Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2511
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: 86742
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Found at i:4514 original size:1 final size:1
Alignment explanation
Indices: 4508--4532 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4498 ATATGTTCAG
4508 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
4533 AAGTTCTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6054 original size:12 final size:12
Alignment explanation
Indices: 6037--6062 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6027 ATCACCAATC
6037 TCCATTCCCATT
1 TCCATTCCCATT
6049 TCCATTCCCATT
1 TCCATTCCCATT
6061 TC
1 TC
6063 GTTCACAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.42, G:0.00, T:0.42
Consensus pattern (12 bp):
TCCATTCCCATT
Found at i:8639 original size:21 final size:21
Alignment explanation
Indices: 8613--8659 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
8603 TTAATGCTTT
* * *
8613 GATACATTTACTGATTGTATC
1 GATACATTCACTAACTGTATC
8634 GATACATTCACTAACTGTATC
1 GATACATTCACTAACTGTATC
8655 GATAC
1 GATAC
8660 TAATTGTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (21 bp):
GATACATTCACTAACTGTATC
Found at i:10002 original size:19 final size:20
Alignment explanation
Indices: 9978--10016 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9968 TTATAATGTA
9978 CTATAATA-ATTTATGTAAT
1 CTATAATACATTTATGTAAT
*
9997 CTATAATACATTTGTGTAAT
1 CTATAATACATTTATGTAAT
10017 GTCAGTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (20 bp):
CTATAATACATTTATGTAAT
Found at i:12548 original size:13 final size:13
Alignment explanation
Indices: 12530--12555 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12520 GATTAAGAAG
12530 ATAGTTCAATTTT
1 ATAGTTCAATTTT
12543 ATAGTTCAATTTT
1 ATAGTTCAATTTT
12556 CAAACAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
ATAGTTCAATTTT
Found at i:12904 original size:31 final size:31
Alignment explanation
Indices: 12866--12933 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
12856 CGCCTAACCA
* *
12866 TTAGTTGAAATTTGTCAAGTCTCAAAGACTG
1 TTAGTTGAAATTCGTCAAGTCTCAAAGACCG
* *
12897 TTAGTTGACATTCGTCGAGTCTCAAAGACCG
1 TTAGTTGAAATTCGTCAAGTCTCAAAGACCG
12928 TTAGTT
1 TTAGTT
12934 ACGTGTTCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (31 bp):
TTAGTTGAAATTCGTCAAGTCTCAAAGACCG
Found at i:20544 original size:33 final size:34
Alignment explanation
Indices: 20484--20553 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
20474 ATAAAAAATA
* *
20484 ATTAAAAAATATTTTTTATATTAAATTTAATAAT
1 ATTAAAAAATATATGTTATATTAAATTTAATAAT
* *
20518 ATTAAAAAATA-ATGTTATTTTTAATTTAATAAT
1 ATTAAAAAATATATGTTATATTAAATTTAATAAT
20551 ATT
1 ATT
20554 GGAGATAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (34 bp):
ATTAAAAAATATATGTTATATTAAATTTAATAAT
Found at i:21234 original size:28 final size:27
Alignment explanation
Indices: 21179--21249 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
21169 GCCACCCATT
21179 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
*
21206 TGTTTGTCAAAAATTGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
21234 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
21250 AGGCTTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.53
28 17 0.45
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.48
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:21351 original size:20 final size:20
Alignment explanation
Indices: 21326--21371 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
21316 AAATAGAGGC
*
21326 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
* **
21346 TCCCTCATCCTTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
21366 TCCCTC
1 TCCCTC
21372 TTCAATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.48, G:0.04, T:0.37
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:22918 original size:159 final size:159
Alignment explanation
Indices: 22624--22943 Score: 622
Period size: 159 Copynumber: 2.0 Consensus size: 159
22614 TGGAGGAGTT
22624 GTTTATATGGGTAATGACAACACCTGTAAAACTGTTGGGATAGGTTCAATCCGATTGAAGAATCA
1 GTTTATATGGGTAATGACAACACCTGTAAAACTGTTGGGATAGGTTCAATCCGATTGAAGAATCA
22689 AGATGGATCAACTAGAGTTCTGAATGATGTCCGTTACGTACCCAGCTTGAAGAAAAATCTCATCT
66 AGATGGATCAACTAGAGTTCTGAATGATGTCCGTTACGTACCCAGCTTGAAGAAAAATCTCATCT
22754 CATTGGGAGCCTTAGAATCCAAAGGCTCA
131 CATTGGGAGCCTTAGAATCCAAAGGCTCA
*
22783 GTTTATATGGGTAATGACAACACTTGTAAAACTGTTGGGATAGGTTCAATCCGATTGAAGAATCA
1 GTTTATATGGGTAATGACAACACCTGTAAAACTGTTGGGATAGGTTCAATCCGATTGAAGAATCA
22848 AGATGGATCAACTAGAGTTCTGAATGATGTCCGTTACGTACCCAGCTTGAAGAAAAATCTCATCT
66 AGATGGATCAACTAGAGTTCTGAATGATGTCCGTTACGTACCCAGCTTGAAGAAAAATCTCATCT
*
22913 TATTGGGAGCCTTAGAATCCAAAGGCTCA
131 CATTGGGAGCCTTAGAATCCAAAGGCTCA
22942 GT
1 GT
22944 CGTCACTTTG
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 159 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (159 bp):
GTTTATATGGGTAATGACAACACCTGTAAAACTGTTGGGATAGGTTCAATCCGATTGAAGAATCA
AGATGGATCAACTAGAGTTCTGAATGATGTCCGTTACGTACCCAGCTTGAAGAAAAATCTCATCT
CATTGGGAGCCTTAGAATCCAAAGGCTCA
Found at i:25966 original size:28 final size:27
Alignment explanation
Indices: 25911--25981 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
25901 GCCACCCATT
25911 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
25938 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
25966 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
25982 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:26083 original size:20 final size:20
Alignment explanation
Indices: 26058--26103 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
26048 AAATAGAGGC
*
26058 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
* **
26078 TCCCTCATCCTTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
26098 TCCCTC
1 TCCCTC
26104 TTCAATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.48, G:0.04, T:0.37
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:27651 original size:3 final size:3
Alignment explanation
Indices: 27643--27674 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
27633 ATCTATCTAT
27643 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27675 CTTTATTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:27985 original size:13 final size:14
Alignment explanation
Indices: 27961--27996 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
27951 ATTGTTCATG
27961 AAAACTGTGAATAC
1 AAAACTGTGAATAC
27975 AAAAC-GTGAATAC
1 AAAACTGTGAATAC
*
27988 AGAACTGTG
1 AAAACTGTG
27997 TCGTTGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (14 bp):
AAAACTGTGAATAC
Found at i:33144 original size:20 final size:19
Alignment explanation
Indices: 33094--33151 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
33084 GGTAAAAAGA
33094 CATAATGTATCGATACATT
1 CATAATGTATCGATACATT
* * *
33113 GTAGAATATATCGATACATT
1 -CATAATGTATCGATACATT
*
33133 CATACATGTATCAATACAT
1 CATA-ATGTATCGATACAT
33152 CAGGGTAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (19 bp):
CATAATGTATCGATACATT
Found at i:33717 original size:38 final size:37
Alignment explanation
Indices: 33667--33787 Score: 117
Period size: 38 Copynumber: 3.3 Consensus size: 37
33657 TGGTGATTTG
33667 AAAAAGGTTGCCACCGACTTGCATGGGCTTTTTTTTAA
1 AAAAAGG-TGCCACCGACTTGCATGGGCTTTTTTTTAA
** ** *
33705 AAAAATGGTGCCACTAACTTGTGTGGGC-----TTTGA
1 AAAAA-GGTGCCACCGACTTGCATGGGCTTTTTTTTAA
* *
33738 AAAGAGTTGCCACCGACTTGCATGGGCTTTTTTTTAA
1 AAAAAGGTGCCACCGACTTGCATGGGCTTTTTTTTAA
33775 AAAAATGGTGCCA
1 AAAAA-GGTGCCA
33788 TTAATTTGTG
Statistics
Matches: 62, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
32 17 0.27
33 8 0.13
37 8 0.13
38 27 0.44
39 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (37 bp):
AAAAAGGTGCCACCGACTTGCATGGGCTTTTTTTTAA
Found at i:33776 original size:70 final size:70
