444 Score: 186
Period size: 68 Copynumber: 3.4 Consensus size: 67
415203 ATATATTTAG
*
415213 GTGCTCCCGTGCGAGTCACTCTAATCCTTTAGGGATCCCTTACGAGTCACTCGAAATAATATGAT
1 GTGCTCCCGTGCGAGTCACTCTAATCCTTTAGGGCTCCCTTACGAGTCAC-CGAAATAATATGAT
415278 TAA
65 TAA
* * ** * *
415281 GTGCTCCCGTGTGAGTCATTCTAATCCTTCGGGGCTCTC-GA-GTAAGTCACCCGAAATAATATG
1 GTGCTCCCGTGCGAGTCACTCTAATCCTTTAGGGCTCCCTTACG--AGTCA-CCGAAATAATATG
*
415344 ATTAT
63 ATTAA
* * * * * **
415349 GTGTTCCCGAT-CAAGTCACTCTAATCC-TTCGGGCT-CCTATGCGAGTCACCCAGAATAATAAA
1 GTGCTCCCG-TGCGAGTCACTCTAATCCTTTAGGGCTCCCT-TACGAGTCACCGA-AATAATATG
* *
415411 AGTAG
63 ATTAA
* * *
415416 GTGCTTCCATGTGAGTCACTCTAATCCTT
1 GTGCTCCCGTGCGAGTCACTCTAATCCTT
415445 CGTAGAATCT
Statistics
Matches: 127, Mismatches: 27, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
66 6 0.05
67 42 0.33
68 76 0.60
69 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (67 bp):
GTGCTCCCGTGCGAGTCACTCTAATCCTTTAGGGCTCCCTTACGAGTCACCGAAATAATATGATT
AA
Found at i:415489 original size:19 final size:19
Alignment explanation
Indices: 415467--415577 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 19
415457 TTTTCAATTC
415467 CAAAATCAGGTTTCCAACT
1 CAAAATCAGGTTTCCAACT
415486 CAAAATCAGGTTTCCAAC-
1 CAAAATCAGGTTTCCAACT
415504 CTAAAATC--GTATCTCCAAC-
1 C-AAAATCAGGT-T-TCCAACT
* * *
415523 CTAAAA-CATGTTTTCGAAAAT
1 C-AAAATCA-GGTTTC-CAACT
415544 -AAAATCAGGTTTCCAACT
1 CAAAATCAGGTTTCCAACT
*
415562 CAAAATCAGGCTTCCA
1 CAAAATCAGGTTTCCA
415578 CGTTAATCAC
Statistics
Matches: 75, Mismatches: 7, Indels: 20
0.74 0.07 0.20
Matches are distributed among these distances:
17 2 0.03
18 6 0.08
19 61 0.81
20 5 0.07
21 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.26
Consensus pattern (19 bp):
CAAAATCAGGTTTCCAACT
Found at i:415510 original size:38 final size:38
Alignment explanation
Indices: 415468--415577 Score: 111
Period size: 38 Copynumber: 2.9 Consensus size: 38
415458 TTTCAATTCC
**
415468 AAAATCAGGTTTCCAACTCAAAATCAGGTTTCCAACCT
1 AAAATCAGGTTTCCAACTCAAAATCAGGTTTCCAAAAT
* *
415506 AAAATC--GTATCTCCAAC-CTAAAA-CATGTTTTCGAAAAT
1 AAAATCAGGT-T-TCCAACTC-AAAATCA-GGTTTCCAAAAT
*
415544 AAAATCAGGTTTCCAACTCAAAATCAGGCTTCCA
1 AAAATCAGGTTTCCAACTCAAAATCAGGTTTCCA
415578 CGTTAATCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
36 2 0.04
37 4 0.07
38 45 0.79
39 4 0.07
40 2 0.04
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.26
Consensus pattern (38 bp):
AAAATCAGGTTTCCAACTCAAAATCAGGTTTCCAAAAT
Found at i:417098 original size:15 final size:15
Alignment explanation
Indices: 417059--417104 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
417049 GGTCCATTAC
*
417059 ATTTACATTTTAATT
1 ATTTACATTTTATTT
*
417074 A-TTATTATTTTATTT
1 ATTTA-CATTTTATTT
417089 ATTTACA-TTTATTT
1 ATTTACATTTTATTT
417103 AT
1 AT
417105 ACGCATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 12 0.46
15 11 0.42
16 3 0.12
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTACATTTTATTT
Found at i:417327 original size:8 final size:8
Alignment explanation
Indices: 417283--417392 Score: 62
Period size: 8 Copynumber: 13.4 Consensus size: 8
417273 ATATATTTAC
417283 TATTTTTT
1 TATTTTTT
417291 TATGTTTTT
1 TAT-TTTTT
* * *
417300 AATTATTA
1 TATTTTTT
* * *
417308 TATGTATA
1 TATTTTTT
417316 TATTTTTT
1 TATTTTTT
417324 TATTTTTT
1 TATTTTTT
417332 TATTATTGTTT
1 TA-T-TT-TTT
* *
417343 TATTTATA
1 TATTTTTT
417351 TATTTTTT
1 TATTTTTT
*
417359 TCTTCTTTT
1 TATT-TTTT
* *
417368 T-CTTTAT
1 TATTTTTT
417375 T-TTTTTT
1 TATTTTTT
417382 TATTTTTT
1 TATTTTTT
417390 TAT
1 TAT
417393 ATATTTTACT
Statistics
Matches: 77, Mismatches: 19, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
7 9 0.12
8 45 0.58
9 15 0.19
10 3 0.04
11 5 0.06
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (8 bp):
TATTTTTT
Found at i:417346 original size:40 final size:42
Alignment explanation
Indices: 417243--417351 Score: 102
Period size: 41 Copynumber: 2.6 Consensus size: 42
417233 ATATATGCTA
*
417243 TTTTTTATTATATGTTTTATTA-ATTTATAGATATATTTACTAT
1 TTTTTTATTAT-TGTTTTATTATATGTATA-ATATATTTACTAT
**
417286 TTTTTTATGT-TT-TTAATTATTATATGTAT-ATAT-TTTTTTAT
1 TTTTTTAT-TATTGTT--TTATTATATGTATAATATATTTACTAT
417327 TTTTTTATTATTGTTTTATTTATAT
1 TTTTTTATTATTGTTTTA-TTATAT
417352 ATTTTTTTCT
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
40 4 0.07
41 24 0.43
42 7 0.12
43 15 0.27
44 6 0.11
ACGTcount: A:0.26, C:0.01, G:0.05, T:0.69
Consensus pattern (42 bp):
TTTTTTATTATTGTTTTATTATATGTATAATATATTTACTAT
Found at i:417351 original size:35 final size:34
Alignment explanation
Indices: 417283--417384 Score: 102
Period size: 35 Copynumber: 3.0 Consensus size: 34
417273 ATATATTTAC
* * *
417283 TATTTTTTTATGTTTTTA--ATTATTATATGTATA
1 TATTTTTTTATTTTTTTATTATT-TTTTATTTATA
417316 TATTTTTTTATTTTTTTATTATTGTTTTATTTATA
1 TATTTTTTTATTTTTTTATTATT-TTTTATTTATA
* *
417351 TATTTTTTTCTTCTTTTTCTTTATTTTTT-TTTAT
1 TATTTTTTTATT-TTTTT-ATTATTTTTTATTTAT
417385 TTTTTTATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
33 17 0.29
35 28 0.47
36 9 0.15
37 5 0.08
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (34 bp):
TATTTTTTTATTTTTTTATTATTTTTTATTTATA
Found at i:420518 original size:14 final size:15
Alignment explanation
Indices: 420495--420531 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
420485 AGATCCAATC
420495 AAGAAC-AAAAAGAG
1 AAGAACAAAAAAGAG
*
420509 AAGAAGAAAAAAGAG
1 AAGAACAAAAAAGAG
420524 AA-AACAAA
1 AAGAACAAA
420532 TAAAAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (15 bp):
AAGAACAAAAAAGAG
Found at i:421681 original size:31 final size:32
Alignment explanation
Indices: 421582--421679 Score: 151
Period size: 32 Copynumber: 3.1 Consensus size: 32
421572 GGAACGTTGA
* *
421582 GGGCATATTTGAAGATTCAACATCAAATGTTG
1 GGGCATTTTTGAAGATTCAACATCAAATATTG
* *
421614 GGGCAATTTTGAAGATTCAACATCAAATTTTG
1 GGGCATTTTTGAAGATTCAACATCAAATATTG
*
421646 GGGCATTTTTGGAGATTCAACATCAAATATTG
1 GGGCATTTTTGAAGATTCAACATCAAATATTG
421678 GG
1 GG
421680 CACCTTTGGG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (32 bp):
GGGCATTTTTGAAGATTCAACATCAAATATTG
Found at i:421694 original size:31 final size:32
Alignment explanation
Indices: 421589--421700 Score: 145
Period size: 32 Copynumber: 3.5 Consensus size: 32
421579 TGAGGGCATA
* *
421589 TTTGAAGATTCAACATCAAATGTTGGGGCAAT
1 TTTGGAGATTCAACATCAAATATTGGGGCAAT
* * *
421621 TTTGAAGATTCAACATCAAATTTTGGGGCATT
1 TTTGGAGATTCAACATCAAATATTGGGGCAAT
**
421653 TTTGGAGATTCAACATCAAATATT-GGGCACC
1 TTTGGAGATTCAACATCAAATATTGGGGCAAT
*
421684 TTTGGGGATTCAACATC
1 TTTGGAGATTCAACATC
421701 CTGATGCAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 21 0.29
32 52 0.71
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (32 bp):
TTTGGAGATTCAACATCAAATATTGGGGCAAT
Found at i:422128 original size:110 final size:110
Alignment explanation
Indices: 421935--422394 Score: 812
Period size: 110 Copynumber: 4.2 Consensus size: 110
421925 GATGGTGGTT
*
421935 GCTCAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
422000 AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
66 AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
*
422045 GCTCAACTTCACAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
422110 AATTTCAATTTCACAACGAAGGATATTGGACTTGAGACAACACAA
66 AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
422155 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* * *
422220 AATTTCAACTTCACAGCGAAAGATATTGGACTCTAGACAACACAA
66 AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
* *
422265 GCTCAACTTCACAGTGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTT
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* * *
422330 AATTTTAACTTCACAACGAAGAATATTGGACTCGAGACAACGCAA
66 AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
422375 GCTCAACTTCACAGCGAAGG
1 GCTCAACTTCACAGCGAAGG
422395 ATATTGGACT
Statistics
Matches: 331, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 331 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (110 bp):
GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
AATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAA
Found at i:422399 original size:43 final size:43
Alignment explanation
Indices: 422336--422437 Score: 168
Period size: 43 Copynumber: 2.4 Consensus size: 43
422326 AGTTAATTTT
* * *
422336 AACTTCACAACGAAGAATATTGGACTCGAGACAACGCAAGCTC
1 AACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTC
422379 AACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTC
1 AACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTC
*
422422 AACTTCACAGCAAAGG
1 AACTTCACAGCGAAGG
422438 GGCGACTGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (43 bp):
AACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTC
Found at i:422417 original size:153 final size:153
Alignment explanation
Indices: 422224--422547 Score: 495
Period size: 153 Copynumber: 2.1 Consensus size: 153
422214 AGAGTCAATT
* * **
422224 TCAACTTCACAGCGAAAGATATTGGACTCTAGACAACACAAGCTCAACTTCACAGTGAAGGGGCG
1 TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCAAAGGGGCG
* *
422289 ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTTAATTTTAACTTCACAACGAAGAAT
66 ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGAAT
*
422354 ATTGGACTCGAGACAACGCAAGC
131 ATTGGACTCGAGACAACACAAGC
422377 TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCAAAGGGGCG
1 TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCAAAGGGGCG
* *** * * * * *
422442 ACTGATTGTTTTCAAATAACTTTTCAGTTTTATTTAGAGTCAATTTCAACTTCACAGCGAAGGAT
66 ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGAAT
*
422507 ATTGGACTCGAGACGACACAAGC
131 ATTGGACTCGAGACAACACAAGC
422530 TCAACTTCACAGCGAAGG
1 TCAACTTCACAGCGAAGG
422548 GGCGGCTGGC
Statistics
Matches: 154, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
153 154 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (153 bp):
TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCAAAGGGGCG
ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGAAT
ATTGGACTCGAGACAACACAAGC
Found at i:422483 original size:263 final size:259
Alignment explanation
Indices: 422114--422629 Score: 762
Period size: 263 Copynumber: 2.0 Consensus size: 259
422104 AGAGTCAATT
* * *
422114 TCAATTTCACAACGAAGGATATTGGACTTGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCG
1 TCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCAAAGGGGCG
422179 ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGAT
66 ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGAT
* * *
422244 ATTGGACTCTAGACAACACAAGCTCAACTTCACAGTGAAGGGGCGACTGACTGTCAACAAACAAC
