Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold329
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: 4121247
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 5938 characters in sequence are not A, C, G, or T
File 5 of 25
Found at i:622460 original size:95 final size:87
Alignment explanation
Indices: 622384--623639 Score: 1451
Period size: 95 Copynumber: 13.6 Consensus size: 87
622374 TAAAGATGGA
* * * * *
622384 AAAGGTGCCAATATGCTGATTTAAGGCCAGCTATATTGGACTT-AAAGGTGCCAGTGTGCTGATT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTGCCAATATGCTGATT
*
622448 CAAGGCCAGCTACATTGGACTTAAAGAT
66 CAAGGCCAGCTATATTGGAC-T-----T
*
622476 GGAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATG
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-AAG--G-TGCCAATA
*
622541 TGCTGATTCAAGGCCAGCTACATTGGACTT
58 TGCTGATTCAAGGCCAGCTATATTGGACTT
*
622571 AAAGAAGAAGGTTCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCA
1 -----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----AA-AAGGTGCCA
*
622636 ATATGCTGATTCAAGGCTAGCTATATTGGACTT
55 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
622669 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAATGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA-A--G-----GTGCCAATA
622734 TGCTGATTCAAGGCCAGCTATATTGGACTT
58 TGCTGATTCAAGGCCAGCTATATTGGACTT
* * * * * * * * * *
622764 AAAGATGCCAATATGTTGATTCACGACCAACGATATTGGACTT-AAAGATGCCAATGTGCTGATT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTGCCAATATGCTGATT
* *
622828 CAAGGCCAACTACATTGGACTT
66 CAAGGCCAGCTATATTGGACTT
* *
622850 AAAGGTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T--AAAAGGTGCCAATA
622915 TGCTGATTCAAGGCCAGCTATATTGGACTT
58 TGCTGATTCAAGGCCAGCTATATTGGACTT
* * * * * * * * *
622945 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGACTT-AAAGATGCCAATGTGCTGATT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTGCCAATATGCTGATT
*
623009 CAAGGCCAGCTACATTGGACTT
66 CAAGGCCAGCTATATTGGACTT
*
623031 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----AA-AAGGTGCCAATATGC
623096 TGATTCAAGGCCAGCTATATTGGACTT
61 TGATTCAAGGCCAGCTATATTGGACTT
*
623123 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT--A-A--AAGGTGCCAATATGC
623188 TGATTCAAGGCCAGCTATATTGGACTT
61 TGATTCAAGGCCAGCTATATTGGACTT
623215 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T--AAAAGGTGCCAATA
623280 TGCTGATTCAAGGCCAGCTATATTGGACTT
58 TGCTGATTCAAGGCCAGCTATATTGGACTT
623310 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T--AAAAGGTGCCAATA
623375 TGCTGATTCAAGGCCAGCTATATTGGACTT
58 TGCTGATTCAAGGCCAGCTATATTGGACTT
*
623405 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAA-GTGCCAATGTGCTGATT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTGCCAATATGCTGATT
*
623469 CAAGGCCAGCTACATTGGACTT
66 CAAGGCCAGCTATATTGGACTT
623491 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T--AAAAGGTGCCAATA
623556 TGCTGATTCAAGGCCAGCTATATTGGACTT
58 TGCTGATTCAAGGCCAGCTATATTGGACTT
623586 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGGTTGCCA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGG-TGCCA
623640 CTGACTTGTG
Statistics
Matches: 1039, Mismatches: 69, Indels: 114
0.85 0.06 0.09
Matches are distributed among these distances:
86 224 0.22
87 12 0.01
88 3 0.00
89 3 0.00
90 3 0.00
91 3 0.00
92 208 0.20
93 3 0.00
94 9 0.01
95 441 0.42
97 5 0.00
98 81 0.08
99 1 0.00
100 2 0.00
101 41 0.04
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (87 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAGGTGCCAATATGCTGATT
CAAGGCCAGCTATATTGGACTT
Found at i:622694 original size:21 final size:20
Alignment explanation
Indices: 622627--622694 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
622617 CTTAAAGAAG
622627 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
* *
622648 AAGGCTAGCTATATTG--GACTTA
1 AAGG-T-GCCA-ATTGCTGA-TTC
622670 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
622691 AAGG
1 AAGG
622695 CCAGCTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (20 bp):
AAGGTGCCAATTGCTGATTC
Found at i:622876 original size:181 final size:184
Alignment explanation
Indices: 622276--623632 Score: 1673
Period size: 181 Copynumber: 7.3 Consensus size: 184
622266 AGAAAAGTGA
* * * * * * * * *
622276 TAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTC
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-G-AAAAGG-TGCC
* * * * *
622341 AATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTT
63 AATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---AAAGGTGCCAATGTGCTGATTC
* * * *
622406 AAGGCCAGCTATATTGGACTT-AAAG--GTGCCAGTGTGCTGATTCAAGGCCAGCTACATTGGAC
119 AAGGCCAGCTACATTGGACTTAAAAGAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
622468 TT
184 -T
*
622470 AAAGATGGAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAG
1 -----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG
* * * *
622532 ATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTTCCAATGTGCTGAT
58 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGCCAATGTGCTGAT
*
622597 TCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCTAGCTATAT
117 TCAAGGCCAGCTACATTGGACTT-AA-AAGAA-GTGCCAATATGCTGATTCAAGGCCAGCTATAT
622662 TGGACT
179 TGGACT
*
622668 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAATGTGCCAAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
* * * * * * * *
622733 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGCCAATATGTTGATTCACGACCAACGAT
66 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
* * *
622798 ATTGGACTT-AAAG-A-TGCCAATGTGCTGATTCAAGGCCAACTACATTGGACT
131 ATTGGACTTAAAAGAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
* *
622849 TAAAGGTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
* * * * * * *
622914 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGCCAATATGTTGATTCACGGCCAACGAT
66 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
* *
622979 ATTGGACTT-AAAG-A-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
131 ATTGGACTTAAAAGAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
* *
623030 TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
*
623092 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTAC
66 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
623157 ATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
131 ATTGGACTTAAA-A-GAA-GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
623214 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
623279 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
66 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
623344 ATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
131 ATTGGACTTAAA-A--G--AA-GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
623404 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T--AAAA-GTGCCAAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
* *
623460 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
66 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
623525 ATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
131 ATTGGACTTAAA-A--G--AA-GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
623585 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
623633 GTTGCCACTG
Statistics
Matches: 1064, Mismatches: 62, Indels: 77
0.88 0.05 0.06
Matches are distributed among these distances:
178 78 0.07
179 2 0.00
180 1 0.00
181 431 0.41
182 6 0.01
183 1 0.00
184 87 0.08
185 1 0.00
187 123 0.12
188 2 0.00
189 1 0.00
190 132 0.12
192 3 0.00
193 78 0.07
195 2 0.00
196 37 0.03
197 4 0.00
198 1 0.00
199 34 0.03
202 40 0.04
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (184 bp):
TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
ATTGGACTTAAAAGAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
Found at i:622997 original size:24 final size:23
Alignment explanation
Indices: 622934--622998 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 23
622924 AAGGCCAGCT
*
622934 ATATTGGACTTAAAGATGCCAAT
1 ATATTGGACTTAAAGATGCCAAG
* * *
622957 ATGTT-GA-TTCACG--GCCAACG
1 ATATTGGACTTAAAGATGCCAA-G
622977 ATATTGGACTTAAAGATGCCAA
1 ATATTGGACTTAAAGATGCCAA
622999 TGTGCTGATT
Statistics
Matches: 30, Mismatches: 7, Indels: 9
0.65 0.15 0.20
Matches are distributed among these distances:
19 5 0.17
20 4 0.13
21 6 0.20
22 6 0.20
23 4 0.13
24 5 0.17
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (23 bp):
ATATTGGACTTAAAGATGCCAAG
Found at i:623495 original size:22 final size:22
Alignment explanation
Indices: 623470--623537 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
623460 GTGCTGATTC
623470 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
623492 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
623513 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
623535 AAG
1 AAG
623538 ATGGAAAAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:623700 original size:37 final size:37
Alignment explanation
Indices: 623648--623954 Score: 500
Period size: 37 Copynumber: 8.4 Consensus size: 37
623638 CACTGACTTG
*
623648 TGTGGGCTTTTAAGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
623685 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
*
623722 TGTGGGCTTTGAAAAGAAAAAAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTG--AAGAAAAGAAAAAGGTGCCACGGAGT
*
623761 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACAGAGT
1 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
623798 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
623835 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
623872 TGTGGGCTTT--A-AAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
* *
623906 GGTGGGCTTT--A-AAAAGAAAAAAGGTGCCACAGAGT
1 TGTGGGCTTTGAAGAAAAG-AAAAAGGTGCCACGGAGT
623941 TGTGGGCTTTGAAG
1 TGTGGGCTTTGAAG
623955 GGTGCCACGG
Statistics
