Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008565.1 Hibiscus syriacus cultivar Beakdansim tig00111475_pilon, whole genome shotgun sequence
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: 92766
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:2022 original size:18 final size:18
Alignment explanation
Indices: 1979--2022 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1969 GAATTATTCA
1979 ATTT-ATTTCATATTTAG
1 ATTTAATTTCATATTTAG
* *
1996 ATATTAATTTTATATTTGG
1 AT-TTAATTTCATATTTAG
2015 ATTTAATT
1 ATTTAATT
2023 AATTAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 8 0.35
19 13 0.57
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (18 bp):
ATTTAATTTCATATTTAG
Found at i:12798 original size:17 final size:17
Alignment explanation
Indices: 12751--12896 Score: 105
Period size: 17 Copynumber: 8.4 Consensus size: 17
12741 ATTCTAAATG
* * *
12751 TTTACAATTATCAAACA
1 TTTACAGTTATCAGATA
*
12768 TTTCACCGTTATCAGATA
1 TTT-ACAGTTATCAGATA
* *
12786 TTTACAATTATCATATGA
1 TTTACAGTTATCAGAT-A
** *
12804 TTTTTAGTTATCATATA
1 TTTACAGTTATCAGATA
*
12821 TTTACAGTTATCAAATGA
1 TTTACAGTTATCAGAT-A
* * *
12839 TTTTCGGTTATCAGTTA
1 TTTACAGTTATCAGATA
* *
12856 TTTACAGATATAAGATGA
1 TTTACAGTTATCAGAT-A
*
12874 -TTACAGTTATCATATA
1 TTTACAGTTATCAGATA
12890 TTTACAG
1 TTTACAG
12897 ATATAAAATG
Statistics
Matches: 99, Mismatches: 25, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
16 1 0.01
17 57 0.58
18 41 0.41
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (17 bp):
TTTACAGTTATCAGATA
Found at i:12814 original size:35 final size:35
Alignment explanation
Indices: 12751--12923 Score: 142
Period size: 35 Copynumber: 4.9 Consensus size: 35
12741 ATTCTAAATG
*
12751 TTTACAATTATCAAA-CA-TTTCACCGTTATCAGATA
1 TTTACAATTATCAAATGATTTTCA--GTTATCAGATA
* * *
12786 TTTACAATTATCATATGATTTTTAGTTATCATATA
1 TTTACAATTATCAAATGATTTTCAGTTATCAGATA
* * *
12821 TTTACAGTTATCAAATGATTTTCGGTTATCAGTTA
1 TTTACAATTATCAAATGATTTTCAGTTATCAGATA
* *
12856 TTTACAGA-TAT-AAGATGA-TTACAGTTATCATATA
1 TTTACA-ATTATCAA-ATGATTTTCAGTTATCAGATA
* * *
12890 TTTACAGA-TATAAAATGTTTTTACAATTATCAGA
1 TTTACA-ATTATCAAATGATTTT-CAGTTATCAGA
12924 CATAGATTAA
Statistics
Matches: 112, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
34 28 0.25
35 70 0.62
36 10 0.09
37 4 0.04
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (35 bp):
TTTACAATTATCAAATGATTTTCAGTTATCAGATA
Found at i:15776 original size:22 final size:22
Alignment explanation
Indices: 15751--15795 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
15741 ACATGTCGAA
15751 TGACATGACATATGAGTTAAAT
1 TGACATGACATATGAGTTAAAT
15773 TGACATGACATATGAGTTAAAT
1 TGACATGACATATGAGTTAAAT
15795 T
1 T
15796 AGTTCTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (22 bp):
TGACATGACATATGAGTTAAAT
Found at i:16889 original size:18 final size:19
Alignment explanation
Indices: 16844--16891 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
16834 TATTGCCGAC
*
16844 AACACAAAATCAAAAAAGA
1 AACACAAAATTAAAAAAGA
* *
16863 AAAATAAAATTAAAAAA-A
1 AACACAAAATTAAAAAAGA
16881 AACACAAAATT
1 AACACAAAATT
16892 CTAAAGGGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.75, C:0.10, G:0.02, T:0.12
Consensus pattern (19 bp):
AACACAAAATTAAAAAAGA
Found at i:21406 original size:15 final size:15
Alignment explanation
Indices: 21370--21408 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
21360 AAAAAAATAT
*
21370 TATTATTTATTATTAT
1 TATT-TTTATTATTAA
*
21386 TTTTTTTATTATTAA
1 TATTTTTATTATTAA
21401 TATTTTTA
1 TATTTTTA
21409 GCAGGTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTTTATTATTAA
Found at i:29061 original size:30 final size:30
Alignment explanation
Indices: 29025--29096 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
29015 CCCGAAGGAC
*
29025 CTATCCAGAGGTCATAAAGATCATCGGTAA
1 CTATCCAGAGGTCATAAAGATCATCGGCAA
*
29055 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCATAAAGATCATCGGCAA
* *
29085 CTGTCCATAGGT
1 CTATCCAGAGGT
29097 TCCGAAGAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCATCGGCAA
Found at i:29121 original size:31 final size:31
Alignment explanation
Indices: 29083--29207 Score: 128
Period size: 31 Copynumber: 4.0 Consensus size: 31
29073 GATCCTCGGC
* *
29083 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
**
29114 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
* *
29145 TATTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* **
29176 ATTCTGTCCATATGTTCCTTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
29208 TATCCTCAAC
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
30 3 0.04
31 49 0.64
32 21 0.28
33 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:33789 original size:30 final size:30
Alignment explanation
Indices: 33753--33824 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
33743 CCCGAAGGAC
*
33753 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
33783 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
* *
33813 CTGTCCATAGGT
1 CTATCCAGAGGT
