Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 33 of 33
Found at i:5518993 original size:131 final size:128
Alignment explanation
Indices: 5518470--5519008 Score: 313
Period size: 131 Copynumber: 4.2 Consensus size: 128
5518460 CTTAAAATGG
* * * * * *
5518470 TGCCACAGAGTTGTGGACTTAAAAGGAAAAGAATGCCACGTAGTTGTGGGCTTT-AAAGGAAAAA
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAA-AGTGCCACGGAGTGGTGGGCTTTAAAAAG-AAAA
* * * * * * * ** *
5518534 AGGGTGCCACAGAGTCGTGGACTTAAAAAGG-TGCCACGGAGTTGTGGGCTTAGAAA-GAGA-AA
64 AGGTTGCCACGGAATTGTGGGCTTTAAAAGGATGCCACGAAGTCATGGACTTA-AAAGGA-ACAA
**
5518596 GG
127 AA
* * *
5518598 TGCCACGGAGTTGTGGGCTT-AAAAG----GGTGCCACGGAGTTGTGGGCTTTAAAAAG---AAG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTAAAAAGAAAAAG
* ** * * ** *
5518655 G-TGCCACGGAGTCATGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
66 GTTGCCACGGAATTGTGGGCTTTAAAA--G-----GA-TGCCACGAAGTCATGGAC-TT-AAAA-
5518719 GGAA-AAAGA
120 GGAACAAA-A
* * *
5518728 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGAAAA
1 -TGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTAAAAAGAAAA
* * ** **
5518793 AGGTTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGG
64 AGGTTGCCACGGAATTGTGGGCTTTAAAAGGATGCCACGAAGTCATGGACTTAAAAGGAACAAAA
* *
5518858 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
1 TGCCACGGAGTTGTGGACTTAAAA-AG-AAAA-AGTGCCACGGAGTGGTGGGCTTTAAAAAGAAA
* * **
5518923 AAGG-TGCCACGGAGTTGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCATGGACTT-TGA-G-A
63 AAGGTTGCCACGGAATTGTGGGCTTT----AAAAGGATGCCACGAAGTCATGGACTTAAAAGGAA
5518984 CAAAA
124 CAAAA
* *
5518989 TGCCACTGAGTCGTGGACTT
1 TGCCACGGAGTTGTGGACTT
5519009 TGAAGAAAAG
Statistics
Matches: 336, Mismatches: 41, Indels: 65
0.76 0.09 0.15
Matches are distributed among these distances:
118 22 0.07
119 4 0.01
120 1 0.00
122 20 0.06
123 4 0.01
125 1 0.00
127 22 0.07
128 29 0.09
129 22 0.07
130 30 0.09
131 79 0.24
132 5 0.01
133 23 0.07
134 23 0.07
137 25 0.07
139 1 0.00
140 4 0.01
141 21 0.06
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.21
Consensus pattern (128 bp):
TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTAAAAAGAAAAAG
GTTGCCACGGAATTGTGGGCTTTAAAAGGATGCCACGAAGTCATGGACTTAAAAGGAACAAAA
Found at i:5519007 original size:164 final size:157
Alignment explanation
Indices: 5518371--5519040 Score: 600
Period size: 164 Copynumber: 4.2 Consensus size: 157
5518361 GCTTTAGAAG
* *
5518371 AAGGTGCCACGAAGTCGTGGACTTAAAAGG-AAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGA
1 AAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA--A
* * * *
5518435 A-AAAAGGGTGCCACGGAGTTGTAGGCTTAAAATGGTGCCAC-AGAGTTGTGGACTTAAAAGGAA
64 AGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAGGTGCCACGA-AGTTGTGGACTT--TA--AA
* * * *
5518498 AAGAATGCCACGTAGTTGTGGGCTTTAAAGGAAAA
124 AAGAATGCCACGGAGTCGTGGACTTAAAAGG-AAA
* *
5518533 AAGGGTGCCACAGAGTCGTGGACTT------AAAAAG-GTGCCACGGAGTTGTGGGC-TTAGAAA
1 AA-GGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
* * * *
5518590 GAGAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAG
65 GAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAGGTGCCACGAAGTTGTGGACTTTAAAAAGAA-
*
5518655 GTGCCACGGAGTCATGGACTTTAAAAGGGAAA
129 -TGCCACGGAGTCGTGGAC-TTAAAA-GGAAA
* *
5518687 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAG-GTGCCACGGAGTCGTGGAC-TT-AAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
5518752 AAAGAAAAA-GTGCCACGGAGTGGTGGGCTTTGAGAAGAAAAAGGTTGCCACGGAA-TTGTGGGC
62 AAAGAAAAAGGTGCCACGGAGTTGTGGGC-TT------AAAAAGG-TGCCAC-GAAGTTGTGGAC
** * *
5518815 TTT-AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAC
118 TTTAAAAAGAATGCCACGGAGTCGTGGACTTAAAAGGAAA
*
5518854 AAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 AAGGTGCCACGGAGTCGTGGACTTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
* **
5518919 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCATGGACTTTGAGA
65 GAAAAAGGTGCCACGGAGTTGTGGGC-TT--A-AAAAGG-TGCCACGAAGTTGTGGACTTT-A-A
* * **
5518984 CAA-AATGCCACTGAGTCGTGGACTTTGAA-G-AA
123 AAAGAATGCCACGGAGTCGTGGACTTAAAAGGAAA
*
5519016 AAGGATGCCACTGAGTCGTGGACTT
1 AAGG-TGCCACGGAGTCGTGGACTT
5519041 TGAGAAGAGA
Statistics
Matches: 424, Mismatches: 48, Indels: 71
0.78 0.09 0.13
Matches are distributed among these distances:
151 7 0.02
153 16 0.04
154 28 0.07
155 51 0.12
156 4 0.01
157 18 0.04
158 5 0.01
161 3 0.01
162 27 0.06
163 45 0.11
164 104 0.25
165 39 0.09
166 18 0.04
167 7 0.02
168 6 0.01
169 16 0.04
171 11 0.03
172 17 0.04
173 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (157 bp):
AAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAGGTGCCACGAAGTTGTGGACTTTAAAAAGAATG
CCACGGAGTCGTGGACTTAAAAGGAAA
Found at i:5519010 original size:62 final size:63
Alignment explanation
Indices: 5518927--5519074 Score: 219
Period size: 62 Copynumber: 2.4 Consensus size: 63
5518917 AAGAAAAAGG
* *
5518927 TGCCACGGAGTTGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCATGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCATGGACTTTGAGA-AGAGAA
* * * *
5518989 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCATGGACTTTGAGAAGAGAA
5519052 TGCCACTGAGTCGTGGGCTTTGA
1 TGCCACTGAGTCGTGGGCTTTGA
5519075 GAAGAGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
61 1 0.01
62 53 0.69
63 23 0.30
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCATGGACTTTGAGAAGAGAA
Found at i:5519083 original size:31 final size:30
Alignment explanation
Indices: 5518921--5519082 Score: 182
Period size: 31 Copynumber: 5.2 Consensus size: 30
5518911 TTTAAAAAGA
* * * *
5518921 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
* *
5518952 AAAAGGATGCCACTAAGTCATGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
5518983 ACAAA-ATGCCACTGAGTCGTGGACTTTGAAG
1 A-AAAGATGCCACTGAGTCGTGGACTTTG-AG
5519014 AAAAGGATGCCACTGAGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* *
5519045 AAGAGATTGCCACTGAGTCGTGGGCTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
*
5519076 AAGAGAT
1 AAAAGAT
5519083 TTGAAGAATT
Statistics
Matches: 115, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
30 27 0.23
31 44 0.38
32 44 0.38
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.23
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:5520027 original size:9 final size:10
Alignment explanation
Indices: 5520007--5520041 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
5519997 TGAAAAGGGG
5520007 TTTTTCATTT
1 TTTTTCATTT
5520017 TTTTTCATTT
1 TTTTTCATTT
**
5520027 TTTTTTGTTT
1 TTTTTCATTT
5520037 TTTTT
1 TTTTT
5520042 GTTTCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.86
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:5520061 original size:22 final size:24
Alignment explanation
Indices: 5520014--5520067 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
