Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 154 of 185
Found at i:46487777 original size:17 final size:17
Alignment explanation
Indices: 46487755--46487788 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46487745 GATATGATAC
46487755 ATAGTATAAATTATAAA
1 ATAGTATAAATTATAAA
46487772 ATAGTATAAATTATAAA
1 ATAGTATAAATTATAAA
46487789 TAAATCGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
ATAGTATAAATTATAAA
Found at i:46502575 original size:14 final size:15
Alignment explanation
Indices: 46502552--46502589 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
46502542 CCAGAAAAGT
46502552 AAAA-CATTTTCCA-
1 AAAATCATTTTCCAG
46502565 AAAATCATTTTCCAG
1 AAAATCATTTTCCAG
46502580 AAAAT-ATTTT
1 AAAATCATTTT
46502590 ACTGGAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 14 0.61
15 5 0.22
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.37
Consensus pattern (15 bp):
AAAATCATTTTCCAG
Found at i:46514256 original size:8 final size:8
Alignment explanation
Indices: 46514243--46514268 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
46514233 TATAAGCTCC
46514243 CTCACTCT
1 CTCACTCT
46514251 CTCACTCT
1 CTCACTCT
46514259 CTCACTCT
1 CTCACTCT
46514267 CT
1 CT
46514269 AAGTGAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.50, G:0.00, T:0.38
Consensus pattern (8 bp):
CTCACTCT
Found at i:46516967 original size:12 final size:14
Alignment explanation
Indices: 46516940--46516968 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
46516930 ATTCATTTAA
46516940 TTTTAATATAATTT
1 TTTTAATATAATTT
46516954 TTTTAAT-TAATTT
1 TTTTAATATAATTT
46516967 TT
1 TT
46516969 AAAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTAATATAATTT
Found at i:46517187 original size:14 final size:14
Alignment explanation
Indices: 46517168--46517198 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
46517158 TAAATGATTT
46517168 TTTAATTAATTAAA
1 TTTAATTAATTAAA
46517182 TTTAATTAATTAAA
1 TTTAATTAATTAAA
46517196 TTT
1 TTT
46517199 TCTAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:46519458 original size:15 final size:16
Alignment explanation
Indices: 46519433--46519467 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
46519423 TTTTAAATAT
46519433 TTATCATTATTTATTA
1 TTATCATTATTTATTA
46519449 TTAT-ATTATTTATTA
1 TTATCATTATTTATTA
46519464 TTAT
1 TTAT
46519468 TGTTACTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATCATTATTTATTA
Found at i:46522375 original size:3 final size:3
Alignment explanation
Indices: 46522367--46522403 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
46522357 ATTTATTTTC
46522367 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
46522404 TTGTTTTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:46529484 original size:21 final size:21
Alignment explanation
Indices: 46529458--46529508 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
46529448 TTTCCCTAAG
* *
46529458 ATGTAACTTGGATTGAATTGA
1 ATGTAAATTGGATTAAATTGA
*
46529479 ATGTAAATTGTATTAAATTG-
1 ATGTAAATTGGATTAAATTGA
46529499 ATGTTAAATT
1 ATG-TAAATT
46529509 TACTCGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (21 bp):
ATGTAAATTGGATTAAATTGA
Found at i:46530001 original size:24 final size:24
Alignment explanation
Indices: 46529956--46530023 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
46529946 CTTCCTGTTA
* * *
46529956 TAAG-GCTATTCGGTGCTTCCCGT
1 TAAGTGCTCTTCGGAGCTACCCGT
46529979 TAAGTGCTCTTCGGAGCTACCCGT
1 TAAGTGCTCTTCGGAGCTACCCGT
* *
46530003 TAATTGCTCTTCGGAGATACC
1 TAAGTGCTCTTCGGAGCTACC
46530024 AATTATAGGC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 4 0.10
24 35 0.90
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (24 bp):
TAAGTGCTCTTCGGAGCTACCCGT
Found at i:46532611 original size:46 final size:46
Alignment explanation
Indices: 46532474--46532612 Score: 224
Period size: 46 Copynumber: 3.0 Consensus size: 46
46532464 TGGCAAAGTG
* * *
46532474 TGAAACGTAGGTATCGTATTTCAGTGAAGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTTA
* *
46532520 TGAAAAATAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTA
1 TGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTTA
*
46532566 TGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGTTA
1 TGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTTA
46532612 T
1 T
46532613 AGCAGTGTGA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.29
Consensus pattern (46 bp):
TGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTTA
Found at i:46541835 original size:49 final size:48
Alignment explanation
Indices: 46541745--46541841 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 48
46541735 TTTCTTTGCT
* *
46541745 TAAAAACGCCTAAGTCAGCCTAACTCACAATGATAACGGATTCAACAG
1 TAAAAACACCTAAGTCAGCCTAACTCACAATGATAAAGGATTCAACAG
* * *
46541793 TAAAAACACCTAAGTTAGCTTAATCTCGCAATGATAAAGGATTCAACAG
1 TAAAAACACCTAAGTCAGCCTAA-CTCACAATGATAAAGGATTCAACAG
46541842 AATTCCCTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 20 0.47
49 23 0.53
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (48 bp):
TAAAAACACCTAAGTCAGCCTAACTCACAATGATAAAGGATTCAACAG
Found at i:46543158 original size:23 final size:24
Alignment explanation
Indices: 46543115--46543166 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 24
46543105 AAATTGAAAG
46543115 TTAAATACCAAAATGATAAAAAAA
1 TTAAATACCAAAATGATAAAAAAA
*
46543139 TTAAAT-CTAAAAT-ATAAAAAAA
1 TTAAATACCAAAATGATAAAAAAA
46543161 -TAAATA
1 TTAAATA
46543167 TTTAAAGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 5 0.19
22 9 0.35
23 6 0.23
24 6 0.23
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (24 bp):
TTAAATACCAAAATGATAAAAAAA
Found at i:46543549 original size:32 final size:29
Alignment explanation
Indices: 46543513--46543580 Score: 57
Period size: 32 Copynumber: 2.2 Consensus size: 29
46543503 AATTAGTAAA
* *
46543513 GATAAAATTAT-ACTTTAATTCACTTTAAAAAT
1 GATAAAATT-TGA-TTTAATTC-TTTAAAAA-T
46543545 GATAAAAATTTGATTTAATTCTTTAAAAAT
1 GATA-AAATTTGATTTAATTCTTTAAAAAT
*
46543575 TATAAA
1 GATAAA
46543581 GATAGATGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
29 2 0.06
30 4 0.13
31 6 0.19
32 13 0.42
33 6 0.19
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (29 bp):
GATAAAATTTGATTTAATTCTTTAAAAAT
Found at i:46545377 original size:25 final size:24
Alignment explanation
Indices: 46545328--46545377 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
46545318 TAATTAACAC
*
46545328 AAAAAAATATAAAATAATTAAGATT
1 AAAAAAATATAAAAAAATT-AGATT
46545353 AAAAAAATATTAATAAAAATT-GATT
1 AAAAAAATA-TAA-AAAAATTAGATT
46545378 TTGTGAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 13 0.59
26 3 0.14
27 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAAAAATATAAAAAAATTAGATT
Found at i:46547879 original size:16 final size:16
Alignment explanation
Indices: 46547847--46547881 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
46547837 GGTTGGAGTG
* *
46547847 AATGGAATAGGGCTGT
1 AATGGAATAGAGATGT
46547863 AATGGAATAGAGATGT
1 AATGGAATAGAGATGT
46547879 AAT
1 AAT
46547882 CAGCAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.31, T:0.26
Consensus pattern (16 bp):
AATGGAATAGAGATGT
Found at i:46548272 original size:26 final size:29
Alignment explanation
Indices: 46548236--46548301 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
46548226 ATTAAAGTAT
46548236 TTTTATATATTTG-GAATTTAATT-TTTATA
1 TTTT-TAT-TTTGAGAATTTAATTCTTTATA
*
46548265 TTTTTATTTTGAAGAATTTAATTCCTTTATT
1 TTTTTATTTTG-AGAATTTAATT-CTTTATA
46548296 TTTTTA
1 TTTTTA
46548302 ATTTAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 4 0.12
28 3 0.09
29 14 0.44
31 11 0.34
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (29 bp):
TTTTTATTTTGAGAATTTAATTCTTTATA
Found at i:46548311 original size:29 final size:29
Alignment explanation
Indices: 46548249--46548312 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
46548239 TATATATTTG
*
46548249 GAATTTAATTTTTATATTTTTATTTTGAA
1 GAATTTAATTTTTATATTTTTAATTTGAA
*
46548278 GAATTTAATTCCTTTATTTTTTTAATTT-AA
1 GAATTTAATT--TTTATATTTTTAATTTGAA
46548308 -AATTT
1 GAATTT
46548313 TAAGCTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 15 0.48
30 2 0.06
31 14 0.45
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (29 bp):
GAATTTAATTTTTATATTTTTAATTTGAA
Found at i:46549317 original size:22 final size:23
Alignment explanation
Indices: 46549292--46549334 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
46549282 ATTGATTTAA
46549292 AATTA-TATTTCAAGATATTAGT
1 AATTACTATTTCAAGATATTAGT
* *
46549314 AATTACTTTTTCAATATATTA
1 AATTACTATTTCAAGATATTA
46549335 TTATTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.49
Consensus pattern (23 bp):
AATTACTATTTCAAGATATTAGT