33825 TCCGAAGAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGCAA
Found at i:33849 original size:31 final size:31
Alignment explanation
Indices: 33811--33935 Score: 128
Period size: 31 Copynumber: 4.0 Consensus size: 31
33801 GATCCTCGGC
* *
33811 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
**
33842 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
* *
33873 TATTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* **
33904 ATTCTGTCCATATGTTCCTTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
33936 TATCCTCAAC
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
30 3 0.04
31 49 0.64
32 21 0.28
33 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:35181 original size:19 final size:19
Alignment explanation
Indices: 35157--35207 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
35147 TATTATTGGG
35157 ATGCATCGATGCATGCCTT
1 ATGCATCGATGCATGCCTT
35176 ATGCATCGATGCATGCCTT
1 ATGCATCGATGCATGCCTT
35195 ATGCATCGATGCA
1 ATGCATCGATGCA
35208 CTAATTGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (19 bp):
ATGCATCGATGCATGCCTT
Found at i:40330 original size:14 final size:16
Alignment explanation
Indices: 40308--40345 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
40298 GTAAACCAAG
40308 ATATTTATTT-TGGTC
1 ATATTTATTTATGGTC
*
40323 AT-TTTATTTATGTTC
1 ATATTTATTTATGGTC
40338 ATATTTAT
1 ATATTTAT
40346 ACTTAAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 7 0.35
15 8 0.40
16 5 0.25
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.63
Consensus pattern (16 bp):
ATATTTATTTATGGTC
Found at i:42249 original size:27 final size:28
Alignment explanation
Indices: 42211--42276 Score: 107
Period size: 29 Copynumber: 2.4 Consensus size: 28
42201 TAGTGATTTG
*
42211 AAGTTTGTTTTAAGG-ATATATATATTA
1 AAGTTTATTTTAAGGAATATATATATTA
42238 AAGTTTATTTTAAGGATATATATATATTA
1 AAGTTTATTTTAAGGA-ATATATATATTA
42267 AAGTTTATTT
1 AAGTTTATTT
42277 CCAAAAGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 14 0.39
29 22 0.61
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (28 bp):
AAGTTTATTTTAAGGAATATATATATTA
Found at i:47542 original size:87 final size:87
Alignment explanation
Indices: 47396--47558 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
47386 TATGTTATAT
*
47396 TATTTAACTGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACGGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
47461 AGCGCTTATATAATAAAATAAG
66 AGCGCTTATATAATAAAATAAG
* * *
47483 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACGGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
47548 AGCGCTTATAT
66 AGCGCTTATAT
47559 TGACCTATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (87 bp):
TATTTAACGGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAAG
Found at i:51215 original size:183 final size:183
Alignment explanation
Indices: 50907--51377 Score: 825
Period size: 183 Copynumber: 2.6 Consensus size: 183
50897 TTAAAATTAG
* * *
50907 CGACACAATATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTT
* * * *
50972 ATATCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTAGTACATTATAATTATGGGTTCCGATATGTAAATGTCGA
51037 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
51090 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTT
*
51155 ATACCGATTATATTACAAAATTATCTAGTACATTATAATTATGGGTTCCGATATGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTAGTACATTATAATTATGGGTTCCGATATGTAAATGTCGA
* *
51220 CACTTTTTGACAATGTATCGACACGTTTTTCTTCCATTCTGGACATAAAGTAC
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
* * *
51273 AGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTT
51338 ATACCGGTTATATTACAAAATTATCTAGTACATTATAATT
66 ATACCGGTTATATTACAAAATTATCTAGTACATTATAATT
51378 CTGGACATAA
Statistics
Matches: 274, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 274 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTT
ATACCGGTTATATTACAAAATTATCTAGTACATTATAATTATGGGTTCCGATATGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
Found at i:51468 original size:120 final size:120
Alignment explanation
Indices: 51255--51497 Score: 405
Period size: 120 Copynumber: 2.0 Consensus size: 120
51245 TTTTTCTTCC
*
51255 ATTCTGGACATAAAGTACAGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACAGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
51320 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
* * *
51375 ATTCTGGACATAAAGTACCGACACAAAATTAAAAATTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACAGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* * * * *
51440 CATAAAACTGGTATATTTATACCGGTTATATTACAAAATTATCTATTATATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
51495 ATT
1 ATT
51498 TTGGGTTCCG
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 114 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACAGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:51619 original size:303 final size:303
Alignment explanation
Indices: 51072--51680 Score: 1047
Period size: 303 Copynumber: 2.0 Consensus size: 303
51062 TTTTTCTTCC
