Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003744.1 Hibiscus syriacus cultivar Beakdansim tig00008013_pilon, whole genome shotgun sequence
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: 2457414
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:950 original size:21 final size:21
Alignment explanation
Indices: 912--951 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
902 TAGTTATAAA
*
912 AATTAATATTTTTATAATATT
1 AATTAATATTTATATAATATT
933 AATTAATTATTTAT-TAATA
1 AATTAA-TATTTATATAATA
952 AACTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTAATATTTATATAATATT
Found at i:958 original size:26 final size:26
Alignment explanation
Indices: 929--979 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
919 ATTTTTATAA
*
929 TATTA-ATTAATTATTTATTAATAAAC
1 TATTATATTAAATATTTA-TAATAAAC
*
955 TATTATTTTAAATATTTATAATAAA
1 TATTATATTAAATATTTATAATAAA
980 AAATTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
TATTATATTAAATATTTATAATAAAC
Found at i:13396 original size:16 final size:18
Alignment explanation
Indices: 13370--13403 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
13360 AAAATTTTTG
13370 TTTTAATTAAAAT-TAAA
1 TTTTAATTAAAATATAAA
13387 TTTT-ATTAAAATATAAA
1 TTTTAATTAAAATATAAA
13404 ATATTTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTAATTAAAATATAAA
Found at i:23413 original size:2 final size:2
Alignment explanation
Indices: 23406--23453 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
23396 ATGCTCACCC
23406 TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23447 TA TA TA T
1 TA TA TA T
23454 CTAAAATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24132 original size:24 final size:24
Alignment explanation
Indices: 24100--24162 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
24090 GAGAGGAAAC
24100 ATTTCAATTAAATATAAATTAAAG
1 ATTTCAATTAAATATAAATTAAAG
24124 ATTTCAATTAAATATAAATTAAAG
1 ATTTCAATTAAATATAAATTAAAG
*
24148 ATTCCAATTAAATAT
1 ATTTCAATTAAATAT
24163 CTTGACACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.38
Consensus pattern (24 bp):
ATTTCAATTAAATATAAATTAAAG
Found at i:25118 original size:20 final size:22
Alignment explanation
Indices: 25093--25143 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 22
25083 TTTTAGGGTA
25093 AATTATA-T-TAGTAATCACTT
1 AATTATACTATAGTAATCACTT
25113 AATTATAGTCTATAGTAATCACTT
1 AATTATA--CTATAGTAATCACTT
25137 AATTATA
1 AATTATA
25144 GTCTATTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.26
23 1 0.04
24 19 0.70
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (22 bp):
AATTATACTATAGTAATCACTT
Found at i:25131 original size:24 final size:24
Alignment explanation
Indices: 25101--25149 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
25091 TAAATTATAT
25101 TAGTAATCACTTAATTATAGTCTA
1 TAGTAATCACTTAATTATAGTCTA
25125 TAGTAATCACTTAATTATAGTCTA
1 TAGTAATCACTTAATTATAGTCTA
25149 T
1 T
25150 TTTCATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (24 bp):
TAGTAATCACTTAATTATAGTCTA
Found at i:32823 original size:9 final size:9
Alignment explanation
Indices: 32793--32844 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
32783 TATATACAAA
*
32793 AAATTAATT
1 AAATTAAAT
32802 AAA-TAAA-
1 AAATTAAAT
*
32809 ATATTAAAT
1 AAATTAAAT
32818 AAATTAAAT
1 AAATTAAAT
*
32827 -ACTTAAAT
1 AAATTAAAT
32835 AAATTAAAT
1 AAATTAAAT
32844 A
1 A
32845 TAAAATAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 2 0.06
8 14 0.40
9 19 0.54
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTAAAT
Found at i:32832 original size:17 final size:16
Alignment explanation
Indices: 32795--32852 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
32785 TATACAAAAA
* *
32795 ATTAATTAAATAAAAT
1 ATTAAATAAATTAAAT
32811 ATTAAATAAATTAAAT
1 ATTAAATAAATTAAAT
32827 ACTTAAATAAATTAAAT
1 A-TTAAATAAATTAAAT
*
32844 ATAAAATAA
1 ATTAAATAA
32853 TAAAAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
16 22 0.58
17 16 0.42
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTAAATAAATTAAAT
Found at i:36573 original size:21 final size:21
Alignment explanation
Indices: 36539--36596 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
36529 AATTAATCAT
* *
36539 ATTTTGTTAGTATTTTATTTA
1 ATTTTTTTATTATTTTATTTA
36560 ATTTTTTTATTATTTTATTTA
1 ATTTTTTTATTATTTTATTTA
* *
36581 ATTATTTTATTTTTTT
1 ATTTTTTTATTATTTT
36597 GCAGTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.74
Consensus pattern (21 bp):
ATTTTTTTATTATTTTATTTA
Found at i:36584 original size:13 final size:12
Alignment explanation
Indices: 36549--36592 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 12
36539 ATTTTGTTAG
36549 TATTTTATTTA-
1 TATTTTATTTAT
36560 -ATTTT-TTTAT
1 TATTTTATTTAT
36570 TATTTTATTTAAT
1 TATTTTATTT-AT
36583 TATTTTATTT
1 TATTTTATTT
36593 TTTTGCAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.14
10 5 0.17
11 5 0.17
12 3 0.10
13 12 0.41
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TATTTTATTTAT
Found at i:37081 original size:21 final size:21
Alignment explanation
Indices: 37032--37082 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
37022 TATTACTATT
*
37032 GCAATACGATTTTCCAATTTC
1 GCAATGCGATTTTCCAATTTC
**
37053 GCGTTGCGATTTTCCCAA-TTC
1 GCAATGCGATTTT-CCAATTTC
37074 GCAATGCGA
1 GCAATGCGA
37083 ATAAGTAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (21 bp):
GCAATGCGATTTTCCAATTTC
Found at i:37097 original size:20 final size:21
Alignment explanation
Indices: 37072--37123 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
37062 TTTTCCCAAT
*
37072 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATAAGAAAAA
**
37092 TCGCAATGCGAATTTGAAAAA
1 TCGCAATGCGAATAAGAAAAA
37113 TCGCAATGCGA
1 TCGCAATGCGA
37124 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATAAGAAAAA
Found at i:37137 original size:20 final size:20
Alignment explanation
Indices: 37112--37226 Score: 133
Period size: 20 Copynumber: 5.7 Consensus size: 20
37102 AATTTGAAAA
*
37112 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
37132 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
37153 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
37173 TTCGCAACGCGATACTTACT
1 ATCGCAACGCGATACTGACT
*
37193 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
37213 TTCGCAACGAGATA
1 ATCGCAACGCGATA
37227 TCTGTCTGAT
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.77
21 15 0.18
22 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:37209 original size:40 final size:40
Alignment explanation
Indices: 37110--37226 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 40
37100 CGAATTTGAA
* *
37110 AAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
*
37150 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATACTTAC
1 -AAATCGCAACGCGATACTGACTTTCGCAACGCGATA-ATAC
** *
37192 -TTTCGCAACGCGATACTGACTTTCGCAACGAGATA
1 AAATCGCAACGCGATACTGACTTTCGCAACGCGATA
37227 TCTGTCTGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 32 0.46
41 34 0.49
42 3 0.04
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (40 bp):
AAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:37530 original size:21 final size:20
Alignment explanation
Indices: 37504--37572 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
37494 CTGTCATCCC
37504 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
37525 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
* *
37546 TCAAGAGTCCCCCCCACCGT
1 TCAAGAGTCCCCTCCATCGT
37566 TCAAGAG
1 TCAAGAG
37573 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
20 10 0.27
21 26 0.70
22 1 0.03
ACGTcount: A:0.25, C:0.41, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:37584 original size:41 final size:42
Alignment explanation
Indices: 37494--37584 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 42
37484 CCCGACTCAC
* *
37494 CTGTCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
* *
37536 CTATCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
37577 CTGTCATC
1 CTGTCATC
37585 GTTGAAGAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 23 0.52
42 21 0.48
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.21
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:39027 original size:14 final size:14
Alignment explanation
Indices: 38993--39031 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
38983 TTGATTGTTT
38993 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
39007 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
39021 TGTTGATTTGT
1 AATTGATTTGT
39032 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:39199 original size:19 final size:19
Alignment explanation
Indices: 39171--39235 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
39161 GCAACGAAAG
39171 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
39190 AATTGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
39209 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
39223 AATCGCAATGCGA
1 AATCGCAATGCGA
39236 TTTTGTTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 11 0.27
15 1 0.02
16 2 0.05
17 2 0.05
19 25 0.61
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:48865 original size:20 final size:20
Alignment explanation
Indices: 48840--48915 Score: 134
Period size: 20 Copynumber: 3.8 Consensus size: 20
48830 TCGCATTGCG
*
48840 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
48860 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
48880 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGCC
48900 ATTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
48916 TTCCCCGTTG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:48932 original size:34 final size:34
Alignment explanation
Indices: 48828--48934 Score: 115
Period size: 40 Copynumber: 3.0 Consensus size: 34
48818 CAGATTTTCA
* * *
48828 TTTCGCATTGCGATTTTCTCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCCCGTTGCGATAGTCAT
*
48862 TTTCGCGTTGCGATAGCCATTTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGC----G--ATTTTCCCGTTGCGATAGTCAT
*
48902 TTTCGCGTTGCGATTTCCCCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTTTCCCGTTGCGATAGTCA
48935 AATGAATGTC
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
34 29 0.47
36 1 0.02
38 1 0.02
40 31 0.50
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.38
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTTCCCGTTGCGATAGTCAT
Found at i:49467 original size:20 final size:20
Alignment explanation
Indices: 49442--49529 Score: 149
Period size: 20 Copynumber: 4.4 Consensus size: 20
49432 TGTATTATCT
*
49442 CGTTGCGATAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
49462 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
*
49482 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
*
49502 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
49522 CGTTGCGA
1 CGTTGCGA
49530 TTTTGTATTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:49572 original size:41 final size:41
Alignment explanation
Indices: 49497--49574 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
49487 CGAAAGTCAG
* * *
49497 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTCAATATCGCATTACGATTTTGTAT
* * *
49538 TATCGCGTTGCGATAGTTAATATCGTATTACGATTTT
1 TATCGCGTTGCGAAAGTCAATATCGCATTACGATTTT
49575 CCAAATTCGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.40
Consensus pattern (41 bp):
TATCGCGTTGCGAAAGTCAATATCGCATTACGATTTTGTAT
Found at i:49653 original size:21 final size:21
Alignment explanation
Indices: 49605--49674 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
49595 ACTTATTCGC
*
49605 ATTGCG-AATTGGGAAAATCGC
1 ATTGCGAAATT-GGAAAATCGT
**
49626 AACGCGAAATTGGAAAATCGT
1 ATTGCGAAATTGGAAAATCGT
49647 ATTGCGAAATTGGAAAATCGT
1 ATTGCGAAATTGGAAAATCGT
49668 ATTGCGA
1 ATTGCGA
49675 TAGCCATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 39 0.91
22 4 0.09
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (21 bp):
ATTGCGAAATTGGAAAATCGT
Found at i:49858 original size:13 final size:13
Alignment explanation
Indices: 49840--49884 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 13
49830 TTATTTTCTC
49840 AATAATTAAATAA
1 AATAATTAAATAA
49853 AATAATTAAATAATAA
1 AATAATT--A-AATAA
49869 AATAATTAAA-AA
1 AATAATTAAATAA
49881 AATA
1 AATA
49885 CTAACAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.21
13 9 0.31
14 1 0.03
15 1 0.03
16 12 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATTAAATAA
Found at i:49869 original size:16 final size:16
Alignment explanation
Indices: 49848--49878 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49838 TCAATAATTA
49848 AATAAAATAATTAAAT
1 AATAAAATAATTAAAT
49864 AATAAAATAATTAAA
1 AATAAAATAATTAAA
49879 AAAATACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAAATAATTAAAT
Found at i:50857 original size:33 final size:33
Alignment explanation
Indices: 50820--50907 Score: 113
Period size: 33 Copynumber: 2.7 Consensus size: 33
50810 AAGAATATTT
* *
50820 TCTTGCCTTCTCTTCTCCTCGTCGGCGGCACTA
1 TCTTGCCTTCTCTTCTCCTCGCCGGCGGCACCA
* * *
50853 TCTTGTCTTCTCTTCTCCTCACCGGCGGTACCA
1 TCTTGCCTTCTCTTCTCCTCGCCGGCGGCACCA
* *
50886 TCTTGCCTTCTTTTCTTCTCGC
1 TCTTGCCTTCTCTTCTCCTCGC
50908 TTCCTTCTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.06, C:0.39, G:0.15, T:0.41
Consensus pattern (33 bp):
TCTTGCCTTCTCTTCTCCTCGCCGGCGGCACCA
Found at i:53172 original size:15 final size:14
Alignment explanation
Indices: 53154--53184 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
53144 TTAATTTCAA
53154 AATTTTATAAAATAC
1 AATTTTATAAAA-AC
53169 AATTTTATAAAAAC
1 AATTTTATAAAAAC
53183 AA
1 AA
53185 CTTAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (14 bp):
AATTTTATAAAAAC
Found at i:61185 original size:18 final size:15
Alignment explanation
Indices: 61153--61183 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
61143 ATCCGCCATT
61153 ATCCCAGTAGTAACA
1 ATCCCAGTAGTAACA
