Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 182 of 310
Found at i:59421467 original size:13 final size:13
Alignment explanation
Indices: 59421449--59421474 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59421439 CTCGATAGGT
59421449 ACACGCCCGTGTG
1 ACACGCCCGTGTG
59421462 ACACGCCCGTGTG
1 ACACGCCCGTGTG
59421475 CAAATGCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:59427221 original size:4 final size:4
Alignment explanation
Indices: 59427214--59427265 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
59427204 CACACACACT
59427214 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
59427262 CATA
1 CATA
59427266 TTTGTAATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:59429699 original size:27 final size:27
Alignment explanation
Indices: 59429649--59429703 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
59429639 ATGAGATTAT
* * **
59429649 AGTTATTATATGGTAATTTTAAAAAAA
1 AGTTATTATATGATAAGTAAAAAAAAA
59429676 AGTTATTATATGATAAGTAAAAAAAAA
1 AGTTATTATATGATAAGTAAAAAAAAA
59429703 A
1 A
59429704 ATATATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.35
Consensus pattern (27 bp):
AGTTATTATATGATAAGTAAAAAAAAA
Found at i:59434070 original size:20 final size:20
Alignment explanation
Indices: 59434045--59434114 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
59434035 GCTGAGATTC
59434045 TAAATGAAATGCACTACAGT
1 TAAATGAAATGCACTACAGT
* * * *
59434065 TAAATGACAAAG-AGCGGAGATT
1 TAAATGA-AATGCA-C-TACAGT
59434087 CTAAATGAAATGCACTACAGT
1 -TAAATGAAATGCACTACAGT
59434108 TAAATGA
1 TAAATGA
59434115 CATTTCTGCA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
20 15 0.41
21 7 0.19
22 7 0.19
23 8 0.22
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.23
Consensus pattern (20 bp):
TAAATGAAATGCACTACAGT
Found at i:59434092 original size:43 final size:43
Alignment explanation
Indices: 59434031--59434116 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
59434021 GGTTCGAAGG
*
59434031 AAGAGCTGAGATTCTAAATGAAATGCACTACAGTTAAATGACA
1 AAGAGCGGAGATTCTAAATGAAATGCACTACAGTTAAATGACA
59434074 AAGAGCGGAGATTCTAAATGAAATGCACTACAGTTAAATGACA
1 AAGAGCGGAGATTCTAAATGAAATGCACTACAGTTAAATGACA
59434117 TTTCTGCAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (43 bp):
AAGAGCGGAGATTCTAAATGAAATGCACTACAGTTAAATGACA
Found at i:59438820 original size:26 final size:26
Alignment explanation
Indices: 59438791--59438845 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
59438781 GATATGTCTT
59438791 TGATTTTGTTTAAGTCGGCACAAATC
1 TGATTTTGTTTAAGTCGGCACAAATC
59438817 TGATTTTGTTTAAGTCGGCACAAATC
1 TGATTTTGTTTAAGTCGGCACAAATC
59438843 TGA
1 TGA
59438846 AAAGGTTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (26 bp):
TGATTTTGTTTAAGTCGGCACAAATC
Found at i:59439183 original size:44 final size:44
Alignment explanation
Indices: 59439134--59439221 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
59439124 GTTATGATTC
59439134 AAATTTTAGATTTAAATTTTATTTATTATGTAAATGATAAGAAT
1 AAATTTTAGATTTAAATTTTATTTATTATGTAAATGATAAGAAT
59439178 AAATTTTAGATTTAAATTTTATTTATTATGTAAATGATAAGAAT
1 AAATTTTAGATTTAAATTTTATTTATTATGTAAATGATAAGAAT
59439222 GAGATGCATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (44 bp):
AAATTTTAGATTTAAATTTTATTTATTATGTAAATGATAAGAAT
Found at i:59453676 original size:4 final size:4
Alignment explanation
Indices: 59453669--59453711 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
59453659 AAATTGATAG
*
59453669 ATAA ATAA ATAA ATAAA ATAA ATAA ATGAA A-AA ATAA AAAA AT
1 ATAA ATAA ATAA AT-AA ATAA ATAA AT-AA ATAA ATAA ATAA AT
59453712 GCTATGCTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 3 0.09
4 24 0.71
5 7 0.21
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:59453694 original size:21 final size:20
Alignment explanation
Indices: 59453669--59453711 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
59453659 AAATTGATAG
59453669 ATAAAT-AAATAAATAAAATAA
1 ATAAATGAAA-AAATAAAA-AA
59453690 ATAAATGAAAAAATAAAAAA
1 ATAAATGAAAAAATAAAAAA
59453710 AT
1 AT
59453712 GCTATGCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 14 0.67
22 3 0.14
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (20 bp):
ATAAATGAAAAAATAAAAAA
Found at i:59455918 original size:47 final size:45
Alignment explanation
Indices: 59455844--59456015 Score: 197
Period size: 47 Copynumber: 3.7 Consensus size: 45
59455834 AGGGTATAAT
* * *
59455844 GCCGATGCCATGTCCCAGAAATTGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCAT-C-TCAA
* *
59455891 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACAT-ATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-TCATCTC-AA
*
59455937 GCCGATG-TATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCATCTCAA
*
59455982 TGCCGATGCCATGTCCAAGACATGGTCTTACACT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT
59456016 AGCTCACAAT
Statistics
Matches: 107, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
44 10 0.09
45 18 0.17
46 22 0.21
47 46 0.43
48 11 0.10
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCTCAA
Found at i:59455990 original size:92 final size:93
Alignment explanation
Indices: 59455844--59456015 Score: 244
Period size: 92 Copynumber: 1.9 Consensus size: 93
59455834 AGGGTATAAT
* * *
59455844 GCCGATGCCATGTCCCAGAAATTGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGAAATTGTCTTACACTGACTCATCCATCAAGCCGATGCCATGTCCAAG
59455909 ACATGGTCTTACACTGACATATCTCGTA
66 ACATGGTCTTACACTGACATATCTCGTA
* *
59455937 GCCGATG-TATGTCCCAGACA-TGTCTTACACTAGCACTCAT-C-TCAATGCCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGAAATTGTCTTACACT-G-ACTCATCCATCAA-GCCGATGCCATGTCC
59455998 AAGACATGGTCTTACACT
63 AAGACATGGTCTTACACT
59456016 AGCTCACAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
91 15 0.21
92 44 0.62
93 12 0.17
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGAAATTGTCTTACACTGACTCATCCATCAAGCCGATGCCATGTCCAAG
ACATGGTCTTACACTGACATATCTCGTA
Found at i:59457581 original size:20 final size:20
Alignment explanation
Indices: 59457556--59457594 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59457546 GAAGTATTTT
**
59457556 AAAAAAAAGGTAAAAAATAA
1 AAAAAAAACCTAAAAAATAA
59457576 AAAAAAAACCTAAAAAATA
1 AAAAAAAACCTAAAAAATA
59457595 GTTCATAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.10
Consensus pattern (20 bp):
AAAAAAAACCTAAAAAATAA
Found at i:59457689 original size:12 final size:12
Alignment explanation
Indices: 59457674--59457700 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59457664 TTATATATAA
59457674 AAATAAATAAAC
1 AAATAAATAAAC
59457686 AAATAAATAAAC
1 AAATAAATAAAC
59457698 AAA
1 AAA
59457701 GGACTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:59460267 original size:39 final size:40
Alignment explanation
Indices: 59460166--59460267 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
59460156 TATTTGGATG
* *
59460166 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACT
59460206 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTA-CT
* * *
59460246 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
59460268 TACTTGGTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
39 16 0.29
40 40 0.71
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACT
Found at i:59462417 original size:48 final size:48
Alignment explanation
Indices: 59462344--59462671 Score: 290
Period size: 48 Copynumber: 6.9 Consensus size: 48
59462334 GTAAATTGCT
* *
59462344 GATGCCATGTCCCAGACATGCTCTTACACTAGCTCACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * *
59462392 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAATG-C
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * * * *
59462439 AATGCCATGTCCCAAACCTGGTCTTACACTAGCTCTCGTAAT-GTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCGAGGCC
* * *
59462487 GACGCCATGTCCCAGACATGGTCTTACACTAG--CACATAATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCGAGGCC
* * * * * *
59462534 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAC-ATTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGA-GGCC
* * * * * *
59462582 GATACCATGTTCCAAACATGGTCTTACACTAGCACACGAAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCAC-ATATCGAGGCC
* * * *
59462630 GATACCATGTCCCAGACATAGTCTTACACTGGCACACATATC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
59462672 ACCTAAATGT
Statistics
Matches: 229, Mismatches: 42, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
46 6 0.03
47 72 0.31
48 145 0.63
49 6 0.03
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCC
Found at i:59462508 original size:95 final size:95
Alignment explanation
Indices: 59462345--59462617 Score: 318
Period size: 95 Copynumber: 2.9 Consensus size: 95
59462335 TAAATTGCTG
* * * * *
59462345 ATGCCATGTCCCAGACATGCTCTTACACTAGCTCACAT-GTCGAGGCCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAAT-GTGGCCGATGCCATGTCCCAGAC
* *
59462409 ATGGTCTTACACTAGCTC-TCGTATCAATG-CA
65 ATGGTCTTACACTAGCACAT--AATCAATGCCA
* * * *
59462440 ATGCCATGTCCCAAACCTGGTCTTACACTAGCTCTCGTAATGTGGCTGACGCCATGTCCCAGACA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCCATGTCCCAGACA
*
59462505 TGGTCTTACACTAGCACATAATCAATGCCG
66 TGGTCTTACACTAGCACATAATCAATGCCA
* * ** * * * *
59462535 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCCGATACCATGTTCCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCCATGTCCCAGACA
59462600 TGGTCTTACACTAGCACA
66 TGGTCTTACACTAGCACA
59462618 CGAAATGTGG
Statistics
Matches: 151, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
94 7 0.05
95 142 0.94
96 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (95 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCACATAATCAATGCCA
Found at i:59462604 original size:143 final size:141
Alignment explanation
Indices: 59462341--59462665 Score: 416
Period size: 143 Copynumber: 2.3 Consensus size: 141
59462331 AGGGTAAATT
* * *
59462341 GCTGATGCCATGTCCCAGACATGCTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCCA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAG--CACATATCAAGGCCGATGCCATGTCCCA
