Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold280
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: 318473
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 2 of 2
Found at i:166700 original size:28 final size:29
Alignment explanation
Indices: 166676--166982 Score: 353
Period size: 28 Copynumber: 10.9 Consensus size: 29
166666 TAGACTTTAG
* * *
166676 AAGGATACCACTAACTTGTGGAC-TTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTTGA
*
166704 AA-GATGCCACTGACTTGTGGGTTTTTG-
1 AAGGATGCCACTGACTTGTGGGCTTTTGA
* * * *
166731 AAGTATACCACTAACTTGTGGAC-TTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTTGA
166759 AAGGATGCCACTGACTTGTGGGC-TTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTTGA
166787 AAGGATGCCACTGACTTGTGGGCTTTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTTGA
* *
166816 AAGGATGCCACTGACTCGTGAGCTTTTG-
1 AAGGATGCCACTGACTTGTGGGCTTTTGA
* *
166844 AAGGATACCAGTGACTTGTGGGCTTTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTTGA
** *
166873 AAGGATGCTGCTGACTCGTGGGCTTTTG-
1 AAGGATGCCACTGACTTGTGGGCTTTTGA
166901 AAGGATGCCACTGACTTGTGGGC-TTTGA
1 AAGGATGCCACTGACTTGTGGGCTTTTGA
* * **
166929 AAGGATGTCGCTGACTCATGGGCTTTTG-
1 AAGGATGCCACTGACTTGTGGGCTTTTGA
***
166957 AAGGATGCTGGTGACTTGTGGGCTTT
1 AAGGATGCCACTGACTTGTGGGCTTT
166983 GACTTACGTG
Statistics
Matches: 236, Mismatches: 36, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
27 26 0.11
28 152 0.64
29 58 0.25
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (29 bp):
AAGGATGCCACTGACTTGTGGGCTTTTGA
Found at i:166841 original size:57 final size:56
Alignment explanation
Indices: 166670--166984 Score: 391
Period size: 57 Copynumber: 5.6 Consensus size: 56
166660 CTTATGTAGA
* * * *
166670 CTTTAGAAGGATACCACTAACTTGTGGACTTTGAAA-GATGCCACTGACTTGTGGG
1 CTTTTGAAGGATACCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGG
* * * * *
166725 TTTTTGAAGTATACCACTAACTTGTGGACTTTGAAAGGATGCCACTGACTTGTGGG
1 CTTTTGAAGGATACCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGG
* *
166781 C-TTTGAAAGGATGCCACTGACTTGTGGGCTTTTGAAAGGATGCCACTGACTCGTGAG
1 CTTTTG-AAGGATACCACTGACTTGTGGGC-TTTGAAAGGATGCCACTGACTCGTGGG
* **
166838 CTTTTGAAGGATACCAGTGACTTGTGGGCTTTTGAAAGGATGCTGCTGACTCGTGGG
1 CTTTTGAAGGATACCACTGACTTGTGGGC-TTTGAAAGGATGCCACTGACTCGTGGG
* * * *
166895 CTTTTGAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGTCGCTGACTCATGGG
1 CTTTTGAAGGATACCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGG
* ***
166951 CTTTTGAAGGATGCTGGTGACTTGTGGGCTTTGA
1 CTTTTGAAGGATACCACTGACTTGTGGGCTTTGA
166985 CTTACGTGAT
Statistics
Matches: 233, Mismatches: 23, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
55 37 0.16
56 93 0.40
57 99 0.42
58 4 0.02
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (56 bp):
CTTTTGAAGGATACCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGG
Found at i:167036 original size:28 final size:28
Alignment explanation
Indices: 167005--167178 Score: 89
Period size: 28 Copynumber: 6.2 Consensus size: 28
166995 AGAGAAAGTT
*
167005 GGCTTAAACCTATATGCT-AGCGAATGTG
1 GGCTTAAACCTACATGCTGA-CGAATGTG
* * *
167033 GGCTTAGACTTACGTGCTGACGAATGTG
1 GGCTTAAACCTACATGCTGACGAATGTG
* * * ** *
167061 GGCTTAGACTTACGTGCCAATGAATGTG
1 GGCTTAAACCTACATGCTGACGAATGTG
* * * * *
167089 AGCTTAGACTTACACGCTAACGAATGTG
1 GGCTTAAACCTACATGCTGACGAATGTG
** * * **
167117 GGCTTTGACTTACGTGCCAACGAATGTG
1 GGCTTAAACCTACATGCTGACGAATGTG
* * * * **
167145 GACTTAGACTTACGTGCCAACGAATGTG
1 GGCTTAAACCTACATGCTGACGAATGTG
167173 GGCTTA
1 GGCTTA
167179 GATTGTGTGC
Statistics
Matches: 125, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
28 124 0.99
29 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (28 bp):
GGCTTAAACCTACATGCTGACGAATGTG
Found at i:167061 original size:84 final size:84
Alignment explanation
Indices: 166973--167318 Score: 268
Period size: 84 Copynumber: 4.1 Consensus size: 84
166963 GCTGGTGACT
* * * * *
166973 TGTGGGCTTTGACTTACGTGATAGA-GAAAGTTG-GCTTAAACCTATATGCTAGCGAATGTGGGC
1 TGTGGGCTTAGACTTACGTGACA-ATGAAAG-TGAGCTTAAACCTACACGCTAACGAATGTGGGC
**
167036 TTAGACTTACGTGCTGACGAA
64 TTAGACTTACGTGCCAACGAA
* * * *
167057 TGTGGGCTTAGACTTACGTGCCAATGAATGTGAGCTTAGACTTACACGCTAACGAATGTGGGCTT
1 TGTGGGCTTAGACTTACGTGACAATGAAAGTGAGCTTAAACCTACACGCTAACGAATGTGGGCTT
*
167122 TGACTTACGTGCCAACGAA
66 AGACTTACGTGCCAACGAA
* * * * * * * **** * * * *
167141 TGTGGACTTAGACTTACGTGCCAACGAATGTGGGCTTAGA-TTGTGTGCCAATGCATATGGGCTT
1 TGTGGGCTTAGACTTACGTGACAATGAAAGTGAGCTTAAACCTACACGCTAACGAATGTGGGCTT
* *
167205 AGACTTATGTGCCAATGAA
66 AGACTTACGTGCCAACGAA
* * * * * * ** * ** * *
167224 TGTGGGCTTAGA-TTATGTGCCAACGCATGTGGGCTTTGACTTACGTGCCAATGAATGTGGGCTT
1 TGTGGGCTTAGACTTACGTGACAATGAAAGTGAGCTTAAACCTACACGCTAACGAATGTGGGCTT
167288 AGACTTACGTGCCAACGAA
66 AGACTTACGTGCCAACGAA
167307 TGTGGGCTTAGA
1 TGTGGGCTTAGA
167319 TTGTGTGCCA
Statistics
Matches: 223, Mismatches: 36, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
82 24 0.11
83 95 0.43
84 104 0.47
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (84 bp):
TGTGGGCTTAGACTTACGTGACAATGAAAGTGAGCTTAAACCTACACGCTAACGAATGTGGGCTT
AGACTTACGTGCCAACGAA
Found at i:167179 original size:28 final size:28
Alignment explanation
Indices: 167025--167342 Score: 408
Period size: 28 Copynumber: 11.5 Consensus size: 28
167015 TATATGCTAG
**
167025 CGAATGTGGGCTTAGACTTACGTGCTGA
1 CGAATGTGGGCTTAGACTTACGTGCCAA
167053 CGAATGTGGGCTTAGACTTACGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAA
* * ** *
167081 TGAATGTGAGCTTAGACTTACACGCTAA
1 CGAATGTGGGCTTAGACTTACGTGCCAA
*
167109 CGAATGTGGGCTTTGACTTACGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAA
*
167137 CGAATGTGGACTTAGACTTACGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAA
**
167165 CGAATGTGGGCTTAGA-TTGTGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAA
* * * *
167192 TGCATATGGGCTTAGACTTATGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAA
* *
167220 TGAATGTGGGCTTAGA-TTATGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAA
* *
167247 CGCATGTGGGCTTTGACTTACGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAA
*
167275 TGAATGTGGGCTTAGACTTACGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAA
**
167303 CGAATGTGGGCTTAGA-TTGTGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAA
*
167330 CGCATGTGGGCTT
1 CGAATGTGGGCTT
167343 CTTTTTGATA
Statistics
Matches: 253, Mismatches: 35, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
27 67 0.26
28 186 0.74
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (28 bp):
CGAATGTGGGCTTAGACTTACGTGCCAA
Found at i:167217 original size:55 final size:56
Alignment explanation
Indices: 167025--167342 Score: 408
Period size: 55 Copynumber: 5.7 Consensus size: 56
167015 TATATGCTAG
**
167025 CGAATGTGGGCTTAGACTTACGTGCTGACGAATGTGGGCTTAGACTTACGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAACGAATGTGGGCTTAGACTTACGTGCCAA
* * ** * *
167081 TGAATGTGAGCTTAGACTTACACGCTAACGAATGTGGGCTTTGACTTACGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAACGAATGTGGGCTTAGACTTACGTGCCAA
* **
167137 CGAATGTGGACTTAGACTTACGTGCCAACGAATGTGGGCTTAGA-TTGTGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAACGAATGTGGGCTTAGACTTACGTGCCAA
* * * * * *
167192 TGCATATGGGCTTAGACTTATGTGCCAATGAATGTGGGCTTAGA-TTATGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAACGAATGTGGGCTTAGACTTACGTGCCAA
* * *
167247 CGCATGTGGGCTTTGACTTACGTGCCAATGAATGTGGGCTTAGACTTACGTGCCAA
1 CGAATGTGGGCTTAGACTTACGTGCCAACGAATGTGGGCTTAGACTTACGTGCCAA
** *
167303 CGAATGTGGGCTTAGA-TTGTGTGCCAACGCATGTGGGCTT
1 CGAATGTGGGCTTAGACTTACGTGCCAACGAATGTGGGCTT
167343 CTTTTTGATA
Statistics
Matches: 228, Mismatches: 33, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
55 117 0.51
56 111 0.49
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (56 bp):
CGAATGTGGGCTTAGACTTACGTGCCAACGAATGTGGGCTTAGACTTACGTGCCAA
Found at i:167234 original size:83 final size:83
Alignment explanation
Indices: 167026--167342 Score: 411
Period size: 83 Copynumber: 3.8 Consensus size: 83
167016 ATATGCTAGC
** * *
167026 GAATGTGGGCTTAGACTTACGTGCTGACGAATGTGGGCTTAGACTTACGTGCCAATGAATGTGAG
1 GAATGTGGGCTTAGACTTACGTGCCAACGAATGTGGGCTTAGA-TTACGTGCCAACGAATGTGGG
** * *
167091 CTTAGACTTACACGCTAAC
65 CTTAGACTTACGTGCCAAT
* *
167110 GAATGTGGGCTTTGACTTACGTGCCAACGAATGTGGACTTAGACTTACGTGCCAACGAATGTGGG
1 GAATGTGGGCTTAGACTTACGTGCCAACGAATGTGGGCTTAGA-TTACGTGCCAACGAATGTGGG
**
167175 CTTAGA-TTGTGTGCCAAT
65 CTTAGACTTACGTGCCAAT
* * * * * *
167193 GCATATGGGCTTAGACTTATGTGCCAATGAATGTGGGCTTAGATTATGTGCCAACGCATGTGGGC
1 GAATGTGGGCTTAGACTTACGTGCCAACGAATGTGGGCTTAGATTACGTGCCAACGAATGTGGGC
*
167258 TTTGACTTACGTGCCAAT
66 TTAGACTTACGTGCCAAT
** *
167276 GAATGTGGGCTTAGACTTACGTGCCAACGAATGTGGGCTTAGATTGTGTGCCAACGCATGTGGGC
1 GAATGTGGGCTTAGACTTACGTGCCAACGAATGTGGGCTTAGATTACGTGCCAACGAATGTGGGC
167341 TT
66 TT
167343 CTTTTTGATA
Statistics
Matches: 204, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
82 24 0.12
83 115 0.56
84 65 0.32
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (83 bp):
GAATGTGGGCTTAGACTTACGTGCCAACGAATGTGGGCTTAGATTACGTGCCAACGAATGTGGGC
TTAGACTTACGTGCCAAT
Found at i:169377 original size:5 final size:5
Alignment explanation
Indices: 169367--169399 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
169357 GATTATGCAA
169367 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
169400 AAGGGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:172040 original size:13 final size:13
Alignment explanation
Indices: 172022--172047 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
172012 CAATTTTTTG
172022 TGTATCGATACAT
1 TGTATCGATACAT
172035 TGTATCGATACAT
1 TGTATCGATACAT
172048 ACTTGGTGTA
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:172062 original size:32 final size:33
Alignment explanation
Indices: 172002--172065 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
171992 TACAAGCCAA
** *
172002 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
172035 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
172066 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:174621 original size:13 final size:13
Alignment explanation
Indices: 174603--174628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
174593 ATAATCACCC
174603 TGTATCGATACAA
1 TGTATCGATACAA
174616 TGTATCGATACAA
1 TGTATCGATACAA
174629 AGAAAAATGT
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):
TGTATCGATACAA
Found at i:178570 original size:21 final size:21
Alignment explanation
Indices: 178541--178585 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
178531 AAGTTTTTAT
*
178541 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
178561 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
178583 TTT
1 TTT
178586 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:181172 original size:13 final size:13
