Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 160 of 240
Found at i:50342290 original size:5 final size:5
Alignment explanation
Indices: 50342239--50342316 Score: 65
Period size: 5 Copynumber: 15.8 Consensus size: 5
50342229 AAAAAACAAA
* * *
50342239 AAAAG GAAAG AAAA- AAACA- AAAAA AAAACG AAAAG AAAA- AAAGG AAAAG
1 AAAAG AAAAG AAAAG AAA-AG AAAAG AAAA-G AAAAG AAAAG AAAAG AAAAG
*
50342288 AAAAG AAAAG AAGA- AAAAG AAAAGG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAA-G AAAA
50342317 AAGAGAGTCC
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
4 10 0.17
5 41 0.68
6 9 0.15
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:50342292 original size:19 final size:19
Alignment explanation
Indices: 50342227--50342320 Score: 95
Period size: 19 Copynumber: 5.0 Consensus size: 19
50342217 AAAAATGTTC
*
50342227 AAAA-AAAACAAAAAAAG-
1 AAAAGAAAAGAAAAAAAGA
* *
50342244 GAAAGAAAA-AAACAAAAAA
1 AAAAGAAAAGAAA-AAAAGA
*
50342263 AAAACGAAAAGAAAAAAAGG
1 AAAA-GAAAAGAAAAAAAGA
*
50342283 AAAAGAAAAGAAAAGAAGA
1 AAAAGAAAAGAAAAAAAGA
*
50342302 AAAAGAAAAGGAAAAAAGA
1 AAAAGAAAAGAAAAAAAGA
50342321 GAGTCCAAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
17 6 0.10
18 8 0.13
19 33 0.52
20 13 0.21
21 3 0.05
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAGAAAAAAAGA
Found at i:50342318 original size:14 final size:13
Alignment explanation
Indices: 50342231--50342318 Score: 72
Period size: 14 Copynumber: 6.5 Consensus size: 13
50342221 ATGTTCAAAA
50342231 AAAACAAAAAAAGG
1 AAAA-AAAAAAAGG
*
50342245 AAAGAAAAAAA--
1 AAAAAAAAAAAGG
* *
50342256 CAAAAAAAAAACG
1 AAAAAAAAAAAGG
50342269 AAAAGAAAAAAAGG
1 AAAA-AAAAAAAGG
*
50342283 AAAAGAAAAGAAAAG
1 AAAA-AAAA-AAAGG
50342298 AAGAAAAAGAAAAGG
1 AA-AAAAA-AAAAGG
50342313 AAAAAA
1 AAAAAA
50342319 GAGAGTCCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
11 9 0.15
13 10 0.16
14 24 0.39
15 15 0.25
16 3 0.05
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGG
Found at i:50342767 original size:97 final size:97
Alignment explanation
Indices: 50342601--50342888 Score: 443
Period size: 97 Copynumber: 3.0 Consensus size: 97
50342591 ATTCTTTTCG
* *
50342601 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTGTGCTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
* * *
50342666 CATCTTATCCATTATGATAATCTTTTTTATTT
66 CATCTTATCCATTGTGATAATCTTTTTCATCT
*
50342698 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGTTTTGTTCTCAATAAAATTT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
*
50342763 CATCTTATCTATTGTGATAATCTTTTTCATCT
66 CATCTTATCCATTGTGATAATCTTTTTCATCT
* * *
50342795 TATCTTAGCAAAATTTTCTATCTGGATTAATTTATTCCA-TGCGAGCTTTGTTCTCAATAAAATT
1 TATCTTAGCAAAATTTGCTATCTTGATTAATTTATT-CATTTCGAGCTTTGTTCTCAATAAAATT
* * *
50342859 TCATCTTGTCCATTGTGATAACCTTATTCA
65 TCATCTTATCCATTGTGATAATCTTTTTCA
50342889 AGCATTTTTC
Statistics
Matches: 175, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
97 173 0.99
98 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (97 bp):
TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
CATCTTATCCATTGTGATAATCTTTTTCATCT
Found at i:50343911 original size:87 final size:86
Alignment explanation
Indices: 50343737--50344099 Score: 363
Period size: 86 Copynumber: 4.2 Consensus size: 86
50343727 ACTACAAGCA
* * * * * * * *
50343737 GCAGATCTTGTCTTACTGTACCGACAGCGAAGCAGATCGAAGACACCAGT-CTGACCTCCCTGAG
1 GCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGAT--AAAAAACTAGTCCT-ATCTCCCTGAG
** ** *
50343801 TTTGCAGTGGAGTAGACTAAAGATAT
63 -CAGCAGTGGAGTAGGTTGAAGAT-T
* * *
50343827 -CAGATCTTATCTTCCTGTACTGGCAGTGAAGTAGATAAAAAAACTAGTCCTATCTCCCTAAGCA
1 GCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGAT-AAAAAACTAGTCCTATCTCCCTGAGCA
50343891 GCAGTGGAGTAGGTTGAAGATT
65 GCAGTGGAGTAGGTTGAAGATT
* * *
50343913 GCAGATCTTGTCTTCCTATACTGGCAGTGAAACAGATAAAAAACTAGTCCTATCTCCTTGAGCAG
1 GCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATAAAAAACTAGTCCTATCTCCCTGAGCAG
*
50343978 CAGTGGAGTAGGTCGAAGATT
66 CAGTGGAGTAGGTTGAAGATT
** * * * *
50343999 ATAGATCTTGTCTTTCTGTACTGGCAGTGAAGCAGATCGAAAACACCAG-CCTTATCTCTCTGAG
1 GCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGAT--AAAAAACTAGTCC-TATCTCCCTGAG
* *
50344063 CAGCAGCGGAGTAAGTTGAAGATT
63 CAGCAGTGGAGTAGGTTGAAGATT
*
50344087 GCAGATCCTGTCT
1 GCAGATCTTGTCT
50344100 CCCTAAGCAG
Statistics
Matches: 229, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
86 79 0.34
87 52 0.23
88 66 0.29
89 32 0.14
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (86 bp):
GCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATAAAAAACTAGTCCTATCTCCCTGAGCAG
CAGTGGAGTAGGTTGAAGATT
Found at i:50344330 original size:44 final size:44
Alignment explanation
Indices: 50344266--50344355 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
50344256 TTAAAGCAAT
*
50344266 AAATTACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTG
1 AAATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTG
*
50344310 AAATAACAAACCTTGTCTCTCTGAAGTTGCAGTAGAGTAGGTTG
1 AAATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTG
50344354 AA
1 AA
50344356 GTTACTAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
AAATAACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTG
Found at i:50344379 original size:44 final size:44
Alignment explanation
Indices: 50344266--50344386 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 44
50344256 TTAAAGCAAT
* *
50344266 AAATTACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTG
1 AAATAACAAACCTTATCCCTCTGAAGTTGCAGTAGAGTAGGTTG
* *
50344310 AAATAACAAACCTTGTCTCTCTGAAGTTGCAGTAGAGTAGGTTG
1 AAATAACAAACCTTATCCCTCTGAAGTTGCAGTAGAGTAGGTTG
* * *
50344354 AAGTTACTAAA-CTTATCCC-CTTGAAGTTCCAGT
1 AAATAAC-AAACCTTATCCCTC-TGAAGTTGCAGT
50344387 GGGGCAAGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.01
44 64 0.94
45 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
AAATAACAAACCTTATCCCTCTGAAGTTGCAGTAGAGTAGGTTG
Found at i:50344622 original size:147 final size:148
Alignment explanation
Indices: 50344365--50344649 Score: 428
Period size: 147 Copynumber: 1.9 Consensus size: 148
50344355 AGTTACTAAA
* *
50344365 CTTATCCCCTTGAAGTTCCAGTGGGGCAAGTTAAAGATATAAGTCCTATCTCCCTGAAGTTGCAG
1 CTTATCCCCTTAAAGTTCCAGTGGGGCAAGTTAAAGATACAAGTCCTATCTCCCTGAAGTTGCAG
* * *
50344430 TGGAGCGGGTCAAAACGATGGATCTTATCTCTCTAAAGTTGCAGTAGAATGGATCACATCAAACT
66 TGGAACGGGTCAAAACGATGGATCTTATCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACT
50344495 TTATTGAAAATTACAAGT
131 TTATTGAAAATTACAAGT
* * * * * *
50344513 CTTATCCCC-TAAATTTGCAGTGGGGCAAGTTGAAGATACGAGTCCTATTTTCCTGAAGTTGCAG
1 CTTATCCCCTTAAAGTTCCAGTGGGGCAAGTTAAAGATACAAGTCCTATCTCCCTGAAGTTGCAG
* * * *
50344577 TGGAATGGGTCAAAATGATGGATCTTATCTTTCTGAAGTTACAGTAGAATAGATCACATCAAACT
66 TGGAACGGGTCAAAACGATGGATCTTATCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACT
50344642 TTATTGAA
131 TTATTGAA
50344650 GCTACAGGTC
Statistics
Matches: 122, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
147 113 0.93
148 9 0.07
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (148 bp):
CTTATCCCCTTAAAGTTCCAGTGGGGCAAGTTAAAGATACAAGTCCTATCTCCCTGAAGTTGCAG
TGGAACGGGTCAAAACGATGGATCTTATCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACT
TTATTGAAAATTACAAGT
Found at i:50344678 original size:147 final size:147
Alignment explanation
Indices: 50344377--50344680 Score: 412
Period size: 147 Copynumber: 2.1 Consensus size: 147
50344367 TATCCCCTTG
* * *
50344377 AAGTTCCAGTGGGGCAAGTTAAAGATATAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTCA
1 AAGTTGCAGTGGGGCAAGTTAAAGATACAAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCA
* * *
50344442 AAACGATGGATCTTATCTCTCTAAAGTTGCAGTAGAATGGATCACATCAAACTTTATTGAAAATT
66 AAACGATGGATCTTATCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAACT
*
50344507 ACAAGTCTTATCCCCTA
131 ACAAGTCTTATCCACTA
* * * * * *
50344524 AATTTGCAGTGGGGCAAGTTGAAGATACGAGTCCTATTTTCCTGAAGTTGCAGTGGAATGGGTCA
1 AAGTTGCAGTGGGGCAAGTTAAAGATACAAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCA
* * * *
50344589 AAATGATGGATCTTATCTTTCTGAAGTTACAGTAGAATAGATCACATCAAACTTTATTG-AAGCT
66 AAACGATGGATCTTATCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAACT
* *
50344653 ACAGGTCTTATCTCACTG
131 ACAAGTCTTATC-CACTA
*
50344671 AGGTTGCAGT
1 AAGTTGCAGT
50344681 AGAATAGATT
Statistics
Matches: 135, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
146 14 0.10
147 121 0.90
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (147 bp):
AAGTTGCAGTGGGGCAAGTTAAAGATACAAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCA
AAACGATGGATCTTATCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAACT
ACAAGTCTTATCCACTA
Found at i:50344693 original size:147 final size:146
Alignment explanation
Indices: 50344392--50344725 Score: 377
Period size: 147 Copynumber: 2.3 Consensus size: 146
50344382 CCAGTGGGGC
* ** *
50344392 AAGTTAAAGATATAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTCAAAACGATGGATCTTA
1 AAGTTGAAGATACGAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCAAAACGATGGATCTTA
* * * *
50344457 TCTCTCTAAAGTTGCAGTAGAATGGATCACATCAAACTTTATTGAAAATTACAAGTCTTATCCCC
66 TCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAACTACAAGTCTTATCCAC
* * *
50344522 TAAATTTGCAGTGGGGC
131 TAAAGTTGCAGT-GAGA
* * * *
50344539 AAGTTGAAGATACGAGTCCTATTTTCCTGAAGTTGCAGTGGAATGGGTCAAAATGATGGATCTTA
1 AAGTTGAAGATACGAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCAAAACGATGGATCTTA
* * * *
50344604 TCTTTCTGAAGTTACAGTAGAATAGATCACATCAAACTTTATTG-AAGCTACAGGTCTTATCTCA
66 TCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAACTACAAGTCTTATC-CA
* *
50344668 CTGAGGTTGCAGT-AGA
130 CTAAAGTTGCAGTGAGA
** *
50344684 ATAGATTGAAGATA-GCAGATATTATCTCTCTGAAGTTGCAGT
1 A-AG-TTGAAGATACG-AG-TCCTATCTCCCTGAAGTTGCAGT
50344726 AGAGTAGACC
Statistics
Matches: 156, Mismatches: 26, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
145 2 0.01
146 17 0.11
147 119 0.76
148 18 0.12
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (146 bp):
AAGTTGAAGATACGAGTCCTATCTCCCTGAAGTTGCAGTGGAACGGGTCAAAACGATGGATCTTA
TCTCTCTAAAGTTACAGTAGAATAGATCACATCAAACTTTATTGAAAACTACAAGTCTTATCCAC
TAAAGTTGCAGTGAGA
Found at i:50344918 original size:44 final size:44
Alignment explanation
Indices: 50344870--50344956 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
50344860 GAGCAGGTTG
* * * *
50344870 AAGATATAAGTTTTATTTCCATGAAGTTGCAGTGGAGTAGACTA
1 AAGATATAAGTCTTATCTCCATGAAGTTGCAGAGGAGCAGACTA
* *
50344914 AAGATATGAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACT
1 AAGATATAAGTCTTATCTCCATGAAGTTGCAGAGGAGCAGACT
50344957 GAAGCTACTG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (44 bp):
AAGATATAAGTCTTATCTCCATGAAGTTGCAGAGGAGCAGACTA
Found at i:50344976 original size:44 final size:44
Alignment explanation
Indices: 50344891--50344986 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
50344881 TTTATTTCCA
* * *
50344891 TGAAGTTGCAGTGGAGTAGACTAAAGATATGAGTCTTATCTCCC
1 TGAAGTTGCAGAGGAGCAGACTAAAGATATGAGTCTCATCTCCC
* *
50344935 TGAAGTTGCAGAGGAGCAGACTGAAGCTACTGAG-CTCATCTCCC
1 TGAAGTTGCAGAGGAGCAGACTAAAGATA-TGAGTCTCATCTCCC
*
50344979 TAAAGTTG
1 TGAAGTTG
50344987 TAGTGTAACA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 41 0.91
45 4 0.09
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (44 bp):
TGAAGTTGCAGAGGAGCAGACTAAAGATATGAGTCTCATCTCCC
Found at i:50347632 original size:109 final size:109
Alignment explanation
Indices: 50347435--50347849 Score: 582
Period size: 109 Copynumber: 3.8 Consensus size: 109
50347425 AAAAAATAAG
* ** * *
50347435 TAAGGCAATGTTTTGCGTTTGGAAATTGGAGAAAACAAGCCCTAATGTGTTGGGATTTGATTTTT
1 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGATTCGATTTTT
* *
50347500 CTTGTTCAACCAAATAGCCAAATACCCTCTCAAAAATTTCAAAA
66 CTTGTTCAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAA
* *
50347544 TAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGATTCAATTTTT
1 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGATTCGATTTTT
* ** * *
50347609 CTTATTCAACCAAATAGTGAAATATCATTTCAAAAAATTCAAAA
