Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 48 of 136
Found at i:15825570 original size:27 final size:27
Alignment explanation
Indices: 15825540--15825635 Score: 117
Period size: 27 Copynumber: 3.6 Consensus size: 27
15825530 AGGTCAATAT
*
15825540 ATGATCGAAATACCCCTATAAGGTAAA
1 ATGACCGAAATACCCCTATAAGGTAAA
*
15825567 ATGACCGAAATA-CCGTCAT-AGGATAAA
1 ATGACCGAAATACCCCT-ATAAGG-TAAA
*
15825594 ATGACCGAAATATCCCC-ATAGGGTAAA
1 ATGACCGAAATA-CCCCTATAAGGTAAA
15825621 ATGACCGAAATACCC
1 ATGACCGAAATACCC
15825636 TTAGGAGATG
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
26 9 0.15
27 47 0.78
28 2 0.03
29 2 0.03
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCCTATAAGGTAAA
Found at i:15825649 original size:27 final size:26
Alignment explanation
Indices: 15825540--15825649 Score: 100
Period size: 27 Copynumber: 4.1 Consensus size: 26
15825530 AGGTCAATAT
* *
15825540 ATGATCGAAATACCCCTATAAGG-TAAA
1 ATGACCGAAATA-CCC-ATAGGGATAAA
15825567 ATGACCGAAATACCGTCATA-GGATAAA
1 ATGACCGAAATACC--CATAGGGATAAA
15825594 ATGACCGAAATATCCCCATAGGG-TAAA
1 ATGACCGAAATA--CCCATAGGGATAAA
* *
15825621 ATGACCGAAATACCCTTAGGAGATGAA
1 ATGACCGAAATACCCATAGG-GATAAA
15825648 AT
1 AT
15825650 TACTATTATG
Statistics
Matches: 72, Mismatches: 3, Indels: 16
0.79 0.03 0.18
Matches are distributed among these distances:
25 7 0.10
26 5 0.07
27 55 0.76
28 3 0.04
29 2 0.03
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (26 bp):
ATGACCGAAATACCCATAGGGATAAA
Found at i:15825988 original size:28 final size:27
Alignment explanation
Indices: 15825956--15826011 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
15825946 ACTGATATTA
*
15825956 TATCGGGTTAAGGCCCACACTGTTACTG
1 TATCGGGCTAAGGCCCACACTG-TACTG
*
15825984 TATCGGGCTAAGGCCGACACTGTACTG
1 TATCGGGCTAAGGCCCACACTGTACTG
15826011 T
1 T
15826012 TACTGGATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (27 bp):
TATCGGGCTAAGGCCCACACTGTACTG
Found at i:15828442 original size:38 final size:36
Alignment explanation
Indices: 15828399--15828469 Score: 97
Period size: 38 Copynumber: 1.9 Consensus size: 36
15828389 ATTTTATATT
*
15828399 TTTTATAATTTATTAGATTTTATATAATATTTGTAAGA
1 TTTTATAATTTATTACATTTTA-ATAAT-TTTGTAAGA
* *
15828437 TTTTATAATTTTTTTCATTTTAATAATTTTGTA
1 TTTTATAATTTATTACATTTTAATAATTTTGTA
15828470 TCAATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 6 0.20
37 5 0.17
38 19 0.63
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (36 bp):
TTTTATAATTTATTACATTTTAATAATTTTGTAAGA
Found at i:15841302 original size:19 final size:20
Alignment explanation
Indices: 15841280--15841321 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
15841270 ATTTAACTTC
*
15841280 AAACCCAAAACAAACAAA-T
1 AAACCCAAAACAAAAAAATT
15841299 AAA-CCAAAACAAAAAAATT
1 AAACCCAAAACAAAAAAATT
15841318 AAAC
1 AAAC
15841322 TTGCCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.71, C:0.21, G:0.00, T:0.07
Consensus pattern (20 bp):
AAACCCAAAACAAAAAAATT
Found at i:15843583 original size:13 final size:13
Alignment explanation
Indices: 15843547--15843574 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15843537 CAAATAGAGG
15843547 ATTTGATTAAAGA
1 ATTTGATTAAAGA
15843560 ATTTGATTAAAGA
1 ATTTGATTAAAGA
15843573 AT
1 AT
15843575 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTTGATTAAAGA
Found at i:15847270 original size:38 final size:38
Alignment explanation
Indices: 15847154--15847256 Score: 188
Period size: 38 Copynumber: 2.7 Consensus size: 38
15847144 TTACCGCCCT
*
15847154 ATTGAGTACATGTTAAGCATGTTTACTATTAGTGATGA
1 ATTGAGTACATGTTAAGCATGTCTACTATTAGTGATGA
*
15847192 ATTGAGTACATGTTAAACATGTCTACTATTAGTGATGA
1 ATTGAGTACATGTTAAGCATGTCTACTATTAGTGATGA
15847230 ATTGAGTACATGTTAAGCATGTCTACT
1 ATTGAGTACATGTTAAGCATGTCTACT
15847257 GCTAATATTG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (38 bp):
ATTGAGTACATGTTAAGCATGTCTACTATTAGTGATGA
Found at i:15847430 original size:43 final size:41
Alignment explanation
Indices: 15847365--15847555 Score: 175
Period size: 43 Copynumber: 4.6 Consensus size: 41
15847355 GATGAGCATT
**
15847365 CACAACCCAGTGATAGTTTATCTATAAATATGTTGTGCACC
1 CACAACCCAGTGGCAGTTTATCTATAAATATGTTGTGCACC
* * * *
15847406 CACAACCTACTGGCAGCTTTTATCTATAAATATTTTGTGCATC
1 CACAACCCAGTGGCAG--TTTATCTATAAATATGTTGTGCACC
* * * * * * *
15847449 CACAACCCAGTGGCAGTTTATCTGTGAATTTGCTATACATC
1 CACAACCCAGTGGCAGTTTATCTATAAATATGTTGTGCACC
* * * * **
15847490 TACAGCCCAATGACAGTTTTTATCTGCAAATATGTTGTGCACC
1 CACAACCCAGTGGCAG--TTTATCTATAAATATGTTGTGCACC
15847533 CACAACCCAGTGGCAGTTTATCT
1 CACAACCCAGTGGCAGTTTATCT
15847556 GCAACCTAGT
Statistics
Matches: 116, Mismatches: 30, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
41 49 0.42
43 67 0.58
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (41 bp):
CACAACCCAGTGGCAGTTTATCTATAAATATGTTGTGCACC
Found at i:15853505 original size:51 final size:51
Alignment explanation
Indices: 15853407--15853507 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
15853397 TATTTCTTTG
* * * * *
15853407 AATTTTTTAGAATTATGATCAACTTGAGATAATATGTAAATATTGAGGGTC
1 AATTTTTTAAAATTAAGATCAAATTGAGAAAATATGTAAATAGTGAGGGTC
* *
15853458 AATTTTTTAAAATTAAGATTAAATTGATAAAATATGTAAA-AGGTGAGGGT
1 AATTTTTTAAAATTAAGATCAAATTGAGAAAATATGTAAATA-GTGAGGGT
15853508 TAAATTTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.38
Consensus pattern (51 bp):
AATTTTTTAAAATTAAGATCAAATTGAGAAAATATGTAAATAGTGAGGGTC
Found at i:15858194 original size:266 final size:267
Alignment explanation
Indices: 15857709--15858242 Score: 1061
Period size: 266 Copynumber: 2.0 Consensus size: 267
15857699 TTATTATTTT
15857709 ATATATTTTTATAACTAAATGTTAATTTAAAATCTTTTTTATTAATTAAATTAAATTCAAATCAA
1 ATATATTTTTATAACTAAATGTTAATTTAAAATCTTTTTTATTAATTAAATTAAATTCAAATCAA
15857774 ATTAGACTGACTCGAAATAAAAAACATTTATTCAAGTCCGACTTTAATCGAGTCGAGACTATCCA
66 ATTAGACTGACTCGAAATAAAAAACATTTATTCAAGTCCGACTTTAATCGAGTCGAGACTATCCA
15857839 ACTAGACAAACTACTCAATCTTTGGACAGTTTACTTGGTGCTTGGCTATCTTTTGTATATATTCT
131 ACTAGACAAACTACTCAATCTTTGGACAGTTTACTTGGTGCTTGGCTATCTTTTGTATATATTCT
15857904 AATTGCTTTGGGTTGCTTTCGGCCCTATTGCTTTTTGGGCTTTATAAACGTGTCATAACAAAAAT
196 AATTGCTTTGGGTTGCTTTCGGCCCTATTGCTTTTTGGGCTTTATAAACGTGTCATAACAAAAAT
15857969 AAAATAA
261 AAAATAA
15857976 ATATATTTTT-TAACTAAATGTTAATTTAAAATCTTTTTTATTAATTAAATTAAATTCAAATCAA
1 ATATATTTTTATAACTAAATGTTAATTTAAAATCTTTTTTATTAATTAAATTAAATTCAAATCAA
15858040 ATTAGACTGACTCGAAATAAAAAACATTTATTCAAGTCCGACTTTAATCGAGTCGAGACTATCCA
66 ATTAGACTGACTCGAAATAAAAAACATTTATTCAAGTCCGACTTTAATCGAGTCGAGACTATCCA
15858105 ACTAGACAAACTACTCAATCTTTGGACAGTTTACTTGGTGCTTGGCTATCTTTTGTATATATTCT
131 ACTAGACAAACTACTCAATCTTTGGACAGTTTACTTGGTGCTTGGCTATCTTTTGTATATATTCT
15858170 AATTGCTTTGGGTTGCTTTCGGCCCTATTGCTTTTTGGGCTTTATAAACGTGTCATAACAAAAAT
196 AATTGCTTTGGGTTGCTTTCGGCCCTATTGCTTTTTGGGCTTTATAAACGTGTCATAACAAAAAT
15858235 AAAATAA
261 AAAATAA
15858242 A
1 A
15858243 GCTCTCGAAA
Statistics
Matches: 267, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
266 257 0.96
267 10 0.04
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (267 bp):
ATATATTTTTATAACTAAATGTTAATTTAAAATCTTTTTTATTAATTAAATTAAATTCAAATCAA
ATTAGACTGACTCGAAATAAAAAACATTTATTCAAGTCCGACTTTAATCGAGTCGAGACTATCCA
ACTAGACAAACTACTCAATCTTTGGACAGTTTACTTGGTGCTTGGCTATCTTTTGTATATATTCT
AATTGCTTTGGGTTGCTTTCGGCCCTATTGCTTTTTGGGCTTTATAAACGTGTCATAACAAAAAT
AAAATAA
Found at i:15859548 original size:31 final size:31
Alignment explanation
Indices: 15859480--15859539 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
15859470 ATTTAACGAA
*
15859480 GAGTGATCAAAATAGAAATGATATAAAACAG
1 GAGTGACCAAAATAGAAATGATATAAAACAG
*
15859511 GAGTGACCAAAATAGAAATGATCTAAAAC
1 GAGTGACCAAAATAGAAATGATATAAAAC
15859540 GTTAGTGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.53, C:0.10, G:0.18, T:0.18
Consensus pattern (31 bp):
GAGTGACCAAAATAGAAATGATATAAAACAG
Found at i:15865349 original size:16 final size:16
Alignment explanation
Indices: 15865328--15865372 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
15865318 TATTAACTAT
15865328 ATTTCAAGTGAATCCA
1 ATTTCAAGTGAATCCA
15865344 ATTTCAAGTGAATCCA
1 ATTTCAAGTGAATCCA
15865360 ATTTCAAGTGAAT
1 ATTTCAAGTGAAT
15865373 ATGGCAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (16 bp):
ATTTCAAGTGAATCCA
Found at i:15866243 original size:25 final size:25
Alignment explanation
Indices: 15866215--15866262 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
15866205 ATCTTGTGTG
15866215 TAATTTGGAAACCATAACCCTAATA
1 TAATTTGGAAACCATAACCCTAATA
**
15866240 TAATTTGGGGACCATAACCCTAA
1 TAATTTGGAAACCATAACCCTAA
15866263 ACATGTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (25 bp):
TAATTTGGAAACCATAACCCTAATA
Found at i:15866433 original size:13 final size:13
Alignment explanation
Indices: 15866415--15866440 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15866405 TATAACATAA
15866415 AAGCATTTAAAAG
1 AAGCATTTAAAAG
15866428 AAGCATTTAAAAG
1 AAGCATTTAAAAG
15866441 TACAAAGTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
AAGCATTTAAAAG
Found at i:15870322 original size:3 final size:3
Alignment explanation
Indices: 15870296--15870349 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
15870286 TTGAGCAATT
*
15870296 TTA TTA TTTA GTTAA TTA TT- TTA TTA TTA TTA CTA TTA TTA TTAA TTA
1 TTA TTA -TTA -TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
15870344 TTA TTA
1 TTA TTA
15870350 GTTTTATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
2 2 0.05
3 31 0.70
4 10 0.23
5 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:15870346 original size:22 final size:20
Alignment explanation
Indices: 15870293--15870359 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 20
15870283 GTTTTGAGCA
15870293 ATTTTATTATTTAGTTA--ATT
1 ATTTTATTA-TTA-TTACTATT
15870313 ATTTTATTATTATTACTATT
1 ATTTTATTATTATTACTATT
* *
15870333 ATTATTAATTATTATTAGTTTT
1 ATT-TT-ATTATTATTACTATT
15870355 ATTTT
1 ATTTT
15870360 TCTTATCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.07
19 3 0.07
20 15 0.37
21 4 0.10
22 16 0.39
