Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 302 of 333
Found at i:99397152 original size:88 final size:88
Alignment explanation
Indices: 99397057--99397237 Score: 258
Period size: 88 Copynumber: 2.1 Consensus size: 88
99397047 TTCAAGGAGA
* * *
99397057 TAAGGTTAATGGGTTCGATCTGCTCCACTGCAATTTTAAGGAGAAAAGATTTGTAA-TTTCTAGC
1 TAAGGTTAATGGCTTCGATCTGCTCCACTGCAATTTCAAGGAGAAAAGATTTATAATTTTC-AG-
*
99397121 CTT-TTACCTTACTGCATAAGGGTT
64 CTTGTTACCCTACTGCATAAGGGTT
* **
99397145 TAAGGTTAATGGCTTCGATTTGCTCCACTGCAATTTCGGGGAGAAAAGATTTATAATTTTCAGCT
1 TAAGGTTAATGGCTTCGATCTGCTCCACTGCAATTTCAAGGAGAAAAGATTTATAATTTTCAGCT
*
99397210 TGTTACCCTACTGCATAGGGGTT
66 TGTTACCCTACTGCATAAGGGTT
99397233 TAAGG
1 TAAGG
99397238 GCCATCTCCT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
87 3 0.04
88 76 0.92
89 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (88 bp):
TAAGGTTAATGGCTTCGATCTGCTCCACTGCAATTTCAAGGAGAAAAGATTTATAATTTTCAGCT
TGTTACCCTACTGCATAAGGGTT
Found at i:99397321 original size:87 final size:86
Alignment explanation
Indices: 99397211--99397765 Score: 697
Period size: 87 Copynumber: 6.4 Consensus size: 86
99397201 TTTTCAGCTT
* * *
99397211 GTTACCCTACTGCATAGGGGTTTAAGGGCCATC-TCCTTCGATCTGTTTCCCTACTGCTTAGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGT-CTTCGATCTGTTTCCCTACTGCTTAGGGG
99397275 GTTAAGATCTTGTAAATTCAGCC
65 GTTAAGATC-TGTAAATTCAGCC
* * * ** *
99397298 ATTACCCTACTGTTTAGGGGTTTAAGGCCCATCAACCTCGATCTGTTTCCCTACTGCTTAGGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
99397363 TTAAGATCTGTAAATCTTCAGCC
66 TTAAGATCTGTAAA--TTCAGCC
* * *
99397386 TGTTACCCTATTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCACTACTGCTTAGGGG
1 -GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGG
*
99397451 GTTAAGAT-T-TAGAAGTGCAGCC
65 GTTAAGATCTGTA-AA-TTCAGCC
** * *
99397473 TGTTACCCTACTATTTAGGGGTTTAAGGCCCTTCGTCTTTGATCTG-CTCCACTACTGCTTAGGG
1 -GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGG
* * * *
99397537 AGATAAGATCTGT-AATTCGGTCT
64 GGTTAAGATCTGTAAATTCAG-CC
* * *
99397560 GTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAATCTGTTTCCCTATTGCTTAGGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
* *
99397625 TTAAGATCTGTAAATTTAGTCT
66 TTAAGATCTGTAAATTCAG-CC
* *
99397647 GCTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
*
99397712 TTAAGATCTGTAAATTCAGCGT
66 TTAAGATCTGTAAATTCAGC-C
*
99397734 GTTACCCTACTGCTTAGGGATTTAAGGCCCTT
1 GTTACCCTACTGCTTAGGGGTTTAAGGCCCTT
99397766 GTGAGTTCAT
Statistics
Matches: 409, Mismatches: 47, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
86 75 0.18
87 259 0.63
88 11 0.03
89 64 0.16
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (86 bp):
GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
TTAAGATCTGTAAATTCAGCC
Found at i:99397655 original size:173 final size:172
Alignment explanation
Indices: 99397203--99397765 Score: 733
Period size: 173 Copynumber: 3.2 Consensus size: 172
99397193 ATTTATAATT
* ** *
99397203 TTCAGCTTGTTACCCTACTGCATAGGGGTTTAAGGGCCATC-TCCTTCGATCTGTTTCCCTACTG
1 TTCAGC-TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGT-CTTCGATCTGTTTCCCTACTG
*
99397267 CTTAGGGGGTTAAGATCTTGTAAATTCAGCCAT-TACCCTACTGTTTAGGGGTTTAAGGCCCATC
64 CTTAGGGGGTTAAGATC-TGTAAATTCAGCC-TGTACCCTACTGTTTAGGGGTTTAAGGCCCTTC
** *
99397331 AACCTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
127 GTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* *
99397377 TCTTCAGCCTGTTACCCTATTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCACTACT
1 --TTCAG-CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACT
* *
99397442 GCTTAGGGGGTTAAGAT-T-TAGAAGTGCAGCCTGTTACCCTACTATTTAGGGGTTTAAGGCCCT
63 GCTTAGGGGGTTAAGATCTGTA-AA-TTCAGCCTG-TACCCTACTGTTTAGGGGTTTAAGGCCCT
* * * *
99397505 TCGTCTTTGATCTG-CTCCACTACTGCTTAGGGAGATAAGATCTGT-AA
125 TCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAA
* * *
99397552 TTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAATCTGTTTCCCTATTGC
1 TTCAG-CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGC
* * * *
99397617 TTAGGGGGTTAAGATCTGTAAATTTAGTCTGCTACCCTACTGCTTAGGGGTTTAAGACCCTTCGT
65 TTAGGGGGTTAAGATCTGTAAATTCAGCCTG-TACCCTACTGTTTAGGGGTTTAAGGCCCTTCGT
99397682 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
129 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* *
99397726 TTCAGCGTGTTACCCTACTGCTTAGGGATTTAAGGCCCTT
1 TTCAGC-TGTTACCCTACTGCTTAGGGGTTTAAGACCCTT
99397766 GTGAGTTCAT
Statistics
Matches: 339, Mismatches: 36, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
173 146 0.43
174 47 0.14
175 13 0.04
176 131 0.39
177 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (172 bp):
TTCAGCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCT
TAGGGGGTTAAGATCTGTAAATTCAGCCTGTACCCTACTGTTTAGGGGTTTAAGGCCCTTCGTCT
TCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
Found at i:99397717 original size:44 final size:43
Alignment explanation
Indices: 99397210--99397717 Score: 291
Period size: 44 Copynumber: 11.7 Consensus size: 43
99397200 ATTTTCAGCT
* * * *
99397210 TGTTACCCTACTGCATAGGGGTTTAAGGGCCATC-TCCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GACCTTCGT-CTTCGATC
* * * *
99397254 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTT-GTAAATTC-AGC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCTTCGT--CTTCGATC
** * * * * ** *
99397297 CATTACCCTACTGTTTAGGGGTTTAAGGCCCATCAACCTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GACCTTCGTCTTCGATC
* * ** *
99397341 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCT-T-CGTCTTCGA-TC
* *
99397386 TGTTACCCTATTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGA-CCTTCGTCTTCGATC
* * * * *** *
99397430 TGTTTCACTACTGCTTAGGGGGTTAAGA-TTTAGAAGT-GCAGCC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCTTCGTCTTCG-A-TC
** * * *
99397473 TGTTACCCTACTATTTAGGGGTTTAAGGCCCTTCGTCTTTGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GACCTTCGTCTTCGATC
* * * * * *
99397517 TGCT-CCACTACTGCTTAGGGAGATAAGATC-T-GTAATTCGGTC
1 TGTTACC-CTACTGCTTAGGGGGTTAAGACCTTCGT-CTTCGATC
* *
99397559 TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGA-CCTTCGTCTTCGATC
* * * ** *
99397603 TGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTAAAT-TTAG-TC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCT-T-CGTCTTCGATC
* *
99397646 TGCTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGA-CCTTCGTCTTCGATC
*
99397690 TGTTTCCCTACTGCTTAGGGGGTTAAGA
1 TGTTACCCTACTGCTTAGGGGGTTAAGA
99397718 TCTGTAAATT
Statistics
Matches: 337, Mismatches: 101, Indels: 52
0.69 0.21 0.11
Matches are distributed among these distances:
41 3 0.01
42 33 0.10
43 92 0.27
44 166 0.49
45 40 0.12
46 3 0.01
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (43 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGACCTTCGTCTTCGATC
Found at i:99398875 original size:27 final size:24
Alignment explanation
Indices: 99398818--99398866 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
99398808 TCTAGGACGA
99398818 ACCTTTTTGTTGTAAGCTCGTATC
1 ACCTTTTTGTTGTAAGCTCGTATC
99398842 ACCTTTTTGTTGTAAGCTCGTATC
1 ACCTTTTTGTTGTAAGCTCGTATC
99398866 A
1 A
99398867 TTCGTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (24 bp):
ACCTTTTTGTTGTAAGCTCGTATC
Found at i:99410321 original size:23 final size:24
Alignment explanation
Indices: 99410269--99410345 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 24
99410259 GCATATACAT
*
99410269 AATATAT-ACATAATA-TACAAAA
1 AATATATAACATAATATTACATAA
* *
99410291 CAAAATATACACATAATA-TA-TTAA
1 -AATATATA-ACATAATATTACATAA
99410315 AATATAT-ACATAATATTACATAA
1 AATATATAACATAATATTACATAA
99410338 AATATATA
1 AATATATA
99410346 TATATATAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
21 8 0.18
22 2 0.05
23 22 0.50
24 2 0.05
25 10 0.23
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (24 bp):
AATATATAACATAATATTACATAA
Found at i:99410334 original size:10 final size:11
Alignment explanation
Indices: 99410261--99410353 Score: 77
Period size: 11 Copynumber: 8.5 Consensus size: 11
99410251 TATTAAAAGC
99410261 ATATACATAAT
1 ATATACATAAT
99410272 ATATACATAAT
1 ATATACATAAT
* *
99410283 ATACAAAACAAAAT
1 AT---ATACATAAT
*
99410297 ATACACATAAT
1 ATATACATAAT
99410308 ATATTA-A-AAT
1 ATA-TACATAAT
99410318 ATATACATAAT
1 ATATACATAAT
*
99410329 AT-TACATAAA
1 ATATACATAAT
*
99410339 ATATATAT-AT
1 ATATACATAAT
99410349 ATATA
1 ATATA
99410354 ATGTTTAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
9 2 0.03
10 22 0.33
11 33 0.49
12 1 0.01
14 9 0.13
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (11 bp):
ATATACATAAT
Found at i:99427381 original size:21 final size:21
Alignment explanation
Indices: 99427357--99427421 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
99427347 AAATCTAACT
99427357 GAAGCACAAAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
** *
99427378 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACAAAAGTGCTAAACG
99427396 GAAGCACAAAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
99427417 GAAGC
1 GAAGC
99427422 TCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.43, C:0.22, G:0.26, T:0.09
Consensus pattern (21 bp):
GAAGCACAAAAGTGCTAAACG
Found at i:99427397 original size:39 final size:39
Alignment explanation
Indices: 99427351--99427437 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
99427341 TACCCGAAAT
99427351 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
*
99427390 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCTCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
99427429 CTAACTGAA
1 CTAACTGAA
99427438 TCTCATCAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.13
Consensus pattern (39 bp):
CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
Found at i:99443414 original size:22 final size:21
Alignment explanation
Indices: 99443379--99443420 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
99443369 AAGATATGTG
99443379 ATATGTGTTGATTTGAGAATTT