66 CTTGTTCAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAA
* * *
50347653 TAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTT
1 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGATTCGATTTTT
* * *
50347718 CTCGTTCGACCAAATAGCCAAATATCCTTTCAAAAATTTTAAAA
66 CTTGTTCAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAA
* * * *
50347762 TAAGGCAATGTTTTGCGTTTGGAAACTCGAGAAAACGTGCCCTAATGCGCTGGGTTTCGATTCTT
1 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGATTCGATTTTT
**
50347827 C--GTTGGACCAAATAGCCAAATAT
66 CTTGTTCAACCAAATAGCCAAATAT
50347850 TCTCTTATAT
Statistics
Matches: 273, Mismatches: 33, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
107 21 0.08
109 252 0.92
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (109 bp):
TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGATTCGATTTTT
CTTGTTCAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAA
Found at i:50350240 original size:62 final size:61
Alignment explanation
Indices: 50350157--50350284 Score: 195
Period size: 62 Copynumber: 2.1 Consensus size: 61
50350147 GCCACTAAAG
* * *
50350157 CACCAACTAAAGCTTCTTTAGAAAGCCAAGAAACGTGCCAAAAAATATCAATGGAAAGAAGA
1 CACCAACTAAAGCTTCCTTAGAAAGCCAAGAAACATGCCAAAAAAAATCAATGGAAAGAA-A
*
50350219 CACCAACTAAAG-TTGCCTTAGAAAGCCAAGGAACATGCCAAAAAAAATCAATGGAAAGAAA
1 CACCAACTAAAGCTT-CCTTAGAAAGCCAAGAAACATGCCAAAAAAAATCAATGGAAAGAAA
50350280 CACCA
1 CACCA
50350285 CCAACACTGG
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
61 8 0.13
62 53 0.87
ACGTcount: A:0.49, C:0.21, G:0.16, T:0.14
Consensus pattern (61 bp):
CACCAACTAAAGCTTCCTTAGAAAGCCAAGAAACATGCCAAAAAAAATCAATGGAAAGAAA
Found at i:50351563 original size:29 final size:29
Alignment explanation
Indices: 50351529--50351586 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
50351519 CTCTCTTCAT
*
50351529 CTTCTTCACTTTATTTCATTACTCTGTAA
1 CTTCTTCACTTTATTCCATTACTCTGTAA
50351558 CTTCTTCACTTTATTCCATTACTCTGTAA
1 CTTCTTCACTTTATTCCATTACTCTGTAA
50351587 ACATATCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.03, T:0.50
Consensus pattern (29 bp):
CTTCTTCACTTTATTCCATTACTCTGTAA
Found at i:50352939 original size:4 final size:4
Alignment explanation
Indices: 50352930--50352954 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
50352920 TAAAATAATG
50352930 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
50352955 AGAGATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:50353121 original size:24 final size:25
Alignment explanation
Indices: 50353089--50353139 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
50353079 AGGCATATAT
* *
50353089 ATGTGTATTTATA-AAAAATTAAAA
1 ATGTATATTGATATAAAAATTAAAA
* *
50353113 ATGTATATTGATATATATATTAAAA
1 ATGTATATTGATATAAAAATTAAAA
50353138 AT
1 AT
50353140 ATATGTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (25 bp):
ATGTATATTGATATAAAAATTAAAA
Found at i:50357838 original size:7 final size:7
Alignment explanation
Indices: 50357828--50357852 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50357818 TTGTATATTG
50357828 TTAGAGT
1 TTAGAGT
50357835 TTAGAGT
1 TTAGAGT
50357842 TTAGAGT
1 TTAGAGT
50357849 TTAG
1 TTAG
50357853 GGATTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (7 bp):
TTAGAGT
Found at i:50358277 original size:21 final size:20
Alignment explanation
Indices: 50358240--50358291 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
50358230 TCTGTTAATT
*
50358240 TAATTTTTTATAGAATTTA-
1 TAATTTTTTATAAAATTTAG
50358259 TAATTTTTTATAATAAATTTAG
1 TAATTTTTTAT-A-AAATTTAG
50358281 TAATATTTTTA
1 TAAT-TTTTTA
50358292 GTTTAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.39
20 1 0.04
21 6 0.21
22 4 0.14
23 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TAATTTTTTATAAAATTTAG
Found at i:50363401 original size:45 final size:45
Alignment explanation
Indices: 50363333--50363418 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
50363323 CTAGTAAGGC
50363333 CAATGTCTGATTTGAAGGCGATGTTTGCTCGCCTAAGTTTGAGGG
1 CAATGTCTGATTTGAAGGCGATGTTTGCTCGCCTAAGTTTGAGGG
* *
50363378 CAATGTCTGATTTGAGGGTGATGTTTGCTCGCCTAAGTTTG
1 CAATGTCTGATTTGAAGGCGATGTTTGCTCGCCTAAGTTTG
50363419 TTTGATGATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.36
Consensus pattern (45 bp):
CAATGTCTGATTTGAAGGCGATGTTTGCTCGCCTAAGTTTGAGGG
Found at i:50364057 original size:37 final size:37
Alignment explanation
Indices: 50364016--50364092 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
50364006 CTTCATGGGG
*
50364016 TACCAATTTCAATTATTTTAGGTAGAGATCCTCGCTT
1 TACCAATTTCAATTATTTTAGGTAGAGATCCTAGCTT
50364053 TACCAATTTCAATTATTTTAGGTAGAGATCCTAGCTT
1 TACCAATTTCAATTATTTTAGGTAGAGATCCTAGCTT
50364090 TAC
1 TAC
50364093 TTCTCGATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (37 bp):
TACCAATTTCAATTATTTTAGGTAGAGATCCTAGCTT
Found at i:50367684 original size:19 final size:19
Alignment explanation
Indices: 50367656--50367695 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
50367646 AGAAAAGTTG
50367656 ATGTTATTTTGACAT-TTTT
1 ATGTTATTTT-ACATGTTTT
*
50367675 ATGTTGTTTTACATGTTTT
1 ATGTTATTTTACATGTTTT
50367694 AT
1 AT
50367696 TTTCTTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.20, C:0.05, G:0.12, T:0.62
Consensus pattern (19 bp):
ATGTTATTTTACATGTTTT
Found at i:50367696 original size:86 final size:86
Alignment explanation
Indices: 50367551--50367715 Score: 312
Period size: 86 Copynumber: 1.9 Consensus size: 86
50367541 GATTCCTTTG
*
50367551 AAAATCATTAGAAAAGTTGATGTTATTTTGACATTTTTATGTTGTTTTACGTGTTTTATTTTCTT
1 AAAATCATTAGAAAAGTTGATGTTATTTTGACATTTTTATGTTGTTTTACATGTTTTATTTTCTT
*
50367616 ACGTAAAGAATAATATAATTA
66 ACATAAAGAATAATATAATTA
50367637 AAAATCATTAGAAAAGTTGATGTTATTTTGACATTTTTATGTTGTTTTACATGTTTTATTTTCTT
1 AAAATCATTAGAAAAGTTGATGTTATTTTGACATTTTTATGTTGTTTTACATGTTTTATTTTCTT
50367702 ACATAAAGAATAAT
66 ACATAAAGAATAAT
50367716 TTATATATTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 77 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (86 bp):
AAAATCATTAGAAAAGTTGATGTTATTTTGACATTTTTATGTTGTTTTACATGTTTTATTTTCTT
ACATAAAGAATAATATAATTA
Found at i:50373187 original size:3 final size:3
Alignment explanation
Indices: 50373179--50373216 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
50373169 AATTCATCAC
50373179 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50373217 AATTCCTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50373808 original size:29 final size:31
Alignment explanation
Indices: 50373765--50373823 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
50373755 CGAAAAATTT
* *
50373765 AATGACTAAACTAGAA-AAAT-TAATAGTTC
1 AATGACTAAAATAGAATAAATGGAATAGTTC
*
50373794 AATGCCTAAAATAGAATAAATGGAATAGTT
1 AATGACTAAAATAGAATAAATGGAATAGTT
50373824 TAGTCACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 14 0.56
30 4 0.16
31 7 0.28
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (31 bp):
AATGACTAAAATAGAATAAATGGAATAGTTC
Found at i:50378850 original size:27 final size:27
Alignment explanation
Indices: 50378791--50378856 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
50378781 CCCAAAATGA
*
50378791 TATAAAATGACTGTTATGCCCCCACCT
1 TATAAAATGACTGTCATGCCCCCACCT
** * **
50378818 GGTAAAATGACTGTCATGCCCCTATGT
1 TATAAAATGACTGTCATGCCCCCACCT
50378845 TATAAAATGACT
1 TATAAAATGACT
50378857 ATATGCTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (27 bp):
TATAAAATGACTGTCATGCCCCCACCT
Found at i:50387013 original size:18 final size:18
Alignment explanation
Indices: 50386990--50387026 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50386980 GACTTACATT
50386990 TATATGCCCTTAAGAGAA
1 TATATGCCCTTAAGAGAA
50387008 TATATGCCCTTAAGAGAA
1 TATATGCCCTTAAGAGAA
50387026 T
1 T
50387027 CTTTACCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (18 bp):
TATATGCCCTTAAGAGAA
Found at i:50390208 original size:20 final size:20
Alignment explanation
Indices: 50390180--50390230 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
50390170 GATACCATTT
* *
50390180 TATCAATACTTTTTGAAA-AA
1 TATCGATACTATTT-AAAGAA
*
50390200 TATCGATACCTATTTAAAGAG
1 TATCGATA-CTATTTAAAGAA
50390221 TATCGATACT
1 TATCGATACT
50390231 GATGGGACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (20 bp):
TATCGATACTATTTAAAGAA
Found at i:50392351 original size:28 final size:28
Alignment explanation
Indices: 50392312--50392370 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
50392302 TTTTGAACAA
* *
50392312 AAAAAATTCAAAGCATGAATAATATTTC
1 AAAAAATTCAAAGAATGAATAATATGTC
*
50392340 AAAACATTCAAAGAATGAATAATATGTC
1 AAAAAATTCAAAGAATGAATAATATGTC
50392368 AAA
1 AAA
50392371 TATTTTTGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.25
Consensus pattern (28 bp):
AAAAAATTCAAAGAATGAATAATATGTC
Found at i:50393688 original size:52 final size:52
Alignment explanation
Indices: 50393622--50393750 Score: 160
Period size: 50 Copynumber: 2.5 Consensus size: 52
50393612 TCCTTCTATG
* *
50393622 CGTTTAGGAGCAGGGTCACTTTATTA-TA-ATTTTCTACAAGCCTTCC-CCCATA
1 CGTTTAGGAGCAGGGTCACTTTATTACTACA--TTCCACAAGCC-CCCTCCCATA
* *
50393674 CGTTCAGGAGCAGGG-C-CTTTATTACTACATTCCATAAGCCCCCTCCCATA
1 CGTTTAGGAGCAGGGTCACTTTATTACTACATTCCACAAGCCCCCTCCCATA
50393724 CGTTTAGGAGCAGGGTCACTTTATTAC
1 CGTTTAGGAGCAGGGTCACTTTATTAC
50393751 CTTCTGTAAG
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
49 2 0.03
50 37 0.55
51 4 0.06
52 24 0.36
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (52 bp):
CGTTTAGGAGCAGGGTCACTTTATTACTACATTCCACAAGCCCCCTCCCATA
Found at i:50401401 original size:21 final size:21
Alignment explanation
Indices: 50401377--50401425 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
50401367 CACATCACAG
*
50401377 ATAATATGCAGTCAAGCTGCC
1 ATAATATGCAGTCAAGCTACC
50401398 ATAATATGCAGTCAAGCTACC
1 ATAATATGCAGTCAAGCTACC
*
50401419 AGAATAT
1 ATAATAT
50401426 AGGCAAAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (21 bp):
ATAATATGCAGTCAAGCTACC
Found at i:50404246 original size:17 final size:17
Alignment explanation
Indices: 50404224--50404260 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
50404214 AATATAATAC
50404224 TGTTAATAATGAATTTA
1 TGTTAATAATGAATTTA
50404241 TGTTAATAATGAATTTA
1 TGTTAATAATGAATTTA
50404258 TGT
1 TGT
50404261 CACGGATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.49
Consensus pattern (17 bp):
TGTTAATAATGAATTTA
Found at i:50405759 original size:5 final size:5
Alignment explanation
Indices: 50405749--50405782 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
50405739 AAAGACTGGT
50405749 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
50405783 CTTCGGCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:50410337 original size:15 final size:15
Alignment explanation
Indices: 50410317--50410349 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
50410307 CATCCCTAAC
50410317 AAAGTAGGATTTTAT
1 AAAGTAGGATTTTAT
50410332 AAAGTAGGATTTTAT
1 AAAGTAGGATTTTAT
50410347 AAA
1 AAA
50410350 AAAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.36
Consensus pattern (15 bp):
AAAGTAGGATTTTAT
Found at i:50412444 original size:58 final size:58
Alignment explanation
Indices: 50412284--50412444 Score: 304
Period size: 58 Copynumber: 2.8 Consensus size: 58
50412274 TCCTTTTTAC
*
50412284 TTAATTAACTATTGAAACGATAAAATTTTCCAACAAAACTTTAACACCACATGATAGT
1 TTAATTAACTATTGAAACGATAAAATTTTCCAACAAAACTTTAATACCACATGATAGT
50412342 TTAATTAACTATTGAAACGATAAAATTTTCCAACAAAACTTTAATACCACATGATAGT
1 TTAATTAACTATTGAAACGATAAAATTTTCCAACAAAACTTTAATACCACATGATAGT
*
50412400 TTAATTAACTATTGAAATGATAAAATTTTCCAACAAAACTTTAAT
1 TTAATTAACTATTGAAACGATAAAATTTTCCAACAAAACTTTAAT
50412445 TAAACTCTGT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 101 1.00
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (58 bp):
TTAATTAACTATTGAAACGATAAAATTTTCCAACAAAACTTTAATACCACATGATAGT
Found at i:50438579 original size:40 final size:40
Alignment explanation
Indices: 50438535--50438610 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
50438525 ACAAAAAATC
* *
50438535 GAGCATTAGCGGCAATTTAGCCA-AAGCGCCGCTAAAGGTA
1 GAGCATCAGCGGCAATTT-CCCAGAAGCGCCGCTAAAGGTA