61168 ATCCCAGTAGTAACA
1 ATCCCAGTAGTAACA
61183 A
1 A
61184 CAGACAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.26, G:0.13, T:0.19
Consensus pattern (15 bp):
ATCCCAGTAGTAACA
Found at i:62282 original size:2 final size:2
Alignment explanation
Indices: 62275--62306 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
62265 ATCATAATCC
62275 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62307 GCATTCAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:64800 original size:25 final size:25
Alignment explanation
Indices: 64756--64805 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
64746 CGTCATGTTT
***
64756 GCATTAATTTTTTTTTAAAAAGTAA
1 GCATTAATTTTTTAAAAAAAAGTAA
64781 GCATTAATTTTTTAAAAAAAAGTAA
1 GCATTAATTTTTTAAAAAAAAGTAA
64806 AAGTTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (25 bp):
GCATTAATTTTTTAAAAAAAAGTAA
Found at i:68152 original size:34 final size:35
Alignment explanation
Indices: 68109--68210 Score: 161
Period size: 34 Copynumber: 2.9 Consensus size: 35
68099 TTTCGTCCTA
*
68109 TTAGGATTCAAACTCCTAAAAATATGATAGAA-TT
1 TTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
*
68143 TTAGGATTCAAACTCCTAAAAATAGGATAAAATTT
1 TTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
68178 TGCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 T--TAGGATTCAAACTCCTAAAAATAGGATAGA
68211 GTTATACTAT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 29 0.47
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (35 bp):
TTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:68234 original size:37 final size:37
Alignment explanation
Indices: 68110--68244 Score: 150
Period size: 37 Copynumber: 3.7 Consensus size: 37
68100 TTCGTCCTAT
* *
68110 TAGGATTCAAACTCCTAAAAATATGATAGAATT-T--
1 TAGGATTCAAACTCCTAAAAATAGGATAAAATTATAC
* *
68144 TAGGATTCAAACTCCTAAAAATAGGATAAAATTTTGC
1 TAGGATTCAAACTCCTAAAAATAGGATAAAATTATAC
* *
68181 TAGGATTCAAACTCCTAAAAATAGGATAGAGTTATAC
1 TAGGATTCAAACTCCTAAAAATAGGATAAAATTATAC
** * * *
68218 TATTATTTAAATTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
68245 CCACAAGCAC
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
34 31 0.36
35 1 0.01
37 55 0.63
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (37 bp):
TAGGATTCAAACTCCTAAAAATAGGATAAAATTATAC
Found at i:68906 original size:23 final size:23
Alignment explanation
Indices: 68854--68906 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
68844 TTATGTGTAT
*
68854 TTTATTTATTTATATATATTACC
1 TTTATTTATTTATATATATTAAC
68877 TTT-TTTATTT-TATAT-TTATAC
1 TTTATTTATTTATATATATTA-AC
68898 TATTATTTA
1 T-TTATTTA
68907 CTATCATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.12
21 7 0.27
22 9 0.35
23 7 0.27
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTATTTATTTATATATATTAAC
Found at i:68918 original size:76 final size:74
Alignment explanation
Indices: 68784--68940 Score: 171
Period size: 74 Copynumber: 2.1 Consensus size: 74
68774 TTCTAACATC
* *
68784 TATTTATGTATATTACCTTTTATCATTATTATATATATTATATTTATTGCTTCATTTTCTTTATG
1 TATTTATATATATTACCTTTTATCATTATTATATATATTATATTTATTACTTCATTTTC--TATG
68849 -TGTATTTTATT
64 CTGTA-TTTATT
* *
68860 TATTTATATATATTACCTTTT-TTATT-TTATATTTA-TACTA-TTATTTACTATCATTTTTCTA
1 TATTTATATATATTACCTTTTATCATTATTATATATATTA-TATTTA-TTACT-TCA-TTTTCTA
*
68921 TGCTTTATTTATT
62 TGCTGTATTTATT
68934 TATTTAT
1 TATTTAT
68941 TTATTATTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
73 5 0.07
74 31 0.44
75 10 0.14
76 25 0.35
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.63
Consensus pattern (74 bp):
TATTTATATATATTACCTTTTATCATTATTATATATATTATATTTATTACTTCATTTTCTATGCT
GTATTTATT
Found at i:68933 original size:4 final size:4
Alignment explanation
Indices: 68924--69004 Score: 53
Period size: 4 Copynumber: 19.2 Consensus size: 4
68914 TTTTCTATGC
*
68924 TTTA TTTA TTTA TTTA TTTA -TTA TTTTA TTTTA TTT- CTT- TTTA TTT-
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA
68970 TGGTTGAA TTTA TTTA TTTA TTTTA TTTTA TTTA T
1 T--TT--A TTTA TTTA TTTA -TTTA -TTTA TTTA T
69005 ATCTAACATG
Statistics
Matches: 66, Mismatches: 2, Indels: 18
0.77 0.02 0.21
Matches are distributed among these distances:
3 8 0.12
4 36 0.55
5 19 0.29
6 2 0.03
8 1 0.02
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:68954 original size:5 final size:5
Alignment explanation
Indices: 68924--69002 Score: 53
Period size: 5 Copynumber: 16.4 Consensus size: 5
68914 TTTTCTATGC
68924 TTTA- TTTA- TTTA- TTTATT TATTAT TTTAT TTTAT TTCT-T TTTAT
1 TTTAT TTTAT TTTAT TTTA-T T-TTAT TTTAT TTTAT TT-TAT TTTAT
** * *
68968 TTTGG TTGAA TTTA- TTTA- TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
69003 ATATCTAACA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
4 21 0.33
5 35 0.56
6 4 0.06
7 3 0.05
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:71392 original size:8 final size:8
Alignment explanation
Indices: 71353--71392 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
71343 GAACATTTCA
*
71353 TGCATTCT
1 TGCATTTT
*
71361 TGCATTCT
1 TGCATTTT
71369 TGCATTTT
1 TGCATTTT
*
71377 TGCCTTTT
1 TGCATTTT
71385 TGCATTTT
1 TGCATTTT
71393 CATCTACATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.10, C:0.20, G:0.12, T:0.57
Consensus pattern (8 bp):
TGCATTTT
Found at i:72354 original size:119 final size:119
Alignment explanation
Indices: 72143--72381 Score: 478
Period size: 119 Copynumber: 2.0 Consensus size: 119
72133 ATGTTGGGAG
72143 CAATGAGCAAAAAAACAATTCATTCGAAATAATTCTATCACGCATTAACTACACTATTTTCATGT
1 CAATGAGCAAAAAAACAATTCATTCGAAATAATTCTATCACGCATTAACTACACTATTTTCATGT
72208 GAATGAAATTAATCCTGAAAATCTATCCCCCTGGGGATACCTCTTCTGTGAGGA
66 GAATGAAATTAATCCTGAAAATCTATCCCCCTGGGGATACCTCTTCTGTGAGGA
72262 CAATGAGCAAAAAAACAATTCATTCGAAATAATTCTATCACGCATTAACTACACTATTTTCATGT
1 CAATGAGCAAAAAAACAATTCATTCGAAATAATTCTATCACGCATTAACTACACTATTTTCATGT
72327 GAATGAAATTAATCCTGAAAATCTATCCCCCTGGGGATACCTCTTCTGTGAGGA
66 GAATGAAATTAATCCTGAAAATCTATCCCCCTGGGGATACCTCTTCTGTGAGGA
72381 C
1 C
72382 TTCCATGTAT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.29
Consensus pattern (119 bp):
CAATGAGCAAAAAAACAATTCATTCGAAATAATTCTATCACGCATTAACTACACTATTTTCATGT
GAATGAAATTAATCCTGAAAATCTATCCCCCTGGGGATACCTCTTCTGTGAGGA
Found at i:72644 original size:16 final size:16
Alignment explanation
Indices: 72618--72651 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
72608 AGATCCAATC
72618 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGTAA
72633 AAGAAGCAAAAAAGTAA
1 AAGAA-CAAAAAAGTAA
72650 AA
1 AA
72652 AAAACAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 8 0.47
17 4 0.24
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAGAACAAAAAAGTAA
Found at i:72653 original size:8 final size:7
Alignment explanation
Indices: 72624--72692 Score: 59
Period size: 8 Copynumber: 9.1 Consensus size: 7
72614 AATCAAGAAC
72624 AAAAAAG
1 AAAAAAG
72631 AAAAGAAG
1 AAAA-AAG
72639 CAAAAAAG
1 -AAAAAAG
72647 TAAAAAA-
1 -AAAAAAG
*
72654 AACAAAG
1 AAAAAAG
72661 AAAAAGAG
1 AAAAA-AG
*
72669 AAACAAG
1 AAAAAAG
72676 AACAAAAGG
1 AA-AAAA-G
72685 AAAAAAG
1 AAAAAAG
72692 A
1 A
72693 GCAAAAATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
6 5 0.10
7 14 0.27
8 25 0.49
9 7 0.14
ACGTcount: A:0.77, C:0.06, G:0.16, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:73271 original size:84 final size:84
Alignment explanation
Indices: 73161--73320 Score: 248
Period size: 84 Copynumber: 1.9 Consensus size: 84
73151 TAATATCTTA
* *
73161 TTTGGTTTGTTTAGTAGGAATATAAAATTAAAGTGTTTGATTGGAGGAATATAAGATTACTTGAA
1 TTTGATTTGTTTAGTAGGAATATAAAATTAAAGTGTTTGATTGGAGGAACATAAGATTACTTGAA
73226 TGTATATTTTAGTATATTG
66 TGTATATTTTAGTATATTG
* * * * *
73245 TTTGATTTGTTTTGTAGTAATGTAAAATTACAGTGTTTGGTTGGAGGAACATAAGATTACTTGAA
1 TTTGATTTGTTTAGTAGGAATATAAAATTAAAGTGTTTGATTGGAGGAACATAAGATTACTTGAA
*
73310 TGTGTATTTTA
66 TGTATATTTTA
73321 CTAAATTATC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 68 1.00
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.44
Consensus pattern (84 bp):
TTTGATTTGTTTAGTAGGAATATAAAATTAAAGTGTTTGATTGGAGGAACATAAGATTACTTGAA
TGTATATTTTAGTATATTG
Found at i:74817 original size:285 final size:287
Alignment explanation
Indices: 74300--74872 Score: 1006
Period size: 285 Copynumber: 2.0 Consensus size: 287
74290 TTACATTTCA
*
74300 ACATGTTTAGTGTTTATAAACGAAAATTTTATGTATAAAAATTGTTATGAAAAAGATAATATTGT
1 ACATGTTTAGTGTTTACAAACGAAAATTTTATGTATAAAAATTGTTATGAAAAAGATAATATTGT
74365 CAATTTTAATATAAAATATTATATTGTCCAACCTAAAAAAAATTAATAAAATTTCCAACTACAAC
66 CAATTTTAATATAAAATATTATATTGTCCAACCTAAAAAAAATTAATAAAATTTCCAACTACAAC
74430 AGAAATATATCATTTTTTTAATCTTATATTAACAAAACAAATAGTACTGTAGATTCTCAAGATGA
131 AGAAATATATCATTTTTTTAATCTTATATTAACAAAACAAATAGTACTGTAGATTCTCAAGATGA
* *
74495 CATTTTGAAGCAAATAATCTAATAATTAACTACAATAGACCCTCACACACTGCAAAGGATCTAAT
196 CATTTTGAAGCAAATAATCTAATAATTAACCACAATAGACCCTCACACACGGCAAAGGATCTAAT
*
74560 AATTAACCTAAAATAACACTTATAACC
261 AATTAACCTAAAATAACACTTACAACC
* *
74587 ACATGTTTATTGTTTACAAATGAAAATTTTATGTATAAAAATTGTTATG-AAAAGATAATATTGT
1 ACATGTTTAGTGTTTACAAACGAAAATTTTATGTATAAAAATTGTTATGAAAAAGATAATATTGT
* *
74651 TAATTTTAATATAAAATATTATATTGTCCAACCTAAAAAAAA-TAATAAAATTTCCAACTACATC
66 CAATTTTAATATAAAATATTATATTGTCCAACCTAAAAAAAATTAATAAAATTTCCAACTACAAC
* * * *
74715 AGAATTATATCTTTTTTTTAATCTTATATTAACGAAACAAATAGTACTTTAGATTCTCAAGATGA
131 AGAAATATATCATTTTTTTAATCTTATATTAACAAAACAAATAGTACTGTAGATTCTCAAGATGA
* *
74780 CCTTTTGAAGCAAATAATCTAATAATTGACCACAATAGACCCTCACACACGGCAAAGGATCTAAT
196 CATTTTGAAGCAAATAATCTAATAATTAACCACAATAGACCCTCACACACGGCAAAGGATCTAAT
74845 AATTAACCTAAAATAACACTTACAACC
261 AATTAACCTAAAATAACACTTACAACC
74872 A
1 A
74873 AGCAACCTGA
Statistics
Matches: 272, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
285 170 0.62
286 56 0.21
287 46 0.17
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.34
Consensus pattern (287 bp):
ACATGTTTAGTGTTTACAAACGAAAATTTTATGTATAAAAATTGTTATGAAAAAGATAATATTGT
CAATTTTAATATAAAATATTATATTGTCCAACCTAAAAAAAATTAATAAAATTTCCAACTACAAC
AGAAATATATCATTTTTTTAATCTTATATTAACAAAACAAATAGTACTGTAGATTCTCAAGATGA
CATTTTGAAGCAAATAATCTAATAATTAACCACAATAGACCCTCACACACGGCAAAGGATCTAAT
AATTAACCTAAAATAACACTTACAACC
Found at i:76614 original size:23 final size:24
Alignment explanation
Indices: 76586--76642 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
76576 AAGAATATAA
*
76586 ATAAATGAACTTAAATGAA-AAAT
1 ATAAATGAACTTAAATGAACAAAC
*
76609 ATAAATTTAA-TTAAATGAACAAAC
1 ATAAA-TGAACTTAAATGAACAAAC
*
76633 ATAAACGAAC
1 ATAAATGAAC
76643 GGATTAACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.25
Consensus pattern (24 bp):
ATAAATGAACTTAAATGAACAAAC
Found at i:77791 original size:23 final size:23
Alignment explanation
Indices: 77765--77815 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
77755 AAAAATGAGA
77765 TGAAACCCAAAACAAAACTACTT
1 TGAAACCCAAAACAAAACTACTT
77788 TGAAACCCAAAACAAAACTACTT
1 TGAAACCCAAAACAAAACTACTT
77811 TGAAA
1 TGAAA
77816 AAAAAGGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.18
Consensus pattern (23 bp):
TGAAACCCAAAACAAAACTACTT
Found at i:81658 original size:85 final size:85
Alignment explanation
Indices: 81555--81728 Score: 332
Period size: 85 Copynumber: 2.0 Consensus size: 85
81545 TCTAGACAAC
81555 TAAAAGTGTAACGTTAGAAAATTTAGACAGCTATTTTTAAC-AAAAAAATTATTTAGACACTACA
1 TAAAAGTGTAACGTTAGAAAATTTAGACAGCTATTTTTAACAAAAAAAATTATTTAGACACTACA
81619 AGTCAATTTAAAGTATAGTAT
66 AGTCAATTTAAAGTATAGT-T
81640 TAAAAGTGTAACGTTAGAAAATTTAGACAGCTATTTTTAACAAAAAAAATTATTTAGACACTACA
1 TAAAAGTGTAACGTTAGAAAATTTAGACAGCTATTTTTAACAAAAAAAATTATTTAGACACTACA
81705 AGTCAATTTAAAGTATAGTT
66 AGTCAATTTAAAGTATAGTT
81725 TAAA
1 TAAA
81729 TACTTAAAAG
Statistics
Matches: 88, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
85 46 0.52
86 42 0.48
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (85 bp):
TAAAAGTGTAACGTTAGAAAATTTAGACAGCTATTTTTAACAAAAAAAATTATTTAGACACTACA
AGTCAATTTAAAGTATAGTT
Found at i:82627 original size:3 final size:3
Alignment explanation
Indices: 82619--82643 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
82609 TATTTTGAAT
82619 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
82644 CAATTATGAC
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:84943 original size:149 final size:149
Alignment explanation
Indices: 84663--85092 Score: 790
Period size: 149 Copynumber: 2.9 Consensus size: 149
84653 CTTCATAGTA
* * *
84663 TAAAA-AATCATTATTGTCCTTAAGACGACACATGTTCAAGTATCAATAACTACATTAAGGTGAT
1 TAAAAGAATCGTTATTGTCCTTAAGAAGACACATGTTCAAGTACCAATAACTACATTAAGGTGAT
84727 TGAGCGTTAATTATCAAATGATTAAAAATATTCTTTTGATTTTTGTTTAGTCGGTAGAGACATCA
66 TGAGCGTTAATTATCAAATGATTAAAAATATTCTTTTGATTTTTGTTTAGTCGGTAGAGACATCA
84792 ATCAACTTGTCTCAGTGAT
131 ATCAACTTGTCTCAGTGAT
84811 TAAAAGAATCGTTATTGTCCTTAAGAAGACACATGTTCAAGTACCAATAACTACATTAAGGTGAT
1 TAAAAGAATCGTTATTGTCCTTAAGAAGACACATGTTCAAGTACCAATAACTACATTAAGGTGAT
* *
84876 TGAGCGTTAATTATCAAATGATTTAAAATATTCTTTTGATTTTTGTTTAGTCGGTAGAGACTTCA
66 TGAGCGTTAATTATCAAATGATTAAAAATATTCTTTTGATTTTTGTTTAGTCGGTAGAGACATCA
84941 ATCAACTTGTCTCAGTGAT
131 ATCAACTTGTCTCAGTGAT
*
84960 TAAAAGAATCGTCATTGTCCTTAAGAAGACACATGTTCAAGTACCAATAACTACATTAAGGTGAT
1 TAAAAGAATCGTTATTGTCCTTAAGAAGACACATGTTCAAGTACCAATAACTACATTAAGGTGAT
*
85025 TGAGCGTTAATTATCAAATGATTAAAAATATTTTTTTGATTTTTGTTTAGTCGGTAGAGACATCA
66 TGAGCGTTAATTATCAAATGATTAAAAATATTCTTTTGATTTTTGTTTAGTCGGTAGAGACATCA
85090 ATC
131 ATC
85093 TTAAAATTGG
Statistics
Matches: 272, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
148 5 0.02
149 267 0.98
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (149 bp):
TAAAAGAATCGTTATTGTCCTTAAGAAGACACATGTTCAAGTACCAATAACTACATTAAGGTGAT
TGAGCGTTAATTATCAAATGATTAAAAATATTCTTTTGATTTTTGTTTAGTCGGTAGAGACATCA
ATCAACTTGTCTCAGTGAT
Found at i:85237 original size:23 final size:23
Alignment explanation
Indices: 85211--85265 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
