Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 321 of 344
Found at i:105075465 original size:27 final size:26
Alignment explanation
Indices: 105075427--105075564 Score: 143
Period size: 27 Copynumber: 5.1 Consensus size: 26
105075417 AAGCGTCCTA
*
105075427 GTGGCTATGCCATAATTATCTGATCTG
1 GTGGCTCTGCCA-AATTATCTGATCTG
* *
105075454 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCAAAT-TATCTGATCTG
* * *
105075481 GTGGCTATGCCACGATTGTCTGATCTG
1 GTGGCTCTGCCA-AATTATCTGATCTG
* *
105075508 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCAAAT-TATCTGATCTG
105075535 GTGGCTCTGCCACAA-TATCTGTATCTG
1 GTGGCTCTGCCA-AATTATCTG-ATCTG
105075562 GTG
1 GTG
105075565 ACTTCGTCAC
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
26 10 0.11
27 80 0.86
28 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCAAATTATCTGATCTG
Found at i:105075509 original size:54 final size:53
Alignment explanation
Indices: 105075427--105075564 Score: 213
Period size: 54 Copynumber: 2.5 Consensus size: 53
105075417 AAGCGTCCTA
*
105075427 GTGGCTATGCCATAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCA-CATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
*
105075481 GTGGCTATGCCACGATTGTCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
* *
105075535 GTGGCTCTGCCACAATATCTGTATCTGGTG
1 GTGGCTATGCCACATTATCTG-ATCTGGTG
105075565 ACTTCGTCAC
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
53 6 0.08
54 71 0.92
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.36
Consensus pattern (53 bp):
GTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
Found at i:105075575 original size:27 final size:26
Alignment explanation
Indices: 105075434--105075582 Score: 138
Period size: 27 Copynumber: 5.5 Consensus size: 26
105075424 CTAGTGGCTA
* * *
105075434 TGCCATAATTATCTGATCTGGTGGCTC
1 TGCCACAA-TATCTGTTCTGGTGACTC
* *
105075461 TGCCACATATATCTGTTCTGGTGGCTA
1 TGCCACA-ATATCTGTTCTGGTGACTC
* * * *
105075488 TGCCACGATTGTCTGATCTGGTGGCTC
1 TGCCAC-AATATCTGTTCTGGTGACTC
*
105075515 TGCCACATATATCTGTTCTGGTGGCTC
1 TGCCACA-ATATCTGTTCTGGTGACTC
105075542 TGCCACAATATCTGTATCTGGTGACT-
1 TGCCACAATATCTGT-TCTGGTGACTC
*
105075568 TCGTCACAATATCTG
1 T-GCCACAATATCTG
105075583 GCAGCCTCGC
Statistics
Matches: 105, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
26 10 0.10
27 93 0.89
28 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:105079525 original size:27 final size:27
Alignment explanation
Indices: 105079470--105079526 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
105079460 CACAATATAC
* *
105079470 ATAATATATTAAAAAATATATATACAT
1 ATAATATATTAAAAAATATAAAAACAT
*
105079497 ATAATAT-TTATAAAAATATAAAAATAT
1 ATAATATATTA-AAAAATATAAAAACAT
105079524 ATA
1 ATA
105079527 CATAATATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
ATAATATATTAAAAAATATAAAAACAT
Found at i:105080420 original size:11 final size:12
Alignment explanation
Indices: 105080392--105080421 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
105080382 TAAAGTCGAA
105080392 AAAATAAAAAGAT
1 AAAA-AAAAAGAT
105080405 AAAAAAAAAGAT
1 AAAAAAAAAGAT
105080417 AAAAA
1 AAAAA
105080422 GGCACAAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAAAAAAAGAT
Found at i:105080903 original size:24 final size:24
Alignment explanation
Indices: 105080848--105080903 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
105080838 TGAGTTTAGG
* *
105080848 TCTGGGTTTAGTAGGTTTTGGGGT
1 TCTGGGCTTAGTAGGTTTAGGGGT
* *
105080872 TATTGGCTTAGT-GAGTTTAGGGGT
1 TCTGGGCTTAGTAG-GTTTAGGGGT
105080896 TCTGGGCT
1 TCTGGGCT
105080904 CAAAATTGGG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.11, C:0.07, G:0.39, T:0.43
Consensus pattern (24 bp):
TCTGGGCTTAGTAGGTTTAGGGGT
Found at i:105083984 original size:18 final size:18
Alignment explanation
Indices: 105083961--105084000 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
105083951 TATAATTTTA
*
105083961 AAAAATA-TACAATACATC
1 AAAAATACTA-AAAACATC
105083979 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
105083997 AAAA
1 AAAA
105084001 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:105084124 original size:30 final size:30
Alignment explanation
Indices: 105084084--105084145 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
105084074 ACTTAACAAG
*
105084084 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATATCTTTAAAATAATAACAAAATTAA
105084114 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATATCTTTAAAATAATAACAAAATTAA
105084144 CA
1 CA
105084146 GTAAAATAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (30 bp):
CAAATATCTTTAAAATAATAACAAAATTAA
Found at i:105085056 original size:35 final size:35
Alignment explanation
Indices: 105084988--105085056 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
105084978 AGAATATGCC
* * *
105084988 ATGCAAGTCAATTTATGCGAGTCTAATATTATTAA
1 ATGCAAGTAAATTTATGCGAGCCTAATAATATTAA
**
105085023 ATGCAAGTAAATTTATGCGAGCCTGTTAATATTA
1 ATGCAAGTAAATTTATGCGAGCCTAATAATATTA
105085057 CATGTGAGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (35 bp):
ATGCAAGTAAATTTATGCGAGCCTAATAATATTAA
Found at i:105086866 original size:43 final size:43
Alignment explanation
Indices: 105086765--105086868 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
105086755 CAATGCTATA
* * ** * * *
105086765 TCCCAAATATGGTCTTACATGTTATCACATATCGATGCCATTG
1 TCCCAAACATGGTCTTACACGAAATCACATAACGATACCAATG
* **
105086808 T-CCAAACAAGGTCTTACACGAAATCATGTAACGATACCAATG
1 TCCCAAACATGGTCTTACACGAAATCACATAACGATACCAATG
105086850 TCCCAAACATGGTCTTACA
1 TCCCAAACATGGTCTTACA
105086869 TGTAACCACA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 32 0.65
43 17 0.35
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (43 bp):
TCCCAAACATGGTCTTACACGAAATCACATAACGATACCAATG
Found at i:105089546 original size:32 final size:32
Alignment explanation
Indices: 105089505--105089606 Score: 75
Period size: 32 Copynumber: 3.1 Consensus size: 32
105089495 TTTTTAAAAG
*
105089505 AATTAGATATTATATGCGATATCAAAAAAGTA
1 AATTGGATATTATATGCGATATCAAAAAAGTA
*** * **
105089537 AATTGGATATGT-TA-GTTTTACTGAAAAGTGGGTA
1 AATTGGATAT-TATATGCGATA-TCAAAA--AAGTA
105089571 AATTAGG-TATTATATGCGATATCAAAAAAGTA
1 AATT-GGATATTATATGCGATATCAAAAAAGTA
105089603 AATT
1 AATT
105089607 AATTCTTTTA
Statistics
Matches: 50, Mismatches: 13, Indels: 14
0.65 0.17 0.18
Matches are distributed among these distances:
31 3 0.06
32 23 0.46
33 2 0.04
34 17 0.34
35 5 0.10
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (32 bp):
AATTGGATATTATATGCGATATCAAAAAAGTA
Found at i:105091215 original size:22 final size:24
Alignment explanation
Indices: 105091190--105091241 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
105091180 CCCTTGTTGG
105091190 CCACCCA-CC-TTGGCCACCTACT
1 CCACCCACCCTTTGGCCACCTACT
105091212 CCA-CCACCCTTGTTGGCCACCTACT
1 CCACCCACCC-T-TTGGCCACCTACT
105091237 CCACC
1 CCACC
105091242 ACCATTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 3 0.12
22 5 0.20
25 16 0.64
26 1 0.04
ACGTcount: A:0.17, C:0.54, G:0.10, T:0.19
Consensus pattern (24 bp):
CCACCCACCCTTTGGCCACCTACT
Found at i:105091227 original size:25 final size:25
Alignment explanation
Indices: 105091199--105091254 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
105091189 GCCACCCACC
*
105091199 TTGGCCACCTACTCCACCACCCTTG
1 TTGGCCACCTACTCCACCACCATTG
105091224 TTGGCCACCTACTCCACCACCATTG
1 TTGGCCACCTACTCCACCACCATTG
105091249 TTGGCC
1 TTGGCC
105091255 GCCCACCTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.16, C:0.45, G:0.14, T:0.25
Consensus pattern (25 bp):
TTGGCCACCTACTCCACCACCATTG
Found at i:105091712 original size:9 final size:9
Alignment explanation
Indices: 105091683--105091760 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
105091673 GAGCTTTGTT
105091683 TTATTTTT-
1 TTATTTTTA
105091691 TTA-TTTTA
1 TTATTTTTA
105091699 TTATTTTTA
1 TTATTTTTA
*
105091708 CTATTATTTA
1 TTATT-TTTA
*
105091718 -TATTATTA
1 TTATTTTTA
*
105091726 TTATTTCTCA
1 TTATTT-TTA
*
105091736 TGTATATATTA
1 T-TAT-TTTTA
*
105091747 TTATTTATA
1 TTATTTTTA
105091756 TTATT
1 TTATT
105091761 ATATTATATA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
7 4 0.07
8 9 0.16
9 25 0.45
10 10 0.18
11 6 0.11
12 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (9 bp):
TTATTTTTA
Found at i:105091757 original size:12 final size:12
Alignment explanation
Indices: 105091690--105091769 Score: 74
Period size: 12 Copynumber: 6.6 Consensus size: 12
105091680 GTTTTATTTT
*
105091690 TTTATTTTATTA
1 TTTATATTATTA
* *
105091702 TTTTTACTATTA
1 TTTATATTATTA
105091714 TTTATATTATTA
1 TTTATATTATTA
* *
105091726 -TTAT-TTCTCA
1 TTTATATTATTA
105091736 TGTATATATTATTA
1 T-T-TATATTATTA
105091750 TTTATATTATTA
1 TTTATATTATTA
105091762 TATTATAT
1 T-TTATAT
105091770 ATGCCCTCTC
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 4 0.07
11 4 0.07
12 31 0.57
13 10 0.19
14 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:105102267 original size:44 final size:44
Alignment explanation
Indices: 105102117--105102313 Score: 145
Period size: 44 Copynumber: 4.5 Consensus size: 44
105102107 CACAGCTCTT
* * *** *
105102117 ACCCCATAAGCAGTAGGGGAACAGATCGAAGGCAACGAGCTTTA
1 ACCCCCTAAGCAGTAGGGTAACAGATCGAAAATAATGAGCTTTA
* * * **
105102161 ACCCCCTAAGCAGTAGGGTAACA-AGCTGAAGATTTAT-AAATCTTA
1 ACCCCCTAAGCAGTAGGGTAACAGATC-GAA-AATAATGAGCT-TTA
* * *
105102206 TCACCCTAAGCAGTAGGGAAACAGATCGAAAATAATGAGCTTTA