1 ATATGTGTTGATTTGA-AATTT
99443401 ATATGGTGTT-ATTTGAAATT
1 ATAT-GTGTTGATTTGAAATT
99443421 ATAAGTATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (21 bp):
ATATGTGTTGATTTGAAATTT
Found at i:99450285 original size:20 final size:20
Alignment explanation
Indices: 99450260--99450310 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
99450250 AGGGGCACAA
*
99450260 GCCCGTGTGGCTTGGGACAC
1 GCCCGTGTGGCTTAGGACAC
99450280 GCCCGTGTGGCTTAGGACAC
1 GCCCGTGTGGCTTAGGACAC
99450300 GCCCGTGTGGC
1 GCCCGTGTGGC
99450311 CTGGAACATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.10, C:0.31, G:0.39, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGGCTTAGGACAC
Found at i:99453872 original size:37 final size:38
Alignment explanation
Indices: 99453822--99453910 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 38
99453812 ACAAGGTATT
* * * *
99453822 AAGCCTGAATAACACTAG-CACTAAGTCTGC-TGGGACA
1 AAGCCTGAATAACAC-AGACACTAAGGCTACTTAGCACA
*
99453859 AAGCCTGAATAACACCGACACTAAGGCTACTTAGCACA
1 AAGCCTGAATAACACAGACACTAAGGCTACTTAGCACA
99453897 AAGCCTGAATAACA
1 AAGCCTGAATAACA
99453911 TCAGTACTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
36 1 0.02
37 25 0.56
38 19 0.42
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (38 bp):
AAGCCTGAATAACACAGACACTAAGGCTACTTAGCACA
Found at i:99453920 original size:38 final size:36
Alignment explanation
Indices: 99453822--99453948 Score: 112
Period size: 38 Copynumber: 3.4 Consensus size: 36
99453812 ACAAGGTATT
* * * *
99453822 AAGCCTGAATAACACTAGCACTAAGTCTGCTGGGACA
1 AAGCCTGAATAACAC-AGCACTAAGGCTACTAGCACA
*
99453859 AAGCCTGAATAACACCGACACTAAGGCTACTTAGCACA
1 AAGCCTGAATAACACAG-CACTAAGGCTAC-TAGCACA
* **
99453897 AAGCCTGAATAACATCAGTACTAA-GCTTGGTAGGCACA
1 AAGCCTGAATAACA-CAGCACTAAGGC-TACTA-GCACA
*
99453935 AAGCCTAAATAACA
1 AAGCCTGAATAACA
99453949 ATATAACTCA
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
36 1 0.01
37 29 0.39
38 43 0.57
39 2 0.03
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (36 bp):
AAGCCTGAATAACACAGCACTAAGGCTACTAGCACA
Found at i:99461221 original size:3 final size:3
Alignment explanation
Indices: 99461213--99461280 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
99461203 ATTTTCGGCA
* * *
99461213 AAG AAG AAG AAG AAA AAG AGAG AAG AAG -GG AAG AAG -GG AAG AAG
1 AAG AAG AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG
*
99461257 -AG AAG AAG AAG AAAG AAA AAG AAG
1 AAG AAG AAG AAG -AAG AAG AAG AAG
99461281 GAGAGGAGGA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
2 4 0.08
3 42 0.81
4 6 0.12
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:99461238 original size:16 final size:15
Alignment explanation
Indices: 99461212--99461280 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 15
99461202 CATTTTCGGC
99461212 AAAGAAGAAGAAGAA
1 AAAGAAGAAGAAGAA
99461227 AAAGAGAGAAGAAGGGAA
1 AAAGA-AGAAGAA--GAA
* *
99461245 GAAG-GGAAGAAG-A
1 AAAGAAGAAGAAGAA
*
99461258 GAAGAAGAAGAAAGAA
1 AAAGAAGAAG-AAGAA
99461274 AAAGAAG
1 AAAGAAG
99461281 GAGAGGAGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
13 5 0.11
14 5 0.11
15 8 0.18
16 20 0.45
18 6 0.14
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAGAAGAA
Found at i:99461265 original size:8 final size:8
Alignment explanation
Indices: 99461213--99461265 Score: 58
Period size: 8 Copynumber: 6.9 Consensus size: 8
99461203 ATTTTCGGCA
99461213 AAGAAGAAG
1 AAGAAG-AG
99461222 AAGAA-A-
1 AAGAAGAG
99461228 AAG-AGAG
1 AAGAAGAG
*
99461235 AAGAAGGG
1 AAGAAGAG
*
99461243 AAGAAGGG
1 AAGAAGAG
99461251 AAGAAGAG
1 AAGAAGAG
99461259 AAGAAGA
1 AAGAAGA
99461266 AGAAAGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 1 0.03
6 4 0.10
7 4 0.10
8 25 0.64
9 5 0.13
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (8 bp):
AAGAAGAG
Found at i:99461365 original size:14 final size:14
Alignment explanation
Indices: 99461317--99461378 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
99461307 TGAGAGAAGA
99461317 AAAAAGAA--AAAG
1 AAAAAGAAGGAAAG
99461329 AAAAGAGAAGGAGAAG
1 AAAA-AGAAGGA-AAG
* * *
99461345 AAGAAGAGGGAAGG
1 AAAAAGAAGGAAAG
99461359 AAAAAGAAGGAAAG
1 AAAAAGAAGGAAAG
99461373 AAAAAG
1 AAAAAG
99461379 GTAATTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
12 4 0.10
13 4 0.10
14 19 0.47
15 7 0.17
16 6 0.15
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (14 bp):
AAAAAGAAGGAAAG
Found at i:99461365 original size:17 final size:17
Alignment explanation
Indices: 99461322--99461378 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 17
99461312 GAAGAAAAAA
*
99461322 GAAAAAGAAAAGAGAAG
1 GAAAAAGAAGAGAGAAG
*
99461339 GAGAAGAAGAAGAGGGAAG
1 GA-AA-AAGAAGAGAGAAG
99461358 GAAAAAGAAG-GA-AA-
1 GAAAAAGAAGAGAGAAG
99461372 GAAAAAG
1 GAAAAAG
99461379 GTAATTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
14 7 0.20
15 2 0.06
16 1 0.03
17 8 0.23
18 4 0.11
19 13 0.37
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (17 bp):
GAAAAAGAAGAGAGAAG
Found at i:99461856 original size:30 final size:31
Alignment explanation
Indices: 99461816--99461874 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
99461806 TTTTGTTAAA
*
99461816 ATAATATAAAAAAATAAAATATGAAAATAGT
1 ATAATATAAAAAAATAAAATACGAAAATAGT
*
99461847 ATAAT-TAAAAAAATAAAATCCGAAAATA
1 ATAATATAAAAAAATAAAATACGAAAATA
99461875 AAAAAATACG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (31 bp):
ATAATATAAAAAAATAAAATACGAAAATAGT
Found at i:99462269 original size:12 final size:13
Alignment explanation
Indices: 99462252--99462287 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
99462242 TTTTTTTGCT
99462252 AAAATAATATAA-
1 AAAATAATATAAG
*
99462264 AAAATAAAATAAG
1 AAAATAATATAAG
99462277 AAAATAATATA
1 AAAATAATATA
99462288 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAATATAAG
Found at i:99462462 original size:145 final size:145
Alignment explanation
Indices: 99461961--99462873 Score: 983
Period size: 155 Copynumber: 6.1 Consensus size: 145
99461951 ATTTTATGCT
*
99461961 AAAATAAAATATC-AAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGC
1 AAAATAAAATA-CGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGC
*
99462025 T-AAAATCAGGGTTATTTATTAAAAAATTATAAAAAATACTTAAATAATACATTTGAAGCATTAT
65 TCAAAATCAGGGTTATTTATTAAAAAA-TATAAAAAATACTTAAATAATACATTTGAAACATTAT
99462089 GTACTAAAATAATATAA
129 GTACTAAAATAATATAA
* * *
99462106 AGAAATAAAATACGAAAATAATATATTTTTAAAAATAATATACGAAAATAAAAAAATTACGAAGA
1 A-AAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACG-----AAAAAAA-TACGAATA
* * * *
99462171 AAGT-ATCAAAATCAAGGTTATTTAGTAAAAAACCCTTAATATAAAGAA-ACAGTTAATTAATAC
59 AAGTGCTCAAAATCAGGGTTATTTATTAAAAAA----T-ATA-AAA-AATAC--TTAAATAATAC
** * * *
99462234 ATTTG-AATTTTTTTTGCTAAAATAATATAA
115 ATTTGAAACATTATGTACTAAAATAATATAA
* *
99462264 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCT
* *
99462329 -AAAATCAGGGATATTTATTGAAAAAATATAAAAAATACTGAAATAATACATTTGAAACATTATG
66 CAAAATCAGGGTTATTTATT-AAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATG
99462393 TACTAAAATAATATGAA
130 TACTAAAATAATAT-AA
*
99462410 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATAC-AAAAAAATACGAAAAAAGTG-T
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCT
* *
99462473 CAAAATCAGGGTTATTTATTAAATTAGTATAAAAAAATACTTACATAATATACATAATACATTTG
66 CAAAATCAGGGTTATTTATTAAA--A-AATATAAAAA-A--TAC-T--TA-A-ATAATACATTTG
* * *
99462538 AAACATTTTTTGCTAAAATAATATAAA
120 AAACATTATGTACTAAAATAATAT-AA
* * *
99462565 AAAATAAAATAGGAAAATAATATATTTTAAAAAATAATATACG-AAAAAATATGAATAAAGTGCT
1 AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCT
** * * *
99462629 -AAAATCAGGGTTATTTATTAAAAAAATATTTAAAACACTTAAATAATATATTTAAAACATTATG
66 CAAAATCAGGGTTATTTATT-AAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATG
* *
99462693 TACTAAAATAAGGGTTTTA
130 TACTAAAATAA---TATAA
* *
99462712 AAATTAAATAATACGAAAGTAATATA-TTTAAAAAA-AAGATACGAAAAAAATACGAA-AAAGTG
1 AAAAT-AA-AATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTG
* * * *
99462774 -TCAAAATCAGTGTTATTTATTAAATTAATATAAAAAATACTTACATAATACATTTAAAACATT-
64 CTCAAAATCAGGGTTATTTATTAAA-AAATATAAAAAATACTTAAATAATACATTTGAAACATTA
* *
99462837 TTTGCTAAAATAATATAA
128 TGTACTAAAATAATATAA
*
99462855 AAAATAATATACGAAAATA
1 AAAATAAAATACGAAAATA
99462874 TTTTACTTAT
Statistics
Matches: 651, Mismatches: 72, Indels: 94
0.80 0.09 0.12
Matches are distributed among these distances:
141 10 0.02
142 2 0.00
143 7 0.01
144 18 0.03
145 87 0.13
146 103 0.16
147 81 0.12
148 26 0.04
149 16 0.02
150 5 0.01
151 36 0.06
152 49 0.08
153 7 0.01
154 2 0.00
155 113 0.17
156 7 0.01
157 45 0.07
158 22 0.03
159 15 0.02
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (145 bp):
AAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAATAAAGTGCT
CAAAATCAGGGTTATTTATTAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
ACTAAAATAATATAA
Found at i:99462611 original size:15 final size:14
Alignment explanation
Indices: 99462552--99462615 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
99462542 ATTTTTTGCT
99462552 AAAATAATATA-AA
1 AAAATAATATAGAA
*
99462565 AAAATAAAATAGGAA
1 AAAATAATATA-GAA
**
99462580 AATAAT-ATATTTTAA
1 AA-AATAATA-TAGAA
99462595 AAAATAATATACGAA
1 AAAATAATATA-GAA
99462610 AAAATA
1 AAAATA
99462616 TGAATAAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 10 0.26
14 4 0.10
15 21 0.54
16 4 0.10
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.25
Consensus pattern (14 bp):
AAAATAATATAGAA
Found at i:99462670 original size:21 final size:22
Alignment explanation
Indices: 99462646--99462687 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
99462636 GGGTTATTTA
99462646 TTAAA-AAAATATTTAAAACAC
1 TTAAATAAAATATTTAAAACAC
*
99462667 TTAAATAATATATTTAAAACA
1 TTAAATAAAATATTTAAAACA
99462688 TTATGTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAATAAAATATTTAAAACAC
Found at i:99462675 original size:300 final size:296
Alignment explanation
Indices: 99461961--99462873 Score: 1153