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (20 bp):
ATTTTATTATTATTACTATT
Found at i:15870356 original size:12 final size:11
Alignment explanation
Indices: 15870296--15870357 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 11
15870286 TTGAGCAATT
15870296 TTATTA-TTTA
1 TTATTATTTTA
15870306 GTTAATTATTTTA
1 -TT-ATTATTTTA
*
15870319 TTATTATTACTA
1 TTATTATT-TTA
15870331 TTATTATTAATTA
1 TTATTATT--TTA
15870344 TTATTAGTTTTA
1 TTATTA-TTTTA
15870356 TT
1 TT
15870358 TTTCTTATCT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
11 8 0.18
12 21 0.48
13 13 0.30
14 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:15883019 original size:45 final size:45
Alignment explanation
Indices: 15882951--15883085 Score: 216
Period size: 45 Copynumber: 3.0 Consensus size: 45
15882941 TAATGGAAGG
* * *
15882951 GATCGAAGATAGCAGATCATGTCTTCCTATATAGGCAGCGAAGTA
1 GATCGAAGATAGAAGATCTTGTCTTCCTATATTGGCAGCGAAGTA
*
15882996 GATCGAAGATAGAAAATCTTGTCTTCCTATATTGGCAGCGAAGTA
1 GATCGAAGATAGAAGATCTTGTCTTCCTATATTGGCAGCGAAGTA
* *
15883041 GATCGAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGTA
1 GATCGAAGATAGAAGATCTTGTCTTCCTATATTGGCAGCGAAGTA
15883086 TGTAACAGTG
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 83 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (45 bp):
GATCGAAGATAGAAGATCTTGTCTTCCTATATTGGCAGCGAAGTA
Found at i:15883224 original size:45 final size:45
Alignment explanation
Indices: 15883121--15883228 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
15883111 CTCCATAGTG
* ** * *
15883121 CAGCAAAATAGATCGAACATAGCAGATCTTGTCTTTCTGTATTGA
1 CAGCAAAACAGATCGAAGGTGGCAGATCTTGTCTTTCTGTACTGA
* ** *
15883166 CAGCGAAGTAGATCGAAGGTGGCAGATCTTGTCTTTCTGTACTGG
1 CAGCAAAACAGATCGAAGGTGGCAGATCTTGTCTTTCTGTACTGA
*
15883211 CAGTAAAACAGATCGAAG
1 CAGCAAAACAGATCGAAG
15883229 ACACTAGCCT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (45 bp):
CAGCAAAACAGATCGAAGGTGGCAGATCTTGTCTTTCTGTACTGA
Found at i:15883224 original size:90 final size:90
Alignment explanation
Indices: 15882951--15883229 Score: 248
Period size: 90 Copynumber: 3.1 Consensus size: 90
15882941 TAATGGAAGG
* * * * * * *
15882951 GATCGAAGATAGCAGATCATGTCTTCCTATATAGGCAGCGAAGTAGATCGAAGATAGAAAATCTT
1 GATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGGTGGCAGATCTT
* * * * *
15883016 GTCTTCCTATATTGGCAGCGAAGTA
66 GTCTTTCTGTACTGGCAGCAAAATA
* *
15883041 GATCGAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGT--AT-GTAACAGTGGC-G-T-
1 GATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG-AA-GGTGGCAGATC
** *
15883100 TTGGGGTTTC-GCTCCATAGTGCAGCAAAATA
64 TT-GTCTTTCTG-TAC-T-G-GCAGCAAAATA
* * *
15883131 GATCGAACATAGCAGATCTTGTCTTTCTGTATTGACAGCGAAGTAGATCGAAGGTGGCAGATCTT
1 GATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGGTGGCAGATCTT
* *
15883196 GTCTTTCTGTACTGGCAGTAAAACA
66 GTCTTTCTGTACTGGCAGCAAAATA
15883221 GATCGAAGA
1 GATCGAAGA
15883230 CACTAGCCTT
Statistics
Matches: 147, Mismatches: 28, Indels: 28
0.72 0.14 0.14
Matches are distributed among these distances:
86 2 0.01
87 7 0.05
88 5 0.03
89 3 0.02
90 106 0.72
91 6 0.04
92 6 0.04
93 9 0.06
94 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (90 bp):
GATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGGTGGCAGATCTT
GTCTTTCTGTACTGGCAGCAAAATA
Found at i:15884834 original size:3 final size:3
Alignment explanation
Indices: 15884808--15884861 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
15884798 TTTGGCAATT
*
15884808 TTA TTA TTTA GTTAA TTA TT- TTA TTA TTA TTA CTA TTA TTA TTAA TTA
1 TTA TTA -TTA -TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
15884856 TTA TTA
1 TTA TTA
15884862 GTTTTATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
2 2 0.05
3 31 0.70
4 10 0.23
5 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:15884858 original size:22 final size:20
Alignment explanation
Indices: 15884805--15884871 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 20
15884795 GTTTTTGGCA
15884805 ATTTTATTATTTAGTTA--ATT
1 ATTTTATTA-TTA-TTACTATT
15884825 ATTTTATTATTATTACTATT
1 ATTTTATTATTATTACTATT
* *
15884845 ATTATTAATTATTATTAGTTTT
1 ATT-TT-ATTATTATTACTATT
15884867 ATTTT
1 ATTTT
15884872 TCTTATCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.07
19 3 0.07
20 15 0.37
21 4 0.10
22 16 0.39
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (20 bp):
ATTTTATTATTATTACTATT
Found at i:15884868 original size:12 final size:11
Alignment explanation
Indices: 15884808--15884869 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 11
15884798 TTTGGCAATT
15884808 TTATTA-TTTA
1 TTATTATTTTA
15884818 GTTAATTATTTTA
1 -TT-ATTATTTTA
*
15884831 TTATTATTACTA
1 TTATTATT-TTA
15884843 TTATTATTAATTA
1 TTATTATT--TTA
15884856 TTATTAGTTTTA
1 TTATTA-TTTTA
15884868 TT
1 TT
15884870 TTTCTTATCT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
11 8 0.18
12 21 0.48
13 13 0.30
14 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:15898539 original size:215 final size:216
Alignment explanation
Indices: 15898155--15898585 Score: 855
Period size: 215 Copynumber: 2.0 Consensus size: 216
15898145 ATATTCGTGT
15898155 TAAAATTTTATGTTGGTACCAATTTCACATTTTATCTTTAAGATAACTTTTATTAAAAAAAGTAC
1 TAAAATTTTATGTTGGTACCAATTTCACATTTTATCTTTAAGATAACTTTTATTAAAAAAAGTAC
15898220 ATTTTTTATATTTAATATATTTTTTAATTTTAAAATACATAGTGACAAAAACCAGAAGATAATTG
66 ATTTTTTATATTTAATATATTTTTTAATTTTAAAATACATAGTGACAAAAACCAGAAGATAATTG
15898285 AAGCAATTAAGAAAGCAAAGAAGCTAACTCGTATATAAAAGATTAATGAATAAATTATGAGAGGA
131 AAGCAATTAAGAAAGCAAAGAAGCTAACTCGTATATAAAAGATTAATGAATAAATTATGAGAGGA
15898350 TGAAAGTTAATAACAAATTTG
196 TGAAAGTTAATAACAAATTTG
15898371 TAAAATTTTATG-TGGTACCAATTTCACATTTTATCTTTAAGATAACTTTTATTAAAAAAAGTAC
1 TAAAATTTTATGTTGGTACCAATTTCACATTTTATCTTTAAGATAACTTTTATTAAAAAAAGTAC
15898435 ATTTTTTATATTTAATATATTTTTTAATTTTAAAATACATAGTGACAAAAACCAGAAGATAATTG
66 ATTTTTTATATTTAATATATTTTTTAATTTTAAAATACATAGTGACAAAAACCAGAAGATAATTG
15898500 AAGCAATTAAGAAAGCAAAGAAGCTAACTCGTATATAAAAGATTAATGAATAAATTATGAGAGGA
131 AAGCAATTAAGAAAGCAAAGAAGCTAACTCGTATATAAAAGATTAATGAATAAATTATGAGAGGA
15898565 TGAAAGTTAATAACAAATTTG
196 TGAAAGTTAATAACAAATTTG
15898586 ATTACGGTGG
Statistics
Matches: 215, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
215 203 0.94
216 12 0.06
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (216 bp):
TAAAATTTTATGTTGGTACCAATTTCACATTTTATCTTTAAGATAACTTTTATTAAAAAAAGTAC
ATTTTTTATATTTAATATATTTTTTAATTTTAAAATACATAGTGACAAAAACCAGAAGATAATTG
AAGCAATTAAGAAAGCAAAGAAGCTAACTCGTATATAAAAGATTAATGAATAAATTATGAGAGGA
TGAAAGTTAATAACAAATTTG
Found at i:15901511 original size:7 final size:6
Alignment explanation
Indices: 15901494--15901548 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
15901484 GTTCTAATCG
* * * *
15901494 TTTTAT TTTTATT TTTTAG TTGTAC TTTTAT TTTTAT TTTTA- -GTTAT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
15901541 TTTTAT TT
1 TTTTAT TT
15901549 CATTTTTTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
4 3 0.08
6 30 0.77
7 6 0.15
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:15908447 original size:3 final size:3
Alignment explanation
Indices: 15908441--15908478 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
15908431 GAATAATGAA
15908441 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
15908479 AATAATGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:15908483 original size:3 final size:3
Alignment explanation
Indices: 15908477--15908541 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
15908467 GATGATGATG
* *
15908477 ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATC ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15908525 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
15908542 GGGAAAAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15908486 original size:9 final size:9
Alignment explanation
Indices: 15908421--15908538 Score: 78
Period size: 9 Copynumber: 12.9 Consensus size: 9
15908411 ATTTATGGTA
15908421 ATAATAATG
1 ATAATAATG
15908430 -TGAATAATG
1 AT-AATAATG
15908439 A-AATGATGATG
1 ATAAT-A--ATG
* *
15908450 ATGATGATG
1 ATAATAATG
* *
15908459 ATGATGATG
1 ATAATAATG
* *
15908468 ATGATGATG
1 ATAATAATG
15908477 ATAATAATG
1 ATAATAATG
*
15908486 ATAATAATA
1 ATAATAATG
*
15908495 ATAATAATA
1 ATAATAATG
* *
15908504 ATAATCATA
1 ATAATAATG
*
15908513 ATAATAATA
1 ATAATAATG
*
15908522 ATAATAATA
1 ATAATAATG
15908531 ATAATAAT
1 ATAATAAT
15908539 AATGGGAAAA
Statistics
Matches: 96, Mismatches: 7, Indels: 12
0.83 0.06 0.10
Matches are distributed among these distances:
8 4 0.04
9 86 0.90
11 4 0.04
12 2 0.02
ACGTcount: A:0.53, C:0.01, G:0.14, T:0.33
Consensus pattern (9 bp):
ATAATAATG
Found at i:15911584 original size:22 final size:22
Alignment explanation
Indices: 15911558--15911601 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15911548 TGCAGTAACC
15911558 TTACAATACTTCATACACACAT
1 TTACAATACTTCATACACACAT
*
15911580 TTACAATACTTTATACACACAT
1 TTACAATACTTCATACACACAT
15911602 ACGCTCATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (22 bp):
TTACAATACTTCATACACACAT
Found at i:15916052 original size:3 final size:3
Alignment explanation
Indices: 15916046--15916103 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
15916036 GAGGAGGAGG
15916046 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15916094 AGA AGA AGA A
1 AGA AGA AGA A
15916104 AAGGACGCAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:15917773 original size:20 final size:21
Alignment explanation
Indices: 15917718--15917766 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
15917708 ATATATTTAC
*
15917718 AAATAATATTTAAATAAAAATA
1 AAATAATA-ATAAATAAAAATA
*
15917740 AAATAATAAAAAAT-AAAATA
1 AAATAATAATAAATAAAAATA
15917760 AAATAAT
1 AAATAAT
15917767 CCTAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.52
21 4 0.16
22 8 0.32
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATAATAATAAATAAAAATA
Found at i:15918513 original size:234 final size:235
Alignment explanation
Indices: 15918092--15918562 Score: 935
Period size: 234 Copynumber: 2.0 Consensus size: 235
