Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold506_ERROPOS18720927
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: 98979
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:156 original size:26 final size:26
Alignment explanation
Indices: 126--202 Score: 81
Period size: 26 Copynumber: 3.1 Consensus size: 26
116 CATAAATACT
126 GATGAACGGTCACATAGCACATTGTG
1 GATGAACGGTCACATAGCACATTGTG
** * *
152 GATGAACCATCACATAG----TTATC
1 GATGAACGGTCACATAGCACATTGTG
*
174 GATGAACGGTCACATAGCACATCGTG
1 GATGAACGGTCACATAGCACATTGTG
200 GAT
1 GAT
203 AAACCACCAC
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
22 18 0.47
26 20 0.53
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (26 bp):
GATGAACGGTCACATAGCACATTGTG
Found at i:5331 original size:29 final size:30
Alignment explanation
Indices: 5272--5329 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5262 TCCGAGCCTT
*
5272 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
5302 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
5330 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:5558 original size:13 final size:13
Alignment explanation
Indices: 5540--5571 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5530 ATTCCAGCAA
5540 TTATGAATTTATT
1 TTATGAATTTATT
5553 TTATGAATTTATT
1 TTATGAATTTATT
*
5566 TGATGA
1 TTATGA
5572 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:5779 original size:50 final size:50
Alignment explanation
Indices: 5666--5907 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
5656 ATTTGGGTAA
* * * *
5666 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
5722 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
5772 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
5822 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
** *
5872 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATATAAGACCATGTCTGGGACATGGC
5908 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:5854 original size:100 final size:103
Alignment explanation
Indices: 5666--5915 Score: 373
Period size: 100 Copynumber: 2.4 Consensus size: 103
5656 ATTTGGGTAA
5666 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
*
5731 CTATAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
5772 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
5834 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
5872 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
5916 GTTATTATCA
Statistics
Matches: 134, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 52 0.39
101 39 0.29
105 2 0.01
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:10019 original size:9 final size:9
Alignment explanation
Indices: 10005--10088 Score: 116
Period size: 9 Copynumber: 9.4 Consensus size: 9
9995 TTTTGTTAAA
10005 AATTAACCG
1 AATTAACCG
10014 AATTAACCG
1 AATTAACCG
10023 AATTAACC-
1 AATTAACCG
*
10031 AATTACCCG
1 AATTAACCG
10040 AATTAACCG
1 AATTAACCG
*
10049 AATTACCCG
1 AATTAACCG
*
10058 AATTACCCG
1 AATTAACCG
*
10067 AATTAACCA
1 AATTAACCG
*
10076 AATTAACCA
1 AATTAACCG
10085 AATT
1 AATT
10089 GAATCACTAC
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
8 7 0.10
9 62 0.90
ACGTcount: A:0.44, C:0.25, G:0.07, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:11214 original size:20 final size:20
Alignment explanation
Indices: 11171--11208 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11161 TTTTTTTATG
*
11171 TATTTAAATTTATATTTTGT
1 TATTTAAATTAATATTTTGT
*
11191 TATTTAAGTTAATATTTT
1 TATTTAAATTAATATTTT
11209 TATATTAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TATTTAAATTAATATTTTGT
Found at i:11330 original size:21 final size:21
Alignment explanation
Indices: 11304--11349 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
11294 TAAATATATA
11304 TATATAAATTAATTAAAAAAG
1 TATATAAATTAATTAAAAAAG
11325 TATATAAATTAATTAAAAAAG
1 TATATAAATTAATTAAAAAAG
11346 TATA
1 TATA
