Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold305
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: 704983
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
File 2 of 5
Found at i:172411 original size:81 final size:81
Alignment explanation
Indices: 172302--172464 Score: 281
Period size: 81 Copynumber: 2.0 Consensus size: 81
172292 GCCAAAGAAT
*
172302 AATCCCATTCATATTTTGAAGAAAAGAACAAACACCGACAACTGTTTAGCACACAGGACAGTAGG
1 AATCCCATTCATATTTTGAAGAAAAGAACAAACACCGACAAATGTTTAGCACACAGGACAGTAGG
172367 GAGATGGCAGTGGGAG
66 GAGATGGCAGTGGGAG
* * **
172383 AATCCTATTCATATTTTTAAGAAAAGAACAAACACCGACAAATGTTTAGCATGCAGGACAGTAGG
1 AATCCCATTCATATTTTGAAGAAAAGAACAAACACCGACAAATGTTTAGCACACAGGACAGTAGG
172448 GAGATGGCAGTGGGAG
66 GAGATGGCAGTGGGAG
172464 A
1 A
172465 GCATAAAGGA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.20
Consensus pattern (81 bp):
AATCCCATTCATATTTTGAAGAAAAGAACAAACACCGACAAATGTTTAGCACACAGGACAGTAGG
GAGATGGCAGTGGGAG
Found at i:174502 original size:2 final size:2
Alignment explanation
Indices: 174495--174524 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
174485 AACTCACTGC
*
174495 GT GT GT GT GT GT GT GT GT AT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
174525 ATGAGAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
GT
Found at i:174525 original size:12 final size:12
Alignment explanation
Indices: 174495--174527 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
174485 AACTCACTGC
*
174495 GTGTGTGTGTGT
1 GTGTGTATGTGT
174507 GTGTGTATGTGT
1 GTGTGTATGTGT
174519 GTGTGTATG
1 GTGTGTATG
174528 AGAGAGAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.00, G:0.45, T:0.48
Consensus pattern (12 bp):
GTGTGTATGTGT
Found at i:174532 original size:2 final size:2
Alignment explanation
Indices: 174527--174554 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
174517 GTGTGTGTAT
174527 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
174555 ATCAAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:175229 original size:19 final size:19
Alignment explanation
Indices: 175207--175255 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
175197 AATTTTAAAT
175207 TTAATAT-TAAATATAATAA
1 TTAATATATAAATAT-ATAA
*
175226 TTAAT-TATAAATATATTA
1 TTAATATATAAATATATAA
175244 TTAATAATATAA
1 TTAAT-ATATAA
175256 TTTTAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 9 0.35
19 12 0.46
20 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAATATATAAATATATAA
Found at i:175248 original size:25 final size:25
Alignment explanation
Indices: 175220--175267 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
175210 ATATTAAATA
175220 TAATAAT-TAATTATAAATATATTAT
1 TAATAATATAATT-TAAATATATTAT
*
175245 TAATAATATAATTTTAATATATT
1 TAATAATATAATTTAAATATATT
175268 TAAAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TAATAATATAATTTAAATATATTAT
Found at i:175645 original size:30 final size:31
Alignment explanation
Indices: 175586--175661 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 31
175576 ATTTTAATTT
*
175586 ATTT-TTTAAATA-T-AATATATTTATATAA
1 ATTTATTTAAATATTAAATAAATTTATATAA
175614 ATTTTATTTAAATATTAAATAAATTT-T-TAA
1 A-TTTATTTAAATATTAAATAAATTTATATAA
* *
175644 ATTTAATTGAATATTAAA
1 ATTTATTTAAATATTAAA
175662 ATCATAATCA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 1 0.02
29 18 0.44
30 12 0.29
31 2 0.05
32 8 0.20
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (31 bp):
ATTTATTTAAATATTAAATAAATTTATATAA
Found at i:177615 original size:57 final size:56
Alignment explanation
Indices: 177523--177645 Score: 135
Period size: 57 Copynumber: 2.2 Consensus size: 56
177513 TATGATTTAA
* * * * *
177523 ATATTAAATTAATTTAAAATTTTAAGTATATAATAAGT-TAAATATATTATTAAATTT
1 ATATTTAATTTATTTAAAATATTAAGTATATAATAAGTATAAAAATA-TA-TAAAATT
* *
177580 ATATTTAATTTATTT-AAATATTAATTATATAAATAATTATAAAAATATATAAAATT
1 ATATTTAATTTATTTAAAATATTAAGTATAT-AATAAGTATAAAAATATATAAAATT
177636 A-ATTTAATTT
1 ATATTTAATTT
177646 TATATTAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
55 9 0.16
56 20 0.35
57 21 0.37
58 7 0.12
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (56 bp):
ATATTTAATTTATTTAAAATATTAAGTATATAATAAGTATAAAAATATATAAAATT
Found at i:177913 original size:27 final size:27
Alignment explanation
Indices: 177856--177920 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 27
177846 TAATAAAATA
177856 ATAATATAA-TTATATATATTCTATTT
1 ATAATATAATTTATATATATTCTATTT
* *
177882 A-AATATAATTTA-ATATCTTCTCTTT
1 ATAATATAATTTATATATATTCTATTT
177907 AGTAATATATATTT
1 A-TAATATA-ATTT
177921 TTATTTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 19 0.58
26 4 0.12
27 6 0.18
28 4 0.12
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (27 bp):
ATAATATAATTTATATATATTCTATTT
Found at i:178329 original size:2 final size:2
Alignment explanation
Indices: 178324--178351 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
178314 TCCTTTTTTA
178324 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
178352 CTCTTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:182981 original size:20 final size:19
Alignment explanation
Indices: 182947--182987 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
182937 AAACTAAACG
182947 AATTAATATAGCAAAACAA
1 AATTAATATAGCAAAACAA
* *
182966 AATTACATATATCAAAATAA
1 AATTA-ATATAGCAAAACAA
182986 AA
1 AA
182988 GGTAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.24
Consensus pattern (19 bp):
AATTAATATAGCAAAACAA
Found at i:183379 original size:21 final size:21
Alignment explanation
Indices: 183353--183401 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
183343 AGATAGAGTA
*
183353 GAAAGAGAAGGAATGCGTGAG
1 GAAAGAGAAGGAAGGCGTGAG
183374 GAAAGAGAAGGAAGGCGTGAG
1 GAAAGAGAAGGAAGGCGTGAG
183395 GAAAGAG
1 GAAAGAG
183402 GATGGAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.45, C:0.04, G:0.45, T:0.06
Consensus pattern (21 bp):
GAAAGAGAAGGAAGGCGTGAG
Found at i:183739 original size:2 final size:2
Alignment explanation
Indices: 183732--183767 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
183722 TAGATTTCTC
*
183732 AT AT AT AT AT AT AT AT AT AT TT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
183768 AATTTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:183744 original size:25 final size:24
Alignment explanation
Indices: 183708--183770 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
183698 AATTTAATTC
*
183708 TATAT-TAGTATAAATAGATTTCTCA
1 TATATATA-TATAAATAGATTTAT-A
* *
183733 TATATATATATATATATATTTATA
1 TATATATATATAAATAGATTTATA
183757 TATA-ATATATAAAT
1 TATATATATATAAAT
183771 TTAAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 9 0.27
24 5 0.15
25 17 0.52
26 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (24 bp):
TATATATATATAAATAGATTTATA
Found at i:184207 original size:23 final size:20
Alignment explanation
Indices: 184152--184208 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 20
184142 AAAAATTGGA
*
184152 TAATTTTTTAAAAGAGTAGG
1 TAATTTTTTAAAAGAATAGG
*
184172 TAAACTTTTTAAAAGTAAATAGG
1 T-AATTTTTTAAAAG--AATAGG
184195 TAATTTTTATAAAA
1 TAATTTTT-TAAAA
184209 AAAAGTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.03
21 12 0.40
22 6 0.20
23 11 0.37
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.40
Consensus pattern (20 bp):
TAATTTTTTAAAAGAATAGG
Found at i:189253 original size:18 final size:18
Alignment explanation
Indices: 189213--189256 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
189203 GCAATATAGG
189213 TGAAAAGATGCATTTGGA
1 TGAAAAGATGCATTTGGA
*
189231 TGAAATGATGCATTT-GA
1 TGAAAAGATGCATTTGGA
*
189248 TGGAAAGAT
1 TGAAAAGAT
189257 ACAACTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.39, C:0.05, G:0.27, T:0.30
Consensus pattern (18 bp):
TGAAAAGATGCATTTGGA
Found at i:192505 original size:52 final size:52
Alignment explanation
Indices: 192427--192555 Score: 233
Period size: 52 Copynumber: 2.5 Consensus size: 52
192417 CGAAATATGA
*
192427 AAATTTGCCTGCATGTATCGATACATT-TAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGC
192479 AAATTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGC
192531 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
192556 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
52 72 0.96
53 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTATAAAATGTATCGATACATCTGGGC
Found at i:192568 original size:52 final size:50
Alignment explanation
Indices: 192427--192575 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 50
192417 CGAAATATGA
*
192427 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGC
*
192479 AAATTTGCCTGCATGTATCGATACATTATAA-AATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--A-AATAGTGTATCGATACATCTGGGC
192531 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
192576 ATGTATCGAT
Statistics
Matches: 90, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
52 85 0.94
53 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (50 bp):
AAATTTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGC
Found at i:192582 original size:13 final size:13
