Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 66 of 444
Found at i:15625154 original size:9 final size:9
Alignment explanation
Indices: 15625140--15625234 Score: 88
Period size: 9 Copynumber: 10.4 Consensus size: 9
15625130 TTTAAATCAC
15625140 TTTTTATAA
1 TTTTTATAA
15625149 TTTTTAT--
1 TTTTTATAA
15625156 TGTTTTATAA
1 T-TTTTATAA
*
15625166 TTTATTAGAA
1 TTT-TTATAA
15625176 TTTTTATAA
1 TTTTTATAA
*
15625185 TATTTATAA
1 TTTTTATAA
15625194 GTTTTTATAA
1 -TTTTTATAA
15625204 TTTTTA-AA
1 TTTTTATAA
* *
15625212 TTTGTGTCAA
1 TTTTTAT-AA
*
15625222 TTTTAATAA
1 TTTTTATAA
15625231 TTTT
1 TTTT
15625235 AAATATTTAA
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
7 1 0.01
8 12 0.17
9 34 0.49
10 23 0.33
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15625181 original size:36 final size:36
Alignment explanation
Indices: 15625140--15625214 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
15625130 TTTAAATCAC
* *
15625140 TTTTTATAATTTTTAT-TG-TTTTATAATTTATTAGAA
1 TTTTTATAATATTTATAAGTTTTTATAATTT-TTA-AA
15625176 TTTTTATAATATTTATAAGTTTTTATAATTTTTAAA
1 TTTTTATAATATTTATAAGTTTTTATAATTTTTAAA
15625212 TTT
1 TTT
15625215 GTGTCAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 20 0.57
37 4 0.11
38 11 0.31
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (36 bp):
TTTTTATAATATTTATAAGTTTTTATAATTTTTAAA
Found at i:15625182 original size:19 final size:17
Alignment explanation
Indices: 15625140--15625214 Score: 80
Period size: 19 Copynumber: 4.2 Consensus size: 17
15625130 TTTAAATCAC
*
15625140 TTTTTATAATTTTT-AT
1 TTTTTATAATTTTTAAA
15625156 TGTTTTATAATTTATTAGAA
1 T-TTTTATAATTT-TTA-AA
*
15625176 TTTTTATAATATTTATAAG
1 TTTTTATAAT-TTT-TAAA
15625195 TTTTTATAATTTTTAAA
1 TTTTTATAATTTTTAAA
15625212 TTT
1 TTT
15625215 GTGTCAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
16 1 0.02
17 17 0.34
18 5 0.10
19 21 0.42
20 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTTTATAATTTTTAAA
Found at i:15625282 original size:28 final size:28
Alignment explanation
Indices: 15625223--15625282 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
15625213 TTGTGTCAAT
* ** *
15625223 TTTAATAATTTTAAATATTTAATGGTTT
1 TTTAATAATTTTAAAAATTTAATCATTA
15625251 TTTAAT-ATTTTATAAAATTTAATCATTA
1 TTTAATAATTTTA-AAAATTTAATCATTA
15625279 TTTA
1 TTTA
15625283 TGAAAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTAATAATTTTAAAAATTTAATCATTA
Found at i:15632353 original size:9 final size:9
Alignment explanation
Indices: 15632339--15632433 Score: 88
Period size: 9 Copynumber: 10.4 Consensus size: 9
15632329 TTTAAATCAC
15632339 TTTTTATAA
1 TTTTTATAA
15632348 TTTTTAT--
1 TTTTTATAA
15632355 TGTTTTATAA
1 T-TTTTATAA
*
15632365 TTTATTAGAA
1 TTT-TTATAA
15632375 TTTTTATAA
1 TTTTTATAA
*
15632384 TATTTATAA
1 TTTTTATAA
15632393 GTTTTTATAA
1 -TTTTTATAA
15632403 TTTTTA-AA
1 TTTTTATAA
* *
15632411 TTTGTGTCAA
1 TTTTTAT-AA
*
15632421 TTTTAATAA
1 TTTTTATAA
15632430 TTTT
1 TTTT
15632434 AAATATTTAA
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
7 1 0.01
8 12 0.17
9 34 0.49
10 23 0.33
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15632380 original size:36 final size:36
Alignment explanation
Indices: 15632339--15632413 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
15632329 TTTAAATCAC
* *
15632339 TTTTTATAATTTTTAT-TG-TTTTATAATTTATTAGAA
1 TTTTTATAATATTTATAAGTTTTTATAATTT-TTA-AA
15632375 TTTTTATAATATTTATAAGTTTTTATAATTTTTAAA
1 TTTTTATAATATTTATAAGTTTTTATAATTTTTAAA
15632411 TTT
1 TTT
15632414 GTGTCAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 20 0.57
37 4 0.11
38 11 0.31
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (36 bp):
TTTTTATAATATTTATAAGTTTTTATAATTTTTAAA
Found at i:15632381 original size:19 final size:17
Alignment explanation
Indices: 15632339--15632413 Score: 80
Period size: 19 Copynumber: 4.2 Consensus size: 17
15632329 TTTAAATCAC
*
15632339 TTTTTATAATTTTT-AT
1 TTTTTATAATTTTTAAA
15632355 TGTTTTATAATTTATTAGAA
1 T-TTTTATAATTT-TTA-AA
*
15632375 TTTTTATAATATTTATAAG
1 TTTTTATAAT-TTT-TAAA
15632394 TTTTTATAATTTTTAAA
1 TTTTTATAATTTTTAAA
15632411 TTT
1 TTT
15632414 GTGTCAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
16 1 0.02
17 17 0.34
18 5 0.10
19 21 0.42
20 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTTTATAATTTTTAAA
Found at i:15635406 original size:127 final size:127
Alignment explanation
Indices: 15635273--15635582 Score: 399
Period size: 127 Copynumber: 2.4 Consensus size: 127
15635263 CGAAAAACCA
* * ** ** *
15635273 AAACCCAGCAC-AGTAGGGCACGATTCCTCGAACTTCCAAACATTGAACATTGGTTTGTTTTAGA
1 AAACCCAGCACGA-TAGGGCACGATTCCCCGAACTTCAAAACATCAAACATTGCCTTGTTTCAGA
*
15635337 ATTTA-AAGAATACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCG
65 ATTTAGAA-AACACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCG
* * * *
15635400 AAACCCAGCATGATAGAGCACGATTCCCCGAATTTCAAAATATCAAACATTGCCTTGTTTCAGAA
1 AAACCCAGCACGATAGGGCACGATTCCCCGAACTTCAAAACATCAAACATTGCCTTGTTTCAGAA
* * *
15635465 TTTAGAAAACACGAGTGAAGTTCTAAATGAATATTCGATTATTTTGAACAAACGAGAAATCG
66 TTTAGAAAACACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCG
* * ** * *
15635527 AAACCCAGCACGATAGGGCACGATTTCCCGAATTTCCGAGCATCAAATATTGCCTT
1 AAACCCAGCACGATAGGGCACGATTCCCCGAACTTCAAAACATCAAACATTGCCTT
15635583 CGTCTTAAGG
Statistics
Matches: 158, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
127 155 0.98
128 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (127 bp):
AAACCCAGCACGATAGGGCACGATTCCCCGAACTTCAAAACATCAAACATTGCCTTGTTTCAGAA
TTTAGAAAACACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCG
Found at i:15638293 original size:87 final size:87
Alignment explanation
Indices: 15638057--15638993 Score: 1069
Period size: 87 Copynumber: 10.7 Consensus size: 87
15638047 GCTTGTTGCT
* * * *
15638057 CTACTGCTTAGGGAGATAAAATCTGTGAATTTCCAGCCTGTTACCCTACTGCTTAAGGGGTTAAG
1 CTACTGCTTAGGGTGATAAGATCTGT-AAATT-CAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
* * * *
15638122 ACTCC-TCATCTTTGATCCG-TTCC
64 GC-CCATCACCTTCGATCTGTTTCC
* * *
15638145 CGTACTGCTTAGGGTGATAAGATCTGT-AATTCAGCCTATTACCCTACTACTTAGGGAGTTAAGG
1 C-TACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
* * *
15638209 CTCACCACCTTCGATTTGTTTCC
65 CCCATCACCTTCGATCTGTTTCC
* * * *
15638232 CTACTGTTTAGGGTGATAAAATCTGTAAATTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
*
15638297 CCATCACCATCGATCTGTTTCC
66 CCATCACCTTCGATCTGTTTCC
*
15638319 CTACTGCTTAGGGTGATAAGATCTGTCAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
* *
15638384 TCACCACCTTCGATCTGTTTCC
66 CCATCACCTTCGATCTGTTTCC
* * * *
15638406 CTATTGCTTAGGGTGATAAGATCTGTCAATTCAGCCTGCTACCCTACTACTTAGGGGGTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
*
15638471 CCATCACATTCGATCTGTTTCC
66 CCATCACCTTCGATCTGTTTCC
* * *
15638493 CTACTGCTTAGGGTGATAAGATCTGTCAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGT
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
* *
15638558 TCACCACCTTCGATCTGTTTCC
66 CCATCACCTTCGATCTGTTTCC
* * * *
15638580 CTACTACTTAGGGTGATAAGATCTGTCAATTCAGCTTGTTACCCTACTGTTTAGGGGGTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
* * * *
15638645 CCGTAATCTTTGATCTGTTTCC
66 CCATCACCTTCGATCTGTTTCC
* * * * * * * *
15638667 CTACTACTTGGGGTGATAAAATCTGTAATTTTCAGGCTATTACCCTATTGCTTA-GAGGTTAAGG
1 CTACTGCTTAGGGTGATAAGATCTGTAA-ATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
** **
15638731 CCTGTCGTCTTCGATCTGTTTCC
65 CCCATCACCTTCGATCTGTTTCC
* * * *
15638754 CTACTGCTTAGGGTGATAAGATCTGTAATTTTTAGCCTATTACCCTA-TGTTTAGGGGGTTAAGG
1 CTACTGCTTAGGGTGATAAGATCTGTAA-ATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
** *
15638818 CCCATCATTTTTGATCTGTTTCC
65 CCCATCACCTTCGATCTGTTTCC
* *
15638841 CTACTGCTTAGGGTGATAAGATCTATAAATTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
* ** * **
15638906 CCGTCGTCTTCAATCT-ACTCC
66 CCATCACCTTCGATCTGTTTCC
* * * * * * **
15638927 ACTACTGCTTAGGGAGATAATG-TCTATAATCTTCAGCCTATTACACTGCTATTTAGGGGGTTAA
1 -CTACTGCTTAGGGTGATAA-GATCTGTAA-ATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAA
15638991 GGC
63 GGC
15638994 TTGTCAATTC
Statistics
Matches: 740, Mismatches: 99, Indels: 20
0.86 0.12 0.02
Matches are distributed among these distances:
85 1 0.00
86 85 0.11
87 578 0.78
88 53 0.07
89 23 0.03
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.34
Consensus pattern (87 bp):
CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
CCATCACCTTCGATCTGTTTCC
Found at i:15638670 original size:44 final size:43
Alignment explanation
Indices: 15638267--15638906 Score: 191
Period size: 43 Copynumber: 14.7 Consensus size: 43
15638257 TAAATTCAGC
* * ** *** *
15638267 CTGTTACCCTACTACTTAAGGGGTTAAGGCCCATCACCATCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTGT-AATTTTGAT
* * * ** ** *
15638311 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTCAATTCAG-C
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTGT-AATTTTGAT
*** ** *
15638354 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGC-CTGTAATTTTGAT
* * * * ** ** *
15638398 CTGTTTCCCTATTGCTTAGGGTGATAAGATCTGTCAATTCAG-C
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTGT-AATTTTGAT
* * ** *
15638441 CTGCTACCCTACTACTTAGGGGGTTAAGGCCCATCACA-TTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTGT-A-ATTTTGAT
* * * ** ** *
15638485 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTCAA-TTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTGT-AATTTTGAT
* *** ** *
15638528 CTGTTACCCTACTGCTTAGGGGGTTAAGGTTCACCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGG-CCTGTAATTTTGAT
* * * * ** ** *
15638572 CTGTTTCCCTACTACTTAGGGTGATAAGATCTGTCAATTCAGCT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTGT-AATTTTGAT
* *
15638616 -TGTTACCCTACTGTTTAGGGGGTTAAGGCCCGTAATCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTGTAAT-TTTGAT
* * * *** * *
15638659 CTGTTTCCCTACTACTT-GGGGTGATAAAATCTGTAATTTTCAGG
1 CTGTTACCCTACTGCTTAGGGG-GTTAAGGCCTGTAATTTTGA-T
* * * ** *
15638703 CTATTACCCTATTGCTTA-GAGGTTAAGGCCTGTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTGTAAT-TTTGAT
* * * ** * *
15638746 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAATTTTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTGTAATTTTGA-T