5520004 GGGTTTTTCA
**
5520014 TTTTT-TTTCATTTTTTTTTGTTT
1 TTTTTGTTTCATTTTTTTTTGCCT
5520037 TTTTTGTTTC-TTTTTTTTT-CCT
1 TTTTTGTTTCATTTTTTTTTGCCT
5520059 TTTTTGTTT
1 TTTTTGTTT
5520068 TGTTTCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 10 0.36
23 14 0.50
24 4 0.14
ACGTcount: A:0.02, C:0.07, G:0.06, T:0.85
Consensus pattern (24 bp):
TTTTTGTTTCATTTTTTTTTGCCT
Found at i:5520077 original size:22 final size:22
Alignment explanation
Indices: 5520036--5520077 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5520026 TTTTTTTGTT
*
5520036 TTTTTTGTTTCTTTTTTTTTCC
1 TTTTTTGTTTCTTTTCTTTTCC
5520058 TTTTTTGTTT-TGTTTCTTTT
1 TTTTTTGTTTCT-TTTCTTTT
5520078 TTTGGAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (22 bp):
TTTTTTGTTTCTTTTCTTTTCC
Found at i:5529917 original size:62 final size:60
Alignment explanation
Indices: 5529817--5530018 Score: 180
Period size: 62 Copynumber: 3.2 Consensus size: 60
5529807 CGGCAACTGT
* *
5529817 GCGCACCCGGTGCTCCCCACGGTGTGCGCCGCGACCGCCCCCACCCCAGGGGCGGGAAGGGC
1 GCGCA-CC-GTGCTCCGCACGGCGTGCGCCGCGACCGCCCCCACCCCAGGGGCGGGAAGGGC
*
5529879 GCGCACCGTGCTCCTGGC-CGG-GTGCGTGCCGCGGCCGCCCCGCACCCCCCAGGGTG-GGCG-A
1 GCGCACCGTGCTCC--GCACGGCGTGC--GCCGCGACCGCCCC-CA--CCCCAGGG-GCGG-GAA
5529940 -GGC
57 GGGC
* * * *
5529943 GCGCACCGTGCTCCGCATGGCGTGCGCCCCGCCCGCCCCCGACCCCAGGGGGCGGGATGGGC
1 GCGCACCGTGCTCCGCACGGCGTGCGCCGCGACCGCCCCC-ACCCCA-GGGGCGGGAAGGGC
*
5530005 GCGCACCGTTCTCC
1 GCGCACCGTGCTCC
5530019 CGCCCGCAGC
Statistics
Matches: 117, Mismatches: 7, Indels: 32
0.75 0.04 0.21
Matches are distributed among these distances:
60 18 0.15
61 11 0.09
62 50 0.43
63 4 0.03
64 21 0.18
65 11 0.09
66 2 0.02
ACGTcount: A:0.08, C:0.45, G:0.38, T:0.09
Consensus pattern (60 bp):
GCGCACCGTGCTCCGCACGGCGTGCGCCGCGACCGCCCCCACCCCAGGGGCGGGAAGGGC
Found at i:5530107 original size:102 final size:102
Alignment explanation
Indices: 5529929--5530115 Score: 315
Period size: 102 Copynumber: 1.8 Consensus size: 102
5529919 CGCACCCCCC
* *
5529929 AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGCCCGCCCCCGACCCCAGGGG
1 AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGGG
5529994 GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
66 GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
*
5530031 AGGGTGGGCGAGGCGCGCACCGGTGCTCCGCATGGTGTGCGCCCCGACCGCCCCC-ACACCAGGG
1 AGGGTGGGCGAGGCGCGCACC-GTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGG
5530095 GGCGGGCA-GGGCGCGCACCGT
65 GGCGGG-ATGGGCGCGCACCGT
5530116 GCACCTGGCC
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
102 48 0.60
103 32 0.40
ACGTcount: A:0.10, C:0.41, G:0.41, T:0.09
Consensus pattern (102 bp):
AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGGG
GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
Found at i:5530669 original size:63 final size:62
Alignment explanation
Indices: 5530481--5530675 Score: 200
Period size: 63 Copynumber: 3.1 Consensus size: 62
5530471 CGACAACGGT
* *
5530481 GCGCACCCGGTGCCCCGCGAGGTGTGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGC
1 GCGCA-CCGGCGCCCCGCGAGGTGCGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGC
* * * * * * * * * *
5530544 GCGCCCCGTGCTCCCGCCCG-GGTCCGTGCCGCGGCCGCCCGCA--CCAGAGGGCGGG-CGAGGC
1 GCGCACCG-GCGCCC-CGCGAGGTGCGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAG-GGC
*
5530605 GCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCCACCCCAGGGGGCGGGAAGGGC
1 GCGCACCGGCGCCCCGCGAGGTGCGCGCCCCGACCG-CCCCCACCCCAGGGGGCGGGAAGGGC
5530668 GCGCACCG
1 GCGCACCG
5530676 TGCTCCTGGC
Statistics
Matches: 101, Mismatches: 23, Indels: 16
0.72 0.16 0.11
Matches are distributed among these distances:
59 3 0.03
60 18 0.18
61 26 0.26
62 3 0.03
63 47 0.47
64 4 0.04
ACGTcount: A:0.10, C:0.46, G:0.41, T:0.04
Consensus pattern (62 bp):
GCGCACCGGCGCCCCGCGAGGTGCGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGC
Found at i:5530703 original size:103 final size:101
Alignment explanation
Indices: 5530582--5530770 Score: 297
Period size: 103 Copynumber: 1.9 Consensus size: 101
5530572 CCGCGGCCGC
5530582 CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCC
1 CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCG-CCCCC
*
5530647 ACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
65 ACCAC-GGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
* * * * * *
5530685 CCGCACCCGAGGGTGGGCGAGGCGCGCACCGGCGCTCCGCGTGGTGTGCGCCCCGGCCGCCCCCA
1 CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCA
5530750 CCACGGGGGCGGGAAGGGCGC
66 CCACGGGGGCGGGAAGGGCGC
5530771 CCCCGGGCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 17 0.22
102 9 0.11
103 53 0.67
ACGTcount: A:0.11, C:0.42, G:0.43, T:0.05
Consensus pattern (101 bp):
CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCA
CCACGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
Found at i:5531884 original size:63 final size:64
Alignment explanation
Indices: 5531781--5531963 Score: 242
Period size: 64 Copynumber: 2.9 Consensus size: 64
5531771 CCGATAACAT
* * * *
5531781 ATGCGGAGGCCCACGCCTGCGCAACGAGTCCTTCCCAACCATCCGTCCCTCCCCCCTC-CAAAC
1 ATGCGGAGGCCCAAGCATGCGCAACGAGTCCCTCCAAACCATCCGTCCCTCCCCCCTCTCAAAC
* * * *
5531844 ATGCGGAGGCCCAAGCATGGGCAACGAGTCCCTCCAAACCACCCGGCCCTCCCCCCTCTCTAAC
1 ATGCGGAGGCCCAAGCATGCGCAACGAGTCCCTCCAAACCATCCGTCCCTCCCCCCTCTCAAAC
* * ** *
5531908 ATGCGGAGGGCCAAGCGTGCGCAACGAGTCCCTCCTCAGCATCCGTCCCTCCCCCC
1 ATGCGGAGGCCCAAGCATGCGCAACGAGTCCCTCCAAACCATCCGTCCCTCCCCCC
5531964 AACCAAACGT
Statistics
Matches: 103, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
63 51 0.50
64 52 0.50
ACGTcount: A:0.19, C:0.46, G:0.21, T:0.14
Consensus pattern (64 bp):
ATGCGGAGGCCCAAGCATGCGCAACGAGTCCCTCCAAACCATCCGTCCCTCCCCCCTCTCAAAC
Found at i:5531932 original size:64 final size:63
Alignment explanation
Indices: 5531781--5531942 Score: 225
Period size: 63 Copynumber: 2.6 Consensus size: 63
5531771 CCGATAACAT
* * * * * *
5531781 ATGCGGAGGCCCACGCCTGCGCAACGAGTCCTTCCCAACCATCCGTCCCTCCCCCCTCCAAAC
1 ATGCGGAGGCCCAAGCATGCGCAACGAGTCCCTCCAAACCACCCGGCCCTCCCCCCTCCAAAC
* *
5531844 ATGCGGAGGCCCAAGCATGGGCAACGAGTCCCTCCAAACCACCCGGCCCTCCCCCCTCTCTAAC
1 ATGCGGAGGCCCAAGCATGCGCAACGAGTCCCTCCAAACCACCCGGCCCTCCCCCCTC-CAAAC
* *
5531908 ATGCGGAGGGCCAAGCGTGCGCAACGAGTCCCTCC
1 ATGCGGAGGCCCAAGCATGCGCAACGAGTCCCTCC
5531943 TCAGCATCCG
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
63 51 0.59
64 36 0.41
ACGTcount: A:0.20, C:0.44, G:0.22, T:0.13
Consensus pattern (63 bp):
ATGCGGAGGCCCAAGCATGCGCAACGAGTCCCTCCAAACCACCCGGCCCTCCCCCCTCCAAAC
Found at i:5533412 original size:405 final size:405
Alignment explanation
Indices: 5532206--5533468 Score: 1765
Period size: 406 Copynumber: 3.1 Consensus size: 405
5532196 GAAGCGCACA
* * **
5532206 CCGGTTGTGGCGTGGGCAGAAGTTGCAGGTG-GGGCTTGGCCTGGCCATGCCCCGT-GAGTTGGG