*
51072 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
51137 CATAAAACCGGTATACTTATACCGATTATATTACAAAATTATCTAGTACATTATAATTATGGGTT
66 CATAAAACCGGTATACTTATACCGATTATATTACAAAATTATCTAGTACATTATAATTATGGGTT
* *
51202 CCGATATGTAAATGTCGACACTTTTTGACAATGTATCGACACGTTTTTCTTCCATTCTGGACATA
131 CCGATATGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATA
51267 AAGTACAGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGT
196 AAGTACAGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGT
51332 ATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
261 ATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
*
51375 ATTCTGGACATAAAGTACCGACACAAAATTAAAAATTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* * * * * *
51440 CATAAAACTGGTATATTTATACCGGTTATATTACAAAATTATCTATTATATTATAATTTTGGGTT
66 CATAAAACCGGTATACTTATACCGATTATATTACAAAATTATCTAGTACATTATAATTATGGGTT
* *
51505 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGATACATTTTTCTTCCATTCTGGACATA
131 CCGATATGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATA
* * * *
51570 AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGT
196 AAGTACAGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGT
* * *
51635 ATATTTATACCGGTTATATTATAAAATTATCTATTACATTATA
261 ATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
51678 ATT
1 ATT
51681 ATGGGTTCCG
Statistics
Matches: 287, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
303 287 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (303 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATACTTATACCGATTATATTACAAAATTATCTAGTACATTATAATTATGGGTT
CCGATATGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATA
AAGTACAGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGT
ATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:51688 original size:183 final size:183
Alignment explanation
Indices: 51375--52146 Score: 1368
Period size: 183 Copynumber: 4.2 Consensus size: 183
51365 GTACATTATA
* *
51375 ATTCTGGACATAAAGTACCGACACAAAATTAAAAATTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* * *
51440 CATAAAACTGGTATATTTATACCGGTTATATTACAAAATTATCTATTATATTATAATTTTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
*
51505 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGATACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
51558 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
51623 CATAAAATCGGTATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
51688 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
51741 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
51806 CATAAAACCGGTATATTTATACCGGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
*
51871 CTGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
51924 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
51989 CATAAAACCGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
* * *
52054 CCGATGTTTTTTCAA--TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCC
131 CCGATG---TGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
52108 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
52147 GAAAACTTTG
Statistics
Matches: 568, Mismatches: 18, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
183 487 0.86
184 77 0.14
186 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:51818 original size:486 final size:486
Alignment explanation
Indices: 50907--51867 Score: 1717
Period size: 486 Copynumber: 2.0 Consensus size: 486
50897 TTAAAATTAG
* *
50907 CGACACAATATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTT
*
50972 ATATCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
51037 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
51102 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTTATACCGATTATA
196 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTTATACCGATTATA
51167 TTACAAAATTATCTAGTACATTATAATTATGGGTTCCGATATGTAAATGTCGACACTTTTTGACA
261 TTACAAAATTATCTAGTACATTATAATTATGGGTTCCGATATGTAAATGTCGACACTTTTTGACA
* *
51232 ATGTATCGACACGTTTTTCTTCCATTCTGGACATAAAGTACAGACACAATATTAAAAAGTGTCGA
326 AGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACAGACACAATATTAAAAAGTGTCGA
51297 CATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATATTACAAAATTAT
391 CATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATATTACAAAATTAT
51362 CTAGTACATTATAATTCTGGACATAAAGTAC
456 CTAGTACATTATAATTCTGGACATAAAGTAC
*
51393 CGACACAAAATTAAAAATTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAA-CTGGTATATT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATC-GGTATATT
* *
51457 TATACCGGTTATATTACAAAATTATCTATTATATTATAATTTTGGGTTCCGATGTGTAAATGTCG
65 TATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCG
*
51522 ACACTTTTTGACAAGGTATCGATACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATAT
130 ACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATAT
* * *
51587 TAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGGTTAT
195 TAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTTATACCGATTAT
* * *
