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 158 of 240
Found at i:49827064 original size:129 final size:129
Alignment explanation
Indices: 49826909--49827166 Score: 498
Period size: 129 Copynumber: 2.0 Consensus size: 129
49826899 CTCTCACTAC
49826909 TCCTGAAGTTATCATAGTCATAATGAATTTCTTTATATTGCTGGCATTAGGCATCTATGAGGGTG
1 TCCTGAAGTTATCATAGTCATAATGAATTTCTTTATATTGCTGGCATTAGGCATCTATGAGGGTG
* *
49826974 ACAAATATGTTTCTGCAGTTCCTGTTTTCACGTATCTTTTGATAGTATCACTCTCTCGCCTTTT
66 ACAAATATGTTTCTGCAGTTACTGTTTTCACATATCTTTTGATAGTATCACTCTCTCGCCTTTT
49827038 TCCTGAAGTTATCATAGTCATAATGAATTTCTTTATATTGCTGGCATTAGGCATCTATGAGGGTG
1 TCCTGAAGTTATCATAGTCATAATGAATTTCTTTATATTGCTGGCATTAGGCATCTATGAGGGTG
49827103 ACAAATATGTTTCTGCAGTTACTGTTTTCACATATCTTTTGATAGTATCACTCTCTCGCCTTTT
66 ACAAATATGTTTCTGCAGTTACTGTTTTCACATATCTTTTGATAGTATCACTCTCTCGCCTTTT
49827167 GGTTTTGTAG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (129 bp):
TCCTGAAGTTATCATAGTCATAATGAATTTCTTTATATTGCTGGCATTAGGCATCTATGAGGGTG
ACAAATATGTTTCTGCAGTTACTGTTTTCACATATCTTTTGATAGTATCACTCTCTCGCCTTTT
Found at i:49839298 original size:85 final size:84
Alignment explanation
Indices: 49839156--49839391 Score: 312
Period size: 85 Copynumber: 2.8 Consensus size: 84
49839146 ATTCGTTACT
* *
49839156 CGGTGGATTCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATCAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTAATAC-GGGAATCAGCACATAGCAAC
* *
49839220 CCCTTTCACAGTCAAAGATA
65 CCCTTTAACAATCAAAGATA
* *
49839240 CGGTGGAATCAACACTTAGCAACCACCTTTATATTCAGTAATACGGGTAATCAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTAATACGGG-AATCAGCACATAGCAAC
49839305 CCCTTTAACAATCAAAGATA
65 CCCTTTAACAATCAAAGATA
* * * * * * * *
49839325 CAGTGGAATCGGCACTTAGCAACCATCTTTAAAGTCAATAATTCAGGGAATCATCACTTAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTAATAC-GGGAATCAGCACATAGCAAC
49839390 CC
65 CC
49839392 ATTTTTATTC
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
84 28 0.21
85 102 0.77
86 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTAATACGGGAATCAGCACATAGCAACC
CCTTTAACAATCAAAGATA
Found at i:49839383 original size:42 final size:42
Alignment explanation
Indices: 49839164--49839390 Score: 187
Period size: 42 Copynumber: 5.4 Consensus size: 42
49839154 CTCGGTGGAT
* * * *
49839164 TCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAAATCAATAATACAGGGAA
* * * *
49839205 TCAGCACATAGCAACC-CCTTTCACAGTCAA-AGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-AAAATCAATA-ATACAG-GGAA
* * * *
49839248 TCAACACTTAGCAACCACCTTTATATTCAGTAATAC-GGGTAA
1 TCAGCACTTAGCAACCACCTTTAAAATCAATAATACAGGG-AA
*
49839290 TCAGCACATAGCAACC-CCTTTAACAATCAA-AGATACAGTGGAA
1 TCAGCACTTAGCAACCACCTTTAA-AATCAATA-ATACAG-GGAA
* * * *
49839333 TCGGCACTTAGCAACCATCTTTAAAGTCAATAATTCAGGGAA
1 TCAGCACTTAGCAACCACCTTTAAAATCAATAATACAGGGAA
*
49839375 TCATCACTTAGCAACC
1 TCAGCACTTAGCAACC
49839391 CATTTTTATT
Statistics
Matches: 151, Mismatches: 22, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
40 2 0.01
41 26 0.17
42 54 0.36
43 54 0.36
44 15 0.10
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTAAAATCAATAATACAGGGAA
Found at i:49843445 original size:153 final size:156
Alignment explanation
Indices: 49843268--49843550 Score: 459
Period size: 154 Copynumber: 1.8 Consensus size: 156
49843258 ATTGTAAAAA
*
49843268 TAAAAATCTATTTTTTTGAGTCATTTTAAAGG-AAATTTTAAAATTTTAAAACAAAATTTTGAT-
1 TAAAAATCTATTTTTTTGAGTCATTTTAAAGGAAAAGTTTAAAATTTTAAAACAAAATTTTGATG
*
49843331 TTTTGTCAACTATTTAGAAATTAAAGTTTTGATCTTTAAGAAAAGTAGTGA-TTTTTTAAAAGAA
66 TTTT-TCAACTATTTAGAAA-TAAAGTTTTGATATTTAAGAAAAGTAGTGATTTTTTTAAAAGAA
49843395 AAAAAGAGAAAGTTTAGATTTTTATTCT
129 AAAAAGAGAAAGTTTAGATTTTTATTCT
*
49843423 TAAAAATCTA-TTTTTT-AGTCATTTTAAAGGAAAAGTTTAAAATTTTAAAACAAAGTTTTGATG
1 TAAAAATCTATTTTTTTGAGTCATTTTAAAGGAAAAGTTTAAAATTTTAAAACAAAATTTTGATG
* *
49843486 TTTTTCAATTATTTCGAAATAAAGTTTTGATATTTAAGAAAAGTAGTGATTTTTTTTAAAAGAAA
66 TTTTTCAACTATTTAGAAATAAAGTTTTGATATTTAAGAAAAGTAGTGA-TTTTTTTAAAAGAAA
49843551 GATTTGATTT
Statistics
Matches: 119, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
153 43 0.36
154 48 0.40
155 28 0.24
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (156 bp):
TAAAAATCTATTTTTTTGAGTCATTTTAAAGGAAAAGTTTAAAATTTTAAAACAAAATTTTGATG
TTTTTCAACTATTTAGAAATAAAGTTTTGATATTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAA
AAAGAGAAAGTTTAGATTTTTATTCT
Found at i:49844918 original size:53 final size:53
Alignment explanation
Indices: 49844859--49844965 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
49844849 AAAGATCAAA
49844859 TAAGTTGTAAATGGATTTTAATATTTCTCTTAATTCATTGGTAATTTCTAGTT
1 TAAGTTGTAAATGGATTTTAATATTTCTCTTAATTCATTGGTAATTTCTAGTT
49844912 TAAGTTGTAAATGGATTTTAATATTTCTCTTAATTCATTGGTAATTTCTAGTT
1 TAAGTTGTAAATGGATTTTAATATTTCTCTTAATTCATTGGTAATTTCTAGTT
49844965 T
1 T
49844966 TTTTTAGAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.51
Consensus pattern (53 bp):
TAAGTTGTAAATGGATTTTAATATTTCTCTTAATTCATTGGTAATTTCTAGTT
Found at i:49846726 original size:25 final size:25
Alignment explanation
Indices: 49846697--49846747 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
49846687 TTATTTTGAT
*
49846697 AGTATTTTTATTAAT-TTAATATTAA
1 AGTATTTATATTAATATTAA-ATTAA
*
49846722 AGTATTTATCTTAATATTAAATTAA
1 AGTATTTATATTAATATTAAATTAA
49846747 A
1 A
49846748 TTAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
AGTATTTATATTAATATTAAATTAA
Found at i:49846758 original size:29 final size:31
Alignment explanation
Indices: 49846705--49846763 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 31
49846695 ATAGTATTTT
*
49846705 TATTAATTTAATATTAAAGTATTTATCTTAA
1 TATTAAATTAATATTAAAGTATTTATCTTAA
49846736 TATTAAATTAA-ATTAAA-TATTTATCTTA
1 TATTAAATTAATATTAAAGTATTTATCTTA
49846764 TAGATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.41
30 6 0.22
31 10 0.37
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (31 bp):
TATTAAATTAATATTAAAGTATTTATCTTAA
Found at i:49846771 original size:29 final size:31
Alignment explanation
Indices: 49846712--49846772 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 31
49846702 TTTTATTAAT
*
49846712 TTAATATTAAAGTATTTATCTTAATATTAAA
1 TTAATATTAAAGTATTTATCTTAATAATAAA
49846743 TTAA-ATTAAA-TATTTATCTT-ATAGATAAA
1 TTAATATTAAAGTATTTATCTTAATA-ATAAA
49846772 T
1 T
49846773 ATTCTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 3 0.11
29 15 0.54
30 6 0.21
31 4 0.14
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (31 bp):
TTAATATTAAAGTATTTATCTTAATAATAAA
Found at i:49846801 original size:61 final size:58
Alignment explanation
Indices: 49846732--49846847 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 58
49846722 AGTATTTATC
* *
49846732 TTAATATTAAATTAAAT-TAAATATTTATCTTATAGATAAATATTCTATTAATTTAATAGGT
1 TTAATATTAAATTAAATCT-AATATTTATC-T-T-GATAAATATTATATTAACTTAATAGGT
* *
49846793 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAACTTAATA
1 TTAATATTAAATTAAATCTAATATTTATCTTGATAAATATTATATTAACTTAATA
49846848 TTAACTTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
58 21 0.42
59 1 0.02
60 1 0.02
61 26 0.52
62 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (58 bp):
TTAATATTAAATTAAATCTAATATTTATCTTGATAAATATTATATTAACTTAATAGGT
Found at i:49848220 original size:22 final size:22
Alignment explanation
Indices: 49848193--49848238 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
49848183 GTTGTAGAAA
49848193 AAACTAAGAG-AAAATCTAAATT
1 AAACTAAG-GCAAAATCTAAATT
*
49848215 AAACTAAGGCTAAATCTAAATT
1 AAACTAAGGCAAAATCTAAATT
49848237 AA
1 AA
49848239 TGTATCTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.24
Consensus pattern (22 bp):
AAACTAAGGCAAAATCTAAATT
Found at i:49856260 original size:22 final size:20
Alignment explanation
Indices: 49856217--49856255 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
49856207 TAATTTAAAA
49856217 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
49856237 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
49856256 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:49856379 original size:20 final size:20
Alignment explanation
Indices: 49856354--49856393 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
49856344 AATATTTTCC
*
49856354 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTATAGAAA
*
49856374 AGTAAAACATTTTCTAGAAA
1 AGTAAAACATTTTATAGAAA
49856394 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTAAAACATTTTATAGAAA
Found at i:49857405 original size:124 final size:124
Alignment explanation
Indices: 49857179--49857458 Score: 395
Period size: 124 Copynumber: 2.3 Consensus size: 124
49857169 TTATTTCGAG
**
49857179 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCAAAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTGATACCAGGATGCTATCAAAGAAGAAATTGT
** * *
49857243 AAAATCGTGCCCTCGTGGACGCAATTTTGGTACAGTTGGTCATGTAAGAAATAATT-TTT
65 AAAATCGCACCCTCGTGGACGCAATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTT
*
49857302 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTAT-ATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCA-AAGAAGAAATTG
* * *
49857366 TGAAATCGCACCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTT
64 TAAAATCGCACCCTCGTGGACGCAATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTT
* * *
49857427 TTCACGTTTCTGAGCAAATAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
49857459 GCCCTCGTGG
Statistics
Matches: 140, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
123 7 0.05
124 124 0.89
125 9 0.06
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCAAAGAAGAAATTGTA
AAATCGCACCCTCGTGGACGCAATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTT
Found at i:49860389 original size:41 final size:41
Alignment explanation
Indices: 49860167--49860388 Score: 336
Period size: 41 Copynumber: 5.4 Consensus size: 41
49860157 GGTTTTAAAA
*
49860167 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
49860208 CCTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
49860249 CCTAGCAGGCTAAGTGCCGGTGATCTGAATTAGGCTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * * *
49860290 CCTAGCAGGCTAAGTGTCGGTGAACTGGATTAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
49860331 CCTAGCAGGCTAAGTGCTGGTGATCTGAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
49860372 CCTAACAAGCTAAGTGC
1 CCTAGCAGGCTAAGTGC
49860389 TAGTGAATCT
Statistics
Matches: 164, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 164 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:49862044 original size:35 final size:34
Alignment explanation
Indices: 49861977--49862104 Score: 134
Period size: 35 Copynumber: 4.0 Consensus size: 34
49861967 GTACAAGTTC
49861977 GGGTTTTTAATTAAAATTAAATTA-----GG-TTA
1 GGGTTTTTAATT-AAATTAAATTAGGTTGGGTTTA
*
49862006 GGGTTTTTAAATAAATTAAATTAGGTTGGGGTTTA
1 GGGTTTTTAATTAAATTAAATTAGGTT-GGGTTTA
49862041 GGGTTTTTAATTAAATTAAATTA----GGG-TTA
1 GGGTTTTTAATTAAATTAAATTAGGTTGGGTTTA
49862070 GGGTTTTTAATTAAAATTAAATTAGGTTAGGGTTT
1 GGGTTTTTAATT-AAATTAAATTAGGTT-GGGTTT
49862105 TTAATCAAAT
Statistics
Matches: 83, Mismatches: 2, Indels: 21
0.78 0.02 0.20
Matches are distributed among these distances:
28 11 0.13
29 26 0.31
30 14 0.17
34 2 0.02
35 28 0.34
36 2 0.02
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.45
Consensus pattern (34 bp):
GGGTTTTTAATTAAATTAAATTAGGTTGGGTTTA
Found at i:49862109 original size:29 final size:29
Alignment explanation
Indices: 49861977--49862114 Score: 172