131 ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAAA
* * * *
422309 TTTTCAGTTTCATTCAGAGTTAATTTTAACTTCACAACGAAGAATATTGGACTCGAGACAACGCA
196 TTTCCAG--T--TTCAGAGTCAATTTCAACTTCACAACGAAGAATATTGGACTCGAAACAACGCA
422374 AGC
257 AGC
*
422377 TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCAAAGGGGCG
1 TCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCAAAGGGGCG
* *** * * * *
422442 ACTGATTGTTTTCAAATAACTTTTCAGTTTTATTTAGAGTCAATTTCAACTTCACAGCGAAGGAT
66 ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGAT
* * * *
422507 ATTGGACTCGAGACGACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGGCTGTCAACAAATAAA
131 ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAAA
* * *
422572 TTTCCAGTTTCAGAGTCAATTTCAACTTCACGACGAAGGATATTGGCCTCGAAACAAC
196 TTTCCAGTTTCAGAGTCAATTTCAACTTCACAACGAAGAATATTGGACTCGAAACAAC
422630 ACAAATATTT
Statistics
Matches: 227, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
259 44 0.19
261 1 0.00
263 182 0.80
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (259 bp):
TCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCAAAGGGGCG
ACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGAT
ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAAA
TTTCCAGTTTCAGAGTCAATTTCAACTTCACAACGAAGAATATTGGACTCGAAACAACGCAAGC
Found at i:422632 original size:106 final size:108
Alignment explanation
Indices: 422377--422633 Score: 349
Period size: 110 Copynumber: 2.4 Consensus size: 108
422367 CAACGCAAGC
422377 TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCAAAGGGGCG
1 TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCAAAGGGGCG
* *** * * *
422442 ACTGATTGTTTTCAAATAACTTTTCAGTTTTATTTAGAGTCAATT
66 ACTGACTGTCAACAAATAAATTTCCAG--TTATTCAGAGTCAATT
* *
422487 TCAACTTCACAGCGAAGGATATTGGACTCGAGACGACACAAGCTCAACTTCACAGCGAAGGGGCG
1 TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCAAAGGGGCG
* *
422552 GCTGGCTGTCAACAAATAAATTTCCAG-T-TTCAGAGTCAATT
66 ACTGACTGTCAACAAATAAATTTCCAGTTATTCAGAGTCAATT
* *
422593 TCAACTTCAC-GACGAAGGATATTGGCCTCGAAACAACACAA
1 TCAACTTCACAG-CGAAGGATATTGGACTCGAGACAACACAA
422634 ATATTTAGAT
Statistics
Matches: 132, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
105 1 0.01
106 48 0.36
107 1 0.01
110 82 0.62
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (108 bp):
TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCAAAGGGGCG
ACTGACTGTCAACAAATAAATTTCCAGTTATTCAGAGTCAATT
Found at i:422948 original size:84 final size:84
Alignment explanation
Indices: 422735--422941 Score: 288
Period size: 84 Copynumber: 2.5 Consensus size: 84
422725 AAGGGAATCT
* * * * *
422735 TGCCCACCAAAGGCCTTCGAGTTTGACTACGCTCAACTCCAAGGCACATCATTTGTAGTATAACT
1 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAACT
* * * *
422800 TAAGTCGATAAGGGTTATC
66 TAAGTCAAGAAGAGCTATC
* *
422819 TTCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCATAACT
1 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAACT
422884 TAAGTCAAGAAGAGCTATC
66 TAAGTCAAGAAGAGCTATC
* * *
422903 TGCCAACCGAAGACCTTCGAGTTCGATTACACTCAGCTC
1 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
422942 AGAGGCAAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 108 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (84 bp):
TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAACT
TAAGTCAAGAAGAGCTATC
Found at i:423552 original size:37 final size:37
Alignment explanation
Indices: 423511--423620 Score: 193
Period size: 37 Copynumber: 3.0 Consensus size: 37
423501 AAACAAACGT
*
423511 TAGAGTTTTAGTAAGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAGGA
*
423548 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAGAA
1 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAGGA
*
423585 TAGAGTTTTACTACGATTCAAACTCCTAAAAATAGG
1 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAGG
423621 TTTCACAAGC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAGGA
Found at i:424305 original size:81 final size:79
Alignment explanation
Indices: 424161--424315 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 79
424151 TTAGTATATA
* * *
424161 TTTTTATTTTTTTAGATTACATATATATATATGTTATTTTTTATTATCTGTTTTATTAATTTATA
1 TTTTTATGTTTTTAGATTACATATATATATATGATATTATTTATTATCTGTTTTATTAATTTATA
424226 TATATATTTACTAT
66 TATATATTTACTAT
* *
424240 TTTTTATGTTTTTATGTATTATATATATATATAT-ATATTATTT-TTA-CTTTTTTATTATTATT
1 TTTTTATGTTTTTA-G-ATTACATATATATATATGATATTATTTATTATCTGTTTTATTA--A-T
*
424302 TTATTTATATATTT
61 TTATATATATATTT
424316 TTTTCTTCTT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
78 10 0.15
79 16 0.25
80 9 0.14
81 30 0.46
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (79 bp):
TTTTTATGTTTTTAGATTACATATATATATATGATATTATTTATTATCTGTTTTATTAATTTATA
TATATATTTACTAT
Found at i:424328 original size:36 final size:40
Alignment explanation
Indices: 424155--424327 Score: 122
Period size: 39 Copynumber: 4.5 Consensus size: 40
424145 TTTACTTTAG
* *
424155 TATA-TATTTTTATTTTTTTA-G-ATTACATATATATATA
1 TATATTATTTTTACTTTTTTATGTATTATATATATATATA
* * *
424192 TGTTATTTTTTATTATCTGTTTTAT-TAATT-TATATATATAT-
1 T-ATATTATTT-TTA-CTTTTTTATGT-ATTATATATATATATA
*
424233 T-TACTATTTTTTA-TGTTTTTATGTATTATATATATATATA
1 TATATTA-TTTTTACT-TTTTTATGTATTATATATATATATA
*
424273 TATATTATTTTTACTTTTTTAT-TATTAT-T-T-TATTTA
1 TATATTATTTTTACTTTTTTATGTATTATATATATATATA
424309 TATATT-TTTTT-CTTCTTTT
1 TATATTATTTTTACTT-TTTT
424328 TCTTTATTTT
Statistics
Matches: 111, Mismatches: 10, Indels: 32
0.73 0.07 0.21
Matches are distributed among these distances:
34 3 0.03
35 9 0.08
36 11 0.10
37 3 0.03
38 12 0.11
39 28 0.25
40 20 0.18
41 12 0.11
42 10 0.09
43 3 0.03
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (40 bp):
TATATTATTTTTACTTTTTTATGTATTATATATATATATA
Found at i:424339 original size:20 final size:19
Alignment explanation
Indices: 424324--424422 Score: 63
Period size: 20 Copynumber: 4.7 Consensus size: 19
424314 TTTTTTCTTC
424324 TTTTTCTTTATTTTTTTAAT
1 TTTTTCTTTATTTTTTT-AT
424344 TTTTTCTTTATTTTACTTACTAT
1 TTTTTCTTTATTTT--TT--TAT
* *
424367 TTTATCTTTTTTTTCTTTAT
1 TTTTTCTTTATTTT-TTTAT
* * *
424387 CTTATCTTTTATTTAATTTATT
1 TTTTTC-TTTATTT-TTTTA-T
*
424409 TTTTTCTTCATTTT
1 TTTTTCTTTATTTT
424423 AATTTAATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
20 22 0.35
21 16 0.25
22 10 0.16
23 14 0.22
24 1 0.02
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTCTTTATTTTTTTAT
Found at i:424412 original size:16 final size:16
Alignment explanation
Indices: 424294--424412 Score: 54
Period size: 16 Copynumber: 7.6 Consensus size: 16
424284 TACTTTTTTA
424294 TTATTATTTTATTTAT-
1 TTATT-TTTTATTTATC
* *
424310 ATATTTTTT-TCT-TC
1 TTATTTTTTATTTATC
*
424324 TT-TTTCTTTATTT-TT
1 TTATTT-TTTATTTATC
* *
424339 TTAATTTTTTCTTTATT
1 TT-ATTTTTTATTTATC
* **
424356 TTACTTACTATTTTATC
1 TTATTTTTTA-TTTATC
*
424373 TT-TTTTTTCTTTATC
1 TTATTTTTTATTTATC
*
424388 TTATCTTTTATTTAAT-
1 TTATTTTTTATTT-ATC
424404 TTATTTTTT
1 TTATTTTTT
424413 TCTTCATTTT
Statistics
Matches: 76, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
13 4 0.05
14 6 0.08
15 17 0.22
16 33 0.43
17 16 0.21
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTTTTTATTTATC
Found at i:425093 original size:30 final size:30
Alignment explanation
Indices: 425057--425251 Score: 131
Period size: 30 Copynumber: 6.8 Consensus size: 30
425047 ACTTCAAAAA
* *
425057 ATATTTTATTTTTATCTTAACTTACTAAAT
1 ATATTTTATTTTTATTTTAACTTATTAAAT
* * ** *
425087 ATATTTTATTCTCAACTTAA-TTA-AAAAT
1 ATATTTTATTTTTATTTTAACTTATTAAAT
* *
425115 ATATTTTATTATTATTTTAAATT-TTGAAAGT
1 ATATTTTATTTTTATTTTAACTTATT-AAA-T
* * *
425146 ATA---TA-TTGTATCTTAATTTATTAAAT
1 ATATTTTATTTTTATTTTAACTTATTAAAT
* * * * *
425172 AGATTATATTATTATTTTAAATTATTTAAT
1 ATATTTTATTTTTATTTTAACTTATTAAAT
425202 ATATTTTATTTTTATTTTAACTTA--AAAT
1 ATATTTTATTTTTATTTTAACTTATTAAAT
* *
425230 -TATTTTAATCTTATTTTAACTT
1 ATATTTTATTTTTATTTTAACTT
425252 GAAAACATAT
Statistics
Matches: 130, Mismatches: 26, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
26 3 0.02
27 33 0.25
28 27 0.21
29 7 0.05
30 56 0.43
31 4 0.03
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.56
Consensus pattern (30 bp):
ATATTTTATTTTTATTTTAACTTATTAAAT
Found at i:425103 original size:25 final size:27
Alignment explanation
Indices: 425066--425124 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
425056 AATATTTTAT
*
425066 TTTTA-TCTTAACTT-ACT-AAATATA
1 TTTTATTCTCAACTTAACTAAAATATA
*
425090 TTTTATTCTCAACTTAATTAAAAATATA
1 TTTTATTCTCAACTTAACT-AAAATATA
425118 TTTTATT
1 TTTTATT
425125 ATTATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 5 0.17
25 8 0.28
26 2 0.07
28 14 0.48
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (27 bp):
TTTTATTCTCAACTTAACTAAAATATA
Found at i:425114 original size:28 final size:29
Alignment explanation
Indices: 425044--425124 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 29
425034 TTTATATATA
* * *
425044 TTAACTTCAAAAA-ATATTTTATTTTTATC
1 TTAACTT-AAAAATATATTTTATTCTCAAC
*
425073 TTAACTTACTAAATATATTTTATTCTCAAC
1 TTAACTTA-AAAATATATTTTATTCTCAAC
425103 TTAA-TTAAAAATATATTTTATT
1 TTAACTTAAAAATATATTTTATT
425125 ATTATTTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 15 0.33
29 13 0.29
30 17 0.38
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.51
Consensus pattern (29 bp):
TTAACTTAAAAATATATTTTATTCTCAAC
Found at i:425233 original size:27 final size:28
Alignment explanation
Indices: 425203--425256 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
425193 TTATTTAATA
* *
425203 TATTTTATTTTTATTTTAACTT-AAAAT
1 TATTTTAATCTTATTTTAACTTGAAAAT
425230 TATTTTAATCTTATTTTAACTTGAAAA
1 TATTTTAATCTTATTTTAACTTGAAAA
425257 CATATATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (28 bp):
TATTTTAATCTTATTTTAACTTGAAAAT
Found at i:425346 original size:31 final size:31
Alignment explanation
Indices: 425297--425357 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
425287 ATGTAAAATA
*
425297 TTTTTAAATTAAGAATAAAAGTAAAATATAG
1 TTTTTAAATTAAGAATAAAAATAAAATATAG
* *
425328 TTTTTGAATTTAAG-ATAAAAATAATATATA
1 TTTTT-AAATTAAGAATAAAAATAAAATATA
425358 TATATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.39
Consensus pattern (31 bp):
TTTTTAAATTAAGAATAAAAATAAAATATAG
Found at i:425401 original size:31 final size:32
Alignment explanation
Indices: 425355--425418 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
425345 AAAATAATAT
* *
425355 ATATATATTATTTTTA-TCTTAAATTCAAAAA
1 ATATATATTACTTTTATTCTTAAATTAAAAAA
* *
425386 ATATATTTTACTTTTATTCTTAATTTAAAAAA