1 ACCCCCTAAGCAGTAGGGTAACAGATCGAAAATAATGAGCTTTA
* *
105102250 ACCCCCTAAGCAGTAGGGTAACA-AGTC-AAATTTACA-GA-CCTTA
1 ACCCCCTAAGCAGTAGGGTAACAGA-TCGAAA-ATA-ATGAGCTTTA
*
105102293 ACCCCCTAAGTAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGTAA
105102314 TAGGCTGAAA
Statistics
Matches: 121, Mismatches: 24, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
43 30 0.25
44 59 0.49
45 30 0.25
46 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (44 bp):
ACCCCCTAAGCAGTAGGGTAACAGATCGAAAATAATGAGCTTTA
Found at i:105102308 original size:43 final size:43
Alignment explanation
Indices: 105102158--105102313 Score: 147
Period size: 44 Copynumber: 3.6 Consensus size: 43
105102148 GCAACGAGCT
* * * *
105102158 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGATTTATAAATC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGATCAA-ATTTA-AGACC
* * * * *
105102203 TTATCACCCTAAGCAGTAGGGAAAC-AGATCGAAA-ATAATGAGCT
1 TTAACCCCCTAAGCAGTAGGGTAACAAGATC-AAATTTAA-GA-CC
105102247 TTAACCCCCTAAGCAGTAGGGTAACAAG-TCAAATTTACAGACC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGATCAAATTTA-AGACC
*
105102290 TTAACCCCCTAAGTAGTAGGGTAA
1 TTAACCCCCTAAGCAGTAGGGTAA
105102314 TAGGCTGAAA
Statistics
Matches: 90, Mismatches: 15, Indels: 14
0.76 0.13 0.12
Matches are distributed among these distances:
42 1 0.01
43 30 0.33
44 32 0.36
45 27 0.30
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (43 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGATCAAATTTAAGACC
Found at i:105102523 original size:87 final size:87
Alignment explanation
Indices: 105102420--105102892 Score: 804
Period size: 87 Copynumber: 5.4 Consensus size: 87
105102410 GAAGATTTGT
* *
105102420 AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGCCTTAAACCCCTAAACAG
1 AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAACCCCTAAGCAG
105102485 TAGGGTAACAGGCTAAATTTAC
66 TAGGGTAACAGGCTAAATTTAC
*
105102507 AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGCCTTAAACCCCTAAGCAG
1 AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAACCCCTAAGCAG
105102572 TAGGGTAACAGGCTAAATTTAC
66 TAGGGTAACAGGCTAAATTTAC
* *
105102594 AGATCTCAACCCCCTAAGCA-AAGGGAAGCAGATTGAAGATGATGAGTCTTAAACCCCTAAGTAG
1 AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAACCCCTAAGCAG
105102658 TAGGGTAACAGGCTAAATTTAC
66 TAGGGTAACAGGCTAAATTTAC
* * *
105102680 ATATCTCAACCCCCTAAGTAGTAGGGAAGCATATTGAAGATGATGAGTCTTAAACCCCTAAGCAG
1 AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAACCCCTAAGCAG
105102745 TAGGGTAACAGGCTAAATTTAC
66 TAGGGTAACAGGCTAAATTTAC
* *
105102767 AGACCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAAACCCTAAGCAG
1 AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAACCCCTAAGCAG
*
105102832 TAGGGTAACAGACTAAATTTAC
66 TAGGGTAACAGGCTAAATTTAC
* * * *
105102854 AGATCTTAACCCCCTAAGCAGTAGGAAAACAGATCGAAG
1 AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAG
105102893 GCGAACAGGC
Statistics
Matches: 365, Mismatches: 20, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
86 81 0.22
87 284 0.78
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (87 bp):
AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAACCCCTAAGCAG
TAGGGTAACAGGCTAAATTTAC
Found at i:105102634 original size:173 final size:174
Alignment explanation
Indices: 105102420--105103033 Score: 809
Period size: 173 Copynumber: 3.4 Consensus size: 174
105102410 GAAGATTTGT
* *
105102420 AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGCCTTAAACCCCTAAACAG
1 AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAACCCCTAAGCAG
105102485 TAGGGTAACAGGCTAAATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGA
66 TAGGGTAACAGGCTAAATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGA
105102550 TGAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTAC
131 TGAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTAC
* *
105102594 AGATCTCAACCCCCTAAGCA-AAGGGAAGCAGATTGAAGATGATGAGTCTTAAACCCCTAAGTAG
1 AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAACCCCTAAGCAG
* * *
105102658 TAGGGTAACAGGCTAAATTTACATATCTCAACCCCCTAAGTAGTAGGGAAGCATATTGAAGATGA
66 TAGGGTAACAGGCTAAATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGA
*
105102723 TGAGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTAC
131 TGAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTAC
* *
105102767 AGACCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAAACCCTAAGCAG
1 AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAACCCCTAAGCAG
* * * * *
105102832 TAGGGTAACAGACTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGAAAACAGATCGAAGGCGA
66 TAGGGTAACAGGCTAAATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAA---G-
* * * *
105102897 ACAGGCTGATTTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGATTTTAC
127 --A---TGA---T--GAG-CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTAC
* * * * ** * * *
105102956 AAGATCTTAAACCCCTAAGCAGTAGGGAAACAGA-TCAATGATGACAAGCCTTAACCCCCTAAGT
1 -AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAA-GATGATGAGTCTTAAACCCCTAAGC
105103020 AGTAGGGTAACAGG
64 AGTAGGGTAACAGG
105103034 TTGAAAATTA
Statistics
Matches: 387, Mismatches: 35, Indels: 20
0.88 0.08 0.05
Matches are distributed among these distances:
173 164 0.42
174 113 0.29
177 1 0.00
180 1 0.00
183 3 0.01
186 1 0.00
188 2 0.01
189 41 0.11
190 61 0.16
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (174 bp):
AGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGATGAGTCTTAAACCCCTAAGCAG
TAGGGTAACAGGCTAAATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAGCAGATTGAAGATGA
TGAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTAC
Found at i:105102959 original size:44 final size:44
Alignment explanation
Indices: 105102896--105102988 Score: 177
Period size: 44 Copynumber: 2.1 Consensus size: 44
105102886 ATCGAAGGCG
*
105102896 AACAGGCTGATTTTACAAGATCTTAAACCCCTAAGCAGTAGGGT
1 AACAGGCTGATTTTACAAGATCTTAAACCCCTAAGCAGTAGGGA
105102940 AACAGGCTGATTTTACAAGATCTTAAACCCCTAAGCAGTAGGGA
1 AACAGGCTGATTTTACAAGATCTTAAACCCCTAAGCAGTAGGGA
105102984 AACAG
1 AACAG
105102989 ATCAATGATG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (44 bp):
AACAGGCTGATTTTACAAGATCTTAAACCCCTAAGCAGTAGGGA
Found at i:105103009 original size:44 final size:43
Alignment explanation
Indices: 105102896--105103033 Score: 145
Period size: 44 Copynumber: 3.1 Consensus size: 43
105102886 ATCGAAGGCG
* *
105102896 AACAGGCTGATTTTACAAGATCTTAAACCCCTAAGCAGTAGGGT
1 AACAGGCTGA-TTGACAAGACCTTAAACCCCTAAGCAGTAGGGT
* * *
105102940 AACAGGCTGATTTTACAAGATCTTAAACCCCTAAGCAGTAGGGA
1 AACAGGCTGA-TTGACAAGACCTTAAACCCCTAAGCAGTAGGGT
* * *
105102984 AACAGATCAATGA-TGACAAG-CCTTAACCCCCTAAGTAGTAGGGT
1 AACAG-GC--TGATTGACAAGACCTTAAACCCCTAAGCAGTAGGGT
105103028 AACAGG
1 AACAGG
105103034 TTGAAAATTA
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
44 73 0.88
45 7 0.08
47 3 0.04
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (43 bp):
AACAGGCTGATTGACAAGACCTTAAACCCCTAAGCAGTAGGGT
Found at i:105103164 original size:68 final size:68
Alignment explanation
Indices: 105103055--105103318 Score: 420
Period size: 68 Copynumber: 3.9 Consensus size: 68
105103045 ATATCTTCTT
** *
105103055 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAAATCTCCTTGAAGTTTCAGTGGATCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGGATCTCTT
105103120 TTC
66 TTC
* * *
105103123 CCTGAAATAGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTTAGTGGATCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGGATCTCTT
105103188 TTC
66 TTC
* *
105103191 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCAGTGAATCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGGATCTCTT
*
105103256 CTC
66 TTC
* * *
105103259 CCTGAAATGGCGTTGGAGCAGCTAAAAGTCACAACAGATTTCCTTGAAGTTTCAGTGGAT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGGAT
105103319 TAATCGAAGC
Statistics
Matches: 181, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 181 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (68 bp):
CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGGATCTCTT
TTC
Found at i:105104164 original size:3 final size:3
Alignment explanation
Indices: 105104153--105104235 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
105104143 TTTTATTTTT
* *
105104153 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
105104196 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
105104236 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:105104210 original size:21 final size:18
Alignment explanation
Indices: 105104157--105104239 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
105104147 ATTTTTTTAT
* *
105104157 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
105104176 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
105104194 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
105104215 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
105104232 TTATATAT
1 TT-TATAT
105104240 GCCCTCTCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.46
19 9 0.16
20 5 0.09
21 12 0.21
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:105106220 original size:28 final size:28
Alignment explanation
Indices: 105106187--105106251 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
105106177 TAAAATTTTA
*
105106187 ATAAATAAAAATATTAAA-TTAAAATAGT
1 ATAAATAAAAAT-TTAAATTTAAAATAAT
*
105106215 ATAAAT-ATAATTTAAATTTTAAAATAAT