Period size: 29 Copynumber: 4.6 Consensus size: 29
49861967 GTACAAGTTC
49861977 GGGTTTTTAATTAAAATTAAATTA-GGTTA
1 GGGTTTTTAATT-AAATTAAATTAGGGTTA
*
49862006 GGGTTTTTAAATAAATTAAATTAGGTTGGGGTTTA
1 GGGTTTTTAATTAAATTAAATTA-----GGG-TTA
49862041 GGGTTTTTAATTAAATTAAATTAGGGTTA
1 GGGTTTTTAATTAAATTAAATTAGGGTTA
49862070 GGGTTTTTAATTAAAATTAAATTA-GGTTA
1 GGGTTTTTAATT-AAATTAAATTAGGGTTA
*
49862099 GGGTTTTTAATCAAAT
1 GGGTTTTTAATTAAAT
49862115 AATATCAAAA
Statistics
Matches: 98, Mismatches: 3, Indels: 17
0.83 0.03 0.14
Matches are distributed among these distances:
28 15 0.15
29 42 0.43
30 14 0.14
34 2 0.02
35 25 0.26
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (29 bp):
GGGTTTTTAATTAAATTAAATTAGGGTTA
Found at i:49862331 original size:21 final size:21
Alignment explanation
Indices: 49862284--49862333 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
49862274 CTTCCTCTAG
* * *
49862284 CTTCCGGCGGTGGTTTTTCTT
1 CTTCCGGTGGTGATTGTTCTT
* *
49862305 CCTCCGGTGGTGATTGTTGTT
1 CTTCCGGTGGTGATTGTTCTT
49862326 CTTCCGGT
1 CTTCCGGT
49862334 TCGGCATCTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.24, G:0.30, T:0.44
Consensus pattern (21 bp):
CTTCCGGTGGTGATTGTTCTT
Found at i:49863288 original size:7 final size:7
Alignment explanation
Indices: 49863278--49863302 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
49863268 TTATATACAT
49863278 AATACTA
1 AATACTA
49863285 AATACTA
1 AATACTA
49863292 AATACTA
1 AATACTA
49863299 AATA
1 AATA
49863303 TCAATCCACT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:49864426 original size:29 final size:29
Alignment explanation
Indices: 49864391--49864449 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
49864381 TTGAAAATAT
*
49864391 TAAAAAT-TTTAAAATTATTTTTAAAAAAA
1 TAAAAATATTTAAAATT-TTCTTAAAAAAA
49864420 TAAAAATATTTAAAATTTTCTTAAAAAAA
1 TAAAAATATTTAAAATTTTCTTAAAAAAA
49864449 T
1 T
49864450 GAAATTGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (29 bp):
TAAAAATATTTAAAATTTTCTTAAAAAAA
Found at i:49864511 original size:22 final size:21
Alignment explanation
Indices: 49864483--49864533 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
49864473 AAATATGGAT
*
49864483 TTGAGAGATTTTTTGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
*
49864505 TTGAGAGGATTTTGGAAGGAAT
1 TTGAGA-GATTTTGGAAGGAAA
49864527 TTGAGAG
1 TTGAGAG
49864534 TTTAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:49864556 original size:52 final size:52
Alignment explanation
Indices: 49864486--49864585 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
49864476 TATGGATTTG
* * * *
49864486 AGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
49864538 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
49864586 AATATTTGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
Found at i:49864602 original size:24 final size:22
Alignment explanation
Indices: 49864538--49864593 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
49864528 TGAGAGTTTA
49864538 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
49864560 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
49864582 AGAGAATATTTG
1 AGAGAAT-TTTG
49864594 TTTGTGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:49866032 original size:714 final size:709
Alignment explanation
Indices: 49864754--49866124 Score: 2483
Period size: 714 Copynumber: 1.9 Consensus size: 709
49864744 CGCTTCCTTG
* * *
49864754 AGGACGCGATTTCCTTCCACGTCAGCAGGTCGCGCTGACGTAGACGCGATGATCTGTTATGTACC
1 AGGAAGCGATTTCCTTCCACGTCAGCAGGTCACGCTGACGTAGACGCGATGATCTGTCATGTACC
49864819 CTAACATCGCGCTTACGTGGCAGCGATTTCGCGGAAATGGCCCATTCCGGTAAATAATTAAAAAA
66 CTAACATCGCGCTTACGTGGCAGCGATTTCGCGGAAATGGCCCATTCCGGTAAATAATTAAAAAA
*
49864884 GTGGCCCATTTCGGTAAATTTTGCAAAAAAAAGGCTTTTTTTGGTAAAATGGCCAAAAAATGGTT
131 GTGGCCCATTTCGGTAAATTTTACAAAAAAAAGGCTTTTTTTGGTAAAATGGCCAAAAAATGGTT
49864949 TGGAGCTTTTTTTTCCCCAATTTTCTTAGCGGTTTTTTTCAGCCCTACCAAATATTTTTCCCCAA
196 TGGAGCTTTTTTTTCCCCAATTTTCTTAGCGGTTTTTTTCAGCCCTACCAAATATTTTTCCCCAA
* *
49865014 TTTCAAAAGTTGCAAACATACCAACAGTACCACCATTCCCACAGTCCCTAAGTCCAACACTCTTC
261 TTTCAAAAGTTGCAAACATACCAACACTACCACCATTCCCACAGTCCCTAAGTCCAACACTCGTC
49865079 AAGTTCAACCCTCACCAGTTATCATTGACAAAATTTCAAGGATAAAGGTTGAGGAATCAAGTGGA
326 AAGTTCAACCCTCACCAGTTATCATTGACAAAATTTCAAGGATAAAGGTTGAGGAATCAAGTGGA
* * *
49865144 GAAGATGATGATGACGAAGGCAAAGACGTTCATGGGATCGAACGGCTTCATGTTGTGAAACCTCG
391 GAAGATGATGACGACGAAGGCAAAGACGTTCATGGGATCGAACGGCTTCATGTCGCGAAACCTCG
49865209 TCCCTCCCGAAGTATTCGACAAGCTTCACGGCGTTCTCAAGGATAACGGTGCCCAAGTCTTCCTC
456 TCCCTCCCGAAGTATTCGACAAGCTTCACGGCGTTCTCAAGGATAACGGTGCCCAAGTCTTCCTC
*
49865274 TGTTGCGACCCTTCTCGCAATGGCCCCGATGATTTCCACGTTATCTCCTCCTTCGATCACGTACT
521 TGTAGCGACCCTTCTCGCAATGGCCCCGATGATTTCCACGTTATCTCCTCCTTCGATCACGTACT
49865339 CCCCTCTTTTTCCCTCCATTTTTTGTTGCATTTTACGATATTTTTGGGATCTTTCTTAAATGTCT
586 CCCCTCTTTTTCCCTCCATTTTTTGTTGCATTTTACGATATTTTTGGGATCTTTCTTAAATGTCT
49865404 TCTTTTTGACCGTTGGGCCACTGTTCACGCGCGCGTGTCATCGCGTCCACGTTAGCTCA
651 TCTTTTTGACCGTTGGGCCACTGTTCACGCGCGCGTGTCATCGCGTCCACGTTAGCTCA
*
49865463 AGGAAGCGATTTCCTTCCACGTCAGCAGGTCACGCTGACGTGGACGCGATGATCTGTCATGTACC
1 AGGAAGCGATTTCCTTCCACGTCAGCAGGTCACGCTGACGTAGACGCGATGATCTGTCATGTACC
*
49865528 CTGACATCGCGCTTACGTGGCAGCGATTTCGCGGAAATGGCCCATTCCGGTAAATAATTAAAAAA
66 CTAACATCGCGCTTACGTGGCAGCGATTTCGCGGAAATGGCCCATTCCGGTAAATAATTAAAAAA
* *
49865593 GTGGCCTATTTCGGTAAATTTTACAAAAAAAAGGGTTTTTTTGGTAAAATGGCCAAAAAATGGTT
131 GTGGCCCATTTCGGTAAATTTTACAAAAAAAAGGCTTTTTTTGGTAAAATGGCCAAAAAATGGTT
* * *
49865658 TGGAGCTTTTTTTTTTTTTCCCAATTTTCTTGGCGGTTTTTTTTCAGCCCTTCCAAATATTTTTC
196 TGGAGC----TTTTTTTTCCCCAATTTTCTTAGCGG-TTTTTTTCAGCCCTACCAAATATTTTTC
*
49865723 CCCAATTTCAGAAGTTGCAAACATACCAACACTACCACCATTCCCACAGTCCCTAAGTCCAACAC
256 CCCAATTTCAAAAGTTGCAAACATACCAACACTACCACCATTCCCACAGTCCCTAAGTCCAACAC
* *
49865788 TCGTCAAGTTCAACCCTCGCCAGTTATCATTGACAAAATTTCAGGGATAAAGGTTGAGGAATCAA
321 TCGTCAAGTTCAACCCTCACCAGTTATCATTGACAAAATTTCAAGGATAAAGGTTGAGGAATCAA
* *
49865853 GTGGAGATGATGATGACGACGAAGGCAAA-AGCGTTCATGGGATCGAACGTCTTCATGTCGCGAA
386 GTGGAGAAGATGATGACGACGAAGGCAAAGA-CGTTCATGGGATCGAACGGCTTCATGTCGCGAA
49865917 ACCTCGTCCCTCCCGAAGTATTCGACAAGCTTCACGGCGTTCTCAAGGATAACGGTGCCCAAGTC
450 ACCTCGTCCCTCCCGAAGTATTCGACAAGCTTCACGGCGTTCTCAAGGATAACGGTGCCCAAGTC
49865982 TTCCTCTGTAGCGACCCTTCTCGCAATGGCCCCGATGATTTCCACGTTATCTCCTCCTTCGATCA
515 TTCCTCTGTAGCGACCCTTCTCGCAATGGCCCCGATGATTTCCACGTTATCTCCTCCTTCGATCA
49866047 CGTACTCCCCTCTTTTTCCCTCCATTTTTTGTTGCATTTTACGATATTTTTGGGATCTTTCTTAA
580 CGTACTCCCCTCTTTTTCCCTCCATTTTTTGTTGCATTTTACGATATTTTTGGGATCTTTCTTAA
49866112 ATGTCTTCTTTTT
645 ATGTCTTCTTTTT
49866125 TATTTAGTTA
Statistics
Matches: 634, Mismatches: 22, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
709 193 0.30
713 25 0.04
714 416 0.66
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (709 bp):
AGGAAGCGATTTCCTTCCACGTCAGCAGGTCACGCTGACGTAGACGCGATGATCTGTCATGTACC
CTAACATCGCGCTTACGTGGCAGCGATTTCGCGGAAATGGCCCATTCCGGTAAATAATTAAAAAA
GTGGCCCATTTCGGTAAATTTTACAAAAAAAAGGCTTTTTTTGGTAAAATGGCCAAAAAATGGTT
TGGAGCTTTTTTTTCCCCAATTTTCTTAGCGGTTTTTTTCAGCCCTACCAAATATTTTTCCCCAA
TTTCAAAAGTTGCAAACATACCAACACTACCACCATTCCCACAGTCCCTAAGTCCAACACTCGTC
AAGTTCAACCCTCACCAGTTATCATTGACAAAATTTCAAGGATAAAGGTTGAGGAATCAAGTGGA
GAAGATGATGACGACGAAGGCAAAGACGTTCATGGGATCGAACGGCTTCATGTCGCGAAACCTCG
TCCCTCCCGAAGTATTCGACAAGCTTCACGGCGTTCTCAAGGATAACGGTGCCCAAGTCTTCCTC
TGTAGCGACCCTTCTCGCAATGGCCCCGATGATTTCCACGTTATCTCCTCCTTCGATCACGTACT
CCCCTCTTTTTCCCTCCATTTTTTGTTGCATTTTACGATATTTTTGGGATCTTTCTTAAATGTCT
TCTTTTTGACCGTTGGGCCACTGTTCACGCGCGCGTGTCATCGCGTCCACGTTAGCTCA
Found at i:49873892 original size:13 final size:13
Alignment explanation
Indices: 49873876--49873905 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
49873866 TTCAAAACCA
49873876 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
49873889 AAAAAAGAAAAAG
1 AAAAAAAAAAAAG
49873902 AAAA
1 AAAA
49873906 GAAAGCAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:49873905 original size:18 final size:16
Alignment explanation
Indices: 49873875--49873909 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
49873865 ATTCAAAACC
49873875 AAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAGAA
49873891 AAAAGAAAAAGAAAAGAA
1 AAAA-AAAAA-AAAAGAA
49873909 A
1 A
49873910 GCAGCAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 5 0.29
18 8 0.47
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAGAA
Found at i:49879773 original size:16 final size:16
Alignment explanation
Indices: 49879749--49879793 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 16
49879739 TTATAACTTG
*
49879749 GAAAGAGAAAAAAAAA
1 GAAAAAGAAAAAAAAA
49879765 GAAAAAG-AAAAAAAA
1 GAAAAAGAAAAAAAAA
49879780 GAAAAAGAAAAAAA
1 GAAAAAGAAAAAAA
49879794 GAGTTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
GAAAAAGAAAAAAAAA
Found at i:49882305 original size:3 final size:3
Alignment explanation
Indices: 49882297--49882361 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
49882287 CAAATACAAA
49882297 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
49882345 AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AA
49882362 AAGCTAATGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:49889247 original size:34 final size:34
Alignment explanation
Indices: 49889209--49889275 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
49889199 CCCAGACTTG
* *
49889209 ACCTTGCCCAGTTTCTCTTTTGAATTTGTAATTA
1 ACCTTGCCCAATTTCTCTTCTGAATTTGTAATTA
*
49889243 ACCTTGCCCAATTTCTCTTCTGAATTTTTAATT
1 ACCTTGCCCAATTTCTCTTCTGAATTTGTAATT
49889276 GAGAGAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.21, C:0.22, G:0.09, T:0.48
Consensus pattern (34 bp):
ACCTTGCCCAATTTCTCTTCTGAATTTGTAATTA
Found at i:49891427 original size:19 final size:19
Alignment explanation
Indices: 49891399--49891437 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
49891389 TATTTAAAAA
*
49891399 ATAACTACTTTTGTAATTT
1 ATAACGACTTTTGTAATTT
49891418 ATAACGACTTTTGTAATTT
1 ATAACGACTTTTGTAATTT
49891437 A
1 A
49891438 ATGTGACGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (19 bp):
ATAACGACTTTTGTAATTT
Found at i:49896294 original size:6 final size:6
Alignment explanation
Indices: 49896283--49896315 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
49896273 GCCCCTCTAC
49896283 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
49896316 GAGTAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:49897887 original size:124 final size:126
Alignment explanation
Indices: 49897665--49897973 Score: 365
Period size: 124 Copynumber: 2.4 Consensus size: 126
49897655 GATAAAATCA
* * * * * * *
49897665 AAGCAGGATGCTTTATCAGAAGGATTTTTGAAGTCGCGTCCACGTGTACGCGCTTTTGCTATAAT
1 AAGCAGGATGCTTTATGAGAA-GAATTTTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
* *
49897730 AGGTCATGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAAT-A-GT-ATAAAAACGCTTC
65 AGGTCATGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAATGTAAAAAAAACGCTTC
* * *
49897789 AAGCAAGATGCTTTATGAGAAGAATTTTGAAATCGCGCCCTCGTGGATGCGCTTTTGCTACAGTA
1 AAGCAGGATGCTTTATGAGAAGAATTTTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAATA
* * * * * *
49897854 GGTCCTGGAAGAAATAATTTCGAGTTGATGTTTCTGAGCAAATAATTTTAAAAAAAATGCTTG
66 GGTCATGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAA-TGTAAAAAAAACGCTTC
* *
49897917 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCACCCTCATGGACGCGCTTTT
1 AAGCAGGATGCT-TTATGAGAAGAATTT-TGAAATCGCGCCCTCGTGGACGCGCTTTT
