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 97 of 222
Found at i:30560892 original size:57 final size:56
Alignment explanation
Indices: 30560787--30560901 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 56
30560777 TAATGATTAT
* * *
30560787 AAGTCATCGTTATAGGGCAACCCAAGTAGTAGAATGAACAGTATTGACAGATAGAA
1 AAGTCATCATTATAGGGCAACCCAAGTAGTAGAATGAACAGTACTGACAAATAGAA
* * * * *
30560843 AAGTCATCATTGTAGGGCAATCCGAGGTGGTAGAATGACCAGTACTGACAAATAGAA
1 AAGTCATCATTATAGGGCAA-CCCAAGTAGTAGAATGAACAGTACTGACAAATAGAA
30560900 AA
1 AA
30560902 AGCCATTGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
56 18 0.36
57 32 0.64
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (56 bp):
AAGTCATCATTATAGGGCAACCCAAGTAGTAGAATGAACAGTACTGACAAATAGAA
Found at i:30563116 original size:20 final size:21
Alignment explanation
Indices: 30563093--30563137 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
30563083 TAATATGGTG
* * *
30563093 AAAACTCATTTAACATAAA-A
1 AAAACTAAATTAAAATAAATA
30563113 AAAACTAAATTAAAATAAATA
1 AAAACTAAATTAAAATAAATA
30563134 AAAA
1 AAAA
30563138 TTTATACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAACTAAATTAAAATAAATA
Found at i:30574172 original size:47 final size:47
Alignment explanation
Indices: 30574118--30574475 Score: 572
Period size: 47 Copynumber: 7.6 Consensus size: 47
30574108 TATTTGAATA
*
30574118 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
30574165 AATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
30574212 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
30574261 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
30574308 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGCGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
30574355 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
30574402 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
30574449 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
30574476 TCCCGAAGGG
Statistics
Matches: 290, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 246 0.85
49 44 0.15
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:30578105 original size:30 final size:30
Alignment explanation
Indices: 30578035--30578110 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
30578025 CTATATTTTA
* *
30578035 GTGGCACACGACTGTGCCACTAACCCGTAC
1 GTGGCACACGGCTGTGCCACTAACCCATAC
30578065 GTGGCACACGGCTGTGCCACTAACCCATAC
1 GTGGCACACGGCTGTGCCACTAACCCATAC
*
30578095 GTGGCACACGGTTGTG
1 GTGGCACACGGCTGTG
30578111 TGGCCAGACT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.21, C:0.33, G:0.28, T:0.18
Consensus pattern (30 bp):
GTGGCACACGGCTGTGCCACTAACCCATAC
Found at i:30580537 original size:22 final size:23
Alignment explanation
Indices: 30580495--30580549 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
30580485 ACAGTGGGTT
*
30580495 TTATTATTAATAATAATATTATTG
1 TTATTATT-ATAATAACATTATTG
*
30580519 TTATTATTAT-ATAACATTATTT
1 TTATTATTATAATAACATTATTG
30580541 TTATTATTA
1 TTATTATTA
30580550 AACCAAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 19 0.66
23 2 0.07
24 8 0.28
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTATTATAATAACATTATTG
Found at i:30585552 original size:41 final size:40
Alignment explanation
Indices: 30585504--30585736 Score: 268
Period size: 41 Copynumber: 5.6 Consensus size: 40
30585494 GTTACATGAT
* *
30585504 GGAATCAGCACTTAGCAACCACCTTATAATTAATGATACGG
1 GGAATCAGCACATAGCAACC-CCTTATAATCAATGATACGG
* * *
30585545 GGAATCAGCACATAGCAACCCCTTTCACAAACAAGGATACGG
1 GGAATCAGCACATAGCAACCCC-TT-ATAATCAATGATACGG
* * ** *
30585587 TGGAATCAGCACTTAGCCATCATCTTATAATCAATGATATGG
1 -GGAATCAGCACATAG-CAACCCCTTATAATCAATGATACGG
* *
30585629 GGAATCAGCACATAGCAACCCCTTTCAGAATCAAGGATACGG
1 GGAATCAGCACATAGCAACCCC-TT-ATAATCAATGATACGG
*
30585671 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAGCACATAGCAACC-CCTTATAATCAATGATACGG
30585713 GGAATCAGCACATAGCAACCCCTT
1 GGAATCAGCACATAGCAACCCCTT
30585737 TCATTCAAAG
Statistics
Matches: 160, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
40 10 0.06
41 56 0.35
42 51 0.32
43 37 0.23
44 6 0.04
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (40 bp):
GGAATCAGCACATAGCAACCCCTTATAATCAATGATACGG
Found at i:30585644 original size:84 final size:84
Alignment explanation
Indices: 30585503--30585739 Score: 411
Period size: 84 Copynumber: 2.8 Consensus size: 84
30585493 CGTTACATGA
*
30585503 TGGAATCAGCACTTAGCAACCACCTTATAATTAATGATACGGGGAATCAGCACATAGCAACCCCT
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCT
30585568 TTCACAAACAAGGATACGG
66 TTCACAAACAAGGATACGG
* * * *
30585587 TGGAATCAGCACTTAGCCATCATCTTATAATCAATGATATGGGGAATCAGCACATAGCAACCCCT
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCT
* *
30585652 TTCAGAATCAAGGATACGG
66 TTCACAAACAAGGATACGG
30585671 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCT
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCT
30585736 TTCA
66 TTCA
30585740 TTCAAAGAAT
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 142 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (84 bp):
TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCT
TTCACAAACAAGGATACGG
Found at i:30588203 original size:27 final size:27
Alignment explanation
Indices: 30588173--30588245 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
30588163 GTATATGTAG
*
30588173 GAAGTCCATCAGGACTATCTAACATGA
1 GAAGTCCATCAGGAATATCTAACATGA
* * * *
30588200 GAAGTCCGTCAAGAGTATCTAACGTGA
1 GAAGTCCATCAGGAATATCTAACATGA
*
30588227 AAAGTCCATCAGGAATATC
1 GAAGTCCATCAGGAATATC
30588246 ATGTGGAAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (27 bp):
GAAGTCCATCAGGAATATCTAACATGA
Found at i:30591730 original size:206 final size:205
Alignment explanation
Indices: 30591368--30591876 Score: 695
Period size: 206 Copynumber: 2.5 Consensus size: 205
30591358 CTTGGTTATT
* * * * * *
30591368 AAAGTGTATGGCAGGTTTGGATTTTTCCAAAGTTATGGTTTGTCATATGCATAC-ATATAGCCTT
1 AAAGTGAATTGCAGGTTTGGATTTTTCTAAAGTTATTGTTTGCCATGTGCATACTA-ATAGCCTT
* * * * *
30591432 AGGAAATAGACAAATAAGTTCCTA--TT-TGACAAATCAATTTTTATTGAATTATTTGAAACTGT
65 AGGAAAAAGACAAATCAGTTCCTATTTTATGACTAATCAATCTTTATTGAATTATTCGAAACTGT
*
30591494 GTCTGTCATTGAATTATTCAAATATGATTCAAAACATTTTTCAAATGTTGATCCAAATATGATCA
130 GTATGTCATTGAATTATTCAAATATGATTCAAAACATTTTTCAAATGTTGATCCAAATATGATCA
30591559 TTGTTTGTATC
195 TTGTTTGTATC
* * * *
30591570 AAAGTGAATTGTAGGTTTGGATTTTTCTAAAGGTATTGTCTGCCATGTGCATACTAATATCCTTA
1 AAAGTGAATTGCAGGTTTGGATTTTTCTAAAGTTATTGTTTGCCATGTGCATACTAATAGCCTTA
* * * *
30591635 GGAAAGAGACAAATCAGTTCTTATTTTTATGACTTATCAGTCTTTATTGAATTATTCGAATA-TG
66 GGAAAAAGACAAATCAGTTCCTA-TTTTATGACTAATCAATCTTTATTGAATTATTCGAA-ACTG
* * *
30591699 TGTATGTCATTGAATTATTCAAATATGATTCAAAACCTTTTTTAAATGTTGATTCAAATATGATC
129 TGTATGTCATTGAATTATTCAAATATGATTCAAAACATTTTTCAAATGTTGATCCAAATATGATC
30591764 ATTGTTTGTATC
194 ATTGTTTGTATC
* * * *
30591776 AAATTGAATTGCAAGTTTGGATTTTTATAAAGTTATTGTTTGCCATGTGCCTACTAATAGCCTTA
1 AAAGTGAATTGCAGGTTTGGATTTTTCTAAAGTTATTGTTTGCCATGTGCATACTAATAGCCTTA
*
30591841 GGAAAAAGACAAATCAATTCCTATCTTTATGACTAA
66 GGAAAAAGACAAATCAGTTCCTAT-TTTATGACTAA
30591877 CAGTATCAAA
Statistics
Matches: 266, Mismatches: 34, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
202 73 0.27
203 1 0.00
205 3 0.01
206 188 0.71
207 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (205 bp):
AAAGTGAATTGCAGGTTTGGATTTTTCTAAAGTTATTGTTTGCCATGTGCATACTAATAGCCTTA
GGAAAAAGACAAATCAGTTCCTATTTTATGACTAATCAATCTTTATTGAATTATTCGAAACTGTG
TATGTCATTGAATTATTCAAATATGATTCAAAACATTTTTCAAATGTTGATCCAAATATGATCAT
TGTTTGTATC
Found at i:30591912 original size:11 final size:11
Alignment explanation
Indices: 30591896--30591938 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
30591886 AGCTCCTTTG
30591896 GATTCAAATAT
1 GATTCAAATAT
30591907 GATTCAAATAT
1 GATTCAAATAT
* *
30591918 CATTTAAATAT
1 GATTCAAATAT
*
30591929 GAATCAAATA
1 GATTCAAATA
30591939 CGACAAATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (11 bp):
GATTCAAATAT
Found at i:30604324 original size:20 final size:23
Alignment explanation
Indices: 30604299--30604343 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
30604289 AATTCATGTA
30604299 TTTTTTTAT-TTA-CATA-TTAT
1 TTTTTTTATGTTATCATATTTAT
30604319 TTTTTTTATGTTATCATATTTAT
1 TTTTTTTATGTTATCATATTTAT
30604342 TT
1 TT
30604344 CCATATATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 3 0.14
22 4 0.18
23 6 0.27
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTTTATGTTATCATATTTAT
Found at i:30610464 original size:38 final size:38
Alignment explanation
Indices: 30610406--30610480 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
30610396 ATCTCAACCA
* *
30610406 CTAGATTCTGATTCTATCAAATTGTAACCGTTTAAAAG
1 CTAGATTCTAATTCTATCAAATCGTAACCGTTTAAAAG
* *
30610444 CTAGATTCTAATTTTTTCAAATCGTAACCGTTTAAAA
1 CTAGATTCTAATTCTATCAAATCGTAACCGTTTAAAA
30610481 ATATTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (38 bp):
CTAGATTCTAATTCTATCAAATCGTAACCGTTTAAAAG
Found at i:30611101 original size:86 final size:86
Alignment explanation