51652 ATTATAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTGAC
260 ATTACAAAATTATCTAGTACATTATAATTATGGGTTCCGATATGTAAATGTCGACACTTTTTGAC
*
51717 AAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCG
325 AAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACAGACACAATATTAAAAAGTGTCG
* * * *
51782 ATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTATAAAATTA
390 ACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATATTACAAAATTA
*
51847 TCTATTACATTATAATTCTGG
455 TCTAGTACATTATAATTCTGG
51868 GTTCTGATGT
Statistics
Matches: 453, Mismatches: 21, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
485 1 0.00
486 452 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (486 bp):
CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATACTTATACCGATTATA
TTACAAAATTATCTAGTACATTATAATTATGGGTTCCGATATGTAAATGTCGACACTTTTTGACA
AGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACAGACACAATATTAAAAAGTGTCGA
CATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATATTACAAAATTAT
CTAGTACATTATAATTCTGGACATAAAGTAC
Found at i:53388 original size:18 final size:18
Alignment explanation
Indices: 53361--53406 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
53351 GTTTGGATCA
* *
53361 TCATCATCATCATCATCG
1 TCATCTTCATCATCAGCG
* *
53379 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCAGCG
53397 TCATCTTCAT
1 TCATCTTCAT
53407 TGACCGCTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCAGCG
Found at i:53390 original size:12 final size:12
Alignment explanation
Indices: 53361--53406 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
53351 GTTTGGATCA
* *
53361 TCATCATCATCA
1 TCATCGTCATCT
53373 TCATCGTCATCT
1 TCATCGTCATCT
*
53385 TCATCGTCAGCT
1 TCATCGTCATCT
*
53397 TCATCTTCAT
1 TCATCGTCAT
53407 TGACCGCTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.39
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:55268 original size:200 final size:200
Alignment explanation
Indices: 54878--55649 Score: 1303
Period size: 200 Copynumber: 3.8 Consensus size: 200
54868 AACATTAAAC
* * * *
54878 AGTGTCGATACA-TATTATATACCAATTCTCCCATAAAACCGGTATACTTATACCGGTTAGATTG
1 AGTGTCGATACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
*
54942 AAAAATTACCTAATACATAATACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTT
65 AAAAATTACC---T--AT--TACATTATACTTATGGGTTTCGATGTTTATGGGATCGACAC-TTT
*
55007 TTATATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTTATTCTGGACCAAAAATATCG
122 TTATATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCG
55072 ACACAAACTACAAA
187 ACACAAACTACAAA
*
55086 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
55151 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
55216 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
55281 ACAAA
196 ACAAA
*
55286 AGTGTCGATACATTATTTAGACCTATTCTCTTATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
55351 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
55416 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTAGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
55481 ACAAA
196 ACAAA
* * *
55486 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAATCGGTATACTTGTATCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
55551 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
55616 GATCGACACTTTATGGTTGCACCTTGTTTGCCAT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCAT
55650 ATTGTAAATT
Statistics
Matches: 542, Mismatches: 21, Indels: 10
0.95 0.04 0.02
Matches are distributed among these distances:
200 431 0.80
201 40 0.07
203 2 0.00
205 1 0.00
208 64 0.12
209 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (200 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:55907 original size:19 final size:19
Alignment explanation
Indices: 55883--55931 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
55873 TTATATTCAC
55883 ATACAAAATTATAAAT-TGT
1 ATACAAAATTATAAATCT-T
55902 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCTT
55921 ATACAAAATTA
1 ATACAAAATTA
55932 ACCCTACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 28 0.97
20 1 0.03
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCTT
Found at i:57759 original size:33 final size:33
Alignment explanation
Indices: 57722--57787 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
57712 CATCTTAATA
*
57722 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
57755 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
57788 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:57846 original size:21 final size:21
Alignment explanation
Indices: 57821--57885 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
57811 TCCCTTATGC
* *
57821 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
57842 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
57863 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
57884 CT
1 CT
57886 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:60321 original size:20 final size:19
Alignment explanation
Indices: 60275--60321 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
