Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 15 of 222
Found at i:4892179 original size:5 final size:5
Alignment explanation
Indices: 4892169--4892207 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
4892159 AATTTACATA
4892169 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
4892208 ATGTTAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:4894291 original size:55 final size:55
Alignment explanation
Indices: 4894225--4894335 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
4894215 AATGCCATAG
4894225 AATAACTTCACCTATTCTTAATACGAAAGGTTGTTTTTATAATTTTCTTAATCGA
1 AATAACTTCACCTATTCTTAATACGAAAGGTTGTTTTTATAATTTTCTTAATCGA
*
4894280 AATAACTTCACCTATTCTTAATACGAAAGGTTGTTTTTATAATTTTTTTAATCGA
1 AATAACTTCACCTATTCTTAATACGAAAGGTTGTTTTTATAATTTTCTTAATCGA
4894335 A
1 A
4894336 TTAGTGTTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (55 bp):
AATAACTTCACCTATTCTTAATACGAAAGGTTGTTTTTATAATTTTCTTAATCGA
Found at i:4894635 original size:21 final size:20
Alignment explanation
Indices: 4894609--4894659 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
4894599 ATAGTGGCAT
*
4894609 TGAGATTAATTATTATAGCGA
1 TGAGATTAA-TATTATAGCAA
*
4894630 TGAGATTGAATATTTTAGCAA
1 TGAGATT-AATATTATAGCAA
*
4894651 TAAGATTAA
1 TGAGATTAA
4894660 AAACAGTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.08
21 22 0.85
22 2 0.08
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (20 bp):
TGAGATTAATATTATAGCAA
Found at i:4894831 original size:23 final size:23
Alignment explanation
Indices: 4894800--4894853 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
4894790 TCGAAATATG
* *
4894800 AAAATAATTTAAAATTGTTAATT
1 AAAAAAATTTAAAATTGTTAAAT
* * *
4894823 ATAAAAATTTGAAATTTTTAAAT
1 AAAAAAATTTAAAATTGTTAAAT
4894846 AAAAAAAT
1 AAAAAAAT
4894854 CAGATATAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (23 bp):
AAAAAAATTTAAAATTGTTAAAT
Found at i:4895370 original size:6 final size:6
Alignment explanation
Indices: 4895327--4895351 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4895317 AATGTTATTT
4895327 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
4895352 TATATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:4896708 original size:28 final size:29
Alignment explanation
Indices: 4896677--4896748 Score: 69
Period size: 30 Copynumber: 2.5 Consensus size: 29
4896667 AAAAAATTTC
*
4896677 AATAAATAAAAAAAGTATAA-AATTATTA
1 AATAAATAAAAAAAATATAATAATTATTA
* *
4896705 AATATCAA-AATAAAAAATATAATTATTTTTA
1 AATA--AATAA-AAAAAATATAATAATTATTA
4896736 AA-AAATAAAAAAA
1 AATAAATAAAAAAA
4896749 TGCAGGTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
28 11 0.31
29 4 0.11
30 13 0.36
31 8 0.22
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (29 bp):
AATAAATAAAAAAAATATAATAATTATTA
Found at i:4899816 original size:56 final size:50
Alignment explanation
Indices: 4899719--4899958 Score: 171
Period size: 50 Copynumber: 4.7 Consensus size: 50
4899709 ATTTGGGTAA
* * *
4899719 AGAGATCCTATGTAAGACCATGTCTGGGACATGGCACTGGCATCATTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACTGGCA-C--CGAG---ATG
** **
4899775 AGAGGTCCCATGTAAGACCATGTCTGGGTTATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACTGGCACCGAGATG
* * *
4899825 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGACA-TGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACT-GGCACCGAGATG
** * * * * * * * * *
4899875 AGAACTCCCATGTAAGACAATATTTGGAATATGACATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACTGGCACCG-AGATG
* **
4899924 AAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
4899959 TTTGGCGTGT
Statistics
Matches: 149, Mismatches: 32, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
48 1 0.01
49 30 0.20
50 77 0.52
51 1 0.01
53 3 0.02
55 1 0.01
56 36 0.24
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACTGGCACCGAGATG
Found at i:4900186 original size:12 final size:12
Alignment explanation
Indices: 4900169--4900207 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
4900159 TTAAGCTATC
4900169 TAAGTAAATAAG
1 TAAGTAAATAAG
4900181 TAAGTAAATAAG
1 TAAGTAAATAAG
*
4900193 TAAGTAAACAAG
1 TAAGTAAATAAG
4900205 TAA
1 TAA
4900208 ATGAGAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.59, C:0.03, G:0.15, T:0.23
Consensus pattern (12 bp):
TAAGTAAATAAG
Found at i:4904089 original size:50 final size:50
Alignment explanation
Indices: 4903961--4904202 Score: 220
Period size: 50 Copynumber: 4.7 Consensus size: 50
4903951 GATAATAACA
* * * * *
4903961 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGA-TGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATAT-CGG
* * * *
4904010 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
* *** *
4904060 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
** * *
4904110 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC---GG
*
4904166 TGCCAATGCCAGGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
4904203 TCTCTTTACC
Statistics
Matches: 155, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 80 0.52
53 2 0.01
56 35 0.23
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
Found at i:4907740 original size:20 final size:20
Alignment explanation
Indices: 4907715--4907755 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
4907705 TGTGTCTCCA
4907715 AAATAAAATTGGTGGCAATT
1 AAATAAAATTGGTGGCAATT
*
4907735 AAATAAAATTTGTGGCAATT
1 AAATAAAATTGGTGGCAATT
4907755 A
1 A
4907756 TCATGCCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.32
Consensus pattern (20 bp):
AAATAAAATTGGTGGCAATT
Found at i:4911357 original size:14 final size:13
Alignment explanation
Indices: 4911329--4911353 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4911319 ATTTATTTTT
4911329 ATATAAAAAATTA
1 ATATAAAAAATTA
4911342 ATATAAAAAATT
1 ATATAAAAAATT
4911354 TAATTTCGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATAAAAAATTA
Found at i:4921480 original size:72 final size:73
Alignment explanation
Indices: 4921323--4921745 Score: 403
Period size: 72 Copynumber: 5.8 Consensus size: 73
4921313 TAATCAAGAC
* * * *
4921323 CAACCTTTAAAAAAGGTTGGGATAGATCCGTCGAAGGCAACCTTAAAAAGGTTGGGATAGAACTT
1 CAACCTTTAAAAAAGGTTGGGATAAAACCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTT
* *
4921388 GTGTGAGG
66 GTCTAAGG
** * * *
4921396 CAA-CTTTCAAAAATA-GTT-GGATGGAGCCATCTAAGGCAACCTTAAAAAGGTTGGGATAGACT
1 CAACCTTT-AAAAA-AGGTTGGGATAAAACCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACC
*
4921458 TTGTCTAAGA
64 TTGTCTAAGG
* * * * *
4921468 TAACCTATAAAAAAGGTTGGGAT-AAACCTGTC-CAGGTAACCTTAAAAAGGTTGGGATAGACCA
1 CAACCTTTAAAAAAGGTTGGGATAAAACC-GTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCT
*
4921531 TATCTAAGG
65 TGTCTAAGG
* * * * *
4921540 TAACCTTTAAAAAAGGTTGGGATAGACCCGTCAAAGGCAACCTTAAAAAGGTAGGGATAGACCTT
1 CAACCTTTAAAAAAGGTTGGGATAAAACCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTT
4921605 GTCTAAGG
66 GTCTAAGG
* * * * * * *
4921613 CAACTTTTAAAAAA-GTTGGGATAAATCCGTTTAATGTAACCTTAAAAAAGTTGGGATAAACCTT
1 CAACCTTTAAAAAAGGTTGGGATAAAACCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTT
*
4921677 GTCTAAGA
66 GTCTAAGG
** * * * * * *
4921685 CAATATTT-AAAAAGTTTAGGAT-AAACCTGTCTAAAGTATCCTTAAAAAGGTTGAGATAGAC
1 CAACCTTTAAAAAAGGTTGGGATAAAACC-GTCTAAGGCAACCTTAAAAAGGTTGGGATAGAC
4921746 ATGGATAAGG
Statistics
Matches: 289, Mismatches: 51, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
71 10 0.03
72 208 0.72
73 70 0.24
74 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (73 bp):
CAACCTTTAAAAAAGGTTGGGATAAAACCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTT
GTCTAAGG
Found at i:4921485 original size:145 final size:144
Alignment explanation
Indices: 4921318--4921697 Score: 419
Period size: 145 Copynumber: 2.6 Consensus size: 144
4921308 AAACCTAATC
*
4921318 AAGACCAACCTTTAAAAAAGGTTGGGATAGATCCGTCGAAGGCAACCTTAAAAAGGTTGGGATAG
1 AAGA-CAACCTTTAAAAAAGGTTGGGATA-ATCCGTC-AAGGTAACCTTAAAAAGGTTGGGATAG
* * * * *
4921383 AACTTGTGTGAGGCAA-CTTTCAAAAATA-GTT-GGATGGAGCCATCTAAGGCAACCTTAAAAAG
63 AACTTGTCTAAGGCAACCTTT-AAAAA-AGGTTGGGATAGACCCATCAAAGGCAACCTTAAAAAG
* *
4921445 GTTGGGATAGACTTTGTCT
126 GTAGGGATAGACCTTGTCT
* * * * *
4921464 AAGATAACCTATAAAAAAGGTTGGGATAAACCTGTCCAGGTAACCTTAAAAAGGTTGGGATAGAC
1 AAGACAACCTTTAAAAAAGGTTGGGATAATCC-GTCAAGGTAACCTTAAAAAGGTTGGGATAGAA
* * * *
4921529 CATATCTAAGGTAACCTTTAAAAAAGGTTGGGATAGACCCGTCAAAGGCAACCTTAAAAAGGTAG
65 CTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCCATCAAAGGCAACCTTAAAAAGGTAG
4921594 GGATAGACCTTGTCT
130 GGATAGACCTTGTCT
* * * * *
4921609 AAGGCAACTTTTAAAAAA-GTTGGGATAAATCCGTTTAATGTAACCTTAAAAAAGTTGGGATA-A
1 AAGACAACCTTTAAAAAAGGTTGGGAT-AATCCG-TCAAGGTAACCTTAAAAAGGTTGGGATAGA
* **
4921672 ACCTTGTCTAAGACAATATTTAAAAA
64 A-CTTGTCTAAGGCAACCTTTAAAAA
4921698 GTTTAGGATA
Statistics
Matches: 194, Mismatches: 33, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
143 1 0.01
144 56 0.29
145 133 0.69
146 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.25
Consensus pattern (144 bp):
AAGACAACCTTTAAAAAAGGTTGGGATAATCCGTCAAGGTAACCTTAAAAAGGTTGGGATAGAAC
TTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCCATCAAAGGCAACCTTAAAAAGGTAGG
GATAGACCTTGTCT
Found at i:4921681 original size:217 final size:217
Alignment explanation
Indices: 4921324--4921745 Score: 571
Period size: 217 Copynumber: 1.9 Consensus size: 217
4921314 AATCAAGACC
* * *
4921324 AACCTTTAAAAAAGGTTGGGATAGATCCGTCGAAGGCAACCTTAAAAAGGTTGGGATAGAACTTG
1 AACCTTTAAAAAAGGTTGGGATAGACCCGTCAAAGGCAACCTTAAAAAGGTAGGGATAGAACTTG
* * ** *
4921389 TGTGAGGCAACTTTCAAAAATAGTTGGATGGAGCCATCTAAGGCAACCTTAAAAAGGTTGGGATA
66 TCTAAGGCAACTTTCAAAAATAGTTGGATAAAGCCATCTAAGGCAACCTTAAAAAAGTTGGGATA
* * * * * *
4921454 GACTTTGTCTAAGATAACCTA-TAAAAAAGGTTGGGATAAACCTGTC-CAGGTAACCTTAAAAAG
131 AACCTTGTCTAAGACAA--TATTAAAAAAGGTTAGGATAAACCTGTCTAAAGTAACCTTAAAAAG
*
4921517 GTTGGGATAGACCATATCTAAGGT
194 GTTGAGATAGACCATATCTAAGGT
*
4921541 AACCTTTAAAAAAGGTTGGGATAGACCCGTCAAAGGCAACCTTAAAAAGGTAGGGATAGACCTTG
1 AACCTTTAAAAAAGGTTGGGATAGACCCGTCAAAGGCAACCTTAAAAAGGTAGGGATAGAACTTG
* * * * * *
4921606 TCTAAGGCAACTTTTAAAAA-AGTTGGGATAAATCCGTTTAATGTAACCTTAAAAAAGTTGGGAT
66 TCTAAGGCAACTTTCAAAAATAGTT-GGATAAAGCCATCTAAGGCAACCTTAAAAAAGTTGGGAT
* * *
4921670 AAACCTTGTCTAAGACAATATTTAAAAAGTTTAGGATAAACCTGTCTAAAGTATCCTTAAAAAGG
130 AAACCTTGTCTAAGACAATATTAAAAAAGGTTAGGATAAACCTGTCTAAAGTAACCTTAAAAAGG
4921735 TTGAGATAGAC
195 TTGAGATAGAC
4921746 ATGGATAAGG
Statistics
Matches: 177, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
215 2 0.01
216 26 0.15
217 149 0.84