1 ATAAATAAAAATTTAAA-TTTAAAATAAT
105106243 ATAAATAAA
1 ATAAATAAA
105106252 CTTAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 5 0.16
27 4 0.13
28 21 0.68
29 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (28 bp):
ATAAATAAAAATTTAAATTTAAAATAAT
Found at i:105106259 original size:28 final size:28
Alignment explanation
Indices: 105106205--105106259 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
105106195 AAATATTAAA
* *
105106205 TTAAAATAGTATAAATATAATTTAAATT
1 TTAAAATAATATAAATATAATTAAAATT
105106233 TTAAAATAATATAAATA-AACTTAAAAT
1 TTAAAATAATATAAATATAA-TTAAAAT
105106260 AAATTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (28 bp):
TTAAAATAATATAAATATAATTAAAATT
Found at i:105107424 original size:21 final size:21
Alignment explanation
Indices: 105107400--105107504 Score: 99
Period size: 21 Copynumber: 4.8 Consensus size: 21
105107390 ACACACACAT
*
105107400 ATATATATAATAGTATTAGAA
1 ATATATATAATAATATTAGAA
105107421 ATATATA-ATATAATATTAGAA
1 ATATATATA-ATAATATTAGAA
105107442 ATATATAT-ATAATAGTATAAAAGAA
1 ATATATATAATAATA-T-T---AGAA
*
105107467 AAATATAACTAATAATATTA-AA
1 ATATAT-A-TAATAATATTAGAA
105107489 ATATATATAATAATAT
1 ATATATATAATAATAT
105107505 ATGTGAAATA
Statistics
Matches: 71, Mismatches: 3, Indels: 21
0.75 0.03 0.22
Matches are distributed among these distances:
20 16 0.23
21 27 0.38
22 8 0.11
23 1 0.01
25 9 0.13
26 2 0.03
27 2 0.03
28 6 0.08
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (21 bp):
ATATATATAATAATATTAGAA
Found at i:105107473 original size:48 final size:43
Alignment explanation
Indices: 105107398--105107517 Score: 127
Period size: 48 Copynumber: 2.7 Consensus size: 43
105107388 ATACACACAC
*
105107398 ATATATATATAATAGTATTAGAAATATATAAT-ATAATATTAGAA
1 ATATATATATAATAGTATAAGAAATATA-AATAATAATATTA-AA
*
105107442 ATATATATATAATAGTATAAAAGAAAAATATAACTAATAATATTAAA
1 ATATATATATAATAGTAT--AAG--AAATATAAATAATAATATTAAA
**
105107489 ATATATATAATAATA-TATGTGAAATATAA
1 ATATATAT-ATAATAGTATAAGAAATATAA
105107518 TATTAAAAAC
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
43 8 0.12
44 18 0.27
45 1 0.02
46 2 0.03
47 15 0.23
48 22 0.33
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (43 bp):
ATATATATATAATAGTATAAGAAATATAAATAATAATATTAAA
Found at i:105107839 original size:33 final size:33
Alignment explanation
Indices: 105107802--105107871 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
105107792 AATAATACCT
*
105107802 TAAAAATAATTAGT-ATAT-TAATAAAAATAAAAA
1 TAAAAAT-ATTAATAATATGTAA-AAAAATAAAAA
*
105107835 TAAAAATATTAATAATATGTAAAAAAATGAAAA
1 TAAAAATATTAATAATATGTAAAAAAATAAAAA
105107868 TAAA
1 TAAA
105107872 CGAAGAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 5 0.15
33 25 0.76
34 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (33 bp):
TAAAAATATTAATAATATGTAAAAAAATAAAAA
Found at i:105107848 original size:12 final size:12
Alignment explanation
Indices: 105107816--105107849 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
105107806 AATAATTAGT
105107816 ATATTAATAAAA
1 ATATTAATAAAA
**
105107828 ATAAAAATAAAA
1 ATATTAATAAAA
105107840 ATATTAATAA
1 ATATTAATAA
105107850 TATGTAAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
ATATTAATAAAA
Found at i:105120151 original size:26 final size:26
Alignment explanation
Indices: 105120100--105120160 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
105120090 GAATAAAATT
105120100 TAAATATTTTTCTATTATTTTATAAA
1 TAAATATTTTTCTATTATTTTATAAA
105120126 -AAATATTTTATC-ATTTATTTCT-TAAA
1 TAAATATTTT-TCTA-TTATTT-TATAAA
105120152 TAAAGTATT
1 TAAA-TATT
105120161 GATTTTTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
25 10 0.33
26 12 0.40
27 4 0.13
28 4 0.13
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (26 bp):
TAAATATTTTTCTATTATTTTATAAA
Found at i:105123037 original size:81 final size:81
Alignment explanation
Indices: 105122931--105123093 Score: 326
Period size: 81 Copynumber: 2.0 Consensus size: 81
105122921 TAAGTTTCGC
105122931 TTTGTATAAATTATGTGTTATGTTATGTTCTATAAATATAAGTTTACATATGCATGCCATGCAAT
1 TTTGTATAAATTATGTGTTATGTTATGTTCTATAAATATAAGTTTACATATGCATGCCATGCAAT
105122996 CTATATGATACATTTG
66 CTATATGATACATTTG
105123012 TTTGTATAAATTATGTGTTATGTTATGTTCTATAAATATAAGTTTACATATGCATGCCATGCAAT
1 TTTGTATAAATTATGTGTTATGTTATGTTCTATAAATATAAGTTTACATATGCATGCCATGCAAT
105123077 CTATATGATACATTTG
66 CTATATGATACATTTG
105123093 T
1 T
105123094 ATGTTAACAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (81 bp):
TTTGTATAAATTATGTGTTATGTTATGTTCTATAAATATAAGTTTACATATGCATGCCATGCAAT
CTATATGATACATTTG
Found at i:105123377 original size:27 final size:26
Alignment explanation
Indices: 105123340--105123390 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
105123330 TCTAATATGT
*
105123340 TATATGTTTT-GAATATATGATAAATGA
1 TATACGTTTTGGAA-ATATGA-AAATGA
105123367 TATACGTTTTGGAAATATGAAAAT
1 TATACGTTTTGGAAATATGAAAAT
105123391 TTCTGATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 4 0.18
27 15 0.68
28 3 0.14
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (26 bp):
TATACGTTTTGGAAATATGAAAATGA
Found at i:105126987 original size:80 final size:80
Alignment explanation
Indices: 105126654--105127305 Score: 520
Period size: 80 Copynumber: 8.3 Consensus size: 80
105126644 ATAAAATTAA
* * *
105126654 AATTGAATAATTCTGTTTTGGAATTTATTCCTGCCGTTTAATAGATTTTATTCAATTTTGATTTT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCTGCCGTTTAACAGATTTTATT-AA-TTTGATTTT
* *
105126719 -TTTTCAAACGAGAAAT
64 GTTTCCAAACGAGAATT
* * *
105126735 AATTG-A-AATTCTATTT-GGGATTTATTCCTGTCGTTTAATAGA-TTTATTTAATTT--TTATT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCTGCCGTTTAACAGATTTTA-TTAATTTGATT-TT
* *
105126794 -TTT-TAAACAAGAATT
64 GTTTCCAAACGAGAATT
* * * *
105126809 AATTGAATAATTCTATTTC-GGATTTATTCCTGTCG-TTAATAGATTTTATTTAATTTTA-TTT-
1 AATTGAATAATTCTGTTTCGGGATTTATTCCTGCCGTTTAACAGATTTTA-TTAATTTGATTTTG
*
105126870 TTT--AAACAAGAATT
65 TTTCCAAACGAGAATT
* * * * *
105126884 AATTGAATAATTCTATTTTGGGATTT-TTTCTGTCGTTTAACAGATTTTAATTGATTTGATTTTG
1 AATTGAATAATTCTGTTTCGGGATTTATTCCTGCCGTTTAACAGATTTT-ATTAATTTGATTTTG
105126948 TTTCCAAACGAGAATT
65 TTTCCAAACGAGAATT
* * *
105126964 AATTGAATAATTTTGTTTCGGGATTTATT-CT-CAC-TGTTAACAAATTTTATTCGATTTTGA-T
1 AATTGAATAATTCTGTTTCGGGATTTATTCCTGC-CGT-TTAACAGATTTTATT--AATTTGATT
* *
105127025 TTGTTTCTAAACGAGAAAT
62 TTGTTTCCAAACGAGAATT
* * *
105127044 AATTGAATAA-TCTGTTTCGAGATTTATT-CTCGCCGTTTAACAGATTTTATTCAATTTTACTTT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCT-GCCGTTTAACAGATTTTATT-AATTTGATTTT
105127107 GTTTCCAAACGAGAAGATTT
64 GTTTCCAAACGAG-A-A-TT
* * * * * *
105127127 AATTAAATAATTTTGTTTCAGGATTTATTCC-GCCGCTTAACAGA-TTTA-T--TTTAAATTTGT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCTGCCGTTTAACAGATTTTATTAATTTGATTTTGT
*
105127187 TTCCAAAC-AAAATTT
66 TTCCAAACGAGAA-TT
** * * * * *
105127202 AATCAAATAATTCTGTTTTGGGATTTGTTCCTGCCGTTTAATAAATTTTA-T--TTTAATTTTGT
1 AATTGAATAATTCTGTTTCGGGATTTATTCCTGCCGTTTAACAGATTTTATTAATTTGATTTTGT
* * *
105127264 TTTCAAACAAGATTT
66 TTCCAAACGAGAATT
* *
105127279 AATTAAATAATTTTGTTTCGGGATTTA
1 AATTGAATAATTCTGTTTCGGGATTTA
105127306 ATCATGCCAT
Statistics
Matches: 486, Mismatches: 53, Indels: 68
0.80 0.09 0.11
Matches are distributed among these distances:
74 16 0.03
75 81 0.17
76 81 0.17
77 59 0.12
78 48 0.10
79 36 0.07
80 106 0.22
81 16 0.03
82 5 0.01
83 22 0.05
84 15 0.03
85 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (80 bp):
AATTGAATAATTCTGTTTCGGGATTTATTCCTGCCGTTTAACAGATTTTATTAATTTGATTTTGT
TTCCAAACGAGAATT
Found at i:105129331 original size:14 final size:14
Alignment explanation
Indices: 105129312--105129339 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
105129302 AGCTTTTATC
105129312 TTTATTTATCTTTT
1 TTTATTTATCTTTT
105129326 TTTATTTATCTTTT
1 TTTATTTATCTTTT
105129340 AGAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTATCTTTT
Found at i:105131975 original size:21 final size:20
Alignment explanation
Indices: 105131927--105131975 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
105131917 ATTTACTTAT
*
105131927 GTTAAGTTATTTTATTTGTTT
1 GTTAA-TTATTTTATTTGTTC
*
105131948 ATATAATTATTTATATTTGTTC
1 GT-TAATTATTT-TATTTGTTC
105131970 GTTAAT
1 GTTAAT
105131976 GTGTTTTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (20 bp):
GTTAATTATTTTATTTGTTC
Found at i:105144252 original size:19 final size:20
Alignment explanation
Indices: 105144224--105144265 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
105144214 TTAGGTAATT
*
105144224 TATATCATAT-TAAATTAAA
1 TATATCATATATAAAGTAAA
*
105144243 TATATTATATATAAAGTAAA
1 TATATCATATATAAAGTAAA
105144263 TAT
1 TAT
105144266 TAAAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
TATATCATATATAAAGTAAA
Found at i:105150631 original size:38 final size:38
Alignment explanation
Indices: 105150572--105150677 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
105150562 CATTTTTAAG
*
105150572 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
105150609 AATATGCATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
105150647 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
105150678 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:105151067 original size:19 final size:17
Alignment explanation
Indices: 105151043--105151159 Score: 54
Period size: 19 Copynumber: 6.9 Consensus size: 17
105151033 TAATATTAGA
105151043 AAAATATATATAATAGTGT