Alignment explanation
Indices: 33663--33820 Score: 282
Period size: 70 Copynumber: 2.3 Consensus size: 70
33653 ATAGTGGTGA
33663 TTTGAAAA-AGGTTGCCACCGACTTGCATGGGCTTTTTTTTAAAAAAATGGTGCCACTAACTTGT
1 TTTGAAAAGA-GTTGCCACCGACTTGCATGGGCTTTTTTTTAAAAAAATGGTGCCACTAACTTGT
33727 GTGGGC
65 GTGGGC
* *
33733 TTTGAAAAGAGTTGCCACCGACTTGCATGGGCTTTTTTTTAAAAAAATGGTGCCATTAATTTGTG
1 TTTGAAAAGAGTTGCCACCGACTTGCATGGGCTTTTTTTTAAAAAAATGGTGCCACTAACTTGTG
33798 TGGGC
66 TGGGC
33803 TTTGAAAAGAGTTGCCAC
1 TTTGAAAAGAGTTGCCAC
33821 AAACTCGTGT
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
70 84 0.99
71 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (70 bp):
TTTGAAAAGAGTTGCCACCGACTTGCATGGGCTTTTTTTTAAAAAAATGGTGCCACTAACTTGTG
TGGGC
Found at i:33880 original size:28 final size:28
Alignment explanation
Indices: 33796--35131 Score: 1064
Period size: 28 Copynumber: 46.8 Consensus size: 28
33786 CATTAATTTG
* **
33796 TGTGGGCTTTGAAAAGAGTTGCCACAAACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
*
33826 CGTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTG-AAAGGGTGCCACTGACT
33857 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
33885 TGTGCGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
33913 TGTGGGCTTTGAAAAGGGTTGCCACCGACT
1 TGTGGGCTTTG-AAAGGG-TGCCACTGACT
* *
33943 CATGTAGGCTTTGAAAGGATGCCACTGACT
1 --TGTGGGCTTTGAAAGGGTGCCACTGACT
*
33973 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
34001 TGTGGGCTTTGAAAAGTGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* *
34031 CGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
34059 TGTGGGCTTTGAAAAGGGTTGCCACCGACT
1 TGTGGGCTTTG-AAAGGG-TGCCACTGACT
*
34089 CGTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTG-AAAGGGTGCCACTGACT
34120 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
34148 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
34176 TGTGGGCTTTGAAAAGTGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* *
34206 CGTGGGCTTTGAAAAGTGTTGCCACTGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * *
34236 CGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
34264 TATGGGCTTTGAAAAGGGTTGCCACCGACT
1 TGTGGGCTTTG-AAAGGG-TGCCACTGACT
*
34294 CGTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
34325 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
34353 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
34381 TGTGGG-TTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
34408 TGTGGGCTTTGAAATGGGTTGCCACCGACT
1 TGTGGGCTTTGAAA-GGG-TGCCACTGACT
*
34438 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
34466 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
34494 TGTGGGCTTTGAAATGGGTTGCCACCGACT
1 TGTGGGCTTTGAAA-GGG-TGCCACTGACT
* * *
34524 TGTGTAGGCTTTCAAATGAGTTGCCACCGACTT
1 TGTG--GGCTTTGAAA-G-GGTGCCACTGAC-T
*
34557 GTGTGGGCTTTAAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
** * *
34586 TGTGGGCTTAAAAAGGATGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
** * * *
34614 TGTGAAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
34641 TGTGGACTTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
34669 TGTGGACTTT-AAAGGGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
* * * * * *
34696 TGTGGAC-TTAAAACGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
34723 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
34751 TGTGGACTTT-TAAGGGTACCAC-GAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
* * * *
34778 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
34806 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * *
34834 TGTGGACTTTAAAATGATGACA-TGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * * *
34862 TGTGGACTTT-AAAGGGTACCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * * *
34889 TAT-GGATTTAAAACGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
34916 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
34944 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
34972 TGTGGACTTT-AAAGGGTACCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
34999 TGTGGAC-TTAAAACGATGCCAC-GAAAT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
* * * *
35026 TGTGGACTTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
35054 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
35082 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
35110 TGTGGAC-TTAAAAGGATGCCAC
1 TGTGGGCTTTGAAAGGGTGCCAC
35132 AGAGTTGTAG
Statistics
Matches: 1149, Mismatches: 111, Indels: 93
0.85 0.08 0.07
Matches are distributed among these distances:
26 11 0.01
27 195 0.17
28 583 0.51
29 76 0.07
30 154 0.13
31 35 0.03
32 89 0.08
33 2 0.00
34 4 0.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:34124 original size:263 final size:262
Alignment explanation
Indices: 33796--34847 Score: 1150
Period size: 263 Copynumber: 4.1 Consensus size: 262
33786 CATTAATTTG
* *
33796 TGTGGGCTTTGAAAAGAGTTGCCACAAACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
1 TGTGGGCTTTGAAAAGGGTTGCCACAGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
*
33861 GGCTTTGAAAGGGTGCCACTGACTTGTGCGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAA
66 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAA
*
33926 AAGGGTTGCCACCGACTCATGTAGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGT
131 AAGGGTTGCCACCGACTC-TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGT
*
33991 GCCACTAACTTGTGGGCTTTGAAAAGTGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTG
195 GCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTG
34056 ACT
260 ACT
*
34059 TGTGGGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
1 TGTGGGCTTTGAAAAGGGTTGCCACAGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
34124 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAA
66 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAA
* * * *
34189 AAGTGTTGCCACCGACTC-GTGGGCTTTGAAAAGTGTTGCCACTGACTCGTGGGCTTTGAAAGGA
131 AAGGGTTGCCACCGACTCTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
34253 TGCCACTAACTTATGGGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCC
194 TGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTC--GTGGGCTTTGAAAGGA-TGCC
34318 ACTGACT
256 ACTGACT
* * *
34325 TGTGGGCTTTG-AAAGGG-TGCCACTGA-T-TTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTG
1 TGTGGGCTTTGAAAAGGGTTGCCACAGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
* * *
34385 GG-TTTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGGGCTTT-
66 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACTGACTTGTGGGCTTTG
* * *
34448 AAAAGGG-TGCCACTGACT-TGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAATGG
129 AAAAGGGTTGCCACCGACTCTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA-GG
** * * * * *
34511 GTTGCCACCGACTTGTGTAGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGT
193 G-TGCCACTAACTTGTG--GGCTTTGAAAAGAGTTGCCACCGAC-T-CGTGGGCTTTGAAAGGAT
34576 GCCACTGACT
253 GCCACTGACT
* * * ** * * *
34586 TGTGGGC-TT-AAAAAGGATGCCAC-GA--AGTTGTGAAC-TT-AAAAGGGTGCCACGGAGTTGT
1 TGTGGGCTTTGAAAAGGGTTGCCACAGACTCG-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGT
* * * * * * * *
34644 GGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTT-AAAGGGTGCCAC-GAAGTTGTGGAC-TT-
65 GGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTG-ACTTGTGGGCTTTG
* * * * * * * * * *
34705 AAAA-CGATGCCACGGAGT-TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTT-TAAGGG
129 AAAAGGGTTGCCACCGACTCTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * * * * * * * * *
34767 TACCACGAAGTTGTGGACTTT-AAAAG-GGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACG
194 TGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACT
*
34830 GAGT
259 GACT
*
34834 TGTGGACTTT-AAAA
1 TGTGGGCTTTGAAAA
34848 TGATGACATG
Statistics
Matches: 696, Mismatches: 71, Indels: 58
0.84 0.09 0.07
Matches are distributed among these distances:
