Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1408
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: 211627
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:6865 original size:13 final size:13
Alignment explanation
Indices: 6847--6872 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6837 CAATTTTTTG
6847 TGTATCGATACAT
1 TGTATCGATACAT
6860 TGTATCGATACAT
1 TGTATCGATACAT
6873 ACTTGCTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6937 original size:21 final size:21
Alignment explanation
Indices: 6911--6986 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
6901 CTGCCAAGAA
6911 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
6932 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
6952 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
6973 ATGTATCGATACAT
1 ATGTATCGATACAT
6987 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:6956 original size:20 final size:20
Alignment explanation
Indices: 6931--7004 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
6921 ACATCTTTTT
6931 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
6951 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
6972 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
6992 CATGTATCGATAC
1 CATGTATCGATAC
7005 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:6968 original size:41 final size:41
Alignment explanation
Indices: 6911--7004 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
6901 CTGCCAAGAA
6911 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
6952 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
6993 ATGTATCGATAC
1 ATGTATCGATAC
7005 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:9455 original size:13 final size:13
Alignment explanation
Indices: 9437--9475 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
9427 ATAATCACCC
*
9437 TGTATCGATACAG
1 TGTATCGATACAA
9450 TGTATCGATACAA
1 TGTATCGATACAA
9463 TGTATCGATACAA
1 TGTATCGATACAA
9476 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:9486 original size:20 final size:20
Alignment explanation
Indices: 9461--9539 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
9451 GTATCGATAC
9461 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
9481 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
9506 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
9526 CATGTATCGATACA
1 AATGTATCGATACA
9540 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:13409 original size:21 final size:21
Alignment explanation
Indices: 13380--13424 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
13370 AAGTTTTCAT
*
13380 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
13400 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
13422 TTT
1 TTT
13425 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:15658 original size:13 final size:13
Alignment explanation
Indices: 15640--15665 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15630 CAATTTTTTG
15640 TGTATCGATACAT
1 TGTATCGATACAT
15653 TGTATCGATACAT
1 TGTATCGATACAT
15666 ACTTGCTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:15730 original size:21 final size:21
Alignment explanation
Indices: 15704--15779 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
15694 CTGCCAAGAA
15704 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
15725 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
15745 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
15766 ATGTATCGATACAT
1 ATGTATCGATACAT
15780 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:15749 original size:20 final size:20
Alignment explanation
Indices: 15724--15797 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
15714 ACATCTTTTT
15724 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
15744 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
15765 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
15785 CATGTATCGATAC
1 CATGTATCGATAC
15798 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:15761 original size:41 final size:41
Alignment explanation
Indices: 15704--15797 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
15694 CTGCCAAGAA
15704 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
15745 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
15786 ATGTATCGATAC
1 ATGTATCGATAC
15798 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:16437 original size:31 final size:31