Matches: 256, Mismatches: 8, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
34 38 0.15
35 27 0.11
37 155 0.61
39 36 0.14
ACGTcount: A:0.36, C:0.11, G:0.34, T:0.20
Consensus pattern (37 bp):
TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGT
Found at i:623777 original size:113 final size:112
Alignment explanation
Indices: 623648--623953 Score: 500
Period size: 113 Copynumber: 2.8 Consensus size: 112
623638 CACTGACTTG
623648 TGTGGGCTTTTAAGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAAGGTG
1 TGTGGGC-TTTAAGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAAGGTG
623713 CCACGGAGTTGTGGGCTTTGAAAAGAAAAAAAAAAGGTGCCACGGAGT
65 CCACGGAGTTGTGGGCTTTGAAAAGAAAAAAAAAAGGTGCCACGGAGT
*
623761 TGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAGAAAAGAAAAAGGTG
1 TGTGGGCTTT-AAGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAAGGTG
*
623826 CCACGGAGTTGTGGGCTTTG--AAGAAAAGAAAAAGGTGCCACGGAGT
65 CCACGGAGTTGTGGGCTTTGAAAAGAAAAAAAAAAGGTGCCACGGAGT
*
623872 TGTGGGCTTT-A-AAAAGAAAAAGGTGCCACGGAGTGGTGGGCTTT--A-AAAAGAAAAAAGGTG
1 TGTGGGCTTTAAGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAG-AAAAAGGTG
*
623932 CCACAGAGTTGTGGGCTTTGAA
65 CCACGGAGTTGTGGGCTTTGAA
623954 GGGTGCCACG
Statistics
Matches: 184, Mismatches: 5, Indels: 13
0.91 0.02 0.06
Matches are distributed among these distances:
105 5 0.03
106 29 0.16
108 31 0.17
109 1 0.01
111 35 0.19
112 3 0.02
113 80 0.43
ACGTcount: A:0.36, C:0.11, G:0.33, T:0.20
Consensus pattern (112 bp):
TGTGGGCTTTAAGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAAGGTGC
CACGGAGTTGTGGGCTTTGAAAAGAAAAAAAAAAGGTGCCACGGAGT
Found at i:623967 original size:27 final size:27
Alignment explanation
Indices: 623928--623981 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
623918 AAAGAAAAAA
* *
623928 GGTGCCACAGAGTTGTGGGCTTTGAAG
1 GGTGCCACAGAGTCGTGGACTTTGAAG
*
623955 GGTGCCACGGAGTCGTGGACTTTGAAG
1 GGTGCCACAGAGTCGTGGACTTTGAAG
623982 AAAAAATGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.41, T:0.24
Consensus pattern (27 bp):
GGTGCCACAGAGTCGTGGACTTTGAAG
Found at i:624972 original size:19 final size:19
Alignment explanation
Indices: 624948--624986 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
624938 GTGAAAAGGG
624948 GTTTTTCCCTTTTTTTTTT
1 GTTTTTCCCTTTTTTTTTT
***
624967 GTTTTTGTTTTTTTTTTTT
1 GTTTTTCCCTTTTTTTTTT
624986 G
1 G
624987 GAAAAGAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.10, T:0.82
Consensus pattern (19 bp):
GTTTTTCCCTTTTTTTTTT
Found at i:632148 original size:52 final size:52
Alignment explanation
Indices: 632063--632187 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
632053 ATATGAAAAG
* *
632063 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
632115 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
632167 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
632188 AAGATCAGTG
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:632200 original size:52 final size:51
Alignment explanation
Indices: 632063--632207 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
632053 ATATGAAAAG
*
632063 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
632115 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
632167 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
632208 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:632214 original size:13 final size:13
Alignment explanation
Indices: 632196--632220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
632186 CAAAGATCAG
632196 TGTATCGATACAA
1 TGTATCGATACAA
632209 TGTATCGATACA
1 TGTATCGATACA
632221 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:632303 original size:33 final size:33
Alignment explanation
Indices: 632261--632330 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
632251 GGCAGTAGCT
632261 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
632294 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
632327 TACA
1 TACA
632331 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:632304 original size:13 final size:13
Alignment explanation
Indices: 632286--632310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
632276 CAAAAAAATA
632286 TGTATCGATACAT
1 TGTATCGATACAT
632299 TGTATCGATACA
1 TGTATCGATACA
632311 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:637644 original size:78 final size:78
Alignment explanation
Indices: 637543--637730 Score: 225
Period size: 79 Copynumber: 2.4 Consensus size: 78
637533 TTGGAGTGTT
* * * * *
637543 CCCTTGAAAATAACGGGGCTGGAGTATCCCCAGTTGTGAGAAATCGATGA-TTAGAAAAAAAATC
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAGAAAAAAAATC
637607 AGGATCGGAGTATC
65 AGGATCGGAGTATC
* * * * *
637621 CCCTCGAAAATGACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGTC
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTTAGAAAAAAAATC
* *
637686 AGGGTTGGAGTATC
65 AGGATCGGAGTATC
* *
637700 CCCTCGAAAGTAACGGGGTTGGAGTGTCCCC
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCC
637731 GATGAAATAA
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
77 1 0.01
78 42 0.45
79 50 0.54
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (78 bp):
CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAAAAAATCA
GGATCGGAGTATC
Found at i:637716 original size:79 final size:78
Alignment explanation
Indices: 637530--637730 Score: 233
Period size: 78 Copynumber: 2.6 Consensus size: 78
637520 GATAATAACG
* * * * * * *
637530 GGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCAGTTGTGAGAAATCGATGATT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGATT
637595 AGAAAAAAAATCA
66 AGAAAAAAAATCA
* * *
637608 GGATCGGAGTATCCCCTCGAAAATGACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA--
* * * *
637672 TTGGGAATAAAGTCA
64 TTAGAAAAAAAATCA
* *
637687 GGGTTGGAGTATCCCCTCGAAAGTAACGGGGTTGGAGTGTCCCC
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
637731 GATGAAATAA
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
77 1 0.01
78 51 0.50
79 50 0.49
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGATT
AGAAAAAAAATCA
Found at i:637719 original size:28 final size:27
Alignment explanation
Indices: 637687--637756 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 27
637677 AATAAAGTCA
637687 GGGTTGGAGTATCCCC-TCGAAAGTAACG
1 GGGTTGGAGTATCCCCAT-GAAA-TAACG
*
637715 GGGTTGGAGTGTCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCC-ATGAAATAACG
*
637743 AGGTTGGAGTATCC
1 GGGTTGGAGTATCC
637757 TCGATTGTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 32 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCATGAAATAACG
Found at i:637814 original size:52 final size:51
Alignment explanation
Indices: 637744--637966 Score: 232
Period size: 52 Copynumber: 4.3 Consensus size: 51
637734 GAAATAACGA
* * * * *
637744 GGTTGGAGTATCCTCGATTGTGAAAATTTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGT-GTTTTGGAAATAAAACCGG
* * * *
637796 AGTTGGAGTATCCCCGATTAAAG-GGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT---GTGAAAAATTAGTGTTTTGGAAATAAAACCGG
* *
637849 GGTTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTG-AAAAATTAGTGTTTTGGAAATAAAACCGG
* * * * * **
637901 GGTTGGAGTATCCTCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGG
637952 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
637967 TCGGAGATAA
Statistics
Matches: 143, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
50 1 0.01
51 37 0.26
52 61 0.43
53 34 0.24
54 9 0.06
55 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGG
Found at i:638032 original size:79 final size:80
Alignment explanation
Indices: 637898--638077 Score: 281
Period size: 79 Copynumber: 2.3 Consensus size: 80
637888 GCAATAAAAC
* * *
637898 CGGGGTTGGAGTATCCTCGATTATGAAAAATCAATATTTTGGAAATAAAGTC-GGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGCCGGGGGTTGGAGTA
* *
637962 TCCCCTCGGAGATAA
66 TCCCCTCGAAAATAA
* *
637977 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGCCGGGGGTTGGAGTA
638042 TCCCCTCGAAAATAA
66 TCCCCTCGAAAATAA
*
638057 CAGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
638078 GATTAACGGG
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 47 0.51
80 45 0.49
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGCCGGGGGTTGGAGTA
TCCCCTCGAAAATAA
Found at i:638092 original size:27 final size:27
Alignment explanation
Indices: 638030--638107 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
638020 AATAAAGCCG
*
638030 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTAT-CCC-CGATGAATAAC
* *
638058 AGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATGAATAAC
*
638085 GGGGTTGGAGTATCCTCGATGAA
1 GGGGTTGGAGTATCCCCGATGAA
638108 AAATTGATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
26 3 0.07
27 28 0.65
28 12 0.28
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATGAATAAC
Found at i:638170 original size:51 final size:51
Alignment explanation
Indices: 638107--638204 Score: 130
Period size: 51 Copynumber: 1.9 Consensus size: 51
638097 TCCTCGATGA
638107 AAAATTGATGTTTT-AGAAATAAAATCGGAGTTGA-AGTATCCCCGATTATAG
1 AAAATTGATGTTTTGA-AAATAAAATCGGAGTTGAGA-TATCCCCGATTATAG
* *
638158 AAAATT-AGTGTTTTGAAAATGAAATCGGAGTTGGGATATCCCCGATT
1 AAAATTGA-TGTTTTGAAAATAAAATCGGAGTTGAGATATCCCCGATT
638205 GCGGAGAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
50 1 0.02
51 39 0.93
52 2 0.05
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (51 bp):
AAAATTGATGTTTTGAAAATAAAATCGGAGTTGAGATATCCCCGATTATAG
Found at i:640589 original size:13 final size:13
Alignment explanation
Indices: 640571--640596 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
640561 ACAAAGATCC
640571 ATGTATCGATACA
1 ATGTATCGATACA
640584 ATGTATCGATACA
1 ATGTATCGATACA
640597 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:640592 original size:33 final size:33
Alignment explanation
Indices: 640550--640616 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