60265 TCCGGTAACG
60275 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
60294 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
60315 TTTTACC
1 TTTTACC
60322 TGGTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:60421 original size:181 final size:182
Alignment explanation
Indices: 60116--60533 Score: 613
Period size: 182 Copynumber: 2.3 Consensus size: 182
60106 GGTATCGTTT
* * **
60116 TACCGGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATATTTTTTAAAGTATC
1 TACCGGTTTTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACAT-TTTTCAAAAGTATC
* *
60181 GACACATTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCATAAAGTGTCGATCCTTATA-TAAA
65 GACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAA
* * * **
60245 GTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGA
130 GTACCGACACTTTAAATATATCCGGTAACGCTTTACCGGTTTTATCATTTCAA
*
60298 TACCGGTTTTATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTCAAAAGTATCG
1 TACCGGTTTTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTCAAAAGTATCG
* ** *
60363 ACACTTTATAGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATTAAAG
66 ACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
* * *
60428 TACCGACACTTTAAATGTATCCGGTAGCGCTTTACTGGTTTTATCATTTCAA
131 TACCGACACTTTAAATATATCCGGTAACGCTTTACCGGTTTTATCATTTCAA
* * * *
60480 TACCGGTTTTGTCATAGTTTTACCTGTTATATCATTTTGGATCGACACATTTTT
1 TACCGGTTTTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
60534 AATTTGGATC
Statistics
Matches: 211, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
181 66 0.31
182 145 0.69
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
TACCGGTTTTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTCAAAAGTATCG
ACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
TACCGACACTTTAAATATATCCGGTAACGCTTTACCGGTTTTATCATTTCAA
Found at i:61602 original size:20 final size:20
Alignment explanation
Indices: 61577--61627 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
61567 CAAGGGAATA
61577 ATGATTTTATAATAACATGG
1 ATGATTTTATAATAACATGG
61597 ATGATTTTATAATAACATGG
1 ATGATTTTATAATAACATGG
61617 ATGATTTTATA
1 ATGATTTTATA
61628 TTTGATGTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (20 bp):
ATGATTTTATAATAACATGG
Found at i:61762 original size:26 final size:27
Alignment explanation
Indices: 61698--61762 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
61688 ATTTAATTTT
* *
61698 ATATTTCTATTTTGATAAAATATATATG
1 ATATGTCTATTCTGATAAAATATATA-G
* *
61726 ATATTTCTATTCTGATAAAATATCTA-
1 ATATGTCTATTCTGATAAAATATATAG
*
61752 ATATGTGTATT
1 ATATGTCTATT
61763 TTTTAAACGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 9 0.27
28 24 0.73
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (27 bp):
ATATGTCTATTCTGATAAAATATATAG
Found at i:62179 original size:6 final size:6
Alignment explanation
Indices: 62168--62192 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62158 TACTCAGCCG
62168 ACACCA ACACCA ACACCA ACACCA A
1 ACACCA ACACCA ACACCA ACACCA A
62193 TACAAACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (6 bp):
ACACCA
Found at i:71125 original size:34 final size:33
Alignment explanation
Indices: 71047--71126 Score: 81
Period size: 34 Copynumber: 2.4 Consensus size: 33
71037 TTTTTTTTAT
* *
71047 ATTTGTATTTACTTTATTTAGTTAAATTTGTTGG
1 ATTT-TATTTAATGTATTTAGTTAAATTTGTTGG
* * *
71081 ATTTTTTTTAATGTATTTCAGTTAATTTTGTT-T
1 ATTTTATTTAATGTATTT-AGTTAAATTTGTTGG
71114 ATTATTATTTAAT
1 ATT-TTATTTAAT
71127 ATCAGTTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
33 14 0.37
34 24 0.63
ACGTcount: A:0.25, C:0.03, G:0.10, T:0.62
Consensus pattern (33 bp):
ATTTTATTTAATGTATTTAGTTAAATTTGTTGG
Found at i:74528 original size:13 final size:12
Alignment explanation
Indices: 74495--74528 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
74485 AATAAGTATA
*
74495 ATAAAAAAATTT
1 ATAACAAAATTT
74507 ATAACAAAATTT
1 ATAACAAAATTT
74519 ATAACGAAAA
1 ATAAC-AAAA
74529 ATCGCAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (12 bp):
ATAACAAAATTT
Found at i:75246 original size:28 final size:28
Alignment explanation
Indices: 75155--75246 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 28
75145 TCGAGTTAAA
*
75155 TCGAATCGAATATAAATTTTTAAATTAT
1 TCGAGTCGAATATAAATTTTTAAATTAT
* * * * * *
75183 TCGAGTTGAAGAGTTATATTTTATTAGTTGAA
1 TCGAGTCGAATA--TAAATTTT-TAAATT-AT
75215 TCGAGTCGAATATAAATTTTTAAATTAT
1 TCGAGTCGAATATAAATTTTTAAATTAT
75243 TCGA
1 TCGA
75247 ATATATATTT
Statistics
Matches: 47, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
28 14 0.30
29 4 0.09
30 14 0.30
31 4 0.09
32 11 0.23
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (28 bp):
TCGAGTCGAATATAAATTTTTAAATTAT
Found at i:76750 original size:22 final size:22
Alignment explanation
Indices: 76725--76785 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
76715 GGCATATGAA
*
76725 ATTTGTCCCGAATGACCTA-TGT
1 ATTTGTCCCGAATGACC-ACTAT
*
76747 ATTTATCCCGAATGACCACTAT
1 ATTTGTCCCGAATGACCACTAT
* *
76769 ATATGTCCCGAAGGACC
1 ATTTGTCCCGAATGACC