49897974 AAGTTAAGGG
Statistics
Matches: 156, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
123 45 0.29
124 48 0.31
125 1 0.01
127 1 0.01
128 33 0.21
129 28 0.18
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (126 bp):
AAGCAGGATGCTTTATGAGAAGAATTTTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAATA
GGTCATGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAATGTAAAAAAAACGCTTC
Found at i:49898000 original size:21 final size:21
Alignment explanation
Indices: 49897970--49898474 Score: 466
Period size: 22 Copynumber: 23.1 Consensus size: 21
49897960 ATGGACGCGC
49897970 TTTTAAGTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGGT
*
49897991 TTTAAAGTTAAGGGTTAGGG-
1 TTTTAAGTTAAGGGTTAGGGT
*
49898011 TTTTAAGGCTTTAAAGTTAAGGGTTAGGGT
1 TTTTAA-G--TT-AAG----GGT-TAGGGT
* *
49898041 TTTAAAGTTAAGGGTTTGGGGT
1 TTTTAAGTTAAGGG-TTAGGGT
*
49898063 TTTT-AGCTTAAGGGTTTATGGT
1 TTTTAAG-TTAAGGG-TTAGGGT
*
49898085 TTTAAAGTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGGT
*
49898106 TTTAAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGG-TTAGGGT
49898128 TTTTAAGTTAAGGGTTTAGGG-
1 TTTTAAGTTAAGGG-TTAGGGT
**
49898149 TTTTAAGTTAAGGGTTTAGAAT
1 TTTTAAGTTAAGGG-TTAGGGT
49898171 TTTTAAGTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGGT
*
49898192 TTTTTAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGG-TTAGGGT
* *
49898214 TTTTAAGTTAAAGGTTTAGGGG
1 TTTTAAGTT-AAGGGTTAGGGT
* *
49898236 TTTAAAATTAAGGGTTAGGAG-
1 TTTTAAGTTAAGGGTTAGG-GT
*
49898257 TTTTAAGTTAAGGGTTAGTGT
1 TTTTAAGTTAAGGGTTAGGGT
* *
49898278 TTTTTATTTAAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGGT
49898299 TTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGG-TTAGGGT
* * *
49898321 TTTAAAGTCAAGAGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGGT
*
49898342 TTTTAGGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGG-TTAGGGT
*
49898364 TTTTAGGTTAAGGGTTTATGGG-
1 TTTTAAGTTAAGGG-TTA-GGGT
49898386 TTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGG-TTAGGGT
* ***
49898408 TTTTAATTTAAATATTAGGG-
1 TTTTAAGTTAAGGGTTAGGGT
* *
49898428 -TTTAGGGTTTTTAGGGTTAGGGT
1 TTTTA-AG--TTAAGGGTTAGGGT
49898451 TTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGG-TTAGGGT
49898473 TT
1 TT
49898475 GTCAATTAAA
Statistics
Matches: 404, Mismatches: 51, Indels: 57
0.79 0.10 0.11
Matches are distributed among these distances:
19 4 0.01
20 6 0.01
21 166 0.41
22 191 0.47
23 12 0.03
24 7 0.02
26 3 0.01
27 2 0.00
28 2 0.00
29 6 0.01
30 5 0.01
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.44
Consensus pattern (21 bp):
TTTTAAGTTAAGGGTTAGGGT
Found at i:49898043 original size:50 final size:50
Alignment explanation
Indices: 49897968--49898410 Score: 216
Period size: 43 Copynumber: 10.0 Consensus size: 50
49897958 TCATGGACGC
*
49897968 GCTTTTAAGTTAAGGGTTAGGGTTTTAAAGTTAAGGG-TTAGGGTTTTAA
1 GCTTTAAAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTAA
* *
49898017 GGCTTTAAAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTGGGGTTTTTA
1 -GCTTTAAAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTAA
* *
49898068 GC-TT-AAG----GGTTTATGGTTTTAAAGTTAAGGG-TTAGGG---T--
1 GCTTTAAAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTAA
*
49898106 --TTTAAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAA
1 GCTTTAAAGTTAAGGG-TTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTAA
* ** *
49898155 G--TT-AAG----GGTTTAGAATTTTTAAGTTAAGGG-TTAGGG-TTT--
1 GCTTTAAAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTAA
* *
49898194 --TTT--AGTTAAGGGTTTAGGGTTTTTAAGTTAAAGGTTTAGGG------
1 GCTTTAAAGTTAAGGG-TTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTAA
* *
49898235 G-TTTAAAATTAAGGGTTAGGAGTTTT-AAGTTAAGGG-TTAGTG-TTT--
1 GCTTTAAAGTTAAGGGTTAGG-GTTTTAAAGTTAAGGGTTTAGGGTTTTAA
* *
49898280 --TTT--ATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG---T--
1 GCTTTAAAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTAA
* * * *
49898321 --TTTAAAGTCAAGAGTTAGGGTTTTTAGGTTAAGGGTTTAGGG--TT--
1 GCTTTAAAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTAA
*
49898365 --TTT-AGGTTAAGGGTTTATGGGTTTT-AAGTTAAGGGTTTAGGGTTTT
1 GCTTTAAAGTTAAGGG-TTA-GGGTTTTAAAGTTAAGGGTTTAGGGTTTT
49898411 TAATTTAAAT
Statistics
Matches: 326, Mismatches: 29, Indels: 80
0.75 0.07 0.18
Matches are distributed among these distances:
37 2 0.01
38 5 0.02
39 2 0.01
40 1 0.00
41 12 0.04
42 41 0.13
43 120 0.37
44 75 0.23
45 7 0.02
46 2 0.01
47 1 0.00
48 6 0.02
49 4 0.01
50 38 0.12
51 10 0.03
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.43
Consensus pattern (50 bp):
GCTTTAAAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTAA
Found at i:49898089 original size:65 final size:64
Alignment explanation
Indices: 49898024--49898474 Score: 478
Period size: 65 Copynumber: 7.0 Consensus size: 64
49898014 TAAGGCTTTA
* * *
49898024 AAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTGGGGTTTTTAGCTTAAGGGTTTATGGTTTTA
1 AAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTGGGGTTTTAAG-TTAAGGGTTTAGGGTTTTT
*
49898089 AAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGG-TTTT
1 AAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTT-GGGGTTTTAAGTTAAGGGTTTAGGGTTTTT
** * * * *
49898153 AAGTTAAGGGTTTAGAATTTTTAAGTTAAGGGTTAGGGTTTTTTAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGG-TTAGGGTTTTAAAGTTAAGGGTTTGGGGTTTTAAGTTAAGGGTTTAGGGTTTTT
* * * * * *
49898218 AAGTTAAAGGTTTAGGGGTTTAAAATTAAGGGTTAGGAGTTTTAAGTTAAGGG-TTAGTGTTTTT
1 AAGTT-AAGGGTTAGGGTTTTAAAGTTAAGGGTTTGGGGTTTTAAGTTAAGGGTTTAGGGTTTTT
* * * * * *
49898282 TATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGTCAAGAG-TTAGGGTTTTT
1 AAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTGGGGTTTT-AAGTTAAGGGTTTAGGGTTTTT
* * * *
49898346 AGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTTATGGGTTTTAAGTTAAGGGTTTAGGGTTTT
1 AAGTTAAGGG-TTAGGGTTTTAAAGTTAAGGGTTT-GGGGTTTTAAGTTAAGGGTTTAGGGTTTT
49898411 T
64 T
* *** ** * * *
49898412 AATTTAAATATTAGGG-TTTAGGGTTTTTAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTT
1 AAGTTAAGGGTTAGGGTTTTAAAG--TTAAGGGTTTGGGGTTTTAAGTTAAGGGTTTAGGGTTT
49898475 GTCAATTAAA
Statistics
Matches: 327, Mismatches: 49, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
63 30 0.09
64 80 0.24
65 173 0.53
66 44 0.13
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.44
Consensus pattern (64 bp):
AAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTGGGGTTTTAAGTTAAGGGTTTAGGGTTTTT
Found at i:49898106 original size:43 final size:43
Alignment explanation
Indices: 49898025--49898412 Score: 470
Period size: 43 Copynumber: 9.0 Consensus size: 43
49898015 AAGGCTTTAA
* *
49898025 AGTTAAGGG-TTAGGGTTTTAAAGTTAAGGGTTTGGGGTTTTT
1 AGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
* * *
49898067 AGCTTAAGGGTTTATGGTTTTAAAGTTAAGGG-TTAGGGTTTTAA
1 AG-TTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTT-T
*
49898111 AGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTA
1 AGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
**
49898154 AGTTAAGGGTTTAGAATTTTTAAGTTAAGGG-TTAGGGTTTTTT
1 AGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGG-TTTTT
* **
49898197 AGTTAAGGGTTTAGGGTTTTTAAGTTAAAGGTTTAGGGGTTTAA
1 AGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTA-GGGTTTTT
* *
49898241 AATTAAGGG-TTAGGAG-TTTTAAGTTAAGGG-TTAGTGTTTTTT
1 AGTTAAGGGTTTAGG-GTTTTTAAGTTAAGGGTTTAG-GGTTTTT
* *
49898283 ATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAA
1 AGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTT-T
* * *
49898326 AGTCAAGAG-TTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTT
1 AGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
49898368 AGGTTAAGGGTTTATGGG-TTTTAAGTTAAGGGTTTAGGGTTTTT
1 A-GTTAAGGGTTTA-GGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
49898412 A
1 A
49898413 ATTTAAATAT
Statistics
Matches: 302, Mismatches: 29, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
41 2 0.01
42 48 0.16
43 170 0.56
44 76 0.25
45 6 0.02
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.44
Consensus pattern (43 bp):
AGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
Found at i:49898449 original size:15 final size:16
Alignment explanation
Indices: 49898422--49898455 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
49898412 AATTTAAATA
49898422 TTAGGGTTTAGGGTTT
1 TTAGGGTTTAGGGTTT
49898438 TTAGGG-TTAGGGTTT
1 TTAGGGTTTAGGGTTT
49898453 TTA
1 TTA
49898456 AGTTAAGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (16 bp):
TTAGGGTTTAGGGTTT
Found at i:49898464 original size:15 final size:15
Alignment explanation
Indices: 49898429--49898467 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
49898419 ATATTAGGGT
*
49898429 TTAGGGTTTTTAGGG
1 TTAGGGTTTTTAGAG
49898444 TTAGGGTTTTTA-AG
1 TTAGGGTTTTTAGAG
49898458 TTAAGGGTTT
1 TT-AGGGTTT
49898468 AGGGTTTGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (15 bp):
TTAGGGTTTTTAGAG
Found at i:49898474 original size:22 final size:22
Alignment explanation
Indices: 49897970--49898418 Score: 501
Period size: 22 Copynumber: 20.5 Consensus size: 22
49897960 ATGGACGCGC
49897970 TTTTAAGTTAAGGG-TTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
49897991 TTTAAAGTTAAGGG-TTAGGG-
1 TTTTAAGTTAAGGGTTTAGGGT
*
49898011 TTTTAAGGCTTTAAAGTTAAGGGTTAGGGT
1 TTTTAA-G--TT-AAG----GGTTTAGGGT
* *
49898041 TTTAAAGTTAAGGGTTTGGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
49898063 TTTT-AGCTTAAGGGTTTATGGT
1 TTTTAAG-TTAAGGGTTTAGGGT
*
49898085 TTTAAAGTTAAGGG-TTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
49898106 TTTAAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
49898128 TTTTAAGTTAAGGGTTTAGGG-
1 TTTTAAGTTAAGGGTTTAGGGT
**
49898149 TTTTAAGTTAAGGGTTTAGAAT
1 TTTTAAGTTAAGGGTTTAGGGT
49898171 TTTTAAGTTAAGGG-TTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
49898192 TTTTTAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
* *
49898214 TTTTAAGTTAAAGGTTTAGGGG
1 TTTTAAGTTAAGGGTTTAGGGT
* *
49898236 TTTAAAATTAAGGG-TTAGGAG-
1 TTTTAAGTTAAGGGTTTAGG-GT
*
49898257 TTTTAAGTTAAGGG-TTAGTGT
1 TTTTAAGTTAAGGGTTTAGGGT
* *
49898278 TTTTTATTTAAGGG-TTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
49898299 TTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
* * *
49898321 TTTAAAGTCAAGAG-TTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
49898342 TTTTAGGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
49898364 TTTTAGGTTAAGGGTTTATGGG-
1 TTTTAAGTTAAGGGTTTA-GGGT
49898386 TTTTAAGTTAAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
49898408 TTTTAATTTAA
1 TTTTAAGTTAA
49898419 ATATTAGGGT
Statistics
Matches: 368, Mismatches: 39, Indels: 41
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.02
21 150 0.41
22 183 0.50
23 7 0.02
24 3 0.01
26 3 0.01
27 2 0.01
28 2 0.01
29 7 0.02
30 5 0.01
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.43
Consensus pattern (22 bp):
TTTTAAGTTAAGGGTTTAGGGT
Found at i:49898483 original size:22 final size:21
Alignment explanation
Indices: 49898440--49898483 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
49898430 TAGGGTTTTT
*
49898440 AGGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTCAAGTTA
49898461 AGGGTTTAGGGTTTGTCAA-TTA
1 AGGG-TTAGGGTTT-TCAAGTTA
49898483 A
1 A
49898484 ATTATACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 13 0.65
23 3 0.15
ACGTcount: A:0.25, C:0.02, G:0.32, T:0.41
