Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold454
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: 498277
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.28
Warning! 77531 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:3481 original size:66 final size:66
Alignment explanation
Indices: 3336--3501 Score: 165
Period size: 66 Copynumber: 2.5 Consensus size: 66
3326 TGAGCAAATT
* * * * *
3336 ACACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCA
1 ACACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCA
3401 G
66 G
* * * * *
3402 ATACAACTGAAAGCAGATGCAGCAGTGAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAGCTCT
1 ACACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCC
3466 A-
65 AG
* * * * *
3467 ACAGTAGCTTAAAGCAGATGCGGCAGCAAGAGAAG
1 ACA-CAACTGAAAGCAGATGCAGCAGCGAGAGAAG
3502 TAGAGGCGGC
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
65 2 0.02
66 75 0.93
67 4 0.05
ACGTcount: A:0.42, C:0.17, G:0.27, T:0.14
Consensus pattern (66 bp):
ACACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCA
G
Found at i:3551 original size:21 final size:21
Alignment explanation
Indices: 3478--3590 Score: 118
Period size: 21 Copynumber: 5.4 Consensus size: 21
3468 CAGTAGCTTA
* * * *
3478 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
3499 AAGTAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
* *
3520 AAGTACAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
**
3541 AAGCAGAGGCTAAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
3562 AAGCAGAGGCTGCAACGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
3583 AAGCAGAG
1 AAGCAGAG
3591 CAGCATCAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.35, C:0.17, G:0.42, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:4022 original size:43 final size:43
Alignment explanation
Indices: 3930--4032 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 43
3920 AAAACGCTAT
* * * *
3930 GGTCTTTCGCGGCGTTTGTGGGGAAAGTGCCGCTAAAGATTAG
1 GGTCTTTAGCGGCGTTTGTGGCGAAAGCGCCGCTAAAGATCAG
* *
3973 GTTCTTTAGTGGCGTTTGTGGTCG-AAGCGCCGCTATAA-ATCAG
1 GGTCTTTAGCGGCGTTTGTGG-CGAAAGCGCCGCTA-AAGATCAG
*
4016 GGTCTTTTGCGGCGTTT
1 GGTCTTTAGCGGCGTTT
4033 TAGGGAGAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
43 46 0.94
44 3 0.06
ACGTcount: A:0.16, C:0.17, G:0.34, T:0.33
Consensus pattern (43 bp):
GGTCTTTAGCGGCGTTTGTGGCGAAAGCGCCGCTAAAGATCAG
Found at i:4095 original size:43 final size:42
Alignment explanation
Indices: 4040--4225 Score: 183
Period size: 43 Copynumber: 4.3 Consensus size: 42
4030 TTTTAGGGAG
* * *
4040 AAACGCCACTAAAGACCCTAATCTTTAGCGGCGCTTGCCGCAA
1 AAACGCCGCTAAAGACCCTAATCTATAGCGGCGCTTGCC-CAC
* * * *
4083 AAATGCCGCTAAAGACCCTGATCTATAGTGGCGCTTTGACCAC
1 AAACGCCGCTAAAGACCCTAATCTATAGCGGCGC-TTGCCCAC
* ** * * *
4126 AAACGCCACTAAAGAATCTAATCTTTAGCGGAGCTTTCCCCAC
1 AAACGCCGCTAAAGACCCTAATCTATAGCGGCGC-TTGCCCAC
* * *
4169 AAACGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACCAC
1 AAACGCCGCTAAAGACCCTAATCTATAGCGGCGCTT-GCCCAC
*
4212 AAACGCCACTAAAG
1 AAACGCCGCTAAAG
4226 GTCTTAGTAT
Statistics
Matches: 113, Mismatches: 28, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
42 2 0.02
43 107 0.95
44 4 0.04
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCCTAATCTATAGCGGCGCTTGCCCAC
Found at i:4136 original size:86 final size:86
Alignment explanation
Indices: 4040--4225 Score: 282
Period size: 86 Copynumber: 2.2 Consensus size: 86
4030 TTTTAGGGAG
* * * * *
4040 AAACGCCACTAAAGACCCTAATCTTTAGCGGCGCTTGCCGCAAAAATGCCGCTAAAGACCCTGAT
1 AAACGCCACTAAAGAACCTAATCTTTAGCGGAGCTTGCCCCAAAAACGCCGCAAAAGACCCTGAT
* *
4105 CTATAGTGGCGCTTTGACCAC
66 CTATAGCGGCGCTTCGACCAC
* * *
4126 AAACGCCACTAAAGAATCTAATCTTTAGCGGAGCTTTCCCCACAAACGCCGCAAAAGACCCTGAT
1 AAACGCCACTAAAGAACCTAATCTTTAGCGGAGCTTGCCCCAAAAACGCCGCAAAAGACCCTGAT
4191 CTATAGCGGCGCTTCGACCAC
66 CTATAGCGGCGCTTCGACCAC
4212 AAACGCCACTAAAG
1 AAACGCCACTAAAG
4226 GTCTTAGTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 90 1.00
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (86 bp):
AAACGCCACTAAAGAACCTAATCTTTAGCGGAGCTTGCCCCAAAAACGCCGCAAAAGACCCTGAT
CTATAGCGGCGCTTCGACCAC
Found at i:4411 original size:22 final size:22
Alignment explanation
Indices: 4383--4425 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4373 TTACGGTGCT
*
4383 AAAAAGCGCCACTAAAGGCCTA
1 AAAAAGCGCCACTAAAAGCCTA
*
4405 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCACTAAAAGCCT
4426 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCACTAAAAGCCTA
Found at i:6927 original size:73 final size:73
Alignment explanation
Indices: 6808--6951 Score: 243
Period size: 73 Copynumber: 2.0 Consensus size: 73
6798 TCTCGGATTT
* *
6808 AAAAAGGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
*
6873 TTTGAGAA
66 CTTGAGAA
* *
6881 AAAAAAGGGATCATGCCTAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
6946 CTTGAG
66 CTTGAG
6952 TTTGAAGAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (73 bp):
AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAA
CTTGAGAA
Found at i:7713 original size:21 final size:21
Alignment explanation
Indices: 7690--7732 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
7680 TAATTTTAGA
7690 ATAATA-ATACATAT-TAAA-
1 ATAATATATACATATATAAAG
7708 ATAATATATACATATATAAAG
1 ATAATATATACATATATAAAG
7729 ATAA
1 ATAA
7733 AAGAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.27
19 8 0.36
20 4 0.18
21 4 0.18
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAATATATACATATATAAAG
Found at i:8468 original size:23 final size:23
Alignment explanation
Indices: 8441--8484 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8431 GAATATATAT
*
8441 CAAAAAAATAAGAAGAATAGACC
1 CAAAAAAAAAAGAAGAATAGACC
*
8464 CAAAAAAAAAATAAGAATAGA
1 CAAAAAAAAAAGAAGAATAGA
8485 AAGGAAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.70, C:0.09, G:0.11, T:0.09
Consensus pattern (23 bp):
CAAAAAAAAAAGAAGAATAGACC
Found at i:8560 original size:43 final size:43
Alignment explanation
Indices: 8502--8591 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
8492 ATGAAAAATC
*
8502 TTTTAGAATCACCTCTGTTTTTGTATTCTATTTTTTTAACCTT
1 TTTTAGAATCACCTCTGTTTTTGTATTCTATTTTTTAAACCTT
8545 TTTTAGAATCACCTCTGTTTTTGTATTCTATTTTTTAAACCTT
1 TTTTAGAATCACCTCTGTTTTTGTATTCTATTTTTTAAACCTT
8588 TTTT
1 TTTT
8592 CATACAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.19, C:0.16, G:0.07, T:0.59
Consensus pattern (43 bp):
TTTTAGAATCACCTCTGTTTTTGTATTCTATTTTTTAAACCTT
Found at i:15794 original size:25 final size:26
Alignment explanation
Indices: 15747--15799 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
15737 CATAATTTTT
15747 TTTACAATTTTGAATTATTTTCCAAA
1 TTTACAATTTTGAATTATTTTCCAAA
*
15773 TTTACAATTTT-TATTATTTTCCAAA
1 TTTACAATTTTGAATTATTTTCCAAA
15798 TT
1 TT
15800 CAGAACAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.55
Consensus pattern (26 bp):
TTTACAATTTTGAATTATTTTCCAAA
Found at i:16354 original size:51 final size:51
Alignment explanation
Indices: 16224--16468 Score: 178
Period size: 50 Copynumber: 4.8 Consensus size: 51
16214 ATTATCATTC
* * * * * *
16224 GATACATGTAGTAGCCTTCACATAGTACTACACATGTGATCA--AACTTTCC
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAA-TATCT
* * * *
16274 GGTTCACGTAGTAGCCTGCATATAGTACTACACACGTGACCATTAATATCT
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAATATCT
* * * *
16325 GATACACGTAATAGCCTACACATAATACTACACACGTGATCGA--AGCTATCT
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCATTA-ATATCT
* ** * * *** * *
16376 GGTATGCATAGTAGCCTGCACATAGTACTACACATACGACCTTTCAT-TCT
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAATATCT
* *
16426 -AGGACACGTATTAGCCTACACATAGTACTACACACGTGACCAT
1 GA-TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
16469 CACTTTCACT
Statistics
Matches: 146, Mismatches: 42, Indels: 14
0.72 0.21 0.07
Matches are distributed among these distances:
50 71 0.49
51 71 0.49
52 4 0.03
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (51 bp):
GATACACGTAGTAGCCTACACATAGTACTACACACGTGACCATTAATATCT
Found at i:16433 original size:101 final size:100
Alignment explanation
Indices: 16235--16464 Score: 268
Period size: 101 Copynumber: 2.3 Consensus size: 100
16225 ATACATGTAG
* * * *
16235 TAGCCTTCACATAGTACTACACATGTGATCAAACTTTCCGGTTCACGTAGTAGCCTGCATATAGT
1 TAGCCTACACATAGTACTACACACGTGATCAAACTATCCGGTTCAC-TAGTAGCCTGCACATAGT
** *
16300 ACTACACACGTGACCATTAATATCTGATACACGTAA
65 ACTACACACACGACCATTAATATCTGAGACACGTAA
* * *
16336 TAGCCTACACATAATACTACACACGTGATCGAAGCTATCTGGTATGCA-TAGTAGCCTGCACATA
1 TAGCCTACACATAGTACTACACACGTGATC-AAACTATCCGGT-T-CACTAGTAGCCTGCACATA
* * * *
16400 GTACTACACATACGACCTTTCAT-TCT-AGGACACGTAT
63 GTACTACACACACGACCATTAATATCTGA-GACACGTAA
16437 TAGCCTACACATAGTACTACACACGTGA
1 TAGCCTACACATAGTACTACACACGTGA
16465 CCATCACTTT
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
100 1 0.01
101 64 0.58
102 42 0.38
103 1 0.01
104 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (100 bp):
TAGCCTACACATAGTACTACACACGTGATCAAACTATCCGGTTCACTAGTAGCCTGCACATAGTA
CTACACACACGACCATTAATATCTGAGACACGTAA
Found at i:23639 original size:18 final size:19
Alignment explanation
Indices: 23618--23659 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
23608 ATTATTATTA
*
23618 TTATTATCATTA-TTGCTT
1 TTATTATCATTATTTGCCT
* *
23636 TTATTTTTATTATTTGCCT
1 TTATTATCATTATTTGCCT
23655 TTATT
1 TTATT
23660 GTTTACCCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.67
Consensus pattern (19 bp):
TTATTATCATTATTTGCCT
Found at i:23657 original size:19 final size:19
Alignment explanation
Indices: 23626--23664 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23616 TATTATTATC
*
23626 ATTATTGCTTTTATT-TTT
1 ATTATTGCCTTTATTGTTT
23644 ATTATTTGCCTTTATTGTTT
1 ATTA-TTGCCTTTATTGTTT
23664 A
1 A
23665 CCCATTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.67
Consensus pattern (19 bp):
ATTATTGCCTTTATTGTTT
Found at i:36301 original size:98 final size:98
Alignment explanation
Indices: 36132--36790 Score: 1066
Period size: 98 Copynumber: 6.7 Consensus size: 98
36122 AAACCATAGT
* *
36132 TTGCAATTTAAAAGATCGAAGCCACAGAGGCGAATCTTACTTCTGGCGATGCAGTGGAGCAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
36197 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* *
36230 TTGCAATTTAAAATATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGTGGAGCAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
36295 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * *
36328 TTGCAATTTAAAAGGTCGAAGCCACAGCGGTGAATCTTACTTCTGGCGGTGCAGCGGAGTAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
*
36393 GAAGCTACAACAGCGAATCTCACTTCCCTGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * *
36426 TTGCAATTTAAAAGATCGAAGCCACAGCGGCAAATCTTACTTCTAGCAATGCAGCGGAGCAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
*
36491 GAAGCTACAACAGCGAGTCTCACTTCCCCGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * *
36524 TTGCAATTTAAAGGATCGAAGCCACAGTGGCGAATCTTACTTCTGGCGGTGCAGCGGAGCAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
*
36589 GAAGCTACAACAGCGAATCTCACTTCCCTGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* **
36622 TTGCAATTTAAAATATCGAAGCCACAATGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
*
36687 GAAGCTACAACAGCGAATCTCACTTCCCTGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * * *
36720 TTGCAATTTAAAGGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGACGCAGCAGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTT-CTGGCGATGCAGCGGAGCAGAT
36785 TGAAGC
65 TGAAGC
36791 CGCAACGGAG
Statistics
Matches: 523, Mismatches: 37, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
98 499 0.95
99 24 0.05
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (98 bp):
TTGCAATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
GAAGCTACAACAGCGAATCTCACTTCCCCGACA
Found at i:37992 original size:18 final size:19
Alignment explanation
Indices: 37971--38012 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