* * ** *
15638790 CTATTACCCTA-TGTTTAGGGGGTTAAGGCCCATCATTTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTGT-AATTTTGAT
* * * ** * * * *
15638833 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTATAA-ATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTGTAATTTTGA-T
*
15638876 CTATTACCCTACTGCTTAGGGGGTTAAGGCC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCC
15638907 CGTCGTCTTC
Statistics
Matches: 410, Mismatches: 167, Indels: 39
0.67 0.27 0.06
Matches are distributed among these distances:
42 6 0.01
43 203 0.50
44 201 0.49
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCCTGTAATTTTGAT
Found at i:15650601 original size:128 final size:126
Alignment explanation
Indices: 15650337--15650660 Score: 364
Period size: 128 Copynumber: 2.5 Consensus size: 126
15650327 GTCCAACAAA
* * * * **
15650337 AAATCGAAACCCAACACAGTAGGACACGATT-CCTCGAACTTCCAAACATTGAACATTGGTTTGT
1 AAATCGAAACCTAACACAATAGG-CACGATTCCCT-GAATTTCCAAACATTAAACATTGCCTTGT
* * *
15650401 TTTAGAATTTAAAGAATACGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAG
64 TTTAGAATTTAAAAAACACGAATGAAATTCTAAAGAAATATTCGATTATTTTGAACAAACGAG
* * *
15650464 AAATTGAAACCTAGCACAATAGAGCACGATTCCCTGAATTTCCAAATATTAAACATTGCCTTGTT
1 AAATCGAAACCTAACACAATAG-GCACGATTCCCTGAATTTCCAAACATTAAACATTGCCTTGTT
* * *
15650529 TTAGAATTTAGAAAAACACGAGTGAAGTTCTAAAGAAATATTCGATTATTTTGAACAAACGGG
65 TTAGAATTTA-AAAAACACGAATGAAATTCTAAAGAAATATTCGATTATTTTGAACAAACGAG
* * * * * * * *
15650592 AAATCGAAA-CTCATCACGATAGGGCACGATTCCCCGAATTTTCGAGCATCAAATATTGCCTTCG
1 AAATCGAAACCT-AACACAATA-GGCACGATTCCCTGAATTTCCAAACATTAAACATTGCCTT-G
15650656 TTTTA
63 TTTTA
15650661 AGGAATTTTC
Statistics
Matches: 166, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
127 62 0.37
128 97 0.58
129 7 0.04
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (126 bp):
AAATCGAAACCTAACACAATAGGCACGATTCCCTGAATTTCCAAACATTAAACATTGCCTTGTTT
TAGAATTTAAAAAACACGAATGAAATTCTAAAGAAATATTCGATTATTTTGAACAAACGAG
Found at i:15652900 original size:33 final size:30
Alignment explanation
Indices: 15652863--15652932 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 30
15652853 TTTCACAAAA
*
15652863 TATTATTATTTCACATTCTTATTTATATATTAT
1 TATTATTATTTCAC-TT-GTA-TTATATATTAT
*
15652896 TATTA-TATTTTACTTGTATTATATATTAT
1 TATTATTATTTCACTTGTATTATATATTAT
15652925 TAATTATT
1 T-ATTATT
15652933 TATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 12 0.36
30 6 0.18
31 3 0.09
32 7 0.21
33 5 0.15
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (30 bp):
TATTATTATTTCACTTGTATTATATATTAT
Found at i:15652936 original size:16 final size:16
Alignment explanation
Indices: 15652881--15653003 Score: 54
Period size: 16 Copynumber: 7.9 Consensus size: 16
15652871 TTTCACATTC
15652881 TTATTTATA-TATT-A
1 TTATTTATATTATTAA
*
15652895 TTA-TTATATT-TTACT
1 TTATTTATATTATTA-A
15652910 TGTATTATATATTATTAA
1 T-TATT-TATATTATTAA
15652928 TTATTTATA-TATATACA
1 TTATTTATATTAT-TA-A
* *
15652945 -TA--TATACT-TTCA
1 TTATTTATATTATTAA
15652957 -TATTATATATTA-TAA
1 TTATT-TATATTATTAA
*
15652972 TTATTTTATATTATTTCA
1 TTA-TTTATATTA-TTAA
15652990 TT-TTTATATTATTA
1 TTATTTATATTATTA
15653004 TGTTTTTTTA
Statistics
Matches: 84, Mismatches: 7, Indels: 35
0.67 0.06 0.28
Matches are distributed among these distances:
12 3 0.04
13 8 0.10
14 9 0.11
15 14 0.17
16 28 0.33
17 8 0.10
18 11 0.13
19 3 0.04
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (16 bp):
TTATTTATATTATTAA
Found at i:15662540 original size:25 final size:27
Alignment explanation
Indices: 15662503--15662555 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
15662493 TCAAACATGC
15662503 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
15662529 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
15662555 A
1 A
15662556 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:15664095 original size:26 final size:26
Alignment explanation
Indices: 15664037--15664144 Score: 184
Period size: 25 Copynumber: 4.2 Consensus size: 26
15664027 ACATGAATTC
15664037 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
15664062 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
15664088 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15664114 TTATCATG-AACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
15664139 TTATCA
1 TTATCA
15664145 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 44 0.56
26 35 0.44
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15664101 original size:51 final size:51
Alignment explanation
Indices: 15664037--15664144 Score: 191
Period size: 51 Copynumber: 2.1 Consensus size: 51
15664027 ACATGAATTC
15664037 TTATCATGAAACATTTACCTAACC-ATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCCA
*
15664088 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
15664139 TTATCA
1 TTATCA
15664145 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
51 46 0.84
52 9 0.16
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCTATTATCATGAACATTTACCTAACCCA
Found at i:15666529 original size:30 final size:30
Alignment explanation
Indices: 15666481--15666581 Score: 123
Period size: 30 Copynumber: 3.4 Consensus size: 30
15666471 GAGCCCAAAC
* *
15666481 ACAAGCCC-AAATACCTCAGACCCGTTACA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
15666510 ACAAACCCAAAATAGCTCAGACCCGTTACA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
* * * *
15666540 GCAAACCCAAAATAGCCCAGACCCATTATA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
*
15666570 CACACACCCAAA
1 -ACAAACCCAAA
15666582 CAGACCGGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 7 0.11
30 46 0.74
31 9 0.15
ACGTcount: A:0.43, C:0.37, G:0.09, T:0.12
Consensus pattern (30 bp):
ACAAACCCAAAATAGCTCAGACCCGTTACA
Found at i:15667917 original size:7 final size:7
Alignment explanation
Indices: 15667900--15668006 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
15667890 AAATTTGTAG
15667900 ATTAT-T
1 ATTATAT
15667906 ATTATAT
1 ATTATAT
15667913 ATTATAT
1 ATTATAT
15667920 -TT-TA-
1 ATTATAT
15667924 ACTTATAT
1 A-TTATAT
15667932 ATCTTATAT
1 A--TTATAT
*
15667941 ATTTATTT
1 A-TTATAT
15667949 ATT-TAT
1 ATTATAT
*
15667955 ATTATAC
1 ATTATAT
15667962 ATTAT-T
1 ATTATAT
* *
15667968 -TTAAAA
1 ATTATAT
*
15667974 ACTTACAT
1 A-TTATAT
*
15667982 -TTTTAT
1 ATTATAT
15667988 ATTATAT
1 ATTATAT
*
15667995 ATTATAA
1 ATTATAT
15668002 ATTAT
1 ATTAT
15668007 TTCATTTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 35 0.45
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:15667950 original size:21 final size:21
Alignment explanation
Indices: 15667908--15668041 Score: 65
Period size: 21 Copynumber: 6.7 Consensus size: 21
15667898 AGATTATTAT
*
15667908 TATATATTATAT-TTTAACTTA
1 TATATATTATATATTT-ATTTA
*
15667929 TATATCTTATATATTTATTTA
1 TATATATTATATATTTATTTA
* *
15667950 TTTATATTATACA-TTATTT-
1 TATATATTATATATTTATTTA
* * * * *
15667969 TAAAAACTTACATTTTTATAT-
1 TATATA-TTATATATTTATTTA
*
15667990 TATATATTATA-AATTATTTCA
1 TATATATTATATATTTATTT-A
15668011 T-T-TA-T-TAT-TTT-TTTA
1 TATATATTATATATTTATTTA
15668026 TATACTATTATATATT
1 TATA-TATTATATATT
15668042 ATCTATTTTA
Statistics
Matches: 82, Mismatches: 19, Indels: 24
0.66 0.15 0.19
Matches are distributed among these distances:
15 2 0.02
16 4 0.05
17 4 0.05
18 3 0.04
19 11 0.13
20 18 0.22
21 37 0.45
22 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATATTATATATTTATTTA
Found at i:15669335 original size:136 final size:136
Alignment explanation
Indices: 15669091--15669375 Score: 552
Period size: 136 Copynumber: 2.1 Consensus size: 136
15669081 CATTGGGCCT
**
15669091 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
15669156 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
15669221 ATATGC
131 ATATGC
15669227 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
15669292 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
15669357 ATATGC
131 ATATGC
15669363 AAGCCCATTTGGG
1 AAGCCCATTTGGG
15669376 GAGACTACTC
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:15671194 original size:26 final size:26
Alignment explanation
Indices: 15671158--15671267 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
15671148 CATGAAATTC
15671158 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
15671184 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
15671210 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
15671236 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15671262 TTATCA
1 TTATCA
15671268 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15673097 original size:41 final size:41
Alignment explanation
Indices: 15672988--15673197 Score: 269
Period size: 41 Copynumber: 5.1 Consensus size: 41
15672978 CAAAAATTGT
* * *
15672988 AAAACACAGAGCAATAGCGGCATTTTTTTATTAAAACGCCGCTA
1 AAAAC-CAGAGCATTAGCGGCA--CTTTTAGTAAAACGCCGCTA
*
15673032 AAAA-CAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCACTTTTAGTAAAACGCCGCTA
* *
15673072 AAAACCAAAGCATTAGCGGCACTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCACTTTTAGTAAAACGCCGCTA
** * * *
15673113 AAAAATAGAGCATTAGCGTCATTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCACTTTTAGTAAAACGCCGCTA
* *
15673154 AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCACTA
1 AAAACCAGAGCATTAGCGGCACTTTTAGTAAAACGCCGCTA
15673195 AAA
1 AAA
15673198 GTCATATAAC
Statistics
Matches: 146, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
40 22 0.15
41 106 0.73
42 14 0.10
44 4 0.03
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCACTTTTAGTAAAACGCCGCTA
Found at i:15673840 original size:24 final size:24
Alignment explanation
Indices: 15673813--15673862 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
15673803 CATATCTTTA
15673813 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
15673837 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
15673861 TT
1 TT
15673863 TTATTTTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:15674478 original size:22 final size:22
Alignment explanation
Indices: 15674453--15674537 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
15674443 AAATCTTCAA