*
50438575 GAGCATCAGCGGCGATTTCCCAGAAGCGCCGCTAAA
1 GAGCATCAGCGGCAATTTCCCAGAAGCGCCGCTAAA
50438611 AATAAGAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 3 0.09
40 29 0.91
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.16
Consensus pattern (40 bp):
GAGCATCAGCGGCAATTTCCCAGAAGCGCCGCTAAAGGTA
Found at i:50438725 original size:41 final size:41
Alignment explanation
Indices: 50438680--50438916 Score: 226
Period size: 41 Copynumber: 5.8 Consensus size: 41
50438670 TTTTTAAACC
50438680 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATA
* * * * ***
50438721 TTTAGTGGCGTTTTTATCTGAGCGCCGCTAATTCTCTGGCC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATA
* *
50438762 GTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATA
* * * * * ***
50438803 TTTAGCGGTGTTTTTATCTGAGCGCCACTAATTCTCTGGCC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATA
* * **
50438844 TTTAGCGGCGCTTGTATCTAAGCGCCGCTAATG--CATTTA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATA
** *
50438883 CCTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 --TTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
50438917 AGTAACAAAA
Statistics
Matches: 154, Mismatches: 40, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
41 153 0.99
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATA
Found at i:50438818 original size:82 final size:82
Alignment explanation
Indices: 50438681--50438877 Score: 331
Period size: 82 Copynumber: 2.4 Consensus size: 82
50438671 TTTTAAACCT
*
50438681 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATATTTAGTGGCGTTTTTATCTGAGCGC
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATATTTAGCGGCGTTTTTATCTGAGCGC
*
50438746 CGCTAATTCTCTGGCCG
66 CACTAATTCTCTGGCCG
* *
50438763 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCGGTGTTTTTATCTGAGCGC
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATATTTAGCGGCGTTTTTATCTGAGCGC
*
50438828 CACTAATTCTCTGGCCT
66 CACTAATTCTCTGGCCG
* *
50438845 TTAGCGGCGCTTGTATCTAAGCGCCGCTAATGC
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC
50438878 ATTTACCTTT
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 108 1.00
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (82 bp):
TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATATTTAGCGGCGTTTTTATCTGAGCGC
CACTAATTCTCTGGCCG
Found at i:50438899 original size:123 final size:123
Alignment explanation
Indices: 50438680--50438916 Score: 287
Period size: 123 Copynumber: 1.9 Consensus size: 123
50438670 TTTTTAAACC
* * * * * *
50438680 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATATTTAGTGGCGTTTTTATCTGAGCG
1 TTTAGCGGCGTTTTTATCTAAGCGCCACTAATGCTCAGACATTTAGCGGCGCTTGTATCTAAGCG
* * * *
50438745 CCGCTAATTCTCTGGCCGTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATA
66 CCGCTAATGCTCTGACCGTTAGCGGCGTTTTTACCGAAGCGCCGCTAATGCTCGGATA
* * * * * *
50438803 TTTAGCGGTGTTTTTATCTGAGCGCCACTAATTCTCTGGCCTTTAGCGGCGCTTGTATCTAAGCG
1 TTTAGCGGCGTTTTTATCTAAGCGCCACTAATGCTCAGACATTTAGCGGCGCTTGTATCTAAGCG
* * *
50438868 CCGCTAATGCAT-TTACCTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
66 CCGCTAATGC-TCTGACCGTTAGCGGCGTTTTTACCGAAGCGCCGCTAAT
50438917 AGTAACAAAA
Statistics
Matches: 94, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
123 93 0.99
124 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (123 bp):
TTTAGCGGCGTTTTTATCTAAGCGCCACTAATGCTCAGACATTTAGCGGCGCTTGTATCTAAGCG
CCGCTAATGCTCTGACCGTTAGCGGCGTTTTTACCGAAGCGCCGCTAATGCTCGGATA
Found at i:50438909 original size:82 final size:80
Alignment explanation
Indices: 50438678--50438916 Score: 302
Period size: 82 Copynumber: 2.9 Consensus size: 80
50438668 ATTTTTTAAA
* *
50438678 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGATATTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATG--CATATATTTAGCGGCGTTTTTATCTGAG
50438743 CGCCGCTAATTCTCTGG
64 CGCCGCTAATTCTCTGG
* *
50438760 CCGTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC-TCGGATATTTAGCGGTGTTTTTATCTGA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCAT---ATATTTAGCGGCGTTTTTATCTGA
*
50438824 GCGCCACTAATTCTCTGG
63 GCGCCGCTAATTCTCTGG
* * * * *
50438842 CCTTTAGCGGCGCTTGTATCTAAGCGCCGCTAATGCATTTACCTTTAGCGGCGTTTTT-GCCGAA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCATATA--TTTAGCGGCGTTTTTATCTG-A
50438906 GCGCCGCTAAT
63 GCGCCGCTAAT
50438917 AGTAACAAAA
Statistics
Matches: 137, Mismatches: 13, Indels: 14
0.84 0.08 0.09
Matches are distributed among these distances:
80 3 0.02
81 2 0.01
82 131 0.96
83 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (80 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCATATATTTAGCGGCGTTTTTATCTGAGCG
CCGCTAATTCTCTGG
Found at i:50439458 original size:15 final size:15
Alignment explanation
Indices: 50439424--50439458 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
50439414 TTTAAGGTTA
50439424 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
50439439 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
50439454 ATTTA
1 ATTTA
50439459 AGGTTTCAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:50441635 original size:12 final size:10
Alignment explanation
Indices: 50441619--50441648 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
50441609 TATGTTTTTT
50441619 GATATATATG
1 GATATATATG
50441629 GATATATATG
1 GATATATATG
50441639 GATATATATG
1 GATATATATG
50441649 TAGTTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (10 bp):
GATATATATG
Found at i:50444112 original size:21 final size:21
Alignment explanation
Indices: 50444083--50444135 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
50444073 ATCTTTTATA
*
50444083 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TACAATTT
50444105 TA-ATATATTTATTACAATTT
1 TATATATATTTATTACAATTT
50444125 TATATATATTT
1 TATATATATTT
50444136 GAAAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 9 0.31
21 18 0.62
22 2 0.07
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTACAATTT
Found at i:50444232 original size:37 final size:37
Alignment explanation
Indices: 50444168--50444305 Score: 114
Period size: 38 Copynumber: 3.4 Consensus size: 37
50444158 TAATTTACAT
* *
50444168 ACATAACATATATAAATTTATATATAAACTTACACAAC
1 ACATAACTTACATAAA-TTATATATAAACTTACACAAC
* * *
50444206 ACATAACTTACATAAGTTATATATAAACTTATATATAACTTACAT
1 ACATAACTTACATAAATTATATATAAAC---T-TA-CAC--A-AC
*
50444251 ACATAACTTAAATCCAAATATATATATAAACTTACACAAC
1 ACATAACTTACAT--AAAT-TATATATAAACTTACACAAC
50444291 ACATAACTTACATAA
1 ACATAACTTACATAA
50444306 TAACTTACAT
Statistics
Matches: 79, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
37 12 0.15
38 15 0.19
40 14 0.18
41 3 0.04
42 2 0.03
43 2 0.03
44 3 0.04
45 14 0.18
47 3 0.04
48 11 0.14
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.32
Consensus pattern (37 bp):
ACATAACTTACATAAATTATATATAAACTTACACAAC
Found at i:50444245 original size:32 final size:31
Alignment explanation
Indices: 50444208--50444348 Score: 103
Period size: 32 Copynumber: 4.4 Consensus size: 31
50444198 TACACAACAC
50444208 ATAACTTACATAAGTTATATATAAACTTATAT
1 ATAACTTACATAA-TTATATATAAACTTATAT
* *
50444240 ATAACTTACATACATAACTTAAATCCAAA-TATATAT
1 ATAACTTACATA-ATTA--TATAT--AAACT-TATAT
* * * *
50444276 ATAAACTTACA-CA--ACACAT-AACTTACAT
1 AT-AACTTACATAATTATATATAAACTTATAT
50444304 AATAACTTACATAAGTTATATATAAACTTATAT
1 -ATAACTTACATAA-TTATATATAAACTTATAT
50444337 ATAACTTACATA
1 ATAACTTACATA
50444349 CATAACTTAA
Statistics
Matches: 85, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
28 14 0.16
29 4 0.05
31 3 0.04
32 30 0.35
33 10 0.12
34 4 0.05
35 2 0.02
36 10 0.12
37 8 0.09
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (31 bp):
ATAACTTACATAATTATATATAAACTTATAT
Found at i:50444276 original size:97 final size:97
Alignment explanation
Indices: 50444208--50444456 Score: 326
Period size: 97 Copynumber: 2.5 Consensus size: 97
50444198 TACACAACAC
50444208 ATAACTTACATAAGTTATATATAAACTTATATATAACTTACATACATAACTTAAATCCAAA-TAT
1 ATAACTTACATAAGTTATATATAAACTTATATATAACTTACATACATAACTTAAAT-CAAATTAT
* *
50444272 ATATATAAACTTACACAACACATAACTTACATA
65 ATATATAAACTTACACAAAACATAACTAACATA
*
50444305 ATAACTTACATAAGTTATATATAAACTTATATATAACTTACATACATAACTTAAATCAAATTTTA
1 ATAACTTACATAAGTTATATATAAACTTATATATAACTTACATACATAACTTAAATCAAATTATA
* * *
50444370 TATATAAACTTACACAACACATAACTTATATA
66 TATATAAACTTACACAAAACATAACTAACATA
* * * *
50444402 AT-ACATAATACATAACTTACATA-ATAACTTACATAATATCTTACATA-ATAACTTA
1 ATAAC-T--TACATAAGTTATATATA-AACTTATAT-ATAACTTACATACATAACTTA
50444457 CATAATAATA
Statistics
Matches: 140, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
96 6 0.04
97 93 0.66
98 1 0.01
99 29 0.21
100 11 0.08
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.35
Consensus pattern (97 bp):
ATAACTTACATAAGTTATATATAAACTTATATATAACTTACATACATAACTTAAATCAAATTATA
TATATAAACTTACACAAAACATAACTAACATA
Found at i:50444310 original size:12 final size:12
Alignment explanation
Indices: 50444293--50444464 Score: 101
Period size: 12 Copynumber: 14.3 Consensus size: 12
50444283 TACACAACAC
50444293 ATAACTTACATA
1 ATAACTTACATA
50444305 ATAACTTAC---
1 ATAACTTACATA
* *
50444314 ATAAGTTATAT-
1 ATAACTTACATA
*
50444325 ATAAACTTATAT-
1 AT-AACTTACATA
50444337 ATAACTTACATA
1 ATAACTTACATA
* *
50444349 CATAACTTAAATC
1 -ATAACTTACATA
**
50444362 A-AA-TTTTATA
1 ATAACTTACATA
*
50444372 TATAAACTTACACAACA
1 -AT-AACTT--AC-ATA
*
50444389 CATAACTTATATA
1 -ATAACTTACATA
*
50444402 AT-ACATA-ATA
1 ATAACTTACATA
50444412 CATAACTTACATA
1 -ATAACTTACATA
50444425 ATAACTTACATA
1 ATAACTTACATA
*
50444437 ATATCTTACATA
1 ATAACTTACATA
50444449 ATAACTTACATA
1 ATAACTTACATA
50444461 ATAA
1 ATAA
50444465 TACATACCCT
Statistics
Matches: 126, Mismatches: 19, Indels: 30
0.72 0.11 0.17
Matches are distributed among these distances:
9 7 0.06
10 7 0.06
11 19 0.15
12 64 0.51
13 17 0.13
14 3 0.02
16 5 0.04
17 4 0.03
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:50444317 original size:21 final size:21
Alignment explanation
Indices: 50444291--50444357 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 21
50444281 CTTACACAAC
50444291 ACATAACTTACATAATAACTT
1 ACATAACTTACATAATAACTT
* *
50444312 ACATAAGTTATAT-ATAAACTTAT
1 ACATAACTTACATAAT-AAC-T-T
*
50444335 ATATAACTTACATACATAACTT
1 ACATAACTTACATA-ATAACTT
50444357 A
1 A
50444358 AATCAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
20 2 0.06
21 14 0.39
22 3 0.08
23 12 0.33
24 3 0.08
25 2 0.06
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (21 bp):
ACATAACTTACATAATAACTT
Found at i:50444323 original size:85 final size:83
Alignment explanation
Indices: 50444152--50444436 Score: 243
Period size: 97 Copynumber: 3.2 Consensus size: 83
50444142 TTTATCAATC
* * *
50444152 ATATCATAATTTACATACATAACATATATAAATTTATATATAAACTTACACAACACATAACTTAC
1 ATAT-ATAACTTACATACATAACATAAATAAATATATATATAAACTTACACAACACATAACTTAC
* *
50444217 ATAAGTTATATATAAACTT
65 ATAAGTAATACATAAACTT
*
50444236 ATATATAACTTACATACATAACTTAAATCCAAATATATATATAAACTTACACAACACATAACTTA
1 ATATATAACTTACATACATAACATAAAT--AAATATATATATAAACTTACACAACACATAACTTA
50444301 CATAA-TAACTTACATAAGTTATATATAAACTT
64 CATAAGTAA--TAC-----------ATAAACTT
* *
50444333 ATATATAACTTACATACATAACTTAAATCAAAT-TTTATATATAAACTTACACAACACATAACTT
1 ATATATAACTTACATACATAACATAAAT-AAATATATAT--ATAAACTTACACAACACATAACTT
* *
50444397 ATATAATACATAATACAT-AACTT
63 ACAT-A-A-GTAATACATAAACTT
*
50444420 ACATAATAACTTACATA
1 ATAT-ATAACTTACATA
50444437 ATATCTTACA
Statistics
Matches: 170, Mismatches: 9, Indels: 40
0.78 0.04 0.18
Matches are distributed among these distances:
83 21 0.12
84 6 0.04
85 39 0.23
86 2 0.01
87 8 0.05
88 14 0.08
95 4 0.02
96 5 0.03
97 63 0.37
98 1 0.01
99 4 0.02
101 3 0.02
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (83 bp):
ATATATAACTTACATACATAACATAAATAAATATATATATAAACTTACACAACACATAACTTACA
TAAGTAATACATAAACTT
Found at i:50444424 original size:9 final size:9
Alignment explanation
Indices: 50444376--50444872 Score: 216
Period size: 9 Copynumber: 57.2 Consensus size: 9
50444366 TTTATATATA
*
50444376 AACTTACAC
1 AACTTACAT
50444385 AAC--ACAT
