Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold333
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: 1398653
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.32
Warning! 76431 characters in sequence are not A, C, G, or T
File 4 of 5
Found at i:913876 original size:23 final size:23
Alignment explanation
Indices: 913810--913869 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
913800 ATATGTATAC
* *
913810 TAAAATAAAT-ATATACATATAGA
1 TAAAAAAAATAAT-TACATATAAA
913833 TAAAAAAAATAATTACATATAAA
1 TAAAAAAAATAATTACATATAAA
913856 TAAATAAAAATAAT
1 TAAA-AAAAATAAT
913870 AATTATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 22 0.67
24 11 0.33
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (23 bp):
TAAAAAAAATAATTACATATAAA
Found at i:913926 original size:21 final size:21
Alignment explanation
Indices: 913887--913927 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
913877 TTATACTACA
* *
913887 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
913908 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
913928 TTTTTAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:914513 original size:22 final size:21
Alignment explanation
Indices: 914478--914611 Score: 84
Period size: 19 Copynumber: 6.5 Consensus size: 21
914468 AAAGGGTATC
* *
914478 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
914499 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
914522 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
914541 TGCATAT-ATTATATCTAAGAT
1 TACAAATCA-TATCTCTAAGAT
*
914562 TGCATATATCATA--TCTAAGAT
1 TACA-A-ATCATATCTCTAAGAT
* *
914583 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
914602 TACATATCAT
1 TACAAATCAT
914612 CGAAGATTAT
Statistics
Matches: 98, Mismatches: 7, Indels: 18
0.80 0.06 0.15
Matches are distributed among these distances:
18 1 0.01
19 39 0.40
21 27 0.28
22 15 0.15
23 15 0.15
24 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:914521 original size:23 final size:22
Alignment explanation
Indices: 914478--914535 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
914468 AAAGGGTATC
* *
914478 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
914499 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
914522 TACATATCATATCT
1 TACAAATCATATCT
914536 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:914538 original size:19 final size:19
Alignment explanation
Indices: 914491--914611 Score: 125
Period size: 21 Copynumber: 5.9 Consensus size: 19
914481 AAATTAAATC
*
914491 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
914511 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
* *
914533 TCTAAGATTGCATATATTATA
1 TCTAAGATT--ACATATCATA
*
914554 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
914575 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
914594 TCTAAGATTACATATCAT
1 TCTAAGATTACATATCAT
914612 CGAAGATTAT
Statistics
Matches: 89, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
19 34 0.38
21 37 0.42
22 7 0.08
23 11 0.12
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:914554 original size:21 final size:21
Alignment explanation
Indices: 914525--914608 Score: 136
Period size: 21 Copynumber: 4.1 Consensus size: 21
914515 CTAAGATTAC
914525 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
*
914546 ATATTATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
914567 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
914586 ATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTGCAT
914607 AT
1 AT
914609 CATCGAAGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
19 18 0.31
21 40 0.69
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:914571 original size:42 final size:40
Alignment explanation
Indices: 914507--914608 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
914497 ATTACAAAAT
914507 CATATC-T-TCTAAGATTAC--ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTACATATATCATATCTAAGATTG
* *
914543 CATATATTATATCTAAGATTGCATATATCATATCTAAGATTG
1 C--ATATCATATCTAAGATTACATATATCATATCTAAGATTG
914585 CATATCATATCTAAGATTACATAT
1 CATATCATATCTAAGATTACATAT
914609 CATCGAAGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
36 1 0.02
38 4 0.07
39 1 0.02
40 31 0.55
42 19 0.34
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (40 bp):
CATATCATATCTAAGATTACATATATCATATCTAAGATTG
Found at i:915038 original size:44 final size:43
Alignment explanation
Indices: 914988--915630 Score: 603
Period size: 44 Copynumber: 14.6 Consensus size: 43
914978 CCACTTTACT
* *
914988 ACCAATATAAGAAGACAGGATCTGCTATCTTCGATCTACTTCTC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-C
* * * *
915032 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTAC-TT-CC
* * * *
915077 ACCAGTATATGAAGACAAGATCTGCTTTCTTCGATCTATTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT--CC
* * *
915122 ACCAATATGGGAAGATAAGATCTGC-ATCTTTGATCTACTTCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCC
* *
915164 TACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCTC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-C
* * * *
915209 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT--CC
* * *
915254 ACCAATATGGGAAGCCAAGATCTGC-ATCTTCGATCCACTTCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCC
* *
915296 TACCATTATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-C
* * * * *
915341 GCCAATACATGAGGACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT--CC
* * * * *
915386 ACCAATATGGGATGATAAGATCTAC-ATCTTCGATCCACTTCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCC
* * *
915428 TACCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-C
* * * * * * *
915473 GCCAATACATGAAGAGAAGATCTACTTTTTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTT--CC
* *
915518 ACTAATAT-GAGAAGACAAGATCTGC-ATCTTCGATCCACTTCC
1 ACCAATATAG-GAAGACAAGATCTGCTATCTTCGATCTACTTCC
* * *
915560 TACCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-C
* * *
915605 GCCAATACATGAAGACAAGATCTGCT
1 ACCAATATAGGAAGACAAGATCTGCT
915631 TTTTCATTGA
Statistics
Matches: 486, Mismatches: 90, Indels: 46
0.78 0.14 0.07
Matches are distributed among these distances:
42 8 0.02
43 83 0.17
44 266 0.55
45 125 0.26
46 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (43 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCC
Found at i:915634 original size:132 final size:132
Alignment explanation
Indices: 914988--915632 Score: 943
Period size: 132 Copynumber: 4.9 Consensus size: 132
914978 CCACTTTACT
** * * * * * *
914988 ACCAATATAAGAAGACAGGATCTGCTATCTTCGATCTACTT-CTCGCCAATACATGAAGACAAGA
1 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCT-ACCAATATAGGAAGACAGGA
* * * * *
915052 TCTGCTTTCTTCGATCTACTTTGC-CACCAGTATATGAAGACAAGATCTGCTTTCTTCGATCTAT
64 TCTGCTATCTTCGATCTAC-TT-CACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTAC
915116 TTCGCC
127 TTCGCC
* * * *
915122 ACCAATATGGGAAGATAAGATCTGCATCTTTGATCTACTTCCTACCAATATAGGAAGATAGGATC
1 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATC
*
915187 TGCTATCTTCGATCTACTTCTCGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
66 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
915252 CC
131 CC
* *
915254 ACCAATATGGGAAGCCAAGATCTGCATCTTCGATCCACTTCCTACCATTATAGGAAGACAGGATC
1 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATC
*
915319 TGCTATCTTCGATCTACTTCACGCCAATACATGAGGACAAGATCTGCTTTCTTCGATCTACTTCG
66 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
915384 CC
131 CC
* * * *
915386 ACCAATATGGGATGATAAGATCTACATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACC
1 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATC
* * * *
915451 TGCTATCTTTGATCTACTTCACGCCAATACATGAAGAGAAGATCTACTTTTTTCGATCTACTTCG
66 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
915516 CC
131 CC
* * *
915518 ACTAATATGAGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACC
1 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATC
*
915583 TGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
66 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
915633 TTCATTGATC
Statistics
Matches: 468, Mismatches: 41, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
131 1 0.00
132 397 0.85
133 47 0.10
134 23 0.05
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (132 bp):
ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATC
TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
CC
Found at i:919959 original size:6 final size:6
Alignment explanation
Indices: 919900--919939 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
919890 GGCCTCTCCA
919900 TTTTTC -TTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
919940 ATCACTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:923393 original size:23 final size:22
Alignment explanation
Indices: 923348--923405 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
923338 AAAGGGTATC
* *
923348 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
923369 TACAAAATCATATCTTCTAATAT
1 TAC-AAATCATATCTTCTAAGAT
*
923392 TACATATCATATCT
1 TACAAATCATATCT
923406 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:923416 original size:19 final size:19
Alignment explanation
Indices: 923361--923460 Score: 83
Period size: 21 Copynumber: 4.8 Consensus size: 19
923351 AAATTAAATC
*
923361 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
923381 TCTTCTAATATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
923403 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
923424 TCTAAGATTGTATATATCATA
1 TCTAAGA-T-TACATATCATA
*
923445 TCTAATATTACATATC
1 TCTAAGATTACATATC
923461 CTCGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
19 15 0.22
20 1 0.01
21 32 0.48
22 8 0.12
23 11 0.16
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:923421 original size:21 final size:21
Alignment explanation
Indices: 923395--923459 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
923385 CTAATATTAC
923395 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
*
923416 ATATCATATCTAAGATTGTAT
1 ATATCATATCTAAGATTGCAT
* *
923437 ATATCATATCTAATATTACAT
1 ATATCATATCTAAGATTGCAT
923458 AT
1 AT
923460 CCTCGAAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:926040 original size:27 final size:27
Alignment explanation
Indices: 926010--926063 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
926000 AAGGCAATTC
*
926010 GTGAAGTTCTTTTACGTCATTGCCTTA
1 GTGAAGTTCTTTTACGCCATTGCCTTA
*
926037 GTGAAGTTCTTTTATGCCATTGCCTTA
1 GTGAAGTTCTTTTACGCCATTGCCTTA
