Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 290 of 295
Found at i:91992452 original size:29 final size:29
Alignment explanation
Indices: 91992420--91992475 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
91992410 GAATTGGATC
*
91992420 AAATCAAAACTTCTTGTA-AAAATTGCACA
1 AAATCAAAA-TTCATGTATAAAATTGCACA
*
91992449 AAATCAAAATTCATGTATACAATTGCA
1 AAATCAAAATTCATGTATAAAATTGCA
91992476 AATTTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (29 bp):
AAATCAAAATTCATGTATAAAATTGCACA
Found at i:91996528 original size:46 final size:46
Alignment explanation
Indices: 91996461--91996631 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
91996451 ATGTAACCCG
* *
91996461 TCCATAAGCGAACTCGGACTCAACTCAACGACCTCGGGCGTTTGCA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCA
* * *
91996507 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTGCA
* * *
91996557 TCTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA
1 TC-CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCA
* *
91996600 TCCATAAGTGAACTCAGACTCAACTCAACGAG
1 TCCATAAGCGAACTCGGACTCAACTCAACGAG
91996632 TTCGAATGCC
Statistics
Matches: 103, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
46 57 0.55
47 27 0.26
48 1 0.01
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
TCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCA
Found at i:91996576 original size:93 final size:93
Alignment explanation
Indices: 91996469--91996641 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
91996459 CGTCCATAAG
* * * *
91996469 CGAACTCGGACTCAACTCAACGACCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGACCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
91996534 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGAATGCCTAGTTACATCTCT
**
91996562 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGACCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
91996627 ACGAGTTCGAATGCC
66 ACGAGCTCGAATGCC
91996642 CAAATATCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGACCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGAATGCCTAGTTACATCTCT
Found at i:92000539 original size:5 final size:5
Alignment explanation
Indices: 92000529--92000557 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
92000519 AAATTTGTGA
92000529 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
92000558 ATAATAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:92001580 original size:311 final size:309
Alignment explanation
Indices: 92000996--92001617 Score: 1005
Period size: 311 Copynumber: 2.0 Consensus size: 309
92000986 AGGATTAAAA
* *
92000996 TTTTAAAATTTTAAAAGTAAAAAAAATTAAAATTAAACAGGTATACAACTTACACAAAATATAGG
1 TTTTAAAATTCTAAAAGTAAAAAAAAATAAAATTAAACAGGTATACAACTTACACAAAATATAGG
*
92001061 TTCTAATAGCATAAATTAACACAAAATTTATATGAATGTTACCCAGTGATTTGTATGAATTAAGA
66 GTCTAATAGCATAAATTAACACAAAATTTATATGAATGTTACCCAGTGATTTGTATGAATTAAGA
92001126 AAAGCCCTCCTAGGTTGTCTTCAACTATATATTTCTTAAATTTAAGTTGTCCTTTTCTTATAAAA
131 AAAGCCCTCCTAGGTTGTCTTCAACTATATATTTCTTAAATTTAAGTTGTCCTTTTCTTATAAAA
* * *
92001191 AAAGATAAACATGTCGTGGGGATAAGATATGACTTGGTGAAAATGAAAGACCAACAAAAGTCTGT
196 AAAGATAAACATGACGTAGGGATAAGATATGACTTGGCGAAAATGAAAGACCAACAAAAGTCTGT
*
92001256 TTCAACCAATACACAAGAAATTTATTGTTTCATCACTGTTCCAAAACAC
261 TTCAACAAATACACAAGAAATTTATTGTTTCATCACTGTTCCAAAACAC
* * * * * *
92001305 TTTTCAAATTCTAAAAGTTAAAAAAAAAATGAAGTTAAACAGGTCTACAATTTATACAAAATATA
1 TTTTAAAATTCTAAAAG-T-AAAAAAAAATAAAATTAAACAGGTATACAACTTACACAAAATATA
*
92001370 GGGTCTAATAGCATAAATTAACACAAAATTTATATGAATGTTACTCA-TGAATTTGTATGAATTA
64 GGGTCTAATAGCATAAATTAACACAAAATTTATATGAATGTTACCCAGTG-ATTTGTATGAATTA
* *
92001434 AGAAAAGCCCTCCTAGGTTGTCTTCAACTATATATTTCTTAAATTTATGTTGT-CTTTTCTTATC
128 AGAAAAGCCCTCCTAGGTTGTCTTCAACTATATATTTCTTAAATTTAAGTTGTCCTTTTCTTATA
* * *
92001498 AAAAAAGATAAACATGACGTAGTGATACGATATGACTTGGCGAAAATGAAAGACCGACAAAAGTC
193 AAAAAAGATAAACATGACGTAGGGATAAGATATGACTTGGCGAAAATGAAAGACCAACAAAAGTC
* *
92001563 TGTTTTCAATAAATACACAAGAAATTTATTGTTTCATCATTGTTCCAAAACAC
258 TG-TTTCAACAAATACACAAGAAATTTATTGTTTCATCACTGTTCCAAAACAC
92001616 TT
1 TT
92001618 CTCTTCAAAA
Statistics
Matches: 288, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
309 15 0.05
310 74 0.26
311 199 0.69
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (309 bp):
TTTTAAAATTCTAAAAGTAAAAAAAAATAAAATTAAACAGGTATACAACTTACACAAAATATAGG
GTCTAATAGCATAAATTAACACAAAATTTATATGAATGTTACCCAGTGATTTGTATGAATTAAGA
AAAGCCCTCCTAGGTTGTCTTCAACTATATATTTCTTAAATTTAAGTTGTCCTTTTCTTATAAAA
AAAGATAAACATGACGTAGGGATAAGATATGACTTGGCGAAAATGAAAGACCAACAAAAGTCTGT
TTCAACAAATACACAAGAAATTTATTGTTTCATCACTGTTCCAAAACAC
Found at i:92004939 original size:7 final size:6
Alignment explanation
Indices: 92004936--92004981 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
92004926 TTCTTTTGAT
92004936 TTTTTA TTTTTA TTTATT- TTTTTA TTTTGTA -TTTTA -TTTTA TTTTT
1 TTTTTA TTTTTA TTT-TTA TTTTTA TTTT-TA TTTTTA TTTTTA TTTTT
92004982 TTTCTCTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 9 0.25
6 23 0.64
7 4 0.11
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:92004956 original size:17 final size:17
Alignment explanation
Indices: 92004934--92004981 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
92004924 GGTTCTTTTG
92004934 ATTTTTTATTTTTATTT
1 ATTTTTTATTTTTATTT
92004951 ATTTTTTTATTTTGTATTT
1 A-TTTTTTATTTT-TATTT
*
92004970 -TATTTTATTTTT
1 ATTTTTTATTTTT
92004982 TTTCTCTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 11 0.39
19 5 0.18
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (17 bp):
ATTTTTTATTTTTATTT
Found at i:92004962 original size:25 final size:25
Alignment explanation
Indices: 92004929--92004983 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
92004919 TTCCTGGTTC
* *
92004929 TTTTGATTTTTTATTTT-TATTTATT
1 TTTTTATTTTGTATTTTAT-TTTATT
92004954 TTTTTATTTTGTATTTTATTTTATT
1 TTTTTATTTTGTATTTTATTTTATT
92004979 TTTTT
1 TTTTT
92004984 TCTCTTCTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.82
Consensus pattern (25 bp):
TTTTTATTTTGTATTTTATTTTATT
Found at i:92004968 original size:19 final size:19
Alignment explanation
Indices: 92004935--92004984 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
92004925 GTTCTTTTGA
92004935 TTTTTTATTTTTA-TTTAT
1 TTTTTTATTTTTATTTTAT
92004953 TTTTTTATTTTGTATTTTAT
1 TTTTTTATTTT-TATTTTAT
92004973 TTTATTT-TTTTT
1 TTT-TTTATTTTT
92004985 CTCTTCTCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 11 0.38
19 3 0.10
20 12 0.41
21 3 0.10
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (19 bp):
TTTTTTATTTTTATTTTAT
Found at i:92006050 original size:19 final size:19
Alignment explanation
Indices: 92006016--92006063 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
92006006 ACTAGGTAAC
92006016 TTTATATTGGTTTTGT-TGTA
1 TTTATATT--TTTTGTATGTA
*
92006036 TTGTATATTTTTTGTATTTA
1 TT-TATATTTTTTGTATGTA
92006056 TTTATATT
1 TTTATATT
92006064 ATTATTACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 12 0.48
20 7 0.28
21 6 0.24
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (19 bp):
TTTATATTTTTTGTATGTA
Found at i:92006163 original size:27 final size:25
Alignment explanation
Indices: 92006085--92006233 Score: 122
Period size: 26 Copynumber: 5.8 Consensus size: 25
92006075 TATTATTATC
*
92006085 ATATATTTTATATTATTTT--ATTTT
1 ATATATATTAT-TTATTTTAAATTTT
* * * *
92006109 ACATATGTTATTTCTTTTAAACTATT
1 ATATATATTATTTATTTTAAA-TTTT
* *
92006135 ATACATATTGTTTATTTTGAAACTTTT
1 ATATATATTATTTATTTT-AAA-TTTT
* *
92006162 ATATACATTTTTGTATTTTAAATTATT
1 ATATATATTATT-TATTTTAAATT-TT
* *
92006189 ATGTATATTATTTACTTTAATATTTT
1 ATATATATTATTTATTTTAA-ATTTT
92006215 ATATATATTATTTATTTTA
1 ATATATATTATTTATTTTA
92006234 GACCTTTTTA
Statistics
Matches: 99, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
23 6 0.06
24 9 0.09
25 1 0.01
26 44 0.44
27 33 0.33
28 6 0.06
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (25 bp):
ATATATATTATTTATTTTAAATTTT
Found at i:92006181 original size:54 final size:52
Alignment explanation
Indices: 92006116--92006233 Score: 130
Period size: 54 Copynumber: 2.2 Consensus size: 52
92006106 TTTACATATG
* * *
92006116 TTATTTCTTTTAAACTATTATACATATTGTTTATTTTGAA-ACTTTTATATACA
1 TTATTTATTTTAAACTATTATACATATTATTTACTTT-AATA-TTTTATATACA
* * ** *
92006169 TTTTTGTATTTTAAATTATTATGTATATTATTTACTTTAATATTTTATATATA
1 TTATT-TATTTTAAACTATTATACATATTATTTACTTTAATATTTTATATACA
92006222 TTATTTATTTTA
1 TTATTTATTTTA