Found at i:46549999 original size:98 final size:98
Alignment explanation
Indices: 46549876--46550070 Score: 338
Period size: 98 Copynumber: 2.0 Consensus size: 98
46549866 ATACAATAAA
*
46549876 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATC
46549941 CCTTTAGAAT-TCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCT-CAAACTCGGAATATTTCCTTT
* * *
46549974 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATC
46550039 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
46550071 CATGATTTTT
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 91 0.99
99 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATC
CCTTTAGAATCTCAAACTCGGAATATTTCCTTT
Found at i:46550774 original size:25 final size:26
Alignment explanation
Indices: 46550744--46550793 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
46550734 ATATAAATAT
46550744 GAAAATATTC-ATTAAAAAAATATAG
1 GAAAATATTCGATTAAAAAAATATAG
* *
46550769 GAAAATATTCGTTTTAAAAAATATA
1 GAAAATATTCGATTAAAAAAATATA
46550794 TATACATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (26 bp):
GAAAATATTCGATTAAAAAAATATAG
Found at i:46551573 original size:19 final size:19
Alignment explanation
Indices: 46551549--46551680 Score: 219
Period size: 19 Copynumber: 6.8 Consensus size: 19
46551539 AATCATATAT
46551549 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
46551568 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
46551587 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46551606 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
46551627 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
46551646 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46551665 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
46551681 CTCAAAAATT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
19 86 0.82
21 19 0.18
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:46551633 original size:59 final size:59
Alignment explanation
Indices: 46551542--46551679 Score: 221
Period size: 59 Copynumber: 2.4 Consensus size: 59
46551532 ATTACAAAAT
*
46551542 CATAT-AT-TCTAAGATTGC--ATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
* *
46551597 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
46551656 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
46551680 CCTCAAAAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 11 0.14
59 58 0.76
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:46552003 original size:44 final size:43
Alignment explanation
Indices: 46551865--46552411 Score: 252
Period size: 44 Copynumber: 12.7 Consensus size: 43
46551855 CAGTCTACCT
* * * * *
46551865 CACTGCAACTTCA-GGACGATAAGA-CTTGCTTATTTAGTATGCTT
1 CACTGCAACTTCAGGGA-GATAAGATCTAG-GT-TTTAATCTGCTC
* * ***
46551909 CACTACAACTTCAGGGAGATAAGA-CTA-GATGCGATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGATCTAGGTTTTAATCTGCTC
* * *
46551949 CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGATCT-AGGTTTTAATCTGCTC
* * * * *
46551993 CACTGCAACTTCAGGAAGATAGGAT-TATCAGCTTTAATCTACTC
1 CACTGCAACTTCAGGGAGATAAGATCTA--GGTTTTAATCTGCTC
* * * *
46552037 CACTACAACTTCAGGGAGATAAGA-CT-TGTCATCTTCAGTCTGCCC
1 CACTGCAACTTCAGGGAGATAAGATCTAGGT--T-TT-AATCTGCTC
* * *
46552082 CACTGCAACTTCA-GGAGGATAAGA-CTTGCTTACTTAGTCTGCTC
1 CACTGCAACTTCAGGGA-GATAAGATCTAGGTT--TTAATCTGCTC
* * *** *
46552126 CACTGCAACTTCAGGGAGATAAGAT-T-TGATGCGATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGATCTAGGTTTTAATCTGCTC
* * **
46552167 CACTGTAACTTCAGGGAGATAGGAT-TATCGACTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATCTA--GGTTTTAATCTGCTC
* * * * * *
46552211 CATTGCAACTTCAGGGAGGTAAGA-CTTGCCATCTTCAGTCTGC-C
1 CACTGCAACTTCAGGGAGATAAGATCTAG--GT-TTTAATCTGCTC
* * * *
46552255 CTACTGCAACTTGA-GGAGGATAAGA-CTTGCTTACTTAGTCTGCTC
1 C-ACTGCAACTTCAGGGA-GATAAGATCTAGGTT--TTAATCTGCTC
* ***
46552300 CACTGCAACTTCAGGGAGATAAGA-CTA-GATGCGATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGATCTAGGTTTTAATCTGCTC
** * *
46552340 CTTTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTACTC
1 CACTGCAACTTCAGGGAGATAAGATCT-AGGTTTTAATCTGCTC
* *
46552384 CACTGTAACTTCAGGGAGATAGGATCTA
1 CACTGCAACTTCAGGGAGATAAGATCTA
46552412 CAATCTTCAA
Statistics
Matches: 381, Mismatches: 88, Indels: 69
0.71 0.16 0.13
Matches are distributed among these distances:
40 42 0.11
41 47 0.12
42 5 0.01
43 22 0.06
44 195 0.51
45 69 0.18
46 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
CACTGCAACTTCAGGGAGATAAGATCTAGGTTTTAATCTGCTC
Found at i:46552127 original size:89 final size:89
Alignment explanation
Indices: 46552034--46552325 Score: 357
Period size: 89 Copynumber: 3.3 Consensus size: 89
46552024 CTTTAATCTA
*
46552034 CTCCACTACAACTTCAGGGAGATAAGACTTGTCATCTTCAGTCTGCCCCACTGCAACTTCAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTCATCTTCAGTCTGCCCCACTGCAACTTCAGGAG
46552099 GATAAGACTTGCTTACTTAGTCTG
66 GATAAGACTTGCTTACTTAGTCTG
* * * * *
46552123 CTCCACTGCAACTTCAGGGAGATAAGA-TT-TGA--TGC-GATCCGCTCCACTGTAACTTCAGG-
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTCATCTTCAG-TCTGCCCCACTGCAACTTCAGGA
* * * *
46552182 GAGATAGGA-TT-ATCGACTTTAATCTG
65 G-GATAAGACTTGCT-TAC-TTAGTCTG
* * * * *
46552208 CTCCATTGCAACTTCAGGGAGGTAAGACTTGCCATCTTCAGTCTGCCCTACTGCAACTTGAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTCATCTTCAGTCTGCCCCACTGCAACTTCAGGAG
46552273 GATAAGACTTGCTTACTTAGTCTG
66 GATAAGACTTGCTTACTTAGTCTG
46552297 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
46552326 AGATGCGATC
Statistics
Matches: 165, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
83 1 0.01
84 6 0.04
85 59 0.36
86 2 0.01
87 3 0.02
88 2 0.01
89 85 0.52
90 6 0.04
91 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (89 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTCATCTTCAGTCTGCCCCACTGCAACTTCAGGAG
GATAAGACTTGCTTACTTAGTCTG
Found at i:46552181 original size:174 final size:174
Alignment explanation
Indices: 46551985--46552404 Score: 616
Period size: 174 Copynumber: 2.4 Consensus size: 174
46551975 TAAGGTTTTA
*
46551985 ATCCGCTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTTTAATCTACTCCACTACAACTTCA
1 ATCCGCTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTTTAATCTACTCCACTGCAACTTCA
*
46552050 GGGAGATAAGACTTGTCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTAC
66 GGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTAC
* *
46552115 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGATGCG
131 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
* * * *
46552159 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATC-GACTTTAATCTGCTCCATTGCAACTTC
1 ATCCGCTCCACTGCAACTTCAGGAAGATAGGATTATCAG-CTTTAATCTACTCCACTGCAACTTC
* * *
46552223 AGGGAGGTAAGACTTGCCATCTTCAGTCTGCCCTACTGCAACTTGAGGAGGATAAGACTTGCTTA
65 AGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTA
46552288 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
130 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
* ** * * *
46552333 ATCTGCT-CTTTGCAACTTCA-GAGAGATAAGATCTA--AGGTTTTAATCTACTCCACTGTAACT
1 ATCCGCTCCACTGCAACTTCAGGA-AGATAGGAT-TATCA-GCTTTAATCTACTCCACTGCAACT
46552394 TCAGGGAGATA
63 TCAGGGAGATA
46552405 GGATCTACAA
Statistics
Matches: 219, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
172 1 0.00
173 48 0.22
174 170 0.78
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (174 bp):
ATCCGCTCCACTGCAACTTCAGGAAGATAGGATTATCAGCTTTAATCTACTCCACTGCAACTTCA
GGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTAC
TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
Found at i:46552570 original size:132 final size:132
Alignment explanation
Indices: 46552396--46552785 Score: 667
Period size: 132 Copynumber: 3.0 Consensus size: 132
46552386 CTGTAACTTC
*
46552396 AGGGAGATAGGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
46552461 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
46552526 TT
131 TT
* * *
46552528 AGGGAAATAAGATCTACAATCTTTAACCTTCTCTGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
* *
46552593 TTAAATCTACTTCCCACTATCTTAGAAAGATAAGA-TCTGCCGTCTTCGATCTGCTCCACTACTG
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC-GCCGTCTTCGATCTGCTCCACTACTG
46552657 CTT
130 CTT
* * *
46552660 TGGGAGATAAGATCTGCAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
46552725 TTAAATCTGCTTCCCACTATCTTGGGAAA-ATAAGATTCGCCGTCTTCGATCTGCTCCACTA
66 TTAAATCTGCTTCCCACTATCTT-GGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTA
46552786 TCAATGCAGG
Statistics
Matches: 241, Mismatches: 14, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
131 2 0.01
132 233 0.97
133 6 0.02
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
TT
Found at i:46552709 original size:44 final size:44
Alignment explanation
Indices: 46552620--46552710 Score: 101