926064 ATGTGGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (27 bp):
GTGAAGTTCTTTTACGCCATTGCCTTA
Found at i:929458 original size:50 final size:50
Alignment explanation
Indices: 929344--929820 Score: 516
Period size: 50 Copynumber: 9.7 Consensus size: 50
929334 TCACATATCA
* * *
929344 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATC--T-C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCTGTCC
** *
929391 AAGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCTGTCC
* *
929441 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCACTCCTCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTCTGTCC
* * *
929491 GTGCCAATGCCATGTCCAAGACATGGTCTTACACTGACACTCATCT-T--
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCTGTCC
* * * *
929538 GAGCCGATGCCATGTCACAGACATGGTCTAAGACTGA-ATCTCCTCTGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACA-CTCCTCTGTCC
* * *
929588 GTGCCGATGCCATGTCCCAAACATAGTCTTACACT-AGCACTCCT-TGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTCT-GTCC
* * *
929638 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATC--T-C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCTGTCC
* * * *
929685 GAGCCGATGTCATGTCCCAGACATGGTCTTACACTGACTCTCATCTGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCTGTCC
* * *
929735 GTGCCGATGTCATGTCCCAGACATGGTCTTACACT-AGCATTCCT-TGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTCT-GTCC
* * *
929785 GTACCGATGCCATGTCCCAAACATGGTCGTACACTG
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
929821 GCACACTCAC
Statistics
Matches: 361, Mismatches: 49, Indels: 36
0.81 0.11 0.08
Matches are distributed among these distances:
46 1 0.00
47 116 0.32
48 2 0.01
49 8 0.02
50 232 0.64
51 2 0.01
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (50 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCTGTCC
Found at i:929466 original size:97 final size:98
Alignment explanation
Indices: 929302--929829 Score: 531
Period size: 97 Copynumber: 5.4 Consensus size: 98
929292 TAGGGTGCCA
* * ** * * *
929302 ATGCCATATCCCAGATATGGTCTTACA-TGGGA-TCA-CATATCAGTGCCGATGCCATGTCCCAA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACTCATC-TGTCCGTGCCGATGCCATGTCCCAG
*
929364 ACATGGTCTTACACTGGCACTCATC-TCAAGCCG
65 ACATGGTCTTACACTGGCACTCATCGTCGAGCCG
* *
929397 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCCGTGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACTCATCTGTCCGTGCCGATGCCATGTCCCAGA
* * * *
929462 CATGGTCTTACACTAGCACTCCTCGGTCTGTGCCA
66 CATGGTCTTACACTGGCACTCATC-GTC-GAGCCG
* * *
929497 ATGCCATGTCCAAGACATGGTCTTACACTGACACTCATCT-T--GAGCCGATGCCATGTCACAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACTCATCTGTCCGTGCCGATGCCATGTCCCAGA
* * * * *
929559 CATGGTCTAAGACT-GAATCTCCTCTGTCCGTGCCG
66 CATGGTCTTACACTGGCA-CTCATC-GT-CGAGCCG
* * * * *
929594 ATGCCATGTCCCAAACATAGTCTTACACT-AGCACTCCT-TGGTCTGTGCTGATGCCATGTCCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCATCT-GTCCGTGCCGATGCCATGTCCCA
929657 GACATGGTCTTACACTGGCACTCATC-TCGAGCCG
64 GACATGGTCTTACACTGGCACTCATCGTCGAGCCG
* * *
929691 ATGTCATGTCCCAGACATGGTCTTACACTGACTCTCATCTGTCCGTGCCGATGTCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACTCATCTGTCCGTGCCGATGCCATGTCCCAGA
* * * *
929756 CATGGTCTTACACTAGCATTCCTTGGTCTGTA-CCG
66 CATGGTCTTACACTGGCACT-CATCGTC-G-AGCCG
* *
929791 ATGCCATGTCCCAAACATGGTCGTACACTGGCACACTCA
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACTCA
929830 CTACCATGGT
Statistics
Matches: 359, Mismatches: 52, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
95 25 0.07
96 6 0.02
97 200 0.56
98 8 0.02
99 5 0.01
100 105 0.29
101 4 0.01
102 6 0.02
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (98 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACTCATCTGTCCGTGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGGCACTCATCGTCGAGCCG
Found at i:929561 original size:147 final size:147
Alignment explanation
Indices: 929344--929829 Score: 758
Period size: 147 Copynumber: 3.3 Consensus size: 147
929334 TCACATATCA
* *
929344 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACTCATCTCAAGCCGATGCCATGTCCC
1 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACTCATCTCGAGCCGATGCCATGTCCC
929409 AGACATGGTCTTACACTGACTCTCCTCTGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACA
66 AGACATGGTCTTACACTGACTCTCCTCTGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACA
*
929474 CTAGCACTCCTCGGTCT
131 CTAGCACTCCTTGGTCT
* * *
929491 GTGCCAATGCCATGT-CCAAGACATGGTCTTACACTGACACTCATCTTGAGCCGATGCCATGTCA
1 GTGCCGATGCCATGTCCCAA-ACATGGTCTTACACTGACACTCATCTCGAGCCGATGCCATGTCC
* * * * *
929555 CAGACATGGTCTAAGACTGAATCTCCTCTGTCCGTGCCGATGCCATGTCCCAAACATAGTCTTAC
65 CAGACATGGTCTTACACTGACTCTCCTCTGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTAC
929620 ACTAGCACTCCTTGGTCT
130 ACTAGCACTCCTTGGTCT
* * * *
929638 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGTCATGTCCC
1 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACTCATCTCGAGCCGATGCCATGTCCC
* *
929703 AGACATGGTCTTACACTGACTCTCATCTGTCCGTGCCGATGTCATGTCCCAGACATGGTCTTACA
66 AGACATGGTCTTACACTGACTCTCCTCTGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACA
*
929768 CTAGCATTCCTTGGTCT
131 CTAGCACTCCTTGGTCT
* *
929785 GTACCGATGCCATGTCCCAAACATGGTCGTACACTGGCACACTCA
1 GTGCCGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACTCA
929830 CTACCATGGT
Statistics
Matches: 304, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
146 4 0.01
147 290 0.95
148 4 0.01
149 6 0.02
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (147 bp):
GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACTCATCTCGAGCCGATGCCATGTCCC
AGACATGGTCTTACACTGACTCTCCTCTGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACA
CTAGCACTCCTTGGTCT
Found at i:929649 original size:197 final size:195
Alignment explanation
Indices: 929393--929820 Score: 551
Period size: 197 Copynumber: 2.2 Consensus size: 195
929383 CTCATCTCAA
* *
929393 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCCGTGCCGATGCCATGTCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTG-CACTCCTCTGTCCGTGCCGATGCCATGTCC
* *
929458 CAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCAATGCCATGTCCAAGACATGGTCTTAC
65 CAGACATGGTCTTACACTAGCACTCATC--TC-GAGCCAATGCCATGTCCAAGACATGGTCTTAC
*
929523 ACTGACACTCATCT-T-GAGCCGATGCCATGTCACAGACATGGTCTAAGACT-GAATCTCCTCT-
127 ACTGACACTCATCTGTCGAGCCGATGCCATGTCACAGACATGGTCTAACACTAGAAT-TCCT-TG
929584 GTCCGT
190 GTCCGT
* * *
929590 GCCGATGCCATGTCCCAAACATAGTCTTACACTAGCACTCCT-TGGTCTGTGCTGATGCCATGTC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT-GCACTCCTCT-GTCCGTGCCGATGCCATGTC
* * * *
929654 CCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGTCATGTCCCAGACATGGTCTTACAC
64 CCAGACATGGTCTTACACTAGCACTCATCTCGAGCCAATGCCATGTCCAAGACATGGTCTTACAC
* * * * * *
929719 TGACTCTCATCTGTCCGTGCCGATGTCATGTCCCAGACATGGTCTTACACTAGCATTCCTTGGTC
129 TGACACTCATCTGT-CGAGCCGATGCCATGTCACAGACATGGTCTAACACTAGAATTCCTTGGTC
*
929784 TGT
193 CGT
* *
929787 ACCGATGCCATGTCCCAAACATGGTCGTACACTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTG
929821 GCACACTCAC
Statistics
Matches: 202, Mismatches: 22, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
194 41 0.20
195 3 0.01
196 3 0.01
197 151 0.75
198 4 0.02
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (195 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGCACTCCTCTGTCCGTGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGCACTCATCTCGAGCCAATGCCATGTCCAAGACATGGTCTTACACTG
ACACTCATCTGTCGAGCCGATGCCATGTCACAGACATGGTCTAACACTAGAATTCCTTGGTCCGT
Found at i:942276 original size:56 final size:56
Alignment explanation
Indices: 942123--942279 Score: 260
Period size: 56 Copynumber: 2.8 Consensus size: 56
942113 AGTATTTATG
* * * * *
942123 TAGGAATCAAAATGCGAAGAGATAATATCTCATAATAATATCCTATAATATCCCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATTCTATAACATCCCAT
942179 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATTCTATAACATCCCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATTCTATAACATCCCAT
*
942235 TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATTCTA
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATTCTA
942280 ACACCCCCTC
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 95 1.00
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (56 bp):
TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATTCTATAACATCCCAT
Found at i:957607 original size:26 final size:27
Alignment explanation
Indices: 957578--957644 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 27
957568 CCTGTTATAT
957578 GGCTCTTCGTGAGCTTTCC-AATTAAA
1 GGCTCTTCGTGAGCTTTCCTAATTAAA
* * *
957604 GGCTCTTTGTGAGC-TTCCTGATTAAT
1 GGCTCTTCGTGAGCTTTCCTAATTAAA
957630 GGCTCTTCG-GAGCTT
1 GGCTCTTCGTGAGCTT
957645 CCCGATATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 8 0.23
26 27 0.77
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.37
Consensus pattern (27 bp):
GGCTCTTCGTGAGCTTTCCTAATTAAA
Found at i:957642 original size:25 final size:25
Alignment explanation
Indices: 957562--957720 Score: 109
Period size: 25 Copynumber: 6.4 Consensus size: 25
957552 CAGCTCTTAT
*
957562 GAGCGTCCTG-TTATATGGCTCTTCG
1 GAGCTTCCTGATTA-ATGGCTCTTCG
* * *
957587 TGAGCTTTCC-AATTAAAGGCTCTTTG
1 -GAGC-TTCCTGATTAATGGCTCTTCG
957613 TGAGCTTCCTGATTAATGGCTCTTCG
1 -GAGCTTCCTGATTAATGGCTCTTCG
*
957639 GAGCTTCCCGA-T-ATGGCTCGCTT--
1 GAGCTTCCTGATTAATGGCT--CTTCG
* * *
957662 GAACTTCCTGA-TATATGGCTATCCG
1 GAGCTTCCTGATTA-ATGGCTCTTCG
*
957687 GAGCTTCC-CATTAATGGCTCTTCG
1 GAGCTTCCTGATTAATGGCTCTTCG
*
957711 GAGCTACCTG
1 GAGCTTCCTG
957721 TTATTGACTC
Statistics
Matches: 104, Mismatches: 18, Indels: 23
0.72 0.12 0.16
Matches are distributed among these distances:
23 17 0.16
24 18 0.17
25 32 0.31
26 31 0.30
27 6 0.06
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (25 bp):
GAGCTTCCTGATTAATGGCTCTTCG
Found at i:957680 original size:48 final size:51
Alignment explanation
Indices: 957567--957706 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 51
957557 CTTATGAGCG
* * ** *
957567 TCCTGTTATATGGCTCTTCGTGAGCTTTCCAATTAAAGGCTCTTTGTGAGCT
1 TCCTGATATATGGCTCTTCG-GAGCTTCCCAATTAAAGGCTCGCTGTGAACT
* *
957619 TCCTGAT-TAATGGCTCTTCGGAGCTTCCCGA-T-ATGGCTCGCT-TGAACT
1 TCCTGATAT-ATGGCTCTTCGGAGCTTCCCAATTAAAGGCTCGCTGTGAACT
* * *
957667 TCCTGATATATGGCTATCCGGAGCTTCCC-ATTAATGGCTC
1 TCCTGATATATGGCTCTTCGGAGCTTCCCAATTAAAGGCTC
957707 TTCGGAGCTA
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
47 1 0.01
48 31 0.41