92006234 GACCTTTTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
52 7 0.13
53 20 0.37
54 27 0.50
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.60
Consensus pattern (52 bp):
TTATTTATTTTAAACTATTATACATATTATTTACTTTAATATTTTATATACA
Found at i:92006245 original size:26 final size:26
Alignment explanation
Indices: 92006158--92006246 Score: 74
Period size: 26 Copynumber: 3.4 Consensus size: 26
92006148 ATTTTGAAAC
* * *
92006158 TTTTATATACATTTTTGTATTTTAA-A
1 TTTTATATATATTATT-TACTTTAACA
* *
92006184 TTATTATGTATATTATTTACTTTAATA
1 TT-TTATATATATTATTTACTTTAACA
* *
92006211 TTTTATATATATTATTTATTTTAGACC
1 TTTTATATATATTATTTACTTTA-ACA
92006238 TTTT-TATAT
1 TTTTATATAT
92006247 TATTTTAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
26 33 0.63
27 19 0.37
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTTATATATATTATTTACTTTAACA
Found at i:92008211 original size:19 final size:19
Alignment explanation
Indices: 92008187--92008239 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 19
92008177 ACTGTTAAGA
92008187 AAAAAACTCATTACCATTT
1 AAAAAACTCATTACCATTT
92008206 AAAAAACCCTCATTACCATTT
1 AAAAAA--CTCATTACCATTT
*
92008227 AAAAAACCCATTA
1 AAAAAACTCATTA
92008240 AAATGTGGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 12 0.39
21 19 0.61
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAAACTCATTACCATTT
Found at i:92008211 original size:20 final size:21
Alignment explanation
Indices: 92008186--92008233 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
92008176 TACTGTTAAG
92008186 AAAAAA-ACTCATTACCATTT
1 AAAAAACACTCATTACCATTT
*
92008206 AAAAAACCCTCATTACCATTT
1 AAAAAACACTCATTACCATTT
92008227 AAAAAAC
1 AAAAAAC
92008234 CCATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAAACACTCATTACCATTT
Found at i:92008217 original size:21 final size:21
Alignment explanation
Indices: 92008193--92008235 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
92008183 AAGAAAAAAA
92008193 CTCATTACCATTTAAAAAACC
1 CTCATTACCATTTAAAAAACC
92008214 CTCATTACCATTTAAAAAACC
1 CTCATTACCATTTAAAAAACC
92008235 C
1 C
92008236 ATTAAAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (21 bp):
CTCATTACCATTTAAAAAACC
Found at i:92008342 original size:19 final size:20
Alignment explanation
Indices: 92008293--92008343 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
92008283 ATAAAAATAC
92008293 AAATAAATTAAAATTTCTAA
1 AAATAAATTAAAATTTCTAA
*
92008313 AAATAAA-TAAAAGTTT-T-T
1 AAATAAATTAAAA-TTTCTAA
92008331 AAATAAATTAAAA
1 AAATAAATTAAAA
92008344 ATAATTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.25
19 11 0.39
20 10 0.36
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATAAATTAAAATTTCTAA
Found at i:92008351 original size:20 final size:18
Alignment explanation
Indices: 92008314--92008364 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
92008304 AATTTCTAAA
* *
92008314 AATAAATAAAAGT-TTTT
1 AATAAATAAAAATAATTT
92008331 AAATAAATTAAAAATAATTT
1 -AATAAA-TAAAAATAATTT
*
92008351 AATTAATAAAAATA
1 AATAAATAAAAATA
92008365 TAATAAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 14 0.50
19 11 0.39
20 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AATAAATAAAAATAATTT
Found at i:92016751 original size:71 final size:71
Alignment explanation
Indices: 92016635--92016779 Score: 290
Period size: 71 Copynumber: 2.0 Consensus size: 71
92016625 TAACTCTTCT
92016635 TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAACCAATTGAACACTTAATAT
1 TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAACCAATTGAACACTTAATAT
92016700 TTATAC
66 TTATAC
92016706 TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAACCAATTGAACACTTAATAT
1 TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAACCAATTGAACACTTAATAT
92016771 TTATAC
66 TTATAC
92016777 TAA
1 TAA
92016780 CTTAAATTTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.37
Consensus pattern (71 bp):
TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAACCAATTGAACACTTAATAT
TTATAC
Found at i:92017219 original size:25 final size:25
Alignment explanation
Indices: 92017189--92017246 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
92017179 ACACTTGCAG
*
92017189 CAGAATACACGAGAAGTAGCAGCAA
1 CAGAATACACGAGAAGTAGCAACAA
*
92017214 CAGAATACACGAGAAGTAGCAATAA
1 CAGAATACACGAGAAGTAGCAACAA
92017239 CAGAATAC
1 CAGAATAC
92017247 GATGGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.50, C:0.19, G:0.21, T:0.10
Consensus pattern (25 bp):
CAGAATACACGAGAAGTAGCAACAA
Found at i:92023359 original size:32 final size:32
Alignment explanation
Indices: 92023316--92023388 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
92023306 CTATGAACCT
*
92023316 ATATGCCTTGCTATTATGTGCATAACCTATAA
1 ATATGCATTGCTATTATGTGCATAACCTATAA
92023348 ATATGCATTGCTATTATGTGCATAACCTATAA
1 ATATGCATTGCTATTATGTGCATAACCTATAA
92023380 ATATGCATT
1 ATATGCATT
92023389 CAATTCCTCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (32 bp):
ATATGCATTGCTATTATGTGCATAACCTATAA
Found at i:92033588 original size:25 final size:25
Alignment explanation
Indices: 92033554--92033630 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 25
92033544 TAGAGATCAT
*
92033554 TTTTTAACAGTAGAAATAGATGAAA
1 TTTTCAACAGTAGAAATAGATGAAA
*
92033579 TTTTCAACAG-AG--AT-CAT----
1 TTTTCAACAGTAGAAATAGATGAAA
*
92033596 TTTTTAACAGTAGAAATAGATGAAA
1 TTTTCAACAGTAGAAATAGATGAAA
92033621 TTTTCAACAG
1 TTTTCAACAG
92033631 AATGACTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 16
0.65 0.08 0.27
Matches are distributed among these distances:
17 9 0.23
18 2 0.05
20 2 0.05
21 4 0.10
22 2 0.05
24 2 0.05
25 18 0.46
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (25 bp):
TTTTCAACAGTAGAAATAGATGAAA
Found at i:92033604 original size:42 final size:42
Alignment explanation
Indices: 92033545--92033631 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
92033535 TCTGACGTAT
92033545 AGAGATCATTTTTTAACAGTAGAAATAGATGAAATTTTCAAC
1 AGAGATCATTTTTTAACAGTAGAAATAGATGAAATTTTCAAC
92033587 AGAGATCATTTTTTAACAGTAGAAATAGATGAAATTTTCAAC
1 AGAGATCATTTTTTAACAGTAGAAATAGATGAAATTTTCAAC
92033629 AGA
1 AGA
92033632 ATGACTAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (42 bp):
AGAGATCATTTTTTAACAGTAGAAATAGATGAAATTTTCAAC
Found at i:92038573 original size:18 final size:19
Alignment explanation
Indices: 92038532--92038573 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
92038522 AAAACCCTTT
*
92038532 TTTTTATGAATAATATATA
1 TTTTTATCAATAATATATA
92038551 TTTTTATCAATAAT-TATTA
1 TTTTTATCAATAATATA-TA
92038570 TTTT
1 TTTT
92038574 AAAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTTATCAATAATATATA
Found at i:92043458 original size:20 final size:20
Alignment explanation
Indices: 92043417--92043458 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
92043407 ATAATATTTT
*
92043417 ATTAATTTAATATTAATGTG
1 ATTAATTTAATACTAATGTG
*
92043437 ATTAATTCTAATCCTAAT-TG
1 ATTAATT-TAATACTAATGTG
92043457 AT
1 AT
92043459 CTCTCTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (20 bp):
ATTAATTTAATACTAATGTG
Found at i:92051024 original size:14 final size:15
Alignment explanation
Indices: 92051007--92051035 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92050997 TTAAAAAGCA
92051007 TTTT-AAAAAATTAT
1 TTTTAAAAAAATTAT
92051021 TTTTAAAAAAATTAT
1 TTTTAAAAAAATTAT
92051036 AAACAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTTAAAAAAATTAT
Found at i:92053061 original size:90 final size:89
Alignment explanation
Indices: 92052886--92053062 Score: 255
Period size: 90 Copynumber: 2.0 Consensus size: 89
92052876 GGGAGATCAT
* * * * *
92052886 GTACTGAAGTTAGATTGCATTTCGCCTTCTTTACTAAAAAATTGAGCAAATTAGTCGATGTACGT
1 GTACTGAAGTCAGATTGCATTTCGACTTCTCTACTAAAAAATCGAGCAAATTAGTCAATGTACGT
*
92052951 TAAATCAAAGGGCAAATTGATCTG
66 TAAATCAAAGAGCAAATTGATCTG
*
92052975 GTACTAGAAGTCAGATTGCATTTTGACTTCTCTACTAAAAAATCGAGCAAATTAGTCAATGTACG
1 GTACT-GAAGTCAGATTGCATTTCGACTTCTCTACTAAAAAATCGAGCAAATTAGTCAATGTACG
* * *
92053040 TTAGATTAAAGAGCAACTTGATC
65 TTAAATCAAAGAGCAAATTGATC
92053063 CTTTTAGTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
89 5 0.06
90 72 0.94
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (89 bp):
GTACTGAAGTCAGATTGCATTTCGACTTCTCTACTAAAAAATCGAGCAAATTAGTCAATGTACGT
TAAATCAAAGAGCAAATTGATCTG
Found at i:92055038 original size:27 final size:27
Alignment explanation
Indices: 92055008--92055064 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