15918082 CCAAAATGAT
15918092 AAAATTTTATTAAAAATAATAAAGATTTAGGTGATGTGTCACTAAACTAATTGAAAATTTGACTA
1 AAAATTTTATTAAAAATAATAAAGATTTAGGTGATGTGTCACTAAACTAATTGAAAATTTGACTA
15918157 AGGTAAGTGCACCTATCAATTAATTGTATAACTACGATGAGAAAAGATATCGTTCCCGCGAAGAC
66 AGGTAAGTGCACCTATCAATTAATTGTATAACTACGATGAGAAAAGATATCGTTCCCGCGAAGAC
15918222 TAAAAGTACTAGTAATTACTGTCTTTCTATTATGTAACCAAATAATTTGAGTGATCGATTTAAAA
131 TAAAAGTACTAGTAATTACTGTCTTTCTATTATGTAACCAAATAATTTGAGTGATCGATTTAAAA
15918287 GTAAAATTAACTAATTTAATTACTAACAGACACAGTAAAG
196 GTAAAATTAACTAATTTAATTACTAACAGACACAGTAAAG
15918327 AAAATTTTATT-AAAATAATAAAGATTTAGGTGATGTGTCACTAAACTAATTGAAAATTTGACTA
1 AAAATTTTATTAAAAATAATAAAGATTTAGGTGATGTGTCACTAAACTAATTGAAAATTTGACTA
15918391 AGGTAAGTGCACCTATCAATTAATTGTATAACTACGATGAGAAAAGATATCGTTCCCGCGAAGAC
66 AGGTAAGTGCACCTATCAATTAATTGTATAACTACGATGAGAAAAGATATCGTTCCCGCGAAGAC
15918456 TAAAAGTACTAGTAATTACTGTCTTTCTATTATGTAACCAAATAATTTGAGTGATCGATTTAAAA
131 TAAAAGTACTAGTAATTACTGTCTTTCTATTATGTAACCAAATAATTTGAGTGATCGATTTAAAA
15918521 GTAAAATTAACTAATTTAATTACTAACAGACACAGTAAAG
196 GTAAAATTAACTAATTTAATTACTAACAGACACAGTAAAG
15918561 AA
1 AA
15918563 CAAAACACAA
Statistics
Matches: 236, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
234 225 0.95
235 11 0.05
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (235 bp):
AAAATTTTATTAAAAATAATAAAGATTTAGGTGATGTGTCACTAAACTAATTGAAAATTTGACTA
AGGTAAGTGCACCTATCAATTAATTGTATAACTACGATGAGAAAAGATATCGTTCCCGCGAAGAC
TAAAAGTACTAGTAATTACTGTCTTTCTATTATGTAACCAAATAATTTGAGTGATCGATTTAAAA
GTAAAATTAACTAATTTAATTACTAACAGACACAGTAAAG
Found at i:15925997 original size:6 final size:6
Alignment explanation
Indices: 15925982--15926052 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
15925972 TATAAGTCTG
* * * * *
15925982 AAAAAT AAAATAA AAATAAT AAAAAT AAAAGT ACAAAT AAAAAT AACAAG
1 AAAAAT AAAA-AT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
15926032 AAAAAT --AAAT AAAACAT AAAA
1 AAAAAT AAAAAT AAAA-AT AAAA
15926053 CTAGATAAAG
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
4 4 0.08
6 31 0.62
7 14 0.28
8 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:15926019 original size:21 final size:20
Alignment explanation
Indices: 15925982--15926052 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
15925972 TATAAGTCTG
15925982 AAAAATAAAATAAAAATAAT
1 AAAAATAAAATAAAAATAAT
*
15926002 AAAAATAAAAGT--ACA-AAT
1 AAAAATAAAA-TAAAAATAAT
*
15926020 AAAAATAACAAGAAAAATAAAT
1 AAAAATAA-AATAAAAAT-AAT
15926042 AAAACATAAAA
1 AAAA-ATAAAA
15926053 CTAGATAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
18 11 0.27
19 4 0.10
20 12 0.29
21 1 0.02
22 9 0.22
23 4 0.10
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.15
Consensus pattern (20 bp):
AAAAATAAAATAAAAATAAT
Found at i:15927718 original size:24 final size:24
Alignment explanation
Indices: 15927691--15927740 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
15927681 GACTAATAAT
* *
15927691 AATACTAATAAT-AACAGTAAACAG
1 AATAATAATAATGAACAATAAA-AG
*
15927715 AATAATAATGATGAACAATAAAAG
1 AATAATAATAATGAACAATAAAAG
15927739 AA
1 AA
15927741 ATAAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.20
Consensus pattern (24 bp):
AATAATAATAATGAACAATAAAAG
Found at i:15927770 original size:6 final size:6
Alignment explanation
Indices: 15927761--15927786 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15927751 ATAACATAAC
15927761 ATAAAA ATAAAA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA AT
15927787 TTATGCTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:15931387 original size:20 final size:19
Alignment explanation
Indices: 15931358--15931400 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
15931348 ATTAGAATGT
*
15931358 AAAAATTAAATTAAAAACA
1 AAAAATTAAAATAAAAACA
*
15931377 AAAACATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAACA
15931397 AAAA
1 AAAA
15931401 TTGCTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAAATTAAAATAAAAACA
Found at i:15933892 original size:12 final size:12
Alignment explanation
Indices: 15933875--15933899 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15933865 CTAAGACAAC
15933875 ATCAATCAACCA
1 ATCAATCAACCA
15933887 ATCAATCAACCA
1 ATCAATCAACCA
15933899 A
1 A
15933900 ATATCTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (12 bp):
ATCAATCAACCA
Found at i:15936937 original size:4 final size:4
Alignment explanation
Indices: 15936928--15936962 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
15936918 ATTTGCCATT
15936928 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
15936963 ATCTCAAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:15941390 original size:19 final size:18
Alignment explanation
Indices: 15941364--15941405 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
15941354 CAGTAGCCAG
15941364 AATTTTTTTCAAAATCAA
1 AATTTTTTTCAAAATCAA
15941382 AATTTTTTTCAAAATCAA
1 AATTTTTTTCAAAATCAA
15941400 AATTTT
1 AATTTT
15941406 CTTTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTTTTTTCAAAATCAA
Found at i:15942315 original size:2 final size:2
Alignment explanation
Indices: 15942308--15942339 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15942298 CTTTCTCTTG
15942308 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15942340 AATTTTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15942377 original size:23 final size:24
Alignment explanation
Indices: 15942342--15942393 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
15942332 CTCTCTCTAA
15942342 TTTTTCTTCTTTT-TT-TTTGGTTTC
1 TTTTTCTTCTTTTGTTGTTT--TTTC
*
15942366 TTTTTC-TGTTTTGTTGTTTTTTC
1 TTTTTCTTCTTTTGTTGTTTTTTC
15942389 TTTTT
1 TTTTT
15942394 TATTCTTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 14 0.56
24 8 0.32
25 3 0.12
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.81
Consensus pattern (24 bp):
TTTTTCTTCTTTTGTTGTTTTTTC
Found at i:15942468 original size:13 final size:13
Alignment explanation
Indices: 15942450--15942515 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
15942440 AGTTTAGCAT
*
15942450 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
15942463 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
15942476 TG-TTATGGAAAAG
1 TGCTT-TTGAAAAG
* *
15942489 TGATTTTGAGAAG
1 TGCTTTTGAAAAG
*
15942502 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
15942515 T
1 T
15942516 TTGGTTTAAG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 2 0.05
13 38 0.90
14 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:15943490 original size:28 final size:28
Alignment explanation
Indices: 15943455--15943510 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
15943445 TCTTTTAAGG
15943455 GTTGTAATGTGGTCTAAGGGTTAAGGGT
1 GTTGTAATGTGGTCTAAGGGTTAAGGGT
15943483 GTTGTAATGTGGTCTAAGGGTTAAGGGT
1 GTTGTAATGTGGTCTAAGGGTTAAGGGT
15943511 CAATCAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.04, G:0.39, T:0.36
Consensus pattern (28 bp):
GTTGTAATGTGGTCTAAGGGTTAAGGGT
Found at i:15951583 original size:27 final size:28
Alignment explanation
Indices: 15951553--15951605 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
15951543 TTGTTAAAAC
15951553 TCTTCATAAAG-AAAACTC-AAGAGAAAT
1 TCTTCA-AAAGAAAAACTCAAAGAGAAAT
* *
15951580 TCTTGAAGAGAAAAACTCAAAGAGAA
1 TCTTCAAAAGAAAAACTCAAAGAGAA
15951606 TTTTATTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 3 0.14
27 12 0.55
28 7 0.32
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.19
Consensus pattern (28 bp):
TCTTCAAAAGAAAAACTCAAAGAGAAAT
Found at i:15959611 original size:17 final size:17
Alignment explanation
Indices: 15959589--15959622 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15959579 ATTGTTGAAA
15959589 TTGAACGTGGGATTGAG
1 TTGAACGTGGGATTGAG
15959606 TTGAACGTGGGATTGAG
1 TTGAACGTGGGATTGAG
15959623 CACAATCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.41, T:0.29
Consensus pattern (17 bp):
TTGAACGTGGGATTGAG
Found at i:15963351 original size:101 final size:99
Alignment explanation
Indices: 15963231--15963506 Score: 279
Period size: 101 Copynumber: 2.7 Consensus size: 99
15963221 TGTGACATGG
* *
15963231 ACTGTGTGTAGG-TCACTATGTGAAAGTGAAAGTGATGGTCACGTGTGTAGTACTATGTGTAGGC
1 ACTGTGTGCAGGCT-ACTATGTG-AAGTGAAAGT--TGATCACGTGTGTAGTACTATGTGTAGGC
* *
15963295 TACTACGTGTACCTGA-ATGAAAGGTCGCATGTGTAGT
62 TACTACGTGTACCAGATATGAAAGGTCACATGTGTAGT
** * *
15963332 ACTGTGTGCAGGCTACTATGCGTGCCG-GATAGCTTCAATCACGTGTGTAGTACTATGTGTAGGC
1 ACTGTGTGCAGGCTACTAT--GTGAAGTGAAAG-TT-GATCACGTGTGTAGTACTATGTGTAGGC
* * * *
15963396 TACTACGTGTATCAGATATTAATGGTCACGTGTGTAGT
62 TACTACGTGTACCAGATATGAAAGGTCACATGTGTAGT
* * * * * *
15963434 ACTATGTGCAGGCTACTACGAGAACTGGAAAGTTTGATCACGCGTGTAGTACTATGTGAAGGCTA
1 ACTGTGTGCAGGCTACTATGTGAAGT-GAAAG-TTGATCACGTGTGTAGTACTATGTGTAGGCTA
15963499 CTACGTGT
64 CTACGTGT
15963507 TTCGAATGAT
Statistics
Matches: 144, Mismatches: 23, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
100 3 0.02
101 95 0.66
102 43 0.30
103 3 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (99 bp):
ACTGTGTGCAGGCTACTATGTGAAGTGAAAGTTGATCACGTGTGTAGTACTATGTGTAGGCTACT
ACGTGTACCAGATATGAAAGGTCACATGTGTAGT
Found at i:15963384 original size:51 final size:49
Alignment explanation
Indices: 15963268--15963503 Score: 181
Period size: 51 Copynumber: 4.7 Consensus size: 49
15963258 GAAAGTGATG
* * * *
15963268 GTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCTGA-ATGAAA
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAT-TAA
* * * * * *
15963317 GGTCGCATGTGTAGTACTGTGTGCAGGCTACTATGCGTGCCGGATAGCTTCAA
1 -GTCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATA--TT-AA
* * *
15963370 -TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGATATTAA
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATATTAA
* * ** * *
15963418 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGAGAACTGGAAAGTT-T
1 --GTCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATA-TTAA
* *
15963469 GATCACGCGTGTAGTACTATGTGAAGGCTACTACG
1 G-TCACGTGTGTAGTACTATGTGCAGGCTACTACG
15963504 TGTTTCGAAT
