Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 59 of 196
Found at i:16618473 original size:100 final size:100
Alignment explanation
Indices: 16618289--16618890 Score: 751
Period size: 100 Copynumber: 6.0 Consensus size: 100
16618279 AATCTTTTTA
* * * * * * **
16618289 ACTGCACTGCCAGGGAAGTAAGATTTGCCTTTATGGCAGCTTTAATC-CTTTTAGCTACAATACC
1 ACTGCACCGCCAGGGAAGTAAGATTCG-CTGT-T-GTAGCTTTAATCTC-TTTAACTGCAATGTC
*
16618353 GGGGAAGCGAGATTCACCGATGTGGCTTTAATCTGTTCC
62 GGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
* *
16618392 ACTGCACCGCCAGGGAAGTAAGATTTGTTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCGGGG
1 ACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCGGGG
*
16618457 AAGCAAGATTCACCGATGTGGCTTTAATTTGTTCC
66 AAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
* * * * * * *
16618492 ACTGCATCGCCTGTGAGGTAAGATTCACTGTTATAGCTTTAATCTTTTTGAACTGCAATGTCGGG
1 ACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTCTTT-AACTGCAATGTCGGG
*
16618557 GAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCC
65 GAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
* * * *
16618593 ACTGCACCACCTGGGAGGTAAGATTCGCTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCAGGG
1 ACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCGGGG
16618658 AAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
66 AAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
* * * * * * *
16618693 ACTGCATCGCCAGGGAAGTAACG-CTCGCCGTTGTGGCTTTAGTCTTTTTAACTGCAATGTCAGG
1 ACTGCACCGCCAGGGAAGTAA-GATTCGCTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCGGG
* *
16618757 GAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTC
65 GAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
* * * ** *
16618793 ACTGCATCACCTGGGGTGTAAGATTCGCTGTTTTAGCTTTAATCT-TTCTAACTGCAATGTCGGG
1 ACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTCTT-TAACTGCAATGTCGGG
* *
16618857 GAAGCAAGATTCATCGTTGTGGCTTTAATCTGTT
65 GAAGCAAGATTCACCGATGTGGCTTTAATCTGTT
16618891 GGCTTTAATC
Statistics
Matches: 443, Mismatches: 51, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
99 3 0.01
100 317 0.72
101 95 0.21
102 2 0.00
103 26 0.06
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (100 bp):
ACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCGGGG
AAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
Found at i:16618895 original size:14 final size:14
Alignment explanation
Indices: 16618876--16618904 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16618866 TTCATCGTTG
16618876 TGGCTTTAATCTGT
1 TGGCTTTAATCTGT
16618890 TGGCTTTAATCTGT
1 TGGCTTTAATCTGT
16618904 T
1 T
16618905 CCATTACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.52
Consensus pattern (14 bp):
TGGCTTTAATCTGT
Found at i:16619144 original size:44 final size:44
Alignment explanation
Indices: 16619096--16619207 Score: 118
Period size: 44 Copynumber: 2.5 Consensus size: 44
16619086 ATCCACTCCA
* * *
16619096 CTGTAGTCTCAGGAAGATAGGATTACTAGCTTTAATCTGCTTCG
1 CTGTAATCTCAGGAAGATAAGATTACTAGCTTCAATCTGCTTCG
* * * * *
16619140 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGAAGATAAGATTACTAGCTTCAATCTGCTTCG
* *
16619184 CTATAA-CATCAGGGAGATAAGATT
1 CTGTAATC-TCAGGAAGATAAGATT
16619208 CACCGTTTCT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 1 0.02
44 57 0.98
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGTAATCTCAGGAAGATAAGATTACTAGCTTCAATCTGCTTCG
Found at i:16620597 original size:6 final size:7
Alignment explanation
Indices: 16620581--16620619 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
16620571 CCGTCATTGC
16620581 TTTTCAT
1 TTTTCAT
16620588 TTTTCA-
1 TTTTCAT
16620594 TTTTCAT
1 TTTTCAT
16620601 TTTTCAT
1 TTTTCAT
16620608 TTTTCAT
1 TTTTCAT
16620615 ATTTT
1 -TTTT
16620620 TTTAGTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.20
7 20 0.67
8 4 0.13
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTCAT
Found at i:16620599 original size:13 final size:13
Alignment explanation
Indices: 16620581--16620610 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
16620571 CCGTCATTGC
16620581 TTTTCATTTTTCA
1 TTTTCATTTTTCA
16620594 TTTTCATTTTTCA
1 TTTTCATTTTTCA
16620607 TTTT
1 TTTT
16620611 TCATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:16626338 original size:410 final size:410
Alignment explanation
Indices: 16625578--16626498 Score: 1797
Period size: 410 Copynumber: 2.2 Consensus size: 410
16625568 ATGATAAGGC
16625578 TCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
1 TCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
16625643 AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATG
66 AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATG
16625708 AGAAGATGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCGAATATTGCCT
131 AGAAGATGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCGAATATTGCCT
16625773 TTATTTTTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAAAA
196 TTATTTTTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAAAA
16625838 TTTTTAAAATCTCAAAAAAACTTAATTTAGAAATTGTACGATTTTTATTAAAAAAGAGATACTCA
261 TTTTTAAAATCTCAAAAAAACTTAATTTAGAAATTGTACGATTTTTATTAAAAAAGAGATACTCA
*
16625903 ATTATTCAAATTTAACGAGATAAAAATTGAAGCCTAGTAAGTTAGGGCACAATCTTCTCAAAAAT
326 ATTATTCAAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAAT
*
16625968 TTCGGATATCGAGTCTTGTT
391 TTCAGATATCGAGTCTTGTT
16625988 TCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
1 TCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
16626053 AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATG
66 AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATG
16626118 AGAAGATGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCGAATATTGCCT
131 AGAAGATGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCGAATATTGCCT
*
16626183 TTATTTTTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAACA
196 TTATTTTTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAAAA
*
16626248 TTTTTAAAATCTCAAAAAAACTTTATTTAGAAATTGTACGATTTTTATTAAAAAAGAGATACTCA
261 TTTTTAAAATCTCAAAAAAACTTAATTTAGAAATTGTACGATTTTTATTAAAAAAGAGATACTCA
*
16626313 ATTATTCGAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAAT
326 ATTATTCAAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAAT
16626378 TTCAGATATCGAGTCTTGTT
391 TTCAGATATCGAGTCTTGTT
16626398 TCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
1 TCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
16626463 AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGA
66 AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGA
16626499 AGAAATAGCT
Statistics
Matches: 506, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
410 506 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (410 bp):
TCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATG
AGAAGATGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCGAATATTGCCT
TTATTTTTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAAAA
TTTTTAAAATCTCAAAAAAACTTAATTTAGAAATTGTACGATTTTTATTAAAAAAGAGATACTCA
ATTATTCAAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAAT
TTCAGATATCGAGTCTTGTT
Found at i:16626508 original size:88 final size:88
Alignment explanation
Indices: 16626404--16626586 Score: 357
Period size: 88 Copynumber: 2.1 Consensus size: 88
16626394 TGTTTCATTT
*
16626404 ATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
1 ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
16626469 AGTTTGACTTTTAGAACCTGTAC
66 AGTTTGACTTTTAGAACCTGTAC
16626492 ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
1 ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
16626557 AGTTTGACTTTTAGAACCTGTAC
66 AGTTTGACTTTTAGAACCTGTAC
16626580 ATTTTGA
1 ATTTTGA
16626587 GAAGGATATT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 94 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (88 bp):
ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
AGTTTGACTTTTAGAACCTGTAC
Found at i:16626937 original size:498 final size:498
Alignment explanation
Indices: 16625994--16627397 Score: 2781
Period size: 498 Copynumber: 2.8 Consensus size: 498
16625984 TGTTTCATTT
*
16625994 ATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
1 ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
16626059 AGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATGAGAAGA
66 AGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATGAGAAGA
16626124 TGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCGAATATTGCCTTTATTT
131 TGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCGAATATTGCCTTTATTT
16626189 TTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAACATTTTTA
196 TTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAACATTTTTA
16626254 AAATCTCAAAAAAACTTTATTTAGAAATTGTACGATTTTTATTAAAAAAGAGATACTCAATTATT
261 AAATCTCAAAAAAACTTTATTTAGAAATTGTACGATTTTTATTAAAAAAGAGATACTCAATTATT
*
16626319 CGAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAATTTCAGA
326 CGAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAATTTCGGA
16626384 TATCGAGTCTTGTTTCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAAC
391 TATCGAGTCTTGTTTCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAAC
16626449 ATTTCAAATCCTCAAAATTAAGTTTGACTTTTAGAACCTGTAC
456 ATTTCAAATCCTCAAAATTAAGTTTGACTTTTAGAACCTGTAC
16626492 ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
1 ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
16626557 AGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATGAGAAGA
66 AGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATGAGAAGA
16626622 TGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCGAATATTGCCTTTATTT
131 TGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCGAATATTGCCTTTATTT
16626687 TTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAACATTTTTA
196 TTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAACATTTTTA
16626752 AAATCTCAAAAAAACTTTATTTAGAAATTGTACGATTTTTATTAAAAAAGAGATACTCAATTATT
261 AAATCTCAAAAAAACTTTATTTAGAAATTGTACGATTTTTATTAAAAAAGAGATACTCAATTATT
16626817 CGAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAATTTCGGA
326 CGAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAATTTCGGA
16626882 TATCGAGTCTTGTTTCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAAC
391 TATCGAGTCTTGTTTCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAAC
16626947 ATTTCAAATCCTCAAAATTAAGTTTGACTTTTAGAACCTGTAC
456 ATTTCAAATCCTCAAAATTAAGTTTGACTTTTAGAACCTGTAC
16626990 ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