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (217 bp):
AACCTTTAAAAAAGGTTGGGATAGACCCGTCAAAGGCAACCTTAAAAAGGTAGGGATAGAACTTG
TCTAAGGCAACTTTCAAAAATAGTTGGATAAAGCCATCTAAGGCAACCTTAAAAAAGTTGGGATA
AACCTTGTCTAAGACAATATTAAAAAAGGTTAGGATAAACCTGTCTAAAGTAACCTTAAAAAGGT
TGAGATAGACCATATCTAAGGT
Found at i:4924613 original size:23 final size:23
Alignment explanation
Indices: 4924583--4924629 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
4924573 AAACCGACTC
4924583 TTATTTAAGCGTTGTCTTAGGCA
1 TTATTTAAGCGTTGTCTTAGGCA
4924606 TTATTTAAGCGTTGTCTTAGGCA
1 TTATTTAAGCGTTGTCTTAGGCA
4924629 T
1 T
4924630 ACATATCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (23 bp):
TTATTTAAGCGTTGTCTTAGGCA
Found at i:4924826 original size:139 final size:140
Alignment explanation
Indices: 4924606--4924995 Score: 588
Period size: 139 Copynumber: 2.8 Consensus size: 140
4924596 GTCTTAGGCA
* *
4924606 TTATTTAAGCGTTGTCTTAGGCATACATATCCCAACTCTTATACAAAGGGTTGGCCAAAGTGTAT
1 TTATTTAAGCGTTGCCTTAGGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGTAT
* *
4924671 ATCGACAAGTCTATCCCAATACTTAGGAAAGTGTCGGCCCAAAAGTGTCGGCATAGTGTTGGACA
66 ATCGACAAGTCTATCCCAACACTTAGGAAAGTGTCGGCCCAAAAGTGTCAGCATAGTGTTGGACA
*
4924736 AAGCCGACTC
131 AAGCCAACTC
* * *
4924746 TTATTTAAGCATTGCCTTAGGCATGCATATCCCAACTCTTATATAAA-AGTTGGCCAAAGTGTAT
1 TTATTTAAGCGTTGCCTTAGGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGTAT
* * *
4924810 ATCGGCAAGTCTATCCCAGCACTTAGGAAAGCGTCGGCCCAAAAGTGTCAGCATAGTGTTGGACA
66 ATCGACAAGTCTATCCCAACACTTAGGAAAGTGTCGGCCCAAAAGTGTCAGCATAGTGTTGGACA
*
4924875 AAGGCAACTC
131 AAGCCAACTC
* *
4924885 TTATTT--GCGTTGCCTTAAGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAATGTAT
1 TTATTTAAGCGTTGCCTTAGGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGTAT
* ** * *
4924948 TTCGACAAGTCTATCCCAACACTTAAAAAAATGTCGCCCCAAAAGTGT
66 ATCGACAAGTCTATCCCAACACTTAGGAAAGTGTCGGCCCAAAAGTGT
4924996 TGCAGTAAGT
Statistics
Matches: 224, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
137 35 0.16
138 56 0.25
139 90 0.40
140 43 0.19
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (140 bp):
TTATTTAAGCGTTGCCTTAGGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGTAT
ATCGACAAGTCTATCCCAACACTTAGGAAAGTGTCGGCCCAAAAGTGTCAGCATAGTGTTGGACA
AAGCCAACTC
Found at i:4927014 original size:26 final size:26
Alignment explanation
Indices: 4926979--4927030 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
4926969 AATGTGAAAG
*
4926979 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
4927005 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
4927031 TTCAGCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:4927048 original size:103 final size:105
Alignment explanation
Indices: 4926796--4927062 Score: 441
Period size: 105 Copynumber: 2.6 Consensus size: 105
4926786 TTGTATATAA
** *
4926796 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
4926860 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
4926901 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
4926966 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
4927004 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
4927063 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
103 60 0.39
104 24 0.16
105 68 0.44
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:4934236 original size:41 final size:41
Alignment explanation
Indices: 4934191--4934388 Score: 315
Period size: 41 Copynumber: 4.8 Consensus size: 41
4934181 TTGTATATAA
* ** * * *
4934191 CACCGGCATAAAGCCTGCTAGGCACCAAGCCCGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* *
4934232 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
*
4934273 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
4934314 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
4934355 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGA
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGA
4934389 ACTTACAAAA
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 145 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
Found at i:4935642 original size:42 final size:42
Alignment explanation
Indices: 4935579--4935677 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 42
4935569 CTCTCGGTAT
* *
4935579 CGCACACTTAGTGCCCGTTATTCAACATCATTATTATAATTC
1 CGCACACTTAGTGCCCATTATTCAACATCATCATTATAATTC
* * * *
4935621 CGCACACTTAGTGCCTATTATTCGACATCATCATTTTAATTT
1 CGCACACTTAGTGCCCATTATTCAACATCATCATTATAATTC
**
4935663 TACACACTTAGTGCC
1 CGCACACTTAGTGCC
4935678 ATTCATATAG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.36
Consensus pattern (42 bp):
CGCACACTTAGTGCCCATTATTCAACATCATCATTATAATTC
Found at i:4940736 original size:18 final size:19
Alignment explanation
Indices: 4940698--4940737 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
4940688 ATGGAGGTAA
4940698 TAAAATGTGATAATAAAAT
1 TAAAATGTGATAATAAAAT
4940717 TAAAATGT-ATAA-AAATAT
1 TAAAATGTGATAATAAA-AT
4940735 TAA
1 TAA
4940738 TAATTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.15
18 9 0.45
19 8 0.40
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (19 bp):
TAAAATGTGATAATAAAAT
Found at i:4948867 original size:17 final size:19
Alignment explanation
Indices: 4948845--4948881 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4948835 TTTTTAAATA
4948845 TTAATA-TAAT-TATTTTT
1 TTAATATTAATATATTTTT
4948862 TTAATATTAATATATTTTT
1 TTAATATTAATATATTTTT
4948881 T
1 T
4948882 ATTTAATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTAATATTAATATATTTTT
Found at i:4948867 original size:23 final size:22
Alignment explanation
Indices: 4948830--4948888 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 22
4948820 GGAATATTTC
4948830 TTATTTTTTTAAATATTAATATAA
1 TTATTTTTTT-AATATTAATAT-A
4948854 TTATTTTTTTAATATTAATATA
1 TTATTTTTTTAATATTAATATA
4948876 TT-TTTTATTTAAT
1 TTATTTT-TTTAAT
4948889 TAGATTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 4 0.12
22 9 0.26
23 11 0.32
24 10 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATTTTTTTAATATTAATATA
Found at i:4957521 original size:12 final size:12
Alignment explanation
Indices: 4957504--4957536 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4957494 TGTGAATCGG
4957504 TTTTTTAAACAA
1 TTTTTTAAACAA
4957516 TTTTTTAAACAA
1 TTTTTTAAACAA
*
4957528 TTTATTAAA
1 TTTTTTAAA
4957537 TTGAATCGAT
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:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTTTAAACAA
Found at i:4966200 original size:21 final size:21
Alignment explanation
Indices: 4966174--4966227 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
4966164 CGGCAGTGGT
*
4966174 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATACTGTAGC
4966195 GGTGAGATTAGATACTGTAGC
1 GGTGAGATTAGATACTGTAGC
*
4966216 AGTGAGATTAGA
1 GGTGAGATTAGA
4966228 AACATGATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGATACTGTAGC
Found at i:4990619 original size:55 final size:57
Alignment explanation
Indices: 4990505--4990637 Score: 164
Period size: 59 Copynumber: 2.3 Consensus size: 57
4990495 ATATTTTTTG
4990505 TATATTTATTTATTTATTATTCTTCACTTTCTAAATACCTTAATATTATTTATAATATT
1 TATATTTATTTATTTATTATTCTTCACTTTCTAAATACCTTAATATTA--TATAATATT
* * *
4990564 TATATTTATTTATTTATTATTCTTTACTTTTTAAATACC-TAA-ATCTA-ATATTATT
1 TATATTTATTTATTTATTATTCTTCACTTTCTAAATACCTTAATAT-TATATAATATT
* *
4990619 TATATCTGTTGTATTTATT
1 TATATTTATT-TATTTATT
4990638 TATTTGTTCA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
55 15 0.22
56 8 0.12
57 2 0.03
58 5 0.07
59 37 0.55
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.59
Consensus pattern (57 bp):
TATATTTATTTATTTATTATTCTTCACTTTCTAAATACCTTAATATTATATAATATT
Found at i:4990708 original size:69 final size:68
Alignment explanation
Indices: 4990567--4990714 Score: 161
Period size: 69 Copynumber: 2.2 Consensus size: 68
4990557 TAATATTTAT
* * * *
4990567 ATTTATTTATTTATTATTCTTTACTTTTTAAATACCTAAATCTAATATTATTTATATCTGTTGTA
1 ATTTATTTATTCATTATTCTTTACCTTTTAAACACCTAAATCTAATATTACTTATATCTGTTGTA
**
4990632 TTT
66 TCG
* * ** * * * *
4990635 ATTTATTTGTTCATTATTCTTTTACCTTTTAGACATTTAAATTTAATATTACTTATGTTTGTTTT
1 ATTTATTTATTCATTATTC-TTTACCTTTTAAACACCTAAATCTAATATTACTTATATCTGTTGT
4990700 ATCG
65 ATCG
4990704 ATTTATTTATT
1 ATTTATTTATT
4990715 TATTTATTTA
Statistics
Matches: 64, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
68 17 0.27
69 47 0.73
ACGTcount: A:0.27, C:0.09, G:0.05, T:0.59
Consensus pattern (68 bp):
ATTTATTTATTCATTATTCTTTACCTTTTAAACACCTAAATCTAATATTACTTATATCTGTTGTA
TCG
Found at i:4990711 original size:4 final size:4
Alignment explanation
Indices: 4990704--4990733 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
4990694 TGTTTTATCG
4990704 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
4990734 CATTCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:4990727 original size:85 final size:84
Alignment explanation
Indices: 4990630--4990803 Score: 208
Period size: 85 Copynumber: 2.1 Consensus size: 84
4990620 ATATCTGTTG
* * * * * **
4990630 TATTTATTTATTTGTTCATTATTC-TTTTACCTTTTAGACATTTAAATTTAATATTACT-TATGT
1 TATTTATTTATTTATTCATCATTCTTTTTA-CTTCTAAACACTTAAATTTAATATTA-TGTACAT
4990693 TTGTTTTATCGATTTATTTATT
64 TTGTTTTATCGATTTATTTA-T
* *
4990715 TATTTATTTATTTATTTATCATTCTTTTTACTTCTAAATACTTAAATTTAATATTATGTACATTT
1 TATTTATTTATTTATTCATCATTCTTTTTACTTCTAAACACTTAAATTTAATATTATGTACATTT
**
4990780 GTTTTATTTATTTATTTAT
66 GTTTTATCGATTTATTTAT
4990799 TATTT
1 TATTT
4990804 TTTTCTTACA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
84 7 0.09
85 64 0.84
86 5 0.07
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (84 bp):
TATTTATTTATTTATTCATCATTCTTTTTACTTCTAAACACTTAAATTTAATATTATGTACATTT
GTTTTATCGATTTATTTAT
Found at i:4996494 original size:27 final size:28
Alignment explanation
Indices: 4996427--4996496 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
4996417 CAAGTGTTTC
*
4996427 AATTTCATACAATGTCATCAATCTCAATCT
1 AATTT-ATAC-ATATCATCAATCTCAATCT
*
4996457 AATTTATACATATCATCAATCT-ATTACT
1 AATTTATACATATCATCAATCTCAAT-CT
4996485 -ATTTATACATAT
1 AATTTATACATAT
4996497 ATCTCCATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
27 14 0.38
28 14 0.38
29 4 0.11
30 5 0.14
ACGTcount: A:0.39, C:0.19, G:0.01, T:0.41
Consensus pattern (28 bp):
AATTTATACATATCATCAATCTCAATCT
Found at i:4997199 original size:26 final size:22
Alignment explanation
Indices: 4997146--4997206 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 22
4997136 ATCATCAATT
4997146 AATATACATATATATAAATATTC
