Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 52 of 207
Found at i:15261395 original size:20 final size:21
Alignment explanation
Indices: 15261358--15261396 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15261348 TTAATTTTTC
* *
15261358 TATTTTTAATGATTATTAATT
1 TATTTTTAATAATAATTAATT
15261379 TATTTTTAA-AATAATTAA
1 TATTTTTAATAATAATTAA
15261397 ACCGTGGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (21 bp):
TATTTTTAATAATAATTAATT
Found at i:15263205 original size:19 final size:18
Alignment explanation
Indices: 15263167--15263205 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
15263157 ATTAAAAATT
*
15263167 ATATAAAAAAATAATTTG
1 ATATAAAAAAATAATATG
*
15263185 ATATAAATAAAATAGTATG
1 ATATAAA-AAAATAATATG
15263204 AT
1 AT
15263206 TTTTGAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
ATATAAAAAAATAATATG
Found at i:15265755 original size:11 final size:12
Alignment explanation
Indices: 15265739--15265917 Score: 55
Period size: 11 Copynumber: 15.3 Consensus size: 12
15265729 CTTAATCACT
15265739 TTAATATTAA-A
1 TTAATATTAATA
15265750 TTAATA-TAATA
1 TTAATATTAATA
*
15265761 TAAATATTAGATA
1 TTAATATTA-ATA
*
15265774 -AAAT-TTAATA
1 TTAATATTAATA
15265784 TTAA-ATCT--TA
1 TTAATAT-TAATA
15265794 TTAA-ATTAATA
1 TTAATATTAATA
* * *
15265805 -GAATATTTATC
1 TTAATATTAATA
* * *
15265816 TATAAGATAAACA
1 T-TAATATTAATA
15265829 TTAA-ATTAA-A
1 TTAATATTAATA
*
15265839 TTTAATATTAAGA
1 -TTAATATTAATA
15265852 -TAATCACTCTAATA
1 TTAAT-A-T-TAATA
15265866 TTAA-ATTAATAAA
1 TTAATATTAAT--A
* *
15265879 ATACTATTAATA
1 TTAATATTAATA
*
15265891 TAAATATTAA-A
1 TTAATATTAATA
15265902 TTAA-ATTAAATA
1 TTAATATT-AATA
15265914 TTAA
1 TTAA
15265918 ATCTATTCAA
Statistics
Matches: 126, Mismatches: 19, Indels: 45
0.66 0.10 0.24
Matches are distributed among these distances:
9 1 0.01
10 20 0.16
11 47 0.37
12 30 0.24
13 15 0.12
14 10 0.08
15 3 0.02
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (12 bp):
TTAATATTAATA
Found at i:15265911 original size:17 final size:17
Alignment explanation
Indices: 15265823--15265919 Score: 62
Period size: 17 Copynumber: 5.7 Consensus size: 17
15265813 ATCTATAAGA
*
15265823 TAAACATTAAATTAAAT
1 TAAATATTAAATTAAAT
*
15265840 TTAATATTAAGA-TAATCACT
1 TAAATATTAA-ATTAA--A-T
15265860 CT-AATATTAAATT-AAT
1 -TAAATATTAAATTAAAT
* *
15265876 AAAATACT--ATT-AAT
1 TAAATATTAAATTAAAT
15265890 ATAAATATTAAATTAAAT
1 -TAAATATTAAATTAAAT
15265908 TAAATATTAAAT
1 TAAATATTAAAT
15265920 CTATTCAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
14 6 0.10
15 6 0.10
16 6 0.10
17 27 0.43
18 4 0.06
19 3 0.05
20 10 0.16
21 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (17 bp):
TAAATATTAAATTAAAT
Found at i:15265929 original size:17 final size:16
Alignment explanation
Indices: 15265862--15265933 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 16
15265852 TAATCACTCT
*
15265862 AATATTAAATTAATAA
1 AATATTAAATTAATTA
*
15265878 AATACT--ATTAATATA
1 AATATTAAATTAAT-TA
15265893 AATATTAAATTAAATTA
1 AATATTAAATT-AATTA
15265910 AATATTAAATCT-ATTCA
1 AATATTAAAT-TAATT-A
15265927 AATATTA
1 AATATTA
15265934 TTATTATTGG
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
14 6 0.13
15 6 0.13
16 8 0.17
17 23 0.49
18 4 0.09
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATTAAATTAATTA
Found at i:15265936 original size:68 final size:70
Alignment explanation
Indices: 15265781--15265936 Score: 153
Period size: 68 Copynumber: 2.2 Consensus size: 70
15265771 ATAAAATTTA
* *
15265781 ATATT-AAATCTTATTAAATTAATAGAATATTTATCTATAAGATAAACATTAAATTAAATTTAAT
1 ATATTCAAATATTATTAAATTAATAGAATA-TTATCTATAAGATAAACATTAAATTAAATTAAAT
15265845 ATTAAG
65 ATTAAG
* ** * * *
15265851 ATAATCACTCTAATATTAAATTAATA-AA-A-TA-CTATTAATATAAATATTAAATTAAATTAAA
1 ATATTCA-AATATTATTAAATTAATAGAATATTATCTA-TAAGATAAACATTAAATTAAATTAAA
15265912 TATTAA-
64 TATTAAG
15265918 ATCTATTCAAATATTATTA
1 A--TATTCAAATATTATTA
15265937 TTATTGGAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
67 4 0.06
68 38 0.55
69 5 0.07
70 5 0.07
71 3 0.04
72 14 0.20
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (70 bp):
ATATTCAAATATTATTAAATTAATAGAATATTATCTATAAGATAAACATTAAATTAAATTAAATA
TTAAG
Found at i:15270331 original size:97 final size:97
Alignment explanation
Indices: 15270173--15270356 Score: 298
Period size: 97 Copynumber: 1.9 Consensus size: 97
15270163 ACATGTTCAG
* *
15270173 ATATCACATGTCCTCATCCAACACAGCAACACAGAAATGAATCATCAACATTAACAAAGCATGGA
1 ATATCACATGTCCTCATCCAAAACAGCAACACAGAAATGAATCATCAAAATTAACAAAGCATGGA
*
15270238 TTATACCTGAATAAATCACATAACATATTTAA
66 TCATACCTGAATAAATCACATAACATATTTAA
* *
15270270 ATATCACATGT-CTACATCCAAAATAGCAACACAGAAATGAATCATCAAAATTAACAGAGCATGG
1 ATATCACATGTCCT-CATCCAAAACAGCAACACAGAAATGAATCATCAAAATTAACAAAGCATGG
*
15270334 ATCCTACCTGAATAAATCACATA
65 ATCATACCTGAATAAATCACATA
15270357 CCTTAAACAT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 2 0.03
97 78 0.98
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.23
Consensus pattern (97 bp):
ATATCACATGTCCTCATCCAAAACAGCAACACAGAAATGAATCATCAAAATTAACAAAGCATGGA
TCATACCTGAATAAATCACATAACATATTTAA
Found at i:15286976 original size:14 final size:13
Alignment explanation
Indices: 15286946--15286983 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
15286936 ATGTATGTAC
*
15286946 AAAAAA-GAAGAT
1 AAAAAACGAAAAT
15286958 GAAAAAACGAAAAT
1 -AAAAAACGAAAAT
15286972 AAAAAACGAAAA
1 AAAAAACGAAAA
15286984 GAATAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.76, C:0.05, G:0.13, T:0.05
Consensus pattern (13 bp):
AAAAAACGAAAAT
Found at i:15288010 original size:96 final size:96
Alignment explanation
Indices: 15287684--15288160 Score: 637
Period size: 96 Copynumber: 5.0 Consensus size: 96
15287674 ACTGCAATGT
* * * * * * * * ** *
15287684 TGGGGAAGCGAGATTCGCCATCGTAGCTTCAATCTGTTCCACTACACCGCAAGGAAATGAGATTC
1 TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAATAAGATTC
* *
15287749 GCCGTTATGGCTTCAATCTTTT-AATTGCAA
66 GCCGTTGTGGCTTCGATCTTTTAAATTGCAA
* *
15287779 TGTCGGGGAAGTGAGACTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAGTAAGA
1 --T-GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAATAAGA
*
15287844 TTCGCCGTT-TGGCTTCGATC---T--ATCGCAA
63 TTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAA
*
15287872 TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCATCTGGAAATAAGATTC
1 TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAATAAGATTC
15287937 GCCGTTGTGGCTTCGATCTTTTAAATTGCAA
66 GCCGTTGTGGCTTCGATCTTTTAAATTGCAA
* * *
15287968 TGGGGAAGTGAGACTCACCGTTGTAGCTTCAATATGTTCCGCTGCATCCCCT-GAAAGTAAGATT
1 TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAA-TAAGATT
*
15288032 CGCCGTTGTGGCTTCGATCTTTTAAATTACAA
65 CGCCGTTGTGGCTTCGATCTTTTAAATTGCAA
* *
15288064 TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTC
1 TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAATAAGATTC
* *
15288129 ACCATTGTGGCTTCGATCTTTTAAATTGCAA
66 GCCGTTGTGGCTTCGATCTTTTAAATTGCAA
15288160 T
1 T
15288161 CTATGGTTAC
Statistics
Matches: 340, Mismatches: 31, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
90 67 0.20
91 12 0.04
93 6 0.02
94 2 0.01
95 4 0.01
96 178 0.52
97 14 0.04
98 57 0.17
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (96 bp):
TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCACCTGGAAATAAGATTC
GCCGTTGTGGCTTCGATCTTTTAAATTGCAA
Found at i:15292130 original size:40 final size:40
Alignment explanation
Indices: 15292075--15292155 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
15292065 ATGCGAAGAC
15292075 ATCTTTGAACTCTCGAAGCAATTCAATGAGGTCTTGTTTT
1 ATCTTTGAACTCTCGAAGCAATTCAATGAGGTCTTGTTTT
15292115 ATCTTTGAACTCTCGAAGCAATTCAATGAGGTCTTGTTTT
1 ATCTTTGAACTCTCGAAGCAATTCAATGAGGTCTTGTTTT
15292155 A
1 A
15292156 CTTCTTCAGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (40 bp):
ATCTTTGAACTCTCGAAGCAATTCAATGAGGTCTTGTTTT
Found at i:15299981 original size:15 final size:15
Alignment explanation
Indices: 15299958--15300021 Score: 67
Period size: 15 Copynumber: 4.1 Consensus size: 15
15299948 GAAATGTAGA
15299958 AACAATAATAATAAT
1 AACAATAATAATAAT
*
15299973 AACATTAATAATAAT
1 AACAATAATAATAAT
* *
15299988 AGCAATAA-AACAAT
1 AACAATAATAATAAT
15300002 GAACTAAATAATAATAAT
1 -AAC--AATAATAATAAT
15300020 AA
1 AA
15300022 GAAAAAAGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 5 0.13
15 22 0.56
17 7 0.18
18 5 0.13
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.25
Consensus pattern (15 bp):
AACAATAATAATAAT
Found at i:15300760 original size:13 final size:13
Alignment explanation
Indices: 15300744--15300768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15300734 AAAAAAGATG
15300744 AAAAAACGAAAAT
1 AAAAAACGAAAAT
15300757 AAAAAACGAAAA
1 AAAAAACGAAAA
15300769 GAATAAAAAG
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:0.80, C:0.08, G:0.08, T:0.04
Consensus pattern (13 bp):
AAAAAACGAAAAT
Found at i:15303291 original size:31 final size:30
Alignment explanation
Indices: 15303256--15303316 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15303246 GTGAGGTGGG
*
15303256 ATGGGAAGAGAATAAAAGTTTTAGGGGAAAA
1 ATGGG-AGAGAATAAAAATTTTAGGGGAAAA
* * *
15303287 ATGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 ATGGGAGAGAATAAAAATTTTAGGGGAAAA
15303317 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.20
Consensus pattern (30 bp):
ATGGGAGAGAATAAAAATTTTAGGGGAAAA
Found at i:15303489 original size:21 final size:21
Alignment explanation
Indices: 15303455--15303495 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15303445 GGGGGGAAGT
*
15303455 GGGAAAGAGTAAAAGTTTTGA
1 GGGAAAGAGTAAAAGGTTTGA
15303476 GGGAAA-AGTAAAAAGGTTTG
1 GGGAAAGAGT-AAAAGGTTTG
15303496 GGAGTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAAGAGTAAAAGGTTTGA
Found at i:15303551 original size:9 final size:9
Alignment explanation
Indices: 15303533--15303578 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
15303523 TATAGTTTGA
15303533 TATTCGAAT
1 TATTCGAAT
*
15303542 TATTCAAAT
1 TATTCGAAT
15303551 TATTCGAAT
1 TATTCGAAT
*
15303560 TATTCGAGT
1 TATTCGAAT
*
15303569 TATCCGAAT
1 TATTCGAAT
15303578 T
1 T
15303579 CGAAAACTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:15303649 original size:9 final size:9
Alignment explanation
Indices: 15303632--15303662 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15303622 TCGAGTTGAT
15303632 TCGAATAAC
1 TCGAATAAC
*
15303641 TCGATTAAC
1 TCGAATAAC
15303650 TCGAATAAC
1 TCGAATAAC
15303659 TCGA
1 TCGA
15303663 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:15307211 original size:27 final size:27
Alignment explanation
Indices: 15307181--15307255 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
15307171 AAGGTGAACC
*
15307181 ATATAGAGTACACCACAAAGGCCATAT
1 ATATAGAGTATACCACAAAGGCCATAT
* * * *
15307208 ATATAAAATATGCCACAAAGGCTATAT
1 ATATAGAGTATACCACAAAGGCCATAT
*
15307235 ATACAGAGTATACCACAAAGG