1 ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
16627055 AGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATGAGAAGA
66 AGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATGAGAAGA
16627120 TGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCGAATATTGCCTTTATTT
131 TGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCGAATATTGCCTTTATTT
16627185 TTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAACATTTTTA
196 TTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAACATTTTTA
16627250 AAATCTCAAAAAAACTTTATTTAGAAATTGTACGATTTTTATTAAAAAAGAGATACTCAATTATT
261 AAATCTCAAAAAAACTTTATTTAGAAATTGTACGATTTTTATTAAAAAAGAGATACTCAATTATT
*
16627315 CGAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAATCTCGGA
326 CGAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAATTTCGGA
16627380 TATCGAGTCTTGTTTCAT
391 TATCGAGTCTTGTTTCAT
16627398 AAACTTTGGA
Statistics
Matches: 903, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
498 903 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (498 bp):
ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
AGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATGAGAAGA
TGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCGAATATTGCCTTTATTT
TTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAACATTTTTA
AAATCTCAAAAAAACTTTATTTAGAAATTGTACGATTTTTATTAAAAAAGAGATACTCAATTATT
CGAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAATTTCGGA
TATCGAGTCTTGTTTCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAAC
ATTTCAAATCCTCAAAATTAAGTTTGACTTTTAGAACCTGTAC
Found at i:16627006 original size:88 final size:88
Alignment explanation
Indices: 16626902--16627084 Score: 357
Period size: 88 Copynumber: 2.1 Consensus size: 88
16626892 TGTTTCATTT
*
16626902 ATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
1 ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
16626967 AGTTTGACTTTTAGAACCTGTAC
66 AGTTTGACTTTTAGAACCTGTAC
16626990 ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
1 ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
16627055 AGTTTGACTTTTAGAACCTGTAC
66 AGTTTGACTTTTAGAACCTGTAC
16627078 ATTTTGA
1 ATTTTGA
16627085 GAAGGATATT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 94 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (88 bp):
ATTTTGAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTA
AGTTTGACTTTTAGAACCTGTAC
Found at i:16629258 original size:26 final size:26
Alignment explanation
Indices: 16629222--16629272 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
16629212 GGGTGAGTTT
16629222 TCTCTTTGATTTCAACAAAGAAACTG
1 TCTCTTTGATTTCAACAAAGAAACTG
16629248 TCTCTTTGATTTCAACAAAGAAACT
1 TCTCTTTGATTTCAACAAAGAAACT
16629273 ATGATTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (26 bp):
TCTCTTTGATTTCAACAAAGAAACTG
Found at i:16630683 original size:18 final size:17
Alignment explanation
Indices: 16630660--16630694 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16630650 TTTATATTAG
*
16630660 CAATTCATATCATCATTT
1 CAATTCAAAT-ATCATTT
16630678 CAATTCAAATATCATTT
1 CAATTCAAATATCATTT
16630695 ATCCAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (17 bp):
CAATTCAAATATCATTT
Found at i:16636176 original size:21 final size:21
Alignment explanation
Indices: 16636150--16636203 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
16636140 ACTATAGGGT
*
16636150 GTGTCACGATATCGAACCCTA
1 GTGTCACGACATCGAACCCTA
16636171 GTGTCACGACATCGAACCCTA
1 GTGTCACGACATCGAACCCTA
16636192 GTGTCACGACAT
1 GTGTCACGACAT
16636204 AAGCAATCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (21 bp):
GTGTCACGACATCGAACCCTA
Found at i:16638460 original size:18 final size:18
Alignment explanation
Indices: 16638430--16638477 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
16638420 TGTTGTTCGT
16638430 TTTCAAAAT-ATTATTC-A
1 TTTC-AAATCATTATTCAA
16638447 TTTACAAATCATTATTCAA
1 TTT-CAAATCATTATTCAA
*
16638466 TTTCAAAACATT
1 TTTCAAATCATT
16638478 TTTTTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.26
18 16 0.59
19 4 0.15
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTCAAATCATTATTCAA
Found at i:16646715 original size:17 final size:17
Alignment explanation
Indices: 16646683--16646726 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
16646673 ATCCGCAAGG
*
16646683 CAATACTATTCACCAAA
1 CAATACTGTTCACCAAA
* * *
16646700 CGATACTGTTCGCCAAC
1 CAATACTGTTCACCAAA
16646717 CAATACTGTT
1 CAATACTGTT
16646727 TCCCAAGTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.34, C:0.30, G:0.09, T:0.27
Consensus pattern (17 bp):
CAATACTGTTCACCAAA
Found at i:16646790 original size:17 final size:17
Alignment explanation
Indices: 16646733--16646797 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
16646723 TGTTTCCCAA
* *
16646733 GTAATACTATTTGCTAG
1 GTAATACTATCTGCCAG
* * *
16646750 GCAATA-TAATTTGACAG
1 GTAATACT-ATCTGCCAG
*
16646767 GTGATACTATCTGCCAG
1 GTAATACTATCTGCCAG
*
16646784 GTAATACTGTCTGC
1 GTAATACTATCTGC
16646798 TAATGTTGTA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
16 1 0.03
17 35 0.95
18 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (17 bp):
GTAATACTATCTGCCAG
Found at i:16651781 original size:27 final size:27
Alignment explanation
Indices: 16651750--16651806 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
16651740 GACGGATTCA
16651750 AAAGATATTTTCAAATCTATTTTAACT
1 AAAGATATTTTCAAATCTATTTTAACT
*
16651777 AAAGATATTTTCGAATCTATTTTAACT
1 AAAGATATTTTCAAATCTATTTTAACT
16651804 AAA
1 AAA
16651807 TGTTTTTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (27 bp):
AAAGATATTTTCAAATCTATTTTAACT
Found at i:16652184 original size:13 final size:13
Alignment explanation
Indices: 16652162--16652192 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16652152 TTTAAATACC
16652162 AATT-TATAAAAA
1 AATTATATAAAAA
16652174 AATTATATAAAAA
1 AATTATATAAAAA
16652187 AATTAT
1 AATTAT
16652193 TTAATCAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATTATATAAAAA
Found at i:16652380 original size:13 final size:15
Alignment explanation
Indices: 16652362--16652398 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
16652352 TCATTAGGTG
16652362 AAAGATAA-TG-ATA
1 AAAGATAAGTGAATA
16652375 AAAGATAAGTGAATA
1 AAAGATAAGTGAATA
16652390 AACAGATAA
1 AA-AGATAA
16652399 CAAATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 2 0.10
15 5 0.24
16 6 0.29
ACGTcount: A:0.62, C:0.03, G:0.16, T:0.19
Consensus pattern (15 bp):
AAAGATAAGTGAATA
Found at i:16653713 original size:29 final size:29
Alignment explanation
Indices: 16653654--16653713 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
16653644 TACGATTTAA
* *
16653654 TGTGTAATTATATATATAAATTTTAATTT
1 TGTGTAATTATATAAATAAATTTTAAGTT
*
16653683 TGTGTAATTTTATAAATAAAATTTT-AGTT
1 TGTGTAATTATATAAAT-AAATTTTAAGTT
16653712 TG
1 TG
16653714 ATCAAATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (29 bp):
TGTGTAATTATATAAATAAATTTTAAGTT
Found at i:16662628 original size:37 final size:37
Alignment explanation
Indices: 16662585--16662658 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
16662575 GTAAGTCTGT
*
16662585 CTCTCATGGAGGTTAATTTTCCTATTTTTATAACACA
1 CTCTCATGGAGGTTAAATTTCCTATTTTTATAACACA
16662622 CTCTCATGGAGGTTAAATTTCCTATTTTTATAACACA
1 CTCTCATGGAGGTTAAATTTCCTATTTTTATAACACA
16662659 GTTCCTAGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (37 bp):
CTCTCATGGAGGTTAAATTTCCTATTTTTATAACACA
Found at i:16675621 original size:16 final size:15
Alignment explanation
Indices: 16675595--16675624 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16675585 TTTGTTGCTA
16675595 ATTTTACTTTTTCAT
1 ATTTTACTTTTTCAT
16675610 ATTTTCACTTTTTCA
1 ATTTT-ACTTTTTCA
16675625 CTTTCAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTTACTTTTTCAT
Found at i:16675907 original size:51 final size:51
Alignment explanation
Indices: 16675848--16676041 Score: 236
Period size: 51 Copynumber: 3.8 Consensus size: 51
16675838 GATACCGGTT
* *
16675848 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
* * *
16675899 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTA
* * * *
16675950 CGCATAATAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTA
*
16676000 -AAATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
16676042 TTCACTTTCA
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
48 4 0.03
49 32 0.27
50 8 0.07
51 73 0.61
52 2 0.02
53 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
Found at i:16676032 original size:100 final size:102
Alignment explanation
Indices: 16675850--16676033 Score: 293
Period size: 102 Copynumber: 1.8 Consensus size: 102
16675840 TACCGGTTCA
* * **
16675850 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTAGTAGCCTGCA
1 CATAATAGCCTGCACATAGTACTACACATGCGACCATCACTATCTGATACAAATAGTAGCCTGCA
16675915 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
*
16675952 CATAATAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTA-AAATAGTAGCCTGC
1 CATAATAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCTGATACAAATAGTAGCCTGC
16676014 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
16676034 CCATCACTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
100 32 0.42
101 6 0.08
102 34 0.45
103 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAATAGCCTGCACATAGTACTACACATGCGACCATCACTATCTGATACAAATAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:16682896 original size:25 final size:25
Alignment explanation
Indices: 16682868--16682917 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16682858 CAGGTAAGGC
* * *
16682868 TCCTTCTCCTTTTTTCGTTCTTCAT
1 TCCTTCTCCTTCTTCCCTTCTTCAT
*
16682893 TCCTTTTCCTTCTTCCCTTCTTCAT
1 TCCTTCTCCTTCTTCCCTTCTTCAT
16682918 CTTCTCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.04, C:0.36, G:0.02, T:0.58
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCCTTCTTCAT
Found at i:16685581 original size:14 final size:14
Alignment explanation
Indices: 16685544--16685574 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
16685534 CCAGAAAAGT
16685544 AAATCATTTTCCAG
1 AAATCATTTTCCAG
16685558 AAATCATTTTCCAG
1 AAATCATTTTCCAG
16685572 AAA
1 AAA
16685575 ATATTTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:16685719 original size:45 final size:45
Alignment explanation
Indices: 16685652--16685786 Score: 135
Period size: 45 Copynumber: 3.0 Consensus size: 45
16685642 TATATATATG
* * *
16685652 GCATCACGAATCAAACGAGTAAGACCATAGCTGAAAGACGCTATA
1 GCATCATGATTCAAACGAGTAAGACCATAGCTGAAAGACACTATA
* * * *
16685697 GCATCATGATTCAAACGTGTAAGATCATAGTTGAAAGACACTATG