Alignment explanation
Indices: 181154--181179 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
181144 CAATTTTTTG
181154 TGTATCGATACAT
1 TGTATCGATACAT
181167 TGTATCGATACAT
1 TGTATCGATACAT
181180 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:183578 original size:21 final size:21
Alignment explanation
Indices: 183554--183600 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
183544 TTTGATGCTG
183554 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
183574 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
183595 ATTTTG
1 ATTTTG
183601 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:183744 original size:13 final size:13
Alignment explanation
Indices: 183726--183764 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
183716 ATAATCACCC
*
183726 TGTATCGATACAG
1 TGTATCGATACAA
183739 TGTATCGATACAA
1 TGTATCGATACAA
183752 TGTATCGATACAA
1 TGTATCGATACAA
183765 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:183775 original size:20 final size:20
Alignment explanation
Indices: 183750--183828 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
183740 GTATCGATAC
183750 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
183770 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
183795 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
183815 CATGTATCGATACA
1 AATGTATCGATACA
183829 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:185867 original size:15 final size:15
Alignment explanation
Indices: 185847--185877 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
185837 ATTTCGTTTG
*
185847 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
185862 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
185877 G
1 G
185878 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:187710 original size:21 final size:21
Alignment explanation
Indices: 187681--187725 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
187671 AAGTTTTCAT
*
187681 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
187701 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
187723 TTT
1 TTT
187726 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:189961 original size:13 final size:13
Alignment explanation
Indices: 189943--189968 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
189933 CAATTTTTTG
189943 TGTATCGATACAT
1 TGTATCGATACAT
189956 TGTATCGATACAT
1 TGTATCGATACAT
189969 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:190763 original size:20 final size:20
Alignment explanation
Indices: 190738--190789 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
190728 TACAAGCCAA
** *
190738 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
190758 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
190777 TGTATCGATACAA
1 TGTATCGATACAA
190790 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:190795 original size:19 final size:18
Alignment explanation
Indices: 190738--190795 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
190728 TACAAGCCAA
*
190738 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
190758 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
190777 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
190796 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:190882 original size:20 final size:20
Alignment explanation
Indices: 190829--190884 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
190819 ACATCTTTTT
* *
190829 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGAAA
190849 CATGTATCGATACTTTGAAA
1 CATGTATCGATACTTTGAAA
**
190869 TGTGTATCGATACTTT
1 CATGTATCGATACTTT
190885 TAAGGGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGAAA
Found at i:191093 original size:802 final size:807
Alignment explanation
Indices: 189537--191153 Score: 2874
Period size: 802 Copynumber: 2.0 Consensus size: 807
189527 CAACCTTATG
*
189537 ACAACAAGGATTTACTACAAACAAAGTTTGCCTCTAACTAGGCTTGTGTTTGTGGGAATTTAAGC
1 ACAACAAAGATTTACTACAAACAAAGTTTGCCTCTAACTAGGCTTGTGTTTGTGGGAATTTAAGC
189602 TCGAAATAAGAATACAAAGAGCTTAGAAAAATAATGACAATATGAACAAAAGCTCTTGAAAAATA
66 TCGAAATAAGAATACAAAGAGCTTAGAAAAATAATGACAATATGAACAAAAGCTCTTGAAAAATA
*
189667 TAAAACGCTTTGATCTTTGAATGCTAGATGTTTCTTGCTTGGTTCTACTTCTCTCTATTTTTGTT
131 TAAAACGCTTTGATCTTTGAATGCTAGATGTTTCTTGCTTGATTCTACTTCTCTCTATTTTTGTT
189732 TTGCTGCTGGAAGCTCTTATTTATAGGCTTCAATGTTGTTGTAGCCGTTGGAGTTTGATTAATGG
196 TTGCTGCTGGAAGCTCTTATTTATAGGCTTCAATGTTGTTGTAGCCGTTGGAGTTTGATTAATGG
*
189797 AGTTTCTAGCCGTTATTGACTTGTTGGAGCTTGTTTTAATGATTTCCCGTGTAAATGTATCGATA
261 AGTTTCTAGCCGTTATTGACTCGTTGGAGCTTGTTTTAATGATTTCCCGTGTAAATGTATCGATA
*
189862 CAATTTTTGATGTATCGATACATATTTGAAAATATAGCCGTTTATAGCCGTTACAAGCCAATGTA
326 CAATTTCTGATGTATCGATACATATTTGAAAATATAGCCGTTTATAGCCGTTACAAGCCAATGTA
189927 TCGATACAATTTTTTGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATACAAGTTT
391 TCGATACAA--TTTTGTGTATCG----A-TGTATCGATACATACTTGCTGTATCGATACAAGTTT
189992 GGCTACTGCCAAGAAATGTATCGATACATCTTTTTCATGTATCGATACATTACAACATGTATCGA
449 GGCTACTGCCAAGAAATGTATCGATACATCTTTTTCATGTATCGATACATTACAACATGTATCGA
* *
190057 TACTTTGAATTGTGTATCGATACTTTTAAGGGTTTTGACAATTTTAGCCTAAGTCAACCTTAATG
514 TACTTTGAAATGTGTATCGATACTTTTAAGGGTATTGACAATTTTAGCCTAAGTCAACCTTAATG
190122 TATCGATACAAATACCTATGTATCGATACTTTGATACATTTTAACTTAAAAATCAATCATTTTAA
579 TATCGATACAAATACCTATGTATCGATACTTTGATACATTTTAACTTAAAAATCAATCATTTTAA
*
190187 GCCTTGAAAACATTTGTACTTAACTAGAAAACATTTAGTGAATCAAAAATCATTTGGTACAAAAT
644 GCCTTGAAAACATTTATACTTAACTAGAAAACATTTAGTGAATCAAAAATCATTTGGTACAAAAT
* *
190252 TTATAAAGCATTTAATTGAATAAAACATATTATTGTTATTTTCAAAATAATTTCCGGTTTTATTC
709 TTATAAAGCACTTAATTAAATAAAACATATTATTGTTATTTTCAAAATAATTTCCGGTTTTATTC
190317 AATCCTTTGTTATATCAAAACCAAGATCCTAACA
774 AATCCTTTGTTATATCAAAACCAAGATCCTAACA
*
190351 ACAACAAAGATTTACTACAAACAAAGTTTGCCTCTAACTAGGCTTGTGTTTTTGGGAATTTAAGC
1 ACAACAAAGATTTACTACAAACAAAGTTTGCCTCTAACTAGGCTTGTGTTTGTGGGAATTTAAGC
*
190416 TCGAAATCAA-AATACAAAGAGCTTAGAAAAATAATGACAATATGAATAAAAGCTCTTGAAAAAA
66 TCGAAAT-AAGAATACAAAGAGCTTAGAAAAATAATGACAATATGAACAAAAGCTCTTG-AAAAA
* *
190480 TATAAAATGCTTTGATCTTTGAATGCTAGATGTTTCTTGCTTGATTCTTCTTGC-CTCT-TATTT
129 TATAAAACGCTTTGATCTTTGAATGCTAGATGTTTCTTGCTTGATTCTACTT-CTCTCTAT-TTT
*
190543 TGTTTTGCTGCTGGAAGCTCTTATTTATAGGCTTCAATGTTGTTGTAGCCGTTGGGGTTTGATTA
192 TGTTTTGCTGCTGGAAGCTCTTATTTATAGGCTTCAATGTTGTTGTAGCCGTTGGAGTTTGATTA
*
190608 GTGGAGTTTCTAGCCGTTATTGACTCGTTGGAGCTTGTTTTAATGATTTCCCGTGTAAATGTATC
257 ATGGAGTTTCTAGCCGTTATTGACTCGTTGGAGCTTGTTTTAATGATTTCCCGTGTAAATGTATC
*
190673 GATACAATTTCTGATGTATCGATACATATTTGAAAATATAGCCGTTTCTAGCCGTTACAAGCCAA
322 GATACAATTTCTGATGTATCGATACATATTTGAAAATATAGCCGTTTATAGCCGTTACAAGCCAA
*
190738 TGTATCGATACAA-TTT-T-T-T-G-TGTATCGATACATACTTGGTGTATCGATACAAGTTTGGC
387 TGTATCGATACAATTTTGTGTATCGATGTATCGATACATACTTGCTGTATCGATACAAGTTTGGC
*
190797 TACTGCCAAGAAATGTATCGATACATCTTTTTCATGTATCGATACATTGCAACATGTATCGATAC
452 TACTGCCAAGAAATGTATCGATACATCTTTTTCATGTATCGATACATTACAACATGTATCGATAC
190862 TTTGAAATGTGTATCGATACTTTTAAGGGTATTGACAATTTTAGCCTAAGTCAACCTTAATGTAT
517 TTTGAAATGTGTATCGATACTTTTAAGGGTATTGACAATTTTAGCCTAAGTCAACCTTAATGTAT
* *
190927 CGATACAAATACCTATGTATCGATACTTTGATATATTTTAACTTAAAATTCAATCATTTTAAGCC
582 CGATACAAATACCTATGTATCGATACTTTGATACATTTTAACTTAAAAATCAATCATTTTAAGCC
* *
190992 TTGAAAACATTTATCCTTAACTAGAAAACATTTGGTGAATCAAAAATCATTTGGTACAAAATTTA
647 TTGAAAACATTTATACTTAACTAGAAAACATTTAGTGAATCAAAAATCATTTGGTACAAAATTTA
191057 TAAAGCACTTAATTAAATAAAACATATTATTGTTATTTTCAAAATAATTTCCGGTTTTATTCAAT
712 TAAAGCACTTAATTAAATAAAACATATTATTGTTATTTTCAAAATAATTTCCGGTTTTATTCAAT
191122 CCTTTGTTATATCAAAACCAAGATCCTAACA
777 CCTTTGTTATATCAAAACCAAGATCCTAACA
191153 A
1 A
191154 ACGTTAACTG
Statistics
Matches: 777, Mismatches: 22, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
802 385 0.50
808 1 0.00
809 1 0.00
810 1 0.00
811 1 0.00
812 3 0.00
814 118 0.15
815 266 0.34
816 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (807 bp):
ACAACAAAGATTTACTACAAACAAAGTTTGCCTCTAACTAGGCTTGTGTTTGTGGGAATTTAAGC
TCGAAATAAGAATACAAAGAGCTTAGAAAAATAATGACAATATGAACAAAAGCTCTTGAAAAATA
TAAAACGCTTTGATCTTTGAATGCTAGATGTTTCTTGCTTGATTCTACTTCTCTCTATTTTTGTT
TTGCTGCTGGAAGCTCTTATTTATAGGCTTCAATGTTGTTGTAGCCGTTGGAGTTTGATTAATGG
AGTTTCTAGCCGTTATTGACTCGTTGGAGCTTGTTTTAATGATTTCCCGTGTAAATGTATCGATA
CAATTTCTGATGTATCGATACATATTTGAAAATATAGCCGTTTATAGCCGTTACAAGCCAATGTA
TCGATACAATTTTGTGTATCGATGTATCGATACATACTTGCTGTATCGATACAAGTTTGGCTACT
GCCAAGAAATGTATCGATACATCTTTTTCATGTATCGATACATTACAACATGTATCGATACTTTG
AAATGTGTATCGATACTTTTAAGGGTATTGACAATTTTAGCCTAAGTCAACCTTAATGTATCGAT
ACAAATACCTATGTATCGATACTTTGATACATTTTAACTTAAAAATCAATCATTTTAAGCCTTGA
AAACATTTATACTTAACTAGAAAACATTTAGTGAATCAAAAATCATTTGGTACAAAATTTATAAA
GCACTTAATTAAATAAAACATATTATTGTTATTTTCAAAATAATTTCCGGTTTTATTCAATCCTT
TGTTATATCAAAACCAAGATCCTAACA
Found at i:196028 original size:109 final size:108
Alignment explanation
Indices: 195896--196321 Score: 437
Period size: 108 Copynumber: 3.9 Consensus size: 108
195886 AAATGAATTA
* * ** * *
195896 TCCTATATAAAGGGCGTTCGTATGCCACTTTACGACTCTACACGATGATTTATTTTGGGGCCAAT
1 TCCTATGTAAAGGGCGTTCGTATGCCACTTTACGACTCTAGACGATGACCTATTTCGAGGCCAAT
* * * * *
195961 CTCTTAGTGATCGAATATTATGTAAGTAATGCAAAAATAATTTG
66 CTTTTGGTGACCGAAT-TTATGTAATTAATGCAAAAATAAGTTG
* * ** *
196005 TCCTATGCAAAGGGCATTCGTATGCTGCTTTACGATTCTAGACGATGACCTATTTCGAGGCCAAT
1 TCCTATGTAAAGGGCGTTCGTATGCCACTTTACGACTCTAGACGATGACCTATTTCGAGGCCAAT
*
196070 CTTTTGGTGCCCGAATTTATGTAATTAATGCAAAAATAAGTTG
66 CTTTTGGTGACCGAATTTATGTAATTAATGCAAAAATAAGTTG
* * * * * * * * *
196113 TCCAATGTAGAGGACGTTCGTACAT-CGA-TTTACGACTCAAGACAATGACCCATTTTGGGGCCA
1 TCCTATGTAAAGGGCGTTCGT--ATGCCACTTTACGACTCTAGACGATGACCTATTTCGAGGCCA
* *
196176 ATCTTTTGGT-ACCCAGATTTACGTAATTAATGCAAAAATAAGTTG
64 ATCTTTTGGTGACCGA-ATTTATGTAATTAATGCAAAAATAAGTTG
* * * * * *
196221 TCTTATGTAGAGGGCGTTCGTACGTCACCTTATGACTCTAGACGATGACCTATTTCGAGGCCAAT
1 TCCTATGTAAAGGGCGTTCGTATGCCACTTTACGACTCTAGACGATGACCTATTTCGAGGCCAAT
* ** *
196286 CTTTTGGTG-CTCAAATTTACATAATTAGTGCAAAAA
66 CTTTTGGTGAC-CGAATTTATGTAATTAATGCAAAAA
196322 AGAATTTTAA
Statistics
Matches: 261, Mismatches: 49, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
106 1 0.00
107 4 0.02
108 185 0.71
109 69 0.26
110 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (108 bp):
TCCTATGTAAAGGGCGTTCGTATGCCACTTTACGACTCTAGACGATGACCTATTTCGAGGCCAAT
CTTTTGGTGACCGAATTTATGTAATTAATGCAAAAATAAGTTG
Found at i:198010 original size:19 final size:19
Alignment explanation
Indices: 197971--198011 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
197961 GGTTTCATTG
*
197971 ATTTTTTGATTTTGATTTT
1 ATTTTTTGATTTTGATATT
197990 ATTTTTTGATTTTTG-TATT
1 ATTTTTTGA-TTTTGATATT
198009 ATT
1 ATT
198012 AAACCGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (19 bp):