Indices: 30610945--30611106 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 86
30610935 TTAAATTCGA
* *
30610945 TGAATTCATCAAGTTGGTCTCAATAGGACCAACTAAACTCTGGATATGAACTCATTAAGAGTAAT
1 TGAATTCATCAAGTTGGTCTCAATAGGACCAACTAAACTCTGGATATAAACTCACTAAGAGTAAT
30611010 AAACTCAACCTCATATGTTAG
66 AAACTCAACCTCATATGTTAG
* * *
30611031 TGAATTCATCAAGATT-GTCTCAATAGGACCACCTAAA-TCTTGGGATATAAATTGACTAAGAGT
1 TGAATTCATCAAG-TTGGTCTCAATAGGACCAACTAAACTC-T-GGATATAAACTCACTAAGAGT
* *
30611094 GA-GAACTCAACCT
63 AATAAACTCAACCT
30611107 TATGCATGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
85 2 0.03
86 44 0.67
87 20 0.30
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (86 bp):
TGAATTCATCAAGTTGGTCTCAATAGGACCAACTAAACTCTGGATATAAACTCACTAAGAGTAAT
AAACTCAACCTCATATGTTAG
Found at i:30612541 original size:26 final size:26
Alignment explanation
Indices: 30612505--30612630 Score: 121
Period size: 26 Copynumber: 4.8 Consensus size: 26
30612495 TCTGTTCATA
30612505 GTCCTTCGACCAACTCAAACTCAAGG
1 GTCCTTCGACCAACTCAAACTCAAGG
**
30612531 GTCCTTCGACCAACTCAAACTTTAGG
1 GTCCTTCGACCAACTCAAACTCAAGG
* * * * * * *
30612557 CTTCTCCGACCCACTAAAACTCGAGT
1 GTCCTTCGACCAACTCAAACTCAAGG
* *
30612583 AT-CGTCTGACCAACTCAAACTCAAGG
1 GTCCTTC-GACCAACTCAAACTCAAGG
30612609 GTCC-TCTGACCAACTCAAACTC
1 GTCCTTC-GACCAACTCAAACTC
30612631 CTAAGGCCTT
Statistics
Matches: 80, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
25 2 0.03
26 77 0.96
27 1 0.01
ACGTcount: A:0.29, C:0.35, G:0.13, T:0.22
Consensus pattern (26 bp):
GTCCTTCGACCAACTCAAACTCAAGG
Found at i:30614779 original size:15 final size:16
Alignment explanation
Indices: 30614750--30614780 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30614740 TTCTAAGAAG
30614750 CACTTTTGAGACAAAA
1 CACTTTTGAGACAAAA
30614766 CACTTTTG-GACAAAA
1 CACTTTTGAGACAAAA
30614781 GAATTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (16 bp):
CACTTTTGAGACAAAA
Found at i:30617213 original size:24 final size:24
Alignment explanation
Indices: 30617169--30617240 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
30617159 TATAAAGGAA
*
30617169 AGCTCACAAAGAGC-CTATAACGGGT
1 AGCTC-CAAAGAGCAAT-TAACGGGT
*
30617194 AGCTTCAAAGAGCAATTAACGGGT
1 AGCTCCAAAGAGCAATTAACGGGT
*
30617218 AGCTCCGAAGAGCAATTAACGGG
1 AGCTCCAAAGAGCAATTAACGGG
30617241 CAACACCGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 37 0.88
25 5 0.12
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (24 bp):
AGCTCCAAAGAGCAATTAACGGGT
Found at i:30617249 original size:24 final size:24
Alignment explanation
Indices: 30617201--30617250 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
30617191 GGTAGCTTCA
* * *
30617201 AAGAGCAATTAACGGGTAGCTCCG
1 AAGAGCAATTAACGGGCAACACCG
30617225 AAGAGCAATTAACGGGCAACACCG
1 AAGAGCAATTAACGGGCAACACCG
30617249 AA
1 AA
30617251 TAGCCGTATA
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:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (24 bp):
AAGAGCAATTAACGGGCAACACCG
Found at i:30617316 original size:26 final size:26
Alignment explanation
Indices: 30617282--30617347 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
30617272 AAGCGAGCAC
* *
30617282 TAACAGGAAGCTCACAAAGAGCC-TT
1 TAACGGGAAGCTCACAAAGAGCCATA
*
30617307 TAATCGGGAAGCTCACGAAGAGCCATA
1 TAA-CGGGAAGCTCACAAAGAGCCATA
*
30617334 TAACGGGACGCTCA
1 TAACGGGAAGCTCA
30617348 TAAGAGTTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.09
26 28 0.80
27 4 0.11
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
TAACGGGAAGCTCACAAAGAGCCATA
Found at i:30622435 original size:41 final size:41
Alignment explanation
Indices: 30622384--30622566 Score: 156
Period size: 41 Copynumber: 4.5 Consensus size: 41
30622374 TTTAAACAGA
* **
30622384 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCAG
1 TTCACCGGCACTT-AGCCTGATAGGCTTATAGCCTAATTCAG
* * *
30622425 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGATAGGCTTATAGCCTAATTCAG
* * * * *
30622466 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGATAGGCTTATAG-CCTAATTCAG
* * * * * * *
30622507 TTCACTGGCATTTAGCCTGCTAGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGATAGGCTTATAG-CCTAATTCAG
30622548 TTCACCGGCACTTAGCCTG
1 TTCACCGGCACTTAGCCTG
30622567 CTAGATGTAT
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 123 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGATAGGCTTATAGCCTAATTCAG
Found at i:30622593 original size:41 final size:41
Alignment explanation
Indices: 30622419--30622580 Score: 236
Period size: 41 Copynumber: 4.0 Consensus size: 41
30622409 TTATAGTTTA
* * * *
30622419 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTGTAG-CCTG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-G
*
30622460 ATTCAGTTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
* *
30622501 ATTCAATTCACTGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
*
30622542 ATTCAATTCACCGGCACTTAGCCTGCTAGATGTATAGTC
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
30622581 TGAATAATTT
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 109 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (41 bp):
ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
Found at i:30631728 original size:15 final size:15
Alignment explanation
Indices: 30631708--30631741 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
30631698 GGTGATGTCA
30631708 TAATCTAAAAAATAT
1 TAATCTAAAAAATAT
30631723 TAATCTAAAAAATAT
1 TAATCTAAAAAATAT
30631738 TAAT
1 TAAT
30631742 AATCAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
TAATCTAAAAAATAT
Found at i:30633006 original size:25 final size:24
Alignment explanation
Indices: 30632959--30633006 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
30632949 AGCAAGCCCA
* *
30632959 GAAAAAAGAAAAAGAAAGAAAAAG
1 GAAAAAAGAAAAACAAAAAAAAAG
*
30632983 GAAAAAAGGAAAACAAAAACAAAA
1 GAAAAAAGAAAAACAAAAA-AAAA
30633007 AAAAAGGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (24 bp):
GAAAAAAGAAAAACAAAAAAAAAG
Found at i:30639976 original size:9 final size:9
Alignment explanation
Indices: 30639960--30639996 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
30639950 GAGTTAAACG
30639960 AATCGAGTT
1 AATCGAGTT
*
30639969 ATTCGAGTT
1 AATCGAGTT
30639978 AATCGAGTT
1 AATCGAGTT
30639987 AATCGAGTT
1 AATCGAGTT
30639996 A
1 A
30639997 TTTGAATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (9 bp):
AATCGAGTT
Found at i:30640073 original size:9 final size:9
Alignment explanation
Indices: 30640056--30640092 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
30640046 TGAGTTTTCG
30640056 AATTCGAAT
1 AATTCGAAT
*
30640065 AACTCGAAT
1 AATTCGAAT
30640074 AATTCGAAT
1 AATTCGAAT
30640083 AATTCGAAT
1 AATTCGAAT
30640092 A
1 A
30640093 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30640175 original size:30 final size:31
Alignment explanation
Indices: 30640141--30640201 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
30640131 AAACTTATTT
* *
30640141 ACTTTTCCCTCAAAACTTTTACCCCT-TCCC
1 ACTTTCCCCCCAAAACTTTTACCCCTCTCCC
*
30640171 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
1 ACTTTCCCCCCAAAACTTTTACCCCTCTCCC
30640202 CTCCCAATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.34
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACCCCTCTCCC
Found at i:30640491 original size:21 final size:21
Alignment explanation
Indices: 30640462--30640501 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
30640452 TCCCTCAAAC
30640462 TTTTATTCCCCAAAACTTTTTA
1 TTTTATT-CCCAAAACTTTTTA
*
30640484 TTTT-TTCCCTAAACTTTT
1 TTTTATTCCCAAAACTTTT
30640502 ACTTCCTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATTCCCAAAACTTTTTA
Found at i:30641126 original size:5 final size:5
Alignment explanation
Indices: 30641116--30641141 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30641106 CTCGAAAATT
30641116 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
30641142 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:30641755 original size:19 final size:15
Alignment explanation
Indices: 30641714--30641743 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30641704 TAGATGTTGA
30641714 TCATTCCTGGCTTGG
1 TCATTCCTGGCTTGG
30641729 TCATTCCTGGCTTGG
1 TCATTCCTGGCTTGG
30641744 AATTCAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.27, G:0.27, T:0.40
Consensus pattern (15 bp):
TCATTCCTGGCTTGG
Found at i:30649502 original size:24 final size:24
Alignment explanation
Indices: 30649482--30649529 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
30649472 ATTCTAATCG
30649482 ATGTCAAATATATTATGCTAATAA
1 ATGTCAAATATATTATGCTAATAA
* **
30649506 ATGTTAAATATATTACACTAATAA
1 ATGTCAAATATATTATGCTAATAA
30649530 GTACTAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (24 bp):
ATGTCAAATATATTATGCTAATAA
Found at i:30649537 original size:24 final size:24
Alignment explanation
Indices: 30649487--30649538 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
30649477 AATCGATGTC
** **
30649487 AAATATATTATGCTAATAAATGTT
1 AAATATATTACACTAATAAATACT
*
30649511 AAATATATTACACTAATAAGTACT
1 AAATATATTACACTAATAAATACT