37961 ACCATTATTA
*
37971 TTATTATCATTA-TTGCTT
1 TTATTATCATTATTTGCCT
* *
37989 TTATTTTTATTATTTGCCT
1 TTATTATCATTATTTGCCT
38008 TTATT
1 TTATT
38013 GTTTACCCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.67
Consensus pattern (19 bp):
TTATTATCATTATTTGCCT
Found at i:38010 original size:19 final size:19
Alignment explanation
Indices: 37979--38017 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37969 TATTATTATC
*
37979 ATTATTGCTTTTATT-TTT
1 ATTATTGCCTTTATTGTTT
37997 ATTATTTGCCTTTATTGTTT
1 ATTA-TTGCCTTTATTGTTT
38017 A
1 A
38018 CCCATTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.67
Consensus pattern (19 bp):
ATTATTGCCTTTATTGTTT
Found at i:39059 original size:18 final size:18
Alignment explanation
Indices: 39036--39071 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
39026 ACTAGGTACC
39036 AATTTCTGGGCGTTACGA
1 AATTTCTGGGCGTTACGA
39054 AATTTCTGGGCGTTACGA
1 AATTTCTGGGCGTTACGA
39072 GGGTGCTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (18 bp):
AATTTCTGGGCGTTACGA
Found at i:58807 original size:24 final size:25
Alignment explanation
Indices: 58756--58822 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
58746 CAAAATAAAC
*
58756 AAAA-AATTTGACATAAATAAAATAT
1 AAAACAATTTGAAATAAAT-AAATAT
* *
58781 AAAACAGTTTGAAATAAAT-AATTT
1 AAAACAATTTGAAATAAATAAATAT
* *
58805 AAAGCAATTTAAAATAAA
1 AAAACAATTTGAAATAAA
58823 CAATGCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
24 19 0.54
25 4 0.11
26 12 0.34
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.28
Consensus pattern (25 bp):
AAAACAATTTGAAATAAATAAATAT
Found at i:59007 original size:25 final size:25
Alignment explanation
Indices: 58979--59040 Score: 115
Period size: 25 Copynumber: 2.4 Consensus size: 25
58969 TAAAACAATC
58979 TAATATAAAAACAGTTTAAGATAAA
1 TAATATAAAAACAGTTTAAGATAAA
59004 TAATATAAAAACAGTTTAAGATAAA
1 TAATATAAAAACAGTTTAAGATAAA
59029 TAATATATAAAA
1 TAATATA-AAAA
59041 TTTAAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 32 0.89
26 4 0.11
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (25 bp):
TAATATAAAAACAGTTTAAGATAAA
Found at i:60546 original size:43 final size:43
Alignment explanation
Indices: 60498--60608 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 43
60488 ATCTACTCTG
* * * * * * *
60498 CTGCAACTTCAGGGGATGAGATTTGTGTTTTTAGTCTGCTCCA
1 CTGCAACTTCAGGGGATAAGACTTGTATCTTCAATCTGCCCCA
60541 CTGCAACTTCAGGGAGATAAGACTTGTATCTTCAATCTGCCCCA
1 CTGCAACTTCAGGG-GATAAGACTTGTATCTTCAATCTGCCCCA
**
60585 CTGTTACTTCAGGGGGATAAGACT
1 CTGCAACTTCA-GGGGATAAGACT
60609 GGTGGCTTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 14 0.25
44 40 0.70
45 3 0.05
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (43 bp):
CTGCAACTTCAGGGGATAAGACTTGTATCTTCAATCTGCCCCA
Found at i:60622 original size:44 final size:44
Alignment explanation
Indices: 60532--60624 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
60522 GTGTTTTTAG
* * * *
60532 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAA
1 TCTGCCCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAA
** * *
60576 TCTGCCCCACTGTTACTTCAGGGGGATAAGACTGGTGGCTTAAA
1 TCTGCCCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAA
60620 TCTGC
1 TCTGC
60625 TTCCCTACTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.29
Consensus pattern (44 bp):
TCTGCCCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAA
Found at i:60900 original size:174 final size:174
Alignment explanation
Indices: 60610--60955 Score: 584
Period size: 174 Copynumber: 2.0 Consensus size: 174
60600 GATAAGACTG
* *
60610 GTGGCTTAAATCTGCTTCCCTACTAACTTGGGAAGATAAGATTTGTAGTCTTCGATCTGCTCCAC
1 GTGGCTTAAATCTGATTCCCTACTAACTTGGGAAGATAAGATTCGTAGTCTTCGATCTGCTCCAC
** ** *
60675 TACTGCTTAGGGAGACAGGACCAACTTTTTATCTGTTTCACTGCCAATACAGGAAGACAATATCT
66 TACTGCTTAAAGAGACAGGACCAACTTTCGATCTGTTTCACTGCCAATACAGGAAGACAATATAT
*
60740 ACAATCTTTAACCTACTCCACTGCTGCTCAGGGAGATAGGACCA
131 ACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCA
* * *
60784 GTGGCTTAAATCTGATTCCTTACTACCTTGGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCAC
1 GTGGCTTAAATCTGATTCCCTACTAACTTGGGAAGATAAGATTCGTAGTCTTCGATCTGCTCCAC
*
60849 TACTGCTTAAAGAGACAGGACCAGCTTTCGATCTGTTTCACTGCCAATACAGGAAGACAATATAT
66 TACTGCTTAAAGAGACAGGACCAACTTTCGATCTGTTTCACTGCCAATACAGGAAGACAATATAT
60914 ACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGAC
131 ACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGAC
60956 TAGTTTTCGA
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
174 160 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (174 bp):
GTGGCTTAAATCTGATTCCCTACTAACTTGGGAAGATAAGATTCGTAGTCTTCGATCTGCTCCAC
TACTGCTTAAAGAGACAGGACCAACTTTCGATCTGTTTCACTGCCAATACAGGAAGACAATATAT
ACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCA
Found at i:61012 original size:45 final size:45
Alignment explanation
Indices: 60961--61913 Score: 1139
Period size: 45 Copynumber: 21.2 Consensus size: 45
60951 AGGACTAGTT
* * * * *
60961 TTCGATCTGCTTCACTGCTAGTACAGGAAGACAAGATATGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * * *
61006 TTCGATCTACTTTGCTGCTAATACAAGAAGACAAGATCTACAATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
61051 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * * *
61096 TTTGACCTACTTCGCTACCAATACAGGAAGACAAGATCTACAATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * *
61141 TTCGACCTACTTCACTGCCAATACAAGAAGATAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * * *
61186 TTCGACCTACTTTGCTGCCAATACAGGAAAACAAGATATGTTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
61231 TT-TAGTCTACTTTGCTGCCAATACAAGAAGACAAGA-CTTGCTATC
1 TTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATC
* * * * *
61276 TTCGATCTACTTCGCTACCAATATAGGAAAACAAGATCTACAATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* *
61321 TTCGATCTACTTCTCTGTCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
** * ** *
61366 TTTAACCTGTTTCGCTACCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* *
61411 TT-TAGTCTACTTCGCTGCCAATACAGGAAGACAAGA-CTTGTTATC
1 TTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATC
* * * * *
61456 TTCGATCTACTTTGCTGCCAATACAGGAAGATAAGGTCTACAATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
*
61501 TTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
61546 TTAGACCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
*
61591 TTC-AGTCTATTTCGCTGCCAATACAGGAAGACAAGA-CTTGCTATC
1 TTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATC
* * * *
61636 TTCGATCTACTTTGCTGCCAATATAGGAAGACGAA-ATCTACAATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGAC-AAGATCTGCTATC
* *
61681 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * *
61726 TTTGATCTACTTTGCTGCCAATACAGGAAGACAATATCTACTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
61771 TTCGACCTACTTCACTGCCAATACAAGAAGACAAGA-CTTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATC
* * *
61816 TTCGATCTACTTCGCTGTCAATATAGGAAGATAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* *
61861 TTCGATCCACTTCGCTGCCAATACAGGAAGATAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
*
61906 TTCAATCT
1 TTCGATCT
61914 GCACCACTGC
Statistics
Matches: 775, Mismatches: 117, Indels: 32
0.84 0.13 0.03
Matches are distributed among these distances:
44 8 0.01
45 758 0.98
46 9 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (45 bp):
TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
Found at i:61016 original size:86 final size:86
Alignment explanation
Indices: 60658--61016 Score: 271
Period size: 86 Copynumber: 4.2 Consensus size: 86
60648 AGATTTGTAG
* * * *
60658 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGACCAACTTTT-TATCTGTTTCACTGCCAA
1 TCTTCGATCTACTCCACTACTGCTCAGGGAGACAGGACC-AGTTTTCGATCTGTTTCACTGCCAA
* * *
60722 TACAGGAAGACAATATCTACAA
65 TACAGGAAGACAAGATATACTA
** * * * * ** * *
60744 TCTTTAACCTACTCCACTGCTGCTCAGGGAGATAGGACCAGTGGCTTAAATCTGATTCCTTACTA
1 TCTTCGATCTACTCCACTACTGCTCAGGGAGACAGGACCAGT--TTTCGATCTG-TT--TCACTG
** * *
60809 CC--T-TGGGAAGATAAGAT-T-CGTCG
61 CCAATACAGGAAGACAAGATATAC-T-A
* * ** *
60832 TCTTCGATCTGCTCCACTACTGCTTAAAGAGACAGGACCAGCTTTCGATCTGTTTCACTGCCAAT
1 TCTTCGATCTACTCCACTACTGCTCAGGGAGACAGGACCAGTTTTCGATCTGTTTCACTGCCAAT
* *
60897 ACAGGAAGACAATATATACAA
66 ACAGGAAGACAAGATATACTA
* * * * * * * *
60918 TCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAGTTTTCGATCTGCTTCACTGCTAGT
1 TCTTCGATCTACTCCACTACTGCTCAGGGAGACAGGACCAGTTTTCGATCTGTTTCACTGCCAAT
*
60983 ACAGGAAGACAAGATATGCTA
66 ACAGGAAGACAAGATATACTA
61004 TCTTCGATCTACT
1 TCTTCGATCTACT
61017 TTGCTGCTAA
Statistics
Matches: 203, Mismatches: 57, Indels: 26
0.71 0.20 0.09
Matches are distributed among these distances:
83 6 0.03
85 5 0.02
86 131 0.65
87 4 0.02
88 48 0.24
89 3 0.01
91 6 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (86 bp):
TCTTCGATCTACTCCACTACTGCTCAGGGAGACAGGACCAGTTTTCGATCTGTTTCACTGCCAAT
ACAGGAAGACAAGATATACTA
Found at i:61222 original size:180 final size:181
Alignment explanation
Indices: 60961--61908 Score: 1291
Period size: 180 Copynumber: 5.3 Consensus size: 181
60951 AGGACTAGTT
* * * * * * *
60961 TTCGATCTGCTTCACTGCTAGTACAGGAAGACAAGATATGCTATCTTCGATCTACTTTGCTGCTA
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGACCTACTTTGCTGCCA
* *
61026 ATACAAGAAGACAAGATCTACAATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGA-TC
66 ATACAGGAAGACAAGATCTACTATCTTCGAGTCTACTTCGCTGCCAATACAGGAAGACAAGACT-
* * * *
61089 TGCTATCTTTGACCTACTTCGCTACCAATACAGGAAGACAAGATCTACAATC
130 TGCTATCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTACAATC
* * * *
61141 TTCGACCTACTTCACTGCCAATACAAGAAGATAAGATCTGCTATCTTCGACCTACTTTGCTGCCA
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGACCTACTTTGCTGCCA
* * ** * * *
61206 ATACAGGAAAACAAGATATGTTATCTT-TAGTCTACTTTGCTGCCAATACAAGAAGACAAGACTT
66 ATACAGGAAGACAAGATCTACTATCTTCGAGTCTACTTCGCTGCCAATACAGGAAGACAAGACTT
* *
61270 GCTATCTTCGATCTACTTCGCTACCAATATAGGAAAACAAGATCTACAATC
131 GCTATCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTACAATC
* * ** * *
61321 TTCGATCTACTTCTCTGTCAATACAGGAAGACAAGATCTGCTATCTTTAACCT-GTTTCGCTACC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGACCTACTTT-GCTGCC
* *
61385 AATACAGGAAGACAAGATCTGCTATCTT-TAGTCTACTTCGCTGCCAATACAGGAAGACAAGACT
65 AATACAGGAAGACAAGATCTACTATCTTCGAGTCTACTTCGCTGCCAATACAGGAAGACAAGACT
* * * * *
61449 TGTTATCTTCGATCTACTTTGCTGCCAATACAGGAAGATAAGGTCTACAATC
130 TGCTATCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTACAATC
* * *
61501 TTCGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGCTATCTTAGACCTACTTCGCTGCCA
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGACCTACTTTGCTGCCA
*
61566 ATACAGGAAGACAAGATCTACTATCTTC-AGTCTATTTCGCTGCCAATACAGGAAGACAAGACTT
66 ATACAGGAAGACAAGATCTACTATCTTCGAGTCTACTTCGCTGCCAATACAGGAAGACAAGACTT
*
61630 GCTATCTTCGATCTACTTTGCTGCCAATATAGGAAGACGAA-ATCTACAATC
131 GCTATCTTCGATCTACTTCGCTGCCAATATAGGAAGAC-AAGATCTACAATC
* * * *
61681 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACAATCTTTGATCTACTTTGCTGCCA
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGACCTACTTTGCTGCCA
* * * *
61746 ATACAGGAAGACAATATCTACTATCTTCGA-CCTACTTCACTGCCAATACAAGAAGACAAGACTT
66 ATACAGGAAGACAAGATCTACTATCTTCGAGTCTACTTCGCTGCCAATACAGGAAGACAAGACTT
* * * *
61810 GCTATCTTCGATCTACTTCGCTGTCAATATAGGAAGATAAGATCTGCTATC
131 GCTATCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTACAATC
* *
61861 TTCGATCCACTTCGCTGCCAATACAGGAAGATAAGATCTGCTATCTTC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
61909 AATCTGCACC
Statistics
Matches: 684, Mismatches: 76, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
179 6 0.01
180 672 0.98
181 6 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (181 bp):
TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGACCTACTTTGCTGCCA
ATACAGGAAGACAAGATCTACTATCTTCGAGTCTACTTCGCTGCCAATACAGGAAGACAAGACTT
GCTATCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTACAATC
Found at i:62919 original size:7 final size:7
Alignment explanation
Indices: 62907--62962 Score: 55