Statistics
Matches: 149, Mismatches: 28, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
48 2 0.01
49 3 0.02
50 66 0.44
51 73 0.49
52 2 0.01
53 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
GTCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATATTAA
Found at i:15969823 original size:18 final size:18
Alignment explanation
Indices: 15969790--15969836 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
15969780 TATTTTGAAG
*
15969790 TTGAAAATATGTGTTTGT
1 TTGAAAACATGTGTTTGT
15969808 CTTGAAAACA-GTGTTTGT
1 -TTGAAAACATGTGTTTGT
15969826 TGTGAAAACAT
1 T-TGAAAACAT
15969837 ATTTGTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 16 0.64
19 8 0.32
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (18 bp):
TTGAAAACATGTGTTTGT
Found at i:15969843 original size:17 final size:18
Alignment explanation
Indices: 15969810--15969843 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15969800 GTGTTTGTCT
*
15969810 TGAAAACAGTGTTTGTTG
1 TGAAAACAGTATTTGTTG
15969828 TGAAAACA-TATTTGTT
1 TGAAAACAGTATTTGTT
15969844 TCCGTTAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (18 bp):
TGAAAACAGTATTTGTTG
Found at i:15970405 original size:27 final size:27
Alignment explanation
Indices: 15970375--15970434 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
15970365 AGCTACCGGT
15970375 ACAGT-ATATGTGGCAAAACCACCAGTA
1 ACAGTAAT-TGTGGCAAAACCACCAGTA
* *
15970402 ACAGTAATTGTGGCAGAGCCACCAGTA
1 ACAGTAATTGTGGCAAAACCACCAGTA
15970429 ACAGTA
1 ACAGTA
15970435 CTTCCTCCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (27 bp):
ACAGTAATTGTGGCAAAACCACCAGTA
Found at i:15970655 original size:26 final size:26
Alignment explanation
Indices: 15970587--15970656 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
15970577 TATCTCCTAG
15970587 GGGTATTTCGATAATTTACCCATCGA
1 GGGTATTTCGATAATTTACCCATCGA
* * * *
15970613 GGGTATTTTGGTGATTTACCCATCGT
1 GGGTATTTCGATAATTTACCCATCGA
*
15970639 GGTTATTTCGATAATTTA
1 GGGTATTTCGATAATTTA
15970657 AGACCTATCC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.41
Consensus pattern (26 bp):
GGGTATTTCGATAATTTACCCATCGA
Found at i:15977480 original size:18 final size:18
Alignment explanation
Indices: 15977446--15977491 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
15977436 TTATTTTAAA
*
15977446 TTTGAAAATACGTGTTTG
1 TTTGAAAACACGTGTTTG
15977464 TCTTGAAAACA-GTGTTTG
1 T-TTGAAAACACGTGTTTG
15977482 TTGTGAAAAC
1 TT-TGAAAAC
15977492 TTATTTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 16 0.64
19 8 0.32
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (18 bp):
TTTGAAAACACGTGTTTG
Found at i:15978280 original size:26 final size:26
Alignment explanation
Indices: 15978251--15978309 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
15978241 GGTATTTTGG
15978251 TAATTTACCCATCGAGGGTATTTCAA
1 TAATTTACCCATCGAGGGTATTTCAA
* **
15978277 TAATTTACCCATCGAGGTTATTTCGG
1 TAATTTACCCATCGAGGGTATTTCAA
15978303 TAATTTA
1 TAATTTA
15978310 TGACCTATCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (26 bp):
TAATTTACCCATCGAGGGTATTTCAA
Found at i:15978545 original size:18 final size:17
Alignment explanation
Indices: 15978513--15978547 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15978503 TTTCAGTGTA
*
15978513 GGGCCTACAAGCCCATT
1 GGGCCCACAAGCCCATT
15978530 GGGCCCACACAGCCCATT
1 GGGCCCACA-AGCCCATT
15978548 TCGACCCTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.14
Consensus pattern (17 bp):
GGGCCCACAAGCCCATT
Found at i:15979053 original size:18 final size:18
Alignment explanation
Indices: 15979019--15979064 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
15979009 TTATTTTAAA
*
15979019 TTTGAAAATACGTGTTTG
1 TTTGAAAACACGTGTTTG
15979037 TCTTGAAAACA-GTGTTTG
1 T-TTGAAAACACGTGTTTG
15979055 TTGTGAAAAC
1 TT-TGAAAAC
15979065 TTATTTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 16 0.64
19 8 0.32
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (18 bp):
TTTGAAAACACGTGTTTG
Found at i:15979853 original size:26 final size:26
Alignment explanation
Indices: 15979824--15979882 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
15979814 GGTATTTTGG
15979824 TAATTTACCCATCGAGGGTATTTCAA
1 TAATTTACCCATCGAGGGTATTTCAA
* **
15979850 TAATTTACCCATCGAGGTTATTTCGG
1 TAATTTACCCATCGAGGGTATTTCAA
15979876 TAATTTA
1 TAATTTA
15979883 TGACCTATCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (26 bp):
TAATTTACCCATCGAGGGTATTTCAA
Found at i:15980118 original size:18 final size:17
Alignment explanation
Indices: 15980086--15980120 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15980076 TTTCAGTGTA
*
15980086 GGGCCTACAAGCCCATT
1 GGGCCCACAAGCCCATT
15980103 GGGCCCACACAGCCCATT
1 GGGCCCACA-AGCCCATT
15980121 TCGACCCTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.14
Consensus pattern (17 bp):
GGGCCCACAAGCCCATT
Found at i:15982579 original size:81 final size:81
Alignment explanation
Indices: 15982469--15982681 Score: 286
Period size: 81 Copynumber: 2.6 Consensus size: 81
15982459 GGGTATAACA
* * * * * *
15982469 GTCATTTTACTCTATGGGGGTATTTCGATCATTCTACCTTATGAGGTTATTCCGATCATTTTACC
1 GTCATTTTACCCTATAGAGGTATTTCGATCATTTTACCCTATGAGGGTATTCCGATCATTTTACC
*
15982534 CTATGGGGGTATTTCG
66 CTATAGGGGTATTTCG
* * * *
15982550 GTCATTCTACCCTATAGAGGTATTACGATCATTTTACCCTATGAGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCCTATAGAGGTATTTCGATCATTTTACCCTATGAGGGTATTCCGATCATTTTACC
15982615 CTATAGGGGTATTTCG
66 CTATAGGGGTATTTCG
*
15982631 GTCATTTTATCCTA-AGGAGGTATTTC-AGTCATTTTACCCTATGAGGGTATT
1 GTCATTTTACCCTATA-GAGGTATTTCGA-TCATTTTACCCTATGAGGGTATT
15982682 TTGGTCATAA
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.02
81 114 0.98
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.40
Consensus pattern (81 bp):
GTCATTTTACCCTATAGAGGTATTTCGATCATTTTACCCTATGAGGGTATTCCGATCATTTTACC
CTATAGGGGTATTTCG
Found at i:15982688 original size:27 final size:27
Alignment explanation
Indices: 15982469--15982689 Score: 250
Period size: 27 Copynumber: 8.2 Consensus size: 27
15982459 GGGTATAACA
* *
15982469 GTCATTTTACTCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * * *
15982496 ATCATTCTACCTTATGAGGTTATTCCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
15982523 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
15982550 GTCATTCTACCCTAT-AGAGGTATTACG
1 GTCATTTTACCCTATGAG-GGTATTTCG
*
15982577 ATCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
15982604 GTCATTTTACCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
* * *
15982631 GTCATTTTATCCTAAG-GAGGTATTTCA
1 GTCATTTTACCCTATGAG-GGTATTTCG
*
15982658 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
15982685 GTCAT
1 GTCAT
15982690 AACAGTGTAA
Statistics
Matches: 161, Mismatches: 27, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
26 3 0.02
27 155 0.96
28 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:15987395 original size:22 final size:23
Alignment explanation
Indices: 15987337--15987395 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 23
15987327 GTGGAAATGA
15987337 AATGGTTATGACTAATTATATATTG
1 AATGG-TATG-CTAATTATATATTG
*
15987362 AATTGTA-G-TAATT-TATATT-
1 AATGGTATGCTAATTATATATTG
15987381 AATGGTAATGCTAAT
1 AATGGT-ATGCTAAT
15987396 GACTTGAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
19 5 0.17
20 7 0.24
21 6 0.21
22 4 0.14
23 1 0.03
24 2 0.07
25 4 0.14
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.44
Consensus pattern (23 bp):
AATGGTATGCTAATTATATATTG
Found at i:15995051 original size:19 final size:20
Alignment explanation
Indices: 15995017--15995055 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
15995007 GTAAATTATG
15995017 TGTGAAAATTTTATGAAATTA
1 TGTGAAAA-TTTATGAAATTA
15995038 TGTGAAAA-TTATGAAATT
1 TGTGAAAATTTATGAAATT
15995056 GAGTTTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (20 bp):
TGTGAAAATTTATGAAATTA
Found at i:15997540 original size:13 final size:14
Alignment explanation
Indices: 15997516--15997544 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15997506 GTAATGGGAT
15997516 TTTTGTTTTATTTA
1 TTTTGTTTTATTTA
15997530 TTTTG-TTTATTTA
1 TTTTGTTTTATTTA
15997543 TT
1 TT
15997545 ATTAAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTGTTTTATTTA
Found at i:16006550 original size:16 final size:16
Alignment explanation
Indices: 16006528--16006581 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
16006518 TTGATTTGCT
*
16006528 ATTACACCTCTATTCT
1 ATTACACCTCTATTCC
*
16006544 TTTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
16006560 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
16006576 AATACA
1 ATTACA
16006582 ACGAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:16012502 original size:25 final size:25
Alignment explanation
Indices: 16012473--16012527 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
16012463 TTAGTATAGT
* *
16012473 CTATCTATAGTAGTCTCAGTATATA
1 CTATCTATAGCAGTCTCAGGATATA
* *
16012498 TTATCTATAGCAGTTTCAGGATATA
1 CTATCTATAGCAGTCTCAGGATATA
16012523 CTATC
1 CTATC
16012528 AAAGATAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (25 bp):
CTATCTATAGCAGTCTCAGGATATA
Found at i:16012890 original size:18 final size:19
Alignment explanation
Indices: 16012857--16012901 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
16012847 TGGCGTTCGT
16012857 TTTCCAAA-CATTATTC-A
1 TTTCCAAATCATTATTCAA
*
16012874 TTTCCAAATCGTTATTCAA
1 TTTCCAAATCATTATTCAA
*
16012893 TTTCAAAAT
1 TTTCCAAAT
16012902 GTTTTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 9 0.38
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (19 bp):
TTTCCAAATCATTATTCAA
Found at i:16016969 original size:40 final size:40
Alignment explanation
Indices: 16016924--16017004 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
16016914 ATTTCAGACA
*
16016924 CTTAGCCATAAATTCGATAACCTCTCGCTTAAGACTTGGC
1 CTTAGCCATAAATTCGATAACCTCTCGCTTAAGACCTGGC
*
16016964 CTTAGCCATAAATTTGATAACCTCTCGCTTAAGACCTGGC
1 CTTAGCCATAAATTCGATAACCTCTCGCTTAAGACCTGGC
16017004 C
1 C
16017005 ACCAGTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (40 bp):