Period size: 303 Copynumber: 3.1 Consensus size: 296
99461951 ATTTTATGCT
**
99461961 AAAATAAAATATCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
1 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* *
99462026 AAAATCAGGGTTATTTATTAAAAAATTATAAAAAATACTTAAATAATACATTTGAAGCATTATGT
66 AAAATCAGGGTTATTTATTAAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
* *
99462091 ACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTTAAAAATAATATACGAAAATA
131 ACTAAAATAATATAAA-AAATAAAATACGAAAATAATATA-TTTT-AAAA-AATA-A-G-ATACA
* * * * *
99462156 AAAAAATTACGAAGAAAGTATCAAAATCAAGGTTATTTAGTAAAAAACCCTTAATAT-AAAGAA-
189 AAAAAA-TACGAAAAAAGTGTCAAAATCAGGGTTATTTA-T--TAAA---TTAATATAAAAAAAT
* * **
99462219 AC--A-GT--TAATTAATACATTTGAATTTTTTTTGCTAAAATAATATAA
247 ACTTACATAATAAATAATACATTTGAACATTTTTTGCTAAAATAATATAA
99462264 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
1 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
* * *
99462329 AAAATCAGGGATATTTATTGAAAAAATATAAAAAATACTGAAATAATACATTTGAAACATTATGT
66 AAAATCAGGGTTATTTATTAAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
99462394 ACTAAAATAATATGAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAAAA
131 ACTAAAATAATAT-AAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAAAA
*
99462459 TACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAGTATAAAAAAATACTTACATAATAT
195 TACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAATACTTACATAATA-
99462524 ACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAA
259 A-ATAATACATTTG-AACATTTTTTGCTAAAATAATAT-AA
* *
99462565 AAAATAAAATAGGAAAATAATATATTTTAAAAAATAATATACG-AAAAAATATGAATAAAGTGCT
1 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
** * * *
99462629 AAAATCAGGGTTATTTATTAAAAAAATATTTAAAACACTTAAATAATATATTTAAAACATTATGT
66 AAAATCAGGGTTATTTATTAAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
* * * *
99462694 ACTAAAATAAGGGTTTTAAAATTAAATAATACGAAAGTAATATA-TTTAAAAAA-AAGATACGAA
131 ACTAAAATAA---TATAAAAAAT-AA-AATACGAAAATAATATATTTTAAAAAATAAGATAC-AA
*
99462757 AAAAATACG-AAAAAGTGTCAAAATCAGTGTTATTTATTAAATTAATAT-AAAAAATACTTACAT
190 AAAAATACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAATACTTACAT
* *
99462820 AATACAT-TTA-A----AACA-TTTTTGCTAAAATAATATAA
255 AATAAATAATACATTTGAACATTTTTTGCTAAAATAATATAA
* *
99462855 AAAATAATATACGAAAATA
1 AAAATAAAATAAGAAAATA
99462874 TTTTACTTAT
Statistics
Matches: 553, Mismatches: 39, Indels: 49
0.86 0.06 0.08
Matches are distributed among these distances:
290 25 0.05
291 23 0.04
292 6 0.01
293 3 0.01
294 1 0.00
295 2 0.00
296 29 0.05
297 12 0.02
298 4 0.01
299 14 0.03
300 112 0.20
301 67 0.12
302 53 0.10
303 183 0.33
304 19 0.03
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (296 bp):
AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
AAAATCAGGGTTATTTATTAAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGT
ACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAAAAT
ACGAAAAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAATACTTACATAATAAA
TAATACATTTGAACATTTTTTGCTAAAATAATATAA
Found at i:99464839 original size:72 final size:72
Alignment explanation
Indices: 99464747--99464884 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 72
99464737 CCGAGCGATC
* * *
99464747 GCATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCAGGCAATGACTATTTCCCGGGCT
1 GCATTCACATTCGACTGATACTTCTTATCATCCAGATTTGACAGGCAATGACAATTTCCCGGGCT
99464812 CGTCATT
66 CGTCATT
* * * * *
99464819 GCATTCACTTTCGGCTGATACTTCTTATCATCCAGATTTTACGGGCAATGACAATTTCTCGGGCT
1 GCATTCACATTCGACTGATACTTCTTATCATCCAGATTTGACAGGCAATGACAATTTCCCGGGCT
99464884 C
66 C
99464885 ATCGGGGGGC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (72 bp):
GCATTCACATTCGACTGATACTTCTTATCATCCAGATTTGACAGGCAATGACAATTTCCCGGGCT
CGTCATT
Found at i:99469330 original size:19 final size:18
Alignment explanation
Indices: 99469297--99469349 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
99469287 AAATTATACC
*
99469297 TTCTTTTTTTTCTTCTCT
1 TTCTTTTTTTCCTTCTCT
99469315 TTCTTTTTCTTCCTTCTCT
1 TTCTTTTT-TTCCTTCTCT
*
99469334 TCTCCTTTCTTTCCTT
1 T-T-CTTTTTTTCCTT
99469350 TTATTTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 8 0.27
19 10 0.33
20 7 0.23
21 5 0.17
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (18 bp):
TTCTTTTTTTCCTTCTCT
Found at i:99469334 original size:15 final size:15
Alignment explanation
Indices: 99469298--99469326 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99469288 AATTATACCT
99469298 TCTTT-TTTTTCTTC
1 TCTTTCTTTTTCTTC
99469312 TCTTTCTTTTTCTTC
1 TCTTTCTTTTTCTTC
99469327 CTTCTCTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTTCTTTTTCTTC
Found at i:99469336 original size:18 final size:17
Alignment explanation
Indices: 99469296--99469336 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
99469286 AAAATTATAC
*
99469296 CTTCTTTTTTTTCTTCT
1 CTTCTTTTTTTCCTTCT
99469313 CTTTCTTTTTCTTCCTTCT
1 C-TTCTTTTT-TTCCTTCT
99469332 CTTCT
1 CTTCT
99469337 CCTTTCTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 12 0.57
19 8 0.38
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
CTTCTTTTTTTCCTTCT
Found at i:99469359 original size:25 final size:23
Alignment explanation
Indices: 99469297--99469365 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 23
99469287 AAATTATACC
99469297 TTCTTTTTTTTCTTCT-CTTTCT
1 TTCTTTTTTTTCTTCTCCTTTCT
*
99469319 TT-TTCTTCCTTCTCTTCTCCTTTCT
1 TTCTT-TT--TTTTCTTCTCCTTTCT
99469344 TTCCTTTTATTTTCTTCTCCTT
1 TT-CTTTT-TTTTCTTCTCCTT
99469366 GCTGCTGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.05
22 4 0.11
24 8 0.21
25 20 0.53
26 2 0.05
27 2 0.05
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCTTTTTTTTCTTCTCCTTTCT
Found at i:99480898 original size:11 final size:11
Alignment explanation
Indices: 99480882--99480906 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
99480872 CTCTCCCAAC
99480882 AAAAAATTCAA
1 AAAAAATTCAA
99480893 AAAAAATTCAA
1 AAAAAATTCAA
99480904 AAA
1 AAA
99480907 TCAAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAATTCAA
Found at i:99480924 original size:19 final size:20
Alignment explanation
Indices: 99480902--99480943 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
99480892 AAAAAAATTC
99480902 AAAAATC-AAAATATTTATA
1 AAAAATCTAAAATATTTATA
* * *
99480921 AAAATTCTAAAATTTTTTTA
1 AAAAATCTAAAATATTTATA
99480941 AAA
1 AAA
99480944 TAATAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATCTAAAATATTTATA
Found at i:99484133 original size:5 final size:5
Alignment explanation
Indices: 99484123--99484154 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
99484113 TTGTGTGTTC
99484123 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
99484155 TTTCTCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:99492691 original size:19 final size:21
Alignment explanation
Indices: 99492663--99492709 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
99492653 TGTGGTTATG
* *
99492663 ATTTTTATTATT-TTTTAA-A
1 ATTTTAATTATTGATTTAAGA
99492682 ATTTTAATTATTGATTTAAGA
1 ATTTTAATTATTGATTTAAGA
99492703 ATTTTAA
1 ATTTTAA
99492710 ATTTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 5 0.21
21 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
ATTTTAATTATTGATTTAAGA
Found at i:99514424 original size:21 final size:19
Alignment explanation
Indices: 99514374--99514424 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
99514364 TTTTTTGTTT
99514374 TCCA-TTCTTTTCTACTTC
1 TCCATTTCTTTTCTACTTC
*
99514392 TCTC-TTTGTTTTCCTACCTTC
1 TC-CATTTCTTTT-CTA-CTTC
99514413 TCCATTTCTTTT
1 TCCATTTCTTTT
99514425 AACGTATTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 2 0.08
19 7 0.27
20 4 0.15
21 13 0.50
ACGTcount: A:0.08, C:0.31, G:0.02, T:0.59
Consensus pattern (19 bp):
TCCATTTCTTTTCTACTTC
Found at i:99516228 original size:42 final size:42
Alignment explanation
Indices: 99516177--99516290 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 42
99516167 TTTGAGATTA
*
99516177 CGTGTAAGACCATATCTGGGATATGACATCGATATGAGA-CTT
1 CGTGTAAGACCATATCTGGGATATGACATCGATATGAGATC-C
* * * *
99516219 TGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCC
1 CGTGTAAGACCATATCTGGGATA-TGACATCGATATGAGATCC
*
99516262 CATGTAAGACCATATCTGGGATATGACAT
1 CGTGTAAGACCATATCTGGGATATGACAT
99516291 TGGTATGGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 25 0.42
43 34 0.57
44 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGACATCGATATGAGATCC
Found at i:99523585 original size:38 final size:38
Alignment explanation
Indices: 99523542--99523618 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
99523532 TTTCAAGTTA
99523542 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
* * * *
99523580 ACATGTTTAACCGTGGTATATCCATTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
99523618 A
1 A
99523619 ATGAATCGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:99523690 original size:48 final size:48
Alignment explanation
Indices: 99523582--99523720 Score: 172
Period size: 48 Copynumber: 2.9 Consensus size: 48
99523572 ACCACGTTAC
* * * *
99523582 ATGTTTAACCGTGGTATATCCATTTAGCACCACGTTA-ATGAATCGAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * * * *
99523629 ATATGTAACCGTGGCATATCTACTTAGTACCACATTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
99523677 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
99523721 AACCGTGGTA
Statistics
Matches: 75, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
47 30 0.40
48 45 0.60
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:99526256 original size:6 final size:6
Alignment explanation
Indices: 99526245--99526282 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
99526235 AATACAATAA
99526245 AATTTC AATTTC AATTTC AATTTC AATTTC ATATTTC A
1 AATTTC AATTTC AATTTC AATTTC AATTTC A-ATTTC A
99526283 TATTGAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTC
Found at i:99537367 original size:40 final size:40
Alignment explanation