Alignment explanation
Indices: 16393--16509 Score: 146
Period size: 31 Copynumber: 3.7 Consensus size: 31
16383 AAATACCTTC
* *
16393 TTAAAGTCTACGACTCAGTGGCAATCTCTCC
1 TTAAAGTCCACGACTCAGTGGCAATCTCTCT
* *
16424 TCAAAGTCCACGACTCAGTGGCAATCTCTTT
1 TTAAAGTCCACGACTCAGTGGCAATCTCTCT
* * *
16455 TTAAAGCCCACGACTCAGTAGC-ATCCTTTTCT
1 TTAAAGTCCACGACTCAGTGGCAAT-C-TCTCT
16487 TTAAAGTCCACGACTCAGTGGCA
1 TTAAAGTCCACGACTCAGTGGCA
16510 TTTTATCTCA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
30 2 0.03
31 47 0.65
32 23 0.32
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (31 bp):
TTAAAGTCCACGACTCAGTGGCAATCTCTCT
Found at i:16578 original size:93 final size:95
Alignment explanation
Indices: 16393--16604 Score: 211
Period size: 93 Copynumber: 2.2 Consensus size: 95
16383 AAATACCTTC
* * * *
16393 TTAAAGTCTACGACTCAGTGGCAATCTCTCCTCAAAGTCCACGACTCAGTGGCAATCTCTTTTTA
1 TTAAAGTCCACGACTCAGTGGCAATCTATCCTCAAAGTCCACAACTCAGAGGCAATCTCTTTTTA
*
16458 AAGCCCACGACTCAGTAGCATCCTTTTC-T
66 AAGCCCACAACTCAGTAGCATCCTTTTCTT
* * * * *
16487 TTAAAGTCCACGACTCAGTGGCATTTTAT-CTCACAGTCCATAACTCAGAGGC-AT-TTTTTCTT
1 TTAAAGTCCACGACTCAGTGGCAATCTATCCTCAAAGTCCACAACTCAGAGGCAATCTCTTT-TT
*
16549 CAAAGCCCACAACTTC-GTGGCA-CCTTTTTCTT
65 -AAAGCCCACAAC-TCAGTAGCATCC-TTTTCTT
* * *
16581 TTCAAAGCCCACAACTCCGTGGCA
1 TT-AAAGTCCACGACTCAGTGGCA
16605 CTTTCTTTTT
Statistics
Matches: 98, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
91 4 0.04
92 6 0.06
93 40 0.41
94 30 0.31
95 18 0.18
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (95 bp):
TTAAAGTCCACGACTCAGTGGCAATCTATCCTCAAAGTCCACAACTCAGAGGCAATCTCTTTTTA
AAGCCCACAACTCAGTAGCATCCTTTTCTT
Found at i:16588 original size:34 final size:34
Alignment explanation
Indices: 16547--16804 Score: 221
Period size: 34 Copynumber: 7.9 Consensus size: 34
16537 GCATTTTTTC
*
16547 TTCAAAGCCCACAACTTCGTGGCACCTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
16581 TTCAAAGCCCACAACTCCGTGGCACTTTCTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCAC---CTTTTTCTT
* * *
16618 CCTTCTATGTCCACAACTCCGTGGCACC-----CTT
1 --TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
16649 TT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TTCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT
*
16685 TT-AAAGCCCACAACTTCGTGGCACC-----CTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* *
16713 TT--AAGTCCACGACTCCGTGGCACCTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
16745 TTCAAAGTCCACAACTCCGTGGCA-C----TCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* *
16774 TTTAAAGCCCACAACTCCGTGGCACCCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTT
16805 AAGTCCACAA
Statistics
Matches: 185, Mismatches: 14, Indels: 50
0.74 0.06 0.20
Matches are distributed among these distances:
27 19 0.10
28 24 0.13
29 29 0.16
30 1 0.01
31 3 0.02
32 5 0.03
33 1 0.01
34 44 0.24
35 1 0.01
36 27 0.15
37 9 0.05
39 22 0.12
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (34 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
Found at i:16684 original size:36 final size:35
Alignment explanation
Indices: 16644--16804 Score: 138
Period size: 36 Copynumber: 5.0 Consensus size: 35
16634 CTCCGTGGCA
16644 CCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
*
16680 CCCTTTTAAAGCCCACAACTTCGTGGCA-------
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
* *
16708 CCCTTTT-AAGTCCACGACTCCGTGGCACCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
*
16742 --CTTTTCAAAGTCCACAACTCCGTGGCA-C----T
1 CCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
* *
16771 -CTTTTTAAAGCCCACAACTCCGTGGCACCCTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
16805 AAGTCCACAA
Statistics
Matches: 103, Mismatches: 7, Indels: 32
0.73 0.05 0.23
Matches are distributed among these distances:
27 17 0.17
28 7 0.07
29 21 0.20
30 5 0.05
32 5 0.05
33 1 0.01
34 20 0.19
36 27 0.26
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.31
Consensus pattern (35 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
Found at i:16731 original size:27 final size:27
Alignment explanation
Indices: 16680--16882 Score: 172
Period size: 27 Copynumber: 6.9 Consensus size: 27
16670 CACTCTTTTT
* *
16680 CCCTTTTAAAGCCCACAACTTCGTGGCA
1 CCCTTTT-AAGTCCACAACTCCGTGGCA
*
16708 CCCTTTTAAGTCCACGACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