76786 GCGTAAATCC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (22 bp):
ATTTGTCCCGAATGACCACTAT
Found at i:78904 original size:44 final size:43
Alignment explanation
Indices: 78831--78935 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 43
78821 GATCCGACCT
* * *
78831 AAAAATATATATTC-TTCACCCAAACCCGACCCGACCCGACCCA
1 AAAAATATATA-TCATCCATCCAAACCCGACCCAACCCGACCCA
* * *
78874 AAAAATTTTATATCATCCATCCAACCCCGACCCAACCTGACCCA
1 AAAAA-TATATATCATCCATCCAAACCCGACCCAACCCGACCCA
*
78918 AGAAATATATATCATCCA
1 AAAAATATATATCATCCA
78936 CCCGACTCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
43 19 0.37
44 33 0.63
ACGTcount: A:0.39, C:0.35, G:0.06, T:0.20
Consensus pattern (43 bp):
AAAAATATATATCATCCATCCAAACCCGACCCAACCCGACCCA
Found at i:79460 original size:20 final size:20
Alignment explanation
Indices: 79435--79527 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
79425 TTTTCCCAAT
79435 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
79455 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
79475 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
79496 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
79517 TCGCAATGCGA
1 TCGCAATGCGA
79528 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:79477 original size:41 final size:41
Alignment explanation
Indices: 79432--79527 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
79422 CGATTTTCCC
79432 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
79473 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
79514 AAATCGCAATGCGA
1 AATTCGCAATGCGA
79528 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:79481 original size:21 final size:20
Alignment explanation
Indices: 79435--79527 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
79425 TTTTCCCAAT
*
79435 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
79455 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
79475 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
79496 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
79517 TCGCAATGCGA
1 TCGCAATGCGA
79528 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:79541 original size:20 final size:20
Alignment explanation
Indices: 79516--79609 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
79506 AATTGGGAAA
*
79516 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
79536 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
79557 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
79577 TTCGCAACACGATACTGACT
1 ATCGCAACGCGATACTGACT
*
79597 TTCGCAACGCGAT
1 ATCGCAACGCGAT
79610 TTACTTAGCG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:79590 original size:41 final size:41
Alignment explanation
Indices: 79513--79590 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
79503 GCGAATTGGG
* * **
79513 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
* *
79554 AAAATCGCAACGAGATACTTACTTTCGCAACACGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATA
79591 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
Found at i:80173 original size:19 final size:19
Alignment explanation
Indices: 80151--80335 Score: 174
Period size: 19 Copynumber: 10.1 Consensus size: 19
80141 GAAACCAAAA
*
80151 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
80170 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
80189 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
80208 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
80228 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
80244 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
80261 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
80275 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
80294 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
80314 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
80334 TC
1 TC
80336 AACCAAAAGA
Statistics
Matches: 138, Mismatches: 15, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
14 20 0.14
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 60 0.43
20 49 0.36
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:80228 original size:39 final size:38
Alignment explanation
Indices: 80151--80240 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
80141 GAAACCAAAA
* *
80151 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTTCATT
80189 TCGCGTTGCGATTTTAATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATTTCGC-GTTGCGATTTTCATT
80228 TCGCGTTGCGATT
1 TCGCGTTGCGATT
80241 GTCTGGTCGC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 21 0.43
39 28 0.57
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTTCATT
Found at i:80260 original size:33 final size:33
Alignment explanation
Indices: 80223--80310 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
80213 GTTGCGATTT
* *
80223 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
80256 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
80289 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