** *
15674453 AAAAAATTTAAAATTTAGAAAT
1 AAAAAATAAAAAATTTAAAAAT
15674475 AAAAAATAAAAAATTTAAAAAT
1 AAAAAATAAAAAATTTAAAAAT
*
15674497 AAAAAATAAAAAA-TAAAAAAT
1 AAAAAATAAAAAATTTAAAAAT
*
15674518 AAAAAATAAAAAACTTAAAA
1 AAAAAATAAAAAATTTAAAA
15674538 TTTTAATATT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 20 0.35
22 37 0.65
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (22 bp):
AAAAAATAAAAAATTTAAAAAT
Found at i:15674485 original size:29 final size:29
Alignment explanation
Indices: 15674453--15674530 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
15674443 AAATCTTCAA
* * *
15674453 AAAAAATTTAAAATTTAGAAATAAAAAAT
1 AAAAAATTTAAAAATAAAAAATAAAAAAT
15674482 AAAAAATTTAAAAATAAAAAATAAAAAAT
1 AAAAAATTTAAAAATAAAAAATAAAAAAT
*
15674511 AAAAAA-TAAAAAATAAAAAA
1 AAAAAATTTAAAAATAAAAAA
15674531 CTTAAAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 13 0.29
29 32 0.71
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (29 bp):
AAAAAATTTAAAAATAAAAAATAAAAAAT
Found at i:15674501 original size:7 final size:7
Alignment explanation
Indices: 15674471--15674530 Score: 102
Period size: 7 Copynumber: 8.4 Consensus size: 7
15674461 TAAAATTTAG
15674471 AAATAAA
1 AAATAAA
15674478 AAATAAA
1 AAATAAA
*
15674485 AAATTTAA
1 AAA-TAAA
15674493 AAATAAA
1 AAATAAA
15674500 AAATAAA
1 AAATAAA
15674507 AAATAAA
1 AAATAAA
15674514 AAATAAA
1 AAATAAA
15674521 AAATAAA
1 AAATAAA
15674528 AAA
1 AAA
15674531 CTTAAAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
7 44 0.88
8 6 0.12
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:15679446 original size:6 final size:6
Alignment explanation
Indices: 15679406--15679459 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
15679396 ATTTAATCTA
* *
15679406 ATTTTT ATTATTT A-TTTT AGTTTTG ATTCTAT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATT-TTT ATTTTT A-TTTTT ATT-TTT ATTTTT ATTTTT ATTTTT
15679456 ATTT
1 ATTT
15679460 GATAATGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 4 0.10
6 24 0.60
7 12 0.30
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:15682364 original size:19 final size:19
Alignment explanation
Indices: 15682340--15682467 Score: 210
Period size: 19 Copynumber: 6.9 Consensus size: 19
15682330 ATAATCTTCA
15682340 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
15682359 ATGATATGCAATCTTATAT
1 ATGATATGCAATCTTAGAT
15682378 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
15682395 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
15682413 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
15682432 ATAAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
15682450 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
15682468 AGATATGATT
Statistics
Matches: 101, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
17 15 0.15
18 33 0.33
19 53 0.52
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:15682404 original size:54 final size:56
Alignment explanation
Indices: 15682340--15682474 Score: 215
Period size: 54 Copynumber: 2.5 Consensus size: 56
15682330 ATAATCTTCA
* *
15682340 ATGATATGCAATCTTAGATATGATATGCAATCTTATATATGA-TACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGATATAATTACAATCTTAGAT
*
15682395 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGATATAATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGCAATCTTAGATATAATTACAATCTTAGAT
15682450 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATATGCAATCTTAGATATGATATG
15682475 ATTTTGTAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
54 40 0.53
55 23 0.31
56 12 0.16
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (56 bp):
ATGATATGCAATCTTAGATATGATATGCAATCTTAGATATAATTACAATCTTAGAT
Found at i:15682439 original size:37 final size:37
Alignment explanation
Indices: 15682340--15682467 Score: 215
Period size: 37 Copynumber: 3.5 Consensus size: 37
15682330 ATAATCTTCA
*
15682340 ATGATATGCAATCTTAGATATGATATGCAATCTTATAT
1 ATGATATGCAATCTTAGATATGAT-TGCAATCTTAGAT
15682378 ATGATA--CAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATTGCAATCTTAGAT
*
15682413 ATGATATGCAATCTTAGATATAATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATTGCAATCTTAGAT
15682450 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
15682468 AGATATGATT
Statistics
Matches: 86, Mismatches: 2, Indels: 5
0.92 0.02 0.05
Matches are distributed among these distances:
35 18 0.21
36 16 0.19
37 46 0.53
38 6 0.07
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATTGCAATCTTAGAT
Found at i:15682493 original size:22 final size:22
Alignment explanation
Indices: 15682340--15682490 Score: 103
Period size: 19 Copynumber: 7.8 Consensus size: 22
15682330 ATAATCTTCA
15682340 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
15682359 ATGATATGCAATCTT---ATAT
1 ATGATATGCAATCTTAGAAGAT
15682378 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
15682395 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
15682413 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
15682432 ATAAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
15682450 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
15682472 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
15682491 GATTTAATTT
Statistics
Matches: 118, Mismatches: 6, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.13
18 33 0.28
19 50 0.42
22 8 0.07
23 12 0.10
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:15699391 original size:49 final size:49
Alignment explanation
Indices: 15699319--15699700 Score: 683
Period size: 49 Copynumber: 7.8 Consensus size: 49
15699309 AGAGATATTT
15699319 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
15699368 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
15699417 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
* *
15699466 AAAGTGTATGTATGTGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
15699515 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
* *
15699564 AAAGTGTATGTATATGTGATGAGGCCTAATGGCCGCTGTGATGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
* * *
15699613 AAAGTGTATGTATATGTGATGAGGCCTAATGGCCGGTGTGGTGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
* *
15699662 AAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGT
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGT
15699701 AAAATATATG
Statistics
Matches: 323, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 323 1.00
ACGTcount: A:0.28, C:0.09, G:0.34, T:0.30
Consensus pattern (49 bp):
AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:15699879 original size:37 final size:36
Alignment explanation
Indices: 15699794--15699880 Score: 129
Period size: 37 Copynumber: 2.4 Consensus size: 36
15699784 TTGGAATATG
*
15699794 TTCCGGGTGAGACCCGATGACTACGTGTGGAGATTA
1 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTA
* *
15699830 TGACCGGATAAGACCCGATGACTACGTGTGGAGATTAA
1 T-TCCGGGTAAGACCCGATGACTACGTGTGGAGATT-A
15699868 TTCCGGGTAAGAC
1 TTCCGGGTAAGAC
15699881 TTCTTTTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.93
38 2 0.05
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (36 bp):
TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTA
Found at i:15702006 original size:29 final size:29
Alignment explanation
Indices: 15701964--15702074 Score: 186
Period size: 29 Copynumber: 3.8 Consensus size: 29
15701954 CAAATTCCGT
*
15701964 TAATCGAGGCACTATGTGTGCGAGATCAA
1 TAATCGAGGCACTATGTGTGCGAGATCAG
15701993 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
*
15702022 TAATCGAGGCACTATGCGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
* *
15702051 TAATTGAGGCACTGTGTGTGCGAG
1 TAATCGAGGCACTATGTGTGCGAG
15702075 TTTTTCAACA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 77 1.00
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (29 bp):
TAATCGAGGCACTATGTGTGCGAGATCAG
Found at i:15702660 original size:40 final size:40
Alignment explanation
Indices: 15702566--15702670 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
15702556 GTATCCGGAC
* * * *
15702566 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAAACCGGGT
* * *
15702607 CAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGT
* *
15702647 TAAGTCCCAAAGGCAATTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCGA
15702671 ATCACTATAA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
40 34 0.64
41 19 0.36
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGT
Found at i:15702683 original size:40 final size:39
Alignment explanation
Indices: 15702566--15702685 Score: 114
Period size: 40 Copynumber: 3.0 Consensus size: 39
15702556 GTATCCGGAC
* * *
15702566 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAA-TCACTAAA-CCGGGT
* * * * *
15702607 CAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAATCA-CTAAACCGGGT
* *
15702647 TAAGTCCCAAAGGCAATTGTGCGAATCACTATAACCGGG
1 TAAGTCCCGAAGGCATTTGTGCGAATCACTA-AACCGGG
15702686 CTATGTCCTG
Statistics
Matches: 63, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
39 2 0.03
40 37 0.59
41 24 0.38
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTTGTGCGAATCACTAAACCGGGT
Found at i:15704966 original size:49 final size:49
Alignment explanation
Indices: 15704894--15705324 Score: 781
Period size: 49 Copynumber: 8.8 Consensus size: 49
15704884 AGAGATATTT
15704894 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
15704943 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
*
15704992 AAAGTGTAGGTATCTGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
* *
15705041 AAAGTGTATGTATGTGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
15705090 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
15705139 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
*
15705188 AAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
* * *
15705237 AAAGTGTATGTATATGTGATGAGGCCTAATGGCCGGTGTGGTGAATGTG
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
* *
15705286 AAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGT
1 AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGT
15705325 AAAATATATG
Statistics
Matches: 372, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 372 1.00