640540 AAAATTTCCA
***
640550 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
640583 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
640616 A
1 A
640617 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:640660 original size:19 final size:18
Alignment explanation
Indices: 640636--640703 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
640626 CAGTAGCTAA
640636 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
640655 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
640670 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
640687 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
640704 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:640676 original size:13 final size:13
Alignment explanation
Indices: 640658--640682 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
640648 ACAATACTTA
640658 TGTATCGATACAT
1 TGTATCGATACAT
640671 TGTATCGATACA
1 TGTATCGATACA
640683 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:640680 original size:32 final size:32
Alignment explanation
Indices: 640639--640701 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
640629 TAGCTAATTA
*
640639 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
640671 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
640702 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:640782 original size:21 final size:21
Alignment explanation
Indices: 640758--640815 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
640748 ACATTTGTAG
640758 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
*
640779 AATGTAGCGATACATTCCACA
1 AATGTATCGATACATTCCACA
640800 AATGTATCGATACATT
1 AATGTATCGATACATT
640816 TGAAAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:641098 original size:81 final size:81
Alignment explanation
Indices: 640963--641127 Score: 321
Period size: 81 Copynumber: 2.0 Consensus size: 81
640953 GTCGAATCTT
*
640963 CCACCTACTAACTAGGCCTTAAATTGTCGAAAATTGGCTCGGACAAAATGAGGTGTCTACAGATA
1 CCACCTACTAACTAGGCCTTAAATTGTCGAAAATTGGCCCGGACAAAATGAGGTGTCTACAGATA
641028 CATCTGGGAATTTTAC
66 CATCTGGGAATTTTAC
641044 CCACCTACTAACTAGGCCTTAAATTGTCGAAAATTGGCCCGGACAAAATGAGGTGTCTACAGATA
1 CCACCTACTAACTAGGCCTTAAATTGTCGAAAATTGGCCCGGACAAAATGAGGTGTCTACAGATA
641109 CATCTGGGAATTTTAC
66 CATCTGGGAATTTTAC
641125 CCA
1 CCA
641128 GATGTATCGA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (81 bp):
CCACCTACTAACTAGGCCTTAAATTGTCGAAAATTGGCCCGGACAAAATGAGGTGTCTACAGATA
CATCTGGGAATTTTAC
Found at i:647344 original size:9 final size:9
Alignment explanation
Indices: 647330--647363 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
647320 GATCAATGAA
647330 CAAATAAAC
1 CAAATAAAC
647339 CAAATAAAC
1 CAAATAAAC
*
647348 TAAATAAA-
1 CAAATAAAC
647356 CAAATAAA
1 CAAATAAA
647364 TTAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (9 bp):
CAAATAAAC
Found at i:647354 original size:18 final size:18
Alignment explanation
Indices: 647331--647373 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
647321 ATCAATGAAC
647331 AAATAAACCAAATAAACT-
1 AAATAAA-CAAATAAACTA
*
647349 AAATAAACAAATAAATTA
1 AAATAAACAAATAAACTA
647367 AAATAAA
1 AAATAAA
647374 ATATACTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (18 bp):
AAATAAACAAATAAACTA
Found at i:647361 original size:17 final size:17
Alignment explanation
Indices: 647331--647391 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
647321 ATCAATGAAC
647331 AAATAAACCAAATAAACT
1 AAATAAA-CAAATAAACT
*
647349 AAATAAACAAATAAATT
1 AAATAAACAAATAAACT
* *
647366 AAA-ATA-AAATATACT
1 AAATAAACAAATAAACT
647381 -AATAAACAAAT
1 AAATAAACAAAT
647392 TATATTTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 2 0.06
15 9 0.25
16 6 0.17
17 12 0.33
18 7 0.19
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAACAAATAAACT
Found at i:647444 original size:20 final size:18
Alignment explanation
Indices: 647415--647455 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 18
647405 ATCAAGTAAT
647415 AAATTAAATAAAAAAAGAA
1 AAATTAAATAAAAAAA-AA
647434 AAATATAAATAAAAAAAAA
1 AAAT-TAAATAAAAAAAAA
647453 AAA
1 AAA
647456 GGTCAAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (18 bp):
AAATTAAATAAAAAAAAA
Found at i:649871 original size:16 final size:16
Alignment explanation
Indices: 649850--649880 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
649840 TTTTGTTTTC
649850 AAATTATTGAATTAAA
1 AAATTATTGAATTAAA
*
649866 AAATTATTGTATTAA
1 AAATTATTGAATTAA
649881 TAATTTAACG
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:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (16 bp):
AAATTATTGAATTAAA
Found at i:650706 original size:34 final size:33
Alignment explanation
Indices: 650666--650731 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
650656 GTTGATTAAA
*
650666 TTTAAATTATTATT-TAAAAATAAATAATATATTT
1 TTTAAATT-TAATTATAAAAATAAA-AATATATTT
*
650700 TTTAAATTTAATTATAAAAATATAAATATATT
1 TTTAAATTTAATTATAAAAATAAAAATATATT
650732 ATTATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
TTTAAATTTAATTATAAAAATAAAAATATATTT
Found at i:650745 original size:33 final size:34
Alignment explanation
Indices: 650680--650745 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
650670 AATTATTATT
* *
650680 TAAAAATAAATAATATATTTTTTAAATTTAATTA
1 TAAAAATAAATAATATATTTTATAAATATAATTA
*
650714 TAAAAATATA-AATATATTATTATAAA-ATAATT
1 TAAAAATAAATAATATATT-TTATAAATATAATT
650746 TTTTTATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (34 bp):
TAAAAATAAATAATATATTTTATAAATATAATTA
Found at i:650976 original size:9 final size:9
Alignment explanation
Indices: 650956--650989 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
650946 AAATCACAAC
650956 TTAAAAAGTA
1 TTAAAAA-TA
650966 TTAAAAATA
1 TTAAAAATA
*
650975 TTATAAATA
1 TTAAAAATA
650984 TTAAAA
1 TTAAAA
650990 TTTTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (9 bp):
TTAAAAATA
Found at i:651154 original size:183 final size:188
Alignment explanation
Indices: 650918--651798 Score: 959
Period size: 183 Copynumber: 4.7 Consensus size: 188
650908 GAATTGCTTA
* * * *
650918 TATAATTTATATATTTATTTTTG-ATAAAAAATCACAACTTAAAAAGTATTAAAAATATTATAAA
1 TATAATTTATCTATTTATTTTGGTAAAAAAAATCATAACTTAAAAAGTATTAAAAATATTATAAA
* * * *
650982 TATTAAAATTTTAATTTAAATTTGTAAAATGTCACTTTTTAAATTT-TTCATATAAACTGATTTG
66 TATTAAAATTTTAATTTAAATTTGTAAAATATCACTTTTTAAATTTGTT-ATATAAACTAACTCG
* *
651046 ACCAAATCAAGATTCGTAC-TT-TTT-TAA-TTG-ACAATTATTAAGACATATTATTTG
130 ACCAAATCAAGATTCGTACTTTCTTTCTAACTTGAACAACTGTTAAGACATATTATTTG
* * *
651100 TATAATTTATCTATTTATTTTGGTAAAAAAAATTATAACCTAAAAAGCATTAAAAATATTATAAA
1 TATAATTTATCTATTTATTTTGGTAAAAAAAATCATAACTTAAAAAGTATTAAAAATATTATAAA
* * *
651165 TTTTAAAATTTTAATCTAAATTTATAAAATATCACTTTTTAAATTTGTTATATAAACTAACTCGA
66 TATTAAAATTTTAATTTAAATTTGTAAAATATCACTTTTTAAATTTGTTATATAAACTAACTCGA
* *
651230 CCAAATCAAGATTCGTATTCTTTCAATTATCTAACCTCTTGATAACAACTGTTAGGACATATCAT
131 CCAAATCAAGATTCGTA--CTTTC--TT-TCTAA---CTTG--AACAACTGTTAAGACATATTAT
*
651295 TTA
186 TTG
* *
651298 TATAATTTATCTATTTATTTTTGATAAAAAAAATCACAACTTAAAAAGTATTAAAAATATTATAA
1 TATAATTTATCTATTTA-TTTTGGTAAAAAAAATCATAACTTAAAAAGTATTAAAAATATTATAA
* * * *
651363 ATATTAAAATTTTAATTTAAACTTGCAAAATATCATTTTTTAAATTTGTTATATAAACTAACTCA
65 ATATTAAAATTTTAATTTAAATTTGTAAAATATCACTTTTTAAATTTGTTATATAAACTAACTCG
*
651428 ACCAAATCAAGATTCGTAC--TCTTTC-AA-TTG-ACAACTGTT-AGAATATATTATTTG
130 ACCAAATCAAGATTCGTACTTTCTTTCTAACTTGAACAACTGTTAAG-ACATATTATTTG
* *
651482 TATAATTTATTTATTTATTTATGGT-AAAAAAATCATAACTTAAAAAGTATTAAAAATATTGTAA
1 TATAATTTATCTATTTATTT-TGGTAAAAAAAATCATAACTTAAAAAGTATTAAAAATATTATAA
* ** *
651546 ATATTAAAATTTTAATCTAAA-CCGTAAAATATCACTTTTTAAATTTATTATATAAACTAACTCG
65 ATATTAAAATTTTAATTTAAATTTGTAAAATATCACTTTTTAAATTTGTTATATAAACTAACTCG
* ** * * *
651610 ATCAAATCAAGATTTAAATTCTTTCCGTTTGACTAACTTTTTGATAACAACTGTTAAGATAGATT
130 ACCAAATCAAGA-TT-CGTACTTT-C-TTT--CTAAC---TTG--AACAACTGTTAAGACATATT
*
651675 GTTTG
184 ATTTG
* * *
651680 TATAATTTATCTA-TT-TTTTGAT-AAAAAAATTATAACTTATAAAA-CATTAAAAATATTATAA
1 TATAATTTATCTATTTATTTTGGTAAAAAAAATCATAACTTA-AAAAGTATTAAAAATATTATAA
*
651741 ATATTAAAATTTTAATTT--A-----AAAATATCACTTTTTAAATTTGTTATATAAATTAACTCG
65 ATATTAAAATTTTAATTTAAATTTGTAAAATATCACTTTTTAAATTTGTTATATAAACTAACTCG
651799 GCCAGGAAAG
Statistics
Matches: 601, Mismatches: 60, Indels: 69
0.82 0.08 0.09
Matches are distributed among these distances:
182 69 0.11
183 171 0.28
184 41 0.07
185 1 0.00
186 3 0.00
187 4 0.01
188 3 0.00
189 39 0.06
190 2 0.00
191 7 0.01
192 2 0.00
193 3 0.00
195 59 0.10
196 7 0.01
197 3 0.00
198 67 0.11
199 120 0.20
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (188 bp):
TATAATTTATCTATTTATTTTGGTAAAAAAAATCATAACTTAAAAAGTATTAAAAATATTATAAA
TATTAAAATTTTAATTTAAATTTGTAAAATATCACTTTTTAAATTTGTTATATAAACTAACTCGA
CCAAATCAAGATTCGTACTTTCTTTCTAACTTGAACAACTGTTAAGACATATTATTTG
Found at i:651358 original size:9 final size:9
Alignment explanation
Indices: 651338--651371 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
651328 AAATCACAAC
651338 TTAAAAAGTA
1 TTAAAAA-TA
651348 TTAAAAATA
1 TTAAAAATA
*
651357 TTATAAATA
1 TTAAAAATA
651366 TTAAAA
1 TTAAAA
651372 TTTTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (9 bp):
TTAAAAATA
Found at i:651369 original size:382 final size:380
Alignment explanation
Indices: 650915--651797 Score: 1204
Period size: 382 Copynumber: 2.3 Consensus size: 380
650905 AATGAATTGC
*
650915 TTATATAATTTATATATTTATTTTTGAT-AAAAAATCACAACTTAAAAAGTATTAAAAATATTAT
1 TTATATAATTTATCTATTTATTTTTGATAAAAAAATCACAACTTAAAAAGTATTAAAAATATTAT
* * * * *
650979 AAATATTAAAATTTTAATTTAAATTTGTAAAATGTCACTTTTTAAATTT-TTCATATAAACTGAT
66 AAATATTAAAATTTTAATTTAAACTTGCAAAATATCACTTTTTAAATTTGTT-ATATAAACTAAC
** * * *
651043 TTGACCAAATCAAGATTCGTACTTTTTTAATTGACAATTATTA-AGACATATTATTTGTATAATT
130 TCAACCAAATCAAGATTCGTACTCTTTCAATTGACAACTATTAGA-ACATATTATTTGTATAATT