80311 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:80312 original size:20 final size:20
Alignment explanation
Indices: 80278--80335 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
80268 GCGATTCTCT
**
80278 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
80298 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
80318 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
80336 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:82397 original size:42 final size:42
Alignment explanation
Indices: 82337--82459 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
82327 GCCCGACTCG
* * *
82337 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
82379 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
82421 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
82460 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:82417 original size:21 final size:21
Alignment explanation
Indices: 82393--82459 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
82383 TCATTCCTCG
82393 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
82414 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
82435 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
82456 AGAG
1 AGAG
82460 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:83836 original size:14 final size:14
Alignment explanation
Indices: 83817--83852 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
83807 ATTGTTTAAT
83817 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
83831 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
83845 TGATTTGT
1 TGATTTGT
83853 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:84053 original size:19 final size:19
Alignment explanation
Indices: 84031--84148 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
84021 CGAAATTAAA
84031 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
84050 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
84065 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
84083 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
84098 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
84116 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
84135 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
84149 GGACATTAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 17 0.23
16 6 0.08
17 6 0.08
19 34 0.47
20 10 0.14
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:84077 original size:33 final size:33
Alignment explanation
Indices: 84035--84128 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
84025 ATTAAATTCG
84035 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
84068 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
84101 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
84129 AGTAATTTCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:87937 original size:14 final size:14
Alignment explanation
Indices: 87918--87954 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
87908 ACATCAATTA
87918 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
87932 ACAAATCATCTTTT
1 ACAAATCAACATTT
87946 ACAAATCAA
1 ACAAATCAA
87955 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:89844 original size:20 final size:19
Alignment explanation
Indices: 89809--89875 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
89799 GAAACTTAAA
89809 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
89828 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
89848 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
89867 ATCGCAACG
1 ATCGCAACG
89876 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:89883 original size:14 final size:14
Alignment explanation
Indices: 89864--89926 Score: 65
Period size: 14 Copynumber: 4.3 Consensus size: 14
89854 ATGCGAAATG
89864 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
89878 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
*
89894 ATGAAATCGCAATGAC
1 A--AAATCGCAACGAC
89910 AAAATCGCAACG-C
1 AAAATCGCAACGAC
89923 AAAA
1 AAAA
89927 CACAAATCGC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.12
14 20 0.49
16 7 0.17
18 9 0.22
ACGTcount: A:0.51, C:0.24, G:0.16, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:89911 original size:32 final size:33
Alignment explanation
Indices: 89848--89922 Score: 125
Period size: 32 Copynumber: 2.3 Consensus size: 33
89838 GGAAATGGCT
*
89848 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
89881 ATCGCAACGCGAAATG-AAATCGCAATGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
89913 ATCGCAACGC
1 ATCGCAACGC
89923 AAAACACAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 25 0.62
33 15 0.38
ACGTcount: A:0.45, C:0.24, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:89959 original size:18 final size:18
Alignment explanation
Indices: 89933--90027 Score: 73
Period size: 18 Copynumber: 5.7 Consensus size: 18
89923 AAAACACAAA
*
89933 TCGCATTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
*
89951 TCGCGTTGCGATTTT--G
1 TCGCGTTGCGATTTTCAT
89967 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCA-T