Period size: 44 Copynumber: 2.1 Consensus size: 44
46552610 TATCTTAGAA
** * * **
46552620 AGATAAGATCTGCCGTCTTCGATCTGCTCCACTACTGCTTTGGG
1 AGATAAGATCTGCAATCTTCAACCTGCTCCACTACTGCTCAGGG
* * *
46552664 AGATAAGATCTGCAATCTTCAACCTTCTCCGCTGCTGCTCAGGG
1 AGATAAGATCTGCAATCTTCAACCTGCTCCACTACTGCTCAGGG
46552708 AGA
1 AGA
46552711 CAAGGCTTGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (44 bp):
AGATAAGATCTGCAATCTTCAACCTGCTCCACTACTGCTCAGGG
Found at i:46554072 original size:1 final size:1
Alignment explanation
Indices: 46554063--46554105 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
46554053 TTTCTTTCAC
* * * *
46554063 TTTTATTTTTTGTTTTTTTGTTTTTGTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
46554106 AAAATCTGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:46554086 original size:14 final size:13
Alignment explanation
Indices: 46554063--46554105 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 13
46554053 TTTCTTTCAC
*
46554063 TTTTATTTTTTGT
1 TTTTTTTTTTTGT
46554076 TTTTTTGTTTTTGT
1 TTTTTT-TTTTTGT
46554090 TTTTTTTTTTT-T
1 TTTTTTTTTTTGT
46554102 TTTT
1 TTTT
46554106 AAAATCTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 13 0.46
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:46560058 original size:98 final size:98
Alignment explanation
Indices: 46559889--46560083 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
46559879 ATACAATAAA
* * **
46559889 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACTCAATACGTTAGGGTATGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
46559954 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* *
46559987 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
46560052 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
46560084 CATGATTTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:46561570 original size:19 final size:19
Alignment explanation
Indices: 46561546--46561632 Score: 156
Period size: 19 Copynumber: 4.5 Consensus size: 19
46561536 AATCATATAT
46561546 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46561565 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
46561586 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46561605 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46561624 TCTAAGATT
1 TCTAAGATT
46561633 ATGTTTCCAT
Statistics
Matches: 66, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
19 47 0.71
21 19 0.29
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:46561594 original size:40 final size:38
Alignment explanation
Indices: 46561539--46561632 Score: 156
Period size: 40 Copynumber: 2.5 Consensus size: 38
46561529 ATTACAAAAT
46561539 CATAT-AT-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
46561575 CATATATCATATCTAAGATTGCATATCATATCTAAGATTG
1 C--ATATCATATCTAAGATTGCATATCATATCTAAGATTG
46561615 CATATCATATCTAAGATT
1 CATATCATATCTAAGATT
46561633 ATGTTTCCAT
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 1 0.02
38 21 0.39
39 2 0.04
40 30 0.56
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:46562197 original size:37 final size:40
Alignment explanation
Indices: 46562149--46562224 Score: 104
Period size: 37 Copynumber: 2.0 Consensus size: 40
46562139 TTTTAAAATT
* *
46562149 AATAAACAAAATTAAAATAGA-AATTA-ATTTAAATTGTG
1 AATAAACAAAATTAAAATAGATAAATACATTCAAATTGTG
*
46562187 AATAAA-AAAATTTAAATAGATAAATACATTCAAATTGT
1 AATAAACAAAATTAAAATAGATAAATACATTCAAATTGT
46562225 ACATCATAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 13 0.39
38 10 0.30
39 10 0.30
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.32
Consensus pattern (40 bp):
AATAAACAAAATTAAAATAGATAAATACATTCAAATTGTG
Found at i:46569273 original size:104 final size:104
Alignment explanation
Indices: 46569093--46569300 Score: 389
Period size: 104 Copynumber: 2.0 Consensus size: 104
46569083 TGTCAGATCC
*
46569093 AGGGCATCCCAATTCAATTGAAGGGGATGACAGTTTCTTATTCCTAATCTATAAAATAATAATTT
1 AGGGCATCCCAATTCAATTGAAGGGGATGACAGTTTCTCATTCCTAATCTATAAAATAATAATTT
46569158 CGATCAAATCACACATCGCAGTATACTAGACCCTCTAAT
66 CGATCAAATCACACATCGCAGTATACTAGACCCTCTAAT
* *
46569197 AGGGCATCCCAATTCGATTGAATGGGATGACAGTTTCTCATTCCTAATCTATAAAATAATAATTT
1 AGGGCATCCCAATTCAATTGAAGGGGATGACAGTTTCTCATTCCTAATCTATAAAATAATAATTT
46569262 CGATCAAATCACACATCGCAGTATACTAGACCCTCTAAT
66 CGATCAAATCACACATCGCAGTATACTAGACCCTCTAAT
46569301 TCTTTGTAAT
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 101 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (104 bp):
AGGGCATCCCAATTCAATTGAAGGGGATGACAGTTTCTCATTCCTAATCTATAAAATAATAATTT
CGATCAAATCACACATCGCAGTATACTAGACCCTCTAAT
Found at i:46569773 original size:13 final size:13
Alignment explanation
Indices: 46569755--46569786 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
46569745 TTTCCAGCAA
46569755 TTATGAATTTATT
1 TTATGAATTTATT
46569768 TTATGAATTTATT
1 TTATGAATTTATT
*
46569781 TGATGA
1 TTATGA
46569787 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:46569961 original size:50 final size:50
Alignment explanation
Indices: 46569881--46570065 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
46569871 ATTTGGGTAA
*
46569881 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
46569931 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
46569981 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
46570031 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
46570066 TTTGGCATGT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.26, C:0.24, G:0.33, T:0.17
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:46577191 original size:14 final size:14
Alignment explanation
Indices: 46577172--46577198 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46577162 GCTCCGATTT
46577172 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
46577186 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
46577199 AGGCTATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:46577462 original size:2 final size:2
Alignment explanation
Indices: 46577455--46577483 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46577445 AAATCAATAA
46577455 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
46577484 ACATTTACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:46578271 original size:58 final size:60
Alignment explanation
Indices: 46578199--46578326 Score: 152
Period size: 59 Copynumber: 2.2 Consensus size: 60
46578189 GCAAGCCAGA
* * *
46578199 GACCAAAAAGGAAAACT-GGAATAGTTAGATAATTATTTTGTAACTTTTTAT-GGTGAGT
1 GACCAAAAAAGAAAACTAGGAATAATTAGATAATCATTTTGTAACTTTTTATAGGTGAGT
* ** * * *
46578257 GACCAAAAAAGAAAATTATTAATAATTAGGTAATCATTTTGTAATTTTTTATAGTTGAGT
1 GACCAAAAAAGAAAACTAGGAATAATTAGATAATCATTTTGTAACTTTTTATAGGTGAGT
*
46578317 GACTAAAAAA
1 GACCAAAAAA
46578327 ACATAAATGG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 15 0.26
59 28 0.48
60 15 0.26
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (60 bp):
GACCAAAAAAGAAAACTAGGAATAATTAGATAATCATTTTGTAACTTTTTATAGGTGAGT
Found at i:46585794 original size:13 final size:13
Alignment explanation
Indices: 46585773--46585807 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
46585763 AAAGGTAAAA
46585773 TTTTTTTATT-TT
1 TTTTTTTATTCTT
46585785 TTTTTGTTATTCTT
1 TTTTT-TTATTCTT
46585799 TTTTTTTAT
1 TTTTTTTAT
46585808 AAGTTTATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.24
13 9 0.43
14 7 0.33
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.86
Consensus pattern (13 bp):
TTTTTTTATTCTT
Found at i:46588252 original size:40 final size:40
Alignment explanation
Indices: 46588208--46588292 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
46588198 GCTTTTTAAC
46588208 AAACGCCG-TAATAGATCAAGAATTAGCAACG-CTTTCTAGA
1 AAACGCCGCT-ATAGATCAAGAATTAGCAACGCCTTT-TAGA
* * **
46588248 AAACGCGGCTATAGATCAAGTATTAGCGGCGCCTTTTAGA
1 AAACGCCGCTATAGATCAAGAATTAGCAACGCCTTTTAGA
46588288 AAACG
1 AAACG
46588293 TCGCAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 34 0.87
41 5 0.13
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (40 bp):
AAACGCCGCTATAGATCAAGAATTAGCAACGCCTTTTAGA
Found at i:46588632 original size:21 final size:21
Alignment explanation
Indices: 46588608--46588668 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
46588598 TGGTTTGTGA
*
46588608 TTTAAGGTTTATGGTTTAGGG
1 TTTAAGGTTTAGGGTTTAGGG
*
46588629 TTT-AGAGTTTAGGGGTTAGGGG
1 TTTAAG-GTTTAGGGTTTA-GGG
* *
46588651 TTTAGGGATTAGGGTTTA
1 TTTAAGGTTTAGGGTTTA
46588669 AAGTTTTATG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.06
21 13 0.41
22 16 0.50
23 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.43
Consensus pattern (21 bp):
TTTAAGGTTTAGGGTTTAGGG
Found at i:46588633 original size:7 final size:7
Alignment explanation
Indices: 46588608--46588742 Score: 72