* *
651107 TATCTATTTATTT-TGGTAAAAAAAATTATAACCTAAAAAGCATTAAAAATATTATAAATTTTAA
194 TATCTATTTATTTATGGT-AAAAAAATCATAACCTAAAAAGCATTAAAAATATTATAAATATTAA
** *
651171 AATTTTAATCTAAATTTATAAAATATCACTTTTTAAATTTGTTATATAAACTAACTCGACCAAAT
258 AATTTTAATCTAAA-CCATAAAATATCACTTTTTAAATTTATTATATAAACTAACTCGACCAAAT
** * *
651236 CAAGATTCGTATTCTTTCAA-TTATCTAACCTCTTGATAACAACTGTTAGGACATATCAT
322 CAAGATTCAAATTCTTTCAATTTA-CTAACCTCTTGATAACAACTGTTAAGACAGATCAT
651295 TTATATAATTTATCTATTTATTTTTGATAAAAAAAATCACAACTTAAAAAGTATTAAAAATATTA
1 TTATATAATTTATCTATTTATTTTTGAT-AAAAAAATCACAACTTAAAAAGTATTAAAAATATTA
*
651360 TAAATATTAAAATTTTAATTTAAACTTGCAAAATATCATTTTTTAAATTTGTTATATAAACTAAC
65 TAAATATTAAAATTTTAATTTAAACTTGCAAAATATCACTTTTTAAATTTGTTATATAAACTAAC
* *
651425 TCAACCAAATCAAGATTCGTACTCTTTCAATTGACAACTGTTAGAATATATTATTTGTATAATTT
130 TCAACCAAATCAAGATTCGTACTCTTTCAATTGACAACTATTAGAACATATTATTTGTATAATTT
* * * *
651490 ATTTATTTATTTATGGTAAAAAAATCATAACTTAAAAAGTATTAAAAATATTGTAAATATTAAAA
195 ATCTATTTATTTATGGTAAAAAAATCATAACCTAAAAAGCATTAAAAATATTATAAATATTAAAA
* *
651555 TTTTAATCTAAACCGTAAAATATCACTTTTTAAATTTATTATATAAACTAACTCGATCAAATCAA
260 TTTTAATCTAAACCATAAAATATCACTTTTTAAATTTATTATATAAACTAACTCGACCAAATCAA
* ** * * * **
651620 GATTTAAATTCTTTCCGTTTGACTAACTTTTTGATAACAACTGTTAAGATAGATTGT
325 GATTCAAATTCTTTCAATTT-ACTAACCTCTTGATAACAACTGTTAAGACAGATCAT
* * * *
651677 TTGTATAATTTATCTA--T-TTTTTGATAAAAAAATTATAACTTATAAAA-CATTAAAAATATTA
1 TTATATAATTTATCTATTTATTTTTGATAAAAAAATCACAACTTA-AAAAGTATTAAAAATATTA
*
651738 TAAATATTAAAATTTTAATTT--A-----AAAATATCACTTTTTAAATTTGTTATATAAATTAAC
65 TAAATATTAAAATTTTAATTTAAACTTGCAAAATATCACTTTTTAAATTTGTTATATAAACTAAC
651796 TC
130 TC
651798 GGCCAGGAAA
Statistics
Matches: 452, Mismatches: 43, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
371 36 0.08
376 1 0.00
378 49 0.11
379 12 0.03
380 28 0.06
381 60 0.13
382 258 0.57
383 8 0.02
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (380 bp):
TTATATAATTTATCTATTTATTTTTGATAAAAAAATCACAACTTAAAAAGTATTAAAAATATTAT
AAATATTAAAATTTTAATTTAAACTTGCAAAATATCACTTTTTAAATTTGTTATATAAACTAACT
CAACCAAATCAAGATTCGTACTCTTTCAATTGACAACTATTAGAACATATTATTTGTATAATTTA
TCTATTTATTTATGGTAAAAAAATCATAACCTAAAAAGCATTAAAAATATTATAAATATTAAAAT
TTTAATCTAAACCATAAAATATCACTTTTTAAATTTATTATATAAACTAACTCGACCAAATCAAG
ATTCAAATTCTTTCAATTTACTAACCTCTTGATAACAACTGTTAAGACAGATCAT
Found at i:661306 original size:79 final size:78
Alignment explanation
Indices: 661161--661443 Score: 293
Period size: 79 Copynumber: 3.6 Consensus size: 78
661151 TGATGTCTTA
* *** * * *
661161 ATTTCTAAAATATCGATTTTCCACCTTCGGGGATACTCTAACCCTGTTATTTTCGAGGAGATACT
1 ATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTT-GAGGGGATACT
661226 CCAAACCTGATTTT
65 CCAAACCTGATTTT
* * *
661240 ATTTCTAAAACATCAATTTTCCATAATCGGGGATACCCCAACCCCGTTATTTCTGAGGGGACACT
1 ATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCCGTTATTT-TGAGGGGATACT
*
661305 CC-AACCTCAGTTTT
65 CCAAACCTGA-TTTT
* ** * * *
661319 ATTT-TCAAATCATCGATTTTTTATAATCGGGGATACTCCTACCCCGTTATTTTTTAAGGGATAC
1 ATTTCT-AAAACATCGATTTTCCATAATCGGGGATACTCCAACCCCGTTA-TTTTGAGGGGATAC
661383 T-CAAACCCTGATTTT
64 TCCAAA-CCTGATTTT
* ** * *
661398 ATTTCTAAAACATCGATTTTTCACCATCGAGGATACTCTAACCCCG
1 ATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCCG
661444 GTTTTATTTC
Statistics
Matches: 169, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
78 8 0.05
79 152 0.90
80 9 0.05
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (78 bp):
ATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTTGAGGGGATACTC
CAAACCTGATTTT
Found at i:661441 original size:51 final size:51
Alignment explanation
Indices: 661377--661544 Score: 205
Period size: 51 Copynumber: 3.3 Consensus size: 51
661367 ATTTTTTAAG
*
661377 GGATACTCAAACCCTGATTTTATTTCTAAAACATCGATTTTTCACCATCGA
1 GGATACTCTAACCCTGATTTTATTTCTAAAACATCGATTTTTCACCATCGA
* * * * ** *
661428 GGATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTCCATAATTG-
1 GGATACTCTAACCCTGATTTTATTTCTAAAACATCGATTTTTCACCATCGA
*
661478 GAGATACTCTAACTCTGATTTTTATTTCTAAAACATCGATTTTTCCACCATC-A
1 G-GATACTCTAACCCTGA-TTTTATTTCTAAAACATCGATTTTT-CACCATCGA
661531 GGGATACTCTAACC
1 -GGATACTCTAACC
661545 TTGTTATTTC
Statistics
Matches: 95, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
50 1 0.01
51 55 0.58
52 23 0.24
53 15 0.16
54 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.36
Consensus pattern (51 bp):
GGATACTCTAACCCTGATTTTATTTCTAAAACATCGATTTTTCACCATCGA
Found at i:661717 original size:79 final size:78
Alignment explanation
Indices: 661497--661748 Score: 274
Period size: 79 Copynumber: 3.2 Consensus size: 78
661487 TAACTCTGAT
* **
661497 TTTTATTTCTAAAACATCGATTTTTCCACCATCAGGGATACTCTAACCTTGTTATTTCTGAGAAG
1 TTTTATTTTTAAAACATCGATTTTT-CA-CATCAGGGATACTCTAACCTTGTTATTTCTGAGGGG
* * * *
661562 ACACTCCAACCCTAA
64 ATACTCTAACCCCAG
* * * * * *
661577 TTTTATTTTCAAAACATCGATTTTCCACAATCGGGGATACTCCAA-CTCCGTTATTTTTGAGGGG
1 TTTTATTTTTAAAACATCGATTTTTCAC-ATCAGGGATACTCTAACCT-TGTTATTTCTGAGGGG
*
661641 ATACTCTGACCCCAG
64 ATACTCTAACCCCAG
* * *
661656 TTTTATTTTTAAAACACCGATTTTTCATCATCAAGGATACTCTAACCTTGTTATTTCTGAGGGAA
1 TTTTATTTTTAAAACATCGATTTTTCA-CATCAGGGATACTCTAACCTTGTTATTTCTGAGGGGA
661721 TACTCTAACCCC-G
65 TACTCTAACCCCAG
*
661734 TTTTTATCTTTAAAA
1 -TTTTATTTTTAAAA
661749 TATTAATTTT
Statistics
Matches: 142, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
78 4 0.03
79 113 0.80
80 25 0.18
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (78 bp):
TTTTATTTTTAAAACATCGATTTTTCACATCAGGGATACTCTAACCTTGTTATTTCTGAGGGGAT
ACTCTAACCCCAG
Found at i:664471 original size:13 final size:13
Alignment explanation
Indices: 664453--664478 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
664443 CAATTTTTTG
664453 TGTATCGATACAT
1 TGTATCGATACAT
664466 TGTATCGATACAT
1 TGTATCGATACAT
664479 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:664562 original size:20 final size:21
Alignment explanation
Indices: 664517--664569 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
664507 CTGCCAAGAA
* **
664517 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTGTAAC
664538 ATGTATCGATACAT-TGTAAC
1 ATGTATCGATACATCTGTAAC
664558 ATGTATCGATAC
1 ATGTATCGATAC
664570 TTTGAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATCTGTAAC
Found at i:665167 original size:38 final size:40
Alignment explanation
Indices: 665101--665180 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 40
665091 TTTTATTTCT
**
665101 CCCTTAATCAAAATAAATTTAACAAATTTGTGCATTCTCC
1 CCCTTAATCAAAATAAATTTAACAAATTTACGCATTCTCC
*
665141 CCCTTAAT-AAAAT-AATTGTAGC-AATTTACGCATTCTCC
1 CCCTTAATCAAAATAAATT-TAACAAATTTACGCATTCTCC
665179 CC
1 CC
665181 TTTATCTCCC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 20 0.56
39 8 0.22
40 8 0.22
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (40 bp):
CCCTTAATCAAAATAAATTTAACAAATTTACGCATTCTCC
Found at i:665226 original size:21 final size:21
Alignment explanation
Indices: 665185--665228 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
665175 CTCCCCTTTA
* *
665185 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
665206 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
665227 TC
1 TC
665229 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:667053 original size:13 final size:13
Alignment explanation
Indices: 667035--667073 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
667025 ATAATCACCC
667035 TGTATCGATACAA
1 TGTATCGATACAA
667048 TGTATCGATACAA
1 TGTATCGATACAA
667061 TGTATCGATACAA
1 TGTATCGATACAA
667074 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:671015 original size:21 final size:21
Alignment explanation
Indices: 670986--671030 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
670976 AAGTTTTCAT
*
670986 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
671006 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
671028 TTT
1 TTT
671031 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:673266 original size:13 final size:13
Alignment explanation
Indices: 673248--673273 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
673238 CAATTTTTTG
673248 TGTATCGATACAT
1 TGTATCGATACAT
673261 TGTATCGATACAT
1 TGTATCGATACAT
673274 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:681857 original size:13 final size:13
Alignment explanation
Indices: 681839--681868 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
681829 TTTCACTATG
681839 TATCGATACAATA
1 TATCGATACAATA
*
681852 TATCGATACAATG
1 TATCGATACAATA
681865 TATC
1 TATC
681869 ATGTATCGAT
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:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:681970 original size:33 final size:33
Alignment explanation
Indices: 681912--681976 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
681902 TGCCAGTTTC
*
681912 ATGTATCGATATAATTGAGTGTGTATCGATACA
1 ATGTATCGATATAATTGAGTATGTATCGATACA
681945 ATGTATCGATAT-ATCT-AGATATGTATCGATAC
1 ATGTATCGATATAAT-TGAG-TATGTATCGATAC
681977 TTTCTAGGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (33 bp):
ATGTATCGATATAATTGAGTATGTATCGATACA
Found at i:682652 original size:25 final size:26
Alignment explanation
Indices: 682624--682677 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
682614 TGAGGCTCTC
* *
682624 TTTTGTTA-AAACGATTTTCTCCCCT
1 TTTTGTTATAAAAGAATTTCTCCCCT
*
682649 TTTTGTTATAAAATAATTTCTCCCCT
1 TTTTGTTATAAAAGAATTTCTCCCCT
682675 TTT
1 TTT
682678 GTCAAATGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.22, C:0.20, G:0.06, T:0.52
Consensus pattern (26 bp):
TTTTGTTATAAAAGAATTTCTCCCCT
Found at i:690691 original size:13 final size:13
Alignment explanation
Indices: 690673--690703 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
690663 ACTTTTCACT
690673 ATGTATTGATACA
1 ATGTATTGATACA
690686 ATGTATTGATACA
1 ATGTATTGATACA
690699 ATGTA
1 ATGTA