11350 CATTTCTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
TATATAAATTAATTAAAAAAG
Found at i:11566 original size:20 final size:20
Alignment explanation
Indices: 11529--11567 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11519 TGTGTTAGTG
* *
11529 AAAAAATACCAATCTAAATA
1 AAAAAATACAAATATAAATA
*
11549 AAAAAATATAAATATAAAT
1 AAAAAATACAAATATAAAT
11568 CAAATTACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAAATACAAATATAAATA
Found at i:17945 original size:29 final size:30
Alignment explanation
Indices: 17886--17943 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17876 TCCGAGCCTT
*
17886 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
17916 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
17944 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:18173 original size:13 final size:13
Alignment explanation
Indices: 18155--18186 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18145 TTTCCAGCAA
18155 TTATGAATTTATT
1 TTATGAATTTATT
18168 TTATGAATTTATT
1 TTATGAATTTATT
*
18181 TGATGA
1 TTATGA
18187 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:18394 original size:50 final size:50
Alignment explanation
Indices: 18281--18522 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
18271 ATTTGGGTAA
* * *
18281 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
18337 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
18387 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
18437 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
18487 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
18523 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:18470 original size:100 final size:103
Alignment explanation
Indices: 18281--18530 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
18271 ATTTGGGTAA
18281 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
18346 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
18387 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
18449 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
18487 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
18531 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:22638 original size:9 final size:9
Alignment explanation
Indices: 22624--22707 Score: 116
Period size: 9 Copynumber: 9.4 Consensus size: 9
22614 TTTTGTTAAA
22624 AATTAACCG
1 AATTAACCG
22633 AATTAACCG
1 AATTAACCG
22642 AATTAACC-
1 AATTAACCG
*
22650 AATTACCCG
1 AATTAACCG
22659 AATTAACCG
1 AATTAACCG
*
22668 AATTACCCG
1 AATTAACCG
*
22677 AATTACCCG
1 AATTAACCG
*
22686 AATTAACCA
1 AATTAACCG
*
22695 AATTAACCA
1 AATTAACCG
22704 AATT
1 AATT
22708 GAATCACTAC
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
8 7 0.10
9 62 0.90
ACGTcount: A:0.44, C:0.25, G:0.07, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:30735 original size:15 final size:15
Alignment explanation
Indices: 30715--30744 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30705 CGTGCTTGCT
30715 TATGTTTTGTTCTAA
1 TATGTTTTGTTCTAA
30730 TATGTTTTGTTCTAA
1 TATGTTTTGTTCTAA
30745 CCCTTCTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (15 bp):
TATGTTTTGTTCTAA
Found at i:33237 original size:6 final size:6
Alignment explanation
Indices: 33189--33223 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
33179 AAGAAAAAGA
* *
33189 AAAATC AAAATC AAAATC AAAGTC AAAATG AAAAT
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT
33224 GAAGAAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:34219 original size:13 final size:14
Alignment explanation
Indices: 34201--34240 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
34191 CTCCGAGTAA
*
34201 AAAAATG-AGAATG
1 AAAAATGAAAAATG
34214 AAAAATGAAAAATG
1 AAAAATGAAAAATG
34228 AAAAA-GAAAAATG
1 AAAAATGAAAAATG
34241 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:34226 original size:20 final size:20
Alignment explanation