CTTAGCCATAAATTCGATAACCTCTCGCTTAAGACCTGGC
Found at i:16023057 original size:22 final size:23
Alignment explanation
Indices: 16023019--16023061 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16023009 CGTAAAATTA
16023019 AAAAATAAAAAATGAATCAATCC
1 AAAAATAAAAAATGAATCAATCC
*
16023042 AAAAATAATAAA-GAATCAAT
1 AAAAATAAAAAATGAATCAAT
16023062 TCATTCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.67, C:0.09, G:0.05, T:0.19
Consensus pattern (23 bp):
AAAAATAAAAAATGAATCAATCC
Found at i:16024736 original size:114 final size:114
Alignment explanation
Indices: 16024501--16025246 Score: 822
Period size: 114 Copynumber: 6.6 Consensus size: 114
16024491 TATTTGTAAG
* * * * ** * * *
16024501 CGCCGCAAAAAATGTTAGCCAAAATGCATCG-TTTGTTCCCGAGGTATATTAGACTTGGTGGCGT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTTG-TCTTGAGGTATATTAGAATTAGTGGCGG
* * * * * * * *
16024565 TTA-TGATAAACGCCGCTATAGTATATTATTAGTGGCG-TTTTTTAGTAAA
65 TTACGGAAAAACGCCGCTATAGCAGAGTATTAGAGGCGCTTTGTAAG-AAA
* * *
16024614 CGTCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCATGAGGTATATAAGAATTAGTGGCGGT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGGT
*
16024679 TACGGAAAAACGCCGCTA-AGGGAGAGTATTAGAGGCGCTTTGTAAGAAA
66 TACGGAAAAACGCCGCTATA-GCAGAGTATTAGAGGCGCTTTGTAAGAAA
* * * * * *
16024728 CGCCGCAAATTATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGAT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGGT
** * * * * *
16024793 TGTGGGAAAACGCCGCTATAGCACAGTATTAGCGGCGTTTTATACA-AAA
66 TACGGAAAAACGCCGCTATAGCAGAGTATTAGAGGCGCTTTGTA-AGAAA
* *
16024842 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCATGAGGTATATAAGAATTAGTGGCGGT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGGT
*
16024907 TACGGAAAAACGCCGCTA-AGGGAGAGTATTAGAGGCGCTTTGTAAGAAA
66 TACGGAAAAACGCCGCTATA-GCAGAGTATTAGAGGCGCTTTGTAAGAAA
* * * * * *
16024956 CGCCGCAAATTATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGAT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGGT
** * * * ** *
16025021 TGTGGGAAAACGCCGCTATAGCACAGTATTAGCGGCATTTTATACA-AAA
66 TACGGAAAAACGCCGCTATAGCAGAGTATTAGAGGCGCTTTGTA-AGAAA
* *
16025070 CGCTGCAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGTGGCGGT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGGT
* * ** *
16025135 TACGGAAAAAGGCCGCTAAAGCAGAGTATTAGAGATGCTTTGTAAGAAT
66 TACGGAAAAACGCCGCTATAGCAGAGTATTAGAGGCGCTTTGTAAGAAA
* * * * *
16025184 CGCCACAAAATATCTTAACCAAAACGCAGCATTTGGTCTTGATGTATATTAGAATTAGTGGCG
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATTAGAATTAGTGGCG
16025247 CTCATGTAAA
Statistics
Matches: 525, Mismatches: 97, Indels: 21
0.82 0.15 0.03
Matches are distributed among these distances:
113 55 0.10
114 460 0.88
115 10 0.02
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (114 bp):
CGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGGT
TACGGAAAAACGCCGCTATAGCAGAGTATTAGAGGCGCTTTGTAAGAAA
Found at i:16024853 original size:228 final size:228
Alignment explanation
Indices: 16024572--16025246 Score: 1161
Period size: 228 Copynumber: 3.0 Consensus size: 228
16024562 CGTTTATGAT
* * * * * ** *
16024572 AAACGCCGCTATAGTATATTATTAGTGGCGTTTTTTAGTAAACGTCGCAAAATATCTTAACCAAA
1 AAACGCCGCTATAGCACAGTATTAGCGGCGTTTTATACAAAACGCCGCAAAATATCTTAACCAAA
16024637 ACGCATCGTTTTGTCATGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAGGGA
66 ACGCATCGTTTTGTCATGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAGGGA
16024702 GAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAATTATCTTAACCAAAACGCAGCGTTTGGTCT
131 GAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAATTATCTTAACCAAAACGCAGCGTTTGGTCT
16024767 TAATGTATATTAGAATTAGTGGCGATTGTGGGA
196 TAATGTATATTAGAATTAGTGGCGATTGTGGGA
16024800 AAACGCCGCTATAGCACAGTATTAGCGGCGTTTTATACAAAACGCCGCAAAATATCTTAACCAAA
1 AAACGCCGCTATAGCACAGTATTAGCGGCGTTTTATACAAAACGCCGCAAAATATCTTAACCAAA
16024865 ACGCATCGTTTTGTCATGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAGGGA
66 ACGCATCGTTTTGTCATGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAGGGA
16024930 GAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAATTATCTTAACCAAAACGCAGCGTTTGGTCT
131 GAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAATTATCTTAACCAAAACGCAGCGTTTGGTCT
16024995 TAATGTATATTAGAATTAGTGGCGATTGTGGGA
196 TAATGTATATTAGAATTAGTGGCGATTGTGGGA
* *
16025028 AAACGCCGCTATAGCACAGTATTAGCGGCATTTTATACAAAACGCTGCAAAATATCTTAACCAAA
1 AAACGCCGCTATAGCACAGTATTAGCGGCGTTTTATACAAAACGCCGCAAAATATCTTAACCAAA
* * * *
16025093 ACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAAGGCCGCTAAAGCA
66 ACGCATCGTTTTGTCATGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAGGGA
** * * * *
16025158 GAGTATTAGAGATGCTTTGTAAGAATCGCCACAAAATATCTTAACCAAAACGCAGCATTTGGTCT
131 GAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAATTATCTTAACCAAAACGCAGCGTTTGGTCT
*
16025223 TGATGTATATTAGAATTAGTGGCG
196 TAATGTATATTAGAATTAGTGGCG
16025247 CTCATGTAAA
Statistics
Matches: 426, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
228 426 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (228 bp):
AAACGCCGCTATAGCACAGTATTAGCGGCGTTTTATACAAAACGCCGCAAAATATCTTAACCAAA
ACGCATCGTTTTGTCATGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAGGGA
GAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAATTATCTTAACCAAAACGCAGCGTTTGGTCT
TAATGTATATTAGAATTAGTGGCGATTGTGGGA
Found at i:16025822 original size:12 final size:12
Alignment explanation
Indices: 16025805--16025831 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16025795 AAATTTTTTA
16025805 AATAATATTAAT
1 AATAATATTAAT
16025817 AATAATATTAAT
1 AATAATATTAAT
16025829 AAT
1 AAT
16025832 GTCATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:16027422 original size:45 final size:45
Alignment explanation
Indices: 16027330--16027433 Score: 115
Period size: 45 Copynumber: 2.3 Consensus size: 45
16027320 TTTGAAAACT
* *
16027330 ATGTTAAGCTAT-GTTAAACATTTTGAATGTTAAGCATAGTTTTGA
1 ATGTTAAGCTATGGTTAAACATTTTGAATGTTAA-CACAGTTTCGA
* *
16027375 ATGTTTAGCTATGGTTAATCTATTTTTGAATGTTAA-ACA-TTTCGA
1 ATGTTAAGCTATGGTTAAAC-A-TTTTGAATGTTAACACAGTTTCGA
16027420 ATGTTAAGCATATG
1 ATGTTAAGC-TATG
16027434 AGTTTCTGCA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
45 24 0.48
46 12 0.24
47 1 0.02
48 13 0.26
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (45 bp):
ATGTTAAGCTATGGTTAAACATTTTGAATGTTAACACAGTTTCGA
Found at i:16028539 original size:25 final size:24
Alignment explanation
Indices: 16028455--16028539 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 24
16028445 ACTTTTTTAG
16028455 ATTTTCATAGTACATAACTTACATA
1 ATTTTCA-AGTACATAACTTACATA
* * * * *
16028480 ATATTGAACTTACTTAACTTTAATAATA
1 ATTTTCAA-GTACATAAC-TT-A-CATA
16028508 ATTTTCACAGTACATAACTTACATA
1 ATTTTCA-AGTACATAACTTACATA
16028533 ATTTTCA
1 ATTTTCA
16028540 TAACCTACAT
Statistics
Matches: 45, Mismatches: 10, Indels: 10
0.69 0.15 0.15
Matches are distributed among these distances:
24 1 0.02
25 22 0.49
26 3 0.07
27 3 0.07
28 15 0.33
29 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.41
Consensus pattern (24 bp):
ATTTTCAAGTACATAACTTACATA
Found at i:16029710 original size:9 final size:9
Alignment explanation
Indices: 16029696--16029782 Score: 65
Period size: 9 Copynumber: 9.8 Consensus size: 9
16029686 NNNTACATAA
16029696 TACATAACT
1 TACATAACT
*
16029705 TACATAATACA
1 TACAT-A-ACT
16029716 TA-ATAACT
1 TACATAACT
16029724 TAC--AACT
1 TACATAACT
*
16029731 TACATAACA
1 TACATAACT
16029740 TACATTAA-T
1 TACA-TAACT
***
16029749 TTGGTAACT
1 TACATAACT
*
16029758 TACGTAACT
1 TACATAACT
16029767 TACATAACT
1 TACATAACT
16029776 TACATAA
1 TACATAA
16029783 TACATAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
7 7 0.11
8 7 0.11
9 37 0.61
10 6 0.10
11 4 0.07
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.33
Consensus pattern (9 bp):
TACATAACT
Found at i:16029710 original size:16 final size:16
Alignment explanation
Indices: 16029689--16029789 Score: 69
Period size: 16 Copynumber: 5.9 Consensus size: 16
16029679 NNNNNNNNNN
16029689 TACATAATACATAACT
1 TACATAATACATAACT
16029705 TACATAATACATAATAACT
1 TACATAATAC---ATAACT
* *
16029724 TACA-ACTTACATAACA
1 TACATA-ATACATAACT
***
16029740 TACATTAATTTGGTAACT
1 TACA-TAA-TACATAACT
*
16029758 TACGTAACTTACATAACT
1 TACATAA--TACATAACT
16029776 TACATAATACATAA
1 TACATAATACATAA
16029790 AAATATACCA
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
16 26 0.40
17 3 0.05
18 23 0.35
19 13 0.20
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.33
Consensus pattern (16 bp):
TACATAATACATAACT
Found at i:16036747 original size:21 final size:21
Alignment explanation
Indices: 16036711--16036763 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
16036701 GCAGATGCGG
* * * *
16036711 CAGCGAGGGAAGCAGATGCTA
1 CAGCGAGAGAAACAGAGGCCA
*
16036732 CAGTGAGAGAAACAGAGGCCA
1 CAGCGAGAGAAACAGAGGCCA
16036753 CAGCGAGAGAA
1 CAGCGAGAGAA
16036764 GCAGCGATAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.19, G:0.36, T:0.06
Consensus pattern (21 bp):
CAGCGAGAGAAACAGAGGCCA
Found at i:16037296 original size:22 final size:22
Alignment explanation
Indices: 16037253--16037296 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16037243 TAGTGGCGTT
* **
16037253 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAACCTA
16037275 AAAAAACGCCGCTAAAAACCTA
1 AAAAAACGCCGCTAAAAACCTA
16037297 TTCTGGTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:16041142 original size:19 final size:19
Alignment explanation
Indices: 16041115--16041153 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16041105 GGTCTAGAGC
* *
16041115 TGGTGTCATTTTTTTCTGT
1 TGGTATCATTTTCTTCTGT
16041134 TGGTATCATTTTCTTCTGT
1 TGGTATCATTTTCTTCTGT
16041153 T
1 T
16041154 AGGGCTTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.08, C:0.13, G:0.18, T:0.62
Consensus pattern (19 bp):
TGGTATCATTTTCTTCTGT
Found at i:16042555 original size:9 final size:9
Alignment explanation
Indices: 16042539--16042573 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
16042529 TTAATTCTTA