85201 GTTTTTGTCC
*
85211 TTGTGACACACTTTTCTTTACTT
1 TTGTGACACACTTTTCTCTACTT
**
85234 TTGTGACATGCTTTTCTCTACTT
1 TTGTGACACACTTTTCTCTACTT
85257 TTGTGACAC
1 TTGTGACAC
85266 GTTTCACATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.16, C:0.22, G:0.13, T:0.49
Consensus pattern (23 bp):
TTGTGACACACTTTTCTCTACTT
Found at i:86546 original size:22 final size:22
Alignment explanation
Indices: 86519--86572 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
86509 TTTTTAGTGA
*
86519 CAAGCTAAAATGTTATTTTGTC
1 CAAGCTAAAATGTTACTTTGTC
86541 CAAGCTAAAATGTTACTTTGTC
1 CAAGCTAAAATGTTACTTTGTC
*
86563 CAAACTAAAA
1 CAAGCTAAAA
86573 AATTATGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (22 bp):
CAAGCTAAAATGTTACTTTGTC
Found at i:97248 original size:59 final size:58
Alignment explanation
Indices: 97084--97420 Score: 252
Period size: 59 Copynumber: 5.6 Consensus size: 58
97074 CCAGCTAATG
* * * * * *
97084 TGATTTTTTAAGAAACTAAGTCTGATTTTTAGAGGTTTTTTGAAGATTAACATGGTCTTTCAAA
1 TGATTTTTAAAGAAGCTAAGTCTGATTTTCAGAGGTTTCTT---GATT--GATGTTC-TTCAAA
* * * * *
97148 AGAATTTTTAAAAGAAACTAAGTATGATTTTTAGAGTTTTCTTGACTTGATGTTCTT-AAA
1 TG-ATTTTT-AAAGAAGCTAAGTCTGATTTTCAGAGGTTTCTTGA-TTGATGTTCTTCAAA
* * *
97208 TGAGTTTTTAAAGAAGCCAAGTCTGACTTTCAGAGGTTTCTTGATTGAGATGATGTTTTCAAA
1 TGA-TTTTTAAAGAAGCTAAGTCTGATTTTCAGAGGTTTCTTGATT--GATG-T-TCTTCAAA
* * * * *
97271 TAAACTTTCAAAGAAGCTAAGTCTAATTTTCAGAGGTTTCTTGACATGATG-TCTTCAAA
1 T-GATTTTTAAAGAAGCTAAGTCTGATTTTCAGAGGTTTCTTGA-TTGATGTTCTTCAAA
* * * *
97330 TGAATTTTAAAGAAACTAAGTTCT-ATTTTCAGAAGTTTCTTTA-TGAT-TTCTTCAAA
1 TGATTTTTAAAGAAGCTAAG-TCTGATTTTCAGAGGTTTCTTGATTGATGTTCTTCAAA
* *
97386 TGATTTTTTAAAGAAGCTAAGTCTAATTTTTAGAG
1 TGA-TTTTTAAAGAAGCTAAGTCTGATTTTCAGAG
97421 TTTTTTTTTT
Statistics
Matches: 225, Mismatches: 33, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
56 18 0.08
57 23 0.10
58 34 0.15
59 41 0.18
60 13 0.06
61 3 0.01
62 12 0.05
63 41 0.18
64 5 0.02
65 6 0.03
66 29 0.13
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (58 bp):
TGATTTTTAAAGAAGCTAAGTCTGATTTTCAGAGGTTTCTTGATTGATGTTCTTCAAA
Found at i:97611 original size:41 final size:41
Alignment explanation
Indices: 97520--97614 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 41
97510 AGTCTCTCGA
* * *
97520 GCCATCAATAAGTCTTTCGAGCATGATACTTAAATCCTTCGG
1 GCCATCTATAAGTCTTTCGAGCAAGATAC-TAAATCCTTAGG
* * * *
97562 GTCATCTATAAGTCTTTCGAGTAAGATGA-TAAGTCCTTATG
1 GCCATCTATAAGTCTTTCGAGCAAGAT-ACTAAATCCTTAGG
97603 GCCATCTATAAG
1 GCCATCTATAAG
97615 ACCTTCGGGC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 20 0.45
42 23 0.52
43 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (41 bp):
GCCATCTATAAGTCTTTCGAGCAAGATACTAAATCCTTAGG
Found at i:98311 original size:116 final size:115
Alignment explanation
Indices: 98107--98549 Score: 442
Period size: 116 Copynumber: 3.8 Consensus size: 115
98097 TTCGAGGAAG
* *** * *
98107 GGTTCGTAATGAGAAGAGCTTGTCCAACGAGGAATAAA-AAGTTCATAATGAGAAGAACTTGTTC
1 GGTTCGTAATGAGAAGAACTCACCCAATGA-GAAAAAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * ** * *
98171 AAAAATCGGCATTTCCGTCACACAAGGAGATATATCAATATTTCAAAAGAAT
65 GAAACTCGACACATCCGTCACACAAGGAGATA-ATCAAAATTTCAGAAGAAT
* * **
98223 GGTTCATAATGGGAAGAACTCATTCAATGAGAAAAAAGAAGTTCATAATGAGAAGAACTTGTTCG
1 GGTTCGTAATGAGAAGAACTCACCCAATGAGAAAAAAGAAGTTCATAATGAGAAGAACTTGTTCG
* * * * *
98288 AAACTCGGCACATCCGTCACACAAGGGGATGAATTAACATTTCAGAAGAAA
66 AAACTCGACACATCCGTCACACAAGGAGAT-AATCAAAATTTCAGAAGAAT
* * * * *
98339 GGTTTGTAATCAGAAGAACTCACCCAATGAGGAAGAAAG-AGTTCATAATGAGAAGAATTTTTTC
1 GGTTCGTAATGAGAAGAACTCACCCAATGA-GAAAAAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * * * *
98403 GGAACTCAACAGATCAGTCATACAAGGAGATGGATCAACAATTT-TGAAGAAT
65 GAAACTCGACACATCCGTCACACAAGGAGAT-AATCAA-AATTTCAGAAGAAT
* * * * *
98455 GCTTCGTAATGAGAAGAACTCAGCCAATGAGGAAGAAGAATTTCATAATGAGAAGAACTTGTTCG
1 GGTTCGTAATGAGAAGAACTCACCCAATGAGAAAAAAGAAGTTCATAATGAGAAGAACTTGTTCG
* *
98520 AAACTCGACACATCCGTCACAAAAGAAGAT
66 AAACTCGACACATCCGTCACACAAGGAGAT
98550 TGTAATGAGA
Statistics
Matches: 267, Mismatches: 55, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
115 11 0.04
116 244 0.91
117 12 0.04
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (115 bp):
GGTTCGTAATGAGAAGAACTCACCCAATGAGAAAAAAGAAGTTCATAATGAGAAGAACTTGTTCG
AAACTCGACACATCCGTCACACAAGGAGATAATCAAAATTTCAGAAGAAT
Found at i:98561 original size:91 final size:91
Alignment explanation
Indices: 98460--98628 Score: 284
Period size: 91 Copynumber: 1.9 Consensus size: 91
98450 AGAATGCTTC
* * * *
98460 GTAATGAGAAGAACTCAGCCAATGAGGAAGAAGAATTTCATAATGAGAAGAACTTGTTCGAAACT
1 GTAATGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGAACTTGTTCGAAACT
98525 CGACACATCCGTCACAAAAGAAGATT
66 CGACACATCCGTCACAAAAGAAGATT
*
98551 GTAATGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGAACTTGTTCGGAACT
1 GTAATGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGAACTTGTTCGAAACT
*
98616 CGACACATTCGTC
66 CGACACATCCGTC
98629 GCGCAAAGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (91 bp):
GTAATGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGAACTTGTTCGAAACT
CGACACATCCGTCACAAAAGAAGATT
Found at i:98697 original size:207 final size:207
Alignment explanation
Indices: 98342--98741 Score: 554
Period size: 207 Copynumber: 1.9 Consensus size: 207
98332 GAAGAAAGGT
* * * * *
98342 TTGTAATCAGAAGAACTCACCCAATGAGGAAGAAAGAGTTCATAATGAGAAGAATTTTTTCGGAA
1 TTGTAATCAGAAGAACTCACCCAATGAGAAAGAAAGAATTCATAATGAAAAGAACTTGTTCGGAA
* * * * * * *
98407 CTCAACAGATCAGTCATACAAGGAGATGGATCAACAATTTTGAAGAATGCTTCGTAATGAGAAGA
66 CTCAACACATCAGTCACACAAAGAGATGGATCAACAATTCTGAAGAAGGCTTCATAACGAGAAGA
* *
98472 ACTCAGCCAATGAGGAAGAAGAATTTCATAATGAGAAGAACTTGTTCGAAACTCGACACATCCGT
131 ACTCACCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCGAAACTCGACACATCCGT
98537 CACAAAAGAAGA
196 CACAAAAGAAGA
*
98549 TTGTAATGAGAAGAACTCACCCAATGAGAAAG-AAGAAATTCATAATGAAAAGAACTTGTTCGGA
1 TTGTAATCAGAAGAACTCACCCAATGAGAAAGAAAG-AATTCATAATGAAAAGAACTTGTTCGGA
* * * * *
98613 ACTCGACACATTC-GTCGCGCAAAGAGATGGATCAA-AGTCTCTGAAGAAGGGTTCATAACGAGA
65 ACTCAACACA-TCAGTCACACAAAGAGATGGATCAACAAT-TCTGAAGAAGGCTTCATAACGAGA
* *
98676 AGAACTCACCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCGGAACTCGACACATC
128 AGAACTCACCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCGAAACTCGACACATC
98741 C
193 C
98742 ATCATACAAG
Statistics
Matches: 168, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
206 5 0.03
207 161 0.96
208 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (207 bp):
TTGTAATCAGAAGAACTCACCCAATGAGAAAGAAAGAATTCATAATGAAAAGAACTTGTTCGGAA
CTCAACACATCAGTCACACAAAGAGATGGATCAACAATTCTGAAGAAGGCTTCATAACGAGAAGA
ACTCACCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCGAAACTCGACACATCCGT
CACAAAAGAAGA
Found at i:98776 original size:116 final size:116
Alignment explanation
Indices: 98539--98799 Score: 312
Period size: 116 Copynumber: 2.3 Consensus size: 116
98529 ACATCCGTCA
* *
98539 CAAAAGAAGA-TT-GTAATGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGA
1 CAAAAGAAGAGTTCATAACGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGA
* * * * * *
98602 ACTTGTTCGGAACTCGACACATTCGTCGCGCAAAGAGATGGATCAAAGTCT
66 ACTTGTTCGGAACTCGACACATCCATCACACAAAGAGATAGACCAAAGTCT
** * * * *
98653 CTGAAGAAGGGTTCATAACGAGAAGAACTCACCCAATGAGGAAGAAGAAGTTCATAATGAGAAGA
1 CAAAAGAAGAGTTCATAACGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGA
* * * * *
98718 ATTTGTTCGGAACTCGACACATCCATCATACAAGGAGATATACCAACA-TTT
66 ACTTGTTCGGAACTCGACACATCCATCACACAAAGAGATAGACCAA-AGTCT
*
98769 CAAAAGAAGAGTTCATAATGAGAAGAACTCA
1 CAAAAGAAGAGTTCATAACGAGAAGAACTCA
98800 TCCGATGAAG
Statistics
Matches: 121, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
114 7 0.06
115 2 0.02
116 111 0.92
117 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.20
Consensus pattern (116 bp):
CAAAAGAAGAGTTCATAACGAGAAGAACTCACCCAATGAGAAAGAAGAAATTCATAATGAAAAGA
ACTTGTTCGGAACTCGACACATCCATCACACAAAGAGATAGACCAAAGTCT
Found at i:99035 original size:139 final size:138
Alignment explanation
Indices: 98774--99076 Score: 365
Period size: 139 Copynumber: 2.2 Consensus size: 138
98764 CATTTCAAAA
* **
98774 GAAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGGTTCATAATGAGAAGAACTTGTCCAACA
1 GAAGAGTTCATAATGAGAAGAACTCATCCGACGAAGGGTTCATAATGAGAAGAACTCATCCAACA
* * * * * * * **
98839 ATAGATAATAACTTCGTAATGACAAGAGCTTATTCAACCTGGAATCGTTCATTACACAAGGAGGT
66 AGAGAGAATAACTTCGTAATGACAAGAACTTATTCAACCTGGAATCATCCATCACACAAAGAAAT
*
98904 GGATAAAT
131 GGATAAAC
* *
98912 GAAGAGTTCATAATGAGAAGAACTTATCTGACGAAGGGGTTCATAATGAGAAGAACTCATCCAAC
1 GAAGAGTTCATAATGAGAAGAACTCATCCGACGAA-GGGTTCATAATGAGAAGAACTCATCCAAC
* * * * * * *
98977 GAG-GAAGAATAAGTTCGTAATGAGAAGAACTTGTTCAAGCTGGGATCATCCGTCACACAAAGAA
65 AAGAG-AGAATAACTTCGTAATGACAAGAACTTATTCAACCTGGAATCATCCATCACACAAAGAA
*
99041 ATGGATTAAC
129 ATGGATAAAC
*
99051 GAAGAGTTTATAATGAGAAGAACTCA
1 GAAGAGTTCATAATGAGAAGAACTCA
99077 CAAAAAATAA
Statistics
Matches: 138, Mismatches: 25, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
138 33 0.24
139 105 0.76
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (138 bp):
GAAGAGTTCATAATGAGAAGAACTCATCCGACGAAGGGTTCATAATGAGAAGAACTCATCCAACA
AGAGAGAATAACTTCGTAATGACAAGAACTTATTCAACCTGGAATCATCCATCACACAAAGAAAT
GGATAAAC
Found at i:107216 original size:2 final size:2
Alignment explanation
Indices: 107209--107234 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
107199 AGCCTATGTA
107209 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
107235 GCTCATCAAT
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:107667 original size:2 final size:2
Alignment explanation
Indices: 107660--107718 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
107650 AGCCTATGTA
107660 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107702 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
107719 GCTCATCAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:108053 original size:21 final size:21
Alignment explanation
Indices: 108027--108085 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
108017 TGATTTATTA
108027 TTATGGATTTAAAGTTTGTTG
1 TTATGGATTTAAAGTTTGTTG
108048 TTATGGATTTAAAGTTTGTTG
1 TTATGGATTTAAAGTTTGTTG
* *
108069 TTATGGATGTCAAGTTT
1 TTATGGATTTAAAGTTT
108086 ATTGGATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.51
Consensus pattern (21 bp):
TTATGGATTTAAAGTTTGTTG
Found at i:108454 original size:37 final size:37
Alignment explanation
Indices: 108413--108524 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
108403 AACATAACAT
108413 TAGAGTTCTACTAAGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTCTACTAAGATTCAAACTCCTAAAAATAGGA
* * *
108450 TAGAGTTTTACTAGGATTCAAACTTCTAAAAATAGGA
1 TAGAGTTCTACTAAGATTCAAACTCCTAAAAATAGGA
* *
108487 TAAAGTTCTACTATGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTCTACTAAGATTCAAACTCCTAAAAATAGGA
108524 T
1 T
108525 CCACAAGCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (37 bp):
TAGAGTTCTACTAAGATTCAAACTCCTAAAAATAGGA
Found at i:108487 original size:21 final size:21
Alignment explanation
Indices: 108461--108524 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
108451 AGAGTTTTAC
108461 TAGGATTCAAACTTCTAAAAA
1 TAGGATTCAAACTTCTAAAAA
* *
108482 TAGGA-T-AAAGTTCT---AC
1 TAGGATTCAAACTTCTAAAAA
* *
108498 TATGATTCAAACTCCTAAAAA
1 TAGGATTCAAACTTCTAAAAA
108519 TAGGAT
1 TAGGAT
108525 CCACAAGCAT
Statistics
Matches: 31, Mismatches: 7, Indels: 10
0.65 0.15 0.21
Matches are distributed among these distances:
16 5 0.16
17 1 0.03
18 6 0.19
19 7 0.23
20 1 0.03
21 11 0.35
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (21 bp):
TAGGATTCAAACTTCTAAAAA
Found at i:113061 original size:95 final size:94
Alignment explanation
Indices: 112893--113136 Score: 289
Period size: 95 Copynumber: 2.7 Consensus size: 94
112883 TATAATATTA
* * *
112893 TATATATACAATAAATCTTGAGTTGTGCCTCTAGAGCAATTGGTTAAACGCATCGGCTTTATGGA
1 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCATCAGCTTTATGGA
* *
112958 TAATATTCAGCTAGCCTGATAAAGGTAAT
66 TAAGATTCAGCTAACCTGATAAAGGTAAT
*
112987 TATACTATACAATAAAGCTTGAGTTGTCCCTCTATG-GCAATTGGTTAAACGC-CCTAGCTTTAT
1 TATA-TATACAATAAAGCTTGAGTTGTCCCTCTA-GAGCAATTGGTTAAACGCATC-AGCTTTAT
113050 GGATAAGATTCAGCTAACCTGATAAAGGT-AT
63 GGATAAGATTCAGCTAACCTGATAAAGGTAAT
* * *
113081 T-TATAT---ATTAAGC------TGTCCCTCTAGAGCAATTGGTTAAACGCCTCGGCTTTATGGA
1 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCATCAGCTTTATGGA
113136 T
66 T
113137 CCAGCTAGCC
Statistics
Matches: 136, Mismatches: 9, Indels: 21
0.82 0.05 0.13
Matches are distributed among these distances:
82 1 0.01
83 37 0.27
84 1 0.01
89 6 0.04
92 3 0.02
93 2 0.01
94 8 0.06
95 77 0.57
96 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (94 bp):
TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCATCAGCTTTATGGA
TAAGATTCAGCTAACCTGATAAAGGTAAT
Found at i:114500 original size:84 final size:83
Alignment explanation
Indices: 114238--115717 Score: 1482
Period size: 84 Copynumber: 17.9 Consensus size: 83
114228 ATTTTTTCTG
* * * * * * *
114238 TTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACCAAAGACCTTTGAGTTCGACTATGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTACGC
*
114303 TAAGCTCCAAGGCACATCA
65 TCAGCTCCAAGGCACATCA
* * * * *
114322 TTTGCAGCATAGCTTAAGTCGAGAAGGGATATCT-T--CCAAAGATCC-TCAAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAACCAAAGA-CCTTCGAGTTCGACTACGC
* *
114383 TCAGCTTCGAGGGCACATCA
65 TCAGC-TCCAAGGCACATCA
* * * * *
114403 TTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGC
*
114468 TCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
* * *
114487 TTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTACGC
*
114552 TCAGCTCCAAGGTACATCA
65 TCAGCTCCAAGGCACATCA
* * * * * *
114571 TTTGCAACATAGCTTAAGTCGAGAAGGGATATC--T-ACCAAAGACAC-TCAAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAACCAAAGAC-CTTCGAGTTCGACTACGC