Alignment explanation
Indices: 192564--192588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
192554 CAAAGATCAG
192564 TGTATCGATACAA
1 TGTATCGATACAA
192577 TGTATCGATACA
1 TGTATCGATACA
192589 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:192671 original size:13 final size:13
Alignment explanation
Indices: 192653--192677 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
192643 CAAAAAAATA
192653 TGTATCGATACAT
1 TGTATCGATACAT
192666 TGTATCGATACA
1 TGTATCGATACA
192678 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:192673 original size:33 final size:33
Alignment explanation
Indices: 192631--192697 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
192621 AGTAGCTTAA
192631 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
192664 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
192697 A
1 A
192698 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:193790 original size:49 final size:49
Alignment explanation
Indices: 193615--193997 Score: 457
Period size: 49 Copynumber: 8.0 Consensus size: 49
193605 CTTAAAGATG
* * * *
193615 AGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATCGAACTTAA
1 AGAAAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAA
*
193665 AGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--
1 AGA---AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAA
* * *
193715 ----AAAGGTGTCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAA
1 AGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAA
* *
193760 AGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--
1 AGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAA
*
193807 -G---AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA
1 AGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAA
* *
193852 AGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA
1 AGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAA
** * * *
193901 AGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAA
1 AGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAA
* * *
193950 AGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
193998 GAAGGGTTGC
Statistics
Matches: 289, Mismatches: 29, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
43 78 0.27
46 2 0.01
49 167 0.58
50 3 0.01
52 33 0.11
53 6 0.02
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
AGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAA
Found at i:193937 original size:98 final size:95
Alignment explanation
Indices: 193628--193997 Score: 563
Period size: 92 Copynumber: 3.9 Consensus size: 95
193618 AAAAGGATGT
* *
193628 CAATGTGCTGATTCAAGGCCAGCTACATCGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
*
193693 CAAGGCCAGCTATATTGGACTT-A--AAGGTGT
63 CAAGGCCAGCTATATTGGACTTAATGAAGGTGC
* *
193723 CAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
193788 GGCCAGCGATATTGGAC-T--TGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGAAGGTGC
193815 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
193880 GGCCAGCTATATTGGACTTAAAGATGAAGGTGC
66 GGCCAGCTATATTGGACTT--A-ATGAAGGTGC
* *
193913 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
193978 GGCCAGCTATATTGGGCTTA
66 GGCCAGCTATATTGGACTTA
193998 GAAGGGTTGC
Statistics
Matches: 255, Mismatches: 12, Indels: 15
0.90 0.04 0.05
Matches are distributed among these distances:
91 1 0.00
92 125 0.49
93 1 0.00
95 37 0.15
96 1 0.00
98 90 0.35
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (95 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAATGAAGGTGC
Found at i:194043 original size:33 final size:33
Alignment explanation
Indices: 193990--194102 Score: 178
Period size: 33 Copynumber: 3.5 Consensus size: 33
193980 CCAGCTATAT
193990 TGGGC-TTAGA-AGGG-TTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTTGCCACCGACTTGTG
194020 TGGGCTTTAGAGAGGGTTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTTGCCACCGACTTGTG
* *
194053 TGGGCTTTAGAGAAGGTTTGCCATCGACTTGTG
1 TGGGCTTTAGAGAGGGTTTGCCACCGACTTGTG
*
194086 TGGGCTTTAGAAAGGGT
1 TGGGCTTTAGAGAGGGT
194103 GAAAGATGCC
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
30 5 0.07
31 5 0.07
32 4 0.05
33 62 0.82
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (33 bp):
TGGGCTTTAGAGAGGGTTTGCCACCGACTTGTG
Found at i:194215 original size:34 final size:35
Alignment explanation
Indices: 194084--194954 Score: 738
Period size: 34 Copynumber: 25.6 Consensus size: 35
194074 CATCGACTTG
** *
194084 TGTGGGCTTTAGAAAGGGTGAAAGA-TGCCACGAAGT
1 TGTGGGCTTTAG-AA-GGAAAAAGAGTGCCACGGAGT
** * * * *
194120 TGTGAAC-TTAAAAAGAACAAG-GTGCCACAGAGT
1 TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
* *
194153 TGTGGGCTTTAAAAAGGAAAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AGAAGG--AAAAAGAGTGCCACGGAGT
*
194191 TGTGGGC-TTAGAAGGAAAAAGAGTGCCATGGAGT
1 TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
194225 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
*
194259 TGTGGGC-TTAGAAGGAAAAA-AGTGCCACGTAGT
1 TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
194292 TGTGGGCTTTA-AAGG-AAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
* * * *
194325 CGTGGAC-TT-------AAAAGGGTGCCACGGAGC
1 TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
*
194352 TGTGGGC-TTAGAAGGAAAGGAAG-GTGCCACGTAGT
1 TGTGGGCTTTAGAAGGAAA--AAGAGTGCCACGGAGT
194387 TGTGGGCTTTA-AAGG-AAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
* * * *
194420 CGTGGAC-TT-------AAAAGGGTGCCACGGAGC
1 TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
194447 TGTGGGC-TTAGAAGG-AAAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAGAAGGAAAAAG-A-GTGCCACGGAGT
*
194482 TGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AGAA-GGAAAAAGAGTGCCACGGAGT
* *
194519 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
* *
194553 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AGAA-GGAAAAAGAGTGCCACGGAGT
* * * *
194590 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
*
194625 TGTGGGCTTTA-AAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
*
194658 TGTGGGCTTTGAAAAGGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AGAA--GGAAAAAGAGTGCCACGGAGT
* * * *
194696 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
* *
194731 TGTGGGCTTTA-AACAGAAAAAG-GTGTCACGGAGT
1 TGTGGGCTTTAGAA-GGAAAAAGAGTGCCACGGAGT
* *
194765 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
*
194799 TGTGGAC-TTA-AAGATGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAGAAG--GAAAAAGAGTGCCACGGAGT
* *
194833 TGTGGGCTTT-GAAAAGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTTAG-AAGGAAAAAGAGTGCCACGGAGT
* * * *
194867 TGTAGGCTTT-GAAAAGAAGAAG-GTGCCACGAAGT
1 TGTGGGCTTTAG-AAGGAAAAAGAGTGCCACGGAGT
* * * *
194901 TGTGGGCTTT-GAAAAGAAGAAG-GTGCCATGAAGT
1 TGTGGGCTTTAG-AAGGAAAAAGAGTGCCACGGAGT
*
194935 TGTGGGCTTT-GAAGAAAAAA
1 TGTGGGCTTTAGAAGGAAAAA
194955 TGCCATTGAG
Statistics
Matches: 725, Mismatches: 62, Indels: 99
0.82 0.07 0.11
Matches are distributed among these distances:
27 46 0.06
32 13 0.02
33 109 0.15
34 278 0.38
35 131 0.18
36 35 0.05
37 64 0.09
38 44 0.06
39 5 0.01
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (35 bp):
TGTGGGCTTTAGAAGGAAAAAGAGTGCCACGGAGT
Found at i:194345 original size:27 final size:28
Alignment explanation
Indices: 194307--194445 Score: 86
Period size: 27 Copynumber: 4.6 Consensus size: 28
194297 GCTTTAAAGG
*
194307 AAAAGAGTGCCACGGAGTCGTGGACTT-
1 AAAAGGGTGCCACGGAGTCGTGGACTTA
*
194334 AAAAGGGTGCCACGGAG-CTGTGGGCTTAGA
1 AAAAGGGTGCCACGGAGTC-GTGGACTT--A
* * *
194364 AGGAAAGGAAGGTGCCACGTAGTTGTGGGCTTTAAA
1 A--AAA-G--GGTGCCACGGAGTCGTGGAC-TT--A
*
194400 GGAAAAGAGTGCCACGGAGTCGTGGACTT-
1 --AAAAGGGTGCCACGGAGTCGTGGACTTA
194429 AAAAGGGTGCCACGGAG
1 AAAAGGGTGCCACGGAG
194446 CTGTGGGCTT
Statistics
Matches: 89, Mismatches: 10, Indels: 26
0.71 0.08 0.21
Matches are distributed among these distances:
26 1 0.01
27 39 0.44
30 1 0.01
32 5 0.06
33 17 0.19
35 18 0.20
36 7 0.08
38 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.37, T:0.17
Consensus pattern (28 bp):
AAAAGGGTGCCACGGAGTCGTGGACTTA
Found at i:194451 original size:60 final size:63
Alignment explanation
Indices: 194374--194495 Score: 171
Period size: 60 Copynumber: 2.0 Consensus size: 63
194364 AGGAAAGGAA
* *
194374 GGTGCCACGTAGTTGTGGGCTTTA-AAGGAAAAG-A-GTGCCACGGAGTCGTGGAC-TTAAAAG
1 GGTGCCACGGAGCTGTGGGC-TTAGAAGGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAG
* *
194434 GGTGCCACGGAGCTGTGGGCTTAGAAGGAAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA
1 GGTGCCACGGAGCTGTGGGCTTAGAAGGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAA
194496 AGGGAAAAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
59 3 0.06
60 27 0.50
61 1 0.02
62 17 0.31
63 6 0.11
ACGTcount: A:0.28, C:0.15, G:0.37, T:0.20
Consensus pattern (63 bp):
GGTGCCACGGAGCTGTGGGCTTAGAAGGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAG
Found at i:195021 original size:62 final size:61
Alignment explanation
Indices: 194936--195099 Score: 215
Period size: 62 Copynumber: 2.6 Consensus size: 61
194926 CCATGAAGTT