248 31 0.04
249 7 0.01
250 9 0.01
251 4 0.01
252 5 0.01
254 11 0.02
255 3 0.00
256 3 0.00
257 48 0.07
258 40 0.06
259 6 0.01
260 101 0.15
261 94 0.14
262 71 0.10
263 212 0.30
264 8 0.01
265 21 0.03
266 22 0.03
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.28
Consensus pattern (262 bp):
TGTGGGCTTTGAAAAGGGTTGCCACAGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAA
AAGGGTTGCCACCGACTCTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTG
CCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTGA
CT
Found at i:34252 original size:205 final size:201
Alignment explanation
Indices: 33796--35003 Score: 1079
Period size: 205 Copynumber: 6.0 Consensus size: 201
33786 CATTAATTTG
* ** *
33796 TGTGGGCTTTGAAAAGAGTTGCCACAAACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
1 TGTGGGCTTTGAAAAGTGTTGCCACCGACTC--GTGGGCTTTGAAAGGA-TGCCACTGACTTGTG
* * *
33861 GGCTTTGAAAGGGTGCCACTGACT-TGTGCGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTG
63 GGCTTTGAAAGGGTGCCACCGACTGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
33924 AAAAGGGTTGCCACCGACTCATGTAGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGG
128 -AAAGGG-TGCCACCGACT-ATGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGG
*
33989 GTGCCACTAACT
190 GTGCCACTGACT
34001 TGTGGGCTTTGAAAAGTGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAAGTGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
34066 TTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
66 TTTG-AAAGGG-TGCCACCGACT-GTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
34131 AAAGGGTGCCACTGACT-TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGTGT
128 AAAGGGTGCCACCGACTATGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GG
*
34195 TGCCACCGACT
191 TGCCACTGACT
* * * *
34206 CGTGGGCTTTGAAAAGTGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACTTATGGGC
1 TGTGGGCTTTGAAAAGTGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
34271 TTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
66 TTTG-AAAGGG-TGCCACCGACT-GTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
34336 AAAGGGTGCCACTGA-TTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGG-TTTGAAAGGGTG
128 AAAGGGTGCCACCGACTATGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTG
*
34399 CCACTGATT
193 CCACTGACT
* * * * *
34408 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAAGTGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * * * * *
34473 TTTGAAAGGGTGCCACTGA-TTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTAGGCTTTC
66 TTTGAAAGGGTGCCACCGACTGTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTG--GGCTTTG
* * * **
34537 AAATGAGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGG
128 AAA-G-GGTGCCACCGAC-TATGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGG
* *
34602 ATGCCAC-GAAGT
190 GTGCCACTG-ACT
** * * * * * * * * * *
34614 TGTGAAC-TT-AAAAG-GGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGAC
1 TGTGGGCTTTGAAAAGTGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
* * * * * *
34676 TTT-AAAGGGTGCCA-CGA-AGTTGTGGAC-TT-AAAACGA-TGCCACGGAGTTGTGGACTTTAA
66 TTTGAAAGGGTGCCACCGACTG-TGTGGGCTTTGAAAA-GAGTGCCACTGACTTGTGGGCTTTGA
* * * * * * * * * *
34735 AAGGATGCCACGGAGT-TGTGGACTTT-TAAGGGTACCAC-GAAGTTGTGGACTTTAAAAGGGTG
129 AAGGGTGCCACCGACTATGTGGGCTTTAAAAGGATGCCACTG-ACTTGTGGGCTTTGAAAGGGTG
* *
34797 CCACGGAGT
193 CCACTGACT
* * * * * * * * * * *
34806 TGTGGACTTT-AAAAG-GGTGCCACGGAGTTGTGGACTTTAAAATGATGACA-TGGAGTTGTGGA
1 TGTGGGCTTTGAAAAGTGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACT-GACTTGTGGG
* * * * * * * * *
34868 CTTT-AAAGGGTACCACAGAGT-TAT-GGATTT-AAAACGA-TGCCACGGAGTTGTGGACTTTAA
65 CTTTGAAAGGGTGCCACCGACTGTGTGGGCTTTGAAAA-GAGTGCCACTGACTTGTGGGCTTTGA
* * * * * * * *
34928 AAGGGTGCCACGGAGT-TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTT-AAAGGGTAC
129 AAGGGTGCCACCGACTATGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGC
* *
34991 CACAGAGT
194 CACTGACT
34999 TGTGG
1 TGTGG
35004 ACTTAAAACG
Statistics
Matches: 886, Mismatches: 89, Indels: 68
0.85 0.09 0.07
Matches are distributed among these distances:
191 1 0.00
192 42 0.05
193 152 0.17
194 26 0.03
195 10 0.01
196 1 0.00
197 8 0.01
198 16 0.02
199 28 0.03
200 11 0.01
201 20 0.02
202 110 0.12
203 116 0.13
204 23 0.03
205 259 0.29
206 41 0.05
207 22 0.02
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.27
Consensus pattern (201 bp):
TGTGGGCTTTGAAAAGTGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
TTTGAAAGGGTGCCACCGACTGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
GGGTGCCACCGACTATGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCA
CTGACT
Found at i:34396 original size:55 final size:56
Alignment explanation
Indices: 33828--35151 Score: 1103
Period size: 55 Copynumber: 23.3 Consensus size: 56
33818 CACAAACTCG
* * *
33828 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* * * * *
33885 TGTGCGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGGTTGCCACCGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAGGG-TGCCACTGAGT
* * * * * *
33943 CATGTAGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
1 --TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* * * * * *
34001 TGTGGGCTTTGAAAAGTGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTT-AAAAG-GGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* * *
34059 TGTGGGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTT-AAAAGGG-TGCCACTGACT--TGTGGGCTTT-AAAAGGGTGCCACTGAGT
* * * *
34120 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* * * * *
34176 TGTGGGCTTTGAAAAGTGTTGCCACCGACTCGTGGGCTTTGAAAAGTGTTGCCACTGACT
1 TGTGGGCTTT-AAAAG-GGTGCCACTGACTTGTGGGCTTT-AAAAG-GGTGCCACTGAGT
* * * * * * *
34236 CGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAAGGGTTGCCACCGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAGGG-TGCCACTGAGT
* * *
34294 CGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATT
1 --TGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* *
34353 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGG-TTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* * *
34408 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTT-AAAAGGG-TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* * * * *
34466 TGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAATGGGTTGCCACCGACT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAGGG-TGCCACTGAGT
* * * *
34524 TGTGTAGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTG--GGCTTT-AAAAG-GGTGCCACTGAC-T-TGTGGGCTTTAAAAGGGTGCCACTGAGT
* * * ** *
34586 TGTGGGCTTAAAAAGGATGCCAC-GAAGTTGTGAAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACTG-ACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* * * *
34641 TGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTT-AAAGGGTGCCAC-GAAGT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTG-AGT
* * * * * * * *
34696 TGTGGAC-TTAAAACGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* * * * * *
34751 TGTGGACTTT-TAAGGGTACCAC-GAAGTTGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACTG-ACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* * * * * * *
34806 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAATGATGACA-TGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACT-GAGT
* * * * * * * * *
34862 TGTGGACTTT-AAAGGGTACCACAGAGTTAT-GGATTTAAAACGATGCCACGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* * * * *
34916 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* * * * * * * *
34972 TGTGGACTTT-AAAGGGTACCACAGAGTTGTGGAC-TTAAAACGATGCCAC-GAAAT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTG-AGT
* * * * * *
35026 TGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* * * * * * *
35082 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
* *