49 15 0.20
50 1 0.01
51 10 0.13
52 17 0.23
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (51 bp):
TCCTGATATATGGCTCTTCGGAGCTTCCCAATTAAAGGCTCGCTGTGAACT
Found at i:957751 original size:72 final size:73
Alignment explanation
Indices: 957614--957753 Score: 178
Period size: 72 Copynumber: 1.9 Consensus size: 73
957604 GGCTCTTTGT
* * * *
957614 GAGCTTCCTGATTAATGGCTCTTCGGAGCTTCCCGATATGGCTCGCTTGAACTTCCTGATATATG
1 GAGCTTCCTCATTAATGGCTCTTCGGAGCTACCCGATATGACTCGCATGAACTTCCTGATATATG
957679 GCTATCCG
66 GCTATCCG
* * *
957687 GAGCTTCC-CATTAATGGCTCTTCGGAGCTACCTGTTATTGACTCGCATGAGCTTTCC-GAT-TA
1 GAGCTTCCTCATTAATGGCTCTTCGGAGCTACCCGATA-TGACTCGCATGAAC-TTCCTGATATA
957749 TGGCT
64 TGGCT
957754 CTTATGAGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
72 32 0.55
73 22 0.38
74 4 0.07
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.34
Consensus pattern (73 bp):
GAGCTTCCTCATTAATGGCTCTTCGGAGCTACCCGATATGACTCGCATGAACTTCCTGATATATG
GCTATCCG
Found at i:957763 original size:72 final size:71
Alignment explanation
Indices: 957587--957767 Score: 175
Period size: 72 Copynumber: 2.5 Consensus size: 71
957577 TGGCTCTTCG
* * * * *
957587 TGAGCTTTCCAATTAAAGGCTCTTTGTGAGCTTCCTGATTAATGGCTCTTCGGAGCTTCCCGATA
1 TGAGCTTTCCGATT-ATGGCTC-TTATGAGCTTCC-CATTAATGGCTCTTCGGAGCTACCCGATA
* *
957652 TGGCTCGCT
63 TGACTCGCA
* * *** * *
957661 TGAAC-TTCCTGATATATGGCTATCCGGAGCTTCCCATTAATGGCTCTTCGGAGCTACCTGTTAT
1 TGAGCTTTCC-GAT-TATGGCTCTTATGAGCTTCCCATTAATGGCTCTTCGGAGCTACCCGATA-
957725 TGACTCGCA
63 TGACTCGCA
957734 TGAGCTTTCCGATTATGGCTCTTATGAGCTTCCC
1 TGAGCTTTCCGATTATGGCTCTTATGAGCTTCCC
957768 GTTATACAAC
Statistics
Matches: 85, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
72 42 0.49
73 27 0.32
74 15 0.18
75 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (71 bp):
TGAGCTTTCCGATTATGGCTCTTATGAGCTTCCCATTAATGGCTCTTCGGAGCTACCCGATATGA
CTCGCA
Found at i:964117 original size:32 final size:32
Alignment explanation
Indices: 964072--964143 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
964062 CTTGTTTTAA
964072 AGTTCTTTTACTTCACGTGCCAAAACTCTAATC
1 AGTTC-TTTACTTCACGTGCCAAAACTCTAATC
964105 AGTTCTTTACTTCACGTGCCAAAACTCTAATC
1 AGTTCTTTACTTCACGTGCCAAAACTCTAATC
964137 AGTTCTT
1 AGTTCTT
964144 CAGAATACGA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
32 34 0.87
33 5 0.13
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (32 bp):
AGTTCTTTACTTCACGTGCCAAAACTCTAATC
Found at i:966051 original size:54 final size:54
Alignment explanation
Indices: 965971--966073 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
965961 TACATGCTCA
965971 TGTGTCCAACCGTGTGCTCACCCGTGTAACTCACTGACTTAGTTCACACGTCTG
1 TGTGTCCAACCGTGTGCTCACCCGTGTAACTCACTGACTTAGTTCACACGTCTG
* *
966025 TGTGT-CAACTCGTGTGCT-AGCCCGTGTAACTTACTGACTTGGTTCACAC
1 TGTGTCCAAC-CGTGTGCTCA-CCCGTGTAACTCACTGACTTAGTTCACAC
966074 ACCCAAGTGG
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
53 5 0.11
54 40 0.89
ACGTcount: A:0.18, C:0.29, G:0.21, T:0.31
Consensus pattern (54 bp):
TGTGTCCAACCGTGTGCTCACCCGTGTAACTCACTGACTTAGTTCACACGTCTG
Found at i:967990 original size:32 final size:32
Alignment explanation
Indices: 967919--967993 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
967909 GAAAGATGCA
*
967919 ATTATTCTAAATACAACCTATTCCAAACAATG
1 ATTATTCTAAATACAACCTATTCCAAACAATC
* *
967951 ATCATTCTAAATATAA-CTATTCCTGAAACAA-C
1 ATTATTCTAAATACAACCTATTCC--AAACAATC
967983 ATTATTCTAAA
1 ATTATTCTAAA
967994 CAAAAGTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 7 0.19
32 24 0.65
33 6 0.16
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (32 bp):
ATTATTCTAAATACAACCTATTCCAAACAATC
Found at i:968151 original size:16 final size:16
Alignment explanation
Indices: 968093--968151 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
968083 TGTTTTGAGC
968093 ATAACTATTCT-AGA-A
1 ATAACTATTCTGA-ACA
* *
968108 ATAGCTATCCTTGAACA
1 ATAACTATTC-TGAACA
* *
968125 ATAATTGTTCTGAACA
1 ATAACTATTCTGAACA
968141 ATAACTATTCT
1 ATAACTATTCT
968152 AAATAAGATT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
15 8 0.24
16 17 0.52
17 8 0.24
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (16 bp):
ATAACTATTCTGAACA
Found at i:968772 original size:28 final size:28
Alignment explanation
Indices: 968738--968793 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
968728 TTATTTATGT
*
968738 TATAAAATTAAAAGAAATATAGAATGGA
1 TATAAAACTAAAAGAAATATAGAATGGA
*
968766 TATAAAACTAAAAGAAGTATAGAATGGA
1 TATAAAACTAAAAGAAATATAGAATGGA
968794 CAAAAGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.59, C:0.02, G:0.16, T:0.23
Consensus pattern (28 bp):
TATAAAACTAAAAGAAATATAGAATGGA
Found at i:974593 original size:181 final size:181
Alignment explanation
Indices: 974289--974658 Score: 695
Period size: 181 Copynumber: 2.0 Consensus size: 181
974279 ATTTGTATTC
974289 CATTATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGG
1 CATTATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGG
*
974354 TGTTCATAATAACTGAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGGA
66 TGTTCATAATAACTGAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCA
974419 CTGAGACACATTATTGTCTCCATTTTGTATTTGCTAAACTTGTTTCTTTAA
131 CTGAGACACATTATTGTCTCCATTTTGTATTTGCTAAACTTGTTTCTTTAA
974470 CATTATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGG
1 CATTATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGG
* *
974535 TGTTCATAATAACTTAATATCGAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCA
66 TGTTCATAATAACTGAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCA
* *
974600 CTGAGACACATTATTGTCTCCATTTTGTGTTTTCTAAACTTGTTTCTTTAA
131 CTGAGACACATTATTGTCTCCATTTTGTATTTGCTAAACTTGTTTCTTTAA
974651 CATTATAT
1 CATTATAT
974659 GAGATATGTG
Statistics
Matches: 184, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
181 184 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (181 bp):
CATTATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGG
TGTTCATAATAACTGAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCA
CTGAGACACATTATTGTCTCCATTTTGTATTTGCTAAACTTGTTTCTTTAA
Found at i:975877 original size:3 final size:3
Alignment explanation
Indices: 975869--975896 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
975859 TAGCTAGCGA
975869 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
975897 CCCTTTTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:977214 original size:69 final size:69
Alignment explanation
Indices: 977098--977239 Score: 250
Period size: 69 Copynumber: 2.1 Consensus size: 69
977088 CATCCGATGC
*
977098 ATTAGTTTTACAAAAAGATATCATATTATAATTGAAGGGTTAGGAGTG-TTGAAATTTAGATTCA
1 ATTAGTTTTACAAAAAGATATCATATTATAATTGAAGGGTTAAGAGTGCTT-AAATTTAGATTCA
977162 ACTTG
65 ACTTG
*
977167 ATTAGTTTTACAAAAAGATATTATATTATAATTGAAGGGTTAAGAGTGCTTAAATTTAGATTCAA
1 ATTAGTTTTACAAAAAGATATCATATTATAATTGAAGGGTTAAGAGTGCTTAAATTTAGATTCAA
977232 CTTG
66 CTTG
977236 ATTA
1 ATTA
977240 ATAATCAGGT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
69 68 0.97
70 2 0.03
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (69 bp):
ATTAGTTTTACAAAAAGATATCATATTATAATTGAAGGGTTAAGAGTGCTTAAATTTAGATTCAA
CTTG
Found at i:977974 original size:24 final size:24
Alignment explanation
Indices: 977947--977996 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
977937 TTTGCCGCCT
*
977947 CCATGCTTTCCGTGCTTAAATTTC
1 CCATGCTTCCCGTGCTTAAATTTC
*
977971 CCATGCTTCCCGTGCTTGAATTTC
1 CCATGCTTCCCGTGCTTAAATTTC
977995 CC
1 CC
977997 CCCATGATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.34, G:0.14, T:0.38
Consensus pattern (24 bp):
CCATGCTTCCCGTGCTTAAATTTC
Found at i:978016 original size:21 final size:22
Alignment explanation
Indices: 977983--978041 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
977973 ATGCTTCCCG
*
977983 TGCTTGAATTTCCCC-CCATGA
1 TGCTTGAACTTCCCCACCATGA
*
978004 TGCTTAAACTTCCCACCACCATGA
1 TGCTTGAACTT-CC-CCACCATGA
*
978028 TGTTTGAACTTCCC
1 TGCTTGAACTTCCC
978042 ATGATGACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 9 0.29
22 3 0.10
23 4 0.13
24 15 0.48
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (22 bp):
TGCTTGAACTTCCCCACCATGA
Found at i:978073 original size:9 final size:9
Alignment explanation
Indices: 978061--978103 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
978051 ATGACCAAAC
*
978061 CCATGAGCG
1 CCATGAGCA
*
978070 CCATAAGCA
1 CCATGAGCA
978079 CCATGAGCA
1 CCATGAGCA
978088 CCATGAGCA
1 CCATGAGCA
978097 CCATGAG
1 CCATGAG
978104 ACACGTGGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.33, C:0.33, G:0.23, T:0.12
Consensus pattern (9 bp):
CCATGAGCA
Found at i:978380 original size:30 final size:32
Alignment explanation
Indices: 978346--978407 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
978336 GGGGTATCCT
*
978346 CCTTGAGGAGGGTA-G-CCAGCTGGTGGATAG
1 CCTTGAGGAGGGTACGCCCAGCCGGTGGATAG
*
978376 CCTTGAGGGGGGTACGCTCCAGCCGGTGGATA
1 CCTTGAGGAGGGTACGC-CCAGCCGGTGGATA
978408 TCCGCCAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 13 0.48
31 1 0.04
33 13 0.48
ACGTcount: A:0.18, C:0.21, G:0.42, T:0.19
Consensus pattern (32 bp):
CCTTGAGGAGGGTACGCCCAGCCGGTGGATAG
Found at i:980998 original size:56 final size:56
Alignment explanation
Indices: 980909--981024 Score: 171
Period size: 56 Copynumber: 2.1 Consensus size: 56
980899 TTACTAAAAA
*
980909 AAATAAGAAGAGATTTTGATGATCAAAACGAAAGTGACCTAAAACTTGGGATGACCG
1 AAATAAGAAGAGATTTTAATGATCAAAACGAAAGTGACCTAAAACTT-GGATGACCG
* * * *
980966 AAAT-AGAAGAGATTTTAATGATTAAAATGAAAGTGACCTAACACTTGGATGACTG
1 AAATAAGAAGAGATTTTAATGATCAAAACGAAAGTGACCTAAAACTTGGATGACCG
981021 AAAT
1 AAAT
981025 GAAAGTGTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 12 0.22
56 38 0.70
57 4 0.07
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (56 bp):
AAATAAGAAGAGATTTTAATGATCAAAACGAAAGTGACCTAAAACTTGGATGACCG
Found at i:981350 original size:22 final size:22
Alignment explanation
Indices: 981325--981370 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
981315 CCTCCGCAGA
981325 TTTATGTCTTCATATTATTCTC
1 TTTATGTCTTCATATTATTCTC
981347 TTTATGTCTTCATATTATTCTC
1 TTTATGTCTTCATATTATTCTC
981369 TT
1 TT
981371 ACATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTATGTCTTCATATTATTCTC
Found at i:987885 original size:42 final size:41
Alignment explanation
Indices: 987839--987927 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 41
987829 GTGCTAAATA
* * *
987839 GAAACCGATAAGGGTTGAATG-AAAGCTCATAAGAGCTTAACG
1 GAAACCCATAAGGGTT-AA-GCAAAGCTCAAAAGAGCTGAACG
* *