Indices: 99537323--99537434 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
99537313 TTAAGTTACC
* *
99537323 ATAGTGAATCAGGAACAAATCCTATCCACTTTATATAT-TT
1 ATAGTGAATCAGGAATAAATCCTATTCACTTTA-ATATCTT
*
99537363 ATAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTT
1 ATAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTT
* * *
99537403 TTAGTGACTCATGAATAAATCCTATTCACTTT
1 ATAGTGAATCAGGAATAAATCCTATTCACTTT
99537435 TAATTCTCGA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.05
40 62 0.95
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (40 bp):
ATAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTT
Found at i:99538475 original size:60 final size:61
Alignment explanation
Indices: 99538338--99538489 Score: 172
Period size: 60 Copynumber: 2.5 Consensus size: 61
99538328 CTATTCAGAA
* *
99538338 ATCAGAGT-TAATTGGGCCTTAGCCCATATCAATATTAATTTGGGCCATAGCCCCTTACAAT
1 ATCAGAGTAT-ATTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAAT
* * *
99538399 ATCAGAGTATACTGGG-CTTAGCCCATATCAGTATCAATCTGGGCCGTAG-CCCTATAACAA-
1 ATCAGAGTATATTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCCT-T-ACAAT
*
99538459 CTC-GAGATATATTGGGCCTT-GCCCATATCAA
1 ATCAGAG-TATATTGGGCCTTAGCCCATATCAA
99538490 CACAGTTGGC
Statistics
Matches: 78, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
59 7 0.09
60 50 0.64
61 20 0.26
62 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (61 bp):
ATCAGAGTATATTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAAT
Found at i:99541639 original size:26 final size:26
Alignment explanation
Indices: 99541606--99541676 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 26
99541596 CTCTTTTAAT
**
99541606 AACTGGGGCAAAGCCCTTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
99541632 AACTGGGGCAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
* *
99541657 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
99541677 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 21 0.52
26 19 0.47
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCAGTA
Found at i:99542528 original size:27 final size:27
Alignment explanation
Indices: 99542486--99542550 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
99542476 GGGCATATTT
*
99542486 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
* *
99542513 GTTACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
99542540 GTCATTTTACC
1 GTCACTTTACC
99542551 TATTAAGAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:99542632 original size:27 final size:27
Alignment explanation
Indices: 99542602--99542779 Score: 92
Period size: 27 Copynumber: 6.6 Consensus size: 27
99542592 GTAAATGTAC
*
99542602 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
99542629 AAACCAATGGTATTTTTA-TAATTTTTAG
1 AAACCAAGGGTA-TTTCAGTAA-TTTTAT
* * * * *
99542657 AAAGTCAATGGTATTTCTGTAATTGTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
** * ** *
99542685 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
99542712 AAATTAAGGGTATTTCAGTAATTTCAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
99542739 AAACC-AGTAGTATTT-TGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTAT
* *
99542765 AAACTAGGGGTATTT
1 AAACCAAGGGTATTT
99542780 TGGTAATTCT
Statistics
Matches: 113, Mismatches: 32, Indels: 13
0.72 0.20 0.08
Matches are distributed among these distances:
26 20 0.18
27 62 0.55
28 20 0.18
29 11 0.10
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:99542697 original size:56 final size:54
Alignment explanation
Indices: 99542599--99542767 Score: 155
Period size: 56 Copynumber: 3.1 Consensus size: 54
99542589 TTGGTAAATG
* * * *
99542599 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTTTATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTGTGTAAACCAAGGGTATTTTGATAA-TTT
* * * ** * *
99542654 TAGAAAGTCAATGGTATTTCTGTAATTGTGTAAATTAGGGGTATTTTGGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTGTGTAAACCAAGGGTATTTTGATAATTT
* * *
99542709 TACAAATTAAGGGTATTTCAGTAATT-TCATAAACC-AGTAGTATTTTG-TAATTT
1 TACAAATCAAGGGTATTTCAGTAATTGT-GTAAACCAAG-GGTATTTTGATAATTT
99542762 TACAAA
1 TACAAA
99542768 CTAGGGGTAT
Statistics
Matches: 91, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
53 14 0.15
54 29 0.32
55 13 0.14
56 35 0.38
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.41
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTGTGTAAACCAAGGGTATTTTGATAATTT
Found at i:99542752 original size:54 final size:53
Alignment explanation
Indices: 99542589--99542779 Score: 168
Period size: 54 Copynumber: 3.5 Consensus size: 53
99542579 TACAAGGGTG
* * *
99542589 TTGGTAAATGTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATT
1 TTGGTAATTTTACAAACCAAGGGTATTTCAGTAA-TTTGTAAACCAGTGGTATT
** * * * * ** *
99542643 TTTATAATTTTTAGAAAGTCAATGGTATTTCTGTAATTGTGTAAATTAGGGGTATT
1 TTGGTAA-TTTTACAAA-CCAAGGGTATTTCAGTAATT-TGTAAACCAGTGGTATT
** * *
99542699 TTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTCATAAACCAGTAGTATT
1 TTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTT-GTAAACCAGTGGTATT
* *
99542753 TT-GTAATTTTACAAACTAGGGGTATTT
1 TTGGTAATTTTACAAACCAAGGGTATTT
99542780 TGGTAATTCT
Statistics
Matches: 108, Mismatches: 25, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
53 24 0.22
54 35 0.32
55 16 0.15
56 33 0.31
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (53 bp):
TTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTGTAAACCAGTGGTATT
Found at i:99542805 original size:53 final size:57
Alignment explanation
Indices: 99542689--99542820 Score: 136
Period size: 53 Copynumber: 2.4 Consensus size: 57
99542679 TTGTGTAAAT
* *
99542689 TAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTCATAAACCAG
1 TAGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCATAAACCAG
* ** *
99542746 TA---GTATTTT-GTAATTTTACAAACTAGGGGTATTTTGGTAA-TTC-T-ACCCTA-
1 TAGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCATAAACC-AG
*
99542796 TAGGGGTATTTTAGTAATTTCACAA
1 TAGGGGTATTTTAGTAATTTTACAA
99542821 TTGAAGGTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
50 5 0.08
51 2 0.03
52 3 0.05
53 34 0.53
54 18 0.28
57 2 0.03
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (57 bp):
TAGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCATAAACCAG
Found at i:99542921 original size:27 final size:27
Alignment explanation
Indices: 99542826--99542910 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
99542816 CACAATTGAA
** * *
99542826 GGTAAAATGGTAATTTTGTAAATCGAG
1 GGTAAAACAGTAATTCTATAAATCGAG
*
99542853 GGTAAAACAGTAATTCTATAAATCAAG
1 GGTAAAACAGTAATTCTATAAATCGAG
99542880 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTAAAACAGTAATTCTATAAATCGAG
99542907 GGTA
1 GGTA
99542911 CTTTGGTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.28
Consensus pattern (27 bp):
GGTAAAACAGTAATTCTATAAATCGAG
Found at i:99544353 original size:60 final size:60
Alignment explanation
Indices: 99544226--99544367 Score: 144
Period size: 60 Copynumber: 2.4 Consensus size: 60
99544216 ATCAGAGTTA
* * * *
99544226 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCTTTACAATATTAGAGTAT
1 ACTGGGCC-GAGCCCATATCAATATCAATCTGGGCCATAGCCCTTAACAATAGTAGAGTAT
* * * *
99544287 ACTGGGCCGAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATAACAAGTCGT-GA-TAT
1 ACTGGGCCGAGCCCATATCAATATCAATCTGGGCCATAGCCCT-TAACAA-TAGTAGAGTAT
* **
99544347 ATTGGGCCTTGCCCATATCAA
1 ACTGGGCCGAGCCCATATCAA
99544368 CACAGTTGGT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
60 50 0.75
61 15 0.22
62 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (60 bp):
ACTGGGCCGAGCCCATATCAATATCAATCTGGGCCATAGCCCTTAACAATAGTAGAGTAT
Found at i:99545925 original size:14 final size:14
Alignment explanation
Indices: 99545906--99545932 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99545896 GAGAAAAATG
99545906 AAAAATAAACGGCC
1 AAAAATAAACGGCC
99545920 AAAAATAAACGGC
1 AAAAATAAACGGC
99545933 ACTTATTTGC
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:0.59, C:0.19, G:0.15, T:0.07
Consensus pattern (14 bp):
AAAAATAAACGGCC
Found at i:99546858 original size:459 final size:458
Alignment explanation
Indices: 99546000--99546921 Score: 1560
Period size: 459 Copynumber: 2.0 Consensus size: 458
99545990 AATTCCATGT
99546000 TTTGCTCCTAAATTTCAGCCACCACCAATTTAAATCCCATCCAAATTCCTTGCACCATCAGCAGC
1 TTTGCTCCTAAATTTCAGCCACCACCAATTTAAATCCCATCCAAATTCCTTGCACCATCAGCAGC
* *
99546065 AGTCCACCGCTTGACCGACTCAAGCCACTGCTAGGAGAGTTTCGGTCAAACTCTAACTCTCCCCC
66 AGTCCACCACTTGACCGACTCAAGCCACTGCTAGGAGAGTTTCGGTCAAACTCTAACTCTACCCC
* * *
99546130 ACGTGAGCAGCAAAATTGGTCGCCCATTGCGCGTACAGCAGCTCGAAACTGAGACCTCCAGACAG
131 ACGTGAGCAGCAAAATTGGTCGCCCAGTGCGCGTACAGCAGCTCGAAACCGAGACCTCCAGACAC
* *
99546195 CCACATATGCTGCTTACCACTGCACTGAAGCTCCTCTCATGACATAATCTACTCACAATTAATTT
196 CCACATACGCTACTTACCACTGCACTGAAGCTCCTCTCATGACATAATCTACTCACAATTAATTT
* * * *
99546260 TAAGACTTATCTACTGCAGTCCTGGTTCATTTAAAAATAAAACAAAAACATTGCTACTTACTAGA
261 TAAGACTTATCTACTGCAGTCCCGGTTCATTTAAAAATAAAACAAAAACATCGCTACTTACCAAA
* * *
99546325 CTCGAACCTCTACACTCCAACTATACCACCCGTACCTTACCACCACGCTACTTGCTCGATTGTGT
326 CTCAAACCTCTACACTCCAACTACACCACCCGTACCTTACCACCACGCCACTTGCTCGATTGTGT
*
99546390 CTTCTTTCCTCCCGGGGTAATTATAAGGCCTCCTTT-CGACAATCCCTGGTTGTTAAAAAAAAAT
391 CTTCTTTCCTCCCGAGGTAATTATAAGGCCT-CTTTGCGACAATCCCTGGTTGTT-AAAAAAAAT
99546454 CAACA
454 CAACA
99546459 TTTGCTCCTAAATTTCAGCCACCACCAATTTAAATCCCATCCAAATTCCTTGCACCATCAGCAGC
1 TTTGCTCCTAAATTTCAGCCACCACCAATTTAAATCCCATCCAAATTCCTTGCACCATCAGCAGC
* * *
99546524 AGTCCACCACTTGACTGACTTAAGCCACTGCTAGGAGAGTTTCGGTCAAACTCTAACTCTACTCC
66 AGTCCACCACTTGACCGACTCAAGCCACTGCTAGGAGAGTTTCGGTCAAACTCTAACTCTACCCC
* *
99546589 ACGTGAGCAGCAAAATTGGTCGCCCAGTGCGTGTACAGCAGCTCGAAACCGAGACCTCCAGGCAC
131 ACGTGAGCAGCAAAATTGGTCGCCCAGTGCGCGTACAGCAGCTCGAAACCGAGACCTCCAGACAC
* *
99546654 CCACATACGCTACTTGCCACTGCACTGAAGCTCCTCTCATGATATAATCTACTCACAATTAATTT
196 CCACATACGCTACTTACCACTGCACTGAAGCTCCTCTCATGACATAATCTACTCACAATTAATTT
*