1 AACTTACAT
*
50444392 AACTTATAT
1 AACTTACAT
50444401 AA--TACAT
1 AACTTACAT
50444408 AA--TACAT
1 AACTTACAT
50444415 AACTTACATAAT
1 AACTTAC---AT
50444427 AACTTACAT
1 AACTTACAT
50444436 AATATCTTACATAAT
1 -A-A-CTTAC---AT
50444451 AACTTACAT
1 AACTTACAT
50444460 AA-TAATACAT
1 AACT--TACAT
* *
50444470 ACCCTACAT
1 AACTTACAT
* *
50444479 AAATTAAAT
1 AACTTACAT
*
50444488 AAGTTACAT
1 AACTTACAT
*
50444497 AA--TACAC
1 AACTTACAT
** *
50444504 AA-AAACAA
1 AACTTACAT
50444512 AAACTTACAT
1 AA-CTTACAT
50444522 AACTTACAT
1 AACTTACAT
50444531 AA--TACAT
1 AACTTACAT
50444538 AACTTACAT
1 AACTTACAT
* *
50444547 AACCTACTT
1 AACTTACAT
50444556 AA--TACAT
1 AACTTACAT
*
50444563 AACTTGCAT
1 AACTTACAT
50444572 AACTTACAT
1 AACTTACAT
*
50444581 AA--TACAC
1 AACTTACAT
*
50444588 AGCTTACAT
1 AACTTACAT
* *
50444597 --GTGTAAAT
1 AACT-TACAT
*
50444605 AA--TACAC
1 AACTTACAT
50444612 AACTTACAT
1 AACTTACAT
50444621 AACTTACAT
1 AACTTACAT
* *
50444630 ACCCTACAT
1 AACTTACAT
* *
50444639 AAATTAAAT
1 AACTTACAT
*
50444648 AAGTTACAT
1 AACTTACAT
50444657 AA-TAATACAT
1 AACT--TACAT
* * *
50444667 ACCCTACCT
1 AACTTACAT
* *
50444676 AAATTAAAT
1 AACTTACAT
*
50444685 AAGTTACAT
1 AACTTACAT
*
50444694 AA--TACAC
1 AACTTACAT
** *
50444701 AA-AAACAAA
1 AACTTAC-AT
50444710 AACTTACAT
1 AACTTACAT
50444719 AACTTACAT
1 AACTTACAT
*
50444728 AA--TACAC
1 AACTTACAT
50444735 AACTTACAT
1 AACTTACAT
*
50444744 AACTTATAT
1 AACTTACAT
*
50444753 AA--TACAC
1 AACTTACAT
50444760 AACTTACAT
1 AACTTACAT
*
50444769 AATTTACAT
1 AACTTACAT
50444778 AA--TACAT
1 AACTTACAT
*
50444785 AATTTACAT
1 AACTTACAT
50444794 AACTTACAT
1 AACTTACAT
*
50444803 AA--GACAT
1 AACTTACAT
50444810 AACTTACAT
1 AACTTACAT
* *
50444819 AAGTTTCAT
1 AACTTACAT
*
50444828 AA--TACAC
1 AACTTACAT
*
50444835 AACTTACAC
1 AACTTACAT
50444844 AACTTACAT
1 AACTTACAT
50444853 AACTTACAT
1 AACTTACAT
50444862 AACTTACAT
1 AACTTACAT
50444871 AA
1 AA
50444873 TGTATAACTT
Statistics
Matches: 373, Mismatches: 69, Indels: 92
0.70 0.13 0.17
Matches are distributed among these distances:
7 84 0.23
8 13 0.03
9 232 0.62
10 20 0.05
11 1 0.00
12 19 0.05
13 1 0.00
14 1 0.00
15 2 0.01
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (9 bp):
AACTTACAT
Found at i:50444574 original size:25 final size:25
Alignment explanation
Indices: 50444376--50444463 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 25
50444366 TTTATATATA
* * *
50444376 AACTTACACAACACATAACTTATAT
1 AACTTACATAATACATAACTTACAT
50444401 AA--TACATAATACATAACTTACATAAT
1 AACTTACATAATACATAACTTAC---AT
* *
50444427 AACTTACATAATATC-TTACATA-AT
1 AACTTACATAATA-CATAACTTACAT
50444451 AACTTACATAATA
1 AACTTACATAATA
50444464 ATACATACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
23 16 0.31
24 15 0.29
25 2 0.04
26 4 0.08
28 14 0.27
29 1 0.02
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:50444583 original size:25 final size:25
Alignment explanation
Indices: 50444513--50444630 Score: 141
Period size: 25 Copynumber: 4.8 Consensus size: 25
50444503 CAAAAACAAA
*
50444513 AACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAC
* * *
50444538 AACTTACATAACCTACTTAATACAT
1 AACTTACATAACTTACATAATACAC
*
50444563 AACTTGCATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
* * *
50444588 AGCTTACAT--GTGTAAATAATACAC
1 AACTTACATAACT-TACATAATACAC
50444612 AACTTACATAACTTACATA
1 AACTTACATAACTTACATA
50444631 CCCTACATAA
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
23 1 0.01
24 19 0.25
25 56 0.73
26 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAC
Found at i:50444618 original size:197 final size:196
Alignment explanation
Indices: 50444406--50444783 Score: 575
Period size: 197 Copynumber: 1.9 Consensus size: 196
50444396 TATATAATAC
* * *
50444406 ATAATACATAACTTACATAATAACTTACATA-ATATCTTACA-T-AATAACTTACATAATAATAC
1 ATAATACACAACTTAC---ATAACTTACATACATA-CATAAATTAAATAACTTACATAATAATAC
50444468 ATACCCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAA
62 ATACCCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAA
* * *
50444533 TACATAACTTACATAACCTACT-TAATACATAACTTGCATAACTTACATAATACACAGCTTACAT
127 TACACAACTTACATAACCTA-TATAATACACAACTTACATAACTTACATAATACACAGCTTACAT
50444597 GTGTAA
191 GTGTAA
* *
50444603 ATAATACACAACTTACATAACTTACATACCCTACATAAATTAAATAAGTTACATAATAATACATA
1 ATAATACACAACTTACATAACTTACATA-CATACATAAATTAAATAACTTACATAATAATACATA
*
50444668 CCCTACCTAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAATAC
65 CCCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAATAC
* *
50444733 ACAACTTACATAACTTATATAATACACAACTTACATAATTTACATAATACA
130 ACAACTTACATAACCTATATAATACACAACTTACATAACTTACATAATACA
50444784 TAATTTACAT
Statistics
Matches: 165, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
194 12 0.07
195 4 0.02
196 4 0.02
197 145 0.88
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (196 bp):
ATAATACACAACTTACATAACTTACATACATACATAAATTAAATAACTTACATAATAATACATAC
CCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAATACA
CAACTTACATAACCTATATAATACACAACTTACATAACTTACATAATACACAGCTTACATGTGTA
A
Found at i:50444669 original size:37 final size:37
Alignment explanation
Indices: 50444625--50444697 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
50444615 TTACATAACT
50444625 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
*
50444662 TACATACCCTACCTAAATTAAATAAGTTACATAATA
1 TACATACCCTACATAAATTAAATAAGTTACATAATA
50444698 CACAAAAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.30
Consensus pattern (37 bp):
TACATACCCTACATAAATTAAATAAGTTACATAATAA
Found at i:50444738 original size:25 final size:25
Alignment explanation
Indices: 50444710--50444872 Score: 218
Period size: 25 Copynumber: 6.4 Consensus size: 25
50444700 CAAAAACAAA
50444710 AACTTACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
*
50444735 AACTTACATAACTTATATAATACAC
1 AACTTACATAACTTACATAATACAC
* *
50444760 AACTTACATAATTTACATAATACAT
1 AACTTACATAACTTACATAATACAC
* * *
50444785 AATTTACATAACTTACATAAGACAT
1 AACTTACATAACTTACATAATACAC
* *
50444810 AACTTACATAAGTTTCATAATACAC
1 AACTTACATAACTTACATAATACAC
* *
50444835 AACTTACACAACTTACATAACTTACAT
1 AACTTACATAACTTACATAA--TACAC
50444862 AACTTACATAA
1 AACTTACATAA
50444873 TGTATAACTT
Statistics
Matches: 119, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
25 105 0.88
27 14 0.12
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.31
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAC
Found at i:50444748 original size:34 final size:34
Alignment explanation
Indices: 50444517--50444863 Score: 167
Period size: 34 Copynumber: 10.0 Consensus size: 34
50444507 AACAAAAACT
*
50444517 TACATAACTTACATAA--TACATAACTTACATAA
1 TACACAACTTACATAACTTACATAACTTACATAA
** *
50444549 CCTACTTAA--TACATAACTTGCATAACTTACATAA
1 --TACACAACTTACATAACTTACATAACTTACATAA
* * *
50444583 TACACAGCTTACATGTGTAAATAATACACAACTTACATAA
1 TACACAACTTACA----TAACT--TACATAACTTACATAA
* * * * * *
50444623 CTTACATACCCTACATAAATTAAATAAGTTACATAA
1 --TACACAACTTACATAACTTACATAACTTACATAA
* * * * * *
50444659 TAATACATACCCTACCTAAATTAAATAAGTTACATAA
1 T-ACACA-A-CTTACATAACTTACATAACTTACATAA
** *
50444696 TACACAA-AAACAAAAACTTACATAACTTACATAA
1 TACACAACTTAC-ATAACTTACATAACTTACATAA
* *
50444730 TACACAACTTACATAACTTATATAA--TACACAA
1 TACACAACTTACATAACTTACATAACTTACATAA
* * *
50444762 CTTACATAATTTACATAA--TACATAATTTACATAA
1 --TACACAACTTACATAACTTACATAACTTACATAA
* * * *
50444796 CTTACATAA--GACATAACTTACATAAGTTTCATAA
1 --TACACAACTTACATAACTTACATAACTTACATAA
*
50444830 TACACAACTTACACAACTTACATAACTTACATAA
1 TACACAACTTACATAACTTACATAACTTACATAA
50444864 CTTACATAAT
Statistics
Matches: 245, Mismatches: 43, Indels: 50
0.72 0.13 0.15
Matches are distributed among these distances:
32 35 0.14
33 2 0.01
34 125 0.51
35 6 0.02
36 17 0.07
37 27 0.11
38 9 0.04
40 14 0.06
42 10 0.04
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (34 bp):
TACACAACTTACATAACTTACATAACTTACATAA
Found at i:50449804 original size:21 final size:21
Alignment explanation
Indices: 50449779--50449844 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
50449769 CAACTTAAAA
* *
50449779 CAGAGGCAGCAGTGAGGGAAG
1 CAGAGGCAGCAGCGAGAGAAG
*
50449800 CAGAGGCTGCAGCGAGAGAAG
1 CAGAGGCAGCAGCGAGAGAAG
* *
50449821 TAGAGGCCGCAGCGAGAGAAG
1 CAGAGGCAGCAGCGAGAGAAG
50449842 CAG
1 CAG
50449845 CGAGAGAAGC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.33, C:0.18, G:0.44, T:0.05
Consensus pattern (21 bp):
CAGAGGCAGCAGCGAGAGAAG
Found at i:50449846 original size:12 final size:12
Alignment explanation
Indices: 50449829--50449856 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
50449819 AGTAGAGGCC
50449829 GCAGCGAGAGAA
1 GCAGCGAGAGAA
50449841 GCAGCGAGAGAA
1 GCAGCGAGAGAA
50449853 GCAG
1 GCAG
50449857 AGGTTCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.43, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:50450329 original size:43 final size:42
Alignment explanation
Indices: 50450282--50450405 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
50450272 ATATAGTGGT
*
50450282 GTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTTAGCAGC
1 GTTTGT-AAATAAGCGCCGCTAAAGAACATTACTTTTAGCAGC
* * * *
50450325 GTTTGTAGATGAAGCGCCACTAAAGAATATTACTTTTAGCGGC
1 GTTTGTAAAT-AAGCGCCGCTAAAGAACATTACTTTTAGCAGC
* * ** *
50450368 GTTTTTTACCAAGCGCCGCTATAGAACATTACTTTTAG
1 GTTTGTAAATAAGCGCCGCTAAAGAACATTACTTTTAG
50450406 TGGCGTTTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
42 28 0.42
43 39 0.58
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (42 bp):
GTTTGTAAATAAGCGCCGCTAAAGAACATTACTTTTAGCAGC
Found at i:50450399 original size:42 final size:42
Alignment explanation
Indices: 50450292--50450585 Score: 258
Period size: 42 Copynumber: 7.0 Consensus size: 42
50450282 GTTTGTGAAA
* * * ***
50450292 TAAGCGCCGCTAAAGAACACTACTTTTAGCAGCGTTTGTAGA
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTCC
* *
50450334 TGAAGCGCCACTAAAGAATATTACTTTTAGCGGCGTTTTTTACC
1 T-AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTT-CC
* *
50450378 -AAGCGCCGCTATAGAACATTACTTTTAGTGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCG-TTTTTTCC
* ** * *
50450420 TAAACGCTACTAAAGATCATGTTC-TTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACAT-TACTTTTAGCGGCGTTTTTTCC
* * * *
50450462 AAAGCGCCGCTAAAGAACATGA-TCATTAGCAGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTCC
* *
50450504 TAAGCG-C-CTAAAGAACATGA-TCATTAGCGGCGTTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCG--TTTTTTCC
* * *
50450546 TAAGAGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTT
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTT
50450586 TCTGTAAGCG
Statistics
Matches: 207, Mismatches: 33, Indels: 24
0.78 0.12 0.09
Matches are distributed among these distances:
40 24 0.12
41 1 0.00
42 95 0.46
43 63 0.30
44 24 0.12
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTCC
Found at i:50450412 original size:85 final size:85
Alignment explanation
Indices: 50450293--50450583 Score: 240
Period size: 85 Copynumber: 3.4 Consensus size: 85
50450283 TTTGTGAAAT
* * *
50450293 AAGCGCCGCTAAAGAACACTACTTTTAGCAGCG-TTTGTAGATGAAGCGCCACTAAAGAAT-AT-
1 AAGCGCCGCTAAAGAACATTACTTTTAGCAGCGTTTTGTACAT-AAACGCCACTAAAG-ATCATG
50450355 TACTTTTAGCGGCGTTTTTTACC-
64 TAC-TTTAGCGGCGTTTTTT-CCA
* ** * * * * *
50450378 AAGCGCCGCTATAGAACATTACTTTTAGTGGCGTTTTTTTCCTAAACGCTACTAAAGATCATGTT
1 AAGCGCCGCTAAAGAACATTACTTTTAGCAGCGTTTTGTACATAAACGCCACTAAAGATCATGTA
50450443 CTTTAGCGGCGTTTTTTCCA
66 CTTTAGCGGCGTTTTTTCCA
* * * * * *
50450463 AAGCGCCGCTAAAGAACATGA-TCATTAGCAGCGTTTT-TTCCTAAGCG-C-CTAAAGAACATG-
1 AAGCGCCGCTAAAGAACATTACT-TTTAGCAGCGTTTTGTACATAAACGCCACTAAAGATCATGT
* *
50450523 ATCATTAGCGGCGTTTTTTTTCCT
65 A-CTTTAGCGGCG--TTTTTTCCA
* * * *
50450547 AAGAGCCGCTAAAGAACATGACCTTTAGCGGCGTTTT
1 AAGCGCCGCTAAAGAACATTACTTTTAGCAGCGTTTT
50450584 TTTCTGTAAG
Statistics
Matches: 171, Mismatches: 26, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
82 21 0.12
84 54 0.32
85 89 0.52
86 7 0.04
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGCAGCGTTTTGTACATAAACGCCACTAAAGATCATGTA
CTTTAGCGGCGTTTTTTCCA