16735 CCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCA
1 CC-----CTTTT--AAGTCCACAACTCCGTGGCA
* *
16769 CTCTTTTTAAAGCCCACAACTCCGTGGCA
1 C-CCTTTT-AAGTCCACAACTCCGTGGCA
*
16798 CCCTTTTAAGTCCACAACTTCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCA
* * *
16825 CTTTTTTTCCTTCTAAGTCCACAATTCTGTGGCA
1 C-------CCTTTTAAGTCCACAACTCCGTGGCA
16859 CCCTTTTAAGTCCACAACTCCGTG
1 CCCTTTTAAGTCCACAACTCCGTG
16883 ACATCTTTCT
Statistics
Matches: 144, Mismatches: 16, Indels: 31
0.75 0.08 0.16
Matches are distributed among these distances:
27 58 0.40
28 12 0.08
29 21 0.15
30 4 0.03
32 5 0.03
34 43 0.30
35 1 0.01
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (27 bp):
CCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:16785 original size:90 final size:88
Alignment explanation
Indices: 16680--16882 Score: 284
Period size: 90 Copynumber: 2.3 Consensus size: 88
16670 CACTCTTTTT
* *
16680 CCCTTTTAAAGCCCACAACTTCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACCTTTTTCTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CTTTTT-TT
16745 -TTCAAAGTCCACAACTCCGTGGCA
64 CTTCAAAGTCCACAACTCCGTGGCA
* *
16769 CTCTTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACTTTTTTTC
1 C-CCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTTTTTTT-
* * *
16834 CTTCTAAGTCCACAATTCTGTGGCA
64 CTTCAAAGTCCACAACTCCGTGGCA
*
16859 CCCTTTT-AAGTCCACAACTCCGTG
1 CCCTTTTAAAGCCCACAACTCCGTG
16883 ACATCTTTCT
Statistics
Matches: 102, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
88 18 0.18
89 12 0.12
90 72 0.71
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (88 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTTTTTTTCT
TCAAAGTCCACAACTCCGTGGCA
Found at i:16795 original size:63 final size:63
Alignment explanation
Indices: 16424--16804 Score: 282
Period size: 63 Copynumber: 5.9 Consensus size: 63
16414 CAATCTCTCC
* * * * *
16424 TCAAAGTCCACGACTCAGTGGCAATCTCTTTTTAAAGCCCACGACTCAGTAGCATCC-TTTTC-T
1 TCAAAGTCCACAACTCCGTGGC-A-CTCTTTTTAAAGCCCACAACTCCGTGGCA-CCTTTTTCTT
16487 T
63 T
* * * * * * * *
16488 T-AAAGTCCACGACTCAGTGGCA-T-TTTATCTCACAGTCCATAACTCAGAGGCA--TTTTT-TC
1 TCAAAGTCCACAACTCCGTGGCACTCTTT-T-T-AAAGCCCACAACTCCGTGGCACCTTTTTCTT
16547 T
63 T
* * *
16548 TCAAAGCCCACAACTTCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTCTTT
1 TCAAAGTCCACAACTCCGTGGCA-C----TCTTTTTAAAGCCCACAACTCCGTGGCAC---CTTT
16613 TTCTTCCT
58 TTCTT--T
* * *
16621 TCTATGTCCACAACTCCGTGGCAC-CCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT
16685 T
63 T
* * * * *
16686 T-AAAGCCCACAACTTCGTGGCAC-CCTTTT-AAGTCCACGACTCCGTGGCACCTTTTTCTTT
1 TCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
16746 TCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCCTTTT
1 TCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
16805 AAGTCCACAA
Statistics
Matches: 255, Mismatches: 36, Indels: 53
0.74 0.10 0.15
Matches are distributed among these distances:
59 3 0.01
60 13 0.05
61 38 0.15
62 27 0.11
63 63 0.25
64 25 0.10
65 25 0.10
67 31 0.12
68 3 0.01
70 5 0.02
71 1 0.00
72 1 0.00
73 20 0.08
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (63 bp):
TCAAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
Found at i:17008 original size:32 final size:33
Alignment explanation
Indices: 16895--17086 Score: 255
Period size: 33 Copynumber: 5.9 Consensus size: 33
16885 ATCTTTCTCT
* *
16895 TTTTCTAAAGCCCACACAAGTTGGTGGCAACAC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCC
**
16928 TTCCCTAAAGCCCACACAAGTCGGTGGCAA-CC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCC
16960 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCC
1 TT-TTCTAAAGCCCACACAAGTCGGTGGCAACCC
* *
16994 TTTTC-AAAGCCCACACATGTTGGTGGCAACCC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCC
** *
17026 -CCTCTAAAGCCCACACAAGTCGGTGGCAACCT
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCC
* *
17058 TTTTCAAAAGCCCACACAAGTTGGTGGCA
1 TTTTCTAAAGCCCACACAAGTCGGTGGCA
17087 TCTTCTTTTA
Statistics
Matches: 138, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
31 2 0.01
32 52 0.38
33 80 0.58
34 4 0.03
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (33 bp):
TTTTCTAAAGCCCACACAAGTCGGTGGCAACCC
Found at i:17068 original size:97 final size:99
Alignment explanation
Indices: 16895--17086 Score: 309
Period size: 97 Copynumber: 2.0 Consensus size: 99
16885 ATCTTTCTCT