30649535 AAAT
1 AAAT
30649539 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATATTACACTAATAAATACT
Found at i:30653683 original size:20 final size:20
Alignment explanation
Indices: 30653658--30653697 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30653648 CGTAAAATGA
*
30653658 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
30653678 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
30653698 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:30653687 original size:34 final size:35
Alignment explanation
Indices: 30653643--30653709 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
30653633 CAGTAAAATA
*
30653643 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
30653677 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
30653710 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:30654427 original size:111 final size:111
Alignment explanation
Indices: 30654233--30654454 Score: 426
Period size: 111 Copynumber: 2.0 Consensus size: 111
30654223 TGATGAAGTA
*
30654233 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTCATATATGTATACCATATAAACATACACTACTTTTTCTAAA
*
30654298 TTTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
30654344 TTGTTGTCTAAGAGAGAGAGTAGTCATATATGTATACCATATAAACATACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTCATATATGTATACCATATAAACATACACTACTTTTTCTAAA
30654409 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
30654455 CATGGTATTG
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.34
Consensus pattern (111 bp):
TTGTTGTCTAAGAGAGAGAGTAGTCATATATGTATACCATATAAACATACACTACTTTTTCTAAA
TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
Found at i:30667073 original size:42 final size:42
Alignment explanation
Indices: 30667026--30667127 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
30667016 TGAGTTTCCA
* * * *
30667026 TTTAACCGTAATGGGTTTCCGTTCAACTCTTTTGAGCTTCAG
1 TTTAACCCTAATGGGTTTCCATTCAACACTTATGAGCTTCAG
** * *
30667068 TTTAACCCTTGTGGGTTTCCATTCAGCACTTATGAGCTTCCG
1 TTTAACCCTAATGGGTTTCCATTCAACACTTATGAGCTTCAG
* *
30667110 TTCAACCCTCATGGGTTT
1 TTTAACCCTAATGGGTTT
30667128 TTGTTTAGCA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.39
Consensus pattern (42 bp):
TTTAACCCTAATGGGTTTCCATTCAACACTTATGAGCTTCAG
Found at i:30678312 original size:18 final size:18
Alignment explanation
Indices: 30678291--30678325 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30678281 AATCATCCCT
30678291 TAATCATCCCTCATTTCA
1 TAATCATCCCTCATTTCA
**
30678309 TAATCATTTCTCATTTC
1 TAATCATCCCTCATTTC
30678326 TCATTTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATCATCCCTCATTTCA
Found at i:30679851 original size:22 final size:22
Alignment explanation
Indices: 30679807--30679847 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
30679797 CAATTTCTCA
* *
30679807 ATCTAATATATATATTTCAATT
1 ATCTAAGATATATAATTCAATT
30679829 ATCTAAGA-ATATAATTCAA
1 ATCTAAGATATATAATTCAA
30679848 ATTACACGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (22 bp):
ATCTAAGATATATAATTCAATT
Found at i:30682042 original size:24 final size:24
Alignment explanation
Indices: 30682027--30682076 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
30682017 AATTTATGTA
30682027 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
** *
30682051 AAATATATTATATTAATAAATACT
1 AAATATATTATGCTAATAAATGCT
30682075 AA
1 AA
30682077 CTCTTTTAGA
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:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:30682660 original size:31 final size:31
Alignment explanation
Indices: 30682624--30682686 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
30682614 TTCATCTTTT
30682624 TCAGTCATCCTATACGAGATTGAGGTGGGAA
1 TCAGTCATCCTATACGAGATTGAGGTGGGAA
*
30682655 TCAGTCATCTTATACGAGATTGAGGTGGGAA
1 TCAGTCATCCTATACGAGATTGAGGTGGGAA
30682686 T
1 T
30682687 TATCTTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (31 bp):
TCAGTCATCCTATACGAGATTGAGGTGGGAA
Found at i:30687062 original size:40 final size:40
Alignment explanation
Indices: 30686978--30687161 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
30686968 TTGAATGCTG
* * * *
30686978 TCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
30687017 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
30687058 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
30687098 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
30687138 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30687162 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 114 0.91
41 9 0.07
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:30694809 original size:40 final size:40
Alignment explanation
Indices: 30694725--30694908 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
30694715 TTGAATGCTG
* * * *
30694725 TCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
30694764 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
30694805 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
30694845 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
30694885 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30694909 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 114 0.91
41 9 0.07
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:30699060 original size:25 final size:23
Alignment explanation
Indices: 30699015--30699060 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
30699005 TTTTTTTTAT
* *
30699015 CTTTTTCATTTTTTATTTCTCAC
1 CTTTTTCATTTATTATGTCTCAC
30699038 CTTTTTCAATTTAATTATGTCTC
1 CTTTTTC-ATTT-ATTATGTCTC
30699061 CAATCTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 4 0.21
25 8 0.42
ACGTcount: A:0.17, C:0.20, G:0.02, T:0.61
Consensus pattern (23 bp):
CTTTTTCATTTATTATGTCTCAC
Found at i:30702172 original size:34 final size:34
Alignment explanation
Indices: 30702125--30702234 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 34
30702115 ATATGTGTTT
*
30702125 ATATGTGAACTGTGTTAATGTGTGGACCGTGTAA
1 ATATGCGAACTGTGTTAATGTGTGGACCGTGTAA
* ** * ** **
30702159 ATATGCGAGCTGTGACAATGTGCGTG-TTGTGTTT
1 ATATGCGAACTGTGTTAATGTGTG-GACCGTGTAA
* *
30702193 ATAAGCAAACTGTGTTAATGTGTGGACCGTGTAA
1 ATATGCGAACTGTGTTAATGTGTGGACCGTGTAA
30702227 ATATGCGA
1 ATATGCGA
30702235 CATATGACAA
Statistics
Matches: 53, Mismatches: 21, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
33 1 0.02
34 51 0.96
35 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (34 bp):
ATATGCGAACTGTGTTAATGTGTGGACCGTGTAA
Found at i:30702192 original size:68 final size:68
Alignment explanation
Indices: 30702118--30702249 Score: 212
Period size: 68 Copynumber: 1.9 Consensus size: 68
30702108 TATACATATA
* ** *
30702118 TGTGTTTATATGTGAACTGTGTTAATGTGTGGACCGTGTAAATATGCGAGC-TGTGACAATGTGC
1 TGTGTTTATAAGCAAACTGTGTTAATGTGTGGACCGTGTAAATATGCGA-CATATGACAATGTGC
30702182 GTGT
65 GTGT
30702186 TGTGTTTATAAGCAAACTGTGTTAATGTGTGGACCGTGTAAATATGCGACATATGACAATGTGC
1 TGTGTTTATAAGCAAACTGTGTTAATGTGTGGACCGTGTAAATATGCGACATATGACAATGTGC
30702250 TGGCTGTGTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 1 0.02
68 58 0.98
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (68 bp):
TGTGTTTATAAGCAAACTGTGTTAATGTGTGGACCGTGTAAATATGCGACATATGACAATGTGCG
TGT
Found at i:30702384 original size:34 final size:34
Alignment explanation
Indices: 30702346--30702453 Score: 110
Period size: 34 Copynumber: 3.2 Consensus size: 34
30702336 TATGACAATG
* *
30702346 TGCGAGTTGTGTTTATATGCTAGCTATGTTTATA
1 TGCGAGTTGTGTTTATATGCTAGTTGTGTTTATA
** * *
30702380 TGCGAGTTGTGCATATATGCAAGTTGTGTTTACA
1 TGCGAGTTGTGTTTATATGCTAGTTGTGTTTATA
* * * *
30702414 TACGAGCTATGTTTATAT-ATGAGTTGTGTTTATA
1 TGCGAGTTGTGTTTATATGCT-AGTTGTGTTTATA
30702448 TGCGAG
1 TGCGAG
30702454 CTAGCTTTGT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.43
Consensus pattern (34 bp):
TGCGAGTTGTGTTTATATGCTAGTTGTGTTTATA
Found at i:30702426 original size:17 final size:17
Alignment explanation
Indices: 30702355--30702456 Score: 60
Period size: 17 Copynumber: 6.0 Consensus size: 17
30702345 GTGCGAGTTG
* *
30702355 TGTTTATATGCTAGCTA
1 TGTTTATATACGAGCTA
* * *
30702372 TGTTTATATGCGAGTTG
1 TGTTTATATACGAGCTA
** * * * *
30702389 TGCATATATGCAAGTTG
1 TGTTTATATACGAGCTA
*
30702406 TGTTTACATACGAGCTA
1 TGTTTATATACGAGCTA
* * *
30702423 TGTTTATATATGAGTTG
1 TGTTTATATACGAGCTA
*
30702440 TGTTTATATGCGAGCTA
1 TGTTTATATACGAGCTA
30702457 GCTTTGTCAA
Statistics
Matches: 64, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 64 1.00
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.43
Consensus pattern (17 bp):
TGTTTATATACGAGCTA
Found at i:30702426 original size:51 final size:51
Alignment explanation
Indices: 30702350--30702450 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
30702340 ACAATGTGCG
* * * *
30702350 AGTTGTGTTTATATGCTAGCTATGTTTATATGCGAGTTGTGCATATATGCA
1 AGTTGTGTTTACATACGAGCTATGTTTATATACGAGTTGTGCATATATGCA
* **
30702401 AGTTGTGTTTACATACGAGCTATGTTTATATATGAGTTGTGTTTATATGC
1 AGTTGTGTTTACATACGAGCTATGTTTATATACGAGTTGTGCATATATGC
30702451 GAGCTAGCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.45