92054998 ATGTTTAAAG
92055008 ACTCATGCATTTCATATCAAATGTAAC
1 ACTCATGCATTTCATATCAAATGTAAC
92055035 ACTCATGCATTTCATATCAAATGTAAC
1 ACTCATGCATTTCATATCAAATGTAAC
92055062 ACT
1 ACT
92055065 TTGTTATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (27 bp):
ACTCATGCATTTCATATCAAATGTAAC
Found at i:92067007 original size:12 final size:12
Alignment explanation
Indices: 92066986--92067019 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
92066976 CCAAGCTCGT
*
92066986 AAATATTTTATTA
1 AAATA-TTTAATA
92066999 AAATATTTAATA
1 AAATATTTAATA
92067011 AAATATTTA
1 AAATATTTA
92067020 CGGATTGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATATTTAATA
Found at i:92074336 original size:47 final size:47
Alignment explanation
Indices: 92074282--92074639 Score: 572
Period size: 47 Copynumber: 7.6 Consensus size: 47
92074272 TATTTGAATA
*
92074282 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92074329 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92074376 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
92074425 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
92074472 AATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92074519 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
92074566 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92074613 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
92074640 TCCCGAAGGG
Statistics
Matches: 292, Mismatches: 17, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
47 247 0.85
49 45 0.15
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:92076262 original size:119 final size:120
Alignment explanation
Indices: 92076051--92076374 Score: 506
Period size: 119 Copynumber: 2.7 Consensus size: 120
92076041 GAGAATTGAG
*
92076051 AGTGATGTATCCGGTCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
*
92076116 AAGAGCATTCATGCTAGTGATGTATCCGGGCTAAG-TCCGAAGAGCATTCGTGCT
66 AAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
92076170 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
*
92076235 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
66 AAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * ** * * * *
92076290 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
* *
92076355 AAGAGCAATCATGCTGGTGA
66 AAGAGCATTCATGCTAGTGA
92076375 CGTGTATTCG
Statistics
Matches: 186, Mismatches: 18, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
119 95 0.51
120 91 0.49
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (120 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
AAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:92076373 original size:40 final size:40
Alignment explanation
Indices: 92076051--92076361 Score: 489
Period size: 40 Copynumber: 7.8 Consensus size: 40
92076041 GAGAATTGAG
*
92076051 AGTGATGTATCCGGTCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
92076091 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
92076131 AGTGATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
92076170 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
92076210 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
92076250 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
92076290 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
92076330 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
92076362 ATCATGCTGG
Statistics
Matches: 251, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 38 0.15
40 213 0.85
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:92080433 original size:47 final size:47
Alignment explanation
Indices: 92080379--92080736 Score: 581
Period size: 47 Copynumber: 7.6 Consensus size: 47
92080369 TATTTGAATA
*
92080379 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92080426 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92080473 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
92080522 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92080569 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92080616 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
92080663 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92080710 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
92080737 TCCCGAAGGG
Statistics
Matches: 294, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 249 0.85
49 45 0.15
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:92082283 original size:30 final size:30
Alignment explanation
Indices: 92082249--92082335 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
92082239 GAAAATCACC
92082249 ATAAATTGTGGGAGATGAGTTAGAAGCATA
1 ATAAATTGTGGGAGATGAGTTAGAAGCATA
* * *
92082279 ATAAATTGT---ACA--A---A-AATCATT
1 ATAAATTGTGGGAGATGAGTTAGAAGCATA
92082300 ATAAATTGTGGGAGATGAGTTAGAAGCATA
1 ATAAATTGTGGGAGATGAGTTAGAAGCATA
92082330 ATAAAT
1 ATAAAT
92082336 CCCCTGTTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
21 14 0.33
22 1 0.02
24 2 0.05
25 1 0.02
26 1 0.02
27 2 0.05
29 1 0.02
30 20 0.48
ACGTcount: A:0.45, C:0.05, G:0.22, T:0.29
Consensus pattern (30 bp):
ATAAATTGTGGGAGATGAGTTAGAAGCATA
Found at i:92083678 original size:38 final size:39
Alignment explanation
Indices: 92083564--92083704 Score: 144
Period size: 38 Copynumber: 3.6 Consensus size: 39
92083554 ATTTGATGTG
* * *
92083564 TATCTGGGCTTAAAGACCCGCAGG-CTATATACTGGAATTA
1 TATCTGGG-TTAAAGTCCCGCAGGCCTA-GTACTGGTATTA
* * * *
92083604 TATCCGGGTTAAA-TCCCGCAGGCTTCGTACTAGTATTA
1 TATCTGGGTTAAAGTCCCGCAGGCCTAGTACTGGTATTA
*
92083642 TATCTGGGTTAAA-TCCCGCAGGCCTAGTGCTGGTATTA
1 TATCTGGGTTAAAGTCCCGCAGGCCTAGTACTGGTATTA
* *
92083680 TATCTGAGTTTAAAGTCCCGTAGGC
1 TATCTG-GGTTAAAGTCCCGCAGGC
92083705 TTCATGCTGG
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
38 56 0.67
39 12 0.14
40 16 0.19
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (39 bp):
TATCTGGGTTAAAGTCCCGCAGGCCTAGTACTGGTATTA
Found at i:92085075 original size:47 final size:47
Alignment explanation
Indices: 92085017--92085125 Score: 130
Period size: 47 Copynumber: 2.3 Consensus size: 47
92085007 ACAATTATTG
* * * *
92085017 TGAAAGTCAATTTGTTTG-GGTTAATAGTATCCCTTAAGGGAGTTTTA
1 TGAAAGCCAATTTGTTTGACG-TAATAGTATCCCTTAAAGGAATTTTA
* * *
92085064 TGGAAGCCAATTTGTTTGACGTGATAGTATCCCTTAAAGGAATTTTG
1 TGAAAGCCAATTTGTTTGACGTAATAGTATCCCTTAAAGGAATTTTA
*
92085111 TGAAAGCCAAGTTGT
1 TGAAAGCCAATTTGT
92085126 ATAACGTGAT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 51 0.98
48 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (47 bp):
TGAAAGCCAATTTGTTTGACGTAATAGTATCCCTTAAAGGAATTTTA
Found at i:92085133 original size:47 final size:47
Alignment explanation
Indices: 92085040--92085135 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 47
92085030 GTTTGGGTTA
* * * * * *
92085040 ATAGTATCCCTTAAGGGAGTTTTATGGAAGCCAATTTGTTTGACGTG
1 ATAGTATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
*
92085087 ATAGTATCCCTTAAAGGAATTTTGTGAAAGCCAAGTTGTATAACGTG
1 ATAGTATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
92085134 AT
1 AT
92085136 TGCATCTCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (47 bp):
ATAGTATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
Found at i:92085147 original size:47 final size:47
Alignment explanation
Indices: 92085040--92085147 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 47
92085030 GTTTGGGTTA
* * * * * * *
92085040 ATAGTATCCCTTAAGGGAGTTTTATGGAAGCCAATTTGTTTGACGTG
1 ATAGCATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
* *
92085087 ATAGTATCCCTTAAAGGAATTTTGTGAAAGCCAAGTTGTATAACGTG
1 ATAGCATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
* *
92085134 ATTGCATCTCTTAA
1 ATAGCATCCCTTAA
92085148 TGGATTGGAC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (47 bp):
ATAGCATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
Found at i:92085536 original size:58 final size:58
Alignment explanation
Indices: 92085446--92085561 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
92085436 TTTTTTGCCA
92085446 AAGAGAATAAGTTTACTACAAAAAAGGGAGATCTGTTCTCATGGAGGAGAATTTTATG
1 AAGAGAATAAGTTTACTACAAAAAAGGGAGATCTGTTCTCATGGAGGAGAATTTTATG
92085504 AAGAGAATAAGTTTACTACAAAAAAGGGAGATCTGTTCTCATGGAGGAGAATTTTATG
1 AAGAGAATAAGTTTACTACAAAAAAGGGAGATCTGTTCTCATGGAGGAGAATTTTATG
92085562 CTAAGGAGTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (58 bp):
AAGAGAATAAGTTTACTACAAAAAAGGGAGATCTGTTCTCATGGAGGAGAATTTTATG
Found at i:92085660 original size:37 final size:39
Alignment explanation