99546719 TAAGACTTATCTACTGCAGTCCCGGTTCATTTAAAAATAAAACAAAAACATCGCTAGTTACCAAA
261 TAAGACTTATCTACTGCAGTCCCGGTTCATTTAAAAATAAAACAAAAACATCGCTACTTACCAAA
* * *
99546784 CTCAAACC-CGTACCCTTCAACTACACCACCCGTACCTTACCACCACGCCACTTGCTGGATTGTG
326 CTCAAACCTC-TACACTCCAACTACACCACCCGTACCTTACCACCACGCCACTTGCTCGATTGTG
*
99546848 TCTTCTTTCCTCCCGAGGTAATTATAATGCCTCTTTGCGACAATCCCTGGTTGTTAAAAAAAATC
390 TCTTCTTTCCTCCCGAGGTAATTATAAGGCCTCTTTGCGACAATCCCTGGTTGTTAAAAAAAATC
99546913 AACA
455 AACA
99546917 TTTGC
1 TTTGC
99546922 GCACACTGGA
Statistics
Matches: 434, Mismatches: 27, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
458 24 0.06
459 410 0.94
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (458 bp):
TTTGCTCCTAAATTTCAGCCACCACCAATTTAAATCCCATCCAAATTCCTTGCACCATCAGCAGC
AGTCCACCACTTGACCGACTCAAGCCACTGCTAGGAGAGTTTCGGTCAAACTCTAACTCTACCCC
ACGTGAGCAGCAAAATTGGTCGCCCAGTGCGCGTACAGCAGCTCGAAACCGAGACCTCCAGACAC
CCACATACGCTACTTACCACTGCACTGAAGCTCCTCTCATGACATAATCTACTCACAATTAATTT
TAAGACTTATCTACTGCAGTCCCGGTTCATTTAAAAATAAAACAAAAACATCGCTACTTACCAAA
CTCAAACCTCTACACTCCAACTACACCACCCGTACCTTACCACCACGCCACTTGCTCGATTGTGT
CTTCTTTCCTCCCGAGGTAATTATAAGGCCTCTTTGCGACAATCCCTGGTTGTTAAAAAAAATCA
ACA
Found at i:99550462 original size:29 final size:30
Alignment explanation
Indices: 99550419--99550479 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
99550409 TTAGTGGTTA
*
99550419 GTTAGAAAAAGAAATTATTGAAGAAATTGG
1 GTTAGAAAAAGAAATTATTAAAGAAATTGG
99550449 GTTAG-AAAAGAAATTATTAAAGAAATTGG
1 GTTAGAAAAAGAAATTATTAAAGAAATTGG
99550478 GT
1 GT
99550480 ACAAACAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (30 bp):
GTTAGAAAAAGAAATTATTAAAGAAATTGG
Found at i:99553189 original size:13 final size:13
Alignment explanation
Indices: 99553171--99553195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99553161 CACTTGATAA
99553171 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
99553184 GGTTTCCTAAAA
1 GGTTTCCTAAAA
99553196 TATCATGTGA
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:0.20, T:0.32
Consensus pattern (13 bp):
GGTTTCCTAAAAG
Found at i:99557850 original size:13 final size:13
Alignment explanation
Indices: 99557832--99557862 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
99557822 AGCTTCTGCC
*
99557832 AAAATCGATACGT
1 AAAATCGAGACGT
99557845 AAAATCGAGACGT
1 AAAATCGAGACGT
99557858 AAAAT
1 AAAAT
99557863 GATGACTCAG
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:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (13 bp):
AAAATCGAGACGT
Found at i:99560464 original size:13 final size:13
Alignment explanation
Indices: 99560446--99560471 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99560436 CACTTGATAA
99560446 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
99560459 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
99560472 TACTCTCATG
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:0.23, T:0.31
Consensus pattern (13 bp):
GGTTTCCTAAAAG
Found at i:99560669 original size:25 final size:25
Alignment explanation
Indices: 99560633--99560713 Score: 110
Period size: 25 Copynumber: 3.2 Consensus size: 25
99560623 TAAATTGTCA
* *
99560633 AAGCTCACACGAGCTGAGAATCGAT
1 AAGCTCTCACGAGCTGAGAATCGGT
* *
99560658 AAGCTTTTACGAGCTGAGAATCGGT
1 AAGCTCTCACGAGCTGAGAATCGGT
99560683 AAGCTCTCACGAGCTGCA-AATCGGT
1 AAGCTCTCACGAGCTG-AGAATCGGT
99560708 AAGCTC
1 AAGCTC
99560714 ATACAAGCTG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
25 48 0.98
26 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (25 bp):
AAGCTCTCACGAGCTGAGAATCGGT
Found at i:99560722 original size:25 final size:25
Alignment explanation
Indices: 99560633--99560723 Score: 105
Period size: 25 Copynumber: 3.6 Consensus size: 25
99560623 TAAATTGTCA
* *
99560633 AAGCTCACACGAGCTGAGAATCGAT
1 AAGCTCATACGAGCTGAGAATCGGT
**
99560658 AAGCTTTTACGAGCTGAGAATCGGT
1 AAGCTCATACGAGCTGAGAATCGGT
99560683 AAGCTC-TCACGAGCTGCA-AATCGGT
1 AAGCTCAT-ACGAGCTG-AGAATCGGT
*
99560708 AAGCTCATACAAGCTG
1 AAGCTCATACGAGCTG
99560724 TGGTGTGTCC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
24 1 0.02
25 54 0.95
26 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (25 bp):
AAGCTCATACGAGCTGAGAATCGGT
Found at i:99563186 original size:47 final size:50
Alignment explanation
Indices: 99563130--99563238 Score: 136
Period size: 47 Copynumber: 2.2 Consensus size: 50
99563120 GGCTTTGCCA
* * *
99563130 AAGTAAACAGTAACAGTACGATACTC-A-GTACCTTATCGGA-TTAAA-TCG
1 AAGT-AACAGTAACAGTACGACACACAATGTACCTCATC-GACTTAAAGTCG
*
99563178 AAGTAACAGTAACAGTACGACACACAATGTGCCTCATCGACTTAAAGTCG
1 AAGTAACAGTAACAGTACGACACACAATGTACCTCATCGACTTAAAGTCG
99563228 AAGTAACAGTA
1 AAGTAACAGTA
99563239 CGACACTTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
47 19 0.36
48 7 0.13
49 13 0.25
50 14 0.26
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.22
Consensus pattern (50 bp):
AAGTAACAGTAACAGTACGACACACAATGTACCTCATCGACTTAAAGTCG
Found at i:99563254 original size:44 final size:44
Alignment explanation
Indices: 99563185--99563276 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
99563175 TCGAAGTAAC
*
99563185 AGTAACAGTACGACACACAATGTGCCTCATCGACTTAAAGTCGA
1 AGTAACAGTACGACACACAATGTGCCTCATCGACTCAAAGTCGA
** * *
99563229 AGTAACAGTACGACAC-TTATAGTGCCTTATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACAAT-GTGCCTCATCGACTCAAAGTCGA
99563273 AGTA
1 AGTA
99563277 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTAACAGTACGACACACAATGTGCCTCATCGACTCAAAGTCGA
Found at i:99567600 original size:3 final size:3
Alignment explanation
Indices: 99567592--99567654 Score: 92
Period size: 3 Copynumber: 21.3 Consensus size: 3
99567582 GGCTTCATTT
* * *
99567592 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAG TTA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
99567639 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
99567655 TAAATCTACT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:99568568 original size:146 final size:147
Alignment explanation
Indices: 99568292--99568611 Score: 374
Period size: 146 Copynumber: 2.2 Consensus size: 147
99568282 ATTCATATGC
* * * * ** * *
99568292 CACATGGCCTGGACACACGCTCATATCCTTACCCGTGTGGCTCACACGGCCTGGGCATATGCCCA
1 CACATGGCCTGGGCACACGCCCATGTCCTTACCCGCGTGGCTCACACGAACTGAGCACATGCCCA
** * ** * * * *
99568357 TGTCGTTTTCCCATATGGTTCGAAATTATAAACAGTGAGCTACACGGCCTGGACACATGCTCATG
66 TGTCGCCTGCCCATATGGTTCGAAAGCATAAACAATGAGCTACACAGCCTGGACACAAGCCCATG
99568422 TCCTTGCCCGT-ATGGCT
131 TCCTTGCCCGTGA-GGCT
* * * *
99568439 TACATGGCCTGGGCACAAGCCCATGTCCTTGCCCGCGTGGTTCACACGAACTGAGCACATGCCCA
1 CACATGGCCTGGGCACACGCCCATGTCCTTACCCGCGTGGCTCACACGAACTGAGCACATGCCCA
* * * *
99568504 TGTC-CCTGGCCATGTGGTTCTAAAGCATAAACAATGAGTTACACAGCCTGGACACAAGCCCATG
66 TGTCGCCTGCCCATATGGTTCGAAAGCATAAACAATGAGCTACACAGCCTGGACACAAGCCCATG
*
99568568 TCCTTGCTCGTGAGGCT
131 TCCTTGCCCGTGAGGCT
*
99568585 CACACGGCCTGGGCACACGCCCATGTC
1 CACATGGCCTGGGCACACGCCCATGTC
99568612 TCTAGTCGTG
Statistics
Matches: 143, Mismatches: 29, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
146 85 0.59
147 58 0.41
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.23
Consensus pattern (147 bp):
CACATGGCCTGGGCACACGCCCATGTCCTTACCCGCGTGGCTCACACGAACTGAGCACATGCCCA
TGTCGCCTGCCCATATGGTTCGAAAGCATAAACAATGAGCTACACAGCCTGGACACAAGCCCATG
TCCTTGCCCGTGAGGCT
Found at i:99570198 original size:32 final size:32
Alignment explanation
Indices: 99570162--99570222 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
99570152 GGAGGTGCGG
*
99570162 CAATGTTGGTGTAATATGAGAAGAATGCACGA
1 CAATGTTGGCGTAATATGAGAAGAATGCACGA
99570194 CAATGTTGGCGTAATATGAGAAGAATGCA
1 CAATGTTGGCGTAATATGAGAAGAATGCA
99570223 AAATTGCAAT
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:0.38, C:0.10, G:0.28, T:0.25
Consensus pattern (32 bp):
CAATGTTGGCGTAATATGAGAAGAATGCACGA
Found at i:99574766 original size:15 final size:15
Alignment explanation
Indices: 99574746--99574777 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
99574736 TATTTATTTA
*
99574746 TTTATTTTAATTAAT
1 TTTATTTAAATTAAT
99574761 TTTATTTAAATTAAT
1 TTTATTTAAATTAAT
99574776 TT
1 TT
99574778 CTTAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATTTAAATTAAT
Found at i:99574788 original size:17 final size:17
Alignment explanation
Indices: 99574754--99574796 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
99574744 TATTTATTTT
*
99574754 AATTAA-TT-TTATTTA
1 AATTAATTTCTTAATTA
99574769 AATTAATTTCTTAATTA
1 AATTAATTTCTTAATTA
*
99574786 AATTATTTTCT
1 AATTAATTTCT
99574797 CAACCTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 6 0.25
16 2 0.08
17 16 0.67
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (17 bp):
AATTAATTTCTTAATTA
Found at i:99590077 original size:17 final size:18
Alignment explanation
Indices: 99590036--99590078 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
99590026 TGTATTTACT
99590036 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
99590054 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
99590071 TATTATAT
1 TATTATAT
99590079 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:99592067 original size:22 final size:22
Alignment explanation
Indices: 99592037--99592092 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
99592027 CGGGTTGATA
* *
99592037 ACACAGGCGTGTCACATCAGCC
1 ACACGGGCGTGTCACATCAACC
*
99592059 ACACGGGCGTGTCACATCAATC
1 ACACGGGCGTGTCACATCAACC
99592081 ACACGGGCGTGT
1 ACACGGGCGTGT
99592093 GGTACTATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.25, C:0.32, G:0.27, T:0.16
Consensus pattern (22 bp):
ACACGGGCGTGTCACATCAACC
Found at i:99596648 original size:42 final size:42
Alignment explanation
Indices: 99596602--99596762 Score: 153
Period size: 42 Copynumber: 3.7 Consensus size: 42
99596592 TCATTTTCTC
**
99596602 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT
1 GATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAAT
* * * * *
99596644 GATGCCAAACCCCAACTATTGTCTTACACATATTCATAT-AT