Consensus pattern (51 bp):
AGTTGTGTTTACATACGAGCTATGTTTATATACGAGTTGTGCATATATGCA
Found at i:30706323 original size:50 final size:50
Alignment explanation
Indices: 30706097--30706322 Score: 233
Period size: 50 Copynumber: 4.5 Consensus size: 50
30706087 ACATGCGAAA
** * * *
30706097 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAAT
* * * * ** * *
30706146 GTCATATCCCAGATATGTTCTTACATGGGAGTTCTTATATCGGTGTCC-AT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG-CCAAT
* ** * *
30706196 GCCATGTCCCAGACATAGTCTTACGGGGGACCTCTCATCTCGTTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
* *
30706246 GCCATGTCCCAGACATGGTCTTACATGCGACCTCTCCTCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
30706296 GCCATGTCCCAGACATGGTCTTACATG
1 GCCATGTCCCAGACATGGTCTTACATG
30706323 CCAATGCCAT
Statistics
Matches: 143, Mismatches: 30, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
48 1 0.01
49 32 0.22
50 108 0.76
51 2 0.01
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:30706325 original size:32 final size:32
Alignment explanation
Indices: 30706289--30706354 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
30706279 CTCCTCTCGG
* *
30706289 TGCCAATGCCATGTCCCAGACATGGTCTTACA
1 TGCCAATGCCATATCCCAGACATGGTATTACA
30706321 TGCCAATGCCATATCCCAGACATGGTATTACA
1 TGCCAATGCCATATCCCAGACATGGTATTACA
30706353 TG
1 TG
30706355 GGATCTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (32 bp):
TGCCAATGCCATATCCCAGACATGGTATTACA
Found at i:30712071 original size:24 final size:24
Alignment explanation
Indices: 30712040--30712091 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 24
30712030 TGCTGGACTG
30712040 ATATTTTTCTATGAAAGTAGACTCA
1 ATATTTTTCTATGAAAGTAGA-TCA
30712065 ATATTTTTCTATGAAAGTAGATCA
1 ATATTTTTCTATGAAAGTAGATCA
30712089 ATA
1 ATA
30712092 AGCTTTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (24 bp):
ATATTTTTCTATGAAAGTAGATCA
Found at i:30712098 original size:25 final size:25
Alignment explanation
Indices: 30712045--30712098 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
30712035 GACTGATATT
**
30712045 TTTCTATGAAAGTAGACTCAATATT
1 TTTCTATGAAAGTAGACTCAATAGC
30712070 TTTCTATGAAAGTAGA-TCAATAAGC
1 TTTCTATGAAAGTAGACTCAAT-AGC
30712095 TTTC
1 TTTC
30712099 ATTCTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (25 bp):
TTTCTATGAAAGTAGACTCAATAGC
Found at i:30713066 original size:50 final size:50
Alignment explanation
Indices: 30712827--30713123 Score: 247
Period size: 50 Copynumber: 5.8 Consensus size: 50
30712817 GCTAATAACA
* ** * * *
30712827 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTATAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** **
30712876 TGCCAATGCCATATCCCAAATATGTTCTTACATGGGAGTTCTCATAGCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** *
30712926 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** *
30712976 TGCCAATGCCATGTCCCATACATGGTCTTACATGAAACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
30713026 TGCCAACGCCATGTCCTAGACATGGTCTTCCATGGGACCTCTTATAATCTCATTGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTC---TCATCTC---GG
* * *
30713082 TCCCAATGCCATGTCCCAGACATGGTATTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
30713124 TTACCCAAAT
Statistics
Matches: 195, Mismatches: 45, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.19
50 115 0.59
53 6 0.03
56 36 0.18
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:30728215 original size:12 final size:12
Alignment explanation
Indices: 30728198--30728222 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30728188 TCCTGAAGTG
30728198 ACAAATAAATAA
1 ACAAATAAATAA
30728210 ACAAATAAATAA
1 ACAAATAAATAA
30728222 A
1 A
30728223 AGAAACTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
ACAAATAAATAA
Found at i:30739967 original size:15 final size:16
Alignment explanation
Indices: 30739949--30739978 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30739939 GTTTTTTTTT
30739949 TTATTTTTTA-ATAAC
1 TTATTTTTTATATAAC
30739964 TTATTTTTTATATAA
1 TTATTTTTTATATAA
30739979 AAAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATTTTTTATATAAC
Found at i:30740179 original size:131 final size:134
Alignment explanation
Indices: 30740022--30740268 Score: 371
Period size: 131 Copynumber: 1.9 Consensus size: 134
30740012 ATTTTATATA
* * *
30740022 TATATATTATTATATTAAATATATTTTATCTTTTAAAAACATC-ACTTATTTTTTATAT-TTTTC
1 TATATATCATTATATTAAATATATTTTAT-TTTTAAAAACATCAACTAATTTTTTATATATATT-
* *
30740085 TTTATATAT-AATTTTTTATGTAAAATA-TT-TTTTTCACT-TACATTGTGGATGTAATGAAAAT
64 TTTATATATAAATTTTATATGTAAAATATTTATTTTTCA-TATACATTATGGATGTAATGAAAAT
30740146 ATATTGT
128 ATATTGT
*
30740153 TATATATCATTATTTTAAATATATTTTATTTTTAAAAACATCAACTAATTTTTTATATATATTTT
1 TATATATCATTATATTAAATATATTTTATTTTTAAAAACATCAACTAATTTTTTATATATATTTT
30740218 TATATATAAATTTTATATGTAAAATATTTATTTTTCATATACATTATGGAT
66 TATATATAAATTTTATATGTAAAATATTTATTTTTCATATACATTATGGAT
30740269 ATGATAAATT
Statistics
Matches: 104, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
130 13 0.12
131 50 0.48
132 20 0.19
133 3 0.03
134 18 0.17
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (134 bp):
TATATATCATTATATTAAATATATTTTATTTTTAAAAACATCAACTAATTTTTTATATATATTTT
TATATATAAATTTTATATGTAAAATATTTATTTTTCATATACATTATGGATGTAATGAAAATATA
TTGT
Found at i:30740223 original size:14 final size:13
Alignment explanation
Indices: 30740202--30740235 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
30740192 ATCAACTAAT
30740202 TTTTTATATAT-A
1 TTTTTATATATAA
30740214 TTTTTATATATAA
1 TTTTTATATATAA
*
30740227 ATTTTATAT
1 TTTTTATAT
30740236 GTAAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTTATATATAA
Found at i:30740240 original size:13 final size:13
Alignment explanation
Indices: 30740203--30740240 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
30740193 TCAACTAATT
*
30740203 TTTTATATAT-AT
1 TTTTATATATAAA
30740215 TTTTATATATAAA
1 TTTTATATATAAA
*
30740228 TTTTATATGTAAA
1 TTTTATATATAAA
30740241 ATATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
TTTTATATATAAA
Found at i:30744057 original size:26 final size:26
Alignment explanation
Indices: 30744024--30744076 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
30744014 AAAAGTTGGG
30744024 GTAATTGTGTAAATTTGAAAAATTAA
1 GTAATTGTGTAAATTTGAAAAATTAA
30744050 GTAATTGTGTAAATTTGAAAAATTAA
1 GTAATTGTGTAAATTTGAAAAATTAA
30744076 G
1 G
30744077 GGGTATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (26 bp):
GTAATTGTGTAAATTTGAAAAATTAA
Found at i:30744560 original size:21 final size:21
Alignment explanation
Indices: 30744474--30744626 Score: 92
Period size: 21 Copynumber: 7.3 Consensus size: 21
30744464 TCGTGTTTAC
* * * *
30744474 TTTCCGTTTAGCTCTCACGAG
1 TTTCTGTTTAACTCTTATGAG
* *
30744495 TTTTTGTTTAACTCATATGAG
1 TTTCTGTTTAACTCTTATGAG
* * *
30744516 TTTCCGTTTAGCTCTTTTGAG
1 TTTCTGTTTAACTCTTATGAG
* *
30744537 TTTCTGTTTAACCCTTATGGG
1 TTTCTGTTTAACTCTTATGAG
* * * *
30744558 TTTCCGTTCAGCTCTTAAGAG
1 TTTCTGTTTAACTCTTATGAG
* * *
30744579 CTTCTGTTCAACCCTTAT-ACG
1 TTTCTGTTTAACTCTTATGA-G
* **
30744600 TTTTTGTTTGGCTCTTATGAG
1 TTTCTGTTTAACTCTTATGAG
*
30744621 CTTCTG
1 TTTCTG
30744627 GTCAGCCTTC
Statistics
Matches: 95, Mismatches: 35, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
20 1 0.01
21 93 0.98
22 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (21 bp):
TTTCTGTTTAACTCTTATGAG
Found at i:30744593 original size:42 final size:42
Alignment explanation
Indices: 30744474--30744596 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
30744464 TCGTGTTTAC
* * * * *
30744474 TTTCCGTTTAGCTCTCACGAGTTTTTGTTTAACTCATATGAG
1 TTTCCGTTTAGCTCTTAAGAGTTTCTGTTTAACCCTTATGAG
** *
30744516 TTTCCGTTTAGCTCTTTTGAGTTTCTGTTTAACCCTTATGGG
1 TTTCCGTTTAGCTCTTAAGAGTTTCTGTTTAACCCTTATGAG
* * *
30744558 TTTCCGTTCAGCTCTTAAGAGCTTCTGTTCAACCCTTAT
1 TTTCCGTTTAGCTCTTAAGAGTTTCTGTTTAACCCTTAT
30744597 ACGTTTTTGT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (42 bp):
TTTCCGTTTAGCTCTTAAGAGTTTCTGTTTAACCCTTATGAG
Found at i:30746446 original size:50 final size:53
Alignment explanation
Indices: 30746338--30746465 Score: 138
Period size: 56 Copynumber: 2.4 Consensus size: 53
30746328 ATTTGGGTAA
* *
30746338 AGAGATCCCATGTAAGACTATGTCTGGGACATGACATTGGCATCATTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCA-TGAGA--ATG
***
30746394 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCA-C-TGAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATGAGAATG
*
30746444 AGAGGTTCCC-CGTAAGACCATG
1 AGAGG-TCCCATGTAAGACCATG
30746466 AGAACTCCCA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
50 19 0.29
51 4 0.06
53 4 0.06
55 1 0.02
56 37 0.57
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (53 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATGAGAATG
Found at i:30746827 original size:17 final size:17
Alignment explanation
Indices: 30746803--30746842 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
30746793 CCAATATTGA
30746803 AAAATCCACTTTAAGTC
1 AAAATCCACTTTAAGTC
*
30746820 AGAATCCACTTTAAGTC
1 AAAATCCACTTTAAGTC
30746837 AAAATC