1 AAAATATATATAATA-T-T
105151062 AAAATATAACTAATAATATT
1 AAAATAT-A-T-ATAATATT
*
105151082 AAAATATATACAATGA-T
1 AAAATATATATAAT-ATT
105151099 --AATATATAT-A-A--
1 AAAATATATATAATATT
* *
105151110 AAGATATATGTACATA-T
1 AAAATATATATA-ATATT
*
105151127 AATTATATAATATAATATT
1 AA-AATAT-ATATAATATT
105151146 AAAATATA-ATAATA
1 AAAATATATATAATA
105151160 CGACATAAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 29
0.68 0.06 0.25
Matches are distributed among these distances:
12 1 0.01
13 7 0.09
14 1 0.01
15 9 0.12
16 7 0.09
17 8 0.10
18 13 0.17
19 15 0.19
20 9 0.12
21 2 0.03
22 6 0.08
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (17 bp):
AAAATATATATAATATT
Found at i:105151373 original size:3 final size:3
Alignment explanation
Indices: 105151358--105151393 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
105151348 AAACATAAAC
* *
105151358 TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
105151394 CATTGGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:105151525 original size:3 final size:3
Alignment explanation
Indices: 105151494--105151561 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
105151484 ATACACGTAC
* * * *
105151494 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA CTA ATA CTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
105151541 ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
105151562 CAAGGATATT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:105152037 original size:11 final size:12
Alignment explanation
Indices: 105152021--105152056 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
105152011 AGAAAAAAAA
105152021 GAAGAGAG-AGG
1 GAAGAGAGAAGG
105152032 GAAGAGAGAAGG
1 GAAGAGAGAAGG
105152044 G-AGAGAGAAGG
1 GAAGAGAGAAGG
105152055 GA
1 GA
105152057 GGGGGAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:105152211 original size:27 final size:26
Alignment explanation
Indices: 105152162--105152212 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
105152152 ATATTTTTTT
*
105152162 TTATTTTTTATGTTTATATTATATTG
1 TTATTTTTTATGTTTATAGTATATTG
* *
105152188 TTATTTTTATATTTTTTTAGTATAT
1 TTATTTTT-TATGTTTATAGTATAT
105152213 ATATATGGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (26 bp):
TTATTTTTTATGTTTATAGTATATTG
Found at i:105153166 original size:44 final size:44
Alignment explanation
Indices: 105153119--105153667 Score: 368
Period size: 44 Copynumber: 12.6 Consensus size: 44
105153109 TTTTAATCCA
* * * *
105153119 CTCCACTGTAATCTCAGGCAGATAGGATTACTATCTTCAATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCGATCTG
* * * *
105153163 CTCCGCTGTAATCTCAGGGAGATAAGATTTGA-AATTTTTCGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGA-TT-ACTA-TCTTCGATCTG
* * * *
105153209 TTCCACTGTAATCTCTGGGAGATAAGA-T-CTATCATTTTGATCCG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTATC--TTCGATCTG
* * *
105153253 CTCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTCGATCTG
* ** *
105153296 CTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGAT-TACTATCTTCGATCTG
* * * * *
105153340 CTCCACTGTAACCTCAGGGAGATAAGATCTGGAAT-TCTCCGGTCTA
1 CTCCACTGTAATCTCAGGGAGATAAGAT-T--ACTATCTTCGATCTG
* * * * *
105153386 CTCCACTGTAACCTCAGGGAAATAAGA--CCTGAT-GT-GATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTCGATCTG
* * * *
105153427 CTCTACTGTAA-CTTCAGAGAGATAAGA-T-CT-T-TT-AATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTCGATCTG
* * * *
105153466 CTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCGATCTG
* * *
105153510 CTCCGCTGTAATCTCAGGGAGATAAGATCT-CTCAT-TTTGATCCG
1 CTCCACTGTAATCTCAGGGAGATAAGAT-TACT-ATCTTCGATCTG
* * *
105153554 CTCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTCGATCTG
* ** *
105153597 CTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGAT-TACTATCTTCGATCTG
*
105153641 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
105153668 CCTGTATAAT
Statistics
Matches: 398, Mismatches: 75, Indels: 64
0.74 0.14 0.12
Matches are distributed among these distances:
39 25 0.06
40 3 0.01
41 31 0.08
42 4 0.01
43 67 0.17
44 192 0.48
45 11 0.03
46 64 0.16
47 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTCGATCTG
Found at i:105153336 original size:177 final size:170
Alignment explanation
Indices: 105153109--105153539 Score: 486
Period size: 177 Copynumber: 2.5 Consensus size: 170
105153099 AGATCCTTTA
* * *
105153109 TTTTAATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTATCTTCAATCTACTCCGCTGTAA
1 TTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAA
* * * ** * * *
105153174 TCTCAGGGAGATAAGATTTGAAATTTTTCGGTCTGTTCCACTGTAATCTCTGGGAGATAAGATCT
66 TCTCAGGGAGATAAGATCTGAAATTCTCCGGTCTACTCCACTGTAACCTCAGGGAAATAAGA-C-
* * * *
105153239 ATCATTTTGATCCGCTCCACTGTAACTTCAGGGAGATAGGATAG
129 ATCA-TGTGATCCGCTCCACTGTAACTTCAGAGAGATAAGAT-C
* * * * ** *
105153283 TGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACT
1 T-T-TT-AATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCCGCT
* *
105153347 GTAACCTCAGGGAGATAAGATCTGGAATTCTCCGGTCTACTCCACTGTAACCTCAGGGAAATAAG
62 GTAATCTCAGGGAGATAAGATCTGAAATTCTCCGGTCTACTCCACTGTAACCTCAGGGAAATAAG
* * ** *
105153412 ACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATC
127 ACATCATGTGATCCGCTCCACTGTAACTTCAGAGAGATAAGATC
* * **
105153456 TTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAA
1 TTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAA
105153521 TCTCAGGGAGATAAGATCT
66 TCTCAGGGAGATAAGATCT
105153540 CTCATTTTGA
Statistics
Matches: 211, Mismatches: 41, Indels: 14
0.79 0.15 0.05
Matches are distributed among these distances:
169 1 0.00
170 66 0.31
171 2 0.01
172 1 0.00
173 1 0.00
174 32 0.15
175 3 0.01
176 3 0.01
177 101 0.48
178 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (170 bp):
TTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAA
TCTCAGGGAGATAAGATCTGAAATTCTCCGGTCTACTCCACTGTAACCTCAGGGAAATAAGACAT
CATGTGATCCGCTCCACTGTAACTTCAGAGAGATAAGATC
Found at i:105153610 original size:87 final size:88
Alignment explanation
Indices: 105153108--105153664 Score: 306
Period size: 87 Copynumber: 6.4 Consensus size: 88
105153098 AAGATCCTTT
* * *
105153108 ATTTTAATCCACTCCACTGTAATCTC-AGGCAGATAGGATTACTATCTTCAATCTACTCCGCTGT
1 ATTTTAATCCGCTCCACTGTAATCTCAAGG-AGATAGGATTACTATCTTCGATCTGCTCCGCTGT
* ***
105153172 AATCTCAGGGAGATAAGATTTGAA
65 AATCTCAGGGAGATAAGATCTCTC
** * * ** * * * *
105153196 ATTTTTCGGTCTGTTCCACTGTAATCTCTGGGAGATAAGA-T-CTATCATTTTGATCCGCTCCAC
1 A-TTTT-AATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATC--TTCGATCTGCTCCGC
* * *
105153259 TGTAA-CTTCAGGGAGATAGGATAGTGTC
62 TGTAATC-TCAGGGAGATAAGAT-CTCTC
** * * * * ** * *
105153287 --TTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGT
1 ATTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGAT-TACTATCTTCGATCTGCTCCGCTGT
* ***
105153349 AACCTCAGGGAGATAAGATCTGGA
65 AATCTCAGGGAGATAAGATCTCTC
*** ** * * * * * * * **
105153373 ATTCTCCGGTCTACTCCACTGTAACCTCAGGGAAATAAGA--CCTGAT-GT-GATCTTCTCTACT
1 ATT-T-TAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACT-ATCTTCGATCTGCTCCGCT
*
105153434 GTAA-CTTCAGAGAGATAAGA----TC
63 GTAATC-TCAGGGAGATAAGATCTCTC
* *
105153456 -TTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTA
1 ATTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGTA
105153520 ATCTCAGGGAGATAAGATCTCTC
66 ATCTCAGGGAGATAAGATCTCTC
* * * *
105153543 ATTTTGATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCTGCTCCGCTGT
1 ATTTTAATCCGCTCCACTGTAATC-TCAAGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGT
*
105153606 AATCTCAGGGAGATAAGATCTCTG
65 AATCTCAGGGAGATAAGATCTCTC
** * * * *
105153630 GCTTCAATCTGTTCCACTGTAATCTCAGGGAGATA
1 ATTTTAATCCGCTCCACTGTAATCTCAAGGAGATA
105153665 AGACCTGTAT
Statistics
Matches: 367, Mismatches: 73, Indels: 59
0.74 0.15 0.12
Matches are distributed among these distances:
80 24 0.07
81 3 0.01
82 5 0.01
83 27 0.07
84 1 0.00
86 3 0.01
87 162 0.44
88 46 0.13
89 11 0.03
90 81 0.22
91 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (88 bp):
ATTTTAATCCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGTA
ATCTCAGGGAGATAAGATCTCTC
Found at i:105165192 original size:19 final size:17
Alignment explanation
Indices: 105165168--105165284 Score: 54
Period size: 19 Copynumber: 6.9 Consensus size: 17
105165158 TAATATTAGA
105165168 AAAATATATATAATAGTGT
1 AAAATATATATAATA-T-T
105165187 AAAATATAACTAATAATATT
1 AAAATAT-A-T-ATAATATT
*
105165207 AAAATATATACAATGA-T
1 AAAATATATATAAT-ATT
105165224 --AATATATAT-A-A--
1 AAAATATATATAATATT
* *
105165235 AAGATATATGTACATA-T
1 AAAATATATATA-ATATT
*
105165252 AATTATATAATATAATATT
1 AA-AATAT-ATATAATATT
105165271 AAAATATA-ATAATA
1 AAAATATATATAATA
105165285 CGACATAAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 29
0.68 0.06 0.25
Matches are distributed among these distances:
12 1 0.01
13 7 0.09
14 1 0.01
15 9 0.12
16 7 0.09
17 8 0.10
18 13 0.17
19 15 0.19
20 9 0.12
21 2 0.03
22 6 0.08
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (17 bp):
AAAATATATATAATATT
Found at i:105165648 original size:3 final size:3
Alignment explanation
Indices: 105165617--105165684 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
105165607 ATACACGTAC
* * * *
105165617 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA CTA ATA CTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
105165664 ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