* * *
114632 TCAGCTTCGAGGGCACATAA
65 TCAGC-TCCAAGGCACATCA
* * * ** * *
114652 TTTACAGCATAACTCAAGGCTTGAAGGATTATCTGTAACCAAAAGACCTTCGAGTTCCACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGC
* *
114717 CCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
* * *
114736 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTGCCAACCAAAGACCTTCAAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTACGC
*
114801 TCAGTTCCAAGGCACATCA
65 TCAGCTCCAAGGCACATCA
* * *
114820 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG---CCAAAGATCC-TCGAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAACCAAAGA-CCTTCGAGTTCGACTACGC
* *
114881 TCAGCTTCGAGGGCACATCA
65 TCAGC-TCCAAGGCACATCA
* * * * *
114901 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACTTTCGAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGC
*
114966 TCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
* * * * *
114985 TTTGCAGCATAACTTAAGTAGAGAATGGTTATCTGCCAACTAAAGACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTACGC
*
115050 TTAGCTCCAAGGCACATCA
65 TCAGCTCCAAGGCACATCA
* * *
115069 TTTGCAGCATAGCTTAAGTCGAGAA-GG------G--ACCAAAGACAC-TCGAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAACCAAAGAC-CTTCGAGTTCGACTACGC
* *
115124 TCAGCTTCGAGGGCACATCA
65 TCAGC-TCCAAGGCACATCA
* * * * * *
115144 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTTGACTATGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGC
*
115209 TCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
* * * * *
115228 TTTACAGTATAACTTAAGTCGAGAAGGGTTAT-TTTCCAACCAAAGACCTTCGAGTTCGATTACA
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGT--AACCAAAGACCTTCGAGTTCGACTACG
* *
115292 CTCAGCTTCGAGGGCACATCA
64 CTCAGC-TCCAAGGCACATCA
* * * * * *
115313 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACCAAAAGACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGC
*
115378 TCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
* *
115397 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTTTCAACCAAAGACCTTCGAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGT-AACCAAAGACCTTCGAGTTCGACTACGC
**
115462 TCAGCTCCAAGGTGCATCA
65 TCAGCTCCAAGGCACATCA
* * * * *
115481 TTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTG---CCAAAGACCCTCGAGTTCGATTACACT
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCT
* *
115543 CAGCTTCGAGGGCACATCA
66 CAGC-TCCAAGGCACATCA
** * * * * * * * * *
115562 TTTATAGCATAAATCAAGACAAAAAGGGTTATTTATCACCAAAAGACCTTCGAGTTCCACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGC
*
115627 TCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
* * * * * * *
115646 TTTGCAACATAGCTTAAGTTGAGAAGGGTTATCTGCCAACCGAAGACCTTCGAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTACGC
115711 TCAGCTC
65 TCAGCTC
115718 AGAGGCAAAC
Statistics
Matches: 1131, Mismatches: 216, Indels: 98
0.78 0.15 0.07
Matches are distributed among these distances:
74 25 0.02
75 33 0.03
76 2 0.00
77 1 0.00
80 100 0.09
81 154 0.14
82 2 0.00
83 5 0.00
84 604 0.53
85 204 0.18
86 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCT
CAGCTCCAAGGCACATCA
Found at i:114686 original size:249 final size:248
Alignment explanation
Indices: 114238--115564 Score: 1841
Period size: 249 Copynumber: 5.4 Consensus size: 248
114228 ATTTTTTCTG
* * * * * *
114238 TTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACCAAAGACCTTTGAGTTCGACTATGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* *
114303 TAAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTTCCAAAGATCCT
66 TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTACCAAAGA-CCT
* *
114368 CAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACATCATAACTCAAGGCTAGAAGGGTT
130 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTT
114433 ATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
195 ATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
* *
114487 TTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* *
114552 TCAGCTCCAAGGTACATCATTTGCAACATAGCTTAAGTCGAGAAGGGATATCTACCAAAGACACT
66 TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTACCAAAGAC-CT
* * * *
114617 CAAGTTCGATTACACTCAGCTTCGAGGGCACATAATTTACAGCATAACTCAAGGCTTGAAGGATT
130 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTT
* *
114682 ATCTGTAACCAAAAGACCTTCGAGTTCCACTACGCCCAGCTCCAAGGCATATCA
195 ATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
* *
114736 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTGCCAACCAAAGACCTTCAAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* * *
114801 TCAGTTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGATCCT
66 TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTACCAAAGA-CCT
114866 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTT
130 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTT
*
114931 ATCTGTAACCAAAAGACTTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
195 ATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
* * * *
114985 TTTGCAGCATAACTTAAGTAGAGAATGGTTATCTGCCAACTAAAGACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
*
115050 TTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG------ACCAAAGACACT
66 TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTACCAAAGAC-CT
115109 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTT
130 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTT
* *
115174 ATCTGTAACCAAAAGACCTTCGAGTTTGACTATGCTCAGCTCCAAGGCATATCA
195 ATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
* * * * * *
115228 TTTACAGTATAACTTAAGTCGAGAAGGGTTATTTTCCAACCAAAGACCTTCGAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* * * * * * * *
115293 TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACCAAAAG
66 TCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCT---ACC-AAAG
* * * * * * * * * *
115358 ACCTTCGAGTTTGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAA
126 ACC-TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAA
* * ***
115422 GGGTTATTTTTCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGTGCATCA
190 GGGTTATCTGT-AACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
* * * * *
115481 TTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTG----CCAAAGACCCTCGAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* *
115542 TCAGCTTCGAGGGCACATCATTT
66 TCAGC-TCCAAGGCACATCATTT
115565 ATAGCATAAA
Statistics
Matches: 974, Mismatches: 88, Indels: 32
0.89 0.08 0.03
Matches are distributed among these distances:
242 1 0.00
243 184 0.19
244 35 0.04
248 1 0.00
249 612 0.63
250 1 0.00
253 112 0.11
254 28 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (248 bp):
TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTACCAAAGACCTC
GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTA
TCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
Found at i:115609 original size:165 final size:166
Alignment explanation
Indices: 114242--115717 Score: 1466
Period size: 165 Copynumber: 8.9 Consensus size: 166
114232 TTTCTGTTTG
* * * * * * *
114242 CAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACCAAAGACCTTTGAGTTCGACTATGCTAAG
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* * *
114307 CTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCT-TCC-AAAGATCC-TC
66 CTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAAGA-CCTTC
* * * * *
114369 AAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
130 GAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTA
* * * * *
114407 CATCATAACTCAAGGCTAGAAGGGTTATCTGT-AACCAAAAGACCTTCGAGTTCGACTACGCTCA
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTGTCAACC-AAAGACCTTCGAGTTCGACTACGCTCA
* *
114471 GCTCCAAGGCATATCATTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTG-CCAACCAAAGACC
65 GCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACC-A--AAAGACC
* * *
114535 TTCGAGTTTGACTACGCTCAGCTCCAAGGTACATCATTTG
127 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTA
* * * * * * *
114575 CAACATAGCTTAAGTCGAGAAGGG--A--TATCTACCAAAGACAC-TCAAGTTCGATTACACTCA
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTGTCAACCAAAGAC-CTTCGAGTTCGACTACGCTCA
* * * * * * ** *
114635 GCTTCGAGGGCACATAATTTACAGCATAACTCAAGGCTTGAAGGATTATCTGTAACCAAAAGACC
65 GC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG--ACCAAAAGACC
* * * *
114700 TTCGAGTTCCACTACGCCCAGCTCCAAGGCATATCATTTG
127 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTA
* *
114740 CAGCATAACTTAAGTCGAGAAGGGTTATTTGCCAACCAAAGACCTTCAAGTTCGACTACGCTCAG
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* *
114805 TTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-CC-AAAGATCC-TC
66 CTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAAGA-CCTTC
* * * *
114867 GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
130 GAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTA
* * * * *
114905 CAGCATAACTCAAGGCTAGAAGGGTTATCTGT-AACCAAAAGACTTTCGAGTTCGACTACGCTCA
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTGTCAACC-AAAGACCTTCGAGTTCGACTACGCTCA
* * *
114969 GCTCCAAGGCATATCATTTGCAGCATAACTTAAGTAGAGAATGGTTATCTG-CCAACTAAAGACC
65 GCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACC-A--AAAGACC
* * *
115033 TTCGAGTTTGACTACGCTTAGCTCCAAGGCACATCATTTG
127 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTA
* * *
115073 CAGCATAGCTTAAGTCGAGAA-GG------G---ACCAAAGACAC-TCGAGTTCGATTACACTCA
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTGTCAACCAAAGAC-CTTCGAGTTCGACTACGCTCA
* * * * * *
115127 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACC
65 GC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG--ACCAAAAGACC
* * *
115192 TTCGAGTTTGACTATGCTCAGCTCCAAGGCATATCATTTA
127 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTA
* * *
115232 CAGTATAACTTAAGTCGAGAAGGGTTATTT-TCCAACCAAAGACCTTCGAGTTCGATTACACTCA
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTGT-CAACCAAAGACCTTCGAGTTCGACTACGCTCA
* * * * * *
115296 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACCAAAAGACC
65 GC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-G-ACCAAAAGACC
* * *
115361 TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTG
127 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTA
*
115401 CAGCATAACTTAAGTCGAGAAGGGTTATTTTTCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
** * * *
115466 CTCCAAGGTGCATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTG-CC-AAAGACCCTCG
66 CTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAAGACCTTCG
* * * *
115529 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
131 AGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTA
* * * * * * * *
115566 TAGCATAAATCAAGACAAAAAGGGTTATTTATC-ACCAAAAGACCTTCGAGTTCCACTACGCTCA
1 CAGCATAACTTAAGTCGAGAAGGGTTATTTGTCAACC-AAAGACCTTCGAGTTCGACTACGCTCA
* * * *
115630 GCTCCAAGGCATATCATTTGCAACATAGCTTAAGTTGAGAAGGGTTATCTG-CCAACCGAAGACC
65 GCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAA---AAGACC
* *
115694 TTCGAGTTCGATTACACTCAGCTC
127 TTCGAGTTCGACTACGCTCAGCTC
115718 AGAGGCAAAC
Statistics
Matches: 1111, Mismatches: 149, Indels: 99
0.82 0.11 0.07
Matches are distributed among these distances:
158 25 0.02
159 105 0.09
160 2 0.00
161 2 0.00
162 2 0.00
164 84 0.08
165 440 0.40
166 2 0.00
167 5 0.00
168 152 0.14
169 290 0.26
170 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (166 bp):
CAGCATAACTTAAGTCGAGAAGGGTTATTTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
CTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAAGACCTTCG
AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTA
Found at i:115613 original size:249 final size:246
Alignment explanation
Indices: 114238--115717 Score: 1714
Period size: 249 Copynumber: 6.0 Consensus size: 246
114228 ATTTTTTCTG
* * * * * *
114238 TTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACCAAAGACCTTTGAGTTCGACTATGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-C--CCAAAGACCTTCGAGTTCGACTACGC
* * * *
114303 TAAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTTCCAAAGATCC
63 TCAGCTTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATATACCAAAGA-CC
* *
114367 TCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACATCATAACTCAAGGCTAGAAGGGT
127 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
114432 TATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
192 TATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
* *
114487 TTTGCAGCATAACTTAAGTAGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-C--CCAAAGACCTTCGAGTTCGACTACGC
* * * *
114552 TCAGC-TCCAAGGTACATCATTTGCAACATAGCTTAAGTCGAGAAGGGATATCTACCAAAGACAC
63 TCAGCTTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATATACCAAAGAC-C
* * * *
114616 TCAAGTTCGATTACACTCAGCTTCGAGGGCACATAATTTACAGCATAACTCAAGGCTTGAAGGAT
127 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
* *
114681 TATCTGTAACCAAAAGACCTTCGAGTTCCACTACGCCCAGCTCCAAGGCATATCA
192 TATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
* *
114736 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTGCCAACCAAAGACCTTCAAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-C--CCAAAGACCTTCGAGTTCGACTACGC
* *
114801 TCAG-TTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGATCC
63 TCAGCTTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATATACCAAAGA-CC
114865 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
127 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
*
114930 TATCTGTAACCAAAAGACTTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
192 TATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
* * *
114985 TTTGCAGCATAACTTAAGTAGAGAATGGTTATCTGCCAACTAAAGACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC--C-AAAGACCTTCGAGTTCGACTACGC
*
115050 TTAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG------ACCAAAGACAC