1 GCATCATGATTCAAACGAGTAAGACCATAGCTGAAAGACACTATA
* ** ** * *
16685742 GCAACATGATGAAAAATAAATAAGACCATAGTTGAAAGACACTAT
1 GCATCATGAT-TCAAACGAGTAAGACCATAGCTGAAAGACACTAT
16685787 GGCACCAGGT
Statistics
Matches: 74, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
45 47 0.64
46 27 0.36
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.21
Consensus pattern (45 bp):
GCATCATGATTCAAACGAGTAAGACCATAGCTGAAAGACACTATA
Found at i:16691485 original size:54 final size:54
Alignment explanation
Indices: 16691413--16691515 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
16691403 TTAAAATACC
16691413 TCCTAAATCAGAAAGAACTTAATTTAAGGAAAAGGAGATGGATCAAGCTGCTCA
1 TCCTAAATCAGAAAGAACTTAATTTAAGGAAAAGGAGATGGATCAAGCTGCTCA
* *
16691467 TCCTAACTTAGAAAGAACTTAATTTAAGGAAAAGGAGATGGATCAAGCT
1 TCCTAAATCAGAAAGAACTTAATTTAAGGAAAAGGAGATGGATCAAGCT
16691516 ATTCAAAGAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (54 bp):
TCCTAAATCAGAAAGAACTTAATTTAAGGAAAAGGAGATGGATCAAGCTGCTCA
Found at i:16693424 original size:13 final size:13
Alignment explanation
Indices: 16693406--16693439 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
16693396 ACCTCCTTGG
16693406 ATTAAATTATTAA
1 ATTAAATTATTAA
16693419 ATTAAAATTATTAA
1 ATT-AAATTATTAA
16693433 A-TAAATT
1 ATTAAATT
16693440 GAAATTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 4 0.20
14 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAAATTATTAA
Found at i:16693502 original size:23 final size:23
Alignment explanation
Indices: 16693476--16693520 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
16693466 GGGTCAGTAA
16693476 AAAAAAGGTATGTTAATTAATCC
1 AAAAAAGGTATGTTAATTAATCC
16693499 AAAAAAGGTATGTTAATTAATC
1 AAAAAAGGTATGTTAATTAATC
16693521 AAAGGTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (23 bp):
AAAAAAGGTATGTTAATTAATCC
Found at i:16697013 original size:21 final size:21
Alignment explanation
Indices: 16696979--16697019 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16696969 AAAATACAAG
*
16696979 TGAAAAAGAAGAAAATGAAAA
1 TGAAAAAGAAGAAAAGGAAAA
**
16697000 TGAAAAAGGCGAAAAGGAAA
1 TGAAAAAGAAGAAAAGGAAA
16697020 GCGAGAGAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.02, G:0.24, T:0.07
Consensus pattern (21 bp):
TGAAAAAGAAGAAAAGGAAAA
Found at i:16697118 original size:36 final size:33
Alignment explanation
Indices: 16697053--16697119 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
16697043 GTGAATGAAG
*
16697053 TGAGTGAAAAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
* *
16697086 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAAAAAG-AGAGAGAGCT-AAA-ACAAGG
16697120 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.48, C:0.09, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
Found at i:16704390 original size:22 final size:22
Alignment explanation
Indices: 16704347--16704390 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
16704337 AACAAAATAT
* **
16704347 AAAAAATAGAAATTATTTTGTA
1 AAAAAATAGAAAATATAGTGTA
*
16704369 AAAAAATATAAAATATAGTGTA
1 AAAAAATAGAAAATATAGTGTA
16704391 GTCTTTAATC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (22 bp):
AAAAAATAGAAAATATAGTGTA
Found at i:16710302 original size:138 final size:138
Alignment explanation
Indices: 16710075--16710373 Score: 334
Period size: 138 Copynumber: 2.2 Consensus size: 138
16710065 TCGCTAGCTA
* * * * * *
16710075 TTTTTGAGGTTGCGATCTTAAACCAACAAACCTTTATGACATCAGCTGGGAGTGTTGGTCCACTA
1 TTTTAGAGGTTACGATCTTAAACCAACAAACATTTATGACATCAGCTAGGAGCGTAGGTCCACTA
* * * *
16710140 GCTATATTAGAGGCTACGATCATAAACC-GATAAGCCTTTAGAGTATCAGTTAGGAACATAGGTC
66 GCTATATTAGAGGCGACAATCATAAACCAG-CAAGCCTTTAGAGTATCAGCTAGGAACATAGGTC
*
16710204 CCCTAGTTG
130 CACTAGTTG
** *
16710213 TTTTAGAGGTTACGATCTTAAATCGGA-AAACATTTATGACATCAGTTAGGAGCGTAGGTCCACT
1 TTTTAGAGGTTACGATCTTAAA-CCAACAAACATTTATGACATCAGCTAGGAGCGTAGGTCCACT
* * * * * *
16710277 AGCTTTGTTGGAGGCGGCAATCATAAACCAGCGAGCCTTTAGAGTATCAGCTAGGAACGTAGGTC
65 AGCTATATTAGAGGCGACAATCATAAACCAGCAAGCCTTTAGAGTATCAGCTAGGAACATAGGTC
16710342 CACTAGCTT-
130 CACTAG-TTG
* * * *
16710351 TGTTGGAGGTTGCGATCATAAAC
1 TTTTAGAGGTTACGATCTTAAAC
16710374 TAGCGGGCCT
Statistics
Matches: 134, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
137 1 0.01
138 128 0.96
139 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (138 bp):
TTTTAGAGGTTACGATCTTAAACCAACAAACATTTATGACATCAGCTAGGAGCGTAGGTCCACTA
GCTATATTAGAGGCGACAATCATAAACCAGCAAGCCTTTAGAGTATCAGCTAGGAACATAGGTCC
ACTAGTTG
Found at i:16710369 original size:207 final size:207
Alignment explanation
Indices: 16710131--16710532 Score: 486
Period size: 207 Copynumber: 1.9 Consensus size: 207
16710121 TGGGAGTGTT
* *
16710131 GGTCCACTAGCTATATTAGAGGCTACGATCATAAACCGA-TAAGCCTTTAGAGTATCAGTTAGGA
1 GGTCCACTAGCTATATTAGAGGCTACGATCATAAA-CGAGCAAGCCTTTAGAGTATCAGCTAGGA
* * * *
16710195 ACATAGGTCCCCTAGTTGTTTTAGAGGTTACGATCTTAAATCGGA-AAACATTTATGACATCAGT
65 ACATAGGTCACCTAGCTATTTTAGAGGTTACGATCTTAAAT-GGATAAACATTTATGACATCAGC
16710259 TAGGAGCGTAGGTCCACTAGCTT-TGTTGGAGGCGGCAATCATAAACCAGCGAGCCTTTAGAGTA
129 TAGGAGCGTAGGTCCACTAG-TTGTGTTGGAGGCGGCAATCATAAACCAGCGAGCCTTTAGAGTA
16710323 TCAGCTAGGAACGTA
193 TCAGCTAGGAACGTA
* * * * * * ** * *
16710338 GGTCCACTAGCTTTGTTGGAGGTTGCGATCATAAACTAGCGGGCCTTTAGAGTATTAGCTAGTAA
1 GGTCCACTAGCTATATTAGAGGCTACGATCATAAACGAGCAAGCCTTTAGAGTATCAGCTAGGAA
* * * * * * *
16710403 CGTAGGTTAGCTAGCTATTTTAGAGGTTACGATCTTAAATTGATGAACCTTTATGACATCAGCTG
66 CATAGGTCACCTAGCTATTTTAGAGGTTACGATCTTAAATGGATAAACATTTATGACATCAGCTA
** * * * **
16710468 GGAGCGTAGGTCTGCTAGTTGTGTTGGAGGCTGCGATCATAAACTATTGAGCCTTTAGAGTATCA
131 GGAGCGTAGGTCCACTAGTTGTGTTGGAGGCGGCAATCATAAACCAGCGAGCCTTTAGAGTATCA
16710533 TTTGGGAAGG
Statistics
Matches: 162, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
206 6 0.04
207 156 0.96
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (207 bp):
GGTCCACTAGCTATATTAGAGGCTACGATCATAAACGAGCAAGCCTTTAGAGTATCAGCTAGGAA
CATAGGTCACCTAGCTATTTTAGAGGTTACGATCTTAAATGGATAAACATTTATGACATCAGCTA
GGAGCGTAGGTCCACTAGTTGTGTTGGAGGCGGCAATCATAAACCAGCGAGCCTTTAGAGTATCA
GCTAGGAACGTA
Found at i:16710454 original size:69 final size:69
Alignment explanation
Indices: 16710054--16710532 Score: 253
Period size: 69 Copynumber: 6.9 Consensus size: 69
16710044 ATTTTAACTG
* * * * * * * * *
16710054 GGAACGTAGGTTCGCTAGCTATT-TTTGAGGTTGCGATCTTAAACCAACAAACCTTTATGA-CAT
1 GGAACGTAGGTCCACTAGCT-TTGTTAGAGGTTACGATCATAAACTAGCGAACCTTTA-GAGTAT
*
16710117 CAGCTG
64 CAGCTA
** * * * * * **
16710123 GGAGTGTTGGTCCACTAGCTATATTAGAGGCTACGATCATAAAC-CGATAAGCCTTTAGAGTATC
1 GGAACGTAGGTCCACTAGCTTTGTTAGAGGTTACGATCATAAACTAGCGAA-CCTTTAGAGTATC
*
16710187 AGTTA
65 AGCTA
* * * * * * *
16710192 GGAACATAGGTCCCCTAG-TTGTTTTAGAGGTTACGATCTTAAA-TCG-GAAAACATTTATGA-C
1 GGAACGTAGGTCCACTAGCTT-TGTTAGAGGTTACGATCATAAACTAGCG--AACCTTTA-GAGT
*
16710253 ATCAGTTA
62 ATCAGCTA
* * *** * * *
16710261 GGAGCGTAGGTCCACTAGCTTTGTTGGAGGCGGCAATCATAAACCAGCGAGCCTTTAGAGTATCA
1 GGAACGTAGGTCCACTAGCTTTGTTAGAGGTTACGATCATAAACTAGCGAACCTTTAGAGTATCA
16710326 GCTA
66 GCTA
* * ** *
16710330 GGAACGTAGGTCCACTAGCTTTGTTGGAGGTTGCGATCATAAACTAGCGGGCCTTTAGAGTATTA
1 GGAACGTAGGTCCACTAGCTTTGTTAGAGGTTACGATCATAAACTAGCGAACCTTTAGAGTATCA
16710395 GCTA
66 GCTA
* * * * * *
16710399 GTAACGTAGGT-TAGCTAGCTATT-TTAGAGGTTACGATCTTAAA-TTGATGAACCTTTATGA-C
1 GGAACGTAGGTCCA-CTAGCT-TTGTTAGAGGTTACGATCATAAACTAG-CGAACCTTTA-GAGT
*
16710460 ATCAGCTG
62 ATCAGCTA
* ** * * * ** *
16710468 GGAGCGTAGGTCTGCTAG-TTGTGTTGGAGGCTGCGATCATAAACTATTGAGCCTTTAGAGTATC
1 GGAACGTAGGTCCACTAGCTT-TGTTAGAGGTTACGATCATAAACTAGCGAACCTTTAGAGTATC
16710532 A
65 A
16710533 TTTGGGAAGG
Statistics
Matches: 314, Mismatches: 75, Indels: 42
0.73 0.17 0.10
Matches are distributed among these distances:
67 1 0.00
68 15 0.05
69 284 0.90
70 13 0.04
71 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (69 bp):
GGAACGTAGGTCCACTAGCTTTGTTAGAGGTTACGATCATAAACTAGCGAACCTTTAGAGTATCA
GCTA
Found at i:16710539 original size:69 final size:69
Alignment explanation
Indices: 16710253--16710532 Score: 264
Period size: 69 Copynumber: 4.1 Consensus size: 69
16710243 CATTTATGAC
* * * *
16710253 ATCAGTTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCGGCAATCATAAACCAGCGAGCCTTTA
1 ATCAGCTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCTGCGATCATAAACTAGCGAGCCTTTA
16710318 GAGT
66 GAGT
* * *
16710322 ATCAGCTAGGAACGTAGGTCCACTAGCTTTGTTGGAGGTTGCGATCATAAACTAGCGGGCCTTTA
1 ATCAGCTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCTGCGATCATAAACTAGCGAGCCTTTA
16710387 GAGT
66 GAGT
* * * * * * * * * * *
16710391 ATTAGCTAGTAACGTAGGT-TAGCTAGCTATT-TTAGAGGTTACGATCTTAAA-TTGATGAACCT
1 ATCAGCTAGGAGCGTAGGTCCA-CTAGCT-TTGTTGGAGGCTGCGATCATAAACTAG-CGAGCCT
*
16710453 TTATGA-C
63 TTA-GAGT
* ** **
16710460 ATCAGCTGGGAGCGTAGGTCTGCTAG-TTGTGTTGGAGGCTGCGATCATAAACTATTGAGCCTTT
1 ATCAGCTAGGAGCGTAGGTCCACTAGCTT-TGTTGGAGGCTGCGATCATAAACTAGCGAGCCTTT
16710524 AGAGT
65 AGAGT
16710529 ATCA
1 ATCA
16710533 TTTGGGAAGG
Statistics
Matches: 171, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
67 1 0.01
68 7 0.04
69 157 0.92
70 6 0.04
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (69 bp):
ATCAGCTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCTGCGATCATAAACTAGCGAGCCTTTA
GAGT
Found at i:16710546 original size:138 final size:137
Alignment explanation
Indices: 16710300--16710706 Score: 394
Period size: 138 Copynumber: 2.9 Consensus size: 137
16710290 GCGGCAATCA
* * * * * *
16710300 TAAACCAGCGAGCCTTTA-GAGTATCAGCTAGGAACGTAGGTCCACTAGCTT-TGTTGGAGGTTG
1 TAAACCTGCGAACCTTTATGA-CATCAGCTGGGAACGTAGGTCCGCTAG-TTGTGTTGGAGGCTG
* * * * **
16710363 CGATCATAAACTAGCGGGCCTTTAGAGTATTAGCTAGTAACGTAGGTTAGCTAGCTATTTTAGAG
64 CGATCATAAACTA-CGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTCCGCTAGCTATTTTAGAG
* *
16710428 GTTACGATCT
128 GTTACAACCT
* * * *
16710438 TAAA-TTGATGAACCTTTATGACATCAGCTGGGAGCGTAGGTCTGCTAGTTGTGTTGGAGGCTGC
1 TAAACCTG-CGAACCTTTATGACATCAGCTGGGAACGTAGGTCCGCTAGTTGTGTTGGAGGCTGC
* ** * * *
16710502 GATCATAAACTATTGAGCCTTTAGAGTATCATTTGGGAAGGTAGGTCCGTTAGCTGA-TTTGGAG
65 GATCATAAACTA-CGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTCCGCTAGCT-ATTTTAGAG
*
16710566 GTGACAACCT
128 GTTACAACCT
* * * *
16710576 TAAACCTGCGAACCTTTATGACACCAGCTGGAAACATAGGTCCGCTAGCTGTGTTGGAGGCTGC-
1 TAAACCTGCGAACCTTTATGACATCAGCTGGGAACGTAGGTCCGCTAGTTGTGTTGGAGGCTGCG
* * * *
16710640 AGTCATAAATCGACAAGCCTTTAGAGTGA-CAGCTGGGAATGTAAGTCCGCTAGCTATTTTAGAG
66 A-TCATAAA-CTACGAGCCTTTAGAGT-ATCAGCTGGGAACGTAGGTCCGCTAGCTATTTTAGAG
16710704 GTT
128 GTT