35137 TGTAGACTTTAAAAG
1 TGTGGGCTTTAAAAG
35152 AAAATGCCAC
Statistics
Matches: 1096, Mismatches: 124, Indels: 96
0.83 0.09 0.07
Matches are distributed among these distances:
53 1 0.00
54 82 0.07
55 281 0.26
56 243 0.22
57 76 0.07
58 187 0.17
59 37 0.03
60 98 0.09
61 51 0.05
62 23 0.02
63 7 0.01
64 10 0.01
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (56 bp):
TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGAGT
Found at i:34917 original size:138 final size:137
Alignment explanation
Indices: 34296--35182 Score: 814
Period size: 138 Copynumber: 6.3 Consensus size: 137
34286 CACCGACTCG
* * * * * * * *
34296 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCT
1 TGTGGACTTT-AAAGGA-TGCCAC-GAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACT
* * * * * * * *
34361 TTAAAAGGGTGCCACTGACTTGTGG-GTTTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAATGG
63 TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAA-AG
* * * *
34425 GTTGCCACCGACT
125 GATGACACAGAGT
* * * * * * * *
34438 TGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTT
1 TGTGGACTTT-AAAGGATGCCAC-GAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
* * * * * * * * *
34503 TGAAATGGGTTGCCACCGACTTGTGTAGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTT
64 T-AAAAGGG-TGCCACGGAGTTGTG--GACTTT-AAAAG-GGTGCCACGGA-GT-TGTGGAC-TT
* * * *
34568 AAAAGGGTGCCACTGACT
120 AAAAGGATGACACAGAGT
* * *
34586 TGTGGGCTTAAAAAGGATGCCACGAAGTTGTGAAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TGTGGACTT-TAAAGGATGCCACG-AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
34650 TAAAAGGGTGCCACAGAGTTGTGGACTTT-AAAGGGTGCCACGAAGTTGTGGACTTAAAACGATG
64 TAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATG
* *
34714 CCACGGAGT
129 ACACAGAGT
* * *
34723 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTT-TAAGGGTACCACGAAGTTGTGGACTT
1 TGTGGACTTT-AAAGGATGCCAC-GAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
*
34787 TAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAATGAT
64 TAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGAT
**
34852 GACATGGAGT
128 GACACAGAGT
* * * * *
34862 TGTGGACTTTAAAGGGTACCACAGAGTTATGGA-TTTAAAACGATGCCACGGAGTTGTGGACTTT
1 TGTGGACTTTAAAGGATGCCAC-GAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTT
* *
34926 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGT-A
65 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGA
34990 CCACAGAGT
130 -CACAGAGT
* * * *
34999 TGTGGACTTAAAACGATGCCACGAAATTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTT
1 TGTGGACTTTAAAGGATGCCACG-AGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTT
* * *
35064 AAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGC
65 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGA
35129 CACAGAGT
130 CACAGAGT
* * *
35137 TGTAGACTTTAAAAGAAAATGCCACTGAGTCGTGGACTTTGAAAAG
1 TGTGGACTTT-AAAG--GATGCCAC-GAGTTGTGGACTTT-AAAAG
35183 TCACAGTACT
Statistics
Matches: 638, Mismatches: 81, Indels: 52
0.83 0.11 0.07
Matches are distributed among these distances:
136 2 0.00
137 137 0.21
138 229 0.36
139 31 0.05
140 8 0.01
141 70 0.11
142 26 0.04
143 19 0.03
145 14 0.02
146 9 0.01
147 30 0.05
148 48 0.08
149 5 0.01
150 10 0.02
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.27
Consensus pattern (137 bp):
TGTGGACTTTAAAGGATGCCACGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGAC
ACAGAGT
Found at i:35188 original size:138 final size:136
Alignment explanation
Indices: 33846--35182 Score: 788
Period size: 138 Copynumber: 9.4 Consensus size: 136
33836 TTGAAAAGAG
* * * * * * * *
33846 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGCG-CTTTGAAAGGATGCCACTG
1 TGCCACAGAGTTGTGGACTTTAAAAGGATGCCAC-GAGTTGTG-GACTTTAAAAGG-T-CCACAG
* * * * * * * *
33910 ACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTCATGTAGG-CTTTGAAAGGATGCCACTGACTT
62 AGTTGTGGACTTT-AAAAGGG-TGCCACGGAGT--TGT-GGACTTTAAAAGGGTGCCACGGAGTT
* * *
33974 GTGGGCTTTGAAAGGG
122 GTGGAC-TTAAAAGGA
* * * * * * *
33990 TGCCACTA-ACTTGTGGGCTTTGAAAAGTGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCAC
1 TGCCAC-AGAGTTGTGGACTTT-AAAAG-GATGCCA-CGAGTTGTGGACTTTAAAAGG-T-CCAC
* * * * * * * * *
34054 TGACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGAC
60 AGAGTTGTGGACTTT-AAAAGGG-TGCCACGGAGT--TGTGGACTTT-AAAAGGGTGCCACGGAG
* * *
34119 TTGTGGGCTTTGAAAGGG
120 TTGTGGAC-TTAAAAGGA
* * * * * * *
34137 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGTGTTGCCACC
1 TGCCACAGAGTTGTGGACTTTAAAAGGATGCCAC-GAGTTGTGGACTTT-AAAAG-G-T-CCACA
* * * * * * * * * * ** * *
34202 GACTCGTGGGCTTTGAAAAGTGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACTTAT
61 GAGTTGTGGACTTT-AAAAG-GGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGT
* *
34267 GGGCTTTGAAAAGGGT
124 GGAC-TT-AAAA-GGA
* * * * * *
34283 TGCCACCGACTCGTGTGGGCTTTGAAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCA
1 TGCCACAGAGT--TGTGGACTTT-AAAAGGA-TGCCAC-GAGTTGTGGACTTT-AAAAGGT-CCA
* * * * * * * * *
34347 CTGATTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGG-GTTTGAAAGGGTGCCACTGATTTGT
59 CAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGT
* * *
34411 GGGCTTTGAAATGGGT
124 GGAC-TT-AAA-AGGA
* * * * * * * *
34427 TGCCACCGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA
1 TGCCACAGAGTTGTGGACTTTAAAAGGATGCCAC-GAGTTGTGGACTTT-AAAAGGT-CCACAGA
* * * * * * * * * *
34492 TTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTAGGCTTTCAAATGAGTTGCCACCGACTT
63 GTTGTGGACTTT-AAAAGGG-TGCCACGGAGTTGTG--GACTTT-AAAAG-GGTGCCACGGA-GT
* *
34557 GTGTGGGCTTTAAAAGGG
121 -TGTGGAC-TTAAAAGGA
* * * * * *
34575 TGCCACTGACTTGTGGGCTTAAAAAGGATGCCACGAAGTTGTGAAC-TTAAAAGGGTGCCACGGA
1 TGCCACAGAGTTGTGGACTTTAAAAGGATGCCACG-AGTTGTGGACTTTAAAA-GGT-CCACAGA
* *
34639 GTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTT-AAAGGGTGCCACGAAGTTGTGGAC
63 GTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC
*
34703 TTAAAACGA
128 TTAAAAGGA
* * *
34712 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTTAAGGGTACCAC-GAA
1 TGCCACAGAGTTGTGGACTTTAAAAGGATGCCAC-GAGTTGTGGACTTTAAAAGGT-CCACAG-A
34776 GTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC
63 GTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC
*
34841 TTTAAAATGA
128 -TTAAAAGGA
* ** * * * * *
34851 TGACATGGAGTTGTGGACTTT-AAAGGGTACCACAGAGTTATGGA-TTTAAAACGATGCCACGGA
1 TGCCACAGAGTTGTGGACTTTAAAAGGATGCCAC-GAGTTGTGGACTTTAAAA-GGT-CCACAGA
34914 GTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC
63 GTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC
* *
34979 TTTAAAGGG
128 TTAAAAGGA
* * *
34988 TACCACAGAGTTGTGGAC-TTAAAACGATGCCACGAAATTGTGGACTTTAAAAGGGTGCCACAGA
1 TGCCACAGAGTTGTGGACTTTAAAAGGATGCCACG-AGTTGTGGACTTTAAAA-GGT-CCACAGA
* *
35052 GTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC
63 GTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC
35117 TTAAAAGGA
128 TTAAAAGGA
* * *
35126 TGCCACAGAGTTGTAGACTTTAAAAGAAAATGCCACTGAGTCGTGGACTTTGAAAAG
1 TGCCACAGAGTTGTGGACTTTAAAAG--GATGCCAC-GAGTTGTGGACTTT-AAAAG
35183 TCACAGTACT
Statistics
Matches: 1029, Mismatches: 118, Indels: 95
0.83 0.10 0.08
Matches are distributed among these distances:
136 4 0.00
137 134 0.13
138 227 0.22
139 35 0.03
140 8 0.01
141 75 0.07
142 22 0.02
143 19 0.02
144 88 0.09
145 68 0.07
146 110 0.11
147 132 0.13
148 63 0.06
149 34 0.03
150 10 0.01
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (136 bp):
TGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGAGTTGTGGACTTTAAAAGGTCCACAGAGTT
GTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
AAAGGA
Found at i:36210 original size:1 final size:1
Alignment explanation
Indices: 36204--36243 Score: 53
Period size: 1 Copynumber: 40.0 Consensus size: 1
36194 GGTGAAAAGG
* * *
36204 TTTTTTTTTTTGTTTTTTTTTGTTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
