Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold95
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: 582947
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Warning! 25 characters in sequence are not A, C, G, or T
File 5 of 6
Found at i:430867 original size:17 final size:16
Alignment explanation
Indices: 430851--430892 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
430841 TCATGGTTAT
430851 TATTTTAAATTTTTTA
1 TATTTTAAATTTTTTA
*
430867 TATTTATATATTTTTTA
1 TATTT-TAAATTTTTTA
*
430884 AATTTTAAA
1 TATTTTAAA
430893 AATTAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTAAATTTTTTA
Found at i:430904 original size:26 final size:27
Alignment explanation
Indices: 430847--430905 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
430837 ACATTCATGG
** * *
430847 TTATTATTTTAAATTTTTTATATTTAT
1 TTATTATTTTAAATTTTAAAAATTAAT
*
430874 ATATT-TTTTAAATTTTAAAAATTAAT
1 TTATTATTTTAAATTTTAAAAATTAAT
430900 TTATTA
1 TTATTA
430906 ATTATATTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (27 bp):
TTATTATTTTAAATTTTAAAAATTAAT
Found at i:432277 original size:12 final size:13
Alignment explanation
Indices: 432250--432316 Score: 79
Period size: 12 Copynumber: 5.4 Consensus size: 13
432240 GATAAGTTTA
*
432250 ATATTATT-TTTT
1 ATATTATTATATT
432262 AT-TTATTATATT
1 ATATTATTATATT
432274 AT-TTATTATATT
1 ATATTATTATATT
432286 -TATTATATATATT
1 ATATTAT-TATATT
*
432299 ATATTTTTATATT
1 ATATTATTATATT
432312 ATATT
1 ATATT
432317 TAAAATTACT
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
11 6 0.12
12 21 0.43
13 17 0.35
14 5 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:432298 original size:18 final size:19
Alignment explanation
Indices: 432250--432316 Score: 84
Period size: 18 Copynumber: 3.5 Consensus size: 19
432240 GATAAGTTTA
* *
432250 ATATTATTTTTTATTTATT
1 ATATTATATTATATTTATT
432269 ATATTATTTATTATATTTATT
1 ATATTA--TATTATATTTATT
432290 ATA-TATATTATATTT-TT
1 ATATTATATTATATTTATT
432307 ATATTATATT
1 ATATTATATT
432317 TAAAATTACT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
17 5 0.12
18 16 0.37
19 6 0.14
20 2 0.05
21 14 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATATTATATTATATTTATT
Found at i:432314 original size:13 final size:13
Alignment explanation
Indices: 432261--432317 Score: 64
Period size: 13 Copynumber: 4.4 Consensus size: 13
432251 TATTATTTTT
432261 TATTTATTATATTA
1 TATTT-TTATATTA
*
432275 T-TTATTATATT-
1 TATTTTTATATTA
*
432286 TATTATATATATTA
1 TATT-TTTATATTA
432300 TATTTTTATATTA
1 TATTTTTATATTA
432313 TATTT
1 TATTT
432318 AAAATTACTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 1 0.03
12 9 0.25
13 21 0.58
14 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTTTTATATTA
Found at i:432506 original size:2 final size:2
Alignment explanation
Indices: 432499--432529 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
432489 CTCCCAACAA
432499 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
432530 GGCTTTTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:433146 original size:2 final size:2
Alignment explanation
Indices: 433141--433192 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
433131 ATGTGTGAGT
* *
433141 TA TA TA TA TA TA TA TT TA TA CA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
433183 TA TA TA TA TA
1 TA TA TA TA TA
433193 AATTGCTGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:438858 original size:20 final size:20
Alignment explanation
Indices: 438792--438858 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
438782 TTTATTAATA
438792 ATTTAACATATTTAATA-TTT
1 ATTTAA-ATATTTAATATTTT
* *
438812 ATTT-AACA-TTAATTTTTT
1 ATTTAAATATTTAATATTTT
* *
438830 TTTTAAAATATTTAAAATTTT
1 ATTT-AAATATTTAATATTTT
438851 ATTTAAAT
1 ATTTAAAT
438859 GAATCAATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
17 5 0.14
18 8 0.22
19 1 0.03
20 11 0.31
21 11 0.31
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTAAATATTTAATATTTT
Found at i:457314 original size:37 final size:37
Alignment explanation
Indices: 457273--457357 Score: 161
Period size: 37 Copynumber: 2.3 Consensus size: 37
457263 TGCCACAATC
*
457273 ATGCATTTGTGATATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
457310 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
457347 ATGCATTTGTG
1 ATGCATTTGTG
457358 CTTCATTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:457544 original size:48 final size:47
Alignment explanation
Indices: 457473--457876 Score: 254
Period size: 39 Copynumber: 8.8 Consensus size: 47
457463 AGCCTATTAT
* *
457473 CAATGTCGCTGGCCTTGAATCAGCATATCGGCACCTTGTTTTTAAGAC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTG-TTTTAAGAC
* * * *
457521 CAATGTCGTTGGCCTTGAATCAGCACATTGGCA--------TAAGCC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTTTTAAGAC
*
457560 CAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGAC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT-TTTAAGAC
* * *
457608 CAATATCGCTGGCCTTGAATCAGTACATTGGCA--------TAAGCC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTTTTAAGAC
* *
457647 CAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTAACCTTCTTGAAGAC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT---GTT-TT-AAGAC
* * * * * * *
457699 CAATGTTGCTGGCCTTGAATCAGTACATTGGCATCTTCATCTTTAAGTC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GT-TTTAAGAC
* * * *
457748 CAACATCGCTGGCCTTGAATCAGTATATTCGCACC----TTTAAGCC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTTTTAAGAC
* ** * * * * *
457791 CAATGTTACTGGCCTTGAATCAGCACATTAGCACATTCATCTTTAAGTC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GT-TTTAAGAC
* ** *
457840 TAATATCGCTGGATTTGAATCAGCATATTGGCGCCTT
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
457877 TATCATATTT
Statistics
Matches: 277, Mismatches: 50, Indels: 57
0.72 0.13 0.15
Matches are distributed among these distances:
39 70 0.25
43 34 0.12
48 65 0.23
49 67 0.24
50 4 0.01
51 2 0.01
52 35 0.13
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (47 bp):
CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTTTTAAGAC
Found at i:457624 original size:87 final size:87
Alignment explanation
Indices: 457473--457732 Score: 385
Period size: 87 Copynumber: 2.9 Consensus size: 87
457463 AGCCTATTAT
* * * *
457473 CAATGTCGCTGGCCTTGAATCAGCATATCGGCACCTTGTTTTTAAGACCAATGTCGTTGGCCTTG
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTG
*
457538 AATCAGCACATTGGCATAAGCC
66 AATCAGTACATTGGCATAAGCC
* *
457560 CAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATATCGCTGGCCTTG
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTG
457625 AATCAGTACATTGGCATAAGCC
66 AATCAGTACATTGGCATAAGCC
* * * *
457647 CAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTAACCTTCTTGAAGACCAATGTTGCTGGC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT----GTCTTTAAGACCAATGTCGCTGGC
457712 CTTGAATCAGTACATTGGCAT
62 CTTGAATCAGTACATTGGCAT
457733 CTTCATCTTT
Statistics
Matches: 156, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
87 115 0.74
91 41 0.26
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (87 bp):
CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTG
AATCAGTACATTGGCATAAGCC
Found at i:457819 original size:92 final size:92
Alignment explanation
Indices: 457698--457878 Score: 256
Period size: 92 Copynumber: 2.0 Consensus size: 92
457688 TTCTTGAAGA
* * * *
457698 CCAATGTTGCTGGCCTTGAATCAGTACATTGGCATC-TTCATCTTTAAGTCCAACATCGCTGGCC
1 CCAATGTTACTGGCCTTGAATCAGCACATTAGCA-CATTCATCTTTAAGTCCAACATCGCTGGAC
*
457762 TTGAATCAGTATATTCGCACCTTTAAGC
65 TTGAATCAGCATATTCGCACCTTTAAGC
* * *
457790 CCAATGTTACTGGCCTTGAATCAGCACATTAGCACATTCATCTTTAAGTCTAATATCGCTGGATT
1 CCAATGTTACTGGCCTTGAATCAGCACATTAGCACATTCATCTTTAAGTCCAACATCGCTGGACT
* *
457855 TGAATCAGCATATTGGCGCCTTTA
66 TGAATCAGCATATTCGCACCTTTA
457879 TCATATTTAA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
91 1 0.01
92 77 0.99
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (92 bp):
CCAATGTTACTGGCCTTGAATCAGCACATTAGCACATTCATCTTTAAGTCCAACATCGCTGGACT
TGAATCAGCATATTCGCACCTTTAAGC
Found at i:457888 original size:144 final size:139
Alignment explanation
Indices: 457559--457925 Score: 341
Period size: 144 Copynumber: 2.6 Consensus size: 139
457549 TGGCATAAGC
* * * *
457559 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTC--TTTAAGACCAATATCGCTGGCC
1 CCAATATCGCTGGACTTGAATCAGCATATTGGCGCCTTTTCATTTTAAGACCAATATCGCTGGCC
* * * * *
457622 TTGAATCAGTACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTAAC
66 TTGAATCAGTACATTCGCATAAGCCCAATATCACTGGCCTTGAATCAGCACATTAGCACATT-A-
*
457687 CTTCTTGAAGA
129 CATCTTGAAGA
* * * * * * * * *
457698 CCAATGTTGCTGGCCTTGAATCAGTACATT-G-GCATCTTCATCTTTAAGTCCAACATCGCTGGC
1 CCAATATCGCTGGACTTGAATCAGCATATTGGCGCCTTTTCAT-TTTAAGACCAATATCGCTGGC
* * *
457761 CTTGAATCAGTATATTCGCACCTTTAAGCCCAATGTTACTGGCCTTGAATCAGCACATTAGCACA
65 CTTGAATCAGTACATTCGCA----TAAGCCCAATATCACTGGCCTTGAATCAGCACATTAGCACA
* *
457826 TT-CATCTTTAAGT
126 TTACATCTTGAAGA
* * *
457839 CTAATATCGCTGGATTTGAATCAGCATATTGGCGCCTTTATCATATTTAA-ACCCAATGTCGCTG
1 CCAATATCGCTGGACTTGAATCAGCATATTGGCGCCTTT-TCAT-TTTAAGA-CCAATATCGCTG