16710707 GAGATATTAA
Statistics
Matches: 216, Mismatches: 44, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
137 5 0.02
138 203 0.94
139 8 0.04
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (137 bp):
TAAACCTGCGAACCTTTATGACATCAGCTGGGAACGTAGGTCCGCTAGTTGTGTTGGAGGCTGCG
ATCATAAACTACGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTCCGCTAGCTATTTTAGAGGTT
ACAACCT
Found at i:16710625 original size:207 final size:207
Alignment explanation
Indices: 16710174--16710625 Score: 457
Period size: 207 Copynumber: 2.2 Consensus size: 207
16710164 AACCGATAAG
* * * * * * *
16710174 CCTTTAGAGTATCAGTTAGGAACATAGGTCCCCTAGTTGTTTTAGAGGTTACGATCTTAAATCGG
1 CCTTTAGAGCACCAGCTAGAAACATAGGTCCGCTAGCTATTTTAGAGGTTACGATCTTAAATCGG
*
16710239 AAAACATTTATGACATCAGTTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCGGCAATCATAAA
66 AAAACATTTATGACATCAGCTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCGGCAATCATAAA
* * *
16710304 CCAGCGAGCCTTTAGAGTATCAGCTAGGAACGTAGGTCCACTAGCTTTGTTGGAGGTTGCGATCA
131 CCAGCGAGCCTTTAGAGTATCAGCTAGGAACGTAGGTCCACTAGCTATGTTGGAGGTTGCAACCA
**
16710369 TAAACTAGCGGG
196 TAAACTAGCGAA
* ** * * ** *
16710381 CCTTTAGAGTATTAGCTAGTAACGTAGGTTAGCTAGCTATTTTAGAGGTTACGATCTTAAAT-TG
1 CCTTTAGAGCACCAGCTAGAAACATAGGTCCGCTAGCTATTTTAGAGGTTACGATCTTAAATCGG
* * * ** * *
16710445 ATGAACCTTTATGACATCAGCTGGGAGCGTAGGTCTGCTAG-TTGTGTTGGAGGCTGCGATCATA
66 A-AAACATTTATGACATCAGCTAGGAGCGTAGGTCCACTAGCTT-TGTTGGAGGCGGCAATCATA
* ** ** * * **
16710509 AACTATTGAGCCTTTAGAGTATCATTTGGGAAGGTAGGTCCGTTAGCTGAT-TTGGAGG-TGACA
129 AACCAGCGAGCCTTTAGAGTATCAGCTAGGAACGTAGGTCCACTAGCT-ATGTTGGAGGTTG-CA
*
16710572 ACCTTAAACCT-GCGAA
192 ACCATAAA-CTAGCGAA
*
16710588 CCTTTATGA-CACCAGCTGGAAACATAGGTCCGCTAGCT
1 CCTTTA-GAGCACCAGCTAGAAACATAGGTCCGCTAGCT
16710626 GTGTTGGAGG
Statistics
Matches: 198, Mismatches: 41, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
206 6 0.03
207 187 0.94
208 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (207 bp):
CCTTTAGAGCACCAGCTAGAAACATAGGTCCGCTAGCTATTTTAGAGGTTACGATCTTAAATCGG
AAAACATTTATGACATCAGCTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCGGCAATCATAAA
CCAGCGAGCCTTTAGAGTATCAGCTAGGAACGTAGGTCCACTAGCTATGTTGGAGGTTGCAACCA
TAAACTAGCGAA
Found at i:16713024 original size:10 final size:10
Alignment explanation
Indices: 16713011--16713046 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
16713001 AAAGCTAAAT
16713011 TGAGCTCAAA
1 TGAGCTCAAA
* *
16713021 TGAGCTGAAT
1 TGAGCTCAAA
16713031 TGAGCTCAAA
1 TGAGCTCAAA
16713041 TGAGCT
1 TGAGCT
16713047 GATTGGAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:16713056 original size:20 final size:20
Alignment explanation
Indices: 16713003--16713048 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
16712993 GCTGAAAGAA
*
16713003 AGCTAAATTGAGCTCAAATG
1 AGCTGAATTGAGCTCAAATG
16713023 AGCTGAATTGAGCTCAAATG
1 AGCTGAATTGAGCTCAAATG
16713043 AGCTGA
1 AGCTGA
16713049 TTGGAGCTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (20 bp):
AGCTGAATTGAGCTCAAATG
Found at i:16715199 original size:18 final size:18
Alignment explanation
Indices: 16715178--16715212 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16715168 TTTTTCTTTT
16715178 TCAATTT-TTTTCTCAATC
1 TCAATTTATTTT-TCAATC
16715196 TCAATTTATTTTTCAAT
1 TCAATTTATTTTTCAAT
16715213 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTATTTTTCAATC
Found at i:16715263 original size:18 final size:18
Alignment explanation
Indices: 16715242--16715285 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
16715232 TTTTCTCTCA
*
16715242 CTTTTTCGATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
*
16715260 CTTTTGCAATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
*
16715278 CTCTTTCA
1 CTTTTTCA
16715286 CATGCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.20, G:0.05, T:0.66
Consensus pattern (18 bp):
CTTTTTCAATTTCTTTTT
Found at i:16717662 original size:20 final size:20
Alignment explanation
Indices: 16717634--16717697 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
16717624 GCTGAAAGAA
* * * *
16717634 AGCTAAATTGAGCTCGAATG
1 AGCTGAATTAAGCTCAAACG
16717654 AGCTGAATTAAGCTCAAACG
1 AGCTGAATTAAGCTCAAACG
* *
16717674 AGCTG-ATTGGAGCTGAAACG
1 AGCTGAATT-AAGCTCAAACG
16717694 AGCT
1 AGCT
16717698 AAAGGAGCTG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
19 3 0.08
20 34 0.92
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (20 bp):
AGCTGAATTAAGCTCAAACG
Found at i:16719649 original size:8 final size:8
Alignment explanation
Indices: 16719636--16719669 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
16719626 AAAGAAAAGT
16719636 GAAAGTGA
1 GAAAGTGA
16719644 GAAAGTGA
1 GAAAGTGA
16719652 GAAAGTGA
1 GAAAGTGA
*
16719660 GAAAGAGA
1 GAAAGTGA
16719668 GA
1 GA
16719670 TGTGTGTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.38, T:0.09
Consensus pattern (8 bp):
GAAAGTGA
Found at i:16734190 original size:42 final size:41
Alignment explanation
Indices: 16734123--16734272 Score: 160
Period size: 43 Copynumber: 3.6 Consensus size: 41
16734113 CGGAAAACAT
* *
16734123 TGAATAAAAAGGGGTTGCTATGTGCTGATTCCCCGTATTAC
1 TGAATATAAAGGGGTTGCTAAGTGCTGATTCCCCGTATTAC
*
16734164 TGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTA-TCC
1 TGAATATAAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATTAC
* * * *
16734206 TTGACTATGAAAGGGGTTGCTATGTGCTGATTCTCCGTATCAC
1 -TGAATAT-AAAGGGGTTGCTAAGTGCTGATTCCCCGTATTAC
* *
16734249 TGGAT-TTAAGGTGGTTGCTAAGTG
1 TGAATATAAAGG-GGTTGCTAAGTG
16734273 TTGAATCCAC
Statistics
Matches: 91, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
40 4 0.04
41 23 0.25
42 29 0.32
43 30 0.33
44 5 0.05
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (41 bp):
TGAATATAAAGGGGTTGCTAAGTGCTGATTCCCCGTATTAC
Found at i:16734203 original size:43 final size:42
Alignment explanation
Indices: 16734123--16734282 Score: 157
Period size: 42 Copynumber: 3.8 Consensus size: 42
16734113 CGGAAAACAT
* *
16734123 TGAATAAAAAGGGGTTGCTATGTGCTGATTCC-CCGTATTAC
1 TGAATATAAAGGGGTTGCTAAGTGCTGATTCCACCGTATTAC
*
16734164 TGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTA-TCC
1 TGAATATAAAGG-GGTTGCTAAGTGCTGATTCCACCGTATTAC
* * * *
16734206 TTGACTATGAAAGGGGTTGCTATGTGCTGATT-CTCCGTATCAC
1 -TGAATAT-AAAGGGGTTGCTAAGTGCTGATTCCACCGTATTAC
* * * *
16734249 TGGAT-TTAAGGTGGTTGCTAAGTGTTGAATCCAC
1 TGAATATAAAGG-GGTTGCTAAGTGCTGATTCCAC
16734283 TGAGTATCAG
Statistics
Matches: 97, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
40 4 0.04
41 27 0.28
42 32 0.33
43 29 0.30
44 5 0.05
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (42 bp):
TGAATATAAAGGGGTTGCTAAGTGCTGATTCCACCGTATTAC
Found at i:16741542 original size:24 final size:24
Alignment explanation
Indices: 16741513--16741560 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
16741503 GTACAGTTTA
*
16741513 TCTATAGTAGTCTC-AGTATATACT
1 TCTATAGCAGTCTCAAG-ATATACT
*
16741537 TCTATAGCAGTTTCAAGATATACT
1 TCTATAGCAGTCTCAAGATATACT
16741561 ATCAAAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (24 bp):
TCTATAGCAGTCTCAAGATATACT
Found at i:16742933 original size:17 final size:18
Alignment explanation
Indices: 16742903--16742936 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
16742893 ATATTGTCGG
16742903 CCTGTGTGGGCCCACATT
1 CCTGTGTGGGCCCACATT
16742921 CCTGTGT-GGCCCACAT
1 CCTGTGTGGGCCCACAT
16742937 GGCCCAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.12, C:0.35, G:0.26, T:0.26
Consensus pattern (18 bp):
CCTGTGTGGGCCCACATT
Found at i:16744233 original size:51 final size:49
Alignment explanation
Indices: 16744109--16744291 Score: 206
Period size: 51 Copynumber: 3.6 Consensus size: 49
16744099 AAAGTGATAG
* *
16744109 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGGATG-ATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GGATGTAT-GA
* * * * * *
16744159 TCGCATGTGTAGTACTATCTGCAGGCTATTATGCGTACCGGATAGTTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GTAT-GA
* * *
16744210 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGC
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GT-ATGA
16744261 TCACATGTGTAGTACTATGTGCAGGCTACTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTA
16744292 TGTGAACCAA
Statistics
Matches: 110, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
49 4 0.04
50 34 0.31
51 71 0.65
52 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (49 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGTATGA
Found at i:16744236 original size:101 final size:102
Alignment explanation
Indices: 16744109--16744293 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
16744099 AAAGTGATAG
* *
16744109 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGGATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GGATGATAATGCTCACATGTGTAGT
*
16744172 ACTATCTGCAGGCTATTATGCGTACCGGATAGTTTCGA
65 ACTATCTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* *
16744210 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGCTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGCTCACATGTGTAGTA
*
16744275 CTATGTGCAGGCTACTATG
66 CTATCTGCAGGCTACTATG
16744294 TGAACCAAAC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 6 0.08
101 39 0.51
102 31 0.41
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGCTCACATGTGTAGTA
CTATCTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:16744295 original size:26 final size:26
Alignment explanation
Indices: 16744215--16744295 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
16744205 TTCGATCACG
16744215 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * * *
16744241 CGTGTA-T-CGGATG-GTAATGCTCAC-A
1 TGTGTAGTAC-TATGTG-CAGGCT-ACTA
16744266 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
16744292 TGTG
1 TGTG
16744296 AACCAAACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:16750639 original size:35 final size:35
Alignment explanation
Indices: 16750540--16750647 Score: 110
Period size: 35 Copynumber: 3.1 Consensus size: 35
16750530 ATAACCAACC
* * * *
16750540 AGTGCAAGGCACAATTATTATCAGTTTATCCGACC
1 AGTGCAGGGCACAATTATTGTCGGTTTATCCGACT
* * ** *
16750575 AGTGCTGGGTGTA-AAGCATTGTCGATTTATCCGACT
1 AGTGC-AGG-GCACAATTATTGTCGGTTTATCCGACT
16750611 AGTGCAGGGCACAATTATTGTCGGTTTATCCGACT
1 AGTGCAGGGCACAATTATTGTCGGTTTATCCGACT
16750646 AG
1 AG
16750648 CACTGGGCGC
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
34 2 0.04
35 29 0.52
36 23 0.41
37 2 0.04
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (35 bp):
AGTGCAGGGCACAATTATTGTCGGTTTATCCGACT