Period size: 7 Copynumber: 8.4 Consensus size: 7
62897 TGGCCTCTCC
62907 TTTTTCT
1 TTTTTCT
62914 TTTTTCT
1 TTTTTCT
*
62921 TTTTTCG
1 TTTTTCT
*
62928 TTCTTC-
1 TTTTTCT
*
62934 TTTCT-T
1 TTTTTCT
62940 TTTTTCT
1 TTTTTCT
*
62947 TTTCT-T
1 TTTTTCT
62953 TTTTTCT
1 TTTTTCT
62960 TTT
1 TTT
62963 CTTTTCATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
6 12 0.31
7 27 0.69
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:62924 original size:13 final size:13
Alignment explanation
Indices: 62906--62967 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
62896 TTGGCCTCTC
62906 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
* *
62919 CTTTTTTCGTTCTT
1 C-TTTTTCTTTTTT
*
62933 CTTTCT-TTTTTT
1 CTTTTTCTTTTTT
62945 C-TTTTCTTTTTT
1 CTTTTTCTTTTTT
62957 -TCTTTTCTTTT
1 CT-TTTTCTTTT
62968 CATGAAACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 3 0.08
12 11 0.28
13 14 0.36
14 11 0.28
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.81
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:62962 original size:18 final size:17
Alignment explanation
Indices: 62908--62968 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 17
62898 GGCCTCTCCT
62908 TTTTCTTTTTTCTTTTTTC
1 TTTTC-TTTTT-TTTTTTC
*
62927 GTTCTTCTTTCTTTTTTTC
1 -TT-TTCTTTTTTTTTTTC
62946 TTTTCTTTTTTTCTTTTC
1 TTTTCTTTTTTT-TTTTC
62964 TTTTC
1 TTTTC
62969 ATGAAACATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
17 9 0.24
18 12 0.32
19 7 0.19
20 6 0.16
21 3 0.08
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTCTTTTTTTTTTTC
Found at i:63448 original size:23 final size:22
Alignment explanation
Indices: 63398--63450 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
63388 CCCGGTAGAG
63398 TTTTTTTTGTTTTTTATTTTCT
1 TTTTTTTTGTTTTTTATTTTCT
63420 TGTTTTTTTGTTTTACTT-TTTTACT
1 T-TTTTTTTGTTTT--TTATTTT-CT
63445 TTTTTT
1 TTTTTT
63451 CTTTTTTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 1 0.04
23 12 0.44
24 9 0.33
25 5 0.19
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.83
Consensus pattern (22 bp):
TTTTTTTTGTTTTTTATTTTCT
Found at i:67329 original size:27 final size:28
Alignment explanation
Indices: 67282--67338 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
67272 AAAAAGTTTC
* *
67282 AAAATAAACAAAAAATTTTGACATAAAT
1 AAAATAAACAAAAAAGTTTGAAATAAAT
*
67310 AAAATATA-AAAAAAGTTTGAAATAAAT
1 AAAATAAACAAAAAAGTTTGAAATAAAT
67337 AA
1 AA
67339 TTTAAAGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.25
Consensus pattern (28 bp):
AAAATAAACAAAAAAGTTTGAAATAAAT
Found at i:70869 original size:22 final size:22
Alignment explanation
Indices: 70844--70888 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
70834 CTTTCCAGTT
70844 CTTCATCCTTTGTACTTTATAC
1 CTTCATCCTTTGTACTTTATAC
70866 CTTCATCCTTTGTACTTTATAC
1 CTTCATCCTTTGTACTTTATAC
70888 C
1 C
70889 GGTTTGACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.29, G:0.04, T:0.49
Consensus pattern (22 bp):
CTTCATCCTTTGTACTTTATAC
Found at i:79576 original size:40 final size:42
Alignment explanation
Indices: 79510--79592 Score: 125
Period size: 40 Copynumber: 2.0 Consensus size: 42
79500 TAAAAACACC
*
79510 CAAAAACATGGGGGGGGGGGGGGGAACAAAAATTAACAAAAG
1 CAAAAACATGGGGGGGGGGGGAGGAACAAAAATTAACAAAAG
* *
79552 CAAAAA-A-GGGGGGGGGGGGAGGAACATAAATTAACAGAAG
1 CAAAAACATGGGGGGGGGGGGAGGAACAAAAATTAACAAAAG
79592 C
1 C
79593 TAATTCGTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 31 0.82
41 1 0.03
42 6 0.16
ACGTcount: A:0.45, C:0.10, G:0.39, T:0.07
Consensus pattern (42 bp):
CAAAAACATGGGGGGGGGGGGAGGAACAAAAATTAACAAAAG
Found at i:85436 original size:28 final size:28
Alignment explanation
Indices: 85404--85465 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
85394 ACTCTCCCCC
85404 TTATTTAAATAATTTTT-AGTATACAAA
1 TTATTTAAATAATTTTTAAGTATACAAA
* *
85431 TTTATTAAAATAATTTTTAAGTATACCAA
1 -TTATTTAAATAATTTTTAAGTATACAAA
85460 TTATTT
1 TTATTT
85466 TTGAAGCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 21 0.70
29 9 0.30
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (28 bp):
TTATTTAAATAATTTTTAAGTATACAAA
Found at i:86211 original size:18 final size:18
Alignment explanation
Indices: 86184--86220 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
86174 ATAATTATTT
86184 ACTTTAAATAAAATTTAA
1 ACTTTAAATAAAATTTAA
*
86202 ACTTTTAATAAAATTTAA
1 ACTTTAAATAAAATTTAA
86220 A
1 A
86221 TATTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
ACTTTAAATAAAATTTAA
Found at i:90477 original size:3 final size:3
Alignment explanation
Indices: 90469--90699 Score: 462
Period size: 3 Copynumber: 77.0 Consensus size: 3
90459 NNNNNNNNNN
90469 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90517 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90565 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90613 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90661 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90700 GTATAACATG
Statistics
Matches: 228, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 228 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:92049 original size:36 final size:36
Alignment explanation
Indices: 92002--92075 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
91992 TAACATTGTA
92002 AAGATTGCAAATTAGAATTGTTGTGATACTTGAATG
1 AAGATTGCAAATTAGAATTGTTGTGATACTTGAATG
92038 AAGATTGCAAATTAGAATTGTTGTGATACTTGAATG
1 AAGATTGCAAATTAGAATTGTTGTGATACTTGAATG
92074 AA
1 AA
92076 AATGATGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (36 bp):
AAGATTGCAAATTAGAATTGTTGTGATACTTGAATG
Found at i:101902 original size:3 final size:3
Alignment explanation
Indices: 101894--101927 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
101884 TGTCGAGGTT
101894 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
101928 ATAAAAGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:108214 original size:578 final size:562
Alignment explanation
Indices: 107107--108245 Score: 2098
Period size: 578 Copynumber: 2.0 Consensus size: 562
107097 CATTGGCTTC
107107 ATTGTATCCTCGAGGTTAATTTGCTTGGAACTCATTTGCACACTGAAGATAAGTGGGGGCGAATA
1 ATTGTATCCTCGAGGTTAATTTGCTTGGAACTCATTTGCACACTGAAGATAAGTGGGGGCGAATA
107172 TAACCTTAAAGATAGTGGCTTGATACACGCCTTGGAGCCTTGTCCTATTTCTTCTTTTTCTTTTC
66 TAACCTTAAAGATAGTGGCTTGATACACGCCTTGGAGCCTTGTCCTATTTCTTCTTTTTCTTTTC
107237 GAGTTCCGATCGTGTGTTCGAGATTTTCCTTACCGGAGATTTGTAATAACAATTTTAAGGTTATA
131 GAGTTCCGATCGTGTGTTCGAGATTTTCCTTACCGGAGATTTGTAATAACAATTTTAAGGTTATA
107302 TTATGATGACTACCACAACACATGAAAGTGGAACACTAAGGGAGTTGGCTTCCAACTTTGTTAAA
196 TTATGATGACTACCACAACACATGAAAGTGGAACACTAAGGGAGTTGGCTTCCAACTTTGTTAAA
107367 CTTGATCGTTTTGATGGTGGCAATTTTCGACGATGGCAGAAAAAGATGCACTTTTTGTTATCAAC
261 CTTGATCGTTTTGATGGTGGCAATTTTCGACGATGGCAGAAAAAGATGCACTTTTTGTTATCAAC
107432 TTTGAAGATTGCTTATGTTTTGGATACTCCAAGACCTGAAGAGAATGAAAACGAATCTGTTGCTG
326 TTTGAAGATTGCTTATGTTTTGGATACTCCAAGACCTGAAGAGAATGAAAACGAATCTGTTGCTG
107497 CAACCCGAGAAAGACAAAAATGGGACAATGCTGATTACATGTGCATGGGCCACATATTGAATGGT
391 CAACCCGAGAAAGACAAAAATGGGACAATGCTGATTACATGTGCATGGGCCACATATTGAATGGT
107562 TTATCTGATGGTTTGTTCGACACCTACCAAAACGACGTCACCGCTAAAGAATTATGGGACAAATT
456 TTATCTGATGGTTTGTTCGACACCTACCAAAACGACGTCACCGCTAAAGAATTATGGGACAAATT
107627 GGAGGCAAGATACATGACCGAAGATGTTACAAGTAAGAAATNNNNNNNNNNNNNNNNA
521 GGAGGCAAGATACATGACCGAAGATGTTACAAGTAAGAAAT----------------A
* *
107685 ATTGTGTCCTCTAGGTTAATTTGCTTGGAACTCATTTGCACACTGAAGATAAGTGGGGGCGAATA
1 ATTGTATCCTCGAGGTTAATTTGCTTGGAACTCATTTGCACACTGAAGATAAGTGGGGGCGAATA
* *
107750 TAGCCTTAAAGATAGTGGGTTGATACACGCCTTGGAGCCTTGTCCTATTTCTTCTTTTTCTTTTC
66 TAACCTTAAAGATAGTGGCTTGATACACGCCTTGGAGCCTTGTCCTATTTCTTCTTTTTCTTTTC
107815 GAGTTCCGATCGTGTGTTCGAGATTTTCCTTACCGGAGATTTGTAATAACAATTTTAAGGTTATA
131 GAGTTCCGATCGTGTGTTCGAGATTTTCCTTACCGGAGATTTGTAATAACAATTTTAAGGTTATA
107880 TTATGATGACTACCACAACACATGAAAGTGGAACACTAAGGGAGTTGGCTTCCAACTTTGTTAAA
196 TTATGATGACTACCACAACACATGAAAGTGGAACACTAAGGGAGTTGGCTTCCAACTTTGTTAAA
107945 CTTGATCGTTTTGATGGTGGCAATTTTCGACGATGGCAGAAAAAGATGCACTTTTTGTTATCAAC
261 CTTGATCGTTTTGATGGTGGCAATTTTCGACGATGGCAGAAAAAGATGCACTTTTTGTTATCAAC
108010 TTTGAAGATTGCTTATGTTTTGGATACTCCAAGACCTGAAGAGAATGAAAACGAATCTGTTGCTG
326 TTTGAAGATTGCTTATGTTTTGGATACTCCAAGACCTGAAGAGAATGAAAACGAATCTGTTGCTG
108075 CAACCCGAGAAAGACAAAAATGGGACAATGCTGATTACATGTGCATGGGCCACATATTGAATGGT
391 CAACCCGAGAAAGACAAAAATGGGACAATGCTGATTACATGTGCATGGGCCACATATTGAATGGT
108140 TTATCTGATGGTTTGTTCGACACCTACCAAAACGACGTCACCGCTAAAGAATTATGGGACAAATT
456 TTATCTGATGGTTTGTTCGACACCTACCAAAACGACGTCACCGCTAAAGAATTATGGGACAAATT
108205 GGAGGCAAGATACATGACCGAAGATGTTACAAGTAAGAAAT
521 GGAGGCAAGATACATGACCGAAGATGTTACAAGTAAGAAAT
108246 TTCTTGTCAG
Statistics
Matches: 557, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
578 557 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (562 bp):
ATTGTATCCTCGAGGTTAATTTGCTTGGAACTCATTTGCACACTGAAGATAAGTGGGGGCGAATA
TAACCTTAAAGATAGTGGCTTGATACACGCCTTGGAGCCTTGTCCTATTTCTTCTTTTTCTTTTC
GAGTTCCGATCGTGTGTTCGAGATTTTCCTTACCGGAGATTTGTAATAACAATTTTAAGGTTATA
TTATGATGACTACCACAACACATGAAAGTGGAACACTAAGGGAGTTGGCTTCCAACTTTGTTAAA
CTTGATCGTTTTGATGGTGGCAATTTTCGACGATGGCAGAAAAAGATGCACTTTTTGTTATCAAC
TTTGAAGATTGCTTATGTTTTGGATACTCCAAGACCTGAAGAGAATGAAAACGAATCTGTTGCTG
CAACCCGAGAAAGACAAAAATGGGACAATGCTGATTACATGTGCATGGGCCACATATTGAATGGT
TTATCTGATGGTTTGTTCGACACCTACCAAAACGACGTCACCGCTAAAGAATTATGGGACAAATT
GGAGGCAAGATACATGACCGAAGATGTTACAAGTAAGAAATA
Found at i:119273 original size:19 final size:19
Alignment explanation
Indices: 119251--119300 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
119241 ATTACAAAAT
119251 AATTCAAAATAATTTTCAA
1 AATTCAAAATAATTTTCAA
* * *
119270 AATTTTAAAATGATTTTTAA
1 AA-TTCAAAATAATTTTCAA
119290 AATTCAAAATA
1 AATTCAAAATA
119301 TTTATAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (19 bp):
AATTCAAAATAATTTTCAA
Found at i:119310 original size:19 final size:19
Alignment explanation
Indices: 119251--119357 Score: 61
Period size: 20 Copynumber: 5.8 Consensus size: 19
119241 ATTACAAAAT
119251 AATTCAAAATAATTT-TCAAA
1 AATTCAAAAT-ATTTAT-AAA
* * *
119271 ATTTTAAAATGATTT-TTAA
1 AATTCAAAAT-ATTTATAAA
119290 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
119309 AA-T-AAAA-A-TTATAAA
1 AATTCAAAATATTTATAAA
*
119324 ATATTCTAAAA-ATATATAAA
1 A-ATTC-AAAATATTTATAAA
119344 AAGTT-AAAAT-TTTA
1 AA-TTCAAAATATTTA
119358 AAACTTTTCT
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
15 8 0.11
16 2 0.03
17 5 0.07
18 12 0.17
19 21 0.30
20 22 0.31
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:119336 original size:37 final size:37
Alignment explanation
Indices: 119303--119371 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 37
119293 TCAAAATATT
119303 TATAAAAA-TAAAAATTATAAAA-TATTCTAAAAATA
1 TATAAAAAGTAAAAATTATAAAACTATTCTAAAAATA
* * *
119338 TATAAAAAGTTAAAATTTTAAAACTTTTCTAAAA
1 TATAAAAAGTAAAAATTATAAAACTATTCTAAAA
119372 TAATAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 8 0.28
36 12 0.41
37 9 0.31
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (37 bp):
TATAAAAAGTAAAAATTATAAAACTATTCTAAAAATA
Found at i:120813 original size:10 final size:10
Alignment explanation
Indices: 120798--120825 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
120788 TTTTCTACAC
120798 AAAGATGGAA
1 AAAGATGGAA
120808 AAAGATGGAA
1 AAAGATGGAA
120818 AAAGATGG
1 AAAGATGG
120826 CCACATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.32, T:0.11
Consensus pattern (10 bp):
AAAGATGGAA
Found at i:138801 original size:6 final size:6
Alignment explanation
Indices: 138783--138813 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
138773 CATAATGGAA
138783 TAAAAC TTAAAAC TAAAAC TAAAAC TAAAAC
1 TAAAAC -TAAAAC TAAAAC TAAAAC TAAAAC
138814 CATAATTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAC
Found at i:142249 original size:40 final size:40
Alignment explanation
Indices: 142194--142275 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
142184 CAGCAATGCC
142194 TCTGCAGACTCCTGGACTCCCTTCCTTGGGGATGACCAAG
1 TCTGCAGACTCCTGGACTCCCTTCCTTGGGGATGACCAAG