* *
457903 GCCTTGAATCAATACATTGGCAT
63 GCCTTGAATCAGTACATTCGCAT
457926 TCTTCTCATC
Statistics
Matches: 179, Mismatches: 38, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
137 4 0.02
138 1 0.01
139 25 0.14
140 38 0.21
141 31 0.17
142 1 0.01
143 4 0.02
144 75 0.42
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (139 bp):
CCAATATCGCTGGACTTGAATCAGCATATTGGCGCCTTTTCATTTTAAGACCAATATCGCTGGCC
TTGAATCAGTACATTCGCATAAGCCCAATATCACTGGCCTTGAATCAGCACATTAGCACATTACA
TCTTGAAGA
Found at i:458743 original size:20 final size:20
Alignment explanation
Indices: 458718--458772 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
458708 CTGCCAAGGA
458718 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
458738 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
458758 TTTGTATCGATACAT
1 AATGTATCGATACAT
458773 CTAAGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:462386 original size:18 final size:19
Alignment explanation
Indices: 462353--462391 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
462343 TAGAATTCCA
462353 CATCATACATTCATAATAT
1 CATCATACATTCATAATAT
462372 CATCATACA-TCATAATAT
1 CATCATACATTCATAATAT
462390 CA
1 CA
462392 CTTTAGACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (19 bp):
CATCATACATTCATAATAT
Found at i:462647 original size:29 final size:29
Alignment explanation
Indices: 462562--463114 Score: 608
Period size: 28 Copynumber: 19.1 Consensus size: 29
462552 CATTCATCTC
* * *
462562 TTCACAGCCTACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
462590 TTCAAAGCCCACAAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-ACTCTT
* *
462620 TTCAATGCCCACAAATCAGTGGCACTC-T
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
462648 TTCAAATCCCACAAGTCAATGGCACTCAT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
462677 TTCAAAGCCCACATGTCAATGGCACTCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
462706 TTCAAAGCTCACAAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
462735 TT-AAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
462763 TTCAAAACCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
462791 TTCAAAGCCCATAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
462819 TTCAAAGCCCATGCAAGTTAATGGCAC-CCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACTCTT
462849 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
462878 TTCAAAGCCCACAAGTTAGTGGCAC-CATT
1 TTCAAAGCCCACAAGTCAGTGGCACTC-TT
*
462907 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
462935 TTCAAAGCCCACAAGTCAGTAGCACT-TT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
462963 TTCAAAGCCCACAAGTTAGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
462991 TTCAAAGTCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
463020 TTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CACTCTT
*
463050 TTCAAAGCTCACACGAGTC-GATGGCAACTCTT
1 TTCAAAGC-C-CACAAGTCAG-TGGC-ACTCTT
* * * *
463082 TTTAAAGCACACACAAGTTAATGGCACTTTT
1 TTCAAAGC-C-CACAAGTCAGTGGCACTCTT
463113 TT
1 TT
463115 TAAAAAAAAG
Statistics
Matches: 453, Mismatches: 52, Indels: 37
0.84 0.10 0.07
Matches are distributed among these distances:
27 1 0.00
28 193 0.43
29 152 0.34
30 64 0.14
31 9 0.02
32 33 0.07
33 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:462922 original size:201 final size:199
Alignment explanation
Indices: 462572--463109 Score: 677
Period size: 201 Copynumber: 2.7 Consensus size: 199
462562 TTCACAGCCT
* * *
462572 ACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTTTTCAATGCCCACAAATC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTT
* * * * * *
462637 AGTGGCACTCTTTCAAATCCCACAAGTCAATGGCACTCATTTCAAAGCCCACATGTCAATGGCAC
65 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAATGGCAC
* * * * *
462702 TCCTTTCAAAGCTCACAAGTTAGTGGCACCCTTTTAAAGCCCATAAGTCAGTGGCACTCTTTTCA
130 TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGCACT-TTTTCA
462767 AAACCC
194 AAACCC
* * *
462773 ACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTTAGTGGCAC-CCTTTCAAAGCCCATGCAAGT
1 ACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGT
* *
462837 TAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA
64 TAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAATGGCA
*
462902 C-CATTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGCACTTTTTC
129 CTC-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGCACTTTTTC
*
462966 AAAGCCC
193 AAAACCC
* * * *
462973 ACAAGTTAGTGGCATCTTTTCAAAGTCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGCTA
1 ACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTA
* * * *
463038 GTGGTAACTCTTTTCAAAGCTCACACGAGTC-GATGGCAACTCTTTTTAAAGCACACACAAGTTA
66 GTGG-CAC-CCTTTCAAAGC-C-CACAAGTCAG-TGGC-ACTCTTTTCAAAGC-C-CACAAGTTA
463102 ATGGCACT
123 ATGGCACT
463110 TTTTTTAAAA
Statistics
Matches: 290, Mismatches: 34, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
199 21 0.07
200 54 0.19
201 173 0.60
202 2 0.01
203 11 0.04
204 13 0.04
205 1 0.00
206 15 0.05
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (199 bp):
ACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTA
GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAATGGCACT
CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGCACTTTTTCAAA
ACCC
Found at i:464048 original size:51 final size:51
Alignment explanation
Indices: 463972--464114 Score: 225
Period size: 51 Copynumber: 2.8 Consensus size: 51
463962 TATGGAAAAG
* *
463972 TACCCAGATATATCGATACATTCTTCAATGTATCAATACATTCTGTCTTTT
1 TACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTT
464023 TACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTT
1 TACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTT
** *
464074 TACCTGGATGTATC-ATTACATTTTTCAATGTATCGATACAT
1 TACCCAGATGTATCGA-TACATTCTTCAATGTATCGATACAT
464115 CTAGTTAAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
50 1 0.01
51 85 0.99
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.41
Consensus pattern (51 bp):
TACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTT
Found at i:468040 original size:28 final size:28
Alignment explanation
Indices: 468000--468054 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
467990 ACTAAACCAA
*
468000 ATATATATAATAAAATCTAATTAAAAAT
1 ATATATATAATAAAATCTAATAAAAAAT
*
468028 ATATATATGATAAAATCTAATAAAAAA
1 ATATATATAATAAAATCTAATAAAAAA
468055 ATAAAGAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (28 bp):
ATATATATAATAAAATCTAATAAAAAAT
Found at i:468466 original size:9 final size:9
Alignment explanation
Indices: 468452--468476 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
468442 TTAGTACAAA
468452 ATTTTAATT
1 ATTTTAATT
468461 ATTTTAATT
1 ATTTTAATT
468470 ATTTTAA
1 ATTTTAA
468477 ATTTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTAATT
Found at i:469012 original size:14 final size:14
Alignment explanation
Indices: 468971--469009 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
468961 TTATTTAAAG
*
468971 TTAATTATAAAATA
1 TTAAATATAAAATA
*
468985 TTAAATATTAAATA
1 TTAAATATAAAATA
468999 TT-AATATAAAA
1 TTAAATATAAAA
469010 ATAATTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAAATATAAAATA
Found at i:469069 original size:17 final size:18
Alignment explanation
Indices: 469033--469088 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
469023 TTTATTAATT
469033 ATAAATAATAAAATATATAAA
1 ATAAATAA-AAAA-A-ATAAA
* *
469054 ATAAA-CAAAAAAATAAC
1 ATAAATAAAAAAAATAAA
*
469071 CTAAATAAAAAAAATAAA
1 ATAAATAAAAAAAATAAA
469089 TTTTTTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 8 0.28
18 11 0.38
19 4 0.14
20 1 0.03
21 5 0.17
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (18 bp):
ATAAATAAAAAAAATAAA
Found at i:470483 original size:17 final size:17
Alignment explanation
Indices: 470453--470485 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
470443 TATTGATTTT
470453 TAGATATAAAAAAATAA
1 TAGATATAAAAAAATAA
470470 TAGA-ATAAATAAAATA
1 TAGATATAAA-AAAATA
470486 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
TAGATATAAAAAAATAA
Found at i:470816 original size:44 final size:42
Alignment explanation
Indices: 470717--470821 Score: 106
Period size: 44 Copynumber: 2.4 Consensus size: 42
470707 TTTAAATTAT
* * *
470717 TATTTAAATAATAAAATAATATTTTTTATTTATATTTAATAA
1 TATTTAAATATTAAAATAAAATTATTTATTTATATTTAATAA
*
470759 TATAAATT-AATATTAATATAAAAATTATTTATTTAATAATTTAAT-A
1 TAT---TTAAATATTAAAAT-AAAATTATTTATTT-AT-ATTTAATAA
470805 TATTTAAATATTAAAAT
1 TATTTAAATATTAAAAT
470822 TTTAATTACA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
42 3 0.06
43 2 0.04
44 19 0.37
45 14 0.27
46 6 0.12
47 7 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (42 bp):
TATTTAAATATTAAAATAAAATTATTTATTTATATTTAATAA
Found at i:480180 original size:2 final size:2
Alignment explanation
Indices: 480173--480211 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
480163 AAGCTCAATT
480173 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
480212 ATATATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:480428 original size:28 final size:27
Alignment explanation
Indices: 480370--480452 Score: 91