1 AATAT-CATATATATAAATATTC
*
4997169 AATATCATATAGTATAATTCATATC
1 AATATCATATA-TATAAAT-AT-TC
4997194 ACATATCATATAT
1 A-ATATCATATAT
4997207 TAATAATGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 6 0.18
23 11 0.33
24 2 0.06
25 4 0.12
26 10 0.30
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (22 bp):
AATATCATATATATAAATATTC
Found at i:5000678 original size:23 final size:23
Alignment explanation
Indices: 5000651--5000694 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
5000641 GACTTAAATT
5000651 TTAAA-ATCTAAAAAGTAAATAGA
1 TTAAATATCTAAAAA-TAAATAGA
*
5000674 TTAAATTTCTAAAAATAAATA
1 TTAAATATCTAAAAATAAATA
5000695 TTTTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (23 bp):
TTAAATATCTAAAAATAAATAGA
Found at i:5000701 original size:24 final size:23
Alignment explanation
Indices: 5000648--5000698 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
5000638 TTGGACTTAA
5000648 ATTTTAAAATCTAAAAAGTAAAT
1 ATTTTAAAATCTAAAAAGTAAAT
** *
5000671 AGATTAAATTTCTAAAAA-TAAAT
1 ATTTTAAA-ATCTAAAAAGTAAAT
5000694 ATTTT
1 ATTTT
5000699 TAATAAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (23 bp):
ATTTTAAAATCTAAAAAGTAAAT
Found at i:5001952 original size:39 final size:41
Alignment explanation
Indices: 5001881--5001970 Score: 121
Period size: 39 Copynumber: 2.2 Consensus size: 41
5001871 TAAAAAATAT
* * * *
5001881 TTATATTAAAAAATACTACCATAAATATAATAAATGTTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATGTTA
*
5001922 TTATATTAAAAAACAC-A-AATAAATATAATAACTATGTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATGTTA
5001961 TTATATTAAA
1 TTATATTAAA
5001971 TATAATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 28 0.64
40 1 0.02
41 15 0.34
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATGTTA
Found at i:5002115 original size:31 final size:31
Alignment explanation
Indices: 5002078--5002146 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 31
5002068 ATTTGATATA
5002078 AATATAA-AATATATATAATTATTATT-TAACAT
1 AATATAATAATATA-AT-ATTATT-TTATAACAT
5002110 -ATATAATTAATATAATATTATTTTATAACAT
1 AATATAA-TAATATAATATTATTTTATAACAT
5002141 AATATA
1 AATATA
5002147 TTTGGGCTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
30 2 0.06
31 18 0.55
32 7 0.21
33 6 0.18
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (31 bp):
AATATAATAATATAATATTATTTTATAACAT
Found at i:5003157 original size:21 final size:22
Alignment explanation
Indices: 5003112--5003168 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 22
5003102 TAAAATAAAG
*
5003112 TTATTATTTGAAAAAAGTTTAA
1 TTATTATTTGAAAAAAATTTAA
5003134 TTATTATTT-AAAAAAATTCT-A
1 TTATTATTTGAAAAAAATT-TAA
5003155 TTATAATATTTGAA
1 TTAT--TATTTGAA
5003169 TTAATAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 13 0.43
22 10 0.33
23 5 0.17
24 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (22 bp):
TTATTATTTGAAAAAAATTTAA
Found at i:5003359 original size:17 final size:17
Alignment explanation
Indices: 5003325--5003364 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
5003315 AATTGAATAG
*
5003325 AATTTTACTTTTTATTT
1 AATTTTACTTTCTATTT
5003342 AATTTATACTTTCT-TTT
1 AATTT-TACTTTCTATTT
5003359 AATTTT
1 AATTTT
5003365 CTTGTAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 13 0.62
18 7 0.33
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (17 bp):
AATTTTACTTTCTATTT
Found at i:5005909 original size:18 final size:18
Alignment explanation
Indices: 5005886--5005920 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5005876 GTAGAGGATC
*
5005886 AGGATCAGCGTCAGCCAA
1 AGGATCAGCATCAGCCAA
5005904 AGGATCAGCATCAGCCA
1 AGGATCAGCATCAGCCA
5005921 CACCTAAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.29, G:0.26, T:0.11
Consensus pattern (18 bp):
AGGATCAGCATCAGCCAA
Found at i:5007457 original size:10 final size:9
Alignment explanation
Indices: 5007383--5007488 Score: 67
Period size: 9 Copynumber: 11.9 Consensus size: 9
5007373 AATAACATTC
5007383 AAAAATTTA
1 AAAAATTTA
*
5007392 AAATATTTA
1 AAAAATTTA
* *
5007401 TAAAATTTT
1 AAAAATTTA
*
5007410 CAAAATTT-
1 AAAAATTTA
* *
5007418 -ATATTTTA
1 AAAAATTTA
5007426 AAAAATTATA
1 AAAAATT-TA
*
5007436 ATAAATTT-
1 AAAAATTTA
5007444 AAAAATTGTA
1 AAAAATT-TA
*
5007454 AAAAATATA
1 AAAAATTTA
*
5007463 AAAAAGGTT-
1 AAAAA-TTTA
*
5007472 AAAATTTTA
1 AAAAATTTA
5007481 AAAAATTT
1 AAAAATTT
5007489 CTAAAATAAT
Statistics
Matches: 73, Mismatches: 17, Indels: 14
0.70 0.16 0.13
Matches are distributed among these distances:
7 5 0.07
8 8 0.11
9 45 0.62
10 15 0.21
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.39
Consensus pattern (9 bp):
AAAAATTTA
Found at i:5007494 original size:10 final size:10
Alignment explanation
Indices: 5007420--5007494 Score: 52
Period size: 10 Copynumber: 7.9 Consensus size: 10
5007410 CAAAATTTAT
5007420 ATTTTAAAAA
1 ATTTTAAAAA
* *
5007430 ATTATAATAA
1 ATTTTAAAAA
5007440 A-TTT-AAAA
1 ATTTTAAAAA
*
5007448 ATTGTAAAAA
1 ATTTTAAAAA
*
5007458 A-TATAAAAA
1 ATTTTAAAAA
**
5007467 AGGTT--AAA
1 ATTTTAAAAA
5007475 ATTTTAAAAA
1 ATTTTAAAAA
5007485 ATTTCTAAAA
1 ATTT-TAAAA
5007495 TAATAATTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
8 10 0.20
9 12 0.24
10 22 0.45
11 5 0.10
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:5007657 original size:15 final size:17
Alignment explanation
Indices: 5007626--5007657 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
5007616 ATATAATTAG
5007626 TTATTGTGACAATATTT
1 TTATTGTGACAATATTT
5007643 TTATT-TGAC-ATATTT
1 TTATTGTGACAATATTT
5007658 AATTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.56
Consensus pattern (17 bp):
TTATTGTGACAATATTT
Found at i:5008011 original size:15 final size:17
Alignment explanation
Indices: 5007982--5008014 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
5007972 TTTTTAATTC
5007982 TATGTTTATTAATTTTA
1 TATGTTTATTAATTTTA
5007999 TATGTTT-TT-ATTTTA
1 TATGTTTATTAATTTTA
5008014 T
1 T
5008015 TAAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
TATGTTTATTAATTTTA
Found at i:5015608 original size:27 final size:27
Alignment explanation
Indices: 5015578--5015630 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
5015568 TAACGGCTCA
*
5015578 GTGACTAAAATGTTATAACACGTTAAC
1 GTGACTAAAATGTTACAACACGTTAAC
5015605 GTGACTAAAATGTTACAACACGTTAA
1 GTGACTAAAATGTTACAACACGTTAA
5015631 TGTAAGTGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (27 bp):
GTGACTAAAATGTTACAACACGTTAAC
Found at i:5015643 original size:31 final size:27
Alignment explanation
Indices: 5015577--5015648 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 27
5015567 TTAACGGCTC
*
5015577 AGTGACTAAAATGTTATAACACGTTAA
1 AGTGACTAAAATGTTACAACACGTTAA
*
5015604 CGTGACTAAAATGTTACAACACGTTAATGTA
1 AGTGACTAAAATGTTACAACACGTT-A---A
5015635 AGTGACTAAAATGT
1 AGTGACTAAAATGT
5015649 AACATTTCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 23 0.61
28 1 0.03
31 14 0.37
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (27 bp):
AGTGACTAAAATGTTACAACACGTTAA
Found at i:5016601 original size:36 final size:36
Alignment explanation
Indices: 5016556--5016628 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
5016546 AGAAGTTTAA
* * *
5016556 AGAAGCTGTCACGAG-TATAATTGATCGAGTTTGGGC
1 AGAAACTGTCACGGGAT-TAATTGATCGAGCTTGGGC
5016592 AGAAACTGTCACGGGATTAATTGATCGAGCTTGGGC
1 AGAAACTGTCACGGGATTAATTGATCGAGCTTGGGC
5016628 A
1 A
5016629 TGCACTCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (36 bp):
AGAAACTGTCACGGGATTAATTGATCGAGCTTGGGC
Found at i:5026514 original size:14 final size:14
Alignment explanation
Indices: 5026495--5026521 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5026485 AATTTTATCC
5026495 ATATATAGATATAG
1 ATATATAGATATAG
5026509 ATATATAGATATA
1 ATATATAGATATA
5026522 ACATATGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
ATATATAGATATAG
Found at i:5042922 original size:19 final size:19
Alignment explanation
Indices: 5042907--5042948 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
5042897 AATTTAATCT
5042907 CACCATGCTTATTTAAGAA
1 CACCATGCTTATTTAAGAA
* *
5042926 CACCATGCTTATTGAATAA
1 CACCATGCTTATTTAAGAA
5042945 CACC
1 CACC
5042949 CTTAACCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (19 bp):
CACCATGCTTATTTAAGAA
Found at i:5043834 original size:22 final size:21
Alignment explanation
Indices: 5043809--5043849 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5043799 AATATAAATG
5043809 ATTATACTTTAATTTTATATTA
1 ATTAT-CTTTAATTTTATATTA
* *
5043831 ATTATTTTTTATTTTATAT
1 ATTATCTTTAATTTTATAT
5043850 CTAACTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTATCTTTAATTTTATATTA
Found at i:5048727 original size:14 final size:15
Alignment explanation
Indices: 5048698--5048728 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5048688 TTTAAAATTC
5048698 GATGTATAATTTTGA
1 GATGTATAATTTTGA
5048713 GATGTATAA-TTTGA
1 GATGTATAATTTTGA
5048727 GA
1 GA
5048729 ATTAACCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (15 bp):
GATGTATAATTTTGA
Found at i:5051227 original size:222 final size:221
Alignment explanation
Indices: 5050855--5051289 Score: 635
Period size: 222 Copynumber: 2.0 Consensus size: 221
5050845 CATTAACAGG
*
5050855 CAAGACAAGTTGGTTGACTTAGATCTTTCTAACAATCATATCCATGGTGTTGTGCCTAATTGGTT
1 CAAGACAAGTTGGTTGACTTAGATCTTTCTAACAACCATATCCATGGTGTTGTGCCTAATTGGTT
** * *
5050920 GTGGAAGAGCAGCCTTTCAAGGGTAGACCTTTCTTTCAATATGATTGATTTTCCAAAACAGCTTC
66 GTGGAAGAGCAGCCTTTCAACCGTAGACATTTCTTTCAATATGATTGATTTTCCAAAACAACTTC
5050985 CCTTAAATGATGCAAACTTCTCATTT-CCAATGTTGA-CAGAATTGAATT-TGGGATCCTGTAAC
131 CCTTAAATGATGCAAACTTCTC-TTTCCCAATGTTGAGC-G-ATTG-ATTCTGGGATCCTGTAAC
*
5051047 ATAAGTGCGTTTCCAGAGTTCATCAAAACA
192 ATAAGTGCATTTCCAGAGTTCATCAAAACA
**
5051077 CAAGACAAGTTGGTTGTGTTAGATCTTTCTAACAACCATATCCATGGTGTTGTGCCTAATTGGTT
1 CAAGACAAGTTGGTTGACTTAGATCTTTCTAACAACCATATCCATGGTGTTGTGCCTAATTGGTT
* * *
5051142 GTGGAAGAGCAGTCTTT-AATCCTTAGACATTTCTTTCAATGTGATTGATTTTCCAAAACAACTT
66 GTGGAAGAGCAGCCTTTCAA-CCGTAGACATTTCTTTCAATATGATTGATTTTCCAAAACAACTT
* * * * *
5051206 CCTTTAAGTGATGCCAACTTCTCTTTCCCAATGTTGAGGCGATTGCTTCTGGGATCTTGTAACAT
130 CCCTTAAATGATGCAAACTTCTCTTTCCCAATGTTGA-GCGATTGATTCTGGGATCCTGTAACAT
*
5051271 AAGTGCATTTCCGGAGTTC
194 AAGTGCATTTCCAGAGTTC
5051290 TTGAAGAGTC
Statistics
Matches: 191, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
221 7 0.04
222 182 0.95
223 1 0.01
224 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (221 bp):
CAAGACAAGTTGGTTGACTTAGATCTTTCTAACAACCATATCCATGGTGTTGTGCCTAATTGGTT