Indices: 92085585--92085661 Score: 104
Period size: 37 Copynumber: 2.0 Consensus size: 39
92085575 TTTTTTTTTT
* **
92085585 CCAATGAAGAGTTTATTATTTAAGAGAAGAAGTTTGTTG
1 CCAAAGAAGAGTTTATTATTTAAGAGAAGAAGCATGTTG
*
92085624 CCAAAGAAGA-TTTATT-TTTAAGAGAATAAGCATGTTG
1 CCAAAGAAGAGTTTATTATTTAAGAGAAGAAGCATGTTG
92085661 C
1 C
92085662 TAAGTAGCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 19 0.56
38 6 0.18
39 9 0.26
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.34
Consensus pattern (39 bp):
CCAAAGAAGAGTTTATTATTTAAGAGAAGAAGCATGTTG
Found at i:92087414 original size:84 final size:84
Alignment explanation
Indices: 92087272--92087440 Score: 286
Period size: 84 Copynumber: 2.0 Consensus size: 84
92087262 AAAAAGTGTA
*
92087272 AACTTTAAAATTTGTTTAATTGTTAAGTGAATGTAATGAATTGAAGTGTTAAACGTCCATATAGA
1 AACTTTAAAATTCGTTTAATTGTTAAGTGAATGTAATGAATTGAAGTGTTAAACGTCCATATAGA
*
92087337 TAAAATGGGAACTAGTAGG
66 CAAAATGGGAACTAGTAGG
* *
92087356 AACTTT-AAATTGCGTTTAATTGTTAAGTGAATGTAATGAATTTAAGTGTTAAATGTCCATATAG
1 AACTTTAAAATT-CGTTTAATTGTTAAGTGAATGTAATGAATTGAAGTGTTAAACGTCCATATAG
92087420 ACAAAATGGGAACTAGTAGG
65 ACAAAATGGGAACTAGTAGG
92087440 A
1 A
92087441 TATATATGGC
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
83 5 0.06
84 75 0.94
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (84 bp):
AACTTTAAAATTCGTTTAATTGTTAAGTGAATGTAATGAATTGAAGTGTTAAACGTCCATATAGA
CAAAATGGGAACTAGTAGG
Found at i:92090579 original size:14 final size:14
Alignment explanation
Indices: 92090560--92090588 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
92090550 AACATGTCCT
92090560 TTATATGAAAAATC
1 TTATATGAAAAATC
92090574 TTATATGAAAAATC
1 TTATATGAAAAATC
92090588 T
1 T
92090589 GTAACTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (14 bp):
TTATATGAAAAATC
Found at i:92092696 original size:15 final size:16
Alignment explanation
Indices: 92092670--92092700 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
92092660 AAATGTATGT
92092670 TTTAATAATATATAAA
1 TTTAATAATATATAAA
92092686 TTTAA-AATATATAAA
1 TTTAATAATATATAAA
92092701 AATATTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAATAATATATAAA
Found at i:92113791 original size:18 final size:17
Alignment explanation
Indices: 92113768--92113821 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
92113758 TTTTGGTTAA
*
92113768 AAATTACTCGAATTACCC
1 AAATTAC-CGAATTAACC
92113786 AAATTACCCGAATTAACC
1 AAATTA-CCGAATTAACC
*
92113804 GAATTAACCGAATTAACC
1 AAATT-ACCGAATTAACC
92113822 GAAAAATACC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 30 0.94
19 2 0.06
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (17 bp):
AAATTACCGAATTAACC
Found at i:92113822 original size:18 final size:18
Alignment explanation
Indices: 92113776--92113824 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
92113766 AAAAATTACT
* * *
92113776 CGAATTACCCAAATTACC
1 CGAATTAACCGAATTAAC
92113794 CGAATTAACCGAATTAAC
1 CGAATTAACCGAATTAAC
92113812 CGAATTAACCGAA
1 CGAATTAACCGAA
92113825 AAATACCCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.43, C:0.27, G:0.10, T:0.20
Consensus pattern (18 bp):
CGAATTAACCGAATTAAC
Found at i:92117396 original size:21 final size:19
Alignment explanation
Indices: 92117362--92117423 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 19
92117352 TAAGTTATGT
92117362 ATAATAATATAATATGAATAAA
1 ATAATAA-A-AATAT-AATAAA
92117384 AT-ATAAGGAAATATAATATAAA
1 ATAATAA--AAATAT-A-ATAAA
92117406 ATAATAAAAATATAATAA
1 ATAATAAAAATATAATAA
92117424 GTATTTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 16 0.46
22 10 0.29
23 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATATAATAAA
Found at i:92117903 original size:20 final size:21
Alignment explanation
Indices: 92117869--92117908 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
92117859 ATTTGCCATT
*
92117869 TACAAATTTAGTAAATAATAA
1 TACAAATTTAGTAAAAAATAA
*
92117890 TACAATTTTA-TAAAAAATA
1 TACAAATTTAGTAAAAAATA
92117909 TATAAGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (21 bp):
TACAAATTTAGTAAAAAATAA
Found at i:92117934 original size:14 final size:14
Alignment explanation
Indices: 92117915--92117976 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
92117905 AATATATAAG
92117915 AAATATATAAAATA
1 AAATATATAAAATA
*
92117929 AAATATATAATATA
1 AAATATATAAAATA
* * *
92117943 ACATAATTTATAAGTA
1 AAAT-ATATA-AAATA
*
92117959 AAATATATGACAATA
1 AAATATAT-AAAATA
92117974 AAA
1 AAA
92117977 AATAATGGAT
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
14 16 0.44
15 13 0.36
16 7 0.19
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (14 bp):
AAATATATAAAATA
Found at i:92139312 original size:21 final size:21
Alignment explanation
Indices: 92139263--92139312 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
92139253 TGTCGTTTTT
92139263 ATTTAAAAAAAAACAAATATA
1 ATTTAAAAAAAAACAAATATA
*
92139284 ATTCTAAAAAAATA-AAATATA
1 ATT-TAAAAAAAAACAAATATA
92139305 ATGTTAAA
1 AT-TTAAA
92139313 TTATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (21 bp):
ATTTAAAAAAAAACAAATATA
Found at i:92147217 original size:43 final size:43
Alignment explanation
Indices: 92147168--92147264 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 43
92147158 ATTGCAAAGA
*
92147168 ATTGTAATTCTCTAGACATGTTTAGACAATAGATTGCAATTAC
1 ATTGTAATTCTCTAGACATGTTTAGACAATAGATTACAATTAC
* * * *
92147211 ATTGTAATTCTCTAGACATGTTTGGATAATAGATTATAATTAG
1 ATTGTAATTCTCTAGACATGTTTAGACAATAGATTACAATTAC
*
92147254 ATCGTAATTCT
1 ATTGTAATTCT
92147265 TTATGTCATG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (43 bp):
ATTGTAATTCTCTAGACATGTTTAGACAATAGATTACAATTAC
Found at i:92148258 original size:12 final size:12
Alignment explanation
Indices: 92148243--92148269 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
92148233 TTATTTGTTT
92148243 TTTGTTTTAATA
1 TTTGTTTTAATA
92148255 TTTGTTTTAATA
1 TTTGTTTTAATA
92148267 TTT
1 TTT
92148270 TTAAATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTGTTTTAATA
Found at i:92148287 original size:24 final size:24
Alignment explanation
Indices: 92148253--92148314 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
92148243 TTTGTTTTAA
*
92148253 TATTTGTTTTAATAT-TTTTAAAT
1 TATTTGATTTAATATATTTTAAAT
*
92148276 GTATTTGATTTATTATATTTTAAAT
1 -TATTTGATTTAATATATTTTAAAT
* *
92148301 TTTTTTATTTAATA
1 TATTTGATTTAATA
92148315 AAAAATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 24 0.75
25 8 0.25
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (24 bp):
TATTTGATTTAATATATTTTAAAT
Found at i:92149338 original size:18 final size:17
Alignment explanation
Indices: 92149303--92149338 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
92149293 TTTAGAGGAA
*
92149303 AAAAATATAGGTTGGTT
1 AAAAATATAGATTGGTT
92149320 AAAAATATAGATTGAGTT
1 AAAAATATAGATTG-GTT
92149338 A
1 A
92149339 GCTAAAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.33
Consensus pattern (17 bp):
AAAAATATAGATTGGTT
Found at i:92149666 original size:24 final size:24
Alignment explanation
Indices: 92149634--92149680 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
92149624 AAAAATTAAA
* *
92149634 TACATAATATTTTAA-TATAAATAT
1 TACAAAATATATTAAGT-TAAATAT
92149658 TACAAAATATATTAAGTTAAATA
1 TACAAAATATATTAAGTTAAATA
92149681 AGTAAATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
TACAAAATATATTAAGTTAAATAT
Found at i:92153451 original size:17 final size:18
Alignment explanation
Indices: 92153429--92153463 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
92153419 GATATGATAC
*
92153429 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
92153446 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
92153464 CTGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:92153752 original size:22 final size:21
Alignment explanation
Indices: 92153717--92153792 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
92153707 AAAAGGTATC
* *
92153717 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
92153738 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
92153761 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
92153780 TGC-AATCATATCT
1 TACAAATCATATCT
92153793 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:92153809 original size:35 final size:37
Alignment explanation
Indices: 92153746--92153843 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
92153736 ATTACAAAAT
92153746 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