* * *
194936 GTGGGCTTTGAAGAAAAAATGCCATTGAGTCGTGGACTTTGAGACA-A-AATGCCACTGAGTC
1 GTGGACTTT-AAGAAAAGATGCCACTGAGTCGTGGACTTTGAG-CAGAGAATGCCACTGAGTC
*
194997 GTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTC
1 GTGGACTTT-AA-GAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTC
* *
195060 GTGGACTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTT
1 GTGGACTTTAAGAAAAGA-TGCCACTGAGTCGTGGACTTT
195100 AAAAAGGTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
61 18 0.20
62 52 0.57
63 22 0.24
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (61 bp):
GTGGACTTTAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTC
Found at i:195055 original size:31 final size:31
Alignment explanation
Indices: 194955--195099 Score: 197
Period size: 31 Copynumber: 4.7 Consensus size: 31
194945 GAAGAAAAAA
* *
194955 TGCCATTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
* *
194985 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA-
1 TGCCACTGAGTCGTGGACTTT-GA-GAAGAGAT
*
195017 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
195048 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
195079 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
195100 AAAAAGGTAT
Statistics
Matches: 104, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
30 25 0.24
31 54 0.52
32 24 0.23
33 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:196054 original size:1 final size:1
Alignment explanation
Indices: 196048--196106 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
196038 GGGGTTGTTC
* * * * * * *
196048 TTTTTTTCTTTTTTTTTTTTGTGTTGTTTTTTTTTTCTTTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
196107 GGAAAAGAAC
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Found at i:196077 original size:23 final size:23
Alignment explanation
Indices: 196050--196106 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
196040 GGTTGTTCTT
*
196050 TTTTTCTTTTTTTTTTTTGTGTTG
1 TTTTT-TTTTTCTTTTTTGTGTTG
*
196074 TTTTTTTTTTCTTTTTTGTTTTG
1 TTTTTTTTTTCTTTTTTGTGTTG
196097 TTTTTTTTTT
1 TTTTTTTTTT
196107 GGAAAAGAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 26 0.84
24 5 0.16
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.88
Consensus pattern (23 bp):
TTTTTTTTTTCTTTTTTGTGTTG
Found at i:196077 original size:26 final size:26
Alignment explanation
Indices: 196042--196106 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
196032 TGAAAAGGGG
196042 TTGTTCTTTTTTTCTTT-TTTTTT-TT
1 TTGTTCTTTTTTT-TTTCTTTTTTGTT
*
196067 TGTGTTGTTTTTTTTTTCTTTTTTGTT
1 T-TGTTCTTTTTTTTTTCTTTTTTGTT
196094 TTGTT-TTTTTTTT
1 TTGTTCTTTTTTTT
196107 GGAAAAGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
25 12 0.33
26 21 0.58
27 3 0.08
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (26 bp):
TTGTTCTTTTTTTTTTCTTTTTTGTT
Found at i:196082 original size:29 final size:28
Alignment explanation
Indices: 196041--196106 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 28
196031 GTGAAAAGGG
* *
196041 GTTGTTCTTTTTTTCTTTTTTTTTTTTGT
1 GTTGTTTTTTTTTTC-TTTTTTGTTTTGT
196070 GTTGTTTTTTTTTTCTTTTTTGTTTTGT
1 GTTGTTTTTTTTTTCTTTTTTGTTTTGT
196098 -TT-TTTTTTT
1 GTTGTTTTTTT
196107 GGAAAAGAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 7 0.20
27 2 0.06
28 12 0.34
29 14 0.40
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.85
Consensus pattern (28 bp):
GTTGTTTTTTTTTTCTTTTTTGTTTTGT
Found at i:196358 original size:12 final size:12
Alignment explanation
Indices: 196343--196417 Score: 74
Period size: 11 Copynumber: 6.7 Consensus size: 12
196333 TGCCTTTGCA
196343 TTTTTTTTGTG-
1 TTTTTTTTGTGT
196354 TTTTTTTT-TG-
1 TTTTTTTTGTGT
196364 -TTTTTTTG-GT
1 TTTTTTTTGTGT
196374 TTTTTTTTGTGT
1 TTTTTTTTGTGT
196386 GTTTTTTTTGT-T
1 -TTTTTTTTGTGT
*
196398 TGTTTGTTTGT-T
1 T-TTTTTTTGTGT
196410 TTTTTTTT
1 TTTTTTTT
196418 TCATCACCTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
9 8 0.14
10 2 0.04
11 23 0.41
12 13 0.23
13 10 0.18
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (12 bp):
TTTTTTTTGTGT
Found at i:196363 original size:23 final size:22
Alignment explanation
Indices: 196343--196416 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 22
196333 TGCCTTTGCA
196343 TTTTTTTTGTGTTTTTTTTTG-
1 TTTTTTTTGTGTTTTTTTTTGT
196364 -TTTTTTTG-GTTTTTTTTTGT
1 TTTTTTTTGTGTTTTTTTTTGT
196384 GTGTTTTTTT-TGTTTGTTTGTTTGT
1 -T-TTTTTTTGTGTTT-TTT-TTTGT
196409 TTTTTTTT
1 TTTTTTTT
196417 TTCATCACCT
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
19 11 0.24
20 8 0.17
23 18 0.39
24 4 0.09
25 5 0.11
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (22 bp):
TTTTTTTTGTGTTTTTTTTTGT
Found at i:196367 original size:21 final size:21
Alignment explanation
Indices: 196343--196415 Score: 87
Period size: 19 Copynumber: 3.4 Consensus size: 21
196333 TGCCTTTGCA
196343 TTTTTTTTGTGTTTTTTTTTG
1 TTTTTTTTGTGTTTTTTTTTG
196364 -TTTTTTTG-GTTTTTTTTTG
1 TTTTTTTTGTGTTTTTTTTTG
*
196383 TGTGTTTTTTTTGTTTGTTTGTTTG
1 T-T-TTTTTTGTGTTT-TTT-TTTG
196408 TTTTTTTT
1 TTTTTTTT
196416 TTTCATCACC
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
19 11 0.24
20 8 0.18
21 1 0.02
22 6 0.13
23 10 0.22
24 4 0.09
25 5 0.11
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (21 bp):
TTTTTTTTGTGTTTTTTTTTG
Found at i:196378 original size:31 final size:32
Alignment explanation
Indices: 196343--196414 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 32
196333 TGCCTTTGCA
*
196343 TTTTTTTTGTGT-TTTTTTTTGTTTTTTTGGT
1 TTTTTTTTGTGTGTTTTTTTTGTTTGTTTGGT
*
196374 TTTTTTTTGTGTGTTTTTTTTGTTTGTTTGTT
1 TTTTTTTTGTGTGTTTTTTTTGTTTGTTTGGT
196406 TGTTTTTTT
1 T-TTTTTTT
196415 TTTTCATCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 12 0.32
32 18 0.49
33 7 0.19
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (32 bp):
TTTTTTTTGTGTGTTTTTTTTGTTTGTTTGGT
Found at i:201261 original size:45 final size:45
Alignment explanation
Indices: 201197--201288 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
201187 AGGAGAGAGT
201197 GGTATGAGCATGATGAACTCATTTACACTGCCCCGGAGTAGTTTG
1 GGTATGAGCATGATGAACTCATTTACACTGCCCCGGAGTAGTTTG
201242 GGTATGAGCATGATGAACTCATTTACACTGCCCCGGAGTAGTTTG
1 GGTATGAGCATGATGAACTCATTTACACTGCCCCGGAGTAGTTTG
201287 GG
1 GG
201289 ACGATGAAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
GGTATGAGCATGATGAACTCATTTACACTGCCCCGGAGTAGTTTG
Found at i:202588 original size:52 final size:52
Alignment explanation
Indices: 202506--202627 Score: 217
Period size: 52 Copynumber: 2.3 Consensus size: 52
202496 TGAAAAGTTA
*
202506 CCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTG
1 CCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTG
* *
202558 CCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGTAAATTTG
1 CCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTG
202610 CCTGCATGTATCGATACA
1 CCTGCATGTATCGATACA
202628 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTG
Found at i:202740 original size:13 final size:13
Alignment explanation
Indices: 202722--202746 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
202712 ACAAAACTTA
202722 TGTATCGATACAT
1 TGTATCGATACAT
202735 TGTATCGATACA
1 TGTATCGATACA
202747 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:202742 original size:32 final size:33
Alignment explanation
Indices: 202701--202766 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
202691 AGTAGCTTAA
202701 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
202733 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
202766 A
1 A
202767 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:204653 original size:16 final size:17
Alignment explanation
Indices: 204622--204658 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
204612 AAAATAAAAA
204622 TATTTATATAAATTTTT
1 TATTTATATAAATTTTT
204639 TATTTA-AT-AATTTTT
1 TATTTATATAAATTTTT
*
204654 AATTT
1 TATTT
204659 TTTAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 11 0.58
16 2 0.11
17 6 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTATATAAATTTTT
Found at i:205741 original size:5 final size:5
Alignment explanation
Indices: 205730--205769 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
205720 AGAAGAGAGC
* *
205730 TTAGG TTTGG TTTGG TTAGG TTAGG TTAGG TTAGG TTAGG
1 TTAGG TTAGG TTAGG TTAGG TTAGG TTAGG TTAGG TTAGG
205770 GATAGTCCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (5 bp):
TTAGG
Found at i:206200 original size:20 final size:22
Alignment explanation
Indices: 206166--206215 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
206156 ATACGAATTT
**
206166 AATTAAATATTTTA-TAAAA-A
1 AATTAAATAAATTATTAAAATA
206186 AATTAAATAAATTATTAAAATA
1 AATTAAATAAATTATTAAAATA
206208 AATATAAA
1 AAT-TAAA
206216 ATTTAAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.48
21 5 0.20
22 4 0.16
23 4 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AATTAAATAAATTATTAAAATA
Found at i:207668 original size:29 final size:29
Alignment explanation
Indices: 207626--207696 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
207616 GTGTACATAC
207626 ATATATATATATATTTATA-ATAAAAGTAT