Period size: 7 Copynumber: 17.9 Consensus size: 7
46588598 TGGTTTGTGA
*
46588608 TTTAAGG
1 TTTAGGG
*
46588615 TTTATGG
1 TTTAGGG
46588622 TTTAGGG
1 TTTAGGG
*
46588629 TTTAGAG
1 TTTAGGG
46588636 TTTAGGG
1 TTTAGGG
*
46588643 GTTAGGGG
1 TTTA-GGG
46588651 TTTAGGG
1 TTTAGGG
*
46588658 ATTAGGG
1 TTTAGGG
* *
46588665 TTTAAAGT
1 TTT-AGGG
46588673 TTTATGGGG
1 TTTA--GGG
* *
46588682 TTTTGGA
1 TTTAGGG
46588689 TTTAGGGG
1 TTTA-GGG
*
46588697 TTTTTGGGTG
1 --TTTAGG-G
46588707 TTTAGGG
1 TTTAGGG
*
46588714 TTTATGG
1 TTTAGGG
*
46588721 TTTTGGG
1 TTTAGGG
46588728 TTTTAGGGG
1 -TTTA-GGG
46588737 TTTAGG
1 TTTAGG
46588743 ATTTTTTTGT
Statistics
Matches: 96, Mismatches: 22, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
7 58 0.60
8 25 0.26
9 9 0.09
10 4 0.04
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:46588638 original size:14 final size:15
Alignment explanation
Indices: 46588620--46588742 Score: 72
Period size: 15 Copynumber: 8.0 Consensus size: 15
46588610 TAAGGTTTAT
46588620 GGTTTAGGGTTTA-G
1 GGTTTAGGGTTTAGG
* *
46588634 AGTTTAGGGGTTAGG
1 GGTTTAGGGTTTAGG
*
46588649 GGTTTAGGGATTA-G
1 GGTTTAGGGTTTAGG
* *
46588663 GGTTTAAAGTTTTATGG
1 GGTTT-AGGGTTTA-GG
* *
46588680 GGTTTTGGATTTAGG
1 GGTTTAGGGTTTAGG
*
46588695 GGTTTTTGGGTGTTTA-G
1 GG--TTTAGG-GTTTAGG
* *
46588712 GGTTTATGGTTTTGG
1 GGTTTAGGGTTTAGG
*
46588727 GTTTTAGGGGTTTAGG
1 GGTTTA-GGGTTTAGG
46588743 ATTTTTTTGT
Statistics
Matches: 82, Mismatches: 18, Indels: 16
0.71 0.16 0.14
Matches are distributed among these distances:
14 21 0.26
15 31 0.38
16 12 0.15
17 14 0.17
18 4 0.05
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.45
Consensus pattern (15 bp):
GGTTTAGGGTTTAGG
Found at i:46588653 original size:36 final size:38
Alignment explanation
Indices: 46588613--46588683 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 38
46588603 TGTGATTTAA
* * *
46588613 GGTTTATGGTTTAGGGTTTAGAG-TTTA-GGGGTTAGG
1 GGTTTAGGGATTAGGGTTTAAAGTTTTATGGGGTTAGG
46588649 GGTTTAGGGATTAGGGTTTAAAGTTTTATGGGGTT
1 GGTTTAGGGATTAGGGTTTAAAGTTTTATGGGGTT
46588684 TTGGATTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 20 0.67
37 4 0.13
38 6 0.20
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.42
Consensus pattern (38 bp):
GGTTTAGGGATTAGGGTTTAAAGTTTTATGGGGTTAGG
Found at i:46589343 original size:43 final size:43
Alignment explanation
Indices: 46589254--46589343 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
46589244 CCTCGGAGAG
* *
46589254 AAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGTCGCT
1 AAAGGTCATGTTCTTTAGCGGCATTTGTGATAAAAGCGCCGCT
* *
46589297 AAAGGTCATGCTT-TTTAGCGGCATTTGTGATAAAAGTGCCGGT
1 AAAGGTCATG-TTCTTTAGCGGCATTTGTGATAAAAGCGCCGCT
46589340 AAAG
1 AAAG
46589344 AACATGGCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 40 0.95
44 2 0.05
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (43 bp):
AAAGGTCATGTTCTTTAGCGGCATTTGTGATAAAAGCGCCGCT
Found at i:46589357 original size:43 final size:43
Alignment explanation
Indices: 46589260--46589358 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
46589250 AGAGAAAGGT
* * * **
46589260 CATGTTCTTTAGCGGCGTTTGTGATAAAAGCGTCGCTAAAGGT
1 CATGCTCTTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGAA
* * *
46589303 CATGCTTTTTAGCGGCATTTGTGATAAAAGTGCCGGTAAAGAA
1 CATGCTCTTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGAA
46589346 CATGGC-CTTTAGC
1 CAT-GCTCTTTAGC
46589359 AGTGCTTCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
43 44 0.96
44 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
CATGCTCTTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGAA
Found at i:46589845 original size:5 final size:5
Alignment explanation
Indices: 46589835--46589863 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
46589825 TTATAATTCT
46589835 TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
46589864 TTAATTCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:46596768 original size:15 final size:16
Alignment explanation
Indices: 46596748--46596802 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
46596738 TTTTTATTTA
46596748 AATTTA-AATTTATAT
1 AATTTAGAATTTATAT
46596763 AATTTAGGAATTTATAT
1 AATTTA-GAATTTATAT
* *
46596780 ATTTTATGGATTTATAT
1 AATTTA-GAATTTATAT
46596797 ACATTT
1 A-ATTT
46596803 TTTTAAGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 6 0.18
17 24 0.73
18 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (16 bp):
AATTTAGAATTTATAT
Found at i:46596776 original size:17 final size:18
Alignment explanation
Indices: 46596754--46596802 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
46596744 TTTAAATTTA
46596754 AATTTATATAATTTA-GG
1 AATTTATATAATTTATGG
*
46596771 AATTTATATATTTTATGG
1 AATTTATATAATTTATGG
46596789 -ATTTATATACATTT
1 AATTTATATA-ATTT
46596803 TTTTAAGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 23 0.82
18 5 0.18
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (18 bp):
AATTTATATAATTTATGG
Found at i:46599653 original size:10 final size:11
Alignment explanation
Indices: 46599629--46599657 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
46599619 TTTCAATATC
46599629 CTCTCAAATTT
1 CTCTCAAATTT
46599640 CTCTCAAA-TT
1 CTCTCAAATTT
46599650 CTCTCAAA
1 CTCTCAAA
46599658 GCTCTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCAAATTT
Found at i:46600776 original size:11 final size:11
Alignment explanation
Indices: 46600739--46600770 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
46600729 TAAAGAGAGC
*
46600739 TTTGAGAGGAA
1 TTTGAGAGAAA
46600750 TTTGAGAGAAA
1 TTTGAGAGAAA
46600761 TTTGAGAGAA
1 TTTGAGAGAA
46600771 CATTGAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:46601346 original size:30 final size:30
Alignment explanation
Indices: 46601275--46601352 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
46601265 ACTCAATTAT
46601275 ATAAAAAATTTA-T--TTTAAGTACTCAAA
1 ATAAAAAATTTATTAATTTAAGTACTCAAA
46601302 ATAAAAAATTTATTAATTTAAGTACTCAAA
1 ATAAAAAATTTATTAATTTAAGTACTCAAA
*
46601332 ATAAAAAGTTTATTAATTTAA
1 ATAAAAAATTTATTAATTTAA
46601353 TCACCCACAT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
27 12 0.26
28 1 0.02
30 34 0.72
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (30 bp):
ATAAAAAATTTATTAATTTAAGTACTCAAA
Found at i:46601402 original size:32 final size:32
Alignment explanation
Indices: 46601366--46601427 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
46601356 CCCACATAAG
46601366 TTAGCCCTTAAATTTTATATATTATATCAAAC
1 TTAGCCCTTAAATTTTATATATTATATCAAAC
46601398 TTAGCCCTTAAATTTTATATATTATATCAA
1 TTAGCCCTTAAATTTTATATATTATATCAA
46601428 TTTAGTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.03, T:0.45
Consensus pattern (32 bp):
TTAGCCCTTAAATTTTATATATTATATCAAAC
Found at i:46602071 original size:28 final size:28
Alignment explanation
Indices: 46602013--46602072 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
46602003 GATTTTTTGT
* * *
46602013 TTTATTTAACATTATTATTATAGTTATA
1 TTTATTTAACATTAATATTATAGTAAAA
*
46602041 TTTATTTAATATTAATATTAATA-TAAAA
1 TTTATTTAACATTAATATT-ATAGTAAAA
46602069 TTTA
1 TTTA
46602073 AATTTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (28 bp):
TTTATTTAACATTAATATTATAGTAAAA
Found at i:46602675 original size:18 final size:19
Alignment explanation
Indices: 46602654--46602701 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
46602644 TTACATATTA
46602654 TTAAAATA-ATAGAAAAGT-
1 TTAAAATATATA-AAAAGTG
46602672 TTAAATATATATAAAAAGTG
1 TTAAA-ATATATAAAAAGTG
46602692 TATAAAATAT
1 T-TAAAATAT
46602702 TATTTAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.19
19 9 0.35
20 8 0.31
21 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (19 bp):
TTAAAATATATAAAAAGTG
Found at i:46605993 original size:22 final size:23
Alignment explanation
Indices: 46605941--46605997 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
46605931 TTTTAATTAA
* * *
46605941 AATTAAAATTAAAATTATTTTTT
1 AATTAAAATTAAAACTAATTGTT
46605964 AATTAAAATTAAAACTAATTGTT
1 AATTAAAATTAAAACTAATTGTT
46605987 -ATTAAAATTAA
1 AATTAAAATTAA
46605998 TTGCTAGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
22 11 0.35
23 20 0.65
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
AATTAAAATTAAAACTAATTGTT
Found at i:46606008 original size:16 final size:16
Alignment explanation
Indices: 46605973--46606012 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
46605963 TAATTAAAAT
* * *
46605973 TAAAACTAATTGTTAT
1 TAAAATTAATTGCTAG
46605989 TAAAATTAATTGCTAG
1 TAAAATTAATTGCTAG
46606005 TAAAATTA
1 TAAAATTA
46606013 TCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (16 bp):
TAAAATTAATTGCTAG
Found at i:46606118 original size:9 final size:9
Alignment explanation