Indices: 34201--34240 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34191 CTCCGAGTAA
* *
34201 AAAAATGAGAATGAAAAATG
1 AAAAATGAAAAAGAAAAATG
34221 AAAAATGAAAAAGAAAAATG
1 AAAAATGAAAAAGAAAAATG
34241 GAGAGGCTAA
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:0.70, C:0.00, G:0.17, T:0.12
Consensus pattern (20 bp):
AAAAATGAAAAAGAAAAATG
Found at i:34238 original size:6 final size:7
Alignment explanation
Indices: 34201--34240 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
34191 CTCCGAGTAA
34201 AAAAATG
1 AAAAATG
*
34208 -AGAATG
1 AAAAATG
34214 AAAAATG
1 AAAAATG
34221 AAAAATG
1 AAAAATG
34228 AAAAA-G
1 AAAAATG
34234 AAAAATG
1 AAAAATG
34241 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 11 0.38
7 18 0.62
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:35667 original size:46 final size:44
Alignment explanation
Indices: 35594--35894 Score: 233
Period size: 46 Copynumber: 6.8 Consensus size: 44
35584 AGTAGATCGT
* *
35594 ATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA
1 ATCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGA
* **
35638 ATTTCAGATCTTATCTCCCTGATGTTACAGTGGAGCAGATTGAAGCA
1 A--TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAG-A
* * * *
35685 A-GAGATCTTATCTCCTTGAGATTACAATGGAGCAGATCC-AAGA
1 ATCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CCGAAGA
* * **
35728 CA-CA-ATCCTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-A
1 -ATCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGA
* * * * ** * * *
35769 ATAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATC---GC
1 AT-CA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGA
* *
35812 ATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA
1 ATCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGA
*
35856 ATTTTAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGA
1 A--TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGA
35895 TTGAAGCTAG
Statistics
Matches: 200, Mismatches: 40, Indels: 32
0.74 0.15 0.12
Matches are distributed among these distances:
40 1 0.00
41 29 0.14
42 4 0.02
43 32 0.16
44 62 0.31
46 70 0.35
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGA
Found at i:35710 original size:44 final size:44
Alignment explanation
Indices: 35468--35926 Score: 257
Period size: 44 Copynumber: 10.5 Consensus size: 44
35458 GAAAAATTTC
* * * **
35468 AGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTGG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCAAG
* * ** ** **
35512 TAG-TCTTATCTCCCTGAGATTACTGTGGGGTGGATTAAAATAA-
1 -AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCAAG
* ** * * *
35555 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGTATC-AG
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGCAAG
* * * *
35599 -G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG-AATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCAA---G
*
35643 AGATCTTATCTCCCTGATG-TTACAGTGGAGCAGATTGAAGCAAG
1 AGATCTTATCTCCCTGA-GATTACAGTGGAGCAGATCGAAGCAAG
* * * *
35687 AGATCTTATCTCCTTGAGATTACAATGGAGCAGATCCAAG-ACAC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCA-AG
* ** **
35731 A-ATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCAAG
* * ** * * *
35773 AGGATCTTATCTCTCT-AAAGTTACAGCAGAGTAGATCGCATC-AG
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGCAAG
* * * *
35817 -G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG-AATTTT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCAA---G
* * *
35861 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCTAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCAAG
*
35905 AGATCTTATTTCCCTGAGATTA
1 AGATCTTATCTCCCTGAGATTA
35927 TAACGGAATA
Statistics
Matches: 314, Mismatches: 72, Indels: 57
0.71 0.16 0.13
Matches are distributed among these distances:
41 58 0.18
42 5 0.02
43 41 0.13
44 136 0.43
45 4 0.01
46 66 0.21