690704 CCAAGTATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:690777 original size:20 final size:20
Alignment explanation
Indices: 690752--690819 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
690742 CAGTTTCATA
*
690752 TATCGATACAACTGAGTGTG
1 TATCGATACAACTGAGTATG
**
690772 TATCGATACAA-TGAACATG
1 TATCGATACAACTGAGTATG
*
690791 TATCGATACATCT-AGATATG
1 TATCGATACAACTGAG-TATG
690811 TATCGATAC
1 TATCGATAC
690820 TTTCTAGGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 16 0.40
20 24 0.60
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (20 bp):
TATCGATACAACTGAGTATG
Found at i:694089 original size:16 final size:16
Alignment explanation
Indices: 694068--694098 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
694058 TTCTTTTTCA
694068 AAAAACAAAAAAAAAC
1 AAAAACAAAAAAAAAC
694084 AAAAACAAAAAAAAA
1 AAAAACAAAAAAAAA
694099 GAGAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAACAAAAAAAAAC
Found at i:694105 original size:8 final size:8
Alignment explanation
Indices: 694076--694128 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
694066 CAAAAAACAA
*
694076 AAAAAAAC
1 AAAAAAAG
*
694084 AAAAACAAA
1 AAAAA-AAG
694093 AAAAAAGAG
1 AAAAAA-AG
694102 AAAAAAAG
1 AAAAAAAG
694110 AAAAAAAG
1 AAAAAAAG
*
694118 -AGAAAAG
1 AAAAAAAG
694125 AAAA
1 AAAA
694129 GAACCTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
7 6 0.16
8 18 0.47
9 14 0.37
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:694117 original size:18 final size:17
Alignment explanation
Indices: 694067--694128 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
694057 TTTCTTTTTC
*
694067 AAAAAACAAAAAAAA-AC
1 AAAAAA-AAAAAAAAGAG
694084 AAAAACAAAAAAAAAGAG
1 AAAAA-AAAAAAAAAGAG
694102 AAAAAAAGAAAAAAAGAG
1 AAAAAAA-AAAAAAAGAG
694120 AAAAGAAAA
1 AAAA-AAAA
694129 GAACCTGTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
17 15 0.38
18 22 0.55
19 3 0.08
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAGAG
Found at i:694131 original size:10 final size:9
Alignment explanation
Indices: 694067--694131 Score: 62
Period size: 9 Copynumber: 7.0 Consensus size: 9
694057 TTTCTTTTTC
*
694067 AAAAAACAA
1 AAAAAAGAA
694076 AAAAAA-ACA
1 AAAAAAGA-A
*
694085 AAAACA-AA
1 AAAAAAGAA
694093 AAAAAAGAGA
1 AAAAAAGA-A
694103 AAAAAAGAA
1 AAAAAAGAA
694112 AAAAAGAGAA
1 AAAAA-AGAA
694122 AAGAAAAGAA
1 AA-AAAAGAA
694132 CCTGTTTAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
8 7 0.14
9 20 0.41
10 19 0.39
11 3 0.06
ACGTcount: A:0.85, C:0.05, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:695118 original size:61 final size:60
Alignment explanation
Indices: 695023--695528 Score: 570
Period size: 61 Copynumber: 8.2 Consensus size: 60
695013 TTATCCTTTC
* ** * *
695023 AGTCCTCAAAGAGTAACACAC-TTTCCTTTCAAAGCCCACAAAAGTTGGTGGAACCTTCT
1 AGTCCTCAAAGAGCAGGACACTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * * *
695082 AGTCCTCAAAGAGCAGGACACATTTTCCTTTTAAAGCTCACAAAATTTGGTGGCACTTTCT
1 AGTCCTCAAAGAGCAGGACAC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
*
695143 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-T
1 AGTCCTCAAAGAGCAGGACA-CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * *
695203 CAATCCTCAAAGAGCAAGACGC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
1 -AGTCCTCAAAGAGCAGGACACTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
** * *
695263 AGTCCTCAAAGAGCAGGACGGTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACTTTCT
1 AGTCCTCAAAGAGCAGGACACTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* *
695324 AGTCCCCAAAGAGCAAGACACTTTTCGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACAC---T---TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
695389 T
60 T
* * * * *
695390 AGTCCTCAAAAAGTAGGACGCTTTCTCCTTGCAAAGCCCATACAAGTTGGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACACTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * *
695451 AGTCC-CAAAGAGTAGGACACTTTCCTTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACA-----C-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
695515 T
60 T
695516 AGTCCTCAAAGAG
1 AGTCCTCAAAGAG
695529 TAGTATGCAC
Statistics
Matches: 385, Mismatches: 41, Indels: 35
0.84 0.09 0.08
Matches are distributed among these distances:
59 71 0.18
60 19 0.05
61 193 0.50
62 1 0.00
63 1 0.00
64 1 0.00
65 37 0.10
66 60 0.16
67 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGACACTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
Found at i:695271 original size:120 final size:120
Alignment explanation
Indices: 695046--695528 Score: 558
Period size: 120 Copynumber: 3.9 Consensus size: 120
695036 TAACACACTT
* * * *
695046 TCCTTTCAAAGCCCACAAAAGTTGGTGGAACCTTCTAGTCCTCAAAGAGCAGGACACATTTTCCT
1 TCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACAC--TTTCCT
* * * * *
695111 TTTAAAGCTCACAAAATTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACACCTTT-
64 TTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAC-CCTTTC
** * *
695168 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAATCCTCAAAGAGCAAGACGCTTTCCTT
1 TCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAAGACACTTTCCTT
**
695232 TCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGGTTTC
65 TCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACCCTTTC
* *
695288 TCCTTGCAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCCCAAAGAGCAAGACACTTTTCGCT
1 TCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACA-------CT
* * *
695353 TTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAAAGTAGGACGCTTTC
59 TTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACCCTTTC
* * *
695415 TCCTTGCAAAGCCCATACAAGTTGGTGGCACCTTCTAGTCC-CAAAGAGTAGGACACTTTCCTTT
1 TCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACACTTTCC--T
* *
695479 TTCCTTTTAAAGCTCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAG
64 TT-C----AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAG
695529 TAGTATGCAC
Statistics
Matches: 315, Mismatches: 29, Indels: 30
0.84 0.08 0.08
Matches are distributed among these distances:
119 9 0.03
120 100 0.32
121 5 0.02
122 50 0.16
126 51 0.16
127 100 0.32
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (120 bp):
TCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACACTTTCCTTT
CAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACCCTTTC
Found at i:695321 original size:181 final size:184
Alignment explanation
Indices: 695017--695528 Score: 662
Period size: 181 Copynumber: 2.8 Consensus size: 184
695007 AACATTTTAT
* * * *
695017 CCTTTCAGTCCTCAAAGAGTAACACACTTTCCTTTCAAAGCCCACAAAAGTTGGTGGAACCTTCT
1 CCTTTCAGTCCTCAAAGAGTAAGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
* *
695082 AGTCCTCAAAGAGCAGGACACATTT-TCCTTTTAAAGCTCACAAAATTTGGTGGCACTTTCTAGT
66 AGTCCTCAAAGAGCAGGACA-ATTTCTCCTTTTAAAGCTCACACAAGTTGGTGGCACTTTCTAGT
*
695146 CCTCAAAGAGCAGGACACCTTTTC-C-T-TTT-AAAGCCCACACAAGTTGGTGGCA
130 CCTCAAAGAGCAAGACA-CTTTTCGCTTCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
695198 CCTTTCAATCCTCAAAGAGCAAGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
1 CCTTTCAGTCCTCAAAGAGTAAGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
** ** *
695263 AGTCCTCAAAGAGCAGGACGGTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGCACTTTCTAGTC
66 AGTCCTCAAAGAGCAGGACAATTTCTCCTTTTAAAGCTCACACAAGTTGGTGGCACTTTCTAGTC
*
695328 CCCAAAGAGCAAGACACTTTTCGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
131 CTCAAAGAGCAAGACACTTTTCGC-TT-CTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
695384 CC-TTCTAGTCCTCAAAAAGTAGGACGCTTTCTCCTTGCAAAGCCCATACAAGTTGGTGGCACCT
1 CCTTTC-AGTCCTCAAAGAGTAAGACGC-TT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* *
695448 TCTAGTCC-CAAAGAGTAGGACACTTTCCTTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACC
63 TCTAGTCCTCAAAGAGCAGGACAATTT-C----TCCTTTTAAAGCTCACACAAGTTGGTGGCA-C
695512 TTT-TAGTCCTCAAAGAG
122 TTTCTAGTCCTCAAAGAG
695529 TAGTATGCAC
Statistics
Matches: 287, Mismatches: 28, Indels: 21
0.85 0.08 0.06
Matches are distributed among these distances:
180 9 0.03
181 128 0.45
183 1 0.00
185 6 0.02
186 42 0.15
187 17 0.06
188 40 0.14
192 40 0.14
193 4 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (184 bp):
CCTTTCAGTCCTCAAAGAGTAAGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCT
AGTCCTCAAAGAGCAGGACAATTTCTCCTTTTAAAGCTCACACAAGTTGGTGGCACTTTCTAGTC
CTCAAAGAGCAAGACACTTTTCGCTTCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:695408 original size:127 final size:127
Alignment explanation
Indices: 695046--695528 Score: 584
Period size: 127 Copynumber: 3.9 Consensus size: 127
695036 TAACACACTT
* * * * *
695046 TCCTTTCAAAGCCCACAAAAGTTGGTGGAACCTTCTAGTCCTCAAAGAGCAGGACACATTTTC-C
1 TCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCCCAAAGAGCAAGACAC-TTTTCGC
* * * * *
695110 --T--TTT-AAAGCTCACAAAATTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACACCTTT-
65 TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAC-GCTTTC
** * *
695168 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAATCCTCAAAGAGCAAG--A-----CGC
1 TCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCCCAAAGAGCAAGACACTTTTCGC
*
695225 TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGGTTTC
65 TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTTTC
*
695288 TCCTTGCAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCCCAAAGAGCAAGACACTTTTCGCT
1 TCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCCCAAAGAGCAAGACACTTTTCGCT
* *
695353 TTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAAAGTAGGACGCTTTC
66 TTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTTTC
* * * * **
695415 TCCTTGCAAAGCCCATACAAGTTGGTGGCACCTTCTAGT-CCCAAAGAGTAGGACACTTTCCTTT
1 TCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCCCAAAGAGCAAGACACTTTTCGCT
* * *
695479 TTCCTTTTAAAGCTCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAG
66 TTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAG
695529 TAGTATGCAC
Statistics
Matches: 315, Mismatches: 30, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
114 1 0.00
115 1 0.00
117 1 0.00
119 6 0.02
120 91 0.29
121 2 0.01
122 47 0.15
126 66 0.21
127 100 0.32
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (127 bp):
TCCTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCCCAAAGAGCAAGACACTTTTCGCT
TTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTTTC
Found at i:695582 original size:41 final size:41
Alignment explanation
Indices: 695517--695814 Score: 235
Period size: 41 Copynumber: 7.4 Consensus size: 41
695507 GCACCTTTTA
* *
695517 GTCCTCAAAGAGTAGTATGCACTTTATTTCTTTTTCTCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCTTTTTCTCTTT
* * * *
695558 GTCCTTAAAGAGCAGGATGTACTTTATTTCCTTTTCCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCTTTTTCTCTTT
*
695599 GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCTTTTTCTC-TTT
* ** *
695641 GTCCTCAAAGAGTAGGACACACTTAATTTCCTTCTTT-TCTTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTT-CTT-TTTCTC-TTT
** * *
695684 GT-C-CACCGAGCAAGATGCATTTTATTTCTTTTT-TCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCTTTTTCT-CTTT
* * *
695723 GTCCTCGAAGAGCAGGATGTAC----TCT-TTTTTC-CTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTCTTTTTCTCTTT
* * **
695758 ATCCTCAAGGAGCAGGACCCA-TTTCA-TTCTCTTTTC-CTTT
1 GTCCTCAAAGAGCAGGATGCACTTT-ATTTCT-TTTTCTCTTT
*
695798 GTCCTTAAAGAGCAGGA
1 GTCCTCAAAGAGCAGGA
695815 CATACTCCTT
Statistics
Matches: 204, Mismatches: 39, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
35 19 0.09
36 5 0.02
37 2 0.01
38 1 0.00
39 10 0.05
40 28 0.14
41 97 0.48
42 29 0.14
43 10 0.05
44 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGATGCACTTTATTTCTTTTTCTCTTT
Found at i:695664 original size:42 final size:42
Alignment explanation
Indices: 695511--695757 Score: 252
Period size: 41 Copynumber: 5.9 Consensus size: 42
695501 TTGGTGGCAC
* * *
695511 CTTTTAGTCCTCAAAGAGTAGTATGCACTTTATTTCTTTTTCT
1 CTTTT-GTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCT
* *
695554 C-TTTGTCCTTAAAGAGCAGGATGTACTTTATTTCCTTTTC-
1 CTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCT
*
695594 CCTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCT
1 CTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCT
* ** * *
695636 CTTTTGTCCTCAAAGAGTAGGACACACTTAATTTCCTTCTTTT
1 CTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTT-TTCT
** * * *
695679 CTTTTGT-C-CACCGAGCAAGATGCATTTTATTT-CTTTTTT
1 CTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCT
* * * *
695718 CCTTTGTCCTCGAAGAGCAGGATGTACTCTTTTTTCCTTT
1 CTTTTGTCCTCAAAGAGCAGGATGCACT-TTATTTCCTTT
695758 ATCCTCAAGG
Statistics
Matches: 168, Mismatches: 29, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
39 10 0.06
40 5 0.03
41 96 0.57
42 42 0.25
43 15 0.09
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (42 bp):
CTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTCCTTTTCT
Found at i:695695 original size:124 final size:125
Alignment explanation
Indices: 695511--695757 Score: 304
Period size: 124 Copynumber: 2.0 Consensus size: 125
695501 TTGGTGGCAC
* ** * *
695511 CTTTTAGTCCTCAAAGAGTAGTATGCACTTTATTTCTTTTTCTCTTTGTCCTTAAAGAGCAGGAT
1 CTTTTAGTCCTCAAAGAGTAGGACACACTTAATTTCTTTTTCTCTTTGTCC-TAAAGAGCAAGAT
*
695576 GTACTTTATTTCCTTTTCCCTTTGTCCTCAAAGAGCAGGATGCACT-TTATTTCCTTTTCT
65 GCACTTTATTTCCTTTTCCCTTTGTCCTCAAAGAGCAGGATGCACTCTTATTTCCTTTTCT
**
695636 CTTTT-GTCCTCAAAGAGTAGGACACACTTAATTTCCTTCTTT-TCTTTTGTCC-ACCGAGCAAG
1 CTTTTAGTCCTCAAAGAGTAGGACACACTTAATTT-CTT-TTTCTC-TTTGTCCTAAAGAGCAAG
* * * * * *
695698 ATGCATTTTATTTCTTTTTTCCTTTGTCCTCGAAGAGCAGGATGTACTCTTTTTTCCTTT
63 ATGCACTTTATTTCCTTTTCCCTTTGTCCTCAAAGAGCAGGATGCACTCTTATTTCCTTT
695758 ATCCTCAAGG
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
124 74 0.71
125 20 0.19
126 10 0.10
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (125 bp):
CTTTTAGTCCTCAAAGAGTAGGACACACTTAATTTCTTTTTCTCTTTGTCCTAAAGAGCAAGATG
CACTTTATTTCCTTTTCCCTTTGTCCTCAAAGAGCAGGATGCACTCTTATTTCCTTTTCT
Found at i:695798 original size:75 final size:74
Alignment explanation
Indices: 695709--695849 Score: 194
Period size: 75 Copynumber: 1.9 Consensus size: 74
695699 TGCATTTTAT
* * ** *
695709 TTCTTTTTTCCTTTGTCCTCGAAGAGCAGGATGTACTCTTTTTTCCTTTATCCTC-AAGGAGCAG
1 TTCTCTTTTCCTTTGTCCTCAAAGAGCAGGACATACTC-CTTTTCCTTTATCCTCGAA-GAGCAG
695773 GACCCATTTCA
64 GACCCATTTCA
* *
695784 TTCTCTTTTCCTTTGTCCTTAAAGAGCAGGACATACTCCTTTTCCTTTGTCCTCGAAGAGCAGGA
1 TTCTCTTTTCCTTTGTCCTCAAAGAGCAGGACATACTCCTTTTCCTTTATCCTCGAAGAGCAGGA
695849 C
66 C
695850 ATACTCCTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
74 23 0.40
75 35 0.60
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.38
Consensus pattern (74 bp):
TTCTCTTTTCCTTTGTCCTCAAAGAGCAGGACATACTCCTTTTCCTTTATCCTCGAAGAGCAGGA
CCCATTTCA
Found at i:695831 original size:34 final size:35
Alignment explanation
Indices: 695714--695883 Score: 182
Period size: 34 Copynumber: 4.8 Consensus size: 35
695704 TTTATTTCTT
* ** *
695714 TTTTCCTTTGTCCTCGAAGAGCAGGATGTACTCTT
1 TTTTCCTTTGTCCTCAAAGAGCAGGACATACTCTC
* * *
695749 TTTTCCTTTATCCTCAAGGAGCAGGACCCATTTCATTCTC
1 TTTTCCTTTGTCCTCAAAGAGCAGGA--CA--T-ACTCTC
*
695789 TTTTCCTTTGTCCTTAAAGAGCAGGACATACTC-C
1 TTTTCCTTTGTCCTCAAAGAGCAGGACATACTCTC
*
695823 TTTTCCTTTGTCCTCGAAGAGCAGGACATACTC-C
1 TTTTCCTTTGTCCTCAAAGAGCAGGACATACTCTC
* *
695857 TTTTCCTTTGTCCTCAAATAGTAGGAC
1 TTTTCCTTTGTCCTCAAAGAGCAGGAC
695884 GCCCCTTCCT
Statistics
Matches: 114, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
34 57 0.50
35 26 0.23
36 1 0.01
38 2 0.02
39 1 0.01
40 27 0.24
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (35 bp):
TTTTCCTTTGTCCTCAAAGAGCAGGACATACTCTC
Found at i:696534 original size:30 final size:30
Alignment explanation
Indices: 696498--696571 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
696488 TTCTTCATTG
* *
696498 TATCGATAAATTCTGGGTTTTACCCAGATA
1 TATCGATACATTCTGAGTTTTACCCAGATA
* *
696528 TATCGATACATTCTGAGTTTTACCTAGATG
1 TATCGATACATTCTGAGTTTTACCCAGATA
696558 TATCGATACATTCT
1 TATCGATACATTCT
696572 TCAATGTATC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (30 bp):
TATCGATACATTCTGAGTTTTACCCAGATA
Found at i:699134 original size:107 final size:107
Alignment explanation
Indices: 699002--699209 Score: 299
Period size: 107 Copynumber: 1.9 Consensus size: 107
698992 AACCCCATTA
* * * * *
699002 TTTCTGAGGGGATACTCTAATCCTGGTTTTATTTCTAAAACAGAAATTTTCCACAATCGGGGACA
1 TTTCTGAGGGGACACTCCAACCCTGGTTTTATTTCCAAAACAGAAATTTTCCACAATCGAGGACA
* *
699067 CTCTAATCCCATTATTTCTAAGGGGATACTCCAACCTCGTTT
66 CTCCAACCCCATTATTTCTAAGGGGATACTCCAACCTCGTTT
** * *
699109 TTTCTGAGGGGACACTCCAACCCTGGTTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATA
1 TTTCTGAGGGGACACTCCAACCCTGGTTTTATTTCCAAAACAGAAATTTTCCACAATCGAGGACA
* *
699174 CTCCAACCCCGTTATTTCTGAGGGGATACTCCAACC
66 CTCCAACCCCATTATTTCTAAGGGGATACTCCAACC
699210 CTAATTTTAT
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
107 88 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (107 bp):
TTTCTGAGGGGACACTCCAACCCTGGTTTTATTTCCAAAACAGAAATTTTCCACAATCGAGGACA
CTCCAACCCCATTATTTCTAAGGGGATACTCCAACCTCGTTT
Found at i:699138 original size:28 final size:28
Alignment explanation
Indices: 699081--699138 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
699071 AATCCCATTA
* *
699081 TTTCTAAGGGGATACTCCAACCTCGTTT
1 TTTCTAAGGGGACACTCCAACCTCGGTT
*
699109 TTTCTGAGGGGACACTCCAACC-CTGGTT
1 TTTCTAAGGGGACACTCCAACCTC-GGTT
699137 TT
1 TT
699139 ATTTCCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (28 bp):
TTTCTAAGGGGACACTCCAACCTCGGTT
Found at i:699175 original size:79 final size:79
Alignment explanation
Indices: 699090--699263 Score: 249
Period size: 79 Copynumber: 2.2 Consensus size: 79
699080 ATTTCTAAGG
* * ** * *
699090 GGATACTCCAACCTCGTTTTTTCTGAGGGGACACTCCAACCCTGGTTTTATTTCCAAAACATCAA
1 GGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCTAATTTTATATCCAAAACACCAA
699155 TTTTTCACAATCGA
66 TTTTTCACAATCGA
* *
699169 GGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTAATTTTATATCTAAAACACCAA
1 GGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCTAATTTTATATCCAAAACACCAA
* *
699234 TTTTTCACCATCGG
66 TTTTTCACAATCGA
*
699248 GGATACTCAAACCCCG
1 GGATACTCCAACCCCG
699264 ATTTTATTTC
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 84 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCTAATTTTATATCCAAAACACCAA
TTTTTCACAATCGA
Found at i:699279 original size:51 final size:50
Alignment explanation
Indices: 699195--699357 Score: 177
Period size: 51 Copynumber: 3.2 Consensus size: 50
699185 TTATTTCTGA
** *
699195 GGGGATACTCCAACCCTAATTTTATATCTAAAACACCAATTTTTCACCATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACA-CAATTTTTCACCATC
* * * *
699246 GGGGATACTCAAACCCCGATTTTATTTCCAAAACATCGATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACA-CAATTTTTCACCATC
* *
699297 -GAGATACTCCAACCCCGATTTTTATTTCTAAAACACAGATTCTTT-GCCATC
1 GGGGATACTCCAACCCCGA-TTTTATTTCTAAAACACA-ATT-TTTCACCATC
*
699348 AGGGATACTC
1 GGGGATACTC
699358 TAACTCCGTT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
50 17 0.18
51 65 0.70
52 11 0.12
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACAATTTTTCACCATC
Found at i:699432 original size:79 final size:80
Alignment explanation
Indices: 699297--699454 Score: 198
Period size: 79 Copynumber: 2.0 Consensus size: 80
699287 TTTCACAATC
* * * * *
699297 GAGATACTCCAACCCCGATTTTTATTTCTAAAACACAGATTCTTTGCCATCAGGGATACTCTAAC
1 GAGACACTCCAACCCCGAGTTTTATTTCCAAAAAACAGATTCTTTGCCATCAGGGATACTCCAAC
*
699362 TCCGTTATTTTCGAA
66 CCCGTTATTTTCGAA
*
699377 GAGACACTCCAACCCC-AGTTTTATTTCCAAAAAATC-GATT-TTT-CACAATCGGGGATACTCC
1 GAGACACTCCAACCCCGAGTTTTATTTCCAAAAAA-CAGATTCTTTGC-C-ATCAGGGATACTCC