Period size: 28 Copynumber: 3.1 Consensus size: 27
480360 ATTCGTAAAT
*
480370 TTATTTTATTATTTAAA-AATATAAAATA
1 TTATTTTATTAATTAAATAA-ATAAAA-A
480398 TTATTTTATTAATTAAATTAAATAAAAA
1 TTATTTTATTAATTAAA-TAAATAAAAA
* *
480426 TTATATT-TT-ATTAGATAAATAAAAA
1 TTATTTTATTAATTAAATAAATAAAAA
480451 TT
1 TT
480453 TGTGTTGGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
25 12 0.24
26 5 0.10
27 2 0.04
28 23 0.46
29 6 0.12
30 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (27 bp):
TTATTTTATTAATTAAATAAATAAAAA
Found at i:480445 original size:30 final size:31
Alignment explanation
Indices: 480366--480438 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
480356 TTCTATTCGT
*
480366 AAAT-TTATTTTATT-ATTTAA--AAATATA
1 AAATATTATTTTATTAATTAAATTAAATATA
480393 AAATATTATTTTATTAATTAAATTAAATA-A
1 AAATATTATTTTATTAATTAAATTAAATATA
480423 AAAT-TATATTTTATTA
1 AAATAT-TATTTTATTA
480439 GATAAATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 4 0.10
28 10 0.25
29 6 0.15
30 15 0.38
31 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
AAATATTATTTTATTAATTAAATTAAATATA
Found at i:480809 original size:13 final size:13
Alignment explanation
Indices: 480793--480838 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
480783 TTTAAATATG
*
480793 TTTTTTAATTTAA
1 TTTTTTAATTAAA
480806 -TTTTTAA-TAAA
1 TTTTTTAATTAAA
*
480817 TTTTTTTATTAATA
1 TTTTTTAATTAA-A
480831 TTTTTTAA
1 TTTTTTAA
480839 AAAATGTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
11 3 0.11
12 13 0.48
13 3 0.11
14 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTTTAATTAAA
Found at i:480920 original size:20 final size:19
Alignment explanation
Indices: 480887--480927 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
480877 CTAACTTTAC
480887 AACTAGTATAATAAAATTAT
1 AACTAGTATAATAAAA-TAT
* *
480907 AACTATTATTATAAAATAT
1 AACTAGTATAATAAAATAT
480926 AA
1 AA
480928 ATTTTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (19 bp):
AACTAGTATAATAAAATAT
Found at i:480934 original size:19 final size:19
Alignment explanation
Indices: 480893--480944 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
480883 TTACAACTAG
*
480893 TATAATAAAATTATAACTAT
1 TATAATAAAA-TATAAATAT
* *
480913 TATTATAAAATATAAATTT
1 TATAATAAAATATAAATAT
480932 TATAATTAAAATA
1 TATAA-TAAAATA
480945 CCTTATTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAATAAAATATAAATAT
Found at i:481709 original size:15 final size:16
Alignment explanation
Indices: 481691--481724 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
481681 AATTTTTGAA
481691 TTTA-GATATTTTAAT
1 TTTAGGATATTTTAAT
*
481706 TTTAGGCTATTTTAAT
1 TTTAGGATATTTTAAT
481722 TTT
1 TTT
481725 GATTAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (16 bp):
TTTAGGATATTTTAAT
Found at i:483141 original size:18 final size:18
Alignment explanation
Indices: 483098--483209 Score: 54
Period size: 18 Copynumber: 6.3 Consensus size: 18
483088 TCAATTATAA
* *
483098 ATATTTTT-ATATGTTAT
1 ATATTTTTAAAATATTAT
483115 A-ATTATTTAAAATATTAT
1 ATATT-TTTAAAATATTAT
*
483133 ATATTTTTATAAT-TTAT
1 ATATTTTTAAAATATTAT
* ** **
483150 ATAATAATAATTTATATAT
1 ATATTTTTAAAATAT-TAT
* *
483169 ATAATTTAATAAAT-TTAT
1 ATATTTTTA-AAATATTAT
*
483187 ATATTTTTTAAAA-ATTTT
1 ATA-TTTTTAAAATATTAT
483205 ATATT
1 ATATT
483210 ATAATTTAAT
Statistics
Matches: 70, Mismatches: 17, Indels: 16
0.68 0.17 0.16
Matches are distributed among these distances:
16 3 0.04
17 17 0.24
18 31 0.44
19 17 0.24
20 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (18 bp):
ATATTTTTAAAATATTAT
Found at i:483172 original size:13 final size:14
Alignment explanation
Indices: 483140--483180 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
483130 TATATATTTT
483140 TATAATTTATATAA
1 TATAATTTATATAA
483154 TAATAATTTATAT-A
1 T-ATAATTTATATAA
483168 TATAATTTA-ATAA
1 TATAATTTATATAA
483181 ATTTATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.08
13 9 0.36
14 3 0.12
15 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATAATTTATATAA
Found at i:483178 original size:21 final size:21
Alignment explanation
Indices: 483147--483224 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
483137 TTTTATAATT
483147 TATATAA--TAATAATTTATA
1 TATATAATTTAATAATTTATA
483166 TATATAATTTAATAAATTTATA
1 TATATAATTTAAT-AATTTATA
* *
483188 TAT-T-TTTTAAAAATTT-TA
1 TATATAATTTAATAATTTATA
*
483206 TATTATAATTTAATTATTT
1 TA-TATAATTTAATAATTT
483225 TTATCGTGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.08
19 13 0.27
20 6 0.12
21 14 0.29
22 11 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATATAATTTAATAATTTATA
Found at i:483189 original size:20 final size:20
Alignment explanation
Indices: 483154--483219 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
483144 ATTTATATAA
*
483154 TAATAATTTATATATATAATT
1 TAATAAATT-TATATATAATT
**
483175 TAATAAATTTATATATTTTT
1 TAATAAATTTATATATAATT
483195 TAA-AAATTTTATATTATAATT
1 TAATAAA-TTTATA-TATAATT
483216 TAAT
1 TAAT
483220 TATTTTTATC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.08
20 18 0.49
21 16 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATAAATTTATATATAATT
Found at i:484208 original size:96 final size:95
Alignment explanation
Indices: 484043--484329 Score: 396
Period size: 96 Copynumber: 3.0 Consensus size: 95
484033 AGTTTTGAAC
* ** * *
484043 CCAAGTCGACAATAGTTCAGTCAGACATTTCATCGAACACTGAACTTGCTGAAAATGCAAGTAAG
1 CCAAGTCGACAATAGTTCAGTCAGACATTTCATCGAACACTGGAGATGCTGAAAATGCAATTAAA
*
484108 GAAGATATCCTAACGT-TCGAACTTAAGGAA
66 GAAGATAACCTAACGTCT-GAACTTAAGGAA
* * * * *
484138 TCCAAGTTGACAATAGTTCAGCCAGACATTTCAGCGAACCCTGGGGATGCTGAAAATGCAATTAA
1 -CCAAGTCGACAATAGTTCAGTCAGACATTTCATCGAACACTGGAGATGCTGAAAATGCAATTAA
484203 AGAAGATAACCTAACGTCTGAACTTAAGGAA
65 AGAAGATAACCTAACGTCTGAACTTAAGGAA
* * *
484234 CTCAAGTCGACAATAGTTCAGTTAGATATTTCATCGAACACTGGAGATGCTGAAAATTCAATTAA
1 C-CAAGTCGACAATAGTTCAGTCAGACATTTCATCGAACACTGGAGATGCTGAAAATGCAATTAA
* *
484299 TGAAGATAACCTAACATCTGAACTTAAGGAA
65 AGAAGATAACCTAACGTCTGAACTTAAGGAA
484330 GAGGTTACTG
Statistics
Matches: 168, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 166 0.99
97 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (95 bp):
CCAAGTCGACAATAGTTCAGTCAGACATTTCATCGAACACTGGAGATGCTGAAAATGCAATTAAA
GAAGATAACCTAACGTCTGAACTTAAGGAA
Found at i:486872 original size:25 final size:27
Alignment explanation
Indices: 486843--486892 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
486833 TTTAAATAAC
486843 TATTT-AATTAA-TAAAAAATATATTT
1 TATTTAAATTAATTAAAAAATATATTT
*
486868 TATTTAAATTAATTATAAAATATAT
1 TATTTAAATTAATTAAAAAATATAT
486893 AAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 6 0.27
27 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTTAAATTAATTAAAAAATATATTT
Found at i:488187 original size:15 final size:15
Alignment explanation
Indices: 488153--488197 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
488143 ATAGATCTAG
488153 AATTAATTGTATAA-TA
1 AATTAATT-TA-AATTA
488169 AATTAATTTAAATTA
1 AATTAATTTAAATTA
*
488184 AATTATTTTAAATT
1 AATTAATTTAAATT
488198 TTTAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 2 0.07
15 17 0.63
16 8 0.30
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AATTAATTTAAATTA
Found at i:488372 original size:36 final size:36
Alignment explanation
Indices: 488305--488375 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
488295 TTTAAAACTT
*
488305 AAATTAATCAAGTTAAATTATTAAAGATTTAATATA
1 AAATTAATCAAGTTAAATAATTAAAGATTTAATATA
*
488341 AAATTAATCAATTTTAAATCAATT-AAG-TTTAATAT
1 AAATTAATCAA-GTTAAAT-AATTAAAGATTTAATAT
488376 TTGAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 19 0.61
37 9 0.29
38 3 0.10
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (36 bp):
AAATTAATCAAGTTAAATAATTAAAGATTTAATATA
Found at i:488661 original size:20 final size:20
Alignment explanation
Indices: 488638--488693 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
488628 ATACATCACA
488638 AAATATATAAATATTTATAT
1 AAATATATAAATATTTATAT
488658 AAATATATCAAA-ATTTATAT
1 AAATATAT-AAATATTTATAT
*
488678 AAATACATAATATATT
1 AAATATATAA-ATATT
488694 AAACTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 2 0.06
20 24 0.75
21 6 0.19
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATATATAAATATTTATAT
Found at i:488870 original size:40 final size:39
Alignment explanation
Indices: 488826--488910 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 39
488816 TCATATTTAA
*
488826 AATATTTTAT-AATTATATCAATTTTAATATATTAATAATT
1 AATATTTTATAAATTATA-AAATTTTAATATATTAAT-ATT
* * *
488866 AATATTATATAAATTTTAAAATTTTAATATATTTATATT
1 AATATTTTATAAATTATAAAATTTTAATATATTAATATT
488905 -ATATTT
1 AATATTT
488911 ATATGTCGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
38 5 0.13
39 3 0.08
40 25 0.64
41 6 0.15
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (39 bp):
AATATTTTATAAATTATAAAATTTTAATATATTAATATT
Found at i:488873 original size:32 final size:33
Alignment explanation
Indices: 488837--488908 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
488827 ATATTTTATA
* *
488837 ATTATATCAATTTTAATATATTAATA-ATTAAT
1 ATTATATAAATTTTAAAATATTAATATATTAAT
* *