1 CCGGTTATGGCGTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATG-CCCGTCGAGCAGGG
* * * *
5532269 GCAGTCTCGCGGCCCTTGCTTCGGCAACAGTGGGCT-CGTCCCGCCGGTTGTCTGTCGGGGATTG
65 GCAGTCTCGTGGCCCTTGCATCGGCAACGGTGGGCTACGTCCTGCCGGTTGTCTGTCGGGGATTG
* * * * *
5532333 TGCTCGAAGCGCCTGGCATTGATCGCGCCTTGGCAGAGTGTCCCTCTCGGTTAAGATCCAAGTCG
130 TGCTCGATGCGCCTGGCATTGATCGCGCCCTGGCAGAGTGTCCCTCTCGATTAAAATCCAGGTCG
* *
5532398 TGCA-TGCCTTGCGATCGTGGTTTTCGGTGGCCGGATGCCCAGCTGTGGTGACGGGACCCTTCGC
195 CG-AGTGCCTTGCGATCGTGGTTTTCGGTGGCCGGATGCCCAGCTGCGGTGACGGGACCCTTCGC
*
5532462 GGTCCAAGTGATCCGTGGTGAGGCCGTCGGTCTCTGCGTGCGCGATCGGTTGGCACGCGTGTGCG
259 GGTCCAAGTGATCCGTGGTGAGGCCGTCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGCG
** * * *
5532527 GGTAACGGGTAGTGGTCATGCCGGAAGGCAAGGCTCACACCTACGATGATGCTGCCAAGTTTCCG
324 GGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCACACCTGCGGTGATGCTGCCAAGTTTCCG
*
5532592 AATTCGAGTTGGTAGTC
389 AATTCGAGTAGGTAGTC
* *
5532609 CCGGTTATGGCGTGGGCAGATGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGG
1 CCGGTTATGGCGTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCGTCGAGCAGGGG
* * *
5532674 CAGTCTCGTGGCCCTTGCACCGGCAACGGTGGGC-ACGTCCTGCCGGTTGCCTGTCGGGGATTGC
66 CAGTCTCGTGGCCCTTGCATCGGCAACGGTGGGCTACGTCCTGCCGGTTGTCTGTCGGGGATTGT
* * * * * *
5532738 ACTCCATGCGCCTGGCATGGTTCACGCCCTGGC--AGTGTCCCTCTCGATTAAAATCTAGGTCGC
131 GCTCGATGCGCCTGGCATTGATCGCGCCCTGGCAGAGTGTCCCTCTCGATTAAAATCCAGGT--C
* * *
5532801 GCGAGCCTGCCTTGCGATCGTGG-TTTCGGTGACCGGATGCCCAGCTGCGGTGATGGAGACCCTA
194 GCGAG--TGCCTTGCGATCGTGGTTTTCGGTGGCCGGATGCCCAGCTGCGGTGACGG-GACCCTT
** * *
5532865 CGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCGATCGTTTGGCACGCGTGT
256 CGCGGTCCAAGTGATCCGTGGTGAGGCCGTCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGT
* * * *
5532930 GTGTGTAACGGGGCATGGTCGTGCCGGAAGGCAAGGCTCACACCTGCGGTGATTCTGCCAAGTTT
321 GCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCACACCTGCGGTGATGCTGCCAAGTTT
*
5532995 CCGAATTCGAGTAGGTTGTC
386 CCGAATTCGAGTAGGTAGTC
5533015 CCGGTTATGGCGTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCAGTCG-GCAGGG
1 CCGGTTATGGCGTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCC-GTCGAGCAGGG
5533079 GCAGTCTCGTGGCCCTTGCATCGGCAACGGTGGGCTACGTCCTGCCGGTTGTCTGTCGGGGATTG
65 GCAGTCTCGTGGCCCTTGCATCGGCAACGGTGGGCTACGTCCTGCCGGTTGTCTGTCGGGGATTG
* *
5533144 TGCTCGATGCGCCTGGCATTGATCGCGCCCCGGCAGAGTGTCCCTCTCGCTTAAAATCCAGGTCG
130 TGCTCGATGCGCCTGGCATTGATCGCGCCCTGGCAGAGTGTCCCTCTCGATTAAAATCCAGGTCG
* * * *
5533209 CGTGTCCCTTGCGATCGTGGTTTTCAGTGGCCGGTTGCCCAGCTGCGGTGACGGGACCCTTCGCG
195 CGAGTGCCTTGCGATCGTGGTTTTCGGTGGCCGGATGCCCAGCTGCGGTGACGGGACCCTTCGCG
**
5533274 GTCCAAGTGATCCGTGGTGAGGCCGTCGGTCGCTGCGTGCATGATCGGTTGGCACGCGTGTGCGG
260 GTCCAAGTGATCCGTGGTGAGGCCGTCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGCGG
* * *
5533339 GTAACGGGGCGTGGTCGTGCCGAAAGGCAACGCTCGCACCTGCGGTGATGCTGCCAAG-TTCTCG
325 GTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCACACCTGCGGTGATGCTGCCAAGTTTC-CG
* * *
5533403 ATTTCGAGTAGATGGTC
389 AATTCGAGTAGGTAGTC
* * * * * * *
5533420 CCGATTGTGGCACT-GGCAGATGCTGCAAGTGAGGGCGTGGCCTAGCCAT
1 CCGGTTATGGC-GTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCAT
5533469 TTGGGCTCGG
Statistics
Matches: 756, Mismatches: 88, Indels: 30
0.86 0.10 0.03
Matches are distributed among these distances:
402 23 0.03
403 33 0.04
404 113 0.15
405 221 0.29
406 278 0.37
407 63 0.08
409 25 0.03
ACGTcount: A:0.14, C:0.27, G:0.36, T:0.23
Consensus pattern (405 bp):
CCGGTTATGGCGTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCGTCGAGCAGGGG
CAGTCTCGTGGCCCTTGCATCGGCAACGGTGGGCTACGTCCTGCCGGTTGTCTGTCGGGGATTGT
GCTCGATGCGCCTGGCATTGATCGCGCCCTGGCAGAGTGTCCCTCTCGATTAAAATCCAGGTCGC
GAGTGCCTTGCGATCGTGGTTTTCGGTGGCCGGATGCCCAGCTGCGGTGACGGGACCCTTCGCGG
TCCAAGTGATCCGTGGTGAGGCCGTCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGCGGG
TAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCACACCTGCGGTGATGCTGCCAAGTTTCCGAA
TTCGAGTAGGTAGTC
Found at i:5536318 original size:52 final size:52
Alignment explanation
Indices: 5536233--5536357 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
5536223 ATATGAAAAG
* *
5536233 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
5536285 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
5536337 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
5536358 AAGATCAATG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:5536368 original size:52 final size:52
Alignment explanation
Indices: 5536233--5536377 Score: 204
Period size: 52 Copynumber: 2.8 Consensus size: 52
5536223 ATATGAAAAG
* * *
5536233 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAAT
***
5536285 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
5536337 TTGCCTGCATGTATCGATACA-AAGATCAATGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AATGTATCGATACA
5536378 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 4 0.05
52 81 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
Found at i:5536381 original size:13 final size:13
Alignment explanation
Indices: 5536363--5536390 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5536353 ATACAAAGAT
5536363 CAATGTATCGATA
1 CAATGTATCGATA
5536376 CAATGTATCGATA
1 CAATGTATCGATA
5536389 CA
1 CA
5536391 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:5542977 original size:62 final size:60
Alignment explanation
Indices: 5542783--5542985 Score: 182
Period size: 62 Copynumber: 3.2 Consensus size: 60
5542773 CGGCAACTGT
*
5542783 GCGCACCCGGTGCTCCCCACGGTGTGCGCCGCGACCGCCCCC-ACCCCAGGGGGCGGGAAGGGC
1 GCGCA-CC-GTGCTCCGCACGG-GTGCGCCGCGACCGCCCCCGACCCCAGGGGGCGGG-AGGGC
* *
5542846 GCGCACCGTGCTCCTGGC-CGGGTGCGTGCCGCGGCCG-CCCCGCACCCCCCAGGGTGG-GCGA-
1 GCGCACCGTGCTCC--GCACGGGTGC--GCCGCGACCGCCCCCG-A--CCCCAGGG-GGCGGGAG
5542907 GGC
58 GGC
* * *
5542910 GCGCACCGTGCTCCGCATGGCGTGCGCCCCGCCCGCCCCCGACCCCAGGGGGCGGGATGGGC
1 GCGCACCGTGCTCCGCACGG-GTGCGCCGCGACCGCCCCCGACCCCAGGGGGCGGGA-GGGC
*
5542972 GCGCACCGTTCTCC
1 GCGCACCGTGCTCC
5542986 CGCCCGCAGC
Statistics
Matches: 117, Mismatches: 8, Indels: 31
0.75 0.05 0.20
Matches are distributed among these distances:
59 2 0.02
60 11 0.09
61 11 0.09
62 36 0.31
63 22 0.19
64 22 0.19
65 1 0.01
66 10 0.09
67 2 0.02
ACGTcount: A:0.08, C:0.45, G:0.38, T:0.09
Consensus pattern (60 bp):
GCGCACCGTGCTCCGCACGGGTGCGCCGCGACCGCCCCCGACCCCAGGGGGCGGGAGGGC
Found at i:5543074 original size:102 final size:102
Alignment explanation
Indices: 5542896--5543082 Score: 315
Period size: 102 Copynumber: 1.8 Consensus size: 102
5542886 CGCACCCCCC
* *
5542896 AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGCCCGCCCCCGACCCCAGGGG
1 AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGGG
5542961 GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
66 GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