Consensus pattern (21 bp):
AGGGTTAGGGTTTTCAAGTTA
Found at i:49899041 original size:18 final size:18
Alignment explanation
Indices: 49899015--49899057 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
49899005 GACTCGAAAA
*
49899015 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGTT
*
49899033 AGGATACATAAAAGGGTT
1 AGGAAACATAAAAGGGTT
*
49899051 TGGAAAC
1 AGGAAAC
49899058 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.07, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGAAACATAAAAGGGTT
Found at i:49899935 original size:20 final size:20
Alignment explanation
Indices: 49899898--49899935 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49899888 TTTATTTTTA
*
49899898 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
49899918 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
49899936 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:49900814 original size:11 final size:11
Alignment explanation
Indices: 49900795--49900832 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
49900785 TAGGGATTTA
49900795 AGAGGAAATTG
1 AGAGGAAATTG
*
49900806 AGAGCAAATTG
1 AGAGGAAATTG
49900817 AGAGGAAATTTG
1 AGAGGAAA-TTG
49900829 AGAG
1 AGAG
49900833 AGGATTAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.45, C:0.03, G:0.34, T:0.18
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:49915829 original size:19 final size:19
Alignment explanation
Indices: 49915807--49915868 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
49915797 TAAATTTTAG
49915807 TAAATGCTAATAATTTAAA
1 TAAATGCTAATAATTTAAA
* *
49915826 TAAATACTAAT-ATATAATA
1 TAAATGCTAATAATTTAA-A
49915845 TAAATAG-TATATAATTT-AA
1 TAAAT-GCTA-ATAATTTAAA
49915864 TAAAT
1 TAAAT
49915869 AAATAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 5 0.14
19 24 0.69
20 3 0.09
21 3 0.09
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
TAAATGCTAATAATTTAAA
Found at i:49915859 original size:23 final size:24
Alignment explanation
Indices: 49915814--49915874 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
49915804 TAGTAAATGC
*
49915814 TAATAATTTAAATAAATACTAATA
1 TAATAATATAAATAAATACTAATA
* *
49915838 T-ATAATATAAATAGTATA-TAATT
1 TAATAATATAAATA-AATACTAATA
49915861 TAATAA-ATAAATAA
1 TAATAATATAAATAA
49915875 TTATTTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 23 0.74
24 8 0.26
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
TAATAATATAAATAAATACTAATA
Found at i:49915883 original size:24 final size:24
Alignment explanation
Indices: 49915841--49915887 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
49915831 ACTAATATAT
49915841 AATATAAATAGTATATAATTTAAT
1 AATATAAATAGTATATAATTTAAT
* *
49915865 AA-ATAAATAATTATTTAATTTAA
1 AATATAAAT-AGTATATAATTTAA
49915888 ATTAAATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AATATAAATAGTATATAATTTAAT
Found at i:49915956 original size:40 final size:40
Alignment explanation
Indices: 49915905--49915982 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
49915895 GGAAAAATAA
*
49915905 AATTTTCAAAATTTGTATTTATCTAATTAAAAATTTATCT
1 AATTTTCAAAATTTATATTTATCTAATTAAAAATTTATCT
* * *
49915945 AATTTTTAAAATTTATGTTTATCTAATTAAATATTTAT
1 AATTTTCAAAATTTATATTTATCTAATTAAAAATTTAT
49915983 TTAAACATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (40 bp):
AATTTTCAAAATTTATATTTATCTAATTAAAAATTTATCT
Found at i:49916003 original size:29 final size:28
Alignment explanation
Indices: 49915968--49916033 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
49915958 TATGTTTATC
49915968 TAATTAAATATTTATTTAAACATAAAAT-
1 TAATTAAATATTTA-TTAAACATAAAATA
* * *
49915996 TAACTTAAAAATTTATTATAGATAAAATA
1 TAA-TTAAATATTTATTAAACATAAAATA
49916025 TAATTAAAT
1 TAATTAAAT
49916034 TAAATATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (28 bp):
TAATTAAATATTTATTAAACATAAAATA
Found at i:49920384 original size:4 final size:4
Alignment explanation
Indices: 49920375--49920456 Score: 53
Period size: 4 Copynumber: 20.8 Consensus size: 4
49920365 TTTTCACTTG
* ** * *
49920375 TTTA TTTA TTCA -TTA TTCC TTTTA TTTTA TTCA TTTA TTTA TTCA TTTA
1 TTTA TTTA TTTA TTTA TTTA TT-TA TT-TA TTTA TTTA TTTA TTTA TTTA
* * *
49920424 CTTA TTTA TATA -TTA TTTA TTCA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
49920457 TAATCATTCT
Statistics
Matches: 58, Mismatches: 16, Indels: 8
0.71 0.20 0.10
Matches are distributed among these distances:
3 7 0.12
4 44 0.76
5 7 0.12
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:49920417 original size:12 final size:12
Alignment explanation
Indices: 49920395--49920452 Score: 62
Period size: 12 Copynumber: 4.5 Consensus size: 12
49920385 CATTATTCCT
49920395 TTTATTTTATTCA
1 TTTA-TTTATTCA
49920408 TTTATTTATTCA
1 TTTATTTATTCA
* *
49920420 TTTACTTATTTATA
1 TTTATTTA-TT-CA
49920434 TATTATTTATTCA
1 T-TTATTTATTCA
49920447 TTTATT
1 TTTATT
49920453 ATTTTAATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 20 0.53
13 8 0.21
14 4 0.11
15 6 0.16
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTATTTATTCA
Found at i:49920458 original size:27 final size:29
Alignment explanation
Indices: 49920396--49920471 Score: 99
Period size: 27 Copynumber: 2.8 Consensus size: 29
49920386 ATTATTCCTT
49920396 TTATTTTAT-TCATTTATTTATTCATTTAC
1 TTATTTTATATCA-TTATTTATTCATTTAC
49920425 TTA-TTTATAT-ATTATTTATTCATTTA-
1 TTATTTTATATCATTATTTATTCATTTAC
*
49920451 TTATTTTA-ATCATTCTTTATT
1 TTATTTTATATCATTATTTATT
49920472 GTTTATTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
26 5 0.12
27 28 0.65
28 6 0.14
29 4 0.09
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (29 bp):
TTATTTTATATCATTATTTATTCATTTAC
Found at i:49925514 original size:14 final size:15
Alignment explanation
Indices: 49925488--49925520 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
49925478 TGCAAAATTG
*
49925488 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
49925503 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
49925517 GGAA
1 GGAA
49925521 AAACGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:49925646 original size:17 final size:17
Alignment explanation
Indices: 49925614--49925645 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
49925604 AAATATATAA
49925614 AAAAGAGAAAAGAAAAT
1 AAAAGAGAAAAGAAAAT
49925631 AAAAGA-AAAAGAAAA
1 AAAAGAGAAAAGAAAA
49925646 AATGGGAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (17 bp):
AAAAGAGAAAAGAAAAT
Found at i:49926660 original size:44 final size:44
Alignment explanation
Indices: 49926532--49927134 Score: 244
Period size: 44 Copynumber: 13.6 Consensus size: 44
49926522 CATTATGACG
* **
49926532 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACT
* * * * *
49926576 AATCTTATCCCCCTAAATTTGCAGTGGGGCAGATTGAAGATA-T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACT
* *
49926619 AAGTGTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-ACT
* * * * * * *
49926665 AACCTTATTTCCCTAAAGTTGCAGTAGAACAGATTGAAGCTATAAATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT--ACT
* * * * * *
49926713 ACAGATCTTATCTCTCTGAAGCTGTAGTAGAGCAGA-T---CATAGCA
1 --A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CT
* * *
49926757 AACCTTATCTCCCCGAAGTTGCAGT---G--G--T--AG---CG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACT
* * * *
49926789 AATCTTATATCCCTGAAGTTACAGTGGAACAG-CTTGAAGTTAC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-TGAAGATACT
* *
49926832 AAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGATAGC-
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CT
* * ** * * *
49926877 AATCTTATTTCCCTGAAGTTGCAGCGGAATAGATTAAAGCTATATATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT---G--A-AGA-TACT
** * * * * * *
49926928 AATCTTATCTCTTTGAAGTTGTAGTAGAGAAGA-T-CATAT-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACT
* *
49926969 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGGCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA--CT
* * * * ** *
49927015 ACAAATCTTATCTCCCTGAACTTGTAGTGGAGCAGATTAAAGCCACA
1 ---AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACT
* * * *
49927062 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CT
* * *
49927107 AATCTCATTTCCCTGGAGTTGCAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
49927135 ACTGATTAAA
Statistics
Matches: 419, Mismatches: 97, Indels: 85
0.70 0.16 0.14
Matches are distributed among these distances:
32 22 0.05
35 1 0.00
36 1 0.00
37 1 0.00
38 1 0.00
39 1 0.00
41 50 0.12
42 3 0.01
43 12 0.03
44 161 0.38
45 62 0.15
46 3 0.01
47 4 0.01
48 2 0.00
49 37 0.09
50 6 0.01
51 52 0.12
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACT
Found at i:49926709 original size:89 final size:88
Alignment explanation
Indices: 49926536--49926709 Score: 231
Period size: 89 Copynumber: 2.0 Consensus size: 88
49926526 ATGACGAATC
* * * *
49926536 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCACTAATCTTATCCCCCTAAATTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCAACGAACCTTATCCCCCTAAAGTTGCAGT
* **
49926601 GGGGCAGATTGAAGATATAAGTG
66 AGAACAGATTGAAGATATAAGTG
* * **
49926624 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAACCTTATTTCCCTAAAGTTGCAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-CAACGAACCTTATCCCCCTAAAGTTGCAG
*
49926689 TAGAACAGATTGAAGCTATAA
65 TAGAACAGATTGAAGATATAA
49926710 ATTACAGATC
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
88 34 0.47
89 39 0.53
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (88 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCAACGAACCTTATCCCCCTAAAGTTGCAGT
AGAACAGATTGAAGATATAAGTG
Found at i:49926953 original size:212 final size:213
Alignment explanation
Indices: 49926609--49926995 Score: 596
Period size: 212 Copynumber: 1.8 Consensus size: 213
49926599 GTGGGGCAGA
* * *
49926609 TTGAAGATATAAGTGTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAACCTTATT
1 TTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAACGAACCTTATT
* * *
49926674 TCCCTAAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGCTGTA
66 TCCCTAAAGTTGCAGCAGAACAGATTAAAGCTATAAATTACAAATCTTATCTCTCTGAAGCTGTA
*
49926739 GTAGAGCAGATCATAGCAAACCTTATCTCCCCGAAGTTGCAGTGGTAGCGAATCTTATATCCCTG
131 GTAGAGAAGATCATAGCAAACCTTATCTCCCCGAAGTTGCAGTGGTAGCGAATCTTATATCCCTG
49926804 AAGTTACAGTGGAACAGC
196 AAGTTACAGTGGAACAGC
* * * *
49926822 TTGAAGTTACAAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGATAGC-AATCTTATT
1 TTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAACGAACCTTATT
* * * * * *
49926886 TCCCTGAAGTTGCAGCGGAATAGATTAAAGCTATATATTACAAATCTTATCTCTTTGAAGTTGTA
66 TCCCTAAAGTTGCAGCAGAACAGATTAAAGCTATAAATTACAAATCTTATCTCTCTGAAGCTGTA
* *
49926951 GTAGAGAAGATCATATCAAACCTTATCTCCCTGAAGTTGCAGTGG
131 GTAGAGAAGATCATAGCAAACCTTATCTCCCCGAAGTTGCAGTGG
49926996 AGCAGATTGA
Statistics
Matches: 155, Mismatches: 19, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
212 106 0.68
213 49 0.32
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (213 bp):
TTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAACGAACCTTATT
TCCCTAAAGTTGCAGCAGAACAGATTAAAGCTATAAATTACAAATCTTATCTCTCTGAAGCTGTA
GTAGAGAAGATCATAGCAAACCTTATCTCCCCGAAGTTGCAGTGGTAGCGAATCTTATATCCCTG
AAGTTACAGTGGAACAGC
Found at i:49927028 original size:49 final size:48
Alignment explanation
Indices: 49926967--49927186 Score: 202
Period size: 44 Copynumber: 4.6 Consensus size: 48
49926957 AAGATCATAT
*
49926967 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-GCTA
* * *