ATTTTTTGATTTTGATATT
Found at i:200459 original size:79 final size:78
Alignment explanation
Indices: 200350--200737 Score: 438
Period size: 79 Copynumber: 4.9 Consensus size: 78
200340 TCATTGATGT
* * * *
200350 TTTTATTTCTAAAATACGAATTTTCTACCATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGA
1 TTTTATTTCTAAAACACCAA-TTTCCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
200415 TACTCCAACCTCAG
65 TACTCCAACCTCAG
* * * *
200429 TTTTATTTCTAAAACATCAATTGTCCACCATCAGGGATACTCCAACCCCGTCATTTTTGAGGGGA
1 TTTTATTTCTAAAACACCAATT-TCCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
*
200494 TACTCCAACCCCAG
65 TACTCCAACCTCAG
* * *
200508 TTTTATTTCTAAAACACCAATTTTTCACCATTGGGGATACTCCAA-CCCGTTATTTCTGAGGAGA
1 TTTTATTTCTAAAACACCAA-TTTCCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
*
200572 TACTCCAACC-CCG
65 TACTCCAACCTCAG
* * * * * * * * *
200585 ATTTTATTTCTAAAATATCGATTTCCACCATCAGAGATACTTCAACCCTGTTATTTTTGAGGGGT
1 -TTTTATTTCTAAAACACCAATTTCCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
* *
200650 TATTCCAACCTCGG
65 TACTCCAACCTCAG
* ** * * * *
200664 TTTCATTTCTAAAACACCAATCTTCCATTATCGGGGATATTCCAACCCCATTATTTCTGAAGGAA
1 TTTTATTTCTAAAACACCAAT-TTCCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
200729 TACTCCAAC
65 TACTCCAAC
200738 TCCATTTTTA
Statistics
Matches: 255, Mismatches: 48, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
77 21 0.08
78 86 0.34
79 146 0.57
80 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (78 bp):
TTTTATTTCTAAAACACCAATTTCCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGAT
ACTCCAACCTCAG
Found at i:209180 original size:83 final size:83
Alignment explanation
Indices: 209041--209209 Score: 320
Period size: 83 Copynumber: 2.0 Consensus size: 83
209031 ACTCATATGG
209041 GTTTGAAGTTAACTATCGACAAAGGTGCCCAAGTTGAAAAAGGCCTTGGAAAACACCTCCAAGGG
1 GTTTGAAGTTAACTATCGACAAAGGTGCCCAAGTTGAAAAAGGCCTTGGAAAACACCTCCAAGGG
209106 ATGGCTAGAGCTTTGAAA
66 ATGGCTAGAGCTTTGAAA
* *
209124 GTTTGAAGTTAACTATCGGCAAAGGTGCCCAAGTTGAAAGAGGCCTTGGAAAACACCTCCAAGGG
1 GTTTGAAGTTAACTATCGACAAAGGTGCCCAAGTTGAAAAAGGCCTTGGAAAACACCTCCAAGGG
209189 ATGGCTAGAGCTTTGAAA
66 ATGGCTAGAGCTTTGAAA
209207 GTT
1 GTT
209210 GTCAACCAGA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (83 bp):
GTTTGAAGTTAACTATCGACAAAGGTGCCCAAGTTGAAAAAGGCCTTGGAAAACACCTCCAAGGG
ATGGCTAGAGCTTTGAAA
Found at i:209736 original size:19 final size:20
Alignment explanation
Indices: 209714--209753 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
209704 AACTCCCAGA
*
209714 CCTTTTCTA-CATACTTTTT
1 CCTTTTATATCATACTTTTT
*
209733 CCTTTTATATCATTCTTTTT
1 CCTTTTATATCATACTTTTT
209753 C
1 C
209754 ACATTTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.15, C:0.25, G:0.00, T:0.60
Consensus pattern (20 bp):
CCTTTTATATCATACTTTTT
Found at i:213274 original size:8 final size:8
Alignment explanation
Indices: 213260--213305 Score: 67
Period size: 8 Copynumber: 5.8 Consensus size: 8
213250 CCTTTCTTTT
213260 CAAAAAAA
1 CAAAAAAA
213268 -AAAAAAA
1 CAAAAAAA
*
213275 CAACAACAA
1 CAA-AAAAA
213284 CAAAAAAA
1 CAAAAAAA
213292 CAAAAAAA
1 CAAAAAAA
213300 CAAAAA
1 CAAAAA
213306 GTGGAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 7 0.21
8 20 0.59
9 7 0.21
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:213426 original size:21 final size:21
Alignment explanation
Indices: 213400--213439 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
213390 CTAAGTCGAA
213400 ACACCAGATCATAGCCTAACC
1 ACACCAGATCATAGCCTAACC
213421 ACACCAGATCATAGCCTAA
1 ACACCAGATCATAGCCTAA
213440 TCGACTTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.35, G:0.10, T:0.15
Consensus pattern (21 bp):
ACACCAGATCATAGCCTAACC
Found at i:214683 original size:20 final size:19
Alignment explanation
Indices: 214634--214683 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
214624 ACAATTGTGC
*
214634 ATGTATCGATACAAAGATC
1 ATGTATCGATACAAAGATA
*
214653 TTGTATCGATACAAAGCATA
1 ATGTATCGATACAAAG-ATA
*
214673 ATGTATTGATA
1 ATGTATCGATA
214684 TATCTAGATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (19 bp):
ATGTATCGATACAAAGATA
Found at i:215629 original size:61 final size:60
Alignment explanation
Indices: 215555--215845 Score: 419
Period size: 61 Copynumber: 4.8 Consensus size: 60
215545 GGTCATTTTC
*
215555 CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTCT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTT-T
* * *
215616 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGATGCCTTCT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTT-T
*
215677 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCTAGTCCTCAAAGAGCAGGA--CACTTT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGATGC-CTTT
* * *
215736 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAAGCCGTTT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC-TTT
* *
215797 CTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTTAAAGAGCA
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA
215846 AGACATTTTC
Statistics
Matches: 211, Mismatches: 13, Indels: 13
0.89 0.05 0.05
Matches are distributed among these distances:
59 49 0.23
60 53 0.25
61 109 0.52
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (60 bp):
CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTT
Found at i:218115 original size:79 final size:79
Alignment explanation
Indices: 218005--218764 Score: 809
Period size: 79 Copynumber: 9.6 Consensus size: 79
217995 TTTCATTGAT
* * * *
218005 ATTTTATTTCTAAAGCATCGA-TTTTCTACCATTGGGGATACTCCAATCCTGTTATTTCTGAGGG
1 ATTTTATTTCTAAAACATCGATTTTTC-ACCATCGGGGATACTCCAACCCTGTTATTTTTGAGGG
*
218069 GATGCTCCAACCCTG
65 GATACTCCAACCCTG
* * * * * * *
218084 ATTTTATTTCTAAAATAGT-GATTTTCCACCATCAGGGATACTCTAACCCCGTTATTCTCGAGGG
1 ATTTTATTTCTAAAACA-TCGATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTTGAGGG
* *
218148 GATACTCTAACCCCG
65 GATACTCCAACCCTG
* * * * * * ** *
218163 ATTTTATTTTTAAAACACCAATTTTCCA-CACCAGGGATACTCCAACAGTGTTATTTTTGTGGGG
1 ATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTTGAGGGG
* *
218227 ATACTCCAATCTTG
66 ATACTCCAACCCTG
* * *
218241 ATTTTATTTTTAAAACATCGATTTTTTACCATCGGGGATACTCCAGCCCTGTTATTTTTGAGGGG
1 ATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTTGAGGGG
218306 ATACTCCAACCCTG
66 ATACTCCAACCCTG
* * * *
218320 GTTTTATTTCTAAAACATCAATTTTTCACCATTGGGGATACTTCAACCCTGTTATTTTTGAGGGG
1 ATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTTGAGGGG
* *
218385 ATACTCCAA-TCTCA
66 ATACTCCAACCCT-G
* * * * *
218399 ATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATAATCTAACTCTGCTATTTTCGAGGGG
1 ATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTTGAGGGG
218464 ATACTCCAA-CCTCG
66 ATACTCCAACCCT-G
* * * *
218478 ATTTTATTTCTAAAACATCGATTTTCCACCATTGGGGATACTCCAATCCC-GTTATTTTCGACGG
1 ATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAA-CCCTGTTATTTTTGAGGG
**
218542 GATA-TGCCAACCCCA
65 GATACT-CCAACCCTG
** * * * *
218557 ATTTTATTTCTAAAACATCGATTTTTCACCATTAGGGATACTCCAA-CCTCATCATTTCTAAGGG
1 ATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCT-GTTATTTTTGAGGG
218621 GATACTCCAACCCTG
65 GATACTCCAACCCTG
* * * * *
218636 ATTGTATTTCTAAAACA-CTGATTTTTCACTATCGGAGATACTCTAACCCTGTTATTTTTGAAGG
1 ATTTTATTTCTAAAACATC-GATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTTGAGGG
* * *
218700 GATGCTCTAACCTTG
65 GATACTCCAACCCTG
* * ** *
218715 ATTTTATTTCCAAAATATCGATTTTTCACCATTAGGGATGCTCCAACCCT
1 ATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCT
218765 ATTTTTATTT
Statistics
Matches: 563, Mismatches: 104, Indels: 28
0.81 0.15 0.04
Matches are distributed among these distances:
77 2 0.00
78 66 0.12
79 481 0.85
80 14 0.02
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.36
Consensus pattern (79 bp):
ATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTGTTATTTTTGAGGGG
ATACTCCAACCCTG
Found at i:218793 original size:50 final size:51
Alignment explanation
Indices: 218697--218817 Score: 156
Period size: 50 Copynumber: 2.4 Consensus size: 51
218687 TTATTTTTGA
* * *
218697 AGGGATGCTCTAACCTTGA-TTTTATTTCCAAAATATCGATTTTTCACCATT
1 AGGGATGCTCCAACCCT-ATTTTTATTTCCAAAATATCGATTTTTCACCATC
* *
218748 AGGGATGCTCCAACCCTATTTTTATTTTCAAAA-ATTGATTTTTCACCATC
1 AGGGATGCTCCAACCCTATTTTTATTTCCAAAATATCGATTTTTCACCATC
* *
218798 AGGGATACTTCAACCCTATT
1 AGGGATGCTCCAACCCTATT
218818 ATTTTTGAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 34 0.55
51 28 0.45
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (51 bp):
AGGGATGCTCCAACCCTATTTTTATTTCCAAAATATCGATTTTTCACCATC
Found at i:218869 original size:129 final size:130
Alignment explanation
Indices: 218619--218868 Score: 323
Period size: 129 Copynumber: 1.9 Consensus size: 130
218609 CATTTCTAAG
*
218619 GGGATACTCCAACCCTGATTGTATTTCTAAAACACTGATTTTTCACTATCGGAGATACTCTAACC
1 GGGATACTCCAACCCTGATTGTATTTCTAAAACACTGATTTTTCACCATCGGAGATACTCTAACC
* * * * *
218684 CTGTTATTTTTGAAGGGATGCTCTAACCTTGATTTTATTTCCAAAATATCGATTTTTCACCATTA
66 CTATTATTTTTGAAGGGATACTCTAACCTTGATTTTATCTCAAAAATATCAATTTTTCACCATTA
* * *
218749 GGGATGCTCCAACCCT-ATTTTTATTT-TCAAAA-ATTGATTTTTCACCATCAGG-GATACT-TC
1 GGGATACTCCAACCCTGA-TTGTATTTCT-AAAACACTGATTTTTCACCATC-GGAGATACTCT-
* *
218809 AACCCTATTATTTTTGAAGGGATACTCTAACCTT-TTTTTATCTCAAAAATATTAATTTTT
62 AACCCTATTATTTTTGAAGGGATACTCTAACCTTGATTTTATCTCAAAAATATCAATTTTT
218869 TTTATCAGGG
Statistics
Matches: 105, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
128 22 0.21
129 55 0.52
130 28 0.27
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (130 bp):
GGGATACTCCAACCCTGATTGTATTTCTAAAACACTGATTTTTCACCATCGGAGATACTCTAACC
CTATTATTTTTGAAGGGATACTCTAACCTTGATTTTATCTCAAAAATATCAATTTTTCACCATTA
Found at i:226209 original size:34 final size:35
Alignment explanation
Indices: 226169--226234 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
226159 CCTTACAACA
*
226169 CTATCTTTT-CAAAGGTTAAGATAGAACCTCTTCC
1 CTATCTTTTACAAAGGCTAAGATAGAACCTCTTCC
226203 CTATCTTTTACAAAGGCTAAGATAGAACCTCT
1 CTATCTTTTACAAAGGCTAAGATAGAACCTCT
226235 CAATCACTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTACAAAGGCTAAGATAGAACCTCTTCC
Found at i:226486 original size:20 final size:20
Alignment explanation
Indices: 226461--226513 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
226451 CTAATGCTCT
226461 TGATTTCTTAG-TTCTTGTTC
1 TGATTTCTT-GCTTCTTGTTC
226481 TGATTTCTTGCTTCTTGTTC
1 TGATTTCTTGCTTCTTGTTC
226501 TGATTTCTTGCTT
1 TGATTTCTTGCTT
226514 GGAATGCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.08, C:0.17, G:0.15, T:0.60
Consensus pattern (20 bp):
TGATTTCTTGCTTCTTGTTC
Found at i:226715 original size:20 final size:20
Alignment explanation
Indices: 226690--226727 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
226680 TTGGGGCCAA
226690 ATGTATCGATACAATTCACC
1 ATGTATCGATACAATTCACC