*
5542998 AGGGTGGGCGAGGCGCGCACCGGTGCTCCGCATGGTGTGCGCCCCGACCGCCCCC-ACACCAGGG
1 AGGGTGGGCGAGGCGCGCACC-GTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGG
5543062 GGCGGGCA-GGGCGCGCACCGT
65 GGCGGG-ATGGGCGCGCACCGT
5543083 GCACCTGGCC
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
102 48 0.60
103 32 0.40
ACGTcount: A:0.10, C:0.41, G:0.41, T:0.09
Consensus pattern (102 bp):
AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGGG
GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
Found at i:5543526 original size:64 final size:64
Alignment explanation
Indices: 5543425--5543546 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
5543415 GACCGATAGC
*
5543425 ACATGCGGAGGCCCAAGCGTGGGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCTCTA
1 ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCTCTA
* * * *
5543489 ACATGCGGAGGGCCAAGCGTGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCC
1 ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCC
5543547 CAACCAAACG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (64 bp):
ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCTCTA
Found at i:5543794 original size:63 final size:62
Alignment explanation
Indices: 5543606--5543800 Score: 200
Period size: 63 Copynumber: 3.1 Consensus size: 62
5543596 CGACAACGGT
* *
5543606 GCGCACCCGGTGCCCCGCGAGGTGTGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGC
1 GCGCA-CCGGCGCCCCGCGAGGTGCGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGC
* * * * * * * * * *
5543669 GCGCCCCGTGCTCCCGCCCG-GGTCCGTGCCGCGGCCGCCCGCA--CCAGAGGGCGGG-CGAGGC
1 GCGCACCG-GCGCCC-CGCGAGGTGCGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAG-GGC
*
5543730 GCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCCACCCCAGGGGGCGGGAAGGGC
1 GCGCACCGGCGCCCCGCGAGGTGCGCGCCCCGACCG-CCCCCACCCCAGGGGGCGGGAAGGGC
5543793 GCGCACCG
1 GCGCACCG
5543801 TGCTCCTGGC
Statistics
Matches: 101, Mismatches: 23, Indels: 16
0.72 0.16 0.11
Matches are distributed among these distances:
59 3 0.03
60 18 0.18
61 26 0.26
62 3 0.03
63 47 0.47
64 4 0.04
ACGTcount: A:0.10, C:0.46, G:0.41, T:0.04
Consensus pattern (62 bp):
GCGCACCGGCGCCCCGCGAGGTGCGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGC
Found at i:5543828 original size:103 final size:101
Alignment explanation
Indices: 5543707--5543895 Score: 297
Period size: 103 Copynumber: 1.9 Consensus size: 101
5543697 CCGCGGCCGC
5543707 CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCC
1 CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCG-CCCCC
*
5543772 ACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
65 ACCAC-GGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
* * * * * *
5543810 CCGCACCCGAGGGTGGGCGAGGCGCGCACCGGCGCTCCGCGTGGTGTGCGCCCCGGCCGCCCCCA
1 CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCA
5543875 CCACGGGGGCGGGAAGGGCGC
66 CCACGGGGGCGGGAAGGGCGC
5543896 CCCCGGGCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 17 0.22
102 9 0.11
103 53 0.67
ACGTcount: A:0.11, C:0.42, G:0.43, T:0.05
Consensus pattern (101 bp):
CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCA
CCACGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
Found at i:5545862 original size:402 final size:403
Alignment explanation
Indices: 5544882--5547676 Score: 2497
Period size: 402 Copynumber: 6.8 Consensus size: 403
5544872 AAACCTTGTC
* * ** * *
5544882 GCGGTGATGGAGACCCTGCGCGGTCCAGGTGATCCGTGGCAAGGTCCCCGGTCGCCGTATGCTGC
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCG-C-TACG-TGC
** * * * * * *
5544947 -CGATCGCATGGCACGCGTGTGTGGGGCACAAGGGGCGTGGTCGTGCCGTAGGGTTAA-GCTTC-
63 GCGATCGTTTGGCACGCGTGTG-CGGGTA-ACGGGGCGTGGTCGTGCCGGAAGG-CAAGGC-TCG
* * * *
5545009 CACCTGCGCTGATTCTGCCAAGTTCCCGAATTCGAGTTGGTAGTCCCGGTTGTGGCGTGGGCAGA
124 CACCTGCGGTGATGCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGTGGGCAGA
* *
5545074 AGCTGCAGGTG-GGGCTTGGCCTGGCCATGCCCCGT-GAGCAGGGGCAGTCTCGCGGCCCTTGCT
189 AGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCC-TCGAGCAGGGGCAGTCTCGTGGCCCTTGCA
* * * * * *
5545137 TCGGCAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATTGTGCTCGATGCGCCTGGCATTG
253 TCGGCAACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGG
* * * *
5545202 ATCGCGCCCCGGCAGAGTGTCCCTCTCGGTTAAGATCCAGGTCGCGCGTGCCTTGCGATCGTGGT
318 TTCGCGCCCCGGC--AGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGT
*
5545267 TTTCGGTGGCCGGATGCCCAGCT
381 TTTCGGTGACCGGATGCCCAGCT
* * ** * *
5545290 GCGGTGACGG-GACCCTTCGCGGTCCAAGTGATCCGTGGTGAGGCCGTCGGTCTCTGCGTGCGCG
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
*
5545354 ATCGGTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
66 ATCGTTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
* * *
5545419 GGTGATGCTGCCAAGTTCCCGAATTCGAGTCGGTAGTCCCGGTTGTGGCGTGGGCAGAGGCTGCA
131 GGTGATGCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
5545484 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCAAC
196 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCAAC
5545549 GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
261 GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
5545614 CCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGAC
326 CCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGAC
5545679 CGGATGCCCAGCT
391 CGGATGCCCAGCT
5545692 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
5545757 ATCGTTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTC-TGCCGGAAGGCAAGGCTCGCACCTGC
66 ATCGTTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
*
5545821 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
131 GGTGATGCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
*
5545886 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGGGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCAAC
196 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCAAC
5545951 GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
261 GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
5546016 CCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGAC
326 CCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGAC
5546081 CGGATGCCCAGCT
391 CGGATGCCCAGCT
5546094 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
*
5546159 ATCGTTTGGCACGCGTGTGTGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
66 ATCGTTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
* *
5546224 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGCT-GGCAGATGCTGC
131 GGTGATGCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCG-TGGGCAGAAGCTGC
* *
5546288 AGGTGAGGGCGTGGCCTGGCCATTGCCCCTCGAGCAGGGGCAGTCTCGCGGCCCTTGCATCGGCA
195 AGGTGAGGGCTTGGCCTGGCCA-TGCCCCTCGAGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCA
* * * * * *
5546353 ACGGTGGGCTCGTCTTGCCGGTTGCCTGTCGGGGATTGTGCTCGATGTTCCTGTTCCTCGCACGG