105165685 CAAGGATATT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:105166163 original size:11 final size:12
Alignment explanation
Indices: 105166147--105166182 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
105166137 GAAAAAAAAA
105166147 GAAGAGAG-AGG
1 GAAGAGAGAAGG
105166158 GAAGAGAGAAGG
1 GAAGAGAGAAGG
105166170 G-AGAGAGAAGG
1 GAAGAGAGAAGG
105166181 GA
1 GA
105166183 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:105166338 original size:27 final size:26
Alignment explanation
Indices: 105166289--105166339 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
105166279 ATATTTTTTT
*
105166289 TTATTTTTTATGTTTATATTATATTG
1 TTATTTTTTATGTTTATAGTATATTG
* *
105166315 TTATTTTTATATTTTTTTAGTATAT
1 TTATTTTT-TATGTTTATAGTATAT
105166340 ATATATGGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (26 bp):
TTATTTTTTATGTTTATAGTATATTG
Found at i:105169299 original size:2 final size:2
Alignment explanation
Indices: 105169294--105169372 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
105169284 GTGTCCTCTC
105169294 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
105169336 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
105169373 AAGGTTCCAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:105171665 original size:52 final size:51
Alignment explanation
Indices: 105171591--105171749 Score: 219
Period size: 52 Copynumber: 3.1 Consensus size: 51
105171581 CGAATTACAT
* * *
105171591 ATCATACCGATGCCATATCCCAGATATGGTCTTATATGGAACACATTATCAC
1 ATCATACCGATGTCATAGCCCAGCTATGGTCTTATATGGAACACA-TATCAC
* *
105171643 ATCATACCGATGTCATAGCCCAGCTATGGTCTTATACGGGAACACGTATCAC
1 ATCATACCGATGTCATAGCCCAGCTATGGTCTTATA-TGGAACACATATCAC
***
105171695 ATTGCACCGATGTCATAGCCCAGCTATGGTCTTATATGGAAGCACATATCAC
1 ATCATACCGATGTCATAGCCCAGCTATGGTCTTATATGGAA-CACATATCAC
105171747 ATC
1 ATC
105171750 TTTTCCGTCA
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.04
52 83 0.88
53 7 0.07
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (51 bp):
ATCATACCGATGTCATAGCCCAGCTATGGTCTTATATGGAACACATATCAC
Found at i:105173293 original size:17 final size:17
Alignment explanation
Indices: 105173264--105173296 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
105173254 ATGAATGAGT
105173264 ACTGAATTGTATGTATA
1 ACTGAATTGTATGTATA
105173281 ACTGATATT-TATGTAT
1 ACTGA-ATTGTATGTAT
105173297 TAGCATGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.45
Consensus pattern (17 bp):
ACTGAATTGTATGTATA
Found at i:105198571 original size:11 final size:11
Alignment explanation
Indices: 105198555--105198579 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
105198545 TCAACAATAA
105198555 AAGGTGTTGTT
1 AAGGTGTTGTT
105198566 AAGGTGTTGTT
1 AAGGTGTTGTT
105198577 AAG
1 AAG
105198580 AGATCTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (11 bp):
AAGGTGTTGTT
Found at i:105199133 original size:20 final size:17
Alignment explanation
Indices: 105199086--105199120 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
105199076 TTATTGTTCA
*
105199086 ATTATTATATAATTAAT
1 ATTATTTTATAATTAAT
105199103 ATTATTTTTATAATTAAT
1 ATTA-TTTTATAATTAAT
105199121 GTATTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTATTTTATAATTAAT
Found at i:105202137 original size:32 final size:32
Alignment explanation
Indices: 105202096--105202160 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
105202086 GTGATATTTA
105202096 TACTCTTATTTAATTATCTATTTATGTCACTT
1 TACTCTTATTTAATTATCTATTTATGTCACTT
*
105202128 TACTCTTATTTGATTATCTATTTATGTCACTT
1 TACTCTTATTTAATTATCTATTTATGTCACTT
105202160 T
1 T
105202161 CTCCTCCTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (32 bp):
TACTCTTATTTAATTATCTATTTATGTCACTT
Found at i:105202794 original size:25 final size:25
Alignment explanation
Indices: 105202766--105202821 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
105202756 ATTTGTTTTC
105202766 TAAATTTGTATAGT-TA-AATTAAATT
1 TAAATTT-TATA-TATACAATTAAATT
*
105202791 TAAAATTTATATATACAATTAAATT
1 TAAATTTTATATATACAATTAAATT
*
105202816 AAAATT
1 TAAATT
105202822 CATGTATCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 6 0.23
25 19 0.73
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (25 bp):
TAAATTTTATATATACAATTAAATT
Found at i:105209376 original size:3 final size:3
Alignment explanation
Indices: 105209370--105209399 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
105209360 TTTTTTTTAG
105209370 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
105209400 GTATGTACCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:105209578 original size:14 final size:16
Alignment explanation
Indices: 105209559--105209597 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
105209549 CAATTAGTGC
105209559 AATCAACAATC-AA-T
1 AATCAACAATCGAATT
105209573 AATCAACAATCGAATT
1 AATCAACAATCGAATT
105209589 AATCCAACA
1 AAT-CAACA
105209598 TTGTTAAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 4 0.18
17 5 0.23
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.21
Consensus pattern (16 bp):
AATCAACAATCGAATT
Found at i:105220261 original size:21 final size:21
Alignment explanation
Indices: 105220217--105220262 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
105220207 AATTATAGCA
* *
105220217 AAAAAACAACGAAACAATAGC
1 AAAAAACAACGAAACAACAAC
* *
105220238 AAAAAGCAGCGAAACAACAAC
1 AAAAAACAACGAAACAACAAC
105220259 AAAA
1 AAAA
105220263 CTAATTTGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.20, G:0.11, T:0.02
Consensus pattern (21 bp):
AAAAAACAACGAAACAACAAC
Found at i:105222243 original size:17 final size:16
Alignment explanation
Indices: 105222223--105222265 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
105222213 TTTTTTCCTT
105222223 AAATTTGAAAAATATAA
1 AAATTT-AAAAATATAA
*
105222240 AAATTTAATAATATAA
1 AAATTTAAAAATATAA
* *
105222256 TACTTTAAAA
1 AAATTTAAAA
105222266 TTGTGTCACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
AAATTTAAAAATATAA
Found at i:105236539 original size:45 final size:45
Alignment explanation
Indices: 105236468--105236560 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
105236458 CTCAAAAAAT
*
105236468 GATAGAAGGTGCTCAAAATAGCAATAACCACTTCAGCTTGTTTTG
1 GATAAAAGGTGCTCAAAATAGCAATAACCACTTCAGCTTGTTTTG
*
105236513 GATAAAAGGTGCTCAAAATAGTAATAACCACTTCAGCTTGTTTTG
1 GATAAAAGGTGCTCAAAATAGCAATAACCACTTCAGCTTGTTTTG
105236558 GAT
1 GAT
105236561 CCGCTTCCCC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (45 bp):
GATAAAAGGTGCTCAAAATAGCAATAACCACTTCAGCTTGTTTTG
Found at i:105238258 original size:12 final size:12
Alignment explanation
Indices: 105238241--105238270 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
105238231 AGGTTTTATA
105238241 TATTATAATGAT
1 TATTATAATGAT
105238253 TATTATAATGAT
1 TATTATAATGAT
105238265 T-TTATA
1 TATTATA
105238271 TTAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (12 bp):
TATTATAATGAT
Found at i:105238268 original size:30 final size:30
Alignment explanation
Indices: 105238234--105238309 Score: 77
Period size: 33 Copynumber: 2.5 Consensus size: 30
105238224 TTTTTTTAGG
105238234 TTTTATATATTATAATGATTATTATAA-TGA
1 TTTTATATATTATAATGATTATT-TAATTGA
*
105238264 TTTTATATTAAATTATTATGATTATTTAATTGA
1 TTTTATA-T--ATTATAATGATTATTTAATTGA
*
105238297 --TAATATATTATAA
1 TTTTATATATTATAA
105238310 ATAAATTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
28 6 0.15
30 8 0.21
31 5 0.13
32 3 0.08
33 17 0.44
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (30 bp):
TTTTATATATTATAATGATTATTTAATTGA
Found at i:105238304 original size:33 final size:33
Alignment explanation
Indices: 105238242--105238306 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
105238232 GGTTTTATAT
**
105238242 ATTATAATGATTATTATAATGATTTTATATTAA
1 ATTATAATGATTATTATAATGATAATATATTAA
*
105238275 ATTATTATGATTATT-TAATTGATAATATATTA
1 ATTATAATGATTATTATAA-TGATAATATATTA
105238307 TAAATAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (33 bp):
ATTATAATGATTATTATAATGATAATATATTAA
Found at i:105238712 original size:11 final size:12
Alignment explanation
Indices: 105238675--105238705 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
105238665 GAAGCAGGGG
*
105238675 AGAAAAAGAGAA
1 AGAAAAAGGGAA
105238687 AGAAAAAGGGAA
1 AGAAAAAGGGAA
105238699 AGAAAAA
1 AGAAAAA
105238706 TGAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGGGAA
Found at i:105241272 original size:10 final size:10
Alignment explanation
Indices: 105241257--105241288 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
105241247 TTTAAAATTT
105241257 AAAAATTAAA
1 AAAAATTAAA
105241267 AAAAATTAAA
1 AAAAATTAAA
105241277 AAAAATTAAA
1 AAAAATTAAA
105241287 AA
1 AA
105241289 TTTATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:105243704 original size:43 final size:43
Alignment explanation
Indices: 105243625--105243832 Score: 163
Period size: 43 Copynumber: 4.8 Consensus size: 43
105243615 ACAATAACAA
* * ** *
105243625 TTTTTATCTTCAAATATGTTGTGCGTCCGTAGCCTAGTGGTAG
1 TTTTTATCTGCAAATATGTTGTGCATCCACAACCTAGTGGTAG
* * * * *
105243668 TTTTTATCTGCAAGTATATTGTACATCTACAACCTAGTGGCAG
1 TTTTTATCTGCAAATATGTTGTGCATCCACAACCTAGTGGTAG
* * * * * *
105243711 CTTTTATCT-CAACTATGTTGTGCAACGACAACC-AG-GGAAAT
1 TTTTTATCTGCAAATATGTTGTGCATCCACAACCTAGTGG-TAG
*
105243752 TTTTTATCTGCAAATATGTTGTGCATCCACAA-CTCAATGGTAG
1 TTTTTATCTGCAAATATGTTGTGCATCCACAACCT-AGTGGTAG
* * *
105243795 TTTTTATTTGCAAATCAGTGGTGGTTCATCCACAACCT