* * * * *
59462406 GACATGGTCTTACACTAGCTCTCGTATCAATGCAATGCCATGTCCCAAACCTGGTCTTACACTAG
64 AACATGGTCTTACACTAGCTCTCATAACAATGCAATACCATGTCCCAAACATGGTCTTACACTAG
* * *
59462471 CTCTCGTAATGTG
129 CACACGAAATGTG
* * *
59462484 GCTGACGCCATGTCCCAGACATGGTCTTACACTAGCACATAATCAATGCCGATGCCATGTTCCAA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACAT-ATCAAGGCCGATGCCATGTCCCAA
* * * *
59462549 ACATGGTCTTACACTGGCTCTCATAACATTGCCGATACCATGTTCCAAACATGGTCTTACACTAG
65 ACATGGTCTTACACTAGCTCTCATAACAATG-CAATACCATGTCCCAAACATGGTCTTACACTAG
59462614 CACACGAAATGTG
129 CACACGAAATGTG
* * * *
59462627 GCCGATACCATGTCCCAGACATAGTCTTACACTGGCACA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
59462666 CATATCACCT
Statistics
Matches: 157, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
141 5 0.03
142 46 0.29
143 106 0.68
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (141 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACATATCAAGGCCGATGCCATGTCCCAAA
CATGGTCTTACACTAGCTCTCATAACAATGCAATACCATGTCCCAAACATGGTCTTACACTAGCA
CACGAAATGTG
Found at i:59468750 original size:21 final size:21
Alignment explanation
Indices: 59468723--59468776 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
59468713 TGTTAACTTA
59468723 ACACGGGCGTGGAGCTTGAAC
1 ACACGGGCGTGGAGCTTGAAC
*
59468744 GCACGGGCGTGGAGCTTGAAC
1 ACACGGGCGTGGAGCTTGAAC
59468765 ACACGGGCGTGG
1 ACACGGGCGTGG
59468777 GAGAAGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.43, T:0.13
Consensus pattern (21 bp):
ACACGGGCGTGGAGCTTGAAC
Found at i:59476034 original size:6 final size:6
Alignment explanation
Indices: 59476025--59476081 Score: 73
Period size: 6 Copynumber: 9.8 Consensus size: 6
59476015 AATTTAAATG
* *
59476025 AAATAA AAATCA AAATAA AAATAA AAAT-A AAATAA AAATAA GAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
59476072 ATA-AA AAATA
1 AAATAA AAATA
59476082 GGAGGAGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
5 9 0.21
6 34 0.79
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:59476045 original size:29 final size:28
Alignment explanation
Indices: 59476000--59476081 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 28
59475990 TATGTATTTC
** *
59476000 AAAATAAAATAACAAAATTTAAATGAAATA
1 AAAATAAAAT-A-AAAATAAAAATAAAATA
59476030 AAAATCAAAATAAAAATAAAAATAAAATA
1 AAAAT-AAAATAAAAATAAAAATAAAATA
*
59476059 AAAATAAGAATAAATA-AAAAATA
1 AAAATAA-AATAAAAATAAAAATA
59476082 GGAGGAGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 9 0.20
29 26 0.57
30 6 0.13
31 5 0.11
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (28 bp):
AAAATAAAATAAAAATAAAAATAAAATA
Found at i:59476046 original size:23 final size:22
Alignment explanation
Indices: 59476001--59476078 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 22
59475991 ATGTATTTCA
* **
59476001 AAATAAAATAACAAAATTTAAAT
1 AAATAAAA-ATCAAAATAAAAAT
59476024 GAAATAAAAATCAAAATAAAAAT
1 -AAATAAAAATCAAAATAAAAAT
* * *
59476047 AAAAATAAAATAAAAATAAGAAT
1 AAATA-AAAATCAAAATAAAAAT
59476070 AAATAAAAA
1 AAATAAAAA
59476079 ATAGGAGGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 8 0.17
23 30 0.65
24 8 0.17
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (22 bp):
AAATAAAAATCAAAATAAAAAT
Found at i:59476058 original size:17 final size:17
Alignment explanation
Indices: 59476025--59476078 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
59476015 AATTTAAATG
59476025 AAATAAAAATCAAAATAA
1 AAATAAAAAT-AAAATAA
59476043 AAATAAAAATAAAATAA
1 AAATAAAAATAAAATAA
*
59476060 AAATAAGAAT-AAATAA
1 AAATAAAAATAAAATAA
59476076 AAA
1 AAA
59476079 ATAGGAGGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 9 0.26
17 16 0.46
18 10 0.29
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (17 bp):
AAATAAAAATAAAATAA
Found at i:59499494 original size:51 final size:49
Alignment explanation
Indices: 59499364--59499608 Score: 256
Period size: 49 Copynumber: 4.9 Consensus size: 49
59499354 GCTATTGTGA
* *
59499364 GGTCACGCGTGTACTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
59499413 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * **
59499463 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* **
59499513 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTTTACTGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
** * * * * * * *
59499563 GGTTGCATGTGCAGTACTAACTCCCGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
59499609 GCTTCGGCTA
Statistics
Matches: 158, Mismatches: 36, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
49 74 0.47
50 46 0.29
51 38 0.24
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:59504817 original size:50 final size:50
Alignment explanation
Indices: 59504751--59504900 Score: 205
Period size: 49 Copynumber: 3.0 Consensus size: 50
59504741 AACCTTCGGA
*
59504751 ATGGTTA-GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
1 ATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
*
59504800 ATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGG
1 ATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
** * * * * *
59504850 ATAATT-GGTCGCATGTGTAGTACTAAGTGCGGGCTACTATGCGTACCAG
1 ATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
59504899 AT
1 AT
59504901 AGCTTTGGCT
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 46 0.51
50 44 0.49
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (50 bp):
ATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG
Found at i:59504886 original size:49 final size:50
Alignment explanation
Indices: 59504758--59504901 Score: 191
Period size: 50 Copynumber: 2.9 Consensus size: 50
59504748 GGAATGGTTA
* * **
59504758 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAG
* *
59504808 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-G
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAG
* * * *
59504857 GTCGCATGTGTAGTACTAAGTGCGGGCTACTATGCGTACCAGATA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
59504902 GCTTTGGCTA
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 40 0.48
50 44 0.52
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAG
Found at i:59507690 original size:16 final size:15
Alignment explanation
Indices: 59507652--59507690 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
59507642 TGGATTCTCG
*
59507652 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
59507667 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
59507682 TATTCTTGG
1 TA-TCTTGG
59507691 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:59510312 original size:50 final size:50
Alignment explanation
Indices: 59510234--59510379 Score: 186
Period size: 50 Copynumber: 2.9 Consensus size: 50
59510224 NNNNNNNNNN
* * **
59510234 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
59510284 AGGTCACGTGTGTAGTACTAAGTTCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
59510334 -GGTCGCATGTGTAGTACTAAGTGCGGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
59510380 GCTTCGGCTA
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 39 0.47
50 44 0.53
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:59510363 original size:49 final size:50
Alignment explanation
Indices: 59510242--59510379 Score: 179
Period size: 49 Copynumber: 2.8 Consensus size: 50
59510232 NNAGGTCATG
* ** *
59510242 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * *
59510292 TGTGTAGTACTAAGTTCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * *
59510341 TGTGTAGTACTAAGTGCGGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
59510380 GCTTCGGCTA
Statistics
Matches: 76, Mismatches: 12, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
49 39 0.51
50 37 0.49
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
Found at i:59542596 original size:13 final size:13
Alignment explanation
Indices: 59542580--59542612 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
59542570 TTTAATTAAA
*
59542580 TTAGTTAATTAGT
1 TTAGATAATTAGT
59542593 TTAGATAATTAGT
1 TTAGATAATTAGT
59542606 TTA-ATAA
1 TTAGATAA
59542613 ACAAATACTT
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:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:59546040 original size:21 final size:20
Alignment explanation
Indices: 59546008--59546052 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
59545998 GCCATTCAGC
*
59546008 CGTGTACAATAATACACGGG
1 CGTGTACAATAACACACGGG
*
59546028 CGTGCTACCATAACACACGGG
1 CGTG-TACAATAACACACGGG
59546049 CGTG
1 CGTG
59546053 GGAGAAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (20 bp):
CGTGTACAATAACACACGGG
Found at i:59547947 original size:6 final size:6
Alignment explanation
Indices: 59547926--59547991 Score: 64
Period size: 6 Copynumber: 11.0 Consensus size: 6
59547916 CCTCCTATCT
* * *
59547926 TTTTTA TTCTTA -TTTTA TTTTTA TTTTTA TTTTTA TTTTCA -TTTCA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
59547972 ATTTTA TTATTTTA TTTTTA
1 TTTTTA -T-TTTTA TTTTTA
59547992 AAGACAAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
5 9 0.18
6 36 0.71
7 1 0.02
8 5 0.10
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:59547948 original size:17 final size:18
Alignment explanation
Indices: 59547926--59547964 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
59547916 CCTCCTATCT
59547926 TTTTTATTCTTA-TTTTA
1 TTTTTATTCTTATTTTTA
*
59547943 TTTTTATTTTTATTTTTA
1 TTTTTATTCTTATTTTTA
59547961 TTTT
1 TTTT
59547965 CATTTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTATTCTTATTTTTA
Found at i:59547953 original size:12 final size:12
Alignment explanation
Indices: 59547926--59547991 Score: 64
Period size: 11 Copynumber: 5.5 Consensus size: 12
59547916 CCTCCTATCT
*
59547926 TTTTTATTCTTA
1 TTTTTATTTTTA
59547938 -TTTTATTTTTA
1 TTTTTATTTTTA
59547949 TTTTTATTTTTA
1 TTTTTATTTTTA
* *
59547961 TTTTCA-TTTCA
1 TTTTTATTTTTA
*
59547972 ATTTTATTATTTTA
1 TTTTTA-T-TTTTA
59547986 TTTTTA
1 TTTTTA
59547992 AAGACAAATC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
11 18 0.42