226710 ATGTATCGATACAATTCA
1 ATGTATCGATACAATTCA
226728 ATTATGAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:230306 original size:43 final size:46
Alignment explanation
Indices: 230209--230300 Score: 121
Period size: 48 Copynumber: 2.0 Consensus size: 46
230199 ATACCTGGCC
* * *
230209 AAACTCTTTTCTTCCCTCGTTTAACTGTATTGGTGTTAGGGCTTGGT
1 AAACTCTTCTCATCCCTCGTTTAACTGTATTGGTGTTAGGACTT-GT
* *
230256 CAAACTCTTCTCATCCCTCGTTTGATTGTATTGGTGTTAGGACTT
1 -AAACTCTTCTCATCCCTCGTTTAACTGTATTGGTGTTAGGACTT
230301 AACTCTCCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (46 bp):
AAACTCTTCTCATCCCTCGTTTAACTGTATTGGTGTTAGGACTTGT
Found at i:230556 original size:42 final size:42
Alignment explanation
Indices: 230504--230641 Score: 143
Period size: 42 Copynumber: 3.3 Consensus size: 42
230494 CTGATCTGAT
* ** * *
230504 ACTTTTTCATCTTAAGTTTGCCTATTGGCTTTGACCTTAGAG
1 ACTTCTTCATCTTTTGTCTGCCTATTGGCTTTGACCTAAGAG
* *
230546 ACTTCTTCATCTTTTGTCTGCCTATCGGCTTTGACCTAAGAA
1 ACTTCTTCATCTTTTGTCTGCCTATTGGCTTTGACCTAAGAG
** * **
230588 ACTTCCATT-ATCTTTTGTCTGCCCGTTGGCTTAGACCCGAGAG
1 ACTT-C-TTCATCTTTTGTCTGCCTATTGGCTTTGACCTAAGAG
230631 ACTTCTTCATC
1 ACTTCTTCATC
230642 CACCATTTGC
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.03
42 43 0.54
43 32 0.41
44 2 0.03
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (42 bp):
ACTTCTTCATCTTTTGTCTGCCTATTGGCTTTGACCTAAGAG
Found at i:230717 original size:85 final size:85
Alignment explanation
Indices: 230615--230807 Score: 205
Period size: 85 Copynumber: 2.3 Consensus size: 85
230605 TCTGCCCGTT
* * * * * *
230615 GGCTTAGACCC-GAGAGACTTCTTCATCCACCA-TTTGCTTGTC-AGTTTTGGCCTTGGAGACTT
1 GGCTTTGACCCTG-GAGACTTCTTCACCCACAAGTCTGCTTGTCGA-CTTTGACC-TGGAGACTT
* **
230677 CTTCACCCTTAAGTCTACCTGTC
63 CCTCACCCTTAAGTCTACCCATC
**
230700 GGCTTTGACCCTGGAGACTTCTTCACCCTTAAGTCTGCTTGTCGACTTTGACCTGGAGACTTCCT
1 GGCTTTGACCCTGGAGACTTCTTCACCCACAAGTCTGCTTGTCGACTTTGACCTGGAGACTTCCT
*
230765 CACCTTTAAGTCTACCCATC
66 CACCCTTAAGTCTACCCATC
*
230785 AGCTTTGA-CCTGGGAGACTTCTT
1 GGCTTTGACCCT-GGAGACTTCTT
230808 TATTTTTTGT
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
84 3 0.03
85 71 0.78
86 16 0.18
87 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.19, T:0.34
Consensus pattern (85 bp):
GGCTTTGACCCTGGAGACTTCTTCACCCACAAGTCTGCTTGTCGACTTTGACCTGGAGACTTCCT
CACCCTTAAGTCTACCCATC
Found at i:230722 original size:43 final size:42
Alignment explanation
Indices: 230668--230807 Score: 190
Period size: 43 Copynumber: 3.3 Consensus size: 42
230658 GTTTTGGCCT
230668 TGGAGACTTCTTCACCCTTAAGTCTACCTGTCGGCTTTGACCC
1 TGGAGACTTCTTCACCCTTAAGTCTACCTGTCGGCTTTGA-CC
* * *
230711 TGGAGACTTCTTCACCCTTAAGTCTGCTTGTCGACTTTGACC
1 TGGAGACTTCTTCACCCTTAAGTCTACCTGTCGGCTTTGACC
* * ** *
230753 TGGAGACTTCCTCACCTTTAAGTCTACCCATCAGCTTTGACC
1 TGGAGACTTCTTCACCCTTAAGTCTACCTGTCGGCTTTGACC
230795 TGGGAGACTTCTT
1 T-GGAGACTTCTT
230808 TATTTTTTGT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 37 0.44
43 47 0.56
ACGTcount: A:0.18, C:0.30, G:0.19, T:0.34
Consensus pattern (42 bp):
TGGAGACTTCTTCACCCTTAAGTCTACCTGTCGGCTTTGACC
Found at i:230952 original size:42 final size:42
Alignment explanation
Indices: 230906--230986 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
230896 CCACCGTCTA
* *
230906 CCTGTTGGCTTAG-TCTCGAGAGACTTCTTTACCTTTTGTTTG
1 CCTGTCGGCTTAGACCT-GAGAGACTTCTTTACCTTTTGTTTG
* * *
230948 CCTGTCGGCTTTGACCTGGGAGACTTCTTTATCTTTTGT
1 CCTGTCGGCTTAGACCTGAGAGACTTCTTTACCTTTTGT
230987 CTACCCGTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (42 bp):
CCTGTCGGCTTAGACCTGAGAGACTTCTTTACCTTTTGTTTG
Found at i:231245 original size:84 final size:84
Alignment explanation
Indices: 231100--231370 Score: 319
Period size: 84 Copynumber: 3.2 Consensus size: 84
231090 CTCGAGAAAT
* * * * * *
231100 AACCTTCATCCATTATTTACCTATCGACTTAGTCTCAGTTAAACCCATTACCCTTATGGTGACTT
1 AACCTTCATCCATTATTTACCTATTGGCTTAGTCCCCGGTAAACCCATTACCCTTATGGTGACCT
*
231165 GTTAGCTTAGTCTCTGGTC
66 GTTAGCTCAGTCTCTGGTC
* * * *
231184 AACCTTCATCCATTGTTTACCTATTGGCTTAGTCCCCGGTAAGCCTATTACCCTTAAGGTGACCT
1 AACCTTCATCCATTATTTACCTATTGGCTTAGTCCCCGGTAAACCCATTACCCTTATGGTGACCT
* *
231249 GTTAGCTCAATCT-TCGATC
66 GTTAGCTCAGTCTCT-GGTC
* * * * * * * *
231268 AGCCTTCATCTAATATTTACGTATTAGCTTAGTTCTCGGTAAACCCATTACCCTTATGATGACCT
1 AACCTTCATCCATTATTTACCTATTGGCTTAGTCCCCGGTAAACCCATTACCCTTATGGTGACCT
* *
231333 GTCAGCTCAGTCTCCGGTC
66 GTTAGCTCAGTCTCTGGTC
231352 AACCTTCATCCATTATTTA
1 AACCTTCATCCATTATTTA
231371 ATTGTCGGCT
Statistics
Matches: 153, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
83 1 0.01
84 152 0.99
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (84 bp):
AACCTTCATCCATTATTTACCTATTGGCTTAGTCCCCGGTAAACCCATTACCCTTATGGTGACCT
GTTAGCTCAGTCTCTGGTC
Found at i:231655 original size:84 final size:84
Alignment explanation
Indices: 231383--231668 Score: 232
Period size: 84 Copynumber: 3.4 Consensus size: 84
231373 TGTCGGCTTG
** * * * * *
231383 GTCCCAGGTACTTCCTTTTATCTTTTGTCGACTTCTCGGTCCAATCTCAGTCAATTTCTTTATCT
1 GTCCCAGGTAAAT-CTTTTATCTTTTGTTGACTTATCGGTCCAATCCCAGTCAACTTCTTTATCC
** *
231448 TTTGTTTACCCATCGACCTA
65 TTTGTTTACTTATCGACTTA
* * ** ** * * ** ** *
231468 GTCCTTAGGTAAATCCTTTATCCCTCATTGACTTGTCAGTTTAATCCTGGTTAACTT-TTTATCC
1 GTCC-CAGGTAAATCTTTTATCTTTTGTTGACTTATCGGTCCAATCCCAGTCAACTTCTTTATCC
** * * * *
231532 TTCATTCATTTGTCGACTTG
65 TTTGTTTACTTATCGACTTA
* **
231552 GTCCCAAGTATTTCTTTTTATCTTTTGTTGACTTATCGGTCCAATCCCAGTCAACTTCTTTATCC
1 GTCCCAGGTAAATC-TTTTATCTTTTGTTGACTTATCGGTCCAATCCCAGTCAACTTCTTTATCC
*
231617 TTTGTTTACTTATCGGCTTA
65 TTTGTTTACTTATCGACTTA
*
231637 GTCCCAGGTAAATCTTTTATCTATTGTTGACT
1 GTCCCAGGTAAATCTTTTATCTTTTGTTGACT
231669 CGTCAGCTCA
Statistics
Matches: 143, Mismatches: 55, Indels: 7
0.70 0.27 0.03
Matches are distributed among these distances:
83 6 0.04
84 68 0.48
85 63 0.44
86 6 0.04
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (84 bp):
GTCCCAGGTAAATCTTTTATCTTTTGTTGACTTATCGGTCCAATCCCAGTCAACTTCTTTATCCT
TTGTTTACTTATCGACTTA
Found at i:231656 original size:42 final size:42
Alignment explanation
Indices: 231610--231745 Score: 121
Period size: 42 Copynumber: 3.2 Consensus size: 42
231600 AGTCAACTTC
*
231610 TTTATCCTTTGTTTACTTATCGGCTTAGTCCCAGGTAAATCT
1 TTTATCCTTTGTTTACTTGTCGGCTTAGTCCCAGGTAAATCT
* * * * * *
231652 TTTAT-CTATTGTTGACTCGTCAGCTCAGTCCCTGGTAAACCT
1 TTTATCCT-TTGTTTACTTGTCGGCTTAGTCCCAGGTAAATCT
* * * * * ***
231694 TTTATCCCTTGATTACCTGTTGGCTTGGTCTTGGGTAAATCT
1 TTTATCCTTTGTTTACTTGTCGGCTTAGTCCCAGGTAAATCT
231736 TTTATCCTTT
1 TTTATCCTTT
231746 TTGTCCCGAT
Statistics
Matches: 71, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
41 2 0.03
42 68 0.96
43 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (42 bp):
TTTATCCTTTGTTTACTTGTCGGCTTAGTCCCAGGTAAATCT
Found at i:231699 original size:169 final size:170
Alignment explanation
Indices: 231333--231700 Score: 422
Period size: 169 Copynumber: 2.2 Consensus size: 170
231323 ATGATGACCT
* * * * *
231333 GTCAGCTCAGTCTCC-GGTCAACC-TTCATCCATTATTTAATTGTCGGCTTGGTCCCAGGTACTT
1 GTCAGCTCAGTC-CCTGGTAAACCTTTTATCCATTATTCAATTGTCGACTTGGTCCCAAGTACTT
* * * *
231396 CCTTTTATCTTTTGTCGACTTCTCGGTCCAATCTCAGTCAATTTCTTTATCTTTTGTTTACCCAT
65 CCTTTTATCTTTTGTCGACTTATCGGTCCAATCCCAGTCAACTTCTTTATCCTTTGTTTACCCAT
* * *
231461 CGACCTAGTCCTTAGGTAAATCCTTTATCCCTCATTGACTT
130 CGACCTAGTCCTCAGGTAAATCCTTTATCCATCATTGACTC
* * * * * * *
231502 GTCAGTTTAAT-CCTGGTTAACTTTTTATCC-TTCATTCATTTGTCGACTTGGTCCCAAGTATTT
1 GTCAGCTCAGTCCCTGGTAAACCTTTTATCCATT-ATTCAATTGTCGACTTGGTCCCAAGTACTT
* * **
231565 CTTTTTATCTTTTGTTGACTTATCGGTCCAATCCCAGTCAACTTCTTTATCCTTTGTTTACTTAT
65 CCTTTTATCTTTTGTCGACTTATCGGTCCAATCCCAGTCAACTTCTTTATCCTTTGTTTACCCAT
* * * * **
231630 CGGCTTAGTCC-CAGGTAAATCTTTTATCTATTGTTGACTC
130 CGACCTAGTCCTCAGGTAAATCCTTTATCCATCATTGACTC
231670 GTCAGCTCAGTCCCTGGTAAACCTTTTATCC
1 GTCAGCTCAGTCCCTGGTAAACCTTTTATCC
231701 CTTGATTACC
Statistics
Matches: 162, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
167 2 0.01
168 38 0.23
169 122 0.75
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.43
Consensus pattern (170 bp):
GTCAGCTCAGTCCCTGGTAAACCTTTTATCCATTATTCAATTGTCGACTTGGTCCCAAGTACTTC
CTTTTATCTTTTGTCGACTTATCGGTCCAATCCCAGTCAACTTCTTTATCCTTTGTTTACCCATC
GACCTAGTCCTCAGGTAAATCCTTTATCCATCATTGACTC
Found at i:233391 original size:143 final size:145
Alignment explanation
Indices: 233136--233409 Score: 355
Period size: 143 Copynumber: 1.9 Consensus size: 145
233126 GTTTTTAAAA
* * * *
233136 ATTAATTCATTTTCATGAGTTTTTGATTTTTTTCTTGAAATTCTCTTTTTTTTAAATACGGTGTT
1 ATTAATTCATTTTCATGAGTTTTTGATTTTTTTATTGAAATTCTCTTTTTTTAAAATACCGAGTT
* * **
233201 TTCTACTCCGTAAATTTTTTCAAGGGGATTTTTCTTTGTTTTCAATTTTTAAAATTCATCAAATA
66 TTCTACTCCATAAATTTTTT-AAGGGGATTTTTCTATGTTTAAAATTTTTAAAATTCATCAAATA
233266 TCATCATTTGATTCAT
130 TCATCATTTGATTCAT
233282 ATTAATTCATTTTCATGAGTTTTTGGA-TTTTTTATTG-AA-T-T-TTTTTTTAAGAATACCGAG
1 ATTAATTCATTTTCATGAGTTTTT-GATTTTTTTATTGAAATTCTCTTTTTTTAA-AATACCGAG
* *
233342 TTTTCTTCTCCATAAATATTTTT-AGGGGAATTTTT-TATGATTTAAAATTTTTAAAATTCATCT
64 TTTTCTACTCCATAAAT-TTTTTAAGGGG-ATTTTTCTATG-TTTAAAATTTTTAAAATTCATCA
233405 AATAT
126 AATAT
233410 TGTTATGTGA
Statistics
Matches: 113, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
142 16 0.14
143 54 0.48
144 6 0.05
145 2 0.02
146 33 0.29
147 2 0.02
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (145 bp):
ATTAATTCATTTTCATGAGTTTTTGATTTTTTTATTGAAATTCTCTTTTTTTAAAATACCGAGTT
TTCTACTCCATAAATTTTTTAAGGGGATTTTTCTATGTTTAAAATTTTTAAAATTCATCAAATAT
CATCATTTGATTCAT
Found at i:235545 original size:14 final size:14
Alignment explanation
Indices: 235526--235552 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
235516 ACTAAATGCA
235526 AGCATTAGGAAATT
1 AGCATTAGGAAATT
235540 AGCATTAGGAAAT
1 AGCATTAGGAAAT
235553 CTAGAGACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (14 bp):
AGCATTAGGAAATT
Found at i:236567 original size:156 final size:154
Alignment explanation
Indices: 235959--236638 Score: 624
Period size: 156 Copynumber: 4.4 Consensus size: 154
235949 GGTAAAATCA
* * * * **
235959 CCATTTCAAACCTTTTTAAGTCCTTTA-GGAGTACC-GAGTACTTGTACGTCGAAGGTAT-CTCC
1 CCATTTCTAATCTTTTTAAGTCCTTTAGGGA-TACCGGAATACTTTTACGTCGAAGGTATACTTG
* * * * * * * * ***
236021 TAGGGGCATTTTCATAATTTTTTAGAATCGAGTCCTAGGTCATCATCGGGTCTGCTTTTATGTTG
65 TA-GGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCGTCACCAGGTCCGCTTTTATGCCA
236086 AAGGTGGGCATTTAAGATAGGTTCAT
129 AAGGTGGGCATTTAAGATAGGTTCAT
* * * **
236112 CACATTTCTAATCTTTTTTAAGTCCTTTAGGGATACTGGGATACTTTCACGTTAAAGGTATACCC
1 C-CATTTCTAATC-TTTTTAAGTCCTTTAGGGATACCGGAATACTTTTACGTCGAAGGTATA--C
** * * * * *
236177 TTAAAGGGTATTTTGGTAATTTTTTAGAATCAAGTCCTAGGTCGTCACCGGGTCCG-TTTTATGC
62 TTGTAGGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCGTCACCAGGTCCGCTTTTATGC