16042539 AATTAATTT
1 AATTAATTT
*
16042548 AGTTAATTT
1 AATTAATTT
*
16042557 AATTAATTA
1 AATTAATTT
16042566 AATTAATT
1 AATTAATT
16042574 GATTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:16042566 original size:13 final size:13
Alignment explanation
Indices: 16042536--16042581 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
16042526 TATTTAATTC
*
16042536 TTAAATTAATTTAG
1 TTAAATTAA-TTAA
*
16042550 TTAATTTAATTAA
1 TTAAATTAATTAA
*
16042563 TTAAATTAATTGA
1 TTAAATTAATTAA
16042576 TTAAAT
1 TTAAAT
16042582 AAATAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 20 0.71
14 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (13 bp):
TTAAATTAATTAA
Found at i:16045324 original size:28 final size:28
Alignment explanation
Indices: 16045293--16045392 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 28
16045283 TCATCCAGAC
*
16045293 GGACTTCCACATTTAAGATTGTTCTCAA
1 GGACTTCCACATTTAAGATCGTTCTCAA
* * *
16045321 GGACTTCTACAGTTCAGATCGTTCTGGC-A
1 GGACTTCCACATTTAAGATCGTTCT--CAA
* * *
16045350 -GACTTCCATATTTAAGATCGTCCTAAA
1 GGACTTCCACATTTAAGATCGTTCTCAA
16045377 GGACTTCCACATTTAA
1 GGACTTCCACATTTAA
16045393 AATTGTCCTG
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
27 1 0.02
28 54 0.95
29 1 0.02
30 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (28 bp):
GGACTTCCACATTTAAGATCGTTCTCAA
Found at i:16047930 original size:37 final size:37
Alignment explanation
Indices: 16047879--16047963 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
16047869 GATGCACCAA
* *
16047879 GAGGGAAGCACAAGAAGAAAAATAATCGGTAAAAGAG
1 GAGGAAAGAACAAGAAGAAAAATAATCGGTAAAAGAG
16047916 GAGGAAAGAACAAGAAGAAAAATAATCGGTAAAAGAG
1 GAGGAAAGAACAAGAAGAAAAATAATCGGTAAAAGAG
16047953 GAGGAAAGAAC
1 GAGGAAAGAAC
16047964 GTCTGTCATG
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:0.56, C:0.07, G:0.29, T:0.07
Consensus pattern (37 bp):
GAGGAAAGAACAAGAAGAAAAATAATCGGTAAAAGAG
Found at i:16050796 original size:20 final size:19
Alignment explanation
Indices: 16050769--16050810 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
16050759 CATTTCAAAT
16050769 TTTCTTACTTT-CATTTGTA
1 TTTCTTACTTTCCATTT-TA
16050788 TTTCATTACTTTCCATTTTA
1 TTTC-TTACTTTCCATTTTA
16050808 TTT
1 TTT
16050811 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.17, C:0.17, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTCTTACTTTCCATTTTA
Found at i:16069876 original size:15 final size:15
Alignment explanation
Indices: 16069856--16069887 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16069846 AAAAACATTC
16069856 ATAAATGAGAAATGT
1 ATAAATGAGAAATGT
*
16069871 ATAAATGCGAAATGT
1 ATAAATGAGAAATGT
16069886 AT
1 AT
16069888 TGAGAAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.19, T:0.28
Consensus pattern (15 bp):
ATAAATGAGAAATGT
Found at i:16070126 original size:17 final size:18
Alignment explanation
Indices: 16070094--16070127 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16070084 ACGATATGCC
*
16070094 AAACTATTTTTGTGCTTG
1 AAACTATTTTTATGCTTG
16070112 AAACTA-TTTTATGCTT
1 AAACTATTTTTATGCTT
16070128 ACTATTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (18 bp):
AAACTATTTTTATGCTTG
Found at i:16071497 original size:23 final size:22
Alignment explanation
Indices: 16071467--16071519 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 22
16071457 TATGTACAAA
16071467 TAGTATGAAAGCCCTTCTATGGG
1 TAGTATGAAAGCCCTTCTA-GGG
*
16071490 TAGTATGAAAGCCCTTTTAGGG
1 TAGTATGAAAGCCCTTCTAGGG
*
16071512 TAGAATGA
1 TAGTATGA
16071520 TACTTTGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (22 bp):
TAGTATGAAAGCCCTTCTAGGG
Found at i:16079025 original size:44 final size:44
Alignment explanation
Indices: 16078977--16079295 Score: 132
Period size: 44 Copynumber: 7.2 Consensus size: 44
16078967 GTAACCAGTG
*
16078977 ATCTTATCTCCCTAAGCAGTAGTGGA-ACAGATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGA-AGATCGAAGACGGCAA
* * * * **
16079021 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTG-AGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGAAGA-TCGAAGACGGCAA
** * ** * * ** * *
16079065 GCCTTGTCTCCCTAAGCAGTAGCAGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACGGCAA
16079109 ATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACGGCAA
* * ** * **
16079153 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGAAGATCGAAGACGGCAA
** * * ** * * **** *
16079197 GCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGATTATAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACGGCAA
* *
16079241 ATCTTATCTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTA--TCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACGGCAA
16079287 ATCTTATCT
1 ATCTTATCT
16079296 TTCCAAGATA
Statistics
Matches: 188, Mismatches: 70, Indels: 34
0.64 0.24 0.12
Matches are distributed among these distances:
42 8 0.04
43 15 0.08
44 116 0.62
45 12 0.06
46 37 0.20
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACGGCAA
Found at i:16079215 original size:132 final size:132
Alignment explanation
Indices: 16078976--16079745 Score: 1288
Period size: 132 Copynumber: 5.8 Consensus size: 132
16078966 GGTAACCAGT
* * *
16078976 GATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
* * * * *
16079041 TGGGAAGCAGATTTGAGCCACCAAGCCTTGTCTCCCTAAGCAGTAGCAGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGATTA
16079106 TA
131 TA
* *
16079108 GATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
16079173 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGATTA
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGATTA
16079238 TA
131 TA
16079240 GATCTTATCTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGAT
1 GATCTTA--TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGAT
*
16079305 AATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGAT
64 AGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGAT
16079370 TATA
129 TATA
* * * *
16079374 GATCTTATCTCCCTAAGGAGTAGTGGGGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
*
16079439 TGGGAAGCAGATTTAAGCCACTAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGATTA
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGATTA
16079504 TA
131 TA
* *
16079506 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGAGCGAAGACTGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
* *
16079571 TGGGAAGCATATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTA
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGATTA
16079636 TA
131 TA
* * *
16079638 TATCTTATCTCCCTAAGCAGTAGTAGAGCAGAGCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
* * *
16079703 TGGGAAGCAGATTAAAGCCACCAAGCCTTGTCTCTCTGGGCAG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
16079746 CAACAGAGCA
Statistics
Matches: 605, Mismatches: 31, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
132 476 0.79
134 129 0.21
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGATTA
TA
Found at i:16079457 original size:266 final size:264
Alignment explanation
Indices: 16078976--16079745 Score: 1297
Period size: 266 Copynumber: 2.9 Consensus size: 264
16078966 GGTAACCAGT
* * *
16078976 GATCTTATCTCCCTAAGCAGTAGTGGAACAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
* * * *
16079041 TGGGAAGCAGATTTGAGCCACCAAGCCTTGTCTCCCTAAGCAGTAGCAGAGAAGGTTGAAGATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTA
* *
16079106 TAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACGGCAAATCTTATCTTTCCAAGAT
131 TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGAT
16079171 AGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGAT
196 AGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGAT
16079236 TATA
261 TATA
16079240 GATCTTATCTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGAT
1 GATCTTA--TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGAT
* *
16079305 AATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGAT
64 AGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGAT
* * *
16079370 TATAGATCTTATCTCCCTAAGGAGTAGTGGGGCAGATCGAAGACGGTGAATCTTATCTTTCCAAG
129 TATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAG
* *
16079435 ATAATGGGAAGCAGATTTAAGCCACTAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAG
194 ATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAG
16079500 ATTATA
259 ATTATA
* *
16079506 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGAGCGAAGACTGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
*
16079571 TGGGAAGCATATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTA
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTA
* * *
16079636 TATATCTTATCTCCCTAAGCAGTAGTAGAGCAGAGCGAAGACGGCGAATCTTATCTTTCCAAGAT
131 TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGAT
* * *
16079701 AGTGGGAAGCAGATTAAAGCCACCAAGCCTTGTCTCTCTGGGCAG
196 AGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAG
16079746 CAACAGAGCA
Statistics
Matches: 472, Mismatches: 32, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
264 224 0.47
266 248 0.53
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (264 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTA
TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGAT
AGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAACGGAGAAGGTTGAAGAT
TATA
Found at i:16081190 original size:20 final size:21
Alignment explanation
Indices: 16081158--16081206 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
16081148 ATTCTTTTTC
* *
16081158 ATATTTTTAACATATGTATAT
1 ATATTTTTAACATACGCATAT
16081179 ATATTTTT-ACATACGCATAT
1 ATATTTTTAACATACGCATAT
*
16081199 TTATTTTT
1 ATATTTTT
16081207 GTAGTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (21 bp):
ATATTTTTAACATACGCATAT
Found at i:16081266 original size:25 final size:27
Alignment explanation
Indices: 16081238--16081297 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
16081228 TATTTTTTTT
16081238 CTATATGTAAT-TATTT-TTTTA-TAAC
1 CTATATGTAATATATTTATTTTAGT-AC
16081263 CTATATGT-ATATATTTATTTTAGTAC
1 CTATATGTAATATATTTATTTTAGTAC
*
16081289 ATATATGTA
1 CTATATGTA