12 16 0.37
14 9 0.21
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:59549730 original size:101 final size:101
Alignment explanation
Indices: 59549549--59549747 Score: 362
Period size: 101 Copynumber: 2.0 Consensus size: 101
59549539 TTTAATGCCC
59549549 CAACAGTTGAATTCTCACTGTATGATTTTCTGTGGAATAATTTGTAACATTATCAGTAATGATTA
1 CAACAGTTGAATTCTCACTGTATGATTTTCTGTGGAATAATTTGTAACATTATCAGTAATGATTA
* *
59549614 TGTGATTGAAAGGAATGAATTCTAGCAGTAAATGAG
66 TGCGAATGAAAGGAATGAATTCTAGCAGTAAATGAG
*
59549650 CAACAGTTGAATTCTCACTGTATGATTTTCTGTGGAATAATTTGTAACATTATCAGTAATGCTTA
1 CAACAGTTGAATTCTCACTGTATGATTTTCTGTGGAATAATTTGTAACATTATCAGTAATGATTA
*
59549715 TGCGAATGAATGGAATGAATTCTAGCAGTAAAT
66 TGCGAATGAAAGGAATGAATTCTAGCAGTAAAT
59549748 AAGAATTTTT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 94 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (101 bp):
CAACAGTTGAATTCTCACTGTATGATTTTCTGTGGAATAATTTGTAACATTATCAGTAATGATTA
TGCGAATGAAAGGAATGAATTCTAGCAGTAAATGAG
Found at i:59550556 original size:14 final size:14
Alignment explanation
Indices: 59550537--59550563 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59550527 TAAATACTTG
59550537 ATTTGTTCTTAATT
1 ATTTGTTCTTAATT
59550551 ATTTGTTCTTAAT
1 ATTTGTTCTTAAT
59550564 GCTTGAGTTA
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:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
ATTTGTTCTTAATT
Found at i:59551009 original size:13 final size:13
Alignment explanation
Indices: 59550993--59551025 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
59550983 TTTAATTAAA
*
59550993 TTAGTTAATTAGT
1 TTAGATAATTAGT
59551006 TTAGATAATTAGT
1 TTAGATAATTAGT
59551019 TTA-ATAA
1 TTAGATAA
59551026 AAAAACCCTT
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:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:59560796 original size:11 final size:11
Alignment explanation
Indices: 59560782--59560806 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
59560772 GTTCAAATCA
59560782 TACAATTTCTT
1 TACAATTTCTT
59560793 TACAATTTCTT
1 TACAATTTCTT
59560804 TAC
1 TAC
59560807 CATCAATACC
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:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (11 bp):
TACAATTTCTT
Found at i:59574507 original size:42 final size:42
Alignment explanation
Indices: 59574447--59574538 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
59574437 TGGCCTATAG
*
59574447 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
59574489 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
59574531 GCCCATTT
1 GCCCATTT
59574539 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:59574713 original size:25 final size:25
Alignment explanation
Indices: 59574685--59574779 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
59574675 CTCTTTTAAT
59574685 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
59574710 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
59574735 AACTGGGGCAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTGA-TA
*
59574760 AACTGGGACAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
59574780 AGCACTTCCT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
24 3 0.05
25 56 0.90
26 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:59574714 original size:50 final size:50
Alignment explanation
Indices: 59574672--59574779 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
59574662 CTGGAGGCCT
59574672 AGCCTCTTTT-AAT-AACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
** * *
59574721 AGCCCTTTTCGGTAAACTGGGGCAAAGCCC-TTTTCAGTAAACTGGGACAA
1 AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTTGA-TAAACTGGGGCAA
59574771 AGCCCTTTT
1 AGCCCTTTT
59574780 AGCACTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
48 5 0.10
49 10 0.19
50 37 0.71
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
Found at i:59575650 original size:27 final size:27
Alignment explanation
Indices: 59575590--59575652 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
59575580 GCATATTCGA
59575590 CATTTTACCATACAGGGGTATTACGGT
1 CATTTTACCATACAGGGGTATTACGGT
* *
59575617 CACTTTACCCTACAGGGGCT-TTACGGT
1 CATTTTACCATACAGGGG-TATTACGGT
*
59575644 CTTTTTACC
1 CATTTTACC
59575653 TGTTAGGGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (27 bp):
CATTTTACCATACAGGGGTATTACGGT
Found at i:59575736 original size:27 final size:26
Alignment explanation
Indices: 59575706--59575787 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 26
59575696 GTAAATCTAC
59575706 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTT-T
*
59575733 AAACCAAAGGTATTTCTA-TAATTTTT
1 AAACCAAGGGTATTTC-AGTAATTTTT
* *
59575759 AGAAAGTCAAGGGTATTTCTGTAATTTTT
1 --AAA-CCAAGGGTATTTCAGTAATTTTT
59575788 TAAATTAGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
26 1 0.02
27 22 0.48
28 4 0.09
29 19 0.41
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (26 bp):
AAACCAAGGGTATTTCAGTAATTTTT
Found at i:59575990 original size:81 final size:80
Alignment explanation
Indices: 59575769--59576006 Score: 307
Period size: 81 Copynumber: 2.9 Consensus size: 80
59575759 AGAAAGTCAA
** * * *
59575769 GGGTATTTCT-GTAATTTTTTAAATTAGGGGTATTTTGGTAATTTTACGAATTGAGGGTATTTCG
1 GGGTATTT-TGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGA-GGTATTTCG
*
59575833 ATAATTTCACAAACTAG
64 GTAATTTCACAAACTAG
* * *
59575850 TGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGTATTTCGG
*
59575915 TAATTTTACAAACTAG
65 TAATTTCACAAACTAG
* ** *
59575931 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTATAGAGGTATTTCAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTA-CAAATAGAGGTATTTCGG
59575996 TAATTTCACAA
65 TAATTTCACAA
59576007 TCGAAGGTAA
Statistics
Matches: 136, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
80 1 0.01
81 131 0.96
82 4 0.03
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGTATTTCGGT
AATTTCACAAACTAG
Found at i:59575992 original size:27 final size:27
Alignment explanation
Indices: 59575769--59575973 Score: 297
Period size: 27 Copynumber: 7.6 Consensus size: 27
59575759 AGAAAGTCAA
** *
59575769 GGGTATTTCT-GTAATTTTTTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
* *
59575796 GGGTATTTTGGTAATTTTACGAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
59575822 AGGGTATTTCGATAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
59575850 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
59575877 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
59575904 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
59575931 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
59575958 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
59575974 CTATCCTATA
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
26 3 0.02
27 156 0.97
28 2 0.01
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:59575999 original size:54 final size:54
Alignment explanation
Indices: 59575770--59576006 Score: 280
Period size: 54 Copynumber: 4.4 Consensus size: 54
59575760 GAAAGTCAAG
* ** * * *
59575770 GGTATTTCTGTAATTTTTTAAATTAGGGGTATTTTGGTAATTTTACGAA-TTGA
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGA
* * * *
59575823 GGGTATTTCGATAATTTCACAAACTAGTGGTATTTTGGTAATTTTACAAACTAGG
1 -GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGA
* *
59575878 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGA
* * **
59575932 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTA-TAGA
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTA-CAAACTAGA
* *
59575986 GGTATTTCAGTAATTTCACAA
1 GGTATTTCGGTAATTTTACAA
59576007 TCGAAGGTAA
Statistics
Matches: 160, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
54 156 0.98
55 4 0.03
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (54 bp):
GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGA
Found at i:59576042 original size:27 final size:27
Alignment explanation
Indices: 59576005--59576150 Score: 202
Period size: 27 Copynumber: 5.4 Consensus size: 27
59575995 GTAATTTCAC
* *
59576005 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59576032 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59576059 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59576086 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
59576113 AATCAAGGGCAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59576140 AATCGAGGGTA
1 AATCGAGGGTA
59576151 CTTTGGTAAT
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:59576072 original size:54 final size:54
Alignment explanation
Indices: 59576005--59576177 Score: 229
Period size: 54 Copynumber: 3.2 Consensus size: 54
59575995 GTAATTTCAC
*
59576005 AATCGAAGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * *
59576059 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * * *** * *
59576113 AATCAAGGGCAAAACGATAATTTTGTAAATCGAGGGTACTTTGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
*
59576167 AGTCGAGGGTA
1 AATCGAGGGTA
59576178 TTTCAATAAT
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:59576159 original size:81 final size:80
Alignment explanation
Indices: 59575995--59576177 Score: 197
Period size: 81 Copynumber: 2.3 Consensus size: 80
59575985 AGGTATTTCA
* * * * * * * * *
59575995 GTAATTTCACAATCGAAGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAA
1 GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGCAAAACGATAATTCTATAA
59576060 ATCGAGGGTAAAACG
66 ATCGAGGGTAAAACG
* *
59576075 GTAATTCTGTA-AATCGAGGGTAAAACGATAATTCTATAAATCAAGGGCAAAACGATAATTTTGT
1 GTAATT-T-TACAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGCAAAACGATAATTCTAT
****
59576139 AAATCGAGGGTACTTTG
64 AAATCGAGGGTAAAACG
59576156 GTAATTTTACAAGTCGAGGGTA
1 GTAATTTTACAA-TCGAGGGTA
59576178 TTTCAATAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
79 2 0.02
80 9 0.11
81 72 0.86
82 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.29
Consensus pattern (80 bp):
GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAATCAAGGGCAAAACGATAATTCTATAA
ATCGAGGGTAAAACG