1 ATATAGAGTATACCACAAAGG
15307256 TGATTCATTC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.20
Consensus pattern (27 bp):
ATATAGAGTATACCACAAAGGCCATAT
Found at i:15310738 original size:36 final size:38
Alignment explanation
Indices: 15310668--15310745 Score: 142
Period size: 37 Copynumber: 2.1 Consensus size: 38
15310658 ACTCAAAGTA
15310668 AGTCACTTGTGAATTATGTTGAGGAAAGTAGAAAGC-T
1 AGTCACTTGTGAATTATGTTGAGGAAAGTAGAAAGCTT
15310705 AGTCACTTGTGAATTATGTTGA-GAAAGTAGAAAGCTT
1 AGTCACTTGTGAATTATGTTGAGGAAAGTAGAAAGCTT
15310742 AGTC
1 AGTC
15310746 CCACATTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 13 0.32
37 27 0.68
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.31
Consensus pattern (38 bp):
AGTCACTTGTGAATTATGTTGAGGAAAGTAGAAAGCTT
Found at i:15311558 original size:64 final size:65
Alignment explanation
Indices: 15311453--15311582 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 65
15311443 GTCCAATAAA
* *
15311453 CATTGGGCTGTCATTGCACATTCCCCATAACGCGCGATAACC-AAACAGCTTGGGTTCAAATCAT
1 CATTGGGCTGTCATTGCACACTCCCCATAACGCGCGATAACCAAAACAGCTTGGGTCCAAATCAT
* *
15311517 CATTGGGCTGTCATTGCACACTCCCCCTAACGCGCGTTAACCAAAACAGCTTGGGTCCAAATCAT
1 CATTGGGCTGTCATTGCACACTCCCCATAACGCGCGATAACCAAAACAGCTTGGGTCCAAATCAT
15311582 C
1 C
15311583 TGATAGTTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 39 0.64
65 22 0.36
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (65 bp):
CATTGGGCTGTCATTGCACACTCCCCATAACGCGCGATAACCAAAACAGCTTGGGTCCAAATCAT
Found at i:15316167 original size:6 final size:6
Alignment explanation
Indices: 15316158--15316186 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15316148 GGAAAAGATT
15316158 CAGGTG CAGGTG CAGGTG CAGGTG CAGGT
1 CAGGTG CAGGTG CAGGTG CAGGTG CAGGT
15316187 ATATGCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.48, T:0.17
Consensus pattern (6 bp):
CAGGTG
Found at i:15329625 original size:15 final size:15
Alignment explanation
Indices: 15329605--15329651 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
15329595 TAATCTAAAA
15329605 TTATATTTTAGTCAC
1 TTATATTTTAGTCAC
* *
15329620 TTATATTTAAAAT-A-
1 TTATATTT-TAGTCAC
15329634 TTATATTTTAGTCAC
1 TTATATTTTAGTCAC
15329649 TTA
1 TTA
15329652 CGTTAATACG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
13 2 0.08
14 9 0.36
15 12 0.48
16 2 0.08
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (15 bp):
TTATATTTTAGTCAC
Found at i:15331800 original size:3 final size:3
Alignment explanation
Indices: 15331794--15331823 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15331784 TAATTTACCT
15331794 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15331824 GTTGTCGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15334535 original size:16 final size:16
Alignment explanation
Indices: 15334514--15334554 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
15334504 TGCTTAATTA
15334514 AAAAGATCCTATTTCT
1 AAAAGATCCTATTTCT
**
15334530 AAAAGAATTTTATTTCT
1 AAAAG-ATCCTATTTCT
15334547 AAAAGATC
1 AAAAGATC
15334555 TCTGTTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (16 bp):
AAAAGATCCTATTTCT
Found at i:15337679 original size:15 final size:16
Alignment explanation
Indices: 15337659--15337688 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15337649 AACATCTCAA
15337659 AAATTGGGT-TTGAAG
1 AAATTGGGTGTTGAAG
15337674 AAATTGGGTGTTGAA
1 AAATTGGGTGTTGAA
15337689 ACCAATAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (16 bp):
AAATTGGGTGTTGAAG
Found at i:15339514 original size:20 final size:20
Alignment explanation
Indices: 15339489--15339556 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
15339479 CCACTGTATA
*
15339489 GTTCTGTTCTGCTCTGCTTT
1 GTTCTGTTATGCTCTGCTTT
15339509 GTTCTGTTATGCTCTGC-TT
1 GTTCTGTTATGCTCTGCTTT
* * *
15339528 GATT-TGTTTTGTTTTGCTTT
1 G-TTCTGTTATGCTCTGCTTT
15339548 GTTCTGTTA
1 GTTCTGTTA
15339557 GTTCAGTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 15 0.38
20 25 0.62
ACGTcount: A:0.04, C:0.16, G:0.21, T:0.59
Consensus pattern (20 bp):
GTTCTGTTATGCTCTGCTTT
Found at i:15339535 original size:24 final size:25
Alignment explanation
Indices: 15339496--15339545 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
15339486 ATAGTTCTGT
*
15339496 TCTGCTCTGCTTTGTTCTGTTATGC
1 TCTGCTCTGATTTGTTCTGTTATGC
* *
15339521 TCTGCT-TGATTTGTTTTGTTTTGC
1 TCTGCTCTGATTTGTTCTGTTATGC
15339545 T
1 T
15339546 TTGTTCTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.04, C:0.18, G:0.20, T:0.58
Consensus pattern (25 bp):
TCTGCTCTGATTTGTTCTGTTATGC
Found at i:15340897 original size:13 final size:15
Alignment explanation
Indices: 15340869--15340903 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15340859 ATTGATGTGT
15340869 TTTATTTTTTATATA
1 TTTATTTTTTATATA
*
15340884 TTTATTTTTAATAT-
1 TTTATTTTTTATATA
15340898 TTTATT
1 TTTATT
15340904 ATGCCTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTTTTATATA
Found at i:15343680 original size:18 final size:19
Alignment explanation
Indices: 15343646--15343692 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
15343636 AGTGAAAAAA
15343646 GATTTGGAAATTGAATAAC
1 GATTTGGAAATTGAATAAC
* *
15343665 GATTTGTAAA-TGAATAAT
1 GATTTGGAAATTGAATAAC
*
15343683 GTTTTGGAAA
1 GATTTGGAAA
15343693 CGAATGACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.36
Consensus pattern (19 bp):
GATTTGGAAATTGAATAAC
Found at i:15351606 original size:5 final size:5
Alignment explanation
Indices: 15351592--15351650 Score: 73
Period size: 5 Copynumber: 11.8 Consensus size: 5
15351582 TCAGTTTTGC
* * **
15351592 TCTGT GCTGT TCTGT TCTAT TCTGT TCTGT TCTGT TCTGT TCTAC TCTGT
1 TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT
*
15351642 CCTGT TCTG
1 TCTGT TCTG
15351651 GTTGGGTTGT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.03, C:0.24, G:0.19, T:0.54
Consensus pattern (5 bp):
TCTGT
Found at i:15351640 original size:15 final size:15
Alignment explanation
Indices: 15351579--15351650 Score: 72
Period size: 15 Copynumber: 4.8 Consensus size: 15
15351569 TGCATAGCTT
* *
15351579 TGTTCAGTTTTGCTC
1 TGTTCTGTTCTGCTC
* *
15351594 TGTGCTGTTCTGTTC
1 TGTTCTGTTCTGCTC
* *
15351609 TATTCTGTTCTGTTC
1 TGTTCTGTTCTGCTC
*
15351624 TGTTCTGTTCTACTC
1 TGTTCTGTTCTGCTC
*
15351639 TGTCCTGTTCTG
1 TGTTCTGTTCTG
15351651 GTTGGGTTGT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.04, C:0.22, G:0.19, T:0.54
Consensus pattern (15 bp):
TGTTCTGTTCTGCTC
Found at i:15353895 original size:31 final size:33
Alignment explanation
Indices: 15353836--15353903 Score: 104
Period size: 31 Copynumber: 2.1 Consensus size: 33
15353826 TCTAACCAAT
15353836 GTGTCTGAATCATGCGATATAAACCTTATTTAA
1 GTGTCTGAATCATGCGATATAAACCTTATTTAA
* *
15353869 GTGTTTGAATCATG-G-TATGAACCTTATTTAA
1 GTGTCTGAATCATGCGATATAAACCTTATTTAA
15353900 GTGT
1 GTGT
15353904 ATACCAAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 19 0.58
32 1 0.03
33 13 0.39
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (33 bp):
GTGTCTGAATCATGCGATATAAACCTTATTTAA
Found at i:15359374 original size:88 final size:85
Alignment explanation
Indices: 15359255--15359472 Score: 258
Period size: 88 Copynumber: 2.5 Consensus size: 85
15359245 ATAAGAGTAG
* * *
15359255 GGGCTTAATTGCTTTTTTGAAAAAATTTGAGGGTCTTTTTAATATATTTTGAAAGTTCAAGTATC
1 GGGCTTAATTGCTTTTTTTAAAAAATTTGAGGG-CTTTTTAATACATTTTGAAAGTTCAAGTATA
**
15359320 CAATTGAATG-GGAAAAAAGCA
65 CAATTGAATGAAAAAAAAAG-A
* * *
15359341 GGGCTTAATTGCTTTTTTTAAAAGAAGTTTGAGGGCTTTTTTGATGCATTTTGAAAGTTCAAGTG
1 GGGCTTAATTGCTTTTTTTAAAA-AA-TTTGAGGGC-TTTTTAATACATTTTGAAAGTTCAAGTA
*
15359406 TACAATTGAGTGTAAAAAAAAAAGA
63 TACAATTGAATG--AAAAAAAAAGA
*
15359431 GGAGCTTAATTGCTTTTTTTGAAAAAATTTGAGGACTTTTTA
1 GG-GCTTAATTGCTTTTTTT-AAAAAATTTGAGGGCTTTTTA
15359473 TACCCTTAAA
Statistics
Matches: 113, Mismatches: 11, Indels: 13
0.82 0.08 0.09
Matches are distributed among these distances:
86 22 0.19
87 3 0.03
88 42 0.37
89 5 0.04
90 11 0.10
91 26 0.23
92 4 0.04
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (85 bp):
GGGCTTAATTGCTTTTTTTAAAAAATTTGAGGGCTTTTTAATACATTTTGAAAGTTCAAGTATAC
AATTGAATGAAAAAAAAAGA
Found at i:15360005 original size:12 final size:13
Alignment explanation
Indices: 15359988--15360017 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
15359978 ATATTAAATA
15359988 TTTAATAAT-TTT
1 TTTAATAATATTT
15360000 TTTAATAATATTT
1 TTTAATAATATTT
15360013 TTTAA
1 TTTAA
15360018 AAGTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTAATAATATTT
Found at i:15374111 original size:16 final size:16
Alignment explanation
Indices: 15374090--15374122 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15374080 TTTGGTTCAC
15374090 TATAATGGAATAGAGT
1 TATAATGGAATAGAGT
*
15374106 TATAATTGAATAGAGT
1 TATAATGGAATAGAGT
15374122 T
1 T
15374123 GTAAACAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (16 bp):
TATAATGGAATAGAGT
Found at i:15374392 original size:61 final size:58
Alignment explanation
Indices: 15374306--15374432 Score: 148
Period size: 61 Copynumber: 2.1 Consensus size: 58
15374296 TTTTAATAAG
* * * * * *
15374306 ATTATTGTTAAATATATTTTCATAAAAATAATATTAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATACAATTTAAT-AAAATAATA-T--ATAATTTAATAACATTCTTAACATA
*
15374367 ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAACATTCTTAACATA
15374425 ATTATTAT
1 ATTATTAT
15374433 AATATGAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
57 14 0.24
58 15 0.26
59 1 0.02
60 9 0.16
61 19 0.33
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.46
Consensus pattern (58 bp):
ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAACATTCTTAACATA
Found at i:15374455 original size:58 final size:58
Alignment explanation
Indices: 15374306--15374462 Score: 142
Period size: 58 Copynumber: 2.7 Consensus size: 58
15374296 TTTTAATAAG
* * * * * * *
15374306 ATTATTGTTAAATATATTTTCATAAAAATAATATTAAATAATTTAATCATATTTTAACATA
1 ATTATTATTAAATACAATTT-A-AAAAAT-ATAATATATAATTTAATAACATTTTAACATA
* *
15374367 ATTATTATTAAATACAATTTAATAAA-ATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATACAATTTAAAAAATATAATATATAATTTAATAACATT-TTAACATA
*
15374425 ATTATTA-T-AATATGAA-TTAAAAAATCATAATATATAAT
1 ATTATTATTAAATA-CAATTTAAAAAAT-ATAATATATAAT
15374463 ATTATAAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
56 11 0.14
57 22 0.27
58 26 0.32
59 4 0.05
60 1 0.01
61 17 0.21
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAATACAATTTAAAAAATATAATATATAATTTAATAACATTTTAACATA
Found at i:15374471 original size:23 final size:21
Alignment explanation
Indices: 15374440--15374482 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15374430 TATAATATGA
15374440 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
15374463 ATTATAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
15374483 CCTACTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:15376488 original size:16 final size:16
Alignment explanation