1 ATATATATATATATTTATATAT-AAAGTAT
* *
207655 ATATATATATATATATATATATGAAGTAT
1 ATATATATATATATTTATATATAAAGTAT
207684 -TA-ATATATA-ATTT
1 ATATATATATATATTT
207697 TAGTATATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 3 0.08
27 7 0.18
28 2 0.05
29 24 0.63
30 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (29 bp):
ATATATATATATATTTATATATAAAGTAT
Found at i:207692 original size:2 final size:2
Alignment explanation
Indices: 207626--207676 Score: 61
Period size: 2 Copynumber: 26.0 Consensus size: 2
207616 GTGTACATAC
* *
207626 AT AT AT AT AT AT AT TT AT A- AT A- AA AGT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
207667 AT AT AT AT AT
1 AT AT AT AT AT
207677 GAAGTATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
1 2 0.05
2 40 0.93
3 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:208610 original size:18 final size:21
Alignment explanation
Indices: 208582--208621 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
208572 ACATATTTTT
208582 AAATATATTT-A-AAAATAAA
1 AAATATATTTAATAAAATAAA
208601 AAAT-TATTTAATAAAATAAA
1 AAATATATTTAATAAAATAAA
208621 A
1 A
208622 TGCATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATATATTTAATAAAATAAA
Found at i:209384 original size:194 final size:193
Alignment explanation
Indices: 209086--209438 Score: 586
Period size: 194 Copynumber: 1.8 Consensus size: 193
209076 TAATTAAAAA
*
209086 AATAAAATAAAAAAAAAGTATAAAAAGGGTCGACAAGGACAGCTTCCGTACATAATTTTTAAAAA
1 AATAAAAT-AAAAAAAAGTATAAAAAGGATCGACAAGGACAGCTTCCGTACATAATTTTTAAAAA
*
209151 AAATGTAAAATACAATATAAAAAATAGATGTTGTAGAATCTTATTTATATTTTTTATAATTTTAT
65 AAATATAAAATACAATATAAAAAATAGATGTTGTAGAATCTTATTTATATTTTTTATAATTTTAT
*
209216 TAATTAAATATAAAAATATTTTTATAATTTTTATAACTCAATTCATAATATAATATATATTATG
130 TAATTAAATATAAAAATAATTTTATAATTTTTATAACTCAATTCATAATATAATATATATTATG
* *
209280 AATAAAAT-AAAAAAAGTATAAAAAGGATCGACGAA-GATAGCTTCCGTACATAATTTTT-TAAA
1 AATAAAATAAAAAAAAGTATAAAAAGGATCGAC-AAGGACAGCTTCCGTACATAATTTTTAAAAA
*
209342 AAATATAAAATACAGTATGGAAAAAAGTAGATGTTGTAGAATCTTATTTATATTTTTTATAATTT
65 AAATATAAAATACAATAT--AAAAAA-TAGATGTTGTAGAATCTTATTTATATTTTTTATAATTT
209407 TATTAATTAAATATAAAAATAATTTTATAATT
127 TATTAATTAAATATAAAAATAATTTTATAATT
209439 CAATTCATAA
Statistics
Matches: 149, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
191 19 0.13
192 45 0.30
193 8 0.05
194 77 0.52
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (193 bp):
AATAAAATAAAAAAAAGTATAAAAAGGATCGACAAGGACAGCTTCCGTACATAATTTTTAAAAAA
AATATAAAATACAATATAAAAAATAGATGTTGTAGAATCTTATTTATATTTTTTATAATTTTATT
AATTAAATATAAAAATAATTTTATAATTTTTATAACTCAATTCATAATATAATATATATTATG
Found at i:211479 original size:3 final size:3
Alignment explanation
Indices: 211471--211526 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
211461 TATAATCTGG
211471 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
211519 TAT TAT TA
1 TAT TAT TA
211527 AATGATATTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:211980 original size:23 final size:23
Alignment explanation
Indices: 211953--211996 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
211943 TTTAAGTATA
**
211953 TATTTATCTTTTAAATATGATAT
1 TATTTATCTTAAAAATATGATAT
*
211976 TATTTATGTTAAAAATATGAT
1 TATTTATCTTAAAAATATGAT
211997 TAATTTTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (23 bp):
TATTTATCTTAAAAATATGATAT
Found at i:215759 original size:2 final size:2
Alignment explanation
Indices: 215752--215777 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
215742 GTTATTTTTG
215752 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
215778 GCTTAGGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:219288 original size:22 final size:19
Alignment explanation
Indices: 219253--219308 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
219243 TATGTATATG
219253 TTAAAA-AAATATTAAATA
1 TTAAAATAAATATTAAATA
* *
219271 TGCCTAAAATTAATATTATATA
1 T---TAAAATAAATATTAAATA
219293 TTAAAATAAATATTAA
1 TTAAAATAAATATTAA
219309 TAATTTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 1 0.03
19 13 0.43
21 5 0.17
22 11 0.37
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
TTAAAATAAATATTAAATA
Found at i:219463 original size:24 final size:25
Alignment explanation
Indices: 219412--219467 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
219402 TCCTAAATAT
*
219412 TATTTTTAAATAAAATTTATTAAAA
1 TATTTTTAAATAAAATTTATCAAAA
* **
219437 TATTTTTAAA-ATAATTTATCATTA
1 TATTTTTAAATAAAATTTATCAAAA
219461 TATTTTT
1 TATTTTT
219468 TAATTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTTTTAAATAAAATTTATCAAAA
Found at i:220862 original size:47 final size:47
Alignment explanation
Indices: 220719--220852 Score: 169
Period size: 47 Copynumber: 2.9 Consensus size: 47
220709 TTACACAGAG
* ** * *
220719 AAAGCTATAAACCTTCTTCACAAACAACTTGTAACTTTTGAATGGAT
1 AAAGTTATAAACAATCTTTACAATCAACTTGTAACTTTTGAATGGAT
* * *
220766 AAAGTTATAGACAATCTTTATAATCAACTTGTAACTTTTGTATGGAT
1 AAAGTTATAAACAATCTTTACAATCAACTTGTAACTTTTGAATGGAT
***
220813 AAAGTTATAAATTCTCTTTACAATCAACTTGTAACTTTTG
1 AAAGTTATAAACAATCTTTACAATCAACTTGTAACTTTTG
220853 CACGAATAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (47 bp):
AAAGTTATAAACAATCTTTACAATCAACTTGTAACTTTTGAATGGAT
Found at i:230679 original size:23 final size:22
Alignment explanation
Indices: 230636--230686 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
230626 TTTTAATATT
230636 TATAATTTTTTTATTATAAAAA
1 TATAATTTTTTTATTATAAAAA
230658 TATAATTTTATTTA-TATAAAAA
1 TATAATTTT-TTTATTATAAAAA
230680 -ATAATTT
1 TATAATTT
230687 GTTCGGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.25
22 17 0.61
23 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATAATTTTTTTATTATAAAAA
Found at i:230975 original size:6 final size:6
Alignment explanation
Indices: 230960--230995 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
230950 GTTAGCAAAG
*
230960 GAAAAA GAAAAC GAAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
230996 AAAGGAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.81, C:0.03, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:231329 original size:17 final size:18
Alignment explanation
Indices: 231309--231357 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
231299 GATATTTAAT
231309 ATTTTAAA-TTAAAATAA
1 ATTTTAAATTTAAAATAA
*
231326 A-TTTAAATTTAAAGTAA
1 ATTTTAAATTTAAAATAA
*
231343 ATTTTTTAATTTAAA
1 A-TTTTAAATTTAAA
231358 TTATACTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 6 0.22
17 10 0.37
19 11 0.41
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTTTAAATTTAAAATAA
Found at i:231332 original size:16 final size:17
Alignment explanation
Indices: 231311--231346 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
231301 TATTTAATAT
231311 TTTAAA-TTAAAATAAA
1 TTTAAATTTAAAATAAA
*
231327 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAAATAAA
231344 TTT
1 TTT
231347 TTTAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:231336 original size:22 final size:21
Alignment explanation
Indices: 231287--231360 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
231277 TTGAATTATT
*
231287 TATTTAAATTAAGATATTTAA
1 TATTTAAATTAAAATATTTAA
231308 TATTTTAAATTAAAATAAATTTAA
1 TA-TTTAAATTAAAAT--ATTTAA
* * *
231332 -ATTTAAAGT-AAATTTTTTA
1 TATTTAAATTAAAATATTTAA
231351 -ATTTAAATTA
1 TATTTAAATTA
231361 TACTTTAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
19 12 0.27
21 6 0.14
22 19 0.43
23 1 0.02
24 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
TATTTAAATTAAAATATTTAA
Found at i:231426 original size:41 final size:44
Alignment explanation
Indices: 231367--231451 Score: 122
Period size: 41 Copynumber: 2.0 Consensus size: 44
231357 ATTATACTTT
231367 AATTAATAAAAATATTTTTA-A-TTTT-AATAAAAAAATATATA
1 AATTAATAAAAATATTTTTATATTTTTAAATAAAAAAATATATA
* * *
231408 AATTAATATAAATTTTTTTATATTTTTAAATAATAAAATATATA
1 AATTAATAAAAATATTTTTATATTTTTAAATAAAAAAATATATA
231452 TTTTATGAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 18 0.47
42 1 0.03
43 4 0.11
44 15 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (44 bp):
AATTAATAAAAATATTTTTATATTTTTAAATAAAAAAATATATA
Found at i:231734 original size:28 final size:26
Alignment explanation
Indices: 231703--231756 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
231693 TCTCACATTA
231703 TTATTTTGATAATATTACACAATTTTTT
1 TTATTTT-ATAA-ATTACACAATTTTTT
* *
231731 TTATTTTTTAAATTACATAATTTTTT
1 TTATTTTATAAATTACACAATTTTTT
231757 ATAAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.58
27 3 0.12
28 7 0.29
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (26 bp):
TTATTTTATAAATTACACAATTTTTT
Found at i:232132 original size:15 final size:14
Alignment explanation
Indices: 232093--232145 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
232083 ATTTTAAATT
*
232093 ATTTGATTTGATTAA
1 ATTT-ATTTTATTAA
232108 ATTATATTTTATTAA
1 ATT-TATTTTATTAA
232123 TATTTATTTT-TTAA
1 -ATTTATTTTATTAA
232137 ATTT-TTTTA
1 ATTTATTTTA
232146 ATATAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 4 0.12
13 4 0.12
14 4 0.12
15 18 0.53