Found at i:59584636 original size:18 final size:18
Alignment explanation
Indices: 59584615--59584682 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
59584605 TCAGTATCCA
*
59584615 TCAATTATTCAATAACGG
1 TCAATTATTCAATAACAG
* *
59584633 TCAATTGTTCAGTAACAG
1 TCAATTATTCAATAACAG
* * * *
59584651 TCAGTCT-TGCAGTAACAA
1 TCAAT-TATTCAATAACAG
59584669 TCAATTATTCAATA
1 TCAATTATTCAATA
59584683 CCTTTATTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 1 0.03
18 37 0.95
19 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (18 bp):
TCAATTATTCAATAACAG
Found at i:59584810 original size:12 final size:12
Alignment explanation
Indices: 59584793--59584817 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59584783 TACATCGTAT
59584793 CGATAACAGTAA
1 CGATAACAGTAA
59584805 CGATAACAGTAA
1 CGATAACAGTAA
59584817 C
1 C
59584818 AGTAGCGATA
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:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (12 bp):
CGATAACAGTAA
Found at i:59584819 original size:18 final size:19
Alignment explanation
Indices: 59584796--59584832 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
59584786 ATCGTATCGA
59584796 TAACAGTAACGATA-ACAG
1 TAACAGTAACGATACACAG
*
59584814 TAACAGTAGCGATACACAG
1 TAACAGTAACGATACACAG
59584833 AGTACCTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.16
Consensus pattern (19 bp):
TAACAGTAACGATACACAG
Found at i:59584868 original size:6 final size:6
Alignment explanation
Indices: 59584857--59584882 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
59584847 ACAAATTTGA
59584857 AACAGT AACAGT AACAGT AACAGT AA
1 AACAGT AACAGT AACAGT AACAGT AA
59584883 GGTACGGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (6 bp):
AACAGT
Found at i:59589181 original size:96 final size:96
Alignment explanation
Indices: 59589018--59589336 Score: 422
Period size: 96 Copynumber: 3.3 Consensus size: 96
59589008 AACAATGTCG
* * * * * *
59589018 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTGAGGCTGATTCCATATCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATTGAGGCTGATGCCATGTCCCAGACA
*
59589083 TGGTCTTACACTAGCTCTCATAAATTGGTGCCA
64 TGGTCTTACACTAGCTCTCATAAACTGGTGCCA
* * *
59589116 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGAGGCTCATGCCATGTCCCAGGCATG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATTGAGGCTGATGCCATGTCCCAGACATG
* ** * *
59589181 GTCTTACACTGGCTCTCATAAACCAGTGACG
66 GTCTTACACTAGCTCTCATAAACTGGTGCCA
* * * * * *
59589212 GTGTCATGTCCTAGACATGGTCTTACACTGACACATATTGAGACTGATGTCATGTCCTAGACATG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATTGAGGCTGATGCCATGTCCCAGACATG
59589277 GTCTTACACTAGCTCTCATAAACTGGTGCCA
66 GTCTTACACTAGCTCTCATAAACTGGTGCCA
*
59589308 ATGCCATGTCCCAGGCATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
59589337 TGCTCTCATA
Statistics
Matches: 188, Mismatches: 33, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
96 160 0.85
97 1 0.01
98 27 0.14
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACATATTGAGGCTGATGCCATGTCCCAGACATG
GTCTTACACTAGCTCTCATAAACTGGTGCCA
Found at i:59589228 original size:146 final size:145
Alignment explanation
Indices: 59588916--59589346 Score: 391
Period size: 146 Copynumber: 3.0 Consensus size: 145
59588906 AGGGTAAGAT
* * *
59588916 GCTGATGCCATGTCCC-GAACATGGTCTTACACTAGCTCTCATACATCGGTGCCGATGCCATGTC
1 GCTGATTCCATATCCCAG-ACATGGTCTTACACTAGCTCTCATA-ATTGGTGCCGATGCCATGTC
* * * * * * * **
59588980 CCAAACATGGTATTACGCTGACACATATAACAATG-TCGATGCCATGTTCCAAACATGGTCTTAC
64 CCAGACATGGTCTTACACTGACACATAT--CGAGGCTCAATGCCATGTCCCAGGCATGGTCTTAC
***
59589044 ACTGGCTCTCAT-ATTGAG
127 ACTGGCTCTCATAAACCAG
*
59589062 GCTGATTCCATATCCCAGACATGGTCTTACACTAGCTCTCATAAATTGGTGCCAATGCCATGTCC
1 GCTGATTCCATATCCCAGACATGGTCTTACACTAGCTCTCAT-AATTGGTGCCGATGCCATGTCC
59589127 CAGACATGGTCTTACACTGACACATATCGAGGCTC-ATGCCATGTCCCAGGCATGGTCTTACACT
65 CAGACATGGTCTTACACTGACACATATCGAGGCTCAATGCCATGTCCCAGGCATGGTCTTACACT
59589191 GGCTCTCATAAACCAG
130 GGCTCTCATAAACCAG
* * * * * * * *
59589207 TGAC-GGTGT-CATGTCCTAGACATGGTCTTACACT-G-ACACAT-ATTGAG-ACTGATGTCATG
1 -G-CTGAT-TCCATATCCCAGACATGGTCTTACACTAGCTCTCATAATTG-GTGCCGATGCCATG
* * * *
59589266 TCCTAGACATGGTCTTACACTAGCTCTCATAAACTG-GTGC-CAATGCCATGTCCCAGGCATGGT
62 TCCCAGACATGGTCTTACACT-G-ACACAT-ATC-GAG-GCTCAATGCCATGTCCCAGGCATGGT
*
59589329 CTTACACTTGCTCTCATA
122 CTTACACTGGCTCTCATA
59589347 TCACCATGGT
Statistics
Matches: 242, Mismatches: 29, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
142 32 0.13
143 2 0.01
144 46 0.19
145 10 0.04
146 148 0.61
147 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (145 bp):
GCTGATTCCATATCCCAGACATGGTCTTACACTAGCTCTCATAATTGGTGCCGATGCCATGTCCC
AGACATGGTCTTACACTGACACATATCGAGGCTCAATGCCATGTCCCAGGCATGGTCTTACACTG
GCTCTCATAAACCAG
Found at i:59589365 original size:50 final size:49
Alignment explanation
Indices: 59588922--59589346 Score: 215
Period size: 50 Copynumber: 8.8 Consensus size: 49
59588912 AGATGCTGAT
* *
59588922 GCCATGTCCC-GAACATGGTCTTACACTAGCTCTCATACA-TCGGTGCCGAT
1 GCCATGTCCCAG-ACATGGTCTTACACTAGCTCTCATAAACT-GGTGCC-AA
* * * * * * *
59588972 GCCATGTCCCAAACATGGTATTACGCT-GACACAT-ATAACAAT-GT-CGAT
1 GCCATGTCCCAGACATGGTCTTACACTAG-CTC-TCATAA-ACTGGTGCCAA
* * * * * *
59589020 GCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT--ATTGAG-GCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTG-GTGC-CAA
* * *
59589068 TCCATATCCCAGACATGGTCTTACACTAGCTCTCATAAATTGGTGCCAA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCCAA
* * * *
59589117 TGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-ATC-GAG-GCTCAT
1 -GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTG-GTGC-CAA
* * ** ***
59589164 GCCATGTCCCAGGCATGGTCTTACACTGGCTCTCATAAACCAGTGACGGT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTG-CCAA
* * * * * *
59589214 GTCATGTCCTAGACATGGTCTTACACT-G-ACACAT--ATTGAGACTG--AT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTG-G--TGCCAA
* *
59589260 GTCATGTCCTAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCCAA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCCAA
* *
59589309 TGCCATGTCCCAGGCATGGTCTTACACTTGCTCTCATA
1 -GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
59589347 TCACCATGGT
Statistics
Matches: 293, Mismatches: 49, Indels: 66
0.72 0.12 0.16
Matches are distributed among these distances:
45 2 0.01
46 58 0.20
47 12 0.04
48 80 0.27
49 14 0.05
50 123 0.42
51 3 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCCAA
Found at i:59591037 original size:27 final size:27
Alignment explanation
Indices: 59591007--59591090 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
59590997 ATAACATAAT
59591007 TAACATTTAAAACATCAATCAATGAGC
1 TAACATTTAAAACATCAATCAATGAGC
** * * **
59591034 TAACA--T-AAAGTTTAACCATAT-AAT
1 TAACATTTAAAACATCAATCA-ATGAGC
59591058 TAACATTTAAAACATCAATCAATGAGC
1 TAACATTTAAAACATCAATCAATGAGC
59591085 TAACAT
1 TAACAT
59591091 AAAGTTTAAC
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 14 0.35
25 3 0.08
26 3 0.08
27 20 0.50
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.29
Consensus pattern (27 bp):
TAACATTTAAAACATCAATCAATGAGC
Found at i:59591061 original size:51 final size:51
Alignment explanation
Indices: 59591002--59591105 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
59590992 AATGGATAAC
59591002 ATAATTAACATTTAAAACATCAATCAATGAGCTAACATAAAGTTTAACCAT
1 ATAATTAACATTTAAAACATCAATCAATGAGCTAACATAAAGTTTAACCAT
59591053 ATAATTAACATTTAAAACATCAATCAATGAGCTAACATAAAGTTTAACCAT
1 ATAATTAACATTTAAAACATCAATCAATGAGCTAACATAAAGTTTAACCAT
59591104 AT
1 AT
59591106 CGAACTCATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (51 bp):
ATAATTAACATTTAAAACATCAATCAATGAGCTAACATAAAGTTTAACCAT
Found at i:59605705 original size:13 final size:13
Alignment explanation
Indices: 59605687--59605711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59605677 TTCAAACAAC
59605687 TTTTTATTTTTTA
1 TTTTTATTTTTTA
59605700 TTTTTATTTTTT
1 TTTTTATTTTTT
59605712 TCACAGATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:59616692 original size:13 final size:13
Alignment explanation
Indices: 59616674--59616700 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
59616664 GAAGTAATCA
59616674 CACACGGGCGTGT
1 CACACGGGCGTGT
59616687 CACACGGGCGTGT
1 CACACGGGCGTGT
59616700 C
1 C
59616701 CCTACCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:59618614 original size:22 final size:23
Alignment explanation
Indices: 59618589--59618634 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
59618579 AATGTTTTAT
59618589 GTTAGAAATAATA-AAAT-AAAAG
1 GTTAGAAATAA-AGAAATGAAAAG
*
59618611 GTTAGTAATAAAGAAATGAAAAG
1 GTTAGAAATAAAGAAATGAAAAG
59618634 G
1 G
59618635 GAGGGGTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 14 0.67
23 6 0.29
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (23 bp):
GTTAGAAATAAAGAAATGAAAAG
Found at i:59620249 original size:40 final size:40
Alignment explanation
Indices: 59620149--59620413 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
59620139 GCTCCTCGTT
* * * *
59620149 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
59620189 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
59620228 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
59620268 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
59620308 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
59620348 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
59620389 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
59620414 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:59620373 original size:80 final size:80
Alignment explanation
Indices: 59620116--59620413 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
59620106 AAATCACGTA
* ** * * *
59620116 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
59620178 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
59620194 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
59620257 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