142234 TCTGCAGACTCCTGGACTCCCTTCCTTGGGGATGACCAAG
1 TCTGCAGACTCCTGGACTCCCTTCCTTGGGGATGACCAAG
142274 TC
1 TC
142276 CAAGTGCCTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.26
Consensus pattern (40 bp):
TCTGCAGACTCCTGGACTCCCTTCCTTGGGGATGACCAAG
Found at i:160502 original size:6 final size:6
Alignment explanation
Indices: 160491--160523 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
160481 TGTCAAGGAT
*
160491 AGGGGA AGGGGA AGGGGA A-GGGA AAGGGA AGGG
1 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGG
160524 AAGATCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (6 bp):
AGGGGA
Found at i:160513 original size:11 final size:11
Alignment explanation
Indices: 160491--160526 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
160481 TGTCAAGGAT
160491 AGGGGAAGGGGA
1 AGGGGAA-GGGA
160503 AGGGGAAGGGA
1 AGGGGAAGGGA
*
160514 AAGGGAAGGGA
1 AGGGGAAGGGA
160525 AG
1 AG
160527 ATCGGTGTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 15 0.68
12 7 0.32
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (11 bp):
AGGGGAAGGGA
Found at i:162675 original size:89 final size:90
Alignment explanation
Indices: 162559--162741 Score: 359
Period size: 89 Copynumber: 2.0 Consensus size: 90
162549 ATAAGTGGAA
162559 CATTAGCAATGACAAAAATAGTAAAAAATAATAAAAAGTATGATATTAATAATAATAAAATAAAA
1 CATTAGCAATGACAAAAATAGTAAAAAATAATAAAAAGTATGATATTAATAATAATAAAATAAAA
162624 TAAGATATTAACTAGAATTAATAAT
66 TAAGATATTAACTAGAATTAATAAT
162649 CATTAGCAATG-CAAAAATAGTAAAAAATAATAAAAAGTATGATATTAATAATAATAAAATAAAA
1 CATTAGCAATGACAAAAATAGTAAAAAATAATAAAAAGTATGATATTAATAATAATAAAATAAAA
162713 TAAGATATTAACTAGAATTAATAAT
66 TAAGATATTAACTAGAATTAATAAT
162738 CATT
1 CATT
162742 TAACAAAAAT
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 82 0.88
90 11 0.12
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (90 bp):
CATTAGCAATGACAAAAATAGTAAAAAATAATAAAAAGTATGATATTAATAATAATAAAATAAAA
TAAGATATTAACTAGAATTAATAAT
Found at i:162773 original size:14 final size:15
Alignment explanation
Indices: 162746--162792 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
162736 ATCATTTAAC
*
162746 AAAAATATCAACATTA
1 AAAAATAT-AACATAA
162762 AAAAATAT-ACATAA
1 AAAAATATAACATAA
*
162776 AAAAATA-AAAATAA
1 AAAAATATAACATAA
162790 AAA
1 AAA
162793 GAACTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 20 0.71
16 8 0.29
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAATATAACATAA
Found at i:164226 original size:7 final size:7
Alignment explanation
Indices: 164214--164241 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
164204 GGATTTTAGT
164214 GGGTTTA
1 GGGTTTA
164221 GGGTTTA
1 GGGTTTA
164228 GGGTTTA
1 GGGTTTA
164235 GGGTTTA
1 GGGTTTA
164242 CTGATAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:165043 original size:45 final size:45
Alignment explanation
Indices: 164935--165326 Score: 290
Period size: 45 Copynumber: 8.5 Consensus size: 45
164925 GTGAAACAAT
* * * **
164935 AAATCTTACCTCCCTGAAGTTACGGTGGAGCAGATTGAAGCCA-C
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
* * *
164979 AAAACTTATCTCCCTAAAGTTGCAGTGTAGCAGATTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
* * ** * * *
165024 AAATCTTATTTCCCTAAAGTTATAGTGGAACAGATTAAAGCTACAAGCC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG-C
* * * *
165073 ATTAATCTTATTTCCCCGAAGTTGCAATGGGGCAGATTGAAGATAGC
1 A--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
* *
165120 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAACTA-T
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAGC
* * * * * *
165164 AAATTTTATTTCCCTGAAGTTGCAGTGGAACATATT-AAAACTACAAATTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-T----A--GC
* * * *
165215 AAAATCTTATCTCTCTGAAGTTGCAGTGGAACAAATTGAAGATAGT
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
* ** *
165261 GAATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTGAAGCTA-C
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
*
165305 AAATCTTATCTTCCTGAAGTTG
1 AAATCTTATCTCCCTGAAGTTG
165327 AAGCGGAGTA
Statistics
Matches: 278, Mismatches: 53, Indels: 34
0.76 0.15 0.09
Matches are distributed among these distances:
44 94 0.34
45 105 0.38
47 3 0.01
48 6 0.02
49 3 0.01
51 31 0.11
52 33 0.12
53 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (45 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC
Found at i:165239 original size:141 final size:140
Alignment explanation
Indices: 164933--165326 Score: 427
Period size: 141 Copynumber: 2.8 Consensus size: 140
164923 TAGTGAAACA
* * * ** * *
164933 ATAAATCTTACCTCCCTGAAGTTACGGTGGAGCAGATTGAAGCCA-CAAAACTTATCTCCCTAAA
1 ATAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAA
* * * **
164997 GTTGCAGTGTAGCAGATTGAAGA-TAGCAAATCTTATTTCCCTAAAGTTATAGTGGAACAGATTA
66 GTTGCAGTGGAGCAGATT-AAAACTA-CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTA
* *
165061 AAGCTACAAGCC
129 AAACTACAAGAC
* * * * *
165073 ATTAATCTTATTTCCCCGAAGTTGCAATGGGGCAGATTGAAGATAGCAAATCTTATCTCCCTGAA
1 ATAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAA
* * *
165138 GTTGCAGTGGAGCAGATTAAAACTATAAATTTTATTTCCCTGAAGTTGCAGTGGAACATATTAAA
66 GTTGCAGTGGAGCAGATTAAAACTACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAA
*
165203 ACTACAAATTAC
131 ACTAC-AA-GAC
* * * ** **
165215 A-AAATCTTATCTCTCTGAAGTTGCAGTGGAACAAATTGAAGATAGTGAATCTTATCTCTTTGAA
1 ATAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAA
* *
165279 GTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTT-CCTGAAGTTG
66 GTTGCAGTGGAGCAGATTAAAACTACAAATCTTAT-TTCCCTGAAGTTG
165327 AAGCGGAGTA
Statistics
Matches: 210, Mismatches: 39, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
140 76 0.36
141 130 0.62
142 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (140 bp):
ATAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAA
GTTGCAGTGGAGCAGATTAAAACTACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAA
ACTACAAGAC
Found at i:169428 original size:23 final size:23
Alignment explanation
Indices: 169377--169428 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
169367 CATACATATT
*
169377 ACTTTTAAAATCTTTTATACATAG
1 ACTTTTAAAATCTTTTATA-ATAA
*
169401 A-TTTTAAAATCGTTTTGT-ATAA
1 ACTTTTAAAATC-TTTTATAATAA
169423 ACTTTT
1 ACTTTT
169429 TTATTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 4 0.17
23 14 0.58
24 6 0.25
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.50
Consensus pattern (23 bp):
ACTTTTAAAATCTTTTATAATAA
Found at i:172123 original size:21 final size:21
Alignment explanation
Indices: 172099--172141 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
172089 TAAAAAGAAG
172099 TTATATCCACAAGACTATTTA
1 TTATATCCACAAGACTATTTA
172120 TTATATCCACAAGACTATTTA
1 TTATATCCACAAGACTATTTA
172141 T
1 T
172142 ACCCTTACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (21 bp):
TTATATCCACAAGACTATTTA
Found at i:174067 original size:42 final size:40
Alignment explanation
Indices: 174008--174085 Score: 120
Period size: 42 Copynumber: 1.9 Consensus size: 40
173998 TTATGTGTCT
*
174008 TATCCAATGGTAAACCAACCTCTTGGAACAAATGTTTTAAAA
1 TATCCAATGGTAAACCAACCACTTGGAA-AAA-GTTTTAAAA
*
174050 TATCCAATGGTAAACCAACCAGTTGGAAAAAGTTTT
1 TATCCAATGGTAAACCAACCACTTGGAAAAAGTTTT
174086 TCAAATATGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 5 0.15
41 3 0.09
42 26 0.76
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (40 bp):
TATCCAATGGTAAACCAACCACTTGGAAAAAGTTTTAAAA
Found at i:184191 original size:21 final size:22
Alignment explanation
Indices: 184150--184191 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
184140 AGCAAGACTA
*
184150 AAAAAGTTATAAAATGTAAGAC
1 AAAAAGTTACAAAATGTAAGAC
*
184172 AAAAAGTTCCAAAATG-AAGA
1 AAAAAGTTACAAAATGTAAGA
184192 ATTATTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.60, C:0.07, G:0.14, T:0.19
Consensus pattern (22 bp):
AAAAAGTTACAAAATGTAAGAC
Found at i:187811 original size:264 final size:264
Alignment explanation
Indices: 187341--187868 Score: 1056
Period size: 264 Copynumber: 2.0 Consensus size: 264
187331 TTTTGGAAAA
187341 GGGGGCATATTTCATGTGAGAAAGAGAATCATATCCAGTATGTTAGGATACAATGTCTCGAATTC
1 GGGGGCATATTTCATGTGAGAAAGAGAATCATATCCAGTATGTTAGGATACAATGTCTCGAATTC
187406 CCGATACGCGAACGAATTTCAAAAATTTACTTATTTAAAAGATATTTTAGCTATCTCAGATTTAA
66 CCGATACGCGAACGAATTTCAAAAATTTACTTATTTAAAAGATATTTTAGCTATCTCAGATTTAA
187471 AAAGGATATCACGACCAGTAAGTTAGGACGCGATTTTTTAAATCTCGAGATTACTAAGAACTTGA
131 AAAGGATATCACGACCAGTAAGTTAGGACGCGATTTTTTAAATCTCGAGATTACTAAGAACTTGA
187536 GTTTGAAAAGATTCGTGTATTCAAATTTATTGTGAAAATCGAAACCCAGTAAGTTAGGGTACGAT
196 GTTTGAAAAGATTCGTGTATTCAAATTTATTGTGAAAATCGAAACCCAGTAAGTTAGGGTACGAT
187601 CTTC
261 CTTC
187605 GGGGGCATATTTCATGTGAGAAAGAGAATCATATCCAGTATGTTAGGATACAATGTCTCGAATTC
1 GGGGGCATATTTCATGTGAGAAAGAGAATCATATCCAGTATGTTAGGATACAATGTCTCGAATTC
187670 CCGATACGCGAACGAATTTCAAAAATTTACTTATTTAAAAGATATTTTAGCTATCTCAGATTTAA
66 CCGATACGCGAACGAATTTCAAAAATTTACTTATTTAAAAGATATTTTAGCTATCTCAGATTTAA
187735 AAAGGATATCACGACCAGTAAGTTAGGACGCGATTTTTTAAATCTCGAGATTACTAAGAACTTGA
131 AAAGGATATCACGACCAGTAAGTTAGGACGCGATTTTTTAAATCTCGAGATTACTAAGAACTTGA
187800 GTTTGAAAAGATTCGTGTATTCAAATTTATTGTGAAAATCGAAACCCAGTAAGTTAGGGTACGAT
196 GTTTGAAAAGATTCGTGTATTCAAATTTATTGTGAAAATCGAAACCCAGTAAGTTAGGGTACGAT
187865 CTTC
261 CTTC
187869 TCGAATCTAA
Statistics
Matches: 264, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
264 264 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.31
Consensus pattern (264 bp):
GGGGGCATATTTCATGTGAGAAAGAGAATCATATCCAGTATGTTAGGATACAATGTCTCGAATTC
CCGATACGCGAACGAATTTCAAAAATTTACTTATTTAAAAGATATTTTAGCTATCTCAGATTTAA
AAAGGATATCACGACCAGTAAGTTAGGACGCGATTTTTTAAATCTCGAGATTACTAAGAACTTGA
GTTTGAAAAGATTCGTGTATTCAAATTTATTGTGAAAATCGAAACCCAGTAAGTTAGGGTACGAT
CTTC
Found at i:188217 original size:16 final size:16
Alignment explanation
Indices: 188174--188231 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
188164 GTAAAAAGGT
*
188174 ATATATATGGATATAA
1 ATATATATGTATATAA
* * *
188190 ATTAAAATATGTATGTAT
1 A-T-ATATATGTATATAA
188208 ATATATATGTATATAA
1 ATATATATGTATATAA
188224 ATATATAT
1 ATATATAT
188232 AAATTATGCA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
16 20 0.61
17 2 0.06
18 11 0.33
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (16 bp):
ATATATATGTATATAA
Found at i:188694 original size:3 final size:3
Alignment explanation
Indices: 188686--188748 Score: 83
Period size: 3 Copynumber: 20.7 Consensus size: 3
188676 ATATAAGAGC
188686 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
**
188731 AATT AAT TTT AAT AAT AA
1 AA-T AAT AAT AAT AAT AA
188749 AGTAACCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
2 2 0.04
3 46 0.87
4 5 0.09
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:189320 original size:12 final size:13
Alignment explanation
Indices: 189297--189321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
189287 TTTCTTCTTG
189297 AATCCTTTTTTTT
1 AATCCTTTTTTTT
189310 AATCCTTTTTTT
1 AATCCTTTTTTT
189322 CTTTTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (13 bp):
AATCCTTTTTTTT
Found at i:192612 original size:25 final size:26
Alignment explanation
Indices: 192563--192618 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
192553 ACCCTTAAAA
*
192563 GTATATATTAAAATATGCACATATAT
1 GTATATATAAAAATATGCACATATAT
**
192589 -TATATATAAAAATATGCATGTATAT
1 GTATATATAAAAATATGCACATATAT
192614 GTATA
1 GTATA
192619 GCAAATACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.39
Consensus pattern (26 bp):
GTATATATAAAAATATGCACATATAT
Found at i:194377 original size:89 final size:89
Alignment explanation
Indices: 194226--194908 Score: 458
Period size: 89 Copynumber: 7.7 Consensus size: 89
194216 AAGACTTGTA
* ** * * *
194226 TCTTCGATCTACTTCGCCACC-GATATGGGAAGACAAAATCTGCTGTCTTTGATCTACTTCACGT
1 TCTTCGATCTACTTCACCACCAG-TACAGGAAGACAAAATCTGCTTTCTTCGATCTACTTCACGC
*
194290 CAATACATGAAGACAAGATCTGCTT
65 CAATATATGAAGACAAGATCTGCTT
** * * *
194315 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAATACCTGCTTTCTTCTATCTACTTCACGCC