259 ACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATG---C-G--CCTGGCATGG
* * * * *
5546418 GTCGCGCCCCGGCAGAGTGTCCCTCTCGATTGAAATCCAGGTCGTGCCCAG-C-TGCGGTGACG-
318 TTCGCGCCCCGGC--AGTGTCCCTCTCGATTAAAATCCAGGTCGCG-CGAGCCTTGCGAT--CGT
** ** * *
5546480 GG--GACCCT--CCGCGGT-CCAAGC-
378 GGTTTTCGGTGACCG-GATGCCCAGCT
* * * * * * *
5546501 GATCCGTG--GCGAGGCCCT-CG-GGCCCTCATGGCTTATTCCGCGAAGGGCAGGTCGCGCACCC
1 G--CGGTGATG-GAGACCCTACGCGG-TC-CA-AG-TGA-TCCGTG--GTG-A-G--GC-C-CCC
** ** **** * * * * *
5546562 GGT-GC--C-TG-G-GATTC-TGCGTGC-CGCGTCCGCACCCATCCGGGTGTGGGCAG-GGCGCG
50 GGTCGCTACGTGCGCGA-TCGTTTG-GCACGCGTGTGCGGGTAACGGGGCGTGGTC-GTGCCG-G
* ** * * * * * * * **
5546618 CA--CCCGG-T-GC-CTTGC-GTGGTCCTCCCATCGATTGTGGCCCCTTGGATTTAC-ATATATA
111 AAGGCAAGGCTCGCACCTGCGGTGATGCTGCCA---A--GT--TCCC---GAATT-CGA-GTAGG
* ***** * * * * ** * * ***
5546676 TATATATATATTCTAATGGTAC-TTGTCAAAAAG-TGTCCCACTTTCA-GACAATT--CCATATT
164 T-TGT-CCCGGT-T-GTGG--CGTGGGC-AGAAGCTG---CA-GGTGAGGGC--TTGGCC-TGGC
** * * * * * * * **
5546736 TTTGGCCCCCTACCCATCAGGGCGC-G-CGCCGTGTGCTCTT-CATGGTGC-GCGCCCTGCCCAC
215 CAT-G-CCCCT--CGAGCAGGG-GCAGTC-TCGTG-GCCCTTGCATCG-GCAACG--GTGGGCA-
* * ** * * * *
5546797 CCTTCCCT-CCGAG--G--GGT-GGGGAGGGTCTTGCACCATGTGCCTGGCTTGGTGT-GAGCCC
269 -CGT-CCTGCCG-GTTGCCTGTCGGGGATTG-C--GCTCCATGCGCCTGGCATGGT-TCGCGCCC
** ** * **
5546855 CGGCCACAGTTGC-CTCG-TGTGAAATCCAGGTCATGC-ATGCCTTGCGATCGTGGTTTTCGGTG
327 CGG-CAGTGTCCCTCTCGAT-TAAAATCCAGGTCGCGCGA-GCCTTGCGATCGTGGTTTTCGGTG
5546917 ACCGGATGCCCAGCT
389 ACCGGATGCCCAGCT
* * * * * * * *
5546932 GCGGTGATGGAGGCCCTTCGCGGTCCAAGTGATCCGTGGCGAGGTCCCCGGTCACCATGTGCTCG
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
* * * * * * * *
5546997 ATCGGTTGGCCCGCGTGTGTGGGGAGATGAGGCGTGGTCCTGCCGGAAGGTTAA-GCTCGCACCT
66 ATCGTTTGGCACGCGTGTGCGGGTA-ACGGGGCGTGGTCGTGCCGGAAGG-CAAGGCTCGCACCT
** * * * *
5547061 GCGCCGATGCCGCCAACGACTCCAGGACCAAGCCCCCTAATCGAGTAGAG-GGTCCCGGTTGTGG
129 GCGGTGATGCTGCCAA-G-TTCC----CGAA------T--TCGAGTAG-GTTGTCCCGGTTGTGG
* * *
5547125 CGCGCGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAAGGGCAGTCTCGTG
179 CGTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGTG
5547190 GCCCTTGCATCGGCAACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGC
244 GCCCTTGCATCGGCAACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGC
5547255 CTGGCATGGTTCGCGCCCCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGA
309 CTGGCATGGTTCGCGCCCCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGA
5547320 TCGTGGTTTTCGGTGACCGGATGCCCAGCT
374 TCGTGGTTTTCGGTGACCGGATGCCCAGCT
* *
5547350 GCGGTGATGAAGGCCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
* * ** * *
5547415 ATCGCTTGGCACGCGTGTGTGGGTAACGGGGCGTGGTCGTGCCGGAAGGTTAGGCTTGCTCCTGC
66 ATCGTTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
* * * ** *
5547480 GGTGATGCTGCCAAGTTCTCGAATTCGAGT-GGATGGTCCCGGTTGTGGTGCAGGCAGATGCTGC
131 GGTGATGCTGCCAAGTTCCCGAATTCGAGTAGG-TTGTCCCGGTTGTGGCGTGGGCAGAAGCTGC
* * *
5547544 AGGTGCGGGCTTGGCCTGGCCGTTGCCCCTCGAGCAGGGGCAGTCTCGCGGCCCTTGCATCGGCA
195 AGGTGAGGGCTTGGCCTGGCC-ATGCCCCTCGAGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCA
* ** *
5547609 ACGCTGGGTTCGTCCTGCCGGTTGGCC-GTCGGGGATTGCGCTCCATGCGCCTGGCATGGATCGC
259 ACGGTGGGCACGTCCTGCCGGTT-GCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGC
5547673 GCCC
323 GCCC
5547677 GGGCTGAGTG
Statistics
Matches: 1940, Mismatches: 289, Indels: 320
0.76 0.11 0.13
Matches are distributed among these distances:
401 1 0.00
402 479 0.25
403 342 0.18
404 310 0.16
405 25 0.01
406 3 0.00
407 41 0.02
408 36 0.02
409 11 0.01
410 26 0.01
411 15 0.01
412 35 0.02
413 32 0.02
414 9 0.00
415 8 0.00
416 8 0.00
417 55 0.03
418 171 0.09
419 22 0.01
420 16 0.01
421 25 0.01
422 2 0.00
423 12 0.01
424 13 0.01
425 27 0.01
426 40 0.02
427 24 0.01
428 30 0.02
429 20 0.01
430 28 0.01
431 35 0.02
432 14 0.01
433 5 0.00
434 10 0.01
435 7 0.00
436 3 0.00
ACGTcount: A:0.13, C:0.30, G:0.36, T:0.22
Consensus pattern (403 bp):
GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
ATCGTTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
GGTGATGCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCAAC
GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
CCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGAC
CGGATGCCCAGCT
Found at i:5561185 original size:62 final size:60
Alignment explanation
Indices: 5560991--5561193 Score: 182
Period size: 62 Copynumber: 3.2 Consensus size: 60
5560981 CGGCAACTGT
*
5560991 GCGCACCCGGTGCTCCCCACGGTGTGCGCCGCGACCGCCCCC-ACCCCAGGGGGCGGGAAGGGC
1 GCGCA-CC-GTGCTCCGCACGG-GTGCGCCGCGACCGCCCCCGACCCCAGGGGGCGGG-AGGGC
* *
5561054 GCGCACCGTGCTCCTGGC-CGGGTGCGTGCCGCGGCCG-CCCCGCACCCCCCAGGGTGG-GCGA-
1 GCGCACCGTGCTCC--GCACGGGTGC--GCCGCGACCGCCCCCG-A--CCCCAGGG-GGCGGGAG
5561115 GGC
58 GGC
* * *
5561118 GCGCACCGTGCTCCGCATGGCGTGCGCCCCGCCCGCCCCCGACCCCAGGGGGCGGGATGGGC
1 GCGCACCGTGCTCCGCACGG-GTGCGCCGCGACCGCCCCCGACCCCAGGGGGCGGGA-GGGC
*
5561180 GCGCACCGTTCTCC
1 GCGCACCGTGCTCC
5561194 CGCCCGCAGC
Statistics
Matches: 117, Mismatches: 8, Indels: 31
0.75 0.05 0.20
Matches are distributed among these distances:
59 2 0.02
60 11 0.09
61 11 0.09
62 36 0.31
63 22 0.19
64 22 0.19
65 1 0.01
66 10 0.09
67 2 0.02
ACGTcount: A:0.08, C:0.45, G:0.38, T:0.09
Consensus pattern (60 bp):
GCGCACCGTGCTCCGCACGGGTGCGCCGCGACCGCCCCCGACCCCAGGGGGCGGGAGGGC
Found at i:5561282 original size:102 final size:102
Alignment explanation
Indices: 5561104--5561290 Score: 315
Period size: 102 Copynumber: 1.8 Consensus size: 102
5561094 CGCACCCCCC
* *
5561104 AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGCCCGCCCCCGACCCCAGGGG
1 AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGGG
5561169 GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
66 GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
*
5561206 AGGGTGGGCGAGGCGCGCACCGGTGCTCCGCATGGTGTGCGCCCCGACCGCCCCC-ACACCAGGG
1 AGGGTGGGCGAGGCGCGCACC-GTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGG
5561270 GGCGGGCA-GGGCGCGCACCGT
65 GGCGGG-ATGGGCGCGCACCGT
5561291 GCACCTGGCC
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
102 48 0.60
103 32 0.40
ACGTcount: A:0.10, C:0.41, G:0.41, T:0.09
Consensus pattern (102 bp):
AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGGG
GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
Found at i:5561730 original size:64 final size:64
Alignment explanation
Indices: 5561629--5561750 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
5561619 CACCGATAGC
*
5561629 ACATGCGGAGGCCCAAGCGTGGGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCTCTA
1 ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCTCTA
* * * *
5561693 ACATGCGGAGGGCCAAGCGTGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCC
1 ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCC
5561751 CAACCAAACG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (64 bp):
ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCTCTA
Found at i:5561999 original size:63 final size:63
Alignment explanation
Indices: 5561810--5562008 Score: 203
Period size: 63 Copynumber: 3.2 Consensus size: 63
5561800 CGACAACGGT
*
5561810 GCGCACCCGGTGC-CCCCGCGAGGTGTGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGC
1 GCGCA-CC-GTGCGCCCCGCGAGGTGCGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGC
* * * * * * * * * *
5561874 GCGCCCCGTGCTCCCGCCCG-GGTCCGTGCCGCGGCCGCCCGCA--CCAGAGGGCGGG-CGAGGC
1 GCGCACCGTGCGCCC-CGCGAGGTGCGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAG-GGC
*
5561935 GCGCACCG-GCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCCACCCCAGGGGGCGGGAAGGGC
1 GCGCACCGTGCGCCCCGCGAGGTGCGCGCCCCGACCG-CCCCCACCCCAGGGGGCGGGAAGGGC
5561998 GCGCACCGTGC
1 GCGCACCGTGC
5562009 TCCTGGCCGC
Statistics
Matches: 105, Mismatches: 21, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
59 3 0.03
60 18 0.17
61 26 0.25
62 4 0.04
63 44 0.42
64 10 0.10
ACGTcount: A:0.10, C:0.46, G:0.40, T:0.05
Consensus pattern (63 bp):
GCGCACCGTGCGCCCCGCGAGGTGCGCGCCCCGACCGCCCCCACCCCAGGGGGCGGGAAGGGC
Found at i:5562033 original size:103 final size:101
Alignment explanation
Indices: 5561912--5562100 Score: 297
Period size: 103 Copynumber: 1.9 Consensus size: 101
5561902 CCGCGGCCGC
5561912 CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCC
1 CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCG-CCCCC
*
5561977 ACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
65 ACCAC-GGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
* * * * * *
5562015 CCGCACCCGAGGGTGGGCGAGGCGCGCACCGGCGCTCCGCGTGGTGTGCGCCCCGGCCGCCCCCA
1 CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCA
5562080 CCACGGGGGCGGGAAGGGCGC
66 CCACGGGGGCGGGAAGGGCGC
5562101 CCCCGGGCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 17 0.22
102 9 0.11
103 53 0.67
ACGTcount: A:0.11, C:0.42, G:0.43, T:0.05
Consensus pattern (101 bp):
CCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGAGGTGGGCGCCCCGACCGCCCCCA
CCACGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGG
Found at i:5562543 original size:63 final size:63
Alignment explanation
Indices: 5562435--5562554 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
5562425 GCACGATAGC
* *
5562435 ACATGCGGAGGCCCAAGCGTGGGAAACGAGTCCCCTCCAACCATCCGGCCCTCCCCCTCTCTA
1 ACATGCGGAGGCCCAAGAGTGCGAAACGAGTCCCCTCCAACCATCCGGCCCTCCCCCTCTCTA
* * * * *
5562498 ACATGCGGAGGGCCAAGAGTGCGCAACGAGT-CCCTCCCCAGCATCCGTCCCTCCCCC
1 ACATGCGGAGGCCCAAGAGTGCGAAACGAGTCCCCT-CCAACCATCCGGCCCTCCCCC
5562555 CCAACCAAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
62 4 0.08
63 45 0.92
ACGTcount: A:0.20, C:0.43, G:0.23, T:0.13
Consensus pattern (63 bp):
ACATGCGGAGGCCCAAGAGTGCGAAACGAGTCCCCTCCAACCATCCGGCCCTCCCCCTCTCTA
Found at i:5562681 original size:805 final size:813
Alignment explanation
Indices: 5560893--5562748 Score: 2696
Period size: 805 Copynumber: 2.3 Consensus size: 813
5560883 GGCCAACGCA
* * * * *
5560893 TGCGCAACGAGTCCCTCCCCCGGCCATCCGTCCCT-CCCCGC-TCCGAACGTGTTCTTCCCTTAG
1 TGCGCAACGAGTCCCT-CCCCAG-CATCCGTCCCTCCCCCCCAACCAAACGTGTTCGTCCCTTAG
* * *
5560956 CGTTGCGCCGGTCGGTTGGGTACCCCGGCAACTGTGCGCACCCGGTGCTCCCCACGGTGTGCGCC
64 CGTTGCGACGGTCGGTTGGGTACCCCGGCAACGGTGCGCACCCGGTGCTCCGCA-GGTGTGCGCC
* * *
5561021 GCGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGGCCGGGTGCGTGCCGC
128 CCGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCCGCCCGGGTGCGTGCCGC
* * * * *
5561086 GGCCGCCCCGCACCCCCCAGGGTGGGCGAGGCGCGCACC-GTGCTCCGCATGGCGTGCGCCCCGC
193 GGCCG-CCCGCA--CCCGAGGGTGGGCGAGGCGCGCACCGGCGCCCCGCATGGCGGGCGCCCCGA
* * * *
5561150 CCGCCCCCGACCCCAGGGGGCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCGAGGGTGGGC
255 CCGCCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCCGCCCGCACCCGAGGGTGGGC
* *
5561215 GAGGCGCGCACCGGTGCTCCGCATGGTGTGCGCCCCGACCGCCCCCACACCAGGGGGCGGGCAGG
320 GAGGCGCGCACCGGCGCTCCGCATGGTGTGCGCCCCGACCGCCCCCACACCAGGGGGCGGGCAAG
* * * * *
5561280 GCGCGCACCGTGCACCTGGCCGGGGGTGTGCCTCGGCCGCCCGCGCCCGAGGGTGGGCGAGGCGC
385 GCGCG-ACC--GCACCGGGCCGGGGGCGAGCCTCGGCCGCCCGCACCCGAGGGTGGGCGACGCGC
* *
5561345 GCGCCGGCTGCCCGAGGTGGTGCGGGCTTGCGCCACCCTAGGTGCGGCAGAAAAACCGACCCTGT
447 GCACCGGCTGCCCGAGGTGGTGCGGGCTGGCGCCACCCTAGGTGCGGCAGAAAAACCGACCCTGT
* * * * * *
5561410 TTCGAACGTGGTCCTGTCCGCTGGTAACGGATATGAAATGCCCCTTAAGCTCTATAGGGGGTGTG
512 TTCGAACGTGGGCCTCTCCACTGGTAACGAAAAAGAAATGCCCCTTAAGCTCTATAGGGGGTGTG
5561475 ATACTTGAGCAACCTAGGGGGGGCACTGGGGGTGCCCCGCGGGGCTGCCACCCAGCACCCGTCGC
577 ATACTTGAGCAACCTAGGGGGGGCACTGGGGGTGCCCCGCGGGGCTGCCACCCAGCACCCGTCGC
5561540 GTGCCACCCGCCACTCGCCGGGGCTCCCCCCACCGCCGGTCAGGTTCTCCGGCGACGGTGCCGAG
642 GTGCCACCCGCCACTCGCCGGGGCTCCCCCCACCGCCGGTCAGGTTCTCCGGCGACGGTGCCGAG
*
5561605 GACCGCGAATTCGGCACCGATAGCACATGCGGAGGCCCAAGCGTGGGCAACGAGTCCCTCCCAAC
707 GACCGCGAATTCGGCACCGATAGCACATGCGGAGGCCCAAGCGTGGGAAACGAGTCCCTCCCAAC
*
5561670 CATCCGGCCCTCCCCCCTCTCTAACATGCGGAGGGCCAAGCG
772 CATCCGGCCCTCCCCCCTCTCTAACATGCGGAGGGCCAAGAG
5561712 TGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCCCAACCAAACGTGTTCGTCCCTTAGCG
1 TGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCCCAACCAAACGTGTTCGTCCCTTAGCG
* * *
5561777 TTGCGTCGGTCGGTTGGGTACCCCGACAACGGTGCGCACCCGGTGCCCCCGCGAGGTGTGCGCCC
66 TTGCGACGGTCGGTTGGGTACCCCGGCAACGGTGCGCACCCGGTG-CTCCGC-AGGTGTGCGCCC
* *
5561842 CGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCCCCGTGCTCCCGCCCGGGTCCGTGCCGCG
129 CGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCCGCCCGGGTGCGTGCCGCG
* * *
5561907 GCCGCCCGCACCAGAGGGCGGGCGAGGCGCGCACCGGCGCCCCGCGA-GGTGGGCGCCCCGACCG
194 GCCGCCCGCACCCGAGGGTGGGCGAGGCGCGCACCGGCGCCCCGC-ATGGCGGGCGCCCCGACCG
* *
5561971 CCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCTGGCCGCACCCGAGGGTGGGCGAG
258 CCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCCGCCCGCACCCGAGGGTGGGCGAG
* *
5562036 GCGCGCACCGGCGCTCCGCGTGGTGTGCGCCCCGGCCG-CCCC-CACCACGGGGGCGGG-AAGG-
323 GCGCGCACCGGCGCTCCGCATGGTGTGCGCCCCGACCGCCCCCACACCA-GGGGGCGGGCAAGGC
* *
5562097 GCG-CC-C-CCGGGCCGGGTGCGAGCCTCGGCC-CCGCGCACCCGAGGGTGGGCGTCGCGCGCAC
387 GCGACCGCACCGGGCCGGGGGCGAGCCTCGGCCGCC-CGCACCCGAGGGTGGGCGACGCGCGCAC
* * * * *
5562158 CGGGTGCCCGAGGTGGTG-GGGTCTCGGC-CCACCCTCGGTGCGGGAGAAAAACTGTCCCTGTTT
451 CGGCTGCCCGAGGTGGTGCGGG-CT-GGCGCCACCCTAGGTGCGGCAGAAAAACCGACCCTGTTT
* *
5562221 CGAACGTGGGCAC-CTCCACTGGTGAC-AACAAAGAAAT-CCATCTTAAGCTCTATAGGGGGTGT
514 CGAACGTGGGC-CTCTCCACTGGTAACGAA-AAAGAAATGCC-CCTTAAGCTCTATAGGGGGTGT
5562283 GATACTTGAGCAACCTAGGGGGGGCACTGGGGGTG-CCCGCGGGGCTGCCACCCAGCACCCGTCG
576 GATACTTGAGCAACCTAGGGGGGGCACTGGGGGTGCCCCGCGGGGCTGCCACCCAGCACCCGTCG
5562347 CGTGCCACCCGCCACTCGCCGGGGCT-CCCCCACCGCCGGTCAGGTTCTCCGGCGACGGTGCCGA