63 TCAGCTTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATATACCAAAGAC-C
115108 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
127 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
* *
115173 TATCTGTAACCAAAAGACCTTCGAGTTTGACTATGCTCAGCTCCAAGGCATATCA
192 TATCTGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
* * * * * *
115228 TTTACAGTATAACTTAAGTCGAGAAGGGTTATTTTCCAACCAAAGACCTTCGAGTTCGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTA-TCTGC--CCAAAGACCTTCGAGTTCGACTACGC
* * * * * * * *
115293 TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACCAAAAG
63 TCAGCTTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATAT---ACC-AAAG
* * * * * * * * * *
115358 ACCTTCGAGTTTGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAA
124 ACC-TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAA
* * ***
115422 GGGTTATTTTTCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGTGCATCA
188 GGGTTATCTGT-AACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
* * * * *
115481 TTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTG-CCAAAGACCCTCGAGTTCGATTACACTCA
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCCAAAGACCTTCGAGTTCGACTACGCTCA
* * ** ** * * * *
115545 GCTTCGAGGGCACATCATTTATAGCATAAATCAAGACAAAAAGGGTTATTTATCACCAAAAGACC
66 GCTTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTA--TAT-ACC-AAAGACC
* * * * * * * * * * *
115610 TTCGAGTTCCACTACGCTCAGC-TCCAAGGCATATCATTTGCAACATAGCTTAA-GTTGAGAAGG
127 -TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCT-AGAAGG
* * * *
115673 GTTATCTGCCAACC-GAAGACCTTCGAGTTCGATTACACTCAGCTC
190 GTTATCTG-TAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
115718 AGAGGCAAAC
Statistics
Matches: 1099, Mismatches: 104, Indels: 56
0.87 0.08 0.04
Matches are distributed among these distances:
242 1 0.00
243 177 0.16
244 39 0.04
246 2 0.00
248 3 0.00
249 734 0.67
250 1 0.00
251 2 0.00
252 2 0.00
253 110 0.10
254 28 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (246 bp):
TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCCAAAGACCTTCGAGTTCGACTACGCTCA
GCTTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATATACCAAAGACCTCGA
GTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATC
TGTAACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
Found at i:115664 original size:661 final size:656
Alignment explanation
Indices: 114444--115701 Score: 1955
Period size: 661 Copynumber: 1.9 Consensus size: 656
114434 TCTGTAACCA
* * * * *
114444 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTAGA
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGAGA
*
114509 GAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGTACATCATTT
66 GAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTT
* * *
114574 GCAACATAGCTTAAGTCGAGAAGGGATATCTACCAAAGACACTCAAGTTCGATTACACTCAGCTT
131 ACAACATAACTTAAGTCGAGAAGGGATATCAACCAAAGACACTCAAGTTCGATTACACTCAGCTT
* *
114639 CGAGGGCACATAATTTACAGCATAACTCAAGGCTTGAAGGATTATCTGTAACCAAAAGACCTTCG
196 CGAGGGCACATAATTTACAGCATAACTCAAGGCTAGAAGGATTATCTGGAACCAAAAGACCTTCG
114704 AGTTCCACTACGCCCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATT
261 AGTTCCACTACGCCCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATT
*
114769 TGCCAACCAAAGACCTTCAAGTTCGACTACGCTCAGTTCCAAGGCACATCATTTGCAGCATAGCT
326 TGCCAACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
* *
114834 TAAGTCGAGAAGGGTTATCTGCCAAAGATCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
391 TAAGTCGAGAAGGGATATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * * * * * *
114899 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGACTTTCGAGTTCGACTAC
456 CATTTACAGCATAAATCAAGACAAAAAGGGTTATCTATAACCAAAAGACCTTCGAGTTCCACTAC
* * *
114964 GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTAGAGAATGGTTATCTGCCAACTAAA
521 GCTCAGCTCCAAGGCATATCATTTGCAACATAACTTAAGTAGAGAAGGGTTATCTGCCAACCAAA
115029 GACCTTCGAGTTTGACTACGCTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
586 GACCTTCGAGTTTGACTACGCTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
115094 GGGACC
651 GGGACC
* * * *
115100 AAAGACAC-TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGC
1 AAAGAC-CTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAGCATAACTCAAGGA
* * * *
115164 TAGAAGGGTTATCTG-TAACCAAAAGACCTTCGAGTTTGACTATGCTCAGCTCCAAGGCATATCA
64 GAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCA
** * *
115228 TTTACAGTATAACTTAAGTCGAGAAGGGTTATTTTCCAACCAAAGAC-CTTCGAGTTCGATTACA
128 TTTACAACATAACTTAAGTCGAGAAGGG--A-TAT-CAACCAAAGACAC-TCAAGTTCGATTACA
* *
115292 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGGAACCAAAA
188 CTCAGCTTCGAGGGCACATAATTTACAGCATAACTCAAGGCTAGAAGGATTATCTGGAACCAAAA
** *
115357 GACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAA
253 GACCTTCGAGTTCCACTACGCCCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAA
** * **
115422 GGGTTATTTTTCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGTGCATCATTTGCA
318 GGGTTATTTGCCAACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCA
115487 GCATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGA
383 GCATAGCTTAAGTCGAGAAGGGATATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGA
* * *
115552 GGGCACATCATTTATAGCATAAATCAAGACAAAAAGGGTTATTTATCACCAAAAGACCTTCGAGT
448 GGGCACATCATTTACAGCATAAATCAAGACAAAAAGGGTTATCTATAACCAAAAGACCTTCGAGT
* *
115617 TCCACTACGCTCAGCTCCAAGGCATATCATTTGCAACATAGCTTAAGTTGAGAAGGGTTATCTGC
513 TCCACTACGCTCAGCTCCAAGGCATATCATTTGCAACATAACTTAAGTAGAGAAGGGTTATCTGC
*
115682 CAACCGAAGACCTTCGAGTT
578 CAACCAAAGACCTTCGAGTT
115702 CGATTACACT
Statistics
Matches: 542, Mismatches: 52, Indels: 11
0.90 0.09 0.02
Matches are distributed among these distances:
656 29 0.05
657 106 0.20
659 1 0.00
660 3 0.01
661 403 0.74
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (656 bp):
AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGAGA
GAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTT
ACAACATAACTTAAGTCGAGAAGGGATATCAACCAAAGACACTCAAGTTCGATTACACTCAGCTT
CGAGGGCACATAATTTACAGCATAACTCAAGGCTAGAAGGATTATCTGGAACCAAAAGACCTTCG
AGTTCCACTACGCCCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATT
TGCCAACCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
TAAGTCGAGAAGGGATATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
CATTTACAGCATAAATCAAGACAAAAAGGGTTATCTATAACCAAAAGACCTTCGAGTTCCACTAC
GCTCAGCTCCAAGGCATATCATTTGCAACATAACTTAAGTAGAGAAGGGTTATCTGCCAACCAAA
GACCTTCGAGTTTGACTACGCTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
GGGACC
Found at i:116934 original size:35 final size:38
Alignment explanation
Indices: 116889--116985 Score: 112
Period size: 37 Copynumber: 2.6 Consensus size: 38
116879 TTAGATTACA
*
116889 TATATATATATATGTTATTTTTATTAT-TTGT-TTTAT
1 TATATATATATATATTATTTTTATTATGTTGTATTTAT
* * *
116925 TA-ATTTATATATATTTACTATTT-TTATGTTTTATTTAT
1 TATATATATATATA-TTA-TTTTTATTATGTTGTATTTAT
116963 TATATATATATATATTATTTTTA
1 TATATATATATATATTATTTTTA
116986 CTTTTTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
35 9 0.18
36 9 0.18
37 11 0.22
38 10 0.20
39 10 0.20
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (38 bp):
TATATATATATATATTATTTTTATTATGTTGTATTTAT
Found at i:116959 original size:43 final size:48
Alignment explanation
Indices: 116912--117022 Score: 119
Period size: 47 Copynumber: 2.5 Consensus size: 48
116902 GTTATTTTTA
*
116912 TTATTTGTTTTATTA-ATTTATA-TATATTTACTATTT-TTA-TGT-T
1 TTATTTGTTTTATTATATATATATTATATTTACTATTTATTATTGTAT
* * * * *
116955 TTATTTATTATA-TATATATATATTATTTTTACTTTTTATTATTTTAT
1 TTATTTGTTTTATTATATATATATTATATTTACTATTTATTATTGTAT
117002 TTATTTGTTTTATT-TATATAT
1 TTATTTGTTTTATTATATATAT
117023 TTTTTCTTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
42 2 0.04
43 16 0.30
44 12 0.22
45 3 0.06
46 2 0.04
47 18 0.33
48 1 0.02
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (48 bp):
TTATTTGTTTTATTATATATATATTATATTTACTATTTATTATTGTAT
Found at i:116992 original size:35 final size:34
Alignment explanation
Indices: 116889--116994 Score: 113
Period size: 35 Copynumber: 2.9 Consensus size: 34
116879 TTAGATTACA
* *
116889 TATATATATATATGTTATTTTTATTATTTGTTTTAT
1 TATATATATATATATTATTTTTATT-TTT-ATTTAT
* *
116925 TAATTTATATATATTTACTATTTTTATGTTTTATTTAT
1 T-A--TATATATATATATTATTTTTAT-TTTTATTTAT
116963 TATATATATATATATTATTTTTACTTTTTATT
1 TATATATATATATATTATTTTTA-TTTTTATT
116995 ATTTTATTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
35 26 0.44
36 2 0.03
37 2 0.03
38 6 0.10
39 22 0.37
40 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (34 bp):
TATATATATATATATTATTTTTATTTTTATTTAT
Found at i:117001 original size:39 final size:37
Alignment explanation
Indices: 116862--117002 Score: 121
Period size: 39 Copynumber: 3.8 Consensus size: 37
116852 TTTATTTTAT
** *
116862 TATA-TATTTTTATTTTTTTAGATTACATATATATATA
1 TATATTATTTTTATTTTTTTATTTTA-TTATATATATA
*
116899 TATGTTATTTTTATTATTTGTT-TTATTAATT-TATATATA
1 TATATTATTTTTATT-TTT-TTATT-TT-ATTATATATATA
* * *
116938 TTTACTATTTTTA-TGTTTTA-TTTATTATATATATA
1 TATATTATTTTTATTTTTTTATTTTATTATATATATA
116973 TATATTATTTTTACTTTTTATTATTTTATT
1 TATATTATTTTTA-TTTTT-TTATTTTATT
117003 TATTTGTTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
34 3 0.04
35 21 0.26
36 3 0.04
37 8 0.10
38 14 0.17
39 27 0.33
40 5 0.06
41 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (37 bp):
TATATTATTTTTATTTTTTTATTTTATTATATATATA
Found at i:117027 original size:43 final size:42
Alignment explanation
Indices: 116906--117044 Score: 117
Period size: 43 Copynumber: 3.2 Consensus size: 42
116896 ATATATGTTA
* *
116906 TTTTTA-TTATTTGTTTTATTAATTTATATATATTTACTATTTTT
1 TTTTTATTTATTTGTTTTATT--TATATATATTTTTACT-TTTTT
* * *
116950 ATGTTTTATTTA-TT-ATATATATATATATTATTTTTACTTTTTAT
1 -T-TTTTATTTATTTGTTTTATTTATATA-TATTTTTACTTTTT-T
116994 TATTTTATTTATTTGTTTTATTTATATAT-TTTTT-CTTCTTTT
1 T-TTTTATTTATTTGTTTTATTTATATATATTTTTACTT-TTTT
117036 TTTTTATTT
1 TTTTTATTT
117045 TTTATATTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
41 8 0.10
42 5 0.06
43 27 0.35
44 13 0.17
45 15 0.19
46 7 0.09
47 3 0.04
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (42 bp):
TTTTTATTTATTTGTTTTATTTATATATATTTTTACTTTTTT
Found at i:117035 original size:45 final size:45
Alignment explanation
Indices: 116948--117061 Score: 110
Period size: 45 Copynumber: 2.5 Consensus size: 45
116938 TTTACTATTT
* *
116948 TTATGTTTTAT-TTATTATATATATATATATTATTTTTAC-TTTTTA
1 TTATTTTTTATATT-TT-TATATTTATATATTATTTTTACTTTTTTA
* * *
116993 TTATTTTATT-TATTTGTTTTATTTATATATT-TTTTCTTCTTTTTTT
1 TTATTTT-TTATATTT-TTATATTTATATATTATTTT-TACTTTTTTA
117039 TTATTTTTTATATTTTTATATTT
1 TTATTTTTTATATTTTTATATTT
117062 TTTAGTCACT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
44 4 0.07
45 31 0.54
46 22 0.39
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.74
Consensus pattern (45 bp):
TTATTTTTTATATTTTTATATTTATATATTATTTTTACTTTTTTA
Found at i:117055 original size:8 final size:8
Alignment explanation
Indices: 116904--117063 Score: 62
Period size: 9 Copynumber: 18.9 Consensus size: 8
116894 ATATATATGT
116904 TATTTTTA
1 TATTTTTA
*
116912 TTATTTGTTT
1 -TATTT-TTA
116922 TATTAATTTA
1 TATT--TTTA
116932 TATATATTTA
1 TAT-T-TTTA
116942 CTATTTTTA
1 -TATTTTTA
*
116951 T-GTTTTA
1 TATTTTTA
116958 T-TTATTATA
1 TATT-TT-TA
* *
116967 TATATATA
1 TATTTTTA
*
116975 TATTATTTT
1 TATT-TTTA
116984 TACTTTTTA
1 TA-TTTTTA
*
116993 TTATTTTATT
1 -TATTTT-TA
*
117003 TATTTGTTT
1 TATTT-TTA
*
117012 TATTTATA
1 TATTTTTA
117020 TATTTTT-
1 TATTTTTA
*
117027 TCTTCTTT-
1 TATT-TTTA
117035 T-TTTTTA
1 TATTTTTA
117042 T-TTTTTA
1 TATTTTTA
117049 TATTTTTA
1 TATTTTTA
117057 TATTTTT
1 TATTTTT
117064 TAGTCACTAT
Statistics
Matches: 120, Mismatches: 15, Indels: 33
0.71 0.09 0.20
Matches are distributed among these distances:
6 3 0.03
7 20 0.17
8 32 0.27
9 40 0.33
10 20 0.17
11 5 0.04
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (8 bp):
TATTTTTA
Found at i:117056 original size:43 final size:43
Alignment explanation
Indices: 116927--117057 Score: 126
Period size: 43 Copynumber: 3.0 Consensus size: 43
116917 TGTTTTATTA
* * * *
116927 ATTTATATATATTTACTATTTTTATGTTTTATTTATTATATATAT
1 ATTTATATATTTTTACT-TTTTT-TATTTTATTTATTATATTTTT
* *
116972 ATATAT-TATTTTTACTTTTTATTATTTTATTTATT-T-GTTTT
1 ATTTATATATTTTTACTTTTT-TTATTTTATTTATTATATTTTT
* *
117013 ATTTATATATTTTTTCTTCTTTTT-TTTTATTTTTTATATTTTT
1 ATTTATATATTTTTACTT-TTTTTATTTTATTTATTATATTTTT
117056 AT
1 AT
117058 ATTTTTTAGT
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
41 17 0.24
42 14 0.20
43 25 0.35
44 10 0.14
45 5 0.07
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.72
Consensus pattern (43 bp):
ATTTATATATTTTTACTTTTTTTATTTTATTTATTATATTTTT
Found at i:117141 original size:4 final size:4
Alignment explanation
Indices: 117132--117158 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
117122 TCATTTTAAT
117132 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
117159 CTTACATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:118639 original size:2 final size:2
Alignment explanation
Indices: 118626--118655 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
118616 AGTTTACATA
*
118626 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
118656 TAGCCTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:126355 original size:51 final size:49
Alignment explanation
Indices: 126265--126369 Score: 113
Period size: 51 Copynumber: 2.1 Consensus size: 49
126255 AGTCACTGTA
* * *
126265 ATTTCTTATTTAGATACTATTATTTTAATTTTTGCATTTTGGTCACTTTTT
1 ATTTCTTATTGAGATACTA-TATTTTAATTTTTGCATTTTAGTCA-TTATT
* * *
126316 ATTTCTTATTGAGTTACTA-ACTTTTATTTTATTGTATTTTAGTCATTATT
1 ATTTCTTATTGAGATACTATA-TTTTAATTT-TTGCATTTTAGTCATTATT
126366 ATTT
1 ATTT
126370 TATATTTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
49 1 0.02
50 16 0.35
51 29 0.63
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.61