16 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (14 bp):
ATTTATTTTATTAA
Found at i:235312 original size:20 final size:21
Alignment explanation
Indices: 235267--235313 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
235257 GTTGAACCCC
* *
235267 ATAATTATTAATATAATTTTT
1 ATAATTTTTAATATAATTTTA
235288 A-AATTTTTAA-ATAATTTTA
1 ATAATTTTTAATATAATTTTA
235307 ATAATTT
1 ATAATTT
235314 AATTTATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 9 0.39
20 13 0.57
21 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATAATTTTTAATATAATTTTA
Found at i:235990 original size:10 final size:10
Alignment explanation
Indices: 235975--236009 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
235965 ATGTATAATA
235975 AAAAATAGTT
1 AAAAATAGTT
235985 AAAAATAGTT
1 AAAAATAGTT
* *
235995 AAAAAAAATT
1 AAAAATAGTT
236005 AAAAA
1 AAAAA
236010 CTTAAATCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (10 bp):
AAAAATAGTT
Found at i:237778 original size:16 final size:15
Alignment explanation
Indices: 237743--237781 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
237733 AATATCTTTA
237743 ATTTTAAAATAAATT
1 ATTTTAAAATAAATT
237758 A--TTAAAATAATATT
1 ATTTTAAAATAA-ATT
237772 ATTTTAAAAT
1 ATTTTAAAAT
237782 TATTTATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.43
14 4 0.19
15 1 0.05
16 7 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTTAAAATAAATT
Found at i:237778 original size:29 final size:29
Alignment explanation
Indices: 237743--237805 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
237733 AATATCTTTA
*
237743 ATTTTAAAATAAATTATTAAAATAATATT
1 ATTTTAAAATAAATTATCAAAATAATATT
* *
237772 ATTTTAAAATTATTTATCAAAATAATATT
1 ATTTTAAAATAAATTATCAAAATAATATT
*
237801 GTTTT
1 ATTTT
237806 GCTCGTATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (29 bp):
ATTTTAAAATAAATTATCAAAATAATATT
Found at i:237966 original size:21 final size:20
Alignment explanation
Indices: 237942--238004 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
237932 CAAGTATATT
237942 TTATAATTAAAATATTTAAAA
1 TTAT-ATTAAAATATTTAAAA
*
237963 TTATATGATAAATATTTAAAA
1 TTATATTA-AAATATTTAAAA
237984 --ATATT-AAA-ATTTAAAA
1 TTATATTAAAATATTTAAAA
238000 TTATA
1 TTATA
238005 GAAAACAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 8 0.22
17 3 0.08
18 3 0.08
19 4 0.11
20 3 0.08
21 16 0.43
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TTATATTAAAATATTTAAAA
Found at i:238272 original size:172 final size:170
Alignment explanation
Indices: 237896--238389 Score: 570
Period size: 172 Copynumber: 2.9 Consensus size: 170
237886 TTTTTTTTCC
* * * * *
237896 TTTTTTAATTTATTATTTCTTAATTATTTTACTTT-ACAAGTATATTTTATAATTAAAATATTTA
1 TTTTTTAATTTATTATTTCATAATTA-TTTAATTTAATAAATATATTTTATTATTAAAATATTTA
* * *
237960 AAATTATATGATAAATATTTAAAAA-TATTAAAATTTAAAATTATAG-AAAACAAATTTGTATAC
65 AAATTATCTG-TAAATATTTAAAAATTTTTAAAATTTAAAATTAT-GTAAAACAAATTT-TTTAC
* *
238023 TTAAGAAATTATCGTATTTTAATATAAAAATATCAATATATATA
127 TTAAAAAATTATCATATTTTAATATAAAAATATCAATATATATA
* * * *
238067 TTTTTAAATTTATTATTTCCTAATTTTTTAATTTAATAAATATAATTTATTATTAAAATATTTAA
1 TTTTTTAATTTATTATTTCATAATTATTTAATTTAATAAATATATTTTATTATTAAAATATTTAA
* **
238132 AAGTATTCTGTAAATATTTAAAAATTTTTAAAATAAAAAATTATGTAAAA-AATATTTTTTACGT
66 AATTA-TCTGTAAATATTTAAAAATTTTTAAAATTTAAAATTATGTAAAACAA-ATTTTTTAC--
* * * *
238196 TTAAAAAATTATCATATTTTATTATAAAAATATTAATTTATGT-
127 TTAAAAAATTATCATATTTTAATATAAAAATATCAATATATATA
* *
238239 TTTTTTAACTTATTATTTCATAATTATTTAATTTAATAAATATATTTTATTATTAAAATATCTAA
1 TTTTTTAATTTATTATTTCATAATTATTTAATTTAATAAATATATTTTATTATTAAAATATTTAA
* * * *
238304 ATTTATCTATTAAATATTT-AAAATTTTTAAAATTTAGAATTATGTAAAATAAATTTTTTTATAC
66 AATTATCT-GTAAATATTTAAAAATTTTTAAAATTTAAAATTATGTAAAACAAA--TTTTT-TAC
*
238368 TTAAAAAACTAT-ACTATTTTAA
127 TTAAAAAATTATCA-TATTTTAA
238390 GCCGCCCACC
Statistics
Matches: 276, Mismatches: 34, Indels: 25
0.82 0.10 0.07
Matches are distributed among these distances:
170 7 0.03
171 106 0.38
172 118 0.43
173 42 0.15
174 3 0.01
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (170 bp):
TTTTTTAATTTATTATTTCATAATTATTTAATTTAATAAATATATTTTATTATTAAAATATTTAA
AATTATCTGTAAATATTTAAAAATTTTTAAAATTTAAAATTATGTAAAACAAATTTTTTACTTAA
AAAATTATCATATTTTAATATAAAAATATCAATATATATA
Found at i:238307 original size:22 final size:23
Alignment explanation
Indices: 238282--238330 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
238272 TAATAAATAT
238282 ATTTTAT-TATTAAAATATCT-AA
1 ATTTTATCTATT-AAATATCTAAA
*
238304 A-TTTATCTATTAAATATTTAAA
1 ATTTTATCTATTAAATATCTAAA
238326 ATTTT
1 ATTTT
238331 TAAAATTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 12 0.52
22 8 0.35
23 3 0.13
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTTATCTATTAAATATCTAAA
Found at i:238603 original size:2 final size:2
Alignment explanation
Indices: 238596--238648 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
238586 ACAAAAATTA
238596 AT 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 AT
238638 AT AT AT AT AT A
1 AT AT AT AT AT A
238649 GTGGTGGGTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:250937 original size:16 final size:16
Alignment explanation
Indices: 250918--250952 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
250908 TATATTTATA
250918 TAAAAATATAAATATT
1 TAAAAATATAAATATT
* *
250934 TAAAATTATAACTATT
1 TAAAAATATAAATATT
250950 TAA
1 TAA
250953 CCTTAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAAAATATAAATATT
Found at i:252713 original size:16 final size:15
Alignment explanation
Indices: 252676--252717 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
252666 AAATTATTTT
*
252676 TTATTTTTAAATAAA
1 TTATTTTAAAATAAA
252691 TTA--TTAAAATAATA
1 TTATTTTAAAATAA-A
252705 TTATTTTAAAATA
1 TTATTTTAAAATA
252718 TTTTATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 8 0.35
14 4 0.17
15 3 0.13
16 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATTTTAAAATAAA
Found at i:253743 original size:2 final size:2
Alignment explanation
Indices: 253736--253762 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
253726 ATGTATTGCT
253736 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 T
253763 GAAAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:253806 original size:16 final size:16
Alignment explanation
Indices: 253764--253813 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
253754 TATATATATG
*
253764 AAAA-TATAACTATTT
1 AAAATTATAAATATTT
253779 AAAATTATAAATATTT
1 AAAATTATAAATATTT
*
253795 AATATT-TAAA-ATTT
1 AAAATTATAAATATTT
*
253809 TAAAT
1 AAAAT
253814 CTTAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 7 0.23
15 8 0.27
16 15 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AAAATTATAAATATTT
Found at i:253821 original size:23 final size:23
Alignment explanation
Indices: 253765--253821 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
253755 ATATATATGA
*
253765 AAATA-TAACTATTTAAAATTAT
1 AAATATTAAATATTTAAAATTAT
* *
253787 AAATATTTAATATTTAAAATTTT
1 AAATATTAAATATTTAAAATTAT
*
253810 AAATCTTAAATA
1 AAATATTAAATA
253822 AATAAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 5 0.17
23 24 0.83
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATATTAAATATTTAAAATTAT
Found at i:253827 original size:23 final size:23
Alignment explanation
Indices: 253778--253829 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
253768 TATAACTATT
* **
253778 TAAAATTATAAATATTTAATATT
1 TAAAATTATAAATATTAAATAAA
* *
253801 TAAAATTTTAAATCTTAAATAAA
1 TAAAATTATAAATATTAAATAAA
253824 TAAAAT
1 TAAAAT
253830 AAATATAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAAATTATAAATATTAAATAAA
Found at i:254194 original size:2 final size:2
Alignment explanation
Indices: 254181--254218 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
254171 TTGAAAAGAA
*
254181 AT AT AT AC 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
254219 TCCACTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:255602 original size:2 final size:2
Alignment explanation
Indices: 255595--255622 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
255585 ATTCTATCCC
255595 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
255623 TAAATAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:255692 original size:13 final size:14
Alignment explanation
Indices: 255674--255728 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
255664 TTTTATTTTT
255674 AAATAA-ATTATTA
1 AAATAATATTATTA
255687 AAATAATATTATTTTA
1 AAATAATATTA--TTA
* *
255703 AAATACT-TTATCA
1 AAATAATATTATTA
*
255716 AAATATTATTATT
1 AAATAATATTATT
255729 TTGATAAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
13 14 0.41
14 8 0.24
15 3 0.09
16 9 0.26
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATAATATTATTA
Found at i:255703 original size:16 final size:15
Alignment explanation
Indices: 255666--255707 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
255656 AAATTACTTT
*
255666 TTATTTTTAAATAAA
1 TTATTTTAAAATAAA
255681 TTA--TTAAAATAATA
1 TTATTTTAAAATAA-A
255695 TTATTTTAAAATA
1 TTATTTTAAAATA