Found at i:16750675 original size:71 final size:71
Alignment explanation
Indices: 16750539--16750732 Score: 194
Period size: 71 Copynumber: 2.7 Consensus size: 71
16750529 TATAACCAAC
* * * * * * * * *
16750539 CAGTGCAAGGCACAATTATTATCAGTTTATCCGACCAGTGCTGGGTGTAAAGCATTGTCGATTTA
1 CAGTGCAGGGCACAATTATTGTCGGTTTATCCGACTAGCGCTGGGCGCAAAACAATGTCGATTTA
16750604 TCCGA-
66 TCCGAT
*
16750609 CTAGTGCAGGGCACAATTATTGTCGGTTTATCCGACTAGCACTGGGCGCAAAACAATGTC-AGTT
1 C-AGTGCAGGGCACAATTATTGTCGGTTTATCCGACTAGCGCTGGGCGCAAAACAATGTCGA-TT
16750673 TATCCGAT
64 TATCCGAT
* * ** * * * *
16750681 CACTGCTGGGCACAACAATTGTCGATTTATTCAACTAGCGCTGGGCACAAAA
1 CAGTGCAGGGCACAATTATTGTCGGTTTATCCGACTAGCGCTGGGCGCAAAA
16750733 ATTTTCTACA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
70 2 0.02
71 99 0.97
72 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (71 bp):
CAGTGCAGGGCACAATTATTGTCGGTTTATCCGACTAGCGCTGGGCGCAAAACAATGTCGATTTA
TCCGAT
Found at i:16755322 original size:15 final size:16
Alignment explanation
Indices: 16755293--16755322 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16755283 GATAGTTTTG
16755293 TAAAATGTAGAATTAA
1 TAAAATGTAGAATTAA
16755309 TAAAATGT-GAATTA
1 TAAAATGTAGAATTA
16755323 TTCTTATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (16 bp):
TAAAATGTAGAATTAA
Found at i:16760430 original size:164 final size:164
Alignment explanation
Indices: 16760159--16760491 Score: 585
Period size: 164 Copynumber: 2.0 Consensus size: 164
16760149 ATATCAAACC
* * *
16760159 AAGAATTAAGCACACATAATTGATAACAAGATCTAAGCATTTATTGGGTAAAATAAAAATCAAAC
1 AAGAATTAAGCACACATAATCGAGAACAAGATCTAAGCATTTATTAGGTAAAATAAAAATCAAAC
* *
16760224 GACAAAATTCATTATAGGGTTCATCTCCTTAGGTATTTAGAAAATTAGTTCATGCTTAAAAATAA
66 GACAAAATTCATCATAAGGTTCATCTCCTTAGGTATTTAGAAAATTAGTTCATGCTTAAAAATAA
16760289 AAACATCCAATATACAGTATAATCGAAAGAAATA
131 AAACATCCAATATACAGTATAATCGAAAGAAATA
* *
16760323 AAGAATTAAGCACACATAATCGAGACCAAGATCTAAGTATTTATTAGGTAAAATAAAAATCAAAC
1 AAGAATTAAGCACACATAATCGAGAACAAGATCTAAGCATTTATTAGGTAAAATAAAAATCAAAC
* *
16760388 GACAGAGTTCATCATAAGGTTCATCTCCTTAGGTATTTAGAAAATTAGTTCATGCTTAAAAATAA
66 GACAAAATTCATCATAAGGTTCATCTCCTTAGGTATTTAGAAAATTAGTTCATGCTTAAAAATAA
16760453 AAACATCCAATATACAGTATAATCGAAAGAAATA
131 AAACATCCAATATACAGTATAATCGAAAGAAATA
16760487 AAGAA
1 AAGAA
16760492 ACTCATCATA
Statistics
Matches: 160, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
164 160 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (164 bp):
AAGAATTAAGCACACATAATCGAGAACAAGATCTAAGCATTTATTAGGTAAAATAAAAATCAAAC
GACAAAATTCATCATAAGGTTCATCTCCTTAGGTATTTAGAAAATTAGTTCATGCTTAAAAATAA
AAACATCCAATATACAGTATAATCGAAAGAAATA
Found at i:16760715 original size:14 final size:14
Alignment explanation
Indices: 16760696--16760725 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16760686 TTTAGGCTTC
16760696 AAATTCGCGAAATT
1 AAATTCGCGAAATT
16760710 AAATTCGCGAAATT
1 AAATTCGCGAAATT
16760724 AA
1 AA
16760726 CATGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (14 bp):
AAATTCGCGAAATT
Found at i:16777326 original size:42 final size:42
Alignment explanation
Indices: 16777255--16777339 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
16777245 AAATTGTTGG
*
16777255 ATATATATATGTATGCATTCGACATATGTGAATT-ATAAGTAT
1 ATATATATATGTATGCATTCGACACATGTG-ATTGATAAGTAT
* * ** *
16777297 ATATATATGTGTGTGCATTCGGTACATGTGGTTGATAAGTAT
1 ATATATATATGTATGCATTCGACACATGTGATTGATAAGTAT
16777339 A
1 A
16777340 ATTATTTGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (42 bp):
ATATATATATGTATGCATTCGACACATGTGATTGATAAGTAT
Found at i:16779615 original size:13 final size:13
Alignment explanation
Indices: 16779597--16779625 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16779587 AATAATATAT
16779597 TAACAATTCAAAA
1 TAACAATTCAAAA
16779610 TAACAATTCAAAA
1 TAACAATTCAAAA
16779623 TAA
1 TAA
16779626 ATTAAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.24
Consensus pattern (13 bp):
TAACAATTCAAAA
Found at i:16789384 original size:16 final size:17
Alignment explanation
Indices: 16789351--16789385 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
16789341 TAATAACATG
16789351 TCACATATCATCATCTCA
1 TCACATATCA-CATCTCA
16789369 TCACATATCA-ATCTCA
1 TCACATATCACATCTCA
16789385 T
1 T
16789386 ACAATGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (17 bp):
TCACATATCACATCTCA
Found at i:16802140 original size:27 final size:27
Alignment explanation
Indices: 16802096--16802163 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
16802086 TAAAAGAAGG
**
16802096 CCTTTGTGGCGCAA-TATGAAATGAACA
1 CCTTTGTGGCG-AATTATGAAAAAAACA
**
16802123 CCTTTGTGGCGAATTATGAAAAAAATG
1 CCTTTGTGGCGAATTATGAAAAAAACA
16802150 CCTTTGTGGCGAAT
1 CCTTTGTGGCGAAT
16802164 CAAGAAAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (27 bp):
CCTTTGTGGCGAATTATGAAAAAAACA
Found at i:16802170 original size:27 final size:27
Alignment explanation
Indices: 16802123--16802175 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
16802113 GAAATGAACA
* *
16802123 CCTTTGTGGCGAATTATGAAAAAAATG
1 CCTTTGTGGCGAATCAAGAAAAAAATG
*
16802150 CCTTTGTGGCGAATCAAGAAAGAAAT
1 CCTTTGTGGCGAATCAAGAAAAAAAT
16802176 TTCATTGTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (27 bp):
CCTTTGTGGCGAATCAAGAAAAAAATG
Found at i:16802183 original size:27 final size:27
Alignment explanation
Indices: 16802126--16802187 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
16802116 ATGAACACCT
* * *
16802126 TTGTGGCGAATTATGAAAAAAATGCCT
1 TTGTGGCGAATCAAGAAAAAAATGCCA
* **
16802153 TTGTGGCGAATCAAGAAAGAAATTTCA
1 TTGTGGCGAATCAAGAAAAAAATGCCA
16802180 TTGTGGCG
1 TTGTGGCG
16802188 GATTATGAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (27 bp):
TTGTGGCGAATCAAGAAAAAAATGCCA
Found at i:16803108 original size:34 final size:35
Alignment explanation
Indices: 16803051--16803124 Score: 98
Period size: 34 Copynumber: 2.1 Consensus size: 35
16803041 AGCATATATT
* *
16803051 TATACTTATCAATTACATGTGCCGAATGC-ACATA
1 TATACTTATCAATCACATATGCCGAATGCAACATA
16803085 TATACTTAT-AATCCACATATGCCGAATGCATACATA
1 TATACTTATCAAT-CACATATGCCGAATGCA-ACATA
16803121 TATA
1 TATA
16803125 TATCCAACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 3 0.09
34 23 0.66
36 9 0.26
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (35 bp):
TATACTTATCAATCACATATGCCGAATGCAACATA
Found at i:16803341 original size:41 final size:41
Alignment explanation
Indices: 16803296--16803418 Score: 149
Period size: 41 Copynumber: 3.0 Consensus size: 41
16803286 TAAAATAGAT
* **
16803296 TCACCGGCACTTAGCCTGTTAGGCTTA-AAGCCTGGTTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAA-CCTAATTCAGA
16803337 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTAATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTAATTCAGA
* * * * *
16803378 TCACCAGCACTTAGCCTACTAGGTTTTAAAACCTTATTCAG
1 TCACCGGCACTTAGCCTGCTAGG-CTTATAACCTAATTCAG
16803419 TACATTGCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
41 56 0.78
42 16 0.22
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTAATTCAGA
Found at i:16803876 original size:76 final size:76
Alignment explanation
Indices: 16803785--16803972 Score: 186
Period size: 78 Copynumber: 2.4 Consensus size: 76
16803775 TACATTTAAC
* * * *
16803785 ATTCGAATCTCACATATACTTATATAATTTCATAAC-CCATTTC-AATACAAAAACTTATACATG
1 ATTCGATTCTAACATATACATATATAATTTCATAACTACA-TTCGAA-ACAAAAACTTATACATG
* *
16803848 TACATATATACAT
64 TACACACATACAT
* ** *
16803861 ATTCGATTCTAACATATATGCATATATAATTTTAT-ACTTACATTCGAAACAAGTACTTATACTT
1 ATTCGATTCTAACATATA--CATATATAATTTCATAAC-TACATTCGAAACAAAAACTTATACAT
*
16803925 GTATACACATACAT
63 GTACACACATACAT
*
16803939 TTTCGAATT-TAACATATACATATATAATTTCATA
1 ATTCG-ATTCTAACATATACATATATAATTTCATA
16803973 CTTATACTCA
Statistics
Matches: 92, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
76 30 0.33
77 2 0.02
78 53 0.58
79 7 0.08
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.38
Consensus pattern (76 bp):
ATTCGATTCTAACATATACATATATAATTTCATAACTACATTCGAAACAAAAACTTATACATGTA
CACACATACAT
Found at i:16804008 original size:78 final size:77
Alignment explanation
Indices: 16803855--16804040 Score: 182
Period size: 76 Copynumber: 2.4 Consensus size: 77
16803845 ATGTACATAT
* * * *
16803855 ATACATATTCGATTCTAACATATATGCATATATAATTTTATACTTACATTCGAAACAAGTACTTA
1 ATACATATTCGATTCTAACATATA-GCATATATAATTTCATACTTACACTCGAAACAAGCAATTA
*
16803920 TACTTGTATACAC
65 TACTTATATACAC
* * *
16803933 ATACATTTTCGAATT-TAACATATA-CATATATAATTTCATACTTATACTC-AATATAAGCAATT
1 ATACATATTCG-ATTCTAACATATAGCATATATAATTTCATACTTACACTCGAA-ACAAGCAATT
* *
16803995 ATACATATATATAC
64 ATACTTATATACAC
* * * * *
16804009 ATGCTTATTCGATCCAAACATATA-CAAATATA
1 ATACATATTCGATTCTAACATATAGCATATATA
16804041 TTATACATAA
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
75 4 0.04
76 63 0.71
78 19 0.21
79 3 0.03
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (77 bp):
ATACATATTCGATTCTAACATATAGCATATATAATTTCATACTTACACTCGAAACAAGCAATTAT
ACTTATATACAC
Found at i:16804020 original size:76 final size:76
Alignment explanation
Indices: 16803785--16804020 Score: 203
Period size: 76 Copynumber: 3.1 Consensus size: 76
16803775 TACATTTAAC
* * * **
16803785 ATTCGAATCTCACATATACTTATATAATTTCATAACCCAT-TTCAATACAA-AAACTTATACATG
1 ATTCGAATTTAACATATACATATATAATTTCAT-ACTTATATTCAATACAAGAAA-TTATACATG
* * *
16803848 TACATATATACAT
64 TATATACATACTT
* * * * *
16803861 ATTCG-ATTCTAACATATATGCATATATAATTTTATACTTACATTCGAA-ACAAGTACTTATACT
1 ATTCGAATT-TAACATATA--CATATATAATTTCATACTTATATTC-AATACAAGAAATTATACA
*
16803924 TGTATACACATACATT
62 TGTATATACATAC-TT
* * * *
16803940 -TTCGAATTTAACATATACATATATAATTTCATACTTATACTCAATATAAGCAATTATACATATA
1 ATTCGAATTTAACATATACATATATAATTTCATACTTATATTCAATACAAGAAATTATACATGTA
*
16804004 TATACATGCTT
66 TATACATACTT
16804015 ATTCGA
1 ATTCGA
16804021 TCCAAACATA
Statistics
Matches: 126, Mismatches: 24, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
75 6 0.05
76 61 0.48
77 3 0.02
78 49 0.39
79 7 0.06
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (76 bp):
ATTCGAATTTAACATATACATATATAATTTCATACTTATATTCAATACAAGAAATTATACATGTA
TATACATACTT
Found at i:16804265 original size:78 final size:78
Alignment explanation
Indices: 16804148--16804425 Score: 470
Period size: 78 Copynumber: 3.6 Consensus size: 78
16804138 ACACTCAACA
*
16804148 TTAACTAAATTCAA-AACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16804212 AACATACATACTT
66 AACATACATACTT
16804225 TTAACTAAATTCAAGAA-TTCATTCATGTATATACATATATATCCGAACTTTATATATATAAATA
1 TTAACTAAATTCAAGAACTT-ATTCATGTATATACATATATATCCGAACTTTATATATATAAATA