699438 AACCCCGTTATTTTCGA
63 AACCCCGTTATTTTCGA
699455 GGGGATACTC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
77 1 0.01
78 4 0.06
79 47 0.69
80 16 0.24
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (80 bp):
GAGACACTCCAACCCCGAGTTTTATTTCCAAAAAACAGATTCTTTGCCATCAGGGATACTCCAAC
CCCGTTATTTTCGAA
Found at i:699469 original size:28 final size:28
Alignment explanation
Indices: 699427--699497 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
699417 TTTCACAATC
*
699427 GGGGATACTCCAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCATTATTTTCGA
* *
699455 GGGGATACTCTAACCCTATTATTTTCGA
1 GGGGATACTCCAACCCCATTATTTTCGA
699483 GGGGATACTCCAACC
1 GGGGATACTCCAACC
699498 ACGGTTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTTCGA
Found at i:699535 original size:107 final size:107
Alignment explanation
Indices: 699349--699572 Score: 272
Period size: 107 Copynumber: 2.1 Consensus size: 107
699339 TTTGCCATCA
* *
699349 GGGATACTCTAACTCCGTTATTTTCGAAGAGACACTCCAACCCCAGTTTTATTTCCAAAAAATCG
1 GGGATACTCTAACTCCATTATTTTCGAAGAGACACTCCAACCACAGTTTTATTTCCAAAAAATCG
*
699414 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAG
66 ATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAG
* * * * ** * *
699456 GGGATACTCTAAC-CCTATTATTTTCGAGGGGATACTCCAACCACGGTTTTATTTTTAAAACATT
1 GGGATACTCTAACTCC-ATTATTTTCGAAGAGACACTCCAACCACAGTTTTATTTCCAAAAAATC
* * * *
699520 GATTTTCCATC-ATCGGGGATACTTCATCCTCGTTATTTTTGAG
65 GATTTTCCA-CAATCGGGGATACTCCAACCCCGTTATTTTCGAG
*
699563 GGGACACTCT
1 GGGATACTCT
699573 TGACCCTGTT
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
106 2 0.02
107 96 0.97
108 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.34
Consensus pattern (107 bp):
GGGATACTCTAACTCCATTATTTTCGAAGAGACACTCCAACCACAGTTTTATTTCCAAAAAATCG
ATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAG
Found at i:702728 original size:10 final size:10
Alignment explanation
Indices: 702709--702739 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
702699 GTATCGATAC
702709 ATGAACAGTG
1 ATGAACAGTG
*
702719 ATGAATAGTG
1 ATGAACAGTG
702729 ATGAACAGTG
1 ATGAACAGTG
702739 A
1 A
702740 AAAATGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:702829 original size:53 final size:53
Alignment explanation
Indices: 702764--702900 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
702754 CTACTTCCAA
*
702764 TGTATTGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
702817 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
702870 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
702901 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:702933 original size:20 final size:20
Alignment explanation
Indices: 702870--702940 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
702860 GCCAATGACC
**
702870 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
702890 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
702910 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
702930 TGTATCGATAC
1 TGTATCGATAC
702941 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:703006 original size:21 final size:21
Alignment explanation
Indices: 702980--703020 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
702970 GTCAACCTTG
702980 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
703001 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
703021 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:703580 original size:13 final size:13
Alignment explanation
Indices: 703562--703586 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
703552 CATTTTATGG
703562 TGTATCGATACAA
1 TGTATCGATACAA
703575 TGTATCGATACA
1 TGTATCGATACA
703587 TACTGTGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:703602 original size:32 final size:33
Alignment explanation
Indices: 703539--703606 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
703529 CGTTACAAGC
**
703539 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
703572 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
703604 CAA
1 CAA
703607 GTTTAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:703654 original size:20 final size:20
Alignment explanation
Indices: 703629--703681 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
703619 CCAATGACTT
**
703629 GTATCGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
703649 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
703669 GTATCGATACATT
1 GTATCGATACATT
703682 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:704290 original size:22 final size:21
Alignment explanation
Indices: 704247--704290 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
704237 TTTTCTTTTC
* *
704247 TCTCCCCCTTAATCAAACATT
1 TCTCCCCCTTAATAAAAAATT
*
704268 TCTCCCCCTTAGTAAAATAATT
1 TCTCCCCCTTAATAAAA-AATT
704290 T
1 T
704291 AACACGTTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.30, C:0.32, G:0.02, T:0.36
Consensus pattern (21 bp):
TCTCCCCCTTAATAAAAAATT
Found at i:704340 original size:19 final size:19
Alignment explanation
Indices: 704316--704353 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
704306 TAACCATTTC
704316 TTTCTCCCCCTTAATCATA
1 TTTCTCCCCCTTAATCATA
*
704335 TTTCTCCCCGTTAATCATA
1 TTTCTCCCCCTTAATCATA
704354 AAAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.34, G:0.03, T:0.42
Consensus pattern (19 bp):
TTTCTCCCCCTTAATCATA
Found at i:712349 original size:13 final size:13
Alignment explanation
Indices: 712331--712355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
712321 CATTTTATGG
712331 TGTATCGATACAA
1 TGTATCGATACAA
712344 TGTATCGATACA
1 TGTATCGATACA
712356 TACTGTGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:712371 original size:32 final size:33
Alignment explanation
Indices: 712308--712375 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
712298 CGTTACAAGC
**
712308 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
712341 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
712373 CAA
1 CAA
712376 GTTTAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:716459 original size:21 final size:21
Alignment explanation
Indices: 716426--716470 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
716416 TTGCAAGTTG
*
716426 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
716448 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
716468 AAA
1 AAA
716471 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:718295 original size:15 final size:15
Alignment explanation
Indices: 718275--718305 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
718265 TAAAAATGTC
*
718275 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
718290 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
718305 C
1 C
718306 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:720402 original size:13 final size:13
Alignment explanation
Indices: 720384--720409 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
720374 ACATTTTTCT
720384 TTGTATCGATACA
1 TTGTATCGATACA
720397 TTGTATCGATACA
1 TTGTATCGATACA
720410 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:722976 original size:13 final size:13
Alignment explanation
Indices: 722958--722983 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
722948 TACAGCAAGT
722958 ATGTATCGATACA
1 ATGTATCGATACA
722971 ATGTATCGATACA
1 ATGTATCGATACA
722984 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:724601 original size:20 final size:19
Alignment explanation
Indices: 724576--724643 Score: 76
Period size: 20 Copynumber: 3.8 Consensus size: 19
724566 ATTTGACTGC
724576 ATGTATCGATACATTGAAT
1 ATGTATCGATACATTGAAT
724595 GATGTATCGATAC-----A-
1 -ATGTATCGATACATTGAAT
724609 ATGTATCGATACATTGAAT
1 ATGTATCGATACATTGAAT
724628 AATGTATCGATACATT
1 -ATGTATCGATACATT
724644 TCCTTGGCAG
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 12 0.29
15 1 0.02
18 1 0.02
20 27 0.66
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGTATCGATACATTGAAT
Found at i:724613 original size:33 final size:33
Alignment explanation
Indices: 724576--724641 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
724566 ATTTGACTGC
*
724576 ATGTATCGATACATTGAATGATGTATCGATACA
1 ATGTATCGATACATTGAATAATGTATCGATACA
724609 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACATTGAATAATGTATCGATACA
724642 TTTCCTTGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACATTGAATAATGTATCGATACA
Found at i:724614 original size:13 final size:13
Alignment explanation
Indices: 724596--724621 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
724586 ACATTGAATG
724596 ATGTATCGATACA
1 ATGTATCGATACA
724609 ATGTATCGATACA
1 ATGTATCGATACA
724622 TTGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:733564 original size:28 final size:28
Alignment explanation
Indices: 733532--733589 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
733522 TAGAAGTGAT
*
733532 ATTTTA-ATAATTATTATTATATTATAAA
1 ATTTTATATAATTATTATTA-ATAATAAA
* *
733560 ATTTTATTTAATTATTTTTAATAATAAA
1 ATTTTATATAATTATTATTAATAATAAA
733588 AT
1 AT
733590 AGTAGTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTTTATATAATTATTATTAATAATAAA
Found at i:734548 original size:16 final size:17
Alignment explanation
Indices: 734527--734559 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
734517 AAATTTTAGG
734527 TTTTTATT-AAATAATA
1 TTTTTATTAAAATAATA
734543 TTTTTATTAAAATAATA
1 TTTTTATTAAAATAATA
734560 AATTATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTTATTAAAATAATA
Found at i:734714 original size:21 final size:21
Alignment explanation
Indices: 734634--734714 Score: 51
Period size: 22 Copynumber: 3.8 Consensus size: 21
734624 GTAATATTCA
**
734634 AAATA-TAAATATTAAAAATT
1 AAATATTAAATATTTTAAATT
* *
734654 ATATTATTAAAGTAATTTATAA-T
1 A-AATATTAAA-TATTTTA-AATT
*
734677 -AATATTTTAATATTTTTAAATT
1 AAATA-TTAAATA-TTTTAAATT
734699 AAATATTAAATATTTT