Found at i:50457045 original size:144 final size:142
Alignment explanation
Indices: 50456886--50457170 Score: 462
Period size: 144 Copynumber: 2.0 Consensus size: 142
50456876 CGGCGAGGTG
** *
50456886 GTAAGCCTTCAATTTTGTTTAATCATTTGGGTGCTTCTAATTGTTGGTTCTACAGTCGGGTTTTT
1 GTAAGCCTTCAATTTTGTTTAATCATTCAGGTGCTTCTAATTGTTGGTACTACAGTCGGGTTTTT
* *
50456951 GGTAAGTACCCTTTTCTTTTTCGTTACGCATTAGGGTTTTTTCTGTTGTGAGTTTTAGGTTGCAA
66 CGTAAGTACCCTTTT-TTTTTCGTTACGCATTAGGG-TTTTTCTGTTGTGAATTTTAGGTTGCAA
50457016 TTTTCATGAATGTT
129 TTTTCATGAATGTT
* * *
50457030 GTAAGTCTTCGATTTTGTTTAATCGTTCAGGTGCTTCTAATTGTTGGTACTACAGTCGGGTTTTT
1 GTAAGCCTTCAATTTTGTTTAATCATTCAGGTGCTTCTAATTGTTGGTACTACAGTCGGGTTTTT
* *
50457095 CGTAAGTACCCTTTTTTTTTCGTTACGCGTTAGGGTTTTTCTGTTGTGAATTTTAGTTTGCAATT
66 CGTAAGTACCCTTTTTTTTTCGTTACGCATTAGGGTTTTTCTGTTGTGAATTTTAGGTTGCAATT
50457160 TTCATGAATGT
131 TTCATGAATGT
50457171 AAAGTTAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
142 39 0.30
143 19 0.15
144 73 0.56
ACGTcount: A:0.17, C:0.13, G:0.21, T:0.48
Consensus pattern (142 bp):
GTAAGCCTTCAATTTTGTTTAATCATTCAGGTGCTTCTAATTGTTGGTACTACAGTCGGGTTTTT
CGTAAGTACCCTTTTTTTTTCGTTACGCATTAGGGTTTTTCTGTTGTGAATTTTAGGTTGCAATT
TTCATGAATGTT
Found at i:50461565 original size:16 final size:16
Alignment explanation
Indices: 50461523--50461568 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
50461513 TATTTTTATT
50461523 TTTAA-ATTAAA-ATA
1 TTTAATATTAAATATA
* **
50461537 ATTAATAAGAAATATA
1 TTTAATATTAAATATA
50461553 TTTAATATTAAATATA
1 TTTAATATTAAATATA
50461569 ATTAGCCTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 4 0.17
15 4 0.17
16 16 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
TTTAATATTAAATATA
Found at i:50462883 original size:81 final size:81
Alignment explanation
Indices: 50462767--50463063 Score: 336
Period size: 81 Copynumber: 3.7 Consensus size: 81
50462757 TTATTCCTTT
* * * *
50462767 TTTTTATTTTGTTTCCGAATGAGAATTAATTGAATAATTCTATTTCGGGATTTATTCCCACCGTT
1 TTTTGATTTTGTTTCCAAACGAGAATTAATTAAATAATTCTATTTCGGGATTTATTCCCACCGTT
* *
50462832 CAATAGGTTTTATTTA
66 TAACAGGTTTTATTTA
* * *
50462848 TTTTGATTTTGTTTCCAAACGAGAATTAATTGAATAATTCTATTTCGGAATTTATTCCCGCCGTT
1 TTTTGATTTTGTTTCCAAACGAGAATTAATTAAATAATTCTATTTCGGGATTTATTCCCACCGTT
* * *
50462913 TAACCGATTTTATTCGA
66 TAACAGGTTTTATT-TA
* * * * * *
50462930 TTTTGATTTTGTTTCTAAAC-AGGATTTAATTAAATAATTTTGTTTCGAGATTTATTCCCACCAT
1 TTTTGATTTTGTTTCCAAACGA-GAATTAATTAAATAATTCTATTTCGGGATTTATTCCCACCGT
*
50462994 TTAACA-G--AT-TTTA
65 TTAACAGGTTTTATTTA
* *
50463007 -TTCGATTTTGTTTCCAAACGAAGATTTAATTAAATAATTCTATTTCGGGATTTATTC
1 TTTTGATTTTGTTTCCAAACG-AGAATTAATTAAATAATTCTATTTCGGGATTTATTC
50463064 TTGTCGTTTA
Statistics
Matches: 184, Mismatches: 28, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
76 17 0.09
77 33 0.18
78 3 0.02
79 1 0.01
81 71 0.39
82 59 0.32
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.46
Consensus pattern (81 bp):
TTTTGATTTTGTTTCCAAACGAGAATTAATTAAATAATTCTATTTCGGGATTTATTCCCACCGTT
TAACAGGTTTTATTTA
Found at i:50462976 original size:82 final size:82
Alignment explanation
Indices: 50462792--50463100 Score: 312
Period size: 82 Copynumber: 3.8 Consensus size: 82
50462782 CGAATGAGAA
* * * * * *
50462792 TTAATTGAATAATTCTATTTCGGGATTTATTCCCACCGTTCAATAGGTTTTATT-TATTTTGATT
1 TTAATTAAATAATTCTATTTCGGAATTTATTCCCACCGTTTAACAGATTTTATTCGATTTTGATT
*
50462856 TTGTTTCCAAAC-GAGAA
66 TTGTTTCCAAACAG-GAT
* * *
50462873 TTAATTGAATAATTCTATTTCGGAATTTATTCCCGCCGTTTAACCGATTTTATTCGATTTTGATT
1 TTAATTAAATAATTCTATTTCGGAATTTATTCCCACCGTTTAACAGATTTTATTCGATTTTGATT
*
50462938 TTGTTTCTAAACAGGAT
66 TTGTTTCCAAACAGGAT
* * *
50462955 TTAATTAAATAATTTTGTTTC-GAGATTTATTCCCACCATTTAACAGATTTTATTC------GAT
1 TTAATTAAATAATTCTATTTCGGA-ATTTATTCCCACCGTTTAACAGATTTTATTCGATTTTGAT
*
50463013 TTTGTTTCCAAACGAAGAT
65 TTTGTTTCCAAAC-AGGAT
* **** * * *
50463032 TTAATTAAATAATTCTATTTCGGGATTTATTCTTGTCGTTTAATAGATTTGATTTTGATTTTGAT
1 TTAATTAAATAATTCTATTTCGGAATTTATTCCCACCGTTTAACAGATTTTA-TTCGATTTTGAT
50463097 TTTG
65 TTTG
50463101 ATTTTGATTT
Statistics
Matches: 188, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
76 15 0.08
77 44 0.23
78 3 0.02
81 50 0.27
82 68 0.36
83 1 0.01
84 7 0.04
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (82 bp):
TTAATTAAATAATTCTATTTCGGAATTTATTCCCACCGTTTAACAGATTTTATTCGATTTTGATT
TTGTTTCCAAACAGGAT
Found at i:50463090 original size:6 final size:6
Alignment explanation
Indices: 50463079--50463128 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
50463069 GTTTAATAGA
*
50463079 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAA TTT-AT
1 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT
50463126 TTT
1 TTT
50463129 CAAACAAGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
5 4 0.10
6 38 0.90
ACGTcount: A:0.18, C:0.00, G:0.14, T:0.68
Consensus pattern (6 bp):
TTTGAT
Found at i:50463246 original size:184 final size:183
Alignment explanation
Indices: 50462928--50463283 Score: 486
Period size: 184 Copynumber: 1.9 Consensus size: 183
50462918 GATTTTATTC
* * * *
50462928 GATTTTGATTTTGTTTCTAAACAGGATTTAATTAAATAATTTTGTTTCGAGATTTATTCCCACCA
1 GATTTTGAATTTATTTCTAAACAAGATTTAATTAAATAATTCTGTTTCGAGATTTATTCCCACCA
* * *
50462993 TTTAACAGATTTTATTCGATTTTGTTTCCAAACGAAGATTTAATTAAATAATTCTATTTCGGGAT
66 TTTAAAAGATTTTATTCGATTTTGTTTCCAAACGAAGATTTAATCAAATAATTCTATTTCGGAAT
* * * *
50463058 TTATTCTTGTCGTTTAATAGATTTGATTTTGATTTTGATTTTGATTTTGATTTT
131 TTATTCTCGCCGTTTAATAGATTTGA-TTCGATTTCGATTTTGATTTTGATTTT
***
50463112 GATTTTGAATTTATTT-TCAAACAAGATTTAATTAAATAATTCTGTTTCTG-GATTTATT-CTTG
1 GATTTTGAATTTATTTCT-AAACAAGATTTAATTAAATAATTCTGTTTC-GAGATTTATTCCCAC
* *
50463174 CATTTAAAAGATTTTATTTTGATTTTGTTTCCAAAC-AAGATTTAATCAAATAAATTCTGTTTCG
64 CATTTAAAAGATTTTA-TTCGATTTTGTTTCCAAACGAAGATTTAATCAAAT-AATTCTATTTCG
*
50463238 GAATTTATTCTCGCCGTTTAATAGATTTTATTCGATTTCGATTTTG
127 GAATTTATTCTCGCCGTTTAATAGATTTGATTCGATTTCGATTTTG
50463284 TTGCTAAACA
Statistics
Matches: 151, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
183 45 0.30
184 105 0.70
185 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.49
Consensus pattern (183 bp):
GATTTTGAATTTATTTCTAAACAAGATTTAATTAAATAATTCTGTTTCGAGATTTATTCCCACCA
TTTAAAAGATTTTATTCGATTTTGTTTCCAAACGAAGATTTAATCAAATAATTCTATTTCGGAAT
TTATTCTCGCCGTTTAATAGATTTGATTCGATTTCGATTTTGATTTTGATTTT
Found at i:50463308 original size:83 final size:75
Alignment explanation
Indices: 50463106--50463326 Score: 244
Period size: 76 Copynumber: 2.8 Consensus size: 75
50463096 TTTTGATTTT
* * **
50463106 GATTTTGATTTTGAATTTATTTTCAAACAAGATTTAATTAAATAATTCTGTTTCTGGATTTATTC
1 GATTTT-ATTTTGATTTTGTTGCCAAACAAGATTTAATTAAATAATTCTGTTTC-GGATTTATTC
*
50463171 TTGCATTTAAAA
64 TCGCATTTAAAA
* *
50463183 GATTTTATTTTGATTTTGTTTCCAAACAAGATTTAATCAAATAAATTCTGTTTCGGAATTTATTC
1 GATTTTATTTTGATTTTGTTGCCAAACAAGATTTAATTAAAT-AATTCTGTTTCGG-ATTTATTC
* *
50463248 TCGCCGTTTAATA
64 TCG-CATTTAAAA
* *
50463261 GATTTTATTCGATTTCGATTTTGTTGCTAAACAAGATTTAATTAAATAATTTTGTTTCGGGATTT
1 GATTTTA-T---TTT-GATTTTGTTGCCAAACAAGATTTAATTAAATAATTCTGTTTC-GGATTT
50463326 A
60 A
50463327 ATCCTACTGT
Statistics
Matches: 124, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
76 34 0.27
77 27 0.22
78 14 0.11
79 1 0.01
82 18 0.15
83 30 0.24
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (75 bp):
GATTTTATTTTGATTTTGTTGCCAAACAAGATTTAATTAAATAATTCTGTTTCGGATTTATTCTC
GCATTTAAAA
Found at i:50463358 original size:83 final size:80
Alignment explanation
Indices: 50463104--50463363 Score: 225
Period size: 83 Copynumber: 3.2 Consensus size: 80
50463094 GATTTTGATT
*
50463104 TTGATTTTGATTTTGAATTTAT-TTTCAAACAAGATTTAATTAAATAATTCTGTTTCTGGATTTA
1 TTGATTTTGATTTTG-ATTT-TGTTTCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTA
* *
50463168 TTCTTGCAT-TT-AA-AA
64 ATCCTGC-TGTTAAAGAA
* *
50463183 --GATTTT-ATTTTGATTTTGTTTCCAAACAAGATTTAATCAAATAAATTCTGTTTCGGAATTT-
1 TTGATTTTGATTTTGATTTTGTTT-CAAACAAGATTTAATTAAAT-AATTCTGTTTCGGGATTTA
* * *
50463244 ATTCTCGCCGTTTAATAGAT
64 ATCCT-GCTG-TTAA-AGAA
* * * * *
50463264 TTTA-TTCGATTTCGATTTTGTTGCTAAACAAGATTTAATTAAATAATTTTGTTTCGGGATTTAA
1 TTGATTTTGATTTTGATTTTGTTTC-AAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTAA
*
50463328 TCCTACTGTTCAACAGAA
65 TCCTGCTGTT-AA-AGAA
50463346 TTGATTTTGATTTT-ATTT
1 TTGATTTTGATTTTGATTT
50463364 CAGAATTTTA
Statistics
Matches: 142, Mismatches: 23, Indels: 29
0.73 0.12 0.15
Matches are distributed among these distances:
74 1 0.01
75 7 0.05
76 27 0.19
77 24 0.17
78 2 0.01
79 1 0.01
80 1 0.01
81 3 0.02
82 33 0.23
83 43 0.30
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (80 bp):
TTGATTTTGATTTTGATTTTGTTTCAAACAAGATTTAATTAAATAATTCTGTTTCGGGATTTAAT
CCTGCTGTTAAAGAA
Found at i:50469689 original size:20 final size:20
Alignment explanation
Indices: 50469646--50469692 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
50469636 ATATCTTGAT
*
50469646 TTGATTTGATTCCAATCAAT
1 TTGATTTGATTCCAATCAAA
** *
50469666 TTGATTTGATTTTATTCAAA
1 TTGATTTGATTCCAATCAAA
50469686 TTGATTT
1 TTGATTT
50469693 ATTAATGCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.53
Consensus pattern (20 bp):
TTGATTTGATTCCAATCAAA
Found at i:50470140 original size:5 final size:5
Alignment explanation
Indices: 50470130--50470156 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
50470120 AATATAAATA
50470130 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
50470157 AGATCTAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:50470199 original size:16 final size:16
Alignment explanation
Indices: 50470178--50470213 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
50470168 TTTTACATAA
*
50470178 ATATAAATATTTGTTT
1 ATATAAATATTTGCTT
50470194 ATATAAATATTTGCTT
1 ATATAAATATTTGCTT
50470210 ATAT
1 ATAT
50470214 TAATTTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
ATATAAATATTTGCTT
Found at i:50479571 original size:20 final size:20
Alignment explanation
Indices: 50479546--50479586 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
50479536 GAATGTTACT
50479546 ATAATCCACAAAAGATTCAA
1 ATAATCCACAAAAGATTCAA
*
50479566 ATAATCCATAAAAGATTCAA
1 ATAATCCACAAAAGATTCAA
50479586 A
1 A
50479587 CTTAGCTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.17, G:0.05, T:0.22
Consensus pattern (20 bp):
ATAATCCACAAAAGATTCAA
Found at i:50480238 original size:7 final size:7
Alignment explanation
Indices: 50480215--50480248 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
50480205 ATAGTAAAAG
50480215 AAATATAT
1 AAATAT-T
*
50480223 AATTATT
1 AAATATT
50480230 AAATATT
1 AAATATT
50480237 AAATATT
1 AAATATT
50480244 AAATA
1 AAATA
50480249 AATATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATATT
Found at i:50485101 original size:26 final size:26
Alignment explanation
Indices: 50485065--50485117 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
50485055 AGAGCGAAGT
50485065 TAGAAAATTC-TTTAACGGGGTTGAAA
1 TAGAAAATTCTTTTAA-GGGGTTGAAA
* *
50485091 TAGAAATTTCTTTTAAGTGGTTGAAA
1 TAGAAAATTCTTTTAAGGGGTTGAAA
50485117 T
1 T
50485118 TAAATTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.38
Consensus pattern (26 bp):
TAGAAAATTCTTTTAAGGGGTTGAAA
Found at i:50485237 original size:30 final size:30
Alignment explanation
Indices: 50485176--50485237 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
50485166 AGTCTCTATA
*
50485176 TTTATAATCTTTAAAAGATCAAATTAAAAT
1 TTTATAATCTTTAAAAGATCAAAGTAAAAT
* * *
50485206 TTTATCAT-TTTAAAAGAATTAAAGTATAAT
1 TTTATAATCTTTAAAAG-ATCAAAGTAAAAT
50485236 TT
1 TT
50485238 CATCTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (30 bp):
TTTATAATCTTTAAAAGATCAAAGTAAAAT
Found at i:50488494 original size:22 final size:24
Alignment explanation
Indices: 50488435--50488526 Score: 89
Period size: 24 Copynumber: 3.9 Consensus size: 24
50488425 ATTGTATTTT
* *
50488435 TAGAAATGCTACGAACTATATTTA
1 TAGAAATACTACGAACTATATTCA
*
50488459 TAGAAATACCACGAACTATA-TCA
1 TAGAAATACTACGAACTATATTCA
* * *
50488482 TAG-AATATTACGAACTGTATTTA
1 TAGAAATACTACGAACTATATTCA
* * *
50488505 CAGAAATACTGCGAACTGTATT
1 TAGAAATACTACGAACTATATT