*
16804289 TAACATACATACTG
65 TAACATACATACTT
* * *
16804303 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATTCGAGCTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16804368 AACATACATACTT
66 AACATACATACTT
*
16804381 TTAACTAAATTCAAGAACTTATACATGTATATACATATATTATCC
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATA-TATCC
16804426 ACTATTAGTT
Statistics
Matches: 189, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
77 16 0.08
78 167 0.88
79 6 0.03
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.38
Consensus pattern (78 bp):
TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
AACATACATACTT
Found at i:16809896 original size:78 final size:77
Alignment explanation
Indices: 16809743--16809908 Score: 183
Period size: 76 Copynumber: 2.2 Consensus size: 77
16809733 ATGTACATAT
* * * *
16809743 ATACATATTCGAATCTAACATATATGCATATATAATTTTATACTTACATTCGAAAAAAGTACTTA
1 ATACATATTCGAATCTAACATATA-GCATATATAATTTCATACTTACACTCGAAAAAAGCAATTA
*
16809808 TACTTGTATACAC
65 TACTTATATACAC
* * * *
16809821 ATACATTTTCGAATTTAACATATA-CATATATAATTTCATACTTATACTC-AATATAAGCAATTA
1 ATACATATTCGAATCTAACATATAGCATATATAATTTCATACTTACACTCGAA-AAAAGCAATTA
* *
16809884 TACATATATATAC
65 TACTTATATACAC
* *
16809897 ATGCTTATTCGA
1 ATACATATTCGA
16809909 TCCAAACACA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
75 2 0.03
76 49 0.67
78 22 0.30
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (77 bp):
ATACATATTCGAATCTAACATATAGCATATATAATTTCATACTTACACTCGAAAAAAGCAATTAT
ACTTATATACAC
Found at i:16810153 original size:78 final size:78
Alignment explanation
Indices: 16810036--16810313 Score: 477
Period size: 78 Copynumber: 3.6 Consensus size: 78
16810026 ACATTCAACA
*
16810036 TTAACTAAATTCAA-AACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16810100 AACATACATACTT
66 AACATACATACTT
*
16810113 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16810178 AACATACATACTT
66 AACATACATACTT
* **
16810191 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATTTGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16810256 AACATACATACTT
66 AACATACATACTT
* *
16810269 TTAACTAAATTCAAGAACTTATACATTTATATACATATATTATCC
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATA-TATCC
16810314 ACTATTAGTT
Statistics
Matches: 190, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
77 14 0.07
78 173 0.91
79 3 0.02
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.40
Consensus pattern (78 bp):
TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
AACATACATACTT
Found at i:16812642 original size:7 final size:7
Alignment explanation
Indices: 16812630--16812654 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16812620 TTCAAGTATT
16812630 ATTTTCA
1 ATTTTCA
16812637 ATTTTCA
1 ATTTTCA
16812644 ATTTTCA
1 ATTTTCA
16812651 ATTT
1 ATTT
16812655 GTATGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTCA
Found at i:16819436 original size:20 final size:19
Alignment explanation
Indices: 16819413--16819451 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
16819403 ATTTTTATAT
*
16819413 AAATATATGTATATGATTTA
1 AAATATATATATAT-ATTTA
*
16819433 AAATATGTATATATATTTA
1 AAATATATATATATATTTA
16819452 TAGGTGTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (19 bp):
AAATATATATATATATTTA
Found at i:16824645 original size:12 final size:13
Alignment explanation
Indices: 16824616--16824640 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16824606 AATGAGTCAA
16824616 ATAAAAAAAGGGC
1 ATAAAAAAAGGGC
16824629 ATAAAAAAAGGG
1 ATAAAAAAAGGG
16824641 GTAAACATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.24, T:0.08
Consensus pattern (13 bp):
ATAAAAAAAGGGC
Found at i:16824879 original size:2 final size:2
Alignment explanation
Indices: 16824874--16824944 Score: 70
Period size: 2 Copynumber: 35.5 Consensus size: 2
16824864 CAAAAACAAA
* * * * *
16824874 AT AT AT AT AT GT GT AT AT AT AT TT AT AT AT AT GT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
16824916 AT TT AT AT AT AA AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16824945 AGCAAATCTA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
AT
Found at i:16824903 original size:22 final size:22
Alignment explanation
Indices: 16824875--16824941 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
16824865 AAAAACAAAA
16824875 TATATATATGTGTATATATATT
1 TATATATATGTGTATATATATT
16824897 TATATATATGTGTATATATATT
1 TATATATATGTGTATATATATT
*
16824919 TATATATAAATATGTATATATAT
1 TATATAT--ATGTGTATATATAT
16824942 ATAAGCAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
22 29 0.69
24 13 0.31
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
TATATATATGTGTATATATATT
Found at i:16824943 original size:12 final size:12
Alignment explanation
Indices: 16824874--16824943 Score: 86
Period size: 12 Copynumber: 5.8 Consensus size: 12
16824864 CAAAAACAAA
16824874 ATATATATATGT
1 ATATATATATGT
* *
16824886 GTATATATATTT
1 ATATATATATGT
*
16824898 ATATATATGTGT
1 ATATATATATGT
* *
16824910 ATATATATTTAT
1 ATATATATATGT
*
16824922 ATATAAATATGT
1 ATATATATATGT
16824934 ATATATATAT
1 ATATATATAT
16824944 AAGCAAATCT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (12 bp):
ATATATATATGT
Found at i:16825004 original size:37 final size:36
Alignment explanation
Indices: 16824928--16825017 Score: 92
Period size: 37 Copynumber: 2.4 Consensus size: 36
16824918 TTATATATAA
**
16824928 ATATGTATATATATATAAGCAAATCTAAAAAAAAGGT
1 ATATGTATATATATATAA-CAAATAAAAAAAAAAGGT
* *
16824965 ATATGTATATATATATAA-AATTAAAAAATATAAATGT
1 ATATGTATATATATATAACAAATAAAAAA-A-AAAGGT
*
16825002 ATATAGTATGTATATA
1 ATAT-GTATATATATA
16825018 AATGTATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
35 7 0.16
36 1 0.02
37 27 0.60
38 10 0.22
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (36 bp):
ATATGTATATATATATAACAAATAAAAAAAAAAGGT
Found at i:16825016 original size:21 final size:21
Alignment explanation
Indices: 16824992--16825058 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
16824982 AAATTAAAAA
16824992 ATATAAATGTATATAGTATGT
1 ATATAAATGTATATAGTATGT
* * *
16825013 ATATAAATGTATAAAATAT-A
1 ATATAAATGTATATAGTATGT
16825033 ATA-AAATGTATATAAGATATGT
1 ATATAAATGTATAT-AG-TATGT
16825055 ATAT
1 ATAT
16825059 GTATATCTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
19 9 0.25
20 4 0.11
21 20 0.56
22 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (21 bp):
ATATAAATGTATATAGTATGT
Found at i:16825022 original size:10 final size:10
Alignment explanation
Indices: 16824992--16825047 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
16824982 AAATTAAAAA
16824992 ATATAAATGT
1 ATATAAATGT
*
16825002 ATATAGTATGT
1 ATATA-AATGT
16825013 ATATAAATGT
1 ATATAAATGT
*
16825023 ATA-AAATAT
1 ATATAAATGT
16825032 A-ATAAAATGT
1 ATAT-AAATGT
16825042 ATATAA
1 ATATAA
16825048 GATATGTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 6 0.16
10 20 0.53
11 11 0.29
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.38
Consensus pattern (10 bp):
ATATAAATGT
Found at i:16830081 original size:23 final size:24
Alignment explanation
Indices: 16830051--16830101 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
16830041 CTCGAACCCC
* * *
16830051 AAAATT-AATCAAGGGCTGATATT
1 AAAATTAAATCAAAGGATGATATA
16830074 AAAATTAAATCAAAGGATGATATA
1 AAAATTAAATCAAAGGATGATATA
16830098 AAAA
1 AAAA
16830102 CATTTATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.55, C:0.06, G:0.14, T:0.25
Consensus pattern (24 bp):
AAAATTAAATCAAAGGATGATATA
Found at i:16830562 original size:14 final size:14
Alignment explanation
Indices: 16830543--16830572 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16830533 GATGTGTTTA
*
16830543 AAACTAAATTTACT
1 AAACTAAATTAACT
16830557 AAACTAAATTAACT
1 AAACTAAATTAACT
16830571 AA
1 AA
16830573 GAACTCAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (14 bp):
AAACTAAATTAACT
Found at i:16831443 original size:30 final size:31
Alignment explanation
Indices: 16831382--16831445 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
16831372 CACGAGTTGG
* *
16831382 CACATGGGCGTGTGTGTCCAACCCGTGTGGCT
1 CACATGGGCG-GTATGTCCAACCCGTATGGCT
* *
16831414 CACATGGGC-GTATGTCCAGCCTGTATGGCT
1 CACATGGGCGGTATGTCCAACCCGTATGGCT
16831444 CA
1 CA
16831446 TGAAATCTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 19 0.68
32 9 0.32
ACGTcount: A:0.16, C:0.28, G:0.31, T:0.25
Consensus pattern (31 bp):
CACATGGGCGGTATGTCCAACCCGTATGGCT
Found at i:16834391 original size:21 final size:21
Alignment explanation
Indices: 16834367--16834410 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
16834357 AATATTAATA
*
16834367 CTCATTCATCAATCTTAAATT
1 CTCAATCATCAATCTTAAATT
* * *
16834388 CTCAATCCTCAATTTTCAATT
1 CTCAATCATCAATCTTAAATT
16834409 CT
1 CT
16834411 TAATTTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (21 bp):
CTCAATCATCAATCTTAAATT
Found at i:16834394 original size:14 final size:14
Alignment explanation
Indices: 16834370--16834435 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
16834360 ATTAATACTC
*
16834370 ATTCATCAATCTTAA
1 ATTC-TCAATCTTCA
*
16834385 ATTCTCAATCCTCA
1 ATTCTCAATCTTCA
*
16834399 ATTTTCAATTCTT-A
1 ATTCTCAA-TCTTCA
* * *
16834413 ATTTTTAATTTTCA
1 ATTCTCAATCTTCA
16834427 ATTCTCAAT
1 ATTCTCAAT
16834436 TATTTTTTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
13 3 0.07
14 31 0.76
15 7 0.17
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTCTCAATCTTCA
Found at i:16836702 original size:20 final size:21
Alignment explanation
Indices: 16836650--16836702 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
16836640 ATTATCGAGT
16836650 CTCATGTGTCATATTTCAGGCAC
1 CTCATGTGTC--ATTTCAGGCAC
*
16836673 CTCGTGTGTCATTTCAGGCA-
1 CTCATGTGTCATTTCAGGCAC
*
16836693 CTTATGTGTC
1 CTCATGTGTC
16836703 GTATACTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.30
21 10 0.37
23 9 0.33
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (21 bp):
CTCATGTGTCATTTCAGGCAC
Found at i:16839560 original size:34 final size:35
Alignment explanation
Indices: 16839516--16839582 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
16839506 CAGTAAAATA
*
16839516 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
16839550 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
16839583 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:16841039 original size:2 final size:2
Alignment explanation
Indices: 16841032--16841061 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16841022 TGAAATTCAG