987881 GAAACCCATAATGGTTAAGCTAAAGTTCAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAGC-AAAGCTCAAAAGAGCTGAACG
987923 GAAAC
1 GAAAC
987928 TGAATAGGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 1 0.03
41 2 0.05
42 37 0.93
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.18
Consensus pattern (41 bp):
GAAACCCATAAGGGTTAAGCAAAGCTCAAAAGAGCTGAACG
Found at i:990675 original size:22 final size:23
Alignment explanation
Indices: 990649--990710 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
990639 TTCTGATTAC
*
990649 TAGCACGTTAGTGCTCTCCAT-T-
1 TAGCACATTAGTGCTCTCC-TGTA
*
990671 TAGCACATTTGTGCTC-CCTGTA
1 TAGCACATTAGTGCTCTCCTGTA
*
990693 TAGCACTTTAGTGCTCTC
1 TAGCACATTAGTGCTCTC
990711 TATTCATTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 1 0.03
21 3 0.09
22 28 0.85
23 1 0.03
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (23 bp):
TAGCACATTAGTGCTCTCCTGTA
Found at i:991745 original size:30 final size:30
Alignment explanation
Indices: 991711--991770 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
991701 TGAAGATTAT
991711 TTGGGATACGTAATGTCGTTATTAAGGAAG
1 TTGGGATACGTAATGTCGTTATTAAGGAAG
991741 TTGGGATACGTAATGTCGTTATTAAGGAAG
1 TTGGGATACGTAATGTCGTTATTAAGGAAG
991771 AAGTTATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (30 bp):
TTGGGATACGTAATGTCGTTATTAAGGAAG
Found at i:995130 original size:22 final size:23
Alignment explanation
Indices: 995077--995132 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
995067 CTAGCAAGTC
* *
995077 AGTGCTCTCCGTTTAGCACATTT
1 AGTGCTCTCTGTATAGCACATTT
995100 -GTGCTCTCTGTATAGCAC-TTT
1 AGTGCTCTCTGTATAGCACATTT
995121 AGTGCTCTCTGT
1 AGTGCTCTCTGT
995133 TATTAGTGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (23 bp):
AGTGCTCTCTGTATAGCACATTT
Found at i:1004417 original size:21 final size:21
Alignment explanation
Indices: 1004393--1004473 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
1004383 AACAGAAACC
*
1004393 CATAAGGGTTGAACGAAAGCT
1 CATAAGAGTTGAACGAAAGCT
* *
1004414 CATAAGAGCTGAGCGGAAA-CT
1 CATAAGAGTTGAAC-GAAAGCT
* * *
1004435 CATAAGGGTT-AAGGTGAAGCT
1 CATAAGAGTTGAACG-AAAGCT
*
1004456 CAAAAGAGTTGAACGAAA
1 CATAAGAGTTGAACGAAA
1004474 CCCTAATAGG
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 33 0.75
22 7 0.16
ACGTcount: A:0.41, C:0.14, G:0.28, T:0.17
Consensus pattern (21 bp):
CATAAGAGTTGAACGAAAGCT
Found at i:1011296 original size:36 final size:36
Alignment explanation
Indices: 1011249--1011330 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
1011239 TAAATAGCTA
* * * *
1011249 GCTGATATAATATCGTAGTTGATATCGTTAAGGTTT
1 GCTGATTTAATATCATAGTTGATATCATTAAAGTTT
1011285 GCTGATTTAATATCATAGTTGATATCATTAAAGTTT
1 GCTGATTTAATATCATAGTTGATATCATTAAAGTTT
*
1011321 GTTGATTTAA
1 GCTGATTTAA
1011331 GATTACAACC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.44
Consensus pattern (36 bp):
GCTGATTTAATATCATAGTTGATATCATTAAAGTTT
Found at i:1011496 original size:95 final size:95
Alignment explanation
Indices: 1011386--1011588 Score: 307
Period size: 95 Copynumber: 2.1 Consensus size: 95
1011376 TCTGAGTTAG
*
1011386 TTGATTTAATATCGCTACTCTAAACAACTCGCTGATTTAATATCGCAGCTAATATCGTTAAGATT
1 TTGATTTAATATCGCTACTCTAAACAACTCGCTGATTTAAGATCGCAGCTAATATCGTTAAGATT
*
1011451 CGCTGATTTAAGATCACAACGTAAGTTCAT
66 CGCTGATTTAAGATCACAACCTAAGTTCAT
* * * * * *
1011481 TTGATTTAATATCGCTATTCTAAACAACTTGTTGATTTAAGATCGCAGCTGATATTGTTAAGGTT
1 TTGATTTAATATCGCTACTCTAAACAACTCGCTGATTTAAGATCGCAGCTAATATCGTTAAGATT
**
1011546 CGCTGATTTAAGATTGCAACCTAAGTTCAT
66 CGCTGATTTAAGATCACAACCTAAGTTCAT
*
1011576 TCGATTTAATATC
1 TTGATTTAATATC
1011589 ATGAACAATC
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (95 bp):
TTGATTTAATATCGCTACTCTAAACAACTCGCTGATTTAAGATCGCAGCTAATATCGTTAAGATT
CGCTGATTTAAGATCACAACCTAAGTTCAT
Found at i:1011620 original size:64 final size:63
Alignment explanation
Indices: 1011551--1012012 Score: 197
Period size: 64 Copynumber: 7.1 Consensus size: 63
1011541 AGGTTCGCTG
*
1011551 ATTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGCTA
1 ATTTAAGATCGCAACCTAAGTTCATT-GATTTAATATCATGAACAATCTTATCTAAGTTAGCTA
* * * * *** * * * *
1011615 ATTTAATATCGCTACTCTAAACATTTCGTTGATTTAATATCATTG-TTGATATTGT-TAGGGTTT
1 ATTTAAGATCGCAAC-CT--A-AGTTCATTGATTTAATATCA-TGAACAATCTTATCTA-AGTTA
* *
1011678 GTTG
60 GCTA
*
1011682 ATTTAAGATCGCAACATAAGTTCATTTGATTTAATATCATGAACAATCTTATCTAAGTTAGCTA
1 ATTTAAGATCGCAACCTAAGTTCA-TTGATTTAATATCATGAACAATCTTATCTAAGTTAGCTA
* * * * * * *** * * * *
1011746 ATTTTATATCACTACTCTAAACATTTCGTTGATTTAATATCATTG-TTGATATTGT-TAGGGTTT
1 ATTTAAGATCGCAAC-CT--A-AGTTCATTGATTTAATATCA-TGAACAATCTTATCTA-AGTTA
* *
1011809 GTTG
60 GCTA
* * * * *
1011813 ATTTAAGATCGCAACATAAGTTCATTTGATTTAATATTATGAACAATTTTATCTGAGTTAGCTG
1 ATTTAAGATCGCAACCTAAGTTCA-TTGATTTAATATCATGAACAATCTTATCTAAGTTAGCTA
* * * * * *
1011877 ATTTAATATCGCTACTCTAAACGACTCACTAATTTAAGATC--G--CAA-CTGATATCGTTAAGG
1 ATTTAAGATCGCAAC-CT-AA-G-TTCATTGATTTAATATCATGAACAATCT--TATC--TAA-G
*
1011937 TTCA-CTG
57 TT-AGCTA
* * * * *
1011944 ATTTAAGATTGCAACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATTTGAGTTAGCTT
1 ATTTAAGATCGCAACCTAAGTTCATT-GATTTAATATCATGAACAATCTTATCTAAGTTAGCTA
1012008 ATTTA
1 ATTTA
1012013 GTATCACTAT
Statistics
Matches: 283, Mismatches: 80, Indels: 70
0.65 0.18 0.16
Matches are distributed among these distances:
62 1 0.00
63 20 0.07
64 111 0.39
65 12 0.04
66 13 0.05
67 103 0.36
68 21 0.07
69 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (63 bp):
ATTTAAGATCGCAACCTAAGTTCATTGATTTAATATCATGAACAATCTTATCTAAGTTAGCTA
Found at i:1011622 original size:131 final size:130
Alignment explanation
Indices: 1011484--1012123 Score: 742
Period size: 131 Copynumber: 4.9 Consensus size: 130
1011474 AGTTCATTTG
* * *
1011484 ATTTAATATCGCTATTCTAAACAACTTGTTGATTTAAGATCGCAGCTGATATTGTTAAGGTTCGC
1 ATTTAATATCGCTACTCTAAAC-ACTTGTTGATTTAATATCGCAGTTGATATTGTTAAGGTTCGC
1011549 TGATTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGCT
65 TGATTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGCT
1011614 A
130 A
* *** * * *
1011615 ATTTAATATCGCTACTCTAAACATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTTGT
1 ATTTAATATCGCTACTCTAAACACTT-GTTGATTTAATATCGCAGTTGATATTGTTAAGGTTCGC
* * *
1011680 TGATTTAAGATCGCAACATAAGTTCATTTGATTTAATATCATGAACAATCTTATCTAAGTTAGCT
65 TGATTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGCT
1011745 A
130 A
* * * *** * * *
1011746 ATTTTATATCACTACTCTAAACATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTTGT
1 ATTTAATATCGCTACTCTAAACACTT-GTTGATTTAATATCGCAGTTGATATTGTTAAGGTTCGC
* * * * * *
1011811 TGATTTAAGATCGCAACATAAGTTCATTTGATTTAATATTATGAACAATTTTATCTGAGTTAGCT
65 TGATTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGCT
*
1011876 G
130 A
*** * * ** * *
1011877 ATTTAATATCGCTACTCTAAACGACTCACTAATTTAAGATCGCAACTGATATCGTTAAGGTTCAC
1 ATTTAATATCGCTACTCTAAAC-ACTTGTTGATTTAATATCGCAGTTGATATTGTTAAGGTTCGC
* * *
1011942 TGATTTAAGATTGCAACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATTTGAGTTAGCT
65 TGATTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGCT
*
1012007 T
130 A
* * * * * * * *
1012008 ATTTAGTATCACTATTCTAACCAACTTGCTAATTTAATATTGCAGTTGATATCGTTAAGGTTCGC
1 ATTTAATATCGCTACTCTAAAC-ACTTGTTGATTTAATATCGCAGTTGATATTGTTAAGGTTCGC
* * *
1012073 T-ATTTTAAGATTACAACCTAATTTCATTCCATTTAATATCATGAACAATCT
65 TGA-TTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCT
1012124 CATTTGTGTT
Statistics
Matches: 446, Mismatches: 60, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
130 4 0.01
131 440 0.99
132 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41
Consensus pattern (130 bp):
ATTTAATATCGCTACTCTAAACACTTGTTGATTTAATATCGCAGTTGATATTGTTAAGGTTCGCT
GATTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCTAAGTTAGCTA
Found at i:1011693 original size:67 final size:67
Alignment explanation
Indices: 1011615--1011824 Score: 198
Period size: 67 Copynumber: 3.2 Consensus size: 67
1011605 AAGTTAGCTA
*
1011615 ATTTAATATCGCTACTCTAAACATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTTGT
1 ATTTAAGATCGCTACTCTAAACATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTTGT
1011680 TG
66 TG
* * * * *** * * *
1011682 ATTTAAGATCGC-A-AC-ATA-AGTTCATTTGATTTAATATCA-TGAACAATCTTATCTA-AGTT
1 ATTTAAGATCGCTACTCTAAACATTTC-GTTGATTTAATATCATTG-TTGATATTGT-TAGGGTT
* * *
1011741 AGCTA
63 TGTTG
* * *
1011746 ATTTTATATCACTACTCTAAACATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTTGT
1 ATTTAAGATCGCTACTCTAAACATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTTGT
1011811 TG
66 TG
1011813 ATTTAAGATCGC
1 ATTTAAGATCGC
1011825 AACATAAGTT
Statistics
Matches: 101, Mismatches: 33, Indels: 18
0.66 0.22 0.12
Matches are distributed among these distances:
63 6 0.06
64 35 0.35
65 4 0.04
66 4 0.04
67 46 0.46
68 6 0.06
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (67 bp):
ATTTAAGATCGCTACTCTAAACATTTCGTTGATTTAATATCATTGTTGATATTGTTAGGGTTTGT
TG
Found at i:1011782 original size:226 final size:223
Alignment explanation
Indices: 1011314--1011719 Score: 515
Period size: 226 Copynumber: 1.8 Consensus size: 223
1011304 TGATATCATT
*
1011314 AAAGTTTGTTGATTTAAGATTACAACCTAAGTTCATTCAATCTAATATCATGAACAATCTTATCT
1 AAAGTTCGTTGATTTAAGATTACAACCTAAGTTCATTCAATCTAATATCATGAACAATCTTATCT
* * * *
1011379 GAGTTAGTTGATTTAATATCGCTACTCTAAACAACTCGCTGATTTAATATCGCAGCTAATATCGT
66 AAGTTAGCTAATTTAATATCGCTACTCTAAACAACTCGCTGATTTAATATCACAGCTAATATCGT
* *
1011444 TAAGATTCGCTGATTTAAGATCACAACGTAAGTTCATTTGATTTAATATCGCTATTCTAAACAAC
131 TAAGATTCGCTGATTTAAGATCACAACATAAGTTCATTTGATTTAATATCGCTAATCTAAACAAC
* * * * *
1011509 TTGTTGATTTAAGATCGCAGCTGATATTGTT
196 TTGCTAATTTAAGATC-CAGC--ATACTCTA
* * * * *
1011540 AAGGTTCGCTGATTTAAGATTGCAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATCT
1 AAAGTTCGTTGATTTAAGATTACAACCTAAGTTCATTCAATCTAATATCATGAACAATCTTATCT
** * ** * * *
1011605 AAGTTAGCTAATTTAATATCGCTACTCTAAACATTTCGTTGATTTAATATCATTGTTGATATTGT
66 AAGTTAGCTAATTTAATATCGCTACTCTAAACAACTCGCTGATTTAATATCACAGCTAATATCGT
* * * * *
1011670 TAGGGTTTGTTGATTTAAGATCGCAACATAAGTTCATTTGATTTAATATC
131 TAAGATTCGCTGATTTAAGATCACAACATAAGTTCATTTGATTTAATATC
1011720 ATGAACAATC
Statistics
Matches: 156, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
226 156 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (223 bp):
AAAGTTCGTTGATTTAAGATTACAACCTAAGTTCATTCAATCTAATATCATGAACAATCTTATCT
AAGTTAGCTAATTTAATATCGCTACTCTAAACAACTCGCTGATTTAATATCACAGCTAATATCGT
TAAGATTCGCTGATTTAAGATCACAACATAAGTTCATTTGATTTAATATCGCTAATCTAAACAAC
TTGCTAATTTAAGATCCAGCATACTCTA