1 GATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAAT
* * *
99596685 CGATGCCATAGTCCAGCTATGGTCTTACACGGATCACATATCACATATT
1 -GATGCCATAGCCCAACTATGGTCTTACAC--AT--C-T-TCACATAAT
*
99596734 GATGCCATAGCCCAGCTATGGTCTTACAC
1 GATGCCATAGCCCAACTATGGTCTTACAC
99596763 GAATCACATA
Statistics
Matches: 95, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.02
42 56 0.59
44 2 0.02
47 1 0.01
48 33 0.35
49 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
GATGCCATAGCCCAACTATGGTCTTACACATCTTCACATAAT
Found at i:99596742 original size:48 final size:48
Alignment explanation
Indices: 99596670--99596805 Score: 170
Period size: 48 Copynumber: 2.9 Consensus size: 48
99596660 TATTGTCTTA
* * *
99596670 CACATATTCATATATCGATGCCATAGTCCAGCTATGGTCTTACACGGAT
1 CACATA-TCACATATTGATGCCATAGTCCAGCTATGGTCTTACACGAAT
*
99596719 CACATATCACATATTGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATTGATGCCATAGTCCAGCTATGGTCTTACACGAAT
* * *
99596767 CACATATCTC--ATTGATGCCATA-TCCCAGATATAGTCTTA
1 CACATATCACATATTGATGCCATAGT-CCAGCTATGGTCTTA
99596806 TACAGTAGCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
46 25 0.32
48 47 0.60
49 6 0.08
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (48 bp):
CACATATCACATATTGATGCCATAGTCCAGCTATGGTCTTACACGAAT
Found at i:99607298 original size:39 final size:40
Alignment explanation
Indices: 99607094--99607316 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
99607084 TTGAATGCTG
* * * * * *
99607094 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
99607134 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
99607174 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
99607214 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
99607254 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
99607293 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
99607317 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:99607336 original size:79 final size:80
Alignment explanation
Indices: 99607169--99607351 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
99607159 GTGCGAGATA
* * *
99607169 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
99607234 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
99607249 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
99607313 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
99607328 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
99607352 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:99625173 original size:39 final size:40
Alignment explanation
Indices: 99624969--99625191 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
99624959 TTGAATGCTG
* * * * * *
99624969 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
99625009 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
99625049 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
99625089 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
99625129 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
99625168 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
99625192 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:99625211 original size:79 final size:80
Alignment explanation
Indices: 99625044--99625226 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
99625034 GTGCGAGATA
* * *
99625044 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
99625109 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
99625124 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
99625188 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
99625203 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
99625227 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:99629503 original size:30 final size:30
Alignment explanation
Indices: 99629467--99629526 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
99629457 CTAAATTACA
*
99629467 GAAGAAGAACCGGTTAAGATACTGGCATAT
1 GAAGAAGAACCGGTTAAGATACTAGCATAT
*
99629497 GAAGAAGAACCGGTTACGATACTAGCATAT
1 GAAGAAGAACCGGTTAAGATACTAGCATAT
99629527 CGTGATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (30 bp):
GAAGAAGAACCGGTTAAGATACTAGCATAT
Found at i:99630130 original size:17 final size:18
Alignment explanation
Indices: 99630089--99630131 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
99630079 TGTATTTACT
99630089 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
99630107 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
99630124 TATTATAT
1 TATTATAT
99630132 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:99632084 original size:22 final size:22
Alignment explanation
Indices: 99632059--99632101 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
99632049 ATGGGCGTGT
*
99632059 CACATCAGCCACACGGGCATGC
1 CACATCAACCACACGGGCATGC
99632081 CACATCAACCACACGGGCATG
1 CACATCAACCACACGGGCATG
99632102 TGGTACTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.40, G:0.21, T:0.09
Consensus pattern (22 bp):
CACATCAACCACACGGGCATGC
Found at i:99633332 original size:21 final size:21
Alignment explanation
Indices: 99633303--99633352 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
99633293 GGGTCTACAT
99633303 GCCCATGTGAAGGCCACACAC
1 GCCCATGTGAAGGCCACACAC
* * *
99633324 GCCCGTGTGGAGGGCACACAC
1 GCCCATGTGAAGGCCACACAC
99633345 GCCCATGT
1 GCCCATGT
99633353 AAGCAGCCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.36, G:0.30, T:0.12
Consensus pattern (21 bp):
GCCCATGTGAAGGCCACACAC
Found at i:99638026 original size:28 final size:30
Alignment explanation
Indices: 99637967--99638026 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 30
99637957 TTCTCCCCTG
* *
99637967 TTTTTCGTTTCTATTCTGTTTCTTTCCGTC
1 TTTTTCGTTTCTATTCTGTTTCTTTACATC
* *
99637997 TTTTTTGTTTCT-TTCT-TTTCTTTATATC
1 TTTTTCGTTTCTATTCTGTTTCTTTACATC
99638025 TT
1 TT
99638027 ATATATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 11 0.42
29 4 0.15
30 11 0.42
ACGTcount: A:0.05, C:0.18, G:0.07, T:0.70
Consensus pattern (30 bp):
TTTTTCGTTTCTATTCTGTTTCTTTACATC
Found at i:99638347 original size:12 final size:12
Alignment explanation
Indices: 99638330--99638368 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
99638320 TTTATTTCAT
99638330 TATAATATAATA
1 TATAATATAATA
99638342 TATAATATAATTAA
1 TATAATATAA-T-A
*
99638356 TATAATTTAATA
1 TATAATATAATA
99638368 T
1 T
99638369 TAACCAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 12 0.50
13 2 0.08
14 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TATAATATAATA
Found at i:99639600 original size:21 final size:21
Alignment explanation
Indices: 99639576--99639650 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
99639566 GGGGGTTTAC
* *
99639576 ATGCCCATGTGAAGGCCATAT
1 ATGCCCGTGTGAAGGCCACAT
*
99639597 ATGCTCGTGTGAAGGCCACAT
1 ATGCCCGTGTGAAGGCCACAT
* * ** *
99639618 ACGCCCGTGTGGAGGGGACAC
1 ATGCCCGTGTGAAGGCCACAT
99639639 ATGCCCGTGTGA
1 ATGCCCGTGTGA
99639651 GTAGCTCGTG
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.23, C:0.25, G:0.32, T:0.20
Consensus pattern (21 bp):
ATGCCCGTGTGAAGGCCACAT
Found at i:99640252 original size:15 final size:16
Alignment explanation
Indices: 99640232--99640261 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
99640222 CTTTTATAAA
99640232 AAATAAA-ATAAAAAC
1 AAATAAATATAAAAAC
99640247 AAATAAATATAAAAA
1 AAATAAATATAAAAA
99640262 ACACTCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAATATAAAAAC
Found at i:99654781 original size:13 final size:13
Alignment explanation
Indices: 99654763--99654787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99654753 ACATTTGTGC
99654763 TTTTGTTTTTTTT
1 TTTTGTTTTTTTT
99654776 TTTTGTTTTTTT
1 TTTTGTTTTTTT
99654788 CTTAAGGTTT
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTGTTTTTTTT
Found at i:99657851 original size:14 final size:14
Alignment explanation
Indices: 99657832--99657862 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
99657822 TTAACTTGTC
99657832 AATTCATATATTAT
1 AATTCATATATTAT
99657846 AATTCATATATTAT
1 AATTCATATATTAT
99657860 AAT
1 AAT
99657863 AGAAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTCATATATTAT
Found at i:99659708 original size:16 final size:16
Alignment explanation
Indices: 99659687--99659738 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
99659677 ATATATAGTT
99659687 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
99659703 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
*
99659719 AA--AATTGAAAAGTG
1 AATTAATTGAAAATTG
99659733 AATTAA
1 AATTAA
99659739 ATACCCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 13 0.41
16 14 0.44
17 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:99659985 original size:53 final size:53
Alignment explanation
Indices: 99659910--99660030 Score: 185
Period size: 53 Copynumber: 2.3 Consensus size: 53
99659900 TACTGTTACC
99659910 GTTACTGTTACTGTTTCCGATTTGTTCCT-ATGAGGTACTCTGTGTACCGTACT
1 GTTACTGTTACTGTTTCCGATTTGTT-CTGATGAGGTACTCTGTGTACCGTACT
99659963 GTTACTGTTA-TCG-TTCCAGATTTGTTCTGATGAGGTACTCTGTGTACCGTACT
1 GTTACTGTTACT-GTTTCC-GATTTGTTCTGATGAGGTACTCTGTGTACCGTACT
*
99660016 GCTACTGTTACTGTT
1 GTTACTGTTACTGTT
99660031 ACTGTTCTGG
Statistics
Matches: 62, Mismatches: 1, Indels: 9
0.86 0.01 0.12
Matches are distributed among these distances:
52 7 0.11
53 53 0.85
54 2 0.03
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.43
Consensus pattern (53 bp):
GTTACTGTTACTGTTTCCGATTTGTTCTGATGAGGTACTCTGTGTACCGTACT
Found at i:99660279 original size:18 final size:18
Alignment explanation
Indices: 99660229--99660343 Score: 97
Period size: 18 Copynumber: 6.3 Consensus size: 18
99660219 ACCGATCAAT
* *
99660229 TGATTGATACTGAAAAAC
1 TGATTGTTACTGAATAAC
* * *
99660247 TGATTATTATTGAATAAT
1 TGATTGTTACTGAATAAC
*
99660265 TGATTGTTACCGAATAAC
1 TGATTGTTACTGAATAAC
* *
99660283 TGACTGTTACTGAATAAA
1 TGATTGTTACTGAATAAC
* * *
99660301 TAATTGTT-CTGATTGAC
1 TGATTGTTACTGAATAAC
*
99660318 TGATTGTTAATGAATATTAC
1 TGATTGTTACTGAATA--AC
99660338 TGATTG
1 TGATTG
99660344 ATTAATTGCT