1 TCTTCGATCTACTTCACCACCAGTACAGGAAGACAAAATCTGCTTTCTTCGATCTACTTCACGCC
* * *
194380 AAAATTTTGAAGACAAGATCTGCTA
66 AATA-TATGAAGACAAGATCTGCTT
* * * * * * * * *
194405 TCTTCGATCTAATTCA-CGCCAATACATGAAGACAATATCTACTTTCATCGATCTACTTCGCCAC
1 TCTTCGATCTACTTCACCACCAGTACAGGAAGACAAAATCTGCTTTCTTCGATCTACTTC-ACGC
* ** *
194469 CAGTATGGGAAGACAAGATCCGCTT
65 CAATATATGAAGACAAGATCTGCTT
* * * * * *
194494 TCTTCGATCTACTTC-GCGCTAGTACATGAAGACAAAATCTGCTTTCTTCGATCTACTTCGCCAC
1 TCTTCGATCTACTTCACCACCAGTACAGGAAGACAAAATCTGCTTTCTTCGATCTACTTC-ACGC
* ** *
194558 CAGTATGGGAAGACAAGGTCTG-TT
65 CAATATATGAAGACAAGATCTGCTT
* * * * * * *
194582 ATCTTTGATTTACCTCA--AGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 -TCTTCGATCTACTTCACCA-CCAGTACAGGAAGACAAAATCTGCTTTCTTCGATCTACTTC-AC
* * ** *
194645 ACCAGTATGGGAAGATAAGATCTG-TT
63 GCCAATATATGAAGACAAGATCTGCTT
* * * * * * *
194671 ATCTTTGATCTACTTCA-CGCCAGTACATGAAGACAATATCTACTTTCTTCGATCTACTTCGTCA
1 -TCTTCGATCTACTTCACCACCAGTACAGGAAGACAAAATCTGCTTTCTTCGATCTACTTC-ACG
* **
194735 CCAGTATGGGAAGACAAGATCTG-TT
64 CCAATATATGAAGACAAGATCTGCTT
** * * * * * * *
194760 GTCTTTAATCTACTTTA-CGCTAGTACATGAAGACAAGATCTACTTTCTTCGATCTACTT--CTC
1 -TCTTCGATCTACTTCACCACCAGTACAGGAAGACAAAATCTGCTTTCTTCGATCTACTTCACGC
* *
194822 CACTAGTATGGGAAGACAAGATTTG-TT
65 CAATA-TAT--GAAGACAAGATCTGCTT
* * * * *
194849 ATCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTC
1 -TCTTCGATCTACTTCACCACCAGTACAGGAAGACAAAATCTGCTTTCTTCGATCTACTTC
194909 GCCACCAGTA
Statistics
Matches: 514, Mismatches: 68, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
86 6 0.01
87 1 0.00
88 2 0.00
89 467 0.91
90 38 0.07
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (89 bp):
TCTTCGATCTACTTCACCACCAGTACAGGAAGACAAAATCTGCTTTCTTCGATCTACTTCACGCC
AATATATGAAGACAAGATCTGCTT
Found at i:194469 original size:134 final size:133
Alignment explanation
Indices: 194254--195020 Score: 545
Period size: 134 Copynumber: 5.7 Consensus size: 133
194244 ACCGATATGG
* * * *
194254 GAAGACAAAATCTGCTGTCTTTGATCTACTTCACGTCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAAATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTT
* * *
194319 CGATCTACTTCACCACCAGTATGGGAAGACAATACCTGCTTTCTTCTATCTACTTCACGCCAAAA
66 CGATCTACTTCGCCACCAGTATGGGAAGACAAGACCTGCTTTCTTCGATCTACTTC-CGCCAAAA
*
194384 TTTT
130 TTAT
* * * *
194388 GAAGACAAGATCTGCTATCTTCGATCTAATTCACGCCAATACATGAAGACAATATCTACTTTCAT
1 GAAGACAAAATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTT
* **
194453 CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCC-GCTTTCTTCGATCTACTTCGCGCTAGT
66 CGATCTACTTCGCCACCAGTATGGGAAGACAAGA-CCTGCTTTCTTCGATCTACTTC-CGCCAAA
*
194517 A-CAT
129 ATTAT
* * * * *** * *
194521 GAAGACAAAATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGGTCT-GTTATC
1 GAAGACAAAATCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTACTT-TC
* * * * * *** * *
194585 TTTGATTTAC--CTCAAGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTT-CGCCAC
64 TTCGATCTACTTCGCCA-CCAGTATGGGAAGACAAGACCTGCTTTCTTCGATCTACTTCCGCCAA
* *
194647 CAGTAT
128 AATTAT
* * * * * *
194653 GGGAAGATAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCTACTTTC
1 --GAAGACAAAATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTC
* * ** * *
194718 TTCGATCTACTTCGTCACCAGTATGGGAAGACAAGATCTG-TTGTCTTTAATCTACTTTACGCTA
64 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGACCTGCTT-TCTTCGATCTAC-TTCCGCCA
** *
194782 GTA-CAT
127 AAATTAT
* * * * * * **
194788 GAAGACAAGATCTACTTTCTTCGATCTACTT--CTCCACTAGTATGGGAAGACAAGAT-TTGTTA
1 GAAGACAAAATCTGCTATCTTCGATCTACTTCACGCCAATA-CAT--GAAGACAAGATCTACTT-
* * * *** * *
194850 TCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTT-CGCCA
62 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGACCTGCTTTCTTCGATCTACTTCCGCCA
** *
194913 CCAGTAT
127 AAATTAT
** * ** * * * * * *
194920 GGGAAGACAAGGTCTGTTATCTTTAATCTACCTCACGCCAGTACATGAAAACAAGAACT-GTTTT
1 --GAAGACAAAATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTC
194984 TTCCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
64 TT-CGATCTACTTCGCCACCAGTATGGGAAGACAAGA
195021 TCTACTGCTA
Statistics
Matches: 493, Mismatches: 113, Indels: 54
0.75 0.17 0.08
Matches are distributed among these distances:
131 16 0.03
132 15 0.03
133 177 0.36
134 264 0.54
135 10 0.02
136 11 0.02
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (133 bp):
GAAGACAAAATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTT
CGATCTACTTCGCCACCAGTATGGGAAGACAAGACCTGCTTTCTTCGATCTACTTCCGCCAAAAT
TAT
Found at i:194919 original size:89 final size:89
Alignment explanation
Indices: 194298--195023 Score: 931
Period size: 89 Copynumber: 8.1 Consensus size: 89
194288 GTCAATACAT
* * *** * *
194298 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACCACCAGTATGGGAAGACAATACCTGCTTTC
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTTTC
* * * **
194362 TTCTATCTACTTCACGCCA-AAAT-TTT
64 TTCGATCTACTT--CGCCACCAGTATGG
* * * * * * *
194388 GAAGACAAGATCTGCTATCTTCGATCTAATTCACGCCAATACATGAAGACAATATCTACTTTCAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
194453 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * * * *
194477 GAAGACAAGATCCGCTT-TCTTCGATCTACTTCGCGCTAGTACATGAAGACAAAATCTGCTTTCT
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
194541 TCGATCTACTTCGCCACCAGTATGG
65 TCGATCTACTTCGCCACCAGTATGG
* * * * *
194566 GAAGACAAGGTCTGTTATCTTTGATTTACCTCAAGCTAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
194631 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * *
194655 GAAGATAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCTACTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
*
194720 CGATCTACTTCGTCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * * * *
194744 GAAGACAAGATCTGTTGTCTTTAATCTACTTTACGCTAGTACATGAAGACAAGATCTACTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
194809 CGATCTACTTCTCCACTAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* *
194833 GAAGACAAGATTTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
194898 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * * * * *
194922 GAAGACAAGGTCTGTTATCTTTAATCTACCTCACGCCAGTACATGAAAACAAGAACTG-TTTTTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
194986 CCGATCTACTTCGCCACCAGTATGG
66 -CGATCTACTTCGCCACCAGTATGG
195011 GAAGACAAGATCT
1 GAAGACAAGATCT
195024 ACTGCTACTC
Statistics
Matches: 563, Mismatches: 67, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
87 5 0.01
88 9 0.02
89 519 0.92
90 30 0.05
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (89 bp):
GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGCCACCAGTATGG
Found at i:194981 original size:44 final size:44
Alignment explanation
Indices: 194254--194997 Score: 477
Period size: 45 Copynumber: 16.7 Consensus size: 44
194244 ACCGATATGG
* * * * *
194254 GAAGACAAAATCTGCTGTCTTTGATCTACTTCACGTCAATACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * ***
194298 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTCA-CGCCAGTACAT
* * ** **
194343 GAAGACAATACCTGCTT-TCTTCT-ATCTACTTCACGCCAAAATTTT
1 GAAGACAAGATCTG-TTATCTT-TGATCTACTTCACGCCAGTA-CAT
* * * *
194388 GAAGACAAGATCTGCTATCTTCGATCTAATTCACGCCAATACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * * * * * ***
194432 GAAGACAATATCTACTT-TCATCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCT-GTTATCTTTGATCTACTTC-ACGCCAGTACAT
* * * *
194477 GAAGACAAGATCCGCTT-TCTTCGATCTACTTCGCGCTAGTACAT
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACAT
* * * * ***
194521 GAAGACAAAATCTGCTT-TCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTC-ACGCCAGTACAT
* * * * *
194566 GAAGACAAGGTCTGTTATCTTTGATTTACCTCAAGCTAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * * ***
194610 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTC-ACGCCAGTACAT
*
194655 GAAGATAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * * * * ***
194699 GAAGACAATATCTACTT-TCTTCGATCTACTTCGTCACCAGTATGG
1 GAAGACAAGATCT-GTTATCTTTGATCTACTTC-ACGCCAGTACAT
* * * *
194744 GAAGACAAGATCTGTTGTCTTTAATCTACTTTACGCTAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * * ***
194788 GAAGACAAGATCTACTT-TCTTCGATCTACTTCTC-CACTAGTATGG
1 GAAGACAAGATCT-GTTATCTTTGATCTACTTCACGC-C-AGTACAT
*
194833 GAAGACAAGATTTGTTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* * * * ***
194877 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGTTATCTTTGATCTACTTC-ACGCCAGTACAT
* * *
194922 GAAGACAAGGTCTGTTATCTTTAATCTACCTCACGCCAGTACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
* *
194966 GAAAACAAGAACTGTT-T-TTTCCGATCTACTTC
1 GAAGACAAGATCTGTTATCTTT--GATCTACTTC
194998 GCCACCAGTA
Statistics
Matches: 532, Mismatches: 143, Indels: 50
0.73 0.20 0.07
Matches are distributed among these distances:
42 3 0.01
43 2 0.00
44 259 0.49
45 267 0.50
46 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (44 bp):
GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:196320 original size:20 final size:21
Alignment explanation
Indices: 196297--196343 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
196287 TTAGCCTCTC
*
196297 CATTTTACTTTTTCAT-TTTT
1 CATTTTACATTTTCATCTTTT
*
196317 CATTTTTCATTTTCATCTTTT
1 CATTTTACATTTTCATCTTTT
196338 CATTTT
1 CATTTT
196344 TTTCACATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (21 bp):
CATTTTACATTTTCATCTTTT
Found at i:196345 original size:8 final size:7
Alignment explanation
Indices: 196305--196344 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
196295 TCCATTTTAC
196305 TTTTTCA
1 TTTTTCA
196312 TTTTTCA
1 TTTTTCA
196319 TTTTTCA
1 TTTTTCA
196326 -TTTTCA
1 TTTTTCA
196332 TCTTTTCA
1 T-TTTTCA
196340 TTTTT
1 TTTTT
196345 TTCACATCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 18 0.58
8 7 0.23
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:197279 original size:22 final size:22
Alignment explanation
Indices: 197254--197296 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
197244 GGTTTGGCAG
*
197254 AAAATATCCAAAAGAATGAAAA
1 AAAAAATCCAAAAGAATGAAAA
**
197276 AAAAAATCGTAAAGAATGAAA
1 AAAAAATCCAAAAGAATGAAA
197297 GAACATTTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.07, G:0.12, T:0.14
Consensus pattern (22 bp):
AAAAAATCCAAAAGAATGAAAA
Found at i:199673 original size:17 final size:17
Alignment explanation
Indices: 199647--199681 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
199637 TTCTATGATG
199647 AAATGCCATGCAGTCAA
1 AAATGCCATGCAGTCAA
*
199664 AAATGTCATGCAGTCAA
1 AAATGCCATGCAGTCAA
199681 A
1 A
199682 GCAAAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (17 bp):
AAATGCCATGCAGTCAA
Found at i:201292 original size:17 final size:18
Alignment explanation
Indices: 201270--201311 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
201260 TATATAGTAT
*
201270 AAAGTATAA-AAAAAAGG
1 AAAGTATAATAAAAAAAG
*
201287 AAAGTAAAATAAAAAAAG
1 AAAGTATAATAAAAAAAG
201305 AAAGTAT
1 AAAGTAT
201312 GTATGCGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (18 bp):
AAAGTATAATAAAAAAAG
Found at i:203170 original size:89 final size:89
Alignment explanation
Indices: 203010--203851 Score: 1282
Period size: 89 Copynumber: 9.5 Consensus size: 89
203000 AAGACTTGTA
* * * *
203010 TCTTTGATCTACTTCGCCACC-GATATGGGAAGACAAGATCTGATGTCTTTGATCTACTTCACGT
1 TCTTCGATCTACTTCGCCACCAG-TATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGC
* *
203074 CAATACATAAAGACAAGATCTGCTT
65 CAGTACATGAAGACAAGATCTGCTT
* *
203099 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCCGCTT-TCTTCGATCTACTTCACGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTATCTTTGATCTACTTCACGC
*
203163 TAGTACATGAAGACAAGATCTGCTT
65 CAGTACATGAAGACAAGATCTGCTT
* *
203188 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGGTCTGTTATCTTTGATCTACCTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
** *
203253 AGTACATGAAGATGAGATCTACTT
66 AGTACATGAAGACAAGATCTGCTT
* *
203277 TCTTCGATCTACTTCTCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCAACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