1 AAAATC
30746843 AATATTAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (17 bp):
AAAATCCACTTTAAGTC
Found at i:30748541 original size:50 final size:51
Alignment explanation
Indices: 30748477--30748610 Score: 175
Period size: 50 Copynumber: 2.6 Consensus size: 51
30748467 ACTTTTATCA
* *
30748477 TTCGATACACGTAGTAGCCTTCATATAGTACTACACACGTGATC-AAG-TT
1 TTCGGTACACGTAGTAGCCTTCATATAGTACTACACACGTGACCAAAGCTT
* * *
30748526 TTACGGTTCACGTAGTAGCCTTTACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCATATAGTACTACACACGTGACCAAAGCTT
*
30748578 TTCGGTACACATAGTAGCCTTCACT-TAGTACTA
1 TTCGGTACACGTAGTAGCCTTCA-TATAGTACTA
30748611 GCCTTTACAC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
49 2 0.03
50 37 0.51
51 29 0.40
52 4 0.06
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
TTCGGTACACGTAGTAGCCTTCATATAGTACTACACACGTGACCAAAGCTT
Found at i:30748618 original size:68 final size:68
Alignment explanation
Indices: 30748541--30748678 Score: 240
Period size: 68 Copynumber: 2.0 Consensus size: 68
30748531 GTTCACGTAG
* *
30748541 TAGCCTTTACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCCTTCACTTAG
1 TAGCCTTTACACAGTACTACACACGTGACCAAAGCTTGTCGGTACACATAGTAGCCTTCACTTAG
30748606 TAC
66 TAC
* *
30748609 TAGCCTTTACACAGTACTATACACGTGACCAAAGCTTGTCGGTACACATTGTAGCCTTCACTTAG
1 TAGCCTTTACACAGTACTACACACGTGACCAAAGCTTGTCGGTACACATAGTAGCCTTCACTTAG
30748674 TAC
66 TAC
30748677 TA
1 TA
30748679 CACATGTGAC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (68 bp):
TAGCCTTTACACAGTACTACACACGTGACCAAAGCTTGTCGGTACACATAGTAGCCTTCACTTAG
TAC
Found at i:30753115 original size:40 final size:40
Alignment explanation
Indices: 30753085--30753334 Score: 385
Period size: 40 Copynumber: 6.3 Consensus size: 40
30753075 GGACTAAGAT
* * * *
30753085 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
30753125 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
30753165 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
30753205 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
30753245 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
30753285 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
30753324 CCGAAGGCATT
1 CCGAAGGCATT
30753335 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
39 34 0.17
40 163 0.83
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:30753169 original size:80 final size:80
Alignment explanation
Indices: 30753032--30753334 Score: 396
Period size: 80 Copynumber: 3.8 Consensus size: 80
30753022 TTGAATGCTG
* * * * * * * *
30753032 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGCTAAG-TCCCGAAGGCAT
* * **
30753095 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTGTTAAA
*
30753112 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
30753177 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
*
30753192 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
30753257 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
* * * * *
30753272 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATT
30753335 TGAACGAGGA
Statistics
Matches: 202, Mismatches: 19, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
79 35 0.17
80 161 0.80
81 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
GTGCGAGTTGTTAAA
Found at i:30753245 original size:120 final size:119
Alignment explanation
Indices: 30753032--30753334 Score: 392
Period size: 120 Copynumber: 2.5 Consensus size: 119
30753022 TTGAATGCTG
* * * * * * * * *
30753032 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
30753096 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
** * *
30753152 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* * *
30753217 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30753272 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
30753335 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
119 34 0.21
120 122 0.76
121 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30759140 original size:33 final size:33
Alignment explanation
Indices: 30759103--30759171 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
30759093 TGTCCCAGAC
30759103 ATGGTCTTACATGGGATGTTTCTTGTACTGCCA
1 ATGGTCTTACATGGGATGTTTCTTGTACTGCCA
30759136 ATGGTCTTACATGGGATGTTTCTTGTACTGCCA
1 ATGGTCTTACATGGGATGTTTCTTGTACTGCCA
30759169 ATG
1 ATG
30759172 CCATATCCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (33 bp):
ATGGTCTTACATGGGATGTTTCTTGTACTGCCA
Found at i:30759290 original size:50 final size:50
Alignment explanation
Indices: 30759164--30759360 Score: 198
Period size: 49 Copynumber: 3.8 Consensus size: 50
30759154 TTTCTTGTAC
* * * ** *
30759164 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCGA
** *
30759214 TGCC-ATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCGA
* *
30759263 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATGTTCTCAATGA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCA---TATC---GA
* * * *
30759319 TGCCAATGTCATGTCCCAGGCATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCT
30759361 TTACCCAAAT
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
49 40 0.33
50 40 0.33
53 4 0.03
56 39 0.32
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCGA
Found at i:30768127 original size:19 final size:19
Alignment explanation
Indices: 30768103--30768143 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
30768093 TATTTTAAAG
30768103 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
30768122 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
30768141 TTA
1 TTA
30768144 GAATAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:30769160 original size:49 final size:47
Alignment explanation
Indices: 30769097--30769222 Score: 150
Period size: 46 Copynumber: 2.7 Consensus size: 47
30769087 AATTATAAAA
*
30769097 TCAAATAATTATTTCAAATATCACAATTATTTTTACATGTGAAATATT
1 TCAAAAAATTATTTCAAATATCA-AATTATTTTTACATGTGAAATATT
** *
30769145 TCAAAAAAATTATTTCAAATAT--TTTTATTTTTATATGTGAAATATT
1 TC-AAAAAATTATTTCAAATATCAAATTATTTTTACATGTGAAATATT
* *
30769191 TCAAATAATTAATTCAAATATCAATATT-TTTT
1 TCAAAAAATTATTTCAAATATCAA-ATTATTTT
30769223 CACCTGCATT
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
45 17 0.26
46 23 0.35
47 4 0.06
48 4 0.06
49 18 0.27
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (47 bp):
TCAAAAAATTATTTCAAATATCAAATTATTTTTACATGTGAAATATT
Found at i:30769219 original size:45 final size:45
Alignment explanation
Indices: 30769097--30769221 Score: 160
Period size: 45 Copynumber: 2.7 Consensus size: 45
30769087 AATTATAAAA
30769097 TCAAATAATTATTTCAAATATCACAATTATTTTTACATGTGAAATATT
1 TCAAATAATTATTTCAAATAT--CAA-TATTTTTACATGTGAAATATT
* *** *
30769145 TCAAAAAAATTATTTCAAATATTTTTATTTTTATATGTGAAATATT
1 TC-AAATAATTATTTCAAATATCAATATTTTTACATGTGAAATATT
*
30769191 TCAAATAATTAATTCAAATATCAATATTTTT
1 TCAAATAATTATTTCAAATATCAATATTTTT
30769222 TCACCTGCAT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
45 24 0.36
46 22 0.33
48 2 0.03
49 18 0.27
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.46
Consensus pattern (45 bp):
TCAAATAATTATTTCAAATATCAATATTTTTACATGTGAAATATT
Found at i:30773441 original size:13 final size:13
Alignment explanation
Indices: 30773423--30773447 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30773413 AAATCTGTTT
30773423 TGAGTGCTGCTCA
1 TGAGTGCTGCTCA
30773436 TGAGTGCTGCTC
1 TGAGTGCTGCTC
30773448 TTGTTAAGGC
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:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (13 bp):
TGAGTGCTGCTCA
Found at i:30775011 original size:16 final size:16
Alignment explanation
Indices: 30774990--30775028 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
30774980 ATTTTTGTTA
30774990 TAAGAATATTGATTAT
1 TAAGAATATTGATTAT
30775006 TAAGAATATTGATTAT
1 TAAGAATATTGATTAT
30775022 TAAGAAT
1 TAAGAAT
30775029 TTTATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (16 bp):
TAAGAATATTGATTAT
Found at i:30775169 original size:17 final size:18
Alignment explanation
Indices: 30775149--30775182 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30775139 ATTATTAAGA
*
30775149 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAAATATAT
30775166 ATTTTAATTAAAATATA
1 ATTTTAATTAAAATATA
30775183 AATCCAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:30775331 original size:20 final size:20
Alignment explanation
Indices: 30775306--30775360 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
30775296 TGCTGATGTA
30775306 TTTTGCTATTGTTTTCATCG
1 TTTTGCTATTGTTTTCATCG
* * *
30775326 TTTTGCTGTTGTGTTTTATTG
1 TTTTGCTATTGT-TTTCATCG
* *
30775347 TTTTACTATCGTTT
1 TTTTGCTATTGTTT
30775361 CGTTATTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.09, C:0.11, G:0.16, T:0.64
Consensus pattern (20 bp):
TTTTGCTATTGTTTTCATCG
Found at i:30788513 original size:36 final size:36
Alignment explanation
Indices: 30788462--30788581 Score: 109
Period size: 36 Copynumber: 3.3 Consensus size: 36
30788452 AATACCAACT
* * *
30788462 AAACACACCAGATGCTCAGAAGAATTAGTCCATCCG
1 AAACACACCAAATGCTCAGAAGAATTAATCCATCAG
* ** *