36244 AGGATTAGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.03, G:0.05, T:0.93
Consensus pattern (1 bp):
T
Found at i:36221 original size:10 final size:10
Alignment explanation
Indices: 36206--36243 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
36196 TGAAAAGGTT
36206 TTTTTTTTTG
1 TTTTTTTTTG
36216 TTTTTTTTTG
1 TTTTTTTTTG
*
36226 TTTTTTTTTC
1 TTTTTTTTTG
36236 TTTTTTTT
1 TTTTTTTT
36244 AGGATTAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.05, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:36231 original size:22 final size:21
Alignment explanation
Indices: 36203--36243 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
36193 GGGTGAAAAG
*
36203 GTTTTTTTTTTTGTTTTTTTTT
1 GTTTTTTTTTCT-TTTTTTTTT
36225 GTTTTTTTTTCTTTTTTTT
1 GTTTTTTTTTCTTTTTTTT
36244 AGGATTAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.90
Consensus pattern (21 bp):
GTTTTTTTTTCTTTTTTTTTT
Found at i:36516 original size:20 final size:22
Alignment explanation
Indices: 36485--36531 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
36475 TATGTCCTCA
36485 TTTTTTATTTTTG-TTGTT-CAC
1 TTTTTTATTTTTGCTT-TTGCAC
36506 TTTTTTA-TTTTGCTTTTGCAC
1 TTTTTTATTTTTGCTTTTGCAC
36527 TTTTT
1 TTTTT
36532 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTTTTATTTTTGCTTTTGCAC
Found at i:43657 original size:20 final size:19
Alignment explanation
Indices: 43607--43664 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
43597 GGTAAAAAGA
43607 CATAATGTATCGATACATT
1 CATAATGTATCGATACATT
* * *
43626 GTAGAATATATCGATACATT
1 -CATAATGTATCGATACATT
43646 CATACATGTATCGATACAT
1 CATA-ATGTATCGATACAT
43665 CAGGGTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (19 bp):
CATAATGTATCGATACATT
Found at i:48162 original size:6 final size:6
Alignment explanation
Indices: 48151--48191 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
48141 CTAATAACTT
* *
48151 TTGAGG TTGAGG TTGAGG TTGAGG TTAAGG TTGAGG ATGAG
1 TTGAGG TTGAGG TTGAGG TTGAGG TTGAGG TTGAGG TTGAG
48192 TTTCTTAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.32
Consensus pattern (6 bp):
TTGAGG
Found at i:49199 original size:24 final size:22
Alignment explanation
Indices: 49172--49221 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 22
49162 TCAAGTCAAT
49172 TTATTTTTAATTATATAATATATA
1 TTATTTTTAATT-TAT-ATATATA
* *
49196 TTATTTTTTATTTATTTATATA
1 TTATTTTTAATTTATATATATA
49218 TTAT
1 TTAT
49222 GTATTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
23 3 0.12
24 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTTTTAATTTATATATATA
Found at i:50505 original size:49 final size:49
Alignment explanation
Indices: 50427--50526 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
50417 GTAATTTGAA
* *
50427 AATGACATCACATAAAAAGCCGACTAAAACTTCCAACATAAATAACAAC
1 AATGACATCACATAAAAAGCCAACCAAAACTTCCAACATAAATAACAAC
*
50476 AATGACATCACATAAAAAGTCAACCAAAACTTCCAACATAAATAACAAC
1 AATGACATCACATAAAAAGCCAACCAAAACTTCCAACATAAATAACAAC
50525 AA
1 AA
50527 ATAGAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.55, C:0.24, G:0.05, T:0.16
Consensus pattern (49 bp):
AATGACATCACATAAAAAGCCAACCAAAACTTCCAACATAAATAACAAC
Found at i:51462 original size:15 final size:15
Alignment explanation
Indices: 51442--51474 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
51432 TTAGAAAAAC
51442 TTTACATT-TATGAAA
1 TTTACATTCTAT-AAA
51457 TTTACATTCTATAAA
1 TTTACATTCTATAAA
51472 TTT
1 TTT
51475 TGAAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (15 bp):
TTTACATTCTATAAA
Found at i:56313 original size:2 final size:2
Alignment explanation
Indices: 56300--56335 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
56290 AAATTCATTT
*
56300 CA CA CG CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
56336 TATATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:56340 original size:2 final size:2
Alignment explanation
Indices: 56335--56376 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
56325 ACACACACAC
56335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56377 GCATGTGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61007 original size:21 final size:21
Alignment explanation
Indices: 60967--61007 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
60957 GATAATAATG
* *
60967 TTAAATTTTAATAATAATTTT
1 TTAAATTTAAAAAATAATTTT
*
60988 TTAAATTTAAAAAATTATTT
1 TTAAATTTAAAAAATAATTT
61008 ATATAATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTAAATTTAAAAAATAATTTT
Found at i:61031 original size:20 final size:20
Alignment explanation
Indices: 60995--61043 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
60985 TTTTTAAATT
**
60995 TAAAAAATTATTTATA-TAA
1 TAAAAAATTATAAATATTAA
61014 TAAAATAATTATAAATATTAA
1 TAAAA-AATTATAAATATTAA
61035 TATAAAAAT
1 TA-AAAAAT
61044 AAAATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 5 0.20
20 9 0.36
21 8 0.32
22 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAAATTATAAATATTAA
Found at i:72125 original size:15 final size:13
Alignment explanation
Indices: 72095--72137 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
72085 AAGCCTATCA
*
72095 ATTTTTTTAATTT
1 ATTTTTTTAATAT
*
72108 ATTTTTTTAAAAT
1 ATTTTTTTAATAT
72121 ATATTTTTTAA-AT
1 AT-TTTTTTAATAT
72134 ATTT
1 ATTT
72138 AATATTTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 2 0.07
13 17 0.63
14 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTTTTAATAT
Found at i:72252 original size:25 final size:24
Alignment explanation
Indices: 72197--72252 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
72187 ATATATTTTT
* *
72197 TAATATTTACACTATAATATTACA
1 TAATATTTACACCATAAAATTACA
* *
72221 TATATATTTATACCATAAAAATTACC
1 TA-ATATTTACACCAT-AAAATTACA
72247 TAATAT
1 TAATAT
72253 ATAAAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 15 0.58
26 9 0.35
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (24 bp):
TAATATTTACACCATAAAATTACA
Found at i:72276 original size:13 final size:14
Alignment explanation
Indices: 72251--72293 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
72241 ATTACCTAAT
*
72251 ATATAAAATATAAA
1 ATATAATATATAAA
*
72265 AT-TAATATATAAC
1 ATATAATATATAAA
72278 ATATAAT-TATAAA
1 ATATAATATATAAA
72291 ATA
1 ATA
72294 GGTGGATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATAATATATAAA
Found at i:74223 original size:79 final size:78
Alignment explanation
Indices: 74102--74457 Score: 487
Period size: 79 Copynumber: 4.5 Consensus size: 78
74092 TTTTAGAGAT
* * * * *
74102 AACAACGGGGCTAGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGAGTTGG
1 AACAACGGGGTTGGAGTATCCCCGATTATGAAAAATT-AAGTTTTAGAAATAAAACCGGGGTTGG
**
74167 AGTATCCCTTCGAA
65 AGTATCCCCGCGAA
* *
74181 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAACACCGGGGTTGG
1 AACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAA-GTTTTAGAAATAAAACCGGGGTTGG
* *
74246 AGTATCTCTGCGAA
65 AGTATCCCCGCGAA
* ** *
74260 AACAACAGGGTTGGAGTATCCCCGATTACAAAAAATTGAAGTTTTAGAAATAAAACCAGGGTTGG
1 AACAACGGGGTTGGAGTATCCCCGATTATGAAAAATT-AAGTTTTAGAAATAAAACCGGGGTTGG
*
74325 AGTATCCCCGCGGA
65 AGTATCCCCGCGAA
*
74339 AACAACGGGGTTGGAGTATCCCCGATTACGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGG
1 AACAACGGGGTTGGAGTATCCCCGATTATGAAAAATT-AAGTTTTAGAAATAAAACCGGGGTTGG
*
74404 AGTATCCCCGCGGA
65 AGTATCCCCGCGAA
* * *
74418 AATAACGGAGTTGGAGTATCCCCGATTGTGAAAAATTAAG
1 AACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAG
74458 AAACTTAACA
Statistics
Matches: 250, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
78 4 0.02
79 244 0.98
80 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (78 bp):
AACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAGTTTTAGAAATAAAACCGGGGTTGGA
GTATCCCCGCGAA
Found at i:75890 original size:21 final size:21
Alignment explanation
Indices: 75864--75929 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