GTGGAAGAGCAGCCTTTCAACCGTAGACATTTCTTTCAATATGATTGATTTTCCAAAACAACTTC
CCTTAAATGATGCAAACTTCTCTTTCCCAATGTTGAGCGATTGATTCTGGGATCCTGTAACATAA
GTGCATTTCCAGAGTTCATCAAAACA
Found at i:5055100 original size:21 final size:21
Alignment explanation
Indices: 5055074--5055114 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5055064 AGACGAGCAA
* *
5055074 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
5055095 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
5055115 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:5063684 original size:23 final size:23
Alignment explanation
Indices: 5063649--5063692 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
5063639 GAGTGAAAAA
5063649 AAAATACT-AAAAATCATATTTGT
1 AAAATACTAAAAAAT-ATATTTGT
* *
5063672 AAAATATTTAAAAATATATTT
1 AAAATACTAAAAAATATATTT
5063693 ATCTTTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (23 bp):
AAAATACTAAAAAATATATTTGT
Found at i:5064571 original size:82 final size:81
Alignment explanation
Indices: 5064473--5064643 Score: 324
Period size: 82 Copynumber: 2.1 Consensus size: 81
5064463 CTAAATTTGG
*
5064473 AATTTAAAGTTTAAAGCTCAAACGAAGAGTTTAGAGTTCAGATTTTAAGTTTATAATTTAAAGTT
1 AATTTAAAGTTTAAAGCTCAAACGAAGAGTTTAGAGTTCAGATTTCAAGTTTATAATTTAAAGTT
5064538 TAGGGTTTGAATTTAA
66 TAGGGTTTGAATTTAA
5064554 AATTTAGAAGTTTAAAGCTCAAACGAAGAGTTTAGAGTTCAGATTTCAAGTTTATAATTTAAAGT
1 AATTTA-AAGTTTAAAGCTCAAACGAAGAGTTTAGAGTTCAGATTTCAAGTTTATAATTTAAAGT
5064619 TTAGGGTTTGAATTTAA
65 TTAGGGTTTGAATTTAA
5064636 AATTTAAA
1 AATTTAAA
5064644 ATAAAAAGTT
Statistics
Matches: 88, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
81 8 0.09
82 80 0.91
ACGTcount: A:0.39, C:0.05, G:0.17, T:0.39
Consensus pattern (81 bp):
AATTTAAAGTTTAAAGCTCAAACGAAGAGTTTAGAGTTCAGATTTCAAGTTTATAATTTAAAGTT
TAGGGTTTGAATTTAA
Found at i:5066701 original size:21 final size:19
Alignment explanation
Indices: 5066665--5066706 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
5066655 TATGATGAAT
5066665 AAATACTATAAATTATGTA
1 AAATACTATAAATTATGTA
*
5066684 AAATATCTATACAATTATTTA
1 AAATA-CTATA-AATTATGTA
5066705 AA
1 AA
5066707 CCCCTGGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 5 0.25
21 10 0.50
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (19 bp):
AAATACTATAAATTATGTA
Found at i:5070281 original size:153 final size:152
Alignment explanation
Indices: 5069998--5070823 Score: 1107
Period size: 156 Copynumber: 5.4 Consensus size: 152
5069988 CAATTATTCG
* * * * *
5069998 TATTTTGGCCATTTGTTTGTATTTTTTTCCCGGATTTTATTACTTTTAAAAAAATACTA--TTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAAAAAAATACTATTTTTT
* **
5070061 CTAATTTTTTTTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTACTT
66 CT-A-TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
*
5070126 TTTAAATAAATTTAGAAAAACTCT
129 TTTAAATAAATTTAAAAAAACTCT
*
5070150 TATTTCAGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATA-TATTTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAA-AAAAATACTATTTTT
* * *
5070214 TCGTATTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAATATATTAATTTACTGTGTTT
65 TC-TATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
* *
5070279 TTTAAATAAATTTAAAAAAA-ACG
129 TTTAAATAAATTTAAAAAAACTCT
* * *
5070302 TATTTCGGCCCTTTGTTTGTATTTTTTTCCCCAGAGTTTATTACTTT-AAAAAAATACTA--TTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGA-ATTTTATTACTTTCAAAAAAATACTATTTTT
*
5070364 TCTAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTT
65 TCT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
*
5070429 TTTAAATAATTTTTTAAAAAAAAACTCT
129 TTTAAATAA--ATTT--AAAAAAACTCT
*
5070457 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATA-TATTATT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAA-AAAAATACTATT-TT
*
5070521 TTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
64 TTC-TATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTT
5070586 TTTTAAATAAATTTTTAAAAAAACAT-T
128 TTTTAAATAAA--TTTAAAAAAAC-TCT
* *
5070613 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGAGTTTATTACTTT-AAAAAATATACTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGA-ATTTTATTACTTTCAAAAAA-ATACTATTTT
* * *
5070677 TT-AATTTTATTATTTTACATTATTTTAGTACAATATGTTTGAAATGTATTCATTTAGTGTGTTT
64 TTCTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
5070741 TTTAAATAAATTTTAAAAAAAAAACTCT
129 TTTAAATAAA-TTT---AAAAAAACTCT
* *
5070769 TATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATCTTATTACTTTCAATAAAAA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAA-AAAAA
5070824 ACACACTAAA
Statistics
Matches: 600, Mismatches: 44, Indels: 56
0.86 0.06 0.08
Matches are distributed among these distances:
149 1 0.00
150 71 0.12
151 7 0.01
152 83 0.14
153 96 0.16
154 93 0.16
155 52 0.09
156 99 0.17
157 21 0.04
158 76 0.13
159 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (152 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAAAAAAATACTATTTTTT
CTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTT
TAAATAAATTTAAAAAAACTCT
Found at i:5070716 original size:154 final size:154
Alignment explanation
Indices: 5069998--5070823 Score: 1115
Period size: 154 Copynumber: 5.4 Consensus size: 154
5069988 CAATTATTCG
* * * *
5069998 TATTTTGGCCATTTGTTTGTATTTTTTT-CCCGGATTTTATTACTTTTAAAAAAATACTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGATTTTATTAC-TTTAAAAAAATACTATTTTC
* **
5070062 TAATTTTTTTTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTACTTT
65 TAA-TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTT
* *
5070127 TTAAATAAA--TTT-AGAAAAACTCT
129 TTAAATAAATTTTTAAAAAAAAATCT
* *
5070150 TATTTCAGCCCTTTGTTCGTATTTTTTTCCCGA-ATTTTATTACTTTCAATAAAAATA-TATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGATTTTATTACTTT-AA-AAAAATACTA--TT
* * *
5070213 TTCGT-ATTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAATATATTAATTTACTGTGT
62 TTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGT
*
5070277 TTTTTAAATAAA--TTT-AAAAAAAA-CG
126 TTTTTAAATAAATTTTTAAAAAAAAATCT
* *
5070302 TATTTCGGCCCTTTGTTTGTATTTTTTTCCCCAGAGTTTATTACTTTAAAAAAATACTATTTTCT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGATTTTATTACTTTAAAAAAATACTATTTTCT
*
5070367 AATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTTT
66 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTT
*
5070432 AAATAATTTTTTAAAAAAAAACTCT
131 AAATAAATTTTTAAAAAAAAA-TCT
* *
5070457 TATTTCGGCCCTTTGTTCGTATTTTTTT-CCCGGATTTTATTACTTTCAATAAAAATATATTATT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGATTTTATTACTTT--A-AAAAA-ATACTATT
*
5070521 TTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGT
62 TTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGT
*
5070585 TTTTTAAATAAATTTTTAAAAAAACAT-T
126 TTTTTAAATAAATTTTTAAAAAAAAATCT
* *
5070613 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGAGTTTATTACTTTAAAAAATATACTATTTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGATTTTATTACTTTAAAAAA-ATACTATTTTC
* *
5070678 TAATTTTATTATTTTACATTATTTTAGTACAATATGTTTGAAATGTATTCATTTAGTGTGTTTTT
65 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTT
*
5070743 TAAATAAATTTTAAAAAAAAAACTCT
130 TAAATAAATTTTTAAAAAAAAA-TCT
* * *
5070769 TATTTCGGCCCTTTGTTCGTATTTTTTTCTCGA-ATCTTATTACTTTCAATAAAAA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGATTTTATTACTTT-AA-AAAAA
5070824 ACACACTAAA
Statistics
Matches: 603, Mismatches: 46, Indels: 46
0.87 0.07 0.07
Matches are distributed among these distances:
149 1 0.00
150 71 0.12
151 10 0.02
152 76 0.13
153 103 0.17
154 117 0.19
155 42 0.07
156 65 0.11
157 26 0.04
158 91 0.15
159 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (154 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGATTTTATTACTTTAAAAAAATACTATTTTCT
AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTT
AAATAAATTTTTAAAAAAAAATCT
Found at i:5070762 original size:312 final size:306
Alignment explanation
Indices: 5069996--5070823 Score: 1349
Period size: 312 Copynumber: 2.7 Consensus size: 306
5069986 ACCAATTATT
* * * *
5069996 CGTATTTTGGCCATTTGTTTGTATTTTTTT-CCCGGATTTTATTACTTTTAAAAAAATACTATTT
1 CGTATTTCGGCCCTTTGTTTGTATTTTTTTCCCCAGAGTTTATTAC-TTTAAAAAAATACTATTT
* **
5070060 TCTAATTTTTTTTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTACT
65 TCTAA-TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTT
* *
5070125 TTTTAAATAAA-TTT--AGAAAAACTCTTATTTCAGCCCTTTGTTCGTATTTTTTTCCCGAATTT
129 TTTTAAATAAATTTTAAAAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTT
*
5070187 TATTACTTTCAATAAAAATATATTTTTTCGTATTTTATTATTTTACGTTATTTTAGTACATTATG
194 TATTACTTTCAATAAAAATATATTTTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATG
5070252 TTTGAAATATATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAAA
259 TTTGAAATATATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAAA
5070300 CGTATTTCGGCCCTTTGTTTGTATTTTTTTCCCCAGAGTTTATTACTTTAAAAAAATACTATTTT
1 CGTATTTCGGCCCTTTGTTTGTATTTTTTTCCCCAGAGTTTATTACTTTAAAAAAATACTATTTT
*
5070365 CTAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTT
66 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTT
* *
5070430 TTAAATAATTTTTTAAAAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTT
131 TTAAATAA-ATTTTAAAAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTT
5070495 ATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATG
195 ATTACTTTCAATAAAAATATATT-TTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATG
*
5070560 TTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTTTAAAAAAACA
259 TTTGAAATATATTAATTTACTGTGTTTTTTAAATAAA--TTTAAAAAAA-A
** *
5070611 TTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCCAGAGTTTATTACTTTAAAAAATATACTATTT
1 CGTATTTCGGCCCTTTGTTTGTATTTTTTTCCCCAGAGTTTATTACTTTAAAAAA-ATACTATTT
* * *
5070676 TTTAATTTTATTATTTTACATTATTTTAGTACAATATGTTTGAAATGTATTCATTTAGTGTGTTT
65 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
* *
5070741 TTTAAATAAATTTTAAAAAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATCT
130 TTTAAATAAATTTT-AAAAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTT
5070806 TATTACTTTCAATAAAAA
194 TATTACTTTCAATAAAAA
5070824 ACACACTAAA
Statistics
Matches: 488, Mismatches: 25, Indels: 14
0.93 0.05 0.03
Matches are distributed among these distances:
303 65 0.13
304 51 0.10
305 16 0.03
307 69 0.14
308 76 0.16
310 10 0.02
311 57 0.12
312 144 0.30
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.51
Consensus pattern (306 bp):
CGTATTTCGGCCCTTTGTTTGTATTTTTTTCCCCAGAGTTTATTACTTTAAAAAAATACTATTTT
CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTT
TTAAATAAATTTTAAAAAAAAACTCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTA
TTACTTTCAATAAAAATATATTTTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTT
TGAAATATATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAAA
Found at i:5071305 original size:2 final size:2
Alignment explanation
Indices: 5071298--5071323 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5071288 TTAATCCAAT
5071298 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
5071324 GCAAGGCACT
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):
TA
Found at i:5076839 original size:4 final size:4
Alignment explanation
Indices: 5076830--5076858 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
5076820 GCATCCAGGG
5076830 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
5076859 CAATTAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:5078105 original size:35 final size:35
Alignment explanation
Indices: 5078066--5078136 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
5078056 TTATAGGTAA
*
5078066 ACTACACTTAATGTTTTTAAATTATTAGTAAGTTT
1 ACTACACTTAATGTTTCTAAATTATTAGTAAGTTT
* *
5078101 ACTACATTTAATGTTTCTAAATTATTAGTAATTTT
1 ACTACACTTAATGTTTCTAAATTATTAGTAAGTTT
5078136 A
1 A
5078137 TTTTTTGGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.49
Consensus pattern (35 bp):
ACTACACTTAATGTTTCTAAATTATTAGTAAGTTT
Found at i:5082884 original size:160 final size:159
Alignment explanation
Indices: 5082572--5082908 Score: 584
Period size: 160 Copynumber: 2.1 Consensus size: 159
5082562 GTTAATTGAT
* *
5082572 TTTAAGTTGGATGCTTAACATCGTATTTAACATCCAAGTTGTGTTCTGTTGTTATTGTCTATTTT
1 TTTAAGTTGGATGCTTAACATCGTATTTAACACCCAAGTTGTGTTCTATTGTTATTGTCTATTTT
*
5082637 CTGACCAATAGCCCTTTCGAGTTTGTTACATTATAACCTCTTTTGTCTTCATGAGTATTAATTCG
66 CTGACCAATAACCCTTTCGAGTTTGTTACATTATAACCTCTTTTGTCTTCATGAGTATTAATTCG
* *
5082702 ATTTTGTATTATTTGTGATGCCAATTAAC
131 ATTTTGTATTATCTGCGATGCCAATTAAC
* *
5082731 TTTAAGTTGGATGCTTAACATCGTATTTAACGCCCAAGTTTTGTTCTATTGTTATTGTCTATTTT
1 TTTAAGTTGGATGCTTAACATCGTATTTAACACCCAAGTTGTGTTCTATTGTTATTGTCTATTTT
*
5082796 CTGACCCAATAACCCTTTCGAGTTTGTTACATTATAACCTCTTTTGTCTTCGTGAGTATTAATTC
66 CTGA-CCAATAACCCTTTCGAGTTTGTTACATTATAACCTCTTTTGTCTTCATGAGTATTAATTC
5082861 GATTTTGTATTATCTGCGATGCCAATTAAC
130 GATTTTGTATTATCTGCGATGCCAATTAAC
*
5082891 TTTAAGTTGGGTGCTTAA
1 TTTAAGTTGGATGCTTAA
5082909 AAATCCCATA
Statistics
Matches: 168, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
159 65 0.39
160 103 0.61
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.45
Consensus pattern (159 bp):
TTTAAGTTGGATGCTTAACATCGTATTTAACACCCAAGTTGTGTTCTATTGTTATTGTCTATTTT
CTGACCAATAACCCTTTCGAGTTTGTTACATTATAACCTCTTTTGTCTTCATGAGTATTAATTCG
ATTTTGTATTATCTGCGATGCCAATTAAC
Found at i:5084473 original size:2 final size:2
Alignment explanation
Indices: 5084457--5084491 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
5084447 TTGTAATACA
*
5084457 AT AT TT AT A- 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
5084492 GCATGTGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:5091236 original size:40 final size:41
Alignment explanation
Indices: 5091191--5091270 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 41
5091181 TACATTACAC
* *
5091191 TCTTAAAAGAG-ATAAATTCGAGCTTTTAAGATAACATTAT
1 TCTTAAAAGAGTACAAATTCGAGCTTTAAAGATAACATTAT
*
5091231 TCTTAAAAGAGTTACAAATTCGAGCTTTAAAGATGACATT
1 TCTTAAAAGAG-TACAAATTCGAGCTTTAAAGATAACATT
5091271 GTTTAAAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 11 0.31
42 24 0.69
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (41 bp):
TCTTAAAAGAGTACAAATTCGAGCTTTAAAGATAACATTAT
Found at i:5091580 original size:20 final size:20
Alignment explanation
Indices: 5091534--5091581 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
5091524 CGAACTCAAG
* * *
5091534 TTTAAGATT-GGGTTTAGGG
1 TTTAAGGTTCGGGTTTAAGA
5091553 TTTAAGGTTCGGGTTTAAGA
1 TTTAAGGTTCGGGTTTAAGA
*
5091573 TTTGAGGTT
1 TTTAAGGTT
5091582 TTCAGATCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (20 bp):
TTTAAGGTTCGGGTTTAAGA
Found at i:5092616 original size:24 final size:24
Alignment explanation
Indices: 5092589--5092638 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
5092579 AATTAAAGTC
* *
5092589 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
5092613 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
5092637 AA
1 AA
5092639 TTTTTTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:5106075 original size:25 final size:25
Alignment explanation
Indices: 5106041--5106091 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
5106031 ATTAAGCTTT
5106041 TAAGCCCCCTCGAATCTGCAACCTC
1 TAAGCCCCCTCGAATCTGCAACCTC
*
5106066 TAAGCTCCCTCGAATCTGCAACCTC
1 TAAGCCCCCTCGAATCTGCAACCTC
5106091 T
1 T
5106092 TAGAATGCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.41, G:0.12, T:0.24
Consensus pattern (25 bp):
TAAGCCCCCTCGAATCTGCAACCTC
Found at i:5109612 original size:2 final size:2
Alignment explanation
Indices: 5109605--5109634 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5109595 AGCTTAGTAA
5109605 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
5109635 CAATTGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5113584 original size:19 final size:18
Alignment explanation
Indices: 5113542--5113584 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
5113532 GTGAATATTT
* *
5113542 TTATAATTTTTAATTATG
1 TTATAATTTTTAAATAAG
*
5113560 TAATAATTTTTTAAATAAG
1 TTATAA-TTTTTAAATAAG
5113579 TTATAA
1 TTATAA
5113585 GTTTAATCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
TTATAATTTTTAAATAAG
Found at i:5131721 original size:22 final size:22
Alignment explanation
Indices: 5131693--5131814 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
5131683 TTCCACATCC
5131693 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
5131715 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
5131739 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
5131762 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
5131786 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
5131809 ATCACA
1 ATCACA
5131815 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:5131728 original size:47 final size:47
Alignment explanation
Indices: 5131666--5132261 Score: 851
Period size: 47 Copynumber: 12.6 Consensus size: 47
5131656 CCTTCGGGAG
* * *
5131666 TTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
5131713 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
* *
5131760 TTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCC
* *
5131807 TTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCC
* * *
5131854 TTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCT
1 TTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCC
* * *
5131901 TTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGACC
1 TTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCC
* *
5131948 TTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCC
5131995 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
* *
5132044 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
* *
5132091 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
* *
5132140 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
*
5132187 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
*
5132236 TTATCACATATATATACTTTCACATT
1 TTATCACATATATACACTTTCACATT
5132262 TATTCAAATA
Statistics
Matches: 514, Mismatches: 27, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 376 0.73
49 136 0.26
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
Found at i:5132072 original size:96 final size:94
Alignment explanation
Indices: 5131666--5132261 Score: 851
Period size: 96 Copynumber: 6.3 Consensus size: 94
5131656 CCTTCGGGAG
* * *
5131666 TTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACT
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT
5131731 TTCACATTCATCACATTGGCCATTCGGCC
66 TTCACATTCATCACATTGGCCATTCGGCC
* * * *
5131760 TTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-
1 TTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
5131823 TGTTCACATTCATCACATTGGCCATTCGGCC
65 T-TTCACATTCATCACATTGGCCATTCGGCC
* * * * *
5131854 TTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCTTTATCTCATATATGCA-
1 TTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
5131917 TGTTCACATTCATCACATTGGCCATTCGACC
65 T-TTCACATTCATCACATTGGCCATTCGGCC
* *
5131948 TTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
1 TTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
5132012 ACTTTCACATTCATCACATTGGCCATTCGGCC
63 ACTTTCACATTCATCACATTGGCCATTCGGCC
* *
5132044 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACA
* *
5132109 CTTTCACATTCATCACATCGGCCATTAGGCC
64 CTTTCACATTCATCACATTGGCCATTCGGCC
* *
5132140 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACA
*
5132205 CTTTCACATTCATCACATTGGCCATTAGGCC
64 CTTTCACATTCATCACATTGGCCATTCGGCC
*
5132236 TTATCACATATATATACTTTCACATT
1 TTATCACATATATACACTTTCACATT
5132262 TATTCAAATA
Statistics
Matches: 467, Mismatches: 29, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
93 2 0.00
94 219 0.47
96 244 0.52
97 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (94 bp):
TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT
TTCACATTCATCACATTGGCCATTCGGCC
Found at i:5133775 original size:56 final size:56
Alignment explanation
Indices: 5133708--5133827 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
5133698 TATTAGTTTA
5133708 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
5133764 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
5133820 TTGCCCAT
1 TTGCCCAT
5133828 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:5135478 original size:40 final size:40
Alignment explanation
Indices: 5135109--5135531 Score: 566
Period size: 40 Copynumber: 10.6 Consensus size: 40
5135099 CCAGCATGAT
* * * *
5135109 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
5135149 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
5135189 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
5135229 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
5135269 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
5135309 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
5135349 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
5135389 TGCTCTTCGGAACTTAGCCCAGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
5135429 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* **
5135470 TGCT-TTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAA
*
5135510 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
5135532 CATCATTCGA
Statistics
Matches: 342, Mismatches: 35, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.01
40 318 0.93
41 21 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:5137869 original size:22 final size:22
Alignment explanation
Indices: 5137841--5137962 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
5137831 TTCCACATCC
5137841 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
5137863 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
5137887 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
5137910 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
5137934 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
5137957 ATCACA
1 ATCACA
5137963 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:5137876 original size:47 final size:47
Alignment explanation
Indices: 5137814--5138360 Score: 798
Period size: 47 Copynumber: 11.6 Consensus size: 47
5137804 CCTTCGGGAG
* * *
5137814 TTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
5137861 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
* *
5137908 TTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCC
* *
5137955 TTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCC
* *
5138002 TTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCC
* * *
5138049 TTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGACC
1 TTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCC
* *
5138096 TTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCC
5138143 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
* *
5138192 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
* *
5138239 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
*
5138286 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
*
5138335 TTATCACATATATATACTTTCACATT
1 TTATCACATATATACACTTTCACATT
5138361 TATTCAAATA
Statistics
Matches: 469, Mismatches: 25, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 378 0.81
49 89 0.19
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
Found at i:5138068 original size:141 final size:142
Alignment explanation
Indices: 5137834--5138347 Score: 822
Period size: 143 Copynumber: 3.6 Consensus size: 142
5137824 TATACACTTC
*
5137834 CACATCCATCACATTGGCCATTCGGCCTTATCAC-ATATATACACTTTCACATTCATCACATTGG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACAATATATACACTTTCACATTCATCACATTGG
*
5137898 CCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
66 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
5137963 CATACACATGTT
131 CATACACATGTT
* *
5137975 CACATTCATCACATTGGCCATTCGGCCTTATCAC-ACATACACA-TGTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACAATATATACACT-TTCACATTCATCACATTG
* *
5138038 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGACCTTATCAC
65 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
5138103 ACATACACATGTT
130 ACATACACATGTT
5138116 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTG
* * *
5138181 GCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCA
65 GCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
* *
5138245 CATATATACACT-TT
129 CACATACACA-TGTT
* *
5138259 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTG
*
5138324 GCCATTAGGCCTTATCACATATAT
65 GCCATTCGGCCTTATCACATATAT
5138348 ATACTTTCAC
Statistics
Matches: 351, Mismatches: 16, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
140 1 0.00
141 169 0.48
143 178 0.51
144 3 0.01
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (142 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACAATATATACACTTTCACATTCATCACATTGG
CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
CATACACATGTT
Found at i:5140504 original size:50 final size:50
Alignment explanation
Indices: 5140380--5140628 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
5140370 GATAATAACA
* * ** * *
5140380 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
5140431 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
5140481 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
5140531 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
5140586 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
5140629 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:5140558 original size:100 final size:104
Alignment explanation
Indices: 5140379--5140628 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
5140369 TGATAATAAC
**
5140379 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
5140444 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
5140481 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
5140544 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
5140586 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
5140629 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:5140744 original size:13 final size:13
Alignment explanation
Indices: 5140723--5140754 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5140713 GCTTGGATCA
*
5140723 TCATCAAATAAAT
1 TCATAAAATAAAT
5140736 TCATAAAATAAAT
1 TCATAAAATAAAT
5140749 TCATAA
1 TCATAA
5140755 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:5141001 original size:30 final size:30
Alignment explanation
Indices: 5140966--5141023 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5140956 CCTAGACTCT
*
5140966 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
5140996 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
5141024 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:5141058 original size:28 final size:28
Alignment explanation
Indices: 5141026--5141081 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
5141016 TTTGCCCCAA
5141026 GGCTCGGAAATTAAACTTCATCTCTTAT
1 GGCTCGGAAATTAAACTTCATCTCTTAT
5141054 GGCTCGGAAATTAAACTTCATCTCTTAT
1 GGCTCGGAAATTAAACTTCATCTCTTAT
5141082 TCTTATGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (28 bp):
GGCTCGGAAATTAAACTTCATCTCTTAT
Found at i:5142676 original size:56 final size:56
Alignment explanation
Indices: 5142609--5142728 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
5142599 TATTAGTTTA
5142609 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
5142665 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
5142721 TTGCCCAT
1 TTGCCCAT
5142729 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:5145401 original size:125 final size:125
Alignment explanation
Indices: 5145174--5145561 Score: 595
Period size: 125 Copynumber: 3.1 Consensus size: 125
5145164 ATTGCTCAAG
*
5145174 GTATCATCCATGGCTC-AATCAAGTTTTTAA-AGCTAAGCTGCATTAGTTGAAGTCAACCCGGAA
1 GTATCATCCATGG-TCGAATCATGTTTTTAACA-CTAAGCTGCATTAGTTGAAGTCAACCCGGAA
5145237 AAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTCAT-TTATTC
64 AAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATT-ATCTTATTC
* *
5145299 GTATCATCCATGGTCGAATCATGTTTTTAACACTAAGCTGCATTAGTTGAAGTCAACCCTGAAGA
1 GTATCATCCATGGTCGAATCATGTTTTTAACACTAAGCTGCATTAGTTGAAGTCAACCCGGAAAA
* * *
5145364 ACTTTTCTTTTACATGTTTCTATTCTAGTGATGTATTGCTTGAGCACCATTTTCTTATTT
66 ACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTATCTTATTC
* * * *
5145424 GTATCATCCATGGTTGAATCTTGTTTTTAACGCTAAGCTGCATTAGTTGAAATCAACCCGGAAAA
1 GTATCATCCATGGTCGAATCATGTTTTTAACACTAAGCTGCATTAGTTGAAGTCAACCCGGAAAA
* **
5145489 ACTATAATTTTACATGTTTCTATTCTAGTG-TATATTGCTTGAGCACCATTATCTTATTC
66 ACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTATCTTATTC
*
5145548 ATATCATCCATGGT
1 GTATCATCCATGGT
5145562 TGAGTCTTAT
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
124 42 0.17
125 198 0.82
126 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.40
Consensus pattern (125 bp):
GTATCATCCATGGTCGAATCATGTTTTTAACACTAAGCTGCATTAGTTGAAGTCAACCCGGAAAA
ACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTATCTTATTC
Found at i:5145675 original size:100 final size:99
Alignment explanation
Indices: 5145496--5145675 Score: 270
Period size: 100 Copynumber: 1.8 Consensus size: 99
5145486 AAAACTATAA
* *
5145496 TTTTACATGTTTCTATTCTAGTGTATATTGCTTGAGCACCATTATCTTATTCATATCATCCATGG
1 TTTTACATGTTTCTATTCTAGTGTATATTGCTTGACCACCATTATCTTATTCATATCATCCATGA
** * *
5145561 TTGAGTCTTATTTTTCAACCTGAAAAAACTTTTC
66 TCAAATCATATTTTTCAACCTGAAAAAACTTTTC
* *
5145595 TTTTACATGTTTCTATTCTAGTGATATATTGCTTGACCACCATTATCTTATTCGTGTCATCCATG
1 TTTTACATGTTTCTATTCTAGTG-TATATTGCTTGACCACCATTATCTTATTCATATCATCCATG
*
5145660 ATCAAATCATGTTTTT
65 ATCAAATCATATTTTT
5145676 TTATAGCTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 23 0.32
100 48 0.68
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.46
Consensus pattern (99 bp):
TTTTACATGTTTCTATTCTAGTGTATATTGCTTGACCACCATTATCTTATTCATATCATCCATGA
TCAAATCATATTTTTCAACCTGAAAAAACTTTTC
Found at i:5145790 original size:351 final size:350
Alignment explanation
Indices: 5145226--5145882 Score: 1014
Period size: 351 Copynumber: 1.9 Consensus size: 350
5145216 TTAGTTGAAG
* *
5145226 TCAACCCGGAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTC
1 TCAACCCGAAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGACCACCATTC
* * *
5145291 ATTTATTCGTATCATCCATGGTCGAATCATGTTTTTAACACTAAGCTGCATTAGTTGAAGTCAAC
66 ATTTATTCGTATCATCCATGATCAAATCATGTTTTTAACACTAAGCTGCATTAGTTGAAATCAAC
* * * *
5145356 CCTGAAGAACTTTTCTTTTACATGTTTCTATTCTAGTGATGTATTGCTTGAGCACCATTTTCTTA
131 CCTGAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGAACCATTATCTTA
* * * * *
5145421 TTTGTATCATCCATGGTTGAATCTTGTTTTTAACGCTAAGCTGCATTAGTTGAAATCAACCCGGA
196 TTCGTATCATCCATGGTTGAATCATGTTTTTAAAGCTAAGCTGCATTAATTGAAATCAACCCGAA
5145486 AAAACTATAATTTTACATGTTTCTATTCTAGTG-TATATTGCTTGAGCACCATTATCTTATTCAT
261 AAAACTATAATTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTATCTTATTCAT
5145550 ATCATCCATGGTTGAGTCTTATTTT
326 ATCATCCATGGTTGAGTCTTATTTT
*
5145575 TCAACCTGAAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGACCACCATT-
1 TCAACCCGAAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGACCACCATTC
* * * *
5145639 ATCTTATTCGTGTCATCCATGATCAAATCATGTTTTTTTATAGCTAAGCTGCGTTAGTTGAAATC
66 AT-TTATTCGTATCATCCATGATCAAATCATG-TTTTTAACA-CTAAGCTGCATTAGTTGAAATC
* * *
5145704 TA-CCTGGAAAAACTTTTCTTTTTCATGTTTGTATTCTAGTGATATATTGCTTGAGAACCATTAT
128 AACCCT-GAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGAACCATTAT
* *
5145768 CTTATTCGTATCATCCATGGTTGAGTCATGTTTTTAAAGCTAAGCTGCATTAATTGCAATCAACC
192 CTTATTCGTATCATCCATGGTTGAATCATGTTTTTAAAGCTAAGCTGCATTAATTGAAATCAACC
* **
5145833 CGAAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGA
257 CGAAAAAACTATAATTTTACATGTTTCTATTCTAGTGATATATTGCTTGA
5145883 ACAGCTTGAA
Statistics
Matches: 276, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
348 2 0.01
349 87 0.32
350 10 0.04
351 165 0.60
352 12 0.04
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.42
Consensus pattern (350 bp):
TCAACCCGAAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGACCACCATTC
ATTTATTCGTATCATCCATGATCAAATCATGTTTTTAACACTAAGCTGCATTAGTTGAAATCAAC
CCTGAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGAACCATTATCTTA
TTCGTATCATCCATGGTTGAATCATGTTTTTAAAGCTAAGCTGCATTAATTGAAATCAACCCGAA
AAAACTATAATTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTATCTTATTCAT
ATCATCCATGGTTGAGTCTTATTTT
Found at i:5145879 original size:125 final size:126
Alignment explanation
Indices: 5145584--5146313 Score: 735
Period size: 125 Copynumber: 5.7 Consensus size: 126
5145574 TTCAACCTGA
*
5145584 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGACCACCATTATCTTATTCG
1 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTATCTTATTCG
* * ** * * * **
5145649 TGTCATCCATGATCAAATCATGTTTTTTTATAGCTAAGCTGCGTTAGTTGAAATCTACCTGG
66 TATCATCCATGGTTGAATCATG-TTTTTTAAAGCTAAGCTGCATTAGTTGAAATCAACCCAG
* * *
5145711 AAAAACTTTTCTTTTTCATGTTTGTATTCTAGTGATATATTGCTTGAGAACCATTATCTTATTCG
1 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTATCTTATTCG
* * *
5145776 TATCATCCATGGTTGAGTCATG-TTTTTAAAGCTAAGCTGCATTAATTGCAATCAACCC-G
66 TATCATCCATGGTTGAATCATGTTTTTTAAAGCTAAGCTGCATTAGTTGAAATCAACCCAG
5145835 AAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAACAGCTTGAACACCATT
1 -AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTG---A----G--CACCATT
* ** * *
5145900 TTCTTTATTCGTATCATCCATAATTGAATCATGTTTTTCTATAGCTAAGCTGCATCAGTTGAAAT
56 ATC-TTATTCGTATCATCCATGGTTGAATCATGTTTTT-TAAAGCTAAGCTGCATTAGTTGAAAT
**
5145965 TGACCCAG
119 CAACCCAG
*
5145973 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGACCA-CATTATCTTATTCG
1 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTATCTTATTCG
** ** * **
5146037 TATCATTTATGGTCAAATCATGTTTTTTATATAGCTAAGCTGCATTGGTTGAAATTGACCCAG
66 TATCATCCATGGTTGAATCATGTTTTTTA-A-AGCTAAGCTGCATTAGTTGAAATCAACCCAG
* * *
5146100 AAAAACTTTTCTTTTTTACATG----T-TTCTAGTGATATATTGCCTGAGCACCGTTCA-ATTAT
1 AAAAACTTTTC--TTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATT-ATCTTAT
* * * ** *
5146159 TCATATCATCCATGGTAGGATGGTG-TTTTTAAAGCTAAGCTGCATTAGTTGAAATCAATCCAG
63 TCGTATCATCCATGGTTGAATCATGTTTTTTAAAGCTAAGCTGCATTAGTTGAAATCAACCCAG
* * * * * * ***
5146222 TAAAGCTTATCTTTTACATGTTCCTATTCCT-GTGATGTATTGCTCGAGCACTGGTATCTTATTC
1 AAAAACTTTTCTTTTACATGTTTCTATT-CTAGTGATATATTGCTTGAGCACCATTATCTTATTC
* * * *
5146286 ATGTCATCCATGGTTGAATAAGGTTTTT
65 GTATCATCCATGGTTGAATCATGTTTTT
5146314 ATAGCTTGGC
Statistics
Matches: 505, Mismatches: 70, Indels: 57
0.80 0.11 0.09
Matches are distributed among these distances:
120 9 0.02
122 35 0.07
123 1 0.00
124 31 0.06
125 145 0.29
126 35 0.07
127 124 0.25
128 3 0.01
129 9 0.02
132 1 0.00
134 9 0.02
135 26 0.05
136 4 0.01
137 72 0.14
138 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (126 bp):
AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCACCATTATCTTATTCG
TATCATCCATGGTTGAATCATGTTTTTTAAAGCTAAGCTGCATTAGTTGAAATCAACCCAG
Found at i:5145986 original size:137 final size:132
Alignment explanation
Indices: 5145584--5146270 Score: 618
Period size: 127 Copynumber: 5.4 Consensus size: 132
5145574 TTCAACCTGA
5145584 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGA-C-----CACCATTATCT
1 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCTTGAACACCATTATCT
* * ** *
5145643 TATTCGTGTCATCCATGATCAAATCATGTTTTTTTATAGCTAAGCTGCGTTAGTTGAAATCT-AC
66 TATTCGTATCATCCATGGTTGAATCATG-TTTTTTATAGCTAAGCTGCATTAGTTGAAAT-TGAC
**
5145707 CTGG
129 CCAG
* *
5145711 AAAAACTTTTCTTTTTCATGTTTGTATTCTAGTGATATATTGCTTGA----G-A-ACCATTATCT
1 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCTTGAACACCATTATCT
* * * * **
5145770 TATTCGTATCATCCATGGTTGAGTCATG-TTTTTAAAGCTAAGCTGCATTAATTGCAATCAACCC
66 TATTCGTATCATCCATGGTTGAATCATGTTTTTTATAGCTAAGCTGCATTAGTTGAAATTGACCC
5145834 -G
131 AG
5145835 AAAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAACAGCTTGAACACCATT
1 -AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTG---AGCTTGAACACCATT
* ** *
5145900 TTCTTTATTCGTATCATCCATAATTGAATCATGTTTTTCTATAGCTAAGCTGCATCAGTTGAAAT
62 ATC-TTATTCGTATCATCCATGGTTGAATCATGTTTTT-TATAGCTAAGCTGCATTAGTTGAAAT
5145965 TGACCCAG
125 TGACCCAG
5145973 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGA-C-----CA-CATTATCT
1 AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCTTGAACACCATTATCT
** ** *
5146031 TATTCGTATCATTTATGGTCAAATCATGTTTTTTATATAGCTAAGCTGCATTGGTTGAAATTGAC
66 TATTCGTATCATCCATGGTTGAATCATG-TTTTT-TATAGCTAAGCTGCATTAGTTGAAATTGAC
5146096 CCAG
129 CCAG
* *
5146100 AAAAACTTTTCTTTTTTACATG----T-TTCTAGTGATATATTGC-----C-TGAGCACCGTTCA
1 AAAAACTTTTC--TTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCTTGAACACCATT-A
* * * * ** * **
5146154 -ATTATTCATATCATCCATGGTAGGATGGTG-TTTTTAAAGCTAAGCTGCATTAGTTGAAATCAA
63 TCTTATTCGTATCATCCATGGTTGAATCATGTTTTTTATAGCTAAGCTGCATTAGTTGAAATTGA
*
5146217 TCCAG
128 CCCAG
* * * * * *
5146222 TAAAGCTTATCTTTTACATGTTCCTATTCCT-GTGATGTATTGCTCGAGC
1 AAAAACTTTTCTTTTACATGTTTCTATT-CTAGTGATATATTGCTTGAGC
5146271 ACTGGTATCT
Statistics
Matches: 469, Mismatches: 54, Indels: 71
0.79 0.09 0.12
Matches are distributed among these distances:
120 10 0.02
122 37 0.08
123 4 0.01
124 21 0.04
125 111 0.24
126 26 0.06
127 132 0.28
128 3 0.01
129 9 0.02
130 1 0.00
132 1 0.00
133 2 0.00
134 9 0.02
135 26 0.06
136 4 0.01
137 72 0.15
138 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (132 bp):
AAAAACTTTTCTTTTACATGTTTCTATTCTAGTGATATATTGCTTGAGCTTGAACACCATTATCT
TATTCGTATCATCCATGGTTGAATCATGTTTTTTATAGCTAAGCTGCATTAGTTGAAATTGACCC
AG
Found at i:5155058 original size:11 final size:11
Alignment explanation
Indices: 5155039--5155098 Score: 66
Period size: 11 Copynumber: 5.1 Consensus size: 11
5155029 TGTGTAATAC
5155039 CATATTATTCA
1 CATATTATTCA
*
5155050 CATAATATTTTCA
1 CAT-AT-TATTCA
5155063 CATATTATTCA
1 CATATTATTCA
*
5155074 CATAATATTTTCA
1 CAT-AT-TATTCA
5155087 CATATTATTCA
1 CATATTATTCA
5155098 C
1 C
5155099 TGAAAATTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
11 17 0.41
12 8 0.20
13 16 0.39
ACGTcount: A:0.37, C:0.18, G:0.00, T:0.45
Consensus pattern (11 bp):
CATATTATTCA
Found at i:5155064 original size:13 final size:13
Alignment explanation
Indices: 5155040--5155095 Score: 71
Period size: 13 Copynumber: 4.4 Consensus size: 13
5155030 GTGTAATACC
5155040 ATATTATTCACATA
1 ATATT-TTCACATA
5155054 ATATTTTCACAT-
1 ATATTTTCACATA
*
5155066 AT-TATTCACATA
1 ATATTTTCACATA
5155078 ATATTTTCACATA
1 ATATTTTCACATA
*
5155091 TTATT
1 ATATT
5155096 CACTGAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 8 0.22
12 4 0.11
13 20 0.54
14 5 0.14
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATTTTCACATA
Found at i:5155070 original size:24 final size:24
Alignment explanation
Indices: 5155039--5155098 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
5155029 TGTGTAATAC
5155039 CATATTATTCACATAATATTTTCA
1 CATATTATTCACATAATATTTTCA
5155063 CATATTATTCACATAATATTTTCA
1 CATATTATTCACATAATATTTTCA
5155087 CATATTATTCAC
1 CATATTATTCAC
5155099 TGAAAATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.37, C:0.18, G:0.00, T:0.45
Consensus pattern (24 bp):
CATATTATTCACATAATATTTTCA
Found at i:5162712 original size:46 final size:46
Alignment explanation
Indices: 5162645--5162742 Score: 178
Period size: 46 Copynumber: 2.1 Consensus size: 46
5162635 CTATTCTACT
5162645 ATGTCTAGGTGATGAAGTATTATGAGAGTTAGCCGAAAAGACCATC
1 ATGTCTAGGTGATGAAGTATTATGAGAGTTAGCCGAAAAGACCATC
* *
5162691 ATGTCTAGGTGATGAAGTATTATGAGAGTTCGTCGAAAAGACCATC
1 ATGTCTAGGTGATGAAGTATTATGAGAGTTAGCCGAAAAGACCATC
5162737 ATGTCT
1 ATGTCT
5162743 GGTTTGTAGC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (46 bp):
ATGTCTAGGTGATGAAGTATTATGAGAGTTAGCCGAAAAGACCATC
Found at i:5164091 original size:13 final size:13
Alignment explanation
Indices: 5164073--5164099 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5164063 GTGCATTCAT
5164073 TAGTTAATTTAGA
1 TAGTTAATTTAGA
5164086 TAGTTAATTTAGA
1 TAGTTAATTTAGA
5164099 T
1 T
5164100 TTTAATCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TAGTTAATTTAGA
Found at i:5165649 original size:18 final size:18
Alignment explanation
Indices: 5165620--5165712 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
5165610 TACGACCTTT
*
5165620 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
*
5165638 TATGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* * *
5165656 TACAGTACTATTCACATA
1 TACGGCACTATTCACGTA
5165674 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
5165692 TACGGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
5165710 TAC
1 TAC
5165713 AGTAGTTGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:5165681 original size:36 final size:36
Alignment explanation
Indices: 5165624--5165712 Score: 142
Period size: 36 Copynumber: 2.5 Consensus size: 36
5165614 ACCTTTTACG
*
5165624 GTACTATTCACGTATATGGCACTATTCACGTATACA
1 GTACTATTCACGTATACGGCACTATTCACGTATACA
* *
5165660 GTACTATTCACATATACGGCACTATTCACGTATACG
1 GTACTATTCACGTATACGGCACTATTCACGTATACA
*
5165696 GTACTGTTCACGTATAC
1 GTACTATTCACGTATAC
5165713 AGTAGTTGGG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (36 bp):
GTACTATTCACGTATACGGCACTATTCACGTATACA
Found at i:5179783 original size:18 final size:18
Alignment explanation
Indices: 5179756--5179794 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
5179746 CCCAACTACT
*
5179756 GTATACGTGAACAGTACC
1 GTATACGTGAAAAGTACC
*
5179774 GTATATGTGAAAAGTACC
1 GTATACGTGAAAAGTACC
5179792 GTA
1 GTA
5179795 AACGGTCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (18 bp):
GTATACGTGAAAAGTACC
Found at i:5183699 original size:24 final size:23
Alignment explanation
Indices: 5183667--5183719 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
5183657 TTTTTTTCTA
*
5183667 TTGTATTCTACTATTCTTTTGCC
1 TTGTTTTCTACTATTCTTTTGCC
* * *
5183690 TCTGTTTTCTTCTATTGTTTTGTC
1 T-TGTTTTCTACTATTCTTTTGCC
5183714 TTGTTT
1 TTGTTT
5183720 GCAGGTTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.08, C:0.17, G:0.11, T:0.64
Consensus pattern (23 bp):
TTGTTTTCTACTATTCTTTTGCC
Found at i:5185208 original size:25 final size:23
Alignment explanation
Indices: 5185175--5185220 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
5185165 ATATTGTCAG