92153782 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
92153817 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
92153844 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:92153851 original size:17 final size:19
Alignment explanation
Indices: 92153753--92153843 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
92153743 AATCATATCT
92153753 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
92153772 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
92153790 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
92153807 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
92153826 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
92153844 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:92155132 original size:47 final size:47
Alignment explanation
Indices: 92155023--92155133 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
92155013 CCGAGATAAG
* * *
92155023 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
92155070 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
92155117 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
92155134 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:92156455 original size:21 final size:20
Alignment explanation
Indices: 92156418--92156456 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
92156408 GAACTTGGAC
**
92156418 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
92156438 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
92156457 TCTGGGCCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:92156740 original size:45 final size:45
Alignment explanation
Indices: 92156649--92156921 Score: 259
Period size: 45 Copynumber: 6.1 Consensus size: 45
92156639 GAAAGGCGAT
* * **
92156649 ATCTGCTATCTTTGATCTGC-CCCCACCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
92156693 ATCTGTTATCTTTGATCTGCTCCCCGTTTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
92156738 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
92156782 ATCTGTTATCTCCGATTTACTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * * *
92156827 ATTTGTCATCTTGGATCTGCT--TCGATGTAA-ACATATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
* *
92156872 ATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
92156919 ATC
1 ATC
92156922 ATCTTGGACC
Statistics
Matches: 182, Mismatches: 37, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
43 6 0.03
44 63 0.35
45 82 0.45
46 1 0.01
47 19 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:92156776 original size:89 final size:89
Alignment explanation
Indices: 92156649--92156828 Score: 254
Period size: 89 Copynumber: 2.0 Consensus size: 89
92156639 GAAAGGCGAT
** ** *
92156649 ATCTGCTATCTTTGATCTGCCCCCACCTAATACAGAGATGCCAAATCTGTTATCTTTGATCTGCT
1 ATCTGCTATCTTCAATCTGCCCCCACCTAATACAGAGATGCCAAATCTGTTATCTCCGATCTACT
*
92156714 CCCCGTTTAATACAGAGACGCCAA
66 CCCCGTCTAATACAGAGACGCCAA
** *
92156738 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTAC
1 ATCTGCTATCTTCAATCTGC-CCCCACCTAATACAGAGATGCCAAATCTGTTATCTCCGATCTAC
*
92156802 TCCCCGTCTAATACAGAGATGCCAA
65 TCCCCGTCTAATACAGAGACGCCAA
92156827 AT
1 AT
92156829 TTGTCATCTT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 10 0.12
89 70 0.88
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (89 bp):
ATCTGCTATCTTCAATCTGCCCCCACCTAATACAGAGATGCCAAATCTGTTATCTCCGATCTACT
CCCCGTCTAATACAGAGACGCCAA
Found at i:92156990 original size:78 final size:78
Alignment explanation
Indices: 92156861--92157133 Score: 415
Period size: 78 Copynumber: 3.5 Consensus size: 78
92156851 ATGTAAACAT
*
92156861 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
92156926 TGGACCTGCTTCA
66 TGGATCTGCTTCA
* **
92156939 ATGAAGGTCCA-ATTTATTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
92157003 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * * *
92157017 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCTGTCTAATACGGAGATTCC-AATTATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
92157081 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
92157094 ATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGT
92157134 TGAATATGGA
Statistics
Matches: 176, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
77 58 0.33
78 116 0.66
79 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:92157124 original size:37 final size:36
Alignment explanation
Indices: 92157001--92157127 Score: 89
Period size: 37 Copynumber: 3.4 Consensus size: 36
92156991 TGCCAAATCA
*
92157001 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
1 TCTTCGATCTGCTTCAAT-AAGGTCAGATCTGCTATG
* * * * *
92157038 TCTTCGATCTACTCCCTGTCTAATACGG--AGAT-TCCAATTA
1 TCTTCGA--T-CT-GCT-TC-AATAAGGTCAGATCTGCTA-TG
*
92157078 TCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTATG
1 TCTTCGATCTGCTTCAAT-AAGGTCAGATCTGCTATG
92157115 TCTTCGATCTGCT
1 TCTTCGATCTGCT
92157128 CTCCGTTGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 22
0.65 0.13 0.22
Matches are distributed among these distances:
34 3 0.05
35 5 0.08
36 2 0.03
37 25 0.38
38 4 0.06
39 4 0.06
40 13 0.20
41 2 0.03
42 5 0.08
43 3 0.05
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (36 bp):
TCTTCGATCTGCTTCAATAAGGTCAGATCTGCTATG
Found at i:92165350 original size:17 final size:18
Alignment explanation
Indices: 92165328--92165362 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
92165318 GATATGATAC
*
92165328 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
92165345 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
92165363 CTGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:92165651 original size:22 final size:21
Alignment explanation
Indices: 92165616--92165691 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
92165606 AAAAGGTATC
* *
92165616 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
92165637 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
92165660 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
92165679 TGC-AATCATATCT
1 TACAAATCATATCT
92165692 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:92165708 original size:35 final size:37
Alignment explanation
Indices: 92165645--92165742 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
92165635 ATTACAAAAT
92165645 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
92165681 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
92165716 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
92165743 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:92165750 original size:17 final size:19
Alignment explanation
Indices: 92165652--92165742 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
92165642 AATCATATCT
92165652 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
92165671 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
92165689 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
92165706 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
92165725 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
92165743 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:92169237 original size:32 final size:33
Alignment explanation
Indices: 92169129--92169242 Score: 108
Period size: 33 Copynumber: 3.5 Consensus size: 33
92169119 GGTGTACATT
**
92169129 CCTTTCCAAGTGGTACACACAAAGTATATC-TTT
1 CCTTTCCAAGTGGTACACACAAAGTATA-CATAA
* * *
92169162 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTCCA-AGTGGTACACACAAAGTATACATAA
* *
92169195 CATTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTCCAAGTGGTACACACAAAGTATACATAA
* *
92169227 CCTTTTCAAGTTGTAC
1 CCTTTCCAAGTGGTAC
92169243 CATTAGGGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
32 29 0.44
33 36 0.55
34 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (33 bp):
CCTTTCCAAGTGGTACACACAAAGTATACATAA
Found at i:92171232 original size:42 final size:42
Alignment explanation
Indices: 92171168--92171259 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 42
92171158 GGGCTCCCAT
* *
92171168 GGCCGTGGGGCTAGCCCATGGGC-AGATCTGAC-TTACTCACAC
1 GGCCGTGGGACTAACCCATGGGCAAG-TCTGACTTTAC-CACAC
** *
92171210 GGCCGTGGGACTAACCTGTGGGCAAGTCTGACTTTGCCACAC
1 GGCCGTGGGACTAACCCATGGGCAAGTCTGACTTTACCACAC
92171252 GGCC-TGGG
1 GGCCGTGGG
92171260 CACATGCCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
41 4 0.09
42 34 0.79
43 5 0.12
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.20
Consensus pattern (42 bp):
GGCCGTGGGACTAACCCATGGGCAAGTCTGACTTTACCACAC