75854 TATGCCCATC
75864 ATTCCATGCCTCCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
*
75885 ATTCCATG-C-CCA----T-C
1 ATTCCATGCCTCCATTTTTAT
*
75899 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
75920 ATTCCATGCC
1 ATTCCATGCC
75930 CATCATTCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
14 8 0.23
15 2 0.06
16 2 0.06
19 3 0.09
20 2 0.06
21 18 0.51
ACGTcount: A:0.20, C:0.32, G:0.06, T:0.42
Consensus pattern (21 bp):
ATTCCATGCCTCCATTTTTAT
Found at i:75894 original size:35 final size:34
Alignment explanation
Indices: 75836--76021 Score: 287
Period size: 35 Copynumber: 5.6 Consensus size: 34
75826 CTCATTTTCA
*
75836 TCCATGCTTTCATTTT-T-TT--ATGCCCATCAT
1 TCCATGCCTTCATTTTATATTCCATGCCCATCAT
*
75866 TCCATGCCTCCATTTTTATATTCCATGCCCATCAT
1 TCCATGCCTTCA-TTTTATATTCCATGCCCATCAT
75901 TCCATGCCTTCATTTTTATATTCCATGCCCATCAT
1 TCCATGCCTTCA-TTTTATATTCCATGCCCATCAT
75936 TCCATGCCTTCATTTTATATTCCATGCCCATCAT
1 TCCATGCCTTCATTTTATATTCCATGCCCATCAT
75970 TCCATGCCTTCATTTT-TATT-CATG-CCATCAT
1 TCCATGCCTTCATTTTATATTCCATGCCCATCAT
76001 TCCATGCCTTCATTTTATATT
1 TCCATGCCTTCATTTTATATT
76022 TTTTTGAATT
Statistics
Matches: 147, Mismatches: 3, Indels: 10
0.92 0.02 0.06
Matches are distributed among these distances:
30 10 0.07
31 27 0.18
32 9 0.06
33 6 0.04
34 38 0.26
35 57 0.39
ACGTcount: A:0.19, C:0.30, G:0.06, T:0.45
Consensus pattern (34 bp):
TCCATGCCTTCATTTTATATTCCATGCCCATCAT
Found at i:75904 original size:14 final size:14
Alignment explanation
Indices: 75885--75977 Score: 51
Period size: 14 Copynumber: 5.7 Consensus size: 14
75875 CCATTTTTAT
75885 ATTCCATGCCCATC
1 ATTCCATGCCCATC
*
75899 ATTCCATGCCTTCATTTTT
1 ATTCCATGCC--CA---TC
75918 ATATTCCATGCCCATC
1 AT--TCCATGCCCATC
*
75934 ATTCCATGCCTTCATTTTAT
1 ATTCCATGCC--CA---T-C
75954 ATTCCATGCCCATC
1 ATTCCATGCCCATC
75968 ATTCCATGCC
1 ATTCCATGCC
75978 TTCATTTTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 26
0.67 0.04 0.28
Matches are distributed among these distances:
14 28 0.45
15 1 0.02
16 7 0.11
18 2 0.03
19 6 0.10
20 10 0.16
21 8 0.13
ACGTcount: A:0.20, C:0.34, G:0.06, T:0.39
Consensus pattern (14 bp):
ATTCCATGCCCATC
Found at i:75973 original size:69 final size:66
Alignment explanation
Indices: 75836--76021 Score: 297
Period size: 65 Copynumber: 2.8 Consensus size: 66
75826 CTCATTTTCA
* *
75836 TCCATGCTTTCATTTTT-TT-ATGCCCATCATTCCATGCCTCCATTTTTATATTCCATGCCCATC
1 TCCATGCCTTCATTTTTATTCATGCCCATCATTCCATGCCTTCA-TTTTATATTCCATGCCCATC
75899 AT
65 AT
75901 TCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTATATTCCATGCCCA
1 TCCATGCCTTCA-TTTT-TATT-CATGCCCATCATTCCATGCCTTCATTTTATATTCCATGCCCA
75966 TCAT
63 TCAT
75970 TCCATGCCTTCATTTTTATTCATG-CCATCATTCCATGCCTTCATTTTATATT
1 TCCATGCCTTCATTTTTATTCATGCCCATCATTCCATGCCTTCATTTTATATT
76022 TTTTTGAATT
Statistics
Matches: 114, Mismatches: 2, Indels: 10
0.90 0.02 0.08
Matches are distributed among these distances:
65 39 0.34
66 8 0.07
67 5 0.04
68 6 0.05
69 34 0.30
70 22 0.19
ACGTcount: A:0.19, C:0.30, G:0.06, T:0.45
Consensus pattern (66 bp):
TCCATGCCTTCATTTTTATTCATGCCCATCATTCCATGCCTTCATTTTATATTCCATGCCCATCA
T
Found at i:76523 original size:40 final size:42
Alignment explanation
Indices: 76479--76572 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
76469 TCCCACTTTT
* *
76479 TTGAGGACAAAGAAAAAG-AGAATTAA-ATAG-GTCCTGCTCC
1 TTGAGGACAAAGAAAAAGAAGAA-AAAGAAAGTGTCCTGCTCC
* *
76519 TTGAGGACAAAGGAAAAGAAGAAAAAGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGAAAAAGAAGAAAAAGAAAGTGTCCTGCTCC
*
76561 TTAAGGACAAAG
1 TTGAGGACAAAG
76573 TGAAAAGGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 19 0.41
41 7 0.15
42 20 0.43
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.18
Consensus pattern (42 bp):
TTGAGGACAAAGAAAAAGAAGAAAAAGAAAGTGTCCTGCTCC
Found at i:76805 original size:61 final size:61
Alignment explanation
Indices: 76715--77192 Score: 528
Period size: 61 Copynumber: 7.9 Consensus size: 61
76705 AAAGAAGTGT
* * * *
76715 GTCCAGCTCTTTGAGGATTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGC
* * *
76776 GTCCTGCTCTTCGAGGACT-AGAAGATGCCACCAACTAGTGTGGGATTTGCAAAA-AGAAA-GC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGCTTTG-AAAAGA-AAAGGC
* * * *
76837 ATCATGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGC
* * * *
76898 GTCCTACTCTTCGAGGACTG-GAAGATGCCACCAACTAGTGTGGGATTTGCAAAA-AGAAA-GC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGCTTTG-AAAAGA-AAAGGC
* * * *
76959 ATCCTGTTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGC
* * * * *
77020 GTCCTGCTCTTCGAGGACTG-GAAGATGACACCAACTAGTGTGGGATTTGCAAAA-AAAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGCTTTG-AAAAGAAAAGGC
* * *
77081 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAA-GAAAAGGC
* *
77142 GTCCTGCTCTTTGAGGACTG-AAAGTGCC-CTCAACTTGTGCGGGCTTTGAAA
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCAC-CAACTAGTGTGGGCTTTGAAA
77193 GGCGTCTTGC
Statistics
Matches: 349, Mismatches: 49, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
59 5 0.01
60 48 0.14
61 268 0.77
62 28 0.08
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAGAAAAGGC
Found at i:76862 original size:122 final size:122
Alignment explanation
Indices: 76720--77169 Score: 769
Period size: 122 Copynumber: 3.7 Consensus size: 122
76710 AGTGTGTCCA
*
76720 GCTCTTTGAGGATTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTGCTC
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTGCTC
* *
76785 TTCGAGGACTAGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCAT
66 TTCGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCT
*
76842 GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTACTC
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTGCTC
76907 TTCGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCT
66 TTCGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCT
*
76964 GTTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTGCTC
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTGCTC
* *
77029 TTCGAGGACTGGAAGATGACACCAACTAGTGTGGGATTTGCAAAAAAAAAGCATCCT
66 TTCGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCT
* * *
77086 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGTCCTGCT
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAA-GAAAAGGCGTCCTGCT
* *
77150 CTTTGAGGACTGAAAG-TGCC
65 CTTCGAGGACTGGAAGATGCC
77170 CTCAACTTGT
Statistics
Matches: 312, Mismatches: 15, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
121 7 0.02
122 305 0.98
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (122 bp):
GCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCGTCCTGCTC
TTCGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCT
Found at i:77298 original size:94 final size:94
Alignment explanation
Indices: 77130--77314 Score: 277
Period size: 94 Copynumber: 2.0 Consensus size: 94
77120 GTGGGCTTTA
*
77130 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAGTGCCCTCAACTTGTGCGGGCTTTGAAAGG
1 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAGTGCCCTCAACTTGTGCGGGCTTTAAAAGG
* *
77195 CGTCTTGCTCTTTGAGGACT-AAAGGGTG
66 AGTCCTGCTCTTTGAGGACTGAAAGGGTG
* *
77223 AAAGGAG-AGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCAC-CAACTTGTGTGGGCTTTAAA
1 AAAGGAGAAG-GCGTCCTGCTCTTTGAGGACT-GAAAGTGCC-CTCAACTTGTGCGGGCTTTAAA
77286 AGGAGTCCTGCTCTTTGAGGACTGAAAGG
63 AGGAGTCCTGCTCTTTGAGGACTGAAAGG
77315 TGTCACCAAC
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
92 2 0.02
93 28 0.34
94 47 0.57
95 6 0.07
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (94 bp):
AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAGTGCCCTCAACTTGTGCGGGCTTTAAAAGG
AGTCCTGCTCTTTGAGGACTGAAAGGGTG
Found at i:77300 original size:55 final size:55
Alignment explanation
Indices: 77233--78495 Score: 763
Period size: 55 Copynumber: 22.5 Consensus size: 55