Indices: 15376467--15376498 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15376457 TTTGATCGAC
15376467 TGTGGGCCTTCCATAG
1 TGTGGGCCTTCCATAG
15376483 TGTGGGCCTTCCATAG
1 TGTGGGCCTTCCATAG
15376499 GGTCGGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (16 bp):
TGTGGGCCTTCCATAG
Found at i:15379680 original size:5 final size:5
Alignment explanation
Indices: 15379670--15379697 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15379660 TAGGATATTC
15379670 TTTGA TTTGA TTTGA TTTGA TTTGA TTT
1 TTTGA TTTGA TTTGA TTTGA TTTGA TTT
15379698 TTATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (5 bp):
TTTGA
Found at i:15384265 original size:23 final size:22
Alignment explanation
Indices: 15384227--15384271 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
15384217 AATTTAGAGG
* *
15384227 AGAGAAAGAAATTCAAGATAAAA
1 AGAGAAAAAAAATCAA-ATAAAA
15384250 AGAGAAAAAAAATCAAATAAAA
1 AGAGAAAAAAAATCAAATAAAA
15384272 TCCCTCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.71, C:0.04, G:0.13, T:0.11
Consensus pattern (22 bp):
AGAGAAAAAAAATCAAATAAAA
Found at i:15391231 original size:23 final size:22
Alignment explanation
Indices: 15391205--15391312 Score: 132
Period size: 23 Copynumber: 5.0 Consensus size: 22
15391195 GCTTTGCCGA
15391205 TCAGGCACTTTATGTGTCGTAC
1 TCAGGCACTTTATGTGTCGTAC
15391227 ATCAGGCACTTTATGTGTCGTATC
1 -TCAGGCACTTTATGTGTCGTA-C
*
15391251 TCAGGCTCTTTATGTGTCGTAC
1 TCAGGCACTTTATGTGTCGTAC
* ** *
15391273 T-AGGCACCTCGTGTGTCGT-T
1 TCAGGCACTTTATGTGTCGTAC
15391293 TCAGGCAC-TTATGTGTCGTA
1 TCAGGCACTTTATGTGTCGTA
15391313 TACTGATCAG
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.14
21 20 0.27
22 2 0.03
23 41 0.55
24 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (22 bp):
TCAGGCACTTTATGTGTCGTAC
Found at i:15395282 original size:12 final size:11
Alignment explanation
Indices: 15395265--15395299 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
15395255 TCAATTACCC
*
15395265 AAAAAAGGAAA
1 AAAAAAAGAAA
15395276 AAAAAAAGAAA
1 AAAAAAAGAAA
15395287 AAAGAAAAGAAA
1 AAA-AAAAGAAA
15395299 A
1 A
15395300 TAATGTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.59
12 9 0.41
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:15396121 original size:16 final size:16
Alignment explanation
Indices: 15396102--15396142 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
15396092 AATATAACAT
15396102 AAATTAAACATATAGA
1 AAATTAAACATATAGA
* *
15396118 AAATAAAAACATATCGA
1 AAAT-TAAACATATAGA
15396135 AAATTAAA
1 AAATTAAA
15396143 TATAACCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.22
Consensus pattern (16 bp):
AAATTAAACATATAGA
Found at i:15412933 original size:19 final size:19
Alignment explanation
Indices: 15412909--15412945 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15412899 AATATAAATT
15412909 ATTTATAAATTATATTTAA
1 ATTTATAAATTATATTTAA
*
15412928 ATTTATAAATTTTATTTA
1 ATTTATAAATTATATTTA
15412946 TGATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTATAAATTATATTTAA
Found at i:15419845 original size:23 final size:21
Alignment explanation
Indices: 15419802--15419845 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
15419792 GGCATTGTAG
*
15419802 CAGTTCCAAGGGAAGATTGAC
1 CAGTTCCAAAGGAAGATTGAC
*
15419823 CAGTTCCATAAGGAGGATGTGAC
1 CAGTTCCA-AAGGAAGAT-TGAC
15419846 GAGGGCGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (21 bp):
CAGTTCCAAAGGAAGATTGAC
Found at i:15421991 original size:84 final size:84
Alignment explanation
Indices: 15421854--15422008 Score: 215
Period size: 84 Copynumber: 1.8 Consensus size: 84
15421844 CTACATGTTT
* * * *
15421854 GTGTGGGTCTACACGTCCAGATTGGCTTTGCCTGTGTGGCCCACACGGTCTGGCCCAAAACCCAC
1 GTGTGGGTCTACACGCCCAGATTGGCCTTGCCTATGTGGCCCACACGGCCTGGCCCAAAACCCAC
15421919 ACGCCTATATGGCATGCCC
66 ACGCCTATATGGCATGCCC
* * *
15421938 GTGTGGG-CTTACACGCCCAGATTGGCCTTG-CTCATGTGGCCCACATGGCCTGGCTCAAAACCT
1 GTGTGGGTC-TACACGCCCAGATTGGCCTTGCCT-ATGTGGCCCACACGGCCTGGCCCAAAACCC
15422001 ACACGCCT
64 ACACGCCT
15422009 TACCTGACCT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
83 3 0.05
84 59 0.95
ACGTcount: A:0.18, C:0.34, G:0.26, T:0.23
Consensus pattern (84 bp):
GTGTGGGTCTACACGCCCAGATTGGCCTTGCCTATGTGGCCCACACGGCCTGGCCCAAAACCCAC
ACGCCTATATGGCATGCCC
Found at i:15425908 original size:42 final size:42
Alignment explanation
Indices: 15425852--15425963 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
15425842 GCACATAAGT
*
15425852 GCTAAAC-AGAAACCCATAAGGGTTGAATGGAAGCTCAAAAGA
1 GCTAAACGA-AAACCCATAAGGGTTAAATGGAAGCTCAAAAGA
* * *
15425894 GCTGAACGAAAACCCATAAGGGTTAAATTGTAGCTCAAAAGA
1 GCTAAACGAAAACCCATAAGGGTTAAATGGAAGCTCAAAAGA
* *
15425936 GCTAAACGGAAACCCATTAGGGTTAAAT
1 GCTAAACGAAAACCCATAAGGGTTAAAT
15425964 AGAAACTTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (42 bp):
GCTAAACGAAAACCCATAAGGGTTAAATGGAAGCTCAAAAGA
Found at i:15431250 original size:41 final size:39
Alignment explanation
Indices: 15431154--15431310 Score: 161
Period size: 41 Copynumber: 3.8 Consensus size: 39
15431144 CCTTTCGGGT
* * * *
15431154 CTTTAGCGGCGTTTTATTAAGAAGCACCGTTAATGCTGTAGG
1 CTTTAGCGGCGTTTT-TGAA-AAGCGCCGCTAATGCTG-GGG
* *
15431196 CTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATTCTATGGG
1 CTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCT-GGGG
* *
15431237 CTTTAACGGCGTTTTTGTAAAAGTGCCGCTAATGCTGGGG
1 CTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCTGGGG
15431277 TCTTTAGCGGCGTTTTCTGGAAAAGCGCCGCTAA
1 -CTTTAGCGGCGTTTT-T-GAAAAGCGCCGCTAA
15431311 GGACATTTTA
Statistics
Matches: 97, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
40 3 0.03
41 62 0.64
42 31 0.32
43 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (39 bp):
CTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTGGGG
Found at i:15432061 original size:283 final size:283
Alignment explanation
Indices: 15431711--15432356 Score: 855
Period size: 283 Copynumber: 2.3 Consensus size: 283
15431701 AATAGTTAAG
*
15431711 GATTTAGGGTTTAGGGATTCAGGGGTCAAGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTAA
1 GATTTAGGGTTTAGGGATTCAGGGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTTAA
*
15431776 TTTATATTTTAAATATGTTT-TTATATAATTGTAAAAGAGATAATAATAAATTTGTTTAAGGTTT
66 TTTATATTTTAAATAT-TTTCTTATATAATTATAAAAGAGATAATAATAAATTTGTTTAAGGTTT
** * *
15431840 TTGGTTTAGGGTATATGATTAATTTAAGATTTAAGACCGGGTTAGGAGTTATTATTTTAAGGTTT
130 AGGGTTTAGGG----T-ATTAATTTAAGATTTAAGACCAGGTTAGGAGTTACTATTTTAAGGTTT
* * *
15431905 A-G-G-A-GG-TATGGATT-TAGGGATTATGGTTTAAGGGTTGAGATTTAAAGGTTT-GGGGTTT
190 AGGAGTATGGTTAGGGATTGTAGGGATTATGGTTTAAGGGTTGAGATTT-AAGGTTTAAGGGTTA
*
15431963 GGGGTTAGATGTTAGGGGTTAAG-A-ATAT
254 GGGGTTAGACGTTAGGGGTTAAGAATATAT
* ***
15431991 GATTTAGGTTTTAGGCCGAATTCAGGGGTTGGGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTT
1 GATTTAGGGTTTAGG--G-ATTCAGGGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTT
* *
15432056 TAATTTATATTTTAAATATTTTCTTATATAATTATAAAAGAGATAGTAATAAATTTGTTTAGGGT
63 TAATTTATATTTTAAATATTTTCTTATATAATTATAAAAGAGATAATAATAAATTTGTTTAAGGT
* * *
15432121 TTAGGGTTTAGGGTATTAATTTAATATTTAAGGCCAGTTTAGGAGTTACTATTTTAAGGTTTATG
128 TTAGGGTTTAGGGTATTAATTTAAGATTTAAGACCAGGTTAGGAGTTACTATTTTAAGGTTTA-G
*
15432186 GAGTATGGATTTAGGGATTAGGGACTAGGGATTATGGTTTAAGGGTTGGGATTTAAGGTTTAAGG
192 GAGTATGG--TTAGGGATT---G--TAGGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAAGG
15432251 GTTAGGGGTTAGACGTTAGGGGTTAAGAATTATAT
250 GTTAGGGGTTAGACGTTAGGGGTTAAGAA-TATAT
*
15432286 GATTTAGGGTTTAGAGATTCA-GGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTTAA
1 GATTTAGGGTTTAGGGATTCAGGGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTTAA
15432350 TTTATAT
66 TTTATAT
15432357 GTATTGAACG
Statistics
Matches: 319, Mismatches: 25, Indels: 33
0.85 0.07 0.09
Matches are distributed among these distances:
278 44 0.14
279 1 0.00
280 15 0.05
281 1 0.00
282 5 0.02
283 113 0.35
286 7 0.02
291 54 0.17
292 60 0.19
293 2 0.01
295 17 0.05
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.43
Consensus pattern (283 bp):
GATTTAGGGTTTAGGGATTCAGGGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTTAA
TTTATATTTTAAATATTTTCTTATATAATTATAAAAGAGATAATAATAAATTTGTTTAAGGTTTA
GGGTTTAGGGTATTAATTTAAGATTTAAGACCAGGTTAGGAGTTACTATTTTAAGGTTTAGGAGT
ATGGTTAGGGATTGTAGGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAAGGGTTAGGGGTTA
GACGTTAGGGGTTAAGAATATAT
Found at i:15432247 original size:21 final size:20
Alignment explanation
Indices: 15432213--15432253 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
15432203 TTAGGGACTA
*
15432213 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
15432233 GGGATTTAAGGTTTAAGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
15432254 AGGGGTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:15433447 original size:83 final size:81
Alignment explanation
Indices: 15433233--15433454 Score: 209
Period size: 83 Copynumber: 2.7 Consensus size: 81
15433223 GTGTAATCTA
* * * *
15433233 TTAGTGGCGTTTATGC-TAAAAACGCCGC-AATGATGTATTAATGTTTTTCAAAACGTCACCGTT
1 TTAGTGGCGTTTTTGCGT-AAAACGCCGCAAAT-ATGTATTAAGGTTCTT-AAAACGGCACCGTT
* *
15433296 TCTCTTCAGGACTTGAAATT
63 TCTATTCAGAACTT-AAATT
* * * * * *
15433316 TTAGTGGCGTTTTTTG-GGAAAATGCCGGAACTATGGATTAAAGTTTCTTAAAACGGCACCGTTT
1 TTAGTGGCG-TTTTTGCGTAAAACGCCGCAAATATGTATT-AAGGTTCTTAAAACGGCACCGTTT
*
15433380 CTATTCAGTAAGTT-AATT
64 CTATTCAG-AACTTAAATT
*
15433398 CTTAGTGGCGTTTTTGCGTAAAACGCCGCAAATATATATTGAAGGTTCTTAAAACGG
1 -TTAGTGGCGTTTTTGCGTAAAACGCCGCAAATATGTATT-AAGGTTCTTAAAACGG
15433455 TGCTGTTTCA
Statistics
Matches: 111, Mismatches: 21, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
82 10 0.09
83 85 0.77
84 16 0.14
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (81 bp):
TTAGTGGCGTTTTTGCGTAAAACGCCGCAAATATGTATTAAGGTTCTTAAAACGGCACCGTTTCT
ATTCAGAACTTAAATT
Found at i:15433450 original size:450 final size:449
Alignment explanation
Indices: 15432586--15433934 Score: 2272
Period size: 450 Copynumber: 3.0 Consensus size: 449
15432576 TTTGGATATA
** *
15432586 TAGGACCATGTTATAA-GAAATAGAAAACATTAGCGGCGTTTGGGTAGAAATGCCGCAACTATGT
1 TAGGACCACATTATAAGGAAA-A-AAAACATTAGCGGCGTTTGGGTAGAAACGCCGCAACTATGT
* *
15432650 ACCCATTTTTTTTGAGAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCG-TTTTT
64 ACCCA-TTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTT
* *
15432714 GGGAAAACGCCATAAATATGTATTATAATTTATCAAAACGGCCCCGTTTCAGAAGAGGAGTGTAA
128 GGGAAAACGCCATAAATATGTATTATAATTTCTCAAAAC-GCACCGTTTCAGAAGAGGAGTGTAA
* * *
15432779 TCTATTAGTGGCGTTTATGCTAGAAACGTCGCAAGGATGTATTAATGTTTTTCAAAACGTCACCG
192 TCTATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCG
* * * ** *
15432844 TTTCACTCCAGGACTTGACATTTTAGTGGCGTTTTTCAGGAAAACGCCGGAAATATGGATTAAAG
257 TTTCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTGGGAAAACGCCGGAACTATGGATTAAAG
* *
15432909 TTTCTTAAAACGGCACCGTTTCTTTTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAATGC
322 TTTCTTAAAACGGCACCGTTTCTATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAACGC
*
15432974 CGCAACTATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACG
387 CGCAAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACG
** *
15433037 TAGGACCACATTATAAGGAAAAAAAACATTAAAGGCATTTGGGTAGAAACGCCGCAACTATGTAC
1 TAGGACCACATTATAAGGAAAAAAAACATTAGCGGCGTTTGGGTAGAAACGCCGCAACTATGTAC
15433102 CCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGG
66 CCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGG
*
15433167 AAAACGCCATAAATATGTATTATAATTTCTCAAAGCAGCACCGTTTCAGAAGAGGAGTGTAATCT
131 AAAACGCCATAAATATGTATTATAATTTCTCAAAAC-GCACCGTTTCAGAAGAGGAGTGTAATCT
15433232 ATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTTT
195 ATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTTT
*
15433297 CTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTGGGAAAATGCCGGAACTATGGATTAAAGTTT
260 CTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTGGGAAAACGCCGGAACTATGGATTAAAGTTT
*
15433362 CTTAAAACGGCACCGTTTCTATTCAGTAAGTTAATTCTTAGTGGCGTTTTTGCGT-AAAACGCCG
325 CTTAAAACGGCACCGTTTCTATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGC-TAAAAACGCCG
15433426 CAAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACG
389 CAAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACG
* * * *
15433487 TAGGACCACATTATAAGGAAAAAAAACATTAGCGGCGTTTGGGAAAAAACACCGCAACTATGTTC
1 TAGGACCACATTATAAGGAAAAAAAACATTAGCGGCGTTTGGGTAGAAACGCCGCAACTATGTAC
*
15433552 CCATTTTTTTCAAAACGGCGTCGTATCTATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGG
66 CCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGG
*
15433617 AAAACGCCATAAATATGTATTATAATTTCTCAAAACGACACCGTTTCAGAAGATGAGTGTAATCT
131 AAAACGCCATAAATATGTATTATAATTTCTCAAAACG-CACCGTTTCAGAAGAGGAGTGTAATCT
15433682 ATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTTT
195 ATTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTTT
*
15433747 CTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTGGGAAAACGCTGGAACTATGGATTAAAGTTT
260 CTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTGGGAAAACGCCGGAACTATGGATTAAAGTTT
**
15433812 CTTAAAACGGCACCGTTTGAATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAACGCCGC
325 CTTAAAACGGCACCGTTTCTATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAACGCCGC
* ** *
15433877 AAATATATATTTAAGGTTCTTAAAACATTGCTGTTTCAGAATTTAATTTTGGTAATTA
390 AAATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTA
15433935 TGGAAGCAAT
Statistics
Matches: 848, Mismatches: 45, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
449 53 0.06
450 775 0.91
451 16 0.02
452 4 0.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (449 bp):
TAGGACCACATTATAAGGAAAAAAAACATTAGCGGCGTTTGGGTAGAAACGCCGCAACTATGTAC
CCATTTTTTTCAAAACGGCGTCGTATCCATTTAGAAATTTAATTTAATTTGTGGCGTTTTTTGGG
AAAACGCCATAAATATGTATTATAATTTCTCAAAACGCACCGTTTCAGAAGAGGAGTGTAATCTA
TTAGTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAACGTCACCGTTTC
TCTTCAGGACTTGAAATTTTAGTGGCGTTTTTTGGGAAAACGCCGGAACTATGGATTAAAGTTTC
TTAAAACGGCACCGTTTCTATTCAGTAAGTTAATTTTTAGTGGCGTTTTTGCTAAAAACGCCGCA
AATATATATTGAAGGTTCTTAAAACGGTGCTGTTTCAGAATTTAATTTTGGCAATTACG
Found at i:15433897 original size:83 final size:83
Alignment explanation
Indices: 15433683--15433902 Score: 205
Period size: 83 Copynumber: 2.7 Consensus size: 83
15433673 GTGTAATCTA
* * * *
15433683 TTAGTGGCGTTTATGCTAAAAACGCCGC-AATGATGTA-TTAATGTTTTTCAAAACGTCACCGTT
1 TTAGTGGCGTTTTTGCTAAAAACGCCGCAAAT-ATGTATTTAAGGTTCTT-AAAACGGCACCGTT
** *
15433746 TCTCTTCAGGACTTGAAATT
64 TCAATTCAGAACTTGAAATT
** * * * * * *
15433766 TTAGTGGCGTTTTTTG-GGAAAACGCTGGAACTATGGATTAAAGTTTCTTAAAACGGCACCGTTT
1 TTAGTGGCG-TTTTTGCTAAAAACGCCGCAAATATGTATTTAAGGTTCTTAAAACGGCACCGTTT
* * *
15433830 GAATTCAGTAAGTT-AATTT
65 CAATTCAG-AACTTGAAATT
*
15433849 TTAGTGGCGTTTTTGCTAAAAACGCCGCAAATATATATTTAAGGTTCTTAAAAC
1 TTAGTGGCGTTTTTGCTAAAAACGCCGCAAATATGTATTTAAGGTTCTTAAAAC
15433903 ATTGCTGTTT
Statistics
Matches: 105, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
82 6 0.06
83 82 0.78
84 17 0.16
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (83 bp):
TTAGTGGCGTTTTTGCTAAAAACGCCGCAAATATGTATTTAAGGTTCTTAAAACGGCACCGTTTC
AATTCAGAACTTGAAATT
Found at i:15435609 original size:66 final size:66
Alignment explanation
Indices: 15435513--15435654 Score: 207
Period size: 66 Copynumber: 2.2 Consensus size: 66
15435503 AGGGCAACAT
*
15435513 CGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTA-CAGCTTAAAGCAGATGCAGC
1 CGAGAGAAGCTAAGGTTCAAAAAAGATATGAAGAACTCCAGC-AGCAGCTTAAAGCAGATGCAGC
*
15435577 AG
65 AA
* *
15435579 CGAGAGAAGCTAAGGTTCAACGAAAG-TATGAAGAACTCCAGCAGCAGCTTAAAGCAGATGCGGC
1 CGAGAGAAGCTAAGGTTCAA-AAAAGATATGAAGAACTCCAGCAGCAGCTTAAAGCAGATGCAGC
15435643 AA
65 AA
*
15435645 TGAGAGAAGC
1 CGAGAGAAGC
15435655 AGAGGCTACA
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
65 1 0.01
66 64 0.93
67 4 0.06
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.14
Consensus pattern (66 bp):
CGAGAGAAGCTAAGGTTCAAAAAAGATATGAAGAACTCCAGCAGCAGCTTAAAGCAGATGCAGCA
A
Found at i:15435674 original size:21 final size:21
Alignment explanation
Indices: 15435650--15435721 Score: 117
Period size: 21 Copynumber: 3.4 Consensus size: 21
15435640 GGCAATGAGA
15435650 GAAGCAGAGGCTACAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
15435671 GAAGCAGAGGCTACAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
* * *
15435692 GAAGTAGAGGCTGCAGCAAGG
1 GAAGCAGAGGCTACAGCGAGG
15435713 GAAGCAGAG
1 GAAGCAGAG
15435722 CAGCATAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.35, C:0.17, G:0.43, T:0.06
Consensus pattern (21 bp):
GAAGCAGAGGCTACAGCGAGG
Found at i:15436409 original size:44 final size:42
Alignment explanation
Indices: 15436355--15436498 Score: 153
Period size: 43 Copynumber: 3.3 Consensus size: 42
15436345 TTTTCGACAA
* *
15436355 AAAGCACCGCTAAAAGATAAGGGTATTTAGCGGCGTTTGTGGAG
1 AAAGCGCCGCT-AAAGATAAGGGTCTTTAGCGGCGTTTGTGG-G
** * *
15436399 AAAGCGCCGCTAAAGACCAGGTTCTTTAGTGGCGTTTGTGGTG
1 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGG-G
* * * * *
15436442 GAAGCGCCGCTATAGATTAGGGTCTTTTGCGGCATTTGTGGG
1 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGG
15436484 AAAAGCGCCGCTAAA
1 -AAAGCGCCGCTAAA
15436499 TACCCTAATC
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 1 0.01
43 71 0.87
44 10 0.12
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGG
Found at i:15445840 original size:39 final size:40
Alignment explanation
Indices: 15445767--15445860 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 40
15445757 GGAAATGGTA
* *
15445767 ATATG-AATGGATATACTGAATTTTTATATGAAAATATAT
1 ATATGAAATGGATATACTGAAGTGTTATATGAAAATATAT
* *
15445806 ATATGAAATGGTTATA-TGAAGTGTT-TATGCAAAATATTT
1 ATATGAAATGGATATACTGAAGTGTTATATG-AAAATATAT
*
15445845 ATATGAATATAGATAT
1 ATATGAA-ATGGATAT
15445861 GTGAAAAGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
38 4 0.09
39 27 0.59
40 15 0.33
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.40
Consensus pattern (40 bp):
ATATGAAATGGATATACTGAAGTGTTATATGAAAATATAT
Found at i:15447602 original size:17 final size:18
Alignment explanation
Indices: 15447580--15447620 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
15447570 ATATTTTTAA
15447580 TTAAAA-TTTAAAATTAT
1 TTAAAATTTTAAAATTAT
*
15447597 TTAAAATTTTAGAATTAT
1 TTAAAATTTTAAAATTAT
15447615 TTAAAA
1 TTAAAA
15447621 ATAGCATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TTAAAATTTTAAAATTAT
Found at i:15451769 original size:24 final size:24
Alignment explanation
Indices: 15451737--15451783 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
15451727 TGCTCTACAC
*
15451737 GGCCTCGCACATGGCCAGCCACAT
1 GGCCTCGCACATGGCCAACCACAT
15451761 GGCCTCGCACATGGCCAACCACA
1 GGCCTCGCACATGGCCAACCACA
15451784 CTGCCGCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.43, G:0.23, T:0.11
Consensus pattern (24 bp):
GGCCTCGCACATGGCCAACCACAT
Found at i:15456631 original size:107 final size:106
Alignment explanation
Indices: 15456242--15456673 Score: 568
Period size: 108 Copynumber: 4.1 Consensus size: 106
15456232 ATGACATGGA
* * * ** *
15456242 TTGAAA-TTT-AAGAGGAATATTTGGCTATTTAGTCGGACGAGACATCGAAACCCAGCACGTTAG
1 TTGAAAGTTTAAAAAGG-ATATTTGGCTATTTGGCCAAACGAGA-ATCGAAACCCAACACGTTAG
* * *
15456305 GGCACG-TTCTCTCGAATTTCCAAACAC-AAATATTGCCTCACT
64 GGCACGTTTC-CTCGAATTTCCAAACGCGAAATATTGCCTTATT
* * * *
15456347 TTGAAA-TTTTAAAAGGATATTTGGCTATATGGTCAAACGAGAAGTCGAAACCCAACATGTTAGG
1 TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGAA-TCGAAACCCAACACGTTAGG
*
15456411 GCACGTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTATT
65 GCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATT
15456453 TTGAAAGTTTAAGAAAGGATATTTGGCTATTTGGCCAAACGAGTAATCGAAACCCAACACGTTAG
1 TTGAAAGTTTAA-AAAGGATATTTGGCTATTTGGCCAAACGAG-AATCGAAACCCAACACGTTAG
* *
15456518 GGCACGTTTCCTCGATTTTCCAAACGCGAAATATTTCCTTATT
64 GGCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATT
* *
15456561 TTAAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGTAATCGAAACCCAGCACGTTAGG
1 TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAG-AATCGAAACCCAACACGTTAGG
* * *
15456626 GCACGTTTTCTCAAATTTCCAAACGCAAAATATTGCCTTATT
65 GCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATT
*
15456668 TAGAAA
1 TTGAAA
15456674 AAAATTTCTT
Statistics
Matches: 295, Mismatches: 25, Indels: 12
0.89 0.08 0.04
Matches are distributed among these distances:
104 1 0.00
105 69 0.23
106 27 0.09
107 97 0.33
108 99 0.34
109 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (106 bp):
TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGAATCGAAACCCAACACGTTAGGG
CACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATT
Found at i:15456633 original size:215 final size:211
Alignment explanation
Indices: 15456242--15456673 Score: 575
Period size: 215 Copynumber: 2.0 Consensus size: 211
15456232 ATGACATGGA
* ** *
15456242 TTGAAATTTAAGAGGAATATTTGGCTATTTAGTCGGACGAGACATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTAAGAGGAATATTTGGCTATTTAGCCAAACGAGACATCGAAACCCAACACGTTAGGG
* *
15456307 CACGTTCTCTCGAATTTCCAAACACAAATATTGCCTCACTTTGAAATTTTAAAAGGATATTTGGC
66 CACGTTCTCTCGAATTTCCAAACACAAATATTGCCTCACTTTAAAATTTAAAAAGGATATTTGGC
* * * *
15456372 TATATGGTCAAACGAGAAGTCGAAACCCAACATGTTAGGGCACGTTTCCTCGATTTTCCAAACGC
131 TATATGGCCAAACGAGAAGTCGAAACCCAACACGTTAGGGCACGTTTCCTCAAATTTCCAAACGC
*
15456437 GAAATATTGCCTTATT
196 AAAATATTGCCTTATT
*
15456453 TTGAAAGTTTAAGAAAGG-ATATTTGGCTATTTGGCCAAACGAGTA-ATCGAAACCCAACACGTT
1 TTGAAA-TTTAAG--AGGAATATTTGGCTATTTAGCCAAACGAG-ACATCGAAACCCAACACGTT
* * * * *
15456516 AGGGCACGTT-TCCTCGATTTTCCAAACGCGAAATATTTCCTTATTTTAAAAGTTTAAAAAGGAT
62 AGGGCACGTTCT-CTCGAATTTCCAAACAC-AAATATTGCCTCACTTTAAAA-TTTAAAAAGGAT
* * *
15456580 ATTTGGCTATTTGGCCAAACGAGTAA-TCGAAACCCAGCACGTTAGGGCACGTTTTCTCAAATTT
124 ATTTGGCTATATGGCCAAACGAG-AAGTCGAAACCCAACACGTTAGGGCACGTTTCCTCAAATTT