Found at i:1026164 original size:26 final size:26
Alignment explanation
Indices: 1026110--1026164 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
1026100 ATAATTATTA
* *
1026110 TAAATTAATTAAAAATTATAAAATTT
1 TAAATTAATTAAAAACTATAAAATAT
*
1026136 TAAATTTATTAAAAACTATAACAA-AT
1 TAAATTAATTAAAAACTATAA-AATAT
1026162 TAA
1 TAA
1026165 TAATGTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (26 bp):
TAAATTAATTAAAAACTATAAAATAT
Found at i:1026585 original size:18 final size:17
Alignment explanation
Indices: 1026559--1026598 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1026549 TTTAAAATAA
*
1026559 TTTTAAAATATTCTTTAT
1 TTTTTAAAT-TTCTTTAT
*
1026577 TTTTTAAATTTTTTTAT
1 TTTTTAAATTTCTTTAT
1026594 TTTTT
1 TTTTT
1026599 CTAATGTGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTAAATTTCTTTAT
Found at i:1028236 original size:8 final size:7
Alignment explanation
Indices: 1028214--1028248 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
1028204 CCTTTTGTAT
1028214 GGTTTAG
1 GGTTTAG
1028221 GGTTTAG
1 GGTTTAG
1028228 GGTTTTAG
1 GG-TTTAG
1028236 GGTTTAG
1 GGTTTAG
1028243 GGTTTA
1 GGTTTA
1028249 TGTCTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.14, C:0.00, G:0.40, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:1028236 original size:15 final size:15
Alignment explanation
Indices: 1028216--1028247 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1028206 TTTTGTATGG
1028216 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
1028231 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
1028246 TT
1 TT
1028248 ATGTCTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:1028784 original size:202 final size:202
Alignment explanation
Indices: 1028438--1028851 Score: 702
Period size: 202 Copynumber: 2.0 Consensus size: 202
1028428 GCATTTGATT
* *
1028438 TAAATACTAATAAGAATTATAATGTCATCTACAAATCCAATTGGGGAGATGACTAGTCTTGGCTA
1 TAAATACTGATAAGAATTATAATGTCATCTACAAACCCAATTGGGGAGATGACTAGTCTTGGCTA
* * *
1028503 TCGGAGCAGTTGTTTCCACGAGTAGAGACATAGATGTATTCATTTGTAGAATGATACATTGGACT
66 CCAGAGCAGTTGTTTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGACT
*
1028568 GGACTCACGATGAATTAATTCTGAATCCGTTTGTGAATTAATTCACTTGTGATGTTCATGGTATG
131 GGACTCACGATGAATTAATTCTGAATCCATTTGTGAATTAATTCACTTGTGATGTTCATGGTATG
1028633 ATTTATC
196 ATTTATC
* * * *
1028640 TAAATACTGATAAGAATTATTATGTCGTTTACAAACCCAATTGGGGAGATGGCTAGTCTTGGCTA
1 TAAATACTGATAAGAATTATAATGTCATCTACAAACCCAATTGGGGAGATGACTAGTCTTGGCTA
* *
1028705 CCAGAGCAGTTGTTTCCTCGAGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGATT
66 CCAGAGCAGTTGTTTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGACT
*
1028770 GGACTCACGATGAATTAATTCTGAATCCATTTGTGAATTAATTCACTTGTGATGTTCATGGTGTG
131 GGACTCACGATGAATTAATTCTGAATCCATTTGTGAATTAATTCACTTGTGATGTTCATGGTATG
1028835 ATTTATC
196 ATTTATC
*
1028842 TAAATCCTGA
1 TAAATACTGA
1028852 GTTCATCACT
Statistics
Matches: 198, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
202 198 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (202 bp):
TAAATACTGATAAGAATTATAATGTCATCTACAAACCCAATTGGGGAGATGACTAGTCTTGGCTA
CCAGAGCAGTTGTTTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGACT
GGACTCACGATGAATTAATTCTGAATCCATTTGTGAATTAATTCACTTGTGATGTTCATGGTATG
ATTTATC
Found at i:1031752 original size:13 final size:13
Alignment explanation
Indices: 1031690--1031752 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
1031680 TCTTCATTGT
*
1031690 TTTTGAGAAGTGC
1 TTTTGAAAAGTGC
* *
1031703 TGTGGAAAAGTGC
1 TTTTGAAAAGTGC
1031716 TTTTGAGAAA-TGC
1 TTTTGA-AAAGTGC
* *
1031729 TTTTGAGAAGTGT
1 TTTTGAAAAGTGC
1031742 TTTTGAAAAGT
1 TTTTGAAAAGT
1031753 TTGATTTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 2 0.05
13 35 0.88
14 3 0.08
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:1031978 original size:17 final size:17
Alignment explanation
Indices: 1031956--1032003 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1031946 ATATAAAATT
1031956 TAAATATTTTTAATGAA
1 TAAATATTTTTAATGAA
* **
1031973 TAAATATTAATT-ATTTA
1 TAAATATT-TTTAATGAA
1031990 TAAATATTTTTAAT
1 TAAATATTTTTAAT
1032004 TAATGATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.08
17 21 0.84
18 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TAAATATTTTTAATGAA
Found at i:1031978 original size:30 final size:34
Alignment explanation
Indices: 1031928--1032003 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
1031918 ATTTGTTGTT
1031928 AATA-TTTTAATATATGAAATA-TAA-AATT-TA
1 AATATTTTTAATATATGAAATATTAATAATTATA
*
1031958 AATATTTTTAATGA-AT-AAATATTAATTATTTATA
1 AATATTTTTAAT-ATATGAAATATTAA-TAATTATA
1031992 AATATTTTTAAT
1 AATATTTTTAAT
1032004 TAATGATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
30 9 0.23
31 12 0.31
32 1 0.03
33 3 0.08
34 14 0.36
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (34 bp):
AATATTTTTAATATATGAAATATTAATAATTATA
Found at i:1032005 original size:24 final size:24
Alignment explanation
Indices: 1031978--1032030 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1031968 ATGAATAAAT
* * *
1031978 ATTAATTATTTATAA-ATATTTTTA
1 ATTAATGATTT-TAACACATTTGTA
1032002 ATTAATGATTTTAACACATTTGTA
1 ATTAATGATTTTAACACATTTGTA
1032026 ATTAA
1 ATTAA
1032031 GCACCAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (24 bp):
ATTAATGATTTTAACACATTTGTA
Found at i:1036679 original size:6 final size:6
Alignment explanation
Indices: 1036670--1036701 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1036660 TTGGTGGATA
1036670 GTGCTG GTGCTG GTGCTG GTGCTG GTG-TG GTG
1 GTGCTG GTGCTG GTGCTG GTGCTG GTGCTG GTG
1036702 GGGAATGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.12, G:0.53, T:0.34
Consensus pattern (6 bp):
GTGCTG
Found at i:1036819 original size:16 final size:16
Alignment explanation
Indices: 1036790--1036824 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1036780 TTGTAGGAGG
*
1036790 GAGGGAGAGCGAGAGA
1 GAGGGAGAGAGAGAGA
*
1036806 GAGGGGGAGAGAGAGA
1 GAGGGAGAGAGAGAGA
1036822 GAG
1 GAG
1036825 AAACAAGAAT
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:0.37, C:0.03, G:0.60, T:0.00
Consensus pattern (16 bp):
GAGGGAGAGAGAGAGA
Found at i:1042173 original size:17 final size:17
Alignment explanation
Indices: 1042135--1042176 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1042125 TTTTAATATT
*
1042135 TTTTTAGTTCAAAACATA
1 TTTTTA-TTCAAAACAAA
*
1042153 -TTTTATTGAAAACAAA
1 TTTTTATTCAAAACAAA
1042169 TTTTTATT
1 TTTTTATT
1042177 ACTTTCTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (17 bp):
TTTTTATTCAAAACAAA
Found at i:1055770 original size:51 final size:51
Alignment explanation
Indices: 1055694--1055806 Score: 158
Period size: 51 Copynumber: 2.2 Consensus size: 51
1055684 NNNNNNNNNN
*
1055694 CACTTACCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA-TCACTTAT
1 CACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACT-ACTTAT
* *
1055745 CACTTGCCACTAT-TCACTGATCAGATAAGTGTATCTGAAGCTACTACTTAT
1 CACTTGCCACT-TGTCACTGATCAGATAAGTGTAGCTAAAGCTACTACTTAT
*
1055796 CACTTGTCACT
1 CACTTGCCACT
1055807 GATCAGAAGT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
51 54 0.96
52 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
CACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACTACTTAT
Found at i:1056794 original size:44 final size:44
Alignment explanation
Indices: 1056744--1056833 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
1056734 AGTGAAAAAT
1056744 GTTAATTTCCATTTTGCCCCAAATTTCACAGCTTATACAATTCA
1 GTTAATTTCCATTTTGCCCCAAATTTCACAGCTTATACAATTCA
*
1056788 GTTAATTTCCATTTTGCCCCAAATTTCACAGTTTATACAATTCA
1 GTTAATTTCCATTTTGCCCCAAATTTCACAGCTTATACAATTCA
1056832 GT
1 GT
1056834 CATTTCTCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (44 bp):
GTTAATTTCCATTTTGCCCCAAATTTCACAGCTTATACAATTCA
Found at i:1059230 original size:19 final size:19
Alignment explanation
Indices: 1059206--1059245 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
1059196 AAGGAATGGT
1059206 GCCTGAACTAAAGAAAGTA
1 GCCTGAACTAAAGAAAGTA
*
1059225 GCCTGAACTAATGAAAGTA
1 GCCTGAACTAAAGAAAGTA
1059244 GC
1 GC
1059246 AAACGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (19 bp):
GCCTGAACTAAAGAAAGTA
Found at i:1068372 original size:26 final size:26
Alignment explanation
Indices: 1068343--1068406 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 26
1068333 CATACATATT
1068343 AATTATTTAT-ATTTA-GTTATATAATA
1 AATTATTTATAATTTACGTT-T-TAATA
1068369 AATTATTAATATAATTTACTGTTTTAATA
1 AATTATT--TATAATTTAC-GTTTTAATA
1068398 AATTATTTA
1 AATTATTTA
1068407 ATATCTCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
26 7 0.21
27 2 0.06
28 3 0.09
29 17 0.52
30 1 0.03
31 3 0.09
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (26 bp):
AATTATTTATAATTTACGTTTTAATA
Found at i:1069521 original size:2 final size:2
Alignment explanation
Indices: 1069514--1069540 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1069504 ACAATGACAT
1069514 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1069541 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1069592 original size:15 final size:15
Alignment explanation
Indices: 1069572--1069628 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
1069562 ATTCAATATT
1069572 AATATTTTAATAATA
1 AATATTTTAATAATA
*
1069587 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
1069606 AATATATTAATAATA
1 AATATTTTAATAATA
*
1069621 AATGTTTT
1 AATATTTT
1069629 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:1070873 original size:2 final size:2
Alignment explanation
Indices: 1070866--1070892 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1070856 ACAATGACAT
1070866 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1070893 TTCATAAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1073772 original size:11 final size:12
Alignment explanation
Indices: 1073755--1073787 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1073745 ATCATTAATA
1073755 AATAAACGAGTC
1 AATAAACGAGTC
*
1073767 -ATAAACAAGTC
1 AATAAACGAGTC
1073778 AATAAACGAG
1 AATAAACGAG
1073788 CTTGTTCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.15
Consensus pattern (12 bp):
AATAAACGAGTC
Found at i:1078690 original size:41 final size:41
Alignment explanation
Indices: 1078596--1078725 Score: 163
Period size: 41 Copynumber: 3.2 Consensus size: 41
1078586 GCTAACCGAA
* * * * *
1078596 AAACACCGCAAAAGGTAAAGCATTAACGGCGTTTTT-GCAT
1 AAACGCCGTAAAAGGTAAAGCAATAGCGGCGTTTTTCCCAT
* * *
1078636 AAACACCGTAAAAGGTAAAGCAATAGCGGTGTTTTTCTCAT