59620274 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
59620338 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
59620354 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
59620414 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:59620422 original size:41 final size:41
Alignment explanation
Indices: 59620345--59620422 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59620335 TTTGTATCTC
* * *
59620345 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59620386 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
59620423 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:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:59623266 original size:77 final size:77
Alignment explanation
Indices: 59623139--59623291 Score: 288
Period size: 77 Copynumber: 2.0 Consensus size: 77
59623129 AACAAGGTCG
*
59623139 GAGATGTCTCGTTTCATACCATGCCACCAAAATCGACGTTTCAAATCGTTGTACATTTTCGTACT
1 GAGATGTCCCGTTTCATACCATGCCACCAAAATCGACGTTTCAAATCGTTGTACATTTTCGTACT
59623204 CCCCGGGTGAAA
66 CCCCGGGTGAAA
*
59623216 GAGATGTCCCGTTTCATACCATGCCACCAAAATTGACGTTTCAAATCGTTGTACATTTTCGTACT
1 GAGATGTCCCGTTTCATACCATGCCACCAAAATCGACGTTTCAAATCGTTGTACATTTTCGTACT
59623281 CCCCGGGTGAA
66 CCCCGGGTGAA
59623292 TTGACATTCG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (77 bp):
GAGATGTCCCGTTTCATACCATGCCACCAAAATCGACGTTTCAAATCGTTGTACATTTTCGTACT
CCCCGGGTGAAA
Found at i:59623929 original size:60 final size:60
Alignment explanation
Indices: 59623831--59623950 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
59623821 CCTCTCGTGA
*
59623831 GGCTTCAATTGTCTCGACACATAGGCCACGACTCGACCTTCTTGCATCAATACGCAACCC
1 GGCTTCAATTGTCTCGACACATAGGCCACAACTCGACCTTCTTGCATCAATACGCAACCC
* * *
59623891 GGCTTCAATTGTCTCGACGCATAGGCCACAACTTGACCTTCTTGCATCAATATGCAACCC
1 GGCTTCAATTGTCTCGACACATAGGCCACAACTCGACCTTCTTGCATCAATACGCAACCC
59623951 AACCCAAGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (60 bp):
GGCTTCAATTGTCTCGACACATAGGCCACAACTCGACCTTCTTGCATCAATACGCAACCC
Found at i:59624527 original size:101 final size:101
Alignment explanation
Indices: 59624359--59624552 Score: 343
Period size: 101 Copynumber: 1.9 Consensus size: 101
59624349 CAACACTAAT
* *
59624359 CTCAGGTGCTCAGCATGTTCGGTCTCATCTCTTGAATAGACCAAGATGTCATCAATGAACACAAC
1 CTCAGATGCTCAGCATGTTCGGTCTCATCTCTTGAATAGACCAAAATGTCATCAATGAACACAAC
* *
59624424 TACGAACCGGTCCAAATACTGTCTGAAGGCACTAGC
66 TACGAACCGATCCAAATACGGTCTGAAGGCACTAGC
59624460 CTCAGATGCTCAGCATGTTCGGTCTCATCTCTTGAATAGACCAAAATGTCATCAATGAACACAAC
1 CTCAGATGCTCAGCATGTTCGGTCTCATCTCTTGAATAGACCAAAATGTCATCAATGAACACAAC
*
59624525 TACGAACTGATCCAAATACGGTCTGAAG
66 TACGAACCGATCCAAATACGGTCTGAAG
59624553 ATCCGATTCA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 88 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (101 bp):
CTCAGATGCTCAGCATGTTCGGTCTCATCTCTTGAATAGACCAAAATGTCATCAATGAACACAAC
TACGAACCGATCCAAATACGGTCTGAAGGCACTAGC
Found at i:59627015 original size:108 final size:104
Alignment explanation
Indices: 59626814--59627026 Score: 363
Period size: 108 Copynumber: 2.0 Consensus size: 104
59626804 GCGCTACACT
59626814 CTCAAGATCATCAGCTACCTCTCGGTCACGATCGGGATCCATTACTATAAACACATTTACAATTG
1 CTCAAGATCATCAGCTACCTCTCGGTCACGATCGGGATCCATTACTATAAACACATTTACAATTG
59626879 TCAGAAATCACCACACTATCAAGTAATCACATAAAATGG
66 TCAGAAATCACCACACTATCAAGTAATCACATAAAATGG
* **
59626918 CTCAAGATCATCAGCTCCCTCTCGGTCGGGATCGGGATCCATTACTATAAATAAACACATTTACA
1 CTCAAGATCATCAGCTACCTCTCGGTCACGATCGGGATCCATTAC--T--ATAAACACATTTACA
59626983 ATTGTCAGAAATCACCACACTATCAAGTAATCACATAAAATGG
62 ATTGTCAGAAATCACCACACTATCAAGTAATCACATAAAATGG
59627026 C
1 C
59627027 ATGTATAGCT
Statistics
Matches: 102, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
104 42 0.41
106 1 0.01
108 59 0.58
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (104 bp):
CTCAAGATCATCAGCTACCTCTCGGTCACGATCGGGATCCATTACTATAAACACATTTACAATTG
TCAGAAATCACCACACTATCAAGTAATCACATAAAATGG
Found at i:59628662 original size:40 final size:40
Alignment explanation
Indices: 59628482--59628702 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
59628472 CTCGTTCAAG
* * * * *
59628482 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* *
59628521 TGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
59628561 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* * *
59628601 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* ** * * * *
59628641 GGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAA
* *
59628681 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
59628703 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 115 0.73
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
Found at i:59628711 original size:41 final size:41
Alignment explanation
Indices: 59628634--59628711 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59628624 TTAGTATCTC
* * *
59628634 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59628675 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
59628712 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:59630466 original size:94 final size:94
Alignment explanation
Indices: 59630305--59630488 Score: 359
Period size: 94 Copynumber: 2.0 Consensus size: 94
59630295 AAGAGCCTAG
*
59630305 AGGATCAAAGTTGGATAAGGGAAAGGAAAAAGTGGTCGAATAGCCGTTGAAATCGTTCGACAACA
1 AGGATCAAAGTTGGATAAGGGAAAGGAAAAAGTGGTCGAATAGCCATTGAAATCGTTCGACAACA
59630370 TCCGAGGTAAGTTTTCGAGTAATGACTAA
66 TCCGAGGTAAGTTTTCGAGTAATGACTAA
59630399 AGGATCAAAGTTGGATAAGGGAAAGGAAAAAGTGGTCGAATAGCCATTGAAATCGTTCGACAACA
1 AGGATCAAAGTTGGATAAGGGAAAGGAAAAAGTGGTCGAATAGCCATTGAAATCGTTCGACAACA
59630464 TCCGAGGTAAGTTTTCGAGTAATGA
66 TCCGAGGTAAGTTTTCGAGTAATGA
59630489 AACTTAGTTT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (94 bp):
AGGATCAAAGTTGGATAAGGGAAAGGAAAAAGTGGTCGAATAGCCATTGAAATCGTTCGACAACA
TCCGAGGTAAGTTTTCGAGTAATGACTAA
Found at i:59630842 original size:40 final size:40
Alignment explanation
Indices: 59630787--59631002 Score: 254
Period size: 40 Copynumber: 5.3 Consensus size: 40
59630777 TGATATTCGA
59630787 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
* *
59630827 GCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGG
1 GCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACTATATCCGG
** * *
59630870 GCTAAGTCCTAAAGGCATTTGTGCTAGTGACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
* ** * *
59630910 GCTAAGCCCCGAAGGCATTCATGCTAGTGACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
* * * *
59630950 GCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
*
59630989 GCTAAATCCCGAAG
1 GCTAAGTCCCGAAG
59631003 ATACTTGGGT
Statistics
Matches: 151, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 13 0.09
40 102 0.68
41 1 0.01
43 35 0.23
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
Found at i:59631270 original size:22 final size:22
Alignment explanation
Indices: 59631230--59631271 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
59631220 GAATGTGCAT
*
59631230 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
59631252 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
59631272 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:59635625 original size:46 final size:46
Alignment explanation
Indices: 59635575--59635750 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
59635565 TGGTTGAGCA
59635575 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59635621 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
59635666 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59635714 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59635751 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59635731 original size:93 final size:93
Alignment explanation
Indices: 59635572--59635743 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
59635562 GGATGGTTGA
* * *
59635572 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59635637 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59635665 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59635730 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59635744 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59642759 original size:81 final size:81
Alignment explanation
Indices: 59642640--59642801 Score: 297
Period size: 81 Copynumber: 2.0 Consensus size: 81
59642630 TCAGCATGTT
* *
59642640 GTAAAACATAAGAATAAAGAATAAAGTTTAATCTCGAGCCTAGGGGGAAAAATGTAAATATGCAA
1 GTAAAACATAAGAATAAAGAATAAAGTTTAATCCCGAGCCTAGGGGAAAAAATGTAAATATGCAA
59642705 AAGTTTAGGGGTAAAA
66 AAGTTTAGGGGTAAAA
*
59642721 GTAAAACATAAGAATAAGGAATAAAGTTTAATCCCGAGCCTAGGGGAAAAAATGTAAATATGCAA
1 GTAAAACATAAGAATAAAGAATAAAGTTTAATCCCGAGCCTAGGGGAAAAAATGTAAATATGCAA
59642786 AAGTTTAGGGGTAAAA
66 AAGTTTAGGGGTAAAA
59642802 TTGTAATTTT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.48, C:0.08, G:0.22, T:0.22
Consensus pattern (81 bp):
GTAAAACATAAGAATAAAGAATAAAGTTTAATCCCGAGCCTAGGGGAAAAAATGTAAATATGCAA
AAGTTTAGGGGTAAAA
Found at i:59643460 original size:122 final size:122
Alignment explanation
Indices: 59643243--59643487 Score: 463
Period size: 122 Copynumber: 2.0 Consensus size: 122
59643233 TTGAGCATCC
59643243 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTC
1 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTC
59643308 CGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGCATATATGGCACTTATGT
66 CGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGCATATATGGCACTTATGT
* *
59643365 GAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTC
1 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTC
*
59643430 CGAGTTTGCTTATGGGCGGGTTACATGATTGCTTGATTGCATATATGGCACTTATGT
66 CGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGCATATATGGCACTTATGT
59643487 G
1 G
59643488 CAAGTTATCC
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (122 bp):
GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTC
CGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGCATATATGGCACTTATGT
Found at i:59644418 original size:63 final size:63
Alignment explanation
Indices: 59644340--59644465 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
59644330 CAGAATACTG
*
59644340 TAGCAACACTGACGTGAGTTTGAAAATTTACTAAAAATTATAGAAATTGAATTTGGTGATGGA
1 TAGCAACACTGACGTGAGTTTGAAAATTTACTAAAAATCATAGAAATTGAATTTGGTGATGGA
* *
59644403 TAGCAACACTGACGTGAGTTTTAAAATTTACTACAAATCATAGAAATTGAATTTGGTGATGGA
1 TAGCAACACTGACGTGAGTTTGAAAATTTACTAAAAATCATAGAAATTGAATTTGGTGATGGA
59644466 CTGCATATCA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (63 bp):
TAGCAACACTGACGTGAGTTTGAAAATTTACTAAAAATCATAGAAATTGAATTTGGTGATGGA
Found at i:59649410 original size:40 final size:40
Alignment explanation
Indices: 59649350--59649573 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
59649340 TATTCGGATG
*
59649350 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
59649390 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
59649433 ATACCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
59649473 ATATCCGGGCTAAGTCCCAAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
59649513 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
59649553 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
59649574 ATACTTGGGT
Statistics
Matches: 158, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 12 0.08
40 109 0.69
41 1 0.01
43 36 0.23
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:59649496 original size:83 final size:80
Alignment explanation
Indices: 59649355--59649569 Score: 265
Period size: 83 Copynumber: 2.7 Consensus size: 80
59649345 GGATGATATT
* * **
59649355 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCAT
59649420 GCGAGTAGTTG-CTATACC
66 GC---TAG-TGACTATACC
* *
59649438 CGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCAT
*
59649503 GCTAGTGACTATATC
66 GCTAGTGACTATACC
* * * *
59649518 CGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCC
59649570 GAAGATACTT
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
79 12 0.10
80 43 0.36
81 2 0.02
83 61 0.52
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCAT
GCTAGTGACTATACC
Found at i:59649841 original size:22 final size:22
Alignment explanation
Indices: 59649801--59649842 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
59649791 GAATGTGCAT
*
59649801 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
59649823 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
59649843 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:59652595 original size:40 final size:40
Alignment explanation
Indices: 59652532--59652706 Score: 178
Period size: 40 Copynumber: 4.3 Consensus size: 40
59652522 ATTATGTTTG
*
59652532 GCACTTAGTGTGCATATCGAGATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCGTATCGAGATAGCTTCGGCTATATAAA
* *
59652572 GCACTTAGTGTGCGTATCAAGATAACTTCGGCTATATAAA
1 GCACTTAGTGTGCGTATCGAGATAGCTTCGGCTATATAAA
** * * *
59652612 GCACTTAGTGTGCAAATC-AGAATAGCTTTGGTTATAT-AT
1 GCACTTAGTGTGCGTATCGAG-ATAGCTTCGGCTATATAAA
* *
59652651 GACACTTAGTGTGCG-AGACTGAGATAGCTTCGGCTAT-GAAA
1 G-CACTTAGTGTGCGTA-TC-GAGATAGCTTCGGCTATATAAA
*
59652692 GACACTTAATGTGCG
1 G-CACTTAGTGTGCG
59652707 AGATATTGAG
Statistics
Matches: 113, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
39 5 0.04
40 79 0.70
41 27 0.24
42 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (40 bp):
GCACTTAGTGTGCGTATCGAGATAGCTTCGGCTATATAAA
Found at i:59665417 original size:32 final size:32
Alignment explanation
Indices: 59665372--59665434 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
59665362 TCGAGACAGG
59665372 ACGAAATGCCGATATTGCGGTAAATGGCATTA
1 ACGAAATGCCGATATTGCGGTAAATGGCATTA
*
59665404 ACGAAATGTCGATATTGCGGTAAATGGCATT
1 ACGAAATGCCGATATTGCGGTAAATGGCATT
59665435 CGGGGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (32 bp):
ACGAAATGCCGATATTGCGGTAAATGGCATTA
Found at i:59670102 original size:40 final size:40
Alignment explanation
Indices: 59670018--59670242 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
59670008 TTGAACGATG
* * *
59670018 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT-AAA
* * *
59670058 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59670098 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59670137 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59670177 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59670218 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59670243 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
39 34 0.21
40 120 0.73
41 11 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59670260 original size:80 final size:80
Alignment explanation
Indices: 59670018--59670275 Score: 235
Period size: 80 Copynumber: 3.2 Consensus size: 80
59670008 TTGAACGATG
* * * * * *
59670018 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACT-AAATCCGGGCTAAG-TCCCGAAGGCA
** *
59670080 TTTGTGCGAGAT-ACTAAT
63 TTTGAACGAG-TGACTAAA
* *
59670098 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
59670162 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
59670177 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
59670241 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
59670257 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59670276 TACGTGATTT
Statistics
Matches: 154, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.01
79 73 0.47
80 77 0.50
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:59679352 original size:24 final size:25
Alignment explanation
Indices: 59679313--59679370 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 25
59679303 AACTCCTTCT
59679313 GAGCTGATAAACAGTAAGCTCTGAC
1 GAGCTGATAAACAGTAAGCTCTGAC
* * *
59679338 GAGCTGA-GAACAGTAAGCTCTTAT
1 GAGCTGATAAACAGTAAGCTCTGAC
59679362 GAGCTGATA
1 GAGCTGATA
59679371 TATCGGTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (25 bp):
GAGCTGATAAACAGTAAGCTCTGAC
Found at i:59679391 original size:26 final size:23
Alignment explanation
Indices: 59679313--59679391 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 23
59679303 AACTCCTTCT
59679313 GAGCTGATAAACAGTAAGCTCTGAC
1 GAGCTGAT-AACAGTAAGCTCT-AC
* *
59679338 GAGCTGAGAACAGTAAGCTCTTAT
1 GAGCTGATAACAGTAAGCTC-TAC
*
59679362 GAGCTGATATATCGGTAAGCTCATAC
1 GAGCTGATA-A-CAGTAAGCTC-TAC
59679388 GAGC
1 GAGC
59679392 CGCGGTGAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 21 0.47
25 9 0.20
26 15 0.33
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (23 bp):
GAGCTGATAACAGTAAGCTCTAC
Found at i:59688761 original size:48 final size:48
Alignment explanation
Indices: 59688685--59688830 Score: 211
Period size: 48 Copynumber: 3.0 Consensus size: 48
59688675 TTTGGCTATC
* * **
59688685 GGCACCGATATGCGATCCCATGTAAGACCACGTCTGGGACATGGCATT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATT
* **
59688733 GGCATCGATATGTGATCCCATGTAAGACCATATCTAGGACATGATATT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATT
* *
59688781 GGCATCGATATGTGATCCCATGTAAGACCATATCCGGGATATGGCATT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATT
59688829 GG
1 GG
59688831 TATTCTACCA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (48 bp):
GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCATT
Found at i:59699091 original size:13 final size:13
Alignment explanation
Indices: 59699052--59699082 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
59699042 TCTATTTTCA
59699052 CACGGCCGTATCG
1 CACGGCCGTATCG
*
59699065 CACGACCGTATCG
1 CACGGCCGTATCG
59699078 CACGG
1 CACGG
59699083 TCGTGTCGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.19, C:0.39, G:0.29, T:0.13
Consensus pattern (13 bp):
CACGGCCGTATCG
Found at i:59706263 original size:39 final size:40
Alignment explanation
Indices: 59706162--59706385 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
59706152 TTGAATGATG
*
59706162 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
59706201 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
59706242 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59706281 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59706320 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59706359 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
59706386 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 10, Indels: 14
0.87 0.05 0.07
Matches are distributed among these distances:
39 75 0.45
40 78 0.47
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:59706349 original size:79 final size:81
Alignment explanation
Indices: 59706162--59706385 Score: 291
Period size: 79 Copynumber: 2.8 Consensus size: 81
59706152 TTGAATGATG
* * *
59706162 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
59706224 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
59706242 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
59706304 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
59706320 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
59706384 TG
66 TG
59706386 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
78 37 0.29
79 54 0.42
80 37 0.29
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:59706407 original size:79 final size:79
Alignment explanation
Indices: 59706162--59706418 Score: 233
Period size: 79 Copynumber: 3.3 Consensus size: 79
59706152 TTGAATGATG
* * * *
59706162 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
59706224 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
59706242 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
59706306 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
59706320 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
59706384 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
59706400 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59706419 TACGTGATTT
Statistics
Matches: 154, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
77 1 0.01
78 36 0.23
79 68 0.44
80 48 0.31
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:59712866 original size:40 final size:40
Alignment explanation