1 ATATATATTACTTTTATTCTTAAATTAAAAAA
425418 A
1 A
425419 ATTAACATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (32 bp):
ATATATATTACTTTTATTCTTAAATTAAAAAA
Found at i:426043 original size:20 final size:22
Alignment explanation
Indices: 426007--426055 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
425997 TTATCTCTTT
*
426007 TAATATTATTTATATTAAAA-A
1 TAATATTATTAATATTAAAATA
426028 TAATATT-TTAATATTAAAATA
1 TAATATTATTAATATTAAAATA
426049 TAA-ATTA
1 TAATATTA
426056 AAAATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATATTATTAATATTAAAATA
Found at i:426057 original size:12 final size:12
Alignment explanation
Indices: 426040--426072 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
426030 ATATTTTAAT
426040 ATTAAAATATAA
1 ATTAAAATATAA
426052 ATTAAAA-ATAA
1 ATTAAAATATAA
*
426063 TTTAAAATAT
1 ATTAAAATAT
426073 CTTATATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATTAAAATATAA
Found at i:426607 original size:12 final size:12
Alignment explanation
Indices: 426592--426637 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
426582 CGGTTTTTTT
*
426592 ACCGGATAAAAA
1 ACCGGTTAAAAA
426604 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
426619 ACCGGTTAAAAA
1 ACCGGTTAAAAA
426631 ACCGGTT
1 ACCGGTT
426638 TTTATCCGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:426619 original size:15 final size:13
Alignment explanation
Indices: 426598--426638 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
426588 TTTTACCGGA
426598 TAAAAAACCGGTT
1 TAAAAAACCGGTT
426611 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
426625 TAAAAAACCGGTT
1 TAAAAAACCGGTT
426638 T
1 T
426639 TTATCCGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:428952 original size:21 final size:21
Alignment explanation
Indices: 428928--428967 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
428918 TTTATTTTAT
428928 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
428949 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
428968 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:429015 original size:33 final size:33
Alignment explanation
Indices: 428962--429060 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
428952 TTTGTTTCAA
428962 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
428994 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
429027 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
429060 T
1 T
429061 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:429089 original size:13 final size:13
Alignment explanation
Indices: 429046--429100 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
429036 TTGGAAGTAT
429046 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
429059 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
429073 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
429086 TTAAGTATTTGAA
1 TTAAGTATTTCAA
429099 TT
1 TT
429101 TATCATACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:429322 original size:21 final size:21
Alignment explanation
Indices: 429296--429348 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
429286 TGGAGCATGG
429296 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTTCCTCTCATA
429317 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTTCCTCTCATA
429338 GGGAATCGGTT
1 GGGAATCGGTT
429349 CCCTAAGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (21 bp):
GGGAATCGGTTTCCTCTCATA
Found at i:429543 original size:15 final size:15
Alignment explanation
Indices: 429518--429556 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
429508 ATCTGGAATA
*
429518 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
429533 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
429548 TTAAAACCG
1 TTAAAACCG
429557 AAACCGGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:429673 original size:15 final size:17
Alignment explanation
Indices: 429647--429678 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
429637 TTCTATGGGA
429647 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
429663 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
429679 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:432116 original size:41 final size:40
Alignment explanation
Indices: 432059--432141 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 40
432049 TGAACGGAAG
432059 AAACCATAGAATAGACAGCAGATTAAAGCAATAATAATAAA
1 AAACCATAGAATAGACAGCAGATTAAAGCAATAATAA-AAA
432100 AAACCATAGAATAGACAGCAGATTAAAGCAATAATAAAAA
1 AAACCATAGAATAGACAGCAGATTAAAGCAATAATAAAAA
432140 AA
1 AA
432142 CCAGCCCCCC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 5 0.12
41 37 0.88
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.16
Consensus pattern (40 bp):
AAACCATAGAATAGACAGCAGATTAAAGCAATAATAAAAA
Found at i:433941 original size:17 final size:16
Alignment explanation
Indices: 433919--433952 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
433909 TAAAAACAAT
433919 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
433936 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
433952 A
1 A
433953 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:447645 original size:26 final size:26
Alignment explanation
Indices: 447593--447645 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
447583 AACTATTTTT
** *
447593 ATATTTTATATATTTTTCCTTTTTAA
1 ATATTTTATATATTTTTAATTTCTAA
447619 ATATTTTATGA-ATTTTTAATTTCTAA
1 ATATTTTAT-ATATTTTTAATTTCTAA
447645 A
1 A
447646 AAATAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
ATATTTTATATATTTTTAATTTCTAA
Found at i:455234 original size:20 final size:19
Alignment explanation
Indices: 455193--455235 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
455183 ACATTAGGGA
* *
455193 TTTTATTATAAACTAATTT
1 TTTTATTATAAAATAATAT
*
455212 TTTTATTAATAAAATTATAT
1 TTTTATT-ATAAAATAATAT
455232 TTTT
1 TTTT
455236 CTTTTTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTATTATAAAATAATAT
Found at i:459201 original size:32 final size:32
Alignment explanation
Indices: 459160--459237 Score: 104
Period size: 35 Copynumber: 2.3 Consensus size: 32
459150 CCCGGAATAA
*
459160 TGTTAAGCATTAATATT-AGAATATATAGAGTT
1 TGTTAAGCATTAATATTAAGAATATAGAGAG-T
459192 TGTTAAGCATTAATATTAACAGAATATAGAGAGT
1 TGTTAAGCATTAATATT-A-AGAATATAGAGAGT
459226 TGTTATAGCATT
1 TGTTA-AGCATT
459238 GGTTTAAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
32 17 0.41
34 6 0.15
35 18 0.44
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTTAAGCATTAATATTAAGAATATAGAGAGT
Found at i:463713 original size:32 final size:33
Alignment explanation
Indices: 463672--463738 Score: 109
Period size: 32 Copynumber: 2.0 Consensus size: 33
463662 GTAGGGTAAA
463672 TGTTAAGCATTAATATT-AGAATATAGAGAGTT
1 TGTTAAGCATTAATATTAAGAATATAGAGAGTT
463704 TGTTAAGCATTAATATTAACAGAATATAGAGAGTT
1 TGTTAAGCATTAATATT-A-AGAATATAGAGAGTT
463739 GCTAGAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 17 0.53
35 15 0.47
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (33 bp):
TGTTAAGCATTAATATTAAGAATATAGAGAGTT
Found at i:463748 original size:35 final size:32
Alignment explanation
Indices: 463675--463758 Score: 100
Period size: 35 Copynumber: 2.6 Consensus size: 32
463665 GGGTAAATGT
*
463675 TAAGCATTAATATTAGAATATAGAGAGTTTGT
1 TAAGCATTAATATTAGAATATAGAGAGTTTGC
463707 TAAGCATTAATATTAACAGAATATAGAGAG-TTGC
1 TAAGCATTAATATT---AGAATATAGAGAGTTTGC
*
463741 TAGAGCATTGAT-TTAGAA
1 TA-AGCATTAATATTAGAA
463759 GGATCTAGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
31 4 0.09
32 14 0.30
34 7 0.15
35 21 0.46
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (32 bp):
TAAGCATTAATATTAGAATATAGAGAGTTTGC
Found at i:467195 original size:3 final size:3
Alignment explanation
Indices: 467179--467263 Score: 100
Period size: 3 Copynumber: 27.7 Consensus size: 3
467169 TTTGGGCTTG
* * *
467179 TAA TAA TATT TAA TAA TAA TAT TAA TAA TAAA TAA TAA TAT TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
*
467226 TAA TTA TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA
467264 TTTAAATGAA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.03
3 61 0.87
4 7 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:467805 original size:229 final size:228
Alignment explanation
Indices: 467482--468987 Score: 1798
Period size: 229 Copynumber: 6.7 Consensus size: 228
467472 TATAATTTGG
* *
467482 AAAAGGTTGAACAAGCTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
467543 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
66 TATGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATT
467608 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
131 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGA-GAGTTCTTCTCATTATGAACTCTACCT
* *
467673 GGCAATGTTGATCCATCAAATGATGAATTCAAAT
195 GGAAATGTTGATCCATCAAATGATGAATTCAAAC
* * *
467707 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
467772 TATGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATT
66 TATGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATT
*
467837 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCAGTATGAACTCTACCT
131 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGA-GAGTTCTTCTCATTATGAACTCTACCT
*
467902 GGCAATGTTGATCCATCAAATGATGAATTCAAAC
195 GGAAATGTTGATCCATCAAATGATGAATTCAAAC
467936 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
468001 TATGAACTTTCTCTAGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATT
66 TATGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATT
468066 C-TCTC-TTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT-CCT
131 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGA-GAGTTCTTCTCATTATGAACTCTACCT
*
468128 GGCAATGTTGATCCATCAAATGATGAATTCAAAC
195 GGAAATGTTGATCCATCAAATGATGAATTCAAAC
468162 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT-TCA-
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
468225 TATGAACTTTCTCTGGAAAAACCGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACAAATT
66 TATGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATT
* * *
468290 CTTCTCATTATGAA--T-TTC-TTC-T-TTCAGAT--GAGTTCTTCTCATTATAAACTCGAACTG
131 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGAGTTCTTCTCATTATGAACTCTACCTG
** *
468347 GAAATGTTGATCCATTGAATGATGAATTCAAGC
196 GAAATGTTGATCCATCAAATGATGAATTCAAAC
*
468380 AAAAAGTTGAACAAGTTCTTCTC---ATGAACTTCTTCTTCATTCTTCAGATGAGTTC-TCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * * ** *
468441 TATGAACTTGA-CTGGTAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAAC-AAGT
66 TATGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATT
* * * * *
468504 CTTCTCATTATGAACTTCTTCTTCCTTTTTCAGAT--GAGTTCTTTTCATTATGAA-T-TTCTCT
131 CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGAGTTCTTCTCATTATGAACTCTAC-CT
* * * * ** *
468565 GGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
195 GGAAATGTTGATCCATCAAATGATGAATTCAAAC
* * *
468599 AAAAGGTTGAACAAATTCTTCTCATTATGAA--T-TTCTTTCTTC-TCAGATGACGAGTTC-T-T
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * * * * * * * ** *
468658 CATTATGAACTCTACCTGGCAATGTTGATCCATTAAATGATGAATTCAAACAAAAGGTTGAACAA
63 CATTATGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAA
* *
468723 ATTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGAT--GAGTTCTTCTCATTATGAACT-TT
128 ATTCTTCTCATTATGAA-TTTCTTCTTTCTTCTTCAGATGAGAGTTCTTCTCATTATGAACTCTA
* * * * ** *
468784 CTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
192 C-CTGGAAATGTTGATCCATCAAATGATGAATTCAAAC
* * * * *
468822 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTTCTTCTTCA-ATGACGAGT-TTCTC
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-G-TTCTTCTC
* * * * * * * * ** *
468885 ATTCTG-ACTCTACCTGGCAATGTTGATCCATCAAATGAT-GAATCAAACAAAAAGTTGAACAAG
64 ATTATGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAA
* *
468948 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
129 TTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAG
468988 TTCTAAAAAG
Statistics
Matches: 1166, Mismatches: 78, Indels: 73
0.89 0.06 0.06
Matches are distributed among these distances:
214 18 0.02
215 72 0.06
216 10 0.01
217 24 0.02
218 63 0.05
219 59 0.05
220 45 0.04
221 53 0.05
222 59 0.05
223 80 0.07
224 115 0.10
225 71 0.06
226 124 0.11
227 56 0.05
228 9 0.01
229 308 0.26
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (228 bp):
AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATT
CTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGAGTTCTTCTCATTATGAACTCTACCTG
GAAATGTTGATCCATCAAATGATGAATTCAAAC
Found at i:467836 original size:113 final size:113
Alignment explanation
Indices: 467482--468991 Score: 1659
Period size: 113 Copynumber: 13.5 Consensus size: 113
467472 TATAATTTGG
* **
467482 AAAAGGTTGAACAAGCTCTTCTCATTATGAAC---TTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * ** *
467543 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGGATTTGAGC
66 TATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
* *
467591 AAAAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTTTCTTCTTCAGATGACGAGTTCTTC
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGAT---GAGTTCTTC
* * * * *
467655 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAT
62 TCATTATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
*
467707 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * ** *
467772 TATGAACTTTATCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
66 TATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
*
467820 AAAAAGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTTTCTTCTTCAGATGACGAGTTCTTC
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGAT---GAGTTCTTC
* * * * *
467884 TCAGTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
62 TCATTATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
* *
467936 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * ** *
468001 TATGAACTTTCTCTAGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
66 TATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
* *
468049 AAAAGGTTGAACAAATTC-TCTC-TTATGAA-TTTCTTCTTTCTTCTTCAGATGACGAGTTCTTC
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGAT---GAGTTCTTC
* * * *
468111 TCATTATGAACTCT-CCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
62 TCATTATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
* *
468162 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT-TCA-
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* **** * * **
468225 TATGAACTTTCTCTGGAAAAACCGATCCATCAAGTGATGGTTTTGAAC
66 TATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
468273 AAAAAGTTGAACAAATTCTTCTCATTATGAA---TTTCTT-C-T-TTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* ** * ** * *
468332 TATAAACTCGAACTGGAAATGTTGATCCATTGAATGATGAATTCAAGC
66 TATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
* * *
468380 AAAAAGTTGAACAAGTTCTTCTC---ATGAACTTCTTCTTCATTCTTCAGATGAGTTC-TCTCAT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
468441 TATGAACTTGA-CTGGTAATGTTGATCCATCAAATGATGAATTCAAAC
66 TATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
* * * *
468488 AAAAAGTTGAAC-AAGTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTTTCAT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * ** *
468552 TATGAA-TTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
66 TATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
* *
468599 AAAAGGTTGAACAAATTCTTCTCATTATGAA---TTTCTTTCTTC-TCAGATGACGAGTTC-T-T
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * * * *
468658 CATTATGAACTCTACCTGGCAATGTTGATCCATTAAATGATGAATTCAAAC
63 CATTATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
*
468709 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * ** *
468774 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
66 TATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
* * *
468822 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTTCTTCTTCA-ATGACGAGT-TTCTC
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGA-G-TTCTTCTC
* * * * *
468885 ATTCTG-ACTCTACCTGGCAATGTTGATCCATCAAATGAT-GAATCAAAC
64 ATTATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
* *
468933 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCT
468992 AAAAAGTTGA
Statistics
Matches: 1171, Mismatches: 180, Indels: 98
0.81 0.12 0.07
Matches are distributed among these distances:
104 5 0.00
105 15 0.01
106 4 0.00
107 67 0.06
108 55 0.05
109 63 0.05
110 118 0.10
111 196 0.17
112 72 0.06
113 321 0.27
114 33 0.03
115 23 0.02
116 194 0.17
117 5 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
AAAAAGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTCAAAC
Found at i:469028 original size:59 final size:59
Alignment explanation
Indices: 468933--469045 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 59
468923 TGAATCAAAC
*
468933 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
* *
468992 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGA
1 AAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA
469046 CGAGTTCTTC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.42
Consensus pattern (59 bp):
AAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
Found at i:469149 original size:175 final size:170
Alignment explanation
Indices: 468822--469166 Score: 627
Period size: 175 Copynumber: 2.0 Consensus size: 170
468812 GGATTTGAGC
*
468822 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTTCTTCTTCAATGACGAGTTTCTCAT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAATGACGAGTTTCTCAT
*
468887 TCTGACTCTACCTGGCAATGTTGATCCATCAAATGATGAATCAAACAAAAAGTTGAACAAGTTCT
66 TATGACTCTACCTGGCAATGTTGATCCATCAAATGATGAATCAAACAAAAAGTTGAACAAGTTCT
468952 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
131 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
468992 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCA-ATGACGAG-T-TTCT
469057 CATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
63 CATTATG-ACTCTACCTGGCAATGTTGATCCATCAAATGATGAA-TCAAACAAAAAGTTGAACAA
469122 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
126 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
469167 TCTCATTATG
Statistics
Matches: 168, Mismatches: 2, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
170 48 0.29
171 8 0.05
172 1 0.01
173 10 0.06
174 36 0.21
175 65 0.39
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.39
Consensus pattern (170 bp):
AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAATGACGAGTTTCTCAT
TATGACTCTACCTGGCAATGTTGATCCATCAAATGATGAATCAAACAAAAAGTTGAACAAGTTCT
TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
Found at i:469205 original size:113 final size:112
Alignment explanation
Indices: 468992--470222 Score: 1511
Period size: 113 Copynumber: 10.9 Consensus size: 112
468982 GATGAGTTCT
* * *
468992 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* *
469057 CATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
63 CATTATGAACT-TACCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
469108 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * ** *
469173 TATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGC
66 TATGAACTTAC-CTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
* * * *
469221 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* *
469286 CATTATGAACTCTACCTGGCAATGTTGATCCATC-AATGATGAATTCAAAC
63 CATTATGAACT-TACCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
469336 -AAAAGTTGAACAAG-TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT-TCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * ** *
469398 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
66 TATGAACTTAC-CTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
* * * *
469446 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * *
469511 CATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAT
63 CATTATGAACT-TACCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
*
469562 AAAAAGTTGAACAAGTTC-T-TCATTATGAACTTCTTCTTCATTCTTCAGATGAG---TTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * ** **
469622 TATGAACTTTCTATGGAAAAATCGATCCATCAAGTGATGGTTTTGAAC
66 TATGAACTTAC-CTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
*
469670 AAAAAGTTGAACAAATTCTTCTCATTATGAA--T-TTCTT-C-T-TTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * ** *
469729 TATGAACTCGAACTGGAAATGTTGATCCATTGAATGATGAATTCAAGC
66 TATGAACT-TACCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
*
469777 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
469842 TATGAACTTGACCTGGTAATGCTGATCCATCAAATGATGAATTCAAAC
66 TATGAACTT-ACCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
469890 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * ** **
469955 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGT
66 TATGAACTTAC-CTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
* * * * *
470003 AAAAGGTTGAATAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* *
470068 CATTATGAACTCTACCTGGCAAGGTTGATCCATCAAATGATGAATTCAAAC
63 CATTATGAACT-TACCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
470119 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