255708 CTTTATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 8 0.35
14 4 0.17
15 3 0.13
16 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATTTTAAAATAAA
Found at i:255704 original size:28 final size:29
Alignment explanation
Indices: 255666--255730 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
255656 AAATTACTTT
* *
255666 TTATTTTTAAATAAATTATTAAAATAATA
1 TTATTTTAAAATAAATTATCAAAATAATA
** *
255695 TTATTTTAAAATACTTTATCAAAATATTA
1 TTATTTTAAAATAAATTATCAAAATAATA
255724 TTATTTT
1 TTATTTT
255731 GATAAAGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (29 bp):
TTATTTTAAAATAAATTATCAAAATAATA
Found at i:256241 original size:17 final size:16
Alignment explanation
Indices: 256212--256246 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
256202 TGATTAATTT
*
256212 TTTTATTTTTTATTAA
1 TTTTATTTCTTATTAA
256228 TTTTATATTCTTATTAA
1 TTTTAT-TTCTTATTAA
256245 TT
1 TT
256247 AATAATGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTTCTTATTAA
Found at i:258565 original size:14 final size:14
Alignment explanation
Indices: 258546--258574 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
258536 CTCAACCAAT
258546 GCATTGATTAAAGA
1 GCATTGATTAAAGA
258560 GCATTGATTAAAGA
1 GCATTGATTAAAGA
258574 G
1 G
258575 TGATCTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (14 bp):
GCATTGATTAAAGA
Found at i:260426 original size:53 final size:50
Alignment explanation
Indices: 260325--260426 Score: 114
Period size: 53 Copynumber: 2.0 Consensus size: 50
260315 TGCATGTTTA
* * * *
260325 ATTTAGGTCTAATTTTATATTTATTTCAAAAAATGGATTTATCGAATTTC
1 ATTTAGGTCAAATTGTATATTTATTTCAAAAAATGAATTTATCAAATTTC
* * *
260375 ATTTAAGGTCAAATTGTATATTTTATTTTTAAAAAATTAATTTATTAAATTT
1 ATTT-AGGTCAAATTGTATA-TTTA-TTTCAAAAAATGAATTTATCAAATTT
260427 TAATATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
50 4 0.10
51 13 0.31
52 4 0.10
53 21 0.50
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (50 bp):
ATTTAGGTCAAATTGTATATTTATTTCAAAAAATGAATTTATCAAATTTC
Found at i:260440 original size:17 final size:17
Alignment explanation
Indices: 260414--260450 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
260404 TAAAAAATTA
* *
260414 ATTTATTAAATTTTAAT
1 ATTTAATAAATTTAAAT
260431 ATTTAATAAATTTAAAT
1 ATTTAATAAATTTAAAT
260448 ATT
1 ATT
260451 AAACGATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTAATAAATTTAAAT
Found at i:260476 original size:33 final size:33
Alignment explanation
Indices: 260437--260508 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
260427 TAATATTTAA
*
260437 TAAATTTAAATATTAAACGATAATATTATTTTT
1 TAAATTTAAATATGAAACGATAATATTATTTTT
* * ***
260470 TTAATTTGAATATGAATTTATAATATTATTTTT
1 TAAATTTAAATATGAAACGATAATATTATTTTT
260503 TAAATT
1 TAAATT
260509 GCATATGGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (33 bp):
TAAATTTAAATATGAAACGATAATATTATTTTT
Found at i:260515 original size:32 final size:33
Alignment explanation
Indices: 260456--260520 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
260446 ATATTAAACG
*
260456 ATAATATTATTTTTTTAATTTGAATATGAATTT
1 ATAATATTATTTTTTTAAATTGAATATGAATTT
* *
260489 ATAATATTA-TTTTTTAAATTGCATATGGATTT
1 ATAATATTATTTTTTTAAATTGAATATGAATTT
260521 GGATATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 20 0.69
33 9 0.31
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (33 bp):
ATAATATTATTTTTTTAAATTGAATATGAATTT
Found at i:261229 original size:12 final size:12
Alignment explanation
Indices: 261207--261293 Score: 54
Period size: 14 Copynumber: 6.8 Consensus size: 12
261197 ATTGGGTTTC
261207 ATATT-TTTTAA
1 ATATTATTTTAA
261218 ATATTATTTTAA
1 ATATTATTTTAA
261230 A-ATATATTATTAA
1 ATAT-TATT-TTAA
*
261243 ATATAATGTATTAAA
1 ATATTAT-T-TT-AA
*
261258 AAATTATCTTTATA
1 ATATTAT-TTTA-A
261272 ATATTATTGTTAA
1 ATATTATT-TTAA
*
261285 TTA-TATTTT
1 ATATTATTTT
261294 TACATATAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
11 9 0.15
12 15 0.24
13 12 0.19
14 18 0.29
15 8 0.13
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (12 bp):
ATATTATTTTAA
Found at i:261483 original size:24 final size:26
Alignment explanation
Indices: 261428--261483 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
261418 ATACCAATTT
261428 TAATATAATATTTAAAATATGATTAA
1 TAATATAATATTTAAAATATGATTAA
*
261454 -ATATATAATTTTTAAAA-AT-ATTAA
1 TA-ATATAATATTTAAAATATGATTAA
261478 TAATAT
1 TAATAT
261484 TTGATAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 9 0.33
25 4 0.15
26 14 0.52
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
TAATATAATATTTAAAATATGATTAA
Found at i:263243 original size:18 final size:19
Alignment explanation
Indices: 263210--263249 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
263200 ATTATAATAT
263210 TTAAATTTTTAATAAAAAAA
1 TTAAATTTTT-ATAAAAAAA
*
263230 TTAAATTTTT-TAAAATAA
1 TTAAATTTTTATAAAAAAA
263248 TT
1 TT
263250 TTGTGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAATTTTTATAAAAAAA
Found at i:264536 original size:3 final size:3
Alignment explanation
Indices: 264530--264567 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
264520 TTTTAAAAGA
264530 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
264568 ATATGTATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:265000 original size:20 final size:19
Alignment explanation
Indices: 264952--265000 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
264942 TCAACTTGTT
*
264952 AAAA-TATTTATAATATAA
1 AAAATTATTTAAAATATAA
*
264970 AAAATTA-TTAAAATATAT
1 AAAATTATTTAAAATATAA
264988 AAAATTAATTTAA
1 AAAATT-ATTTAA
265001 TTTTACATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 19 0.73
19 3 0.12
20 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTATTTAAAATATAA
Found at i:265696 original size:85 final size:85
Alignment explanation
Indices: 265525--265697 Score: 303
Period size: 85 Copynumber: 2.0 Consensus size: 85
265515 CCTTCGATTG
* * * *
265525 TTTCCTACAAAAATCCTAAATTTTGTATGACCTCTCTTTAATTTGCCTTCTAGCTATTTGTAACA
1 TTTCCTACAAAAATCCTAAATTTTCTATGACCTCTCTTTAATTAGCCTACTAGCTATTTATAACA
265590 ATTGATTTTTCTGTTTCTTT
66 ATTGATTTTTCTGTTTCTTT
265610 TTTCCTACAAAAATCCTAAATTTTCTATGACCTCTCTTTAATTAGCCTACTAGCTA-TTATAACA
1 TTTCCTACAAAAATCCTAAATTTTCTATGACCTCTCTTTAATTAGCCTACTAGCTATTTATAACA
265674 ATTGATTTTTCTGTTTCTTT
66 ATTGATTTTTCTGTTTCTTT
265694 TTTC
1 TTTC
265698 ACTTTTAGGG
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
84 31 0.37
85 53 0.63
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.49
Consensus pattern (85 bp):
TTTCCTACAAAAATCCTAAATTTTCTATGACCTCTCTTTAATTAGCCTACTAGCTATTTATAACA
ATTGATTTTTCTGTTTCTTT
Found at i:280949 original size:9 final size:8
Alignment explanation
Indices: 280916--280945 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
280906 TGTCTTTTTA
280916 TTTTTATT
1 TTTTTATT
280924 TTTTTATT
1 TTTTTATT
280932 TTTTTATT
1 TTTTTATT
280940 TTTTTA
1 TTTTTA
280946 ATTTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:281878 original size:13 final size:14
Alignment explanation
Indices: 281855--281883 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
281845 ATCATTTTTT
281855 TTAAGTTTAAAAAA
1 TTAAGTTTAAAAAA
281869 TTAA-TTTAAAAAA
1 TTAAGTTTAAAAAA
281882 TT
1 TT
281884 TAAATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
TTAAGTTTAAAAAA
Found at i:281928 original size:17 final size:17
Alignment explanation
Indices: 281872--281916 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
281862 TAAAAAATTA
* *
281872 ATTTAAAAAATTTAAAT
1 ATTTAATAAATTTAGAT
*
281889 ATATAATAAATTTAGAT
1 ATTTAATAAATTTAGAT
281906 ATTTAATAAAT
1 ATTTAATAAAT
281917 ATTATTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
ATTTAATAAATTTAGAT
Found at i:284106 original size:9 final size:9
Alignment explanation
Indices: 284092--284137 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
284082 AATTTAATTA
284092 TAATTATTT
1 TAATTATTT
284101 TAATTAATTT
1 TAATT-ATTT
284111 T-A--ATTT
1 TAATTATTT
284117 TAATTATTT
1 TAATTATTT
284126 TAATT-TTT
1 TAATTATTT
284134 TAAT
1 TAAT
284138 GAAGTGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
6 5 0.15
7 1 0.03
8 7 0.21
9 15 0.45
10 5 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TAATTATTT
Found at i:284114 original size:25 final size:25
Alignment explanation
Indices: 284075--284137 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
284065 ACATATAATG
*
284075 TAATTCAAATTTAATTATAATTATTT
1 TAATT-AATTTTAATTATAATTATTT
*
284101 TAATTAATTTTAATTTTAATTATTT
1 TAATTAATTTTAATTATAATTATTT
284126 TAATT--TTTTAAT
1 TAATTAATTTTAAT
284138 GAAGTGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
23 7 0.20
25 23 0.66
26 5 0.14
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TAATTAATTTTAATTATAATTATTT
Found at i:284132 original size:15 final size:15
Alignment explanation
Indices: 284084--284132 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
284074 GTAATTCAAA
*
284084 TTTAATTATAATT-AT
1 TTTAATTAT-TTTAAT
284099 TTTAATTAATTTTAAT
1 TTTAATT-ATTTTAAT
284115 TTTAATTATTTTAAT
1 TTTAATTATTTTAAT
284130 TTT
1 TTT
284133 TTAATGAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 20 0.65