1 TTTTTATCTGCAAAT-A-T-GTTGTGCATCCACAACCT
105243833 GGTGTATAAG
Statistics
Matches: 128, Mismatches: 28, Indels: 14
0.75 0.16 0.08
Matches are distributed among these distances:
40 2 0.02
41 12 0.09
42 38 0.30
43 57 0.45
44 3 0.02
45 1 0.01
46 13 0.10
47 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (43 bp):
TTTTTATCTGCAAATATGTTGTGCATCCACAACCTAGTGGTAG
Found at i:105246029 original size:13 final size:13
Alignment explanation
Indices: 105246007--105246039 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
105245997 AAGGGTTTGT
105246007 TTAT-TAAACTAA
1 TTATCTAAACTAA
105246019 TTATCTAAACTAA
1 TTATCTAAACTAA
*
105246032 TTAACTAA
1 TTATCTAA
105246040 TTTAACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:105247943 original size:16 final size:15
Alignment explanation
Indices: 105247900--105247958 Score: 66
Period size: 15 Copynumber: 3.8 Consensus size: 15
105247890 GTTACTGTTA
105247900 TTCATTTTTTTTCTT
1 TTCATTTTTTTTCTT
* *
105247915 TCCTTTTTATTTTCATT
1 TTCATTTT-TTTTC-TT
105247932 TTCATTTTTTTTCCTT
1 TTCATTTTTTTT-CTT
105247948 TTC-TTTTTTTT
1 TTCATTTTTTTT
105247959 TTGAATACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
15 14 0.38
16 14 0.38
17 9 0.24
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (15 bp):
TTCATTTTTTTTCTT
Found at i:105247949 original size:10 final size:11
Alignment explanation
Indices: 105247900--105247954 Score: 53
Period size: 10 Copynumber: 5.2 Consensus size: 11
105247890 GTTACTGTTA
105247900 TTCATTTT-TT
1 TTCATTTTCTT
*
105247910 TTC-TTTCCTT
1 TTCATTTTCTT
*
105247920 TTTATTTTCATT
1 TTCATTTTC-TT
105247932 TTCATTTT-TT
1 TTCATTTTCTT
*
105247942 TTCCTTTTCTT
1 TTCATTTTCTT
105247953 TT
1 TT
105247955 TTTTTTGAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
9 3 0.08
10 16 0.44
11 8 0.22
12 9 0.25
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (11 bp):
TTCATTTTCTT
Found at i:105247959 original size:16 final size:16
Alignment explanation
Indices: 105247904--105247959 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
105247894 CTGTTATTCA
*
105247904 TTTTTTTT-CTTTCCT
1 TTTTTTTTCCTTTTCT
* *
105247919 TTTTATTTTCATTTTCA
1 TTTT-TTTTCCTTTTCT
105247936 TTTTTTTTCCTTTTCT
1 TTTTTTTTCCTTTTCT
105247952 TTTTTTTT
1 TTTTTTTT
105247960 TGAATACATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 4 0.12
16 22 0.65
17 8 0.24
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTTCCTTTTCT
Found at i:105247970 original size:32 final size:32
Alignment explanation
Indices: 105247902--105247970 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
105247892 TACTGTTATT
* *
105247902 CATTTTTTTTCTTTCCTTTTTATTTTCATTTT
1 CATTTTTTTTCTTTCCTTTTTATTTTCATATA
* * *
105247934 CATTTTTTTTCCTTTTCTTTTTTTTTTGA-ATA
1 CATTTTTTTT-CTTTCCTTTTTATTTTCATATA
105247966 CATTT
1 CATTT
105247971 ATACATGCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.12, C:0.14, G:0.01, T:0.72
Consensus pattern (32 bp):
CATTTTTTTTCTTTCCTTTTTATTTTCATATA
Found at i:105248102 original size:22 final size:22
Alignment explanation
Indices: 105248063--105248106 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
105248053 ATGATTATGT
* *
105248063 TAAATTCTTTTTATTACTTATTA
1 TAAATTCTTTCTACTAC-TATTA
105248086 TAAA-TCTTTCTACTACTATTA
1 TAAATTCTTTCTACTACTATTA
105248107 ATTTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.55
Consensus pattern (22 bp):
TAAATTCTTTCTACTACTATTA
Found at i:105249113 original size:129 final size:130
Alignment explanation
Indices: 105248812--105249119 Score: 383
Period size: 130 Copynumber: 2.4 Consensus size: 130
105248802 AACAAAAGCG
* * * **
105248812 ATGTTTGATGTTTAGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTTGTTTGT
1 ATGTTCGATGTTTGGAAATTCGAGGAATTGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGT
* * * * **
105248877 TCAAAATGATCAAATATTCCTTTGGAATTTCACTCATGTTTTAAAAAGTCTTTAAAATGAAGGCA
66 TCAAAATAATCAAATATTCCTTTAGAATTTCACTCATGTTATAAAAAGTCTTAAAAAACAAGGCA
* *
105248942 ATGTTCGAAGTTTGGAAATTCGGGGAATTGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGT
1 ATGTTCGATGTTTGGAAATTCGAGGAATTGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGT
* **
105249007 TC-AAATAATCGAATATTCCTTTAGAATTTCACTCATGTTATCTAAA-T-TTAAAAAAAACAAGG
66 TCAAAATAATCAAATATTCCTTTAGAATTTCACTCATGTTATAAAAAGTCTT--AAAAAACAAGG
105249069 CA
129 CA
* *
105249071 ATATTTCG-TGTTTGGAAATTTCGAGAAATTGTGCCCTA-CGTGCTGGGTT
1 AT-GTTCGATGTTTGGAAA-TTCGAGGAATTGTGCCCTATCGTGCTGGGTT
105249120 TCGATTTATC
Statistics
Matches: 154, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
127 2 0.01
128 1 0.01
129 70 0.45
130 81 0.53
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (130 bp):
ATGTTCGATGTTTGGAAATTCGAGGAATTGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGT
TCAAAATAATCAAATATTCCTTTAGAATTTCACTCATGTTATAAAAAGTCTTAAAAAACAAGGCA
Found at i:105249133 original size:129 final size:128
Alignment explanation
Indices: 105248744--105249134 Score: 400
Period size: 129 Copynumber: 3.0 Consensus size: 128
105248734 TCGATCTTTG
* * * * ** * *
105248744 GTTTGTTTAAATAATCGAAT-TTCCCTTTAAAATTTCGCCCGCGTTTTCTAAACCTTAAAACAAA
1 GTTTGTTCAAATAATCGAATATT-CCTTTAGAATTTCACTCATGTTTTCTAAACTTTAAAAAAAA
* * * *
105248808 A-GCGATGTTT-GATGTTTAGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTT
65 AGGCAAT-TTTCGATGTTTGGAAATTCGAGGAATTGTGCCCTATCGTGCTGGGTTGCAATTTCTC
* * * ** *
105248871 GTTTGTTCAAAATGATCAAATATTCCTTTGGAATTTCACTCATGTTTTAAAAAGTCTTT-AAAAT
1 GTTTGTTC-AAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTCTAAA--CTTTAAAAAA
* * * * *
105248935 GAAGGCAATGTTCGAAGTTTGGAAATTCGGGGAATTGTGCCCTATCGTGCTGGGTTGCAATTTCC
63 AAAGGCAATTTTCGATGTTTGGAAATTCGAGGAATTGTGCCCTATCGTGCTGGGTTGCAATTTCT
105249000 C
128 C
*
105249001 GTTTGTTCAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTATCTAAA-TTTAAAAAAAAC
1 GTTTGTTCAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTCTAAACTTT-AAAAAAA-
* * * *
105249065 AAGGCAATATTTCG-TGTTTGGAAATTTCGAGAAATTGTGCCCTA-CGTGCTGGGTTTCGATTTA
64 AAGGCAAT-TTTCGATGTTTGGAAA-TTCGAGGAATTGTGCCCTATCGTGCTGGGTTGCAATTTC
105249128 TC
127 TC
105249130 GTTTG
1 GTTTG
105249135 ACCGAACAAC
Statistics
Matches: 214, Mismatches: 39, Indels: 20
0.78 0.14 0.07
Matches are distributed among these distances:
126 3 0.01
127 7 0.03
128 35 0.16
129 86 0.40
130 83 0.39
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (128 bp):
GTTTGTTCAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTCTAAACTTTAAAAAAAAA
GGCAATTTTCGATGTTTGGAAATTCGAGGAATTGTGCCCTATCGTGCTGGGTTGCAATTTCTC
Found at i:105251703 original size:25 final size:25
Alignment explanation
Indices: 105251675--105251728 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
105251665 AAAAGCCAGC
*
105251675 TAAGTTATATATATATCGGAGATTA
1 TAAGTTATATATATATCAGAGATTA
*
105251700 TAAGTTATATATATATCAGAGATTG
1 TAAGTTATATATATATCAGAGATTA
105251725 TAAG
1 TAAG
105251729 ATTGCATGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.39
Consensus pattern (25 bp):
TAAGTTATATATATATCAGAGATTA
Found at i:105269367 original size:21 final size:21
Alignment explanation
Indices: 105269343--105269399 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
105269333 CATTGGTTCA
* *
105269343 AAAGTCGCAACATTAGGCCAC
1 AAAGTTGCAACATTACGCCAC
* *
105269364 AAAGTTGCAACATCCACTCCAC
1 AAAGTTGCAACAT-TACGCCAC
105269386 AAAGTTGCAACATT
1 AAAGTTGCAACATT
105269400 TGAGACGATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (21 bp):
AAAGTTGCAACATTACGCCAC
Found at i:105272476 original size:27 final size:27
Alignment explanation
Indices: 105272438--105272490 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
105272428 TTGAGGTGTT
105272438 TGTGAAGTTTTAAGGTAGATTATTAAG
1 TGTGAAGTTTTAAGGTAGATTATTAAG
105272465 TGTGAAGTTTTAAGGTAGATTATTAA
1 TGTGAAGTTTTAAGGTAGATTATTAA
105272491 ACATAGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.25, T:0.42
Consensus pattern (27 bp):
TGTGAAGTTTTAAGGTAGATTATTAAG
Found at i:105273120 original size:45 final size:45
Alignment explanation
Indices: 105273033--105273199 Score: 156
Period size: 45 Copynumber: 3.7 Consensus size: 45
105273023 TTCAAACGTG
* * **
105273033 TAAGACCATAGTTGAAAGACACTATGACATTAT-ATCAAAAAAAAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATGA-CGGAAAAAAA
*
105273078 TAAGACCATAGTTGAAAGACACTATGGCAACATGACGGAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATGACGGAAAAA--AA
* * * * * * *
105273125 TAAGACTATAGTTGAAATACACTGTGGCATCAGGTCGGGAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATGACGGAAAAAAA
* * * *
105273170 TAAAACCATGGCTGAAAGACACCATGGCAT
1 TAAGACCATAGTTGAAAGACACTATGGCAT
105273200 TCTTCGACCA
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
45 61 0.62
46 1 0.01
47 37 0.37
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCATCATGACGGAAAAAAA
Found at i:105273138 original size:47 final size:45
Alignment explanation
Indices: 105273033--105273153 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 45
105273023 TTCAAACGTG
* **
105273033 TAAGACCATAGTTGAAAGACACTATGACATTATATCAAAAAAAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACATATCAAAAAAAAA
**
105273078 TAAGACCATAGTTGAAAGACACTATGGCAACATGA-CGGAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACAT-ATC--AAAAAAAAA
* * *
105273125 TAAGACTATAGTTGAAATACACTGTGGCA
1 TAAGACCATAGTTGAAAGACACTATGGCA
105273154 TCAGGTCGGG
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
45 31 0.48