47 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGCAAG
Found at i:35809 original size:87 final size:87
Alignment explanation
Indices: 35649--35809 Score: 193
Period size: 87 Copynumber: 1.9 Consensus size: 87
35639 TTTCAGATCT
* * ** **
35649 TATCTCCCTGATGTTACAGTGGAGCAGATTGAAGCAAGAGATCTTATCTCCTTGAGATTACAATG
1 TATCTCCCTGATGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCTAAAGATTACAACA
35714 GAGCAGATCCAAGACACAATCC
66 GAGCAGATCCAAGACACAATCC
*
35736 TATCTCCCTGA-GATTACAGTGGAGCAGATTAAAATAAAG-GATCTTATCTCTCTAAAG-TTACA
1 TATCTCCCTGATG-TTACAGTGGAGCAGATT-AAAGAAAGAGATCTTATCTC-CTAAAGATTACA
* *
35798 GCAGAGTAGATC
63 ACAGAGCAGATC
35810 GCATCAGGTC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
86 1 0.02
87 52 0.84
88 9 0.15
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (87 bp):
TATCTCCCTGATGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCTAAAGATTACAACA
GAGCAGATCCAAGACACAATCC
Found at i:35847 original size:218 final size:219
Alignment explanation
Indices: 35468--36028 Score: 777
Period size: 218 Copynumber: 2.6 Consensus size: 219
35458 GAAAAATTTC
* * * ** * * * *
35468 AGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAGTCTTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAACGGAACAGATCCAAGCTAGCAATCCTATCTCCCTGAGATT
* * *
35533 ACTGTGGGGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTATCA
66 ACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
*
35598 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGATGT
131 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGT
35663 TACAGTGGAGCAGATTGAAGCAAG
196 TACAGTGGAGCAGATTGAAGCAAG
* * *
35687 AGATCTTATCTCCTTGAGATTACAATGGAGCAGATCCAAGAC-A-CAATCCTATCTCCCTGAGAT
1 AGATCTTATCTCCCTGAGATTACAACGGAACAGATCCAAG-CTAGCAATCCTATCTCCCTGAGAT
** *
35750 TACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCATC
65 TACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
*
35815 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAGATCTTATCTCCCTGAGG
130 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
*
35880 TTACAGTGGAGCAGATTGAAGCTAG
195 TTACAGTGGAGCAGATTGAAGCAAG
* * * ** * * * *
35905 AGATCTTATTTCCCTGAGATTATAACGGAATAGATTGAAGCTAGTAATCCTAACTCTCT-AAAGT
1 AGATCTTATCTCCCTGAGATTACAACGGAACAGATCCAAGCTAGCAATCCTATCTCCCTGAGA-T
* * * *
35969 TACAGTGGAGTGGATTAAAATAAAGGATATTATCTCTTTGAAGTTACAGTAGAATAGATC
65 TACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATC
36029 ACATTAGATT
Statistics
Matches: 300, Mismatches: 38, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
217 1 0.00
218 198 0.66
219 100 0.33
220 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (219 bp):
AGATCTTATCTCCCTGAGATTACAACGGAACAGATCCAAGCTAGCAATCCTATCTCCCTGAGATT
ACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGT
TACAGTGGAGCAGATTGAAGCAAG
Found at i:36110 original size:99 final size:97
Alignment explanation
Indices: 35935--36131 Score: 245
Period size: 99 Copynumber: 2.0 Consensus size: 97
35925 TATAACGGAA
* * *
35935 TAGATTGAAGCTAGTAATCCTAACTCTCTAAAGTTACAGTGGAGTGGATTAAAATAAAGGATATT
1 TAGATTGAAGCGAGTAATCCTAACTCCCTAAAGTTACAGTGGAGTGGATTAAAACAAA-GATATT
* *
36000 ATCTCTTTGAAGTTACAGTAGAATAGATCACAT
65 ATCTCTCTGAAGTTACAGTAGAACAGATCACAT
**
36033 TAGATTGAAGCCGA-TAATCCTGTCTCCCTAAAGTTACATGTGGAGTGGATTAAAACCACAA-AT
1 TAGATTGAAG-CGAGTAATCCTAACTCCCTAAAGTTACA-GTGGAGTGGATTAAAA-CA-AAGAT
* * *
36096 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACAT
62 ATTATCTCTCTGAAGTTACAGTAGAACAGATCACAT
36132 CCAGTCTTAT
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
98 31 0.36
99 51 0.60
100 1 0.01
101 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (97 bp):
TAGATTGAAGCGAGTAATCCTAACTCCCTAAAGTTACAGTGGAGTGGATTAAAACAAAGATATTA
TCTCTCTGAAGTTACAGTAGAACAGATCACAT
Found at i:36292 original size:129 final size:128
Alignment explanation
Indices: 36048--36424 Score: 488
Period size: 129 Copynumber: 2.9 Consensus size: 128
36038 TGAAGCCGAT