15456644 CCAAACGCAAAATATTGCCTTATT
188 CCAAACGCAAAATATTGCCTTATT
*
15456668 TAGAAA
1 TTGAAA
15456674 AAAATTTCTT
Statistics
Matches: 192, Mismatches: 21, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
211 6 0.03
212 7 0.04
213 63 0.33
214 21 0.11
215 93 0.48
216 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (211 bp):
TTGAAATTTAAGAGGAATATTTGGCTATTTAGCCAAACGAGACATCGAAACCCAACACGTTAGGG
CACGTTCTCTCGAATTTCCAAACACAAATATTGCCTCACTTTAAAATTTAAAAAGGATATTTGGC
TATATGGCCAAACGAGAAGTCGAAACCCAACACGTTAGGGCACGTTTCCTCAAATTTCCAAACGC
AAAATATTGCCTTATT
Found at i:15458673 original size:44 final size:44
Alignment explanation
Indices: 15458623--15459262 Score: 612
Period size: 44 Copynumber: 14.6 Consensus size: 44
15458613 GATTGATCCT
* * *
15458623 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTTG
* * *
15458667 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCCATTTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTTG
* * *** * **
15458711 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTTG
* * *
15458754 ATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCACTGTCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCGTCTTTG
* *
15458798 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCCATCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTTG
* * ** * **
15458842 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTAGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTTG
* * * *
15458885 ATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCACTGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCGTCTTTG
* * *
15458929 ATCTGCTCCACTACTGCTTAGGGAGATAAAATCTTCCATCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTTG
* * *** * **
15458973 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTTG
* * *
15459016 ATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCACCGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCGTCTTTG
* * * *
15459060 ATGTGCTCCACTACTGCTTAGGGAGATAATATCTTCCATCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTTG
* * *** * **
15459104 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTTG
* * * *
15459147 ATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCGTCTTTG
* * *
15459191 ATCTGCTCCACTACTGCTTAGGGGGATAAGATCTTCCATCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTTG
*
15459235 ACCTGCTCCACTACTGCTTAGGGAGATA
1 ATCTGCTCCACTACTGCTTAGGGAGATA
15459263 GGACTGGATA
Statistics
Matches: 477, Mismatches: 107, Indels: 24
0.78 0.18 0.04
Matches are distributed among these distances:
43 131 0.27
44 342 0.72
45 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCGTCTTTG
Found at i:15458781 original size:131 final size:131
Alignment explanation
Indices: 15458623--15459269 Score: 1152
Period size: 131 Copynumber: 4.9 Consensus size: 131
15458613 GATTGATCCT
* * * *
15458623 ATCTGCTCCACTACTGCTTAGGGAGATAGGA-TCTACCATCTTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTC-ACCGTCTTCGATCTGCTCCACTACTGCTTA
*
15458687 GGGAGATAAGATCTTCCATTTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT
65 GGGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT
15458752 AA
130 AA
* *
15458754 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACTGTCTTTGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
*
15458819 GGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTA
66 GGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
15458884 A
131 A
*
15458885 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACTGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
*
15458950 GGAGATAAAATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
15459015 A
131 A
*
15459016 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATGTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
*
15459081 GGAGATAATATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
15459146 A
131 A
*
15459147 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
*
15459212 GGGGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGG
66 GGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGG
15459270 ATAAGATGAC
Statistics
Matches: 497, Mismatches: 18, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
131 495 1.00
132 2 0.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.31
Consensus pattern (131 bp):
ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
A
Found at i:15458935 original size:175 final size:174
Alignment explanation
Indices: 15458623--15459267 Score: 510
Period size: 175 Copynumber: 3.7 Consensus size: 174
15458613 GATTGATCCT
* *
15458623 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
* ** ** * * **
15458688 GGAGATAAGATCTTCCATTTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGAGATAAGATCTACCAGCTTAAACCTGCTCCACTACTGCTTAGGAAGATAAGACTACTGGCTTA
* * *
15458753 AATCTGCTTCACTACTGCTTAGGAAGATAAGA-TTCACTGTCTTTG
131 AATCTGCTCCACTACTGCTTAGGAAGATAAAACTTC-C-ATCTTTG
* *
15458798 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
* *** * * * *
15458863 GGAGATAGGA-CTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACTGTCTT
66 GGAGATAAGATCTACCAGCTTAAACCTGCTCCACTACTGCTTAGGAAGATAAGACT-ACTGGCTT
** *
15458927 CGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTTCCATCTTTG
130 AAATCTGCTCCACTACTGCTTAGGAAGATAAAA-CTTCCATCTTTG
* * ***** ** * *
15458973 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
* ** ** * * * ***
15459037 GAAGATAAGAT-TCACC-GTCTTCGATGTGCTCCACTACTGCTTAGGGAGATAATATCTTCCATC
66 GGAGATAAGATCT-ACCAG-CTTAAACCTGCTCCACTACTGCTTAGGAAGATAAGA-CTACTGGC
** * * ** ***** **
15459100 TTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
128 TTAAATCTGCTCCACTACTGCTTAGGAAGATAAAACTTCCATCTTTG
* * * * *
15459147 ATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTTCGACCTGCTCCACTACTGCTTA
* * * ** * *
15459211 GGGGGATAAGATCTTCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACT
65 GGGAGATAAGATCTACCAGCTTAAACCTGCTCCACTACTGCTTAGGAAGATAAGACT
15459268 GGATAAGATG
Statistics
Matches: 377, Mismatches: 82, Indels: 23
0.78 0.17 0.05
Matches are distributed among these distances:
174 101 0.27
175 270 0.72
176 3 0.01
177 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (174 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
GGAGATAAGATCTACCAGCTTAAACCTGCTCCACTACTGCTTAGGAAGATAAGACTACTGGCTTA
AATCTGCTCCACTACTGCTTAGGAAGATAAAACTTCCATCTTTG
Found at i:15459615 original size:24 final size:24
Alignment explanation
Indices: 15459583--15459638 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
15459573 GATTTCCCCT
15459583 ACTGTAATCTTCAAAGTTCAA-TCC
1 ACTGTAATCTTCAAAGTT-AAGTCC
*
15459607 ACTGTAATCTTCAAGGTTAAGTCC
1 ACTGTAATCTTCAAAGTTAAGTCC
15459631 ACTGTAAT
1 ACTGTAAT
15459639 TTTGGGACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (24 bp):
ACTGTAATCTTCAAAGTTAAGTCC
Found at i:15471275 original size:107 final size:107
Alignment explanation
Indices: 15470936--15471324 Score: 552
Period size: 107 Copynumber: 3.6 Consensus size: 107
15470926 CGGATGAGAC
* * *
15470936 ATCGAAACCCAGCACGTTAGGGCACG-TTCTCTCGAATTTCCAAACAC-AAATATTGCCTCACTT
1 ATCGAAACCCAGCACGTTAGGGCACGTTTC-CTCGAATTTCCAAACGCGAAATATTGCCTTATTT
* * *
15470999 TGAAA-TTTTAAAAGGATATTTGGCTATATGGTCAAACGAG-A
65 TGAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGTA
* * *
15471040 AGTCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGCGAAACATTGCCTTATTT
1 A-TCGAAACCCAGCACGTTAGGGCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATTT
*
15471105 TGAAAGTTTAAAAAAGGATATTTGGCTATTTGGCCAAACGAATA
65 TGAAAGTTT-AAAAAGGATATTTGGCTATTTGGCCAAACGAGTA
* * * *
15471149 ATCGAAACCCAGCATGTTAGGGTACGTTTCCTCGATTTTCCAAACGTGAAATATTGCCTTATTTT
1 ATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATTTT
* *
15471214 AAAAGTTTCAAAAGGATATTTGGCTATTTGGCCAAACGAGTA
66 GAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGTA
* * *
15471256 ATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTA
1 ATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATTTT
15471321 GAAA
66 GAAA
15471325 AAAATTTCTT
Statistics
Matches: 253, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
104 1 0.00
105 39 0.15
106 21 0.08
107 96 0.38
108 94 0.37
109 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (107 bp):
ATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGAATTTCCAAACGCGAAATATTGCCTTATTTT
GAAAGTTTAAAAAGGATATTTGGCTATTTGGCCAAACGAGTA
Found at i:15471280 original size:215 final size:213
Alignment explanation
Indices: 15470936--15471324 Score: 575
Period size: 215 Copynumber: 1.8 Consensus size: 213
15470926 CGGATGAGAC
*
15470936 ATCGAAACCCAGCACGTTAGGGCACGTTCTCTCGAATTTCCAAACACAAATATTGCCTCACTTTG
1 ATCGAAACCCAGCACGTTAGGGCACGTTCTCTCGAATTTCCAAACACAAATATTGCCTCACTTTA
* *
15471001 AAATTTTAAAAGGATATTTGGCTATATGGTCAAACGAGAAGTCGAAACCCAACACGTTAGGGCAC
66 AAATTTCAAAAGGATATTTGGCTATATGGCCAAACGAGAAGTCGAAACCCAACACGTTAGGGCAC
* * *
15471066 GTTTCCTCGATTTTCCAAACGCGAAACATTGCCTTATTTTGAAAGTTTAAAAAAGGATATTTGGC
131 GTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTAGAAAGTTTAAAAAAGGATATTTGGC
15471131 TATTTGGCCAAACGAATA
196 TATTTGGCCAAACGAATA
* * * ** * *
15471149 ATCGAAACCCAGCATGTTAGGGTACGTT-TCCTCGATTTTCCAAACGTGAAATATTGCCTTATTT
1 ATCGAAACCCAGCACGTTAGGGCACGTTCT-CTCGAATTTCCAAAC-ACAAATATTGCCTCACTT
* *
15471213 TAAAAGTTTCAAAAGGATATTTGGCTATTTGGCCAAACGAGTAA-TCGAAACCCAGCACGTTAGG
64 TAAAA-TTTCAAAAGGATATTTGGCTATATGGCCAAACGAG-AAGTCGAAACCCAACACGTTAGG
* *
15471277 GCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTAGAAA
127 GCACGTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTAGAAA
15471325 AAAATTTCTT
Statistics
Matches: 155, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
212 1 0.01
213 40 0.26
214 18 0.12
215 94 0.61
216 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (213 bp):
ATCGAAACCCAGCACGTTAGGGCACGTTCTCTCGAATTTCCAAACACAAATATTGCCTCACTTTA
AAATTTCAAAAGGATATTTGGCTATATGGCCAAACGAGAAGTCGAAACCCAACACGTTAGGGCAC
GTTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTTAGAAAGTTTAAAAAAGGATATTTGGC
TATTTGGCCAAACGAATA
Found at i:15472174 original size:13 final size:13
Alignment explanation
Indices: 15472156--15472185 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15472146 AAGAATCAAA
*
15472156 CTCTCCCCCTTTT
1 CTCTCCCCCTTCT
15472169 CTCTCCCCCTTCT
1 CTCTCCCCCTTCT
15472182 CTCT
1 CTCT
15472186 AGGCTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (13 bp):
CTCTCCCCCTTCT
Found at i:15478866 original size:21 final size:21
Alignment explanation
Indices: 15478840--15478898 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
15478830 TCTCTAACCC
15478840 TGGTCAAAATTATTTTGAAAA
1 TGGTCAAAATTATTTTGAAAA
** * *
15478861 TGGTCAAAATTATAATGGAAG
1 TGGTCAAAATTATTTTGAAAA
15478882 TGGTCAAAATTATTTTG
1 TGGTCAAAATTATTTTG
15478899 CTGGTCAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.37
Consensus pattern (21 bp):
TGGTCAAAATTATTTTGAAAA