16081298 TGTACATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 2 0.07
25 13 0.43
26 14 0.47
27 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (27 bp):
CTATATGTAATATATTTATTTTAGTAC
Found at i:16084102 original size:47 final size:47
Alignment explanation
Indices: 16084033--16084128 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
16084023 TTTTCGAACA
16084033 TAGTAACAATATCTTAAATATTTGTGTATAGCCCTATCAGTGCCATC
1 TAGTAACAATATCTTAAATATTTGTGTATAGCCCTATCAGTGCCATC
* *
16084080 TAGTAACAATATCTTAAATATTTGTGTATAGCCCTATCGGTGTCATC
1 TAGTAACAATATCTTAAATATTTGTGTATAGCCCTATCAGTGCCATC
16084127 TA
1 TA
16084129 TGTATAGGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (47 bp):
TAGTAACAATATCTTAAATATTTGTGTATAGCCCTATCAGTGCCATC
Found at i:16089403 original size:15 final size:15
Alignment explanation
Indices: 16089383--16089412 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16089373 TAACTAAATG
*
16089383 ATTGTTTTAGGCTTT
1 ATTGTTTTAGACTTT
16089398 ATTGTTTTAGACTTT
1 ATTGTTTTAGACTTT
16089413 GGAGATCCTC
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:0.17, C:0.07, G:0.17, T:0.60
Consensus pattern (15 bp):
ATTGTTTTAGACTTT
Found at i:16095675 original size:12 final size:12
Alignment explanation
Indices: 16095660--16095712 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
16095650 ATTTTTAGTT
16095660 TTCTTTTTTTTC
1 TTCTTTTTTTTC
* **
16095672 TTCTTTGTCCTC
1 TTCTTTTTTTTC
*
16095684 TTCTTTTTTTTG
1 TTCTTTTTTTTC
16095696 TTCTTTTTCTTT-
1 TTCTTTTT-TTTC
16095708 TTCTT
1 TTCTT
16095713 CTAATTTTCG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
12 30 0.91
13 3 0.09
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.77
Consensus pattern (12 bp):
TTCTTTTTTTTC
Found at i:16101788 original size:102 final size:101
Alignment explanation
Indices: 16101612--16101955 Score: 374
Period size: 102 Copynumber: 3.4 Consensus size: 101
16101602 TATCGATGAA
* * * * *
16101612 CACGTGTATAGTACTGTTTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGCAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTA-
16101677 CT-AGTGAAGGCTACAATGTGTACCGAGAAGCTTTAGT
65 CTAAGTGAAGGCTACAATGTGTACCGA-AAGCTTTAGT
* *
16101714 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* * * *
16101779 TAAGTGAAGGTTACTATATGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCG-AAAGCTTTAGT
* * * * ** *
16101816 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAA-ACTTGATCATGTGTGTAGTT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTA
* * * * *
16101879 CTATGTGAATGCTACTAA-GTGAACCGTAAAACTTGA-T
65 CTAAGTGAAGGCTAC-AATGTGTACCG-AAAGCTTTAGT
* *
16101916 CACGTGTGTAGTACCATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
16101956 ATGATAAAAG
Statistics
Matches: 203, Mismatches: 34, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
100 36 0.18
101 43 0.21
102 123 0.61
103 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAAAGCTTTAGT
Found at i:16101883 original size:50 final size:50
Alignment explanation
Indices: 16101612--16101945 Score: 280
Period size: 51 Copynumber: 6.6 Consensus size: 50
16101602 TATCGATGAA
* * * * * * * *
16101612 CACGTGTATAGTACTGTTTGAAGGCTACTACGTGTATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAA-ACTTGAT
* * * * * *
16101663 CACATGTGTAGCACCTA-GTGAAGGCTACAATGTGTACCG-AGAAGCTTTAGT
1 CACGTGTGTAGTA-CTATGTGAAGGCTACTATGTGAACCGTA-AAACTTGA-T
* ** *** *
16101714 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATTGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAAACTTGAT
* * * * * *
16101765 CACATGTGTAGTACTAAGTGAAGGTTACTATATGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAA-C-TTGAT
16101816 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
* * * *
16101866 CATGTGTGTAGTTCTATGTGAATGCTACTAAGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
*
16101916 CACGTGTGTAGTACCATGTGAAGGCTACTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTA
16101946 CGTGTATCGA
Statistics
Matches: 224, Mismatches: 49, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
49 4 0.02
50 82 0.37
51 128 0.57
52 9 0.04
53 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
Found at i:16104069 original size:30 final size:31
Alignment explanation
Indices: 16104035--16104093 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
16104025 TTCGAGCTTG
**
16104035 GGGACAAAATTGTAATTATG-CAAAAGTTTA
1 GGGACAAAATCATAATTATGACAAAAGTTTA
*
16104065 GGGACAAAATCATAATTTTGACAAAAGTT
1 GGGACAAAATCATAATTATGACAAAAGTT
16104094 GAGTCGAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (31 bp):
GGGACAAAATCATAATTATGACAAAAGTTTA
Found at i:16104738 original size:102 final size:100
Alignment explanation
Indices: 16104562--16104905 Score: 415
Period size: 102 Copynumber: 3.4 Consensus size: 100
16104552 TATCGATGAA
* * *
16104562 CACGTGTGTAGTACTGTGCGAAGGCTACTACGTGTATCGATAAATACTGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-TGGTCACATGTGTAGTAC
* *
16104627 CAAGTGAAGGCTACAATGTGTACCAAGAAGCTTTGGT
65 TAAGTGAAGGCTACTATGTGTACCAA-AAGCTTTGGT
*
16104664 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAAT-ATGGTCACATGTGTAGTAC
*
16104729 TAAGTGAAGGCTAGTATGTGTACCGAAAAGCTTTGGT
65 TAAGTGAAGGCTACTATGTGTACC-AAAAGCTTTGGT
* * * * *
16104766 CACATGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA--TGGTCACATGTGTAGTA
** * * * * * *
16104829 CTACCTAAAGGCTACTACGTGAACTATAAAAC-TTGAT
64 CTAAGTGAAGGCTACTATGTGTACCA-AAAGCTTTGGT
*
16104866 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
16104906 ATGATAAAAG
Statistics
Matches: 212, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
99 1 0.00
100 40 0.19
101 41 0.19
102 127 0.60
103 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (100 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATATGGTCACATGTGTAGTACT
AAGTGAAGGCTACTATGTGTACCAAAAGCTTTGGT
Found at i:16104840 original size:50 final size:50
Alignment explanation
Indices: 16104562--16104899 Score: 297
Period size: 51 Copynumber: 6.7 Consensus size: 50
16104552 TATCGATGAA
* * * * *
16104562 CACGTGTGTAGTACTGTGCGAAGGCTACTACGTGTATCGATAAATAC-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
* * * * * * *
16104613 CACATGTGTAGTACCAAGTGAAGGCTACAATGTGTACC--AAGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAA-AA-C-TTGAT
* * *** *
16104664 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
* * * * * *
16104715 CACATGTGTAGTACTAAGTGAAGGCTAGTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGAT
* *
16104766 CACATGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
** * **
16104816 CACGTGTGTAGTACTACCTAAAGGCTACTACGTGAACTATAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
16104866 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
16104900 TATCGAATGA
Statistics
Matches: 234, Mismatches: 43, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
48 3 0.01
49 5 0.02
50 78 0.33
51 141 0.60
52 4 0.02
53 1 0.00
54 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
Found at i:16107438 original size:31 final size:30
Alignment explanation
Indices: 16107396--16107649 Score: 108
Period size: 29 Copynumber: 8.6 Consensus size: 30
16107386 TGACACATCT
* * * *
16107396 CTTTTCGTAATTCGATGGCTGAAGTTATCC
1 CTTTTCATAATTCGATAGCCGAAGATATCC
* *
16107426 CTTTTTCATAATTTGATAGCCGAAGCTATCC
1 C-TTTTCATAATTCGATAGCCGAAGATATCC
* * *
16107457 CATTTCATAGA-TCGATAGCCAAAGACATCC
1 CTTTTCATA-ATTCGATAGCCGAAGATATCC
* * ** * **
16107487 CTTTTCATAGTTCGATGGTTGTCA-CCATCC
1 CTTTTCATAATTCGATAGCCG-AAGATATCC
** * * ** *
16107517 CTTTTCATTGTT-GATGGTC-ATCACCATCC
1 CTTTTCATAATTCGATAGCCGAAGA-TATCC
* * *
16107546 CTTTTCATAATT-GATAGCTGAAGCTATTC
1 CTTTTCATAATTCGATAGCCGAAGATATCC
* *
16107575 CTTTTCATAA-TCGATAGCCAAAGTTATCC
1 CTTTTCATAATTCGATAGCCGAAGATATCC
* * * * *
16107604 CCTTCCGT-ATTCGATAGCCGAAGCTCTCC
1 CTTTTCATAATTCGATAGCCGAAGATATCC
**
16107633 CTTTTCATTCTTCGATA
1 CTTTTCATAATTCGATA
16107650 ATCACCATTA
Statistics
Matches: 167, Mismatches: 47, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
28 2 0.01
29 77 0.46
30 61 0.37
31 27 0.16
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (30 bp):
CTTTTCATAATTCGATAGCCGAAGATATCC
Found at i:16107465 original size:30 final size:30
Alignment explanation
Indices: 16107440--16107502 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
16107430 TTCATAATTT
*
16107440 GATAGCCGAAG-CTATCCCATTTCATAGATC
1 GATAGCCAAAGAC-ATCCCATTTCATAGATC
* *
16107470 GATAGCCAAAGACATCCCTTTTCATAGTTC
1 GATAGCCAAAGACATCCCATTTCATAGATC
16107500 GAT
1 GAT
16107503 GGTTGTCACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (30 bp):
GATAGCCAAAGACATCCCATTTCATAGATC
Found at i:16107559 original size:29 final size:29
Alignment explanation
Indices: 16107482--16107560 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
16107472 TAGCCAAAGA
**
16107482 CATCCCTTTTCATAGTTCGATGGTTGTCAC
1 CATCCCTTTTCATAGTT-GATGGTCATCAC
*
16107512 CATCCCTTTTCATTGTTGATGGTCATCAC
1 CATCCCTTTTCATAGTTGATGGTCATCAC
*
16107541 CATCCCTTTTCATAATTGAT
1 CATCCCTTTTCATAGTTGAT
16107561 AGCTGAAGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 28 0.64
30 16 0.36
ACGTcount: A:0.19, C:0.27, G:0.13, T:0.42
Consensus pattern (29 bp):
CATCCCTTTTCATAGTTGATGGTCATCAC
Found at i:16107604 original size:58 final size:59
Alignment explanation
Indices: 16107417--16107640 Score: 168
Period size: 58 Copynumber: 3.8 Consensus size: 59
16107407 TCGATGGCTG
* * *
16107417 AAGTTATCCCTTTTTCATAATTTGATAGCCGAAGCTATCCCATTTCATAGATCGATAGCCA
1 AAGTCATCCC-TTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATA-ATCGATAGCCA
* * * ** * * ** * * *
16107478 AAGACATCCCTTTTCATAGTTCGATGGTTGTCA-CCATCCCTTTTCATTGTTGATGGTCA
1 AAGTCATCCCTTTTCATAATTCGATAGCCG-AAGCTATCCCTTTTCATAATCGATAGCCA
* * * *
16107537 TCA-CCATCCCTTTTCATAATT-GATAGCTGAAGCTATTCCTTTTCATAATCGATAGCCA
1 -AAGTCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATCGATAGCCA
* * * * *
16107595 AAGTTATCCCCTTCCGT-ATTCGATAGCCGAAGCTCTCCCTTTTCAT
1 AAGTCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCAT
16107641 TCTTCGATAA
Statistics
Matches: 121, Mismatches: 37, Indels: 13