* * *
36048 AATCCTGTCTCCCTAAAGTTACATGTGGAGTGGATTAAAACCACAAATCTTATCTCTCTGAAGTT
1 AATCCTATCTCCCTAAAGTTACA-GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * * *
36113 GCAGTAGAGCAGATCACATCCAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
65 ACAGTAGAGCAGATCGCAT-CAGTCTTATCTCTCTGAAGTTGCAGCGGAGCAGACGAAAGAAATA
* * *
36178 AATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTA
1 AATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTA
* * * *
36243 CAGTAGAGTAGATCGCATCAGGTCTTATCTCTTTGAGGTTACAGCGGAGCAGACGAAAGAAATA
66 CAGTAGAGCAGATCGCATCA-GTCTTATCTCTCTGAAGTTGCAGCGGAGCAGACGAAAGAAATA
* * * *
36307 AATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACCATAGATCTTATCTCCCT-AAG-CA
1 AATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTA
* * * * *
36370 GTAGTGGAGCAGATCGCATCAAGTCCTATCTCTCTGACGTTGCAGCGGAGTAGAC
66 -CAGTAGAGCAGATCGCATC-AGTCTTATCTCTCTGAAGTTGCAGCGGAGCAGAC
36425 TAAAACCACA
Statistics
Matches: 215, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
127 1 0.00
128 49 0.23
129 144 0.67
130 21 0.10
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (128 bp):
AATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTA
CAGTAGAGCAGATCGCATCAGTCTTATCTCTCTGAAGTTGCAGCGGAGCAGACGAAAGAAATA
Found at i:36366 original size:44 final size:44
Alignment explanation
Indices: 36055--36364 Score: 174
Period size: 44 Copynumber: 7.2 Consensus size: 44
36045 GATAATCCTG
* ** * *
36055 TCTCCCTAAAGTTACATGTGGAGTGGATTAAAACCACAAATCTTA
1 TCTCCCTGAAGTTACA-GTGGAGCAGATTAAAACCATAGATCTTA
* * * * * *
36100 TCTCTCTGAAGTTGCAGTAGAGCAGATCACATCC--AG-TCTTA
1 TCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCATAGATCTTA
* * ** * *
36141 TCTCTCTGAAGTTGCAGTGGAGCAGACGAAAGA-AATCA-ATCCTA
1 TCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ACCAT-AGATCTTA
* * * *
36185 TCTCCCTGAAGTTACAGTGAAGCGGATTAAAATCACAGATCTTA
1 TCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCATAGATCTTA
* * * *
36229 TCTCTCTGAAGTTACAGT--AG-AG--TAGATCGCATCAGGTCTTA
1 TCTCCCTGAAGTTACAGTGGAGCAGATTAAAAC-CAT-AGATCTTA
** * * ** * * *
36270 TCTCTTTGAGGTTACAGCGGAGCAGACGAAAGA-AATAAATCCTA
1 TCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ACCATAGATCTTA
*
36314 TCTCCCTAAAGTTACAGTGGAGCAGATTAAAACCATAGATCTTA
1 TCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCATAGATCTTA
36358 TCTCCCT
1 TCTCCCT
36365 AAGCAGTAGT
Statistics
Matches: 196, Mismatches: 53, Indels: 33
0.70 0.19 0.12
Matches are distributed among these distances:
39 3 0.02
40 2 0.01
41 55 0.28
42 3 0.02
43 5 0.03
44 111 0.57
45 15 0.08
46 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (44 bp):
TCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCATAGATCTTA
Found at i:38906 original size:108 final size:109
Alignment explanation
Indices: 38680--38878 Score: 260
Period size: 108 Copynumber: 1.8 Consensus size: 109
38670 CTAAATAAGG
* *
38680 CAATATTTAGCGTTTGGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCG
1 CAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTCTCG
* * * * *
38745 TTCAACCAAATAGCTAAATATCCTTTTAAAATTTTTAAAATAAGG
65 TTCAAACAAATAGCAAAATATCCTCTTAAAATTTTTAAAACAAGC
*
38790 CAATGTTTTGCGTTT-GGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTCGA-TTTCTCGT
1 CAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGT
* * *
38852 TTAAACAAATTGCCAAAATATTCTCTT
66 TCAAACAAATAG-CAAAATATCCTCTT
38879 GAATTTTAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
106 17 0.22
107 11 0.14
108 27 0.34
109 11 0.14
110 13 0.16
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (109 bp):
CAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGT
TCAAACAAATAGCAAAATATCCTCTTAAAATTTTTAAAACAAGC
Found at i:45417 original size:16 final size:17
Alignment explanation
Indices: 45396--45432 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
45386 GAAATAGCAG
*
45396 AAATAAAAATTTAAA-T
1 AAATAAAAAATTAAATT