** * *
470184 TATGAACTTTTTCTGGAAAAGCTGATCCATCAAGTGATG
66 TATGAAC-TTACCTGGAAAAGTTGATCCATCAAATGATG
470223 GATTTGAATC
Statistics
Matches: 952, Mismatches: 129, Indels: 71
0.83 0.11 0.06
Matches are distributed among these distances:
104 10 0.01
105 1 0.00
107 76 0.08
108 60 0.06
109 30 0.03
110 34 0.04
111 15 0.02
112 38 0.04
113 384 0.40
114 41 0.04
115 20 0.02
116 237 0.25
117 6 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (112 bp):
AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTACCTGGAAAAGTTGATCCATCAAATGATGAATTCAAAC
Found at i:469707 original size:17 final size:17
Alignment explanation
Indices: 469685--469734 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
469675 GTTGAACAAA
*
469685 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAG
*
469702 TTCTTCTTTCA-GATG-AG
1 TTCTTC--TCATTATGAAG
469719 TTCTTCTCATTATGAA
1 TTCTTCTCATTATGAA
469735 CTCGAACTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
15 3 0.12
16 3 0.12
17 14 0.54
18 3 0.12
19 3 0.12
ACGTcount: A:0.22, C:0.18, G:0.10, T:0.50
Consensus pattern (17 bp):
TTCTTCTCATTATGAAG
Found at i:470112 original size:229 final size:225
Alignment explanation
Indices: 468992--470222 Score: 1602
Period size: 229 Copynumber: 5.5 Consensus size: 225
468982 GATGAGTTCT
468992 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGAT-A-GAGTTCTTCT
*
469057 CATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
64 CATTATGAACTCTACCTGGAAATGTTGATCCATC-AATGATGAATTCAAACAAAAAGTTGAACAA
* *
469122 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
128 GTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTAC-CT
*
469187 GGAAAAGTTGATCCATCAAGTGATGGATTTGAGC
192 GGAAAAGTTGATCCATCAAGTGATGGATTTGAAC
*
469221 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGAT-A-GAGTTCTTCT
*
469286 CATTATGAACTCTACCTGGCAATGTTGATCCATCAATGATGAATTCAAAC-AAAAGTTGAACAAG
64 CATTATGAACTCTACCTGGAAATGTTGATCCATCAATGATGAATTCAAACAAAAAGTTGAACAAG
* *
469350 -TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT-TCATTATGAACTTTCTCTG
129 TTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTAC-CTG
* *
469413 GAAAAGCTGATCCATCAAGTGATGGATTTGAGC
193 GAAAAGTTGATCCATCAAGTGATGGATTTGAAC
*
469446 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCT
1 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGAT-A-GAGTTCTTCT
* *
469511 CATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAATAAAAAGTTGAACAA
64 CATTATGAACTCTACCTGGAAATGTTGATCCATC-AATGATGAATTCAAACAAAAAGTTGAACAA
* *
469576 GTTC-T-TCATTATGAACTTCTTC-TTCATTCTTCAGATGAG---TTCTCATTATGAACTTTCTA
128 GTTCTTCTCATTATGAACTTCTTCTTTC-TTCTTCAGATGAGTTCTTCTCATTATGAACTTAC-C
* * *
469635 TGGAAAAATCGATCCATCAAGTGATGGTTTTGAAC
191 TGGAAAAGTTGATCCATCAAGTGATGGATTTGAAC
469670 AAAAAGTTGAACAAATTCTTCTCATTATGAA--T-TTC-TTC-T-TTCAGAT-GAGTTCTTCTCA
1 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATAGAGTTCTTCTCA
* * * *
469728 TTATGAACTCGAACTGGAAATGTTGATCCATTGAATGATGAATTCAAGCAAAAAGTTGAACAAGT
66 TTATGAACTCTACCTGGAAATGTTGATCCA-TCAATGATGAATTCAAACAAAAAGTTGAACAAGT
469793 TCTTCTCATTATGAACTTCTTC-TTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTG
130 TCTTCTCATTATGAACTTCTTCTTTC-TTCTTCAGATGAGTTCTTCTCATTATGAACTT-ACCTG
* * * * * **
469857 GTAATGCTGATCCATCAAATGATGAATTCAAAC
193 GAAAAGTTGATCCATCAAGTGATGGATTTGAAC
* * *
469890 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCA
1 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATAGAGTTCTTCTCA
* * * * ** ** * * *
469954 TTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGTAAAAGGTTGAATAAA
66 TTATGAACTCTAC-CTGGAAATGTTGATCCATCAA-TGATGAATTCAAACAAAAAGTTGAACAAG
*
470018 TTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
129 TTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TAC
* * * * **
470083 CTGGCAAGGTTGATCCATCAAATGATGAATTCAAAC
190 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGAAC
* * *
470119 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCA
1 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATAGAGTTCTTCTCA
* ** * *
470183 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAAGTGATG
66 TTATGAACTCTACCTGGAAATGTTGATCCATCAA-TGATG
470223 GATTTGAATC
Statistics
Matches: 927, Mismatches: 49, Indels: 52
0.90 0.05 0.05
Matches are distributed among these distances:
215 71 0.08
216 2 0.00
217 34 0.04
218 7 0.01
219 1 0.00
220 74 0.08
221 4 0.00
222 2 0.00
223 5 0.01
224 78 0.08
225 156 0.17
226 186 0.20
227 32 0.03
228 18 0.02
229 254 0.27
230 3 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (225 bp):
AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATAGAGTTCTTCTCA
TTATGAACTCTACCTGGAAATGTTGATCCATCAATGATGAATTCAAACAAAAAGTTGAACAAGTT
CTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACCTGGAA
AAGTTGATCCATCAAGTGATGGATTTGAAC
Found at i:470709 original size:22 final size:22
Alignment explanation
Indices: 470630--470706 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
470620 CATAAAGCTT
470630 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* * *
470652 TCATATTTAAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
* *
470674 TCATCCTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
470696 TCATCTTTGAA
1 TCATCTTTGAA
470707 GAGTGTAGAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:471176 original size:54 final size:53
Alignment explanation
Indices: 471059--471260 Score: 186
Period size: 54 Copynumber: 3.9 Consensus size: 53
471049 GAATAGTAGA
* * * *
471059 TTCGTAAAACATTTGACAATACATTCATCTTTTCCTGT---ATCTG-TC-GAG
1 TTCGTAAAACATTTGACAACACATTCATATTTTTCTGTGGCTTCTGCTCAGAG
* * *
471107 AT-GTAAAACACTTGACAATACATTCATATTTTTCTGTGGCTTCTGCTCAGATG
1 TTCGTAAAACATTTGACAACACATTCATATTTTTCTGTGGCTTCTGCTCAGA-G
* * *
471160 TTCGTAAAACATTTGACAACACATTCATCCA-TTCT-TGTGGTTTCTGCTTAGACG
1 TTCGTAAAACATTTGACAACACATTCAT--ATTTTTCTGTGGCTTCTGCTCAGA-G
* * **
471214 TTCGTAAAGCGTTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
1 TTCGTAAAACATTTGACAACACATTCATATTTTTCTGTGGCTTCTGC
471261 CAAGATTTCT
Statistics
Matches: 126, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
47 32 0.25
48 1 0.01
50 4 0.03
51 2 0.02
52 2 0.02
53 5 0.04
54 76 0.60
55 3 0.02
56 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (53 bp):
TTCGTAAAACATTTGACAACACATTCATATTTTTCTGTGGCTTCTGCTCAGAG
Found at i:473403 original size:114 final size:114
Alignment explanation
Indices: 473203--473422 Score: 361
Period size: 114 Copynumber: 1.9 Consensus size: 114
473193 GATCATGCAG
* * *
473203 TTCATCTTTCAATTTCAATGATTGGTTATGGGATTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAATCTCAATGATTGGTTATGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
* *
473268 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAACAAA
66 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAACAAA
* *
473317 TTCATCTTTCAAATCT-AATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTC-AATCTCAATGATTGGTTATGGGATTCATACCAAACCAGATCAGATAACTCAAAG
473381 AACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTA
65 AACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTA
473423 CGAGAATGTG
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
114 94 0.96
115 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAATCTCAATGATTGGTTATGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAACAAA
Found at i:475637 original size:6 final size:6
Alignment explanation
Indices: 475626--475674 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
475616 TTGATTCAAT
*
475626 TTTTTC TTTTTC TTTTT- TGTTTTG TTTTT- TTTTTC TTTTTC -TTTTC
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC
475672 TTT
1 TTT
475675 GCTGGATGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 11 0.28
6 27 0.69
7 1 0.03
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:475653 original size:11 final size:11
Alignment explanation
Indices: 475626--475674 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
475616 TTGATTCAAT
475626 TTTTTCTTTTTC
1 TTTTTC-TTTTC
* *
475638 TTTTTTGTTTTG
1 -TTTTTCTTTTC
*
475650 TTTTTTTTTTC
1 TTTTTCTTTTC
475661 TTTTTCTTTTC
1 TTTTTCTTTTC
475672 TTT
1 TTT
475675 GCTGGATGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 22 0.71
12 4 0.13
13 5 0.16
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.86
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:475971 original size:2 final size:2
Alignment explanation
Indices: 475964--476003 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
475954 ACAACAAAGG
475964 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
476004 TAAAAGGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:480365 original size:24 final size:24
Alignment explanation
Indices: 480336--480385 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
480326 AAAAATAAAT
*
480336 AATGAAATA-AAATACTTGTAATAA
1 AATGAAATATAAATAC-TATAATAA
480360 AATGAAATATAAATACTATAATAA
1 AATGAAATATAAATACTATAATAA
480384 AA
1 AA
480386 AATTTGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (24 bp):
AATGAAATATAAATACTATAATAA
Found at i:482528 original size:3 final size:3
Alignment explanation
Indices: 482512--482590 Score: 97
Period size: 3 Copynumber: 25.7 Consensus size: 3
482502 TTTGGGCTTG
* * *
482512 TAA TAA TATT TAA TAA TAA TAT TAA TAA TAAA TAA TAA TAT TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
482559 TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA
482591 TTTAAATGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
2 2 0.03
3 57 0.86
4 7 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:486261 original size:42 final size:42
Alignment explanation
Indices: 486195--486275 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
486185 GGTTATACAA
486195 GGTAAGGTTGGTGTGTTAAGCAATGCCCCAAGAAGATTATGG
1 GGTAAGGTTGGTGTGTTAAGCAATGCCCCAAGAAGATTATGG
* * * *
486237 GGTAAGGTTGGTGTGTTGATCAATGCTCCTAGAAGATTA
1 GGTAAGGTTGGTGTGTTAAGCAATGCCCCAAGAAGATTA
486276 CGTTCTAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (42 bp):
GGTAAGGTTGGTGTGTTAAGCAATGCCCCAAGAAGATTATGG
Found at i:486290 original size:42 final size:42
Alignment explanation
Indices: 486197--486299 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 42
486187 TTATACAAGG
* *
486197 TAAGGTTGGTGTGTTAAGCAATGCCCCAAGAAGATTATGGGG
1 TAAGGTTGGTGTGTTAAGCAATGCCCCAAGAAGATTACGGGC
* * * * **
486239 TAAGGTTGGTGTGTTGATCAATGCTCCTAGAAGATTACGTTC
1 TAAGGTTGGTGTGTTAAGCAATGCCCCAAGAAGATTACGGGC
* *
486281 TAAGATTGGTGCGTTAAGC
1 TAAGGTTGGTGTGTTAAGC
486300 TTTGCTTCAA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (42 bp):