50488527 GTAATCCATA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
22 13 0.23
23 9 0.16
24 34 0.61
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (24 bp):
TAGAAATACTACGAACTATATTCA
Found at i:50488660 original size:54 final size:54
Alignment explanation
Indices: 50488602--50488704 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
50488592 AAATCAACGA
** *
50488602 ACCGCGAGATTTGTAAAAGCCCATAAGTAGAAGGTCATGATCGTAAATCGGTAG
1 ACCGCGAGATTCATAAAAGCCCATAAGTAAAAGGTCATGATCGTAAATCGGTAG
* * *
50488656 ACCGCGAGATTCATAAAATCCTATAAGTAAAAGGTCGTGATCGTAAATC
1 ACCGCGAGATTCATAAAAGCCCATAAGTAAAAGGTCATGATCGTAAATC
50488705 AACGGACCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (54 bp):
ACCGCGAGATTCATAAAAGCCCATAAGTAAAAGGTCATGATCGTAAATCGGTAG
Found at i:50488795 original size:39 final size:38
Alignment explanation
Indices: 50488685--50488884 Score: 150
Period size: 39 Copynumber: 5.1 Consensus size: 38
50488675 CCTATAAGTA
* * *
50488685 AAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAACC
1 AAAGGTCATGATCGTAAATCAA-GGACCGTAAGAAAACT
* * *
50488724 GAAGGCCATGATCGTAAAT-TAGCGAACCGTAAGAAAACT
1 AAAGGTCATGATCGTAAATCAAG-G-ACCGTAAGAAAACT
* * *
50488763 AAAGGTCATGATCGTAAATCCATGGACTGTAAGAAAGCT
1 AAAGGTCATGATCGTAAAT-CAAGGACCGTAAGAAAACT
* * * * *
50488802 AAAAGTCGTGATCGTAAATCAGCGGACCCCTAAGAAAGCT
1 AAAGGTCATGATCGTAAATCA-AGGA-CCGTAAGAAAACT
* * * * * *
50488842 GAAGGTCATAACCGTAAATCAGTGGATCGTAAGAAAGCT
1 AAAGGTCATGATCGTAAATCA-AGGACCGTAAGAAAACT
50488881 AAAG
1 AAAG
50488885 ATCGCAATTG
Statistics
Matches: 129, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
37 1 0.01
38 4 0.03
39 91 0.71
40 32 0.25
41 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (38 bp):
AAAGGTCATGATCGTAAATCAAGGACCGTAAGAAAACT
Found at i:50488860 original size:79 final size:78
Alignment explanation
Indices: 50488732--50488883 Score: 200
Period size: 79 Copynumber: 1.9 Consensus size: 78
50488722 CCGAAGGCCA
* * * *
50488732 TGATCGTAAATTAGCGAACCGTAAGAAAACTAAAGGTCATGATCGTAAATCCA-TGGA-CTGTAA
1 TGATCGTAAATCAGCGAACCCTAAGAAAACTAAAGGTCATAACCGTAAAT-CAGTGGATC-GTAA
50488795 GAAAGCTAAAAGTCG
64 GAAAGCTAAAAGTCG
* * *
50488810 TGATCGTAAATCAGCGGACCCCTAAGAAAGCTGAAGGTCATAACCGTAAATCAGTGGATCGTAAG
1 TGATCGTAAATCAGC-GAACCCTAAGAAAACTAAAGGTCATAACCGTAAATCAGTGGATCGTAAG
50488875 AAAGCTAAA
65 AAAGCTAAA
50488884 GATCGCAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 16 0.25
79 47 0.73
80 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.20
Consensus pattern (78 bp):
TGATCGTAAATCAGCGAACCCTAAGAAAACTAAAGGTCATAACCGTAAATCAGTGGATCGTAAGA
AAGCTAAAAGTCG
Found at i:50488898 original size:79 final size:79
Alignment explanation
Indices: 50488734--50488901 Score: 191
Period size: 79 Copynumber: 2.1 Consensus size: 79
50488724 GAAGGCCATG
* * * * *
50488734 ATCGTAAATTAGC-GAACCGTAAGAAAACTAAAGGTCATGATCGTAAATCCATGGACTGTAAGAA
1 ATCGTAAATCAGCGGACCCCTAAGAAAACTAAAGGTCATAACCGTAAATCCATGGACTGTAAGAA
**
50488798 AGCTAAAAGTCGTG
66 AGCTAAAAGTCGCA
* *
50488812 ATCGTAAATCAGCGGACCCCTAAGAAAGCTGAAGGTCATAACCGTAAAT-CAGTGGA-TCGTAAG
1 ATCGTAAATCAGCGGACCCCTAAGAAAACTAAAGGTCATAACCGTAAATCCA-TGGACT-GTAAG
50488875 AAAGCT-AAAGATCGCA
64 AAAGCTAAAAG-TCGCA
*
50488891 ATTGTAAATCA
1 ATCGTAAATCA
50488902 ACAGATCGCG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
78 19 0.25
79 57 0.75
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (79 bp):
ATCGTAAATCAGCGGACCCCTAAGAAAACTAAAGGTCATAACCGTAAATCCATGGACTGTAAGAA
AGCTAAAAGTCGCA
Found at i:50488977 original size:54 final size:54
Alignment explanation
Indices: 50488919--50489123 Score: 277
Period size: 54 Copynumber: 3.8 Consensus size: 54
50488909 GCGAGGTTCA
* * *
50488919 TAAAATCTCATAAGTAAAAGGTCGTGATCATAAATCACTGGACCGCGAGATTTG
1 TAAAATCTCATAAGTAAAAGGTCGTGATCATAAATCAGTGGACTGCAAGATTTG
*
50488973 TAAAATC-CTATAAGTAAAAGGTCGTGATCGTAAATCAGTGGACTGCAAGATTTG
1 TAAAATCTC-ATAAGTAAAAGGTCGTGATCATAAATCAGTGGACTGCAAGATTTG
* * * * * *
50489027 TAAAATCTCGTAAGTAAAAGGTCATGATCGTAAATCAGTAGACTGTAAGATTCG
1 TAAAATCTCATAAGTAAAAGGTCGTGATCATAAATCAGTGGACTGCAAGATTTG
* * *
50489081 TAAAATCTCGTAAGTAAAAGGTTGTGATCATAAATCAGCGGAC
1 TAAAATCTCATAAGTAAAAGGTCGTGATCATAAATCAGTGGAC
50489124 CATAAGAAGG
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.01
54 133 0.99
55 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (54 bp):
TAAAATCTCATAAGTAAAAGGTCGTGATCATAAATCAGTGGACTGCAAGATTTG
Found at i:50489154 original size:39 final size:38
Alignment explanation
Indices: 50489105--50489234 Score: 161
Period size: 39 Copynumber: 3.3 Consensus size: 38
50489095 TAAAAGGTTG
* *
50489105 TGATCATAAATCAGCGGACCATAAGAAGGCCGAAGGTCA
1 TGATCGTAAATCAG-GGACCATAAGAAAGCCGAAGGTCA
* * * *
50489144 TGATTGTAAATCAAGGGACCATAAGAAAACCAAAGGTAA
1 TGATCGTAAATC-AGGGACCATAAGAAAGCCGAAGGTCA
* *
50489183 TGATCGTAAATCAGTGGATCATAAGAAAGTCGAAGGTCA
1 TGATCGTAAATCAG-GGACCATAAGAAAGCCGAAGGTCA
50489222 TGATCGTAAATCA
1 TGATCGTAAATCA
50489235 ACGGGCTGCG
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
38 2 0.03
39 73 0.95
40 2 0.03
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (38 bp):
TGATCGTAAATCAGGGACCATAAGAAAGCCGAAGGTCA
Found at i:50493719 original size:30 final size:30
Alignment explanation
Indices: 50493683--50493740 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
50493673 ATGTTTGTGT
50493683 TGGATAATTAACAAACCCCAAATTAATTAA
1 TGGATAATTAACAAACCCCAAATTAATTAA
* * *
50493713 TGGATAATTAATAGACTCCAAATTAATT
1 TGGATAATTAACAAACCCCAAATTAATT
50493741 GATAATGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.31
Consensus pattern (30 bp):
TGGATAATTAACAAACCCCAAATTAATTAA
Found at i:50496335 original size:2 final size:2
Alignment explanation
Indices: 50496330--50496373 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
50496320 GAACTATAGT
50496330 AG AG AG 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 AG AG AG
50496372 AG
1 AG
50496374 TTCTAACTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50499626 original size:21 final size:21
Alignment explanation
Indices: 50499602--50499694 Score: 114
Period size: 21 Copynumber: 4.4 Consensus size: 21
50499592 TTCTTTTGAA
* *
50499602 CCTCTGCTTCTCACACTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
* *
50499623 CCTCTGCTTCTCTTGCTGTAG
1 CCTCTGCTTCTCTCGCTGCAG
*
50499644 CCTCTGCTTCCCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
* * *
50499665 CCTCTGCTTCCCTCGTTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
50499686 CCTCTGCTT
1 CCTCTGCTT
50499695 TAAGTTGTAG
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.05, C:0.43, G:0.17, T:0.34
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:50501574 original size:9 final size:9
Alignment explanation
Indices: 50501557--50501990 Score: 356
Period size: 9 Copynumber: 49.8 Consensus size: 9
50501547 TCATAGATAA
*
50501557 GTAAATTAT
1 GTAAGTTAT
50501566 GTAAGTTAT
1 GTAAGTTAT
*
50501575 GTACGTGTA-
1 GTAAGT-TAT
50501584 -TAAGTTAT
1 GTAAGTTAT
50501592 GTAAGTTAT
1 GTAAGTTAT
*
50501601 GT-A-TTAA
1 GTAAGTTAT
*
50501608 GTAAGCTAT
1 GTAAGTTAT
*
50501617 GTAAGTTGT
1 GTAAGTTAT
50501626 GT-A-TTAT
1 GTAAGTTAT
50501633 GTAAGTTAT
1 GTAAGTTAT
50501642 GTAAGTTAT
1 GTAAGTTAT
** *
50501651 CAAAGTAAT
1 GTAAGTTAT
*
50501660 GTATGTTAT
1 GTAAGTTAT
*
50501669 GTGAG-T-T
1 GTAAGTTAT
50501676 GTAAGTTAT
1 GTAAGTTAT
*
50501685 -TATGTATTAT
1 GTAAG--TTAT
50501695 GTAAGTTAT
1 GTAAGTTAT
50501704 GTAAGTTAT
1 GTAAGTTAT
50501713 GTAAGTTAAAT
1 GTAAGTT--AT
50501724 GT-A-TTAT
1 GTAAGTTAT
*
50501731 GTAGGTTAT
1 GTAAGTTAT
*
50501740 GTAAGTTGT
1 GTAAGTTAT
*
50501749 GTAAGATAT
1 GTAAGTTAT
*
50501758 TTAAGTTAT
1 GTAAGTTAT
*
50501767 GTAAGTTTT
1 GTAAGTTAT
50501776 GT-A-TTAT
1 GTAAGTTAT
50501783 GTAAGTTAT
1 GTAAGTTAT
50501792 GTAAGTTAT
1 GTAAGTTAT
50501801 GTAAGTTAAAT
1 GTAAGTT--AT
50501812 GT-A-TTAT
1 GTAAGTTAT
*
50501819 GTAGGTTAT
1 GTAAGTTAT
*
50501828 GTAAGTTGT
1 GTAAGTTAT
*
50501837 GTAAGATAT
1 GTAAGTTAT
*
50501846 TTAAGTTAT
1 GTAAGTTAT
*
50501855 GTAAGTTTT
1 GTAAGTTAT
50501864 GT-A-TTAT
1 GTAAGTTAT
50501871 GTAAGTTAT
1 GTAAGTTAT
* *
50501880 GTATGCTAT
1 GTAAGTTAT
50501889 GTAAGTTAAAT
1 GTAAGTT--AT
50501900 GT-A-TTAT
1 GTAAGTTAT
*
50501907 GTAGGTTAT
1 GTAAGTTAT
*
50501916 GTAAGTTGT
1 GTAAGTTAT
*
50501925 GTAAGATAT
1 GTAAGTTAT
*
50501934 TTAAGTTAT
1 GTAAGTTAT
*
50501943 GTAAGTTTT
1 GTAAGTTAT
50501952 GT-A-TTAT
1 GTAAGTTAT
50501959 GTAAGTTAT
1 GTAAGTTAT
* *
50501968 GTATGCTAT
1 GTAAGTTAT
50501977 GT-A-TTAT
1 GTAAGTTAT
50501984 GTAAGTT
1 GTAAGTT
50501991 GTTATGTTGT
Statistics
Matches: 334, Mismatches: 59, Indels: 64
0.73 0.13 0.14
Matches are distributed among these distances:
7 49 0.15
8 20 0.06
9 241 0.72
10 9 0.03
11 15 0.04
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:50501791 original size:88 final size:88
Alignment explanation
Indices: 50501562--50501979 Score: 553
Period size: 88 Copynumber: 4.8 Consensus size: 88
50501552 GATAAGTAAA
* * * * * * * *
50501562 TTATGTAAGTTATGTACG-TGTATAAGTTATGTAAGTTATGTATTAAGTAAGCTATGTAAGTTGT
1 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTAT
*
50501626 GT-A-TT--ATGTAAGTTATGTAAG
66 GTAAGTTAAATGT-A-TTATGTAGG
** ** * * * *
50501647 TTATCAAAGTAATGTATGTTATGTGAG-T-TGTAAGTTATTATGTATTATGTAAGTTATGTAAGT
1 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAG-T-TT-TGTATTATGTAAGTTATGTAAGT
50501710 TATGTAAGTTAAATGTATTATGTAGG
63 TATGTAAGTTAAATGTATTATGTAGG
50501736 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTAT
50501801 GTAAGTTAAATGTATTATGTAGG
66 GTAAGTTAAATGTATTATGTAGG
* *
50501824 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTATGCTAT
1 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTAT
50501889 GTAAGTTAAATGTATTATGTAGG
66 GTAAGTTAAATGTATTATGTAGG
* *
50501912 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTATGCTAT
1 TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTAT
50501977 GTA
66 GTA
50501980 TTATGTAAGT
Statistics
Matches: 301, Mismatches: 22, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
84 6 0.02
85 16 0.05
86 6 0.02
87 25 0.08
88 204 0.68
89 31 0.10
90 3 0.01
91 10 0.03
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (88 bp):
TTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAAGTTATGTAAGTTAT
GTAAGTTAAATGTATTATGTAGG
Found at i:50501941 original size:27 final size:25
Alignment explanation
Indices: 50501899--50501990 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
50501889 GTAAGTTAAA
* *
50501899 TGTATTATGTAGGTTATGTAAGTTG
1 TGTAATATGTAAGTTATGTAAGTTG
* *
50501924 TGTAAGATATTTAAGTTATGTAAGTTT
1 TGT-A-ATATGTAAGTTATGTAAGTTG
* * * *
50501951 TGTATTATGTAAGTTATGTATGCTA
1 TGTAATATGTAAGTTATGTAAGTTG
*
50501976 TGTATTATGTAAGTT
1 TGTAATATGTAAGTT
50501991 GTTATGTTGT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
25 34 0.61
26 2 0.04
27 20 0.36
ACGTcount: A:0.28, C:0.01, G:0.22, T:0.49
Consensus pattern (25 bp):
TGTAATATGTAAGTTATGTAAGTTG
Found at i:50502126 original size:23 final size:23
Alignment explanation
Indices: 50502100--50502143 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
50502090 AATTTTTTAT
*
50502100 AAGTTATGTATTATGTAAGTTAA
1 AAGTAATGTATTATGTAAGTTAA
50502123 AAGTAATGTATTATGTAAGTT
1 AAGTAATGTATTATGTAAGTT
50502144 TACATATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (23 bp):
AAGTAATGTATTATGTAAGTTAA
Found at i:50503273 original size:18 final size:18
Alignment explanation
Indices: 50503250--50503287 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
50503240 TTTCTTCAAA
*
50503250 AATATTAACACTGCAAGT
1 AATATTAACACTACAAGT
50503268 AATATTAACACTACAAGT
1 AATATTAACACTACAAGT
50503286 AA
1 AA
50503288 CTAACAAACA
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:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (18 bp):
AATATTAACACTACAAGT
Found at i:50504636 original size:365 final size:365
Alignment explanation
Indices: 50503949--50504662 Score: 1158
Period size: 365 Copynumber: 2.0 Consensus size: 365
50503939 TGCATCGACA
* * *
50503949 TTTGCGGCGTTTTAATTAAAAACACCACCAAAATTTCAAGTACAGAAAGAAACGGCGCCGTTTTA