45412 AAATAAAAAATTAAATT
1 AAATAAAAAATTAAATT
45429 AAAT
1 AAAT
45433 TGGAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATAAAAAATTAAATT
Found at i:47053 original size:7 final size:7
Alignment explanation
Indices: 47043--47079 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
47033 TTTTAAAATG
47043 CATTTCC
1 CATTTCC
47050 CATTTCTC
1 CATTTC-C
47058 CATTTCC
1 CATTTCC
47065 CATTTCC
1 CATTTCC
47072 CATTTCC
1 CATTTCC
47079 C
1 C
47080 TGAGCCCGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (7 bp):
CATTTCC
Found at i:47063 original size:15 final size:14
Alignment explanation
Indices: 47043--47079 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
47033 TTTTAAAATG
47043 CATTTCCCATTTCTC
1 CATTTCCCATTTC-C
47058 CATTTCCCATTTCC
1 CATTTCCCATTTCC
47072 CATTTCCC
1 CATTTCCC
47080 TGAGCCCGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (14 bp):
CATTTCCCATTTCC
Found at i:61715 original size:23 final size:24
Alignment explanation
Indices: 61666--61716 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
61656 AATGAGAGTT
*
61666 TATTTTCTTAGAATTAATAAATTC
1 TATTTTCTGAGAATTAATAAATTC
* *
61690 TATTTTCTGGGAATT-ATGAATTC
1 TATTTTCTGAGAATTAATAAATTC
61713 TATT
1 TATT
61717 GGTTTCTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (24 bp):
TATTTTCTGAGAATTAATAAATTC
Found at i:65607 original size:50 final size:50
Alignment explanation
Indices: 65483--65731 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
65473 GATAATAACA
* * ** * *
65483 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
65534 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
65584 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
65634 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
65689 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
65732 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:65661 original size:100 final size:104
Alignment explanation
Indices: 65482--65731 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
65472 TGATAATAAC
**
65482 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
65547 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
65584 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
65647 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
65689 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
65732 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:65847 original size:13 final size:13
Alignment explanation
Indices: 65826--65857 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
65816 GCTTGGATCA
*
65826 TCATCAAATAAAT
1 TCATAAAATAAAT
65839 TCATAAAATAAAT
1 TCATAAAATAAAT
65852 TCATAA
1 TCATAA
65858 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:66104 original size:30 final size:30
Alignment explanation
Indices: 66069--66126 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
66059 CCTCGACTCT
*
66069 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
66099 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
66127 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:76512 original size:46 final size:49
Alignment explanation
Indices: 76437--76611 Score: 169
Period size: 54 Copynumber: 3.5 Consensus size: 49
76427 ATGTGCCCAT
*
76437 GCCATGTCCCAGACATGGTCTTATAGGGACC-CTCATCTC-GTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACAGGGACCTCTCATCTCGGTGCCAAC
* * * *
76484 GCC-TGTCCCAGACAT-TTCTTACATGGGACCTTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACA-GGGACC-TCTCATCTCGGTGCCAAC
* * * * *
76533 GCCATGTCCCGGACATGGTCTTACAGGGGACCTCTCATTGCTTAAGATGTCAAT
1 GCCATGTCCCAGACATGGTCTTACA-GGGACCTCTCA-T-C-T-CGGTGCCAAC
76587 GCCATGTCCCAGACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
76612 TGAGATCTCT
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
45 6 0.06
46 18 0.17
47 3 0.03
48 7 0.07
49 9 0.09
50 15 0.14
51 14 0.13
52 1 0.01
53 1 0.01
54 30 0.29