TAAGGTTGGTGTGTTAAGCAATGCCCCAAGAAGATTACGGGC
Found at i:487434 original size:139 final size:137
Alignment explanation
Indices: 487180--487462 Score: 361
Period size: 139 Copynumber: 2.1 Consensus size: 137
487170 ACCTAAGTGC
* * *
487180 CGAAATAGAAATTCACAAACTCATTATGAATTCCATGGATGCACTCATAGTGCCGAAAGTACATA
1 CGAAATGGAAATTCACAAACTCATTATGAATACCATGGATGCACTCATAGTGCCGAAAGTACACA
* * * ** *
487245 TAGTACTAATATGAAAATGCACCATTATGCATTAAACAAAATCGATCGATAACTTTTATACATAA
66 TAGTACTAATACGAAAATGCACCATTATGCACTAAACAAAATCGACCGATAACCATTATACACAA
487310 TTGTATGT
131 TT-TATGT
* * ** *
487318 CGAAATGGTAATTCACAAACTCATTTATGAATACCATGGTTGCACATC-TAGTGTTGAAGGTACA
1 CGAAATGGAAATTCACAAACTCA-TTATGAATACCATGGATGCAC-TCATAGTGCCGAAAGTACA
* ** * *
487382 CATAGTACTGATACGAAAATGCACTGTTATGCACTACACAAAATCGACCGATAACCATTATATAC
64 CATAGTACTAATACGAAAATGCACCATTATGCACTAAACAAAATCGACCGATAACCATTATACAC
487447 AATTTATGT
129 AATTTATGT
487456 CGAAATG
1 CGAAATG
487463 CACATATGAC
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
138 33 0.27
139 89 0.72
140 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (137 bp):
CGAAATGGAAATTCACAAACTCATTATGAATACCATGGATGCACTCATAGTGCCGAAAGTACACA
TAGTACTAATACGAAAATGCACCATTATGCACTAAACAAAATCGACCGATAACCATTATACACAA
TTTATGT
Found at i:497576 original size:11 final size:11
Alignment explanation
Indices: 497560--497584 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
497550 AACTTAAAAT
497560 TTCAGGTTGAA
1 TTCAGGTTGAA
497571 TTCAGGTTGAA
1 TTCAGGTTGAA
497582 TTC
1 TTC
497585 CCTTCTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (11 bp):
TTCAGGTTGAA
Found at i:507882 original size:16 final size:16
Alignment explanation
Indices: 507861--507892 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
507851 ACTATTTACA
507861 TGAATAGTGAAATTCG
1 TGAATAGTGAAATTCG
507877 TGAATAGTGAAATTCG
1 TGAATAGTGAAATTCG
507893 ATCGGCGATA
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:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
TGAATAGTGAAATTCG
Found at i:529166 original size:18 final size:18
Alignment explanation
Indices: 529143--529180 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
529133 CTCTGATGCT
529143 TTGTAACTTAAAGGCATC
1 TTGTAACTTAAAGGCATC
*
529161 TTGTAACTTAAAGGTATC
1 TTGTAACTTAAAGGCATC
529179 TT
1 TT
529181 AGGTACTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (18 bp):
TTGTAACTTAAAGGCATC
Found at i:531544 original size:23 final size:22
Alignment explanation
Indices: 531518--531581 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
531508 CAGCTCATAT
531518 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* *
531541 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
531564 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
531582 TATAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:531768 original size:103 final size:103
Alignment explanation
Indices: 531597--531814 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
531587 TAATGTCCAT
* *
531597 AAGGACCACATATCATTCCTTAAGAATCATAAACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATAAACATATACCAAGGATCAAGTATGTGTCTCACCA
*
531662 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAAAATACATATATGTCCCG
* *
531700 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATAAACATATACCAAGGATCAAGTATGTGTCTCACCA
531765 GACTTCACACATGTTCCAAAAAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAAAATACATATATGTCCCG
*
531803 AAGAACCACATA
1 AAGGACCACATA
531815 GACCCTCTAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATAAACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAAAATACATATATGTCCCG
Found at i:532320 original size:18 final size:19
Alignment explanation
Indices: 532283--532319 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
532273 CTTTTTTTTA
*
532283 TGGGGGAATCGGTTCCCCC
1 TGGGGGAATCGATTCCCCC
*
532302 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
532320 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.30, G:0.35, T:0.24
Consensus pattern (19 bp):
TGGGGGAATCGATTCCCCC
Found at i:538429 original size:23 final size:23
Alignment explanation
Indices: 538403--538458 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
538393 CATCTCATAT
*
538403 AATTGCACCTAAGTGACACGTAG
1 AATTGCACCGAAGTGACACGTAG
* * *
538426 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGACACGTAG
538449 AATTGCACCG
1 AATTGCACCG
538459 TAGTACCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGACACGTAG
Found at i:538653 original size:103 final size:103
Alignment explanation
Indices: 538482--538699 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
538472 TAATGTCCAT
* *
538482 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
538547 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
538585 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
538650 GACTTCACACATGTTCCAAAGAATATATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
538688 AAGGACCACATA
1 AAGGACCACATA
538700 GACCCTCTAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:541727 original size:17 final size:19
Alignment explanation
Indices: 541705--541747 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
541695 AAAACATTGA
*
541705 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
541722 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
541741 ATGCACT
1 ATGCACT
541748 AAGGATCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:541740 original size:65 final size:65
Alignment explanation
Indices: 541632--541753 Score: 158
Period size: 65 Copynumber: 1.9 Consensus size: 65
541622 AATTAAATTG
* * *
541632 AACATCGAATGCATTTCATGCATCGATGCACATACCATTCACCGATGCATTAAGGATTTTATGAA
1 AACATCGAATGCACTTCATGCATCGATGCACATACCATGCACCGATGCACTAAGGATTTTATGAA
* * *
541697 AACATTGAATGCACTTGATGCATCGATGCAC-T-CTTAGTGCACCGATGCACTAAGGAT
1 AACATCGAATGCACTTCATGCATCGATGCACATAC-CA-TGCACCGATGCACTAAGGAT
541754 CCAACGGTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 1 0.02
64 2 0.04
65 46 0.94
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCACTTCATGCATCGATGCACATACCATGCACCGATGCACTAAGGATTTTATGAA
Found at i:545136 original size:129 final size:129
Alignment explanation
Indices: 544906--545163 Score: 498
Period size: 129 Copynumber: 2.0 Consensus size: 129
544896 AAAATTCATC
* *
544906 ACGTTTTCAAAAATAATCCAAAATGAAAAAGGTTACTCTATAACTAGTGTTAGGAGTGATCATGG
1 ACGTTTTCAAAAATAATCCAAAACGAAAAAGGTTAATCTATAACTAGTGTTAGGAGTGATCATGG
544971 AACTGAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATGGTATTAGCCATAATTTT
66 AACTGAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATGGTATTAGCCATAATTTT
545035 ACGTTTTCAAAAATAATCCAAAACGAAAAAGGTTAATCTATAACTAGTGTTAGGAGTGATCATGG
1 ACGTTTTCAAAAATAATCCAAAACGAAAAAGGTTAATCTATAACTAGTGTTAGGAGTGATCATGG
545100 AACTGAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATGGTATTAGCCATAATTTT
66 AACTGAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATGGTATTAGCCATAATTTT
545164 TCAGCACCTA
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (129 bp):
ACGTTTTCAAAAATAATCCAAAACGAAAAAGGTTAATCTATAACTAGTGTTAGGAGTGATCATGG
AACTGAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATGGTATTAGCCATAATTTT
Found at i:549190 original size:21 final size:21
Alignment explanation
Indices: 549148--549191 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
549138 ACCCCGGGAG
*
549148 CTAGCTCTCCACGAGCTGCTC
1 CTAGCTCTCCACGAGCTCCTC
* * *
549169 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTCCACGAGCTCCTC
549190 CT
1 CT
549192 CCTCCGGCAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCTCCACGAGCTCCTC
Found at i:552190 original size:2 final size:2
Alignment explanation
Indices: 552183--552219 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
552173 TTGATTCAAT
552183 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
552220 GAATATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:552395 original size:13 final size:13
Alignment explanation
Indices: 552377--552402 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
552367 AATTTCTATA
552377 TATTTTTTAATTT
1 TATTTTTTAATTT
552390 TATTTTTTAATTT
1 TATTTTTTAATTT
552403 AAATAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTTTTAATTT
Found at i:554909 original size:13 final size:13
Alignment explanation
Indices: 554891--554940 Score: 100
Period size: 13 Copynumber: 3.8 Consensus size: 13
554881 CTAAAAAGAA
554891 AAATTTTAAAATC
1 AAATTTTAAAATC
554904 AAATTTTAAAATC
1 AAATTTTAAAATC
554917 AAATTTTAAAATC
1 AAATTTTAAAATC
554930 AAATTTTAAAA
1 AAATTTTAAAA
554941 ATATATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTTTAAAATC
Found at i:555878 original size:32 final size:32
Alignment explanation
Indices: 555811--555915 Score: 106
Period size: 32 Copynumber: 3.3 Consensus size: 32
555801 TCTCCTTCGA
* * * * *
555811 ACATAGGT-ATGATGTCTATATATCTCAAAAG
1 ACATAGGTAATTATGTCCATATGTCCCGAAAG
*
555842 ACATAGGTAATTTTGTCCATATGTCCCGAAAG
1 ACATAGGTAATTATGTCCATATGTCCCGAAAG
* * *
555874 ACATAGTTAATTATGTCCATATGTTCCG-TAG
1 ACATAGGTAATTATGTCCATATGTCCCGAAAG
555905 AACATAGGTAA
1 -ACATAGGTAA
555916 AAACTCGACT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
31 10 0.16
32 51 0.84
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (32 bp):
ACATAGGTAATTATGTCCATATGTCCCGAAAG
Found at i:560053 original size:32 final size:32
Alignment explanation
Indices: 559966--560058 Score: 116
Period size: 32 Copynumber: 2.9 Consensus size: 32
559956 ACATGTATAT
* * *
559966 TGTCCATATGTCTCAAAATACATAGGTAATTA
1 TGTCCATATGTCCCGAAAGACATAGGTAATTA
*
559998 TGTCCATATGTCCCGAAAGACATAGGTAATTC
1 TGTCCATATGTCCCGAAAGACATAGGTAATTA
* *
560030 TGTCCATATGTTCCG-TAGAACATAGGTAA
1 TGTCCATATGTCCCGAAAG-ACATAGGTAA
560059 ACCCTCGACT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 2 0.04
32 52 0.96
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (32 bp):
TGTCCATATGTCCCGAAAGACATAGGTAATTA
Found at i:562946 original size:28 final size:28
Alignment explanation
Indices: 562906--562970 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
562896 GTGACCATTG
562906 TGTAACTTTTATTAGCGATACACTATTT
1 TGTAACTTTTATTAGCGATACACTATTT
562934 TGTAACTTTTATTAGCGATACACTATTT
1 TGTAACTTTTATTAGCGATACACTATTT
562962 TGTAACTTT
1 TGTAACTTT
562971 CAATAGTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.48
Consensus pattern (28 bp):
TGTAACTTTTATTAGCGATACACTATTT
Found at i:564831 original size:57 final size:56
Alignment explanation
Indices: 564723--564846 Score: 135
Period size: 57 Copynumber: 2.2 Consensus size: 56
564713 TTCACTTGTA
* * * *