1 AAACGCCGTAAAAGGTAAAGCAATAGCGGCGTTTTTCCCAT
* *
1078677 AAACGTCGTAAAAGGTAAAACAATAGCGGCGTTTTTCCCAT
1 AAACGCCGTAAAAGGTAAAGCAATAGCGGCGTTTTTCCCAT
1078718 AAACGCCG
1 AAACGCCG
1078726 CAAATATTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 32 0.41
41 46 0.59
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (41 bp):
AAACGCCGTAAAAGGTAAAGCAATAGCGGCGTTTTTCCCAT
Found at i:1078957 original size:23 final size:24
Alignment explanation
Indices: 1078927--1078978 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
1078917 ATCTTTCAAA
*
1078927 TCTTCGCTCAAATTTAT-TTGTTC
1 TCTTCGCTCAAATTTATCTCGTTC
*
1078950 TCTTCGCTCAAATTTCTCTCGTTC
1 TCTTCGCTCAAATTTATCTCGTTC
1078974 TCTTC
1 TCTTC
1078979 ATTCAAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.13, C:0.29, G:0.08, T:0.50
Consensus pattern (24 bp):
TCTTCGCTCAAATTTATCTCGTTC
Found at i:1083103 original size:19 final size:18
Alignment explanation
Indices: 1083071--1083117 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
1083061 TTACATTTGA
*
1083071 TTTAGTTTTTATTTAATT
1 TTTAATTTTTATTTAATT
*
1083089 TTTAATTTTTAATTTTATT
1 TTTAATTTTT-ATTTAATT
*
1083108 TTTGATTTTT
1 TTTAATTTTT
1083118 CCCAAAACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (18 bp):
TTTAATTTTTATTTAATT
Found at i:1085296 original size:29 final size:29
Alignment explanation
Indices: 1085203--1085295 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
1085193 AATTTTTTTG
*
1085203 CATTTTGACCCCTAAACTTTTTAAAATTA
1 CATTTTGACCCCTAAACTTTTTTAAATTA
*** *
1085232 CACCATAACCCCTAAACTTTTTTAAATTA
1 CATTTTGACCCCTAAACTTTTTTAAATTA
*
1085261 CATTTTGACCCTTAAA-TTTTCTTAAAATTA
1 CATTTTGACCCCTAAACTTTT-TT-AAATTA
*
1085291 TATTT
1 CATTT
1085296 GGCCCCAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
28 4 0.08
29 37 0.73
30 10 0.20
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.43
Consensus pattern (29 bp):
CATTTTGACCCCTAAACTTTTTTAAATTA
Found at i:1085563 original size:10 final size:10
Alignment explanation
Indices: 1085548--1085586 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
1085538 CAGCAAAAGA
1085548 AAGAGGAAGG
1 AAGAGGAAGG
1085558 AAGAGGAAGG
1 AAGAGGAAGG
1085568 AA-AGGAAGAG
1 AAGAGGAAG-G
1085578 AAGGAGGAA
1 AA-GAGGAA
1085587 AAGATGGCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 6 0.23
10 15 0.58
12 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (10 bp):
AAGAGGAAGG
Found at i:1085651 original size:3 final size:3
Alignment explanation
Indices: 1085643--1085677 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
1085633 CCTAGGGCTT
1085643 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1085678 AGCAGAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1085900 original size:22 final size:23
Alignment explanation
Indices: 1085875--1085917 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1085865 CCGCAGGCCC
*
1085875 AACAGCAAG-TGCAGGCCCAGTG
1 AACAGCAAGCTCCAGGCCCAGTG
*
1085897 AACAGCAGGCTCCAGGCCCAG
1 AACAGCAAGCTCCAGGCCCAG
1085918 CGCAGCAGCA
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:0.30, C:0.33, G:0.30, T:0.07
Consensus pattern (23 bp):
AACAGCAAGCTCCAGGCCCAGTG
Found at i:1086037 original size:20 final size:20
Alignment explanation
Indices: 1086010--1086056 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
1086000 GCAGCAGGCA
*
1086010 AAAAAAAAGAGGAGAAAAAAAG
1 AAAAAAAAGA-GA-AAAGAAAG
*
1086032 AAAAAAAAGAGAAAAGAAGG
1 AAAAAAAAGAGAAAAGAAAG
1086052 AAAAA
1 AAAAA
1086057 TCCCGAGTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 2 0.09
22 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAAAAAAGAGAAAAGAAAG
Found at i:1086217 original size:31 final size:31
Alignment explanation
Indices: 1086177--1086237 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
1086167 TAATAATCTT
*
1086177 GTTTTTTTAAGCATTTTTT-TATTTCGTATTAG
1 GTTTTTTAAAGC-TTTTTTATA-TTCGTATTAG
1086209 GTTTTTTAAAGCTTTTTTATATTCGTATT
1 GTTTTTTAAAGCTTTTTTATATTCGTATT
1086238 TAATTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.20, C:0.07, G:0.11, T:0.62
Consensus pattern (31 bp):
GTTTTTTAAAGCTTTTTTATATTCGTATTAG
Found at i:1087901 original size:21 final size:19
Alignment explanation
Indices: 1087875--1087928 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
1087865 AGCTCAATTT
1087875 GGTATCAATACTTGGGGTTAA
1 GGTATCAATACTT--GGTTAA
* *
1087896 GGTATCAATACCTTGTTTAG
1 GGTATCAATA-CTTGGTTAA
1087916 GGTATCAATACTT
1 GGTATCAATACTT
1087929 TGATCCCTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 3 0.10
20 14 0.47
21 10 0.33
22 3 0.10
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (19 bp):
GGTATCAATACTTGGTTAA
Found at i:1088116 original size:17 final size:18
Alignment explanation
Indices: 1088083--1088119 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
1088073 TCAAATTTAT
*
1088083 CAAGTTTTATTTCAAAAA
1 CAAGTTTTATCTCAAAAA
1088101 CAAGTTTTA-CTCAAAAA
1 CAAGTTTTATCTCAAAAA
1088118 CA
1 CA
1088120 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.32
Consensus pattern (18 bp):
CAAGTTTTATCTCAAAAA
Found at i:1089100 original size:26 final size:27
Alignment explanation
Indices: 1089044--1089100 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
1089034 AAATATATTT
* **
1089044 TTTTATTTTTTAAAATTTTAAATTATT
1 TTTTATTTTTTAAAATTTTAAAATAAA
* *
1089071 TTTTATTTTTT-TATTTTTAAAATAAA
1 TTTTATTTTTTAAAATTTTAAAATAAA
1089097 TTTT
1 TTTT
1089101 TAGTGTTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTTATTTTTTAAAATTTTAAAATAAA
Found at i:1090564 original size:774 final size:774
Alignment explanation
Indices: 1089076--1090613 Score: 3076
Period size: 774 Copynumber: 2.0 Consensus size: 774
1089066 TTATTTTTTA
1089076 TTTTTTTATTTTTAAAATAAATTTTTAGTGTTTTATTAAAAAAATGAGCCGGGCCAGGCCGGGCT
1 TTTTTTTATTTTTAAAATAAATTTTTAGTGTTTTATTAAAAAAATGAGCCGGGCCAGGCCGGGCT
1089141 TGGGCTTAGGAATTTTTTCCCGGGCCGGCCCTGGACAAATTTTTAGGCCCATATATTTGGGCCGG
66 TGGGCTTAGGAATTTTTTCCCGGGCCGGCCCTGGACAAATTTTTAGGCCCATATATTTGGGCCGG
1089206 GCCCGATCCTAGGACGCGGGCCAAAATTTTTTCCTGGGCCTGGCCCGACCCGGCCCATGAGTACC
131 GCCCGATCCTAGGACGCGGGCCAAAATTTTTTCCTGGGCCTGGCCCGACCCGGCCCATGAGTACC
1089271 TCTATTAGAGAGTTATATTTCTACATTTATATTTGGACATTTGTCATGAATTAAGGGTGTAATAC
196 TCTATTAGAGAGTTATATTTCTACATTTATATTTGGACATTTGTCATGAATTAAGGGTGTAATAC
1089336 TTGAATTTGAAAGTTATTCAAGTTTAAAAAAAATTCGATTTGATAATTATGCTCAAATTCAAACA
261 TTGAATTTGAAAGTTATTCAAGTTTAAAAAAAATTCGATTTGATAATTATGCTCAAATTCAAACA
1089401 ATTCGAATTATGGATTAAGTTAAAGTCAAACATTTTAATATTTGACTAAAGTATCTTGCGAGCAA
326 ATTCGAATTATGGATTAAGTTAAAGTCAAACATTTTAATATTTGACTAAAGTATCTTGCGAGCAA
1089466 TATTCTTTAATTAATTTTCATACTGTGCCATGTATAGATTTATTGCATGTATTTATAAAAAAAAA
391 TATTCTTTAATTAATTTTCATACTGTGCCATGTATAGATTTATTGCATGTATTTATAAAAAAAAA
1089531 GGTTAATATAAAATAATTTAAAATATTTGTATTTAAATATCATGGAAAAAATTAAAATGCACGTA
456 GGTTAATATAAAATAATTTAAAATATTTGTATTTAAATATCATGGAAAAAATTAAAATGCACGTA
1089596 ACTTTTATACAAAAAATTAAGTGCTAAATTAGAGATATGATTGACTGACTGCCAGTAGAGTAACG
521 ACTTTTATACAAAAAATTAAGTGCTAAATTAGAGATATGATTGACTGACTGCCAGTAGAGTAACG
1089661 TGTTAGAAACATAAAATTTTGGCACGTTACTAAGGTTACTATAGTAAATACAGAAAATAATATTA
586 TGTTAGAAACATAAAATTTTGGCACGTTACTAAGGTTACTATAGTAAATACAGAAAATAATATTA
1089726 GAAAATTTATAATCTTAGAGGTTCATATAATTTTTTTTTAAGAATATCAAATTATAGATTGATTT
651 GAAAATTTATAATCTTAGAGGTTCATATAATTTTTTTTTAAGAATATCAAATTATAGATTGATTT
1089791 TCATATTGATTGTTGATATAAATTAAATTGTACTATTGAATCTGAAAAATTTAAATTAT
716 TCATATTGATTGTTGATATAAATTAAATTGTACTATTGAATCTGAAAAATTTAAATTAT
1089850 TTTTTTTATTTTTAAAATAAATTTTTAGTGTTTTATTAAAAAAATGAGCCGGGCCAGGCCGGGCT
1 TTTTTTTATTTTTAAAATAAATTTTTAGTGTTTTATTAAAAAAATGAGCCGGGCCAGGCCGGGCT
1089915 TGGGCTTAGGAATTTTTTCCCGGGCCGGCCCTGGACAAATTTTTAGGCCCATATATTTGGGCCGG
66 TGGGCTTAGGAATTTTTTCCCGGGCCGGCCCTGGACAAATTTTTAGGCCCATATATTTGGGCCGG
1089980 GCCCGATCCTAGGACGCGGGCCAAAATTTTTTCCTGGGCCTGGCCCGACCCGGCCCATGAGTACC
131 GCCCGATCCTAGGACGCGGGCCAAAATTTTTTCCTGGGCCTGGCCCGACCCGGCCCATGAGTACC
1090045 TCTATTAGAGAGTTATATTTCTACATTTATATTTGGACATTTGTCATGAATTAAGGGTGTAATAC
196 TCTATTAGAGAGTTATATTTCTACATTTATATTTGGACATTTGTCATGAATTAAGGGTGTAATAC
1090110 TTGAATTTGAAAGTTATTCAAGTTTAAAAAAAATTCGATTTGATAATTATGCTCAAATTCAAACA
261 TTGAATTTGAAAGTTATTCAAGTTTAAAAAAAATTCGATTTGATAATTATGCTCAAATTCAAACA
1090175 ATTCGAATTATGGATTAAGTTAAAGTCAAACATTTTAATATTTGACTAAAGTATCTTGCGAGCAA
326 ATTCGAATTATGGATTAAGTTAAAGTCAAACATTTTAATATTTGACTAAAGTATCTTGCGAGCAA
1090240 TATTCTTTAATTAATTTTCATACTGTGCCATGTATAGATTTATTGCATGTATTTATAAAAAAAAA
391 TATTCTTTAATTAATTTTCATACTGTGCCATGTATAGATTTATTGCATGTATTTATAAAAAAAAA
1090305 GGTTAATATAAAATAATTTAAAATATTTGTATTTAAATATCATGGAAAAAATTAAAATGCACGTA
456 GGTTAATATAAAATAATTTAAAATATTTGTATTTAAATATCATGGAAAAAATTAAAATGCACGTA
1090370 ACTTTTATACAAAAAATTAAGTGCTAAATTAGAGATATGATTGACTGACTGCCAGTAGAGTAACG
521 ACTTTTATACAAAAAATTAAGTGCTAAATTAGAGATATGATTGACTGACTGCCAGTAGAGTAACG
1090435 TGTTAGAAACATAAAATTTTGGCACGTTACTAAGGTTACTATAGTAAATACAGAAAATAATATTA
586 TGTTAGAAACATAAAATTTTGGCACGTTACTAAGGTTACTATAGTAAATACAGAAAATAATATTA
1090500 GAAAATTTATAATCTTAGAGGTTCATATAATTTTTTTTTAAGAATATCAAATTATAGATTGATTT
651 GAAAATTTATAATCTTAGAGGTTCATATAATTTTTTTTTAAGAATATCAAATTATAGATTGATTT
1090565 TCATATTGATTGTTGATATAAATTAAATTGTACTATTGAATCTGAAAAA
716 TCATATTGATTGTTGATATAAATTAAATTGTACTATTGAATCTGAAAAA
1090614 GCTTAAATAT
Statistics
Matches: 764, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
774 764 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (774 bp):
TTTTTTTATTTTTAAAATAAATTTTTAGTGTTTTATTAAAAAAATGAGCCGGGCCAGGCCGGGCT
TGGGCTTAGGAATTTTTTCCCGGGCCGGCCCTGGACAAATTTTTAGGCCCATATATTTGGGCCGG
GCCCGATCCTAGGACGCGGGCCAAAATTTTTTCCTGGGCCTGGCCCGACCCGGCCCATGAGTACC
TCTATTAGAGAGTTATATTTCTACATTTATATTTGGACATTTGTCATGAATTAAGGGTGTAATAC
TTGAATTTGAAAGTTATTCAAGTTTAAAAAAAATTCGATTTGATAATTATGCTCAAATTCAAACA
ATTCGAATTATGGATTAAGTTAAAGTCAAACATTTTAATATTTGACTAAAGTATCTTGCGAGCAA
TATTCTTTAATTAATTTTCATACTGTGCCATGTATAGATTTATTGCATGTATTTATAAAAAAAAA
GGTTAATATAAAATAATTTAAAATATTTGTATTTAAATATCATGGAAAAAATTAAAATGCACGTA
ACTTTTATACAAAAAATTAAGTGCTAAATTAGAGATATGATTGACTGACTGCCAGTAGAGTAACG
TGTTAGAAACATAAAATTTTGGCACGTTACTAAGGTTACTATAGTAAATACAGAAAATAATATTA
GAAAATTTATAATCTTAGAGGTTCATATAATTTTTTTTTAAGAATATCAAATTATAGATTGATTT
TCATATTGATTGTTGATATAAATTAAATTGTACTATTGAATCTGAAAAATTTAAATTAT
Found at i:1094650 original size:26 final size:25
Alignment explanation
Indices: 1094604--1094655 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
1094594 ATCATCAAGA
1094604 ATATAATAATAAAGCATTTAAATCAT
1 ATATAATAATAAAGCATTTAAA-CAT
* *
1094630 ATATAAT-ATAATGCGTATTAAACAT
1 ATATAATAATAAAGCAT-TTAAACAT
1094655 A