Indices: 59712777--59713040 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
59712767 TTGAATGATG
* *
59712777 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
59712816 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
59712856 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59712895 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59712935 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59712975 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59713016 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59713041 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59713058 original size:120 final size:118
Alignment explanation
Indices: 59712777--59713073 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
59712767 TTGAATGATG
* *
59712777 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
59712837 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
59712895 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
59712960 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
59713016 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
59713074 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:59722532 original size:43 final size:44
Alignment explanation
Indices: 59722435--59722581 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 44
59722425 TTTGAGATGT
* * * *
59722435 GATTATATGTAAGACCATGTTTGAGACATTGGCAT-TTTATTGA
1 GATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTAATGA
*
59722478 GATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTAATGA
* * * * * * *
59722521 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT-ATGT
1 GATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTAATGA
*
59722564 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
59722582 ATATGGGATA
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 2 0.02
43 80 0.93
44 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTAATGA
Found at i:59722589 original size:43 final size:42
Alignment explanation
Indices: 59722482--59722597 Score: 108
Period size: 43 Copynumber: 2.7 Consensus size: 42
59722472 TATTGAGATT
* * *
59722482 ACATGTAAGACCATGTTTGGGACATTGGCATCGTTAATCGATT
1 ACATGTAAGACCATGTATGGGACA-TGGCATCGATAATCGATA
* * * * *
59722525 TCGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT-ATGTGATA
1 ACATGTAAGACCATGTATGGGACA-TGGCATCGATAAT-CGATA
* *
59722568 ACATGTAAGACCATATATGGGATATGGCAT
1 ACATGTAAGACCATGTATGGGACATGGCAT
59722598 TGTACGACCT
Statistics
Matches: 58, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 8 0.14
43 50 0.86
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
ACATGTAAGACCATGTATGGGACATGGCATCGATAATCGATA
Found at i:59732889 original size:40 final size:40
Alignment explanation
Indices: 59732829--59732908 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
59732819 GAAAAAGCTC
59732829 TATTGTACACAATTGATGACTAGTCATTTTTCTAGTTAGG
1 TATTGTACACAATTGATGACTAGTCATTTTTCTAGTTAGG
* *
59732869 TATTGTACGCAATTGTTGACTAGTCATTTTTCTAGTTAGG
1 TATTGTACACAATTGATGACTAGTCATTTTTCTAGTTAGG
59732909 CAATTTTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (40 bp):
TATTGTACACAATTGATGACTAGTCATTTTTCTAGTTAGG
Found at i:59735259 original size:10 final size:11
Alignment explanation
Indices: 59735244--59735289 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
59735234 ATTTCGATAT
*
59735244 ACATGATTTG-
1 ACATGATATGC
59735254 ACATGATATGC
1 ACATGATATGC
59735265 ACATGATATG-
1 ACATGATATGC
*
59735275 -TATGATATGC
1 ACATGATATGC
59735285 ACATG
1 ACATG
59735290 CTGTATTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 8 0.27
10 9 0.30
11 13 0.43
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:59735390 original size:25 final size:25
Alignment explanation
Indices: 59735338--59735407 Score: 106
Period size: 24 Copynumber: 2.8 Consensus size: 25
59735328 GAGGAAGTGC
*
59735338 AAAAGGGCTATGCCCCAG-TTACAG
1 AAAAGGGCTTTGCCCCAGTTTACAG
*
59735362 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACAG
59735387 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
59735408 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.40
25 13 0.31
26 12 0.29
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACAG
Found at i:59735664 original size:31 final size:31
Alignment explanation
Indices: 59735626--59735709 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
59735616 TTGTTACAGT
59735626 AAAGGCTTCGGCCCAGTGATATGAATAACGA
1 AAAGGCTTCGGCCCAGTGATATGAATAACGA
* *
59735657 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAACGA
*
59735688 AAAGGCTTCGCCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
59735710 CTGAGATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAACGA
Found at i:59739749 original size:52 final size:52
Alignment explanation
Indices: 59739671--59739775 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
59739661 AAGAGGGTAA
*
59739671 AGTGGTCACTTATGCTTCACGACAGCTTAAGCCGCACGAGGTGAACTACCCT
1 AGTGGTCACTTATGCTTCACGACAGCTTAAGCCGCACGAGGTAAACTACCCT
* *
59739723 AGTGGTCACTTATGCTTCACGACAGCTTAAGTCTCACGAGGTAAACTACCCT
1 AGTGGTCACTTATGCTTCACGACAGCTTAAGCCGCACGAGGTAAACTACCCT
59739775 A
1 A
59739776 CGCATGACTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (52 bp):
AGTGGTCACTTATGCTTCACGACAGCTTAAGCCGCACGAGGTAAACTACCCT
Found at i:59743200 original size:11 final size:10
Alignment explanation
Indices: 59743169--59743221 Score: 56
Period size: 11 Copynumber: 5.3 Consensus size: 10
59743159 ATGAGATTTC
59743169 GATAT-ACAT
1 GATATGACAT
*
59743178 GATTTGACAT
1 GATATGACAT
59743188 GATATGCACAT
1 GATATG-ACAT
*
59743199 GATATG-TAT
1 GATATGACAT
59743208 GATATGTACAT
1 GATATG-ACAT
59743219 GAT
1 GAT
59743222 GTATTCATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 12 0.33
10 9 0.25
11 15 0.42
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (10 bp):
GATATGACAT
Found at i:59743295 original size:24 final size:25
Alignment explanation
Indices: 59743268--59743353 Score: 122
Period size: 26 Copynumber: 3.4 Consensus size: 25
59743258 GAGGAAGTGC
*
59743268 AAAAGGGCTATGCCCCAG-TTACAG
1 AAAAGGGCTTTGCCCCAGTTTACAG
*
59743292 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACAG
59743317 AAAAGGGCTTTTGCCCCAGTTTATCA-
1 AAAAGGGC-TTTGCCCCAGTTTA-CAG
59743343 AAAAGGGCTTT
1 AAAAGGGCTTT
59743354 TGTAACATCC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
24 17 0.30
25 16 0.29
26 22 0.39
27 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACAG
Found at i:59745051 original size:25 final size:24
Alignment explanation
Indices: 59745018--59745065 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
59745008 TTATAATATG
* * *
59745018 AAAAAGACCGTTTTGCCCCTAGGT
1 AAAAAGACCATTATACCCCTAGGT
59745042 AAAAATGACCATTATACCCCTAGG
1 AAAAA-GACCATTATACCCCTAGG
59745066 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (24 bp):
AAAAAGACCATTATACCCCTAGGT
Found at i:59745126 original size:20 final size:20
Alignment explanation
Indices: 59745102--59745168 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
59745092 ATTTTGATAT
*
59745102 ACATGAT-TGATATGATATGT
1 ACATGATATG-TATGATATGC
*
59745122 ACATGATATGTATGGTATGC
1 ACATGATATGTATGATATGC
59745142 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
59745162 ACATGAT
1 ACATGAT
59745169 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:59745129 original size:11 final size:11
Alignment explanation
Indices: 59745101--59745168 Score: 58
Period size: 11 Copynumber: 6.7 Consensus size: 11
59745091 GATTTTGATA
59745101 TACATGAT-TG
1 TACATGATATG
*
59745111 -ATATGATATG
1 TACATGATATG
59745121 TACATGATATG
1 TACATGATATG
*
59745132 T--ATGGTATG
1 TACATGATATG
*
59745141 CACATGATATG
1 TACATGATATG
59745152 T--ATGATATG
1 TACATGATATG
*
59745161 CACATGAT
1 TACATGAT
59745169 GTATTCATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
9 21 0.47
10 2 0.04
11 22 0.49
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.37
Consensus pattern (11 bp):
TACATGATATG
Found at i:59745227 original size:24 final size:23
Alignment explanation
Indices: 59745195--59745262 Score: 109
Period size: 24 Copynumber: 2.9 Consensus size: 23
59745185 TGGGTTGGGT
59745195 CCCCAGTTATTAAAAGGGCTTATG
1 CCCCAGTTATTAAAAGGGCTT-TG
59745219 CCCCAGTTATTAAAAGGGCTTTG
1 CCCCAGTTATTAAAAGGGCTTTG
*
59745242 CCCTAGTTATTAAAAGAGGCT
1 CCCCAGTTATTAAAAG-GGCT
59745263 AGGCCTCTAG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
23 17 0.40
24 25 0.60
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
CCCCAGTTATTAAAAGGGCTTTG
Found at i:59745249 original size:23 final size:23
Alignment explanation
Indices: 59745199--59745276 Score: 102
Period size: 24 Copynumber: 3.3 Consensus size: 23
59745189 TTGGGTCCCC
*
59745199 AGTTATTAAAAGGGCTTATGCCCC
1 AGTTATTAAAAGGGCTT-TGCCCT
59745223 AGTTATTAAAAGGGCTTTGCCCT
1 AGTTATTAAAAGGGCTTTGCCCT
**
59745246 AGTTATTAAAAGAGGCTAGGCCTCT
1 AGTTATTAAAAG-GGCTTTGCC-CT
59745271 AGTTAT
1 AGTTAT
59745277 ATGATAAAGC
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
23 17 0.35
24 24 0.49
25 8 0.16
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (23 bp):
AGTTATTAAAAGGGCTTTGCCCT
Found at i:59755847 original size:22 final size:22
Alignment explanation
Indices: 59755822--59755864 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
59755812 TTCAAGTTAA
59755822 TGCACTTATTCAGAGGAGCAAG
1 TGCACTTATTCAGAGGAGCAAG
59755844 TGCACTTATTCAGAGGAGCAA
1 TGCACTTATTCAGAGGAGCAA
59755865 AAGTCCCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (22 bp):
TGCACTTATTCAGAGGAGCAAG
Found at i:59756166 original size:13 final size:13
Alignment explanation
Indices: 59756148--59756172 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59756138 GTGAAGTCTA
59756148 GGTGAATTTTTCT
1 GGTGAATTTTTCT
59756161 GGTGAATTTTTC
1 GGTGAATTTTTC
59756173 CTTGGGTATT
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:0.16, C:0.08, G:0.24, T:0.52
Consensus pattern (13 bp):
GGTGAATTTTTCT
Found at i:59760460 original size:11 final size:11