16 11 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTAATTATTTTAAT
Found at i:284133 original size:16 final size:16
Alignment explanation
Indices: 284097--284132 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
284087 AATTATAATT
284097 ATTTTAATTAATTTTA
1 ATTTTAATTAATTTTA
284113 ATTTTAATT-ATTTTA
1 ATTTTAATTAATTTTA
284128 ATTTT
1 ATTTT
284133 TTAATGAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTAATTAATTTTA
Found at i:284455 original size:21 final size:19
Alignment explanation
Indices: 284429--284478 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
284419 GATATATAAA
284429 ATAATTATTTTATTATTATTT
1 ATAATTATTTTA-TA-TATTT
*
284450 ATAATTATTATATATATTT
1 ATAATTATTTTATATATTT
284469 -TAA-TATTTTA
1 ATAATTATTTTA
284479 ATGACTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 6 0.22
18 3 0.11
19 5 0.19
20 2 0.07
21 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATAATTATTTTATATATTT
Found at i:285072 original size:22 final size:22
Alignment explanation
Indices: 285047--285088 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
285037 ATATTTTATT
285047 TAAA-ATTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATATA
285069 TAAATATTAATATAAAAATA
1 TAAATATTAATATAAAAATA
285089 ATTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:285999 original size:33 final size:33
Alignment explanation
Indices: 285962--286028 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
285952 TTCAACGATT
285962 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
285995 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
286028 T
1 T
286029 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:286000 original size:13 final size:13
Alignment explanation
Indices: 285982--286006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
285972 CATAAAATGT
285982 TGTATCGATACAA
1 TGTATCGATACAA
285995 TGTATCGATACA
1 TGTATCGATACA
286007 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:286087 original size:13 final size:13
Alignment explanation
Indices: 286069--286093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
286059 ATTACTCAAA
286069 TGTATCGATACAT
1 TGTATCGATACAT
286082 TGTATCGATACA
1 TGTATCGATACA
286094 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:286195 original size:52 final size:52
Alignment explanation
Indices: 286102--286229 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
286092 CACTGATCTT
*
286102 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
286153 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
286205 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
286230 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:293129 original size:14 final size:11
Alignment explanation
Indices: 293112--293167 Score: 76
Period size: 12 Copynumber: 4.8 Consensus size: 11
293102 AAAAGTGATG
293112 AAAAAAAAACAC
1 AAAAAAAAA-AC
293124 AAAAAAAAAAC
1 AAAAAAAAAAC
*
293135 AACAAAAAAAC
1 AAAAAAAAAAC
293146 AAAAAAAAAAAC
1 -AAAAAAAAAAC
293158 ACAAAAAAAA
1 A-AAAAAAAA
293168 TGCAAAGGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
11 13 0.32
12 27 0.68
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:293141 original size:22 final size:22
Alignment explanation
Indices: 293114--293166 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 22
293104 AAGTGATGAA
293114 AAAAAAACACAAAAAAAAAACAAC
1 AAAAAAACA-AAAAAAAAAAC-AC
293138 AAAAAAACAAAAAAAAAAACAC
1 AAAAAAACAAAAAAAAAAACAC
293160 AAAAAAA
1 AAAAAAA
293167 ATGCAAAGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 9 0.31
23 11 0.38
24 9 0.31
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (22 bp):
AAAAAAACAAAAAAAAAAACAC
Found at i:293173 original size:11 final size:11
Alignment explanation
Indices: 293113--293167 Score: 65
Period size: 11 Copynumber: 4.7 Consensus size: 11
293103 AAAGTGATGA
293113 AAAAAAAACAC
1 AAAAAAAACAC
*
293124 AAAAAAAAAAC
1 AAAAAAAACAC
*
293135 AACAAAAAAACAAA
1 -A-AAAAAAAC-AC
293149 AAAAAAAACAC
1 AAAAAAAACAC
293160 AAAAAAAA
1 AAAAAAAA
293168 TGCAAAGGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
11 19 0.51
12 9 0.24
13 8 0.22
14 1 0.03
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAC
Found at i:293425 original size:17 final size:16
Alignment explanation
Indices: 293403--293455 Score: 81
Period size: 15 Copynumber: 3.3 Consensus size: 16
293393 TGTTCTTTTC
293403 CAAAAAAAGAAACAAAA
1 CAAAAAAAGAAA-AAAA
293420 CAAAAAAAGAAAAAAA
1 CAAAAAAAGAAAAAAA
*
293436 -AAGAAAAGAAAAAAA
1 CAAAAAAAGAAAAAAA
293451 CAAAA
1 CAAAA
293456 CAGAAAAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 14 0.42
16 7 0.21
17 12 0.36
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (16 bp):
CAAAAAAAGAAAAAAA
Found at i:293442 original size:23 final size:24
Alignment explanation
Indices: 293405--293461 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
293395 TTCTTTTCCA
*
293405 AAAAAAGAAACAAAACAAAAAAAG
1 AAAAAAGAAACAAAACAAAAAAAC
* *
293429 AAAAAA-AAAGAAAAGAAAAAAAC
1 AAAAAAGAAACAAAACAAAAAAAC
*
293452 AAAACAGAAA
1 AAAAAAGAAA
293462 AGCTCGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAACAAAACAAAAAAAC
Found at i:293460 original size:15 final size:15
Alignment explanation
Indices: 293405--293462 Score: 73
Period size: 15 Copynumber: 3.7 Consensus size: 15
293395 TTCTTTTCCA
293405 AAAAAAGAAACAAAAC
1 AAAAAAGAAA-AAAAC
293421 AAAAAAAGAAAAAAA-
1 -AAAAAAGAAAAAAAC
293436 AAGAAAAGAAAAAAAC
1 AA-AAAAGAAAAAAAC
*
293452 AAAACAGAAAA
1 AAAAAAGAAAA
293463 GCTCGATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
14 2 0.05
15 20 0.53
16 6 0.16
17 10 0.26
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAC
Found at i:293531 original size:12 final size:11
Alignment explanation
Indices: 293516--293544 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
293506 AAAAAGATGC
293516 AAAAAAACAAA
1 AAAAAAACAAA
293527 AAAAAAACAAA
1 AAAAAAACAAA
293538 AAAAAAA
1 AAAAAAA
293545 GGGAAAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:294560 original size:31 final size:32
Alignment explanation
Indices: 294496--295295 Score: 559
Period size: 33 Copynumber: 23.3 Consensus size: 32
294486 ATACCTTTTT
* * * * *
294496 AAAGTCCACGACTCAGTGGCAATCTCTTC-TC
1 AAAGCCCACAACTCAGTGGCACTTTTTTCTTC
* *
294527 AAAGTCCACGACTCAGTGGCA-TTTTTTCTTC
1 AAAGCCCACAACTCAGTGGCACTTTTTTCTTC
* * *
294558 AAAGCCCACAACTTC-GTGGCACCTTTTCCTTT
1 AAAGCCCACAAC-TCAGTGGCACTTTTTTCTTC
*
294590 AAAGCCCACAACTCCGTGGCACCTTCTTCTT-TTC
1 AAAGCCCACAACTCAGTGGCA-CTT-TT-TTCTTC
* *
294624 AAAGCCCACAACTCCGTGGCACTTTTTTCATCTT
1 AAAGCCCACAACTCAGTGGCACTTTTTTC-T-TC
* * *
294658 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCAGTGG--CACTTTTT-TCTTC
*
294693 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCAGTGGCACT-TTTTT--C--TTC
* * *
294730 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAAGCCCACAACTCAGTGGCACTTTTTTC-TTC
* * *
294763 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCAGTGG--CACTTTTT-TCTTC
*
294798 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCAGTGGCACT-TTTTT--C--TTC
* * *
294835 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCAGTGGCA-CTTTTT-TCTTC
*
294869 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCAGTGGCACT-TTTTT--C--TTC
* *
294906 AAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
1 AAAGCCCACAACTCAGTGGCACTTTTTTC-TTC
* * *
294939 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCAGTGG--CACTTTTT-TCTTC
*
294974 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCAGTGGCACT-TTTTT--C--TTC
* * *
295011 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCAGTGGCA-CTTTTT-TCTTC
*
295045 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCAGTGGCACT-TTTTT--C--TTC
* * *
295082 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
1 AAAGCCCACAACTCAGTGGCACT-TTTTTCTTC
*
295115 AAAGCCCACAACT-ACGTGGCACTCTTTTCCTTC
1 AAAGCCCACAACTCA-GTGGCACT-TTTTTCTTC
* *
295148 TAAGCCCACAACTCTGTGGCACTATTTTTCCTTC
1 AAAGCCCACAACTCAGTGGCACT-TTTTT-CTTC
* *
295182 TAAA-CCCACAACTCCGTGGCACTTTTTTCTTTT
1 -AAAGCCCACAACTCAGTGGCACTTTTTTC-TTC
* *
295215 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAAGCCCACAACTCAGTGGCACT-TTTTT--CTTC
* * *
295250 TAAGTCCACAACTCCGTGGCATCTTTTTTCCTTCCC
1 AAAGCCCACAACTCAGTGGCA-CTTTTTT-CTT--C
295286 AAAGCCCACA
1 AAAGCCCACA
295296 CAAGTCGGTG
Statistics
Matches: 653, Mismatches: 56, Indels: 115
0.79 0.07 0.14
Matches are distributed among these distances:
30 5 0.01
31 43 0.07
32 33 0.05
33 151 0.23
34 142 0.22
35 110 0.17
36 32 0.05
37 131 0.20
38 6 0.01
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (32 bp):
AAAGCCCACAACTCAGTGGCACTTTTTTCTTC
Found at i:294794 original size:105 final size:104
Alignment explanation
Indices: 294525--295277 Score: 931
Period size: 105 Copynumber: 7.3 Consensus size: 104
294515 CAATCTCTTC
* * * * *
294525 TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TTCAAAGCCCACAACT-TCGTGGCAC-C-TTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCT-GTGGCACTCTTTTT
* *
294585 C-CTTTAAAGCCCACAACTCCGTGGCAC-CTTCTT-CTTT