1 TTTGCGACGTTCTAATTAAAAACACCACCAAAATTTCAAGTACAGAAAGAAACGGCGCCATTTTA
* *
50504014 TAAAAATATAAGGAAACATTCTGGCGTTTTCCCAAACACGCCACAATTAATATATTATCGAACCG
66 TAAAAATATAAAGAAACATTCTGGCGTTTTCCCAAAAACGCCACAATTAATATATTATCGAACCG
** * * * * *
50504079 GTATCGTTTTTAGTAAATTTTATACATCTTTGCGGCGTTTTTAATAAAACGCCACTAAAAGATTC
131 ACACCGTTTTCAGAAAATTTTATACATCCTTGCGGCGTTTATAATAAAACGCCACTAAAAGATTC
*
50504144 CATCCTTCAACTGAAACGGCGCCGTTTTCGCAAAGTTCAAATATTATTTACGGCGCTTTTAGGAA
196 CATCCTTCAACTGAAACGGCGCCGTTTTCGCAAAGTTCAAATATTATTTACGACGCTTTTAGGAA
* * * *
50504209 AAACGCCACAACTAAAATTTATTCCCTAAGCCGAAACGACGTCGTATCGGTAAATGCAATAAATA
261 AAACACCACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCGTATCGGTAAATACAATAAATA
50504274 TTTGTGGCGTTTTTTATCAAAACGTCGGTAATGTCTACCT
326 TTTGTGGCGTTTTTTATCAAAACGTCGGTAATGTCTACCT
** *
50504314 TTTGCGACGTTCTAATTAAAAATGCCACTAAAATTTCAAGTACAGAAAGAAACGGCGCCATTTTA
1 TTTGCGACGTTCTAATTAAAAACACCACCAAAATTTCAAGTACAGAAAGAAACGGCGCCATTTTA
*
50504379 TAAAAATATAAAGAAACATTCTGGCGTTTTCCCAAAAATGCCACAATTAATATATTATCGAACCG
66 TAAAAATATAAAGAAACATTCTGGCGTTTTCCCAAAAACGCCACAATTAATATATTATCGAACCG
* * *
50504444 ACGCCGTTTTCAGAAAATTTTATACATCCTTGCGGCGTTTATAATAAAACGGCACTAAAATATTC
131 ACACCGTTTTCAGAAAATTTTATACATCCTTGCGGCGTTTATAATAAAACGCCACTAAAAGATTC
* * * * *
50504509 CATCCTTCAACTGAAACGGCGCCGTTTTGGTAAAGTTTAAATATTATTTACGATGCTTTTCGGAA
196 CATCCTTCAACTGAAACGGCGCCGTTTTCGCAAAGTTCAAATATTATTTACGACGCTTTTAGGAA
*
50504574 AAACACCACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCGTATCGGTAAATACAATAAATT
261 AAACACCACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCGTATCGGTAAATACAATAAATA
50504639 TTTGTGGCGTTTTTTATCAAAACG
326 TTTGTGGCGTTTTTTATCAAAACG
50504663 CCGCTAAATC
Statistics
Matches: 319, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
365 319 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (365 bp):
TTTGCGACGTTCTAATTAAAAACACCACCAAAATTTCAAGTACAGAAAGAAACGGCGCCATTTTA
TAAAAATATAAAGAAACATTCTGGCGTTTTCCCAAAAACGCCACAATTAATATATTATCGAACCG
ACACCGTTTTCAGAAAATTTTATACATCCTTGCGGCGTTTATAATAAAACGCCACTAAAAGATTC
CATCCTTCAACTGAAACGGCGCCGTTTTCGCAAAGTTCAAATATTATTTACGACGCTTTTAGGAA
AAACACCACAACTAAAACTTATTCCCTAAGCCGAAACGACGCCGTATCGGTAAATACAATAAATA
TTTGTGGCGTTTTTTATCAAAACGTCGGTAATGTCTACCT
Found at i:50504739 original size:24 final size:23
Alignment explanation
Indices: 50504712--50504792 Score: 90
Period size: 24 Copynumber: 3.2 Consensus size: 23
50504702 TGTATCATTC
50504712 ATTTAAATAATTAATTACCTATCT
1 ATTTAAATAATTAATTACCTAT-T
*
50504736 ATTTAAACAATTAATTACCTAAAAATT
1 ATTTAAATAATTAATTACCT----ATT
50504763 AATTTAAATAATTAATTACCTATTT
1 -ATTTAAATAATTAATTACCTA-TT
50504788 ATTTA
1 ATTTA
50504793 TTTGTTTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
24 25 0.51
25 2 0.04
27 1 0.02
28 21 0.43
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTAAATAATTAATTACCTATT
Found at i:50504795 original size:28 final size:26
Alignment explanation
Indices: 50504712--50504795 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 26
50504702 TGTATCATTC
*
50504712 ATTTAAATAATTAATTACC--TATCT
1 ATTTAAATAATTAATTACCTATATTT
* * *
50504736 ATTTAAACAATTAATTACCTAAAAATTA
1 ATTTAAATAATTAATTACCT--ATATTT
50504764 ATTTAAATAATTAATTACCTATTTATTT
1 ATTTAAATAATTAATTACCTA--TATTT
50504792 ATTT
1 ATTT
50504796 GTTTATTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
24 18 0.38
26 1 0.02
28 28 0.60
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTAAATAATTAATTACCTATATTT
Found at i:50505240 original size:14 final size:14
Alignment explanation
Indices: 50505221--50505260 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
50505211 GATCCTAAAT
*
50505221 CCCTAACCCTTAAC
1 CCCTAAACCTTAAC
* *
50505235 CCCTAATCCATAAC
1 CCCTAAACCTTAAC
50505249 CCCTAAACCTTA
1 CCCTAAACCTTA
50505261 TTTAATATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAAACCTTAAC
Found at i:50505435 original size:14 final size:14
Alignment explanation
Indices: 50505370--50505444 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
50505360 CTAACCTAAC
* *
50505370 CCTTAACCCATAAA
1 CCTTAATCCATAAT
*
50505384 CCTTAAATCACATTAAC
1 CCTT-AATC-CA-TAAT
* *
50505401 CCTTAAACCAGAAT
1 CCTTAATCCATAAT
*
50505415 CCCTAATCCATAAT
1 CCTTAATCCATAAT
50505429 CCTTAATTCCATAAT
1 CCTTAA-TCCATAAT
50505444 C
1 C
50505445 TATAAAACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
14 22 0.46
15 14 0.29
16 5 0.10
17 7 0.15
ACGTcount: A:0.39, C:0.32, G:0.01, T:0.28
Consensus pattern (14 bp):
CCTTAATCCATAAT
Found at i:50506063 original size:41 final size:41
Alignment explanation
Indices: 50505995--50506073 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
50505985 TTTTAAATCC
* *
50505995 CTGAGCATTAGCGGCACATCCTCAAAAACGCCGCTAAAGCA
1 CTGAGCATTAGCGGCACATCATCAAAAACGCCACTAAAGCA
* * * *
50506036 CTGAGCATTAGCGGCGCTTTATTAAAAACGCCACTAAA
1 CTGAGCATTAGCGGCACATCATCAAAAACGCCACTAAA
50506074 TCCACGAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (41 bp):
CTGAGCATTAGCGGCACATCATCAAAAACGCCACTAAAGCA
Found at i:50506216 original size:115 final size:115
Alignment explanation
Indices: 50506017--50506261 Score: 336
Period size: 115 Copynumber: 2.1 Consensus size: 115
50506007 GGCACATCCT
50506017 CAAAAACGCCGCT-AAAGCACTGAGCATTAGCGGCGCTTTATTAAAAACGCCACTAAATCCACGA
1 CAAAAACGCCGCTAAAAGCACTGAGCATTAGCGGCGCTTTATTAAAAACGCCACTAAATCCACGA
* *
50506081 AAGCTAAGAAAACATCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCCTTCC
66 AAGCTAAGAAAACAGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCCTTAC
* *
50506131 CAAAAACGCCGCTAAAAGC-CTGAGCATTAGCGGTGC-TTACTTAAAAAACGCCGCTAAATCC-C
1 CAAAAACGCCGCTAAAAGCACTGAGCATTAGCGGCGCTTTA-TT-AAAAACGCCACTAAATCCAC
* * * * * *
50506193 TGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTAT
64 -GAAAGCTAAGAAAACAGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCCTTAC
*
50506246 AAAAAACGCCGCTAAA
1 CAAAAACGCCGCTAAA
50506262 TCCCCGAAAG
Statistics
Matches: 116, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
113 3 0.03
114 32 0.28
115 81 0.70
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (115 bp):
CAAAAACGCCGCTAAAAGCACTGAGCATTAGCGGCGCTTTATTAAAAACGCCACTAAATCCACGA
AAGCTAAGAAAACAGCGTCGTTGGGCTTAGGTTTCTTTGCGGCGCCTTAC
Found at i:50506253 original size:73 final size:73
Alignment explanation
Indices: 50506172--50506339 Score: 282
Period size: 73 Copynumber: 2.3 Consensus size: 73
50506162 GGTGCTTACT
*
50506172 TAAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTG
1 TAAAAAACGCCGCTAAATCCCTGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTG
50506237 GCGCTTTA
66 GCGCTTTA
* *
50506245 TAAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGTG
1 TAAAAAACGCCGCTAAATCCCTGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTG
50506310 GCGCTTTA
66 GCGCTTTA
** *
50506318 GCAAAAACGCCGCTAAAGCCCT
1 TAAAAAACGCCGCTAAATCCCT
50506340 TGAGCATTAG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 88 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (73 bp):
TAAAAAACGCCGCTAAATCCCTGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTG
GCGCTTTA
Found at i:50506368 original size:188 final size:188
Alignment explanation
Indices: 50506048--50506432 Score: 580
Period size: 188 Copynumber: 2.0 Consensus size: 188
50506038 GAGCATTAGC
*
50506048 GGCGCTTTATTAAAAACGCCACTAAATCCACGAAAGCTAAGAAAACATCGTCGTTGGGCTTAGGT
1 GGCGCTTTATAAAAAACGCCACTAAATCCACGAAAGCTAAGAAAACATCGTCGTTGGGCTTAGGT
* * *
50506113 TTCTTTGCGGCGCCTTCCCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGTGCTTACTTAAAAA
66 TTCTTTGCGGCGCCTTACCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTAATTAAAAA
**
50506178 ACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGT
131 ACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGT
* * *
50506236 GGCGCTTTATAAAAAACGCCGCTAAATCCCCGAAAGCTCA-AAAA-ATGGCGTCGTTGGGCTTAG
1 GGCGCTTTATAAAAAACGCCACTAAATCCACGAAAGCTAAGAAAACAT--CGTCGTTGGGCTTAG
* * * *
50506299 GTTTTTTTGTGGCGCTTTAGCAAAAACGCCGCT-AAAGCCCTTGAGCATTAGCGGCGCTTAATT-
64 GTTTCTTTGCGGCGCCTTACCAAAAACGCCGCTAAAAG-CC-TGAGCATTAGCGGCGCTTAATTA
50506362 AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGT
127 AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGT
*
50506424 TGCGCTTTA
1 GGCGCTTTA
50506433 GCAAAAACAC
Statistics
Matches: 179, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
186 2 0.01
187 8 0.04
188 149 0.83
189 20 0.11
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (188 bp):
GGCGCTTTATAAAAAACGCCACTAAATCCACGAAAGCTAAGAAAACATCGTCGTTGGGCTTAGGT
TTCTTTGCGGCGCCTTACCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCTTAATTAAAAA
ACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGT
Found at i:50506507 original size:114 final size:115
Alignment explanation
Indices: 50506236--50506561 Score: 469
Period size: 115 Copynumber: 2.9 Consensus size: 115
50506226 GTTTTTTTGT
* *
50506236 GGCGCTTTATAAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAATGGCGTCGTTGGGCTTAGGT
1 GGCGCTTTATAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
*
50506301 TTTTTTGTGGCGCTTTAGCAAAAACGCCGCTAAAGCCCTTGAGCATTAGC
66 TTTTTTGTGGCGCTTTAGCAAAAACGCCGCTAAAGCCCTAGAGCATTAGC
* * *
50506351 GGCGCTTAATTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
1 GGCGCTTTATAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
* * * *
50506416 TTTTTTGTTGCGCTTTAGCAAAAACACCCCTAAAGCCCTAG-GTATTAGC
66 TTTTTTGTGGCGCTTTAGCAAAAACGCCGCTAAAGCCCTAGAGCATTAGC
* * * * * * *
50506465 GTCGCTTTCTGAAAAATGCCGCTAAATCCTCGAAAGCTCAGAAAACGACGTCGTTGGGATTAGG-
1 GGCGCTTTATAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
*
50506529 TTTTTTGTGGCGC-TTATCAAAAACGCCGCTAAA
66 TTTTTTGTGGCGCTTTAGCAAAAACGCCGCTAAA
50506562 TACCCGAAAG
Statistics
Matches: 188, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
112 17 0.09
113 12 0.06
114 62 0.33
115 97 0.52
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (115 bp):
GGCGCTTTATAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
TTTTTTGTGGCGCTTTAGCAAAAACGCCGCTAAAGCCCTAGAGCATTAGC
Found at i:50506557 original size:71 final size:72
Alignment explanation
Indices: 50506476--50506611 Score: 213
Period size: 71 Copynumber: 1.9 Consensus size: 72
50506466 TCGCTTTCTG
*
50506476 AAAAATGCCGCTAAAT-CCTCGAAAGCTCAGAAAACGACGTCGTTGGGATTAGG-TTTTTTGTGG
1 AAAAACGCCGCTAAATACC-CGAAAGCTCAGAAAACGACGTCGTTGGGATTAGGTTTTTTTGTGG
50506539 CGCTTATC
65 CGCTTATC
* * *
50506547 AAAAACGCCGCTAAATACCCGAAAGCTCAGAAAGCGGCGTCGTTGGGCTTAGGTTTTTTTGTGGC
1 AAAAACGCCGCTAAATACCCGAAAGCTCAGAAAACGACGTCGTTGGGATTAGGTTTTTTTGTGGC
50506612 ACTTTCGCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
71 46 0.78
72 13 0.22
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (72 bp):
AAAAACGCCGCTAAATACCCGAAAGCTCAGAAAACGACGTCGTTGGGATTAGGTTTTTTTGTGGC
GCTTATC
Found at i:50506601 original size:185 final size:186
Alignment explanation
Indices: 50506351--50506719 Score: 501
Period size: 185 Copynumber: 2.0 Consensus size: 186
50506341 GAGCATTAGC
* *
50506351 GGCGCTTAATTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
1 GGCGCTTAATCAAAAACGCCGCTAAATACCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
* * * * **
50506416 TTTTTTGTTGCGCTTTAGCAAAAACACCCCTAAAGCCCTAGGTATTAGC-GTCGCTTTCTGAAAA
66 TTTTTTGTGGCACTTTAGCAAAAACACCCCTAAAGCCCTAGGAATTAGCAG-CGCTTCCCCAAAA
* *
50506480 ATGCCGCTAAATCCTCGAAAGCTCAGAAAACGA-CGTCGTTGGGATTAGGTTTTTTGT
130 ATGCCGCTAAATCCCCAAAAGCTCAGAAAA-GAGCGTCGTTGGGATTAGGTTTTTTGT
* *
50506537 GGCGCTT-ATCAAAAACGCCGCTAAATACCCGAAAGCTCAGAAAGCGGCGTCGTTGGGCTTAGGT
1 GGCGCTTAATCAAAAACGCCGCTAAATACCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
* * * *** * *
50506601 TTTTTTGTGGCACTTTCGCAAAATCGCTGGTAAAGCCTTGGGAATTAGCAGCGCTTCCCCAAAAA
66 TTTTTTGTGGCACTTTAGCAAAAACACCCCTAAAGCCCTAGGAATTAGCAGCGCTTCCCCAAAAA
* *
50506666 TGCCGCTAAATCCCCAAAAGCTCAGAAAATAGCGTCGTTGGGCTTAGGTTTTTT
131 TGCCGCTAAATCCCCAAAAGCTCAGAAAAGAGCGTCGTTGGGATTAGGTTTTTT
50506720 TTTTGTGGCG
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
184 1 0.01
185 150 0.94
186 8 0.05
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (186 bp):
GGCGCTTAATCAAAAACGCCGCTAAATACCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