1 AAATATTAAATATTTT
734715 TATTAATAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 15
0.66 0.12 0.22
Matches are distributed among these distances:
20 1 0.02
21 14 0.31
22 19 0.42
23 9 0.20
24 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (21 bp):
AAATATTAAATATTTTAAATT
Found at i:734725 original size:22 final size:22
Alignment explanation
Indices: 734669--734725 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
734659 ATTAAAGTAA
*
734669 TTTATAATAATATTTTAATATT
1 TTTATAATAATATTTAAATATT
734691 TTTA-AATTAA-ATATTAAATATT
1 TTTATAA-TAATAT-TTAAATATT
734713 TTTATTAATAATA
1 TTTA-TAATAATA
734726 ATATTTGGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
21 4 0.14
22 19 0.66
23 3 0.10
24 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTATAATAATATTTAAATATT
Found at i:742867 original size:2 final size:2
Alignment explanation
Indices: 742856--742898 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
742846 GATTTTTCCT
742856 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
742897 TA
1 TA
742899 CTTGCAAAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:743774 original size:2 final size:2
Alignment explanation
Indices: 743767--743795 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
743757 AAATTTTATG
743767 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
743796 TATCCGTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:744939 original size:22 final size:21
Alignment explanation
Indices: 744904--744944 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
744894 CTTAATTCAA
*
744904 CTTCTTTTACTAACTATTTCT
1 CTTCTTTTACTAACCATTTCT
*
744925 CTTCTTTTTCTTAACCATTT
1 CTTCTTTTAC-TAACCATTT
744945 TAGGGACCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (21 bp):
CTTCTTTTACTAACCATTTCT
Found at i:747060 original size:124 final size:124
Alignment explanation
Indices: 746840--747089 Score: 500
Period size: 124 Copynumber: 2.0 Consensus size: 124
746830 TGCATCATTT
746840 TAGGATTGACCTAAACCAGTCTATTATATGATTCAGCATGCCAACTATTAAACAACTTATTAGAA
1 TAGGATTGACCTAAACCAGTCTATTATATGATTCAGCATGCCAACTATTAAACAACTTATTAGAA
746905 ATGCAAGACAGCCAATTATAACTGTCACGAAATGCAGCAGTTATGAAATTCAAACATGG
66 ATGCAAGACAGCCAATTATAACTGTCACGAAATGCAGCAGTTATGAAATTCAAACATGG
746964 TAGGATTGACCTAAACCAGTCTATTATATGATTCAGCATGCCAACTATTAAACAACTTATTAGAA
1 TAGGATTGACCTAAACCAGTCTATTATATGATTCAGCATGCCAACTATTAAACAACTTATTAGAA
747029 ATGCAAGACAGCCAATTATAACTGTCACGAAATGCAGCAGTTATGAAATTCAAACATGG
66 ATGCAAGACAGCCAATTATAACTGTCACGAAATGCAGCAGTTATGAAATTCAAACATGG
747088 TA
1 TA
747090 CGCGGCAGAA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 126 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (124 bp):
TAGGATTGACCTAAACCAGTCTATTATATGATTCAGCATGCCAACTATTAAACAACTTATTAGAA
ATGCAAGACAGCCAATTATAACTGTCACGAAATGCAGCAGTTATGAAATTCAAACATGG
Found at i:760108 original size:8 final size:8
Alignment explanation
Indices: 760085--760118 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
760075 GGCTGCAATT
*
760085 TTTTTTTT
1 TTTTTTTG
760093 TTTTTTTG
1 TTTTTTTG
760101 TTTTTTTG
1 TTTTTTTG
*
760109 GTTTTTTG
1 TTTTTTTG
760117 TT
1 TT
760119 CAGAAAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:765105 original size:3 final size:3
Alignment explanation
Indices: 765097--765121 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
765087 AATAGAACAA
765097 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
765122 CATTATTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:773086 original size:20 final size:20
Alignment explanation
Indices: 773061--773101 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
773051 GAGAGGCGCT
773061 AAAACCATCAAATTTAGATA
1 AAAACCATCAAATTTAGATA
773081 AAAACCATCAAATTTAGATA
1 AAAACCATCAAATTTAGATA
773101 A
1 A
773102 GAGAAGGACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAACCATCAAATTTAGATA
Found at i:776096 original size:7 final size:7
Alignment explanation
Indices: 776084--776113 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
776074 ATTGGCCAAA
776084 ATAAACC
1 ATAAACC
776091 ATAAACC
1 ATAAACC
776098 ATAAACC
1 ATAAACC
776105 ATAAACC
1 ATAAACC
776112 AT
1 AT
776114 TTTCAAGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.17
Consensus pattern (7 bp):
ATAAACC
Found at i:782855 original size:2 final size:2
Alignment explanation
Indices: 782848--782884 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
782838 AGTTAAATTC
782848 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
782885 AAGCTTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:783761 original size:2 final size:2
Alignment explanation
Indices: 783754--783795 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
783744 CAAGTATAAG
783754 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
783796 TGAAAATATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:791326 original size:20 final size:21
Alignment explanation
Indices: 791276--791328 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
791266 GCCAATGACT
**
791276 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
* *
791297 AGTATTGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
791317 TGTATCGATACA
1 TGTATCGATACA
791329 ATGCAATCTG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:791340 original size:20 final size:20
Alignment explanation
Indices: 791317--791367 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
791307 CATTTGGTCA
*
791317 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
791337 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
791357 TGTATCGATAC
1 TGTATCGATAC
791368 TTTTCAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:794012 original size:13 final size:13
Alignment explanation
Indices: 793994--794019 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
793984 CAATTTTTTG
793994 TGTATCGATACAT
1 TGTATCGATACAT
794007 TGTATCGATACAT
1 TGTATCGATACAT
794020 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:796419 original size:21 final size:21
Alignment explanation
Indices: 796395--796441 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
796385 TTTGATGCTG
796395 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
796415 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
796436 ATTTTG
1 ATTTTG
796442 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:796580 original size:13 final size:13
Alignment explanation
Indices: 796562--796600 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
796552 ATAATCACCC
* *
796562 TGTATCAATACAG
1 TGTATCGATACAA
796575 TGTATCGATACAA
1 TGTATCGATACAA
796588 TGTATCGATACAA
1 TGTATCGATACAA
796601 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:796611 original size:20 final size:20
Alignment explanation
Indices: 796586--796664 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
796576 GTATCGATAC
796586 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
796606 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
796631 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
796651 CATGTATCGATACA
1 AATGTATCGATACA
796665 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:798699 original size:15 final size:15
Alignment explanation
Indices: 798679--798709 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
798669 ATTTCGTTTG
*
798679 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
798694 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
798709 G
1 G
798710 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:800542 original size:21 final size:21
Alignment explanation
Indices: 800513--800557 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
800503 AAGTTTTCAT
*
800513 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
800533 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
800555 TTT
1 TTT
800558 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:802793 original size:13 final size:13
Alignment explanation
Indices: 802775--802800 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
802765 CAATTTTTTG
802775 TGTATCGATACAT
1 TGTATCGATACAT
802788 TGTATCGATACAT
1 TGTATCGATACAT
802801 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:812551 original size:52 final size:52
Alignment explanation
Indices: 812473--812602 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
812463 CGAAATATGA
* *
812473 AAATTTTCCTGCATATATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
812525 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
812577 AAATTTGCCTGTATGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACAT
812603 CTGGGCATAT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:812595 original size:32 final size:32
Alignment explanation
Indices: 812558--812633 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
812548 CATTTTATAG
**
812558 TGTATCGATACATCTGGGCAAATTTGCCTGTA
1 TGTATCGATACATCTGGGCAAATTTGCCTACA
*
812590 TGTATCGATACATCTGGGCATATTTGCCTACA
1 TGTATCGATACATCTGGGCAAATTTGCCTACA
812622 TGTATCGATACA
1 TGTATCGATACA
812634 AAGATTAGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATCTGGGCAAATTTGCCTACA
Found at i:812660 original size:13 final size:13
Alignment explanation
Indices: 812642--812666 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
812632 CAAAGATTAG
812642 TGTATCGATACAA
1 TGTATCGATACAA
812655 TGTATCGATACA
1 TGTATCGATACA
812667 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:812745 original size:32 final size:33
Alignment explanation
Indices: 812704--812772 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
812694 GGAAGTAGCT
812704 TACATTGTATCGATACAAAAC-TTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
*
812736 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
812769 TACA
1 TACA
812773 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 20 0.57
33 15 0.43
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCGA
Done.