203342 AGTACATGAAGACAAGATCTTG-TT
66 AGTACATGAAGACAAGATC-TGCTT
*
203366 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCAACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
203431 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* * * * *
203455 TCTTCGATCTGCTTCGCCGCCAGTATGGGAAGAAAAGATCTATTATCTTTGATCTACTTCGCGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
* *
203520 TGTACATGAAGACAAGATTTGCTT
66 AGTACATGAAGACAAGATCTGCTT
*
203544 TCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
* * *
203609 AATAAATGAAGACAAGATCT-ATT
66 AGTACATGAAGACAAGATCTGCTT
203632 ATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGC
1 -TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGC
* * *
203697 CAATAAATGAAGACAAGATCT-ATT
65 CAGTACATGAAGACAAGATCTGCTT
203721 ATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGC
1 -TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGC
* *
203786 CAGTACAAGAAGACAAGATCTACTT
65 CAGTACATGAAGACAAGATCTGCTT
*
203811 T-TTCCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
1 TCTT-CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
203852 ACTGCTACTC
Statistics
Matches: 697, Mismatches: 48, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
88 8 0.01
89 684 0.98
90 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (89 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGCTT
Found at i:205148 original size:14 final size:15
Alignment explanation
Indices: 205131--205163 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
205121 TCCATTTTAC
205131 TTTTTCAT-TTTTCA
1 TTTTTCATCTTTTCA
205145 -TTTTCATCTTTTCA
1 TTTTTCATCTTTTCA
205159 TTTTT
1 TTTTT
205164 TCACATCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:205166 original size:8 final size:7
Alignment explanation
Indices: 205131--205163 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
205121 TCCATTTTAC
205131 TTTTTCA
1 TTTTTCA
205138 TTTTTCA
1 TTTTTCA
205145 -TTTTCA
1 TTTTTCA
205151 TCTTTTCA
1 T-TTTTCA
205159 TTTTT
1 TTTTT
205164 TCACATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:205233 original size:13 final size:14
Alignment explanation
Indices: 205215--205245 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
205205 TCATACTGCC
205215 CTAAGGCGAATA-T
1 CTAAGGCGAATACT
205228 CTAAGGCGAATACT
1 CTAAGGCGAATACT
205242 CTAA
1 CTAA
205246 CAACTGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (14 bp):
CTAAGGCGAATACT
Found at i:209100 original size:17 final size:18
Alignment explanation
Indices: 209078--209119 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
209068 TATATAGTAT
*
209078 AAAGTATAA-AAAAAAGG
1 AAAGTATAATAAAAAAAG
*
209095 AAAGTAAAATAAAAAAAG
1 AAAGTATAATAAAAAAAG
209113 AAAGTAT
1 AAAGTAT
209120 GTATGCGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (18 bp):
AAAGTATAATAAAAAAAG
Found at i:209207 original size:25 final size:26
Alignment explanation
Indices: 209158--209213 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
209148 ACCCTTAAAA
*
209158 GTATATATTAAAATATGCACTTATAT
1 GTATATATAAAAATATGCACTTATAT
*
209184 -TATATATAAAAATATGC-GTGTATAT
1 GTATATATAAAAATATGCACT-TATAT
209209 GTATA
1 GTATA
209214 GCAAATACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 1 0.04
25 21 0.81
26 4 0.15
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (26 bp):
GTATATATAAAAATATGCACTTATAT
Found at i:210975 original size:89 final size:90
Alignment explanation
Indices: 210818--211757 Score: 1206
Period size: 89 Copynumber: 10.5 Consensus size: 90
210808 AAGACTTGTA
* * *
210818 TCTTTGATCTACTTCGCCACC-GATATGGGAAGACAAGATCT-GATGTCTTTGATCTACTTCACG
1 TCTTCGATCTACTTCGCCACCAG-TATGGGAAGACAAGATCTAGTTATCTTTGATCTACTTCACG
* * * *
210881 TCAATACATAAAGACAAGATCTACTT
65 CCAGTACATGAAGACAAGATCTGCTT
** * * *
210907 TCTTCGATCTACTTCATCACCAGTATGGGAAGACAAGACCTACTT-TCTTCGATCTACTTCACGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAGTTATCTTTGATCTACTTCACGC
* * *
210971 CAATATATGAAGACAAGATCTGCTA
66 CAGTACATGAAGACAAGATCTGCTT
* * *** *
210996 TCTTCGATCTACTTC-ACACCAATACATGAAGACAAGATCT-GCTT-TCTTCGATCTACTTCACC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAG-TTATCTTTGATCTACTTCA-C
* *** *
211058 ACCAGTATGGGAAGACAAGNCGAGATCTACTT
64 GCCAGTACATGAAGAC-A----AGATCTGCTT
* * *
211090 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATAT-GTTATCTTTGATCAACTTTACGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAGTTATCTTTGATCTACTTCACGC
* *
211154 CAGTACATGAAGAAAAGATCTGGTT
66 CAGTACATGAAGACAAGATCTGCTT
* * * *
211179 TCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATAT-GTTGTCTTTGATCTATTTCACGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAGTTATCTTTGATCTACTTCACGC
211243 CAGTACATGAAGACAAGATCTGCTT
66 CAGTACATGAAGACAAGATCTGCTT
* *
211268 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATAT-GTTATCTTTGATCTACTTCGCGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAGTTATCTTTGATCTACTTCACGC
* * *
211332 CTGTACATGAAGATAAGATTTGCTT
66 CAGTACATGAAGACAAGATCTGCTT
*
211357 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT-GTTATCTTTGATTTACTTCACGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAGTTATCTTTGATCTACTTCACGC
*
211421 TAGTACATGAAGACAAGATCTGCTT
66 CAGTACATGAAGACAAGATCTGCTT
* *
211446 TCTTCGATCTACCTCGCCACCAGTATGGGAAGACAAGATCT-GTTATTTTTGATCTACTTCACGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAGTTATCTTTGATCTACTTCACGC
* *
211510 CATTACATGAAGACAAGATCTGTTT
66 CAGTACATGAAGACAAGATCTGCTT
* *
211535 TCTTCGATCTACTTCGCCACCGGTATGGGAAGACAAGATCT-GTTATCTTTGATCTGCTTCACGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAGTTATCTTTGATCTACTTCACGC
*
211599 GAGTACATGAAGACAAGATCTGCTT
66 CAGTACATGAAGACAAGATCTGCTT
* *
211624 TCTTCGATCTACCTCGCCACCAGTATGGGAAGACAAGATCT-GTTATCTTTAATCTACTTCACGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAGTTATCTTTGATCTACTTCACGC
* *
211688 CAGTACACGAAGACAAGATCTGATT
66 CAGTACATGAAGACAAGATCTGCTT
* * *
211713 TCTTCGATCTACTTCGCCACCAATATGGGAGGATAAGATCT-GTTA
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAGTTA
211758 CACCACCAGT
Statistics
Matches: 754, Mismatches: 86, Indels: 22
0.87 0.10 0.03
Matches are distributed among these distances:
88 37 0.05
89 643 0.85
90 3 0.00
93 1 0.00
94 37 0.05
95 33 0.04
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (90 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAGTTATCTTTGATCTACTTCACGC
CAGTACATGAAGACAAGATCTGCTT
Found at i:211094 original size:50 final size:44
Alignment explanation
Indices: 210818--211753 Score: 614
Period size: 44 Copynumber: 20.9 Consensus size: 44
210808 AAGACTTGTA
* * *
210818 TCTTTGATCTACTTCGCCACC-GATATGGGAAGACAAGATCTGA-TG
1 TCTTCGATCTACTTC-ACACCAG-TATGGGAAGACAAGATCT-ACTT
* ** * ****
210863 TCTTTGATCTACTTCACGTCAATACATAAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCTACTT
*
210907 TCTTCGATCTACTTCATCACCAGTATGGGAAGACAAGACCTACTT
1 TCTTCGATCTACTTCA-CACCAGTATGGGAAGACAAGATCTACTT
* * ** * *
210952 TCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCTACTT
* *** *
210996 TCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCTACTT
211040 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGNCGAGATCTACTT
1 TCTTCGATCTACTTCA-CACCAGTATGGGAAGAC-A----AGATCTACTT
* * *
211090 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATAT-GTT
1 TCTTCGATCTACTTC-ACACCAGTATGGGAAGACAAGATCTACTT
* * * * *** * **
211134 ATCTTTGATCAACTTTACGCCAGTACATGAAGAAAAGATCTGGTT
1 -TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCTACTT
* * * *
211179 TCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATAT-GTT
1 TCTTCGATCTACTTC-ACACCAGTATGGGAAGACAAGATCTACTT
* * * *** *
211223 GTCTTTGATCTATTTCACGCCAGTACATGAAGACAAGATCTGCTT
1 -TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCTACTT
* * *
211268 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATAT-GTT
1 TCTTCGATCTACTTC-ACACCAGTATGGGAAGACAAGATCTACTT
* * * * *** * * *
211312 ATCTTTGATCTACTTCGCGCCTGTACATGAAGATAAGATTTGCTT
1 -TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCTACTT
* *
211357 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT-GTT
1 TCTTCGATCTACTTC-ACACCAGTATGGGAAGACAAGATCTACTT
* * * * *** *
211401 ATCTTTGATTTACTTCACGCTAGTACATGAAGACAAGATCTGCTT
1 -TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCTACTT
* * *
211446 TCTTCGATCTACCTCGCCACCAGTATGGGAAGACAAGATCT-GTT
1 TCTTCGATCTACTTC-ACACCAGTATGGGAAGACAAGATCTACTT
* * * * *** **
211490 ATTTTTGATCTACTTCACGCCATTACATGAAGACAAGATCTGTTT
1 -TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCTACTT
* * *
211535 TCTTCGATCTACTTCGCCACCGGTATGGGAAGACAAGATCT-GTT
1 TCTTCGATCTACTTC-ACACCAGTATGGGAAGACAAGATCTACTT
* * * * *** *
211579 ATCTTTGATCTGCTTCACGCGAGTACATGAAGACAAGATCTGCTT
1 -TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCTACTT
* * *
211624 TCTTCGATCTACCTCGCCACCAGTATGGGAAGACAAGATCT-GTT
1 TCTTCGATCTACTTC-ACACCAGTATGGGAAGACAAGATCTACTT
** * ***
211668 ATCTTTAATCTACTTCACGCCAGTACACGAAGACAAGATCTGA-TT
1 -TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCT-ACTT
* * * *
211713 TCTTCGATCTACTTCGCCACCAATATGGGAGGATAAGATCT
1 TCTTCGATCTACTTC-ACACCAGTATGGGAAGACAAGATCT
211754 GTTACACCAC
Statistics
Matches: 687, Mismatches: 172, Indels: 64
0.74 0.19 0.07
Matches are distributed among these distances:
43 1 0.00
44 343 0.50
45 300 0.44
46 1 0.00
49 1 0.00
50 41 0.06
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCTACTT
Found at i:211843 original size:120 final size:120
Alignment explanation
Indices: 211640--211860 Score: 345
Period size: 120 Copynumber: 1.8 Consensus size: 120
211630 ATCTACCTCG
* *
211640 CCACCAGTATGGGAAGACAAGATCTGTTATCTTTAATCTACTTCACGCCAGTACACGAAGACAAG
1 CCACCAGTATGGGAAAACAAGATCTGCTATCTTTAATCTACTTCACGCCAGTACACGAAGACAAG
*
211705 ATCTGATTTCTTCGATCTACTTCGCCACCAATATGGGAGGATAAGATCTGTTACA
66 ATCTGATTTCTTCAATCTACTTCGCCACCAATATGGGAGGATAAGATCTGTTACA
* * * * *
211760 CCACCAGTATGGGAAAACAGGATTTGCTATCTTTGATCTACTTCACGCCTGTACATGAAGACAAG
1 CCACCAGTATGGGAAAACAAGATCTGCTATCTTTAATCTACTTCACGCCAGTACACGAAGACAAG
*
211825 ATCT-ACTTTCTTCAATCTACTTCGCCACCAGTATGG
66 ATCTGA-TTTCTTCAATCTACTTCGCCACCAATATGG
211861 AAAGAGAAGA
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
119 1 0.01
120 90 0.99
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (120 bp):
CCACCAGTATGGGAAAACAAGATCTGCTATCTTTAATCTACTTCACGCCAGTACACGAAGACAAG
ATCTGATTTCTTCAATCTACTTCGCCACCAATATGGGAGGATAAGATCTGTTACA
Found at i:211911 original size:89 final size:89
Alignment explanation
Indices: 211758--212318 Score: 761
Period size: 89 Copynumber: 6.3 Consensus size: 89
211748 AGATCTGTTA
* * * *
211758 CACCACCAGTATGGGAAA-ACAGGATTTGCTATCTTTGATCTACTTCACGCCTGTACATGAAGAC
1 CACCACCAGTAT-GGAAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* *
211822 AAGATCTACTTTCTTCAATCTACTT
65 AAGATCTGCTTTCTTCGATCTACTT
* * * *
211847 CGCCACCAGTATGGAAAGAGAAGATATGTTATCTTTGATCTACATCACGCCAGTACATGAAGACA
1 CACCACCAGTATGGAAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACA
* *
211912 ATATCTGCTTTCTTGGATCTACTT
66 AGATCTGCTTTCTTCGATCTACTT
* * * *
211936 CGCCACCAGTATGGGAAA-ACAAGATCTGTTATATTTTATCTACTTCACGCCAGTACATGAAGAT
1 CACCACCAGTAT-GGAAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
* *
212000 AAGACCTGTTTTCTTCGATCTACTT
65 AAGATCTGCTTTCTTCGATCTACTT
* * * *
212025 CACCACTAGCATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGACA
1 CACCACCAGTATGGAAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACA
*
212090 AGATCTGCTTTCTTTGATCTACTT
66 AGATCTGCTTTCTTCGATCTACTT
*
212114 CACCACCAGTATAGG-AAGACAAGATCTGTTATATTTGATCTACTTCACGCCAGTACATGAAGAC
1 CACCACCAGTAT-GGAAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
*
212178 AAGATCT-ATTATCTTCGATCTACTT
65 AAGATCTGCTT-TCTTCGATCTACTT
* * * *
212203 CGCCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCTCCTTCACGCCAGTACATGAAGACA
1 CACCACCAGTATGGAAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACA
* *
212268 AGATCTGCTTTTTTTGATCTACTT
66 AGATCTGCTTTCTTCGATCTACTT
* *
212292 CACCACCAGTATGGGAAGAAAAGATCT
1 CACCACCAGTATGGAAAGACAAGATCT