*
89983 TCGCGTTGCGATTTT--G
1 TCGCGTTGCGATTTTCAT
89999 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
*
90016 TCGCATTGCGAT
1 TCGCGTTGCGAT
90028 AGCCATTTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
13 3 0.05
14 20 0.33
16 3 0.05
17 1 0.02
18 22 0.37
19 11 0.18
ACGTcount: A:0.12, C:0.20, G:0.23, T:0.45
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCAT
Found at i:89973 original size:14 final size:14
Alignment explanation
Indices: 89954--90011 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
89944 TTTTCATTCG
89954 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
89968 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
89984 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
90000 CGTTGCGATTTT
1 CGTTGCGATTTT
90012 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:89986 original size:32 final size:33
Alignment explanation
Indices: 89938--90027 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
89928 ACAAATCGCA
89938 TTGCGATTTTCA-TTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
89970 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
90002 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
90028 AGCCATTTTC
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
31 5 0.09
32 32 0.58
33 18 0.33
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:90047 original size:21 final size:20
Alignment explanation
Indices: 90014--90067 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
90004 GCGATTTTCA
*
90014 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
90034 TTTCCGCGTTGCGATAGTCAT
1 TTT-CGCGTTGCGATAGCCAT
*
90055 TTTCGTGTTGCGA
1 TTTCGCGTTGCGA
90068 AAGTAAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:90566 original size:18 final size:18
Alignment explanation
Indices: 90540--90584 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
90530 GTCGATCAGA
*
90540 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
90558 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
90576 TGATGGCTC
1 TGATGGCTC
90585 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:92211 original size:22 final size:22
Alignment explanation
Indices: 92186--92229 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
92176 GATTTAGATA
92186 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
92208 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
92230 TGAAGAGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:92438 original size:20 final size:20
Alignment explanation
Indices: 92413--92506 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
92403 GATTATGTAT
92413 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
92433 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
92453 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
92474 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
92494 TATCGCATTGCGA
1 TATCGCGTTGCGA
92507 TTTTCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:92478 original size:41 final size:41
Alignment explanation
Indices: 92433--92510 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
92423 CGAAAGTCAG
* * *
92433 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
92474 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
92511 CCAATTCGCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:92507 original size:20 final size:20
Alignment explanation
Indices: 92393--92507 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
92383 CGCTTTGAAA
*
92393 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
92414 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
92434 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
92454 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
92475 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
92495 ATCGCATTGCGAT
1 ATCGCATTGCGAT
92508 TTTCCAATTC
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:92519 original size:20 final size:20
Alignment explanation
Indices: 92496--92587 Score: 103
Period size: 20 Copynumber: 4.5 Consensus size: 20
92486 ATAGTCAGTA
*
92496 TCGCATTGCGATTTTCCAAT
1 TCGCATTGCGATTTACCAAT
* **
92516 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
*
92536 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACCAAT
* **
92557 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
92577 TCGCATTGCGA
1 TCGCATTGCGA
92588 ATTTGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 42 0.72
21 16 0.28
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:92567 original size:41 final size:41
Alignment explanation
Indices: 92496--92591 Score: 176
Period size: 41 Copynumber: 2.4 Consensus size: 41
92486 ATAGTCAGTA
*
92496 TCGCATTGCG-ATTTTCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
92536 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
92577 TCGCATTGCGAATTT
1 TCGCATTGCGAATTT
92592 GGAAAATCGC
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 10 0.19
41 44 0.81
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Done.