46 1 0.02
47 33 0.51
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.21
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACATATCAAAAAAAAA
Found at i:105273321 original size:32 final size:32
Alignment explanation
Indices: 105273285--105273349 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
105273275 TCTTAGTGTG
105273285 ATTATATGTTTCATATGTAAATAAACATGCTA
1 ATTATATGTTTCATATGTAAATAAACATGCTA
105273317 ATTATATGTTTCATATGTAAATAAACATGCTA
1 ATTATATGTTTCATATGTAAATAAACATGCTA
105273349 A
1 A
105273350 CTTGTGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (32 bp):
ATTATATGTTTCATATGTAAATAAACATGCTA
Found at i:105281130 original size:3 final size:3
Alignment explanation
Indices: 105281122--105281154 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
105281112 TAAATATTTG
105281122 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
105281155 GTTAAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:105284146 original size:17 final size:16
Alignment explanation
Indices: 105284104--105284148 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
105284094 TGTAGACCAG
105284104 TTAATTAAAAAGATAA
1 TTAATTAAAAAGATAA
*
105284120 TTAATATAAATAGATTAA
1 TTAAT-TAAAAAGA-TAA
*
105284138 TTACTTAAAAA
1 TTAATTAAAAA
105284149 AAAGAGCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 5 0.21
17 12 0.50
18 7 0.29
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (16 bp):
TTAATTAAAAAGATAA
Found at i:105291944 original size:34 final size:34
Alignment explanation
Indices: 105291906--105291972 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
105291896 TATAAGTTAA
* *
105291906 AATATATAGTGAATTTGTACTTTGGACTTTAAAT
1 AATATATAGTGAAGTTGTACTTTGAACTTTAAAT
105291940 AATATATAGTGAAGTTGTACTTTGAACTTTAAA
1 AATATATAGTGAAGTTGTACTTTGAACTTTAAA
105291973 AAATGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (34 bp):
AATATATAGTGAAGTTGTACTTTGAACTTTAAAT
Found at i:105300751 original size:45 final size:45
Alignment explanation
Indices: 105300665--105300773 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
105300655 ACGGTAGCAG
* * * *
105300665 AACAATAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTGT
1 AACAGTAACGGTAACAGTATTCAACACACAAAATGCTGAATCGGT
* *
105300710 AACAGTAACGGTAATAGTATTCGACACACAAAATG-TCGAATCGGT
1 AACAGTAACGGTAACAGTATTCAACACACAAAATGCT-GAATCGGT
105300755 AACAGTAACGGTAACAGTA
1 AACAGTAACGGTAACAGTA
105300774 ACAGTAGTCG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 55 0.98
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.21
Consensus pattern (45 bp):
AACAGTAACGGTAACAGTATTCAACACACAAAATGCTGAATCGGT
Found at i:105300768 original size:12 final size:12
Alignment explanation
Indices: 105300751--105300775 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
105300741 AATGTCGAAT
105300751 CGGTAACAGTAA
1 CGGTAACAGTAA
105300763 CGGTAACAGTAA
1 CGGTAACAGTAA
105300775 C
1 C
105300776 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:105301029 original size:40 final size:40
Alignment explanation
Indices: 105300980--105301065 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
105300970 ATTCATTTCA
* * **
105300980 TCAGAAATTTTACAGTTCAATGCAGTATACGTAACAATAT
1 TCAGTAATTTCACAGTTCAATGCAGTATACAAAACAATAT
* * * *
105301020 TCAGTAATTTCACAGTTTAATTCGGTATTCAAAACAATAT
1 TCAGTAATTTCACAGTTCAATGCAGTATACAAAACAATAT
105301060 TCAGTA
1 TCAGTA
105301066 TCCCATAACT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (40 bp):
TCAGTAATTTCACAGTTCAATGCAGTATACAAAACAATAT
Found at i:105301796 original size:17 final size:16
Alignment explanation
Indices: 105301764--105301805 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 16
105301754 ATCTCTAATT
105301764 TTTCCTTTTTCTTTTC
1 TTTCCTTTTTCTTTTC
105301780 TTTCC--TTT-TTTTC
1 TTTCCTTTTTCTTTTC
105301793 TTTCTCTTTTTCT
1 TTTC-CTTTTTCT
105301806 CCCCTGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.41
14 4 0.18
16 8 0.36
17 1 0.05
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCCTTTTTCTTTTC
Found at i:105302228 original size:20 final size:19
Alignment explanation
Indices: 105302201--105302242 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
105302191 ATATAAAACC
105302201 ATAACAATTA-ATAATTATA
1 ATAACAATTATATAA-TATA
105302220 ATAATCAATTATATAATATA
1 ATAA-CAATTATATAATATA
105302240 ATA
1 ATA
105302243 TATATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAACAATTATATAATATA
Found at i:105302749 original size:37 final size:37
Alignment explanation
Indices: 105302698--105302834 Score: 168
Period size: 37 Copynumber: 3.7 Consensus size: 37
105302688 TATATCAAAC
105302698 CAAATCTTATTGTTATACTGAATGAAGCTCAATCGAG
1 CAAATCTTATTGTTATACTGAATGAAGCTCAATCGAG
* * *
105302735 CAAATCGTACTGTTATCCTGAATGAAGCTCAA-CTGAG
1 CAAATCTTATTGTTATACTGAATGAAGCTCAATC-GAG
* * **
105302772 CAAATCTTATTGTTATACTGAATGATGTTCAATTAAG
1 CAAATCTTATTGTTATACTGAATGAAGCTCAATCGAG
* * *
105302809 CAAATCCTATTGTTATATTGAGTGAA
1 CAAATCTTATTGTTATACTGAATGAA
105302835 ACTTAAATGA
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
36 1 0.01
37 83 0.99
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (37 bp):
CAAATCTTATTGTTATACTGAATGAAGCTCAATCGAG
Found at i:105305720 original size:15 final size:15
Alignment explanation
Indices: 105305683--105305711 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
105305673 CTTTCCTATC
105305683 TAATAATAATAATTG
1 TAATAATAATAATTG
105305698 TAATAATAATAATT
1 TAATAATAATAATT
105305712 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTG
Found at i:105307148 original size:16 final size:17
Alignment explanation
Indices: 105307127--105307159 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
105307117 CACATTGAAG
105307127 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
105307143 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
105307160 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:105307955 original size:28 final size:27
Alignment explanation
Indices: 105307912--105308017 Score: 76
Period size: 28 Copynumber: 3.7 Consensus size: 27
105307902 GAAATCAGTG
105307912 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAATA
105307939 TTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTA
1 TTAATCTGGGCC-TAG--CC---CA-TATCA-A-TA
*
105307975 -T-AT-TGGGCCTAGCCCATATCAGTA
1 TTAATCTGGGCCTAGCCCATATCAATA
105307999 TTAATCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
105308018 TATTACAAGT
Statistics
Matches: 64, Mismatches: 2, Indels: 25
0.70 0.02 0.27
Matches are distributed among these distances:
24 2 0.03
25 1 0.02
26 7 0.11
27 12 0.19
28 16 0.25
30 4 0.06
32 3 0.05
33 8 0.12
34 7 0.11
35 2 0.03
36 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAATA
Found at i:105308010 original size:27 final size:28
Alignment explanation
Indices: 105307905--105308017 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 28
105307895 CTATTCAGAA
* *
105307905 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCCATAGCCCAT
*
105307932 ATCAATATTAATCTGGGCCATAGCCCCTTACAGT
1 ATCAGTATTAATCTGGGCCATAG--CC---CA-T
*
105307966 ATCAG-AGTATAT-TGGGCC-TAGCCCAT
1 ATCAGTATTA-ATCTGGGCCATAGCCCAT
*
105307992 ATCAGTATTAATCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCCATAGCCC
105308018 TATTACAAGT
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
26 8 0.12
27 20 0.29
28 16 0.23
30 4 0.06
32 3 0.04
33 11 0.16
34 7 0.10
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (28 bp):
ATCAGTATTAATCTGGGCCATAGCCCAT
Found at i:105308037 original size:60 final size:60
Alignment explanation
Indices: 105307917--105308041 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 60
105307907 CAGTGTTAAC
*
105307917 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCATTACAGTA-CAGAGTATAT
* *
105307978 TGGGCC-TAGCCCATATCAGTATTAATCTGGGCCGTAGCCCTATTACAAGT-CA-AGATATAT
1 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TATAT
105308038 TGGG
1 TGGG
105308042 TCTTGCTCAT
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
59 2 0.03
60 43 0.74
61 10 0.17
62 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (60 bp):
TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCATTACAGTACAGAGTATAT
Found at i:105308403 original size:26 final size:26
Alignment explanation
Indices: 105308374--105308434 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
105308364 AAAATTAACT
* *
105308374 CTAGGGGTATAACGGTCATTTTGCA-C
1 CTAGGGGTAAAACGGTAATTTT-CATC
105308400 CTAGGGGTAAAACGGTAATTTTCATC
1 CTAGGGGTAAAACGGTAATTTTCATC
*
105308426 TTAGGGGTA
1 CTAGGGGTA
105308435 GTTTAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (26 bp):
CTAGGGGTAAAACGGTAATTTTCATC
Found at i:105310286 original size:15 final size:15
Alignment explanation
Indices: 105310249--105310277 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
105310239 CTTTCCTATC
105310249 TAATAATAATAATTA
1 TAATAATAATAATTA
105310264 TAATAATAATAATT
1 TAATAATAATAATT
105310278 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:105313024 original size:23 final size:20
Alignment explanation
Indices: 105312979--105313018 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
105312969 TATTTCACAT
105312979 ATTATTTAATATTTCAATAA
1 ATTATTTAATATTTCAATAA
*
105312999 ATTATTTAATATTTTAATAA
1 ATTATTTAATATTTCAATAA
105313019 TAAATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATTTAATATTTCAATAA
Found at i:105313027 original size:13 final size:14