Statistics
Matches: 73, Mismatches: 21, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
17 13 0.18
18 52 0.71
20 8 0.11
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.40
Consensus pattern (18 bp):
TGATTGTTACTGAATAAC
Found at i:99662587 original size:26 final size:26
Alignment explanation
Indices: 99662558--99662665 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
99662548 TGGTACAAAT
99662558 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
99662584 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99662610 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
99662636 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99662662 TGAT
1 TGAT
99662666 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:99665437 original size:18 final size:18
Alignment explanation
Indices: 99665416--99665459 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
99665406 TTTTTAACTA
99665416 ATAATTATAGCTTAAAT-T
1 ATAATTAT-GCTTAAATGT
**
99665434 ATAATTATTTTTAAATGT
1 ATAATTATGCTTAAATGT
99665452 ATAATTAT
1 ATAATTAT
99665460 CACCACTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (18 bp):
ATAATTATGCTTAAATGT
Found at i:99668404 original size:6 final size:6
Alignment explanation
Indices: 99668393--99668422 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
99668383 TTTTTAACTA
99668393 ATAATT ATAATT ATAATT ATAATT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT
99668423 TTTGTCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:99669567 original size:25 final size:25
Alignment explanation
Indices: 99669497--99669567 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 25
99669487 ATATTTTCAC
* *
99669497 ATTAATGTTATTTACAATTTTT-TA
1 ATTAAAGTTATTTATAATTTTTATA
* * * **
99669521 ATTAAA-CTCTTCATAACATTTATA
1 ATTAAAGTTATTTATAATTTTTATA
99669545 ATTAAAGTTATTTATAATTTTTA
1 ATTAAAGTTATTTATAATTTTTA
99669568 ATATTTATAA
Statistics
Matches: 33, Mismatches: 12, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
23 9 0.27
24 13 0.39
25 11 0.33
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (25 bp):
ATTAAAGTTATTTATAATTTTTATA
Found at i:99669918 original size:21 final size:21
Alignment explanation
Indices: 99669894--99669962 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
99669884 TATGTTCTAG
*
99669894 TACCTTATACCTATATTTTGA
1 TACCTTATACCTATGTTTTGA
**
99669915 TACCTCT-TGTCTATGTTTTGA
1 TACCT-TATACCTATGTTTTGA
* *
99669936 TAACTCATACCTATGTTCTT-A
1 TACCTTATACCTATGTT-TTGA
99669957 TACCTT
1 TACCTT
99669963 GGGTTTGAGG
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
21 33 0.92
22 3 0.08
ACGTcount: A:0.23, C:0.22, G:0.07, T:0.48
Consensus pattern (21 bp):
TACCTTATACCTATGTTTTGA
Found at i:99671040 original size:18 final size:19
Alignment explanation
Indices: 99671014--99671051 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
99671004 TACTTTTCCC
* *
99671014 AAACCAAAAA-CATTGTCA
1 AAACAAAAAATCAATGTCA
99671032 AAACAAAAAATCAATGTCA
1 AAACAAAAAATCAATGTCA
99671051 A
1 A
99671052 TAACTACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.61, C:0.18, G:0.05, T:0.16
Consensus pattern (19 bp):
AAACAAAAAATCAATGTCA
Found at i:99671154 original size:14 final size:15
Alignment explanation
Indices: 99671135--99671167 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
99671125 ATCAGTAATC
99671135 GAATAAAAATACTT-
1 GAATAAAAATACTTA
99671149 GAATAAAAATACTTA
1 GAATAAAAATACTTA
99671164 GAAT
1 GAAT
99671168 CCTGACTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (15 bp):
GAATAAAAATACTTA
Found at i:99672027 original size:16 final size:16
Alignment explanation
Indices: 99672006--99672036 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99671996 CGAAACATGA
*
99672006 AACACATTATGGATGC
1 AACACATTATAGATGC
99672022 AACACATTATAGATG
1 AACACATTATAGATG
99672037 TGACTCTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (16 bp):
AACACATTATAGATGC
Found at i:99673051 original size:43 final size:43
Alignment explanation
Indices: 99672998--99673090 Score: 177
Period size: 43 Copynumber: 2.2 Consensus size: 43
99672988 TGACTTAATT
*
99672998 ATAAAGTTTAATTGTTAGTTTCATGCATTAGGGACCAAATTAA
1 ATAAAATTTAATTGTTAGTTTCATGCATTAGGGACCAAATTAA
99673041 ATAAAATTTAATTGTTAGTTTCATGCATTAGGGACCAAATTAA
1 ATAAAATTTAATTGTTAGTTTCATGCATTAGGGACCAAATTAA
99673084 ATAAAAT
1 ATAAAAT
99673091 GAAAAACTGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (43 bp):
ATAAAATTTAATTGTTAGTTTCATGCATTAGGGACCAAATTAA
Found at i:99677408 original size:16 final size:16
Alignment explanation
Indices: 99677387--99677418 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
99677377 TCATCACAAC
99677387 ATAGATACATTTATAT
1 ATAGATACATTTATAT
*
99677403 ATAGATTCATTTATAT
1 ATAGATACATTTATAT
99677419 TAAAACAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
ATAGATACATTTATAT
Found at i:99696226 original size:17 final size:18
Alignment explanation
Indices: 99696206--99696239 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
99696196 GTTGAATTAA
*
99696206 AAATTGTGAA-ATTAAAT
1 AAATTGCGAACATTAAAT
99696223 AAATTGCGAACATTAAA
1 AAATTGCGAACATTAAA
99696240 ATGAAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGCGAACATTAAAT
Found at i:99698991 original size:5 final size:5
Alignment explanation
Indices: 99698967--99699085 Score: 77
Period size: 5 Copynumber: 22.8 Consensus size: 5
99698957 CCACTCAAAC
* * *
99698967 AAAAT AAAGT AATA- AAAAT AAAAT AAAAT AAAAT AAAAT AAAGT AATGAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA--AAT
*
99699018 -AAAT -AAAT AAGAAAT AAAAT AATAAAT AATAA- ATAAT AAAAT AAAAAT
1 AAAAT AAAAT -A-AAAT AAAAT -A-AAAT AA-AAT AAAAT AAAAT -AAAAT
99699066 AAAAAT AAAGA- AAAAT AAAA
1 -AAAAT AAA-AT AAAAT AAAA
99699086 ATTGGGTTGC
Statistics
Matches: 93, Mismatches: 8, Indels: 26
0.73 0.06 0.20
Matches are distributed among these distances:
4 13 0.14
5 52 0.56
6 18 0.19
7 10 0.11
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:99699005 original size:34 final size:35
Alignment explanation
Indices: 99698967--99699074 Score: 136
Period size: 34 Copynumber: 3.1 Consensus size: 35
99698957 CCACTCAAAC
99698967 AAAATAAAGTAATAAAAATAAAAT-AAAATAAAAT
1 AAAATAAAGTAATAAAAATAAAATAAAAATAAAAT
99699001 AAAATAAAGTAATGAATAAAT-AAATAAGAAATAAAAT
1 AAAATAAAGTAAT-AA-AAATAAAATAA-AAATAAAAT
99699038 --AATAAA-TAATAAATAATAAAATAAAAATAAAAAT
1 AAAATAAAGTAATAAA-AATAAAATAAAAAT-AAAAT
99699072 AAA
1 AAA
99699075 GAAAAATAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 16
0.80 0.00 0.20
Matches are distributed among these distances:
32 1 0.02
33 9 0.14
34 28 0.43
35 12 0.18
36 6 0.09
37 9 0.14
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (35 bp):
AAAATAAAGTAATAAAAATAAAATAAAAATAAAAT
Found at i:99699032 original size:27 final size:24
Alignment explanation
Indices: 99698968--99699084 Score: 84
Period size: 26 Copynumber: 4.7 Consensus size: 24
99698958 CACTCAAACA
*
99698968 AAATAAAGTAATAA-AAATAA-AAT
1 AAATAAA-TAAAAATAAATAATAAT
99698991 AAAATAAA-ATAAAATAAAGTAATGAAT
1 -AAATAAATA-AAAATAAA-TAAT-AAT
99699018 AAATAAATAAGAAATAAAATAATAA-
1 AAATAAATAA-AAAT-AAATAATAAT
99699043 ATAATAAATAATAAAATAAA-AATAA-
1 A-AATAAAT-A-AAAATAAATAATAAT
*
99699068 AAATAAAGAAAAATAAA
1 AAATAAATAAAAATAAA
99699085 AATTGGGTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 24
0.75 0.02 0.23
Matches are distributed among these distances:
22 9 0.11
23 4 0.05
24 16 0.20
25 10 0.12
26 20 0.25
27 17 0.21
28 4 0.05
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (24 bp):
AAATAAATAAAAATAAATAATAAT
Found at i:99699034 original size:7 final size:6
Alignment explanation
Indices: 99699022--99699087 Score: 57
Period size: 6 Copynumber: 10.7 Consensus size: 6
99699012 ATGAATAAAT
99699022 AAATAA GAAAT-A AAATAA TAAATAA TAAATAATA AAATAA AAATAA AAAT--
1 AAATAA -AAATAA AAATAA -AAATAA -AAAT-A-A AAATAA AAATAA AAATAA
*
99699072 AAAGAA AAATAA AAAT
1 AAATAA AAATAA AAAT
99699088 TGGGTTGCCT
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
4 3 0.06
5 4 0.08
6 22 0.43
7 16 0.31
8 5 0.10
9 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:99699085 original size:27 final size:26
Alignment explanation
Indices: 99698977--99699085 Score: 89
Period size: 27 Copynumber: 3.9 Consensus size: 26
99698967 AAAATAAAGT
99698977 AATAA-AAATAAAATAAAATAAAATAA
1 AATAATAAATAAAA-AAAATAAAATAA
99699003 AATAA-AGTAATGAATAAATAAATAAGAAATAA
1 AATAATA--AAT-AA-AAA-AAAT-A-AAATAA
*
99699035 AATAATAAATAATAAATAATAAAATAAA
1 AATAATAAATAA-AAAAAATAAAAT-AA
99699063 AATAA-AAATAAAGAAAAATAAAA
1 AATAATAAATAAA-AAAAATAAAA
99699086 ATTGGGTTGC
Statistics
Matches: 71, Mismatches: 2, Indels: 19
0.77 0.02 0.21
Matches are distributed among these distances:
26 7 0.10
27 19 0.27
28 11 0.15
29 6 0.08
30 12 0.17
31 4 0.06
32 11 0.15
33 1 0.01
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (26 bp):
AATAATAAATAAAAAAAATAAAATAA
Found at i:99711733 original size:39 final size:39
Alignment explanation
Indices: 99711677--99711816 Score: 208
Period size: 39 Copynumber: 3.6 Consensus size: 39
99711667 ATCGTGATCT
**
99711677 GAAGCCCGAAATCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* * *
99711716 GCAGCCCAAAGGCTAACTGAAGCACATAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* *
99711755 AAAGCTCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
99711794 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
99711817 TCATCAGAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:99733428 original size:16 final size:17
Alignment explanation
Indices: 99733401--99733434 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
99733391 TGTGTAAAGC
99733401 ATTAAGAATTTGAAAAT
1 ATTAAGAATTTGAAAAT
*
99733418 ATTAA-AATTTGTAAAT
1 ATTAAGAATTTGAAAAT
99733434 A
1 A
99733435 ATCTTAACTA
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:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
ATTAAGAATTTGAAAAT
Found at i:99742104 original size:17 final size:18