Consensus pattern (49 bp):
ATTTCTTATTGAGATACTATATTTTAATTTTTGCATTTTAGTCATTATT
Found at i:131072 original size:39 final size:39
Alignment explanation
Indices: 131024--131175 Score: 211
Period size: 39 Copynumber: 4.0 Consensus size: 39
131014 TTCTTAAAAC
*
131024 AAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAG
1 AAGATTTTGTCTCGCTTGAGACAGTTTCCCTCGAAACAG
* *
131063 AAGATTTTGTCTCGCTTGAGATAGTTTCTCTCGAAACAG
1 AAGATTTTGTCTCGCTTGAGACAGTTTCCCTCGAAACAG
* *
131102 AAGATTTTGTCTCGCTTAAGACAGTTTCCCTTGAAAC--
1 AAGATTTTGTCTCGCTTGAGACAGTTTCCCTCGAAACAG
* * *
131139 AA-ATTTTGTATCGCTTGAGACAGTTTCTCTTGAAACA
1 AAGATTTTGTCTCGCTTGAGACAGTTTCCCTCGAAACA
131176 CAAAATCTTT
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
36 31 0.30
37 2 0.02
39 71 0.68
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (39 bp):
AAGATTTTGTCTCGCTTGAGACAGTTTCCCTCGAAACAG
Found at i:131153 original size:36 final size:36
Alignment explanation
Indices: 131020--131378 Score: 303
Period size: 36 Copynumber: 10.1 Consensus size: 36
131010 ATTTTTCTTA
* *
131020 AAACAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCG
1 AAACAA-ATTTTGTCTCGCTTGAGACAGTTTCCCTTG
* * *
131057 AAACAGAAGATTTTGTCTCGCTTGAGATAGTTTCTCTCG
1 AAAC--AA-ATTTTGTCTCGCTTGAGACAGTTTCCCTTG
*
131096 AAACAGAAGATTTTGTCTCGCTTAAGACAGTTTCCCTTG
1 AAAC--AA-ATTTTGTCTCGCTTGAGACAGTTTCCCTTG
* *
131135 AAACAAATTTTGTATCGCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTTG
** * *
131171 AAACACAA---AATCT---TTGA-ATATGTTTCTCTTG
1 AAACA-AATTTTGTCTCGCTTGAGACA-GTTTCCCTTG
* *
131202 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTTG
** *
131238 AAACAAA---AATCT---TTGAGACTGTTTCCCTTG
1 AAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTTG
* * *
131268 AAACAAATTTTCTCTCTCTTGAGACAGTTTCCCTTT
1 AAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTTG
* * * * *
131304 AAACGAGTTTTGTCTCTCTTGGGACAATTTCCCTTG
1 AAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTTG
* *
131340 AAACAAATTTTGTCTCTCTTAAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTTG
131376 AAA
1 AAA
131379 GAAGAAATGT
Statistics
Matches: 271, Mismatches: 34, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
30 27 0.10
31 19 0.07
33 9 0.03
34 2 0.01
36 133 0.49
37 10 0.04
39 71 0.26
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (36 bp):
AAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTTG
Found at i:131284 original size:66 final size:67
Alignment explanation
Indices: 131120--131378 Score: 288
Period size: 66 Copynumber: 3.8 Consensus size: 67
131110 GTCTCGCTTA
* * *
131120 AGACAGTTTCCCTTGAAACAAATTTTGTATCGCTTGAGACAGTTTCTCTTGAAACACAAAATCTT
1 AGACTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAAATCTT
131185 TG
66 TG
* *
131187 A-ATATGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA-AAAATCT
1 AGA-CTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAAATCT
131250 TTG
65 TTG
* * * *****
131253 AGACTGTTTCCCTTGAAACAAATTTTCTCTCTCTTGAGACAGTTTCCCTTTAAACGAGTTTTGTC
1 AGACTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-A---CAAAA
131318 TCTCTTG
62 TCT-TTG
* ** * *
131325 GGACAATTTCCCTTGAAACAAATTTTGTCTCTCTTAAGACAGTTTCCCTTGAAA
1 AGACTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
131379 GAAGAAATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
66 59 0.36
67 51 0.31
71 3 0.02
72 51 0.31
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (67 bp):
AGACTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAAATCTT
TG
Found at i:132031 original size:132 final size:132
Alignment explanation
Indices: 131789--133370 Score: 2398
Period size: 132 Copynumber: 12.0 Consensus size: 132
131779 AAGAGATACA
* * * * * * * * * *
131789 TCAACTTTTTACTAGATTCTATCATAGAAAGAGATAGATCAACACCAACGTCTCGTTCGATTCCA
1 TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
*
131854 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATAAG
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
131919 CG
131 CG
* *
131921 TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGAAGATCAGCATCGATATCTCGTTCGATTCCA
1 TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
* * *
131986 TCACAGAATGAGATGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAAGAGTTGGATCAG
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
132051 CG
131 CG
* *
132053 TCAATTTTTTGCTTGATTCTATCACAGAATGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
1 TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
* * *
132118 TCACAGAAAGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGAACAT
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
132183 CG
131 CG
132185 TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
1 TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
* *
132250 TCACAGAAGGAGGTGGATCGACATTTTTATTTTGCTCAAATCCATCACAGAAGGAGTTGGATCAG
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
132315 CG
131 CG
* * *
132317 TCAATTTTTTGCTCGATTCTATCACAGAAGAAGGTATATCAGCATCGACATCTCATTCGATTCCA
1 TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
* *
132382 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCACAGAATGAGTTGGATCAG
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
132447 CG
131 CG
** * * *
132449 TTGATTTTTTGCTAGATTCTATCACAGAAGAAGGTAGATCAGCATCGATATCTCGTTCGATTCCA
1 TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
* * *
132514 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCTAATCCATCGCAGAAGCAGTTGGATCAT
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
132579 CG
131 CG
*
132581 TCAATTTTTTGCTTGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
1 TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
*
132646 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAT
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
132711 CG
131 CG
*
132713 TCAATTTTTTGCTTGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
1 TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
132778 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
132843 CG
131 CG
* * * * * * *
132845 TCAATTTTTTACACGATTCTATCATAGAAAGAGGTAGATCAGTA-CCATCATTTCGTTCGATTCC
1 TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGA-CATCTCGTTCGATTCC
* * * *
132909 ATCACAGAATGAGGTGGATTGACA--TTT-GTTCGCTCAAATCCATCGCATAAGGAGTTGGATCA
65 ATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
132971 GCG
130 GCG
* * *
132974 TCAACTTTTTTTGCTCGTTTCTATCACAGAATGAGGTAGATCAGCATCGACATCTCGTTCGATTT
1 TCAA--TTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTC
* * * *
133039 CATCACAGAAGGAGGTGGATCGATATTTTTATCTCGCCCAAATCCATCGCAGAATGAGTTGGATC
64 CATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
133104 AGAG
129 AGCG
* ** * * * *
133108 TCAACTTTTAACTCGATTCTATCACAGAAGGAGATAGATCAACATTGACATCTCGTTCGATTTCA
1 TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
*
133173 TCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCA
66 TCACAGAAGGAGGTGGATCGACATTTTTAT-TTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
133238 GCG
130 GCG
* * * * * *
133241 TCAACTTTTAGCTCGATTCTATCACATAAGGAGGTAGATCAACATTGACATATCGTTCGATTTCC
1 TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGA-TTCC
* * * *
133306 ATCATAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATCCATCACAGAAGGAGATGGATC
65 ATCACAGAAGGAGGTGGATCGACATTTTTAT-TTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
133371 GACATTTTTA
Statistics
Matches: 1331, Mismatches: 110, Indels: 16
0.91 0.08 0.01
Matches are distributed among these distances:
129 40 0.03
130 3 0.00
131 71 0.05
132 1027 0.77
133 91 0.07
134 99 0.07
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (132 bp):
TCAATTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
CG
Found at i:133228 original size:45 final size:45
Alignment explanation
Indices: 133039--133408 Score: 204
Period size: 45 Copynumber: 8.3 Consensus size: 45
133029 CGTTCGATTT
* * *
133039 CATCACAGAAGGAGGTGGATCGATATTTTTATC-TCGCCCAAATC
1 CATCACAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATC
* * * * * *
133083 CATCGCAGAATGAGTTGGATCAGAGTCAACTTTTAAC-TCG----ATTC
1 CATCACAGAAGGAGATGGATC-GA--C-ATTTTTATCTTCGCTCAAATC
* * * *** * * * *
133127 TATCACAGAAGGAGATAGATCAACATTGACATC-TCGTTCGATTT
1 CATCACAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATC
*
133171 CATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGCTCAAATC
1 CATCACAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATC
** * * ** * * * *
133216 CATCGTAGAAGGAGTTGGATC-AGC--GTCAACTTTTAGCTCGATTC
1 CATCACAGAAGGAGATGGATCGA-CATTTTTA-TCTTCGCTCAAATC
* * * * * *** * * **
133260 TATCACATAAGGAGGTAGATCAACATTGACAT-ATCGTTCGATTTC
1 CATCACAGAAGGAGATGGATCGACATTTTTATCTTCGCTC-AAATC
*
133305 CATCATAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATC
1 CATCACAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATC
133350 CATCACAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATC
1 CATCACAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATC
*
133395 CATCGCAGAAGGAG
1 CATCACAGAAGGAG
133409 TTCGATCAGC
Statistics
Matches: 240, Mismatches: 70, Indels: 31
0.70 0.21 0.09
Matches are distributed among these distances:
40 7 0.03
41 1 0.00
43 3 0.01
44 97 0.40
45 116 0.48
46 6 0.03
48 10 0.04
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (45 bp):
CATCACAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATC
Found at i:133481 original size:179 final size:178
Alignment explanation
Indices: 133120--133548 Score: 581
Period size: 179 Copynumber: 2.4 Consensus size: 178
133110 AACTTTTAAC
* * * *** * * * *
133120 TCGATTCTATCACAGAAGGAGATAGATCAACATTGACATC-TCGTTCGATTTCATCACAGAAGGA
1 TCGATTCCATCACAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATCCATCACAGAAGGA
* * *
133184 GGTGGATCGACATTTTTATCTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTCAACTTT
66 GATGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTCGATCAGCGTCAACTTT
* * *** *
133249 TAGCTCGATTCTATCACATAAGGAGGTAGATCAACATTGACATATCGT
131 TAGCTCGATTCTATCACAGAAAGAGGTAGATCAACACCAACATATCAT
*
133297 TCGATTTCCATCATAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATCCATCACAGAAGG
1 TCGA-TTCCATCACAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATCCATCACAGAAGG
133362 AGATGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTCGATCAGCGTCAACTT
65 AGATGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTCGATCAGCGTCAACTT
* * *
133427 TTTGCTCGATTCTATCATAGAAAGAGGTAGATCAACACCAACATTTCAT
130 TTAGCTCGATTCTATCACAGAAAGAGGTAGATCAACACCAACATATCAT
* * * * *
133476 TCGATTCCATCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGAA
1 TCGATTCCATCACAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATCCATCACAGAAGGA
*
133541 GTTGGATC
66 GATGGATC
133549 ATCGTCAACT
Statistics
Matches: 220, Mismatches: 30, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
177 4 0.02
178 91 0.41
179 125 0.57
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (178 bp):
TCGATTCCATCACAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATCCATCACAGAAGGA
GATGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTCGATCAGCGTCAACTTT
TAGCTCGATTCTATCACAGAAAGAGGTAGATCAACACCAACATATCAT
Found at i:133502 original size:133 final size:133
Alignment explanation
Indices: 133348--134374 Score: 1467
Period size: 133 Copynumber: 7.7 Consensus size: 133
133338 TTCGCTCAAA
* * *
133348 TCCATCACAGAAGGAGATGGATCGACATTTTTATCTTCGCTCAAATCCATCGCAGAAGGAGTTCG
1 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
* * * * * *
133413 ATCAGCGTCAACTTTTTGCTCGATTCTATCATAGAAAGAGGTAGATCAACACCAACATTTCATTC
66 ATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAAGAGGTAGATCAGCATCGACATATCGTTC
133478 GAT
131 GAT
* *
133481 TCCATCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGAAGTTGG
1 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
* * * * *
133546 ATCATCGTCAACTTTTTGCTCGTTTCTATCACAG-AAGAAGGTAGATCAGCATCAATATCTCGTT
66 ATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAAG-AGGTAGATCAGCATCGACATATCGTT
133610 CGAT
130 CGAT
* * * * *
133614 TTCATCACAGAAGGAGGTGGATCGATATTTATATCTTCTCTCAAATCCATCGCAGAAGGAGTTGG
1 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
* * *
133679 ATCAGCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTCGTTC
66 ATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAAGAGGTAGATCAGCATCGACATATCGTTC
133744 GAT
131 GAT
*
133747 TTCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
1 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
*
133812 ATCAGCGTCAACTTTTAGCTCGATTCTATCACA-AAATGAGGTAGATCAGCATCGACATATCGTT
66 ATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAA-GAGGTAGATCAGCATCGACATATCGTT
**
133876 TTATT
130 CGA-T
* * *
133881 TCCATCATAGAATGAGGTGGATCGACATTTTTA-TTTCGCTCAAATCCATCGCAAAAGGAGTTGG
1 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
*** * * *
133945 ATCAGTACCAA-TATTTTGCTCGATTCTATCACAGAAAGAGGTAGATCAACATCGACATCTTGTT
66 ATCAGCGTCAACT-TTTTGCTCGATTCTATCACAGAAAGAGGTAGATCAGCATCGACATATCGTT
134009 CGAT
130 CGAT
* *
134013 TCCATCACAGAAGGAGGTGGATCGATATTTTTA-TTTCGCTCAGATCCATCGCAGAAGGAGTTGG
1 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
** *
134077 ATCAATGTCAA-TTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATATCGTT
66 ATCAGCGTCAACTTTTT-GCTCGATTCTATCACAGAAAGAGGTAGATCAGCATCGACATATCGTT
134141 CGATT
130 CGA-T
* * * *
134146 TCCATCACAGAATGAGGTGGATCGACATTTTTATGTTCGCTCAAATCCATCGTAGAAGAAGTTGG
1 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
*
134211 ATCAGCGTCAACTTTTTGCTCGTTTCTATCACA-AAATGAGGTAGATCAGCATCGACATATCGTT
66 ATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAA-GAGGTAGATCAGCATCGACATATCGTT
134275 CGATT
130 CGA-T
* *
134280 TCCATCACAGAAGGAGGTGGATTGACATTTTTATTTTCGCTCAAATCCATCACAGAAGGAGTTGG
1 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
* *
134345 ATTAGCGTCAACTTCTTGCTCGATTC-ATCA
66 ATCAGCGTCAACTTTTTGCTCGATTCTATCA