488869 ATTATATAAATTTTAAAATTTTAATATATTTAT
1 ATTATATAAATTTTAAAATATTAATATATTAAT
488902 ATTATAT
1 ATTATAT
488909 TTATATGTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
32 23 0.66
33 12 0.34
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (33 bp):
ATTATATAAATTTTAAAATATTAATATATTAAT
Found at i:493675 original size:2 final size:2
Alignment explanation
Indices: 493668--493696 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
493658 GTCTTATGTA
493668 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
493697 ACGTGTTTAC
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:494311 original size:108 final size:108
Alignment explanation
Indices: 494117--494329 Score: 372
Period size: 108 Copynumber: 2.0 Consensus size: 108
494107 CGTCAGATGG
* *
494117 AGCCTGAAGAAGCTAATGTTCCTCTCAACTCTGTTCTAATGCCTAAAATCGACCATCTTGAGCAA
1 AGCCTGAAGAAGCTAATGTTCCTCTCAACTCTGTTCTAATGCCTAAAATCAACCATCTTGAACAA
* *
494182 TCTGACTTGCCTGTTAGTGAAGAAATACATGCTAAAGTTGTGC
66 TCTGACTTGCCTGTTAATGAAGAAAAACATGCTAAAGTTGTGC
494225 AGCCTGAAGAAGCTAATGTTCCTCTCAACTCTGTTCTAATGCCTAAAATCAACCATCTTGAACAA
1 AGCCTGAAGAAGCTAATGTTCCTCTCAACTCTGTTCTAATGCCTAAAATCAACCATCTTGAACAA
* *
494290 TCTGACTTGCCTGTTAATGAAGAAAAACCTGCTGAAGTTG
66 TCTGACTTGCCTGTTAATGAAGAAAAACATGCTAAAGTTG
494330 ATTTCGACGA
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 99 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (108 bp):
AGCCTGAAGAAGCTAATGTTCCTCTCAACTCTGTTCTAATGCCTAAAATCAACCATCTTGAACAA
TCTGACTTGCCTGTTAATGAAGAAAAACATGCTAAAGTTGTGC
Found at i:496924 original size:2 final size:2
Alignment explanation
Indices: 496917--496950 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
496907 TATCCTTAAG
496917 AT AT 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 AT AT
496951 GAGGATATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:498032 original size:148 final size:153
Alignment explanation
Indices: 497616--498052 Score: 521
Period size: 158 Copynumber: 2.9 Consensus size: 153
497606 ATAAAATACA
* * *
497616 CAATCATGTCGATCAAGTATTAGCTTAGATGGCATGCATGGTGGATGAATTTCTAGAAGTTACGG
1 CAATCATGTCGATCGAGTATTAGCTTAGATGGCATGCATGTTGGATGAATTTCTAGAAGTTACAG
* *
497681 GTTCGAGAGGATTTGAACACG-AGATATCCTGCTCAGCTGATTTAAGTAGATAGGGGTCAATGGT
66 ATTCGAGAGGATTTGAACACGTA-ATATCCTGCTCAGGTGATTTAAGTAGATAGGGGTCAATGG-
497745 TAAGTATAGATACTTATATATATATATTG
129 T---TATAGATAC-TATATATATATATTG
* * * * * *
497774 CAAACATGTCGAACGAGTATCAACTTAGATGGCATGCATGTTGGATGAATTTCTAAAAGTTA-TG
1 CAATCATGTCGATCGAGTATTAGCTTAGATGGCATGCATGTTGGATGAATTTCTAGAAGTTACAG
* *
497838 AATTCGAGAGGATTTGAACACATAATATCCTGCTCATGTGATTTAAGTAGATAGGGGTCAATGGT
66 -ATTCGAGAGGATTTGAACACGTAATATCCTGCTCAGGTGATTTAAGTAGATAGGGGTCAATGGT
497903 T-TAGATA-T-T-TATATAT-TT-
130 TATAGATACTATATATATATATTG
* * * * * *
497921 CAATCATGTCGATTGAGTATTTAGCTCAGACGGCATGCATGTTGGATGAATTTTTGGGAGTTACA
1 CAATCATGTCGATCGAGTA-TTAGCTTAGATGGCATGCATGTTGGATGAATTTCTAGAAGTTACA
* * * * * *
497986 GATTCAAGAGGATTTGAGCATGTAATATCCTGATCAGGTGATTTAAGTAGATAGGAGTCAAGGGT
65 GATTCGAGAGGATTTGAACACGTAATATCCTGCTCAGGTGATTTAAGTAGATAGGGGTCAATGGT
498051 TA
130 TA
498053 AATGTAGATA
Statistics
Matches: 242, Mismatches: 32, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
147 16 0.07
148 94 0.39
149 8 0.03
150 1 0.00
151 1 0.00
153 6 0.02
154 1 0.00
157 2 0.01
158 112 0.46
159 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (153 bp):
CAATCATGTCGATCGAGTATTAGCTTAGATGGCATGCATGTTGGATGAATTTCTAGAAGTTACAG
ATTCGAGAGGATTTGAACACGTAATATCCTGCTCAGGTGATTTAAGTAGATAGGGGTCAATGGTT
ATAGATACTATATATATATATTG
Found at i:498413 original size:30 final size:31
Alignment explanation
Indices: 498365--498450 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 31
498355 ATTTACTATT
* ** *
498365 TATAATTAATAAAAAAATTTAAATTAATATA
1 TATATTTAATAATTAAATTTAAATTAAAATA
*
498396 TATATTT-ATAATTAAATTTAAATAAAAATA
1 TATATTTAATAATTAAATTTAAATTAAAATA
* * *
498426 TATTTTTAATTATTAAATTTTAATT
1 TATATTTAATAATTAAATTTAAATT
498451 CGAATTTAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 25 0.56
31 20 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
TATATTTAATAATTAAATTTAAATTAAAATA
Found at i:498650 original size:17 final size:18
Alignment explanation
Indices: 498630--498664 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
498620 TGTTTATACC
*
498630 TAAAT-AAATTTTAATTT
1 TAAATGAAATATTAATTT
498647 TAAATGAAATATTAATTT
1 TAAATGAAATATTAATTT
498665 ATTTTAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TAAATGAAATATTAATTT
Found at i:498792 original size:15 final size:16
Alignment explanation
Indices: 498772--498801 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
498762 AATGGCTTTA
498772 TATTTTTTAT-TTTTT
1 TATTTTTTATGTTTTT
498787 TATTTTTTATGTTTT
1 TATTTTTTATGTTTT
498802 CTTTTGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TATTTTTTATGTTTTT
Found at i:500598 original size:30 final size:28
Alignment explanation
Indices: 500564--500639 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 28
500554 AAATAAGTGC
500564 TTATTTAAGTACAAATTAAAAAATATAAA-T
1 TTATTTAAGTA-AAA-T-AAAAATATAAAGT
*
500594 TTATTTGAGTAAAATAAAAATATAAAGTT
1 TTATTTAAGTAAAATAAAAATATAAAG-T
500623 TTATTTAA--AAAATAAAA
1 TTATTTAAGTAAAATAAAA
500640 TAATTTATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 20 0.48
28 1 0.02
29 11 0.26
30 10 0.24
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (28 bp):
TTATTTAAGTAAAATAAAAATATAAAGT
Found at i:501269 original size:18 final size:16
Alignment explanation
Indices: 501234--501289 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 16
501224 GGTTCATTTC
501234 TTTTATAAAAAA-TAAT
1 TTTTA-AAAAAATTAAT
501250 TTTTAAATATAAATTAATT
1 TTTTAAA-A-AAATTAA-T
501269 TTTTAAAAAAATTATAT
1 TTTTAAAAAAATTA-AT
501286 TTTT
1 TTTT
501290 TTGTTTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.06
16 6 0.17
17 14 0.40
18 5 0.14
19 8 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAAAAATTAAT
Found at i:501291 original size:19 final size:19
Alignment explanation
Indices: 501249--501290 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
501239 TAAAAAATAA
501249 TTTTTAAATATAAATTAAT
1 TTTTTAAATATAAATTAAT
501268 TTTTTAAA-A-AAATTATAT
1 TTTTTAAATATAAATTA-AT
501286 TTTTT
1 TTTTT
501291 TGTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.27
18 8 0.36
19 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTAAATATAAATTAAT
Found at i:501426 original size:19 final size:20
Alignment explanation
Indices: 501390--501433 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
501380 AAAACTTCAC
* *
501390 TTTTTATTACTGATAATTTA
1 TTTTTATTAATGATAATTAA
*
501410 TTTTTATTAATTA-AATTAA
1 TTTTTATTAATGATAATTAA
501429 TTTTT
1 TTTTT
501434 TTTTAAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTATTAATGATAATTAA
Found at i:501744 original size:14 final size:15
Alignment explanation
Indices: 501719--501747 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
501709 AGATTTAAGT
501719 TAAAATTATATTTTA
1 TAAAATTATATTTTA
501734 TAAAA-TATATTTTA
1 TAAAATTATATTTTA
501748 AATATTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAAAATTATATTTTA
Found at i:502014 original size:3 final size:3
Alignment explanation
Indices: 502006--502040 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
501996 TAAAATGCCC
502006 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
502041 CCAAAGATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:502813 original size:36 final size:37
Alignment explanation
Indices: 502759--502839 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 37
502749 CTCAAGTTGG
*
502759 ATAATA-AAAATTATTTTTTAAAT-TTAATTATAAATA
1 ATAATATAAAATTAATTTTTAAATATT-ATTATAAATA
* * *
502795 TTAATATAAAA-TAATTTTTTAATATTATTTTAAATA
1 ATAATATAAAATTAATTTTTAAATATTATTATAAATA
502831 ATAA-ATAAA
1 ATAATATAAA
502840 TTTTTAAATC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
35 5 0.13
36 27 0.71
37 6 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (37 bp):
ATAATATAAAATTAATTTTTAAATATTATTATAAATA
Found at i:502951 original size:5 final size:5
Alignment explanation
Indices: 502941--502966 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
502931 AGAAATTTAA
502941 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
502967 TTAATATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:503273 original size:17 final size:17
Alignment explanation
Indices: 503229--503274 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
503219 ATTTAAGTTA
503229 TTATT-AATAA-AAATT
1 TTATTAAATAATAAATT
*
503244 TAATTATAA-AATAAATT
1 TTATTA-AATAATAAATT
503261 TTATTAAATAATAA
1 TTATTAAATAATAA
503275 TTATATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 4 0.16
16 4 0.16
17 17 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTATTAAATAATAAATT
Found at i:503331 original size:26 final size:26
Alignment explanation
Indices: 503292--503354 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
503282 TTTTAAATTT
*
503292 TTATTTAAAATTAAAAT-AAATTTTAA
1 TTATTTTAAATTAAAATAAAATTTT-A
* *
503318 TTATTTTAAGTTAACATAAAATTTTA
1 TTATTTTAAATTAAAATAAAATTTTA
*
503344 TTACTTTAAAT
1 TTATTTTAAAT