30788498 AAACACACCAAATGCTCATTAA-AGCTAATCCATCTG
1 AAACACACCAAATGCTCA-GAAGAATTAATCCATCAG
* * * *
30788534 AAACACACC-AGTAGCTCCGAAGATTTAATCCAACAG
1 AAACACACCAAAT-GCTCAGAAGAATTAATCCATCAG
30788570 AAACACACCAAA
1 AAACACACCAAA
30788582 ATAGAGAGTA
Statistics
Matches: 66, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
35 4 0.06
36 59 0.89
37 3 0.05
ACGTcount: A:0.43, C:0.28, G:0.12, T:0.17
Consensus pattern (36 bp):
AAACACACCAAATGCTCAGAAGAATTAATCCATCAG
Found at i:30790028 original size:3 final size:3
Alignment explanation
Indices: 30790022--30790053 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
30790012 TTATAATAAT
30790022 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
30790054 TAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:30803524 original size:30 final size:30
Alignment explanation
Indices: 30803490--30803548 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
30803480 CGGCTCAATG
* *
30803490 ATGTTGGACATAAGCCTATCTCTCAAAAGC
1 ATGTTGGACATAAGCCTATCCCACAAAAGC
30803520 ATGTTGGACATAAGCCTATCCCACAAAAG
1 ATGTTGGACATAAGCCTATCCCACAAAAG
30803549 AATTCTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (30 bp):
ATGTTGGACATAAGCCTATCCCACAAAAGC
Found at i:30805388 original size:39 final size:39
Alignment explanation
Indices: 30805316--30805423 Score: 141
Period size: 40 Copynumber: 2.7 Consensus size: 39
30805306 CCGAATGTAA
30805316 TAAATATATTTTTTTA-TTTTTTATTTTTAAAAATA-TTT
1 TAAA-ATATTTTTTTATTTTTTTATTTTTAAAAATATTTT
30805354 TAAACATATTTTTTTATTTTTTTTATTTTT-AAAATATTTT
1 TAAA-ATATTTTTTTA-TTTTTTTATTTTTAAAAATATTTT
*
30805394 TAAAATAATTTTTTTAATTTTTTAATTTTT
1 TAAAAT-ATTTTTTT-ATTTTTTTATTTTT
30805424 TTAGTTTTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
38 15 0.24
39 8 0.13
40 39 0.62
41 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (39 bp):
TAAAATATTTTTTTATTTTTTTATTTTTAAAAATATTTT
Found at i:30805394 original size:12 final size:12
Alignment explanation
Indices: 30805378--30805406 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
30805368 TATTTTTTTT
30805378 ATTTTTAAAAT-
1 ATTTTTAAAATA
30805389 ATTTTTAAAATA
1 ATTTTTAAAATA
30805401 ATTTTT
1 ATTTTT
30805407 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTTTAAAATA
Found at i:30805413 original size:9 final size:9
Alignment explanation
Indices: 30805399--30805437 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
30805389 ATTTTTAAAA
30805399 TAATTTTTT
1 TAATTTTTT
30805408 TAA-TTTTT
1 TAATTTTTT
30805416 TAATTTTTT
1 TAATTTTTT
*
30805425 TAGTTTTTAT
1 TAATTTTT-T
30805435 TAA
1 TAA
30805438 AAAATGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 8 0.31
9 15 0.58
10 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (9 bp):
TAATTTTTT
Found at i:30805421 original size:17 final size:17
Alignment explanation
Indices: 30805399--30805432 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30805389 ATTTTTAAAA
30805399 TAATTTTTTTAATTTTT
1 TAATTTTTTTAATTTTT
*
30805416 TAATTTTTTTAGTTTTT
1 TAATTTTTTTAATTTTT
30805433 ATTAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TAATTTTTTTAATTTTT
Found at i:30807097 original size:50 final size:53
Alignment explanation
Indices: 30807000--30807096 Score: 130
Period size: 50 Copynumber: 1.9 Consensus size: 53
30806990 ATTTTAAGAT
*
30807000 AAATAGATACACACATAATATTAAATTTAAATATCTTAAAAGTAAAAATGAAC
1 AAATAGATACACACATAATATTAAACTTAAATATCTTAAAAGTAAAAATGAAC
* * *
30807053 AAATAGATA-A-A-ATAATATTAAACTTAGATAT-TTTAGAGTAAAAA
1 AAATAGATACACACATAATATTAAACTTAAATATCTTAAAAGTAAAAA
30807097 AATGATAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
49 11 0.28
50 18 0.45
51 1 0.03
52 1 0.03
53 9 0.22
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (53 bp):
AAATAGATACACACATAATATTAAACTTAAATATCTTAAAAGTAAAAATGAAC
Found at i:30817782 original size:18 final size:18
Alignment explanation
Indices: 30817756--30817798 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
30817746 CTGCATCTCT
*
30817756 TCATCATATGTAAGTGGG
1 TCATTATATGTAAGTGGG
*
30817774 TCATTATATGTGAGTGGG
1 TCATTATATGTAAGTGGG
30817792 TCATTAT
1 TCATTAT
30817799 CTTCCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (18 bp):
TCATTATATGTAAGTGGG
Found at i:30823647 original size:20 final size:21
Alignment explanation
Indices: 30823603--30823650 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
30823593 GAACATGTTA
30823603 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
30823625 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
30823645 ATTTTT
1 ATTTTT
30823651 GACAGATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:30825441 original size:14 final size:14
Alignment explanation
Indices: 30825422--30825451 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30825412 AGTAAGAGAG
*
30825422 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
30825436 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
30825450 GA
1 GA
30825452 ATGAGGGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:30832888 original size:111 final size:111
Alignment explanation
Indices: 30832694--30832919 Score: 416
Period size: 111 Copynumber: 2.0 Consensus size: 111
30832684 TCCATGATGA
*
30832694 GGAACATTCGTAATAACTCTTTGTACCTTTCCTATGCTTCATACAGGGACTCATCATCCATTTGT
1 GGAACATTCGTAATAACTCTTTGTACCTTTCCCATGCTTCATACAGGGACTCATCATCCATTTGT
*
30832759 TGGAAGGCAGTGATCTCATTCCTCAACTTGGCATTCTTGCTCGGCG
66 TGAAAGGCAGTGATCTCATTCCTCAACTTGGCATTCTTGCTCGGCG
* *
30832805 GGAACTTTCGTAATAACTCTTTGTACCTTTCCCATGCTTCATACAGGGACTCATCATCCATTTTT
1 GGAACATTCGTAATAACTCTTTGTACCTTTCCCATGCTTCATACAGGGACTCATCATCCATTTGT
30832870 TGAAAGGCAGTGATCTCATTCCTCAACTTGGCATTCTTGCTCGGCG
66 TGAAAGGCAGTGATCTCATTCCTCAACTTGGCATTCTTGCTCGGCG
30832916 GGAA
1 GGAA
30832920 ATACTTCATG
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (111 bp):
GGAACATTCGTAATAACTCTTTGTACCTTTCCCATGCTTCATACAGGGACTCATCATCCATTTGT
TGAAAGGCAGTGATCTCATTCCTCAACTTGGCATTCTTGCTCGGCG
Found at i:30841409 original size:137 final size:137
Alignment explanation
Indices: 30841135--30841402 Score: 394
Period size: 137 Copynumber: 2.0 Consensus size: 137
30841125 AAGCTATAAA
* *
30841135 TGGGCCTGCTTACACAAGCTGTCAATTGGAATGTAGCTACACAGTGCTGCTCACACAAGCTGTCG
1 TGGGCCTGCTCACACAAGCTGTCAATTGGAACGTAGCTACACAGTGCTGCTCACACAAGCTGTCG
** * *
30841200 AGTATCTGCAACAAATGTTGGAACTCAGCCACCGGAAGGACATTCAGCACCAACACCTGAAAGAT
66 AGTATCTGCAACAAATGTCAGAACTCAGCCACCGGAAGGACATTCAGCACCAACACCCGAAACAT
30841265 GATAACC
131 GATAACC
* ** *
30841272 TGGGTCTGCTCACACAAGCTGTCGGTTGGAACGTAGCTACACAGTGCTGCTCACACAAGTTGTCG
1 TGGGCCTGCTCACACAAGCTGTCAATTGGAACGTAGCTACACAGTGCTGCTCACACAAGCTGTCG
* * **
30841337 AGTATCTGCAACAAATGTCAGAACTCAGCCACC-GATAGGACATTTAGGACCAGTACCCGAAACA
66 AGTATCTGCAACAAATGTCAGAACTCAGCCACCGGA-AGGACATTCAGCACCAACACCCGAAACA
30841401 TG
130 TG
30841403 GAAACCTAAT
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
136 2 0.02
137 114 0.98
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (137 bp):
TGGGCCTGCTCACACAAGCTGTCAATTGGAACGTAGCTACACAGTGCTGCTCACACAAGCTGTCG
AGTATCTGCAACAAATGTCAGAACTCAGCCACCGGAAGGACATTCAGCACCAACACCCGAAACAT
GATAACC
Found at i:30844542 original size:41 final size:41
Alignment explanation
Indices: 30844485--30844565 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
30844475 ATGAGGGTCT
* *
30844485 TTTGGGCCTTTCCCGTATCGTGTTCAATTATAAGTGTTTCC
1 TTTGGGCCTCTCCCGTATCGTGTCCAATTATAAGTGTTTCC
30844526 TTTGGGCCTCTCCCGTATCGTGTCCAATTATAAGTGTTTC
1 TTTGGGCCTCTCCCGTATCGTGTCCAATTATAAGTGTTTC
30844566 TTAGACTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (41 bp):
TTTGGGCCTCTCCCGTATCGTGTCCAATTATAAGTGTTTCC
Found at i:30844658 original size:4 final size:4
Alignment explanation
Indices: 30844643--30844676 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
30844633 AAGCATCATG
30844643 AATT AATT --TT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT
30844677 TCCTAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
AATT
Found at i:30844868 original size:4 final size:4
Alignment explanation
Indices: 30844824--30844849 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
30844814 ATTTTGAACT
30844824 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
30844850 GAAAAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:30853071 original size:40 final size:40
Alignment explanation
Indices: 30853027--30853214 Score: 304
Period size: 40 Copynumber: 4.7 Consensus size: 40
30853017 GCAAACACAT
* * *
30853027 TTGCCTTCGGGTCTTAACTCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
30853067 TTGCCTTCGGGTCTTAGCCTGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
30853107 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
30853147 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30853187 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
30853215 TCCAATGCTC
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:30862627 original size:9 final size:9
Alignment explanation
Indices: 30862613--30862638 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30862603 TTTACACATA
30862613 TTTTACAAC
1 TTTTACAAC