134375 TATATGGAGT
Statistics
Matches: 805, Mismatches: 78, Indels: 22
0.89 0.09 0.02
Matches are distributed among these distances:
131 4 0.00
132 121 0.15
133 474 0.59
134 201 0.25
135 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (133 bp):
TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
ATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAAGAGGTAGATCAGCATCGACATATCGTTC
GAT
Found at i:134061 original size:44 final size:44
Alignment explanation
Indices: 131845--134346 Score: 989
Period size: 44 Copynumber: 56.6 Consensus size: 44
131835 AACGTCTCGT
* *
131845 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * * * * * * * *
131889 TCAAATCCATCGCAGAAGGAGTTGGAT-AAGCGTCAATTTTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* ** * * *
131933 TCGATTCTATCACAGAAGGAGGAAGATC-AGCATCGATATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * * *
131977 TCGATTCCATCACAGAATGAGATGGATCGACATTTTTATTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * * * * * * * *
132021 TCAAATCCATCGCAGAAAGAGTTGGATC-AGCGTCAATTTTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * * * * * * *
132065 TTGATTCTATCACAGAATGAGGTAGATC-AGCATCGACATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * *
132109 TCGATTCCATCACAGAAAGAGGTGGATCGACATTTTTATTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * * * * * * * *
132153 TCAAATCCATCGCAGAAGGAGTTGGAAC-ATCGTCAATTTTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * * * * *
132197 TCGATTCTATCACAGAAGGAGGTAGATC-AGCATCGACATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * *
132241 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * * * * * *
132285 TCAAATCCATCACAGAAGGAGTTGGATC-AGCGTCAATTTTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * ** * * * **
132329 TCGATTCTATCACAGAAGAAGGTATATC-AGCATCGACATCTCAT
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* *
132373 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * * * * * *
132417 TCAAATCCATCACAGAATGAGTTGGATC-AGCGT-TGATTTTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCT-ATATTTCGC
* * * * * * *
132461 TAGATTCTATCACAGAAGAAGGTAGATC-AGCATCGATATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* *
132505 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * * * * * * * *
132549 TCTAATCCATCGCAGAAGCAGTTGGATC-ATCGTCAATTTTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * * * * * *
132593 TTGATTCTATCACAGAAGGAGGTAGATC-AGCATCGACATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* *
132637 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * * * * * * *
132681 TCAAATCCATCGCAGAAGGAGTTGGATC-ATCGTCAATTTTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * * * * * *
132725 TTGATTCTATCACAGAAGGAGGTAGATC-AGCATCGACATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* *
132769 TCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * * * * * * **
132813 TCAAATCCATCGCAGAAGGAGTTGGATC-AGCGTCAATTTTTTAC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * * * * *
132857 ACGATTCTATCATAGAAAGAGGTAGATCAGTAC--C-ATCATTTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATC-G-ACATCTAT-ATTTCGC
* * *
132901 TCGATTCCATCACAGAATGAGGTGGATTGACAT-T-T-GTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * * * * * * * *
132942 TCAAATCCATCGCATAAGGAGTTGGATC-AGCGTCAACTTTTTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTA--TATTTCGC
* * * * * * * *
132988 TCGTTTCTATCACAGAATGAGGTAGATC-AGCATCGACATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * * * *
133032 TCGATTTCATCACAGAAGGAGGTGGATCGATATTTTTATCTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * * * * * * * **
133076 CCAAATCCATCGCAGAATGAGTTGGATCAGA-GTCAACT-TTTAAC
1 TCGATTCCATCACAGAAGGAGGTGGATC-GACATCTA-TATTTCGC
* * * * * * *
133120 TCGATTCTATCACAGAAGGAGATAGATCAACAT-TGACATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCT-ATATTTCGC
* * *
133164 TCGATTTCATCACAGAAGGAGGTGGATCGACATTTTTATCTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATAT-TTCGC
* * ** * * * *
133209 TCAAATCCATCGTAGAAGGAGTTGGATC-AGCGTCAACT-TTTAGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTA-TATTTCGC
* * * * * * *
133253 TCGATTCTATCACATAAGGAGGTAGATCAACAT-TGACATATCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCT-ATATTTCGC
* * * *
133297 TCGATTTCCATCATAGAAGGAGATGGATCGACATTTTTATCTTCGC
1 TCGA-TTCCATCACAGAAGGAGGTGGATCGACATCTATAT-TTCGC
* * * * *
133343 TCAAATCCATCACAGAAGGAGATGGATCGACATTTTTATCTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATAT-TTCGC
* * * * * * * *
133388 TCAAATCCATCGCAGAAGGAGTTCGATC-AGCGTCAACT-TTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTA-TATTTCGC
* * * * * * * * **
133432 TCGATTCTATCATAGAAAGAGGTAGATCAACACCAACATTTCAT
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * *
133476 TCGATTCCATCACAGAATGAGGTGGATCGACATTTTTATTTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATA-TTTCGC
* * * * * * * *
133521 TCAAATCCATCGCAGAAGAAGTTGGATC-ATCGTCAACT-TTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTA-TATTTCGC
* * * * * * *
133565 TCGTTTCTATCACAGAAGAAGGTAGATC-AGCATCAATATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * * *
133609 TCGATTTCATCACAGAAGGAGGTGGATCGATATTTATATCTTCTC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATAT-TTCGC
* * * * * * *
133654 TCAAATCCATCGCAGAAGGAGTTGGATC-AGCGTCAACT-TTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTA-TATTTCGC
* * * * * * *
133698 TCGTTTCTATCACAGAAGGAGGTAGATC-AGCATCGACATCTCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * *
133742 TCGATTTCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATA-TTTCGC
* * * * * * *
133787 TCAAATCCATCGCAGAAGGAGTTGGATC-AGCGTCAACT-TTTAGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTA-TATTTCGC
* * * * * * * *
133831 TCGATTCTATCACAAAATGAGGTAGATC-AGCATCGACATATCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
** * * * *
133875 TTTATTTCCATCATAGAATGAGGTGGATCGACATTTTTATTTCGC
1 TCGA-TTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * * * * * *
133920 TCAAATCCATCGCAAAAGGAGTTGGATCAGTAC--CAATATTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATC-G-ACATCTATATTTCGC
* * * * * * *
133964 TCGATTCTATCACAGAAAGAGGTAGATCAACATCGACATCTT-GT
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATAT-TTCGC
* * *
134008 TCGATTCCATCACAGAAGGAGGTGGATCGATATTTTTATTTCGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * * ** * * *
134052 TCAGA-TCCATCGCAGAAGGAGTTGGATCAATGTCAATTTTTAGC
1 TC-GATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
* * * * * *
134096 TCGATTCTATCACAGAAGGAGGTAGATC-AGCATCGACATATCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * *
134140 TCGATTTCCATCACAGAATGAGGTGGATCGACATTTTTATGTTCGC
1 TCGA-TTCCATCACAGAAGGAGGTGGATCGACATCTATAT-TTCGC
* * ** * * * * *
134186 TCAAATCCATCGTAGAAGAAGTTGGATC-AGCGTCAACT-TTTTGC
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTA-TATTTCGC
* * * * * * * * *
134230 TCGTTTCTATCACAAAATGAGGTAGATC-AGCATCGACATATCGT
1 TCGATTCCATCACAGAAGGAGGTGGATCGA-CATCTATATTTCGC
* * *
134274 TCGATTTCCATCACAGAAGGAGGTGGATTGACATTTTTATTTTCGC
1 TCGA-TTCCATCACAGAAGGAGGTGGATCGACATCTATA-TTTCGC
* * *
134320 TCAAATCCATCACAGAAGGAGTTGGAT
1 TCGATTCCATCACAGAAGGAGGTGGAT
134347 TAGCGTCAAC
Statistics
Matches: 1739, Mismatches: 634, Indels: 169
0.68 0.25 0.07
Matches are distributed among these distances:
40 1 0.00
41 27 0.02
42 4 0.00
43 20 0.01
44 1277 0.73
45 348 0.20
46 61 0.04
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (44 bp):
TCGATTCCATCACAGAAGGAGGTGGATCGACATCTATATTTCGC
Found at i:135640 original size:51 final size:49
Alignment explanation
Indices: 135550--135654 Score: 113
Period size: 51 Copynumber: 2.1 Consensus size: 49
135540 AGTCACTGTA
* * *
135550 ATTTCTTATTTAGATACTATTATTTTAATTTTTGCATTTTGGTCACTTTTT
1 ATTTCTTATTGAGATACTA-TATTTTAATTTTTGCATTTTAGTCA-TTATT
* * *
135601 ATTTCTTATTGAGTTACTA-ACTTTTATTTTATTGTATTTTAGTCATTATT
1 ATTTCTTATTGAGATACTATA-TTTTAATTT-TTGCATTTTAGTCATTATT
135651 ATTT
1 ATTT
135655 TATATTTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
49 1 0.02
50 16 0.35
51 29 0.63
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.61
Consensus pattern (49 bp):
ATTTCTTATTGAGATACTATATTTTAATTTTTGCATTTTAGTCATTATT
Found at i:137997 original size:17 final size:18
Alignment explanation
Indices: 137966--138004 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
137956 AGAAAACGAT
137966 ACAACTAAAAAAATAAAA
1 ACAACTAAAAAAATAAAA
*
137984 ACAACT-AAATAATAAAA
1 ACAACTAAAAAAATAAAA
138001 ACAA
1 ACAA
138005 TTTGAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (18 bp):
ACAACTAAAAAAATAAAA
Found at i:138038 original size:26 final size:26
Alignment explanation
Indices: 137971--138048 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 26
137961 ACGATACAAC
* *
137971 TAAAAAAATAA-AAACAACTAAATAA
1 TAAAAAATTAAGAAACAAATAAATAA
* *
137996 TAAAAACAATT-TG-AACAATTAAATAA
1 T-AAAA-AATTAAGAAACAAATAAATAA
138022 TAAAAAATTAAGAAACAAAATAAATAA
1 TAAAAAATTAAGAAAC-AAATAAATAA
138049 AAAGTCTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
24 4 0.10
25 6 0.14
26 20 0.48
27 12 0.29
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (26 bp):
TAAAAAATTAAGAAACAAATAAATAA
Found at i:138080 original size:19 final size:19
Alignment explanation
Indices: 138042--138080 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
138032 AGAAACAAAA
* *
138042 TAAATAAAAAGTCTATAAT
1 TAAATAAAAACTCTACAAT
*
138061 TAAATAAAAACTTTACAAT
1 TAAATAAAAACTCTACAAT
138080 T
1 T
138081 GCTGGTAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAATAAAAACTCTACAAT
Found at i:138231 original size:3 final size:3
Alignment explanation
Indices: 138223--138256 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
138213 CTCCTCACTC
*
138223 TCA TCA TCA TCA TCA TCA TAA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
138257 GAGCAGATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:139179 original size:2 final size:2
Alignment explanation
Indices: 139172--139205 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
139162 ACTAAAACAA
139172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
139206 TATCAAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:139251 original size:20 final size:20
Alignment explanation
Indices: 139226--139263 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
139216 ATAGTCTAAT
*
139226 TATATAATGATAATTAAAAG
1 TATATAATAATAATTAAAAG
*
139246 TATATAATAATATTTAAA
1 TATATAATAATAATTAAA
139264 TACATACCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
TATATAATAATAATTAAAAG
Found at i:144457 original size:21 final size:21
Alignment explanation
Indices: 144433--144539 Score: 74
Period size: 21 Copynumber: 5.0 Consensus size: 21
144423 GCATTTTCCA
144433 ATGAAAATTCATCTTTAAAAT
1 ATGAAAATTCATCTTTAAAAT
* * ***
144454 ATGAAAACGTCAACATTTTCTA-
1 ATGAAAA-TTCATC-TTTAAAAT
144476 ATGAAAATTCATCTTTAAAAT
1 ATGAAAATTCATCTTTAAAAT
* * ***
144497 ATGAAAACGTCAACATTTTCTA-
1 ATGAAAA-TTCATC-TTTAAAAT
144519 ATGAAAATTCATCTTTAAAAT
1 ATGAAAATTCATCTTTAAAAT
144540 TCATACTAAA
Statistics
Matches: 60, Mismatches: 20, Indels: 12
0.65 0.22 0.13
Matches are distributed among these distances:
20 8 0.13
21 22 0.37
22 22 0.37
23 8 0.13
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.36
Consensus pattern (21 bp):
ATGAAAATTCATCTTTAAAAT
Found at i:144482 original size:22 final size:22
Alignment explanation
Indices: 144454--144525 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
144444 TCTTTAAAAT
144454 ATGAAAACGTCAACATTTTCTA
1 ATGAAAACGTCAACATTTTCTA
* * ***
144476 ATGAAAA-TTCATC-TTTAAAA
1 ATGAAAACGTCAACATTTTCTA
144496 TATGAAAACGTCAACATTTTCTA
1 -ATGAAAACGTCAACATTTTCTA
144519 ATGAAAA
1 ATGAAAA
144526 TTCATCTTTA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
20 4 0.11
21 11 0.30
22 18 0.49
23 4 0.11
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (22 bp):
ATGAAAACGTCAACATTTTCTA
Found at i:144485 original size:43 final size:43
Alignment explanation
Indices: 144424--144539 Score: 223
Period size: 43 Copynumber: 2.7 Consensus size: 43
144414 AATGTTTGCG
*
144424 CATTTTCCAATGAAAATTCATCTTTAAAATATGAAAACGTCAA
1 CATTTTCTAATGAAAATTCATCTTTAAAATATGAAAACGTCAA
144467 CATTTTCTAATGAAAATTCATCTTTAAAATATGAAAACGTCAA
1 CATTTTCTAATGAAAATTCATCTTTAAAATATGAAAACGTCAA
144510 CATTTTCTAATGAAAATTCATCTTTAAAAT
1 CATTTTCTAATGAAAATTCATCTTTAAAAT
144540 TCATACTAAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (43 bp):
CATTTTCTAATGAAAATTCATCTTTAAAATATGAAAACGTCAA
Found at i:150866 original size:2 final size:2
Alignment explanation
Indices: 150855--150888 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
150845 TTTCAGGTAA
150855 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
150889 TTATTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:151483 original size:11 final size:11
Alignment explanation
Indices: 151467--151509 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
151457 TTATCGGATG
151467 ATTAAAATAAA
1 ATTAAAATAAA
151478 ATTAAAATATAA
1 ATTAAAATA-AA
* *
151490 TCTTAAAATAGA
1 -ATTAAAATAAA
151502 ATTAAAAT
1 ATTAAAAT
151510 GTAACTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 16 0.59
12 3 0.11
13 8 0.30
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
ATTAAAATAAA
Found at i:153457 original size:21 final size:21
Alignment explanation
Indices: 153431--153471 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
153421 TTAAAAATGT
* *
153431 TAAAAATATTAATGTTTTAAG
1 TAAAAATAATAATATTTTAAG
153452 TAAAAATAATAATATTTTAA
1 TAAAAATAATAATATTTTAA
153472 TTAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAAG
Found at i:154550 original size:52 final size:54
Alignment explanation
Indices: 154490--154595 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
154480 CATTCTCTTT
* *
154490 CTCTCTCAATTTCTT-TTT-CATTTTCTCTTCTGCGTTTCATTCTCTGCTCCTC