503355 ATATTATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 24 0.77
27 7 0.23
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (26 bp):
TTATTTTAAATTAAAATAAAATTTTA
Found at i:503798 original size:21 final size:22
Alignment explanation
Indices: 503774--503816 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
503764 ATCTATTCAT
*
503774 ATTATTTTTTATGTTAT-TTTA
1 ATTATTCTTTATGTTATGTTTA
*
503795 ATTATTCTTTATTTTATGTTTA
1 ATTATTCTTTATGTTATGTTTA
503817 TGTTGTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (22 bp):
ATTATTCTTTATGTTATGTTTA
Found at i:507836 original size:248 final size:248
Alignment explanation
Indices: 507436--507887 Score: 852
Period size: 248 Copynumber: 1.8 Consensus size: 248
507426 ATAATTATTG
* *
507436 TATTATAATTTTATTTAAATCTCTCAAGTTTTTTTTTTCGGTACAAAAAAAGATAAATGTCAAAT
1 TATTATAATCTTATTTAAATCCCTCAAGTTTTTTTTTTCGGTACAAAAAAAGATAAATGTCAAAT
507501 ATGAATATACTTAATTTTTTTTAAAATTTTTTTAATATTTTACAGAATTGTATTATATTTCTATC
66 ATGAATATACTTAATTTTTTTTAAAATTTTTTTAATATTTTACAGAATTGTATTATATTTCTATC
507566 TGAATATTTAAATATTTTATTTTTTTAAAATATATATGTTCAAAACATATTTAAAACCAAAAGAA
131 TGAATATTTAAATATTTTA-TTTTTTAAAATATATATGTTCAAAACATATTTAAAACCAAAAGAA
507631 ATTATAATAATATTCATCGTAAATATCAATTATAAAATAATTATCATAATATCA
195 ATTATAATAATATTCATCGTAAATATCAATTATAAAATAATTATCATAATATCA
507685 TATTATAATCTTATTTAAATCCCTCAA-TTTTTTTTTTCGGTACAAAAAAAGATAAATGTCAAAT
1 TATTATAATCTTATTTAAATCCCTCAAGTTTTTTTTTTCGGTACAAAAAAAGATAAATGTCAAAT
*
507749 ATGAATATACTTAATTTTTTTTAAAATTTTTTTAATATTTTATAGAATTGTATTATATTTCTATC
66 ATGAATATACTTAATTTTTTTTAAAATTTTTTTAATATTTTACAGAATTGTATTATATTTCTATC
*
507814 TGAATATTTAAATATTTTATTTTTTAAAATATATATGTTCAAATCATATTTAAAACCAAAAGAAA
131 TGAATATTTAAATATTTTATTTTTTAAAATATATATGTTCAAAACATATTTAAAACCAAAAGAAA
507879 TTATAATAA
196 TTATAATAA
507888 AGGAGATTTT
Statistics
Matches: 199, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
247 54 0.27
248 120 0.60
249 25 0.13
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.46
Consensus pattern (248 bp):
TATTATAATCTTATTTAAATCCCTCAAGTTTTTTTTTTCGGTACAAAAAAAGATAAATGTCAAAT
ATGAATATACTTAATTTTTTTTAAAATTTTTTTAATATTTTACAGAATTGTATTATATTTCTATC
TGAATATTTAAATATTTTATTTTTTAAAATATATATGTTCAAAACATATTTAAAACCAAAAGAAA
TTATAATAATATTCATCGTAAATATCAATTATAAAATAATTATCATAATATCA
Found at i:508062 original size:12 final size:12
Alignment explanation
Indices: 508047--508105 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
508037 AATATTCATG
508047 TTAAATATATAT
1 TTAAATATATAT
*
508059 TTAAATATAAAT
1 TTAAATATATAT
* *
508071 ATAAATATAATTTT
1 TTAAATAT-A-TAT
*
508085 TTAAA-ATCT-T
1 TTAAATATATAT
508095 TTAAATATATA
1 TTAAATATATA
508106 AAATTTTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
10 6 0.17
11 4 0.11
12 18 0.50
13 3 0.08
14 5 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAAATATATAT
Found at i:508152 original size:23 final size:22
Alignment explanation
Indices: 508126--508168 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
508116 AAAAATTAAC
508126 ATATTAAATATCAAAATATATCT
1 ATATTAAATAT-AAAATATATCT
* *
508149 ATATTTAATATAATATATAT
1 ATATTAAATATAAAATATAT
508169 ATAAATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATTAAATATAAAATATATCT
Found at i:508177 original size:17 final size:15
Alignment explanation
Indices: 508149--508191 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
508139 AAATATATCT
*
508149 ATATTTAATATAATA
1 ATATTAAATATAATA
508164 TATATATAAATATAATA
1 -ATAT-TAAATATAATA
508181 ATATTAAATAT
1 ATATTAAATAT
508192 GATCTTCACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 7 0.28
16 8 0.32
17 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATTAAATATAATA
Found at i:508388 original size:22 final size:22
Alignment explanation
Indices: 508337--508405 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
508327 TGTTTTTTAA
*
508337 ATTTAGATA-TAAATATTAAATAT
1 ATTTA-ATATTAAATA-AAAATAT
**
508360 AAATAATATTAAATAAAAATAT
1 ATTTAATATTAAATAAAAATAT
*
508382 ATTTAATAATT-TA-AAAAATAT
1 ATTTAAT-ATTAAATAAAAATAT
508403 ATT
1 ATT
508406 AAAAGTAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 11 0.29
22 15 0.39
23 12 0.32
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (22 bp):
ATTTAATATTAAATAAAAATAT
Found at i:508389 original size:15 final size:16
Alignment explanation
Indices: 508348--508390 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
508338 TTTAGATATA
*
508348 AATATTAAATATAAAT
1 AATATTAAATAAAAAT
508364 AATATTAAATAAAAAT
1 AATATTAAATAAAAAT
*
508380 -ATATTTAATAA
1 AATATTAAATAA
508391 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATATTAAATAAAAAT
Found at i:508506 original size:24 final size:24
Alignment explanation
Indices: 508465--508511 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
508455 TTATTAATAT
508465 ATTTAAATATAAATTAAATATAAA
1 ATTTAAATATAAATTAAATATAAA
*
508489 ATTTAAAATTTAAA-TAAATATAA
1 ATTT-AAATATAAATTAAATATAA
508512 TTTAGAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTTAAATATAAATTAAATATAAA
Found at i:509043 original size:26 final size:28
Alignment explanation
Indices: 508979--509044 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 28
508969 ATTTAATTTT
**
508979 TATAAATTAA-TTAAAAATTATATTTTTA
1 TATAAA-TAATTTAAAAATTATATTTAAA
*
509007 TATTAAT-ATTTAAAAA-TATA-TTAAA
1 TATAAATAATTTAAAAATTATATTTAAA
509032 TATAAATAATTTA
1 TATAAATAATTTA
509045 TAATAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 9 0.28
26 10 0.31
27 8 0.25
28 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TATAAATAATTTAAAAATTATATTTAAA
Found at i:509062 original size:16 final size:16
Alignment explanation
Indices: 509017--509072 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 16
509007 TATTAATATT
*
509017 TAAAAATATATTAAATA
1 TAAAAATATAATAAA-A
509034 TAAATAATTTATAATAAAA
1 TAAA-AA--TATAATAAAA
*
509053 TAAAAATATAATATAA
1 TAAAAATATAATAAAA
509069 TAAA
1 TAAA
509073 TTTGTATCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 13 0.38
17 4 0.12
18 4 0.12
19 5 0.15
20 8 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAAAATATAATAAAA
Found at i:509108 original size:3 final size:3
Alignment explanation
Indices: 509095--509137 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
509085 ATTCATTCAA
*
509095 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
509138 ATACATCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:509215 original size:16 final size:16
Alignment explanation
Indices: 509194--509252 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
509184 ATATTTATAT
*
509194 ATTTTATTTATATAA-A
1 ATTTTAATTATA-AATA
509210 ATTTTAATTATAAATA
1 ATTTTAATTATAAATA
*
509226 ATTTTTATTAT-AATA
1 ATTTTAATTATAAATA
* *
509241 TTTTTAAATATA
1 ATTTTAATTATA
509253 TATTAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 14 0.39
16 22 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTAATTATAAATA
Found at i:509245 original size:14 final size:14
Alignment explanation
Indices: 509200--509246 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
509190 ATATATTTTA
*
509200 TTTA-TATAAAATT
1 TTTATTATAATATT
*
509213 TTAATTATAAATAATT
1 TTTATTAT-AAT-ATT
509229 TTTATTATAATATT
1 TTTATTATAATATT
509243 TTTA
1 TTTA
509247 AATATATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 3 0.11
14 10 0.36
15 5 0.18
16 10 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATTATAATATT
Found at i:509951 original size:22 final size:20
Alignment explanation
Indices: 509919--509993 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 20
509909 AATAATATAA
509919 ATATAAAAAATT-TTAAATAT
1 ATATAAAAAATTATTAAA-AT
509939 ATATAATATAAATTATTAAAAT
1 ATATAA-A-AAATTATTAAAAT
* *
509961 AT-T-AAAATTTA-TATAA-
1 ATATAAAAAATTATTAAAAT
509977 ATATAAAAAATT-TTAAA
1 ATATAAAAAATTATTAAA
509994 TATTATTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
16 2 0.04
17 5 0.11
18 14 0.31
19 1 0.02
20 7 0.16
21 2 0.04
22 9 0.20
23 5 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATAAAAAATTATTAAAAT
Found at i:509989 original size:58 final size:58
Alignment explanation
Indices: 509913--510028 Score: 175
Period size: 58 Copynumber: 2.0 Consensus size: 58
509903 TAATATAATA
509913 ATATAAATATAAAAAATTTTAAATA-TA-TATAATATAAAT-TATTAAAATATTAAAATTT
1 ATATAAATATAAAAAATTTTAAATATTATTATAATA-AAATATA-T-AAATATTAAAATTT
*
509971 ATATAAATATAAAAAATTTTAAATATTATTATAATAAAATATATAAATATTATAATTT
1 ATATAAATATAAAAAATTTTAAATATTATTATAATAAAATATATAAATATTAAAATTT
510029 TTTTCTTTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
58 38 0.70
59 7 0.13
60 9 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (58 bp):
ATATAAATATAAAAAATTTTAAATATTATTATAATAAAATATATAAATATTAAAATTT
Found at i:510017 original size:24 final size:22
Alignment explanation
Indices: 509978--510023 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
509968 TTTATATAAA
*
509978 TATAAAAAATTTTAAATATTAT
1 TATAAAAAATTATAAATATTAT
510000 TATAATAAAATATATAAATATTAT
1 TATAA-AAAAT-TATAAATATTAT
510024 AATTTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 5 0.24
24 11 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TATAAAAAATTATAAATATTAT
Found at i:510308 original size:18 final size:18