Alignment explanation
Indices: 99742072--99742105 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99742062 AGCTTAGCTG
*
99742072 GAATTTGAATAATAGAAA
1 GAATATGAATAATAGAAA
99742090 GAATATGAA-AATAGAA
1 GAATATGAATAATAGAA
99742106 TGTTATCGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.24
Consensus pattern (18 bp):
GAATATGAATAATAGAAA
Found at i:99746604 original size:18 final size:18
Alignment explanation
Indices: 99746581--99746618 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
99746571 AATTTAGAGT
99746581 ATGTTTTATCAAAAACTA
1 ATGTTTTATCAAAAACTA
99746599 ATGTTTTATCAAAAACTA
1 ATGTTTTATCAAAAACTA
99746617 AT
1 AT
99746619 TATCTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (18 bp):
ATGTTTTATCAAAAACTA
Found at i:99749965 original size:46 final size:46
Alignment explanation
Indices: 99749913--99750232 Score: 489
Period size: 46 Copynumber: 7.0 Consensus size: 46
99749903 AGTGTGCTCT
*
99749913 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
99749959 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
99750005 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
99750051 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
99750097 CTGATATGAAATGTGTATGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
99750143 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
99750189 ATGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
99750233 TCATGTCAAA
Statistics
Matches: 254, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 253 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:99754662 original size:27 final size:27
Alignment explanation
Indices: 99754629--99754691 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
99754619 ATATTTTAAA
* *
99754629 TATTATTTATATTATCCTTATGACTAT
1 TATTATTTATATTATCATTATCACTAT
* * *
99754656 TATTATTAATATTCTTATTATCACTAT
1 TATTATTTATATTATCATTATCACTAT
99754683 TATT-TTTAT
1 TATTATTTAT
99754692 TCATTTTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.59
Consensus pattern (27 bp):
TATTATTTATATTATCATTATCACTAT
Found at i:99754692 original size:24 final size:26
Alignment explanation
Indices: 99754629--99754713 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
99754619 ATATTTTAAA
* *
99754629 TATTATTTATATT-ATCCTTATGACTAT
1 TATTA-TTATATTCAT-TTTATCACTAT
99754656 TATTATTAATATTC-TTATTATCACTAT
1 TATTATT-ATATTCATT-TTATCACTAT
*
99754683 TATT-TT-TATTCATTTTATCAATA-
1 TATTATTATATTCATTTTATCACTAT
99754706 TATTATTA
1 TATTATTA
99754714 CTCCAGTTAC
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
23 4 0.08
24 15 0.31
25 2 0.04
26 4 0.08
27 24 0.49
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (26 bp):
TATTATTATATTCATTTTATCACTAT
Found at i:99754700 original size:27 final size:27
Alignment explanation
Indices: 99754646--99754713 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 27
99754636 TATATTATCC
*
99754646 TTATGACTATTATTATTAATATTCTTA
1 TTATCACTATTATTATTAATATTCTTA
99754673 TTATCACTATTATT-TT--TATTCATT-
1 TTATCACTATTATTATTAATATTC-TTA
*
99754697 TTATCAATA-TATTATTA
1 TTATCACTATTATTATTA
99754714 CTCCAGTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 4 0.11
24 15 0.42
25 2 0.06
26 2 0.06
27 13 0.36
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.57
Consensus pattern (27 bp):
TTATCACTATTATTATTAATATTCTTA
Found at i:99755215 original size:14 final size:14
Alignment explanation
Indices: 99755196--99755225 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
99755186 CATCATGTTT
99755196 TTTTTAATACTATA
1 TTTTTAATACTATA
99755210 TTTTTAATACTATA
1 TTTTTAATACTATA
99755224 TT
1 TT
99755226 ATGTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTAATACTATA
Found at i:99755232 original size:23 final size:24
Alignment explanation
Indices: 99755206--99755290 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 24
99755196 TTTTTAATAC
99755206 TATAT-TTTTAATACTATATTATG
1 TATATATTTTAATACTATATTATG
99755229 TATATATTTT--TAC-ATGCATTATG
1 TATATATTTTAATACTAT--ATTATG
*
99755252 TACATATTTTCAATAACTATATCATATG
1 TATATATTTT-AAT-ACTATAT--TATG
99755280 TATATATTTTA
1 TATATATTTTA
99755291 TGTACATACT
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
21 2 0.04
22 3 0.06
23 20 0.40
24 4 0.08
26 3 0.06
27 3 0.06
28 15 0.30
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (24 bp):
TATATATTTTAATACTATATTATG
Found at i:99755292 original size:64 final size:58
Alignment explanation
Indices: 99755196--99755352 Score: 136
Period size: 64 Copynumber: 2.5 Consensus size: 58
99755186 CATCATGTTT
* * * *
99755196 TTTTTAATACTATATTTTTAATACTATATTATGTATATATTTTTACAT-GCATTATGTACATA
1 TTTTTAATA-TATATATGT-ATA-TAT-TTATGTACATACTTTTA-ATAGCATTATGTACATA
** **
99755258 TTTTCAATAACTATATCATATGTATATATTTTATGTACATACTTTTAATATTATTATGTATTTA
1 TTTT---TAA-TATAT-ATATGTATATA-TTTATGTACATACTTTTAATAGCATTATGTACATA
99755322 TTTTTAATATATATATGTATATATTTATGTA
1 TTTTTAATATATATATGTATATATTTATGTA
99755353 GTATTATTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
58 8 0.10
59 11 0.14
60 5 0.06
61 3 0.04
62 4 0.05
63 2 0.03
64 31 0.39
65 10 0.12
66 6 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.54
Consensus pattern (58 bp):
TTTTTAATATATATATGTATATATTTATGTACATACTTTTAATAGCATTATGTACATA
Found at i:99755315 original size:23 final size:23
Alignment explanation
Indices: 99755283--99755340 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
99755273 TCATATGTAT
99755283 ATATT-TTATGTACATACTTTTA
1 ATATTATTATGTACATACTTTTA
** *
99755305 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTACATACTTTTA
99755328 ATA-TATATATGTA
1 ATATTAT-TATGTA
99755341 TATATTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.26
23 23 0.74
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (23 bp):
ATATTATTATGTACATACTTTTA
Found at i:99755431 original size:24 final size:22
Alignment explanation
Indices: 99755388--99755448 Score: 59
Period size: 24 Copynumber: 2.7 Consensus size: 22
99755378 TTCTAATATG
* * *
99755388 TATATACTATGTAAATATTTTAA
1 TATATATTATGTATACATTTT-A
*
99755411 TACTATATTATGTATACATTTTT
1 TA-TATATTATGTATACATTTTA
*
99755434 TATATATTACGTATA
1 TATATATTATGTATA
99755449 TATATATCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 12 0.38
23 4 0.12
24 16 0.50
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.51
Consensus pattern (22 bp):
TATATATTATGTATACATTTTA
Found at i:99755561 original size:29 final size:29
Alignment explanation
Indices: 99755512--99755573 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
99755502 ACTATATTAC
* *
99755512 TTTTTTTACATATTATCTTATGTATATAT
1 TTTTTTTACATACTATATTATGTATATAT
*
99755541 TTTTTTTA-ATAACTATATTATGTATGTAT
1 TTTTTTTACAT-ACTATATTATGTATATAT
99755570 TTTT
1 TTTT
99755574 AACGCTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (29 bp):
TTTTTTTACATACTATATTATGTATATAT
Found at i:99755606 original size:25 final size:25
Alignment explanation
Indices: 99755543--99755606 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
99755533 GTATATATTT
**
99755543 TTTTTAATAACTATATTATGTATGTA
1 TTTTTAAT-ACTATATTATGTACATA
**
99755569 TTTTTAACGCTATATTATGTACATA
1 TTTTTAATACTATATTATGTACATA
99755594 TTTTTAATACTAT
1 TTTTTAATACTAT
99755607 GTATATACCT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (25 bp):
TTTTTAATACTATATTATGTACATA
Found at i:99756669 original size:20 final size:19
Alignment explanation
Indices: 99756644--99756684 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
99756634 CTAGACATGT
99756644 TTATATTTTATTTTATCTTC
1 TTATATTTTATTTTAT-TTC
99756664 TTATATTTTATTTTATTTC
1 TTATATTTTATTTTATTTC
99756683 TT
1 TT
99756685 TCTTTCAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATATTTTATTTTATTTC
Found at i:99759058 original size:48 final size:48
Alignment explanation
Indices: 99758944--99759044 Score: 150
Period size: 48 Copynumber: 2.1 Consensus size: 48
99758934 CACAATATAT
* *
99758944 ATATACACATCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
1 ATATACATAGCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
* *
99758992 ATATGCATGGCTCATACATATTTCACATTAGCC-TTTCGGCTTTACCAC
1 ATATACATAGCTCATACATATTTCACATTAGCCATTT-GGCTTTACCAC
99759040 ATATA
1 ATATA
99759045 TATATCTTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 3 0.06
48 44 0.94
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (48 bp):
ATATACATAGCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
Found at i:99761288 original size:6 final size:6
Alignment explanation
Indices: 99761277--99761347 Score: 114
Period size: 6 Copynumber: 12.5 Consensus size: 6
99761267 ATTTGTTTTC
99761277 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA- TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
99761324 TTTTA- TTTTA- TTTTA- TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
99761348 CTTATACTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
5 20 0.32
6 43 0.68
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:99761352 original size:29 final size:28
Alignment explanation
Indices: 99761272--99761366 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 28
99761262 AGTCCATTTG
*
99761272 TTTTCTTTTATTTT-TATTTTTATTTTTA
1 TTTTATTTTATTTTAT-TTTTTATTTTTA
99761300 TTTTTATTTTTATTTTA-TTTTTATTTTTA
1 -TTTTA-TTTTATTTTATTTTTTATTTTTA
**
99761329 TTTTATTTTATTTTATTTTCTTATACTTA
1 TTTTATTTTATTTTATTTT-TTATTTTTA
*
99761358 TTTTGTTTT
1 TTTTATTTT
99761367 TATCTTTTGA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
27 10 0.17
28 8 0.14
29 31 0.53
30 9 0.16
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.80
Consensus pattern (28 bp):
TTTTATTTTATTTTATTTTTTATTTTTA
Found at i:99765113 original size:3 final size:3
Alignment explanation
Indices: 99765107--99765158 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
99765097 TTCATCATCA
99765107 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
99765155 TCT T
1 TCT T
99765159 GAACTTTGCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Done.