Found at i:92171725 original size:13 final size:13
Alignment explanation
Indices: 92171707--92171742 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
92171697 GATAATTAGC
92171707 AAATCATACATAT
1 AAATCATACATAT
*
92171720 AAATCATATATAT
1 AAATCATACATAT
92171733 AAATTCATAC
1 AAA-TCATAC
92171743 CAACTATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATCATACATAT
Found at i:92185276 original size:19 final size:21
Alignment explanation
Indices: 92185254--92185311 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
92185244 TTAAACTTTC
92185254 AATTTTTAATTATTTTAT-G-
1 AATTTTTAATTATTTTATCGA
*
92185273 AATTTTTAATCTCTTTTATCGA
1 AATTTTTAAT-TATTTTATCGA
*
92185295 AATTTTT-ATTTTTTTAT
1 AATTTTTAATTATTTTAT
92185312 TTTTTTGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 10 0.29
20 14 0.41
21 3 0.09
22 7 0.21
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (21 bp):
AATTTTTAATTATTTTATCGA
Found at i:92187270 original size:18 final size:20
Alignment explanation
Indices: 92187247--92187283 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
92187237 ATGTTCATCT
92187247 ATATTTTTT-TTTA-AATTA
1 ATATTTTTTGTTTATAATTA
92187265 ATATTTTTTGTTTATAATT
1 ATATTTTTTGTTTATAATT
92187284 TAGTAAGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
ATATTTTTTGTTTATAATTA
Found at i:92191026 original size:20 final size:20
Alignment explanation
Indices: 92191003--92191047 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
92190993 AAATGAATCC
* *
92191003 TAAATTCAGAAAAAATAACA
1 TAAATCCAGAAAAAATAAAA
* *
92191023 TAAACCCAGAAAAATTAAAA
1 TAAATCCAGAAAAAATAAAA
92191043 TAAAT
1 TAAAT
92191048 AATAATAATA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.64, C:0.11, G:0.04, T:0.20
Consensus pattern (20 bp):
TAAATCCAGAAAAAATAAAA
Found at i:92195074 original size:21 final size:21
Alignment explanation
Indices: 92195049--92195089 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
92195039 CAACAAATAA
*
92195049 TTTAAAAATTAAAAATATATT
1 TTTAAAAAATAAAAATATATT
92195070 TTTAAAAAATAAAAATATAT
1 TTTAAAAAATAAAAATATAT
92195090 ATATAGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTAAAAAATAAAAATATATT
Found at i:92195198 original size:23 final size:24
Alignment explanation
Indices: 92195154--92195209 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
92195144 TCAACTCTTT
*
92195154 TTAAAAAATTATAAATAAAATTTAA
1 TTAAAAAA-TAAAAATAAAATTTAA
* *
92195179 TTAAAAAATAAAAAT-TAATTTGA
1 TTAAAAAATAAAAATAAAATTTAA
92195202 -TAAAAAAT
1 TTAAAAAAT
92195210 GTAAATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.29
23 6 0.21
24 6 0.21
25 8 0.29
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (24 bp):
TTAAAAAATAAAAATAAAATTTAA
Found at i:92195801 original size:20 final size:20
Alignment explanation
Indices: 92195766--92195814 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
92195756 CATTAAACTC
92195766 TTTAAACTAGATTTTTAATTT
1 TTTAAA-TAGATTTTTAATTT
*
92195787 TTTAAATATATTTTTAATTT
1 TTTAAATAGATTTTTAATTT
92195807 TTATAAAT
1 TT-TAAAT
92195815 TTTTTAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTAAATAGATTTTTAATTT
Found at i:92201740 original size:30 final size:29
Alignment explanation
Indices: 92201706--92201766 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
92201696 ATGAATCTAA
92201706 AGTTTTGGCACTAAGTGTGCGATTTAAACT
1 AGTTTTGGCACTAAGTGTGCGATTT-AACT
92201736 AGTTTTGGCACTAAGTGTGCGATTTAACT
1 AGTTTTGGCACTAAGTGTGCGATTTAACT
92201765 AG
1 AG
92201767 CTTCAGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (29 bp):
AGTTTTGGCACTAAGTGTGCGATTTAACT
Found at i:92207390 original size:13 final size:13
Alignment explanation
Indices: 92207372--92207396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92207362 TAACACGATA
92207372 TTAAAAAATAATT
1 TTAAAAAATAATT
92207385 TTAAAAAATAAT
1 TTAAAAAATAAT
92207397 CAAATATAAT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TTAAAAAATAATT
Found at i:92210384 original size:29 final size:28
Alignment explanation
Indices: 92210323--92210387 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
92210313 CGCTTTGTAT
*
92210323 ATTTAAAATTTAGTCTTTATTGTTTTAT
1 ATTTAAAATTTAGTCTTTATTGTTTTAA
*
92210351 TTTTAGAAATTTAGTCTATT-TAT-TTTTAA
1 ATTTA-AAATTTAGTCT-TTAT-TGTTTTAA
92210380 ATTTAAAA
1 ATTTAAAA
92210388 ATTCAGAGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
28 7 0.23
29 21 0.68
30 3 0.10
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (28 bp):
ATTTAAAATTTAGTCTTTATTGTTTTAA
Found at i:92210989 original size:39 final size:39
Alignment explanation
Indices: 92210946--92211022 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
92210936 TGGTGTCAAC
92210946 ATTTTTATTGAAATAGTTAACAATATTAACTATTTAAAT
1 ATTTTTATTGAAATAGTTAACAATATTAACTATTTAAAT
92210985 ATTTTTATTGAAATAGTTAACAATATTAACTATTTAAA
1 ATTTTTATTGAAATAGTTAACAATATTAACTATTTAAA
92211023 CTAATTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.45
Consensus pattern (39 bp):
ATTTTTATTGAAATAGTTAACAATATTAACTATTTAAAT
Found at i:92213835 original size:30 final size:30
Alignment explanation
Indices: 92213765--92213849 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
92213755 GGTAACCTCA
* * *
92213765 ATATAATGTTAGCTTGTGTGAGCAATATTG
1 ATATAATGTCAGCTTGTGTGAGCAACACTG
* *
92213795 TTATAATGTCAGCTTGTGTGAGCAACCCTG
1 ATATAATGTCAGCTTGTGTGAGCAACACTG
* *
92213825 ATATATTGTCAGCTTGTATGAGCAA
1 ATATAATGTCAGCTTGTGTGAGCAA
92213850 TTTATTCTCG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (30 bp):
ATATAATGTCAGCTTGTGTGAGCAACACTG
Found at i:92213924 original size:18 final size:19
Alignment explanation
Indices: 92213903--92213941 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
92213893 GGAAATATTC
*
92213903 ATTTCATTG-GAAATGGAA
1 ATTTAATTGTGAAATGGAA
92213921 ATTTAATTGTGAAATGGAA
1 ATTTAATTGTGAAATGGAA
92213940 AT
1 AT
92213942 GAAATGGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (19 bp):
ATTTAATTGTGAAATGGAA
Found at i:92225750 original size:21 final size:21
Alignment explanation
Indices: 92225724--92225773 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
92225714 ACACGGCTTG
92225724 GCCACACGGTTGTGCAACCCT
1 GCCACACGGTTGTGCAACCCT
*
92225745 GCCACACGGTTGTGCAACTCT
1 GCCACACGGTTGTGCAACCCT
*
92225766 TCCACACG
1 GCCACACG
92225774 AACTATAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.38, G:0.22, T:0.20
Consensus pattern (21 bp):
GCCACACGGTTGTGCAACCCT
Found at i:92227925 original size:18 final size:16
Alignment explanation
Indices: 92227904--92227937 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
92227894 ATAGATAATC
92227904 ATATTATATTATATAAAT
1 ATATTAT-TTAT-TAAAT
92227922 ATATTATTTATTAAAT
1 ATATTATTTATTAAAT
92227938 TTTATATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 4 0.25
18 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTATTTATTAAAT
Found at i:92230563 original size:311 final size:311
Alignment explanation
Indices: 92230000--92230626 Score: 1254
Period size: 311 Copynumber: 2.0 Consensus size: 311
92229990 TAGGGGGTGC
92230000 AAATCCAAACCTGTTAGGGTTGGGGGCGCACCTGCATCACACAATATGGGCTACGCGAAATGTTT
1 AAATCCAAACCTGTTAGGGTTGGGGGCGCACCTGCATCACACAATATGGGCTACGCGAAATGTTT
92230065 GGACTGATTTGCAGGTAAAGGACATACTAAAATTTTCTCCATTTTTCCTACAAAAATTTTGAGAT
66 GGACTGATTTGCAGGTAAAGGACATACTAAAATTTTCTCCATTTTTCCTACAAAAATTTTGAGAT
92230130 ATTTTCCCTACATATTTCGAACCTGTTTTAGCTTATAGAAGAAAGTTAGGCTACAGATGCTCATC
131 ATTTTCCCTACATATTTCGAACCTGTTTTAGCTTATAGAAGAAAGTTAGGCTACAGATGCTCATC
92230195 TCGTTGTTGTATACGATTTTTGCCTACCTACAAGTACAAAATTTCGATCTAGTTTTATTTCCAAT
196 TCGTTGTTGTATACGATTTTTGCCTACCTACAAGTACAAAATTTCGATCTAGTTTTATTTCCAAT
92230260 TTTTTTTTCAGATATATATATCTATATTGTTTTGATTCGATCTTATGATTT
261 TTTTTTTTCAGATATATATATCTATATTGTTTTGATTCGATCTTATGATTT
92230311 AAATCCAAACCTGTTAGGGTTGGGGGCGCACCTGCATCACACAATATGGGCTACGCGAAATGTTT
1 AAATCCAAACCTGTTAGGGTTGGGGGCGCACCTGCATCACACAATATGGGCTACGCGAAATGTTT
92230376 GGACTGATTTGCAGGTAAAGGACATACTAAAATTTTCTCCATTTTTCCTACAAAAATTTTGAGAT
66 GGACTGATTTGCAGGTAAAGGACATACTAAAATTTTCTCCATTTTTCCTACAAAAATTTTGAGAT
92230441 ATTTTCCCTACATATTTCGAACCTGTTTTAGCTTATAGAAGAAAGTTAGGCTACAGATGCTCATC
131 ATTTTCCCTACATATTTCGAACCTGTTTTAGCTTATAGAAGAAAGTTAGGCTACAGATGCTCATC
92230506 TCGTTGTTGTATACGATTTTTGCCTACCTACAAGTACAAAATTTCGATCTAGTTTTATTTCCAAT
196 TCGTTGTTGTATACGATTTTTGCCTACCTACAAGTACAAAATTTCGATCTAGTTTTATTTCCAAT
92230571 TTTTTTTTCAGATATATATATCTATATTGTTTTGATTCGATCTTATGATTT