16841032 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16841062 GGATAAACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16844832 original size:17 final size:17
Alignment explanation
Indices: 16844796--16844833 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
16844786 ATTATTTTAA
*
16844796 TAATTTAATATTAAATT
1 TAATTTAATATTAAACT
16844813 TAATTTAATACTT-AACT
1 TAATTTAATA-TTAAACT
16844830 TAAT
1 TAAT
16844834 AGTGTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTTAATATTAAACT
Found at i:16856666 original size:36 final size:36
Alignment explanation
Indices: 16856626--16856694 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
16856616 GAATTCTTTC
16856626 TTCTTAATTTTCCAACTCCTATCCAGCAACCAAACA
1 TTCTTAATTTTCCAACTCCTATCCAGCAACCAAACA
* * * *
16856662 TTCTTGATTTTCCAGCTTCTGTCCAGCAACCAA
1 TTCTTAATTTTCCAACTCCTATCCAGCAACCAA
16856695 GCACTTAGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.28, C:0.32, G:0.07, T:0.33
Consensus pattern (36 bp):
TTCTTAATTTTCCAACTCCTATCCAGCAACCAAACA
Found at i:16859270 original size:11 final size:11
Alignment explanation
Indices: 16859256--16859331 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
16859246 GATAATCACT
16859256 TTAATATTAAA
1 TTAATATTAAA
16859267 TTAATA--AAA
1 TTAATATTAAA
*
16859276 -TACTATTAAGA
1 TTAATATTAA-A
*
16859287 TAAATATTAAA
1 TTAATATTAAA
16859298 TTAA-ATTTAATA
1 TTAATA-TTAA-A
16859310 TTAAATTATTAAA
1 TT-AA-TATTAAA
*
16859323 ATAATATTA
1 TTAATATTA
16859332 TTTTTAGAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 20 0.39
12 12 0.24
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:16859309 original size:17 final size:17
Alignment explanation
Indices: 16859224--16859317 Score: 63
Period size: 17 Copynumber: 5.5 Consensus size: 17
16859214 GTAGATAAAC
*
16859224 ATTACATTAAATTTAAT
1 ATTAAATTAAATTTAAT
16859241 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAA--A-TTTAAT
**
16859261 ATTAAATT-AATAAAAT
1 ATTAAATTAAATTTAAT
* *
16859277 ACT--ATTAAGA-TAAAT
1 ATTAAATTAA-ATTTAAT
16859292 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
16859309 ATTAAATTA
1 ATTAAATTA
16859318 TTAAAATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 3 0.05
15 7 0.12
16 8 0.13
17 26 0.43
18 1 0.02
19 3 0.05
20 12 0.20
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (17 bp):
ATTAAATTAAATTTAAT
Found at i:16864327 original size:40 final size:40
Alignment explanation
Indices: 16864277--16864365 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 40
16864267 TTAAATCAAT
** *
16864277 AAAA-TATAAAA-AATATTAAATAGAGAAATATTTTTAAA
1 AAAATTATAAAATAATAAAAAATAAAGAAATATTTTTAAA
* * *
16864315 AAATATTATAAAATATTAAAAAATAAAGAATTTTTTTTAAA
1 AAA-ATTATAAAATAATAAAAAATAAAGAAATATTTTTAAA
16864356 AAAATTATAA
1 AAAATTATAA
16864366 TATTTATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
38 3 0.07
39 1 0.02
40 14 0.33
41 24 0.57
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (40 bp):
AAAATTATAAAATAATAAAAAATAAAGAAATATTTTTAAA
Found at i:16864329 original size:10 final size:10
Alignment explanation
Indices: 16864310--16864339 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
16864300 AGAAATATTT
16864310 TTAAAAAATA
1 TTAAAAAATA
*
16864320 TTATAAAATA
1 TTAAAAAATA
16864330 TTAAAAAATA
1 TTAAAAAATA
16864340 AAGAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TTAAAAAATA
Found at i:16869831 original size:124 final size:124
Alignment explanation
Indices: 16869623--16869916 Score: 435
Period size: 124 Copynumber: 2.4 Consensus size: 124
16869613 ATAGTTACAA
* * * * *
16869623 CGTTTTTGGTCAAAACGCCGCTAGTGCTTACCTTTTACGGCGTTTTCAGCAAAAATGCCACTAAA
1 CGTTTTTGGTCCAAACGCCACTATTGCTTACCTTTTGCGGCGTTTTCACCAAAAATGCCACTAAA
* * * *
16869688 AAATTAAATTCCTGTACTGAAACGGTGCCATTTTGAAAAATTTTAACACATAGTTGCGG
66 AAATTAAATTCCTGCACTGAAACGGCGCCATGTTGAAAAATGTTAACACATAGTTGCGG
* *
16869747 CGTTTTTGGTCCAAACGCCACTATTTCTTACCTTTTGTGGCGTTTTCACCAAAAATGCCACTAAA
1 CGTTTTTGGTCCAAACGCCACTATTGCTTACCTTTTGCGGCGTTTTCACCAAAAATGCCACTAAA
* * * *
16869812 AAATTAAATTCTTGCACTGAAACGGCGCCATGTTGAAAAATGTTAATACATATTTGTGG
66 AAATTAAATTCCTGCACTGAAACGGCGCCATGTTGAAAAATGTTAACACATAGTTGCGG
* *
16869871 CGTTTATAGTCCAAACGCCACTATTGCTTACCTTTTGCGGCGTTTT
1 CGTTTTTGGTCCAAACGCCACTATTGCTTACCTTTTGCGGCGTTTT
16869917 TCTCATAAAC
Statistics
Matches: 151, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
124 151 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (124 bp):
CGTTTTTGGTCCAAACGCCACTATTGCTTACCTTTTGCGGCGTTTTCACCAAAAATGCCACTAAA
AAATTAAATTCCTGCACTGAAACGGCGCCATGTTGAAAAATGTTAACACATAGTTGCGG
Found at i:16870029 original size:6 final size:6
Alignment explanation
Indices: 16870018--16870043 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
16870008 AAGATTTTAA
16870018 AATTTT AATTTT AATTTT AATTTT AA
1 AATTTT AATTTT AATTTT AATTTT AA
16870044 AAATGGTGTA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:16870914 original size:28 final size:28
Alignment explanation
Indices: 16870852--16870915 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
16870842 TTAAAATTAC
16870852 ACCCTAAACTGTAAACACTAAACTCTTA
1 ACCCTAAACTGTAAACACTAAACTCTTA
*
16870880 ACACTAAA-TGATAAACACTAAAC-CTTAA
1 ACCCTAAACTG-TAAACACTAAACTCTT-A
16870908 ACCCTAAA
1 ACCCTAAA
16870916 AATATATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.48, C:0.27, G:0.03, T:0.22
Consensus pattern (28 bp):
ACCCTAAACTGTAAACACTAAACTCTTA
Found at i:16870973 original size:7 final size:7
Alignment explanation
Indices: 16870963--16871029 Score: 50
Period size: 7 Copynumber: 9.6 Consensus size: 7
16870953 ATCTTAAATA
16870963 CTAAACT
1 CTAAACT
16870970 CTAAACT
1 CTAAACT
16870977 CTAAA-T
1 CTAAACT
* *
16870983 CCCAAACC
1 -CTAAACT
*
16870991 CCAAACT
1 CTAAACT
16870998 CTAAAC-
1 CTAAACT
16871004 CATAAAC-
1 C-TAAACT
16871011 CATAAACT
1 C-TAAACT
*
16871019 CAAAACT
1 CTAAACT
16871026 CTAA
1 CTAA
16871030 TTCAAAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
6 2 0.04
7 47 0.94
8 1 0.02
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACT
Found at i:16870981 original size:21 final size:21
Alignment explanation
Indices: 16870957--16871002 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
16870947 AAAAGAATCT
* * *
16870957 TAAATACTAAACTCTAAACTC
1 TAAATACCAAACCCCAAACTC
*
16870978 TAAATCCCAAACCCCAAACTC
1 TAAATACCAAACCCCAAACTC
16870999 TAAA
1 TAAA
16871003 CCATAAACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAATACCAAACCCCAAACTC
Found at i:16871017 original size:28 final size:28
Alignment explanation
Indices: 16870965--16871029 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
16870955 CTTAAATACT
*
16870965 AAACTCTAAACTCTAAATCCCAAACCCC
1 AAACTCTAAACTCTAAATCCCAAACCCA
* *
16870993 AAACTCTAAAC-CATAAA-CCATAAACTCA
1 AAACTCTAAACTC-TAAATCC-CAAACCCA
16871021 AAACTCTAA
1 AAACTCTAA
16871030 TTCAAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 3 0.09
28 29 0.91
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.18
Consensus pattern (28 bp):
AAACTCTAAACTCTAAATCCCAAACCCA
Found at i:16871305 original size:40 final size:40
Alignment explanation
Indices: 16871207--16871305 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
16871197 CGGTGTTTTC
* *
16871207 CAAAAAGCGCCACTAATGCTTGAACTATAGCAGCGTTTAT
1 CAAAAAGCGCCGCTAATGCTCGAACTATAGCAGCGTTTAT
* * *
16871247 CAAAAAGCGTCGCTAATGCTCGATCTATTGCAGCGTTTGA-
1 CAAAAAGCGCCGCTAATGCTCGAACTATAGCAGCGTTT-AT
* *
16871287 CATAAAGCGCCGCGAATGC
1 CAAAAAGCGCCGCTAATGC
16871306 AACTAAAGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
40 49 0.98
41 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAAAAGCGCCGCTAATGCTCGAACTATAGCAGCGTTTAT
Found at i:16871612 original size:40 final size:40
Alignment explanation
Indices: 16871562--16871686 Score: 133
Period size: 40 Copynumber: 3.1 Consensus size: 40
16871552 CGTTTTGCAG
* * * *
16871562 AAAGCGCCGCTAATGCTTGATCTATAGCGACGTTTCTGAA
1 AAAGCACCGCTAATGCTCGATCTATTGCGGCGTTTCTGAA
* * * * * *
16871602 AAAGCACCGCTAATTCTCGAGCTATTGTGGCATTTTTTAA
1 AAAGCACCGCTAATGCTCGATCTATTGCGGCGTTTCTGAA
* * *
16871642 AAAGCACTGCTAATGCTCGATCTTTTGCGGCGTTTGTGAA
1 AAAGCACCGCTAATGCTCGATCTATTGCGGCGTTTCTGAA
16871682 AAAGC
1 AAAGC
16871687 GTCGTTGATG
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (40 bp):
AAAGCACCGCTAATGCTCGATCTATTGCGGCGTTTCTGAA
Found at i:16871680 original size:195 final size:194
Alignment explanation
Indices: 16871342--16871709 Score: 472
Period size: 195 Copynumber: 1.9 Consensus size: 194
16871332 GTTGTTTTGT
* * * * * *
16871342 TCAACTTTTTTGTGGCGTTTTCCAAAATGCACCGCTAATGGTTGATCTATAGCGGCATTTTTTAG
1 TCAACTTTTTTATGGCGTTTTCCAAAATGCACCGCTAATGCTTGATCTATAGCGACATTTCTGAA
* * * * *
16871407 AAATAACCGCTAATGTTCGATCTATTGCGGCGCTTTTTAGTAAACGCCGAGAATGCTCGGTCTTT
66 AAAGAACCGCTAATGTTCGAGCTATTGCGGCACTTTTTAG-AAAAGCCGAGAATGCTCGATCTTT
16871472 TGCGGCATTTGTGAAAAAGCATCGCTGATGCCAATAAAGCTCACTGAAAAACAGCGTCGTTTTTC
130 TGCGGCATTTGTGAAAAAGCATCGCTGATGCCAATAAAGCTCACTGAAAAACAGCGTCGTTTTTC
* * *
16871537 TCAACTTTTTTATGGCGTTTTGCAGAAA-GCGCCGCTAATGCTTGATCTATAGCGACGTTTCTGA
1 TCAACTTTTTTATGGCGTTTTCCA-AAATGCACCGCTAATGCTTGATCTATAGCGACATTTCTGA
* * * **
16871601 AAAAGCACCGCTAAT-TCTCGAGCTATTGTGGCATTTTTTA-AAAAGCACTGCTAATGCTCGATC
65 AAAAGAACCGCTAATGT-TCGAGCTATTGCGGCACTTTTTAGAAAAGC-C-GAGAATGCTCGATC
* * *
16871664 TTTTGCGGCGTTTGTGAAAAAGCGTCGTTGATGCCAATAAAGCTCA
127 TTTTGCGGCATTTGTGAAAAAGCATCGCTGATGCCAATAAAGCTCA
16871710 ACGACATTGT
Statistics
Matches: 147, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
193 5 0.03
194 2 0.01
195 137 0.93
196 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (194 bp):
TCAACTTTTTTATGGCGTTTTCCAAAATGCACCGCTAATGCTTGATCTATAGCGACATTTCTGAA
AAAGAACCGCTAATGTTCGAGCTATTGCGGCACTTTTTAGAAAAGCCGAGAATGCTCGATCTTTT
GCGGCATTTGTGAAAAAGCATCGCTGATGCCAATAAAGCTCACTGAAAAACAGCGTCGTTTTTC
Found at i:16882839 original size:13 final size:13
Alignment explanation
Indices: 16882821--16882852 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16882811 TTTCCAGCAA
16882821 TTATGAATTTATT
1 TTATGAATTTATT
16882834 TTATGAATTTATT
1 TTATGAATTTATT
*
16882847 TGATGA
1 TTATGA
16882853 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:16883060 original size:50 final size:50
Alignment explanation
Indices: 16882947--16883188 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
16882937 ATTTGGGTAA
* * *
16882947 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
16883003 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
16883053 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