Alignment explanation
Indices: 510287--510348 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
510277 TATTAATATA
510287 AATTTTTTAAAAAATAAT
1 AATTTTTTAAAAAATAAT
* *
510305 AATTTATTAATAAATAAT
1 AATTTTTTAAAAAATAAT
510323 --TTTTTTACAAAAA-AAT
1 AATTTTTTA-AAAAATAAT
510339 AATTATTTTA
1 AATT-TTTTA
510349 TTTATAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
16 9 0.25
17 4 0.11
18 18 0.50
19 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTTTTAAAAAATAAT
Found at i:510340 original size:34 final size:31
Alignment explanation
Indices: 510262--510342 Score: 101
Period size: 34 Copynumber: 2.5 Consensus size: 31
510252 AAAAAATAAA
*
510262 TTTAAAAAAAATCA-TTATTAATATAAATTT
1 TTTAAAAAAAATAATTTATTAATATAAATTT
*
510292 TTTAAAAAATAATAATTTATTAATAAATAATTTT
1 TTTAAAAAA-AATAATTTATTAAT--ATAAATTT
510326 TTTACAAAAAAATAATT
1 TTTA-AAAAAAATAATT
510343 ATTTTATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
30 9 0.20
31 4 0.09
32 8 0.18
34 18 0.41
35 5 0.11
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTAAAAAAAATAATTTATTAATATAAATTT
Found at i:510357 original size:19 final size:19
Alignment explanation
Indices: 510288--510358 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
510278 ATTAATATAA
*
510288 ATTTT-TTAAAAAATAA-T
1 ATTTTATTAATAAATAATT
*
510305 AATTTATTAATAAATAATT
1 ATTTTATTAATAAATAATT
* ** *
510324 TTTTTACAAAAAAATAATT
1 ATTTTATTAATAAATAATT
*
510343 ATTTTATTTATAAATA
1 ATTTTATTAATAAATA
510359 TCAACCAAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
17 4 0.10
18 10 0.25
19 26 0.65
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTTATTAATAAATAATT
Found at i:513402 original size:10 final size:10
Alignment explanation
Indices: 513336--513526 Score: 55
Period size: 10 Copynumber: 20.2 Consensus size: 10
513326 TAATAATACG
*
513336 ATTAAATTTA
1 ATTATATTTA
513346 A-TA-ATTTA
1 ATTATATTTA
513354 A-TA-ATTTA
1 ATTATATTTA
513362 TATT-TATTT-
1 -ATTATATTTA
*
513371 A-TATATTTT
1 ATTATATTTA
513380 ATTATATTATA
1 ATTATATT-TA
513391 ATTATATTTA
1 ATTATATTTA
*
513401 A-TAT-GTT-
1 ATTATATTTA
*
513408 -TTATATTCA
1 ATTATATTTA
513417 TATTA-ATTTTA
1 -ATTATA-TTTA
*
513428 ATTAT-TAATA
1 ATTATAT-TTA
513438 ATT-TATATT-
1 ATTATAT-TTA
513447 ATTATATTTTA
1 ATTATA-TTTA
* *
513458 A-AATA-ATA
1 ATTATATTTA
* *
513466 TTTATATTTT
1 ATTATATTTA
513476 ATTATATTTTA
1 ATTATA-TTTA
513487 ATTAT-TTT-
1 ATTATATTTA
*
513495 A-TAAATATTA
1 ATTATAT-TTA
513505 TATT-TATTTA
1 -ATTATATTTA
513515 ATTATATTTA
1 ATTATATTTA
513525 AT
1 AT
513527 ATTATTAAAT
Statistics
Matches: 136, Mismatches: 17, Indels: 56
0.65 0.08 0.27
Matches are distributed among these distances:
7 6 0.04
8 26 0.19
9 23 0.17
10 52 0.38
11 28 0.21
12 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.59
Consensus pattern (10 bp):
ATTATATTTA
Found at i:513464 original size:25 final size:24
Alignment explanation
Indices: 513434--513509 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 24
513424 TTTAATTATT
513434 AATAATTTATATTATTATATTTTAA
1 AATAATTTATATTATTATATTTT-A
513459 AATAATATTTATATTTTATTATATTTTA
1 AAT-A-ATTTATA--TTATTATATTTTA
* * *
513487 ATTATTTTATAAATATTATATTT
1 AATAATTTAT-ATTATTATATTT
513510 ATTTAATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
25 13 0.30
26 6 0.14
27 9 0.21
28 3 0.07
29 12 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
AATAATTTATATTATTATATTTTA
Found at i:513477 original size:29 final size:31
Alignment explanation
Indices: 513407--513488 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 31
513397 TTTAATATGT
* *
513407 TTTATATTCATATTA-ATTTTAATTATTAATAA
1 TTTATATT-TTATTATATTTTAA-TAATAATAA
513439 TTTATA--TTATTATATTTTAA-AATAAT-A
1 TTTATATTTTATTATATTTTAATAATAATAA
513466 TTTATATTTTATTATATTTTAAT
1 TTTATATTTTATTATATTTTAAT
513489 TATTTTATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
27 7 0.16
28 5 0.11
29 19 0.43
30 7 0.16
32 6 0.14
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTATATTTTATTATATTTTAATAATAATAA
Found at i:513513 original size:39 final size:39
Alignment explanation
Indices: 513451--513532 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
513441 TATATTATTA
* *
513451 TATTTTAAAATAATATTTATATTTTATTATATTTTA-AT
1 TATTTTAAAATAATATTTATATTTAATTATATTTAATAT
*
513489 TATTTTATAAATATTATATT-TATTTAATTATATTTAATAT
1 TATTTTA-AAATAATAT-TTATATTTAATTATATTTAATAT
513529 TATT
1 TATT
513533 AAATTTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 7 0.18
39 23 0.61
40 8 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (39 bp):
TATTTTAAAATAATATTTATATTTAATTATATTTAATAT
Found at i:513518 original size:14 final size:15
Alignment explanation
Indices: 513359--513524 Score: 72
Period size: 14 Copynumber: 11.6 Consensus size: 15
513349 ATTTAATAAT
513359 TTATATTTATTTATA
1 TTATATTTATTTATA
513374 -TAT-TTTA-TTATA
1 TTATATTTATTTATA
*
513386 TTATAATTA--TAT-
1 TTATATTTATTTATA
*
513398 TTAATATGT-TTTATA
1 TT-ATATTTATTTATA
*
513413 TTCATATTAATTT-TAA
1 TT-ATATTTATTTAT-A
* *
513429 TTATTAATAATTTATA
1 TTA-TATTTATTTATA
*
513445 TTAT-TATATTT-TA
1 TTATATTTATTTATA
** *
513458 AAATA-ATATTTATA
1 TTATATTTATTTATA
*
513472 TTTTATTATATTT-TAA
1 TTATATT-TATTTAT-A
**
513488 TTAT-TTTATAAATA
1 TTATATTTATTTATA
513502 TTATATTTATTTA-A
1 TTATATTTATTTATA
513516 TTATATTTA
1 TTATATTTA
513525 ATATTATTAA
Statistics
Matches: 113, Mismatches: 21, Indels: 35
0.67 0.12 0.21
Matches are distributed among these distances:
12 7 0.06
13 24 0.21
14 35 0.31
15 19 0.17
16 27 0.24
17 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.61
Consensus pattern (15 bp):
TTATATTTATTTATA
Found at i:513531 original size:20 final size:19
Alignment explanation
Indices: 513463--513537 Score: 52
Period size: 20 Copynumber: 4.0 Consensus size: 19
513453 TTTTAAAATA
513463 ATATTTATA-T-TTT-ATT
1 ATATTTATATTATTTAATT
*
513479 ATATTT-TAATTATTTTA-T
1 ATATTTAT-ATTATTTAATT
*
513497 AAATATTATATTTATTTAATT
1 ATAT-TTATA-TTATTTAATT
*
513518 ATATTTAATATTATTAAATT
1 ATATTT-ATATTATTTAATT
513538 TAATATTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
15 1 0.02
16 7 0.15
17 1 0.02
18 7 0.15
19 4 0.09
20 19 0.41
21 7 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTTATATTATTTAATT
Found at i:513532 original size:29 final size:28
Alignment explanation
Indices: 513349--513539 Score: 104
Period size: 27 Copynumber: 7.0 Consensus size: 28
513339 AAATTTAATA
*
513349 ATTTAA-TA-ATTTATATTTATT-TATAT
1 ATTTAATTATATTTATA-TTATTATATTT
*
513375 ATTTTATTATA-TTATA--ATTATATTT
1 ATTTAATTATATTTATATTATTATATTT
* * * *
513400 AATATGT-TTTATATTCATATTAATTTTAATT
1 -AT-T-TAATTATATTTATATT-ATTATATTT
513431 A-TTAA-TA-ATTTATATTATTATATTT
1 ATTTAATTATATTTATATTATTATATTT
** * *
513456 -TAAAATAATATTTATATT-TTAT-TAT
1 ATTTAATTATATTTATATTATTATATTT
*
513481 ATTTTAATTAT-TTTATAAATATTATATTT
1 A-TTTAATTATATTTAT-ATTATTATATTT
*
513510 ATTTAATTATATTTAATATTATTAAATTT
1 ATTTAATTATATTT-ATATTATTATATTT
513539 A
1 A
513540 ATATTATTAA
Statistics
Matches: 123, Mismatches: 21, Indels: 39
0.67 0.11 0.21
Matches are distributed among these distances:
24 3 0.02
25 15 0.12
26 25 0.20
27 33 0.27
28 20 0.16
29 17 0.14
30 3 0.02
31 7 0.06
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.60
Consensus pattern (28 bp):
ATTTAATTATATTTATATTATTATATTT
Found at i:513549 original size:15 final size:15
Alignment explanation
Indices: 513515--513549 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
513505 TATTTATTTA
*
513515 ATTATATTTAATATT
1 ATTAAATTTAATATT
513530 ATTAAATTTAATATT
1 ATTAAATTTAATATT
513545 ATTAA
1 ATTAA
513550 TGTTGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTAAATTTAATATT
Found at i:514006 original size:18 final size:18
Alignment explanation
Indices: 513983--514072 Score: 65
Period size: 18 Copynumber: 4.9 Consensus size: 18
513973 TATGTAATCT
*
513983 AAATTATTAAAATATAAA
1 AAATTATAAAAATATAAA
*
514001 AAATTATAAAAATATAAC
1 AAATTATAAAAATATAAA
* * * *
514019 ATATTTTAAATATCATTATA
1 AAATTATAAAAAT-A-TAAA
*
514039 ATATTATAAAAAT-TAAA
1 AAATTATAAAAATATAAA
* *
514056 AATATAATATAAATATA
1 AA-ATTATAAAAATATA
514073 TAATATCTCA
Statistics
Matches: 55, Mismatches: 13, Indels: 7
0.73 0.17 0.09
Matches are distributed among these distances:
17 4 0.07
18 35 0.64
19 3 0.05
20 13 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTATAAAAATATAAA
Found at i:515091 original size:15 final size:14
Alignment explanation
Indices: 515075--515111 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
515065 TTAATAATTA
515075 AATATATTTTTATT
1 AATATATTTTTATT
515089 AA-AT-TTTTTATT
1 AATATATTTTTATT
515101 AATATCATTTT
1 AATAT-ATTTT
515112 AAAAATACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 10 0.50
13 4 0.20
14 2 0.10
15 4 0.20
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
AATATATTTTTATT
Found at i:515095 original size:31 final size:32
Alignment explanation
Indices: 515040--515103 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
515030 ATTTTTATTT
* *
515040 TTAAATATGTTTTTAGTTACATTTTTTAATAA
1 TTAAATATATTTTTAGTTAAATTTTTTAATAA
*
515072 TTAAATATATTTTTA-TTAAATTTTTTATTAA
1 TTAAATATATTTTTAGTTAAATTTTTTAATAA
515103 T
1 T