TTTTTTGTGGCACTTTAGCAAAAACACCCCTAAAGCCCTAGGAATTAGCAGCGCTTCCCCAAAAA
TGCCGCTAAATCCCCAAAAGCTCAGAAAAGAGCGTCGTTGGGATTAGGTTTTTTGT
Found at i:50506689 original size:114 final size:114
Alignment explanation
Indices: 50506546--50506863 Score: 390
Period size: 117 Copynumber: 2.8 Consensus size: 114
50506536 TGGCGCTTAT
* *
50506546 CAAAAACGCCGCTAAATACCCGAAAGCTCAGAAAGCGGCGTCGTTGGGCTTAGGTTTTTTTGTGG
1 CAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGG
* * * * **
50506611 CACTTTCGCAAAATCGCTGGTAAAGCCTTGGGAATTAGCAGCGCTTCCC
66 CGCTTTCGCAAAAACGCTGCTAAAGCCCTAAGAATTAGCAGCGCTTCCC
* * **
50506660 CAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAATAGCGTCGTTGGGCTTAGGTTTTTTTTTTG
1 CAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG---TTTTTTTG
* * * *
50506725 TGGCGCTTTCGCAAAAACGC-ACTAAATCCCTAAGCATTAGCAGCGCTTCCT
63 TGGCGCTTTCGCAAAAACGCTGCTAAAGCCCTAAGAATTAGCAGCGCTTCCC
* * * *
50506776 TAAAAACGCCGGTAAATCCCCCGAAAGCT-AGGAAAACGGCGTCGTTGGGCTTAGG-TATTTTGC
1 CAAAAACGCCGCTAAAT-CCCCGAAAGCTCA-GAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGT
50506839 GGCGCTTTCGCAAAAACGCTGCTAA
64 GGCGCTTTCGCAAAAACGCTGCTAA
50506864 TGCTTATTTT
Statistics
Matches: 173, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
113 25 0.14
114 52 0.30
116 38 0.22
117 58 0.34
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (114 bp):
CAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGG
CGCTTTCGCAAAAACGCTGCTAAAGCCCTAAGAATTAGCAGCGCTTCCC
Found at i:50508730 original size:14 final size:15
Alignment explanation
Indices: 50508703--50508737 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
50508693 TGTCGCCACC
50508703 GTTTTTGTCCTTTTT
1 GTTTTTGTCCTTTTT
*
50508718 GTTTTTGT-TTTTTT
1 GTTTTTGTCCTTTTT
50508732 GTTTTT
1 GTTTTT
50508738 ACTTGCTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.00, C:0.06, G:0.14, T:0.80
Consensus pattern (15 bp):
GTTTTTGTCCTTTTT
Found at i:50521493 original size:28 final size:29
Alignment explanation
Indices: 50521430--50521494 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
50521420 ATGGATTCGC
* * * *
50521430 ATGCATGAGTTTTCCATATATGAGTTCGT
1 ATGCATGAATTTTCCATATATGAATCCCT
* *
50521459 ATTCATGAATTTTCC-TCTATGAATCCCT
1 ATGCATGAATTTTCCATATATGAATCCCT
50521487 ATGCATGA
1 ATGCATGA
50521495 CAATCCGTTG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.40
Consensus pattern (29 bp):
ATGCATGAATTTTCCATATATGAATCCCT
Found at i:50535735 original size:135 final size:138
Alignment explanation
Indices: 50535586--50535843 Score: 342
Period size: 135 Copynumber: 1.9 Consensus size: 138
50535576 AGAACTAACA
** * *
50535586 AACAATTAATTAATAAATTAGTACTAACAATCCAACATGAATTACACTAATACAAGATTTAAAAC
1 AACAATTAATTAATAAATTAGTAAGAACAATCCAACATGAATAACACTAATACAAGATCTAAAAC
* * * * * * * *
50535651 TCAGTCAATATA-GCAAACAGATTCAATGGAAATTAATAAGAACAA-AATATATGAACAAATTCA
66 TAAGTCAATATAGGAAAAAAAACTCAATGAAAATTAATAAAAAAAATAATATATGAACAAATTCA
50535714 ACAGGAAT
131 ACAGGAAT
* * * *
50535722 AACAA-TAATTAATAAATTAGTAAGAATAATCCAACATTAATAACACTAATACAAGATCTAGAAT
1 AACAATTAATTAATAAATTAGTAAGAACAATCCAACATGAATAACACTAATACAAGATCTAAAAC
*
50535786 TAAGTTAATATAGGAAAAAAAACTCAATGAAAATTAATAAAAAAAATAATATATGAAC
66 TAAGTCAATATAGGAAAAAAAACTCAATGAAAATTAATAAAAAAAATAATATATGAAC
50535844 CATGGAAGCA
Statistics
Matches: 103, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
135 61 0.59
136 31 0.30
137 11 0.11
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (138 bp):
AACAATTAATTAATAAATTAGTAAGAACAATCCAACATGAATAACACTAATACAAGATCTAAAAC
TAAGTCAATATAGGAAAAAAAACTCAATGAAAATTAATAAAAAAAATAATATATGAACAAATTCA
ACAGGAAT
Found at i:50535937 original size:15 final size:15
Alignment explanation
Indices: 50535909--50535950 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
50535899 ATTCACCATG
50535909 AATAAA-AA-TAATT
1 AATAAATAAGTAATT
*
50535922 AATAAATCAGTAATT
1 AATAAATAAGTAATT
50535937 AATAAATAAGTAAT
1 AATAAATAAGTAAT
50535951 AACAATCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 6 0.24
14 1 0.04
15 18 0.72
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (15 bp):
AATAAATAAGTAATT
Found at i:50536085 original size:21 final size:21
Alignment explanation
Indices: 50536061--50536100 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50536051 AAACTAGGAT
50536061 TTAACTAACAAATAGATAATA
1 TTAACTAACAAATAGATAATA
* * *
50536082 TTAATTAATAAATTGATAA
1 TTAACTAACAAATAGATAA
50536101 GAACAATCCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
TTAACTAACAAATAGATAATA
Found at i:50536668 original size:172 final size:170
Alignment explanation
Indices: 50536295--50536801 Score: 615
Period size: 172 Copynumber: 3.0 Consensus size: 170
50536285 TAATAACAAT
* * * * * * * *
50536295 CCAACTTGAATGACACTAATACAAGATTAATAACTCAACTAATACAACAAACAAATTCAAT-GAA
1 CCAACATGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAAACAAATTCAATAG-A
* ** *
50536359 AATTGATAAGCACAAGATTCAGATTTAATTAAACTGAAACTAACAAGCAAACAAATAAC-TATGT
65 AATTAATAAAAACAAGATTCAGATTTAATTAAACTGGAACTAACAA-CAAACAAATAACATATGT
* *
50536423 AAGATCCAACAAACCTCTTCAATGAGGTCCAGAACATCCATA
129 AAGATCCAACAAACCTTTTCAATAAGGTCCAGAACATCCATA
* * * * ** *
50536465 CCAACATGAGTGACACTAATAAAAGATTTAGAATTTAGTTAATATAGCAATCAAATTTGATGGAA
1 CCAACATGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAAACAAATTCAATAGAA
* * *
50536530 ATTAATAAAAACAAGATTCATATTTAACTAAACTGGAACTAACTAACAAACAAATAACAGTTTGT
66 ATTAATAAAAACAAGATTCAGATTTAATTAAACTGGAACTAAC-AACAAACAAATAACA-TATGT
* **
50536595 AAGATCCAACAAACCTTTTCAATAAGGTCTAGAACATCTTTA
129 AAGATCCAACAAACCTTTTCAATAAGGTCCAGAACATCCATA
* * * * *
50536637 CCAACATTAATGACACTTATACAATATTTAGAATTCAATTAATATAGTAAACAAATTCAATAGAA
1 CCAACATGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAAACAAATTCAATAGAA
* * *
50536702 ATTAATAAAAACAAGATTGAGATTTAATTAAACTAGAAC-AACAAACAAACAAATAACAATCTGT
66 ATTAATAAAAACAAGATTCAGATTTAATTAAACTGGAACTAAC-AACAAACAAATAAC-ATATGT
*
50536766 AAGATCCAACAGACCTTTTCAATAAGGTCCAGAACA
129 AAGATCCAACAAACCTTTTCAATAAGGTCCAGAACA
50536802 CCTGATTATC
Statistics
Matches: 286, Mismatches: 46, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
170 98 0.34
171 58 0.20
172 130 0.45
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (170 bp):
CCAACATGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAAACAAATTCAATAGAA
ATTAATAAAAACAAGATTCAGATTTAATTAAACTGGAACTAACAACAAACAAATAACATATGTAA
GATCCAACAAACCTTTTCAATAAGGTCCAGAACATCCATA
Found at i:50538360 original size:16 final size:15
Alignment explanation
Indices: 50538339--50538369 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
50538329 GGAACAAGAT
50538339 TGAGATTTAACTAAAC
1 TGAGATTTAAC-AAAC
50538355 TGAGATTTAACAAAC
1 TGAGATTTAACAAAC
50538370 AAACAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (15 bp):
TGAGATTTAACAAAC
Found at i:50538885 original size:11 final size:11
Alignment explanation
Indices: 50538869--50538894 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50538859 ACTAAACTGA
50538869 AACAAACAAAC
1 AACAAACAAAC
50538880 AACAAACAAAC
1 AACAAACAAAC
50538891 AACA
1 AACA
50538895 GTCTGTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.27, G:0.00, T:0.00
Consensus pattern (11 bp):
AACAAACAAAC
Found at i:50539296 original size:135 final size:135
Alignment explanation
Indices: 50539128--50539376 Score: 392
Period size: 135 Copynumber: 1.8 Consensus size: 135
50539118 ATAAACAAAC
* *
50539128 AATTAATAAATCAATAAAAACAATCCAACATGAATGAAACTAATACAAGATTTAGTATTTAATTA
1 AATTAATAAATCAATAAAAACAATCCAACATGAATGAAACTAATACAAGATTTAGAATTCAATTA
* * *
50539193 ATATAGCAAACAAATTCTATGGAAATTAATAAGAACAAAATATATGAACAAATTCAACATGAATG
66 ATATAACAAACAAATTCAATGAAAATTAATAAGAACAAAATATATGAACAAATTCAACATGAATG
50539258 ATAAT
131 ATAAT
* * * * *
50539263 AATTAATAAATTAGTAATAACTAAT-CAACATGAATGACACTAATACAAGGTTTAGAATTCAATT
1 AATTAATAAATCAATAAAAAC-AATCCAACATGAATGAAACTAATACAAGATTTAGAATTCAATT
50539327 AATATAACAAACAAATTCAATGAAAATTAATAAGAACAAAATATATGAAC
65 AATATAACAAACAAATTCAATGAAAATTAATAAGAACAAAATATATGAAC
50539377 TGTGGAAGCA
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
135 100 0.97
136 3 0.03
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.27
Consensus pattern (135 bp):
AATTAATAAATCAATAAAAACAATCCAACATGAATGAAACTAATACAAGATTTAGAATTCAATTA
ATATAACAAACAAATTCAATGAAAATTAATAAGAACAAAATATATGAACAAATTCAACATGAATG
ATAAT
Found at i:50539578 original size:16 final size:16
Alignment explanation
Indices: 50539557--50539587 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50539547 AGAACAAGAT
50539557 TGAGATTTAACTAAAA
1 TGAGATTTAACTAAAA
50539573 TGAGATTTAACTAAA
1 TGAGATTTAACTAAA
50539588 CTGGAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.32
Consensus pattern (16 bp):
TGAGATTTAACTAAAA
Found at i:50541523 original size:13 final size:14
Alignment explanation
Indices: 50541486--50541526 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
50541476 ATGACAGATG
50541486 CAGATAA-CAGAAT
1 CAGATAACCAGAAT
*
50541499 CAGATAAGCAGAA-
1 CAGATAACCAGAAT
*
50541512 CAGATATCCAGAAT
1 CAGATAACCAGAAT
50541526 C
1 C
50541527 CGACCCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.49, C:0.20, G:0.17, T:0.15
Consensus pattern (14 bp):
CAGATAACCAGAAT
Found at i:50546033 original size:10 final size:10
Alignment explanation
Indices: 50546020--50546044 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
50546010 ATTTGTATAC
50546020 ATAAAAATCG
1 ATAAAAATCG
50546030 ATAAAAATCG
1 ATAAAAATCG
50546040 ATAAA
1 ATAAA
50546045 CGAGGATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (10 bp):
ATAAAAATCG
Found at i:50547572 original size:14 final size:15
Alignment explanation
Indices: 50547545--50547573 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50547535 TCAAACCCCA
50547545 CTCTTTTCATTTTTC
1 CTCTTTTCATTTTTC
50547560 CTCTTTT-ATTTTTC
1 CTCTTTTCATTTTTC
50547574 AGCAATTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (15 bp):
CTCTTTTCATTTTTC
Found at i:50549200 original size:91 final size:91
Alignment explanation
Indices: 50548975--50549257 Score: 344
Period size: 91 Copynumber: 3.2 Consensus size: 91
50548965 TCTAAAAATC
*** *
50548975 TGGTGGTTCATCCAAATATTATCT-GCTAGCTTTTATCTGC----ATGTTGTGTATTCACAACCA
1 TGGTGGTTCATCCACCCATTATCTAGC-AGCTTTTATCTACAATTATGTTGTGTATTCACAACCA
* *
50549035 TCTGGTAGCATATTAACCTACAAC-CT
65 TCTAGTAGCATATTAACCTACAACATT
** * *
50549061 TGGTGGTTCGCCCACCCATTATCTAGCAGTTTTTATCTTCAATTATGTTGTGTATTCACAACCAT
1 TGGTGGTTCATCCACCCATTATCTAGCAGCTTTTATCTACAATTATGTTGTGTATTCACAACCAT
*
50549126 CTAGTAGCATATTAACCTGCAACATT
66 CTAGTAGCATATTAACCTACAACATT
* * ***
50549152 TGGTGGCTCATCCACCCATTATCTGGCAGCTTTTATCTACAATTATGTTGTGTATTCACAATTGT
1 TGGTGGTTCATCCACCCATTATCTAGCAGCTTTTATCTACAATTATGTTGTGTATTCACAACCAT
* *
50549217 CTAGTAACGTATTAACCTACAACATT
66 CTAGTAGCATATTAACCTACAACATT
*
50549243 TGATGGTTCATCCAC
1 TGGTGGTTCATCCAC
50549258 AACCCGGTGT
Statistics
Matches: 167, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
86 30 0.18
87 2 0.01
90 42 0.25
91 93 0.56
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (91 bp):
TGGTGGTTCATCCACCCATTATCTAGCAGCTTTTATCTACAATTATGTTGTGTATTCACAACCAT
CTAGTAGCATATTAACCTACAACATT
Found at i:50552727 original size:20 final size:20
Alignment explanation
Indices: 50552704--50552755 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
50552694 ATGTGTTAGA
50552704 GTTTGAGTTTGGGGTTTAAG
1 GTTTGAGTTTGGGGTTTAAG
* *
50552724 GTTTGAGTTTAGGGTTTTAGG
1 GTTTGAGTTT-GGGGTTTAAG
50552745 GTTT-AGTTTGG
1 GTTTGAGTTTGG
50552756 AAATTGAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 15 0.52
21 12 0.41
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.48
Consensus pattern (20 bp):
GTTTGAGTTTGGGGTTTAAG
Found at i:50552831 original size:19 final size:19
Alignment explanation
Indices: 50552807--50552844 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
50552797 TTGTACTACA
50552807 GCCATATTATATATATAAT
1 GCCATATTATATATATAAT
50552826 GCCATATTATATATATAAT
1 GCCATATTATATATATAAT
50552845 ATAATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (19 bp):
GCCATATTATATATATAAT
Done.