16883103 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
16883153 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
16883189 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:16883136 original size:100 final size:103
Alignment explanation
Indices: 16882947--16883196 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
16882937 ATTTGGGTAA
16882947 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
16883012 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
16883053 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
16883115 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
16883153 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
16883197 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:16886633 original size:19 final size:18
Alignment explanation
Indices: 16886601--16886639 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
16886591 TTAAACATGC
* *
16886601 TAAAAAATAGAAAATATT
1 TAAAAAATAAAAAAAATT
16886619 TAAAAGAATAAAAAAAATT
1 TAAAA-AATAAAAAAAATT
16886638 TA
1 TA
16886640 TTCAACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAAAAATAAAAAAAATT
Found at i:16886886 original size:18 final size:19
Alignment explanation
Indices: 16886856--16886892 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
16886846 AAAAATACAT
16886856 AAAAATGCTAAATT-TAAA
1 AAAAATGCTAAATTATAAA
16886874 AAAAAT-CTAAAATTATAAA
1 AAAAATGCT-AAATTATAAA
16886893 TTTAGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.12
18 11 0.65
19 4 0.24
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (19 bp):
AAAAATGCTAAATTATAAA
Found at i:16893709 original size:235 final size:235
Alignment explanation
Indices: 16893298--16893772 Score: 806
Period size: 235 Copynumber: 2.0 Consensus size: 235
16893288 TTACAAGGCA
* *
16893298 TGGCCTCAAGGGAGCCCCCTATACACATGAATGACACCCACACTTCTACCTCCACCTAGCGTTGT
1 TGGCCTCAAGGGAGCCCCCTATACACATGAACGACACCCACACCTCTACCTCCACCTAGCGTTGT
*
16893363 CTAGCTTGGCCCTCCACTTGATTCTTGAGTGAAAACCTTACCCTGCAAGTAAACAAACAATTTGT
66 CTAGCTTGGCCCTCCACTTGATTCTCGAGTGAAAACCTTACCCTGCAAGTAAACAAACAATTTGT
* ** *
16893428 AAGTTCAAATGAACTTAGTGAGATTCTATGTAATGACCGTATAACAAGATTCAAAACTTCAAGAA
131 AAGTTCAAATGAACTTAGTGAGATTCTATATAATGACAATATAACAAGATTCAAAACTTCAAAAA
**
16893493 ATGAAGTTTTAAATAGATATTTCAACTCCCTGGTCATCCT
196 ACAAAGTTTTAAATAGATATTTCAACTCCCTGGTCATCCT
*
16893533 TGGCCTCAAGGGAGCCCCCTATACACATGAACGACACCCACACCTCTACCTCCACCTAGTGTTGT
1 TGGCCTCAAGGGAGCCCCCTATACACATGAACGACACCCACACCTCTACCTCCACCTAGCGTTGT
* * *
16893598 CTAGCTTGGCCCTCTACTTGATTCTCGAGTGAAAACCTTATCCTGCAAGTAAGCAAACAATTTGT
66 CTAGCTTGGCCCTCCACTTGATTCTCGAGTGAAAACCTTACCCTGCAAGTAAACAAACAATTTGT
* *
16893663 AAGTTCAAATGAACTTAGTGAGATTCTGTATAATGACAATATAACAAGATTCAAAACTTTAAAAA
131 AAGTTCAAATGAACTTAGTGAGATTCTATATAATGACAATATAACAAGATTCAAAACTTCAAAAA
*
16893728 ACAAAGTTTTAAGTAGATATTTCAACTCCCTGGTCATCCT
196 ACAAAGTTTTAAATAGATATTTCAACTCCCTGGTCATCCT
16893768 TGGCC
1 TGGCC
16893773 ATTCGTAGAT
Statistics
Matches: 224, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
235 224 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (235 bp):
TGGCCTCAAGGGAGCCCCCTATACACATGAACGACACCCACACCTCTACCTCCACCTAGCGTTGT
CTAGCTTGGCCCTCCACTTGATTCTCGAGTGAAAACCTTACCCTGCAAGTAAACAAACAATTTGT
AAGTTCAAATGAACTTAGTGAGATTCTATATAATGACAATATAACAAGATTCAAAACTTCAAAAA
ACAAAGTTTTAAATAGATATTTCAACTCCCTGGTCATCCT
Found at i:16895403 original size:20 final size:20
Alignment explanation
Indices: 16895378--16895416 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
16895368 TTGCTTCATC
16895378 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
16895398 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
16895417 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:16895761 original size:50 final size:50
Alignment explanation
Indices: 16895619--16895813 Score: 151
Period size: 50 Copynumber: 3.9 Consensus size: 50
16895609 GATAATAACA
* ** ** * * *
16895619 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACATCTCATAT-CGG
* * * * * ** **
16895668 TGCCAATGTCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACATCTCATATCGG
* * * * *
16895718 TGCCCATGCCATGTCCCAGACATGGTTTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACATCTCATATCGG
* *
16895768 TGCCAACGCCATGTCCCAGACATGGTCTTATGTGGGACATCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACATCTCATA
16895814 ACCTCAATAA
Statistics
Matches: 116, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
48 1 0.01
49 37 0.32
50 78 0.67
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACATCTCATATCGG
Found at i:16901121 original size:21 final size:21
Alignment explanation
Indices: 16901080--16901121 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16901070 TGAGTCAAAA
**
16901080 ATTTTCAAAAATGTTTTAATT
1 ATTTTCAAAAATGTTAGAATT
16901101 ATTTTCAAACAA-GTTAGAATT
1 ATTTTCAAA-AATGTTAGAATT
16901122 GCTCTAGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (21 bp):
ATTTTCAAAAATGTTAGAATT
Found at i:16905514 original size:22 final size:22
Alignment explanation
Indices: 16905489--16905548 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 22
16905479 ATTTCTTTTT
16905489 TTAGTTTTTTTTATTCAGTTCA
1 TTAGTTTTTTTTATTCAGTTCA
* *
16905511 TTAGTTATTATTATTATTCTGTTTA
1 TTAGTT-TT-TT-TTATTCAGTTCA
*
16905536 TTA-TTTCTTTTAT
1 TTAGTTTTTTTTAT
16905549 ACATACCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 4 0.12
22 8 0.25
23 3 0.09
24 4 0.12
25 13 0.41
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (22 bp):
TTAGTTTTTTTTATTCAGTTCA
Found at i:16905721 original size:51 final size:51
Alignment explanation
Indices: 16905619--16905781 Score: 118
Period size: 51 Copynumber: 3.3 Consensus size: 51
16905609 ATTTTTATAA
* ** *
16905619 TATATATATACACACATATACATATATATATCTTTGTAACTTATTTGTATG
1 TATATATATATACACATATACATATATATATCTTTGTAACTTACATATATG
* * * * * *
16905670 TATATATATATACTCATATTCTTATATATATGTTTTTAATTTACATATATG
1 TATATATATATACACATATACATATATATATCTTTGTAACTTACATATATG
* * * * * * * * *
16905721 TCTACATATAT-C-TATATACCTAT-TTTATTTTTGTAA-ATGCATATATA
1 TATATATATATACACATATACATATATATATCTTTGTAACTTACATATATG
*
16905768 TACATATATATACA
1 TATATATATATACA
16905782 TCTTTTTATA
Statistics
Matches: 86, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
47 16 0.19
48 11 0.13
49 8 0.09
50 1 0.01
51 50 0.58
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (51 bp):
TATATATATATACACATATACATATATATATCTTTGTAACTTACATATATG
Found at i:16905820 original size:30 final size:30
Alignment explanation
Indices: 16905786--16905842 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
16905776 TATACATCTT
16905786 TTTATATATATT-TTAATTTTATTCATTCTC
1 TTTATATAT-TTATTAATTTTATTCATTCTC
* * *
16905816 TTTATTTATTTATTTATTTTTTTCATT
1 TTTATATATTTATTAATTTTATTCATT
16905843 AGTGTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (30 bp):
TTTATATATTTATTAATTTTATTCATTCTC
Found at i:16910161 original size:17 final size:18
Alignment explanation
Indices: 16910123--16910162 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
16910113 GTAGTTATCA
16910123 CAATTTTTATTAAATTAT
1 CAATTTTTATTAAATTAT
16910141 -AATTATTT-TTAAA-TAT
1 CAATT-TTTATTAAATTAT
16910157 CAATTT
1 CAATTT
16910163 AGTAATAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
16 4 0.20
17 13 0.65
18 3 0.15
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
CAATTTTTATTAAATTAT
Found at i:16914857 original size:54 final size:54
Alignment explanation
Indices: 16914733--16914859 Score: 137
Period size: 54 Copynumber: 2.4 Consensus size: 54
16914723 GATTGAAGGA
* * * * * *
16914733 CTGTCTCGCGAACAGGTGATTGGCAAATTGTCTCACGAATAGGTGACTAACGGG
1 CTGTCTCACTAACAGGTGATTGGCAAACTATCTCACGAACAGGTGACTAACAGG
* * * * * *
16914787 CTGTCTCATTATCAGGTGATTGGCAGACTATTTCCCGAACAGGTGACTGACAGG
1 CTGTCTCACTAACAGGTGATTGGCAAACTATCTCACGAACAGGTGACTAACAGG
*
16914841 CTGTCTTACTAACAGGTGA
1 CTGTCTCACTAACAGGTGA
16914860 CCAACAGACT
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (54 bp):
CTGTCTCACTAACAGGTGATTGGCAAACTATCTCACGAACAGGTGACTAACAGG
Found at i:16919282 original size:17 final size:18
Alignment explanation
Indices: 16919251--16919284 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16919241 GTGATGTATC
*
16919251 TTATGAAATTCACTTATG
1 TTATGAAATTAACTTATG
16919269 TTAT-AAATTAACTTAT
1 TTATGAAATTAACTTAT
16919285 ATGTGATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (18 bp):
TTATGAAATTAACTTATG
Found at i:16923667 original size:13 final size:14
Alignment explanation
Indices: 16923651--16923681 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
16923641 TAAATAAAAC
16923651 TTAATTAAAATT-A
1 TTAATTAAAATTAA
16923664 TTAATTAAAATTAA
1 TTAATTAAAATTAA
16923678 TTAA
1 TTAA
16923682 AAGTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAATTAAAATTAA
Found at i:16925856 original size:41 final size:42
Alignment explanation
Indices: 16925797--16925895 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
16925787 GATCTCAGTA
* * *
16925797 TCGCACATTTAGTGCCCGTTCTTC-ACATCGTCATTTTAGTT
1 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAGTT
*
16925838 TTGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAGTT
1 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAGTT
*
16925880 TCACACACTTAGTGCC
1 TCGCACACTTAGTGCC
16925896 ATTCATATAG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 21 0.41
42 30 0.59
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.38
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAGTT
Found at i:16927619 original size:43 final size:43
Alignment explanation
Indices: 16927571--16927800 Score: 216
Period size: 43 Copynumber: 5.4 Consensus size: 43
16927561 ATTTCCTTAG
* * *
16927571 GTTTATCTAATGATGCACTATTTGTGCCAATATGATTGCTTCA
1 GTTTATCTGATGATGCACTATGTGTGCCAGTATGATTGCTTCA
* * * * **
16927614 ATTTATTTGATGATGCACTATGCGTGCCAGTATGAAAT-CTTTG
1 GTTTATCTGATGATGCACTATGTGTGCCAGTATG-ATTGCTTCA
* * *
16927657 GTTTATCCGATGATGTACTATGTGTGCTAGTATGATTGCTTCA
1 GTTTATCTGATGATGCACTATGTGTGCCAGTATGATTGCTTCA
* * * **
16927700 GTTAATCTGATGATCCACTATGTGTGTCAGTATGATTGCTTTG
1 GTTTATCTGATGATGCACTATGTGTGCCAGTATGATTGCTTCA
* * *
16927743 GTTTATTTGATGATGCACTATGTGT-ACAGTAT-ATTTCCTTC-
1 GTTTATCTGATGATGCACTATGTGTGCCAGTATGA-TTGCTTCA
*
16927784 GATTTATTTGATGATGC
1 G-TTTATCTGATGATGC
16927801 TTTGCGTTGC
Statistics
Matches: 151, Mismatches: 32, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
41 2 0.01
42 28 0.19
43 119 0.79
44 2 0.01
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (43 bp):
GTTTATCTGATGATGCACTATGTGTGCCAGTATGATTGCTTCA
Done.