1 A
1094656 CGAACTTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.35
Consensus pattern (25 bp):
ATATAATAATAAAGCATTTAAACAT
Found at i:1097897 original size:22 final size:22
Alignment explanation
Indices: 1097869--1097912 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1097859 CTCTCTAATC
1097869 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
1097891 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
1097913 NNNNNNNNNN
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:1097965 original size:10 final size:10
Alignment explanation
Indices: 1097934--1097976 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
1097924 NNNNNNNNNN
*
1097934 TCTCAATTTC
1 TCTCAAATTC
1097944 TCTCTAATATTC
1 TCTC-AA-ATTC
1097956 TCTCAAATTCC
1 TCTCAAATT-C
1097967 TCTCAAATTC
1 TCTCAAATTC
1097977 CTATTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 8 0.28
11 14 0.48
12 7 0.24
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (10 bp):
TCTCAAATTC
Found at i:1102193 original size:126 final size:125
Alignment explanation
Indices: 1101968--1102318 Score: 623
Period size: 126 Copynumber: 2.8 Consensus size: 125
1101958 AACTTGCTAC
* *
1101968 TGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGATAGA
1 TGTAGCAAAATTGCGACCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTG-TAGA
*
1102033 AGCGATTTTATACTATTTGCTCAGAAACGTCAACAAAAAAATTATTTCTTACATGACCTAT
65 AGCAATTTTATACTATTTGCTCAGAAACGTCAACAAAAAAATTATTTCTTACATGACCTAT
1102094 TGTAGCAAAATTGCGACCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCGTAGA
1 TGTAGCAAAATTGCGACCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCT-GTAGA
1102159 AGCAATTTTATACTATTTGCTCAGAAACGTCAACAAAAAAATTATTTCTTACATGACCTAT
65 AGCAATTTTATACTATTTGCTCAGAAACGTCAACAAAAAAATTATTTCTTACATGACCTAT
1102220 TGTAGCAAAATTGCGACCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGA
1 TGTAGCAAAATTGCGACCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCT-GTAGA
*
1102285 ATCAATTTTATACTATTTGAC-CAGAAACGTCAAC
65 AGCAATTTTATACTATTTG-CTCAGAAACGTCAAC
1102319 TCGAAATAAT
Statistics
Matches: 218, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
126 216 0.99
127 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (125 bp):
TGTAGCAAAATTGCGACCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGTAGAA
GCAATTTTATACTATTTGCTCAGAAACGTCAACAAAAAAATTATTTCTTACATGACCTAT
Found at i:1102964 original size:23 final size:22
Alignment explanation
Indices: 1102914--1102964 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
1102904 TTCTTTATTG
*
1102914 TTTTT-TTTACTTTATGTTCAT
1 TTTTTATTTACTTTATGTCCAT
*
1102935 TTATTTATTTATTTATATGTCCAT
1 TT-TTTATTTACTT-TATGTCCAT
1102959 TTTTTA
1 TTTTTA
1102965 ATGTTTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 2 0.08
22 3 0.12
23 10 0.40
24 10 0.40
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTTATTTACTTTATGTCCAT
Found at i:1103318 original size:107 final size:106
Alignment explanation
Indices: 1103124--1103432 Score: 467
Period size: 107 Copynumber: 3.0 Consensus size: 106
1103114 AAGGAAAGTT
*
1103124 TTTCTAAA-TAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCATAATGTGCTGGGTT
1 TTTC-AAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
*
1103188 TCGATTTTTTCGTTCGACCAAATAGCTAAATATCCTTTTAAG
65 TCGATTTTTTCGTTTGACCAAATAGCTAAATATCCTTTTAAG
1103230 ATTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
1 -TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
*
1103295 TCGATTTTTTCGTTTGACCAAATAGCCAAATATCCTTTTAAG
65 TCGATTTTTTCGTTTGACCAAATAGCTAAATATCCTTTTAAG
*
1103337 --T--AAG--A--CAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
1103394 CGA-TTTCTCGTTTGACTAAATAGCTAAATATCCTCTTAA
66 CGATTTTTTCGTTTGACCAAATAGCTAAATATCCTTTTAA
1103433 ATCTCAATCC
Statistics
Matches: 193, Mismatches: 8, Indels: 12
0.91 0.04 0.06
Matches are distributed among these distances:
97 32 0.17
98 54 0.28
100 1 0.01
102 3 0.02
104 1 0.01
106 3 0.02
107 99 0.51
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (106 bp):
TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTTCGTTTGACCAAATAGCTAAATATCCTTTTAAG
Found at i:1103364 original size:98 final size:97
Alignment explanation
Indices: 1103236--1103432 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 97
1103226 TAAGATTTCA
*
1103236 AAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
1 AAGTAAGACAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-T
* *
1103301 TTTTCGTTTGACCAAATAGCCAAATATCCTTTT
65 TTCTCGTTTGACCAAATAGCCAAATATCCTCTT
*
1103334 AAGTAAGACAATATTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATT
1 AAGTAAGACAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
* *
1103399 TCTCGTTTGACTAAATAGCTAAATATCCTCTT
66 TCTCGTTTGACCAAATAGCCAAATATCCTCTT
1103431 AA
1 AA
1103433 ATCTCAATCC
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
97 32 0.34
98 61 0.66
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (97 bp):
AAGTAAGACAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
TCTCGTTTGACCAAATAGCCAAATATCCTCTT
Found at i:1112427 original size:26 final size:25
Alignment explanation
Indices: 1112397--1112452 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
1112387 TTTACTTGAT
*
1112397 TTTATTTTTTCAAAACTAAACTAAA
1 TTTATTTTTACAAAACTAAACTAAA
*
1112422 TATTATTTTTACAAAATTAAACTAAA
1 T-TTATTTTTACAAAACTAAACTAAA
1112448 TTTAT
1 TTTAT
1112453 ATTATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.46
Consensus pattern (25 bp):
TTTATTTTTACAAAACTAAACTAAA
Found at i:1112990 original size:19 final size:18
Alignment explanation
Indices: 1112956--1113003 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
1112946 TTAAATTAAA
*
1112956 AAAATTATAATGAAATATAT
1 AAAATTAT-TTGAAATAT-T
1112976 AAAATTATTTGAAATATT
1 AAAATTATTTGAAATATT
1112994 AAAATATATT
1 AAAAT-TATT
1113004 AAAAATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 6 0.23
19 12 0.46
20 8 0.31
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (18 bp):
AAAATTATTTGAAATATT
Found at i:1113009 original size:19 final size:19
Alignment explanation
Indices: 1112968--1113009 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1112958 AATTATAATG
**
1112968 AAATATATAAAATTATTTG
1 AAATATATAAAATTATTAA
1112987 AAATAT-TAAAATATATTAA
1 AAATATATAAAAT-TATTAA
1113006 AAAT
1 AAAT
1113010 TTTATTACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAATATATAAAATTATTAA
Found at i:1120055 original size:21 final size:21
Alignment explanation
Indices: 1120017--1120078 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
1120007 GAGTACTTGA
*
1120017 AAAACAAAA-ATAATATAAAAT
1 AAAACAAAATA-AAAATAAAAT
*
1120038 AAAACAAAATAAAAATAAATT
1 AAAACAAAATAAAAATAAAAT
* **
1120059 CAAATGAAATAAAAATAAAA
1 AAAACAAAATAAAAATAAAA
1120079 ATACCCTATC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAACAAAATAAAAATAAAAT
Found at i:1125291 original size:23 final size:25
Alignment explanation
Indices: 1125254--1125299 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
1125244 GTATTTTATA
1125254 ATTTTTTCCCAATTTTT-ATAAATT
1 ATTTTTTCCCAATTTTTAATAAATT
*
1125278 ATTTTTTCTC-ATTTTTAATAAA
1 ATTTTTTCCCAATTTTTAATAAA
1125300 ATTTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTTCCCAATTTTTAATAAATT
Found at i:1125352 original size:29 final size:30
Alignment explanation
Indices: 1125288--1125355 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
1125278 ATTTTTTCTC
*
1125288 ATTTTTAATAAAATTTAAATATTTTTATATT
1 ATTTTT-ATTAAATTTAAATATTTTTATATT
* *
1125319 -CTTTTATTAAATTTTAATATTTTTAT-TT
1 ATTTTTATTAAATTTAAATATTTTTATATT
1125347 ATTTTTATT
1 ATTTTTATT
1125356 TTTATTTCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 26 0.81
30 4 0.12
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (30 bp):
ATTTTTATTAAATTTAAATATTTTTATATT
Found at i:1129372 original size:3 final size:3
Alignment explanation
Indices: 1129364--1129389 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1129354 CTTCCAACAT
1129364 CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CC
1129390 CCCAAACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:1134187 original size:14 final size:14
Alignment explanation
Indices: 1134170--1134215 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
1134160 TAAAAAAATG
1134170 TTATTAAATTATTA
1 TTATTAAATTATTA
*
1134184 TTATTAAATTAGTA
1 TTATTAAATTATTA
1134198 TTATTAAATTATTA
1 TTATTAAATTATTA
1134212 TTAT
1 TTAT
1134216 ATTTTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTATTAAATTATTA
Found at i:1134353 original size:3 final size:3
Alignment explanation
Indices: 1134337--1134387 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
1134327 AAGTAAATAA
*
1134337 TAT TAT AAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1134383 TAT TA
1 TAT TA
1134388 ACTTTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 43 0.96
4 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1139086 original size:15 final size:15
Alignment explanation
Indices: 1139066--1139095 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1139056 ATTCGTAAGT
1139066 AAAAAAAATCGGGGC
1 AAAAAAAATCGGGGC
*
1139081 AAAAAAAATTGGGGC
1 AAAAAAAATCGGGGC
1139096 CCTTTTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.10, G:0.27, T:0.10
Consensus pattern (15 bp):
AAAAAAAATCGGGGC
Found at i:1139347 original size:18 final size:19
Alignment explanation
Indices: 1139309--1139348 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1139299 TTTTGGGCTA
1139309 GGGTTTGTAATGGGTTATT
1 GGGTTTGTAATGGGTTATT
1139328 GGGTTTG-AATTGGG-TATT
1 GGGTTTGTAA-TGGGTTATT
1139346 GGG
1 GGG
1139349 CTAATGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.15, C:0.00, G:0.42, T:0.42
Consensus pattern (19 bp):
GGGTTTGTAATGGGTTATT
Found at i:1140159 original size:22 final size:23
Alignment explanation
Indices: 1140132--1140176 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1140122 AGGTATCTAC
1140132 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
1140154 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
1140177 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:1140181 original size:22 final size:22
Alignment explanation
Indices: 1140129--1140186 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
1140119 AAAAGGTATC
*
1140129 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
1140150 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
1140173 TACATATCATATCT
1 TACAAATCATATCT
1140187 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:1140189 original size:19 final size:20