49927016 CAAATCTTATCTCCCTGAACTTGTAGTGGAGCAGATT--A-A-AGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCTA
* *
49927060 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAG---
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCTA
* * * * * * * * *
49927105 CGAATCTCATTTCCCTGGAGTTGCAGTGGAACTGATTAAAGCTACGAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAGCTA
* *
49927156 CAAATCTAATCTCCCTGAAGTTACAGTGGAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAG
49927187 TGGATCGAAA
Statistics
Matches: 137, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 36 0.26
45 33 0.24
46 2 0.01
47 3 0.02
48 4 0.03
49 34 0.25
51 25 0.18
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (48 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCTA
Found at i:49927416 original size:209 final size:209
Alignment explanation
Indices: 49927056--49927472 Score: 834
Period size: 209 Copynumber: 2.0 Consensus size: 209
49927046 GCAGATTAAA
49927056 GCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCGAATCTCATTTCCCT
1 GCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCGAATCTCATTTCCCT
49927121 GGAGTTGCAGTGGAACTGATTAAAGCTACGAGTTACAAATCTAATCTCCCTGAAGTTACAGTGGA
66 GGAGTTGCAGTGGAACTGATTAAAGCTACGAGTTACAAATCTAATCTCCCTGAAGTTACAGTGGA
49927186 GTGGATCGAAACACTAATTCCTATACCCCTGAAGATGCAGAGGGATGGAATAAGGCTACTTGAAG
131 GTGGATCGAAACACTAATTCCTATACCCCTGAAGATGCAGAGGGATGGAATAAGGCTACTTGAAG
49927251 AAAAGAAGCAGAAT
196 AAAAGAAGCAGAAT
49927265 GCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCGAATCTCATTTCCCT
1 GCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCGAATCTCATTTCCCT
49927330 GGAGTTGCAGTGGAACTGATTAAAGCTACGAGTTACAAATCTAATCTCCCTGAAGTTACAGTGGA
66 GGAGTTGCAGTGGAACTGATTAAAGCTACGAGTTACAAATCTAATCTCCCTGAAGTTACAGTGGA
49927395 GTGGATCGAAACACTAATTCCTATACCCCTGAAGATGCAGAGGGATGGAATAAGGCTACTTGAAG
131 GTGGATCGAAACACTAATTCCTATACCCCTGAAGATGCAGAGGGATGGAATAAGGCTACTTGAAG
49927460 AAAAGAAGCAGAA
196 AAAAGAAGCAGAA
49927473 AAAAGTCGAT
Statistics
Matches: 208, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
209 208 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (209 bp):
GCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCGAATCTCATTTCCCT
GGAGTTGCAGTGGAACTGATTAAAGCTACGAGTTACAAATCTAATCTCCCTGAAGTTACAGTGGA
GTGGATCGAAACACTAATTCCTATACCCCTGAAGATGCAGAGGGATGGAATAAGGCTACTTGAAG
AAAAGAAGCAGAAT
Found at i:49928074 original size:18 final size:17
Alignment explanation
Indices: 49928032--49928075 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
49928022 TTGGTTTTGA
*
49928032 TCTTTTCCTTGTTTCTTT
1 TCTTTT-CTCGTTTCTTT
49928050 TCGTTTTCTCGTTTCTTTT
1 TC-TTTTCTCGTTTC-TTT
49928069 TCTTTTC
1 TCTTTTC
49928076 ATTTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.00, C:0.23, G:0.07, T:0.70
Consensus pattern (17 bp):
TCTTTTCTCGTTTCTTT
Found at i:49928958 original size:16 final size:15
Alignment explanation
Indices: 49928935--49928995 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
49928925 TTTTCACTTG
49928935 TTCATTTATTCATTA
1 TTCATTTATTCATTA
*
49928950 TTCATTTTATTTATTA
1 TTCA-TTTATTCATTA
* * *
49928966 TTTTACTTATTTATATA
1 -TTCATTTATTCAT-TA
49928983 TT-ATTTATTCATT
1 TTCATTTATTCATT
49928996 GATTATTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.03
15 12 0.32
16 20 0.53
17 5 0.13
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (15 bp):
TTCATTTATTCATTA
Found at i:49929003 original size:15 final size:13
Alignment explanation
Indices: 49928947--49928995 Score: 55
Period size: 12 Copynumber: 3.7 Consensus size: 13
49928937 CATTTATTCA
49928947 TTATTCATTTTAT
1 TTATTCATTTTAT
*
49928960 TTATT-ATTTTAC
1 TTATTCATTTTAT
*
49928972 TTATTTATATATTAT
1 TTATTCAT-T-TTAT
49928987 TTATTCATT
1 TTATTCATT
49928996 GATTATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 11 0.37
13 7 0.23
14 2 0.07
15 10 0.33
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTCATTTTAT
Found at i:49929133 original size:47 final size:47
Alignment explanation
Indices: 49929080--49929178 Score: 198
Period size: 47 Copynumber: 2.1 Consensus size: 47
49929070 AATTTCTTTT
49929080 ATTATCTTTTATGTATATCATGGTTTAATTAACATTAGATTTAATTG
1 ATTATCTTTTATGTATATCATGGTTTAATTAACATTAGATTTAATTG
49929127 ATTATCTTTTATGTATATCATGGTTTAATTAACATTAGATTTAATTG
1 ATTATCTTTTATGTATATCATGGTTTAATTAACATTAGATTTAATTG
49929174 ATTAT
1 ATTAT
49929179 TGCCATTGCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (47 bp):
ATTATCTTTTATGTATATCATGGTTTAATTAACATTAGATTTAATTG
Found at i:49931289 original size:18 final size:18
Alignment explanation
Indices: 49931263--49931300 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
49931253 AGATGTATTT
49931263 CATAATCAGATACAAATG
1 CATAATCAGATACAAATG
*
49931281 CATATTCAGATACAAATG
1 CATAATCAGATACAAATG
49931299 CA
1 CA
49931301 AGCATAAATT
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:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (18 bp):
CATAATCAGATACAAATG
Found at i:49931330 original size:24 final size:24
Alignment explanation
Indices: 49931284--49931330 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
49931274 ACAAATGCAT
*
49931284 ATTCAGATACAAATGCAAGCATAA
1 ATTCAGATACAAATACAAGCATAA
* * *
49931308 ATTCTGATACAGATACAATCATA
1 ATTCAGATACAAATACAAGCATA
49931331 GATCCTACCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.26
Consensus pattern (24 bp):
ATTCAGATACAAATACAAGCATAA
Found at i:49931918 original size:31 final size:31
Alignment explanation
Indices: 49931877--49931937 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
49931867 AAATAGCTCC
* * *
49931877 ACATGGCCCAACTGGCCAGCTCGTGTGGCCT
1 ACATGACCCAACTGGCCAACCCGTGTGGCCT
49931908 ACATGACCCAACTGGCCAACCCGTGTGGCC
1 ACATGACCCAACTGGCCAACCCGTGTGGCC
49931938 CAAACGACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.20, C:0.38, G:0.26, T:0.16
Consensus pattern (31 bp):
ACATGACCCAACTGGCCAACCCGTGTGGCCT
Found at i:49934883 original size:6 final size:6
Alignment explanation
Indices: 49934874--49934902 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
49934864 GATTCAGATA
49934874 CAAATG CAAATG CAAATG CAAATG CAAAT
1 CAAATG CAAATG CAAATG CAAATG CAAAT
49934903 TTTAATACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.14, T:0.17
Consensus pattern (6 bp):
CAAATG
Found at i:49937296 original size:15 final size:15
Alignment explanation
Indices: 49937246--49937297 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
49937236 TGCTTGGAGA
49937246 TAGCTCACACTTCAC
1 TAGCTCACACTTCAC
* * *
49937261 CAGCTCGCA-TGCA-
1 TAGCTCACACTTCAC
*
49937274 TGGCTCACACTTCAC
1 TAGCTCACACTTCAC
49937289 TAGCTCACA
1 TAGCTCACA
49937298 TAAATTTCTT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
13 6 0.22
14 6 0.22
15 15 0.56
ACGTcount: A:0.25, C:0.38, G:0.13, T:0.23
Consensus pattern (15 bp):
TAGCTCACACTTCAC
Found at i:49938709 original size:29 final size:30
Alignment explanation
Indices: 49938667--49938723 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
49938657 GAATTAGATT
*
49938667 AAATCAAAATTTCATGTATAAAATTGCATA
1 AAATCAAAAGTTCATGTATAAAATTGCATA
**
49938697 AAATC-AAAGTTCATGTATTCAATTGCA
1 AAATCAAAAGTTCATGTATAAAATTGCA
49938724 CATTAAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTGCATA
Found at i:49946440 original size:35 final size:35
Alignment explanation
Indices: 49946401--49946598 Score: 100
Period size: 35 Copynumber: 5.9 Consensus size: 35
49946391 ATCGAATGTA
* **
49946401 TATAACCAAATGTATGTATATACTCATCAAATACT
1 TATAACCAAATGCATAAATATACTCATCAAATACT
* * *
49946436 TATAACCGAATGCATAAATATACTTATCAACTACT
1 TATAACCAAATGCATAAATATACTCATCAAATACT
* * * *
49946471 TATAATCGAATGC----ATATACACATCAAAT-GT
1 TATAACCAAATGCATAAATATACTCATCAAATACT
* *
49946501 ATACAACCGAATGCAT--ATATAC-CTATCAAATACT
1 -TATAACCAAATGCATAAATATACTC-ATCAAATACT
* * *
49946535 TATAATCGAATGC----ATATACACATCAAAGGTA--
1 TATAACCAAATGCATAAATATACTCATCAAA--TACT
* * *
49946566 TATAACCGAATGCATATATATACTTATCAAATA
1 TATAACCAAATGCATAAATATACTCATCAAATA
49946599 AGATATAAAT
Statistics
Matches: 132, Mismatches: 19, Indels: 26
0.75 0.11 0.15
Matches are distributed among these distances:
30 1 0.01
31 47 0.36
32 2 0.02
33 28 0.21
34 1 0.01
35 53 0.40
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (35 bp):
TATAACCAAATGCATAAATATACTCATCAAATACT
Found at i:49946496 original size:31 final size:31
Alignment explanation
Indices: 49946418--49946583 Score: 158
Period size: 31 Copynumber: 5.2 Consensus size: 31
49946408 AAATGTATGT
*
49946418 ATATACTCATCAAATACTTATAACCGAATGC
1 ATATACACATCAAATACTTATAACCGAATGC
* * *
49946449 ATAAATATACTTATCAACTACTTATAATCGAATGC
1 AT--ATACAC--ATCAAATACTTATAACCGAATGC
* *
49946484 ATATACACATCAAAT-GTATACAACCGAATGC
1 ATATACACATCAAATACT-TATAACCGAATGC
* *
49946515 ATATATACCTATCAAATACTTATAATCGAATGC
1 ATATACA-C-ATCAAATACTTATAACCGAATGC
49946548 ATATACACATCAAAGGTA--TATAACCGAATGC
1 ATATACACATCAAA--TACTTATAACCGAATGC
49946579 ATATA
1 ATATA
49946584 TATACTTATC
Statistics
Matches: 110, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
30 1 0.01
31 48 0.44
32 2 0.02
33 35 0.32
34 1 0.01
35 23 0.21
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (31 bp):
ATATACACATCAAATACTTATAACCGAATGC
Found at i:49946496 original size:66 final size:64
Alignment explanation
Indices: 49946418--49946598 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
49946408 AAATGTATGT
* *
49946418 ATATACTCATCAAATACTTATAACCGAATGCATAAATATACTTATCAACTACTTATAATCGAATG
1 ATATACACATCAAATA-TTATAACCGAATGCAT-AATATACTTATCAAATACTTATAATCGAATG
49946483 C
64 C
* * *
49946484 ATATACACATCAAATGTATACAACCGAATGCAT-ATATACCTATCAAATACTTATAATCGAATGC
1 ATATACACATCAAATAT-TATAACCGAATGCATAATATACTTATCAAATACTTATAATCGAATGC
49946548 ATATACACATCAAAGGTA-TATAACCGAATGCATATATATACTTATCAAATA
1 ATATACACATCAAA--TATTATAACCGAATGCATA-ATATACTTATCAAATA
49946599 AGATATAAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
64 57 0.56
65 1 0.01
66 44 0.43
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (64 bp):
ATATACACATCAAATATTATAACCGAATGCATAATATACTTATCAAATACTTATAATCGAATGC
Found at i:49947194 original size:78 final size:78
Alignment explanation
Indices: 49946944--49947195 Score: 377
Period size: 76 Copynumber: 3.3 Consensus size: 78
49946934 AAGTATTTAC
* * * * * * *
49946944 AATTCATACTTTTAATTCAATTCAAGTACTTGTATATGTATATACATCTAT-TT-GAATCACACA
1 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
* *
49947007 CATACATATGTAA
66 TATACATATATAA
* *
49947020 AATTCATACCTTTAATTCAATTAAAAAACTTATACATGTATATACATATATATTCGAACCTCACA
1 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
49947085 TATACATATAT--
66 TATACATATATAA
49947096 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
1 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
49947161 TATACATATATAA
66 TATACATATATAA
49947174 AATTCATACCTTTAATTCAATT
1 AATTCATACCTTTAATTCAATT
49947196 TATATACTTT
Statistics
Matches: 159, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
76 118 0.74
77 2 0.01
78 39 0.25
ACGTcount: A:0.41, C:0.17, G:0.04, T:0.38
Consensus pattern (78 bp):
AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
TATACATATATAA
Found at i:49950465 original size:15 final size:16
Alignment explanation
Indices: 49950439--49950468 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49950429 TGAACCCTCT
49950439 TTTTCTTCTTCTCTTC
1 TTTTCTTCTTCTCTTC
49950455 TTTTC-TCTTCTCTT
1 TTTTCTTCTTCTCTT
49950469 TTCATTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTCTTCTTCTCTTC
Found at i:49951335 original size:80 final size:79
Alignment explanation
Indices: 49951225--49951445 Score: 264
Period size: 80 Copynumber: 2.7 Consensus size: 79
49951215 CCCTGAAGGA
* * *
49951225 TAAAATGACCGAAATACTCCCAGAGGGTAAAATGACCAAAGTACCCCAAGAGGGTAAAATAGCTG
1 TAAAATGACCGAAATACCCCCAAAGGGTAAAATGACCAAA-TACCCC-AGAGGGTAAAATAACTG
*
49951290 AAATACCCCCAGAGGG
64 AAAAACCCCCAGAGGG
* * * *
49951306 -AAAATAACTGAAATACCCCCAAAGGGTAAAATGACCAAAATACCCTCGGAGGGTAAAATAACTT
1 TAAAATGACCGAAATACCCCCAAAGGGTAAAATGACC-AAATACCC-CAGAGGGTAAAATAACTG
*
49951370 AAAAACCCTCAGAGGG
64 AAAAACCCCCAGAGGG
* * * *
49951386 TAAAACGACCGAAATACCCCCGAAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAAT
1 TAAAATGACCGAAATACCCCCAAAGGGTAAAATGAC-CAAATA-CCCCAGAGGGTAAAAT
49951446 GACTATTATA
Statistics
Matches: 119, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
80 65 0.55
81 51 0.43
82 3 0.03
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.14
Consensus pattern (79 bp):
TAAAATGACCGAAATACCCCCAAAGGGTAAAATGACCAAATACCCCAGAGGGTAAAATAACTGAA
AAACCCCCAGAGGG
Found at i:49951449 original size:27 final size:27
Alignment explanation
Indices: 49951173--49951449 Score: 251
Period size: 27 Copynumber: 10.3 Consensus size: 27
49951163 ATTCGTGGGC
* * * *
49951173 AAATGACTGAAAGACCCTCGGAGTGTA
1 AAATGACTGAAATACCCCCAGAGGGTA
* * *
49951200 AAATGAAC-GAAGTA-CCCCTGAAGGATA
1 AAATG-ACTGAAATACCCCCAG-AGGGTA
* *
49951227 AAATGACCGAAATACTCCCAGAGGGTA
1 AAATGACTGAAATACCCCCAGAGGGTA
* *
49951254 AAATGAC-CAAAGTACCCCAAGAGGGTA
1 AAATGACTGAAA-TACCCCCAGAGGGTA
49951281 AAAT-AGCTGAAATACCCCCAGAGGG-A
1 AAATGA-CTGAAATACCCCCAGAGGGTA
* *
49951307 AAATAACTGAAATACCCCCAAAGGGTA
1 AAATGACTGAAATACCCCCAGAGGGTA
** * *
49951334 AAATGACCAAAATACCCTCGGAGGGTA
1 AAATGACTGAAATACCCCCAGAGGGTA
* * * *
49951361 AAATAACTTAAAAACCCTCAGAGGGTA
1 AAATGACTGAAATACCCCCAGAGGGTA
* *
49951388 AAACGACCGAAATACCCCC-GAAGGGTA
1 AAATGACTGAAATACCCCCAG-AGGGTA
*
49951415 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCAGAGGGTA
49951442 AAATGACT
1 AAATGACT
49951450 ATTATACCCT
Statistics
Matches: 203, Mismatches: 36, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
26 34 0.17
27 160 0.79
28 9 0.04
ACGTcount: A:0.43, C:0.22, G:0.21, T:0.15
Consensus pattern (27 bp):
AAATGACTGAAATACCCCCAGAGGGTA
Found at i:49951477 original size:81 final size:77
Alignment explanation
Indices: 49951215--49951477 Score: 217
Period size: 81 Copynumber: 3.3 Consensus size: 77
49951205 AACGAAGTAC
* * *
49951215 CCCTGAAG-GATAAAATGACCGAAATACTCCCAGAGGGTAAAATGACCAAAGTACCCCAAGAGGG
1 CCCT-AAGAGATAAAATGACCGAAATACCCCCA-AGGGTAAAATGA-CAAAATACCCCCAGAGGG
49951279 TAAAATAGCTGA-AATA
63 TAAAATA-CT-ATAATA
** ** * * * *
49951295 CCCCCAGAGGGAAAATAACTGAAATACCCCCAAAGGGTAAAATGACCAAAATACCCTCGGAGGGT
1 CCCTAAGAGATAAAATGACCGAAATACCCCC-AAGGGTAAAATGA-CAAAATACCCCCAGAGGGT
*
49951360 AAAATAACT-TAAAAA
64 AAAAT-ACTAT-AATA
* * * * *
49951375 CCCTCAGAGGGTAAAACGACCGAAATACCCCCGAAGGGTAAAATGACTGAAATACCCCCATAGGG
1 CCCTAAGA-GATAAAATGACCGAAATACCCCC-AAGGGTAAAATGAC-AAAATACCCCCAGAGGG
*
49951440 TAAAATGACTATTATA
63 TAAAAT-ACTATAATA
49951456 CCCTTAAGAGATAAAATGACCG
1 CCC-TAAGAGATAAAATGACCG
49951478 TTATAGCCTT
Statistics
Matches: 146, Mismatches: 28, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
79 2 0.01
80 67 0.46
81 72 0.49
82 5 0.03
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (77 bp):
CCCTAAGAGATAAAATGACCGAAATACCCCCAAGGGTAAAATGACAAAATACCCCCAGAGGGTAA
AATACTATAATA
Found at i:49951804 original size:28 final size:28
Alignment explanation
Indices: 49951764--49951876 Score: 136
Period size: 28 Copynumber: 4.0 Consensus size: 28
49951754 ACTGTACTGG
*
49951764 TTACTATATTGGGCTAAGGCTCACACTA
1 TTACTATATTGGGCTAAGGCCCACACTA
* *
49951792 TTACTCTACTGGGCTAAGGCCCACACTA
1 TTACTATATTGGGCTAAGGCCCACACTA
* * *
49951820 TTACTGTATTGGGCTAAGGCCCACATTG
1 TTACTATATTGGGCTAAGGCCCACACTA
* * * *
49951848 TTATTGTTTTGGGCTAAGGCCCATACTA
1 TTACTATATTGGGCTAAGGCCCACACTA
49951876 T
1 T
49951877 ACTGCTACTG
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (28 bp):
TTACTATATTGGGCTAAGGCCCACACTA
Found at i:49958895 original size:27 final size:27
Alignment explanation
Indices: 49958853--49959182 Score: 284
Period size: 27 Copynumber: 12.3 Consensus size: 27
49958843 GATTCATGGG
*
49958853 AAAATGATCGAAATACCCCTGGAGGGT
1 AAAATGATCGAAATACCCCTAGAGGGT
* **
49958880 AAAGTGATCGAAATACCCCCGGAGGGT
1 AAAATGATCGAAATACCCCTAGAGGGT
*
49958907 AAAATGA-CTGAAATACCCCCAGAGGGT
1 AAAATGATC-GAAATACCCCTAGAGGGT
* *
49958934 AAAATGATCGAAGTA-TCCTCAGAGGGT
1 AAAATGATCGAAATACCCCT-AGAGGGT
* *
49958961 AAAATTA-CTAAAATAACCCC-AGAGGGT
1 AAAATGATC-GAAAT-ACCCCTAGAGGGT
*
49958988 AAAATGATCGAAATA-CCCTTGAGGGT
1 AAAATGATCGAAATACCCCTAGAGGGT
49959014 AAAATGAAT-GAAATACCCCTAGAGGGT
1 AAAATG-ATCGAAATACCCCTAGAGGGT
* * **
49959041 AAAATAATCGAAATACCCCCAGAGAAT
1 AAAATGATCGAAATACCCCTAGAGGGT
* * *
49959068 AAAATGACCAAAATATCCCC-AAAGGGT
1 AAAATGATCGAAATA-CCCCTAGAGGGT
* * *
49959095 AAAATGATTGAAATACCCC-CGAAAGGT
1 AAAATGATCGAAATACCCCTAG-AGGGT
* *
49959122 AAAATCA-CTGAAATA-CCCTCGAAGGGT
1 AAAATGATC-GAAATACCCCTAG-AGGGT
* * *
49959149 AAAATGACCGAAATACCCCAATAGGGT
1 AAAATGATCGAAATACCCCTAGAGGGT
49959176 AAAATGA
1 AAAATGA
49959183 CTATTATACC
Statistics
Matches: 248, Mismatches: 38, Indels: 34
0.77 0.12 0.11
Matches are distributed among these distances:
25 3 0.01
26 32 0.13
27 200 0.81
28 11 0.04
29 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (27 bp):
AAAATGATCGAAATACCCCTAGAGGGT
Found at i:49958920 original size:54 final size:54
Alignment explanation
Indices: 49958853--49959184 Score: 352
Period size: 54 Copynumber: 6.2 Consensus size: 54
49958843 GATTCATGGG
* * *
49958853 AAAATGA-TCGAAATACCCCTGGAGGGTAAAGTGATCGAAATACCCCCGGAGGGT
1 AAAATGACT-GAAATACCCCTAGAGGGTAAAATGATCGAAATACCCCCAGAGGGT
* * * *
49958907 AAAATGACTGAAATACCCCCAGAGGGTAAAATGATCGAAGTATCCTCAGAGGGT
1 AAAATGACTGAAATACCCCTAGAGGGTAAAATGATCGAAATACCCCCAGAGGGT
* * **
49958961 AAAATTACTAAAATAACCCC-AGAGGGTAAAATGATCGAAATA-CCCTTGAGGGT
1 AAAATGACTGAAAT-ACCCCTAGAGGGTAAAATGATCGAAATACCCCCAGAGGGT
* * **
49959014 AAAATGAATGAAATACCCCTAGAGGGTAAAATAATCGAAATACCCCCAGAGAAT
1 AAAATGACTGAAATACCCCTAGAGGGTAAAATGATCGAAATACCCCCAGAGGGT
** * * *
49959068 AAAATGACCAAAATATCCCC-AAAGGGTAAAATGATTGAAATACCCCC-GAAAGGT
1 AAAATGACTGAAATA-CCCCTAGAGGGTAAAATGATCGAAATACCCCCAG-AGGGT
* * * * *
49959122 AAAATCACTGAAATA-CCCTCGAAGGGTAAAATGACCGAAATACCCCAATAGGGT
1 AAAATGACTGAAATACCCCTAG-AGGGTAAAATGATCGAAATACCCCCAGAGGGT
49959176 AAAATGACT
1 AAAATGACT
49959185 ATTATACCTC
Statistics
Matches: 228, Mismatches: 41, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
52 8 0.04
53 41 0.18
54 169 0.74
55 10 0.04
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (54 bp):
AAAATGACTGAAATACCCCTAGAGGGTAAAATGATCGAAATACCCCCAGAGGGT
Found at i:49959577 original size:28 final size:28
Alignment explanation
Indices: 49959537--49959640 Score: 129
Period size: 28 Copynumber: 3.7 Consensus size: 28
49959527 ACTGTACCGG
*
49959537 TTACTGTATTGGGCTAAGGCCCACACTA
1 TTACTATATTGGGCTAAGGCCCACACTA
* *
49959565 TTACTATACTGGGCTACGGCCCACACTA
1 TTACTATATTGGGCTAAGGCCCACACTA
* * *
49959593 TTACTATATTGGGCTAAGGCCTACATTG
1 TTACTATATTGGGCTAAGGCCCACACTA
*
49959621 TTACTGCT-TTGGGCTAAGGC
1 TTACT-ATATTGGGCTAAGGC
49959641 ACACTGTACT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
28 65 0.98
29 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (28 bp):
TTACTATATTGGGCTAAGGCCCACACTA
Found at i:49964028 original size:50 final size:50
Alignment explanation
Indices: 49963901--49964142 Score: 238
Period size: 50 Copynumber: 4.9 Consensus size: 50
49963891 TGATAATAAC
* ** *
49963901 ATGCCAATGCCATGTCCCAGACACGGTCTTACATGGGA--T-TTTTCTTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * * ** * *
49963948 TACTGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTTATATCG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * **
49964000 ATGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * * *
49964050 GTGCCAACGCCATGTCCCAGATATAGTCTTACATGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* ** *
49964100 GTGCCAACACCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
49964143 TTACCCAAAT
Statistics
Matches: 160, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.01
49 33 0.21
50 119 0.74
51 2 0.01
52 5 0.03
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:49967530 original size:22 final size:21
Alignment explanation
Indices: 49967499--49967561 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
49967489 GTATTTCATA
49967499 TGTT-GCCTTTATGGCATAGTT
1 TGTTAGCCTTTATGGCATA-TT
49967520 TGTTAGCCTTTATGGCAT-TT
1 TGTTAGCCTTTATGGCATATT
* * *
49967540 TGCTAGCCTTTTTGGTATATT
1 TGTTAGCCTTTATGGCATATT
49967561 T
1 T
49967562 TGTAAGTCGC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 17 0.46
21 7 0.19
22 13 0.35
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.51
Consensus pattern (21 bp):
TGTTAGCCTTTATGGCATATT
Found at i:49976726 original size:60 final size:60
Alignment explanation
Indices: 49976633--49976880 Score: 257
Period size: 60 Copynumber: 4.1 Consensus size: 60
49976623 ACAGAGGTTT
* * * ** * * * *
49976633 CCACAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGTGTCCTTTTCATTTAATAGTCG
1 CCACAAAGGCTTTCCTGTCCAGAGTTTTGCCACAAAGGCATCCTTTACATTCAGTACTCG
* * * * *
49976693 CCACAAAGACTTTCCTATCCAGAGGTTTT-CCACAAAGCCATCCTTTGCATTCAGTACTCA
1 CCACAAAGGCTTTCCTGTCCAGA-GTTTTGCCACAAAGGCATCCTTTACATTCAGTACTCG
* * *
49976753 CCACAAAGGC-TTCCTTGTCCAGATTTTTTCCACAAATGCATCCTTTACATTCAGTACTCG
1 CCACAAAGGCTTTCC-TGTCCAGAGTTTTGCCACAAAGGCATCCTTTACATTCAGTACTCG
* * * * * *
49976813 CTACAAAGGCTTTCCTGTCCAGATTTTTGCCACAAAGGTATCATTTACGTTCAGTACTTG
1 CCACAAAGGCTTTCCTGTCCAGAGTTTTGCCACAAAGGCATCCTTTACATTCAGTACTCG
49976873 CCACAAAG
1 CCACAAAG
49976881 CATGTCCTTT
Statistics
Matches: 157, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
59 8 0.05
60 140 0.89
61 9 0.06
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (60 bp):
CCACAAAGGCTTTCCTGTCCAGAGTTTTGCCACAAAGGCATCCTTTACATTCAGTACTCG
Found at i:49977814 original size:22 final size:22
Alignment explanation
Indices: 49977788--49977841 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
49977778 TAACTCTCCC
49977788 TTAACTTAACAA-ATGTGTCCTT
1 TTAACTTAACAAGA-GTGTCCTT
*
49977810 TTAACTTAACAAGAGTTTCCTT
1 TTAACTTAACAAGAGTGTCCTT
*
49977832 TAAACTTAAC
1 TTAACTTAAC
49977842 TCAAGTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (22 bp):
TTAACTTAACAAGAGTGTCCTT
Found at i:49981277 original size:18 final size:20
Alignment explanation
Indices: 49981240--49981280 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
49981230 CTCTCAACAG
49981240 AAATTACAAAAGAATCAAAA
1 AAATTACAAAAGAATCAAAA
*
49981260 AAATT-CAAAA-ATTCAAAA
1 AAATTACAAAAGAATCAAAA
49981278 AAA
1 AAA
49981281 CAAATCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 5 0.25
20 5 0.25
ACGTcount: A:0.71, C:0.10, G:0.02, T:0.17
Consensus pattern (20 bp):
AAATTACAAAAGAATCAAAA
Found at i:49981341 original size:11 final size:11
Alignment explanation
Indices: 49981325--49981363 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
49981315 TATATTTTTT
49981325 TAAAAAAATTC
1 TAAAAAAATTC
*
49981336 T-AAAAATTTC
1 TAAAAAAATTC
*
49981346 AAAAAAAATTC
1 TAAAAAAATTC
49981357 TAAAAAA
1 TAAAAAA
49981364 TATATAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAAAAATTC
Found at i:49985062 original size:18 final size:19
Alignment explanation