261 TTTTTTTTCAGATATATATATCTATATTGTTTTGATTCGATCTTATGATTT
92230622 AAATC
1 AAATC
92230627 AATATTTTAC
Statistics
Matches: 316, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
311 316 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (311 bp):
AAATCCAAACCTGTTAGGGTTGGGGGCGCACCTGCATCACACAATATGGGCTACGCGAAATGTTT
GGACTGATTTGCAGGTAAAGGACATACTAAAATTTTCTCCATTTTTCCTACAAAAATTTTGAGAT
ATTTTCCCTACATATTTCGAACCTGTTTTAGCTTATAGAAGAAAGTTAGGCTACAGATGCTCATC
TCGTTGTTGTATACGATTTTTGCCTACCTACAAGTACAAAATTTCGATCTAGTTTTATTTCCAAT
TTTTTTTTCAGATATATATATCTATATTGTTTTGATTCGATCTTATGATTT
Found at i:92232583 original size:11 final size:11
Alignment explanation
Indices: 92232567--92232591 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
92232557 AATTTCTCTC
92232567 TTTTTTTTTCT
1 TTTTTTTTTCT
92232578 TTTTTTTTTCT
1 TTTTTTTTTCT
92232589 TTT
1 TTT
92232592 GGGTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:92234806 original size:18 final size:18
Alignment explanation
Indices: 92234767--92234807 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
92234757 GCCTGATGGT
* *
92234767 TCTTCTCCATCATCTTCC
1 TCTTCTCCATCATCATCA
92234785 TCTTCTCCATCATCATCA
1 TCTTCTCCATCATCATCA
92234803 TCTTC
1 TCTTC
92234808 CAAAGCTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (18 bp):
TCTTCTCCATCATCATCA
Found at i:92237742 original size:5 final size:5
Alignment explanation
Indices: 92237728--92237760 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
92237718 AGCCCCCTCG
*
92237728 CCCC- CCCCA CCCCA CCCCA CCCCA CCCCG CCCC
1 CCCCA CCCCA CCCCA CCCCA CCCCA CCCCA CCCC
92237761 CACCATAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.12, C:0.85, G:0.03, T:0.00
Consensus pattern (5 bp):
CCCCA
Found at i:92241203 original size:28 final size:29
Alignment explanation
Indices: 92241172--92241231 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
92241162 GATTTTTGAC
* *
92241172 AAAAATATTAATT-AGGGATTAAATTGTG
1 AAAAATATAAATTAAGGGATTAAATTATG
* *
92241200 AAAAGTGTAAATTAAGGGATTAAATTATG
1 AAAAATATAAATTAAGGGATTAAATTATG
92241229 AAA
1 AAA
92241232 TAAATGTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (29 bp):
AAAAATATAAATTAAGGGATTAAATTATG
Found at i:92241764 original size:43 final size:44
Alignment explanation
Indices: 92241717--92241870 Score: 174
Period size: 43 Copynumber: 3.6 Consensus size: 44
92241707 TCGATATGTG
* *
92241717 ATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGAT
1 ATTACATGTAAGACCATGTCTGGGACATTGACATCGATATTGAT
* * *
92241760 ATTACGTGTAAGACCATGTCTGGGACATTGACATCGTTAATCGAT
1 ATTACATGTAAGACCATGTCTGGGACATTGACATCGAT-ATTGAT
* * *
92241805 -TT-CGTGTAAGACCTTGTCTGGGACAGTGACATCGATATGTGAT
1 ATTACATGTAAGACCATGTCTGGGACATTGACATCGATAT-TGAT
*
92241848 A--ACATGTAAGACCATATCTGGGA
1 ATTACATGTAAGACCATGTCTGGGA
92241871 TATGGCATTG
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
42 2 0.02
43 85 0.89
44 3 0.03
45 5 0.05
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (44 bp):
ATTACATGTAAGACCATGTCTGGGACATTGACATCGATATTGAT
Found at i:92243316 original size:13 final size:13
Alignment explanation
Indices: 92243271--92243310 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
92243261 TAAAGTAATT
92243271 AAATAAAA-AATA-
1 AAATAAAAGAA-AG
92243283 AAATAAAAGAAAG
1 AAATAAAAGAAAG
92243296 AAATAAAAGAAAG
1 AAATAAAAGAAAG
92243309 AA
1 AA
92243311 TGAAAATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (13 bp):
AAATAAAAGAAAG
Found at i:92247718 original size:20 final size:21
Alignment explanation
Indices: 92247678--92247719 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
92247668 ACAAACATTA
92247678 AATTTTTATATATAAATATAT
1 AATTTTTATATATAAATATAT
92247699 AATTTTGTATATATAAATATA
1 AATTTT-TATATATAAATATA
92247720 GATAGCCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AATTTTTATATATAAATATAT
Found at i:92250838 original size:15 final size:15
Alignment explanation
Indices: 92250818--92250857 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
92250808 CTAGATTACT
92250818 TCCTAGGGTTGTCAA
1 TCCTAGGGTTGTCAA
*
92250833 TCCTAGGGTCGTCAA
1 TCCTAGGGTTGTCAA
*
92250848 TTCTAGGGTT
1 TCCTAGGGTT
92250858 TAAGCATGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (15 bp):
TCCTAGGGTTGTCAA
Found at i:92251486 original size:10 final size:11
Alignment explanation
Indices: 92251462--92251486 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
92251452 ATTTGGGCGC
92251462 AAAATGAGTGA
1 AAAATGAGTGA
92251473 AAAATGAGTGA
1 AAAATGAGTGA
92251484 AAA
1 AAA
92251487 CCGAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (11 bp):
AAAATGAGTGA
Found at i:92256704 original size:23 final size:23
Alignment explanation
Indices: 92256678--92256775 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
92256668 ATAAGTGCCA
*
92256678 CACTGATATGTAGCCGAATCTAC
1 CACTGATATGTAGCCGAAGCTAC
92256701 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
92256724 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
92256746 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
92256769 CACTGAT
1 CACTGAT
92256776 CAATAACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:92256746 original size:45 final size:45
Alignment explanation
Indices: 92256685--92256773 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
92256675 CCACACTGAT
* * *
92256685 ATGTAGCCGAATCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
92256730 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
92256774 ATCAATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:92259554 original size:26 final size:26
Alignment explanation
Indices: 92259525--92259632 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
92259515 TGGTACAAAT
92259525 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCA
*
92259551 TGATAATG-GATTAGGTAAATATTCCA
1 TGATAATGAG-TTAGGTAAATGTTCCA
* *
92259577 TGATAACGGGTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCA
* *
92259603 TGATAATTATTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCA
92259629 TGAT
1 TGAT
92259633 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
25 1 0.01
26 71 0.97
27 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.36
Consensus pattern (26 bp):
TGATAATGAGTTAGGTAAATGTTCCA
Found at i:92262982 original size:26 final size:26
Alignment explanation
Indices: 92262953--92263023 Score: 108
Period size: 26 Copynumber: 2.7 Consensus size: 26
92262943 CTTCAAATTA
92262953 TTTTATATA-TGATTTATTTTAAACTG
1 TTTTATATACT-ATTTATTTTAAACTG
* *
92262979 TTTTATATACTATATATTTTAAATTG
1 TTTTATATACTATTTATTTTAAACTG
92263005 TTTTATATACTATTTATTT
1 TTTTATATACTATTTATTT
92263024 GTTATCTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 40 0.98
27 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTTATATACTATTTATTTTAAACTG
Found at i:92266632 original size:27 final size:27
Alignment explanation
Indices: 92266582--92266639 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
92266572 TTCCTTTTCA
* *
92266582 TTTAATTTTTTTATTTATATTTATTAT
1 TTTAATTGTTTTATTTATATTTATTAC
*
92266609 TTTAATTGTTTTATTT-TTTCTTATTAC
1 TTTAATTGTTTTATTTATAT-TTATTAC
92266636 TTTA
1 TTTA
92266640 TTATTATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.72
Consensus pattern (27 bp):
TTTAATTGTTTTATTTATATTTATTAC
Found at i:92269033 original size:36 final size:36
Alignment explanation
Indices: 92268968--92269036 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
92268958 ATTAAAATCG
* * *
92268968 TCAATTTATCCGACTAGCGCTGGGAGCAAATCTTTA
1 TCAATTTATCCGACTAACACTAGGAGCAAATCTTTA
* *
92269004 TCAATTTGTCCGACTAACACTAGGCGCAAATCT
1 TCAATTTATCCGACTAACACTAGGAGCAAATCT
92269037 AATGTCGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (36 bp):
TCAATTTATCCGACTAACACTAGGAGCAAATCTTTA
Found at i:92274693 original size:19 final size:19
Alignment explanation
Indices: 92274669--92274714 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
92274659 CTGTACTCAT
92274669 AGAGCCTAGGTCGTGTAAC
1 AGAGCCTAGGTCGTGTAAC
*
92274688 AGAGCCTAGGTCGTGTGAC
1 AGAGCCTAGGTCGTGTAAC
*
92274707 AAAGCCTA
1 AGAGCCTA
92274715 CGCAGTGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (19 bp):
AGAGCCTAGGTCGTGTAAC
Found at i:92276655 original size:41 final size:41
Alignment explanation
Indices: 92276598--92276678 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
92276588 CTATAACCTT
*
92276598 TTATACTTTATTCAATTTAGTCCTTAACATCAAAACTATTC
1 TTATACTTTATTCAATTTAGTCCTTAACACCAAAACTATTC