30862622 TTTTACAAC
1 TTTTACAAC
30862631 TTTTACAA
1 TTTTACAA
30862639 ATAAGTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (9 bp):
TTTTACAAC
Found at i:30866123 original size:29 final size:25
Alignment explanation
Indices: 30866062--30866119 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
30866052 AGCAAAAATA
30866062 AAATGAATCCTAAGTATATATGACC
1 AAATGAATCCTAAGTATATATGACC
30866087 AAATGAATCCTAAGTATATATGACC
1 AAATGAATCCTAAGTATATATGACC
*
30866112 TAATGAAT
1 AAATGAAT
30866120 GAATGCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (25 bp):
AAATGAATCCTAAGTATATATGACC
Found at i:30867006 original size:17 final size:18
Alignment explanation
Indices: 30866986--30867025 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
30866976 ATTAATTAAC
30866986 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
30867003 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
30867020 TAAATT
1 TAAATT
30867026 CTAATTCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 17 0.81
18 1 0.05
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:30871634 original size:33 final size:32
Alignment explanation
Indices: 30871557--30871666 Score: 118
Period size: 32 Copynumber: 3.5 Consensus size: 32
30871547 AAGCTTGCAT
* *
30871557 ATTATGTCTTGCATTATATGTTTGTAGCTTTA
1 ATTATGTCTTGCATTATGTGTTTGCAGCTTTA
** *
30871589 ATTATGAATTGCATTATGTGTTTGCATCTTTAA
1 ATTATGTCTTGCATTATGTGTTTGCAGCTTT-A
*
30871622 ATTATGTCTTGCATTATGTG-TAGCA--TTTA
1 ATTATGTCTTGCATTATGTGTTTGCAGCTTTA
* *
30871651 ATTAGGTCATGCATTA
1 ATTATGTCTTGCATTA
30871667 AAGCATCTCA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
29 15 0.22
30 3 0.04
32 30 0.45
33 19 0.28
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.48
Consensus pattern (32 bp):
ATTATGTCTTGCATTATGTGTTTGCAGCTTTA
Found at i:30871663 original size:29 final size:32
Alignment explanation
Indices: 30871598--30871666 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 32
30871588 AATTATGAAT
* * *
30871598 TGCATTATGTGTTTGCATCTTTAAATTATGTCT
1 TGCATTATGTGTTAGCA-CTTTAAATTAGGTCA
30871631 TGCATTATGTG-TAGCA-TTT-AATTAGGTCA
1 TGCATTATGTGTTAGCACTTTAAATTAGGTCA
30871660 TGCATTA
1 TGCATTA
30871667 AAGCATCTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 15 0.45
30 3 0.09
32 4 0.12
33 11 0.33
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (32 bp):
TGCATTATGTGTTAGCACTTTAAATTAGGTCA
Found at i:30872958 original size:18 final size:16
Alignment explanation
Indices: 30872919--30872961 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
30872909 AAAAAAGTAT
30872919 TGAAAAAAATTCGAAG
1 TGAAAAAAATTCGAAG
**
30872935 AAAAAAATAGATTCGAAG
1 TGAAAAA-A-ATTCGAAG
30872953 TGAAAAAAA
1 TGAAAAAAA
30872962 AGGGAAAGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
16 6 0.29
17 2 0.10
18 13 0.62
ACGTcount: A:0.63, C:0.05, G:0.16, T:0.16
Consensus pattern (16 bp):
TGAAAAAAATTCGAAG
Found at i:30874044 original size:12 final size:13
Alignment explanation
Indices: 30874022--30874052 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
30874012 AGTGTGGAGC
30874022 AAAAGAAATTGAG
1 AAAAGAAATTGAG
30874035 AAAA-AAATTGAG
1 AAAAGAAATTGAG
30874047 AAAAGA
1 AAAAGA
30874053 GAGAGAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.13
Consensus pattern (13 bp):
AAAAGAAATTGAG
Found at i:30875611 original size:24 final size:23
Alignment explanation
Indices: 30875548--30875662 Score: 106
Period size: 23 Copynumber: 4.9 Consensus size: 23
30875538 TCTACCCTGT
*
30875548 TTGGACAGC-TCTTATACATCAAA
1 TTGGACAGCAT-TTATACACCAAA
** *
30875571 TCAGACACCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
*
30875594 TTGGATAGCAGTTTATACACCAAA
1 TTGGACAGCA-TTTATACACCAAA
* *
30875618 TTGGACAGCATATATACACTAAA
1 TTGGACAGCATTTATACACCAAA
* *
30875641 TTGGCCAACATATATATACACC
1 TTGGACAGCAT-T-TATACACC
30875663 CAATCAATTA
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
23 43 0.59
24 23 0.32
25 7 0.10
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (23 bp):
TTGGACAGCATTTATACACCAAA
Found at i:30876675 original size:43 final size:42
Alignment explanation
Indices: 30876620--30876746 Score: 132
Period size: 43 Copynumber: 3.0 Consensus size: 42
30876610 ATATCATACA
30876620 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAACG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAA-CACATAACG
** * *
30876663 ATGCC-ACTGTCCCAGACAAGGTCTTAGATGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACATGT-AACACATA-ACG
* * *
30876706 ATGCCAACATCCCAGATGTGGTCTTACACGATAACACATAA
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-TAACACATAA
30876747 TGGAATCCTA
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
42 3 0.04
43 58 0.87
44 6 0.09
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAACACATAACG
Found at i:30878165 original size:23 final size:23
Alignment explanation
Indices: 30878129--30878175 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
30878119 TATTAACATA
* *
30878129 ATAACTTTTCTATG-TAAAATATC
1 ATAACATTTATATGTTAAAA-ATC
30878152 ATAACATTTATATGTTAAAAATC
1 ATAACATTTATATGTTAAAAATC
30878175 A
1 A
30878176 CAATCAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (23 bp):
ATAACATTTATATGTTAAAAATC
Found at i:30891142 original size:14 final size:15
Alignment explanation
Indices: 30891000--30891143 Score: 59
Period size: 15 Copynumber: 9.7 Consensus size: 15
30890990 TACATAAGTC
*
30891000 GGGTTCGCACATACA
1 GGGTTCGCACATATA
* *
30891015 GGGGTCACACATATA
1 GGGTTCGCACATATA
* *
30891030 AGGCT-GCACATAT-
1 GGGTTCGCACATATA
*
30891043 GGGTTCGCACATGT-
1 GGGTTCGCACATATA
* *
30891057 GGGTTCACAC-TTTA
1 GGGTTCGCACATATA
* *
30891071 GGGGTTTGCACCT-TA
1 -GGGTTCGCACATATA
* *
30891086 GAATGGTTCACA-ATTTA
1 G---GGTTCGCACATATA
*
30891103 GGGGTTCACACATATA
1 -GGGTTCGCACATATA
* *
30891119 GGGTTTGCACAT-TT
1 GGGTTCGCACATATA
30891133 GGGTTCGCACA
1 GGGTTCGCACA
30891144 GATGATTTCA
Statistics
Matches: 98, Mismatches: 21, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
13 5 0.05
14 35 0.36
15 43 0.44
16 6 0.06
17 8 0.08
18 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (15 bp):
GGGTTCGCACATATA
Found at i:30891403 original size:21 final size:21
Alignment explanation
Indices: 30891379--30891433 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
30891369 ATCAATTTAG
* *
30891379 GGTTCGCATATAAACAAGTAT
1 GGTTCACATATAAACAAGTAC
* *
30891400 GGTTCCCATAACTAAACATGTAC
1 GGTTCACAT-A-TAAACAAGTAC
30891423 GGTTCACATAT
1 GGTTCACATAT
30891434 TATAGAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 9 0.32
22 2 0.07
23 17 0.61
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (21 bp):
GGTTCACATATAAACAAGTAC
Found at i:30891426 original size:23 final size:23
Alignment explanation
Indices: 30891389--30891432 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
30891379 GGTTCGCATA
* *
30891389 TAAACAAGTATGGTTCCCATAAC
1 TAAACAAGTACGGTTCACATAAC
*
30891412 TAAACATGTACGGTTCACATA
1 TAAACAAGTACGGTTCACATA
30891433 TTATAGAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (23 bp):
TAAACAAGTACGGTTCACATAAC
Found at i:30892821 original size:21 final size:21
Alignment explanation
Indices: 30892796--30892841 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
30892786 TTGAGAAGAA
*
30892796 AGAATCAAAGATTAATATTGT
1 AGAATCAAAGAGTAATATTGT
30892817 AGAATCAAAGAGTAATATTGT
1 AGAATCAAAGAGTAATATTGT
30892838 AGAA
1 AGAA
30892842 AAACCAACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.28
Consensus pattern (21 bp):
AGAATCAAAGAGTAATATTGT
Found at i:30898607 original size:20 final size:20
Alignment explanation
Indices: 30898569--30898609 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
30898559 GTATTTAGCA
*
30898569 AAGTTACGGTTTCCCAACAC
1 AAGTTACGGTTTCCAAACAC
*
30898589 AAGTTACGGTTTTCAAACAC
1 AAGTTACGGTTTCCAAACAC
30898609 A
1 A
30898610 CTACCATGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (20 bp):
AAGTTACGGTTTCCAAACAC
Found at i:30900552 original size:50 final size:50
Alignment explanation
Indices: 30900481--30900649 Score: 193
Period size: 50 Copynumber: 3.4 Consensus size: 50
30900471 TTAAGGGAAT
* *
30900481 GAGATCCCATGTAAGACCATGTCAGGGACATGGCGTTGGCACTGAGATGA
1 GAGATCCCATGTAAGACCATGTCAGGGACATAGCGTTGGCACCGAGATGA
30900531 GAGATCCCATGTAAGACCATGTCTA-GGACATAGCGTTGGCACCGAGATGA
1 GAGATCCCATGTAAGACCATGTC-AGGGACATAGCGTTGGCACCGAGATGA
* * * * * * *
30900581 GAGGTCCC-TCGTAAGACCAT-TCTGGGACATATCATGGGCACCGATATCA
1 GAGATCCCAT-GTAAGACCATGTCAGGGACATAGCGTTGGCACCGAGATGA
*
30900630 -AAACTCCCATGTAAGACCAT
1 GAGA-TCCCATGTAAGACCAT
30900650 ATTTGGGATA
Statistics
Matches: 103, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
48 1 0.01
49 37 0.36
50 64 0.62
51 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.21
Consensus pattern (50 bp):
GAGATCCCATGTAAGACCATGTCAGGGACATAGCGTTGGCACCGAGATGA
Found at i:30900936 original size:12 final size:12
Alignment explanation
Indices: 30900919--30900957 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30900909 ATGAGTTATT
30900919 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