Indices: 46606085--46606112 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
46606075 TTTATCAAAT
46606085 TATTAATTG
1 TATTAATTG
46606094 TATTAATTG
1 TATTAATTG
46606103 TATTAATTG
1 TATTAATTG
46606112 T
1 T
46606113 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:46606121 original size:68 final size:68
Alignment explanation
Indices: 46606002--46606210 Score: 359
Period size: 68 Copynumber: 3.1 Consensus size: 68
46605992 AATTAATTGC
* *
46606002 TAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACAGTT
1 TAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
46606065 GAT
66 GAT
46606068 TAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
46606133 GAT
66 GAT
* * *
46606136 TAGTAAATTTATCAAATTATTAATTATATTAATTGTATTAATTGTTGTAACAAAATCTAATATTT
1 TAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
46606201 GAT
66 GAT
46606204 TAGTAAA
1 TAGTAAA
46606211 ACAAACTTGA
Statistics
Matches: 136, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
66 25 0.18
68 111 0.82
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.45
Consensus pattern (68 bp):
TAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
GAT
Found at i:46606317 original size:22 final size:24
Alignment explanation
Indices: 46606277--46606320 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
46606267 AAATAAACTT
46606277 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
46606301 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
46606321 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:46607574 original size:18 final size:19
Alignment explanation
Indices: 46607551--46607604 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 19
46607541 ATGGGTCAAG
46607551 TGTGAATTTAGAAGAATTT
1 TGTGAATTTAGAAGAATTT
*
46607570 T-TGAA-TTAG-TGAATTT
1 TGTGAATTTAGAAGAATTT
* *
46607586 TGTGATTTTAAAAGAATTT
1 TGTGAATTTAGAAGAATTT
46607605 AATAGGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
16 7 0.25
17 7 0.25
18 7 0.25
19 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
TGTGAATTTAGAAGAATTT
Found at i:46608880 original size:46 final size:46
Alignment explanation
Indices: 46608811--46608995 Score: 255
Period size: 46 Copynumber: 4.0 Consensus size: 46
46608801 CATGGCAAAG
* * * *
46608811 TGTGAAACGTAGGTATGGCATTTCAGTGAATAAAACCATACTGATT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * *
46608857 TGTGAAAAGTAGGTATGGTATTTC-GATAAAAAAAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAG-TGAAGAAAACCATACTGAGT
*
46608903 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * *
46608949 TATGAAAAGTAGGTATGGTATTTCCGTGAAGAAAATCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
46608995 T
1 T
46608996 ATAGCAATGT
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 121 0.98
47 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:46610776 original size:39 final size:38
Alignment explanation
Indices: 46610718--46610848 Score: 120
Period size: 39 Copynumber: 3.4 Consensus size: 38
46610708 AATAAATATA
* * * *
46610718 TTTATTTTTTTTAATTTTAAACTATTTTTTACATAATTT
1 TTTAATTTTTTTAATTTTAAAATATTTTTAAAAT-ATTT
46610757 TTTAATTTTTTTAATTTTAAAATATTTTTAAAATATTT
1 TTTAATTTTTTTAATTTTAAAATATTTTTAAAATATTT
* ** * *
46610795 TTAAATTTTAAAATATTTTTAAAATATATTTTTAAA-ATTT
1 TTTAATTTT--TTTAATTTTAAAATAT-TTTTAAAATATTT
**
46610835 TTTAAAATTTTTAA
1 TTTAATTTTTTTAA
46610849 AATAAAAATG
Statistics
Matches: 74, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
38 14 0.19
39 30 0.41
40 23 0.31
41 7 0.09
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (38 bp):
TTTAATTTTTTTAATTTTAAAATATTTTTAAAATATTT
Found at i:46610785 original size:11 final size:11
Alignment explanation
Indices: 46610771--46610852 Score: 97
Period size: 11 Copynumber: 7.9 Consensus size: 11
46610761 ATTTTTTTAA
46610771 TTTTAAAATAT
1 TTTTAAAATAT
46610782 TTTTAAAATAT
1 TTTTAAAATAT
46610793 TTTT--AA-A-
1 TTTTAAAATAT
46610800 TTTTAAAATAT
1 TTTTAAAATAT
46610811 TTTTAAAATATAT
1 TTTT-AAA-ATAT
46610824 TTTTAAAAT-T
1 TTTTAAAATAT
46610834 TTTT-AAA-AT
1 TTTTAAAATAT
46610843 TTTTAAAATA
1 TTTTAAAATA
46610853 AAAATGGGCC
Statistics
Matches: 62, Mismatches: 0, Indels: 18
0.77 0.00 0.22
Matches are distributed among these distances:
7 4 0.06
8 1 0.02
9 12 0.19
10 9 0.15
11 22 0.35
12 6 0.10
13 8 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:46610795 original size:29 final size:29
Alignment explanation
Indices: 46610763--46610852 Score: 119
Period size: 29 Copynumber: 3.0 Consensus size: 29
46610753 ATTTTTTAAT
46610763 TTTTTTAATTTTAAAATATTTTTAAAATA
1 TTTTTTAATTTTAAAATATTTTTAAAATA
*
46610792 TTTTTAAATTTTAAAATATTTTTAAAATA
1 TTTTTTAATTTTAAAATATTTTTAAAATA
*
46610821 TATTTTTAAAATTTTTTAAA-ATTTTTAAAATA
1 T-TTTTT--AA-TTTTAAAATATTTTTAAAATA
46610853 AAAATGGGCC
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
29 29 0.54
30 4 0.07
32 14 0.26
33 7 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTTTTAATTTTAAAATATTTTTAAAATA
Found at i:46610815 original size:18 final size:18
Alignment explanation
Indices: 46610782--46610817 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
46610772 TTTAAAATAT
46610782 TTTTAAAATATTTTTAAA
1 TTTTAAAATATTTTTAAA
46610800 TTTTAAAATATTTTTAAA
1 TTTTAAAATATTTTTAAA
46610818 ATATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAAAATATTTTTAAA
Found at i:46610825 original size:13 final size:13
Alignment explanation
Indices: 46610807--46610832 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46610797 AAATTTTAAA
46610807 ATATTTTTAAAAT
1 ATATTTTTAAAAT
46610820 ATATTTTTAAAAT
1 ATATTTTTAAAAT
46610833 TTTTTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTTTTAAAAT
Found at i:46614776 original size:30 final size:31
Alignment explanation
Indices: 46614721--46614788 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
46614711 ACCCTTAAAA
** * **
46614721 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
46614752 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
46614782 TATTTAC
1 TATTTAC
46614789 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:46614969 original size:23 final size:23
Alignment explanation
Indices: 46614943--46614987 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
46614933 TTTCTTACTA
*
46614943 TAGTAATTTTCGGGGTATTACAG
1 TAGTAATTTTCGGGATATTACAG
46614966 TAGTAATTTTCGGGATATTACA
1 TAGTAATTTTCGGGATATTACA
46614988 TTGGTCGTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAG
Found at i:46616103 original size:20 final size:20
Alignment explanation
Indices: 46616056--46616103 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
46616046 AATGTGCTAC
*
46616056 ATTTGAAAAAGAAAATTTTG
1 ATTTGAAGAAGAAAATTTTG
46616076 ATTTGAAGAAGAAAATTTTG
1 ATTTGAAGAAGAAAATTTTG
*
46616096 GTTTGAAG
1 ATTTGAAG
46616104 TTAAAACTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (20 bp):
ATTTGAAGAAGAAAATTTTG
Found at i:46616361 original size:22 final size:23
Alignment explanation
Indices: 46616336--46616392 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
46616326 TTGTATATTA
46616336 TTTTAAATTTTA-AATTATA-GAT
1 TTTTAAATTTTACAATTATATG-T
* *
46616358 TTTTAAAATTTACATTTATATGT
1 TTTTAAATTTTACAATTATATGT
*
46616381 TTTAAAATTTTA
1 TTTTAAATTTTA
46616393 TTTAAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 11 0.38
23 17 0.59
24 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTTAAATTTTACAATTATATGT
Found at i:46616392 original size:23 final size:23
Alignment explanation
Indices: 46616336--46616392 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
46616326 TTGTATATTA
46616336 TTTT-AAATTTTAAATTATAGAT
1 TTTTAAAATTTTAAATTATAGAT
* *
46616358 TTTTAAAA-TTTACATT-TATAT
1 TTTTAAAATTTTAAATTATAGAT
46616379 GTTTTAAAATTTTA
1 -TTTTAAAATTTTA
46616393 TTTAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 4 0.13
22 19 0.63
23 7 0.23
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTTAAAATTTTAAATTATAGAT
Found at i:46618400 original size:9 final size:9
Alignment explanation
Indices: 46618386--46618422 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
46618376 TATAGTTTGA
46618386 TATTCGAAT
1 TATTCGAAT
46618395 TATTCGAAT
1 TATTCGAAT
*
46618404 TATTCGAGT
1 TATTCGAAT
46618413 TATTCGAAT
1 TATTCGAAT
46618422 T
1 T
46618423 CAAAAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:46627786 original size:29 final size:29
Alignment explanation
Indices: 46627736--46627792 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
46627726 GTGAATGATA
*
46627736 AATGTAATAAAAATATTTATAAAAAAATT
1 AATGTAATAAAAATATTAATAAAAAAATT
* *
46627765 AATGTGATAAATAA-ATTAATAAATAAAT
1 AATGTAATAAA-AATATTAATAAAAAAAT
46627793 AAACTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (29 bp):
AATGTAATAAAAATATTAATAAAAAAATT