Found at i:15478905 original size:18 final size:18
Alignment explanation
Indices: 15478881--15478926 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
15478871 TATAATGGAA
*
15478881 GTGGTCAAAATTAT-TTT
1 GTGGTCAAAATTATGATT
15478898 GCTGGTCAAAATTATGATT
1 G-TGGTCAAAATTATGATT
15478917 GTGGTCAAAA
1 GTGGTCAAAA
15478927 GTGGTATGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 22 0.85
19 3 0.12
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.37
Consensus pattern (18 bp):
GTGGTCAAAATTATGATT
Found at i:15485784 original size:26 final size:27
Alignment explanation
Indices: 15485748--15485811 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
15485738 GGCCCAGCCC
* * *
15485748 ATTTTTAAAAT-AAACATTAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAAATT
15485774 ATTTTAAAAATAAAAAAAATAAAAAAATT
1 ATTTTAAAAAT--AAAAAATAAAAAAATT
15485803 ATTTTAAAA
1 ATTTTAAAA
15485812 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 10 0.31
29 22 0.69
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
ATTTTAAAAATAAAAAATAAAAAAATT
Found at i:15485840 original size:13 final size:13
Alignment explanation
Indices: 15485818--15485847 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15485808 AAAAGTATTT
*
15485818 TAAAATTAAAAAA
1 TAAAAATAAAAAA
15485831 TAAAAATAAAAAA
1 TAAAAATAAAAAA
15485844 TAAA
1 TAAA
15485848 TATTTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:15489014 original size:27 final size:27
Alignment explanation
Indices: 15488984--15489083 Score: 80
Period size: 27 Copynumber: 3.7 Consensus size: 27
15488974 ATTAAAAATT
*
15488984 ATAATTTTATAATTTTCATTATTTTAA
1 ATAATTTTATAATTTTAATTATTTTAA
* *
15489011 ATAATTTTAATGATTTTTAATT-TTTAAA
1 ATAATTTT-AT-AATTTTAATTATTTTAA
* * *
15489039 ATCAATTTTAT-ATTTTTATAATTTTTA
1 AT-AATTTTATAATTTTAATTATTTTAA
*
15489066 A-AATTTTAAAAATTTTAA
1 ATAATTTT-ATAATTTTAA
15489084 AAAAATAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
25 6 0.11
26 7 0.12
27 19 0.33
28 11 0.19
29 14 0.25
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (27 bp):
ATAATTTTATAATTTTAATTATTTTAA
Found at i:15489046 original size:29 final size:28
Alignment explanation
Indices: 15488984--15489069 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
15488974 ATTAAAAATT
* *
15488984 ATAATTTTATAATTTTCATTA-TTTT-AA
1 ATAATTTTAT-ATTTTTATAATTTTTAAA
15489011 ATAATTTTA-ATGATTTT-TAATTTTTAAA
1 ATAATTTTATAT--TTTTATAATTTTTAAA
15489039 ATCAATTTTATATTTTTATAATTTTTAAA
1 AT-AATTTTATATTTTTATAATTTTTAAA
15489068 AT
1 AT
15489070 TTTAAAAATT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
25 2 0.04
26 2 0.04
27 16 0.32
28 8 0.16
29 20 0.40
30 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (28 bp):
ATAATTTTATATTTTTATAATTTTTAAA
Found at i:15489072 original size:17 final size:17
Alignment explanation
Indices: 15489042--15489085 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
15489032 TTTTAAAATC
* * *
15489042 AATTTTATATTTTTATA
1 AATTTTAAAATTTTAAA
*
15489059 ATTTTTAAAATTTTAAA
1 AATTTTAAAATTTTAAA
15489076 AATTTTAAAA
1 AATTTTAAAA
15489086 AAATAATTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTTAAAATTTTAAA
Found at i:15490161 original size:28 final size:28
Alignment explanation
Indices: 15490081--15490258 Score: 189
Period size: 28 Copynumber: 6.4 Consensus size: 28
15490071 GGTCATGTGT
* * *
15490081 CCCCTATTTTTTAGATATTATAGTTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
* *** * *
15490109 CCACTATTTCAAAAATTTTATAATTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
* *
15490137 CCCCTATTTTCTAG-TTTATACAATTTTA
1 CCCCTATTTTTTAGATTT-TACAATTTTG
15490165 CCCCTATTTTTTAGATTTTACAATTTT-
1 CCCCTATTTTTTAGATTTTACAATTTTG
* * *
15490192 CCCTTATTTTTTAGATTTTATAGTTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
15490220 CCCCTATTTTTTAGATTTTACAATTTTG
1 CCCCTATTTTTTAGATTTTACAATTTTG
*
15490248 TCTCCTATTTT
1 -CCCCTATTTT
15490259 ACAAATTTTA
Statistics
Matches: 124, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
27 27 0.22
28 85 0.69
29 12 0.10
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (28 bp):
CCCCTATTTTTTAGATTTTACAATTTTG
Found at i:15490229 original size:55 final size:55
Alignment explanation
Indices: 15490080--15490246 Score: 201
Period size: 55 Copynumber: 3.0 Consensus size: 55
15490070 TGGTCATGTG
* * *** * *
15490080 TCCCCTATTTTTTAGATATTATAGTTTTGCCACTATTTCAAAAATTTTATAATTT
1 TCCCCTATTTTTTAGATTTTATAGTTTTGCCCCTATTTTTTAGATTTTACAATTT
* * * *
15490135 TGCCCCTATTTTCTAG-TTTATACAATTTTACCCCTATTTTTTAGATTTTACAATTT
1 T-CCCCTATTTTTTAGATTT-TATAGTTTTGCCCCTATTTTTTAGATTTTACAATTT
*
15490191 TCCCTTATTTTTTAGATTTTATAGTTTTGCCCCTATTTTTTAGATTTTACAATTT
1 TCCCCTATTTTTTAGATTTTATAGTTTTGCCCCTATTTTTTAGATTTTACAATTT
15490246 T
1 T
15490247 GTCTCCTATT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
55 49 0.53
56 44 0.47
ACGTcount: A:0.24, C:0.16, G:0.06, T:0.54
Consensus pattern (55 bp):
TCCCCTATTTTTTAGATTTTATAGTTTTGCCCCTATTTTTTAGATTTTACAATTT
Found at i:15493933 original size:37 final size:36
Alignment explanation
Indices: 15493882--15493973 Score: 98
Period size: 37 Copynumber: 2.4 Consensus size: 36
15493872 ATACCAAAAA
*
15493882 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
15493918 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
15493955 TAAAGTGATTATCTTAATA
1 T-AA-T-ATTATCTTAATA
15493974 TTACATTCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
36 13 0.27
37 18 0.38
38 4 0.08
39 12 0.25
40 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:15494608 original size:5 final size:5
Alignment explanation
Indices: 15494598--15494680 Score: 166
Period size: 5 Copynumber: 16.6 Consensus size: 5
15494588 TACATATATC
15494598 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
15494648 TATTG TATTG TATTG TATTG TATTG TATTG TAT
1 TATTG TATTG TATTG TATTG TATTG TATTG TAT
15494681 CTATGTTTGT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 78 1.00
ACGTcount: A:0.20, C:0.00, G:0.19, T:0.60
Consensus pattern (5 bp):
TATTG
Found at i:15494788 original size:34 final size:35
Alignment explanation
Indices: 15494750--15494824 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 35
15494740 AAGCATGACT
15494750 TTTGCTACTG-ATTTGATA-TGTTATAAGCATATT-A
1 TTTGCTACTGTA-TTGA-ACTGTTATAAGCATATTGA
* *
15494784 TTTGCTATTGTATTGAACTTTTATAAGCATATTGA
1 TTTGCTACTGTATTGAACTGTTATAAGCATATTGA
15494819 -TTGCTA
1 TTTGCTA
15494825 TAATATTGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
33 1 0.03
34 33 0.92
35 2 0.06
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (35 bp):
TTTGCTACTGTATTGAACTGTTATAAGCATATTGA
Found at i:15502465 original size:16 final size:16
Alignment explanation
Indices: 15502446--15502476 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15502436 TATCTTGGTA
*
15502446 AATATTATATTAATTT
1 AATATTATAGTAATTT
15502462 AATATTATAGTAATT
1 AATATTATAGTAATT
15502477 AAATTTAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
AATATTATAGTAATTT
Found at i:15503158 original size:34 final size:34
Alignment explanation
Indices: 15503094--15503158 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
15503084 TGAGTTGATC
*
15503094 TGTTATAAGAATATTATTTGCTACCGTATTGAAT
1 TGTTATAAGAATATTATTTGCTACCATATTGAAT
* *
15503128 TGTTATAAGCATATT-TATTGTTACCATATTG
1 TGTTATAAGAATATTAT-TTGCTACCATATTG
15503159 TCCTATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 26 0.96
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (34 bp):
TGTTATAAGAATATTATTTGCTACCATATTGAAT
Found at i:15503508 original size:137 final size:138
Alignment explanation
Indices: 15503282--15503577 Score: 382
Period size: 137 Copynumber: 2.2 Consensus size: 138
15503272 AATTTGTTTA
* * * * * *
15503282 TGCACCCACAGCCCAGTGGCAGTATTTATCCTTTAATTGCAAATATGATGTACATCCACAACCCA
1 TGCACCCACAACCCAATGGCAGTAGTTAACCTTTAACTGAAAATATGATGTACATCCACAACCCA
* * * * *
15503347 TCGATAGCTTTTACCTGCAAATATGGTGTGCATCTATAGCCTAGTGACA-ACTTTTATTTGCAAT
66 TCGATAGCTTTTACCTGCAAATATGGTGTGCATCTACAACCCAATGACAGA-TTTTATCTGCAAT
15503411 ATTTTGTTG
130 ATTTTGTTG
* * * *
15503420 TGCACCCACAATCCAATGGCAGT-GTTAACCTTTAACTGAAAATATGTTGTATATCCACAACCCT
1 TGCACCCACAACCCAATGGCAGTAGTTAACCTTTAACTGAAAATATGATGTACATCCACAACCCA
* * *
15503484 TCGATAGCTTTTACTTGCGAATATGGTGTGCATCTACAACCCAATGACAGATTTTATCTGCGATA
66 TCGATAGCTTTTACCTGCAAATATGGTGTGCATCTACAACCCAATGACAGATTTTATCTGCAATA
15503549 TTTTGTTG
131 TTTTGTTG
* *
15503557 CGTACCCAC-ACCCAATGGCAG
1 TGCACCCACAACCCAATGGCAG
15503578 GTTTCACTAC
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
136 11 0.08
137 104 0.76
138 21 0.15
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (138 bp):
TGCACCCACAACCCAATGGCAGTAGTTAACCTTTAACTGAAAATATGATGTACATCCACAACCCA
TCGATAGCTTTTACCTGCAAATATGGTGTGCATCTACAACCCAATGACAGATTTTATCTGCAATA
TTTTGTTG
Found at i:15504391 original size:21 final size:21
Alignment explanation
Indices: 15504358--15504401 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15504348 GAGTTTTCTG
* *
15504358 AAAATAGACTAAATTTTCTTAA
1 AAAATAGAATAAATGTT-TTAA
15504380 AAAATA-AATAAATGTTTTAA
1 AAAATAGAATAAATGTTTTAA
15504400 AA
1 AA
15504402 CGATTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 8 0.40
22 6 0.30
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (21 bp):
AAAATAGAATAAATGTTTTAA
Found at i:15505838 original size:17 final size:17
Alignment explanation
Indices: 15505816--15505850 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15505806 GTAAACACAA
15505816 AATTTTCCAAAAGTGTT
1 AATTTTCCAAAAGTGTT
15505833 AATTTTCCAAAAGTGTT
1 AATTTTCCAAAAGTGTT
15505850 A
1 A
15505851 TGAGTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (17 bp):
AATTTTCCAAAAGTGTT
Found at i:15505974 original size:24 final size:24
Alignment explanation
Indices: 15505924--15505975 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15505914 TTTGTAGGTC
**
15505924 AAATAAATTATACTAATAAATGTT
1 AAATAAATTATACTAATAAATACT
*
15505948 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
15505972 AAAT
1 AAAT
15505976 CTTATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:15507896 original size:24 final size:24
Alignment explanation
Indices: 15507868--15507918 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
15507858 TTTATAGGTC
*
15507868 AAATAAATTATGCTAATAAATACT
1 AAATAAATTATACTAATAAATACT
* *
15507892 AAATATATTATATTAATAAATACT
1 AAATAAATTATACTAATAAATACT
15507916 AAA
1 AAA
15507919 CCTTTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:15507926 original size:24 final size:23
Alignment explanation
Indices: 15507881--15507936 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
15507871 TAAATTATGC
*
15507881 TAATAAATACTAAATATATTATA
1 TAATAAATACTAAACATATTATA
* *
15507904 TTAATAAATACTAAACCTTTTATA
1 -TAATAAATACTAAACATATTATA
*
15507928 AAATAAATA
1 TAATAAATA
15507937 TATTTTGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATAAATACTAAACATATTATA
Found at i:15508859 original size:6 final size:6
Alignment explanation
Indices: 15508848--15508874 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15508838 ATACTTGGAA
15508848 CTACTG CTACTG CTACTG CTACTG CTA
1 CTACTG CTACTG CTACTG CTACTG CTA
15508875 TTACTGCTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.15, T:0.33
Consensus pattern (6 bp):
CTACTG
Found at i:15512979 original size:24 final size:24
Alignment explanation
Indices: 15512947--15512995 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
15512937 TATGGCCAAG
15512947 ATTGTTACCAATGTCATTTATGTC
1 ATTGTTACCAATGTCATTTATGTC
15512971 ATTGTTACCAATGTCATTTATGTC
1 ATTGTTACCAATGTCATTTATGTC
15512995 A
1 A
15512996 CTTGGCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (24 bp):
ATTGTTACCAATGTCATTTATGTC
Found at i:15520400 original size:7 final size:7
Alignment explanation
Indices: 15520388--15520413 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15520378 GTATTAGTCC
15520388 ATCGTCT
1 ATCGTCT
15520395 ATCGTCT
1 ATCGTCT
15520402 ATCGTCT
1 ATCGTCT
15520409 ATCGT
1 ATCGT
15520414 GTTGTTCCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.42
Consensus pattern (7 bp):
ATCGTCT
Found at i:15523015 original size:25 final size:26
Alignment explanation
Indices: 15522987--15523053 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 26
15522977 TTGTAGCTCA
* *
15522987 TGAGAGCTTAACGATTCT-CAACTTG
1 TGAGAGCTTATCGATTCTACAACTCG
*
15523012 TGAGAGCTTATCGATT-TACAGCTCG
1 TGAGAGCTTATCGATTCTACAACTCG
*
15523037 TGAGAGCATATCGATTC
1 TGAGAGCTTATCGATTC
15523054 ATAGCTCGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.03
25 35 0.97
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (26 bp):
TGAGAGCTTATCGATTCTACAACTCG
Found at i:15523059 original size:25 final size:25
Alignment explanation
Indices: 15522980--15523071 Score: 80
Period size: 25 Copynumber: 3.7 Consensus size: 25
15522970 TACCGATTTG
* * *
15522980 TAGCTCATGAGAGCTTAACGATTC-
1 TAGCTCGTGAGAGCATATCGATTCA
* * * *
15523004 TCAACTTGTGAGAGCTTATCGATTTA
1 T-AGCTCGTGAGAGCATATCGATTCA
*
15523030 CAGCTCGTGAGAGCATATCGATTCA
1 TAGCTCGTGAGAGCATATCGATTCA
15523055 TAGCTCGT-ATGAGCATA
1 TAGCTCGTGA-GAGCATA
15523072 CATGTATTGG
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
24 2 0.04
25 52 0.96
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (25 bp):
TAGCTCGTGAGAGCATATCGATTCA
Found at i:15527565 original size:7 final size:7
Alignment explanation
Indices: 15527553--15527707 Score: 53
Period size: 7 Copynumber: 21.7 Consensus size: 7
15527543 ACCAATTAAT
15527553 CTAAACC
1 CTAAACC
15527560 CTAAACCC
1 CTAAA-CC
*
15527568 CTAACCC
1 CTAAACC
*
15527575 CT-ATCTC
1 CTAAAC-C
*
15527582 ATAAACC
1 CTAAACC
* *
15527589 TTAAATC
1 CTAAACC
* *
15527596 ATAAAAC
1 CTAAACC
*
15527603 ATAAACC
1 CTAAACC
15527610 CTAAACC
1 CTAAACC
*
15527617 TCTAACCC
1 -CTAAACC
*
15527625 CTAACCC
1 CTAAACC
*
15527632 CTAAACA
1 CTAAACC
*
15527639 TTAAACC
1 CTAAACC
**
15527646 C-CGACC
1 CTAAACC
15527652 CTTAAACC
1 C-TAAACC
*
15527660 ATAAACC
1 CTAAACC
* *
15527667 ATAATCC
1 CTAAACC
* *
15527674 ATAATCC
1 CTAAACC
15527681 CTAAACAC
1 CTAAAC-C
* *
15527689 ATAATCC
1 CTAAACC
15527696 CTAAACC
1 CTAAACC
*
15527703 TTAAA
1 CTAAA
15527708 ATAATAACTC
Statistics
Matches: 112, Mismatches: 29, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
6 6 0.05
7 84 0.75
8 22 0.20
ACGTcount: A:0.43, C:0.36, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:15527693 original size:15 final size:15
Alignment explanation
Indices: 15527673--15527701 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15527663 AACCATAATC
15527673 CATAATCCCTAAACA
1 CATAATCCCTAAACA
15527688 CATAATCCCTAAAC
1 CATAATCCCTAAAC
15527702 CTTAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAATCCCTAAACA
Found at i:15527707 original size:22 final size:21
Alignment explanation
Indices: 15527654--15527707 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
15527644 CCCCGACCCT
15527654 TAAACCATAAACCATAATCCA
1 TAAACCATAAACCATAATCCA
* * *
15527675 TAATCCCTAAACACATAATCCC
1 TAAACCATAAAC-CATAATCCA
*
15527697 TAAACCTTAAA
1 TAAACCATAAA
15527708 ATAATAACTC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCATAAACCATAATCCA
Found at i:15528519 original size:43 final size:43
Alignment explanation
Indices: 15528425--15528521 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
15528415 TTATAGAAAT
* * **
15528425 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTTCCAA
1 AAACGCCGCTAAAGAACATGTTCTTTAACGGCACTTGATCCAA
* ** *
15528468 AAATGCCGCTAAAGGTCATGTTCTTTAACGGCACTTAGAT-CAC
1 AAACGCCGCTAAAGAACATGTTCTTTAACGGCACTT-GATCCAA
15528511 AAACGCCGCTA
1 AAACGCCGCTA
15528522 TTGTTTGATG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
43 43 0.98
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGTTCTTTAACGGCACTTGATCCAA
Found at i:15528891 original size:21 final size:21
Alignment explanation
Indices: 15528867--15528917 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
15528857 TTCTGCTCTG
* *
15528867 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTGCCCTCACTGCCGC
* *
15528888 CTCTGCTGCCCTTACTGCTGC
1 CTCTGCTGCCCTCACTGCCGC
15528909 CTCTGCTGC
1 CTCTGCTGC
15528918 TGCCTTTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.47, G:0.20, T:0.31
Consensus pattern (21 bp):
CTCTGCTGCCCTCACTGCCGC
Found at i:15528917 original size:33 final size:33
Alignment explanation
Indices: 15528876--15528948 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
15528866 GCTCTGCTTC
*
15528876 CCTC-GCTGCCGCCTCTGCTGCCCTTACTGCTG
1 CCTCTGCTGCCGCCTCTGCTGCCCTTACTGCCG
* * *
15528908 CCTCTGCTGCTGCCTTTGCTTCCCTTACTGCCG
1 CCTCTGCTGCCGCCTCTGCTGCCCTTACTGCCG
15528941 CCTCTGCT
1 CCTCTGCT
15528949 TTAAGTTGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 4 0.11
33 32 0.89
ACGTcount: A:0.03, C:0.45, G:0.19, T:0.33
Consensus pattern (33 bp):
CCTCTGCTGCCGCCTCTGCTGCCCTTACTGCCG
Found at i:15530578 original size:17 final size:17
Alignment explanation
Indices: 15530556--15530661 Score: 82
Period size: 17 Copynumber: 6.4 Consensus size: 17
15530546 ATATATTTTA
15530556 AAATTATTAAGTTATGT
1 AAATTATTAAGTTATGT
15530573 AAATTATGTAAGTTATGT
1 AAATTAT-TAAGTTATGT
15530591 ATAATT-TTAA-TT-TGT
1 A-AATTATTAAGTTATGT
* **
15530606 AAGTTA-T--GGAATGAT
1 AAATTATTAAGTTATG-T
* *
15530621 ATATT-TTAAAATTATGT
1 AAATTATT-AAGTTATGT
15530638 AAATTATTAAGTTATGT
1 AAATTATTAAGTTATGT
15530655 AAATTAT
1 AAATTAT
15530662 GGAATGATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
14 6 0.09
15 9 0.13
16 2 0.03
17 30 0.44
18 17 0.25
19 4 0.06
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (17 bp):
AAATTATTAAGTTATGT
Found at i:15530579 original size:9 final size:9
Alignment explanation
Indices: 15530556--15530662 Score: 64
Period size: 9 Copynumber: 11.9 Consensus size: 9
15530546 ATATATTTTA
15530556 AAATTAT-T
1 AAATTATGT
*
15530564 AAGTTATGT
1 AAATTATGT
15530573 AAATTATGT
1 AAATTATGT
*
15530582 AAGTTATGT
1 AAATTATGT
15530591 ATAATT-T-T
1 A-AATTATGT
15530599 -AATT-TGT
1 AAATTATGT
* *
15530606 AAGTTATGG
1 AAATTATGT
*
15530615 AATGATATATTTT
1 AA--AT-TA-TGT
15530628 AAAATTATGT
1 -AAATTATGT
15530638 AAATTAT-T
1 AAATTATGT
*
15530646 AAGTTATGT
1 AAATTATGT
15530655 AAATTATG
1 AAATTATG
15530663 GAATGATATA
Statistics
Matches: 76, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
6 5 0.07
7 1 0.01
8 17 0.22
9 38 0.50
10 5 0.07
11 3 0.04
12 4 0.05
13 1 0.01
14 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (9 bp):
AAATTATGT
Found at i:15530704 original size:49 final size:49
Alignment explanation
Indices: 15530585--15530692 Score: 161
Period size: 49 Copynumber: 2.3 Consensus size: 49
15530575 ATTATGTAAG
*
15530585 TTATGTATAATT-TTAA-TT-TGTAAGTTATGGAATGATATATTTTAAAA
1 TTATGTA-AATTATTAAGTTATGTAAATTATGGAATGATATATTTTAAAA
15530632 TTATGTAAATTATTAAGTTATGTAAATTATGGAATGATATATTTTAAAA
1 TTATGTAAATTATTAAGTTATGTAAATTATGGAATGATATATTTTAAAA
*
15530681 TTAT-TAAGTTAT
1 TTATGTAAATTAT
15530693 GTGTATTATG
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
46 4 0.07
47 11 0.20
48 9 0.16
49 32 0.57
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (49 bp):
TTATGTAAATTATTAAGTTATGTAAATTATGGAATGATATATTTTAAAA
Found at i:15530807 original size:38 final size:38
Alignment explanation
Indices: 15530764--15530837 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
15530754 AGTAAGTAAT
15530764 GTAAGTAATGTAATATATACTTAAAAATATATATTTCG
1 GTAAGTAATGTAATATATACTTAAAAATATATATTTCG
*
15530802 GTAAGTAATGTAATATATACTTAAGAATATATATTT
1 GTAAGTAATGTAATATATACTTAAAAATATATATTT
15530838 AAGTAATGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.41
Consensus pattern (38 bp):
GTAAGTAATGTAATATATACTTAAAAATATATATTTCG
Found at i:15530846 original size:34 final size:36
Alignment explanation
Indices: 15530763--15530848 Score: 131
Period size: 38 Copynumber: 2.4 Consensus size: 36
15530753 TAGTAAGTAA
15530763 TGTAAGTAATGTAATATATACTTAAAAATATATATT
1 TGTAAGTAATGTAATATATACTTAAAAATATATATT
*
15530799 TCGGTAAGTAATGTAATATATACTTAAGAATATATA-T
1 T--GTAAGTAATGTAATATATACTTAAAAATATATATT
15530836 T-TAAGTAATGTAA
1 TGTAAGTAATGTAA
15530849 GTAAAGTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
34 12 0.26
36 1 0.02
37 2 0.04
38 32 0.68
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (36 bp):
TGTAAGTAATGTAATATATACTTAAAAATATATATT
Found at i:15532325 original size:16 final size:16
Alignment explanation
Indices: 15532304--15532396 Score: 81
Period size: 16 Copynumber: 6.0 Consensus size: 16
15532294 GATTTTAGTA
15532304 AAGTATATATTCCAGC
1 AAGTATATATTCCAGC
**
15532320 AAGTATATATT-TGGC
1 AAGTATATATTCCAGC
*
15532335 ---CATATATTCCAGC
1 AAGTATATATTCCAGC
15532348 AAG--TATATTCCAGC
1 AAGTATATATTCCAGC
*
15532362 AACTGGAATATATTCCAGC
1 AA---GTATATATTCCAGC
15532381 AAGTATATATTCCAGC
1 AAGTATATATTCCAGC
15532397 TTCTTCCCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
12 7 0.11
13 2 0.03
14 13 0.21
15 2 0.03
16 24 0.39
17 1 0.02
19 13 0.21
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.31
Consensus pattern (16 bp):
AAGTATATATTCCAGC
Found at i:15532354 original size:14 final size:14
Alignment explanation
Indices: 15532309--15532388 Score: 63
Period size: 14 Copynumber: 5.4 Consensus size: 14
15532299 TAGTAAAGTA
15532309 TATATTCCAGCAAG
1 TATATTCCAGCAAG
*** *
15532323 TATATATTTGGCCA-
1 TATAT-TCCAGCAAG
15532337 TATATTCCAGCAAG
1 TATATTCCAGCAAG
15532351 TATATTCCAGCAACTGG
1 TATATTCCAGCAA---G
15532368 AATATATTCCAGCAAG
1 --TATATTCCAGCAAG
15532384 TATAT
1 TATAT
15532389 ATTCCAGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
13 4 0.08
14 28 0.55
15 4 0.08
16 1 0.02
17 1 0.02
19 13 0.25
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (14 bp):
TATATTCCAGCAAG
Found at i:15534163 original size:31 final size:29
Alignment explanation
Indices: 15534100--15534170 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 29