30900931 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
30900943 TAAGTGAGTAAG
1 TAAGTAAGCAAG
30900955 TAA
1 TAA
30900958 AGAAGTGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:30900945 original size:20 final size:20
Alignment explanation
Indices: 30900920--30900963 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
30900910 TGAGTTATTT
30900920 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
** *
30900940 AAGTAAGTGAGTAAGTAAAG
1 AAGTAAGCAAGTAAGTAAAC
30900960 AAGT
1 AAGT
30900964 GAGTAAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.25, T:0.18
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:30902407 original size:50 final size:49
Alignment explanation
Indices: 30902351--30902544 Score: 208
Period size: 50 Copynumber: 3.9 Consensus size: 49
30902341 CATTGAGATT
* *
30902351 ATGAGAGGTCCCATGTAAAACCATGTCTGGGACATGGCGTTGGCACCCAA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CCAA
** * *
30902401 ATGAGAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATGGGCACCAA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAA
** * * ** *
30902450 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC
1 -ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAA
* * ** *
30902500 AGGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30902545 TGTTATTATC
Statistics
Matches: 119, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
49 42 0.35
50 77 0.65
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (49 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAA
Found at i:30915959 original size:5 final size:5
Alignment explanation
Indices: 30915949--30915991 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
30915939 CATATCTTTA
*
30915949 TTATT TTATT TTATT TTATTT TTAATT TTATCT TTCTT TTATT
1 TTATT TTATT TTATT TTA-TT TT-ATT TTAT-T TTATT TTATT
30915992 CAATTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 20 0.61
6 12 0.36
7 1 0.03
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:30915978 original size:17 final size:18
Alignment explanation
Indices: 30915945--30915979 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
30915935 TCGTCATATC
*
30915945 TTTATTATTTTATTTTAT
1 TTTATTATTTAATTTTAT
30915963 TTTATT-TTTAATTTTAT
1 TTTATTATTTAATTTTAT
30915980 CTTTCTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTATTATTTAATTTTAT
Found at i:30915988 original size:11 final size:10
Alignment explanation
Indices: 30915949--30915991 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
30915939 CATATCTTTA
30915949 TTATTTTATT
1 TTATTTTATT
30915959 TTATTTTATTT
1 TTATTTTA-TT
30915970 TTAATTTTATCT
1 TT-ATTTTAT-T
*
30915982 TTCTTTTATT
1 TTATTTTATT
30915992 CAATTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 9 0.31
11 11 0.38
12 9 0.31
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (10 bp):
TTATTTTATT
Found at i:30916512 original size:18 final size:18
Alignment explanation
Indices: 30916489--30916526 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
30916479 CCCTAAACTG
30916489 AATTGCAATTTACTTCCC
1 AATTGCAATTTACTTCCC
*
30916507 AATTGCAATTTACTTTCC
1 AATTGCAATTTACTTCCC
30916525 AA
1 AA
30916527 GTTACCTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (18 bp):
AATTGCAATTTACTTCCC
Found at i:30925424 original size:46 final size:46
Alignment explanation
Indices: 30925352--30925482 Score: 208
Period size: 46 Copynumber: 2.8 Consensus size: 46
30925342 ACAAAATGAT
* *
30925352 TAAGACCATAGTTGATAGACATTATGGCACTATACCAGAGAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAGAGAATAAA
* * *
30925398 TAAGACCATAGTTGAAAGGCACTATGGCACTATATCAAAGAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAGAGAATAAA
*
30925444 TAAGACCATAGTTGAAAGACACTATGGCACCATACCAGA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAGA
30925483 AACGAGTATG
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (46 bp):
TAAGACCATAGTTGAAAGACACTATGGCACTATACCAGAGAATAAA
Found at i:30926711 original size:41 final size:41
Alignment explanation
Indices: 30926652--30927039 Score: 481
Period size: 41 Copynumber: 9.5 Consensus size: 41
30926642 TGAGCTTTCG
* *
30926652 GGGCTTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* *
30926693 GGGCTTTAGTGGCATTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
*
30926734 GGGCTTTTAGCGGTGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGGC-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * * *
30926776 GGGATTTAGCAGCATTTTTAAGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * *
30926817 AGGCTTTAGCGGTGTTTTTGAGAAAGCGCCGCTAATGCTTA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * * * *
30926858 GGGATTTAGCGACGTTTTTTAGAAAGCTCCGCTAATGTTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
** * * *
30926899 GTACTTTAGCGGTGTTTTTGA-AAAGCGCTGCTAATACTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * * *
30926939 GGGATTTAGCTGCGTTTTTGAGAATGCGCCACTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * * * *
30926980 GGGCTTTAGCGGCGTTTTTGGGAAAACGTCGCTAATTCTCG
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
30927021 GGGCTTTAGCGGCGTTTTT
1 GGGCTTTAGCGGCGTTTTT
30927040 CAGGTAGCAC
Statistics
Matches: 290, Mismatches: 55, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
40 31 0.11
41 222 0.77
42 37 0.13
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
Found at i:30926991 original size:163 final size:165
Alignment explanation
Indices: 30926652--30927039 Score: 528
Period size: 163 Copynumber: 2.4 Consensus size: 165
30926642 TGAGCTTTCG
* * * *
30926652 GGGCTTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGTGGCATTTTTGAGAA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAA
* *
30926717 AGCGCCGCTAATGCTCAGGGCTTTTAGCGGTGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGATT
66 AGCGCCGCTAATGCTCAGGACTTTTAGCGGTGTTTTTGAGAAAGCGCCGCTAATACTCAGGGATT
*
30926782 TAGCAGCATTTTTAAGAAAGCGCCGCTAATGCTCA
131 TAGCAGCATTTTTAAGAAAGCGCCACTAATGCTCA
* * * * * *
30926817 AGGCTTTAGCGGTGTTTTTGAGAAAGCGCCGCTAATGCTTAGGGATTTAGCGACGTTTTTTAGAA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAA
* * * *
30926882 AGCTCCGCTAATGTTCAGTAC-TTTAGCGGTGTTTTTGA-AAAGCGCTGCTAATACTCAGGGATT
66 AGCGCCGCTAATGCTCAGGACTTTTAGCGGTGTTTTTGAGAAAGCGCCGCTAATACTCAGGGATT
* * * *
30926945 TAGCTGCGTTTTTGAGAATGCGCCACTAATGCTCA
131 TAGCAGCATTTTTAAGAAAGCGCCACTAATGCTCA
* * * * *
30926980 GGGCTTTAGCGGCGTTTTTGGGAAAACGTCGCTAATTCTCGGGGCTTTAGCGGCGTTTTT
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT
30927040 CAGGTAGCAC
Statistics
Matches: 192, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
163 103 0.54
164 17 0.09
165 72 0.38
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (165 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAA
AGCGCCGCTAATGCTCAGGACTTTTAGCGGTGTTTTTGAGAAAGCGCCGCTAATACTCAGGGATT
TAGCAGCATTTTTAAGAAAGCGCCACTAATGCTCA
Found at i:30927104 original size:163 final size:163
Alignment explanation
Indices: 30926653--30927109 Score: 477
Period size: 163 Copynumber: 2.8 Consensus size: 163
30926643 GAGCTTTCGG
* * * * * * * *
30926653 GGCTTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGTGGCATTTTTGAGAAA
1 GGCTTTAGCGGCGTTTTTGAGAAAACGCCGCTAATGCTCAGGGATTTAGCGACGTTTTTCAGAAA
* * * ** *
30926718 GCGCCGCTAATGCTCAGGGCTTTTAGCGGTGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGATTT
66 GCACCGCGAATACTCA-GTATTTTAGCGGTGTTTTT-AAAAAGCGCCGCTAATGCTCAGGGATTT
*
30926783 AGCAGCATTTTTAAGAAAGCGCCGCTAATGCTCAA
129 AGCAGCATTTTTAAGAAAGCGCCACTAATGCTCAA
* * * *
30926818 GGCTTTAGCGGTGTTTTTGAGAAAGCGCCGCTAATGCTTAGGGATTTAGCGACGTTTTTTAGAAA
1 GGCTTTAGCGGCGTTTTTGAGAAAACGCCGCTAATGCTCAGGGATTTAGCGACGTTTTTCAGAAA
* * ** * * * *
30926883 GCTCCGCTAATGTTCAGTACTTTAGCGGTGTTTTTGAAAAGCGCTGCTAATACTCAGGGATTTAG
66 GCACCGCGAATACTCAGTATTTTAGCGGTGTTTTTAAAAAGCGCCGCTAATGCTCAGGGATTTAG
* * * * *
30926948 CTGCGTTTTTGAGAATGCGCCACTAATGCTCAG
131 CAGCATTTTTAAGAAAGCGCCACTAATGCTCAA
* * * * * * **
30926981 GGCTTTAGCGGCGTTTTTGGGAAAACGTCGCTAATTCTCGGGGCTTTAGCGGCGTTTTTCAGGTA
1 GGCTTTAGCGGCGTTTTTGAGAAAACGCCGCTAATGCTCAGGGATTTAGCGACGTTTTTCAGAAA
* * *
30927046 GCACTGCGAATACTC--TATTTTTAGCGGCGTTTTCTAAAAAGCACCGCTAATGCTCAGGGATTT
66 GCACCGCGAATACTCAGTA-TTTTAGCGGTGTTTT-TAAAAAGCGCCGCTAATGCTCAGGGATTT
30927109 A
129 A
30927110 AAATAATTTA
Statistics
Matches: 243, Mismatches: 47, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
161 2 0.01
162 13 0.05
163 142 0.58
164 16 0.07
165 70 0.29
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (163 bp):
GGCTTTAGCGGCGTTTTTGAGAAAACGCCGCTAATGCTCAGGGATTTAGCGACGTTTTTCAGAAA
GCACCGCGAATACTCAGTATTTTAGCGGTGTTTTTAAAAAGCGCCGCTAATGCTCAGGGATTTAG
CAGCATTTTTAAGAAAGCGCCACTAATGCTCAA
Found at i:30927367 original size:22 final size:21
Alignment explanation
Indices: 30927342--30927389 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
30927332 GTGTTACCAT
*
30927342 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
30927364 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
30927385 TTTAA
1 TTTAA
30927390 AGGCTGGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Done.