Found at i:46632894 original size:22 final size:21
Alignment explanation
Indices: 46632850--46632890 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46632840 ATGTCATTAG
*
46632850 GGTTTAAACAAAAAAGGAAAT
1 GGTTCAAACAAAAAAGGAAAT
*
46632871 GGTTCAAACGAAAAAGGAAA
1 GGTTCAAACAAAAAAGGAAA
46632891 ATGGGTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.15
Consensus pattern (21 bp):
GGTTCAAACAAAAAAGGAAAT
Found at i:46635579 original size:12 final size:12
Alignment explanation
Indices: 46635534--46635580 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
46635524 CGATGATTGC
*
46635534 ATATTAAAATA-
1 ATATTTAAATAT
*
46635545 ATTATTTAAAAAT
1 A-TATTTAAATAT
*
46635558 ATATTTAAATTT
1 ATATTTAAATAT
46635570 ATATTTAAATA
1 ATATTTAAATA
46635581 AAATTCTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 1 0.03
12 27 0.93
13 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTTAAATAT
Found at i:46645687 original size:26 final size:25
Alignment explanation
Indices: 46645650--46645731 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 25
46645640 TATTTGATAA
*
46645650 ATTTTT-AGAATAATTTTTATAGAT
1 ATTTTTAAAAATAATTTTTATAGAT
* *
46645674 ATTTTTGAAAAATAAAATTTCA-AGAT
1 ATTTTT-AAAAAT-AATTTTTATAGAT
* * *
46645700 ATATTTAAAAAAATATTTTTATATAGT
1 ATTTTTAAAAATA-ATTTTTATAGA-T
46645727 ATTTT
1 ATTTT
46645732 AATTTACTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
24 7 0.16
25 10 0.23
26 15 0.35
27 11 0.26
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (25 bp):
ATTTTTAAAAATAATTTTTATAGAT
Found at i:46648148 original size:13 final size:13
Alignment explanation
Indices: 46648130--46648155 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46648120 TTGGATCTGT
46648130 ACCAAAACAATCA
1 ACCAAAACAATCA
46648143 ACCAAAACAATCA
1 ACCAAAACAATCA
46648156 TAAAACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:46652273 original size:7 final size:7
Alignment explanation
Indices: 46652235--46652264 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
46652225 ACCCAACAAT
46652235 AACCTTA
1 AACCTTA
46652242 AACCTTA
1 AACCTTA
46652249 AACCTTA
1 AACCTTA
*
46652256 AACCCTA
1 AACCTTA
46652263 AA
1 AA
46652265 ACCCTAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (7 bp):
AACCTTA
Found at i:46658518 original size:6 final size:6
Alignment explanation
Indices: 46658507--46658531 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
46658497 GCCTTGCGTC
46658507 TTTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT T
46658532 CTTTCCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:46661478 original size:20 final size:21
Alignment explanation
Indices: 46661448--46661491 Score: 65
Period size: 19 Copynumber: 2.1 Consensus size: 21
46661438 GTCAGAAGTT
46661448 AATTAATTTTTTAAAAA-TTAA
1 AATTAA-TTTTTAAAAATTTAA
46661469 AATT-ATTTTTAAAAATTTAA
1 AATTAATTTTTAAAAATTTAA
46661489 AAT
1 AAT
46661492 CTTTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.45
20 8 0.36
21 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTAATTTTTAAAAATTTAA
Found at i:46661557 original size:57 final size:57
Alignment explanation
Indices: 46661459--46661566 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
46661449 ATTAATTTTT
46661459 TAAAAATTAAAATTATTTTTAAAAATTTAAAATCTTTAAAATT-ATTAAATAAATTA
1 TAAAAATTAAAATTATTTTTAAAAATTTAAAATCTTTAAAATTAATTAAATAAATTA
* * *
46661515 TAAAAATTTAAAA-TATTTTTTAATATTTTAATAT-TTTAAAAATTAATTAAAT
1 TAAAAA-TTAAAATTA-TTTTTAAAAATTTAAAATCTTT-AAAATTAATTAAAT
46661567 TTTTATGTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
56 11 0.24
57 27 0.60
58 7 0.16
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (57 bp):
TAAAAATTAAAATTATTTTTAAAAATTTAAAATCTTTAAAATTAATTAAATAAATTA
Found at i:46661570 original size:19 final size:19
Alignment explanation
Indices: 46661446--46661571 Score: 56
Period size: 19 Copynumber: 6.8 Consensus size: 19
46661436 ACGTCAGAAG
*
46661446 TTAATTAATTTTTTAAAAA
1 TTAATTAAATTTTTAAAAA
46661465 TTAA--AATTATTTTTAAAAA
1 TTAATTAA--ATTTTTAAAAA
* *
46661484 TT--TAAAATCTTTAAAATTA
1 TTAATTAAATTTTTAAAA--A
* *
46661503 TTAAATAAA-TTATAAAAA
1 TTAATTAAATTTTTAAAAA
* *
46661521 TTTAA--AATATTTTTTAATA
1 -TTAATTAA-ATTTTTAAAAA
46661540 TT--TT-AATATTTTAAAAA
1 TTAATTAAAT-TTTTAAAAA
46661557 TTAATTAAATTTTTA
1 TTAATTAAATTTTTA
46661572 TGTGTTATTT
Statistics
Matches: 79, Mismatches: 11, Indels: 34
0.64 0.09 0.27
Matches are distributed among these distances:
16 2 0.03
17 23 0.29
18 4 0.05
19 38 0.48
20 9 0.11
21 3 0.04
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAATTAAATTTTTAAAAA
Found at i:46663402 original size:21 final size:21
Alignment explanation
Indices: 46663378--46663432 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
46663368 TAGGGATCCT
**
46663378 ACACGGGCGTGTGTTTTGGAC
1 ACACGGGCGTGTGTGGTGGAC
** * *
46663399 ACACGTCCGTGTCTGGTGGGC
1 ACACGGGCGTGTGTGGTGGAC
46663420 ACACGGGCGTGTG
1 ACACGGGCGTGTG
46663433 AGACCCGCAC
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.13, C:0.24, G:0.40, T:0.24
Consensus pattern (21 bp):
ACACGGGCGTGTGTGGTGGAC
Found at i:46663601 original size:22 final size:22
Alignment explanation
Indices: 46663557--46663601 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
46663547 CACATGGTCA
*
46663557 TGTGACTCTCCTCACACTAGCG
1 TGTGACTCTCCTCACACGAGCG
* * *
46663579 TGTGCCTCTCTTCACACGGGCG
1 TGTGACTCTCCTCACACGAGCG
46663601 T
1 T
46663602 TTAGACCCCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.13, C:0.36, G:0.22, T:0.29
Consensus pattern (22 bp):
TGTGACTCTCCTCACACGAGCG
Found at i:46666776 original size:20 final size:20
Alignment explanation
Indices: 46666751--46666790 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46666741 CGTAAAATGA
*
46666751 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
46666771 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
46666791 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:46666780 original size:34 final size:35
Alignment explanation
Indices: 46666736--46666802 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
46666726 CAGTAAAATA
*
46666736 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
46666770 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
46666803 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:46666806 original size:14 final size:15
Alignment explanation
Indices: 46666730--46666806 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
46666720 GATTGCCAGT
* *
46666730 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
46666744 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
46666758 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
46666778 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
46666793 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
46666807 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:46667564 original size:47 final size:47
Alignment explanation
Indices: 46667506--46667640 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 47
46667496 AAAATCTGCT
* * * *
46667506 AATACATTGTGGATGAACCACTAGTCGAGCAGAT-GACTGTCAACTAA
1 AATACGTTGTGGAT-AACCACTAGTCGAGTAGATAAACTGACAACTAA
* * * *
46667553 AATACGTTGTGGATAAAACATTGGTCGAGTAGATAAACTGACGACTAA
1 AATACGTTGTGGAT-AACCACTAGTCGAGTAGATAAACTGACAACTAA
* * *
46667601 AACATGTTATGGATAATCCACTAGTCGAGTAGATAAACTG
1 AATACGTTGTGGATAA-CCACTAGTCGAGTAGATAAACTG
46667641 TTGACTACTT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
47 30 0.42
48 41 0.58
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (47 bp):
AATACGTTGTGGATAACCACTAGTCGAGTAGATAAACTGACAACTAA
Found at i:46675291 original size:7 final size:7
Alignment explanation
Indices: 46675279--46675312 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
46675269 TTTCTAGATA
46675279 TATTTTT
1 TATTTTT
46675286 TATTTTT
1 TATTTTT
*
46675293 TATTTTA
1 TATTTTT
46675300 TAGTTTTT
1 TA-TTTTT
46675308 TATTT
1 TATTT
46675313 AAAATATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (7 bp):
TATTTTT
Found at i:46675296 original size:14 final size:15
Alignment explanation
Indices: 46675279--46675312 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
46675269 TTTCTAGATA
*
46675279 TATTTTTTA-TTTTT
1 TATTTTATAGTTTTT
46675293 TATTTTATAGTTTTT
1 TATTTTATAGTTTTT
46675308 TATTT
1 TATTT
46675313 AAAATATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (15 bp):
TATTTTATAGTTTTT
Found at i:46676938 original size:19 final size:18
Alignment explanation
Indices: 46676910--46676956 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
46676900 ACTTTATGCT
46676910 TTTTTAAATTTTCATTAA
1 TTTTTAAATTTTCATTAA
**
46676928 TTTTTATAATTTTTTTTAA
1 TTTTTA-AATTTTCATTAA
*
46676947 TTTTGAAATT
1 TTTTTAAATT