15534090 ATAAAAATTA
*
15534100 ATAACCCCTAAATCCCAAATCCCTAACCC
1 ATAACCCCTAAATCCCAAATCCCTAAACC
* * *
15534129 ATAACCCCTAAATCCCCTTAATCCTTAAAGC
1 ATAACCCCTAAAT-CCC-AAATCCCTAAACC
15534160 ATAACCCCTAA
1 ATAACCCCTAA
15534171 CCCCTAAAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 13 0.36
30 3 0.08
31 20 0.56
ACGTcount: A:0.38, C:0.39, G:0.01, T:0.21
Consensus pattern (29 bp):
ATAACCCCTAAATCCCAAATCCCTAAACC
Found at i:15534171 original size:7 final size:7
Alignment explanation
Indices: 15534161--15534236 Score: 53
Period size: 7 Copynumber: 10.4 Consensus size: 7
15534151 CCTTAAAGCA
15534161 TAACCCC
1 TAACCCC
15534168 TAACCCC
1 TAACCCC
** *
15534175 TAAAGCA
1 TAACCCC
*
15534182 TAACACC
1 TAACCCC
15534189 TAACCCC
1 TAACCCC
15534196 TAAACCACCC
1 T-AA-C-CCC
15534206 TAACCCC
1 TAACCCC
** *
15534213 TAAAGCA
1 TAACCCC
*
15534220 TAACACC
1 TAACCCC
15534227 TAACCCC
1 TAACCCC
15534234 TAA
1 TAA
15534237 ACCACAAAAC
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
7 42 0.81
8 3 0.06
9 3 0.06
10 4 0.08
ACGTcount: A:0.39, C:0.43, G:0.03, T:0.14
Consensus pattern (7 bp):
TAACCCC
Found at i:15534179 original size:21 final size:21
Alignment explanation
Indices: 15534154--15534237 Score: 122
Period size: 21 Copynumber: 4.2 Consensus size: 21
15534144 CCTTAATCCT
*
15534154 TAAAGCATAACCCCTAACCCC
1 TAAAGCATAACACCTAACCCC
15534175 TAAAGCATAACACCTAACCCC
1 TAAAGCATAACACCTAACCCC
*
15534196 TAAA-C--CAC-CCTAACCCC
1 TAAAGCATAACACCTAACCCC
15534213 TAAAGCATAACACCTAACCCC
1 TAAAGCATAACACCTAACCCC
15534234 TAAA
1 TAAA
15534238 CCACAAAACC
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
17 13 0.23
18 3 0.05
20 3 0.05
21 37 0.66
ACGTcount: A:0.42, C:0.40, G:0.04, T:0.14
Consensus pattern (21 bp):
TAAAGCATAACACCTAACCCC
Found at i:15534199 original size:59 final size:60
Alignment explanation
Indices: 15534130--15534262 Score: 171
Period size: 59 Copynumber: 2.2 Consensus size: 60
15534120 CCCTAACCCA
* * * * * * *
15534130 TAACCCCTAAATCC-CCTTAATCCTTAAAGCATAACCCCTAACCCCTAAAGCATAACACC
1 TAACCCCTAAATCCACCCTAACCCCTAAAGCATAACACCTAACCCCTAAACCACAAAACC
15534189 TAACCCCTAAA-CCACCCTAACCCCTAAAGCATAACACCTAACCCCTAAACCACAAAACC
1 TAACCCCTAAATCCACCCTAACCCCTAAAGCATAACACCTAACCCCTAAACCACAAAACC
* *
15534248 CAAACCCTAAATCCA
1 TAACCCCTAAATCCA
15534263 TACCCCCTAC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 2 0.03
59 58 0.92
60 3 0.05
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.16
Consensus pattern (60 bp):
TAACCCCTAAATCCACCCTAACCCCTAAAGCATAACACCTAACCCCTAAACCACAAAACC
Found at i:15534207 original size:38 final size:38
Alignment explanation
Indices: 15534165--15534241 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
15534155 AAAGCATAAC
15534165 CCCTAACCCCTAAAGCATAACACCTAACCCCTAAACCA
1 CCCTAACCCCTAAAGCATAACACCTAACCCCTAAACCA
15534203 CCCTAACCCCTAAAGCATAACACCTAACCCCTAAACCA
1 CCCTAACCCCTAAAGCATAACACCTAACCCCTAAACCA
15534241 C
1 C
15534242 AAAACCCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.45, G:0.03, T:0.13
Consensus pattern (38 bp):
CCCTAACCCCTAAAGCATAACACCTAACCCCTAAACCA
Found at i:15535335 original size:8 final size:8
Alignment explanation
Indices: 15535300--15535355 Score: 53
Period size: 8 Copynumber: 7.2 Consensus size: 8
15535290 ACCGTTGAAA
15535300 CCCTAAA-
1 CCCTAAAT
*
15535307 CCCCAAAT
1 CCCTAAAT
**
15535315 CCCT-AGC
1 CCCTAAAT
15535322 CCCTAAAT
1 CCCTAAAT
15535330 CCCTAAAT
1 CCCTAAAT
* *
15535338 CCCTTAAC
1 CCCTAAAT
15535346 CCCTAAAT
1 CCCTAAAT
15535354 CC
1 CC
15535356 TCCTAACCCC
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
7 11 0.30
8 26 0.70
ACGTcount: A:0.32, C:0.46, G:0.02, T:0.20
Consensus pattern (8 bp):
CCCTAAAT
Found at i:15535364 original size:17 final size:16
Alignment explanation
Indices: 15535330--15535388 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 16
15535320 GCCCCTAAAT
*
15535330 CCCTAAATCCCTTAAC
1 CCCTAAATCCCCTAAC
15535346 CCCTAAATCCTCCTAACC
1 CCCTAAATCC-CCTAA-C
15535364 CCTCTAAATCCCCCTAAC
1 CC-CTAAAT-CCCCTAAC
15535382 CCCTAAA
1 CCCTAAA
15535389 GCATAACACT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 10 0.26
17 9 0.24
18 6 0.16
19 11 0.29
20 2 0.05
ACGTcount: A:0.31, C:0.47, G:0.00, T:0.22
Consensus pattern (16 bp):
CCCTAAATCCCCTAAC
Found at i:15535964 original size:114 final size:111
Alignment explanation
Indices: 15535751--15536174 Score: 444
Period size: 114 Copynumber: 3.7 Consensus size: 111
15535741 GCTACACAAG
* * * * *
15535751 AAACGCCGCTAGATCCCCGAAATCTCTCG-AAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGCG
1 AAACGCCGCTAAATCCCCAAAAGCTC-AGAAAACGGCGTCGTTGGGCTTAGG-TTTTTTGCGGCG
* * ** *
15535815 CTTCTCCAAAAACGCCGCTAAGGCCATGAGTATTAGCGACGCTTCCTTAA
64 CTT-TTCAAAAACGCCGCTAAAGCCATGAACATTAGCGGCGCTT-CTTAA
* * *
15535865 AAACACCGTTAAATCCCCAAAAAGCTCAG-AAACGGTGTCGTTGGGCTTAGGTTTTTTTGCGGCG
1 AAACGCCGCTAAATCCCC-AAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTTTGCGGCG
* * **
15535929 CTTCTTTAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCATTGATAA
64 CTT-TTCAAAAACGCCGCTAAAGCCATGAACATTAGCGGCGC-TTCTTAA
* * * *
15535979 AAACGCCGCT-AAGCCCTCGAAAGC-CTAGAAAACAGCGTCGTTGGGCTTAGG-TTTTTGCGGTG
1 AAACGCCGCTAAATCCC-CAAAAGCTC-AGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCG
15536041 CTTTCTCAAAAACGCCGCTAAAGCCATGAACATTAGCGGCGCTTTCTTAA
64 CTTT-TCAAAAACGCCGCTAAAGCCATGAACATTAGCGGCGC-TTCTTAA
* * * * * *
15536091 AAACGCCGCTAAATCCCCTAATGCTCTGTAAACGACGTCGTTGGGATTAGGTTTTTTGCGGCGCT
1 AAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCT
*
15536156 TTTTAGAAAACGCCGCTAA
66 TTTCA-AAAACGCCGCTAA
15536175 TTCTTATTTT
Statistics
Matches: 261, Mismatches: 39, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
111 1 0.00
112 91 0.35
113 45 0.17
114 116 0.44
115 8 0.03
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (111 bp):
AAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCT
TTTCAAAAACGCCGCTAAAGCCATGAACATTAGCGGCGCTTCTTAA
Found at i:15536713 original size:40 final size:39
Alignment explanation
Indices: 15536615--15536742 Score: 114
Period size: 40 Copynumber: 3.2 Consensus size: 39
15536605 GGTTTTTTGT
* * * *
15536615 GGCGCTTTTTGAAAAACGCCGCTAATGTTCATTTTTAGC
1 GGCGTTTTTTCAAAAGCGCCGCTAATGCTCATTTTTAGC
* * * *
15536654 AGCG-TTTTTCAATATGCGCCGCTAATACTCAATCTTTAGC
1 GGCGTTTTTTCAA-AAGCGCCGCTAATGCTC-ATTTTTAGC
* * * *
15536694 GGCGTTTTTTTAAAAGCGCCACTAATGCTTGATTTTTAGT
1 GGCGTTTTTTCAAAAGCGCCGCTAATGC-TCATTTTTAGC
15536734 GGCGTTTTT
1 GGCGTTTTT
15536743 ATCTAAACGC
Statistics
Matches: 70, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
38 7 0.10
39 16 0.23
40 39 0.56
41 8 0.11
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (39 bp):
GGCGTTTTTTCAAAAGCGCCGCTAATGCTCATTTTTAGC
Found at i:15537812 original size:43 final size:43
Alignment explanation
Indices: 15537730--15537814 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
15537720 CTAATTTACC
* * **
15537730 ATTAATGTTGAAAATTATTTTTGAAAAGTTTGATAATTTTATT
1 ATTAATGTTAAAAAGTATTTTTGAAAAGCATGATAATTTTATT
*
15537773 ATTAATGTTAAAAAGTATTTTTGAGAAGACATGAT-ATTTTAT
1 ATTAATGTTAAAAAGTATTTTTGAAAAG-CATGATAATTTTAT
15537815 AAAGTAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 32 0.89
44 4 0.11
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (43 bp):
ATTAATGTTAAAAAGTATTTTTGAAAAGCATGATAATTTTATT
Found at i:15539589 original size:40 final size:39
Alignment explanation
Indices: 15539529--15539678 Score: 106
Period size: 40 Copynumber: 3.7 Consensus size: 39
15539519 GGCACTTTTT
*
15539529 GCGGCGTTTGGAACAAAAGCGCCACAAAAAATAGAGCATTA
1 GCGGCGTTT--AACCAAAGCGCCACAAAAAATAGAGCATTA
* * * ** *
15539570 GCGGCGATTTAGCCAAAGCGCCGCTAAAGGTAGAGCATCA
1 GCGGCG-TTTAACCAAAGCGCCACAAAAAATAGAGCATTA
** * * *
15539610 GCGGCGTTTATACGGAAGCGCCGCTAAAAATAG-GAATTA
1 GCGGCGTTTA-ACCAAAGCGCCACAAAAAATAGAGCATTA
* *
15539649 ACGGCGTTTTATA-TAAAGCGCCACAAAAAA
1 GCGGCG-TTTA-ACCAAAGCGCCACAAAAAA
15539679 CCTAAGACGA
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
39 26 0.30
40 52 0.60
41 6 0.07
42 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (39 bp):
GCGGCGTTTAACCAAAGCGCCACAAAAAATAGAGCATTA
Found at i:15539812 original size:24 final size:24
Alignment explanation
Indices: 15539747--15539812 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
15539737 TAAGCACCGC
15539747 TAATGCTCGGGTCTATAGCGGCGT
1 TAATGCTCGGGTCTATAGCGGCGT
* *
15539771 T--T--T--TGTCTA-AGCGCCGT
1 TAATGCTCGGGTCTATAGCGGCGT
15539788 TAATGCTCGGGTCTATAGCGGCGT
1 TAATGCTCGGGTCTATAGCGGCGT
15539812 T
1 T
15539813 TTCGTCTAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
17 8 0.26
18 5 0.16
19 1 0.03
20 1 0.03
21 1 0.03
22 1 0.03
23 5 0.16
24 9 0.29
ACGTcount: A:0.15, C:0.21, G:0.30, T:0.33
Consensus pattern (24 bp):
TAATGCTCGGGTCTATAGCGGCGT
Found at i:15539849 original size:25 final size:25
Alignment explanation
Indices: 15539821--15539891 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 25
15539811 TTTTCGTCTA
15539821 AGCGCCGCTAATGCTCCGAGTCTTT
1 AGCGCCGCTAATGCTCCGAGTCTTT
* *
15539846 AGCGGCGCT--T--T-C--GTC-TA
1 AGCGCCGCTAATGCTCCGAGTCTTT
15539863 AGCGCCGCTAATGCTCCGAGTCTTT
1 AGCGCCGCTAATGCTCCGAGTCTTT
15539888 AGCG
1 AGCG
15539892 GCGTTTTCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 16
0.63 0.07 0.30
Matches are distributed among these distances:
17 9 0.26
18 3 0.09
19 1 0.03
20 1 0.03
21 2 0.06
22 1 0.03
23 1 0.03
24 3 0.09
25 13 0.38
ACGTcount: A:0.15, C:0.31, G:0.27, T:0.27
Consensus pattern (25 bp):
AGCGCCGCTAATGCTCCGAGTCTTT
Found at i:15539862 original size:42 final size:42
Alignment explanation
Indices: 15539719--15540083 Score: 452
Period size: 42 Copynumber: 8.8 Consensus size: 42
15539709 TTTTTAAACA
* *
15539719 TTTAGCGGCGTTTTTGTCTAAGCACCGCTAATGCT-CGGGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* * *
15539760 TATAGCGGCGTTTTTGTCTAAGCGCCGTTAATGCT-CGGGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* *
15539801 TATAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGAGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* *
15539843 TTTAGCGGCGCTTTCGTCTAAGCGCCGCTAATGCTCCGAGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* *
15539885 TTTAGCGGCGTTTTCGTCTAAGCGCCGGTAATGCTCCGAGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
*
15539927 TTTAGCGGAGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* * *
15539969 TATAGCGGCGTTTTCGCCTAAGCGCCGCTAATG-TTCGGGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* ** * * * * *
15540010 TTTTGCGGCGTTTTTATATATGCGCCGCTAATTCTCC-TGTA
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* * *
15540051 TTCAGCGGCGTTTGT-ATCTAAGCGCCGCGAATG
1 TTTAGCGGCGTTT-TCGTCTAAGCGCCGCTAATG
15540084 TATTAACCTT
Statistics
Matches: 287, Mismatches: 34, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
41 130 0.45
42 157 0.55
ACGTcount: A:0.15, C:0.26, G:0.27, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
Done.