Alignment explanation
Indices: 1140142--1140199 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
1140132 AAATCAAATC
*
1140142 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
1140165 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
1140184 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
1140200 CTCGAAGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:1146106 original size:1 final size:1
Alignment explanation
Indices: 1146100--1146162 Score: 108
Period size: 1 Copynumber: 63.0 Consensus size: 1
1146090 TCCATAAAGG
* *
1146100 AAAAAAAAAAAAAAAAAAAAAAAAAAAACACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1146163 GAACTACTAC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1146640 original size:23 final size:24
Alignment explanation
Indices: 1146594--1146640 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1146584 AAGTTTAGGT
*
1146594 TTCAAAATGAGAACATAGGTATAA
1 TTCAAAATGAGAACATAGGAATAA
1146618 TTCAAAA-GAGAA-ATCAGGAATAA
1 TTCAAAATGAGAACAT-AGGAATAA
1146641 GGGTAATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 12 0.57
24 7 0.33
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (24 bp):
TTCAAAATGAGAACATAGGAATAA
Found at i:1153024 original size:3 final size:3
Alignment explanation
Indices: 1153018--1153042 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1153008 TGAAGAAGTA
1153018 GTG GTG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG G
1153043 CGGCCGATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:1153196 original size:20 final size:21
Alignment explanation
Indices: 1153171--1153216 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
1153161 CATGGGTGTA
1153171 TGGGCTTTT-TAACCTAATAT
1 TGGGCTTTTATAACCTAATAT
*
1153191 TGGGCTTTTAATACCCTAATAT
1 TGGGCTTTT-ATAACCTAATAT
1153213 TGGG
1 TGGG
1153217 AATCGTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.39
22 14 0.61
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (21 bp):
TGGGCTTTTATAACCTAATAT
Found at i:1153775 original size:197 final size:192
Alignment explanation
Indices: 1153405--1153777 Score: 541
Period size: 197 Copynumber: 1.9 Consensus size: 192
1153395 AAATCTGAGC
* *
1153405 AAAATCCTCCCATGTTGCTTCTTTTGGTCTCAAATTTGCCCACTGGATCAATAGTTGCATGATGG
1 AAAATCCCCCCATGTTGCTTCTTTTGGTCCCAAATTTGCCCACTGGATCAATAGTTGCATGATGG
* * *
1153470 TTCAATTGTGACATTTCACGAGTATCGGGTACCAAGGCAAGGTAAATTTTGGGTTGTCCGTCAGT
66 CTCAACTGTGACATTTCACGAGTATCGGGTACCAAGGCAAGGTAAATCTTGGGTTGTCCGTCAGT
* *
1153535 TTTCATTTCCAGTAAGTCTCTGCAAGTTACTCCCTTCTCTCCAATTGAGCCTATAGAACCGA
131 TCTCATTTCCAGTAAGTCTCTGCAAGTTACTCCCTTATCTCCAATTGAGCCTATAGAACCGA
* *
1153597 AAAATCCCCCCATGTTGCTTCTTTTGGTCCCAAATTTGCCCACTGGATCAGTAGCTT-CGTGATG
1 AAAATCCCCCCATGTTGCTTCTTTTGGTCCCAAATTTGCCCACTGGATCAATAG-TTGCATGATG
* *
1153661 GCTCAACTGTGACATTTCACGATTTGAGTATCTGGTAGCAAGGCAAGGTAAATCTTGGGTTGTCC
65 GCTCAACTGTGACATTTCAC-----GAGTATCGGGTACCAAGGCAAGGTAAATCTTGGGTTGTCC
* * * * *
1153726 GTCGGTTCTCCTTTGCAGTAAGTCTGTGCTAGTTACTCCCTTATCTCCAATT
125 GTCAGTTCTCATTTCCAGTAAGTCTCTGCAAGTTACTCCCTTATCTCCAATT
1153778 TTCTCTTTCC
Statistics
Matches: 159, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
192 75 0.47
193 2 0.01
197 82 0.52
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (192 bp):
AAAATCCCCCCATGTTGCTTCTTTTGGTCCCAAATTTGCCCACTGGATCAATAGTTGCATGATGG
CTCAACTGTGACATTTCACGAGTATCGGGTACCAAGGCAAGGTAAATCTTGGGTTGTCCGTCAGT
TCTCATTTCCAGTAAGTCTCTGCAAGTTACTCCCTTATCTCCAATTGAGCCTATAGAACCGA
Found at i:1154609 original size:24 final size:24
Alignment explanation
Indices: 1154568--1154654 Score: 75
Period size: 24 Copynumber: 3.9 Consensus size: 24
1154558 TAAAAGTCTC
1154568 TTATATATTTTAAAATTTTATATA
1 TTATATATTTTAAAATTTTATATA
*
1154592 TTAT-TATTTTCAACATTTT-T-TA
1 TTATATATTTT-AAAATTTTATATA
1154614 -TATAT-TTTT-AAA-TTTAT-TA
1 TTATATATTTTAAAATTTTATATA
1154633 TTATAT-TTTTGAAAATATTTAT
1 TTATATATTTT-AAAAT-TTTAT
1154655 GTGGTTTTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
18 3 0.06
19 5 0.09
20 9 0.17
21 7 0.13
22 6 0.11
23 7 0.13
24 16 0.30
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (24 bp):
TTATATATTTTAAAATTTTATATA
Found at i:1154642 original size:20 final size:20
Alignment explanation
Indices: 1154571--1154642 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1154561 AAGTCTCTTA
*
1154571 TATATTTTAAAATTTTATATAT
1 TATATTTTTAAA-TTTAT-TAT
* *
1154593 TATTATTTTCAACATTTTTTA-
1 TA-TATTTTTAA-ATTTATTAT
1154614 TATATTTTTAAATTTATTAT
1 TATATTTTTAAATTTATTAT
1154634 TATATTTTT
1 TATATTTTT
1154643 GAAAATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 7 0.16
20 17 0.40
21 2 0.05
22 4 0.09
23 12 0.28
24 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TATATTTTTAAATTTATTAT
Found at i:1154651 original size:20 final size:20
Alignment explanation
Indices: 1154614--1154651 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1154604 ACATTTTTTA
*
1154614 TATATTTTTAAATTTATTAT
1 TATATTTTTAAATATATTAT
1154634 TATATTTTTGAAA-ATATT
1 TATATTTTT-AAATATATT
1154652 TATGTGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TATATTTTTAAATATATTAT
Found at i:1161564 original size:31 final size:31
Alignment explanation
Indices: 1161529--1161594 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
1161519 AATCATTTAT
*
1161529 TACAATAAATCTACACACTGAAAAGATAAAA
1 TACAATAAATCTACAAACTGAAAAGATAAAA
1161560 TACAATAAATCTACAAACTGAAAAGATAAAA
1 TACAATAAATCTACAAACTGAAAAGATAAAA
1161591 TACA
1 TACA
1161595 TGTGTAGTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.59, C:0.15, G:0.06, T:0.20
Consensus pattern (31 bp):
TACAATAAATCTACAAACTGAAAAGATAAAA
Found at i:1163821 original size:18 final size:18
Alignment explanation
Indices: 1163798--1163834 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1163788 TGCATCTAAT
*
1163798 AAACACTTTGGCGACAAA
1 AAACACTTTGGAGACAAA
1163816 AAACACTTTGGAGACAAA
1 AAACACTTTGGAGACAAA
1163834 A
1 A
1163835 GCATTCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.19, G:0.16, T:0.16
Consensus pattern (18 bp):
AAACACTTTGGAGACAAA
Found at i:1166321 original size:9 final size:10
Alignment explanation
Indices: 1166300--1166352 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
1166290 AATCAAAGTT
1166300 ATAAATATTA
1 ATAAATATTA
1166310 ATAAAT-TTA
1 ATAAATATTA
1166319 ATAAA-A-TA
1 ATAAATATTA
*
1166327 TTAAATATTA
1 ATAAATATTA
*
1166337 AAAAATTATTA
1 ATAAA-TATTA
1166348 A-AAAT
1 ATAAAT
1166353 GAGAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
8 6 0.17
9 10 0.28
10 14 0.39
11 6 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAAATATTA
Found at i:1166346 original size:18 final size:18
Alignment explanation
Indices: 1166300--1166349 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
1166290 AATCAAAGTT
*
1166300 ATAAATATTAATAAATTTA
1 ATAAA-ATTATTAAATTTA
1166319 ATAAAA-TATTAAATATTA
1 ATAAAATTATTAAAT-TTA
1166337 A-AAAATTATTAAA
1 ATAAAATTATTAAA
1166350 AATGAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 11 0.39
18 12 0.43
19 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAAATTATTAAATTTA
Found at i:1169278 original size:2 final size:2
Alignment explanation
Indices: 1169271--1169296 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1169261 TTCAATACTA
1169271 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
1169297 TAATTCAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1170199 original size:59 final size:59
Alignment explanation
Indices: 1170107--1170224 Score: 191
Period size: 59 Copynumber: 2.0 Consensus size: 59
1170097 TAATTACTAA
*
1170107 TATATATATTTTATTTTACCACATGTCATCATATACACCATACATTTGTCAACAATTTT
1 TATATATATTTCATTTTACCACATGTCATCATATACACCATACATTTGTCAACAATTTT
* * * *
1170166 TATATGTATTTCATTTTTCCACATTTCATCATATGCACCATACATTTGTCAACAATTTT
1 TATATATATTTCATTTTACCACATGTCATCATATACACCATACATTTGTCAACAATTTT
1170225 GTTTATTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.45
Consensus pattern (59 bp):
TATATATATTTCATTTTACCACATGTCATCATATACACCATACATTTGTCAACAATTTT
Found at i:1170253 original size:5 final size:5
Alignment explanation
Indices: 1170235--1170291 Score: 59
Period size: 5 Copynumber: 11.8 Consensus size: 5
1170225 GTTTATTTAA
*
1170235 AATAT AAT-T AATAT AATAT AAT-T AATAT AATTTAC AATAT AATAT AATA-
1 AATAT AATAT AATAT AATAT AATAT AATAT AA--TAT AATAT AATAT AATAT
1170284 AA-AT AATA
1 AATAT AATA
1170292 ACATACTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
3 1 0.02
4 12 0.27
5 27 0.61
7 4 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:1170254 original size:14 final size:13
Alignment explanation
Indices: 1170235--1170291 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 13
1170225 GTTTATTTAA
1170235 AATATAATTAATAT
1 AATATAA-TAATAT
1170249 AATATAATTAATAT
1 AATATAA-TAATAT
* *
1170263 AAT-TTACAATAT
1 AATATAATAATAT
*
1170275 AATATAATAAAAT
1 AATATAATAATAT
1170288 AATA
1 AATA
1170292 ACATACTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
12 8 0.22
13 12 0.32
14 17 0.46
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:1177613 original size:153 final size:151
Alignment explanation
Indices: 1177345--1177686 Score: 465
Period size: 152 Copynumber: 2.2 Consensus size: 151
1177335 GATTTTTTAT
*
1177345 TTTATTTTAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAA
1 TTTA-TTTAAAAAAACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAA
* * *
1177410 TAAAATTAGAAAATAGTATATTTGTTTAAAGTAATAAAATTCGGGGAAAAAATACGAACAAAAGG
65 TAAAATTAGAAAATAATATATTTGTTTAAAGTAATAAAATTC-AGAAAAAAATACGAACAAAAGG
* * *
1177475 CCGAAATAAGGTTTTTTTTTAAAA
129 CCAAAATAAGG-GTTTTCTTAAAA
* * * *
1177499 TTTATTTAAAAAAATAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
1 TTTATTTAAAAAAACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAAT
* *
1177564 -AAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAA-TCAGAAAAAAATACGAACAAATG
66 AAAATTA-GAAAATAATATATTTGT-TT-AAAGTAATAAAATTCAGAAAAAAATACGAACAAAAG
* *
1177626 GCCAAAATTAGGGTTTTCTTCAAA
128 GCCAAAATAAGGGTTTTCTTAAAA
1177650 TTTATTTAAAAAACACACTAAATGAATACATTTCAAA
1 TTTATTTAAAAAA-ACACTAAATGAATACATTTCAAA
1177687 TNNNNNNNNN
Statistics
Matches: 166, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
151 24 0.14
152 66 0.40
153 60 0.36
154 16 0.10
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.31
Consensus pattern (151 bp):
TTTATTTAAAAAAACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAAT
AAAATTAGAAAATAATATATTTGTTTAAAGTAATAAAATTCAGAAAAAAATACGAACAAAAGGCC
AAAATAAGGGTTTTCTTAAAA
Done.