46676957 CTTTTTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTTAAATTTTCATTAA
Found at i:46676961 original size:18 final size:19
Alignment explanation
Indices: 46676924--46676962 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
46676914 TAAATTTTCA
* *
46676924 TTAATTTTTATAATTTTTT
1 TTAATTTTGATAATTCTTT
46676943 TTAATTTTGA-AATTCTTT
1 TTAATTTTGATAATTCTTT
46676961 TT
1 TT
46676963 TTGAATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (19 bp):
TTAATTTTGATAATTCTTT
Found at i:46676961 original size:19 final size:19
Alignment explanation
Indices: 46676924--46676963 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
46676914 TAAATTTTCA
*
46676924 TTAATTTTTATAATTTTTT
1 TTAATTTTGATAATTTTTT
46676943 TTAATTTTGA-AATTCTTTT
1 TTAATTTTGATAATT-TTTT
46676962 TT
1 TT
46676964 TGAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (19 bp):
TTAATTTTGATAATTTTTT
Found at i:46679078 original size:5 final size:5
Alignment explanation
Indices: 46679068--46679098 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
46679058 TATATATAAA
46679068 CAAAC CAAAC CAAAC CAAAC CAAAC CAAAC C
1 CAAAC CAAAC CAAAC CAAAC CAAAC CAAAC C
46679099 CTTGCCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.42, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAC
Found at i:46684965 original size:28 final size:28
Alignment explanation
Indices: 46684926--46684983 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
46684916 TGGTCAACAG
46684926 AAAATAACTTAGATGACAACGAAAAATA
1 AAAATAACTTAGATGACAACGAAAAATA
46684954 AAAATAACTTAGATGACAACGAAAAATA
1 AAAATAACTTAGATGACAACGAAAAATA
46684982 AA
1 AA
46684984 CATTTTTTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (28 bp):
AAAATAACTTAGATGACAACGAAAAATA
Found at i:46685323 original size:26 final size:25
Alignment explanation
Indices: 46685294--46685348 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
46685284 AATGATATTC
46685294 TTAATATATTACTAA-AAATAATTATA
1 TTAATATATTACTAATAAAT-A-TATA
* *
46685320 TTAATATTTTAGTAATAAATATATA
1 TTAATATATTACTAATAAATATATA
46685345 TTAA
1 TTAA
46685349 AATTTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.31
26 14 0.54
27 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
TTAATATATTACTAATAAATATATA
Found at i:46692839 original size:27 final size:28
Alignment explanation
Indices: 46692809--46692892 Score: 91
Period size: 27 Copynumber: 3.0 Consensus size: 28
46692799 ATTTTTTTTT
*
46692809 TTTTATTTTTGTTA-TTATTATTTATTA
1 TTTTATTTTTATTATTTATTATTTATTA
*
46692836 TTTTATTTTATTTTATTTACTTTATTTATTA
1 TTTTATTTT-TATTATTTA--TTATTTATTA
* *
46692867 CTTTA-TTTTATTATTTATTACTTATT
1 TTTTATTTTTATTATTTATTATTTATT
46692893 TGGATATTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
27 17 0.35
28 4 0.08
29 11 0.22
30 3 0.06
31 14 0.29
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.73
Consensus pattern (28 bp):
TTTTATTTTTATTATTTATTATTTATTA
Found at i:46692843 original size:5 final size:5
Alignment explanation
Indices: 46692799--46692878 Score: 58
Period size: 5 Copynumber: 15.6 Consensus size: 5
46692789 AGGCAACCCA
* *
46692799 ATTTT -TTTT TTTTT ATTTT -TGTT ATTATT ATTTATT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATT-TT A-TT-TT ATTTT ATTTT
* *
46692845 ATTTT A-TTT ACTTT ATTTATT ACTTT ATTTT ATT
1 ATTTT ATTTT ATTTT A-TT-TT ATTTT ATTTT ATT
46692879 ATTTATTACT
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
4 11 0.18
5 35 0.56
6 7 0.11
7 9 0.15
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:46692864 original size:31 final size:32
Alignment explanation
Indices: 46692804--46692888 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
46692794 ACCCAATTTT
* *
46692804 TTTTTTTTTATTTTTGTTATTATTATTTATTA
1 TTTTATTTTATTTTTGTTACTATTATTTATTA
46692836 TTTTATTTTATTTTAT-TTACT-TTATTTATTA
1 TTTTATTTTATTTT-TGTTACTATTATTTATTA
* *
46692867 CTTTATTTTATTATTTATTACT
1 TTTTATTTTATT-TTTGTTACT
46692889 TATTTGGATA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 22 0.47
32 24 0.51
33 1 0.02
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (32 bp):
TTTTATTTTATTTTTGTTACTATTATTTATTA
Found at i:46694153 original size:196 final size:196
Alignment explanation
Indices: 46693819--46694204 Score: 754
Period size: 196 Copynumber: 2.0 Consensus size: 196
46693809 TTGATTGTTT
* *
46693819 TTTTTCTCTGAAGTCCTCATAAAAAAAGTTATTATTAAAATGTCGTTTAATGTTTCCGTGGTTAT
1 TTTTTCTCTAAAGTCCTCATAAAAAAAGATATTATTAAAATGTCGTTTAATGTTTCCGTGGTTAT
46693884 GAGTGCAGCTTAAAAACATGACTGTTTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATCCTATT
66 GAGTGCAGCTTAAAAACATGACTGTTTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATCCTATT
46693949 TCGCTTCAAAAGGTTGTGTGACGTGTTAAGTAAAACTCCGCTAACCGTAATTAATTTTTATTATT
131 TCGCTTCAAAAGGTTGTGTGACGTGTTAAGTAAAACTCCGCTAACCGTAATTAATTTTTATTATT
46694014 A
196 A
46694015 TTTTTCTCTAAAGTCCTCATAAAAAAAGATATTATTAAAATGTCGTTTAATGTTTCCGTGGTTAT
1 TTTTTCTCTAAAGTCCTCATAAAAAAAGATATTATTAAAATGTCGTTTAATGTTTCCGTGGTTAT
46694080 GAGTGCAGCTTAAAAACATGACTGTTTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATCCTATT
66 GAGTGCAGCTTAAAAACATGACTGTTTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATCCTATT
46694145 TCGCTTCAAAAGGTTGTGTGACGTGTTAAGTAAAACTCCGCTAACCGTAATTAATTTTTA
131 TCGCTTCAAAAGGTTGTGTGACGTGTTAAGTAAAACTCCGCTAACCGTAATTAATTTTTA
46694205 AGAACATGTT
Statistics
Matches: 188, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
196 188 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (196 bp):
TTTTTCTCTAAAGTCCTCATAAAAAAAGATATTATTAAAATGTCGTTTAATGTTTCCGTGGTTAT
GAGTGCAGCTTAAAAACATGACTGTTTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATCCTATT
TCGCTTCAAAAGGTTGTGTGACGTGTTAAGTAAAACTCCGCTAACCGTAATTAATTTTTATTATT
A
Found at i:46694899 original size:15 final size:15
Alignment explanation
Indices: 46694874--46694908 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
46694864 GACTCTATTT
*
46694874 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
46694888 TAATTAATATTAAGA
1 TAATTAATATTAAGA
46694903 TAATTA
1 TAATTA
46694909 TTAAGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:46697131 original size:25 final size:26
Alignment explanation
Indices: 46697073--46697133 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
46697063 TACCCCCAAC
* *
46697073 AAAATTTTGATGATTTTACCCTTGGT
1 AAAATTTTGACGATTTTACCCTTAGT
*
46697099 AAAATTTTGACGATTTTTCCC-TAGT
1 AAAATTTTGACGATTTTACCCTTAGT
46697124 AAAATTTTGA
1 AAAATTTTGA
46697134 GAAAATATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 13 0.41
26 19 0.59
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (26 bp):
AAAATTTTGACGATTTTACCCTTAGT
Found at i:46697425 original size:9 final size:10
Alignment explanation
Indices: 46697406--46697434 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
46697396 ATTCAATTTT
46697406 TTTCTATTCA
1 TTTCTATTCA
46697416 TTTC-ATTCA
1 TTTCTATTCA
46697425 TTTCTATTCA
1 TTTCTATTCA
46697435 AAACAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTCTATTCA
Found at i:46699472 original size:19 final size:20
Alignment explanation
Indices: 46699435--46699486 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
46699425 AGGTCGCTCC
*
46699435 TACTATAATTTTATTTATAT-
1 TACTTTAATTTT-TTTATATA
46699455 TACTTTAATTTTTTTATATA
1 TACTTTAATTTTTTTATATA
*
46699475 TA-ATTAATTTTT
1 TACTTTAATTTTT
46699487 ATGATTCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (20 bp):
TACTTTAATTTTTTTATATA
Found at i:46701014 original size:22 final size:22
Alignment explanation
Indices: 46700966--46701014 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
46700956 ATTTGAAATT
*
46700966 TAATTTTTATTTTAATTTGATA
1 TAATTTTTATTTTAATTTCATA
* *
46700988 TAATTTATTTTTTTATTTTCATA
1 TAATTT-TTATTTTAATTTCATA
46701011 -AATT
1 TAATT
46701015 AGTCCGGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TAATTTTTATTTTAATTTCATA
Found at i:46701691 original size:22 final size:23
Alignment explanation
Indices: 46701665--46701707 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
46701655 ATCTAAATTT
46701665 TTAAATT-TAAAAAATAAAAAAA
1 TTAAATTCTAAAAAATAAAAAAA
**
46701687 TTAAATTCTTGAAAATAAAAA
1 TTAAATTCTAAAAAATAAAAA
46701708 TGAGTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
TTAAATTCTAAAAAATAAAAAAA
Found at i:46709470 original size:90 final size:92
Alignment explanation
Indices: 46709303--46709478 Score: 239
Period size: 90 Copynumber: 1.9 Consensus size: 92
46709293 TCGCACTTGA
* * * **
46709303 TATAAATAAGTGTCAATTTCTTAACTATTTTCATTAAAAAGTTCATTTTAATCTCACATTGACTA
1 TATAAATAAGTGACAATTTC-T-ACTATTTTCATTAAAAAGTTAATTTTAATCACACATCAACTA
* *
46709368 GAGAACATTCTCATATCTCACATTGACCT
64 GAGAACACTCTCATAGCTCACATTGACCT
*
46709397 TATAAATAAGTGACAATTTC-ACTATTTTCATTAAAAA-TTAATTTTAATCACACGTCAACTAGA