ACGTcount: A:0.28, C:0.09, G:0.34, T:0.29
Consensus pattern (49 bp):
AAAGTGTAGGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:15705106 original size:27 final size:27
Alignment explanation
Indices: 15705076--15705160 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
15705066 CTAATGGCCG
15705076 ATGTGATGAATGTGAAAGTGTAGGTAT
1 ATGTGATGAATGTGAAAGTGTAGGTAT
* *** ***
15705103 ATGTGATG-AGGCCTAA-TGGCCG-A-
1 ATGTGATGAATGTGAAAGTGTAGGTAT
15705126 -TGTGATGAATGTGAAAGTGTAGGTAT
1 ATGTGATGAATGTGAAAGTGTAGGTAT
15705152 ATGTGATGA
1 ATGTGATGA
15705161 GGCCTAATGG
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
22 7 0.18
23 4 0.10
24 4 0.10
25 4 0.10
26 4 0.10
27 16 0.41
ACGTcount: A:0.31, C:0.05, G:0.34, T:0.31
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTAGGTAT
Found at i:15705470 original size:37 final size:37
Alignment explanation
Indices: 15705420--15705504 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
15705410 GGAATATGTT
*
15705420 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
15705457 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
15705494 CCGGGTAAGAC
1 CCGGGTAAGAC
15705505 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:15709184 original size:9 final size:9
Alignment explanation
Indices: 15709141--15709201 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 9
15709131 TTCTATTTCA
15709141 AAAAAAAAG
1 AAAAAAAAG
15709150 AAAAGAAAA-
1 AAAA-AAAAG
15709159 AATATAAAAA-
1 AA-A-AAAAAG
* *
15709169 TATAAAAAG
1 AAAAAAAAG
15709178 AAAAAAAAG
1 AAAAAAAAG
15709187 TAAAAAAAAG
1 -AAAAAAAAG
15709197 AAAAA
1 AAAAA
15709202 TGGAGAGGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 5 0.12
9 18 0.42
10 19 0.44
11 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:15709201 original size:33 final size:32
Alignment explanation
Indices: 15709140--15709202 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
15709130 CTTCTATTTC
* *
15709140 AAAAAAAAAGAAAAGAAAAAATATAAAAATAT
1 AAAAAAAAAGAAAAGAAAAAAAAGAAAAATAT
15709172 AAAAAGAAAA-AAAAGTAAAAAAAAGAAAAAT
1 AAAAA-AAAAGAAAAG-AAAAAAAAGAAAAAT
15709203 GGAGAGGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.10
Consensus pattern (32 bp):
AAAAAAAAAGAAAAGAAAAAAAAGAAAAATAT
Found at i:15710504 original size:205 final size:205
Alignment explanation
Indices: 15710144--15710897 Score: 1284
Period size: 205 Copynumber: 3.7 Consensus size: 205
15710134 GCAGATCTGG
* * *
15710144 CTGAAGCAAGATCCAAGATTGTTTGGTATCCTTGTGCTTACAAGGAACAAATTGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
15710209 GATTTGTCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
**
15710274 AGAACAAATCGAAGTCTGGCATCTCCATTTCGATACAGAGCAGATACATAGCAGATCTAACCTTC
130 AGAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTC
15710339 AGATGTTTATA
195 AGATGTTTATA
*
15710350 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
15710415 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATTTTTGTATTGTTAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
15710480 GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGTAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
15710545 GATGTTTATA
196 GATGTTTATA
* *
15710555 CTGAAGCAGATCCAAGATGGTTTGGCATCTTTGTGCTTACAAGGAATAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
15710620 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
15710685 GAACAAATTGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
15710750 GATG-----A
196 GATGTTTATA
15710755 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * * *
15710820 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGC
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
15710885 GAACAAATCGAAG
131 GAACAAATCGAAG
15710898 AAACAGATTT
Statistics
Matches: 520, Mismatches: 28, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
200 136 0.26
205 377 0.73
206 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
GATGTTTATA
Found at i:15711149 original size:19 final size:19
Alignment explanation
Indices: 15711107--15711149 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
15711097 TTTACGCTAA
* *
15711107 AGCAAATCTAAGATGATTT
1 AGCATATCTAAGATGATTC
*
15711126 GGCATATCTAAGATGATTC
1 AGCATATCTAAGATGATTC
15711145 AGCAT
1 AGCAT
15711150 CTCTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (19 bp):
AGCATATCTAAGATGATTC
Found at i:15711502 original size:203 final size:204
Alignment explanation
Indices: 15711131--15711785 Score: 1124
Period size: 203 Copynumber: 3.2 Consensus size: 204
15711121 GATTTGGCAT
** *
15711131 ATCTAAGATGATTCAGCATCTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCATTTCG
1 ATCTAAGA-GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATTTCG
15711196 ACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGT
65 ACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGT
*
15711261 TTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTAC
130 TTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTAC
15711326 GATGAAGCAA
195 GATGAAGCAA
15711336 ATCTAAG-GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATTTCGA
1 ATCTAAGAGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATTTCGA
15711400 CGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTT
66 CGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTT
*
15711465 TGGCATCCTTGTGCTTACAAGGAATAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACG
131 TGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACG
*
15711530 ATGAAGTAA
196 ATGAAGCAA
* *
15711539 ATATAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCATTTCG
1 ATCTAAGA-GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATTTCG
15711604 ACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATG-----ACTGAAGCAGATCCAAGATGGT
65 ACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGT
* *
15711664 TTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTAC
130 TTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTAC
* *
15711729 GCTAAAGCAA
195 GATGAAGCAA
*
15711739 ATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAG
1 ATCTAAGA-GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
15711786 AAACAGATTT
Statistics
Matches: 431, Mismatches: 17, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
200 135 0.31
203 196 0.45
205 100 0.23
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (204 bp):
ATCTAAGAGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATTTCGA
CGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTT
TGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACG
ATGAAGCAA
Found at i:15712023 original size:19 final size:19
Alignment explanation
Indices: 15711999--15712036 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15711989 GCTGAAGCAG
15711999 ATCTAAGATGATTTGGCAT
1 ATCTAAGATGATTTGGCAT
15712018 ATCTAAGATGATTTGGCAT
1 ATCTAAGATGATTTGGCAT
15712037 CTCTGTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (19 bp):
ATCTAAGATGATTTGGCAT
Found at i:15712571 original size:175 final size:174
Alignment explanation
Indices: 15712275--15712753 Score: 698
Period size: 175 Copynumber: 2.8 Consensus size: 174
15712265 CGAAGTCTGG
* *
15712275 CATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATG----ACTGAAGCAG
1 CATCTCTATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTTACTGAAGCAG
* * *
15712336 ATCCAAGATGGTTTGGCATTCTTGTGTTTACAACTG-ACAAATCGAAGAAATAGCAGATTTGACT
66 ATCCAAGATGATTTGGCATTCTTGTGTTTACAA-GGAACAAATCGAAGACATAGCAGATTTGACT
* *
15712400 TTCAGATGTTCTCACACCAAAGTAGATCCAATATAACAGACCTGA
130 TTCAGATGTTCTCACACCAAAGCAGATCCAAGATAACAGACCTGA
* * * *
15712445 CATCTCTATATCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGATGTTTATACTGATGCA
1 CATCTCTATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTT-TACTGAAGCA
*
15712510 GATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAACACATAGCAGATTTGACT
65 GATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACT
* * *
15712575 TTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGG
130 TTCAGATGTTCTCACACCAAAGCAGATCCAAGATAACAGACCTGA
* *
15712620 CATCTCTATTTCAACAGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTTACTGAAGCA
1 CATCTCTATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATG-TTTTACTGAAGCA
* * * * *
15712685 GATCCAAGATGATTTGGCATTCTTGTGTTCATAAGGAGCAAATCGAAGACACAGCAGATTTGGCT
65 GATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACT
15712750 TTCA
130 TTCA
15712754 CGTGTTTACG
Statistics
Matches: 274, Mismatches: 28, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
170 46 0.17
174 1 0.00
175 224 0.82
176 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (174 bp):
CATCTCTATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTTACTGAAGCAG
ATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTT
TCAGATGTTCTCACACCAAAGCAGATCCAAGATAACAGACCTGA
Found at i:15712583 original size:87 final size:87
Alignment explanation
Indices: 15712488--15712789 Score: 233
Period size: 87 Copynumber: 3.5 Consensus size: 87
15712478 AGGTCTAACC
* *
15712488 TTCAGATGTTTATACTGATGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAAT
1 TTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAAT
15712553 CGAACACATAGCAGATTTGACT
66 CGAACACATAGCAGATTTGACT
* ** * * * *
15712575 TTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCA-TC-TCTATTT-CAA--C
1 TTCAGATGTT-T-ACACTGAAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTACAAGGA
* * * * * * *
15712635 AGAGAGC-AGATACATAGCAGATCTAACC
60 ACAAATCGA-ACACATAGCAGATTTGACT
* * * *
15712663 TTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTCATAAGGAGCAAA
1 TTCAGATG-TTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAA
* * *
15712727 TCGAAGACACAGCAGATTTGGCT
65 TCGAACACATAGCAGATTTGACT
* * *
15712750 TTCACG-TGTTTACGCTGAAGCAGATCTAAGAAGATTTGGC
1 TTCA-GATGTTTACACTGAAGCAGATCCAAGATGATTTGGC
15712790 GTCTCTGTAT
Statistics
Matches: 159, Mismatches: 40, Indels: 32
0.69 0.17 0.14
Matches are distributed among these distances:
82 8 0.05
83 2 0.01
84 4 0.03
85 2 0.01
86 20 0.13
87 56 0.35
88 30 0.19
89 19 0.12
90 3 0.02
91 5 0.03
92 2 0.01
93 8 0.05
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (87 bp):
TTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAAT
CGAACACATAGCAGATTTGACT
Found at i:15712881 original size:45 final size:45
Alignment explanation
Indices: 15712781--15712917 Score: 172
Period size: 45 Copynumber: 3.1 Consensus size: 45
15712771 AGATCTAAGA
* * * *
15712781 AGATTTGGCGTCTCTGTATT-GTCAGAGG-GCAAATTGAAGA-AGC
1 AGATTTGGCGTCTCTATATTAGAC-GGGGAGCAAATCGAAGATAGC
*
15712824 AGATTTGGCGTCTCTATATTAGACGGGGAGCAAATCGAAGATAAC
1 AGATTTGGCGTCTCTATATTAGACGGGGAGCAAATCGAAGATAGC
* * *
15712869 AGATTTGGCGTCTCTATATTAGACGGGGAGTAGATCAAAGATAGC
1 AGATTTGGCGTCTCTATATTAGACGGGGAGCAAATCGAAGATAGC
15712914 AGAT
1 AGAT
15712918 ATCGCCTTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
43 22 0.27
44 13 0.16
45 47 0.57
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.26
Consensus pattern (45 bp):
AGATTTGGCGTCTCTATATTAGACGGGGAGCAAATCGAAGATAGC
Found at i:15713291 original size:19 final size:19
Alignment explanation
Indices: 15713267--15713411 Score: 230
Period size: 19 Copynumber: 7.9 Consensus size: 19
15713257 ATAATCTTCA
15713267 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
15713286 ATGATATGCAATCTTATAT
1 ATGATATGCAATCTTAGAT
15713305 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
15713322 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
15713340 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
15713359 ATGATA--CAATATTAGAT
1 ATGATATGCAATCTTAGAT
15713376 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
15713394 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
15713412 AGATATGATT
Statistics
Matches: 116, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
17 30 0.26
18 31 0.27
19 55 0.47
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:15713332 original size:54 final size:54
Alignment explanation
Indices: 15713267--15713411 Score: 263
Period size: 54 Copynumber: 2.7 Consensus size: 54
15713257 ATAATCTTCA
* *
15713267 ATGATATGCAATCTTAGATATGATATGCAATCTTATATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATATTAGAT
15713322 ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATATTAGAT
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATATTAGAT
15713376 ATGATTGCAATCTTAGATATGATATGCAATCTTAGA
1 ATGATTGCAATCTTAGATATGATATGCAATCTTAGA
15713412 AGATATGATT
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
54 83 0.94
55 5 0.06
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (54 bp):
ATGATTGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATATTAGAT
Found at i:15713342 original size:35 final size:36
Alignment explanation
Indices: 15713275--15713411 Score: 199
Period size: 35 Copynumber: 3.8 Consensus size: 36
15713265 CAATGATATG
*
15713275 CAATCTTAGATATGATATGCAATCTTATATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
15713311 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
* *
15713346 TGCAATCTTAGATATGATA--CAATATTAGATATGATTG
1 --CAATCTTAGATATGATATGCAATCTTAGATATGA-TA
15713383 CAATCTTAGATATGATATGCAATCTTAGA
1 CAATCTTAGATATGATATGCAATCTTAGA
15713412 AGATATGATT
Statistics
Matches: 91, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
35 35 0.38
36 30 0.33
37 26 0.29
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:15713404 original size:73 final size:71
Alignment explanation
Indices: 15713266--15713418 Score: 229
Period size: 73 Copynumber: 2.1 Consensus size: 71
15713256 TATAATCTTC
* *
15713266 AATGATATGCAATCTTAGATATGATATGCAATCTTATATATGATACAATCTTAGATATGATTGCA
1 AATGATATGCAATCTTAGATATGATA-GCAATATTAGATATGATACAATCTTAGATATGATTGCA
15713331 ATCTTAG
65 ATCTTAG
*
15713338 ATATGATATGCAATCTTAGATATGATA-CAATATTAGATATGATTGCAATCTTAGATATGATATG
1 A-ATGATATGCAATCTTAGATATGATAGCAATATTAGATATGA-TACAATCTTAGATATGAT-TG
15713402 CAATCTTAG
63 CAATCTTAG
15713411 AA-GATATG
1 AATGATATG
15713419 ATTTTGTAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
71 19 0.25
72 19 0.25
73 37 0.49
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (71 bp):
AATGATATGCAATCTTAGATATGATAGCAATATTAGATATGATACAATCTTAGATATGATTGCAA
TCTTAG
Found at i:15713437 original size:22 final size:22
Alignment explanation
Indices: 15713267--15713434 Score: 93
Period size: 19 Copynumber: 8.8 Consensus size: 22
15713257 ATAATCTTCA
15713267 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
15713286 ATGATATGCAATCTT---ATAT
1 ATGATATGCAATCTTAGAAGAT
15713305 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
15713322 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
15713340 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
* *
15713359 ATGATA--CAATATTAGAT---
1 ATGATATGCAATCTTAGAAGAT
15713376 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
15713394 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
15713416 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
15713435 GATTTAATTT
Statistics
Matches: 125, Mismatches: 8, Indels: 28
0.78 0.05 0.17
Matches are distributed among these distances:
17 26 0.21
18 27 0.22
19 52 0.42
22 8 0.06
23 12 0.10
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:15720553 original size:29 final size:29
Alignment explanation
Indices: 15720506--15720562 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
15720496 TATAAACATG
*
15720506 TTGGGTCATTTACGCAAAAAGTA-AAAATA
1 TTGGGTCATTTACG-AAAAAATAGAAAATA
**
15720535 TTGGGTCATTTATTAAAAAATAGAAAAT
1 TTGGGTCATTTACGAAAAAATAGAAAAT
15720563 GAAGGATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.32
Consensus pattern (29 bp):
TTGGGTCATTTACGAAAAAATAGAAAATA
Found at i:15720722 original size:38 final size:38
Alignment explanation
Indices: 15720678--15720750 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
15720668 TAACGGAAAT
15720678 TGTTAATGAGTGACTGATTTGTAAGTTTTT-GATAACGA
1 TGTTAATGAGTGACTGATTTGTAA-TTTTTCGATAACGA
* *
15720716 TGTTAATGGGTGACTGATTTGTCATTTTTCGATAA
1 TGTTAATGAGTGACTGATTTGTAATTTTTCGATAA
15720751 TGCTAGTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 5 0.16
38 27 0.84
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (38 bp):
TGTTAATGAGTGACTGATTTGTAATTTTTCGATAACGA
Found at i:15720964 original size:30 final size:31
Alignment explanation
Indices: 15720900--15720968 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
15720890 GTGTTAATGG
15720900 GTGACTGATTTGTTACTTTTTGATAATGTTA
1 GTGACTGATTTGTTACTTTTTGATAATGTTA
*
15720931 GTGACTGATTTGTTATTTTTTGA-AA-GTTGA
1 GTGACTGATTTGTTACTTTTTGATAATGTT-A
15720961 GTGACTGA
1 GTGACTGA
15720969 ATTGAAATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 3 0.08
30 11 0.31
31 22 0.61
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (31 bp):
GTGACTGATTTGTTACTTTTTGATAATGTTA
Found at i:15721151 original size:21 final size:21
Alignment explanation
Indices: 15721127--15721170 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
15721117 CACAAACATC
15721127 ACTTCTCACCGCCATCGTTCG
1 ACTTCTCACCGCCATCGTTCG
*
15721148 ACTTCTCACCGCCGTCGTTCG
1 ACTTCTCACCGCCATCGTTCG
15721169 AC
1 AC
15721171 GTCCTCTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.43, G:0.16, T:0.27
Consensus pattern (21 bp):
ACTTCTCACCGCCATCGTTCG
Found at i:15721944 original size:47 final size:46
Alignment explanation
Indices: 15721855--15721954 Score: 112
Period size: 47 Copynumber: 2.2 Consensus size: 46
15721845 ATATCATAGG
* * *
15721855 AAATTAATAGTTTAATCATTTATATATAAATAAATAATAAATAATAA
1 AAATTAACAGTTTAATAATTTATATACAAATAAATAATAAAT-ATAA
* * *
15721902 AAATTAACATTTTAATAATTTATATACAAA-AATTACTAAAATATAA
1 AAATTAACAGTTTAATAATTTATATACAAATAAATAAT-AAATATAA
*
15721948 TAATTAA
1 AAATTAA
15721955 TGTGTTCTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 15 0.33
47 30 0.67
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (46 bp):
AAATTAACAGTTTAATAATTTATATACAAATAAATAATAAATATAA
Found at i:15730639 original size:15 final size:15
Alignment explanation
Indices: 15730619--15730648 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15730609 CATTTTATTT
*
15730619 ATATTAGGATAATTA
1 ATATTAAGATAATTA
15730634 ATATTAAGATAATTA
1 ATATTAAGATAATTA
15730649 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:15730676 original size:27 final size:26
Alignment explanation
Indices: 15730615--15730677 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
15730605 ACTCCATTTT
15730615 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
15730642 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
15730670 ATTTTATT
1 ATTTTATT
15730678 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:15734432 original size:8 final size:8
Alignment explanation
Indices: 15734410--15734445 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
15734400 ATTTTTATTT
15734410 TTATT-TA
1 TTATTATA
15734417 TT-TTATA
1 TTATTATA
15734424 TTATTATA
1 TTATTATA
15734432 TTATTAT-
1 TTATTATA
15734439 TTATTAT
1 TTATTAT
15734446 TTTCAGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 2 0.07
7 13 0.48
8 12 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TTATTATA
Found at i:15734456 original size:28 final size:28
Alignment explanation
Indices: 15734404--15734457 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
15734394 AACCCAATTT
*
15734404 TTATTTTTATTTATTTTATATTATTATA
1 TTATTTTTATTTATTTTAGATTATTATA
15734432 TTATTATTTA-TTATTTTCAGA-TATTA
1 TTATT-TTTATTTATTTT-AGATTATTA
15734458 ATAAAATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (28 bp):
TTATTTTTATTTATTTTAGATTATTATA
Found at i:15736037 original size:15 final size:15
Alignment explanation
Indices: 15736017--15736046 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15736007 CATTTTATTT
*
15736017 ATATTAGGATAATTA
1 ATATTAAGATAATTA
15736032 ATATTAAGATAATTA
1 ATATTAAGATAATTA
15736047 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:15736074 original size:27 final size:26
Alignment explanation
Indices: 15736013--15736075 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
15736003 ACTCCATTTT
15736013 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
15736040 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
15736068 ATTTTATT
1 ATTTTATT
15736076 TTAATTATCC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:15737283 original size:9 final size:9
Alignment explanation