Indices: 49985013--49985066 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
49985003 TTACTAAAAT
49985013 ACTATTAAGATAATTATTAA
1 ACTATTAAGATAA-TATTAA
**
49985033 A-T-TTAATTTAATATTAA
1 ACTATTAAGATAATATTAA
49985050 ACTATTAA-ATAATATTA
1 ACTATTAAGATAATATTA
49985067 TTTTTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 7 0.24
18 16 0.55
19 5 0.17
20 1 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
ACTATTAAGATAATATTAA
Found at i:49995051 original size:14 final size:14
Alignment explanation
Indices: 49995032--49995058 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49995022 TATGCAAAAT
49995032 ATAAAAGACATAAA
1 ATAAAAGACATAAA
49995046 ATAAAAGACATAA
1 ATAAAAGACATAA
49995059 TAGTGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (14 bp):
ATAAAAGACATAAA
Found at i:50000028 original size:40 final size:40
Alignment explanation
Indices: 49999984--50000207 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 40
49999974 TCCTCGTTCA
* *
49999984 AATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
50000024 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
50000064 AATGCCTTCGGGACTTAACCCGAATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
50000104 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
50000144 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
50000184 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50000208 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.93
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:50007919 original size:39 final size:40
Alignment explanation
Indices: 50007874--50008040 Score: 221
Period size: 40 Copynumber: 4.2 Consensus size: 40
50007864 CTCGTTCAAG
* * * *
50007874 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
*
50007913 TGCCTTCGGGACATAACCCGGA-TTAACAACTCGCACGAA
1 TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
*
50007952 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
* * * *
50007992 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
*
50008032 GGCCTTCGG
1 TGCCTTCGG
50008041 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 11 0.10
39 43 0.37
40 61 0.53
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
Found at i:50007995 original size:40 final size:39
Alignment explanation
Indices: 50007874--50008093 Score: 219
Period size: 40 Copynumber: 5.6 Consensus size: 39
50007864 CTCGTTCAAG
* * * * *
50007874 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAA
* *
50007913 TGCCTTCGGGACATAACCCGGA-TTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AA
50007952 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AA
* *
50007992 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AA
* ** * * * *
50008032 GGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAA
1 TGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACAA
* *
50008072 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
50008094 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 11 0.07
39 46 0.29
40 91 0.58
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAA
Found at i:50008102 original size:41 final size:41
Alignment explanation
Indices: 50008025--50008102 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
50008015 TTAGTATCTC
* * *
50008025 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
50008066 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
50008103 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:50012124 original size:18 final size:18
Alignment explanation
Indices: 50012090--50012136 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
50012080 GAATAGTGGC
*
50012090 TCACATGATAT-AATAGT
1 TCACATGAAATAAATAGT
*
50012107 TTACATGAAATAAATAGT
1 TCACATGAAATAAATAGT
*
50012125 TCACATAAAATA
1 TCACATGAAATA
50012137 GGCAATTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.32
Consensus pattern (18 bp):
TCACATGAAATAAATAGT
Found at i:50013108 original size:42 final size:43
Alignment explanation
Indices: 50013062--50013145 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
50013052 TACATAATTC
* *
50013062 ATAATAGGTTCACATATCGCTCAAT-ATAGGTTCGCATGTCAT
1 ATAATAGGTTCACATATCACTCAATCATAGATTCGCATGTCAT
* * *
50013104 ATAATAGGTTCGCATATCATTCAATCATAGATTCGTATGTCA
1 ATAATAGGTTCACATATCACTCAATCATAGATTCGCATGTCA
50013146 CATACAATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 22 0.61
43 14 0.39
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (43 bp):
ATAATAGGTTCACATATCACTCAATCATAGATTCGCATGTCAT
Found at i:50015374 original size:40 final size:40
Alignment explanation
Indices: 50015265--50015402 Score: 168
Period size: 40 Copynumber: 3.5 Consensus size: 40
50015255 ACCTAAATAT
** * * * *
50015265 CAGGCTTTGTGCCATTGTATTTATCGGGATTTGTGCCAAC
1 CAGGCTTTGTGCCGGTGTATTTATCAGGCTTTGTGCCTAG
*
50015305 CAAGCTTTGTGCCGGTGTATTTATCAGGCTTTGTGCCTAG
1 CAGGCTTTGTGCCGGTGTATTTATCAGGCTTTGTGCCTAG
* * *
50015345 CAGGGTTTGTGCCGGTGTATTTATTAGGCTTTTTGCCTAG
1 CAGGCTTTGTGCCGGTGTATTTATCAGGCTTTGTGCCTAG
* *
50015385 CAGGCCTTGTGCCCGTGT
1 CAGGCTTTGTGCCGGTGT
50015403 TGTCTATCAG
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.14, C:0.20, G:0.28, T:0.38
Consensus pattern (40 bp):
CAGGCTTTGTGCCGGTGTATTTATCAGGCTTTGTGCCTAG
Found at i:50036012 original size:9 final size:9
Alignment explanation
Indices: 50035998--50036028 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
50035988 GATTAAGTAA
50035998 AATTAAATT
1 AATTAAATT
50036007 AATTAAATT
1 AATTAAATT
50036016 AATTAAAATT
1 AATT-AAATT
50036026 AAT
1 AAT
50036029 ATGATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:50041417 original size:23 final size:20
Alignment explanation
Indices: 50041374--50041418 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
50041364 AAAAATTATA
*
50041374 ATATTTTTTTATGAATAAGT
1 ATATTTTTTTATAAATAAGT
50041394 ATATTATTTTTATAATATATAGT
1 ATATT-TTTTTATAA-ATA-AGT
50041417 AT
1 AT
50041419 GTACATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 3 0.14
23 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (20 bp):
ATATTTTTTTATAAATAAGT
Found at i:50042614 original size:14 final size:15
Alignment explanation
Indices: 50042595--50042625 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
50042585 GAAAAAGAAT
50042595 TATTTTATA-AAAAA
1 TATTTTATATAAAAA
50042609 TATTTTATATAAAAA
1 TATTTTATATAAAAA
50042624 TA
1 TA
50042626 AATGAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTTATATAAAAA
Found at i:50043507 original size:106 final size:106
Alignment explanation
Indices: 50043310--50043507 Score: 267
Period size: 106 Copynumber: 1.9 Consensus size: 106
50043300 AATACAAACC
50043310 AATATGAAAAAAAAAATGTCAAACAAGTCAAGTTTAGCCTGTAAATCCTTCTAGTCATTCAATAA
1 AATATGAAAAAAAAAATGTCAAACAAGTCAAGTTTAGCCTGTAAATCCTTCTAGTCATTCAATAA
* * *
50043375 TTTAGAGCTAAGATTACAAATTATCATCCAAATGATAGAGAT
66 TATAGAGATAAGATAACAAA-TATCATCCAAATGATAGAGAT
* * *
50043417 AATAT-AAGAAAAAAATGTCAAACAAGTCAAGTTTAGCCTTTAAATCCTTCTAGTCATCATCCA-
1 AATATGAAAAAAAAAATGTCAAACAAGTCAAGTTTAGCCTGTAAATCCTTCTAGTCAT--TCAAT
* *
50043480 AATGATAGAGATAATATAAGAAA-ATCAT
64 AAT-ATAGAGATAAGATAACAAATATCAT
50043508 ATTTACAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
106 55 0.69
107 8 0.10
108 17 0.21
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (106 bp):
AATATGAAAAAAAAAATGTCAAACAAGTCAAGTTTAGCCTGTAAATCCTTCTAGTCATTCAATAA
TATAGAGATAAGATAACAAATATCATCCAAATGATAGAGAT
Found at i:50045066 original size:22 final size:22
Alignment explanation
Indices: 50045038--50045090 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
50045028 TCACGTTGGT
50045038 TTTTCTCTTCTCCCCTTTTATA
1 TTTTCTCTTCTCCCCTTTTATA
50045060 TTTTCTCTTCTCCCCTTTTATA
1 TTTTCTCTTCTCCCCTTTTATA
50045082 TTTTCTCTT
1 TTTTCTCTT
50045091 TCTTTTTCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.08, C:0.30, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTCTCTTCTCCCCTTTTATA
Found at i:50049824 original size:26 final size:26
Alignment explanation
Indices: 50049781--50049855 Score: 69
Period size: 31 Copynumber: 2.7 Consensus size: 26
50049771 TGAATTAGAT
* **
50049781 ATTTAATATGCATTTTTTACCTAAAC
1 ATTTAATGTGCACATTTTACCTAAAC
50049807 ATTTAATGTGCACATTTTTTTTTACCTAAAC
1 ATTTAATGTGCACA-----TTTTACCTAAAC
*
50049838 ATTGAATGTGCACATTTT
1 ATTTAATGTGCACATTTT
50049856 TACGTAGGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
26 15 0.38
31 25 0.62
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.47
Consensus pattern (26 bp):
ATTTAATGTGCACATTTTACCTAAAC
Found at i:50049831 original size:31 final size:31
Alignment explanation
Indices: 50049793--50049856 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
50049783 TTAATATGCA
*
50049793 TTTTTTACCTAAACATTTAATGTGCACATTT
1 TTTTTTACCTAAACATTGAATGTGCACATTT
50049824 TTTTTTACCTAAACATTGAATGTGCACATTT
1 TTTTTTACCTAAACATTGAATGTGCACATTT
50049855 TT
1 TT
50049857 ACGTAGGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (31 bp):
TTTTTTACCTAAACATTGAATGTGCACATTT
Found at i:50050553 original size:22 final size:22
Alignment explanation
Indices: 50050522--50050594 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
50050512 CCAAAATGAC
*
50050522 AAAAAGTATGTTTAATCACTTA
1 AAAAATTATGTTTAATCACTTA
** * *
50050544 AAAAATTATGAATAATAAATTA
1 AAAAATTATGTTTAATCACTTA
* * * *
50050566 ATACATTATGTTTAATCCCTTT
1 AAAAATTATGTTTAATCACTTA
50050588 AAAAATT
1 AAAAATT
50050595 TATTATTCAA
Statistics
Matches: 36, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.38
Consensus pattern (22 bp):
AAAAATTATGTTTAATCACTTA
Found at i:50053360 original size:3 final size:3
Alignment explanation
Indices: 50053352--50053389 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
50053342 GATTCAGGAA
* *
50053352 ATG ATG ATG ATG GTG ATG ATG ATG ATG ATG GTG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
50053390 AAGGTCAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:50063249 original size:88 final size:87
Alignment explanation
Indices: 50063100--50064028 Score: 1110
Period size: 88 Copynumber: 10.6 Consensus size: 87
50063090 CTATAAGTCC
* * * **
50063100 TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAATTAGCAGATATTGTCTTCCTGTATTGGCAGTA
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
50063165 AAGTAGATCGAAGACCTCAGCCT
66 AAGTAGATCGAAGAAC-CAGCCT
* * * * * *
50063188 TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGTAGATCTTATTTTCATGTATTGGCAACG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
50063253 AAGTAGATCGAAGATACCAGCCT
66 AAGTAGATCGAAGA-ACCAGCCT
* * *
50063276 TGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAACG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* * *
50063341 AAGTAGATCAAAGATATCAGCCC
66 AAGTAGATCGAAGA-ACCAGCCT
* * ** * *
50063364 TGTCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATAATAGATCTTGTGTTCCTGTATTGGCAACG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
50063429 AAGAAGATCGAAGACCTCAGCCT
66 AAGTAGATCGAAGAAC-CAGCCT
* * * *
50063452 TAT-TCCTTGAGCAGTAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTATATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* *
50063516 AAGTATATCAAAGATACCAGCCT
66 AAGTAGATCGAAGA-ACCAGCCT
* * * * * *
50063539 TGTCTCCCTGAGCAGTAGTGGAGTAGGTTAAAAATAGTAGATCTTGCCTTCTTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
*
50063604 AAGTAGATTGAAG-ACTCTAGCCT
66 AAGTAGATCGAAGAAC-C-AGCCT
* * *
50063627 TATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATTGGCAGCA
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
50063692 AAGTAGATCGAAGATACCAGCCT
66 AAGTAGATCGAAGA-ACCAGCCT
* * * * *
50063715 TGTCTCCCTGAGCAGCAATGGAGTAGGTTAAAAATATCAGATCTTGTCTTCCTGTATTGGCAGGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
* * *
50063780 AAGTAGACCAAAAACACCAGCCT
66 AAGTAGATCGAAGA-ACCAGCCT
*
50063803 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTTCTGTATTGGCAGCG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
50063868 AAGTAGATCGAAGATACCAGCCT
66 AAGTAGATCGAAGA-ACCAGCCT
* * * * * *
50063891 TGTCTCCCTGAGTAGCAGTGGAGTAGGTT-AAAGAGAGCAGATATTGCCTTCCTGTATTGACAGC
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAA-ATAGCAGATCTTGTCTTCCTGTATTGGCAGC
*
50063955 GAAGCAGATCGACA-ACACCAGCCT
65 GAAGTAGATCGA-AGA-ACCAGCCT
** * ** * * *
50063979 TGCCTCTCTGAGTTTGCAGTGGACTAGGTTGAAAATTGTAGATCTTGTCT
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCT
50064029 CCCTAAGCAG
Statistics
Matches: 730, Mismatches: 99, Indels: 23
0.86 0.12 0.03
Matches are distributed among these distances:
86 2 0.00
87 75 0.10
88 619 0.85
89 29 0.04
90 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (87 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCG
AAGTAGATCGAAGAACCAGCCT
Found at i:50063324 original size:44 final size:44
Alignment explanation
Indices: 50063102--50063329 Score: 109
Period size: 44 Copynumber: 5.2 Consensus size: 44
50063092 ATAAGTCCTA
* *
50063102 TCTCCCTGAGCAGTAGTGGAGTAGGTTGAAATTAGCAGATATTG
1 TCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTG
* *** * ** * * * *** * *
50063146 TCTTCCTGTATTGGCAGTAAAGTAGATCGAAGACCTCAG-CCTTA
1 TCTCCCTG-AGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTG
* *
50063190 TCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGTAGATCTTA
1 TCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTG
* * * *** * ** * * * * * *
50063234 TTTTCATGTATTGGCAACGAAGTAGATCGAAGATACCAG-CCTTG
1 TCTCCCTG-AGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTG
50063278 TCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTG
1 TCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTG
*
50063322 TCTTCCTG
1 TCTCCCTG
50063330 TATTGGCAAC
Statistics
Matches: 115, Mismatches: 65, Indels: 8
0.61 0.35 0.04
Matches are distributed among these distances:
43 36 0.31
44 44 0.38
45 35 0.30
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
TCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTG
Found at i:50063761 original size:44 final size:44
Alignment explanation
Indices: 50063629--50063851 Score: 116
Period size: 44 Copynumber: 5.1 Consensus size: 44
50063619 TCTAGCCTTA
* * * *
50063629 TCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATAGCAGATCTTG
1 TCTCCCTGAGCAGCAATGGAGTAGGTTAAAAATACCAGATCTTG
* * * ** * *
50063673 TCTTCTTGTATTGGCAGCAA---AGTAGATCGAAGATACCAG-CCTTG
1 TCTCCCTG-A---GCAGCAATGGAGTAGGTTAAAAATACCAGATCTTG
*
50063717 TCTCCCTGAGCAGCAATGGAGTAGGTTAAAAATATCAGATCTTG
1 TCTCCCTGAGCAGCAATGGAGTAGGTTAAAAATACCAGATCTTG
* *** * *** * * *
50063761 TCTTCCTGTATTGGC-AGGGAAGTAGACCAAAAACACCAG-CCTTA
1 TCTCCCTG-AGCAGCAATGG-AGTAGGTTAAAAATACCAGATCTTG
* * *
50063805 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTG
1 TCTCCCTGAGCAGCAATGGAGTAGGTTAAAAATACCAGATCTTG
50063849 TCT
1 TCT
50063852 TTCTGTATTG
Statistics
Matches: 124, Mismatches: 43, Indels: 24
0.65 0.23 0.13
Matches are distributed among these distances:
40 7 0.06
43 31 0.25
44 48 0.39
45 33 0.27
48 5 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
TCTCCCTGAGCAGCAATGGAGTAGGTTAAAAATACCAGATCTTG
Found at i:50064710 original size:13 final size:13
Alignment explanation
Indices: 50064692--50064716 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50064682 GCAAATGATG
50064692 AAATAGAATAGAA
1 AAATAGAATAGAA
50064705 AAATAGAATAGA
1 AAATAGAATAGA
50064717 TTTTTTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAATAGAATAGAA
Found at i:50065503 original size:17 final size:20
Alignment explanation
Indices: 50065468--50065509 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
50065458 AAATATTGTA
50065468 ATTTTAATTCAATCATTATT
1 ATTTTAATTCAATCATTATT
*
50065488 -TTTTAATT-ATTC-TTATT
1 ATTTTAATTCAATCATTATT
50065505 ATTTT
1 ATTTT
50065510 TGAGCATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.25
18 7 0.35
19 8 0.40
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTAATTCAATCATTATT
Found at i:50071587 original size:39 final size:39
Alignment explanation
Indices: 50071540--50071621 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
50071530 AATAACATAA
50071540 GGGA-ACGATTAAATAGGGGGTTGTTGATCTAGGATAGT
1 GGGATACGATTAAATAGGGGGTTGTTGATCTAGGATAGT
50071578 GGGATACGATTAAATAGGGGGTTGTTGATCTAGGATAGT
1 GGGATACGATTAAATAGGGGGTTGTTGATCTAGGATAGT
50071617 GGGAT
1 GGGAT
50071622 TTATTTCCAG
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 4 0.09
39 39 0.91
ACGTcount: A:0.28, C:0.05, G:0.38, T:0.29
Consensus pattern (39 bp):
GGGATACGATTAAATAGGGGGTTGTTGATCTAGGATAGT
Found at i:50071615 original size:21 final size:21
Alignment explanation
Indices: 50071552--50071615 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
50071542 GAACGATTAA
50071552 ATAGGGGGTTGTTGATCTAGG
1 ATAGGGGGTTGTTGATCTAGG
* * ** *
50071573 ATAGTGGGAT-ACGAT-TA-A
1 ATAGGGGGTTGTTGATCTAGG
50071591 ATAGGGGGTTGTTGATCTAGG
1 ATAGGGGGTTGTTGATCTAGG
50071612 ATAG
1 ATAG
50071616 TGGGATTTAT
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 5 0.17
21 12 0.40
ACGTcount: A:0.27, C:0.05, G:0.38, T:0.31
Consensus pattern (21 bp):
ATAGGGGGTTGTTGATCTAGG
Found at i:50075788 original size:29 final size:30
Alignment explanation
Indices: 50075739--50075799 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 30
50075729 CACAAATTTG
* *
50075739 AAATTTAGTCTTTGTACTTTT-ATTTTAAA
1 AAATTTAGTCATTGTAATTTTAATTTTAAA
50075768 AAATTTAGTCCATT-TAATTTTAGATTTTAAA
1 AAATTTAGT-CATTGTAATTTTA-ATTTTAAA
50075799 A
1 A
50075800 TTTAGACCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 15 0.56
30 3 0.11
31 9 0.33
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.51
Consensus pattern (30 bp):
AAATTTAGTCATTGTAATTTTAATTTTAAA
Found at i:50077319 original size:47 final size:49
Alignment explanation
Indices: 50077240--50077332 Score: 127
Period size: 47 Copynumber: 1.9 Consensus size: 49
50077230 GAAAGTGCAA
* *
50077240 GGAAACGTGGGGAAAACCCCACGGACCATAATGTACGTCCAACATTTGAG
1 GGAAACGTGGGG-AAACCCCACGAACCATAATGCACGTCCAACATTTGAG
* *
50077290 GGAAACGT-GGG-AACCCCACGAACCTTAATGCATGTCCAACATT
1 GGAAACGTGGGGAAACCCCACGAACCATAATGCACGTCCAACATT
50077333 CTCCCACTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
47 28 0.72
49 3 0.08
50 8 0.21
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (49 bp):
GGAAACGTGGGGAAACCCCACGAACCATAATGCACGTCCAACATTTGAG
Found at i:50078779 original size:17 final size:17
Alignment explanation
Indices: 50078759--50078822 Score: 64
Period size: 17 Copynumber: 4.0 Consensus size: 17
50078749 TTCCTGATTA
*
50078759 GTTTATTAATTTTTATC
1 GTTTATTTATTTTTATC
* *
50078776 GTTTGTTTATTTTTATT
1 GTTTATTTATTTTTATC
*
50078793 ATTTATTTA-TTTT-T-
1 GTTTATTTATTTTTATC
50078807 G-TTATTTATTTTTATC
1 GTTTATTTATTTTTATC
50078823 TCAATTATCT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
13 7 0.18
14 4 0.11
15 2 0.05
16 4 0.11
17 21 0.55
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (17 bp):
GTTTATTTATTTTTATC
Found at i:50078807 original size:27 final size:26
Alignment explanation
Indices: 50078760--50078813 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
50078750 TCCTGATTAG
50078760 TTTATTAATTTTTATCGTTTGTTTATT
1 TTTATTAATTTTTATCGTTTG-TTATT
* *
50078787 TTTATTATTTATTTAT-TTTTGTTATT
1 TTTATTAATT-TTTATCGTTTGTTATT
50078813 T
1 T
50078814 ATTTTTATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.25
27 13 0.54
28 5 0.21
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.74
Consensus pattern (26 bp):
TTTATTAATTTTTATCGTTTGTTATT
Found at i:50080532 original size:22 final size:21
Alignment explanation
Indices: 50080502--50080545 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
50080492 TTAGCTTCTC
*
50080502 ATGTTAATTCACACATTTTGAA
1 ATGTCAATTCACACA-TTTGAA
* *
50080524 ATGTCAATTTACATATTTGAA
1 ATGTCAATTCACACATTTGAA
50080545 A
1 A
50080546 CCTCGCTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (21 bp):
ATGTCAATTCACACATTTGAA
Found at i:50081488 original size:24 final size:24
Alignment explanation
Indices: 50081422--50081490 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
50081412 ATCTATAACT
* *
50081422 ATATCTACATCTATGTCTGTATCA
1 ATATCTACAACTATGTTTGTATCA
*
50081446 ATATCTGC-A-TAAGTGTTTGTATCA
1 ATATCTACAACT-A-TGTTTGTATCA
*
50081470 ATATCTACAACTATATTTGTA
1 ATATCTACAACTATGTTTGTA
50081491 ACTGTATCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
22 1 0.03
23 1 0.03
24 31 0.86
25 2 0.06
26 1 0.03
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (24 bp):
ATATCTACAACTATGTTTGTATCA
Found at i:50081499 original size:48 final size:48
Alignment explanation
Indices: 50081422--50081563 Score: 142
Period size: 48 Copynumber: 3.0 Consensus size: 48
50081412 ATCTATAACT
* * * ** *
50081422 ATATCTACATCTATGTCTGTATCAATATCTGCATAAGTGTTTGTATCA
1 ATATCTACAACTATATCTGTAACTGTATCTGCATATGTGTTTGTATCA
* * **
50081470 ATATCTACAACTATATTTGTAACTGTATCTGCATCTGTGCATGTATCA
1 ATATCTACAACTATATCTGTAACTGTATCTGCATATGTGTTTGTATCA
* * * * *
50081518 ATATCTGCAATTGTATCTGTATCTG-AACTGCATATGTGTTTGTATC
1 ATATCTACAACTATATCTGTAACTGTATCTGCATATGTGTTTGTATC
50081564 TGTATTTATT
Statistics
Matches: 75, Mismatches: 19, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
47 17 0.23
48 58 0.77
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (48 bp):
ATATCTACAACTATATCTGTAACTGTATCTGCATATGTGTTTGTATCA
Found at i:50081538 original size:24 final size:23
Alignment explanation
Indices: 50081437--50081540 Score: 61
Period size: 24 Copynumber: 4.3 Consensus size: 23
50081427 TACATCTATG
*
50081437 TCTGTATCAATATCTGCATAAGTGT
1 TCTGTATCAATATCTGC--AATTGT
* *
50081462 T-TGTATCAATATCTACAACTATAT
1 TCTGTATCAATATCTGCAA-T-TGT
* **
50081486 T-TGTAACTGTATCTGC-ATCTGT
1 TCTGTATCAATATCTGCAAT-TGT
*
50081508 GCATGTATCAATATCTGCAATTGT
1 TC-TGTATCAATATCTGCAATTGT
50081532 ATCTGTATC
1 -TCTGTATC
50081541 TGAACTGCAT
Statistics
Matches: 59, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
22 5 0.08
23 1 0.02
24 49 0.83
25 4 0.07
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (23 bp):
TCTGTATCAATATCTGCAATTGT
Found at i:50083024 original size:21 final size:21
Alignment explanation
Indices: 50082995--50083070 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
50082985 GTTCCTCAAC
*
50082995 CACACGGGCGTGTCCCTTAGT
1 CACATGGGCGTGTCCCTTAGT
* * *
50083016 TACATGGGCATGT-GCTTCAGT
1 CACATGGGCGTGTCCCTT-AGT
50083037 CAC-TCGGGCGTGTCCCTTAGT
1 CACAT-GGGCGTGTCCCTTAGT
*
50083058 CACATGGGTGTGT
1 CACATGGGCGTGT
50083071 GCTCTATTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
20 4 0.09
21 35 0.81
22 4 0.09
ACGTcount: A:0.14, C:0.26, G:0.30, T:0.29
Consensus pattern (21 bp):
CACATGGGCGTGTCCCTTAGT
Found at i:50089326 original size:6 final size:6
Alignment explanation
Indices: 50089311--50089343 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
50089301 ACGTTTTCCA
*
50089311 AAATGG AAATGA AAATGG AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAA
50089344 CTTGCAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.58, C:0.00, G:0.27, T:0.15
Consensus pattern (6 bp):
AAATGG
Done.