0.71 0.22 0.08
Matches are distributed among these distances:
57 5 0.04
58 56 0.46
59 23 0.19
60 28 0.23
61 9 0.07
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (59 bp):
AAGTCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAATCGATAGCCA
Found at i:16109034 original size:3 final size:3
Alignment explanation
Indices: 16108991--16109024 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
16108981 AAGGATTCTT
*
16108991 ATG ATG ATG ATG ATG ATG ATG ATA ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
16109025 ACAATGATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:16115849 original size:17 final size:17
Alignment explanation
Indices: 16115810--16115849 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
16115800 GGAAGGGAAT
*
16115810 GGAAGAGAGAAAAGCTAG
1 GGAA-AGAGAAAAGCAAG
*
16115828 TGAAAGAGAAAAGCAAG
1 GGAAAGAGAAAAGCAAG
16115845 GGAAA
1 GGAAA
16115850 TGAATGGTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.55, C:0.05, G:0.35, T:0.05
Consensus pattern (17 bp):
GGAAAGAGAAAAGCAAG
Found at i:16117808 original size:30 final size:30
Alignment explanation
Indices: 16117772--16117873 Score: 204
Period size: 30 Copynumber: 3.4 Consensus size: 30
16117762 CATAGATATC
16117772 ATTCCTACCAAGTGTGACAATACTAGTGTT
1 ATTCCTACCAAGTGTGACAATACTAGTGTT
16117802 ATTCCTACCAAGTGTGACAATACTAGTGTT
1 ATTCCTACCAAGTGTGACAATACTAGTGTT
16117832 ATTCCTACCAAGTGTGACAATACTAGTGTT
1 ATTCCTACCAAGTGTGACAATACTAGTGTT
16117862 ATTCCTACCAAG
1 ATTCCTACCAAG
16117874 AGTAAACATT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 72 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (30 bp):
ATTCCTACCAAGTGTGACAATACTAGTGTT
Found at i:16123791 original size:45 final size:45
Alignment explanation
Indices: 16123727--16123820 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
16123717 AACTGATACT
* * *
16123727 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
*
16123772 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
16123817 CGGT
1 CGGT
16123821 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:16123902 original size:51 final size:51
Alignment explanation
Indices: 16123826--16124004 Score: 200
Period size: 51 Copynumber: 3.5 Consensus size: 51
16123816 TCGGTTCACA
* *
16123826 TAGTAGCCTGCACGTAGTACTACACATGTGACCATTTCCATC-CGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTT-CTTCTCGATACACG
* *** *
16123877 TAGTAGCCTGCACATAGTACTACACATGTGATCAAAGCTTCTCGATACACA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTTCTTCTCGATACACG
* * * * *
16123928 TAGTAGCCTTCACTTAGTACTACACATTTGACCATTAT-TTCTCGGTACATG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATT-TCTTCTCGATACACG
* *
16123979 TAGTAGCCTTCACACAGTACTACACA
1 TAGTAGCCTGCACATAGTACTACACA
16124005 CGTGTTCATC
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
50 3 0.03
51 104 0.97
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATTTCTTCTCGATACACG
Found at i:16126860 original size:42 final size:42
Alignment explanation
Indices: 16126780--16126861 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
16126770 CGTTTTCTCT
* * **
16126780 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACGATGGTCTTACACATATGCACATATTG
*
16126822 ATGCCATAGCCCAGCGATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACGATGGTCTTACACA-TATGCACATAT
16126862 CACACCGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATAGCCCAACGATGGTCTTACACATATGCACATATTG
Found at i:16128858 original size:18 final size:18
Alignment explanation
Indices: 16128835--16128871 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16128825 TTCATGGCTA
16128835 TTTTGAATAGATGTGATG
1 TTTTGAATAGATGTGATG
16128853 TTTTGAATAGATGTGATG
1 TTTTGAATAGATGTGATG
16128871 T
1 T
16128872 GGTGTTATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (18 bp):
TTTTGAATAGATGTGATG
Found at i:16132302 original size:30 final size:30
Alignment explanation
Indices: 16132268--16132329 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
16132258 AGTTTGAATG
16132268 ATCATTGCATTCTTTGCGGCTGCTGTTTTC
1 ATCATTGCATTCTTTGCGGCTGCTGTTTTC
16132298 ATCATTGCATTCTTTGCGGCTGCTGTTTTC
1 ATCATTGCATTCTTTGCGGCTGCTGTTTTC
16132328 AT
1 AT
16132330 GACATGCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (30 bp):
ATCATTGCATTCTTTGCGGCTGCTGTTTTC
Found at i:16136785 original size:110 final size:110
Alignment explanation
Indices: 16136533--16136856 Score: 449
Period size: 110 Copynumber: 3.0 Consensus size: 110
16136523 TGGATTAAAA
* ** * *
16136533 TTTAAGAGGATATTTAATTGTTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCATGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCATGT
* * *
16136596 TTTCTCGAATTTCCAAAC-GCAAAACAATGCCTTATTTTAAAATT
66 TTTCTCGAATTTCCAAACGGTAAAACATTGCCTTATTTTGAAATT
* * * * *
16136640 TTTAAAAGGATATTAAGCCATTTAGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCATGT
*
16136705 TTTCTCGAATTTCTAAACGGTAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGGTAAAACATTGCCTTATTTTGAAATT
* *
16136750 TTTGAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCATGT
* * *
16136815 TTTCTCGAATTTCCAAAAGCT-AAACATTGCCTTATTTAGAAA
66 TTTCTCGAATTTCCAAACGGTAAAACATTGCCTTATTTTGAAA
16136857 AATTCTCCTT
Statistics
Matches: 189, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
107 25 0.13
109 65 0.34
110 99 0.52
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (110 bp):
TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACCTTAGGGCATGT
TTTCTCGAATTTCCAAACGGTAAAACATTGCCTTATTTTGAAATT
Found at i:16140411 original size:17 final size:17
Alignment explanation
Indices: 16140391--16140423 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16140381 TAGAATTGGG
16140391 TTGAGAAAATAATTTAA
1 TTGAGAAAATAATTTAA
*
16140408 TTGAGAAATTAATTTA
1 TTGAGAAAATAATTTA
16140424 GTTAATCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATAATTTAA
Found at i:16140961 original size:15 final size:15
Alignment explanation
Indices: 16140941--16140975 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
16140931 TTAATTGATG
16140941 ATTAAGGTTTAA-TTA
1 ATTAA-GTTTAAGTTA
16140956 ATTAAGTTTAAGTTA
1 ATTAAGTTTAAGTTA
16140971 ATTAA
1 ATTAA
16140976 TTAAGTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (15 bp):
ATTAAGTTTAAGTTA
Found at i:16140973 original size:19 final size:19
Alignment explanation
Indices: 16140949--16140985 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16140939 TGATTAAGGT
16140949 TTAATTAATTAAGTTTAAG
1 TTAATTAATTAAGTTTAAG
16140968 TTAATTAATTAAGTTTAA
1 TTAATTAATTAAGTTTAA
16140986 TAATAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (19 bp):
TTAATTAATTAAGTTTAAG
Found at i:16143934 original size:51 final size:49
Alignment explanation
Indices: 16143772--16143955 Score: 165
Period size: 51 Copynumber: 3.7 Consensus size: 49
16143762 TATCATTCGA
* * * * * *
16143772 TACACGTAGTAGCCTACACATTGTACTACACACGTGATCAAACTTTTCGG
1 TACACATAGTAGCCTGCACATAGTACTACACACATGATC-AACTATCCGG
* * * *
16143822 TTCACGTAGTAGCCTGCACATAGTACTACACACATGACCATTAATATCC--
1 TACACATAGTAGCCTGCACATAGTACTACACACATGATCA--ACTATCCGG
*
16143871 AACACATGTAGTAGCCTGCACATAGTACTACACACATGATCGAAGCTATCCGG
1 TACACA--TAGTAGCCTGCACATAGTACTACACACATGATC-AA-CTATCCGG
* * *
16143924 TACGCATAGTAGTCTGTACATAGTACTACACA
1 TACACATAGTAGCCTGCACATAGTACTACACA
16143956 TGCGACCTTT
Statistics
Matches: 109, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
49 4 0.04
50 35 0.32
51 65 0.60
52 1 0.01
53 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (49 bp):
TACACATAGTAGCCTGCACATAGTACTACACACATGATCAACTATCCGG
Found at i:16145205 original size:19 final size:19
Alignment explanation
Indices: 16145177--16145302 Score: 101
Period size: 19 Copynumber: 6.6 Consensus size: 19
16145167 CTTATGCGCC
*
16145177 AGGATGCACTTTGTGTGAT
1 AGGATGCACTTTGTGTGCT
* * *
16145196 AGGATTCACTTCGTGTGCC
1 AGGATGCACTTTGTGTGCT
* *
16145215 AGGATGCGCTTTGTG-GGT
1 AGGATGCACTTTGTGTGCT
*
16145233 CAGTATGCACTTTGTGTGCT
1 -AGGATGCACTTTGTGTGCT
* ** *
16145253 AGGATGCATTTTGTGCCCC
1 AGGATGCACTTTGTGTGCT
* * *
16145272 AGGATGCGCTCTGTGCGCT
1 AGGATGCACTTTGTGTGCT
*
16145291 AGTATGCACTTT
1 AGGATGCACTTT
16145303 AAGTGCCAGT
Statistics
Matches: 80, Mismatches: 25, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
18 1 0.01
19 77 0.96
20 2 0.03
ACGTcount: A:0.16, C:0.20, G:0.30, T:0.34
Consensus pattern (19 bp):
AGGATGCACTTTGTGTGCT
Found at i:16145244 original size:57 final size:57
Alignment explanation
Indices: 16145162--16145302 Score: 160
Period size: 57 Copynumber: 2.5 Consensus size: 57
16145152 GTACGGGTTT
* * * * **
16145162 ATGCGCT-TATGCGCCAGGATGCACTTTGTGTGATAGGATTCACTTCGTGTGCCAGG
1 ATGCGCTCTGTGCGCTAGTATGCACTTTGTGTGATAGGATGCACTTCGTGCCCCAGG
* * * * *
16145218 ATGCGCTTTGTG-GGTCAGTATGCACTTTGTGTGCTAGGATGCATTTTGTGCCCCAGG
1 ATGCGCTCTGTGCGCT-AGTATGCACTTTGTGTGATAGGATGCACTTCGTGCCCCAGG
16145275 ATGCGCTCTGTGCGCTAGTATGCACTTT
1 ATGCGCTCTGTGCGCTAGTATGCACTTT
16145303 AAGTGCCAGT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
56 8 0.11
57 60 0.86
58 2 0.03
ACGTcount: A:0.16, C:0.21, G:0.30, T:0.33
Consensus pattern (57 bp):
ATGCGCTCTGTGCGCTAGTATGCACTTTGTGTGATAGGATGCACTTCGTGCCCCAGG
Found at i:16146959 original size:20 final size:20
Alignment explanation
Indices: 16146934--16146973 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
16146924 AAATGCTAAC
16146934 AGAGGCACCGAAGTGCAAAT
1 AGAGGCACCGAAGTGCAAAT
16146954 AGAGGCACCGAAGTGCAAAT
1 AGAGGCACCGAAGTGCAAAT
16146974 CTCGTACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.30, T:0.10
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAT
Found at i:16152654 original size:24 final size:24
Alignment explanation
Indices: 16152627--16152689 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 24
16152617 CAGCTCGAAA
*
16152627 GAGCATCCCGTTATTAGCTCTCAT
1 GAGCATCCCGTTATTAGCTCTCAC
* * *
16152651 GAGCATCTCGATATTTGGCTCTCAC
1 GAGCATCCCGTTA-TTAGCTCTCAC
* *
16152676 AAGCTTCCCGTTAT
1 GAGCATCCCGTTAT
16152690 ATGATTCTTG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCTCTCAC
Done.