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACAGGGACCTCTCATCTCGGTGCCAAC
Found at i:76518 original size:95 final size:96
Alignment explanation
Indices: 76393--76570 Score: 245
Period size: 96 Copynumber: 1.9 Consensus size: 96
76383 CAAAAGACCA
* **
76393 TGTCCCAGACATGGTTACATGGGATGTTCTCGTGAT-GTGCCCATGCCATGTCCCAGACATGGTC
1 TGTCCCAGACATGCTTACATGGGACCTTCTCGT-ATCGTGCCCATGCCATGTCCCAGACATGGTC
*
76457 TTATA-GGGACC-CTCATCTCGTGCCAACGCC
65 TTACAGGGGACCTCTCATCTCGTGCCAACGCC
* * *
76487 TGTCCCAGACATTTCTTACATGGGACCTTCTCGTCTCGGTGCCCATGCCATGTCCCGGACATGGT
1 TGTCCCAGACA-TGCTTACATGGGACCTTCTCGTATC-GTGCCCATGCCATGTCCCAGACATGGT
76552 CTTACAGGGGACCTCTCAT
64 CTTACAGGGGACCTCTCAT
76571 TGCTTAAGAT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
94 12 0.17
95 18 0.25
96 31 0.43
97 6 0.08
98 5 0.07
ACGTcount: A:0.18, C:0.31, G:0.24, T:0.28
Consensus pattern (96 bp):
TGTCCCAGACATGCTTACATGGGACCTTCTCGTATCGTGCCCATGCCATGTCCCAGACATGGTCT
TACAGGGGACCTCTCATCTCGTGCCAACGCC
Found at i:76731 original size:13 final size:13
Alignment explanation
Indices: 76715--76746 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
76705 TGCTTGGACA
*
76715 TCATCAAATAAAT
1 TCATAAAATAAAT
76728 TCATAAAATAAAT
1 TCATAAAATAAAT
76741 TCATAA
1 TCATAA
76747 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:76989 original size:28 final size:28
Alignment explanation
Indices: 76958--77014 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
76948 CCTCGACTCT
*
76958 AACTTTTCAAAATTACAATTTTGCCCCA
1 AACTTTACAAAATTACAATTTTGCCCCA
* *
76986 AACTTTACATAATTACATTTTTGCCCCA
1 AACTTTACAAAATTACAATTTTGCCCCA
77014 A
1 A
77015 GGTCGGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.37
Consensus pattern (28 bp):
AACTTTACAAAATTACAATTTTGCCCCA
Found at i:77141 original size:1 final size:1
Alignment explanation
Indices: 77135--77171 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
77125 TTACCGATTA
77135 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
77172 GTCGTTTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:81053 original size:56 final size:54
Alignment explanation
Indices: 80970--81098 Score: 186
Period size: 56 Copynumber: 2.3 Consensus size: 54
80960 ATCATGGCAT
*
80970 CGATATATGTGCGAGTAAGACCACGTTTTATATGTTGGCATCGATATGTGACTC
1 CGATATATGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
* * *
81024 CGATATATGTGTGTAAGTAAGACCGCGTTTTATACGTTGGCATCGATATGTGTCTC
1 CGATATATGTGCG--AGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
*
81080 CGATATATGTTACGAGTAA
1 CGATATATG-TGCGAGTAA
81099 ACCCTGCCTG
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
54 12 0.18
55 5 0.08
56 47 0.71
57 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (54 bp):
CGATATATGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
Found at i:82732 original size:40 final size:40
Alignment explanation
Indices: 82433--82728 Score: 420
Period size: 40 Copynumber: 7.5 Consensus size: 40
82423 AAGCCAAGTA
* * * * *
82433 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
82472 CCTTCGGGACATAGCCCGGATATTGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
82512 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
82552 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
82592 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
82632 CCTT-GGGACTTAGCCCAGATATGGTAACTCACACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
82671 CCTTC-GGACTTAGCCCGGTTATTGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
82710 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
82729 TTATCATCCA
Statistics
Matches: 231, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 81 0.35
40 150 0.65
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:91071 original size:40 final size:40
Alignment explanation
Indices: 90770--91067 Score: 447
Period size: 40 Copynumber: 7.5 Consensus size: 40
90760 AAGCCAAGTA
* * * * *