5185175 GCTCAAGTTTGACTTGAAATATTCA
1 GCTCAAGTTTGA-TTG-AATATTCA
*
5185200 GCTCGAGTTTGATTGAATATT
1 GCTCAAGTTTGATTGAATATT
5185221 TATTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (23 bp):
GCTCAAGTTTGATTGAATATTCA
Found at i:5185603 original size:25 final size:25
Alignment explanation
Indices: 5185539--5185605 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
5185529 GTGAAGAGAA
* *
5185539 ATTATTTTAAAAATCAATTTTTTAAAT
1 ATTACTTTAAAAA-C-ATCTTTTAAAT
* *
5185566 ATAACTTTGAAAACATCTTTTAACAT
1 ATTACTTTAAAAACATCTTTTAA-AT
5185592 ATTA-TTTAAAAACA
1 ATTACTTTAAAAACA
5185606 ATTTACAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 17 0.52
26 6 0.18
27 10 0.30
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.43
Consensus pattern (25 bp):
ATTACTTTAAAAACATCTTTTAAAT
Found at i:5186056 original size:11 final size:11
Alignment explanation
Indices: 5186049--5186090 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
5186039 TGGCAAAATG
5186049 ACAACAAAACA
1 ACAACAAAACA
**
5186060 ACAACAAAATT
1 ACAACAAAACA
*
5186071 GCAACAAAACA
1 ACAACAAAACA
5186082 ACAACAAAA
1 ACAACAAAA
5186091 AAATTTAGGC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.69, C:0.24, G:0.02, T:0.05
Consensus pattern (11 bp):
ACAACAAAACA
Found at i:5186067 original size:22 final size:22
Alignment explanation
Indices: 5186042--5186090 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 22
5186032 AATATAATGG
5186042 CAAAA-TGACAACAAAACAACAA
1 CAAAATTG-CAACAAAACAACAA
5186064 CAAAATTGCAACAAAACAACAA
1 CAAAATTGCAACAAAACAACAA
5186086 CAAAA
1 CAAAA
5186091 AAATTTAGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.67, C:0.22, G:0.04, T:0.06
Consensus pattern (22 bp):
CAAAATTGCAACAAAACAACAA
Found at i:5192620 original size:87 final size:87
Alignment explanation
Indices: 5192519--5192692 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
5192509 TATATCAAGA
5192519 ACATAATACCTTATTTAAGAAAACTCTACTATAACATCATTTCTATGCATTTTCAATAATATCAA
1 ACATAATACCTTATTTAAGAAAACTCTACTATAACATCATTTCTATGCATTTTCAATAATATCAA
5192584 ACTTAAAAATATATTGAAATCT
66 ACTTAAAAATATATTGAAATCT
5192606 ACATAATACCTTATTTAAGAAAACTCTACTATAACATCATTTCTATGCATTTTCAATAATATCAA
1 ACATAATACCTTATTTAAGAAAACTCTACTATAACATCATTTCTATGCATTTTCAATAATATCAA
5192671 ACTTAAAAATATATTGAAATCT
66 ACTTAAAAATATATTGAAATCT
5192693 TGATGTTCTT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.37
Consensus pattern (87 bp):
ACATAATACCTTATTTAAGAAAACTCTACTATAACATCATTTCTATGCATTTTCAATAATATCAA
ACTTAAAAATATATTGAAATCT
Found at i:5193014 original size:23 final size:22
Alignment explanation
Indices: 5192988--5193041 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
5192978 ATATACTAAA
*
5192988 TAAATAATAATAAAATATCTCAT
1 TAAATAATAATAAAATAT-TAAT
* *
5193011 TAAATATTAGTAAAATATTAAT
1 TAAATAATAATAAAATATTAAT
*
5193033 AAAATAATA
1 TAAATAATA
5193042 TTTATCTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAATAATAATAAAATATTAAT
Found at i:5193028 original size:11 final size:11
Alignment explanation
Indices: 5192989--5193038 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
5192979 TATACTAAAT
*
5192989 AAATAATAATA
1 AAATATTAATA
* *
5193000 AAATATCTCATT
1 AAATAT-TAATA
*
5193012 AAATATTAGTA
1 AAATATTAATA
5193023 AAATATTAATA
1 AAATATTAATA
5193034 AAATA
1 AAATA
5193039 ATATTTATCT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (11 bp):
AAATATTAATA
Found at i:5200692 original size:3 final size:3
Alignment explanation
Indices: 5200684--5200728 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
5200674 CCATATATGG
5200684 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
5200729 CTGGTGTAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:5208236 original size:4 final size:4
Alignment explanation
Indices: 5208229--5208271 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
5208219 ATCAACCAAT
5208229 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
5208272 TATTTGGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:5221648 original size:40 final size:40
Alignment explanation
Indices: 5221592--5221681 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 40
5221582 ATTGGCCAAT
*
5221592 CGTTG-TTTTTGCTAATTT-ATTGCATATAAAATGTTTAAC
1 CGTTGATTTTTGCTAATTTCA-TGCATATAAAATGTTGAAC
* *
5221631 CGTTGATTTTTGTTAATTTCATGCATATAAATTGTTGAAC
1 CGTTGATTTTTGCTAATTTCATGCATATAAAATGTTGAAC
*
5221671 TGTTGATTTTT
1 CGTTGATTTTT
5221682 AAGTCAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
39 5 0.11
40 39 0.87
41 1 0.02
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (40 bp):
CGTTGATTTTTGCTAATTTCATGCATATAAAATGTTGAAC
Found at i:5228611 original size:18 final size:18
Alignment explanation
Indices: 5228590--5228637 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
5228580 TAAAAATAAT
5228590 TTAAAATATAAAAATTTA
1 TTAAAATATAAAAATTTA
* **
5228608 TTAATATATATCAATTTA
1 TTAAAATATAAAAATTTA
5228626 TGTAAAA-ATAAA
1 T-TAAAATATAAA
5228638 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
TTAAAATATAAAAATTTA
Found at i:5228767 original size:34 final size:34
Alignment explanation
Indices: 5228712--5228777 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
5228702 CAAACACCAG
*
5228712 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
5228747 AAAACATTTTCCCG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
5228778 ATATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:5241004 original size:27 final size:27
Alignment explanation
Indices: 5240964--5241023 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
5240954 TATATATTTT
5240964 TATTTTTATTTTTTTTA-ATTTTAAAA
1 TATTTTTATTTTTTTTATATTTTAAAA
* *
5240990 TATTTTTATTTTTTTTATTTTTTTAAA
1 TATTTTTATTTTTTTTATATTTTAAAA
5241017 TATTTTT
1 TATTTTT
5241024 TTTGTGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 17 0.55
27 14 0.45
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (27 bp):
TATTTTTATTTTTTTTATATTTTAAAA
Found at i:5241033 original size:27 final size:27
Alignment explanation
Indices: 5240964--5241035 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
5240954 TATATATTTT
* *
5240964 TATTTTTATTTTTTTTA-ATTTTAAAA
1 TATTTTTATTTTGTTTATTTTTTAAAA
* *
5240990 TATTTTTATTTTTTTTATTTTTTTAAA
1 TATTTTTATTTTGTTTATTTTTTAAAA
5241017 TATTTTT-TTTGTGTTTATT
1 TATTTTTATTT-TGTTTATT
5241036 AAAAATAGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (27 bp):
TATTTTTATTTTGTTTATTTTTTAAAA
Found at i:5241037 original size:22 final size:21
Alignment explanation
Indices: 5240996--5241038 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5240986 AAAATATTTT
*
5240996 TATTTTTTTTATTTTTTTAAA
1 TATTTTTTTTATTTTATTAAA
*
5241017 TATTTTTTTTGTGTTTATTAAA
1 TATTTTTTTTAT-TTTATTAAA
5241039 AATAGGGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (21 bp):
TATTTTTTTTATTTTATTAAA
Found at i:5253121 original size:17 final size:16
Alignment explanation
Indices: 5253089--5253119 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5253079 TTATTTCATA
5253089 AATATTTCTAAAAAAT
1 AATATTTCTAAAAAAT
*
5253105 AATATTTTTAAAAAA
1 AATATTTCTAAAAAA
5253120 ATTTAAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATTTCTAAAAAAT
Found at i:5253942 original size:21 final size:21
Alignment explanation
Indices: 5253900--5253943 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5253890 TTTATTTGAT
**
5253900 TTTAAATTTTTATGTAGTATA
1 TTTAAATTTTTATGTAAAATA
5253921 TTTAAATTTTTAT-TAAAAATA
1 TTTAAATTTTTATGT-AAAATA
5253942 TT
1 TT
5253944 CATATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTAAATTTTTATGTAAAATA
Found at i:5261649 original size:3 final size:3
Alignment explanation
Indices: 5261562--5261640 Score: 124
Period size: 3 Copynumber: 26.3 Consensus size: 3
5261552 GTACTTTTGC
5261562 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
* *
5261610 TAT TAT TAT CAT CT-T TAT TAT TAT TAG TAT T
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT T
5261641 GGTATTATTG
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 1 0.01
3 69 0.99
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:5262113 original size:16 final size:16
Alignment explanation
Indices: 5262094--5262124 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5262084 TACACCCATA
*
5262094 TATATGTACATATTTT
1 TATATATACATATTTT
5262110 TATATATACATATTT
1 TATATATACATATTT
5262125 ATCGTTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:5275677 original size:3 final size:3
Alignment explanation
Indices: 5275671--5275705 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
5275661 AAATAATAGT
*
5275671 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5275706 GGACTAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5277427 original size:13 final size:13
Alignment explanation
Indices: 5277406--5277437 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5277396 ACAAGAAAAG
5277406 AATAAAATATATA
1 AATAAAATATATA
*
5277419 AATATAATATATA
1 AATAAAATATATA
5277432 AATAAA
1 AATAAA
5277438 CTATGGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAAAATATATA
Found at i:5277451 original size:21 final size:20
Alignment explanation
Indices: 5277427--5277469 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
5277417 TAAATATAAT
5277427 ATATAAATAAACTATGGGAAA
1 ATATAAATAAA-TATGGGAAA
* * *
5277448 ATATATATATATATGTGAAA
1 ATATAAATAAATATGGGAAA
5277468 AT
1 AT
5277470 CTGTATGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (20 bp):
ATATAAATAAATATGGGAAA
Found at i:5281924 original size:25 final size:23
Alignment explanation
Indices: 5281881--5281935 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
5281871 TCATCATAAC
5281881 ATTATTTTAATATTTATATTAGAAT
1 ATTATTTTAATATTTATA-TAG-AT
*
5281906 ATTATTTT-GTATTTAATATAGAT
1 ATTATTTTAATATTT-ATATAGAT
5281929 -TTATTTT
1 ATTATTTT
5281936 TTTAATGTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 7 0.25
23 2 0.07
24 8 0.29
25 11 0.39
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (23 bp):
ATTATTTTAATATTTATATAGAT
Found at i:5281927 original size:24 final size:24
Alignment explanation
Indices: 5281881--5281935 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
5281871 TCATCATAAC
5281881 ATTATTTTAATATTTATATTAGAAT
1 ATTATTTTAATATTTATATTAG-AT
*
5281906 ATTATTTT-GTATTTA-ATATAGAT
1 ATTATTTTAATATTTATAT-TAGAT
5281929 -TTATTTT
1 ATTATTTT
5281936 TTTAATGTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 7 0.25
23 4 0.14
24 9 0.32
25 8 0.29
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (24 bp):
ATTATTTTAATATTTATATTAGAT
Done.