92276639 TTATACTTTATTCAATTTAGTCCTTAACACCAAAACTATT
1 TTATACTTTATTCAATTTAGTCCTTAACACCAAAACTATT
92276679 TAAATTTTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (41 bp):
TTATACTTTATTCAATTTAGTCCTTAACACCAAAACTATTC
Found at i:92276664 original size:23 final size:23
Alignment explanation
Indices: 92276598--92276664 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 23
92276588 CTATAACCTT
92276598 TTATACTTTATTCAATTTAGTCC
1 TTATACTTTATTCAATTTAGTCC
** *
92276621 TTA-AC---A-TCAAAACTA-TTC
1 TTATACTTTATTC-AATTTAGTCC
92276639 TTATACTTTATTCAATTTAGTCC
1 TTATACTTTATTCAATTTAGTCC
92276662 TTA
1 TTA
92276665 ACACCAAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 14
0.61 0.12 0.27
Matches are distributed among these distances:
18 7 0.23
19 7 0.23
22 7 0.23
23 10 0.32
ACGTcount: A:0.31, C:0.18, G:0.03, T:0.48
Consensus pattern (23 bp):
TTATACTTTATTCAATTTAGTCC
Found at i:92289221 original size:13 final size:14
Alignment explanation
Indices: 92289179--92289223 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
92289169 TAATAATGAT
92289179 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
92289194 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
92289207 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
92289220 TAAA
1 TAAA
92289224 ATAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:92291066 original size:20 final size:20
Alignment explanation
Indices: 92291043--92291082 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
92291033 CCCCACGGCT
*
92291043 ATGTCCCAAGCCATACGGGC
1 ATGTCCCAAGCCACACGGGC
* *
92291063 ATGTCCTAGGCCACACGGGC
1 ATGTCCCAAGCCACACGGGC
92291083 GTGTGCCCCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.35, G:0.28, T:0.15
Consensus pattern (20 bp):
ATGTCCCAAGCCACACGGGC
Found at i:92291558 original size:2 final size:2
Alignment explanation
Indices: 92291551--92291586 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
92291541 AAAATAGAAA
92291551 AG AG AG 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 AG AG AG
92291587 CAAATGGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:92298575 original size:14 final size:15
Alignment explanation
Indices: 92298551--92298579 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
92298541 TTGTTAATAT
92298551 CCATTTGTCTGCAAA
1 CCATTTGTCTGCAAA
92298566 CCATTT-TCTGCAAA
1 CCATTTGTCTGCAAA
92298580 ATTGTGCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (15 bp):
CCATTTGTCTGCAAA
Found at i:92299322 original size:49 final size:49
Alignment explanation
Indices: 92299265--92299358 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
92299255 ACATGATAGC
* * *
92299265 GATTAATGTATTTATTATACTTGTCAATATAAGGATGGTTTTATCTAGA
1 GATTAATGTATTTAGTATACTTGTCAATACAACGATGGTTTTATCTAGA
92299314 GATTAATGTATTTAGTATACTTGTCAATACAACGATGGTTTTATC
1 GATTAATGTATTTAGTATACTTGTCAATACAACGATGGTTTTATC
92299359 CATCATTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.44
Consensus pattern (49 bp):
GATTAATGTATTTAGTATACTTGTCAATACAACGATGGTTTTATCTAGA
Found at i:92301017 original size:15 final size:16
Alignment explanation
Indices: 92300988--92301020 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
92300978 TATTAAATGT
*
92300988 ATATAAATATTTAAAA
1 ATATAAATATATAAAA
92301004 ATAT-AATATATAAAA
1 ATATAAATATATAAAA
92301019 AT
1 AT
92301021 GTCAGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATAAATATATAAAA
Found at i:92301198 original size:12 final size:11
Alignment explanation
Indices: 92301157--92301191 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
92301147 AAAATTATTT
*
92301157 AAAATTAT-TA
1 AAAATTATAAA
92301167 AAAATTATAAA
1 AAAATTATAAA
92301178 AAAATTATAAA
1 AAAATTATAAA
92301189 AAA
1 AAA
92301192 TTTTATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:92301221 original size:21 final size:19
Alignment explanation
Indices: 92301192--92301238 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
92301182 TTATAAAAAA
92301192 TTTT-ATATTACATTTATAT
1 TTTTAATATTACATTTA-AT
**
92301211 TGTTTAATATTATTTTTAAT
1 T-TTTAATATTACATTTAAT
92301231 TTTTAATA
1 TTTTAATA
92301239 AAATTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 8 0.33
20 6 0.25
21 10 0.42
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTAATATTACATTTAAT
Found at i:92301497 original size:21 final size:22
Alignment explanation
Indices: 92301471--92301516 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
92301461 TTCTAGATTT
*
92301471 TATATATTT-TTTGAATTTTTA
1 TATATATTTATTTCAATTTTTA
*
92301492 TATATATTTATTTCTATTTTTA
1 TATATATTTATTTCAATTTTTA
92301514 TAT
1 TAT
92301517 TTTTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TATATATTTATTTCAATTTTTA
Found at i:92306155 original size:16 final size:17
Alignment explanation
Indices: 92306134--92306174 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
92306124 ATCTCATAAC
92306134 ATAATTAATATAAATT-
1 ATAATTAATATAAATTA
*
92306150 ATAATTTA-ATAAATTA
1 ATAATTAATATAAATTA
92306166 ATAA-TAATA
1 ATAATTAATA
92306175 ATAATAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATTAATATAAATTA
Found at i:92319599 original size:19 final size:18
Alignment explanation
Indices: 92319566--92319602 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
92319556 CTCTTGAACT
92319566 TGAACCTTAGCCTCAACC
1 TGAACCTTAGCCTCAACC
*
92319584 TGAACCTCTTGCCTCAACC
1 TGAACCT-TAGCCTCAACC
92319603 GAAGAATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.24, C:0.41, G:0.11, T:0.24
Consensus pattern (18 bp):
TGAACCTTAGCCTCAACC
Found at i:92320251 original size:23 final size:24
Alignment explanation
Indices: 92320198--92320256 Score: 93
Period size: 25 Copynumber: 2.5 Consensus size: 24
92320188 ATGTTTTGTA
*
92320198 TTTTATTTAATATTAATATACTTAT
1 TTTTATTTAATATTAATATAC-AAT
92320223 TTTTATTTAATATTAATATA-AAT
1 TTTTATTTAATATTAATATACAAT
92320246 TTTTATTTAAT
1 TTTTATTTAAT
92320257 TAGATTTTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 13 0.39
25 20 0.61
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTTATTTAATATTAATATACAAT
Found at i:92320415 original size:31 final size:31
Alignment explanation
Indices: 92320379--92320438 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
92320369 ATTTAACAGA
*
92320379 GAGTGATTAAAATAGAAACAATCTAAAACGT
1 GAGTGACTAAAATAGAAACAATCTAAAACGT
* **
92320410 GAGTGACTGAAATAGAAATGATCTAAAAC
1 GAGTGACTAAAATAGAAACAATCTAAAAC
92320439 ATTAATGGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.18, T:0.22
Consensus pattern (31 bp):
GAGTGACTAAAATAGAAACAATCTAAAACGT
Found at i:92333293 original size:47 final size:47
Alignment explanation
Indices: 92333185--92333294 Score: 143
Period size: 47 Copynumber: 2.3 Consensus size: 47
92333175 CGGGATAAAT
* *
92333185 ACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACATTATAGTAC
1 ACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTAC
* * *
92333232 ACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-AC
1 ACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTAC
92333279 ACATAGTG-TCTCATCG
1 ACATAGTGCT-TCATCG
92333295 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (47 bp):
ACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTAC
Found at i:92334066 original size:4 final size:4
Alignment explanation
Indices: 92334057--92334137 Score: 72
Period size: 4 Copynumber: 19.8 Consensus size: 4
92334047 CCCTTTTCTA
** * * * **
92334057 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC TGTA ACTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC TTTC
*
92334107 TTTC TATC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
92334138 TTAACTTACT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
4 57 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.05, C:0.26, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:92340400 original size:47 final size:47
Alignment explanation
Indices: 92340291--92340401 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
92340281 CCGAGATAAG
* *
92340291 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAATATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * * * *
92340338 CAGAAAGTACTTCATCGGAACAAATTCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
92340385 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
92340402 ACTCAATGTC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
46 1 0.02
47 49 0.94
48 2 0.04
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Done.