90770 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
90809 CCTTCGGGACATAGCCCGGATATTGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
90849 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
90889 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
90929 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
90969 CCTTGGGGACTTAGCCCGGATATGGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
91009 CCTTCGGGACTTAGCCCGGTTATTGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
91049 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
91068 TTATCATCCA
Statistics
Matches: 237, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.05
40 225 0.95
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:97823 original size:33 final size:33
Alignment explanation
Indices: 97785--97927 Score: 94
Period size: 33 Copynumber: 4.3 Consensus size: 33
97775 AATTGATGGA
*
97785 TAAGACCATGGCTGGGCCATGACAATATATGTG
1 TAAGACCATAGCTGGGCCATGACAATATATGTG
* * * * *
97818 TAAGACCATAGCTAGGCTATGGC-ATCCTGATG-A
1 TAAGACCATAGCTGGGCCATGACAAT-AT-ATGTG
** ** ** *
97851 TAAGACCATATTTGGGATATGACACCACGA-GTG
1 TAAGACCATAGCTGGGCCATGACAATA-TATGTG
* * *
97884 TAAGACCATGGCTGGGCCATGGCAATACATGTG
1 TAAGACCATAGCTGGGCCATGACAATATATGTG
97917 TAAGACCATAG
1 TAAGACCATAG
97928 TTGGACTATG
Statistics
Matches: 78, Mismatches: 26, Indels: 12
0.67 0.22 0.10
Matches are distributed among these distances:
32 4 0.05
33 71 0.91
34 3 0.04
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCCATGACAATATATGTG
Found at i:98003 original size:45 final size:45
Alignment explanation
Indices: 97954--98065 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 45
97944 TACCAGAAAT
* *
97954 GAGTAAGATCATAGCTGAAAGACGCTATGGCATCACGATTCAGAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCAAGATTCAGAC
* *
97999 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCAAGATTCAAAT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCAAGATTCAGAC
* * *
98044 GTGTAAGACCATGGTTGAAAGA
1 GAGTAAGACCATAGCTGAAAGA
98066 TACCATGGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGCTATGGCATCAAGATTCAGAC
Found at i:98100 original size:46 final size:45
Alignment explanation
Indices: 98047--98203 Score: 224
Period size: 46 Copynumber: 3.4 Consensus size: 45
98037 TTCAAATGTG
98047 TAAGACCATGGTTGAAAGATACCATGGTAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGG-AACATGACAGGAAATGAA
* *
98093 TAAGACCATGGTTGAAAAATACCATGGCAACATGACAAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGG-AACATGACAGGAAATGAA
* * * *
98139 TAAGACCATGGTTGAAAGATATCATGGAAGCTTGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGAA-CATGACAGGAAATGAA
*
98185 TAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGA
98204 CACTATGGCA
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 2 0.02
46 98 0.98
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.20
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGATACCATGGAACATGACAGGAAATGAA
Found at i:98153 original size:92 final size:91
Alignment explanation
Indices: 98047--98236 Score: 247
Period size: 92 Copynumber: 2.1 Consensus size: 91
98037 TTCAAATGTG
* *
98047 TAAGACCATGGTTGAAAGATACCATGGTAA-CATGACAGGAAATGAATAAGACCATGGTTGAAAA
1 TAAGACCATGGTTGAAAGATACCATGG-AAGCATGACAGAAAATGAATAAGACCATAGTTGAAAA
*
98111 ATACCATGGCAACATGACAAGAAATGAA
65 ACACCATGGCAACATGACAA-AAATGAA
* * * *
98139 TAAGACCATGGTTGAAAGATATCATGGAAGCTTGACAGAAAATGAGTAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGAAGCATGACAGAAAATGAATAAGACCATAGTTGAAAAA
* * * * *
98204 CACTATGGCATCATGTCAAAGATTAA
66 CACCATGGCAACATGACAAAAATGAA
98230 TAAGACC
1 TAAGACC
98237 GTGGATGAGA
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
91 14 0.16
92 71 0.84
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.21
Consensus pattern (91 bp):
TAAGACCATGGTTGAAAGATACCATGGAAGCATGACAGAAAATGAATAAGACCATAGTTGAAAAA
CACCATGGCAACATGACAAAAATGAA
Done.