*
236241 CAAAGGTGGGCATTTAAGATAGGGTCAT
127 CAAAGGTGGGCATTTAAGATAGGTTCAT
* * *
236269 CCTATTTCTAATCTTTTGAAGTCCTTTAGGGATGCCAGG-ATACTTTTATGTCGAAGGTATACTT
1 CC-ATTTCTAATCTTTTTAAGTCCTTTAGGGATACC-GGAATACTTTTACGTCGAAGGTATACTT
* * * * * *
236333 GTAGTGG-ATTTTCGTAACTTTCTAGAACCAACTCTTAGGTTGTTACCAGGTTCGCTTTTATGCC
64 GTAG-GGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCGTCACCAGGTCCGCTTTTATGCC
* *
236397 AAAGGTGGGTATTTAGGATAGTGTT-AT
128 AAAGGTGGGCATTTAAGATAG-GTTCAT
* * * * *
236424 CCATTCTCTAGTCTTTTTAAGTTCTTTAGGGTTACCGGAATACTTTTACTTTGAAGGTATACTTG
1 CCATT-TCTAATCTTTTTAAGTCCTTTAGGGATACCGGAATACTTTTACGTCGAAGGTATACTTG
* * ** * *
236489 TAGGGACATTTTCGTAATTTTTTAGAACCATCTCCTAGGTCGTAACCAGGTTTGTTTTTATGCTG
65 TAGGG-CATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCGTCACCAGGTCCGCTTTTATGC-C
* *
236554 AAA-ATGGGCATTTAGGATAGGTTCAT
128 AAAGGTGGGCATTTAAGATAGGTTCAT
* * * * *
236580 CCCATTTCT-ATCCCTTTTAAGTCCTTTAGGGGTATCGG-GTACTTCTACGTCGAAGGTAT
1 -CCATTTCTAAT-CTTTTTAAGTCCTTTAGGGATACCGGAATACTTTTACGTCGAAGGTAT
236639 CCCTACGATG
Statistics
Matches: 434, Mismatches: 73, Indels: 38
0.80 0.13 0.07
Matches are distributed among these distances:
153 1 0.00
154 58 0.13
155 124 0.29
156 151 0.35
157 53 0.12
158 44 0.10
159 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (154 bp):
CCATTTCTAATCTTTTTAAGTCCTTTAGGGATACCGGAATACTTTTACGTCGAAGGTATACTTGT
AGGGCATTTTCGTAATTTTTTAGAACCAACTCCTAGGTCGTCACCAGGTCCGCTTTTATGCCAAA
GGTGGGCATTTAAGATAGGTTCAT
Found at i:239205 original size:13 final size:13
Alignment explanation
Indices: 239187--239211 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
239177 CATAAAATGT
239187 TGTATCGATACAA
1 TGTATCGATACAA
239200 TGTATCGATACA
1 TGTATCGATACA
239212 TATTTTTTTG
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:239295 original size:13 final size:13
Alignment explanation
Indices: 239277--239301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
239267 ATTACTCACA
239277 TGTATCGATACAT
1 TGTATCGATACAT
239290 TGTATCGATACA
1 TGTATCGATACA
239302 CTGATCTTTG
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:239438 original size:52 final size:52
Alignment explanation
Indices: 239310--239430 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
239300 CACTGATCTT
*
239310 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTAGAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTAGAAAA
**
239362 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTAGAAAA
239414 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
239431 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTAGAAAA
Found at i:246674 original size:16 final size:17
Alignment explanation
Indices: 246653--246694 Score: 70
Period size: 16 Copynumber: 2.6 Consensus size: 17
246643 CCTACTCTTC
246653 ACAAAAAAAAAAA-AAA
1 ACAAAAAAAAAAACAAA
246669 ACAAAAAAAAAAACAAA
1 ACAAAAAAAAAAACAAA
246686 A-AAAAAAAA
1 ACAAAAAAAA
246695 GGAAAAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (17 bp):
ACAAAAAAAAAAACAAA
Found at i:246676 original size:12 final size:12
Alignment explanation
Indices: 246655--246693 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
246645 TACTCTTCAC
246655 AAAA-AAAAAAA
1 AAAACAAAAAAA
246666 AAAACAAAAAAA
1 AAAACAAAAAAA
246678 AAAACAAAAAAA
1 AAAACAAAAAAA
246690 AAAA
1 AAAA
246694 AGGAAAAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.15
12 23 0.85
ACGTcount: A:0.95, C:0.05, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAACAAAAAAA
Found at i:246701 original size:1 final size:1
Alignment explanation
Indices: 246655--246694 Score: 62
Period size: 1 Copynumber: 40.0 Consensus size: 1
246645 TACTCTTCAC
* *
246655 AAAAAAAAAAAAAAACAAAAAAAAAAACAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
246695 GGAAAAACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.95, C:0.05, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:247813 original size:96 final size:96
Alignment explanation
Indices: 247683--248790 Score: 1221
Period size: 96 Copynumber: 11.4 Consensus size: 96
247673 CCACGACTCA
* * *
247683 GTGGCA-TTTTTTTC-T-TTAAAGCCCAAAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAAC
1 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAAC
247745 TCCGTGGCACCCTTTTAAAGCCCACAATTCC
66 TCCGTGGCACCCTTTTAAAGCCCACAATTCC
247776 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAAC
1 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAAC
247841 TCCGTGGCACCCTTTTAAAGCCCACAATTCC
66 TCCGTGGCACCCTTTTAAAGCCCACAATTCC
247872 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAAC
1 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAAC
247937 TCCGTGGCACCCTTTTAAAGCCCACAATTCC
66 TCCGTGGCACCCTTTTAAAGCCCACAATTCC
*
247968 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAAGCCCACAA
1 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT-AAGTCCACAA
* ** * *
248027 TTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCC
65 CTCCGTGGCACCCTTTT-A-----AAGCCCACAATTCC
* ** * *
248065 GTGGCATCTTTCTCCCTTCTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACA
1 GTGGCA-CTTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACA
248130 ACTCCGTGGCACCCTTTTAAAGCCCACAATTCC
64 ACTCCGTGGCACCCTTTTAAAGCCCACAATTCC
248163 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAAC
1 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAAC
248228 TCCGTGGCACCCTTTTAAAGCCCACAATTCC
66 TCCGTGGCACCCTTTTAAAGCCCACAATTCC
*
248259 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGTCACCTTGTTCCTTTTAAGTCCACAAC
1 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAAC
248324 TCCGTGGCACCCTTTTAAAGCCCACAATTCC
66 TCCGTGGCACCCTTTTAAAGCCCACAATTCC
*
248355 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAAGCCCACAA
1 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT-AAGTCCACAA
* ** * *
248414 TTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCC
65 CTCCGTGGCACCCTTTT-A-----AAGCCCACAATTCC
** * * * * *
248452 GTGGCAC-CCTTTT-A-----AAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACA
1 GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCAC-CTTGTTCCT-TTTAAGTCCACA
* *
248510 ACTCCGTGGCACCTTGTTCCTTTT-AAGTCCACAACTCC
64 ACTCCGTGGCA-C-----CCTTTTAAAGCCCACAATTCC
* * * * *
248548 GTGGCAC-CTTTTTC-TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCC
1 GTGGCACTTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCAC-CTTGTTC-CTTTT--AAGTCC
* * *
248611 ACGACTCCGTGGCACTC-TTTAAAGCCCACAACTCC
61 ACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCC
* * * * * *
248646 GTGGCAC-CTTCTTC-TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCC
1 GTGGCACTTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCAC-CTTGTT-CCTTTT--AAGTCC
* *
248709 ACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCC
61 ACAACTCCGTGGCAC-----CCTTTTAAAGCCCACAATTCC
* *
248750 GTGGCACTCTTTTTC-CCTTTTAAGTCCACAACTCCGTGGCA
1 GTGGCACTTTTTTTCATC-TTTAAGTCCACAACTCCGTGGCA
248791 TCTTTCTCCC
Statistics
Matches: 899, Mismatches: 57, Indels: 106
0.85 0.05 0.10
Matches are distributed among these distances:
90 30 0.03
91 46 0.05
92 2 0.00
93 6 0.01
94 8 0.01
95 4 0.00
96 451 0.50
97 71 0.08
98 121 0.13
99 20 0.02
100 1 0.00
102 30 0.03
103 9 0.01
104 66 0.07
105 31 0.03
106 3 0.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (96 bp):
GTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAAC
TCCGTGGCACCCTTTTAAAGCCCACAATTCC
Found at i:248408 original size:387 final size:380
Alignment explanation
Indices: 247694--248790 Score: 1618
Period size: 387 Copynumber: 2.8 Consensus size: 380
247684 TGGCATTTTT
*
247694 TTCTTTAAAGCCCAAAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTT
1 TTCTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTT
247759 TTAAAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTT
66 TTAAAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTT
247824 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTTCAT
131 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTTCAT
247889 CTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTA
196 CTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTA
247954 AAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCTTTTAAA
261 AAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCTTTTAAA
248019 GCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCATCTTTCTCCC
326 GCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA-------CCC
248081 TTCTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTT
1 TTCTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTT
248146 TTAAAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTT
66 TTAAAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTT
248211 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTTCAT
131 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTTCAT
*
248276 CTTTAAGTCCACAACTCCGTGTCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTA
196 CTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTA
248341 AAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCTTTTAAA
261 AAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCTTTTAAA
248406 GCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCC
326 GCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCC
* * * *
248461 -T-TTTAAAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCT
1 TTCTTTAAAGCCCACAACTCCGTGGCAC-CTTGTTCCT-TTTAAGTCCACAACTCCGTGGCA-C-
* * * * *
248524 TGTTCCTTTT-AAGTCCACAACTCCGTGGCAC-CTTTTTC-TGTTTAAAGCCCACAACTCCGTGG
62 ----CCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTTCATCTTT-AAGTCCACAACTCCGTGG
* * * * *
248586 CACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCACTC-TTTAAAGCCCACAACTCCGTGG
122 CAC-CTTGTTC-CTTTT--AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGG
* * * * * *
248650 CAC-CTTCTTC-TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAA
183 CACTTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCAC-CTTGTT-CCTTTT--AAGTCCACAA
* * * *
248713 CTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-CCTTTTAAGTCC
243 CTCCGTGGCAC-----CCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTTCATC-TTTAAGTCC
248777 ACAACTCCGTGGCA
302 ACAACTCCGTGGCA
248791 TCTTTCTCCC
Statistics
Matches: 659, Mismatches: 27, Indels: 40
0.91 0.04 0.06
Matches are distributed among these distances:
378 24 0.04
379 7 0.01
380 26 0.04
381 1 0.00
383 4 0.01
384 26 0.04
385 29 0.04
386 35 0.05
387 404 0.61
388 26 0.04
390 20 0.03
394 1 0.00
395 56 0.08
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (380 bp):
TTCTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTT
TTAAAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTT
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTTCAT
CTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTA
AAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCTTTTAAA
GCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCC
Found at i:248492 original size:28 final size:28
Alignment explanation
Indices: 248380--248762 Score: 149
Period size: 34 Copynumber: 11.8 Consensus size: 28
248370 ATCTTTAAGT
248380 CCACAACTCCGTGGCACCCTTTTAAAGC
1 CCACAACTCCGTGGCACCCTTTTAAAGC
* ** *
248408 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACCCTTTT-A-----AAGC
248442 CCACAACTCCGTGGCACCCTTTTAAAGC
1 CCACAACTCCGTGGCACCCTTTTAAAGC
* ** *
248470 CCACAATTCCGTGGCACTTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCAC-CCTTTT-A-----AAGC
*
248505 CCACAACTCCGTGGCACCTTGTTCCTTTT-AAGT
1 CCACAACTCCGTGGCA-C-----CCTTTTAAAGC
248538 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACC-----CT-TTTAAAGC
248572 CCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGC
1 CCACAACTCCGTGGCA--C-----C-CTTTT-AAAGC
* *
248609 CCACGACTCCGTGGCACTC-TTTAAAGC
1 CCACAACTCCGTGGCACCCTTTTAAAGC
248636 CCACAACTCCGTGGCACCTTCTTCTGTTTAAAGC
1 CCACAACTCCGTGGCA-C--C--CT-TTTAAAGC
248670 CCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCA--------CCCTTTT-AAAGC
*
248707 CCACAACTCCGTGGCACTTTTTTCTTTTAAAGC
1 CCACAACTCCGTGGCAC-----CCTTTTAAAGC
*
248740 CCACAACTCCGTGGCACTCTTTT
1 CCACAACTCCGTGGCACCCTTTT
248763 TCCCTTTTAA
Statistics
Matches: 280, Mismatches: 22, Indels: 106
0.69 0.05 0.26
Matches are distributed among these distances:
27 21 0.08
28 49 0.17
29 7 0.03
30 1 0.00
32 4 0.01
33 46 0.16
34 71 0.25
35 19 0.07
36 8 0.03
37 46 0.16
39 1 0.00
40 5 0.02
41 2 0.01
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (28 bp):
CCACAACTCCGTGGCACCCTTTTAAAGC
Found at i:248634 original size:483 final size:473
Alignment explanation
Indices: 247668--248790 Score: 1435
Period size: 483 Copynumber: 2.3 Consensus size: 473
247658 ATTTTGTCTC
* * * * *
247668 AAAGTCCACGACTCAGTGGCA-TTTTTTTCTTTAAAGCCCAAAACTCCGTGGCACCTTGTTCCTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTTCTTTTAAGCCCACAACTCCGTGGCACCTTGTTCCTT
247732 TTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTTCATCTTT
66 TTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTTCATCTTT
247797 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGC
131 AAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGC
247862 CCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTA
196 CCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACC----TCCTTTTA
* * **
247927 AGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAG
257 AGCCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACTCCTTTTCA----TAAG
* * * *
247992 TCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCC
318 CCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCATCTTTAAGTCC
*
248057 ACAACTCCGTGGCATCTTTCTCCCTTCTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTA
383 ACAACTCCGTGGCACCTTTCTCCCTTCTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTA
*
248122 AGTCCACAACTCCGTGGCACCCTTTT
448 AGCCCACAACTCCGTGGCACCCTTTT
* *
248148 AAAGCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCC
1 AAAGCCCACAACTCCGTGGCACTTTTTTTC-T-TTTAAGCCCACAACTCCGTGGCACCTTGTTCC
248213 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTTCATCT
64 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTTCATCT
*
248278 TTAAGTCCACAACTCCGTGTCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAA
129 TTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAA
248343 GCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA-C-CCTTTTAAA
194 GCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTCCTTTT-AA
* ** *
248406 GCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCAC-CCTTTT-A-AA
258 GCCCACAACTCCGTGGCACCCTTTT-A-----AAGCCCACAACTCCGTGGCACTCCTTTTCATAA
* ** * *
248468 GCCCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTGTTCCT-T
317 GCCCACAACTCCGTGGCAC-CCTTTT-A-----AAGCCCACAACTCCGTGGCACCTTGTTCATCT
* * *
248532 TTAAGTCCACAACTCCGTGGCACCTTT-T-TC-TGTTTAAAGCCCACAACTCCGTGGCACTCTTT
375 TTAAGTCCACAACTCCGTGGCACCTTTCTCCCTTCTTTAAAGCCCACAACTCCGTGGCAC-CTTG
* *
248594 TTCTCTTTTCAAAGCCCACGACTCCGTGGCACTC-TTT
439 TTC-CTTTT--AAGCCCACAACTCCGTGGCACCCTTTT
* * *
248631 AAAGCCCACAACTCCGTGGCAC-CTTCTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAACTCCGTGGCACTTTTTTTCT-TTT-AAGCCCACAACTCCGTGGCAC-CTTGTT-
* * * *
248695 CCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCT
62 CCTTTT--AAGTCCACAACTCCGTGGCAC-----CCTTTTAAAGCCCACAATTCCGTGGCACTTT
*
248760 TTTTC-CCTTTTAAGTCCACAACTCCGTGGCA
120 TTTTCATC-TTTAAGTCCACAACTCCGTGGCA
248791 TCTTTCTCCC
Statistics
Matches: 567, Mismatches: 44, Indels: 53
0.85 0.07 0.08
Matches are distributed among these distances:
477 25 0.04
478 27 0.05
479 2 0.00
480 43 0.08
481 19 0.03
482 34 0.06
483 271 0.48
484 70 0.12
486 20 0.04
490 1 0.00
491 55 0.10
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (473 bp):
AAAGCCCACAACTCCGTGGCACTTTTTTTCTTTTAAGCCCACAACTCCGTGGCACCTTGTTCCTT
TTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTTCATCTTT
AAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGC
CCACAATTCCGTGGCACTTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTCCTTTTAAGCC
CACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACTCCTTTTCATAAGCCCACAAC
TCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCATCTTTAAGTCCACAACTCC
GTGGCACCTTTCTCCCTTCTTTAAAGCCCACAACTCCGTGGCACCTTGTTCCTTTTAAGCCCACA
ACTCCGTGGCACCCTTTT
Found at i:248801 original size:34 final size:34
Alignment explanation
Indices: 247697--248816 Score: 710
Period size: 35 Copynumber: 34.4 Consensus size: 34
247687 CATTTTTTTC
* *
247697 TTTAAAGCCCAAAACTCCGTGGCACCTTGTT-CCT
1 TTTAAAGCCCACAACTCCGTGGCA-CTTTTTCCCT
*
247731 TTT-AAGTCCACAACTCCGTGGCA------CCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTCCCT
* * *
247758 TTTAAAGCCCACAATTCCGTGGCACTTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCAC-TTTTTCCCT
* *
247793 CTTT-AAGTCCACAACTCCGTGGCACCTTGTT-CCT
1 -TTTAAAGCCCACAACTCCGTGGCA-CTTTTTCCCT
*
247827 TTT-AAGTCCACAACTCCGTGGCA------CCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTCCCT
* * *
247854 TTTAAAGCCCACAATTCCGTGGCACTTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCAC-TTTTTCCCT
* *
247889 CTTT-AAGTCCACAACTCCGTGGCACCTTGTT-CCT
1 -TTTAAAGCCCACAACTCCGTGGCA-CTTTTTCCCT
*
247923 TTT-AAGTCCACAACTCCGTGGCA------CCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTCCCT
* * *
247950 TTTAAAGCCCACAATTCCGTGGCACTTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCAC-TTTTTCCCT
*
247985 CTTT-AAGTCCACAACTCCGTGGCA------CCCT
1 -TTTAAAGCCCACAACTCCGTGGCACTTTTTCCCT
* * *
248013 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTCCCT
* *
248047 CTTT-AAGTCCACAACTCCGTGGCATCTTTCTCCCTT
1 -TTTAAAGCCCACAACTCCGTGGCA-CTTTTTCCC-T
*
248083 CTTTAAAGCCCACAACTCCGTGGCACCTTGTT-CCT
1 -TTTAAAGCCCACAACTCCGTGGCA-CTTTTTCCCT
*
248118 TTT-AAGTCCACAACTCCGTGGCA------CCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTCCCT
* * *
248145 TTTAAAGCCCACAATTCCGTGGCACTTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCAC-TTTTTCCCT
* *
248180 CTTT-AAGTCCACAACTCCGTGGCACCTTGTT-CCT
1 -TTTAAAGCCCACAACTCCGTGGCA-CTTTTTCCCT
*
248214 TTT-AAGTCCACAACTCCGTGGCA------CCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTCCCT
* * *
248241 TTTAAAGCCCACAATTCCGTGGCACTTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCAC-TTTTTCCCT
* * *
248276 CTTT-AAGTCCACAACTCCGTGTCACCTTGTT-CCT
1 -TTTAAAGCCCACAACTCCGTGGCA-CTTTTTCCCT
*
248310 TTT-AAGTCCACAACTCCGTGGCA------CCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTCCCT
* * *
248337 TTTAAAGCCCACAATTCCGTGGCACTTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCAC-TTTTTCCCT
*
248372 CTTT-AAGTCCACAACTCCGTGGCA------CCCT
1 -TTTAAAGCCCACAACTCCGTGGCACTTTTTCCCT
* * *
248400 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTCCCT
*
248434 CTTT-AAGTCCACAACTCCGTGGCA------CCCT
1 -TTTAAAGCCCACAACTCCGTGGCACTTTTTCCCT
* * *
248462 TTTAAAGCCCACAATTCCGTGGCACTTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCAC-TTTTTCCCT
* *
248497 CTTT-AAGTCCACAACTCCGTGGCACCTTGTT-CCT
1 -TTTAAAGCCCACAACTCCGTGGCA-CTTTTTCCCT
*
248531 TTT-AAGTCCACAACTCCGTGGCACCTTTTT--CT
1 TTTAAAGCCCACAACTCCGTGGCA-CTTTTTCCCT
*
248563 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCT
1 -TTTAAAGCCCACAACTCCGTGGCA--CTTTTTCCCT
*
248600 TTTCAAAGCCCACGACTCCGTGGCAC----T--C-
1 TTT-AAAGCCCACAACTCCGTGGCACTTTTTCCCT
*
248628 TTTAAAGCCCACAACTCCGTGGCACCTTCTT--CT
1 TTTAAAGCCCACAACTCCGTGGCA-CTTTTTCCCT
248661 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 -TTTAAAGCCCACAACTCCGTGGCA--CTTTTTCCCT
*
248698 TTTCAAAGCCCACAACTCCGTGGCACTTTTT-TCT
1 TTT-AAAGCCCACAACTCCGTGGCACTTTTTCCCT
248732 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCA--CTTTTTCCCT
* *
248768 TTT-AAGTCCACAACTCCGTGGCATCTTTCTCCCT
1 TTTAAAGCCCACAACTCCGTGGCA-CTTTTTCCCT
248802 TCTCTAAAGCCCACA
1 T-T-TAAAGCCCACA
248817 CAAGTCGATG
Statistics
Matches: 876, Mismatches: 94, Indels: 229
0.73 0.08 0.19
Matches are distributed among these distances:
27 65 0.07
28 172 0.20
29 1 0.00
31 1 0.00
32 4 0.00
33 181 0.21
34 115 0.13
35 216 0.25
36 45 0.05
37 76 0.09
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACTTTTTCCCT
Found at i:248912 original size:33 final size:34
Alignment explanation
Indices: 248798--248938 Score: 223
Period size: 34 Copynumber: 4.2 Consensus size: 34
248788 GCATCTTTCT
248798 CCCTTCTCTAAAGCCCACACAAGTCGATGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGATGGCAAA
248832 CCCTTCTCTAAAGCCCACACAAGTCGATGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGATGGCAAA
* * *
248866 CCCTTCTCCAAAGCCCACACAAGTTGGTGGC-AA
1 CCCTTCTCTAAAGCCCACACAAGTCGATGGCAAA
* *
248899 CCATTCTCTAAAGCCCACACAAGTCGGTGGC-AA
1 CCCTTCTCTAAAGCCCACACAAGTCGATGGCAAA
248932 CCCTTCT
1 CCCTTCT
248939 AAGCCCAATA
Statistics
Matches: 100, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
33 38 0.38
34 62 0.62
ACGTcount: A:0.29, C:0.36, G:0.16, T:0.19
Consensus pattern (34 bp):
CCCTTCTCTAAAGCCCACACAAGTCGATGGCAAA
Found at i:248931 original size:67 final size:67
Alignment explanation
Indices: 248798--248938 Score: 221
Period size: 67 Copynumber: 2.1 Consensus size: 67
248788 GCATCTTTCT
* *
248798 CCCTTCTCTAAAGCCCACACAAGTCGATGGCAAACCCTTCTCTAAAGCCCACACAAGTCGATGGC
1 CCCTTCTCCAAAGCCCACACAAGTCGATGGCAAACCATTCTCTAAAGCCCACACAAGTCGATGGC
248863 AAA
66 -AA
* * *
248866 CCCTTCTCCAAAGCCCACACAAGTTGGTGGC-AACCATTCTCTAAAGCCCACACAAGTCGGTGGC
1 CCCTTCTCCAAAGCCCACACAAGTCGATGGCAAACCATTCTCTAAAGCCCACACAAGTCGATGGC
248930 AA
66 AA
248932 CCCTTCT
1 CCCTTCT
248939 AAGCCCAATA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
66 9 0.13
67 31 0.46
68 28 0.41
ACGTcount: A:0.29, C:0.36, G:0.16, T:0.19
Consensus pattern (67 bp):