Indices: 15737269--15737299 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
15737259 AATTAAATAG
15737269 TTCGAGTTA
1 TTCGAGTTA
15737278 TTCGAGTTA
1 TTCGAGTTA
15737287 TTCGAGTTA
1 TTCGAGTTA
15737296 TTCG
1 TTCG
15737300 GATCGACTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (9 bp):
TTCGAGTTA
Found at i:15737638 original size:21 final size:22
Alignment explanation
Indices: 15737614--15737666 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
15737604 GTCCCACGAG
*
15737614 GCCACGACCACA-GTTCCACAA
1 GCCACAACCACAGGTTCCACAA
*
15737635 GCCACAAACA-AGGTTCCACAA
1 GCCACAACCACAGGTTCCACAA
15737656 GCCACAACCAC
1 GCCACAACCAC
15737667 CGTCAGTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.38, C:0.42, G:0.13, T:0.08
Consensus pattern (22 bp):
GCCACAACCACAGGTTCCACAA
Found at i:15738044 original size:16 final size:16
Alignment explanation
Indices: 15738025--15738056 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15738015 TACTAATCAA
*
15738025 AGTTTCTATGTTTCTG
1 AGTTTCCATGTTTCTG
15738041 AGTTTCCATGTTTCTG
1 AGTTTCCATGTTTCTG
15738057 CCTGTCTTGT
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:0.12, C:0.16, G:0.19, T:0.53
Consensus pattern (16 bp):
AGTTTCCATGTTTCTG
Found at i:15738204 original size:45 final size:45
Alignment explanation
Indices: 15738134--15738224 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
15738124 AATTAAATTA
** *
15738134 ACCATTATTAGCAGGTTTAGTTTCATTTAAGTCATGCATATATAT
1 ACCATTATTAGCAGGTTTAACTTCATTTAAGTCAAGCATATATAT
15738179 ACCATTATTAGCAGGTTTAACTTCATTTAAGTCAAGCATATATAT
1 ACCATTATTAGCAGGTTTAACTTCATTTAAGTCAAGCATATATAT
15738224 A
1 A
15738225 TATATATATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (45 bp):
ACCATTATTAGCAGGTTTAACTTCATTTAAGTCAAGCATATATAT
Found at i:15738277 original size:36 final size:36
Alignment explanation
Indices: 15738230--15738302 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
15738220 ATATATATAT
* *
15738230 ATATTAATGCATATGTATACTGTTTAGCTTCATTTA
1 ATATTAATGCATATATATAATGTTTAGCTTCATTTA
*
15738266 ATATTAATGCATATATATAATGTTTTGCTTCATTTA
1 ATATTAATGCATATATATAATGTTTAGCTTCATTTA
15738302 A
1 A
15738303 GTCATGCGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (36 bp):
ATATTAATGCATATATATAATGTTTAGCTTCATTTA
Found at i:15738340 original size:43 final size:42
Alignment explanation
Indices: 15738293--15738373 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 42
15738283 TAATGTTTTG
*
15738293 CTTCATTTAAGTCATGCGCATAA-TGCATATATATTCCATTTAA
1 CTTCATTTAAGTCAT--GCATAATTGCATATATATACCATTTAA
15738336 CTTCATTTAAGTCATGCATAATTGCATATATATACCAT
1 CTTCATTTAAGTCATGCATAATTGCATATATATACCAT
15738374 AATTAACAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
41 6 0.17
42 15 0.42
43 15 0.42
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.40
Consensus pattern (42 bp):
CTTCATTTAAGTCATGCATAATTGCATATATATACCATTTAA
Found at i:15738465 original size:36 final size:36
Alignment explanation
Indices: 15738418--15738506 Score: 110
Period size: 36 Copynumber: 2.5 Consensus size: 36
15738408 ATATATATAT
* *
15738418 ATATTAATGCATATGTATACTGTTAAGCTTCATTTA
1 ATATTAATGCATATATATAATGTTAAGCTTCATTTA
**
15738454 ATATTAATGCATATATATAATGTTTTGCTTCATTT-
1 ATATTAATGCATATATATAATGTTAAGCTTCATTTA
* *
15738489 A-AGTCATGCATATATATA
1 ATATTAATGCATATATATA
15738507 TATATTAATG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 15 0.32
35 1 0.02
36 31 0.66
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (36 bp):
ATATTAATGCATATATATAATGTTAAGCTTCATTTA
Found at i:15739134 original size:36 final size:36
Alignment explanation
Indices: 15739087--15739160 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
15739077 TTTTATAAGT
15739087 AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
1 AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
15739123 AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
1 AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
15739159 AA
1 AA
15739161 CGCTTTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.22, C:0.08, G:0.16, T:0.54
Consensus pattern (36 bp):
AAGTTACTCCATTGTTTTTGTTTTGAGTTAATTTTG
Found at i:15743089 original size:26 final size:26
Alignment explanation
Indices: 15743053--15743162 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
15743043 CATGAAATTC
15743053 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
15743079 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
15743105 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
15743131 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15743157 TTATCA
1 TTATCA
15743163 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15748899 original size:25 final size:26
Alignment explanation
Indices: 15748829--15748936 Score: 186
Period size: 25 Copynumber: 4.3 Consensus size: 26
15748819 AAGACATGAA
15748829 ATTATCATGAAACATTTACCTAACCC
1 ATTATCATGAAACATTTACCTAACCC
15748855 ATTATCATGAAACATTTACCTAACCC
1 ATTATCATGAAACATTTACCTAACCC
*
15748881 ATTATCATG-AACATTTACCTAACCT
1 ATTATCATGAAACATTTACCTAACCC
15748906 ATTATCATG-AACATTTACCTAA-CC
1 ATTATCATGAAACATTTACCTAACCC
15748930 ATTATCA
1 ATTATCA
15748937 ATTGTATCAA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
24 8 0.10
25 37 0.46
26 35 0.44
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (26 bp):
ATTATCATGAAACATTTACCTAACCC
Found at i:15748900 original size:51 final size:50
Alignment explanation
Indices: 15748829--15748936 Score: 182
Period size: 51 Copynumber: 2.1 Consensus size: 50
15748819 AAGACATGAA
15748829 ATTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCC
1 ATTATCATGAAACATTTACCTAACCCATTATCATG-AACATTTACCTAA-CC
*
15748881 ATTATCATG-AACATTTACCTAACCTATTATCATGAACATTTACCTAACC
1 ATTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACC
15748930 ATTATCA
1 ATTATCA
15748937 ATTGTATCAA
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
49 9 0.16
50 13 0.24
51 24 0.44
52 9 0.16
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (50 bp):
ATTATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACC
Found at i:15762765 original size:21 final size:21
Alignment explanation
Indices: 15762741--15762787 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
15762731 ATATAGTAAC
*
15762741 AACAATAATAATAATAATAAT
1 AACAATAATAATAATAAAAAT
* *
15762762 AACAATACTAATTATAAAAAT
1 AACAATAATAATAATAAAAAT
15762783 AACAA
1 AACAA
15762788 GGACATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (21 bp):
AACAATAATAATAATAAAAAT
Found at i:15763371 original size:16 final size:17
Alignment explanation
Indices: 15763343--15763379 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
15763333 CGGACGGTCA
15763343 CCGGAGCCCCGCCGGCG
1 CCGGAGCCCCGCCGGCG
15763360 CCGGAG-CCCGCCGGCG
1 CCGGAGCCCCGCCGGCG
15763376 CCGG
1 CCGG
15763380 CGCCGGCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.05, C:0.51, G:0.43, T:0.00
Consensus pattern (17 bp):
CCGGAGCCCCGCCGGCG
Found at i:15782022 original size:33 final size:33
Alignment explanation
Indices: 15781980--15782044 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
15781970 CAAAGGAGAC
15781980 ACACAGAGTTGGAGGCAGAAAATACCTAAGGAG
1 ACACAGAGTTGGAGGCAGAAAATACCTAAGGAG
*
15782013 ACACAGAGTTGGAGGTAGAAAATACCTAAGGA
1 ACACAGAGTTGGAGGCAGAAAATACCTAAGGA
15782045 CAGCCATCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (33 bp):
ACACAGAGTTGGAGGCAGAAAATACCTAAGGAG
Found at i:15782962 original size:23 final size:22
Alignment explanation
Indices: 15782935--15782991 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
15782925 ATTAGGAACA
*
15782935 TTTTATTTTTATT-ACTTTAGTCT
1 TTTTATTTTTATTCAATTTA--CT
*
15782958 TTTTACTTTTATTGCAATTTACT
1 TTTTATTTTTATT-CAATTTACT
15782981 TTTTATTTTTA
1 TTTTATTTTTA
15782992 ATATAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 24 0.83
25 5 0.17
ACGTcount: A:0.19, C:0.09, G:0.04, T:0.68
Consensus pattern (22 bp):
TTTTATTTTTATTCAATTTACT
Found at i:15788285 original size:6 final size:6
Alignment explanation
Indices: 15788260--15788325 Score: 55
Period size: 6 Copynumber: 11.3 Consensus size: 6
15788250 CTTTAAGTCC
* * * * * *
15788260 TTTTAT TTTAAG TATTAT TTTTAT TTTTA- TTTTAT TTGTAT TTTCAC
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
15788307 TTTTAT TTTT-C TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TT
15788326 ATTTTTGGAA
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
5 9 0.20
6 35 0.80
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:15788294 original size:11 final size:11
Alignment explanation
Indices: 15788278--15788331 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
15788268 TAAGTATTAT
15788278 TTTTATTTTTA
1 TTTTATTTTTA
*
15788289 TTTTATTTGTA
1 TTTTATTTTTA
*
15788300 TTTTCACTTTTA
1 TTTT-ATTTTTA
15788312 TTTT-TCTTTTA
1 TTTTAT-TTTTA
15788323 -TTTATTTTT
1 TTTTATTTTT
15788332 GGAAACTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
10 7 0.19
11 20 0.56
12 9 0.25
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:15788324 original size:23 final size:23
Alignment explanation
Indices: 15788259--15788325 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
15788249 CCTTTAAGTC
* * *
15788259 CTTTTATTTTAAGTATTATTTTTA
1 CTTTTATTTT-ATTTTTATTTTCA
* *
15788283 TTTTTATTTTATTTGTATTTTCA
1 CTTTTATTTTATTTTTATTTTCA
15788306 CTTTTATTTT-TCTTTTATTT
1 CTTTTATTTTAT-TTTTATTT
15788326 ATTTTTGGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
22 1 0.03
23 25 0.71
24 9 0.26
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (23 bp):
CTTTTATTTTATTTTTATTTTCA
Found at i:15790367 original size:33 final size:33
Alignment explanation
Indices: 15790326--15790390 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
15790316 CAAAGGGGAC
15790326 ACACAGAGTTGGAGGCAGAAAATACCTAAGGAG
1 ACACAGAGTTGGAGGCAGAAAATACCTAAGGAG
*
15790359 ACACAGAGTTGGAGGTAGAAAATACCTAAGGA
1 ACACAGAGTTGGAGGCAGAAAATACCTAAGGA
15790391 CAGCCATCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (33 bp):
ACACAGAGTTGGAGGCAGAAAATACCTAAGGAG
Found at i:15794018 original size:6 final size:6
Alignment explanation
Indices: 15794003--15794079 Score: 66
Period size: 6 Copynumber: 12.8 Consensus size: 6