515104 ATCATTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (32 bp):
TTAAATATATTTTTAGTTAAATTTTTTAATAA
Found at i:515182 original size:20 final size:21
Alignment explanation
Indices: 515159--515206 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
515149 CATCAATTTA
515159 ATAATTATTAAAATAAAAT-T
1 ATAATTATTAAAATAAAATAT
* **
515179 ATAACTATTATTATAAAATAT
1 ATAATTATTAAAATAAAATAT
515200 ATAATTA
1 ATAATTA
515207 CATTATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAATTATTAAAATAAAATAT
Found at i:515211 original size:23 final size:20
Alignment explanation
Indices: 515188--515225 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
515178 TATAACTATT
515188 ATTAT-AAAATATATAATTAC
1 ATTATAAAAATATA-AATTAC
515208 ATTATAAAAATATAAATT
1 ATTATAAAAATATAAATT
515226 TTATAATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTATAAAAATATAAATTAC
Found at i:515821 original size:20 final size:20
Alignment explanation
Indices: 515798--515839 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
515788 AATAATATTT
*
515798 TAAATATAATTAT-AATATAA
1 TAAA-ATAAATATAAATATAA
515818 TAAAATAAATATAAATATAA
1 TAAAATAAATATAAATATAA
515838 TA
1 TA
515840 TGAATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATAAATATAAATATAA
Found at i:515851 original size:25 final size:24
Alignment explanation
Indices: 515789--515857 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 24
515779 TTTTATAAAA
*
515789 ATAATATTTTAAATATAATTATAAT
1 ATAATA-TTTAAATATAAATATAAT
**
515814 ATAATAAAATAAATATAAATATAAT
1 ATAAT-ATTTAAATATAAATATAAT
515839 ATGAATATTTAAATTATAA
1 AT-AATATTTAAA-TATAA
515858 TATGTGAACC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 27 0.75
26 9 0.25
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (24 bp):
ATAATATTTAAATATAAATATAAT
Found at i:516058 original size:23 final size:20
Alignment explanation
Indices: 516040--516089 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 20
516030 ATTTTAATGT
516040 TTTTTAAATATTTTATTTATATA
1 TTTTTAAA-A-TTTATTTA-ATA
516063 TTTTTAAAATTTATTTAA-A
1 TTTTTAAAATTTATTTAATA
*
516082 TTTATAAA
1 TTTTTAAA
516090 TAATAATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.31
20 1 0.04
21 8 0.31
22 1 0.04
23 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTAAAATTTATTTAATA
Found at i:516931 original size:33 final size:33
Alignment explanation
Indices: 516893--516961 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
516883 ACTAATTATT
516893 ATATAAATTTACTTATTATATTATATTAAAAAA
1 ATATAAATTTACTTATTATATTATATTAAAAAA
* * *
516926 ATATAAATTTATTTGTTATATTATATTAATAAA
1 ATATAAATTTACTTATTATATTATATTAAAAAA
516959 ATA
1 ATA
516962 CAAAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (33 bp):
ATATAAATTTACTTATTATATTATATTAAAAAA
Found at i:517033 original size:18 final size:18
Alignment explanation
Indices: 516963--517038 Score: 59
Period size: 18 Copynumber: 4.2 Consensus size: 18
516953 AATAAAATAC
516963 AAAAATATATATTTTAAAAT
1 AAAAA-ATAT-TTTTAAAAT
**
516983 AATTGAATATTTTT--AAT
1 AA-AAAATATTTTTAAAAT
**
517000 AAAAGAA-ATTAATAAAAT
1 AAAA-AATATTTTTAAAAT
517018 AAAAAATATTTTTAAAAT
1 AAAAAATATTTTTAAAAT
517036 AAA
1 AAA
517039 TATATATATA
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
16 4 0.09
17 9 0.21
18 19 0.44
19 4 0.09
20 6 0.14
21 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AAAAAATATTTTTAAAAT
Found at i:517321 original size:29 final size:27
Alignment explanation
Indices: 517258--517322 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
517248 ATTATATAAT
* * *
517258 ATTTATATATTTTATAATTAAATTTAA
1 ATTTAAATATTTTATAAATAAATTAAA
**
517285 ATAAAAATATTTTTATTAAATAAATTAAA
1 ATTTAAATA-TTTTA-TAAATAAATTAAA
517314 ATTTAAATA
1 ATTTAAATA
517323 AAATCAAATA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
27 6 0.21
28 5 0.17
29 18 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTAAATATTTTATAAATAAATTAAA
Found at i:517829 original size:16 final size:15
Alignment explanation
Indices: 517810--517905 Score: 54
Period size: 15 Copynumber: 6.3 Consensus size: 15
517800 AATATAATAT
*
517810 ATATAAAATAATTAAA
1 ATATAATAT-ATTAAA
*
517826 ATATAATATAATAAA
1 ATATAATATATTAAA
* *
517841 A-ATTTATATTTTAAA
1 ATA-TAATATATTAAA
*
517856 AT-TTATATAATATAAA
1 ATATAATAT-AT-TAAA
*
517872 ATATTAACATATTAAA
1 ATA-TAATATATTAAA
* *
517888 ATAAAAAATA-TAAA
1 ATATAATATATTAAA
517902 ATAT
1 ATAT
517906 TTTAAAAATA
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
14 14 0.22
15 22 0.35
16 21 0.33
17 2 0.03
18 4 0.06
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (15 bp):
ATATAATATATTAAA
Found at i:517902 original size:8 final size:8
Alignment explanation
Indices: 517864--517945 Score: 51
Period size: 8 Copynumber: 9.9 Consensus size: 8
517854 AAATTTATAT
517864 AATAT-AA
1 AATATAAA
*
517871 AATATTAA
1 AATATAAA
* *
517879 CATATTAA
1 AATATAAA
517887 AATA-AAA
1 AATATAAA
517894 AATATAAA
1 AATATAAA
*
517902 ATATTTTAAA
1 A-A-TATAAA
* *
517912 AATAATTAT
1 AAT-ATAAA
517921 AATATAATTA
1 AATATAA--A
517931 AATATAAA
1 AATATAAA
517939 AATATAA
1 AATATAA
517946 TATAAATATT
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
7 11 0.19
8 28 0.47
9 7 0.12
10 13 0.22
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (8 bp):
AATATAAA
Found at i:517927 original size:11 final size:10
Alignment explanation
Indices: 517907--517954 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 10
517897 ATAAAATATT
*
517907 TTAAAAATAA
1 TTAAATATAA
517917 TTATAATATAA
1 TTA-AATATAA
517928 TTAAATATAA
1 TTAAATATAA
517938 --AAATATAA
1 TTAAATATAA
517946 TATAAATAT
1 T-TAAATAT
517955 TTAAATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
8 8 0.24
10 10 0.30
11 15 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TTAAATATAA
Found at i:517938 original size:27 final size:27
Alignment explanation
Indices: 517908--517960 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
517898 TAAAATATTT
*
517908 TAAAAATA-ATTATAATATAATTAAATA
1 TAAAAATATAATATAA-ATAATTAAATA
*
517935 TAAAAATATAATATAAATATTTAAAT
1 TAAAAATATAATATAAATAATTAAAT
517961 TATTGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAAAATATAATATAAATAATTAAATA
Found at i:517948 original size:23 final size:22
Alignment explanation
Indices: 517864--517950 Score: 70
Period size: 23 Copynumber: 3.8 Consensus size: 22
517854 AAATTTATAT
*
517864 AATATAAAATATTAACAT-ATTAA
1 AATA-AAAATA-TAATATAATTAA
* *
517887 AATAAAAAATATAAAATATTTTAA
1 AAT-AAAAATATAATATA-ATTAA
* *
517911 AA-ATAATTATAATATAATTAA
1 AATAAAAATATAATATAATTAA
517932 ATATAAAAATATAATATAA
1 A-ATAAAAATATAATATAA
517951 ATATTTAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
21 5 0.10
22 17 0.33
23 22 0.43
24 7 0.14
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (22 bp):
AATAAAAATATAATATAATTAA
Found at i:518309 original size:41 final size:36
Alignment explanation
Indices: 518240--518322 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 36
518230 TTTTATTTAA
*
518240 TTAT-TTAAAATAATAATAAAAAATTAAAATATATTT
1 TTATATTAAAATAATAATAAAAAAATAAAA-ATATTT
518276 TTATATTAAAATATATAATTAAATATAAATAAAAATATTT
1 TTATATTAAAATA-ATAA-TAAA-A-AAATAAAAATATTT
518316 TT-TATTA
1 TTATATTA
518323 TTTAGATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
36 4 0.10
37 8 0.20
38 4 0.10
39 9 0.22
40 9 0.22
41 7 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (36 bp):
TTATATTAAAATAATAATAAAAAAATAAAAATATTT
Found at i:518513 original size:16 final size:16
Alignment explanation
Indices: 518492--518527 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
518482 ATATGAGTCA
*
518492 AATTGTTAGTAAATTT
1 AATTGTTAATAAATTT
518508 AATTGTTAATAAATTT
1 AATTGTTAATAAATTT
518524 AATT
1 AATT
518528 TGATTGGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (16 bp):
AATTGTTAATAAATTT
Found at i:519354 original size:16 final size:16
Alignment explanation
Indices: 519311--519358 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 16
519301 TTAAAAAATT
*
519311 AAAATTAAAATTTAAA
1 AAAATTAATATTTAAA
* *
519327 TATATTAAAATATTTAAA
1 AAAATT--AATATTTAAA
519345 AAAATTAATATTTA
1 AAAATTAATATTTA
519359 TTTATTTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
16 12 0.48
18 13 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATTAATATTTAAA
Found at i:520436 original size:23 final size:23
Alignment explanation
Indices: 520410--520465 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
520400 TACTATTTAA
* *
520410 AATATTTAAAAATTTATTTTATT
1 AATATTTAAAAATTTATATAATT
* *
520433 AATATTTATATATTTATATAATT
1 AATATTTAAAAATTTATATAATT
*
520456 AAAATTTAAA
1 AATATTTAAA
520466 TAAAATATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTAAAAATTTATATAATT
Found at i:521018 original size:18 final size:19
Alignment explanation
Indices: 520976--521019 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
520966 TTAAAACTTT
* *
520976 AATTAATAAAAATTATGAA
1 AATTAAAAAAAATTATAAA
520995 AA-TAAAAAAAATTA-AAA
1 AATTAAAAAAAATTATAAA
521012 AATTAAAA
1 AATTAAAA
521020 TAATAATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 16 0.73
19 2 0.09
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (19 bp):
AATTAAAAAAAATTATAAA