212319 ACTGCTACTC
Statistics
Matches: 417, Mismatches: 48, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
88 13 0.03
89 395 0.95
90 9 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (89 bp):
CACCACCAGTATGGAAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACA
AGATCTGCTTTCTTCGATCTACTT
Found at i:211933 original size:209 final size:209
Alignment explanation
Indices: 211551--211966 Score: 616
Period size: 209 Copynumber: 2.0 Consensus size: 209
211541 ATCTACTTCG
* * * * *
211551 CCACCGGTATGGGAAGACAAGATCTGTTATCTTTGATCTGCTTCACGCGAGTACATGAAGACAAG
1 CCACCAGTATGGGAAAACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAG
* * * *
211616 ATCTGCTTTCTTCGATCTACCTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTAATCTAC
66 ATCTACTTTCTTCAATCTACCTCGCCACCAGTATGGAAAGACAAGATATGTTATCTTTAATCTAC
* **
211681 TTCACGCCAGTACACGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATGGGAGGA
131 ATCACGCCAGTACACGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATGGGAAAA
*
211746 TAAGATCTGTTACA
196 CAAGATCTGTTACA
* * *
211760 CCACCAGTATGGGAAAACAGGATTTGCTATCTTTGATCTACTTCACGCCTGTACATGAAGACAAG
1 CCACCAGTATGGGAAAACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAG
* * *
211825 ATCTACTTTCTTCAATCTACTTCGCCACCAGTATGGAAAGAGAAGATATGTTATCTTTGATCTAC
66 ATCTACTTTCTTCAATCTACCTCGCCACCAGTATGGAAAGACAAGATATGTTATCTTTAATCTAC
* * * * *
211890 ATCACGCCAGTACATGAAGACAATATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAAA
131 ATCACGCCAGTACACGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATGGGAAAA
211955 CAAGATCTGTTA
196 CAAGATCTGTTA
211967 TATTTTATCT
Statistics
Matches: 183, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
209 183 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (209 bp):
CCACCAGTATGGGAAAACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAG
ATCTACTTTCTTCAATCTACCTCGCCACCAGTATGGAAAGACAAGATATGTTATCTTTAATCTAC
ATCACGCCAGTACACGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATGGGAAAA
CAAGATCTGTTACA
Found at i:212059 original size:178 final size:178
Alignment explanation
Indices: 211758--212318 Score: 854
Period size: 178 Copynumber: 3.2 Consensus size: 178
211748 AGATCTGTTA
* * * * *
211758 CACCACCAGTATGGGAAAACAGGATTTGCTATCTTTGATCTACTTCACGCCTGTACATGAAGACA
1 CACCACCAGTATGGGAAAACAAGATCTGTTATATTTGATCTACTTCACGCCAGTACATGAAGACA
* * * * *
211823 AGATCTACTTTCTTCAATCTACTTCGCCACCAGTATGGAAAGAGAAGATATGTTATCTTTGATCT
66 AGATCTATTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCT
* * *
211888 ACATCACGCCAGTACATGAAGACAATATCTGCTTTCTTGGATCTACTT
131 ACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTT
* * *
211936 CGCCACCAGTATGGGAAAACAAGATCTGTTATATTTTATCTACTTCACGCCAGTACATGAAGATA
1 CACCACCAGTATGGGAAAACAAGATCTGTTATATTTGATCTACTTCACGCCAGTACATGAAGACA
* * * * *
212001 AGACCTGTTTTCTTCGATCTACTTCACCACTAGCATGGGAAGACAAGATCTGTTATCTTTGATCT
66 AGATCTATTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCT
*
212066 ACTTCACACCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTT
131 ACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTT
* *
212114 CACCACCAGTATAGGAAGACAAGATCTGTTATATTTGATCTACTTCACGCCAGTACATGAAGACA
1 CACCACCAGTATGGGAAAACAAGATCTGTTATATTTGATCTACTTCACGCCAGTACATGAAGACA
* *
212179 AGATCTATTATCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTTATCTTTGATCT
66 AGATCTATTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCT
* *
212244 CCTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTTTGATCTACTT
131 ACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTT
212292 CACCACCAGTATGGGAAGAA-AAGATCT
1 CACCACCAGTATGGGAA-AACAAGATCT
212319 ACTGCTACTC
Statistics
Matches: 343, Mismatches: 39, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
178 342 1.00
179 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (178 bp):
CACCACCAGTATGGGAAAACAAGATCTGTTATATTTGATCTACTTCACGCCAGTACATGAAGACA
AGATCTATTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCT
ACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTT
Found at i:212178 original size:476 final size:476
Alignment explanation
Indices: 211284--212233 Score: 1526
Period size: 476 Copynumber: 2.0 Consensus size: 476
211274 ATCTACTTCG
* * * *
211284 CCACCAGTATGGGAAGACAAGATATGTTATCTTTGATCTACTTCGCGCCTGTACATGAAGATAAG
1 CCACCAGTATGGGAAAACAAGATATGCTATCTTTGATCTACTTCACGCCTGTACATGAAGACAAG
* * * * * *
211349 ATTTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATTTAC
66 ATCTACTTTCTTCAATCTACTTCGCCACCAGTATGGAAAGACAAGATATGTTATCTTTGATCTAC
* * *
211414 TTCACGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACCTCGCCACCAGTATGGGAAGA
131 ATCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACCTCGCCACCAGTATGGGAAAA
* *
211479 CAAGATCTGTTATTTTTGATCTACTTCACGCCATTACATGAAGACAAGATCTGTTTTCTTCGATC
196 CAAGATCTGTTATTTTTGATCTACTTCACGCCAGTACATGAAGACAAGACCTGTTTTCTTCGATC
* * * * * *
211544 TACTTCGCCACCGGTATGGGAAGACAAGATCTGTTATCTTTGATCTGCTTCACGCGAGTACATGA
261 TACTTCACCACCAGCATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGA
* * *
211609 AGACAAGATCTGCTTTCTTCGATCTACCTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT
326 AGACAAGATCTGCTTTCTTCGATCTACCTCACCACCAGTATAGGAAGACAAGATCTGTTATATTT
211674 AATCTACTTCACGCCAGTACACGAAGACAAGATCTGATT-TCTTCGATCTACTTCGCCACCAATA
391 AATCTACTTCACGCCAGTACACGAAGACAAGATCT-ATTATCTTCGATCTACTTCGCCACCAATA
* *
211738 TGGGAGGATAAGATCTGTTACA
455 TGGGAAGACAAGATCTGTTACA
* *
211760 CCACCAGTATGGGAAAACAGGATTTGCTATCTTTGATCTACTTCACGCCTGTACATGAAGACAAG
1 CCACCAGTATGGGAAAACAAGATATGCTATCTTTGATCTACTTCACGCCTGTACATGAAGACAAG
*
211825 ATCTACTTTCTTCAATCTACTTCGCCACCAGTATGGAAAGAGAAGATATGTTATCTTTGATCTAC
66 ATCTACTTTCTTCAATCTACTTCGCCACCAGTATGGAAAGACAAGATATGTTATCTTTGATCTAC
* * *
211890 ATCACGCCAGTACATGAAGACAATATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGGGAAAA
131 ATCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACCTCGCCACCAGTATGGGAAAA
*
211955 CAAGATCTGTTATATTTT-ATCTACTTCACGCCAGTACATGAAGATAAGACCTGTTTTCTTCGAT
196 CAAGATCTGTTAT-TTTTGATCTACTTCACGCCAGTACATGAAGACAAGACCTGTTTTCTTCGAT
*
212019 CTACTTCACCACTAGCATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATG
260 CTACTTCACCACCAGCATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATG
* *
212084 AAGACAAGATCTGCTTTCTTTGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGTTATATT
325 AAGACAAGATCTGCTTTCTTCGATCTACCTCACCACCAGTATAGGAAGACAAGATCTGTTATATT
* *
212149 TGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTATCTTCGATCTACTTCGCCACCAATA
390 TAATCTACTTCACGCCAGTACACGAAGACAAGATCTATTATCTTCGATCTACTTCGCCACCAATA
212214 TGGGAAGACAAGATCTGTTA
455 TGGGAAGACAAGATCTGTTA
212234 TCTTTGATCT
Statistics
Matches: 434, Mismatches: 38, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
475 3 0.01
476 427 0.98
477 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (476 bp):
CCACCAGTATGGGAAAACAAGATATGCTATCTTTGATCTACTTCACGCCTGTACATGAAGACAAG
ATCTACTTTCTTCAATCTACTTCGCCACCAGTATGGAAAGACAAGATATGTTATCTTTGATCTAC
ATCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACCTCGCCACCAGTATGGGAAAA
CAAGATCTGTTATTTTTGATCTACTTCACGCCAGTACATGAAGACAAGACCTGTTTTCTTCGATC
TACTTCACCACCAGCATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGA
AGACAAGATCTGCTTTCTTCGATCTACCTCACCACCAGTATAGGAAGACAAGATCTGTTATATTT
AATCTACTTCACGCCAGTACACGAAGACAAGATCTATTATCTTCGATCTACTTCGCCACCAATAT
GGGAAGACAAGATCTGTTACA
Found at i:213618 original size:14 final size:15
Alignment explanation
Indices: 213601--213633 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
213591 TCCATTTTAC
213601 TTTTTCAT-TTTTCA
1 TTTTTCATCTTTTCA
213615 -TTTTCATCTTTTCA
1 TTTTTCATCTTTTCA
213629 TTTTT
1 TTTTT
213634 TCACATCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:213636 original size:8 final size:7
Alignment explanation
Indices: 213601--213633 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
213591 TCCATTTTAC
213601 TTTTTCA
1 TTTTTCA
213608 TTTTTCA
1 TTTTTCA
213615 -TTTTCA
1 TTTTTCA
213621 TCTTTTCA
1 T-TTTTCA
213629 TTTTT
1 TTTTT
213634 TCACATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:214592 original size:19 final size:19
Alignment explanation
Indices: 214568--214607 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
214558 GGTTTGGTAG
214568 AAAAAATCCAAAAGAATGA
1 AAAAAATCCAAAAGAATGA
**
214587 AAAAAATCGTAAAGAATGA
1 AAAAAATCCAAAAGAATGA
214606 AA
1 AA
214608 GAACATTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.12
Consensus pattern (19 bp):
AAAAAATCCAAAAGAATGA
Found at i:218794 original size:20 final size:20
Alignment explanation
Indices: 218752--218794 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
218742 ATAATGTAAC
* **
218752 ATAATAATAGTAATAATGGT
1 ATAATAATAGTAAAAAAAGT
*
218772 ATAATAATAGTAAAAAAATT
1 ATAATAATAGTAAAAAAAGT
218792 ATA
1 ATA
218795 TAAAAAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (20 bp):
ATAATAATAGTAAAAAAAGT
Found at i:221039 original size:17 final size:18
Alignment explanation
Indices: 221019--221056 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
221009 GTAAAAATAA
*
221019 AAAATCA-AATCAAATTG
1 AAAATCATAAACAAATTG
221036 AAAATCATAAACAAATTG
1 AAAATCATAAACAAATTG
221054 AAA
1 AAA
221057 GATTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAATCATAAACAAATTG
Found at i:222338 original size:22 final size:23
Alignment explanation
Indices: 222313--222360 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
222303 AAAAATTTTC
*
222313 TTATATTA-TGAATTCTAAAAAA
1 TTATATTATTAAATTCTAAAAAA
222335 TTATATTATTTAAATTCTAAAAAA
1 TTATATTA-TTAAATTCTAAAAAA
222359 TT
1 TT
222361 TCTAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.35
24 15 0.65
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (23 bp):
TTATATTATTAAATTCTAAAAAA
Found at i:223351 original size:19 final size:18
Alignment explanation
Indices: 223309--223351 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
223299 GTTTAGAAAT
*
223309 TATTTTTTATCATACTAA
1 TATTTCTTATCATACTAA
*
223327 TAATTTCTTATCATAATTAA
1 T-ATTTCTTATCAT-ACTAA
223347 TATTT
1 TATTT
223352 TTAAATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTCTTATCATACTAA
Found at i:226998 original size:19 final size:19
Alignment explanation
Indices: 226958--226997 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
226948 CTTTATTTTA
*
226958 TTATTAAAGTAAATATATT
1 TTATTAAAGTAAAGATATT
*
226977 TTATCTAAAGTAAAGCTATT
1 TTAT-TAAAGTAAAGATATT
226997 T
1 T
226998 AAAAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (19 bp):
TTATTAAAGTAAAGATATT
Found at i:227679 original size:2 final size:2
Alignment explanation
Indices: 227672--227696 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
227662 NNNNNNNNNN
227672 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
227697 TTATGAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:230194 original size:2 final size:2
Alignment explanation
Indices: 230187--230211 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
230177 NNNNNNNNNN
230187 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
230212 TTATGAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:236453 original size:29 final size:29
Alignment explanation
Indices: 236392--236456 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
236382 GTCTAATGTG
* * *
236392 TAATTTTATATATGAAGTTTGATTTTGTT
1 TAATTTTATATATAAAATTTGATTTTGTC
236421 TAATTTTATATATAAAATTTGA-TTTGATC
1 TAATTTTATATATAAAATTTGATTTTG-TC
236450 TAATTTT
1 TAATTTT
236457 CACAAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (29 bp):
TAATTTTATATATAAAATTTGATTTTGTC
Found at i:240204 original size:14 final size:14
Alignment explanation
Indices: 240185--240223 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
240175 TTGTTTCACT
*
240185 GAAAATGGCTTCCG
1 GAAAATGACTTCCG
* *
240199 GAAAATGATTTCTG
1 GAAAATGACTTCCG
240213 GAAAATGACTT
1 GAAAATGACTT
240224 ACGTTTCTGG
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:0.13, G:0.23, T:0.28
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:240834 original size:18 final size:18
Alignment explanation