1 CTCTCTCAATTTCTTCTTTCCATTTTCTCTTATGCGTTTCATTCTCTCCTCCTC
* * *
154542 CTCTCTCAATTTTTTCTTTCCTTTTTCTCTTATGTGTTTCATTCTCTCCTCCTC
1 CTCTCTCAATTTCTTCTTTCCATTTTCTCTTATGCGTTTCATTCTCTCCTCCTC
154596 TTCTTTTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 14 0.30
53 3 0.06
54 30 0.64
ACGTcount: A:0.08, C:0.32, G:0.05, T:0.56
Consensus pattern (54 bp):
CTCTCTCAATTTCTTCTTTCCATTTTCTCTTATGCGTTTCATTCTCTCCTCCTC
Found at i:154610 original size:54 final size:53
Alignment explanation
Indices: 154490--154613 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 53
154480 CATTCTCTTT
* * * *
154490 CTCTCTCAATTTCTTTTT-CATTTTCTCTTCTGCGTTTCATTCTCTGCTCCTC
1 CTCTCTCAATTTTTTTTTCCTTTTTCTCTTATGCGTTTCATTCTCTCCTCCTC
*
154542 CTCTCTCAATTTTTTCTTTCCTTTTTCTCTTATGTGTTTCATTCTCTCCTCCTC
1 CTCTCTCAATTTTTT-TTTCCTTTTTCTCTTATGCGTTTCATTCTCTCCTCCTC
* * *
154596 TTCTTTTTAATTTTTTTT
1 CTC-TCTCAATTTTTTTT
154614 CTTTCTCTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
52 14 0.23
53 3 0.05
54 34 0.56
55 10 0.16
ACGTcount: A:0.08, C:0.28, G:0.04, T:0.60
Consensus pattern (53 bp):
CTCTCTCAATTTTTTTTTCCTTTTTCTCTTATGCGTTTCATTCTCTCCTCCTC
Found at i:156409 original size:94 final size:94
Alignment explanation
Indices: 156248--156433 Score: 345
Period size: 94 Copynumber: 2.0 Consensus size: 94
156238 TTAGCCTCTC
* *
156248 GGTTTATGTATATGATATTGAGTTCAGGTTTGTTGACAGGGGCCTCAAAAGCTTCTTTGAGCAAT
1 GGTTTATGTATATGATATTGAGTTCAGGTTTGTTGACAGGGGCCTCAAAAACTTATTTGAGCAAT
156313 AATCTAATGACTGACAGATCAACATGAGA
66 AATCTAATGACTGACAGATCAACATGAGA
156342 GGTTTATGTATATGATATTGAGTTCAGGTTTGTTGACAGGGGCCTCAAAAACTTATTTGAGCAAT
1 GGTTTATGTATATGATATTGAGTTCAGGTTTGTTGACAGGGGCCTCAAAAACTTATTTGAGCAAT
*
156407 AATCTAATGACTGGCAGATCAACATGA
66 AATCTAATGACTGACAGATCAACATGA
156434 CGACTAATGA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (94 bp):
GGTTTATGTATATGATATTGAGTTCAGGTTTGTTGACAGGGGCCTCAAAAACTTATTTGAGCAAT
AATCTAATGACTGACAGATCAACATGAGA
Found at i:157505 original size:24 final size:25
Alignment explanation
Indices: 157437--157505 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
157427 CAATATACAA
* *
157437 TCGTAACTGCTTAAACTAAACACAG
1 TCGTAACTGCTAAAACTGAACACAG
**
157462 TCGTAACTGCTAAAACTGAACGTAG
1 TCGTAACTGCTAAAACTGAACACAG
157487 TCGTAACTGC-AAAACTGAA
1 TCGTAACTGCTAAAACTGAA
157506 TGCAACCTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 9 0.22
25 31 0.77
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (25 bp):
TCGTAACTGCTAAAACTGAACACAG
Found at i:158414 original size:27 final size:27
Alignment explanation
Indices: 158384--158444 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
158374 AAAAAGCCTG
158384 GGTGCATCGATGCATGGCTTGTGCATC
1 GGTGCATCGATGCATGGCTTGTGCATC
158411 GGTGCATCGATGCATGGCTTGTGCATC
1 GGTGCATCGATGCATGGCTTGTGCATC
*
158438 AGTGCAT
1 GGTGCAT
158445 AAAATCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.33, T:0.30
Consensus pattern (27 bp):
GGTGCATCGATGCATGGCTTGTGCATC
Found at i:158500 original size:19 final size:19
Alignment explanation
Indices: 158476--158523 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
158466 TATATATGGA
158476 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
158495 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
158514 GTGCATCGAT
1 GTGCATCGAT
158524 ACACAAAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCATGGTAT
Found at i:158987 original size:18 final size:18
Alignment explanation
Indices: 158965--159003 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
158955 AAAAACATTT
158965 TATTA-TATT-ATTTAT-
1 TATTATTATTAATTTATA
158980 TATTATTATTAATTTATA
1 TATTATTATTAATTTATA
158998 TATTAT
1 TATTAT
159004 AATCATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 6 0.29
18 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTATTATTAATTTATA
Found at i:160793 original size:33 final size:33
Alignment explanation
Indices: 160756--160820 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
160746 TTACTAACTT
160756 TTATT-TATCTTTGTTA-TCTGTTTTATTTTATTA
1 TTATTATAT-TTT-TTATTCTGTTTTATTTTATTA
* *
160789 TTATTATATTTTTTATTTTTTTTTATTTTATT
1 TTATTATATTTTTTATTCTGTTTTATTTTATT
160821 TTTTTCATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 3 0.11
33 22 0.79
34 3 0.11
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (33 bp):
TTATTATATTTTTTATTCTGTTTTATTTTATTA
Found at i:160795 original size:23 final size:22
Alignment explanation
Indices: 160769--160824 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
160759 TTTATCTTTG
*
160769 TTATCTGTTTTATTTTATTATTA
1 TTATATGTTTTATTTT-TTATTA
* *
160792 TTATATTTTTTATTTTTTTTTA
1 TTATATGTTTTATTTTTTATTA
* *
160814 TTTTATTTTTT
1 TTATATGTTTT
160825 TCATAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (22 bp):
TTATATGTTTTATTTTTTATTA
Found at i:160801 original size:22 final size:22
Alignment explanation
Indices: 160776--160824 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
160766 TTGTTATCTG
160776 TTTTATTTTATTATTATTATATT
1 TTTTATTTT-TTATTATTATATT
* *
160799 TTTTATTTTTTTTTATTTTATT
1 TTTTATTTTTTATTATTATATT
160821 TTTT
1 TTTT
160825 TCATAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTATTTTTTATTATTATATT
Found at i:160835 original size:33 final size:32
Alignment explanation
Indices: 160776--160843 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
160766 TTGTTATCTG
* *
160776 TTTTATTTTATTATTATTATATTTTTTATTTTT
1 TTTTATTTTATTATTATTATAATTTTT-TTTAT
*
160809 TTTTATTTTATT-TTTTTCATAATTTTTTTTAT
1 TTTTATTTTATTATTATT-ATAATTTTTTTTAT
160841 TTT
1 TTT
160844 CCAATCTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 11 0.35
33 20 0.65
ACGTcount: A:0.19, C:0.01, G:0.00, T:0.79
Consensus pattern (32 bp):
TTTTATTTTATTATTATTATAATTTTTTTTAT
Found at i:164836 original size:36 final size:36
Alignment explanation
Indices: 164803--164924 Score: 109
Period size: 36 Copynumber: 3.3 Consensus size: 36
164793 GTCTCACTTG
164803 AGACTGTTTTACTCGAAAGAAGATTTATTTCACTCA
1 AGACTGTTTTACTCGAAAGAAGATTTATTTCACTCA
* * ** * * * * **
164839 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTG
1 AGACTGTTTTACTCGAAAGAAGATTTATTTCACTCA
*
164875 AGACTGTTTTCACTCGAAAGAATGCATTTCATTTGACTCA
1 AGACTGTTTT-ACTCGAAAGAA-G-ATTT-ATTTCACTCA
164915 AGACTGTTTT
1 AGACTGTTTT
164925 TAAAGAATAT
Statistics
Matches: 61, Mismatches: 21, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
36 35 0.57
37 7 0.11
38 1 0.02
39 4 0.07
40 14 0.23
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (36 bp):
AGACTGTTTTACTCGAAAGAAGATTTATTTCACTCA
Found at i:164843 original size:72 final size:74
Alignment explanation
Indices: 164750--164917 Score: 225
Period size: 72 Copynumber: 2.3 Consensus size: 74
164740 TTTAATGTAG
* ** *
164750 ATGATTTATCTCACTTGAGATTGCTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-
1 ATGATTTATTTCACTCAAGATTGCTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACTGTTTTC
164813 ACTCGAAAGA
65 ACTCGAAAGA
* *
164823 A-GATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACTGTTTTCA
1 ATGATTTATTTCACTCAAGATTGCTTTTCTTAAAACAAGATTTGTCTCACTTGAGACTGTTTTCA
164887 CTCGAAAGA
66 CTCGAAAGA
*
164896 ATGCATTTCATTTGACTCAAGA
1 ATG-ATTT-ATTTCACTCAAGA
164918 CTGTTTTTAA
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
71 1 0.01
72 53 0.64
73 12 0.14
74 1 0.01
75 4 0.05
76 12 0.14
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (74 bp):
ATGATTTATTTCACTCAAGATTGCTTTTCTTAAAACAAGATTTGTCTCACTTGAGACTGTTTTCA
CTCGAAAGA
Found at i:165033 original size:36 final size:36
Alignment explanation
Indices: 164933--165312 Score: 258
Period size: 36 Copynumber: 10.4 Consensus size: 36
164923 TTTAAAGAAT
* *
164933 ATTTTATCTCTCTTGAGATAGTTTCCCTCGAAACATAA
1 ATTTTATCTCTCTTGAGACAGTTTCCCTTGAAAC--AA
* ** *
164971 GACTTCGTCTCTCTTGAGACAATTTCCCTTGAAACAA
1 -ATTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAA
* * *
165008 ATTTTATCTTTATTGAGATAGTTTCCCTTGAAACAA
1 ATTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAA
*
165044 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
1 ATTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAA
* * *
165080 A----A--TCT-TTGA-ATATGTTTTACATT-AAACAA
1 ATTTTATCTCTCTTGAGACA-G-TTTCCCTTGAAACAA
* * ** *
165109 ATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAA
1 ATTTTATCTCTCTTGAGACAGTTTCCCTTGAAAC-AA
* * * *
165146 GTTTTGTCTCTCTTGAGACATTTTCTCTTGAAACAA
1 ATTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAA
* * *
165182 ATTTTGTCTTTGTCTCTCTTGAGACAGTTTCTCTTTAAACAA
1 A-----T-TTTATCTCTCTTGAGACAGTTTCCCTTGAAACAA
* *
165224 ATTTTGTCTCTCTTGAGACAGTTTCCCTTCAAACAA
1 ATTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAA
** ** *
165260 ATTTCGTCT-TCCTTGAGACAGTTTCTTTTGGAACTAA
1 ATTTTATCTCT-CTTGAGACAGTTTCCCTTGAAAC-AA
* *
165297 GTTTTGTCTCTCTTGA
1 ATTTTATCTCTCTTGA
165313 AACAAATTTT
Statistics
Matches: 274, Mismatches: 46, Indels: 44
0.75 0.13 0.12
Matches are distributed among these distances:
28 2 0.01
29 12 0.04
30 9 0.03
33 1 0.00
35 8 0.03
36 131 0.48
37 48 0.18
38 1 0.00
39 28 0.10
41 1 0.00
42 33 0.12
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.42
Consensus pattern (36 bp):
ATTTTATCTCTCTTGAGACAGTTTCCCTTGAAACAA
Found at i:165207 original size:42 final size:42
Alignment explanation
Indices: 165148--165269 Score: 157
Period size: 42 Copynumber: 3.0 Consensus size: 42
165138 GGAACTAAGT
*
165148 TTTGTCTCTCTTGAGACATTTTCTCTTGAAACAAATTTTGTC
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
*
165190 TTTGTCTCTCTTGAGACAGTTTCTCTTTAAACAAA-----T-
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
* * *
165226 TTTGTCTCTCTTGAGACAGTTTCCCTTCAAACAAATTTCGTC
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
165268 TT
1 TT
165270 CCTTGAGACA
Statistics
Matches: 70, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
36 33 0.47
37 1 0.01
41 1 0.01
42 35 0.50
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.45
Consensus pattern (42 bp):
TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
Found at i:165239 original size:78 final size:74
Alignment explanation
Indices: 165103--165312 Score: 275
Period size: 78 Copynumber: 2.8 Consensus size: 74
165093 GTTTTACATT
* *
165103 AAACAAATTTCATCTC-CCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAT
1 AAACAAATTTCGTCTCTCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
* *
165167 TTTCTCTTG
66 TTTCCCTTC
* * *
165176 AAACAAATTTTGTCTTTGTCTCTCTTGAGACAGTTTCTCTTT-AAAC-AAATTTTGTCTCTCTTG
1 AAACAAATTTCGTC----TCTC-CTTGAGACAGTTTCT-TTTGGAACTAAGTTTTGTCTCTCTTG
165239 AGACAGTTTCCCTTC
60 AGACAGTTTCCCTTC
165254 AAACAAATTTCGTCT-TCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGA
1 AAACAAATTTCGTCTCTCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGA
165313 AACAAATTTT
Statistics
Matches: 118, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
71 3 0.03
72 18 0.15
73 31 0.26
74 1 0.01
77 2 0.02
78 42 0.36
79 18 0.15
80 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.43
Consensus pattern (74 bp):
AAACAAATTTCGTCTCTCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
TTTCCCTTC
Found at i:165380 original size:38 final size:36
Alignment explanation
Indices: 165308--165428 Score: 161
Period size: 36 Copynumber: 3.3 Consensus size: 36
165298 TTTTGTCTCT
*
165308 CTTGAAACAAATTTTGTATCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
** * *
165344 CTCAAAACAAAGTTTTTTTCTCTCATGAGACAGTTTCC
1 CTTGAAACAAA--TTTTGTCTCTCTTGAGACAGTTTCC
* *
165382 CTTGAAATAAATTTTGTCTCTCTTGAGATAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
165418 CTTGAAACAAA
1 CTTGAAACAAA
165429 ATCTTTGAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
36 41 0.58
38 30 0.42
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (36 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
Found at i:165542 original size:36 final size:36
Alignment explanation
Indices: 165448--165592 Score: 182
Period size: 37 Copynumber: 4.0 Consensus size: 36
165438 TTTGTTTCCC
** *
165448 TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
* * *
165484 TTGGAACTAAGTTTTGTCTCTCTTGAGACAATTTCTT
1 TTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTT
* **
165521 TTGAAACAATTTTTGTCTCTCTTGAGACAGTTTCCC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
*
165557 TTGAAACCAAATTTTGTCTCTCTTGAGGCAGTTTCT
1 TTGAAA-CAAATTTTGTCTCTCTTGAGACAGTTTCT
165593 AACACCAATA
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
36 37 0.40
37 56 0.60
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
Found at i:165572 original size:73 final size:73
Alignment explanation
Indices: 165448--165592 Score: 191
Period size: 73 Copynumber: 2.0 Consensus size: 73
165438 TTTGTTTCCC
** * * *
165448 TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCCCTTGAAACCAAATTTTGTCTCTCTTGAGAC
165513 AATTTCTT
66 AATTTCTT
* ** * *
165521 TTGAAACAATTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACCAAATTTTGTCTCTCTTGAGGC
1 TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCCCTTGAAACCAAATTTTGTCTCTCTTGAGAC
*
165586 AGTTTCT
66 AATTTCT
165593 AACACCAATA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (73 bp):
TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCCCTTGAAACCAAATTTTGTCTCTCTTGAGAC
AATTTCTT
Found at i:165715 original size:38 final size:38
Alignment explanation
Indices: 165648--165739 Score: 138
Period size: 38 Copynumber: 2.5 Consensus size: 38
165638 CCTTGAGACA
* *
165648 GTTTCTCTTGAAACAC----AAAAAACCCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAAAAAAACCTTTGAAAAT
165682 GTTTCTCTTGAAACACAAAAAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAAAAAAACCTTTGAAAAT
165720 GTTTCTCTTGAAACACAAAA
1 GTTTCTCTTGAAACACAAAA
165740 CCTTCGATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
34 16 0.31
38 36 0.69
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.29
Consensus pattern (38 bp):
GTTTCTCTTGAAACACAAAAAAAAAAACCTTTGAAAAT
Done.