Found at i:521271 original size:12 final size:13
Alignment explanation
Indices: 521253--521284 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
521243 CATAATTAAA
521253 AAATTTTTAAATT
1 AAATTTTTAAATT
521266 -AA-TTTTAAATT
1 AAATTTTTAAATT
521277 AAATTTTT
1 AAATTTTT
521285 TTAAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.53
12 4 0.24
13 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAATTTTTAAATT
Found at i:522161 original size:27 final size:28
Alignment explanation
Indices: 522108--522169 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
522098 TATACATATG
*
522108 AATAAAATATAAAAAATAATTAAAATAC
1 AATATAATATAAAAAATAATTAAAATAC
* *
522136 GATATAATAT-AAAAATAA-TATGAATAC
1 AATATAATATAAAAAATAATTA-AAATAC
522163 AATATAA
1 AATATAA
522170 AGATGTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (28 bp):
AATATAATATAAAAAATAATTAAAATAC
Found at i:523748 original size:16 final size:16
Alignment explanation
Indices: 523729--523759 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
523719 TATATAATAG
*
523729 ATAATATTAAAAGAAA
1 ATAATAATAAAAGAAA
523745 ATAATAATAAAAGAA
1 ATAATAATAAAAGAA
523760 GATGAAACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
ATAATAATAAAAGAAA
Found at i:524843 original size:14 final size:14
Alignment explanation
Indices: 524806--524848 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
524796 GACAATTATT
524806 ATTTTTATAAATATA
1 ATTTTTA-AAATATA
524821 ATTTCTTAAAATATA
1 ATTT-TTAAAATATA
*
524836 TATTTTAAAAATA
1 -ATTTTTAAAATA
524849 AAATAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTTTAAAATATA
Found at i:527242 original size:66 final size:66
Alignment explanation
Indices: 527116--527250 Score: 200
Period size: 66 Copynumber: 2.0 Consensus size: 66
527106 GGTGGGAACA
* * *
527116 AACAAGTGTGGCAAGGCAGGTGAATCACTTAAAGAAGAAGATGGAAAGGAAAAACTTTGTAATAT
1 AACAAGTGTAGCAAGGCAGGTGAATCACTTAAAGAAGAAGATGGAAAGGAAAAACCTTGTAATAG
527181 G
66 G
* * *
527182 AACAGGTGTAGCAAGGCAGGTGAATCCCTTAAAGAAGAAGATGGAGA-GAATAAACCTTGTAATA
1 AACAAGTGTAGCAAGGCAGGTGAATCACTTAAAGAAGAAGATGGAAAGGAA-AAACCTTGTAATA
527246 GG
65 GG
527248 AAC
1 AAC
527251 CGGAGACGGC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
65 3 0.05
66 59 0.95
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.19
Consensus pattern (66 bp):
AACAAGTGTAGCAAGGCAGGTGAATCACTTAAAGAAGAAGATGGAAAGGAAAAACCTTGTAATAG
G
Found at i:527880 original size:281 final size:282
Alignment explanation
Indices: 527362--528282 Score: 1100
Period size: 281 Copynumber: 3.2 Consensus size: 282
527352 TGCTGCTTCA
** * *
527362 GGCCCTTCTAATATTAAACCAGTCCAAGTGAAGGAGGAGGTCGGCAACAAAAGGTTTTTGTACAT
1 GGCCCTTCTAATATTAAACCAGTCCAAGCCAAGGAGGGGGTCGACAACAAAAGGTTTTTGTAC--
* *
527427 TTTTTATTGCTTTGTGCAAAATAATTTTCCAATAATAGTGTAATCTTTAGTACTTCACAATGACA
64 ----T-TTGCTTTGTGCAAAATAA-TTTCCAATAACAGTGTAATCTTTAGTACTTTACAATGACA
* *
527492 AGGGAAATTTATGGTTTATTTTATGTTTTCCTAGCAGGGTATG-TATAAGAAGGCAATCTGCAAG
123 AGGGAAATTTATGGTTTCTTTTATGTTTTCCTAGCAGGGTATGCT-TAAGAAGGCAATCTGCTAG
*
527556 GTTTAAAGCCCAAGAACCAGAAATGACTAAAGAATCGTTTGAGGTAGATGATACAAAATTTCTTG
187 GTTTAAAGCCCAAGAACCAGAAATGACTGAAG-ATCGTTTGAGGTAGATGATACAAAATTTCTTG
527621 CTTCTTCCTCTGATGATAAGGTGCATGAGAGT
251 CTTCTTCCTCTGATGATAAGGTGCATGAGAGT
* * *
527653 GGCCCTTCTAACATTAAACTATTCCAAGCCAAGGAGGGGGTCGACAACAAAAGGTTTTTGTAC-T
1 GGCCCTTCTAATATTAAACCAGTCCAAGCCAAGGAGGGGGTCGACAACAAAAGGTTTTTGTACTT
** * *
527717 T-CTTTGTGCAACCTAATTTCCAATAACGGTGTAATCTTTAGTACTTTGCAATGACGAA-GGAAA
66 TGCTTTGTGCAAAATAATTTCCAATAACAGTGTAATCTTTAGTACTTTACAATGAC-AAGGGAAA
* *
527780 TTTATGGTTTCTTTAATGTTTCCCTAGCAGGGTATGCTTAAGAAGGCAATCTGCTAGG-TTAAAG
130 TTTATGGTTTCTTTTATGTTTTCCTAGCAGGGTATGCTTAAGAAGGCAATCTGCTAGGTTTAAA-
* * *
527844 GCCCAAGAACCAGAAACGACTGAAGATGCATTTGAGGTAGATGATACAAAATTTCATGCTTCTTC
194 GCCCAAGAACCAGAAATGACTGAAGAT-CGTTTGAGGTAGATGATACAAAATTTCTTGCTTCTTC
*
527909 CTCTGATGAT-AGTGTGCATGAGAAT
258 CTCTGATGATAAG-GTGCATGAGAGT
* *
527934 GCCCCTTCTAATATTAAACCAGTCCAAG--ATA--AGGGGGTTGACAACAAAAGG-TTTTGATAC
1 GGCCCTTCTAATATTAAACCAGTCCAAGCCA-AGGAGGGGGTCGACAACAAAAGGTTTTTG-TAC
* * * *
527994 TATTTTATTGCTTTGTGCAAATTATTTATCGAATATCAGTGTAATCTTTAGTAC-TTACAATGAC
64 -----T-TTGCTTTGTGCAAAATAATT-TCCAATAACAGTGTAATCTTTAGTACTTTACAATGAC
* *
528058 AAGGGAAATTTATGGTTTCTTTTATGTTTTCCTAGCA-GG-ATGCGTTTAAAAAGGGAATCTGCT
122 AAGGGAAATTTATGGTTTCTTTTATGTTTTCCTAGCAGGGTATGC--TTAAGAAGGCAATCTGCT
* * *
528121 AGGTTTAAAGCCCAAGAACCAGAAATGACTGAAG-TCGTGTCTGAGGTAGATAAGATAAAATTTC
185 AGGTTTAAAGCCCAAGAACCAGAAATGACTGAAGATCGT-T-TGAGGTAGATGATACAAAATTTC
* * * *
528185 TTGCTTCATCCTGTGATGATAAGCTGCATAAGAGT
248 TTGCTTCTTCCTCTGATGATAAGGTGCATGAGAGT
* * * * *
528220 GGCCCTTCTAATATTAAACCTGCCCAAGCCGAGCAGAGGGG-CGAAAACAAAAGGTTTTTGTAC
1 GGCCCTTCTAATATTAAACCAGTCCAAGCCAAGGAG-GGGGTCGACAACAAAAGGTTTTTGTAC
528283 ATTTTTTTAT
Statistics
Matches: 546, Mismatches: 55, Indels: 60
0.83 0.08 0.09
Matches are distributed among these distances:
277 5 0.01
278 22 0.04
279 1 0.00
280 10 0.02
281 195 0.36
282 16 0.03
283 2 0.00
284 6 0.01
285 8 0.01
286 169 0.31
287 31 0.06
289 16 0.03
290 9 0.02
291 56 0.10
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (282 bp):
GGCCCTTCTAATATTAAACCAGTCCAAGCCAAGGAGGGGGTCGACAACAAAAGGTTTTTGTACTT
TGCTTTGTGCAAAATAATTTCCAATAACAGTGTAATCTTTAGTACTTTACAATGACAAGGGAAAT
TTATGGTTTCTTTTATGTTTTCCTAGCAGGGTATGCTTAAGAAGGCAATCTGCTAGGTTTAAAGC
CCAAGAACCAGAAATGACTGAAGATCGTTTGAGGTAGATGATACAAAATTTCTTGCTTCTTCCTC
TGATGATAAGGTGCATGAGAGT
Found at i:529018 original size:65 final size:67
Alignment explanation
Indices: 528912--529037 Score: 238
Period size: 65 Copynumber: 1.9 Consensus size: 67
528902 GTTTGGAAAT
528912 TCCCTGAAATTAACTTCCAAGTAGTTAACTGGTTTGTACCTGAAGATAACCTCCACAAGATAATT
1 TCCCTGAAATTAACTTCCAAGTAGTTAACTGGTTTGTACCTGAAGATAACCTCCACAAGATAATT
528977 AA
66 AA
528979 TCCCTG-AATT-ACTTCCAAGTAGTTAACTGGTTTGTACCTGAAGATAACCTCCACAAGAT
1 TCCCTGAAATTAACTTCCAAGTAGTTAACTGGTTTGTACCTGAAGATAACCTCCACAAGAT
529038 TTGATATACA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
65 49 0.83
66 4 0.07
67 6 0.10
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (67 bp):
TCCCTGAAATTAACTTCCAAGTAGTTAACTGGTTTGTACCTGAAGATAACCTCCACAAGATAATT
AA
Found at i:529732 original size:21 final size:23
Alignment explanation
Indices: 529706--529763 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 23
529696 ATAAAAAATA
529706 TTTTATATTAAAATTT-AT-ATT
1 TTTTATATTAAAATTTAATAATT
529727 TTTTATAATT-AAATTTAAATAATT
1 TTTTAT-ATTAAAATTT-AATAATT
529751 TTTTATTATTAAA
1 TTTTA-TATTAAA
529764 TAATAATTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 12 0.39
22 3 0.10
23 2 0.06
24 11 0.35
25 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTATATTAAAATTTAATAATT
Found at i:529768 original size:21 final size:23
Alignment explanation
Indices: 529724--529771 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
529714 TAAAATTTAT
529724 ATTTTTTATAATTAAATTTAAATA
1 ATTTTTTATAATTAAA-TTAAATA
*
529748 ATTTTTTATTATTAAA-T-AATA
1 ATTTTTTATAATTAAATTAAATA
529769 ATT
1 ATT
529772 CGAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 1 0.04
24 15 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTTTTATAATTAAATTAAATA
Found at i:530167 original size:14 final size:14
Alignment explanation
Indices: 530148--530180 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
530138 ATTAATAAAA
530148 ATATTAAT-TTTATT
1 ATATTAATATTTA-T
530162 ATATTAATATTTAT
1 ATATTAATATTTAT
530176 ATATT
1 ATATT
530181 TTATAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATATTAATATTTAT
Found at i:530750 original size:40 final size:39
Alignment explanation
Indices: 530696--530796 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 39
530686 AAATTTTTAG
*
530696 ATATTCATTATTTAAATTCT-TATTACTTATACAAATAAC
1 ATATTCAATATTTAAATT-TATATTACTTATACAAATAAC
* * *
530735 ATATTCGAATATTTAAATTTATTTTACTTTTACAAATAAT
1 ATATTC-AATATTTAAATTTATATTACTTATACAAATAAC
* *
530775 AAATTCAAATATCTAAATTTAT
1 ATATTC-AATATTTAAATTTAT
530797 TATTTATATA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 7 0.13
40 46 0.87
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.47
Consensus pattern (39 bp):
ATATTCAATATTTAAATTTATATTACTTATACAAATAAC
Found at i:530797 original size:40 final size:40
Alignment explanation
Indices: 530718--530797 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
530708 TAAATTCTTA
* * *
530718 TTACTTATACAAATAACATATTCGAATATTTAAATTTATT
1 TTACTTATACAAATAACAAATTCAAATATCTAAATTTATT
* *
530758 TTACTTTTACAAATAATAAATTCAAATATCTAAATTTATT
1 TTACTTATACAAATAACAAATTCAAATATCTAAATTTATT
530798 ATTTATATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.44, C:0.10, G:0.01, T:0.45
Consensus pattern (40 bp):
TTACTTATACAAATAACAAATTCAAATATCTAAATTTATT
Found at i:530994 original size:5 final size:6
Alignment explanation
Indices: 530976--531008 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
530966 TGAGTTCGGA
530976 TAAATT TAAATT T-AATT TAAATT TAAATAT TAA
1 TAAATT TAAATT TAAATT TAAATT TAAAT-T TAA
531009 GTTAAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.20
6 16 0.64
7 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAAATT
Done.