641 CGTGCCACCCGCCACTCGCCGGGGCTCCCCCCACCGCCGGTCAGGTTCTCCGGCGACGGTGCCGA
5562411 GGACCGCGAATTCGGCA-CGATAGCACATGCGGAGGCCCAAGCGTGGGAAACGAGTCCC-CTCCA
706 GGACCGCGAATTCGGCACCGATAGCACATGCGGAGGCCCAAGCGTGGGAAACGAGTCCCTC-CCA
5562474 ACCATCCGGCCCT-CCCCCTCTCTAACATGCGGAGGGCCAAGAG
770 ACCATCCGGCCCTCCCCCCTCTCTAACATGCGGAGGGCCAAGAG
5562517 TGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCCCAACCAAACGTGTTCGTCCCTTAGCG
1 TGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCCCAACCAAACGTGTTCGTCCCTTAGCG
** * * *
5562582 TTGTAACGGTCGGATGGGTACCCCCGGCAACGGTGCGCACCCGGTGCTCTGCATGGTGTGCACCC
66 TTGCGACGGTCGGTTGGGTA-CCCCGGCAACGGTGCGCACCCGGTGCTCCGCA-GGTGTGCGCCC
* * * * * * * *
5562647 CGACAGCCCCCACCCCAAGGGGCAGGATGGGCGCGCATCGTGCTCTCGCCCGGGTGCGAGCCTCG
129 CGACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCCGCCCGGGTGCGTGCCGCG
*
5562712 GCC-CCGCGCACCCGAGGGTGGGCGAGGAGCGCACCGG
194 GCCGCC-CGCACCCGAGGGTGGGCGAGGCGCGCACCGG
5562749 GTGCCCGAGG
Statistics
Matches: 942, Mismatches: 78, Indels: 48
0.88 0.07 0.04
Matches are distributed among these distances:
804 3 0.00
805 211 0.22
806 80 0.08
807 55 0.06
808 63 0.07
809 176 0.19
810 4 0.00
813 2 0.00
815 3 0.00
816 8 0.01
817 46 0.05
818 125 0.13
819 86 0.09
820 79 0.08
821 1 0.00
ACGTcount: A:0.13, C:0.39, G:0.35, T:0.13
Consensus pattern (813 bp):
TGCGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCCCAACCAAACGTGTTCGTCCCTTAGCG
TTGCGACGGTCGGTTGGGTACCCCGGCAACGGTGCGCACCCGGTGCTCCGCAGGTGTGCGCCCCG
ACCGCCCCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCCGCCCGGGTGCGTGCCGCGGC
CGCCCGCACCCGAGGGTGGGCGAGGCGCGCACCGGCGCCCCGCATGGCGGGCGCCCCGACCGCCC
CCCACCCCAGGGGGCGGGAAGGGCGCGCACCGTGCTCCCGCCCGCACCCGAGGGTGGGCGAGGCG
CGCACCGGCGCTCCGCATGGTGTGCGCCCCGACCGCCCCCACACCAGGGGGCGGGCAAGGCGCGA
CCGCACCGGGCCGGGGGCGAGCCTCGGCCGCCCGCACCCGAGGGTGGGCGACGCGCGCACCGGCT
GCCCGAGGTGGTGCGGGCTGGCGCCACCCTAGGTGCGGCAGAAAAACCGACCCTGTTTCGAACGT
GGGCCTCTCCACTGGTAACGAAAAAGAAATGCCCCTTAAGCTCTATAGGGGGTGTGATACTTGAG
CAACCTAGGGGGGGCACTGGGGGTGCCCCGCGGGGCTGCCACCCAGCACCCGTCGCGTGCCACCC
GCCACTCGCCGGGGCTCCCCCCACCGCCGGTCAGGTTCTCCGGCGACGGTGCCGAGGACCGCGAA
TTCGGCACCGATAGCACATGCGGAGGCCCAAGCGTGGGAAACGAGTCCCTCCCAACCATCCGGCC
CTCCCCCCTCTCTAACATGCGGAGGGCCAAGAG
Found at i:5564678 original size:402 final size:403
Alignment explanation
Indices: 5563698--5564979 Score: 2056
Period size: 402 Copynumber: 3.2 Consensus size: 403
5563688 AAACCTTGTC
* * ** * *
5563698 GCGGTGATGGAGACCCTGCGCGGTCCAGGTGATCCGTGGCAAGGTCCCCGGTCGCCGTATGCTGC
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCG-C-TACG-TGC
* * * * * * *
5563763 -CGATCGCATGGCACGCGTGTGTGGGGCACAAGGGGCGTGGTCGTGCCGTAGGGTTAA-GCTTC-
63 GCGATCGCTTGGCACGCGTGTG-CGGGTA-ACGGGGCGTGGTCGTGCCGGAAGG-CAAGGC-TCG
* *
5563825 CACCTGCGCTGATTCTGCCAAGTTCCCGAATTCGAGTTGGTAGTCCCGGTTGTGGCGTGGGCAGA
124 CACCTGCGGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCCGGTTGTGGCGTGGGCAGA
* *
5563890 AGCTGCAGGTG-GGGCTTGGCCTGGCCATGCCCCGT-GAGCAGGGGCAGTCTCGCGGCCCTTGCT
189 AGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCC-TCGAGCAGGGGCAGTCTCGTGGCCCTTGCA
* * * * * *
5563953 TCGGCAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATTGTGCTCGATGCGCCTGGCATTG
253 TCGGCAACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGG
* * * *
5564018 ATCGCGCCCCGGCAGAGTGTCCCTCTCGGTTAAGATCCAGGTCGCGCGTGCCTTGCGATCGTGGT
318 TTCGCGCCCCGGC--AGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGT
*
5564083 TTTCGGTGGCCGGATGCCCAGCT
381 TTTCGGTGACCGGATGCCCAGCT
* * ** * *
5564106 GCGGTGACGG-GACCCTTCGCGGTCCAAGTGATCCGTGGTGAGGCCGTCGGTCTCTGCGTGCGCG
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
*
5564170 ATCGGTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
66 ATCGCTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
* * *
5564235 GGTGATGCTGCCAAGTTCCCGAATTCGAGTCGGTAGTCCCGGTTGTGGCGTGGGCAGAGGCTGCA
131 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
5564300 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCAAC
196 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCAAC
5564365 GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
261 GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
5564430 CCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGAC
326 CCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGAC
5564495 CGGATGCCCAGCT
391 CGGATGCCCAGCT
5564508 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
*
5564573 ATCGTTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTC-TGCCGGAAGGCAAGGCTCGCACCTGC
66 ATCGCTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
*
5564637 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
131 GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
*
5564702 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGGGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCAAC
196 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCAAC
5564767 GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
261 GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
5564832 CCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGAC
326 CCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGAC
5564897 CGGATGCCCAGCT
391 CGGATGCCCAGCT
5564910 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
1 GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
5564975 ATCGC
66 ATCGC
5564980 AAGGCTCGCA
Statistics
Matches: 819, Mismatches: 49, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
402 445 0.54
403 182 0.22
404 126 0.15
405 21 0.03
406 1 0.00
407 35 0.04
408 9 0.01
ACGTcount: A:0.12, C:0.29, G:0.37, T:0.21
Consensus pattern (403 bp):
GCGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTACGTGCGCG
ATCGCTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGC
GGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCCGGTTGTGGCGTGGGCAGAAGCTGCA
GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGTGGCCCTTGCATCGGCAAC
GGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGCCTGGCATGGTTCGCGCC
CCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTGAC
CGGATGCCCAGCT
Found at i:5565277 original size:358 final size:358
Alignment explanation
Indices: 5564620--5565694 Score: 2150
Period size: 358 Copynumber: 3.0 Consensus size: 358
5564610 CTGCCGGAAG
5564620 GCAAGGCTCGCACCTGCGGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGG
1 GCAAGGCTCGCACCTGCGGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGG
5564685 CGTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCCTCGGGCAGGGGCAGTCTCGTG
66 CGTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCCTCGGGCAGGGGCAGTCTCGTG
5564750 GCCCTTGCATCGGCAACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGC
131 GCCCTTGCATCGGCAACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGC
5564815 CTGGCATGGTTCGCGCCCCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGA
196 CTGGCATGGTTCGCGCCCCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGA
5564880 TCGTGGTTTTCGGTGACCGGATGCCCAGCTGCGGTGATGGAGACCCTACGCGGTCCAAGTGATCC
261 TCGTGGTTTTCGGTGACCGGATGCCCAGCTGCGGTGATGGAGACCCTACGCGGTCCAAGTGATCC
5564945 GTGGTGAGGCCCCCGGTCGCTACGTGCGCGATC
326 GTGGTGAGGCCCCCGGTCGCTACGTGCGCGATC
5564978 GCAAGGCTCGCACCTGCGGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGG
1 GCAAGGCTCGCACCTGCGGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGG
5565043 CGTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCCTCGGGCAGGGGCAGTCTCGTG
66 CGTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCCTCGGGCAGGGGCAGTCTCGTG
5565108 GCCCTTGCATCGGCAACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGC
131 GCCCTTGCATCGGCAACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGC
5565173 CTGGCATGGTTCGCGCCCCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGA
196 CTGGCATGGTTCGCGCCCCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGA
5565238 TCGTGGTTTTCGGTGACCGGATGCCCAGCTGCGGTGATGGAGACCCTACGCGGTCCAAGTGATCC
261 TCGTGGTTTTCGGTGACCGGATGCCCAGCTGCGGTGATGGAGACCCTACGCGGTCCAAGTGATCC
5565303 GTGGTGAGGCCCCCGGTCGCTACGTGCGCGATC
326 GTGGTGAGGCCCCCGGTCGCTACGTGCGCGATC
5565336 GCAAGGCTCGCACCTGCGGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGG
1 GCAAGGCTCGCACCTGCGGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGG
5565401 CGTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCCTCGGGCAGGGGCAGTCTCGTG
66 CGTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCCTCGGGCAGGGGCAGTCTCGTG
5565466 GCCCTTGCATCGGCAACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGC
131 GCCCTTGCATCGGCAACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGC
5565531 CTGGCATGGTTCGCGCCCCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGA
196 CTGGCATGGTTCGCGCCCCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGA
5565596 TCGTGGTTTTCGGTGACCGGATGCCCAGCTGCGGTGATGGAGACCCTACGCGGTCCAAGTGATCC
261 TCGTGGTTTTCGGTGACCGGATGCCCAGCTGCGGTGATGGAGACCCTACGCGGTCCAAGTGATCC
5565661 GTGGTGAGGCCCCCGGTCGCTACGTGCGCGATC
326 GTGGTGAGGCCCCCGGTCGCTACGTGCGCGATC
5565694 G
1 G
5565695 TTTGGCACGC
Statistics
Matches: 717, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
358 717 1.00
ACGTcount: A:0.13, C:0.30, G:0.35, T:0.21
Consensus pattern (358 bp):
GCAAGGCTCGCACCTGCGGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTTGTCCCGGTTGTGG
CGTGGGCAGAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCCTCGGGCAGGGGCAGTCTCGTG
GCCCTTGCATCGGCAACGGTGGGCACGTCCTGCCGGTTGCCTGTCGGGGATTGCGCTCCATGCGC
CTGGCATGGTTCGCGCCCCGGCAGTGTCCCTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGA
TCGTGGTTTTCGGTGACCGGATGCCCAGCTGCGGTGATGGAGACCCTACGCGGTCCAAGTGATCC
GTGGTGAGGCCCCCGGTCGCTACGTGCGCGATC
Found at i:5580085 original size:62 final size:60
Alignment explanation
Indices: 5579891--5580093 Score: 182
Period size: 62 Copynumber: 3.2 Consensus size: 60
5579881 CGGCAACTGT
*
5579891 GCGCACCCGGTGCTCCCCACGGTGTGCGCCGCGACCGCCCCC-ACCCCAGGGGGCGGGAAGGGC
1 GCGCA-CC-GTGCTCCGCACGG-GTGCGCCGCGACCGCCCCCGACCCCAGGGGGCGGG-AGGGC
* *
5579954 GCGCACCGTGCTCCTGGC-CGGGTGCGTGCCGCGGCCG-CCCCGCACCCCCCAGGGTGG-GCGA-
1 GCGCACCGTGCTCC--GCACGGGTGC--GCCGCGACCGCCCCCG-A--CCCCAGGG-GGCGGGAG
5580015 GGC
58 GGC
* * *
5580018 GCGCACCGTGCTCCGCATGGCGTGCGCCCCGCCCGCCCCCGACCCCAGGGGGCGGGATGGGC
1 GCGCACCGTGCTCCGCACGG-GTGCGCCGCGACCGCCCCCGACCCCAGGGGGCGGGA-GGGC
*
5580080 GCGCACCGTTCTCC
1 GCGCACCGTGCTCC
5580094 CGCCCGCAGC
Statistics
Matches: 117, Mismatches: 8, Indels: 31
0.75 0.05 0.20
Matches are distributed among these distances:
59 2 0.02
60 11 0.09
61 11 0.09
62 36 0.31
63 22 0.19
64 22 0.19
65 1 0.01
66 10 0.09
67 2 0.02
ACGTcount: A:0.08, C:0.45, G:0.38, T:0.09
Consensus pattern (60 bp):
GCGCACCGTGCTCCGCACGGGTGCGCCGCGACCGCCCCCGACCCCAGGGGGCGGGAGGGC
Found at i:5580182 original size:102 final size:102
Alignment explanation
Indices: 5580004--5580190 Score: 315
Period size: 102 Copynumber: 1.8 Consensus size: 102
5579994 CGCACCCCCC
* *
5580004 AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGCCCGCCCCCGACCCCAGGGG
1 AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGGG
5580069 GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
66 GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
*
5580106 AGGGTGGGCGAGGCGCGCACCGGTGCTCCGCATGGTGTGCGCCCCGACCGCCCCC-ACACCAGGG
1 AGGGTGGGCGAGGCGCGCACC-GTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGG
5580170 GGCGGGCA-GGGCGCGCACCGT
65 GGCGGG-ATGGGCGCGCACCGT
5580191 GCACCTGGCC
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
102 48 0.60
103 32 0.40
ACGTcount: A:0.10, C:0.41, G:0.41, T:0.09
Consensus pattern (102 bp):
AGGGTGGGCGAGGCGCGCACCGTGCTCCGCATGGCGTGCGCCCCGACCGCCCCCGACACCAGGGG
GCGGGATGGGCGCGCACCGTTCTCCCGCCCGCAGCCG
Found at i:5580638 original size:63 final size:63
Alignment explanation
Indices: 5580539--5580659 Score: 190
Period size: 63 Copynumber: 1.9 Consensus size: 63
5580529 CACCGATAGC
*
5580539 ACATGCGGAGGCCAATGCATGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAA
1 ACATGCGAAGGCCAATGCATGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAA
* * *
5580602 ACATGCGAAGGCCCAA-GCATGGGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCC
1 ACATGCGAAGG-CCAATGCATGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCC
5580660 CAACCAAACG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 49 0.92
64 4 0.08
ACGTcount: A:0.21, C:0.46, G:0.19, T:0.13
Consensus pattern (63 bp):
ACATGCGAAGGCCAATGCATGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAA
Found at i:5581458 original size:63 final size:63
Alignment explanation
Indices: 5581370--5581546 Score: 221
Period size: 63 Copynumber: 2.8 Consensus size: 63
5581360 GAGGCCCACG
* *
5581370 CGTGCGCAACGAGTCCCTCCTAACCATCCGTCCCTCCCCCCTCCAAATATACGGA-GGCCAAAC
1 CGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAAACATACGGAGGGCC-AAC
* * * * *
5581433 CGTGGGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCCTAACATGCGGAGGGCCAAG
1 CGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAAACATACGGAGGGCCAAC
* * * * *
5581496 CGTGTGCAACGAGTCTCTCCCCAGCATCCGTCCCTCCCCCCAACCAAACAT
1 CGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCC-TCCAAACAT
5581547 GTGCAACGGT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
63 87 0.89
64 11 0.11
ACGTcount: A:0.21, C:0.45, G:0.18, T:0.15
Consensus pattern (63 bp):
CGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAAACATACGGAGGGCCAAC
Found at i:5584601 original size:13 final size:13
Alignment explanation
Indices: 5584583--5584607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5584573 TTTTATAATT
5584583 TGTATCAATACAA
1 TGTATCAATACAA
5584596 TGTATCAATACA
1 TGTATCAATACA
5584608 TAAGTTTTTG
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TGTATCAATACAA
Done.