15793993 ATTGAGTCTA
* * * * * *
15794003 TTTATC TTTATG TTTATT TTTATG TTTATT TTTATC TTTCTC TTTATG
1 TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG
* *
15794051 TTTAT- TTTCAGG TTTATT TTTATG TTTAT
1 TTTATG TTT-ATG TTTATG TTTATG TTTAT
15794080 TTTGTTTTCA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
5 3 0.05
6 51 0.89
7 3 0.05
ACGTcount: A:0.16, C:0.06, G:0.08, T:0.70
Consensus pattern (6 bp):
TTTATG
Found at i:15794024 original size:12 final size:12
Alignment explanation
Indices: 15794003--15794082 Score: 106
Period size: 12 Copynumber: 6.7 Consensus size: 12
15793993 ATTGAGTCTA
*
15794003 TTTATCTTTATG
1 TTTATTTTTATG
15794015 TTTATTTTTATG
1 TTTATTTTTATG
*
15794027 TTTATTTTTATC
1 TTTATTTTTATG
* *
15794039 TTTCTCTTTATG
1 TTTATTTTTATG
* *
15794051 TTTATTTTCAGG
1 TTTATTTTTATG
15794063 TTTATTTTTATG
1 TTTATTTTTATG
15794075 TTTATTTT
1 TTTATTTT
15794083 GTTTTCATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 57 1.00
ACGTcount: A:0.15, C:0.06, G:0.07, T:0.71
Consensus pattern (12 bp):
TTTATTTTTATG
Found at i:15794095 original size:24 final size:23
Alignment explanation
Indices: 15794018--15794095 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
15794008 CTTTATGTTT
*
15794018 ATTTTTATGTTTATTTTTATCTTTC
1 ATTTTTATGTTTA-TTTTGT-TTTC
* *
15794043 -TCTTTATGTTTATTTTCAGGTTT-
1 ATTTTTATGTTTATTTT--GTTTTC
15794066 ATTTTTATGTTTATTTTGTTTTC
1 ATTTTTATGTTTATTTTGTTTTC
15794089 ATATTTT
1 AT-TTTT
15794096 GAACTTTATC
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
22 4 0.09
23 6 0.14
24 33 0.77
ACGTcount: A:0.15, C:0.06, G:0.08, T:0.71
Consensus pattern (23 bp):
ATTTTTATGTTTATTTTGTTTTC
Found at i:15798243 original size:25 final size:25
Alignment explanation
Indices: 15798209--15798260 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
15798199 AGAGTTTAGG
* *
15798209 GATTACTTCGACTTCGTGTTAATGA
1 GATTACTTCGACTTCATGTCAATGA
15798234 GATTACTTCGACTTCATGTCAATGA
1 GATTACTTCGACTTCATGTCAATGA
15798259 GA
1 GA
15798261 CACTAGGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (25 bp):
GATTACTTCGACTTCATGTCAATGA
Found at i:15798701 original size:63 final size:63
Alignment explanation
Indices: 15798599--15798729 Score: 190
Period size: 63 Copynumber: 2.1 Consensus size: 63
15798589 TTTGAGATAG
* * *
15798599 CACACGAGTCAGAGACACGGACGTATGTTCAGGCCGTGTGACTCACTGTTTGCGATTTAGGAC
1 CACACGAGTCAGAGACACGGACGTATGTCCAGGCAGTGTGACTCACTGTTTGCGATTTAAGAC
* * * *
15798662 CACACGAGTCAGAGACACGGATGTGTGTCCAGGCAGTGTGACTTACTGTTTGTGATTTAAGAC
1 CACACGAGTCAGAGACACGGACGTATGTCCAGGCAGTGTGACTCACTGTTTGCGATTTAAGAC
*
15798725 TACAC
1 CACAC
15798730 AGGCAGACGA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (63 bp):
CACACGAGTCAGAGACACGGACGTATGTCCAGGCAGTGTGACTCACTGTTTGCGATTTAAGAC
Found at i:15798751 original size:63 final size:63
Alignment explanation
Indices: 15798599--15798751 Score: 182
Period size: 63 Copynumber: 2.4 Consensus size: 63
15798589 TTTGAGATAG
* * * * *
15798599 CACACGAGTCAGAGACACGGACGTATGTTCAGGCCGTGTGACTCACTGTTTGCGATTTAGGAC
1 CACACGAGGCAGAGACACGGACGTGTGTCCAGGCAGTGTGACTCACTGTTTGCGATTTAAGAC
* * * *
15798662 CACACGAGTCAGAGACACGGATGTGTGTCCAGGCAGTGTGACTTACTGTTTGTGATTTAAGAC
1 CACACGAGGCAGAGACACGGACGTGTGTCCAGGCAGTGTGACTCACTGTTTGCGATTTAAGAC
* * *
15798725 TACAC-AGGCAGACGACATGGGCGTGTG
1 CACACGAGGCAGA-GACACGGACGTGTG
15798752 CCAAACCATG
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
62 6 0.08
63 71 0.92
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (63 bp):
CACACGAGGCAGAGACACGGACGTGTGTCCAGGCAGTGTGACTCACTGTTTGCGATTTAAGAC
Found at i:15799799 original size:9 final size:9
Alignment explanation
Indices: 15799787--15799815 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
15799777 GATATTCGGT
15799787 TTATTCAAA
1 TTATTCAAA
15799796 TTATTCAAA
1 TTATTCAAA
15799805 TTATTCAAA
1 TTATTCAAA
15799814 TT
1 TT
15799816 CGAAAATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (9 bp):
TTATTCAAA
Found at i:15799834 original size:24 final size:23
Alignment explanation
Indices: 15799798--15799847 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
15799788 TATTCAAATT
15799798 ATTCAAATTATTCAAATTCGAAA
1 ATTCAAATTATTCAAATTCGAAA
* *
15799821 ATTCAACTTGATTCAAATTTGAAA
1 ATTCAAATT-ATTCAAATTCGAAA
15799845 ATT
1 ATT
15799848 GAAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (23 bp):
ATTCAAATTATTCAAATTCGAAA
Found at i:15800202 original size:19 final size:20
Alignment explanation
Indices: 15800167--15800205 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15800157 TATATTCAAT
15800167 GTTTATATATAATTTTTAGA
1 GTTTATATATAATTTTTAGA
15800187 GTTTATATAT-ATTTTTAGA
1 GTTTATATATAATTTTTAGA
15800206 TTATTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
GTTTATATATAATTTTTAGA
Found at i:15800214 original size:17 final size:18
Alignment explanation
Indices: 15800169--15800215 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
15800159 TATTCAATGT
15800169 TTATATATAATTTTTAGAG
1 TTATATAT-ATTTTTAGAG
15800188 TTTATATATATTTTTAGA-
1 -TTATATATATTTTTAGAG
*
15800206 TTATTTATAT
1 TTATATATAT
15800216 ACTTTTTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
19 9 0.35
20 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TTATATATATTTTTAGAG
Found at i:15800214 original size:21 final size:21
Alignment explanation
Indices: 15800168--15800242 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
15800158 ATATTCAATG
*
15800168 TTTATATATAATTTTTAGA--G
1 TTTATATAT-ATTTTTAGATTA
15800188 TTTATATATATTTTTAGATTA
1 TTTATATATATTTTTAGATTA
* *
15800209 TTTATATA-CTTTTT-CATTA
1 TTTATATATATTTTTAGATTA
*
15800228 TTTTTATATATTTTT
1 TTTATATATATTTTT
15800243 TAAATTTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
19 20 0.43
20 19 0.40
21 8 0.17
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTATATATATTTTTAGATTA
Found at i:15800249 original size:19 final size:19
Alignment explanation
Indices: 15800188--15800262 Score: 69
Period size: 21 Copynumber: 3.7 Consensus size: 19
15800178 ATTTTTAGAG
*
15800188 TTTATATATATTTTTAGATT
1 TTTATATAT-TTTTTAAATT
* *
15800208 ATTTATATACTTTTTCATTATT
1 -TTTATATA-TTTTTTA-AATT
15800230 TTTATATATTTTTTAAATT
1 TTTATATATTTTTTAAATT
*
15800249 TTCTTTATATTTTT
1 TT-TATATATTTTT
15800263 ATATTTTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 5 0.11
20 16 0.35
21 21 0.46
22 4 0.09
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (19 bp):
TTTATATATTTTTTAAATT
Found at i:15800322 original size:21 final size:20
Alignment explanation
Indices: 15800298--15800337 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
15800288 TAAAATTATG
15800298 TATATATATTTCTT-TATTTTT
1 TATATA-ATTT-TTATATTTTT
15800319 TATATAATTTTTATATTTT
1 TATATAATTTTTATATTTT
15800338 AACAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 10 0.56
21 6 0.33
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (20 bp):
TATATAATTTTTATATTTTT
Found at i:15800324 original size:19 final size:18
Alignment explanation
Indices: 15800300--15800347 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
15800290 AAATTATGTA
* *
15800300 TATATATTTCTTTATTTTT
1 TATATAATT-TTTATATTT
15800319 TATATAATTTTTATATTT
1 TATATAATTTTTATATTT
*
15800337 TA-ACAATTTTT
1 TATATAATTTTT
15800348 TAAAATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 8 0.31
18 10 0.38
19 8 0.31
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (18 bp):
TATATAATTTTTATATTT
Found at i:15803267 original size:23 final size:23
Alignment explanation
Indices: 15803233--15803285 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
15803223 AAAAACCTAA
*
15803233 AAATAAATATTAAAATAAAAAAC
1 AAATAAAAATTAAAATAAAAAAC
* *
15803256 AAATAAAAATTAGACTAAAAAAC
1 AAATAAAAATTAAAATAAAAAAC
15803279 AAA-AAAA
1 AAATAAAA
15803286 GAGCTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (23 bp):
AAATAAAAATTAAAATAAAAAAC
Found at i:15803663 original size:26 final size:24
Alignment explanation
Indices: 15803623--15803682 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
15803613 TTATTTTATT
* * *
15803623 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
15803647 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
15803673 AAATAAATAT
1 AAATAAATAT
15803683 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:15803694 original size:22 final size:22
Alignment explanation
Indices: 15803653--15803711 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
15803643 ATAATAAATC
* *
15803653 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
15803673 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
15803695 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
15803712 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:15807860 original size:25 final size:24
Alignment explanation
Indices: 15807809--15807859 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
15807799 TTGAATATTA
* *
15807809 TTTAATATTTTTTATTTATGTAAT
1 TTTAATAATTTTTATTTATATAAT
15807833 TTTAATTAATTTTTATTT-TATAAT
1 TTTAA-TAATTTTTATTTATATAAT
15807857 TTT
1 TTT
15807860 TTATAACAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTAATAATTTTTATTTATATAAT
Found at i:15808670 original size:26 final size:26
Alignment explanation
Indices: 15808634--15808745 Score: 170
Period size: 26 Copynumber: 4.2 Consensus size: 26
15808624 TGATACAAAT
15808634 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15808660 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
15808686 TGTGATAATGGGTTAGGTAAATGTTTCA
1 --TGATAATAGGTTAGGTAAATGTTCCA
* *
15808714 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
15808740 TGATAA
1 TGATAA
15808746 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
26 58 0.71
28 24 0.29
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:15808693 original size:54 final size:54
Alignment explanation
Indices: 15808634--15808741 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 54
15808624 TGATACAAAT
15808634 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATG
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATG
* * * *
15808688 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCATG
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATG
15808742 ATAAGAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (54 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATG
Found at i:15810257 original size:26 final size:26
Alignment explanation
Indices: 15810228--15810280 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
15810218 TTTACAGTTT
*
15810228 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
15810254 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
15810280 T
1 T
15810281 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:15810654 original size:12 final size:12
Alignment explanation
Indices: 15810639--15810675 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
15810629 GAAAAGGGTT
15810639 CTGGCCCAGTAC
1 CTGGCCCAGTAC
15810651 CTGGCCCAGTAC
1 CTGGCCCAGTAC
15810663 CTGGCCCAGTAC
1 CTGGCCCAGTAC
15810675 C
1 C
15810676 ACTGCTACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.16, C:0.43, G:0.24, T:0.16
Consensus pattern (12 bp):
CTGGCCCAGTAC
Found at i:15812332 original size:63 final size:59
Alignment explanation
Indices: 15812215--15812336 Score: 138
Period size: 63 Copynumber: 2.0 Consensus size: 59
15812205 TTGTACAAAC
* ****
15812215 TATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTGAATATTTTAATAGTAAAT
1 TATTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG-AAAT
*
15812275 TATTTTTATATT-TTGTCCTATTTAATAAAAATAGAAGTTCTTTTGAATAAGGCAATAGAAAT
1 TATTTTTATATTGTT-T-C-ATTTAAT-AAAATAAAAGTTCTTTTGAATAAGGCAATAGAAAT
15812337 AATGCAACAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
59 2 0.04
60 13 0.25
61 1 0.02
62 11 0.21
63 25 0.48
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.48
Consensus pattern (59 bp):
TATTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAGAAAT
Found at i:15814779 original size:11 final size:11
Alignment explanation
Indices: 15814745--15814805 Score: 52
Period size: 11 Copynumber: 5.3 Consensus size: 11
15814735 TTTTTATTTA
*
15814745 ATATGTATAAT
1 ATATATATAAT
*
15814756 ATATATATGAT
1 ATATATATAAT
15814767 ATA-ATAATAAT
1 ATATAT-ATAAT
*
15814778 ATGTATATAATT
1 ATATATATAA-T
15814790 ATATGTATATAAT
1 ATA--TATATAAT
15814803 ATA
1 ATA
15814806 AGTTATGAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
10 2 0.05
11 22 0.55
12 5 0.12
13 4 0.10
14 7 0.17
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (11 bp):
ATATATATAAT
Found at i:15814781 original size:31 final size:31
Alignment explanation
Indices: 15814743--15814803 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
15814733 TATTTTTATT
15814743 TAATATGTATA-ATATATATATG-ATATAATAA
1 TAATATGTATATA-AT-TATATGTATATAATAA
15814774 TAATATGTATATAATTATATGTATATAATA
1 TAATATGTATATAATTATATGTATATAATA
15814804 TAAGTTATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 6 0.21
31 21 0.75
32 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (31 bp):
TAATATGTATATAATTATATGTATATAATAA
Found at i:15814793 original size:14 final size:14
Alignment explanation
Indices: 15814745--15814802 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
15814735 TTTTTATTTA
15814745 ATATGTATA-ATATAT
1 ATATGTATATA-AT-T
*
15814760 ATATGATATAATAATA
1 ATATG-TAT-ATAATT
15814776 ATATGTATATAATT
1 ATATGTATATAATT
15814790 ATATGTATATAAT
1 ATATGTATATAAT
15814803 ATAAGTTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
14 18 0.47
15 8 0.21
16 8 0.21
17 3 0.08
18 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
ATATGTATATAATT
Found at i:15815852 original size:43 final size:43
Alignment explanation
Indices: 15815785--15815866 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
15815775 TAAGACCATG
* *
15815785 GCATCGATATGTGTTTACGAGTAAGACCCTATCTGGGACAGTA
1 GCATCGATATGTGGTTACGAGTAAGACCATATCTGGGACAGTA
*
15815828 GCATCGATATGTGGTTAC-ATGTAAGACCATGTCTGGGAC
1 GCATCGATATGTGGTTACGA-GTAAGACCATATCTGGGAC
15815867 GTTGGCATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
GCATCGATATGTGGTTACGAGTAAGACCATATCTGGGACAGTA
Found at i:15819904 original size:25 final size:26
Alignment explanation
Indices: 15819810--15819918 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
15819800 CATGAAATTC
15819810 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
15819836 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
15819862 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
15819888 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15819913 TTATCA
1 TTATCA
15819919 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15825645 original size:26 final size:26
Alignment explanation
Indices: 15825609--15825716 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
15825599 CATGAAATTC
15825609 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
15825635 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
15825661 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
15825687 TTATCATG-AA-ATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15825711 TTATCA
1 TTATCA
15825717 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
24 20 0.25
25 2 0.03
26 58 0.73
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15827809 original size:126 final size:126
Alignment explanation
Indices: 15827545--15827943 Score: 568
Period size: 126 Copynumber: 3.2 Consensus size: 126
15827535 TAAGGCCAAG
* * * *
15827545 CAGGAATTATTGTAGAAAAAGAGCGTCCACGTGGGAGTTTTTTTTAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGC
15827610 ATCCTGCTTGAAGCGTTTTTGACACTA-TTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * *
15827670 TAGGAACTACTGTAGAAAAAAAGCGTCCACATGGGAGCTTTTTTCAGTAATTTTCCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGC
* * *
15827735 ATCTTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGCCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* ** * *
15827796 CAGGAACTGCTGTAGAAAAGGAGCGTCCATGTGGGAGCTTTTTTTAGTAATTTTGCTGACAGTAC
1 CAGGAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGC
** * * *
15827861 ATCCTGCTTGAAATGTTTTTGACATTATCTTTTT-AGAACCATCTTCTCAAAATTAATTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTAT-TTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* *
15827922 CTGAAACTACTGTAGAAAAAAA
1 CAGGAACTACTGTAGAAAAAAA
15827944 AATCCTTCTT
Statistics
Matches: 239, Mismatches: 33, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
125 82 0.34
126 152 0.64
127 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:15828145 original size:35 final size:33
Alignment explanation
Indices: 15828040--15828154 Score: 122
Period size: 33 Copynumber: 3.4 Consensus size: 33
15828030 TTTTTTTAAA
* * * *
15828040 TAAACCTGAATTTAATTGATTTTATTAAAAACTA
1 TAAACCTTAATTTAATT-AATTTATTTAAAACTC
* *
15828074 TAAACCATAATTTAATTAATTTATTTAAAACCC
1 TAAACCTTAATTTAATTAATTTATTTAAAACTC
* * *
15828107 TAAAACTTAATTTAATTACTTTTTTAATAAAACTC
1 TAAACCTTAATTTAATTAATTTATT--TAAAACTC
15828142 TAAACCTTAATTT
1 TAAACCTTAATTT
15828155 TTTTTTAAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
33 33 0.49
34 15 0.22
35 19 0.28
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (33 bp):
TAAACCTTAATTTAATTAATTTATTTAAAACTC
Found at i:15828156 original size:27 final size:27
Alignment explanation
Indices: 15828126--15828178 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
15828116 ATTTAATTAC
*
15828126 TTTTTTAATAAAACTC-TAAACCTTAA
1 TTTTTTTATAAAACTCTTAAACCTTAA
* *
15828152 TTTTTTTTTAAAATTCTTAAACCTTAA
1 TTTTTTTATAAAACTCTTAAACCTTAA
15828179 ATAAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTTTTTATAAAACTCTTAAACCTTAA
Found at i:15828528 original size:17 final size:17
Alignment explanation
Indices: 15828506--15828538 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15828496 GGAAAATGAT
15828506 TTTGAATGTTTAAATAA
1 TTTGAATGTTTAAATAA
15828523 TTTGAATGTTTAAATA
1 TTTGAATGTTTAAATA
15828539 GTACAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (17 bp):
TTTGAATGTTTAAATAA
Found at i:15836315 original size:20 final size:21
Alignment explanation
Indices: 15836290--15836334 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
15836280 TAATATAACA
*
15836290 AAACTTACTTAA-CTATCATC
1 AAACTTACATAATCTATCATC
* *
15836310 AAACTTCCATAATCTATCATT
1 AAACTTACATAATCTATCATC
15836331 AAAC
1 AAAC
15836335 ATCAAAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.33
Consensus pattern (21 bp):
AAACTTACATAATCTATCATC
Found at i:15855884 original size:43 final size:43
Alignment explanation
Indices: 15855868--15855998 Score: 217
Period size: 43 Copynumber: 3.0 Consensus size: 43
15855858 TAATTCTATC
15855868 TCGAAGCCTGTGTCCCAGACAGGGTCTTACACGAAATCACAGA
1 TCGAAGCCTGTGTCCCAGACAGGGTCTTACACGAAATCACAGA
*
15855911 TCGAGGCCTGTGTCCCAGACAGGGTCTTACACGAAATCACAGA
1 TCGAAGCCTGTGTCCCAGACAGGGTCTTACACGAAATCACAGA
* * * *
15855954 TCGAGGCCTGTGTCCCAAACACGGTCTTACACGATATCACAGA
1 TCGAAGCCTGTGTCCCAGACAGGGTCTTACACGAAATCACAGA
15855997 TC
1 TC
15855999 AATGTCAACA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (43 bp):
TCGAAGCCTGTGTCCCAGACAGGGTCTTACACGAAATCACAGA
Found at i:15869873 original size:35 final size:38
Alignment explanation
Indices: 15869804--15869874 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
15869794 TAAATATAAA
* * *
15869804 AATAATTATATTAAGAATGTTATTAAGTTATATTTAAT
1 AATAATTATATTAAGAATATGATTAAGATATATTTAAT
15869842 AATAATTATATTAA-AATATGATTAA-AT-TATTTA
1 AATAATTATATTAAGAATATGATTAAGATATATTTA
15869875 TTTTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 6 0.20
36 1 0.03
37 9 0.30
38 14 0.47
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (38 bp):
AATAATTATATTAAGAATATGATTAAGATATATTTAAT
Found at i:15870098 original size:46 final size:44
Alignment explanation
Indices: 15870013--15870104 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 44
15870003 ATATCTATTC
**
15870013 CATTCAACCAAACACAATAATACTATTACAGTTCTATTCCATTA
1 CATTCAACCAAACACAATAATACTATTACAGGCCTATTCCATTA
*
15870057 CATTCAACCAAACA-ATTGAATTACTGATTACAGGCCTATTCCATTA
1 CATTCAACCAAACACAAT-AA-TACT-ATTACAGGCCTATTCCATTA
15870103 CA
1 CA
15870105 GCTCTATTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.05
44 16 0.38
45 4 0.10
46 20 0.48
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAATAATACTATTACAGGCCTATTCCATTA
Done.