65 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
* * *
294622 TCAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTAAAGCCCACAACTCTGTGGCACACTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
294687 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
65 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTT
*
294728 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
*
294793 TTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTT
66 TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTT
*
294833 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
*
294898 CCCTTTTCAAAGCCCACAACTCCGTGGCACT-TTTTT-CTTT
65 --CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
*
294938 T-AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTTAAAGCCCACAACTCTGTGGCACTCTTTT
*
295002 TCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTT
64 T--CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
* * *
295043 TTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTC-T
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCTGTGGCACTCTT
* *
295107 TTTC-CTTTAAAGCCCACAACTACGTGGCACTC-TTTTCC--T
62 TTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
* * * * *
295146 TCTAAGCCCACAACTCTGTGGCACTATTTTTCCTTCTAAA-CCCACAACTCCGTGGCACT-TTTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
295209 TC-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
64 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTT
* *
295250 T--AAGTCCACAACTCCGTGGCATCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTT
295278 TCCTTCCCAA
Statistics
Matches: 599, Mismatches: 31, Indels: 48
0.88 0.05 0.07
Matches are distributed among these distances:
97 20 0.03
98 7 0.01
100 71 0.12
101 14 0.02
102 30 0.05
103 54 0.09
104 55 0.09
105 191 0.32
106 93 0.16
107 13 0.02
108 51 0.09
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (104 bp):
TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
Found at i:294885 original size:176 final size:174
Alignment explanation
Indices: 294555--295282 Score: 1127
Period size: 176 Copynumber: 4.2 Consensus size: 174
294545 GCATTTTTTC
* * *
294555 TTCAAAGCCCACAACTTCGTGGCACC-TTTTCCTTTAAAGCCCACAACTCCGTGGCAC-CTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTAAAGCCCACAACTCTGTGGCACACTTTTT
* * * * *
294618 CTTTTCAAAGCCCACAACTCCGTGGCACT-TTTTTCATCTTAAAGCCCACAACTCTGTGGCACAC
66 CTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-C
294682 TTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
130 TTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
*
294727 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTAAAGCCCACAACTCTGTGGCACACTTTTT
294792 CTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC
66 CTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCAC
294857 CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
129 CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
* *
294903 TTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCTGTGGCACACTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTAAAGCCCACAACTCTGTGGCACACTTTTT
294968 CTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC
66 CTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCAC
*
295033 CTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTT
129 CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
*
295079 TTCAAAGCCCACAACTCCGTGGCA-CTCTTTTCCTTTAAAGCCCACAACTAC-GTGGCACTC-TT
1 TTCAAAGCCCACAACTCCGTGGCACCT-TTTTCCTTTAAAGCCCACAACT-CTGTGGCACACTTT
* * * *
295141 TTCCTTCT-AAGCCCACAACTCTGTGGCACTATTTTTCCTTCTAAA-CCCACAACTCCGTGGCAC
64 TTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC
*
295204 TTTTTTC-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
129 CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
* *
295249 TT--AAGTCCACAACTCCGTGGCATCTTTTTTCCTT
1 TTCAAAGCCCACAACTCCGTGGCA-CCTTTTTCCTT
295283 CCCAAAGCCC
Statistics
Matches: 525, Mismatches: 22, Indels: 21
0.92 0.04 0.04
Matches are distributed among these distances:
168 19 0.04
169 8 0.02
170 40 0.08
171 24 0.05
172 28 0.05
173 34 0.06
174 59 0.11
175 14 0.03
176 277 0.53
177 22 0.04
ACGTcount: A:0.21, C:0.34, G:0.11, T:0.34
Consensus pattern (174 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTAAAGCCCACAACTCTGTGGCACACTTTTT
CTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCT
TTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
Found at i:295278 original size:35 final size:34
Alignment explanation
Indices: 294527--295282 Score: 908
Period size: 34 Copynumber: 21.9 Consensus size: 34
294517 ATCTCTTCTC
* * * *
294527 AAAGTCCACGACTCAGTGGCA-TTTTTT-C-TTC
1 AAAGCCCACAACTCCGTGGCACTTTTTTCCTTTT
* *
294558 AAAGCCCACAACTTCGTGGCAC-CTTTTCC-TTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCCTTTT
* *
294590 AAAGCCCACAACTCCGTGGCACCTTCTT-CTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCCTTTT
* *
294623 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCCTTTT
* * *
294658 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-TTTTTTCCTTTT
294693 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACT-TTTTT-CCTTTT
*
294729 CAAAGCCCACAACTCCGTGGCACCTTTTT-CTTTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCCTTTT
* * *
294763 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-TTTTTTCCTTTT
*
294798 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACT-TTTTT-CCTTTT
* *
294834 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCCTTTT
294869 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACT-TTTTT-CCTTTT
294905 CAAAGCCCACAACTCCGTGGCACTTTTTT-CTTTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCCTTTT
* * *
294939 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-TTTTTTCCTTTT
*
294974 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACT-TTTTT-CCTTTT
* *
295010 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCCTTTT
*
295045 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACT-TTTTT-CCTTTT
*
295081 CAAAGCCCACAACTCCGTGGCACTCTTTTCC-TTT
1 -AAAGCCCACAACTCCGTGGCACTTTTTTCCTTTT
* * *
295115 AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCCTTTT
* *
295149 -AAGCCCACAACTCTGTGGCACTATTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACT-TTTTTCCTTTT
295183 AAA-CCCACAACTCCGTGGCACTTTTTT-CTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTCCTTTT
295215 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACT-TTTTT-CCTTTT
*
295251 -AAGTCCACAACTCCGTGGCATCTTTTTTCCTT
1 AAAGCCCACAACTCCGTGGCA-CTTTTTTCCTT
295283 CCCAAAGCCC
Statistics
Matches: 640, Mismatches: 51, Indels: 65
0.85 0.07 0.09
Matches are distributed among these distances:
31 21 0.03
32 32 0.05
33 121 0.19
34 153 0.24
35 148 0.23
36 56 0.09
37 109 0.17
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACTTTTTTCCTTTT
Found at i:295481 original size:55 final size:52
Alignment explanation
Indices: 295349--295483 Score: 153
Period size: 52 Copynumber: 2.5 Consensus size: 52
295339 GCAACCCCTC
* *
295349 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTTCATCTT
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTTCATCTT
** * * *
295401 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTT-TCATCTT
* * *
295456 TAAGCCCAATATCGTTGGCCATGAATCA
1 TAAGCCCAATATAGCTGGCCTTGAATCA
295484 ACATATTGGC
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
52 33 0.49
54 5 0.07
55 29 0.43
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (52 bp):
TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTTCATCTT
Found at i:295589 original size:49 final size:49
Alignment explanation
Indices: 295511--295764 Score: 241
Period size: 49 Copynumber: 5.1 Consensus size: 49
295501 TCACTCTTCT
* * *
295511 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
* *
295560 CATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
295609 CA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
* * * ** *
295652 CACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGA
1 --CATCTT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
* * * * *
295704 CATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGG
1 CAT-C----T-TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
295759 CATCTT
1 CATCTT
295765 TATCACTCTT
Statistics
Matches: 167, Mismatches: 23, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
43 38 0.23
45 3 0.02
49 47 0.28
50 5 0.03
52 35 0.21
54 1 0.01
55 37 0.22
56 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (49 bp):
CATCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
Found at i:295630 original size:43 final size:44
Alignment explanation
Indices: 295521--295655 Score: 191
Period size: 43 Copynumber: 3.0 Consensus size: 44
295511 CATCATCATT
*
295521 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* *
295570 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
295613 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
295656 TTTTCCATCT
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
43 41 0.51
45 1 0.01
49 38 0.47
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
Done.