1 TATAAATAAGTGACAATTTCTACTATTTTCATTAAAAAGTTAATTTTAATCACACATCAACTAGA
*
46709460 GAAGACTCTCATAGCTCAC
66 GAACACTCTCATAGCTCAC
46709479 TTCTTCACTA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 37 0.51
91 17 0.23
94 19 0.26
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (92 bp):
TATAAATAAGTGACAATTTCTACTATTTTCATTAAAAAGTTAATTTTAATCACACATCAACTAGA
GAACACTCTCATAGCTCACATTGACCT
Found at i:46709545 original size:68 final size:68
Alignment explanation
Indices: 46709414--46709546 Score: 169
Period size: 69 Copynumber: 2.0 Consensus size: 68
46709404 AAGTGACAAT
* * *
46709414 TTCACTATTTTCATTAAAAATTAATTTTAATCACACGTCAACTAGAGAAGACTCTCATAGCTCAC
1 TTCACTATTTTCATTAAAAATTAATTTTAATCACACATCAACTAGAGAACAATCTCATAGCTCAC
46709479 TTC
66 TTC
* * ****
46709482 TTCACTATTTTCATTAAAACGTTAATTTTAATCCCACATTGGTTAGAGAACAATCTCAT-GCTCA
1 TTCACTATTTTCATTAAAA-ATTAATTTTAATCACACATCAACTAGAGAACAATCTCATAGCTCA
46709546 C
65 C
46709547 ACTTACACTA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
68 25 0.45
69 30 0.55
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (68 bp):
TTCACTATTTTCATTAAAAATTAATTTTAATCACACATCAACTAGAGAACAATCTCATAGCTCAC
TTC
Found at i:46709556 original size:68 final size:68
Alignment explanation
Indices: 46709414--46709557 Score: 166
Period size: 68 Copynumber: 2.1 Consensus size: 68
46709404 AAGTGACAAT
* * *
46709414 TTCACTATTTTCATTAAAAATTAATTTTAATCACACGTCAACTAGAGAAGACTCTCATAGCTCAC
1 TTCACTATTTTCATTAAAAATTAATTTTAATCACACATCAACTAGAGAACAATCTCATAGCTCAC
*
46709479 TTC
66 TAC
* * ****
46709482 TTCACTATTTTCATTAAAACGTTAATTTTAATCCCACATTGGTTAGAGAACAATCTCAT-GCTCA
1 TTCACTATTTTCATTAAAA-ATTAATTTTAATCACACATCAACTAGAGAACAATCTCATAGCTCA
46709546 C-AC
65 CTAC
46709549 TTACACTAT
1 TT-CACTAT
46709558 AAATAAGTGT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
67 3 0.05
68 31 0.48
69 30 0.47
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (68 bp):
TTCACTATTTTCATTAAAAATTAATTTTAATCACACATCAACTAGAGAACAATCTCATAGCTCAC
TAC
Found at i:46709607 original size:252 final size:254
Alignment explanation
Indices: 46709163--46709861 Score: 979
Period size: 257 Copynumber: 2.8 Consensus size: 254
46709153 CATAGCTCAC
* *
46709163 TTCTTCACTATTTTTATTAAAAAAATTAATTTTAATCCCACATTAACTAGAGAATACT-TCCATA
1 TTCTTCACTATTTTCATT-AAAAAATTAATTTTAATCCCACATTAACTAGAGAAAACTCT-CATA
** * * ** *
46709227 GCTTGCTTCTTCACTACTGTT-ATTAAAA-GTTAATTTTAA-CTTAAAAAGTTA-AGAACACTCC
64 GCTCACTTCTTCACTA-TTTTCATTAAAACGTTAATTTTAATCCTAATTAGTTAGAGAACACTCT
* * *
46709288 CATACTCGCACTT-GA-TATAAATAAGTGTCAATTTCTTAACTATTTTCATTAAAAAGTTCATTT
128 CATGCTCACACTTACACTATAAATAAGTGTCAATTTCTTAACTATTTTCATTAAAAAGTTCATTT
46709351 TAATCTCACATTGACTAGAGAACATTCTCATATCTCACATTGACCTTATAAATAAGTGACAA
193 TAATCTCACATTGACTAGAGAACATTCTCATATCTCACATTGACCTTATAAATAAGTGACAA
* * * *
46709413 -T-TTCACTATTTTCATT-AAAAATTAATTTTAATCACACGTCAACTAGAGAAGACTCTCATAGC
1 TTCTTCACTATTTTCATTAAAAAATTAATTTTAATCCCACATTAACTAGAGAAAACTCTCATAGC
* * *
46709475 TCACTTCTTCACTATTTTCATTAAAACGTTAATTTTAATCCCACATTGGTTAGAGAACAATCTCA
66 TCACTTCTTCACTATTTTCATTAAAACGTTAATTTTAATCCTA-ATTAGTTAGAGAACACTCTCA
46709540 TGCTCACACTTACACTATAAATAAGTGTCAATTTCTTAACTATTTTCATTAAAAAGTTCATTTTA
130 TGCTCACACTTACACTATAAATAAGTGTCAATTTCTTAACTATTTTCATTAAAAAGTTCATTTTA
*
46709605 ATCTCACATTGACTAGAGAACATTCTCATATCTCATATTGACCTTATAAATAAGTGACAA
195 ATCTCACATTGACTAGAGAACATTCTCATATCTCACATTGACCTTATAAATAAGTGACAA
*
46709665 TTTCTTCACTATTTTCATTAAAAAATTTAATTTTAATCCCACATTAACTAGGGAAAACTCTCATA
1 -TTCTTCACTATTTTCATTAAAAAA-TTAATTTTAATCCCACATTAACTAGAGAAAACTCTCATA
* *
46709730 GCTCTCTTCTTCACTATTTTCATTAAAACGTTAATTTTAATCCTATATTAGTTAGAGAACTCTCT
64 GCTCACTTCTTCACTATTTTCATTAAAACGTTAATTTTAATCCTA-ATTAGTTAGAGAACACTCT
* * * * * * * *
46709795 CATGCTCATACTTACACTGTAAATAGGTGTCAATTTCTT-CCTTTTTTTATTAAAAAGATAATTT
128 CATGCTCACACTTACACTATAAATAAGTGTCAATTTCTTAACTATTTTCATTAAAAAGTTCATTT
46709859 TAA
193 TAA
46709862 ATTTAAATAA
Statistics
Matches: 398, Mismatches: 38, Indels: 20
0.87 0.08 0.04
Matches are distributed among these distances:
245 3 0.01
246 59 0.15
247 12 0.03
248 16 0.04
249 6 0.02
250 19 0.05
251 1 0.00
252 109 0.27
254 1 0.00
255 15 0.04
256 28 0.07
257 129 0.32
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (254 bp):
TTCTTCACTATTTTCATTAAAAAATTAATTTTAATCCCACATTAACTAGAGAAAACTCTCATAGC
TCACTTCTTCACTATTTTCATTAAAACGTTAATTTTAATCCTAATTAGTTAGAGAACACTCTCAT
GCTCACACTTACACTATAAATAAGTGTCAATTTCTTAACTATTTTCATTAAAAAGTTCATTTTAA
TCTCACATTGACTAGAGAACATTCTCATATCTCACATTGACCTTATAAATAAGTGACAA
Found at i:46709686 original size:94 final size:94
Alignment explanation
Indices: 46709479--46709733 Score: 329
Period size: 93 Copynumber: 2.7 Consensus size: 94
46709469 CATAGCTCAC
* **
46709479 TTCTTCACTATTTTCATTAAAACGTTAATTTTAATCCCACATTGGTTAGAGAACAATCTCAT-GC
1 TTCTTCACTATTTTCATTAAAAAGTTAATTTTAATCCCACATTGACTAGAGAACAATCTCATAGC
*
46709543 TCACACTTACACTATAAATAAGTGTCAAT
66 TCACACTTACACTATAAATAAGTGACAAT
* * * * *
46709572 TTCTTAACTATTTTCATTAAAAAGTTCATTTTAATCTCACATTGACTAGAGAACATTCTCATATC
1 TTCTTCACTATTTTCATTAAAAAGTTAATTTTAATCCCACATTGACTAGAGAACAATCTCATAGC
*
46709637 TCATA-TTGAC-CTTATAAATAAGTGACAAT
66 TCACACTT-ACAC-TATAAATAAGTGACAAT
* * *
46709666 TTCTTCACTATTTTCATTAAAAAATTTAATTTTAATCCCACATTAACTAGGGAA-AACTCTCATA
1 TTCTTCACTATTTTCATT-AAAAAGTTAATTTTAATCCCACATTGACTAGAGAACAA-TCTCATA
46709730 GCTC
64 GCTC
46709734 TCTTCTTCAC
Statistics
Matches: 139, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
93 58 0.42
94 41 0.29
95 40 0.29
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.38
Consensus pattern (94 bp):
TTCTTCACTATTTTCATTAAAAAGTTAATTTTAATCCCACATTGACTAGAGAACAATCTCATAGC
TCACACTTACACTATAAATAAGTGACAAT
Found at i:46710294 original size:19 final size:20
Alignment explanation
Indices: 46710272--46710311 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46710262 GTTTTTATAA
46710272 TAAAAT-TATCATTTATTTT
1 TAAAATGTATCATTTATTTT
**
46710291 TAAAATGTATTTTTTATTTT
1 TAAAATGTATCATTTATTTT
46710311 T
1 T
46710312 TTATTTCACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (20 bp):
TAAAATGTATCATTTATTTT
Found at i:46710495 original size:35 final size:35
Alignment explanation
Indices: 46710444--46710524 Score: 135
Period size: 35 Copynumber: 2.3 Consensus size: 35
46710434 CAAATTGCTT
*
46710444 TTTTTGTCACCTAACTATGAAAAATAACAAAATGA
1 TTTTAGTCACCTAACTATGAAAAATAACAAAATGA
* *
46710479 TTTTAGTCACTTAACTATGAAAAGTAACAAAATGA
1 TTTTAGTCACCTAACTATGAAAAATAACAAAATGA
46710514 TTTTAGTCACC
1 TTTTAGTCACC
46710525 AGCTAGCTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (35 bp):
TTTTAGTCACCTAACTATGAAAAATAACAAAATGA
Found at i:46710637 original size:10 final size:11
Alignment explanation
Indices: 46710610--46710639 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
46710600 TTGGTCTCTC
46710610 TCTTTTTTCTT
1 TCTTTTTTCTT
46710621 TCTTTTTTCTT
1 TCTTTTTTCTT
46710632 TCTTTTTT
1 TCTTTTTT
46710640 GCAAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TCTTTTTTCTT
Found at i:46711047 original size:31 final size:29
Alignment explanation
Indices: 46710984--46711047 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
46710974 GACGAAGTTA
*
46710984 AATAGTTGAATGACCATAAAAAATGTATT
1 AATAGTTGAATGACCAAAAAAAATGTATT
*
46711013 AATAGTT-AGATGACCAAAAAAGAAATTTATT
1 AATAGTTGA-ATGACC-AAAAA-AAATGTATT
46711044 AATA
1 AATA
46711048 ATTAAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 1 0.03
29 13 0.43
30 4 0.13
31 12 0.40
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (29 bp):
AATAGTTGAATGACCAAAAAAAATGTATT
Found at i:46720552 original size:21 final size:22
Alignment explanation
Indices: 46720513--46720553 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
46720503 TATTTTTTAT
*
46720513 TTTTAAGAATTTAATTTTAAAA
1 TTTTAAGAATTTAAGTTTAAAA
*
46720535 TTTTAA-AATTTAGGTTTAA
1 TTTTAAGAATTTAAGTTTAA
46720554 TGGTTAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (22 bp):
TTTTAAGAATTTAAGTTTAAAA
Found at i:46723155 original size:16 final size:16
Alignment explanation
Indices: 46723134--46723178 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
46723124 GTTTGGTTCA
46723134 CTGTAATAGAATAGAG
1 CTGTAATAGAATAGAG
*
46723150 CTGTAATTGAATAGAG
1 CTGTAATAGAATAGAG
* *
46723166 TTGTAATGGAATA
1 CTGTAATAGAATA
46723179 ATGATGTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.31
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:46739641 original size:16 final size:17
Alignment explanation
Indices: 46739605--46739641 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
46739595 AATTTTATTT
*
46739605 TAATAGTAAGTTTTAAA
1 TAATAATAAGTTTTAAA
46739622 -AATAATAA-TTTTAAA
1 TAATAATAAGTTTTAAA
46739637 TAATA
1 TAATA
46739642 TTATTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TAATAATAAGTTTTAAA
Done.