Alignment explanation
Indices: 105313009--105313050 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
105312999 ATTATTTAAT
105313009 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
105313022 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
105313037 ATTTTAAATAATAT
1 ATTTT-AATAATAT
105313051 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:105313035 original size:16 final size:16
Alignment explanation
Indices: 105313013--105313049 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
105313003 TTTAATATTT
105313013 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
105313030 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
105313045 TAATA
1 TAATA
105313050 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:105313132 original size:15 final size:15
Alignment explanation
Indices: 105313081--105313132 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
105313071 ATTCAATGTT
*
105313081 AATATGTTAATAATA
1 AATATATTAATAATA
*
105313096 AATATTTATTACAATTATA
1 AATA--TATT--AATAATA
105313115 AATATATTAATAATA
1 AATATATTAATAATA
105313130 AAT
1 AAT
105313133 GTTTTGTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
17 7 0.23
19 10 0.33
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:105315625 original size:23 final size:23
Alignment explanation
Indices: 105315599--105315644 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
105315589 TGTGTTGTTG
105315599 GATCAAATTGAATGAAATTGTGT
1 GATCAAATTGAATGAAATTGTGT
105315622 GATCAAATTGAATGAAATTGTGT
1 GATCAAATTGAATGAAATTGTGT
105315645 TTAAGTGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (23 bp):
GATCAAATTGAATGAAATTGTGT
Found at i:105317817 original size:22 final size:21
Alignment explanation
Indices: 105317787--105317833 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
105317777 TACAAATTAA
105317787 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
105317809 ATCTTCAAGATTTCATATCAT
1 ATCTCCAAGATTACAGATCAT
105317830 ATCT
1 ATCT
105317834 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:105317826 original size:16 final size:16
Alignment explanation
Indices: 105317805--105317856 Score: 50
Period size: 19 Copynumber: 3.0 Consensus size: 16
105317795 GATTACAAGA
105317805 TCATATCTTCAAGATT
1 TCATATCTTCAAGATT
105317821 TCATATCATATCTAAGATT
1 TCATATC-T-TC-AAGATT
* *
105317840 GCATATCCTTAAAGATT
1 TCATAT-CTTCAAGATT
105317857 ATATTTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 7 0.23
17 7 0.23
18 3 0.10
19 12 0.40
20 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (16 bp):
TCATATCTTCAAGATT
Found at i:105317839 original size:19 final size:21
Alignment explanation
Indices: 105317804--105317846 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
105317794 AGATTACAAG
*
105317804 ATCATATCTTCAAGATTTCAT
1 ATCATATCTTCAAGATTGCAT
105317825 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
105317844 ATC
1 ATC
105317847 CTTAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.40
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:105320616 original size:22 final size:23
Alignment explanation
Indices: 105320569--105320613 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
105320559 GGGTCAGTCA
*
105320569 AAAAAAGGTATGTTAATTAATCC
1 AAAAAAGGTATGCTAATTAATCC
105320592 AAAAAAGGTATGCTAATTAATC
1 AAAAAAGGTATGCTAATTAATC
105320614 AAAGGTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (23 bp):
AAAAAAGGTATGCTAATTAATCC
Found at i:105330553 original size:9 final size:9
Alignment explanation
Indices: 105330536--105330590 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
105330526 GTATAAAATC
105330536 AACCGAATT
1 AACCGAATT
*
105330545 AATCGAATT
1 AACCGAATT
105330554 AACCGAATT
1 AACCGAATT
**
105330563 AATTGAATT
1 AACCGAATT
*
105330572 ACCCGAATT
1 AACCGAATT
105330581 AACCGAATT
1 AACCGAATT
105330590 A
1 A
105330591 TTTGTATAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (9 bp):
AACCGAATT
Found at i:105330559 original size:18 final size:18
Alignment explanation
Indices: 105330536--105330590 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
105330526 GTATAAAATC
105330536 AACCGAATTAATCGAATT
1 AACCGAATTAATCGAATT
*
105330554 AACCGAATTAATTGAATT
1 AACCGAATTAATCGAATT
* *
105330572 ACCCGAATTAACCGAATT
1 AACCGAATTAATCGAATT
105330590 A
1 A
105330591 TTTGTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (18 bp):
AACCGAATTAATCGAATT
Found at i:105330621 original size:6 final size:6
Alignment explanation
Indices: 105330610--105330656 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
105330600 AATTATATGT
* *
105330610 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
105330657 ATTAAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 27 0.77
7 7 0.20
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:105330697 original size:13 final size:13
Alignment explanation
Indices: 105330681--105330724 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
105330671 AATTTTTATG
105330681 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
105330694 ATTGGGTTGGG--
1 ATTGGGTTGGGTA
105330705 -TTGGGTTGGGTA
1 ATTGGGTTGGGTA
*
105330717 CTTGGGTT
1 ATTGGGTT
105330725 AATATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.36
13 18 0.64
ACGTcount: A:0.09, C:0.02, G:0.48, T:0.41
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:105332906 original size:18 final size:18
Alignment explanation
Indices: 105332867--105332902 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
105332857 CATATGGTCT
*
105332867 GCCCGTGTGGACCCACAC
1 GCCCGTCTGGACCCACAC
105332885 GCCCGTCTGG-CCCACAC
1 GCCCGTCTGGACCCACAC
105332902 G
1 G
105332903 GCCCAAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.14, C:0.47, G:0.28, T:0.11
Consensus pattern (18 bp):
GCCCGTCTGGACCCACAC
Found at i:105340253 original size:29 final size:29
Alignment explanation
Indices: 105340199--105340271 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
105340189 ATTTTTAACT
*
105340199 ATTAACCGAAC-CAAATTTTTTCAAAAAA
1 ATTAACCGAACTGAAATTTTTTCAAAAAA
105340227 ATTAACCGAACTGAAATTTTTTCAAAAAA
1 ATTAACCGAACTGAAATTTTTTCAAAAAA
105340256 ATTAACCGAACTGAAA
1 ATTAACCGAACTGAAA
105340272 ATTATATGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 11 0.26
29 32 0.74
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.27
Consensus pattern (29 bp):
ATTAACCGAACTGAAATTTTTTCAAAAAA
Found at i:105340324 original size:9 final size:9
Alignment explanation
Indices: 105340310--105340350 Score: 66
Period size: 9 Copynumber: 4.6 Consensus size: 9
105340300 ATAAGTATAA
105340310 AATTAACCG
1 AATTAACCG
105340319 AATTAACCG
1 AATTAACCG
105340328 AATT-ACCTG
1 AATTAACC-G
105340337 AATTAACCG
1 AATTAACCG
105340346 AATTA
1 AATTA
105340351 TTTGTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.10
9 24 0.80
10 3 0.10
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:105340384 original size:5 final size:6
Alignment explanation
Indices: 105340369--105340409 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
105340359 AAATTATATG
*
105340369 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
105340410 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:105340472 original size:18 final size:18
Alignment explanation
Indices: 105340438--105340472 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
105340428 TTTATGATTC
*
105340438 GGTTGGGTAATTTGGTTG
1 GGTTGGGTAATTGGGTTG
*
105340456 GGTTGGGTACTTGGGTT
1 GGTTGGGTAATTGGGTT
105340473 AATATATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.03, G:0.46, T:0.43
Consensus pattern (18 bp):
GGTTGGGTAATTGGGTTG
Found at i:105342101 original size:17 final size:18
Alignment explanation
Indices: 105342069--105342102 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
105342059 AGAAGTTGCG
105342069 ATAATTACATATTTAAAA
1 ATAATTACATATTTAAAA
*
105342087 ATAATTAGA-ATTTAAA
1 ATAATTACATATTTAAA
105342103 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATTACATATTTAAAA
Found at i:105348261 original size:16 final size:15
Alignment explanation
Indices: 105348240--105348291 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
105348230 TAGAGTTGAA
105348240 AAAATTGGAAAGATGG
1 AAAATT-GAAAGATGG
* *
105348256 AAAATTGAAGGATAGA
1 AAAATTGAAAGAT-GG
*
105348272 AAAATAGAAAGATGG
1 AAAATTGAAAGATGG
105348287 AAAAT
1 AAAAT
105348292 ATCATTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 12 0.40
16 18 0.60
ACGTcount: A:0.58, C:0.00, G:0.25, T:0.17
Consensus pattern (15 bp):
AAAATTGAAAGATGG
Found at i:105348290 original size:15 final size:15
Alignment explanation
Indices: 105348247--105348292 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
105348237 GAAAAAATTG
*
105348247 GAAAGATGGAAAATT
1 GAAAGATGGAAAATA
* *
105348262 GAAGGATAGAAAAATA
1 GAAAGAT-GGAAAATA
105348278 GAAAGATGGAAAATA
1 GAAAGATGGAAAATA
105348293 TCATTTTTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (15 bp):
GAAAGATGGAAAATA
Found at i:105351961 original size:25 final size:25
Alignment explanation
Indices: 105351932--105351981 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
105351922 TATGTTCACT
*
105351932 TTAGTACTCATATATTTTTTTGTTC
1 TTAGTACTCATACATTTTTTTGTTC
105351957 TTAGTACTCATACATTTTTTTGTTC
1 TTAGTACTCATACATTTTTTTGTTC
105351982 AATTTGATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.58
Consensus pattern (25 bp):
TTAGTACTCATACATTTTTTTGTTC
Done.