Indices: 240798--240833 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
240788 TTATTATTTT
*
240798 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
240816 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
240834 TCAATATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:245201 original size:27 final size:27
Alignment explanation
Indices: 245137--245194 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
245127 TACTAGTTGG
245137 GTTTGCCAGTTGGTTTGGCGAACTGGT
1 GTTTGCCAGTTGGTTTGGCGAACTGGT
245164 GTTTGCCAGTTGGTTTGGCGAACTGGT
1 GTTTGCCAGTTGGTTTGGCGAACTGGT
245191 GTTT
1 GTTT
245195 AGCAGTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.10, C:0.14, G:0.36, T:0.40
Consensus pattern (27 bp):
GTTTGCCAGTTGGTTTGGCGAACTGGT
Found at i:245252 original size:26 final size:26
Alignment explanation
Indices: 245182--245252 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
245172 GTTGGTTTGG
* *
245182 CGAACTGGTGTTTAGCAGTTAAGTTA
1 CGAACTGGTGTTCACCAGTTAAGTTA
** *
245208 CGAACTGGTGTTCGTCAGTTAAGTTG
1 CGAACTGGTGTTCACCAGTTAAGTTA
* *
245234 TGAACTAGTGTTCACCAGT
1 CGAACTGGTGTTCACCAGT
245253 CAAAGTTAGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (26 bp):
CGAACTGGTGTTCACCAGTTAAGTTA
Found at i:246859 original size:43 final size:43
Alignment explanation
Indices: 246723--246922 Score: 178
Period size: 43 Copynumber: 4.7 Consensus size: 43
246713 TGTGATTTTG
**
246723 TGTAAGACCACATCTGGGAC-GTTGGCATCG--ATTTGAGATTTACA
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGTTATTT-A-A-TTACA
* * * * * *
246767 TGTAAGACCAAGTCTGGGACATTAGCGTCG-TATATAATTACG
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTTATTTAATTACA
* *
246809 TGTAAGACCCTGTCTGGGACAGTGGCATCGTTATTTAATTACG
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTTATTTAATTACA
* * * *
246852 TGTAAGACTC-TGTCTGAGACAATGGCATCATTATTTGATTACA
1 TGTAAGAC-CATGTCTGGGACAGTGGCATCGTTATTTAATTACA
246895 TGTAAGACCATGTCTGGGAC-GTTGGCAT
1 TGTAAGACCATGTCTGGGACAG-TGGCAT
246923 GTATGAACTT
Statistics
Matches: 130, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
42 30 0.23
43 71 0.55
44 26 0.20
45 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTTATTTAATTACA
Found at i:252572 original size:15 final size:17
Alignment explanation
Indices: 252554--252585 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
252544 TTATTTATTT
252554 ATTAAA-AATAA-AAAA
1 ATTAAATAATAATAAAA
252569 ATTAAATAATAATAAAA
1 ATTAAATAATAATAAAA
252586 GTAGATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
ATTAAATAATAATAAAA
Found at i:254926 original size:20 final size:20
Alignment explanation
Indices: 254901--254940 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
254891 CGTAAAATGA
*
254901 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
254921 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
254941 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:254930 original size:34 final size:35
Alignment explanation
Indices: 254886--254952 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
254876 CAGTAAAATA
*
254886 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
254920 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
254953 CCGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:256092 original size:51 final size:52
Alignment explanation
Indices: 255993--256092 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 52
255983 GGGTTTTAGG
* * *
255993 GTTTAGGGTGCAAGCTTTTTTAGGGTTTAGGGGTGCCGAAAAAAATTATTTC
1 GTTTAGGGTGCAAGCTTTTTTAAGGTTTAAGGGTCCCGAAAAAAATTATTTC
*
256045 GTTTAGGGTGCAGGCTTTTTTAAGGTTTAAGGGTCCCG-AAAAAATTAT
1 GTTTAGGGTGCAAGCTTTTTTAAGGTTTAAGGGTCCCGAAAAAAATTAT
256093 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 10 0.23
52 34 0.77
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.36
Consensus pattern (52 bp):
GTTTAGGGTGCAAGCTTTTTTAAGGTTTAAGGGTCCCGAAAAAAATTATTTC
Found at i:257008 original size:7 final size:7
Alignment explanation
Indices: 256998--257029 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
256988 ATATATACAT
256998 AATACTA
1 AATACTA
257005 AATACTA
1 AATACTA
257012 AATACTA
1 AATACTA
257019 AATACTA
1 AATACTA
257026 AATA
1 AATA
257030 TCAATCCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:258142 original size:51 final size:51
Alignment explanation
Indices: 258087--258184 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
258077 AATTTTTTAA
258087 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
258138 AAATATGGATTTTAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
258185 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.28
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:258184 original size:11 final size:11
Alignment explanation
Indices: 258160--258215 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
258150 TAGAGAAATT
*
258160 TTGA-AGGAAT
1 TTGAGAGGAAA
*
258170 TTGAGAGCAAA
1 TTGAGAGGAAA
258181 TTGAGAGGAAA
1 TTGAGAGGAAA
* * *
258192 TTTAGAAGACA
1 TTGAGAGGAAA
258203 TTGAGAGGAAA
1 TTGAGAGGAAA
258214 TT
1 TT
258216 TGAAATAGGA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
10 4 0.11
11 32 0.89
ACGTcount: A:0.43, C:0.04, G:0.29, T:0.25
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:258189 original size:22 final size:23
Alignment explanation
Indices: 258160--258218 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
258150 TAGAGAAATT
258160 TTGA-AGG-AATTTGAG-AGCAAA
1 TTGAGAGGAAATTTGAGAAG-AAA
*
258181 TTGAGAGGAAATTT-AGAAGACA
1 TTGAGAGGAAATTTGAGAAGAAA
258203 TTGAGAGGAAATTTGA
1 TTGAGAGGAAATTTGA
258219 AATAGGATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.12
22 21 0.64
23 8 0.24
ACGTcount: A:0.42, C:0.03, G:0.29, T:0.25
Consensus pattern (23 bp):
TTGAGAGGAAATTTGAGAAGAAA
Found at i:258538 original size:28 final size:29
Alignment explanation
Indices: 258488--258542 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
258478 CGGGAAAAAT
258488 GGCCCATTCCGGTAAATAATTAAAAAACC
1 GGCCCATTCCGGTAAATAATTAAAAAACC
* * *
258517 GGCCTATTTCGGTAAAT-TTTAAAAAA
1 GGCCCATTCCGGTAAATAATTAAAAAA
258543 AAGGGCGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATAATTAAAAAACC
Found at i:259526 original size:27 final size:27
Alignment explanation
Indices: 259488--259539 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
259478 AAATATATAT
*
259488 TTTTTATTTTTTTAATTTTAAAATACA
1 TTTTAATTTTTTTAATTTTAAAATACA
*
259515 TTTTAATTTTTTTATTTTTAAAATA
1 TTTTAATTTTTTTAATTTTAAAATA
259540 AAATTTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTAATTTTTTTAATTTTAAAATACA
Found at i:259719 original size:76 final size:77
Alignment explanation
Indices: 259570--259720 Score: 207
Period size: 76 Copynumber: 2.0 Consensus size: 77
259560 AAAATGGGCT
*
259570 GGGCTCGGGCTTAGGAATTTTTTCCCTGGCCAGGCCTGGACAAAATTTCAAGCCCATATTTCAGG
1 GGGCTCGGGCTTAGGAATTTTTTCCCTGGCCAGGCCTGGACAAAATTTCAAGCACATATTTCAGG
*
259635 CTGAGCCCGGCC
66 CCGAGCCCGGCC
* * * **
259647 GGGCTCGGGCTTAGGAA-TTTTT-CTTGGGCCGGGCCTGGACAAAATTTCAGGCACATATTTTGG
1 GGGCTCGGGCTTAGGAATTTTTTCCCT-GGCCAGGCCTGGACAAAATTTCAAGCACATATTTCAG
*
259710 GCCGGGCCCGG
65 GCCGAGCCCGG
259721 GACTAAGACG
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
75 2 0.03
76 46 0.71
77 17 0.26
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.25
Consensus pattern (77 bp):
GGGCTCGGGCTTAGGAATTTTTTCCCTGGCCAGGCCTGGACAAAATTTCAAGCACATATTTCAGG
CCGAGCCCGGCC
Found at i:263640 original size:7 final size:7
Alignment explanation
Indices: 263627--263667 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
263617 CGCAAAACCA
263627 TTTCCAG
1 TTTCCAG
*
263634 ATTCCAG
1 TTTCCAG
263641 TTTCCAG
1 TTTCCAG
263648 TTTCCAG
1 TTTCCAG
263655 TTTCCAG
1 TTTCCAG
263662 TTTCCA
1 TTTCCA
263668 CACGCCTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.17, C:0.29, G:0.12, T:0.41
Consensus pattern (7 bp):
TTTCCAG
Found at i:268566 original size:22 final size:23
Alignment explanation
Indices: 268533--268608 Score: 86
Period size: 22 Copynumber: 3.4 Consensus size: 23
268523 AACTAATTCT
*
268533 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCATCTCAATTTC
*
268556 CTCT-AAATTTCATCTCAATTTG
1 CTCTCAAATTTCATCTCAATTTC
* *
268578 CTCTCAAATTCCTTC-CAAATTT-
1 CTCTCAAATTTCATCTC-AATTTC
268600 CTCTCAAAT
1 CTCTCAAAT
268609 CCATATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
22 30 0.64
23 17 0.36
ACGTcount: A:0.26, C:0.30, G:0.01, T:0.42
Consensus pattern (23 bp):
CTCTCAAATTTCATCTCAATTTC
Found at i:268582 original size:33 final size:33
Alignment explanation
Indices: 268527--268606 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
268517 TTCACAAACT
* *
268527 AATTCTCTCTCAAATTTCCTCTCAATTTCC-TCTA
1 AATT-TCTCTC-AATTTCCTCTCAAATTCCTTCCA
*
268561 AATTTCATCTCAATTTGCTCTCAAATTCCTTCCA
1 AATTTC-TCTCAATTTCCTCTCAAATTCCTTCCA
268595 AATTTCTCTCAA
1 AATTTCTCTCAA
268607 ATCCATATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
33 24 0.59
34 17 0.41
ACGTcount: A:0.26, C:0.30, G:0.01, T:0.42
Consensus pattern (33 bp):
AATTTCTCTCAATTTCCTCTCAAATTCCTTCCA
Found at i:268607 original size:11 final size:11
Alignment explanation
Indices: 268527--268608 Score: 73
Period size: 11 Copynumber: 7.3 Consensus size: 11
268517 TTCACAAACT
268527 AATTCTCTCTCA
1 AATT-TCTCTCA
268539 AATTTCCTCTC-
1 AATTT-CTCTCA
268550 AATTTC-CTCTA
1 AATTTCTCTC-A
268561 AATTTCATCTC-
1 AATTTC-TCTCA
268572 AATTTGCTCTCA
1 AATTT-CTCTCA
*
268584 AATTCCT-TCCA
1 AATTTCTCT-CA
268595 AATTTCTCTCA
1 AATTTCTCTCA
268606 AAT
1 AAT
268609 CCATATTTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 19
0.74 0.03 0.24
Matches are distributed among these distances:
9 3 0.05
10 2 0.03
11 36 0.61
12 15 0.25
13 3 0.05
ACGTcount: A:0.27, C:0.29, G:0.01, T:0.43
Consensus pattern (11 bp):
AATTTCTCTCA
Found at i:269589 original size:7 final size:7
Alignment explanation
Indices: 269577--269601 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
269567 NNNNNNNNNN
269577 TATTTAG
1 TATTTAG
269584 TATTTAG
1 TATTTAG
269591 TATTTAG
1 TATTTAG
269598 TATT
1 TATT
269602 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:270279 original size:18 final size:18
Alignment explanation
Indices: 270252--270291 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
270242 CAGGTGCATT
*
270252 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
270270 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
270288 TCCT
1 TCCT
270292 TTTCCAAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:271106 original size:21 final size:21
Alignment explanation
Indices: 271082--271130 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
271072 AGATGTCGTA
* * *
271082 CCGGAAGAACCAGAATCCCCG
1 CCGGAAGAACAACAATCACCG
*
271103 CCGGAGGAACAACAATCACCG
1 CCGGAAGAACAACAATCACCG
271124 CCGGAAG
1 CCGGAAG
271131 TTAGAGAAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.27, T:0.04
Consensus pattern (21 bp):
CCGGAAGAACAACAATCACCG
Found at i:271591 original size:39 final size:39
Alignment explanation
Indices: 271526--271602 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
271516 GATTAGGGCA
* * * * *
271526 TGATCGGCTTGTTTGGCCTGGGTTCCTACACCCTCCGCC
1 TGATCGACTTGTATGGCATGGATTCCTACACCATCCGCC
271565 TGATCGACTTGTATGGCATGGATTCCTACACCATCCGC
1 TGATCGACTTGTATGGCATGGATTCCTACACCATCCGC
271603 ACAACTTCGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.14, C:0.32, G:0.23, T:0.30
Consensus pattern (39 bp):
TGATCGACTTGTATGGCATGGATTCCTACACCATCCGCC
Found at i:273122 original size:24 final size:25
Alignment explanation
Indices: 273093--273161 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
273083 CAAATAATAA
273093 AATAATAATACAACATAACTTTTA-
1 AATAATAATACAACATAACTTTTAG
*
273117 AGTAATAATACATA-ATAA-TTTTAG
1 AATAATAATACA-ACATAACTTTTAG
273141 AATAATAATAC-ACGATAACTT
1 AATAATAATACAAC-ATAACTT
273162 CAAAAATATG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 1 0.03
23 5 0.13
24 29 0.76
25 3 0.08
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (25 bp):
AATAATAATACAACATAACTTTTAG
Done.