CCCTTCTCCAAAGCCCACACAAGTCGATGGCAAACCATTCTCTAAAGCCCACACAAGTCGATGGC
AA
Found at i:252453 original size:20 final size:20
Alignment explanation
Indices: 252428--252482 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
252418 AAAAAGATAG
*
252428 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAA
*
252448 AATGTATTGATACATTGAAA
1 AATGTATCGATACATTGAAA
* *
252468 AATATATCAATACAT
1 AATGTATCGATACAT
252483 CTAGGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:257193 original size:21 final size:20
Alignment explanation
Indices: 257146--257199 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
257136 CATTTTAGGC
257146 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
*
257166 ATGTATCGATATATTGC-CTT
1 ATGTATCGATACATT-CACTT
257186 ATTGTATCGATACA
1 A-TGTATCGATACA
257200 AATTATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:258392 original size:16 final size:17
Alignment explanation
Indices: 258368--258401 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
258358 CTCGACTGTC
*
258368 TAAACTAAATTT-TTAT
1 TAAAATAAATTTATTAT
258384 TAAAATAAATTTATTAT
1 TAAAATAAATTTATTAT
258401 T
1 T
258402 TCGTGTAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAAATAAATTTATTAT
Found at i:262674 original size:61 final size:60
Alignment explanation
Indices: 262585--262855 Score: 179
Period size: 61 Copynumber: 4.6 Consensus size: 60
262575 AGATGAGAAG
* * * * *
262585 AGTGCCAATGTGCTGATTCAAGGTCAGTGACATTGGACTAAAGGAT-ATGAAGAATGATAAA
1 AGTGCCAATATACTGATTCAAGGCCAGTGATATTGGACTAAA-GATGA-GAAGAACGATAAA
* * *
262646 GGTGCTAATATACTGATTCATA-GCCAGTGATA-TCGAGCTTAAAGATGAGAAGAACGATAAA
1 AGTGCCAATATACTGATTCA-AGGCCAGTGATATTGGA-C-TAAAGATGAGAAGAACGATAAA
* * * *
262707 AGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCT-AA-A--AGATG-AC----AA
1 AGTGCCAATATACTGATTCAAGGCCAGTGATATTGGACTAAAGATGAGAAGAACGATAAA
* * * * * * * * * *
262758 AGTTGCCAATGTGCTGATTTAAGGCTAGCGACATTAGACTTCAAGATAAGAAGAATGATAAA
1 AG-TGCCAATATACTGATTCAAGGCCAGTGATATTGGAC-TAAAGATGAGAAGAACGATAAA
* *
262820 GGTGCCAATATATTGATTCAAGGCCAGTGATATTGG
1 AGTGCCAATATACTGATTCAAGGCCAGTGATATTGG
262856 GCTTAAAGGT
Statistics
Matches: 161, Mismatches: 32, Indels: 34
0.71 0.14 0.15
Matches are distributed among these distances:
51 4 0.02
52 30 0.19
53 1 0.01
54 2 0.01
55 3 0.02
56 4 0.02
57 4 0.02
58 2 0.01
59 2 0.01
60 5 0.03
61 93 0.58
62 11 0.07
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (60 bp):
AGTGCCAATATACTGATTCAAGGCCAGTGATATTGGACTAAAGATGAGAAGAACGATAAA
Found at i:262842 original size:21 final size:21
Alignment explanation
Indices: 262818--262885 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
262808 AAGAATGATA
262818 AAGGTGCCAATATATTGATTC
1 AAGGTGCCAATATATTGATTC
* * *
262839 AA-G-GCCAGTGATATTGGGCTTA
1 AAGGTGCCAAT-ATATT--GATTC
**
262861 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATATTGATTC
262882 AAGG
1 AAGG
262886 CTAGCAACGT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 5 0.15
20 6 0.18
21 9 0.26
22 5 0.15
23 4 0.12
24 5 0.15
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (21 bp):
AAGGTGCCAATATATTGATTC
Found at i:262905 original size:43 final size:43
Alignment explanation
Indices: 262816--262993 Score: 104
Period size: 43 Copynumber: 3.9 Consensus size: 43
262806 AGAAGAATGA
* ** * *
262816 TAAAGGTGCCAATATATTGATTCAAGGCCAGTGATATTGGGCT
1 TAAAGGTGCCAATATACTGATTCAAGGCCAGCAACATTGGACT
* * * *
262859 TAAAGGTGCCAATATGCTGATTCAAGGCTAGCAACGTTGGATT
1 TAAAGGTGCCAATATACTGATTCAAGGCCAGCAACATTGGACT
* * ** *
262902 TAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAGTGATATTGGACT
1 TAAAG--G-----TG--CCAATATACTGATTCAAGGCCAGCAACATTGGACT
* * * * *
262954 TAAAGGCGCCAATGTGCTGATTCAAGGCCAACGACATTGG
1 TAAAGGTGCCAATATACTGATTCAAGGCCAGCAACATTGG
262994 GTTTGGAAAG
Statistics
Matches: 105, Mismatches: 21, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
43 67 0.64
45 2 0.02
50 2 0.02
52 34 0.32
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (43 bp):
TAAAGGTGCCAATATACTGATTCAAGGCCAGCAACATTGGACT
Found at i:263043 original size:32 final size:34
Alignment explanation
Indices: 263007--263095 Score: 128
Period size: 32 Copynumber: 2.7 Consensus size: 34
262997 TGGAAAGAGA
*
263007 TGCCATCAACTTGTGTCGGCTTTTGAG-AA-GGT
1 TGCCATCAACTTGTGTGGGCTTTTGAGAAAGGGT
*
263039 TGCCATCAACTTGTATGGGCTTTTGAGAAAGGGT
1 TGCCATCAACTTGTGTGGGCTTTTGAGAAAGGGT
* *
263073 TGCCACCGACTTGTGTGGGCTTT
1 TGCCATCAACTTGTGTGGGCTTT
263096 GGGAGGATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
32 25 0.50
33 2 0.04
34 23 0.46
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.34
Consensus pattern (34 bp):
TGCCATCAACTTGTGTGGGCTTTTGAGAAAGGGT
Found at i:263175 original size:34 final size:33
Alignment explanation
Indices: 263136--263236 Score: 113
Period size: 29 Copynumber: 3.2 Consensus size: 33
263126 TTAAAAGGGG
*
263136 GCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGT
1 GCCACAGAGTCGTGGGCTTTG-AAAGAAAAAGGT
* **
263170 GCCACAGAGTCATGGGCTTT--AAG--AAAGAC
1 GCCACAGAGTCGTGGGCTTTGAAAGAAAAAGGT
263199 GCCACAGAGTCGTGGGCTTTGAAA-AAAAAGGAT
1 GCCACAGAGTCGTGGGCTTTGAAAGAAAAAGG-T
263232 GCCAC
1 GCCAC
263237 CTATTTATGT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
29 23 0.42
31 5 0.09
32 4 0.07
33 5 0.09
34 18 0.33
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.18
Consensus pattern (33 bp):
GCCACAGAGTCGTGGGCTTTGAAAGAAAAAGGT
Found at i:264741 original size:15 final size:15
Alignment explanation
Indices: 264707--264739 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
264697 ATCTTGACAC
264707 TTTTTGTTGTTTATT
1 TTTTTGTTGTTTATT
264722 TTTTTGTT-TTT-TT
1 TTTTTGTTGTTTATT
264735 TTTTT
1 TTTTT
264740 TTACGAGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 3 0.17
15 8 0.44
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (15 bp):
TTTTTGTTGTTTATT
Found at i:268089 original size:13 final size:13
Alignment explanation
Indices: 268071--268095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
268061 ACATTTGGTC
268071 ATGTATCGATACA
1 ATGTATCGATACA
268084 ATGTATCGATAC
1 ATGTATCGATAC
268096 TGTGAAATAT
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):
ATGTATCGATACA
Found at i:276741 original size:13 final size:13
Alignment explanation
Indices: 276723--276753 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
276713 ACATTTCTTC
276723 ATGTATCGATACA
1 ATGTATCGATACA
276736 ATGTATCGATACA
1 ATGTATCGATACA
*
276749 TTGTA
1 ATGTA
276754 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:276741 original size:33 final size:33
Alignment explanation
Indices: 276703--276769 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
276693 GTTACAAGCT
276703 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
276736 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
276769 A
1 A
276770 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:276843 original size:19 final size:19
Alignment explanation
Indices: 276798--276854 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
276788 CTGCCAGTTT
**
276798 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
276819 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
276838 CATGTATCGATACAATG
1 CATGTATCGATACAATG
276855 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:276857 original size:13 final size:13
Alignment explanation
Indices: 276839--276865 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
276829 TACAATGAAC
276839 ATGTATCGATACA
1 ATGTATCGATACA
276852 ATGTATCGATACA
1 ATGTATCGATACA
276865 A
1 A
276866 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:276880 original size:33 final size:32
Alignment explanation
Indices: 276820--276884 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
276810 CAATTTGTCC
*
276820 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
276852 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
276885 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:285528 original size:20 final size:20
Alignment explanation
Indices: 285503--285555 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
285493 GTTACAAGCT
285503 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
285523 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
285543 ATGTATCGATACA
1 ATGTATCGATACA
285556 AATAATGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:285630 original size:19 final size:19
Alignment explanation
Indices: 285585--285641 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
285575 CTGCCAGTTT
**
285585 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
285606 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
285625 CATGTATCGATACAATG
1 CATGTATCGATACAATG
285642 TATCAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:285667 original size:33 final size:32
Alignment explanation
Indices: 285607--285671 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
285597 CAATTTGTCC
* *
285607 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCAATACAAAGAACATGTATCGATACA
*
285639 ATGTATCAATACAAAGCAGCATGTATCGATACA
1 ATGTATCAATACAAAG-AACATGTATCGATACA
285672 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (32 bp):
ATGTATCAATACAAAGAACATGTATCGATACA
Found at i:287806 original size:16 final size:17
Alignment explanation
Indices: 287741--287808 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 17
287731 GGGAGAAGAT
287741 AATTGTTTAAGGGGGAG
1 AATTGTTTAAGGGGGAG
* * * *
287758 AATTTTTTTA-GGAGAT
1 AATTGTTTAAGGGGGAG
*
287774 AATCGTTTAAGGGGGAG
1 AATTGTTTAAGGGGGAG
*
287791 AATTTTTTAA-GGGGAG
1 AATTGTTTAAGGGGGAG
287807 AA
1 AA
287809 AAACAAAAAC
Statistics
Matches: 39, Mismatches: 11, Indels: 3
0.74 0.21 0.06
Matches are distributed among these distances:
16 19 0.49
17 20 0.51
ACGTcount: A:0.32, C:0.01, G:0.32, T:0.34
Consensus pattern (17 bp):
AATTGTTTAAGGGGGAG
Found at i:288365 original size:13 final size:13
Alignment explanation
Indices: 288347--288371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
288337 CATGCTGCCT
288347 TGTATTGATACAA
1 TGTATTGATACAA
288360 TGTATTGATACA
1 TGTATTGATACA
288372 TGCTGCCTTG
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:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATTGATACAA
Found at i:288370 original size:33 final size:33
Alignment explanation
Indices: 288326--288405 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
288316 ACACACCCAG
*
288326 ATGTATCGATACATGCTGCCTTGTATTGATACA
1 ATGTATCGATACATGCTGCCTTGTATCGATACA
*
288359 ATGTATTGATACATGCTGCCTTGTATCGATACA
1 ATGTATCGATACATGCTGCCTTGTATCGATACA
288392 ATGTATCGATACAT
1 ATGTATCGATACAT
288406 ATTCAATGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATGCTGCCTTGTATCGATACA
Found at i:288398 original size:13 final size:13
Alignment explanation
Indices: 288380--288404 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