77223 AAAGGAGAGA
*
77233 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
77288 GAGTCCTGCTCTTTGAGGACTGAAAGGTGTCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
77343 GCGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
77398 GCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTAGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
77453 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
77508 GCGTCCTGCTCTTTGAGGGCTGAAATGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* *
77569 GCGTCCTGCCCTTTGAGGACT-AAAGGGTGCCACGAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* * ** * ** *
77630 GCGTCCTGCTCTTTGAGGACTGGAAGG-GCTAAAGGAGGGAGC--GTCCTGCTCTTTGAGGACTA
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGC--CACCA---A-CTTGT-GTGGGCTTT-A--A-AA
77692 G
55 G
* ** * * * ** *** *** ** * * ** *
77693 GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC-TCTTTGAGG-ACTGAAAG
1 G-CGT-CCTGC-TCTT-TGAGGACTGAAAGGTGCCACCAACTTGTGTG-GGCTTTAAAAG
* ** * * * *** *** ** ** * * * * *
77751 GTG-CCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC-TCTTTGAAG-ATTGAAAG
1 GCGTCCTGC-TCTT-TGAGGACTGAAAGGTGCCACCAACTTGTGTG-GGCTTTAAAAG
* * * ** ** *
77806 GTG-CC-AC-C----A--ACTTG---TGTG-----GGCTT-TGAAAGGC---GAA-G
1 GCGTCCTGCTCTTTGAGGAC-TGAAAGGTGCCACCAACTTGTG-TGGGCTTTAAAAG
* * * *
77841 GCGTCCTGCTTTTTGAGGATTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
77897 GCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-
1 GCGTCCTGCTCTTTGAGGACTGAA-AGGTGCCACCAACTTGTGTGGGCTTT-AAAAG
* *
77952 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* *
78013 GCGTCCTGCTCTTTGAGGACTGAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
78068 GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AA----AAG
*
78129 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
78185 GTGTCTTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGT---CTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
78237 GCATCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
78292 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
78347 GCGTCCTGCTCTTTGAGGGCTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* * *
78408 GCATCCTGCCCTTTGAGGACT-AAAGGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTT------AAAAG
*
78469 GCGTCCTGCTCTTTGAGGACTGGAAGG
1 GCGTCCTGCTCTTTGAGGACTGAAAGG
78496 GCTAAAAAAG
Statistics
Matches: 998, Mismatches: 127, Indels: 160
0.78 0.10 0.12
Matches are distributed among these distances:
35 3 0.00
36 5 0.01
37 1 0.00
38 4 0.00
39 1 0.00
42 1 0.00
43 2 0.00
44 2 0.00
45 1 0.00
46 1 0.00
47 3 0.00
52 54 0.05
53 2 0.00
54 12 0.01
55 532 0.53
56 55 0.06
57 2 0.00
58 3 0.00
59 1 0.00
60 17 0.02
61 225 0.23
62 40 0.04
63 4 0.00
64 4 0.00
65 10 0.01
66 4 0.00
67 8 0.01
68 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:77664 original size:40 final size:41
Alignment explanation
Indices: 77620--77696 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 41
77610 GTGGGCTTTA
77620 AAAGGAAA-AGGCGTCCTGCTCTTTGAGGACT-GGAAGGGCT
1 AAAGGAAAGA-GCGTCCTGCTCTTTGAGGACTAGGAAGGGCT
**
77660 AAAGGAGGGAGCGTCCTGCTCTTTGAGGACTAGGAAG
1 AAAGGAAAGAGCGTCCTGCTCTTTGAGGACTAGGAAG
77697 TGCCACCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 27 0.82
41 6 0.18
ACGTcount: A:0.27, C:0.17, G:0.36, T:0.19
Consensus pattern (41 bp):
AAAGGAAAGAGCGTCCTGCTCTTTGAGGACTAGGAAGGGCT
Found at i:77960 original size:172 final size:165
Alignment explanation
Indices: 77670--78495 Score: 975
Period size: 172 Copynumber: 4.8 Consensus size: 165
77660 AAAGGAGGGA
* *
77670 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
* * *
77734 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGA
65 TCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGTCCTGCTCTTTGAGGA
*
77799 TTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
129 CTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AA----AAG
* * *
77841 GCGTCCTGCTTTTTGAGGATTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
* *
77906 TCTTTGAGGACTAAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAGTCCTGCTCTTTGAGGA
65 TCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGTCCTGCTCTTTGAGGA
*
77971 CTGAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGAAAAG
129 CTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAAAG
* * * *
78013 GCGTCCTGCTCTTTGAGGACTGAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
78078 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTT
66 CTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTG-AA----AA-GAGTCCTGCTCTTT
*
78143 GAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG
124 GAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
* * * * *
78185 GTGTCTTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGT---CTTTGAAAGGCATCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
*
78247 CTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGTCCTGCTCTTTGAGG
66 CTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAGTCCTGCTCTTTGAGG
78310 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG
128 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
* * *
78347 GCGTCCTGCTCTTTGAGGGCTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGT
* * *
78412 CCTGCCCTTTGAGGACTAAAGGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
60 CCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTT-----GAAAA-GAGTCCTG
*
78477 CTCTTTGAGGACTGGAAGG
118 CTCTTTGAGGACTGAAAGG
78496 GCTAAAAAAG
Statistics
Matches: 575, Mismatches: 45, Indels: 64
0.84 0.07 0.09
Matches are distributed among these distances:
162 70 0.12
163 23 0.04
165 4 0.01
167 2 0.00
169 54 0.09
170 3 0.01
171 143 0.25
172 193 0.34
173 1 0.00
176 4 0.01
177 51 0.09
178 27 0.05
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (165 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGTCCTGCTCTTTGAGGACT
GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
Found at i:78092 original size:26 final size:26
Alignment explanation
Indices: 78009--78096 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
77999 TTTGAAAGGA
*
78009 AAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * *
78035 AGAGGTG-CCACCAACTTGTGTGGGCTTTG
1 AAAGGTGTCCTGC-TCTT-TGAGGAC--TG
78064 AAAGGTGTCCTGCTCTTTGAGGACTG
1 AAAGGTGTCCTGCTCTTTGAGGACTG
78090 AAAGGTG
1 AAAGGTG
78097 CCACCAACTT
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.39
27 5 0.11
28 5 0.11
29 11 0.25
30 3 0.07
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.27
Consensus pattern (26 bp):
AAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:78182 original size:288 final size:280
Alignment explanation
Indices: 77672--78463 Score: 1234
Period size: 288 Copynumber: 2.8 Consensus size: 280
77662 AGGAGGGAGC
77672 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
* *
77737 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGATTG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
* *
77802 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTTTTTGAGGATTAGAAA
131 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAGGACTAGAAA
*
77867 AGTGCCACTAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTA-AGAAGTGCCACC
196 AGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGA-AAGTGCCACC
77931 AACTCGTGTGGGCTTTGAAAAG-A
260 AACT--TGT-GGCTTTGAAAAGCA
* * *
77954 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT------AAAAGGAGTC
* *
78018 CTGCTCTTTGAGGACTGAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTG
59 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
78083 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAGGA
124 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAGGA
* * *
78148 CTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCTTGCTCTTTGAGGACTGGAAAGT
189 CTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGT
* *
78213 GCCACCAACTTGTGTCTTTGAAAGGCA
254 GCCACCAACTTGTGGCTTTGAAAAGCA
*
78240 -TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
*
78304 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGGCTG
66 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
** * * *
78369 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTGCCCTTTGAGGACTA-AAG
131 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAGGACTAGAAA
* *
78433 GGTGCCACCAACTTTTGTGGGCTTTAAAAGG
196 AGTGCCACCAACTTGTGTGGGCTTTAAAAGG
78464 AAAAGGCGTC
Statistics
Matches: 472, Mismatches: 28, Indels: 24
0.90 0.05 0.05
Matches are distributed among these distances:
278 31 0.07
279 135 0.29
281 3 0.01
282 42 0.09
285 51 0.11
286 7 0.01
288 202 0.43
289 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (280 bp):
GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAGGACTAGAAA
AGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCA
ACTTGTGGCTTTGAAAAGCA
Found at i:78373 original size:26 final size:26
Alignment explanation
Indices: 78288--78373 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
78278 GTGGGCTTTA
*
78288 AAAGGAGTCCTGCTCTTTGAGGACTG
1 AAAGGAGTCCTGCTCTTTGAGGGCTG
* ** * *
78314 AAAGGTG-CCACCAACTTGTGTGGGCTTTG
1 AAAGGAGTCCTGC-TCTT-TGAGGGC--TG
*
78343 AAAGGCGTCCTGCTCTTTGAGGGCTG
1 AAAGGAGTCCTGCTCTTTGAGGGCTG
78369 AAAGG
1 AAAGG
78374 TGCCACCAAC
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.36
27 5 0.11
28 6 0.14
29 11 0.25
30 3 0.07
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.26
Consensus pattern (26 bp):
AAAGGAGTCCTGCTCTTTGAGGGCTG
Found at i:78402 original size:110 final size:109
Alignment explanation
Indices: 77233--78495 Score: 1422
Period size: 110 Copynumber: 11.2 Consensus size: 109
77223 AAAGGAGAGA
*
77233 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
*
77297 TCTTTGAGGACTGAAAGGTGTCACCAACTTGTGTGGGCTTTGAAAG
65 TCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
77343 GCGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
* * *
77408 CTTTGAGGACTGGGAAGTGCCACCAACTTGTGTAGGCTTTAAAAG
66 CTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
77453 GAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
*
77518 CTTTGAGGGCTGAAATGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
66 CTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* *
77569 GCGTCCTGCCCTTTGAGGACT-AAAGGGTGCCACGAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGG---A---G
* * * *
77633 TCCTGCTCTTTGAGGACTGGAAGGGCTA--AA---G-G-AGG----G--A-
59 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
77670 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
77734 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
65 TCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
77780 GCGTCCTGCTCTTTGAAGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AA----AAGGAGT
* * * *
77845 CCTGCTTTTTGAGGATTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAG
60 CCTGCTCTTTGAGGACT-G-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
77897 GCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAGTCCTG
1 GCGTCCTGCTCTTTGAGGACTGAA-AGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGTCCTG
*
77960 CTCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTGAAAGGAAAAG
64 CTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* * *
78013 GCGTCCTGCTCTTTGAGGACTGAGAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
78078 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
66 CTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTG--A----AAG
* * *
78129 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCTTGC
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
78194 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGT---CTTTGAAAG
65 TCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
78237 GCATCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGC
78301 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
65 TCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
78347 GCGTCCTGCTCTTTGAGGGCTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG---A-G--T
* *
78412 CCTGCCCTTTGAGGACT-AAAGGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAG
60 CCTGCTCTTTGAGGACTGAAA--GTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
*
78469 GCGTCCTGCTCTTTGAGGACTGGAAGG
1 GCGTCCTGCTCTTTGAGGACTGAAAGG
78496 GCTAAAAAAG
Statistics
Matches: 1001, Mismatches: 75, Indels: 142
0.82 0.06 0.12
Matches are distributed among these distances:
95 22 0.02
96 4 0.00
98 3 0.00
101 50 0.05
102 2 0.00
103 4 0.00
105 1 0.00
106 4 0.00
107 66 0.07
108 26 0.03
109 16 0.02
110 312 0.31
111 22 0.02
112 7 0.01
113 1 0.00
114 8 0.01
115 10 0.01
116 239 0.24
117 140 0.14
118 7 0.01
119 2 0.00
121 5 0.00
122 50 0.05
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (109 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
CTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:83685 original size:79 final size:78
Alignment explanation
Indices: 83554--83897 Score: 447
Period size: 79 Copynumber: 4.3 Consensus size: 78
83544 AAAGGGGCTA
* * * * * *
83554 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACTGAGGTTGGAATATCCCTTCGA
1 GAGTATCCCCGATTATGAAAAATT-AAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTGCGA
83619 AAATAACGGGGTTG
65 AAATAACGGGGTTG
* * ** * *
83633 GAGTATCCCCGATTATGAAAAATTAATGTTCTAGAAATAACATTGGGGTTGGATTATCCCTGCGG
1 GAGTATCCCCGATTATGAAAAATTAA-GTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTGCGA
* *
83698 AAACAATGGGGTTG
65 AAATAACGGGGTTG
* *
83712 GAGTATCCCCGATTACGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTAT-CCTAACG
1 GAGTATCCCCGATTATGAAAAATT-AAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCT-GCG
83776 AAAATAACGGGGTTG
64 AAAATAACGGGGTTG
* * *
83791 GAGTATCCCCGATTACGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGG
1 GAGTATCCCCGATTATGAAAAATT-AAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTGCGA
83856 AAATAACGGGGTTG
65 AAATAACGGGGTTG
*
83870 GAGTATCCCCGATTGTGAAAAAATTAAG
1 GAGTATCCCCGATTATG-AAAAATTAAG
83898 AAACTTAACA
Statistics
Matches: 234, Mismatches: 26, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
78 4 0.02
79 219 0.94
80 11 0.05
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (78 bp):
GAGTATCCCCGATTATGAAAAATTAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTGCGAA
AATAACGGGGTTG
Found at i:85308 original size:30 final size:34
Alignment explanation
Indices: 85272--85425 Score: 199
Period size: 35 Copynumber: 4.6 Consensus size: 34
85262 CTCATTTTCG
*
85272 TCCATG-CTTTAATTTT-T-TT-ATGCCCATCAT
1 TCCATGCCTTCAATTTTATATTCATGCCCATCAT
*
85302 TCCATGCCTTCATTTTTATATTCCATGCCCATCAT
1 TCCATGCCTTCAATTTTATATT-CATGCCCATCAT
*
85337 TCCATGCCTTCATTTTTATATTCCATGCCCATCAT
1 TCCATGCCTTCAATTTTATATT-CATGCCCATCAT
* *
85372 TCCATGCCTTCATTTTTATATTCCATTCCCATCAT
1 TCCATGCCTTCAATTTTATATT-CATGCCCATCAT
*
85407 TCCATGCCTTCATTTTTAT
1 TCCATGCCTTCAATTTTAT
85426 TTTTTTTTGA
Statistics
Matches: 116, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
30 6 0.05
31 8 0.07
32 1 0.01
33 2 0.02
35 99 0.85
ACGTcount: A:0.19, C:0.29, G:0.05, T:0.46
Consensus pattern (34 bp):
TCCATGCCTTCAATTTTATATTCATGCCCATCAT
Found at i:85330 original size:35 final size:35
Alignment explanation
Indices: 85291--85425 Score: 261
Period size: 35 Copynumber: 3.9 Consensus size: 35
85281 TAATTTTTTT
85291 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
85326 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
85361 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
85396 ATTCCCATCATTCCATGCCTTCATTTTTAT
1 ATGCCCATCATTCCATGCCTTCATTTTTAT
85426 TTTTTTTTGA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 99 1.00
ACGTcount: A:0.20, C:0.31, G:0.05, T:0.44
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Done.