564723 TATTTTATTTTGTTTTAATTTTGGCATGATGGTTTGATTTGCTTGTGTTTTAGTCC
1 TATTTTATTTTATTTTAATTTTGGCATGATGGTTTGATATGATTGTATTTTAGTCC
* *
564779 TATTTGTATTTTATTTTAATTTTTGCATG-TTGTTTGCATATGAATT-TATTTTAGTCC
1 TATTT-TATTTTATTTTAATTTTGGCATGATGGTTTG-ATATG-ATTGTATTTTAGTCC
* *
564836 TAATTAATTTT
1 TATTTTATTTT
564847 GTATGATACC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
56 16 0.28
57 39 0.68
58 2 0.04
ACGTcount: A:0.19, C:0.06, G:0.15, T:0.60
Consensus pattern (56 bp):
TATTTTATTTTATTTTAATTTTGGCATGATGGTTTGATATGATTGTATTTTAGTCC
Found at i:567148 original size:69 final size:70
Alignment explanation
Indices: 567072--567201 Score: 174
Period size: 70 Copynumber: 1.9 Consensus size: 70
567062 CATAATTCAC
* * *
567072 TCTCGCCTGTAAATCTACCT-AATTCAAGC-ACTAAGATGAAAAGAAAAAGGTTTTGAAGACAAC
1 TCTCGCCTGCAAATCT-CCTCAATTCAAGCAACCAAGATGAAAAGAAAAAGGTTTCGAAGACAAC
567135 ACCAAT
65 ACCAAT
* * * *
567141 TCTCGCCTGCAAATCTGCTCAGTTCAAGCAACCAAGGTGAAAATAAAAAGGTTTCGAAGAC
1 TCTCGCCTGCAAATCTCCTCAATTCAAGCAACCAAGATGAAAAGAAAAAGGTTTCGAAGAC
567202 TAATCTTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
68 2 0.04
69 23 0.44
70 27 0.52
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (70 bp):
TCTCGCCTGCAAATCTCCTCAATTCAAGCAACCAAGATGAAAAGAAAAAGGTTTCGAAGACAACA
CCAAT
Found at i:570506 original size:12 final size:11
Alignment explanation
Indices: 570472--570510 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
570462 ATAAAAATAA
*
570472 TAATTTTTTAAG
1 TAATTTTTT-AT
570484 TAATTTTTTAT
1 TAATTTTTTAT
570495 TAATTTTATTAT
1 TAATTTT-TTAT
570507 TAAT
1 TAAT
570511 AATAACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
TAATTTTTTAT
Found at i:572616 original size:12 final size:12
Alignment explanation
Indices: 572599--572629 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
572589 TTGGCAATAG
572599 GAAGAAGGAGAA
1 GAAGAAGGAGAA
572611 GAAGAAGGAGAA
1 GAAGAAGGAGAA
*
572623 GGAGAAG
1 GAAGAAG
572630 AAAGGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (12 bp):
GAAGAAGGAGAA
Found at i:576473 original size:53 final size:55
Alignment explanation
Indices: 576412--576520 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
576402 CTCCAACAAT
576412 AAGAGTTCCTTC-TTTTGCC-TAACAAGTGTCAAGATATTTTTTTCTCTAACGAA
1 AAGAGTTCCTTCATTTTGCCTTAACAAGTGTCAAGATATTTTTTTCTCTAACGAA
576465 AAGAGTTCCTTCATTTTGCCTTAACAAGTGTCAAGATATTTTTTTCTCTAACGAA
1 AAGAGTTCCTTCATTTTGCCTTAACAAGTGTCAAGATATTTTTTTCTCTAACGAA
576520 A
1 A
576521 GAAATTTCAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
53 12 0.22
54 7 0.13
55 35 0.65
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (55 bp):
AAGAGTTCCTTCATTTTGCCTTAACAAGTGTCAAGATATTTTTTTCTCTAACGAA
Found at i:576587 original size:8 final size:8
Alignment explanation
Indices: 576574--576602 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
576564 ACACTTACAA
576574 AAAATTTG
1 AAAATTTG
576582 AAAATTTG
1 AAAATTTG
576590 AAAATTTG
1 AAAATTTG
576598 AAAAT
1 AAAAT
576603 GCCTTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (8 bp):
AAAATTTG
Found at i:576751 original size:5 final size:5
Alignment explanation
Indices: 576741--576791 Score: 63
Period size: 5 Copynumber: 10.4 Consensus size: 5
576731 ATAATTATAT
576741 ATTAA ATTAA ATTAA ATTAA A-T-A ATTATA TATTAA ATT-A ATTAA ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTA-A -ATTAA ATTAA ATTAA ATTAA
576790 AT
1 AT
576792 ATATAAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
3 2 0.05
4 6 0.15
5 27 0.66
6 2 0.05
7 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATTAA
Found at i:576752 original size:20 final size:20
Alignment explanation
Indices: 576751--576813 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 20
576741 ATTAAATTAA
576751 ATTAAATTAAATAATTATAT
1 ATTAAATTAAATAATTATAT
*
576771 ATTAAATTAATTAAATTAAATAT
1 ATTAAATTAAAT-AATT--ATAT
*
576794 ATAAATATTAAATATATTAT
1 ATTAA-ATTAAATA-ATTAT
576814 TACATTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
20 11 0.31
21 4 0.11
22 2 0.06
23 9 0.26
24 9 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTAAATTAAATAATTATAT
Found at i:576774 original size:25 final size:25
Alignment explanation
Indices: 576746--576796 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
576736 TATATATTAA
*
576746 ATTAAATTAAATTAAA-TAATTATAT
1 ATTAAATT-AATTAAATTAAATATAT
576771 ATTAAATTAATTAAATTAAATATAT
1 ATTAAATTAATTAAATTAAATATAT
576796 A
1 A
576797 AATATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTAAATTAATTAAATTAAATATAT
Found at i:576792 original size:29 final size:30
Alignment explanation
Indices: 576729--576806 Score: 124
Period size: 29 Copynumber: 2.6 Consensus size: 30
576719 AATGATACTA
576729 AAATAATTATATATTAAATTAAATTAAATT
1 AAATAATTATATATTAAATTAAATTAAATT
576759 AAATAATTATATATTAAATT-AATTAAATT
1 AAATAATTATATATTAAATTAAATTAAATT
*
576788 AAAT-ATATAAATATTAAAT
1 AAATAAT-TATATATTAAAT
576807 ATATTATTAC
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
28 2 0.04
29 24 0.52
30 20 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
AAATAATTATATATTAAATTAAATTAAATT
Found at i:580778 original size:54 final size:53
Alignment explanation
Indices: 580696--580802 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 53
580686 ACATTGTTTG
580696 AGAAACATAAAAAGGTAAAGAGTGAGATTTCTCAGCTCGGCAAGCAAGTGAAAA
1 AGAAACATAAAAAGGTAAAGAGTGAGATTTCTCAGCTCGGCAAGC-AGTGAAAA
580750 AGAAACATAAAAAGGTAAAGAGTGAGATTTCTCAGCTCGGCAAGCAGTGAAAA
1 AGAAACATAAAAAGGTAAAGAGTGAGATTTCTCAGCTCGGCAAGCAGTGAAAA
580803 TTTCATCATT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 8 0.15
54 45 0.85
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (53 bp):
AGAAACATAAAAAGGTAAAGAGTGAGATTTCTCAGCTCGGCAAGCAGTGAAAA
Found at i:583175 original size:23 final size:23
Alignment explanation
Indices: 583149--583196 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
583139 ATAAAGTACA
*
583149 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
583172 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
583195 AT
1 AT
583197 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:583722 original size:23 final size:23
Alignment explanation
Indices: 583663--583734 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
583653 ATACTTTACA
**
583663 ATATAAGTACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
583686 ATATAA-CGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
583708 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
583731 ATAT
1 ATAT
583735 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 20 0.44
23 25 0.56
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:584068 original size:422 final size:426
Alignment explanation
Indices: 583501--585604 Score: 3650
Period size: 422 Copynumber: 5.0 Consensus size: 426
583491 ATGTTTATTT
583501 TTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA-TACTAA
1 TTTTTAATTTAATAAT-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
* *
583565 ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATT-ATATTTTCCACAGCGAAAAAAGTA
65 ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTA
* * **
583629 TGGACACTTTTATAAAAATGATAGATACTTTACAATATAAGTACTACCTATTACATTATATAACG
130 TAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAACG
*
583694 CTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
195 ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
583759 CCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
260 CCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
583824 TAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTAT
325 TAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTAT
583889 TTGATTGTTTTGATATTTTAT-AAATATTATTTAGAA
390 TTGATTGTTTTGATATTTTATAAAATATTATTTAGAA
583925 -TTTTAATTTAATAATATATATCGTAACGT-AAAAA-AAATCATTAGACGCCTATAATTACTAAA
1 TTTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAA
*
583987 TTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAGTAT
66 TTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT
* * *
584052 TGACACTTTTATAAAAAAGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACG
131 AGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATAT-AACG
*
584117 CTACCTATTACATTATA-AAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
195 ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGT
*
584181 CCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTT
260 CCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTT
584246 TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAAT--TTTCATTTGCAC-AAAAATTA
324 TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTA
584308 TTTGATTGTTTTGATATTTTATAAAATATTATTTAGAA
389 TTTGATTGTTTTGATATTTTATAAAATATTATTTAGAA
584346 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAA-TT--TAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
584411 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
63 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
584476 TATAAACACTTTTAT-AAAAGGATAGATACTTTAC-A-ATAACCACTACCTATTACA-T-TATAA
128 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
584536 CGATACCTATTACA-T-TATAAGCGCTACCTATTACATCATA-TTTTACCTATTATATTGAAAGT
193 CGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGT
584598 GTCCATACTTTTTATAAAAAGGATCGATACTTC-TTTAAAGTTATGTAATTTATGTTTCAATTTT
258 GTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTT
*
584662 TTTTAATAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTGCACAAAAAAT
322 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
584727 TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAA
387 TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAA
584767 TTTTTAATTTAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT-AA
1 TTTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAA
*
584829 TTAATATTTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT
66 TTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT
*
584894 AGACACTTTTATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACA-TATA-AACGA
131 AGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAACGA
*
584957 TACTTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
196 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
585022 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
261 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
585087 AATAGTGTTTCATG--TTCC-CCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAATTATT
326 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
*
585148 TGATTGTTTTGATATTTTATAAAATATTATTTATAA
391 TGATTGTTTTGATATTTTATAAAATATTATTTAGAA
*