288370 CATGCTGCCT
288380 TGTATCGATACAA
1 TGTATCGATACAA
288393 TGTATCGATACA
1 TGTATCGATACA
288405 TATTCAATGT
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:294634 original size:34 final size:35
Alignment explanation
Indices: 294596--294662 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
294586 CCTTACAACA
294596 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
294630 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
294663 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:295138 original size:13 final size:13
Alignment explanation
Indices: 295120--295145 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
295110 CAATTTTTTG
295120 TGTATCGATACAT
1 TGTATCGATACAT
295133 TGTATCGATACAT
1 TGTATCGATACAT
295146 ACTTTGTGTA
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:295157 original size:32 final size:33
Alignment explanation
Indices: 295100--295163 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
295090 TACAAGCCAA
**
295100 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
295133 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
295164 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:295883 original size:21 final size:21
Alignment explanation
Indices: 295840--295885 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
295830 TAATTTACGC
* *
295840 ATTCTCCCCCTTTTATTAATA
1 ATTCTCCCCCTTTAATCAATA
295861 ATTCTCCCCC-TTAATCAAGTA
1 ATTCTCCCCCTTTAATCAA-TA
295882 ATTC
1 ATTC
295886 ATATCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTCTCCCCCTTTAATCAATA
Found at i:296297 original size:30 final size:31
Alignment explanation
Indices: 296257--296318 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
296247 TTCATGCAAC
* *
296257 CAAAAGTTTATGCAAGCTCTCCCCCTTAATA
1 CAAAAGTTTATACAAACTCTCCCCCTTAATA
296288 CAAAA-TTTATACAAACTCTCCCCCTTAATA
1 CAAAAGTTTATACAAACTCTCCCCCTTAATA
296318 C
1 C
296319 GTTGTCACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.35, C:0.31, G:0.05, T:0.29
Consensus pattern (31 bp):
CAAAAGTTTATACAAACTCTCCCCCTTAATA
Found at i:299927 original size:34 final size:35
Alignment explanation
Indices: 299889--299955 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
299879 CCTTACAACA
299889 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
299923 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
299956 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:301386 original size:28 final size:28
Alignment explanation
Indices: 301346--301402 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
301336 GCAAGAGAGC
*
301346 TATATCCCCATATTTCTTAGTGAAGTTT
1 TATATCCCCATATTTCGTAGTGAAGTTT
301374 TATATCCCCATATTTCGTAGTGAAGTTT
1 TATATCCCCATATTTCGTAGTGAAGTTT
301402 T
1 T
301403 CTTTCTCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.46
Consensus pattern (28 bp):
TATATCCCCATATTTCGTAGTGAAGTTT
Found at i:305946 original size:21 final size:21
Alignment explanation
Indices: 305921--305997 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
305911 AAAAATTCCA
305921 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
305942 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* * * *
305963 AATGTGTCGATATA-TTCTACA
1 AATGTATCGATACATTTGTA-G
305984 AATGTATCGATACA
1 AATGTATCGATACA
305998 GGGTCCCAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 3 0.06
21 44 0.94
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:306057 original size:19 final size:19
Alignment explanation
Indices: 306033--306100 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
306023 AATTCAACAA
306033 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
306052 TTTGTATCGAT--ATAA--
1 TTTGTATCGATACATAAGT
306067 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
306084 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
306101 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 9 0.21
15 4 0.09
17 4 0.09
19 26 0.60
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:306071 original size:32 final size:32
Alignment explanation
Indices: 306035--306095 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
306025 TTCAACAATT
*
306035 TGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACATAAGTATTGTATCGATATAA
306067 TGTATCGATACATAAGTATTGTATCGATA
1 TGTATCGATACATAAGTATTGTATCGATA
306096 CATAATTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATATAA
Found at i:306158 original size:13 final size:13
Alignment explanation
Indices: 306140--306165 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
306130 CATTTTTCTG
306140 TGTATCGATACAT
1 TGTATCGATACAT
306153 TGTATCGATACAT
1 TGTATCGATACAT
306166 GGATCTTTGT
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:306162 original size:33 final size:33
Alignment explanation
Indices: 306120--306186 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
306110 GCCAAGGAAA
***
306120 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
306153 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
306186 T
1 T
306187 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:306717 original size:16 final size:17
Alignment explanation
Indices: 306696--306727 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
306686 AATCCTTTAG
306696 CAAAAAAAAA-AAAAAC
1 CAAAAAAAAACAAAAAC
306712 CAAAAAAAAACAAAAA
1 CAAAAAAAAACAAAAA
306728 AACACTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAACAAAAAC
Found at i:306718 original size:11 final size:10
Alignment explanation
Indices: 306697--306729 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
306687 ATCCTTTAGC
306697 AAAAAA-AAA
1 AAAAAACAAA
*
306706 AAAAACCAAA
1 AAAAAACAAA
306716 AAAAAACAAA
1 AAAAAACAAA
306726 AAAA
1 AAAA
306730 CACTATTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:308822 original size:54 final size:53
Alignment explanation
Indices: 308742--308926 Score: 186
Period size: 54 Copynumber: 3.5 Consensus size: 53
308732 AAAATATTGA
* *
308742 TTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAGACACTAATTT
1 TTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATT-CTAAAACACTAATTT
*
308796 TTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACA-TCAATTT
1 TTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTCT-AAAACACT-AATTT
* * * * *
308850 TCCTTT---AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAA---
1 T-TTTTCACAATCGGGGATACTCCAACCCCGGTTTTA-TT-CTAAAACACTAATTT
*
308900 TTTTTCACAATCGAGGATACTCCAACC
1 TTTTTCACAATCGGGGATACTCCAACC
308927 TCGTTATTTC
Statistics
Matches: 110, Mismatches: 12, Indels: 20
0.77 0.08 0.14
Matches are distributed among these distances:
49 3 0.03
50 1 0.01
52 43 0.39
53 12 0.11
54 48 0.44
55 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (53 bp):
TTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTCTAAAACACTAATTT
Found at i:308867 original size:106 final size:103
Alignment explanation
Indices: 308527--308926 Score: 276
Period size: 105 Copynumber: 3.8 Consensus size: 103
308517 GTTGAGTTTC
* * * * * * * *
308527 TCAATTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACA-CTAGTTTTCTAT
1 TCAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTC-AC
* *
308590 AATCGGGGATACTCCAACTCCGATTTTATTTCCAGAAAACA
65 AATCGGGGATACTCCAACCCCGACTTTATTTCC--AAAACA
* * * * * *** * *
308631 CCAATTTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCTGT
1 TCAATTT-TCCATAATCGGGGATACTCCAACCCCGATTTTAT-TTC-CAAAAACACCAA-----T
* *
308694 TGTTTC-CGA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATA
58 T-TTTCACAATCGGGGATACTCCAACCCCGACTTTATTTCCAAAACA
** * * * * * *
308738 TTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAAGACACTAATTTTTTTTC
1 TCAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAA---TTTTTC
** *
308802 ACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACA
63 ACAATCGGGGATACTCCAACCCCGACTTTATTTCCAAAACA
* *
308843 TCAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAC
1 TCAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCAC
*
308908 AATCGAGGATACTCCAACC
65 AATCGGGGATACTCCAACC
308927 TCGTTATTTC
Statistics
Matches: 228, Mismatches: 50, Indels: 36
0.73 0.16 0.11
Matches are distributed among these distances:
102 4 0.02
103 9 0.04
104 32 0.14
105 68 0.30
106 57 0.25
107 22 0.10
108 3 0.01
109 27 0.12
111 1 0.00
112 1 0.00
113 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (103 bp):
TCAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACA
ATCGGGGATACTCCAACCCCGACTTTATTTCCAAAACA
Found at i:308945 original size:28 final size:28
Alignment explanation
Indices: 308909--308985 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
308899 ATTTTTCACA
* *
308909 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
*
308937 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
***
308965 CGAGGGGATACTCCAACCTCG
1 ATCGGGGATACTCCAACCTCG
308986 ACTTTATTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACTTC
Found at i:309009 original size:265 final size:265
Alignment explanation
Indices: 308536--309034 Score: 815
Period size: 265 Copynumber: 1.9 Consensus size: 265
308526 CTCAATTCTC
* * *
308536 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAGTTTTCTATAATCGGGGATA
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATA
*
308601 CTCCAACTCCGATTTTATTTCCAGAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCG
66 CTCCAACTCCGATTTTATTTCCAGAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
* ** *
308666 TTAATCATCGGGGATACTCCAACCCTGTTGTTTCCGAGGGGATACTCCAACCCCGACTTTATTTC
131 TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTCC
*
308731 CAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAGACACTAATTT
196 CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAGACACTAATTT
308796 TTTTT
261 TTTTT
* *
308801 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACA-TCAATTTTCCTTTAATCGGGGA
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACT-AATTTT-CTATAATCGGGGA
*
308865 TACTCCAACTCCGATTTTATTTCCA-AAAACACCAATTT-TTCACAATCGAGGATACTCCAACCT
64 TACTCCAACTCCGATTTTATTTCCAGAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* *
308928 CGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCTCGACTTTAT
129 CGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTAT
*
308993 TCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCC
193 TCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCC
309035 TGTTATTTTC
Statistics
Matches: 216, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
264 29 0.13
265 150 0.69
266 37 0.17
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (265 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAGAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTCC
CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAGACACTAATTT
TTTTT
Done.