Alignment explanation
Indices: 59760444--59760469 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
59760434 TGAAGCCCAC
59760444 ATCACAATAAT
1 ATCACAATAAT
59760455 ATCACAATAAT
1 ATCACAATAAT
59760466 ATCA
1 ATCA
59760470 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:59760673 original size:32 final size:32
Alignment explanation
Indices: 59760632--59760697 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
59760622 AGCTGCTAAT
59760632 CAAATATTAGGCTCAATAGCCATCGATGGATC
1 CAAATATTAGGCTCAATAGCCATCGATGGATC
*
59760664 CAAATATTAGGCTTAATAGCCATCGATGGATC
1 CAAATATTAGGCTCAATAGCCATCGATGGATC
59760696 CA
1 CA
59760698 CGGTCGTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (32 bp):
CAAATATTAGGCTCAATAGCCATCGATGGATC
Found at i:59761033 original size:27 final size:27
Alignment explanation
Indices: 59761002--59761306 Score: 247
Period size: 27 Copynumber: 11.3 Consensus size: 27
59760992 TTATACTATA
*
59761002 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
59761029 GGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
** * * * *
59761056 AGTCTATTTTGGTAATTTTATAAAAT-A
1 AGGGTATTTCGATAATTTTA-CAAATCG
**
59761083 AGGGTATTTTAATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
59761110 ATGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * * **
59761137 AAGGTGTTTCGGTAATTTTTCAAATTA
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
59761164 AGAGTGTTTCGATAATTTCACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
59761191 AGGGTGTTTAGATAATTTTAAAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
59761218 AGGGTATTTTAGA-AATTTCAC-AATTG
1 AGGGTA-TTTCGATAATTTTACAAATCG
* *
59761244 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
59761271 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
59761298 GGGGTATTT
1 AGGGTATTT
59761307 TAGTAATTTA
Statistics
Matches: 226, Mismatches: 47, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
25 4 0.02
26 21 0.09
27 191 0.85
28 10 0.04
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:59761064 original size:54 final size:54
Alignment explanation
Indices: 59761002--59761315 Score: 283
Period size: 54 Copynumber: 5.8 Consensus size: 54
59760992 TTATACTATA
* *
59761002 AGGGTATTTCAATAATTTTACAAATCGGGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCG
** * * * * * **
59761056 AGTCTATTTTGGTAATTTTATAAAAT-AAGGGTATTTTAATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTA-CAAATCGAGGGTGTTTTGGTAATTTTACAAATCG
* * * * * * **
59761110 ATGGTGTTTCGGTAATTTTACAAATCGAAGGTGTTTCGGTAATTTTTCAAATTA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCG
* * * * * * * *
59761164 AGAGTGTTTCGATAATTTCACAAATTGAGGGTGTTTAGATAATTTTAAAAATTG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCG
* * * *
59761218 AGGGTATTTTAGA-AATTTCAC-AATTGAGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTA-TTTCGATAATTTTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCG
* * *
59761271 AGGGTATTTCGATAATTTTACAAATCGGGGGTATTTTAGTAATTT
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTTGGTAATTT
59761316 ATCTTTATTA
Statistics
Matches: 204, Mismatches: 51, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
52 5 0.02
53 45 0.22
54 145 0.71
55 9 0.04
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTTGGTAATTTTACAAATCG
Found at i:59761097 original size:81 final size:81
Alignment explanation
Indices: 59760975--59761315 Score: 335
Period size: 81 Copynumber: 4.2 Consensus size: 81
59760965 TTACCCTATA
* * ** * *
59760975 AGGGTATGTTGGTCATTTTATACTATAAGGGTATTTCAATAATTTTACAAATCGGGGGTGTTTTG
1 AGGGTATTTTGGTAATTTTATAAAATAAGGGTATTTCAATAATTTTACAAATCGAGGGTGTTTCG
*
59761040 GTAATTTTACAAATCG
66 ATAATTTTACAAATCG
** * *
59761056 AGTCTATTTTGGTAATTTTATAAAATAAGGGTATTTTAATAATTTTACAAATCGATGGTGTTTCG
1 AGGGTATTTTGGTAATTTTATAAAATAAGGGTATTTCAATAATTTTACAAATCGAGGGTGTTTCG
*
59761121 GTAATTTTACAAATCG
66 ATAATTTTACAAATCG
* * * * * * * * * *
59761137 AAGGTGTTTCGGTAATTTT-TCAAATTAAGAGTGTTTCGATAATTTCACAAATTGAGGGTGTTTA
1 AGGGTATTTTGGTAATTTTAT-AAAATAAGGGTATTTCAATAATTTTACAAATCGAGGGTGTTTC
* *
59761201 GATAATTTTAAAAATTG
65 GATAATTTTACAAATCG
* * * * * * * ** *
59761218 AGGGTATTTTAGAAATTTCA-CAATTGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTCG
1 AGGGTATTTTGGTAATTTTATAAAATAAGGGTATTTCAATAATTTTACAAATCGAGGGTGTTTCG
59761282 ATAATTTTACAAATCG
66 ATAATTTTACAAATCG
* *
59761298 GGGGTATTTTAGTAATTT
1 AGGGTATTTTGGTAATTT
59761316 ATCTTTATTA
Statistics
Matches: 213, Mismatches: 45, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
80 67 0.31
81 146 0.69
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTATAAAATAAGGGTATTTCAATAATTTTACAAATCGAGGGTGTTTCG
ATAATTTTACAAATCG
Found at i:59761681 original size:28 final size:28
Alignment explanation
Indices: 59761632--59761723 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 28
59761622 TGGCCCCTTT
* * *
59761632 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
59761660 AGGCCCAATTACATTCGTATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
59761688 AGGCCCAATCACATTTATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
59761716 AGGCCCAA
1 AGGCCCAA
59761724 CTACTTCTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:59764639 original size:54 final size:53
Alignment explanation
Indices: 59764577--59764702 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 53
59764567 TTACACTACA
* * **
59764577 AAGGTATTTC-GATAATTTTAC-AATTCGGGGGTGTTTTGGTAATTTTACAAATC
1 AAGGTATTTCAG-TAATTTTACAAATT-GAGGGTATTCCGGTAATTTTACAAATC
*
59764630 AAGGCTATTTCAGTAATTTTACAAATTGAGGGTATTCCGGTAATTTTAGAAATC
1 AAGG-TATTTCAGTAATTTTACAAATTGAGGGTATTCCGGTAATTTTACAAATC
*
59764684 GAGGGTATTTCAGTAATTT
1 -AAGGTATTTCAGTAATTT
59764703 CTCTTTATTA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
53 4 0.06
54 51 0.81
55 8 0.13
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (53 bp):
AAGGTATTTCAGTAATTTTACAAATTGAGGGTATTCCGGTAATTTTACAAATC
Found at i:59764645 original size:27 final size:27
Alignment explanation
Indices: 59764579--59764702 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
59764569 ACACTACAAA
* *
59764579 GGTATTTC-GATAATTTTACAATTCGGG
1 GGTATTTCAG-TAATTTTACAAATCGAG
* ** *
59764606 GGTGTTTTGGTAATTTTACAAATCAAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* *
59764633 GCTATTTCAGTAATTTTACAAATTGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* * *
59764660 GGTATTCCGGTAATTTTAGAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
59764687 GGTATTTCAGTAATTT
1 GGTATTTCAGTAATTT
59764703 CTCTTTATTA
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
27 77 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAG
Found at i:59765063 original size:28 final size:28
Alignment explanation
Indices: 59765019--59765138 Score: 186
Period size: 28 Copynumber: 4.3 Consensus size: 28
59765009 TGGCCCCTTT
* * *
59765019 AGGCCCAATCTCTTTCACATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
59765047 AGGCCCAATTACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
59765075 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
59765103 AGACCCAATCATATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
59765131 AGGCCCAA
1 AGGCCCAA
59765139 CTACTTCCCA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 84 1.00
ACGTcount: A:0.28, C:0.35, G:0.14, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:59770301 original size:27 final size:27
Alignment explanation
Indices: 59770271--59770589 Score: 302
Period size: 27 Copynumber: 11.8 Consensus size: 27
59770261 TATGCCGGTC
*
59770271 ATTTTAC-AATACAAGGGTATTTTGATA
1 ATTTTACAAAT-CGAGGGTATTTTGATA
* * * *
59770298 ATTTTAAAAATCGGGGGTGTTTTGGTA
1 ATTTTACAAATCGAGGGTATTTTGATA
* *
59770325 ATTTTACAAATCGAGGCTATTTTTAGTA
1 ATTTTACAAATCGAGGGTATTTTGA-TA
* ** * *
59770353 ATTTTATAAATTAAGGGTATTTCGGTA
1 ATTTTACAAATCGAGGGTATTTTGATA
* * * *
59770380 ATTTTACAAATCGATGGTGTGTCGATA
1 ATTTTACAAATCGAGGGTATTTTGATA
* *
59770407 ATTTTACAAATCGAGGGTGTTTTGGTA
1 ATTTTACAAATCGAGGGTATTTTGATA
* * *
59770434 ATTTCACAAATCGAGGGTGTTTCGATA
1 ATTTTACAAATCGAGGGTATTTTGATA
* * * *
59770461 ATTTTGCAAATCAAAGGTATTTTAATA
1 ATTTTACAAATCGAGGGTATTTTGATA
* *
59770488 ATTTCACAAA-CGAGGGTA-TTTCAGTA
1 ATTTTACAAATCGAGGGTATTTTGA-TA
* *
59770514 ATTTTACAAATCGAAGGTATTTTGGTA
1 ATTTTACAAATCGAGGGTATTTTGATA
*
59770541 ATTTTACAAATCGAGGGTATTTCGATA
1 ATTTTACAAATCGAGGGTATTTTGATA
* *
59770568 ATTTTACAAATTGGGGGTATTT
1 ATTTTACAAATCGAGGGTATTT
59770590 CAGTTATTTC
Statistics
Matches: 234, Mismatches: 53, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
25 4 0.02
26 17 0.07
27 187 0.80
28 26 0.11
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTTTACAAATCGAGGGTATTTTGATA
Found at i:59770329 original size:54 final size:54
Alignment explanation
Indices: 59770271--59770589 Score: 347
Period size: 54 Copynumber: 5.9 Consensus size: 54
59770261 TATGCCGGTC
* * * * *
59770271 ATTTTAC-AATACAAGGGTATTTTGATAATTTTAAAAATCGGGGGTGTTTTGGTA
1 ATTTTACAAAT-CGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTA
* ** * ** *
59770325 ATTTTACAAATCGAGGCTATTTTTAGTAATTTTATAAATTAAGGGTATTTCGGTA
1 ATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTTGGTA
* * * *
59770380 ATTTTACAAATCGATGGTGTGTCGATAATTTTACAAATCGAGGGTGTTTTGGTA
1 ATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTA
* * * * * **
59770434 ATTTCACAAATCGAGGGTGTTTCGATAATTTTGCAAATCAAAGGTATTTTAATA
1 ATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTA
* *
59770488 ATTTCACAAA-CGAGGGTATTTC-AGTAATTTTACAAATCGAAGGTATTTTGGTA
1 ATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTTGGTA
* *
59770541 ATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATTGGGGGTATTT
1 ATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTT
59770590 CAGTTATTTC
Statistics
Matches: 222, Mismatches: 38, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
52 1 0.00
53 45 0.20
54 130 0.59
55 46 0.21
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
ATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTA
Done.