585184 TTTTTAATTTAATAATA-ATAT-ATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAA
1 TTTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAA
585247 TT-A-ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT
66 TTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT
*
585310 AGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATA-AATGA
131 AGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAACGA
*
585374 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTA-T-TATTGAAAGTCTC
196 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
*
585437 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTT
261 CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
* *
585501 AACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATT
326 AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
* *
585566 TGATTGTTTTGATATTTTATAAAATAATATTTAAAA
391 TGATTGTTTTGATATTTTATAAAATATTATTTAGAA
585602 TTT
1 TTT
585605 AAATTAACAA
Statistics
Matches: 1617, Mismatches: 32, Indels: 68
0.94 0.02 0.04
Matches are distributed among these distances:
414 19 0.01
415 146 0.09
416 181 0.11
417 187 0.12
418 201 0.12
419 64 0.04
420 112 0.07
421 222 0.14
422 234 0.14
423 86 0.05
424 18 0.01
425 22 0.01
426 23 0.01
427 102 0.06
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (426 bp):
TTTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAA
TTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTAT
AGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAACGA
TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTC
CATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTT
AATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATT
TGATTGTTTTGATATTTTATAAAATATTATTTAGAA
Found at i:584120 original size:23 final size:23
Alignment explanation
Indices: 584085--584156 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
584075 ATACTTTACA
*
584085 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
584108 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
584131 ATA-AAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
584153 ATAT
1 ATAT
584157 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 20 0.45
23 24 0.55
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:584536 original size:21 final size:21
Alignment explanation
Indices: 584511--584571 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
584501 ATACTTTACA
584511 ATAACCACTACCTATTACATT
1 ATAACCACTACCTATTACATT
*
584532 ATAACGA-TACCTATTACATT
1 ATAACCACTACCTATTACATT
* *
584552 ATAAGCGCTACCTATTACAT
1 ATAACCACTACCTATTACAT
584572 CATATTTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 17 0.49
21 18 0.51
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (21 bp):
ATAACCACTACCTATTACATT
Found at i:584544 original size:20 final size:21
Alignment explanation
Indices: 584519--584571 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 21
584509 CAATAACCAC
584519 TACCTATTACATTATAA-CGA
1 TACCTATTACATTATAAGCGA
*
584539 TACCTATTACATTATAAGCGC
1 TACCTATTACATTATAAGCGA
584560 TACCTATTACAT
1 TACCTATTACAT
584572 CATATTTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.36
Consensus pattern (21 bp):
TACCTATTACATTATAAGCGA
Found at i:584987 original size:23 final size:22
Alignment explanation
Indices: 584927--584996 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 22
584917 ATACTTTACA
*
584927 ATATAACCACTACCTATTACA-T
1 ATATAA-CGCTACCTATTACATT
* *
584949 ATA-AACGATACTTATTACATT
1 ATATAACGCTACCTATTACATT
*
584970 ATATAAGCGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
584993 ATAT
1 ATAT
584997 TTTTACCTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 11 0.28
21 6 0.15
22 5 0.13
23 17 0.44
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.34
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Found at i:585086 original size:421 final size:422
Alignment explanation
Indices: 583513--585604 Score: 3585
Period size: 421 Copynumber: 5.0 Consensus size: 422
583503 TTTAATTTAA
583513 TAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA-TACTAAATTAATATCTTA
1 TAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
* * *
583577 AAACTCACTCAAAAGATAACCTTAAATT-ATATTTTCCACAGCGAAAAAAGTATGGACACTTTTA
66 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTA
* ** *
583641 TAAAAATGATAGATACTTTACAATATAAGTACTACCTATTACATTATATAACGCTACCTATTACA
131 TAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACA-TATA-AACGATACCTATTACA
583706 TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTA
194 TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTA
583771 TAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTC
259 TAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTC
583836 ATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
324 ATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
583901 ATATTTTAT-AAATATTATTTAGAA-TTTTAATT
389 ATATTTTATAAAATATTATTTAGAATTTTTAATT
583933 TAATAATATATATCGTAACGT-AAAAA-AAATCATTAGACGCCTATAATTACTAAATTAATATCT
1 TAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
* *
583996 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAGTATTGACACTTT
64 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTT
* * *
584061 TATAAAAAAGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATT
129 TATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTAC---ATATAAACGATACCTATT
584126 ACATTATA-AAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTT
191 ACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTT
*
584190 TTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTG
256 TTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTG
584255 TTTCATGTTTTCCACCTACAATATTAATTTAAT--TTTCATTTGCAC-AAAAATTATTTGATTGT
320 TTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGT
584317 TTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
385 TTTGATATTTTATAAAATATTATTTAGAATTTTTAA-TT
584356 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
1 --TAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
*
584421 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAAACACT
62 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACT
584486 TTTAT-AAAAGGATAGATACTTTAC-A-ATAACCACTACCTATTACAT-TATAACGATACCTATT
127 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATATA-AACGATACCTATT
584547 ACA-T-TATAAGCGCTACCTATTACATCATA-TTTTACCTATTATATTGAAAGTGTCCATACTTT
191 ACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTT
584609 TTATAAAAAGGATCGATACTTC-TTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTG
256 TTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTG
*
584673 TTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGT
320 TTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGT
584738 TTTGATATTTTATAAAATATTATTTAGAATTTTTAATT
385 TTTGATATTTTATAAAATATTATTTAGAATTTTTAATT
*
584776 TAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT-AATTAATATTTTA
1 TAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
584840 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTA
66 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTA
* *
584905 TAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATATAAACGATACTTATTACATT
131 TAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATATAAACGATACCTATTACATT
584970 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATA
196 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATA
585035 AAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
261 AAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
585100 G--TTCC-CCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAATTATTTGATTGTTTTGAT
326 GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
*
585161 ATTTTATAAAATATTATTTATAATTTTTAATT
391 ATTTTATAAAATATTATTTAGAATTTTTAATT
*
585193 TAATAATAATAT-ATAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT-A-ATCTT
1 TAATAAT-ATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
585255 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTT
65 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTT
*
585320 ATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATAAATGATACCTATTACA
130 ATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACA-TATAAACGATACCTATTACA
*
585385 TTATATAAGCGCTACCTATTACATCATATTTTTACCTA-T-TATTGAAAGTCTCCATACTTTTTA
194 TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTA
* *
585448 TAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTAACAGTGTTTC
259 TAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTC
*
585512 ATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTG
324 ATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTG
* *
585577 ATATTTTATAAAATAATATTTAAAATTT
389 ATATTTTATAAAATATTATTTAGAATTT
585605 AAATTAACAA
Statistics
Matches: 1605, Mismatches: 32, Indels: 72
0.94 0.02 0.04
Matches are distributed among these distances:
414 19 0.01
415 146 0.09
416 181 0.11
417 190 0.12
418 200 0.12
419 63 0.04
420 118 0.07
421 225 0.14
422 224 0.14
423 70 0.04
424 21 0.01
425 23 0.01
426 23 0.01
427 102 0.06
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (422 bp):
TAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTA
TAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATATAAACGATACCTATTACATT
ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATA
AAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
ATTTTATAAAATATTATTTAGAATTTTTAATT
Found at i:585368 original size:21 final size:21
Alignment explanation
Indices: 585338--585408 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
585328 GATAGATACT
*
585338 TTACAATATAACCACTACCTA
1 TTACATTATAACCACTACCTA
**
585359 TTACATTATAAATGA-TACCTA
1 TTACATTAT-AACCACTACCTA
* *
585380 TTACATTATATAAGCGCTACCTA
1 TTACA-T-TATAACCACTACCTA
585403 TTACAT
1 TTACAT
585409 CATATTTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
21 19 0.47
22 7 0.17
23 14 0.35
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.35
Consensus pattern (21 bp):
TTACATTATAACCACTACCTA
Found at i:585400 original size:23 final size:22
Alignment explanation
Indices: 585343--585413 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
585333 ATACTTTACA
*
585343 ATATAACCACTACCTATTACATT
1 ATATAA-CGCTACCTATTACATT
* *
585366 ATA-AATGATACCTATTACATT
1 ATATAACGCTACCTATTACATT
*
585387 ATATAAGCGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
585410 ATAT
1 ATAT
585414 TTTTACCTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 16 0.40
22 4 0.10
23 20 0.50
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Done.