*
16895 TTTTCTAAAGCCCACACAAGTTGGTGGCAACACTTCCCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTTTCTAAAGCCCACACAAGTTGGTGGCAACACTCCCCTAAAGCCCACACAAGTCGGTGGCAACC
*
16960 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCC
66 TTCTTCAAAAGCCCACACAAGTCGGTGGCAACCC
*
16994 TTTTC-AAAGCCCACACATGTTGGTGGCAAC-C-CCCTCTAAAGCCCACACAAGTCGGTGGCAAC
1 TTTTCTAAAGCCCACACAAGTTGGTGGCAACACTCCC-CTAAAGCCCACACAAGTCGGTGGCAAC
* *
17056 CTTTTTCAAAAGCCCACACAAGTTGGTGGCA
65 CTTCTTCAAAAGCCCACACAAGTCGGTGGCA
17087 TCTTCTTTTA
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
96 2 0.02
97 56 0.64
98 24 0.28
99 5 0.06
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (99 bp):
TTTTCTAAAGCCCACACAAGTTGGTGGCAACACTCCCCTAAAGCCCACACAAGTCGGTGGCAACC
TTCTTCAAAAGCCCACACAAGTCGGTGGCAACCC
Found at i:17254 original size:92 final size:91
Alignment explanation
Indices: 17093--17365 Score: 429
Period size: 92 Copynumber: 2.9 Consensus size: 91
17083 GGCATCTTCT
* * *
17093 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCAGTTGCCATCTTTTTCTTTAAGTCCAATGTAGC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCAATTGGCATCTTTTTCTTTAAGTCCAATGTAGC
17158 TGGCCTTGAATCAGCACATTGGCACC
66 TGGCCTTGAATCAGCACATTGGCACC
17184 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTTTCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCA-ATTGGCATCTTTTTCTTTAAGTCCAATGTAG
17249 CTGGCCTTGAATCAGCACATTGGCACC
65 CTGGCCTTGAATCAGCACATTGGCACC
* * * *
17276 TTTAAGTCCACTATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCA-ATTGGCATCTTTT---TCTTTAAGTCCAATG
*
17341 TAGCTGGCCTTGAATCAACACATTG
62 TAGCTGGCCTTGAATCAGCACATTG
17366 ACATCTTTTT
Statistics
Matches: 169, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
91 32 0.19
92 99 0.59
95 38 0.22
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (91 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCAATTGGCATCTTTTTCTTTAAGTCCAATGTAGC
TGGCCTTGAATCAGCACATTGGCACC
Found at i:17255 original size:49 final size:49
Alignment explanation
Indices: 17093--17375 Score: 322
Period size: 43 Copynumber: 6.0 Consensus size: 49
17083 GGCATCTTCT
* * * *
17093 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCA-GTTGCCATCTTTTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTTTTC
*
17141 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTTTTC
*
17184 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTTTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTTTTC
*
17233 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTTTTC
* * *
17276 TTTAAGTCCACTATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTTT---TC
* * * *
17328 TTTAAGTTCAATGTAGCTGGCCTTGAATCAACACATTGACATCTTTTT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTTTT
17376 TCTTATCTTT
Statistics
Matches: 200, Mismatches: 19, Indels: 31
0.80 0.08 0.12
Matches are distributed among these distances:
43 79 0.40
44 2 0.01
48 32 0.16
49 46 0.23
52 41 0.20
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTTTTC
Found at i:17320 original size:21 final size:21
Alignment explanation
Indices: 17253--17320 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
17243 ATGTAGCTGG
*
17253 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCATATTGGCA
* *
17274 CCTTTAAGTCCA-CTATAGCTGG--
1 CCTTGAA-T-CAGC-ATA-TTGGCA
17296 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
17317 CCTT
1 CCTT
17321 TTCCATCTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 14
0.65 0.09 0.26
Matches are distributed among these distances:
19 3 0.09
20 5 0.14
21 12 0.34
22 8 0.23
23 4 0.11
24 3 0.09
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:17374 original size:52 final size:52
Alignment explanation
Indices: 17275--17420 Score: 139
Period size: 52 Copynumber: 2.8 Consensus size: 52
17265 ACATTGGCAC
* * * *
17275 CTTTAAGTCCACTATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATTGACACCTTTTCCAT
* * * *
17327 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAACACATTGACATCTTTTTTCTTAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATTGACA-C-CTTTTC-CAT
* * * * * *
17382 CTTTAAGCCCAATATCGTTGGTCGTGAATCAACATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATTG
17421 GCATCTTTAT
Statistics
Matches: 75, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
52 36 0.48
53 1 0.01
54 5 0.07
55 33 0.44
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATTGACACCTTTTCCAT
Found at i:25680 original size:20 final size:21
Alignment explanation
Indices: 25655--25707 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
25645 ATAGATACAT
**
25655 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
25675 TGTATCGATACATGAAAAGAA
1 TGTATCGATACATGAAAAGAA
25696 TGTATCGATACA
1 TGTATCGATACA
25708 AGTCATTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:25777 original size:13 final size:13
Alignment explanation
Indices: 25759--25783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25749 ACACACAGTA
25759 TGTATCGATACAT
1 TGTATCGATACAT
25772 TGTATCGATACA
1 TGTATCGATACA
25784 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:27395 original size:9 final size:9
Alignment explanation
Indices: 27381--27416 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
27371 TCAACCATCA
27381 AAGATGATG
1 AAGATGATG
27390 AAGATGATG
1 AAGATGATG
*
27399 AAGATGTTG
1 AAGATGATG
*
27408 ATGATGATG
1 AAGATGATG
27417 GTGACTCAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.28
Consensus pattern (9 bp):
AAGATGATG
Found at i:31981 original size:13 final size:13
Alignment explanation
Indices: 31962--32000 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
31952 ATAGCATTCT
31962 CTGTATCGATACA
1 CTGTATCGATACA
*
31975 TTGTATCGATACA
1 CTGTATCGATACA
*
31988 CTATATCGATACA
1 CTGTATCGATACA
32001 AGGGGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:32175 original size:22 final size:21
Alignment explanation
Indices: 32132--32172 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
32122 CAAATTTCTT
32132 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAATACATC
32154 GTTTTTCA-TCAAAAT-CATC
1 GTTTTTCACTCAAAATACATC
32173 ATCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTTTTCACTCAAAATACATC
Found at i:32467 original size:20 final size:21
Alignment explanation
Indices: 32435--32486 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
32425 CTCCTAGGCA
* *
32435 GCACCCACCAGGTTGCGACC-G
1 GCACCC-CCAGGTCGCAACCGG
32456 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAACCGG
32477 GCAGCCCCCA
1 GCA-CCCCCA
32487 CACTAGCAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.19, C:0.48, G:0.27, T:0.06
Consensus pattern (21 bp):
GCACCCCCAGGTCGCAACCGG
Found at i:33825 original size:17 final size:17
Alignment explanation
Indices: 33803--33836 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33793 CTGTTTAAGG
33803 GGGAGAAAGAAATTGTT
1 GGGAGAAAGAAATTGTT
33820 GGGAGAAAGAAATTGTT
1 GGGAGAAAGAAATTGTT
33837 ATTGTGCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (17 bp):
GGGAGAAAGAAATTGTT
Found at i:34437 original size:20 final size:20
Alignment explanation
Indices: 34405--34462 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
34395 GGTCAAAACC
*
34405 TTGAAAAGTATCGATACACA
1 TTGAAATGTATCGATACACA
* *
34425 TTTAAATGTATCGATACAGA
1 TTGAAATGTATCGATACACA
* *
34445 TTGCATTGTATCGATACA
1 TTGAAATGTATCGATACA
34463 TTGTATCGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (20 bp):
TTGAAATGTATCGATACACA
Found at i:34466 original size:13 final size:13
Alignment explanation
Indices: 34448--34476 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
34438 ATACAGATTG
34448 CATTGTATCGATA
1 CATTGTATCGATA
34461 CATTGTATCGATA
1 CATTGTATCGATA
34474 CAT
1 CAT
34477 GATCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:34489 original size:20 final size:21
Alignment explanation
Indices: 34464--34516 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
34454 ATCGATACAT
**
34464 TGTATCGATACATGATCA-AA
1 TGTATCGATACATGAAAAGAA
34484 TGTATCGATACATGAAAAGAA
1 TGTATCGATACATGAAAAGAA
34505 TGTATCGATACA
1 TGTATCGATACA
34517 AGTCATTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:34586 original size:13 final size:13
Alignment explanation
Indices: 34568--34592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34558 ACACACAATA
34568 TGTATCGATACAT
1 TGTATCGATACAT
34581 TGTATCGATACA
1 TGTATCGATACA
34593 CCATAACATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:34589 original size:32 final size:33
Alignment explanation
Indices: 34548--34615 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
34538 GTAGCTAAAC
*
34548 TTGTATCGATACA-CACAATATGTATCGATACA
1 TTGTATCGATACACCACAACATGTATCGATACA
*
34580 TTGTATCGATACACCATAACATGTATCGATACA
1 TTGTATCGATACACCACAACATGTATCGATACA
34613 TTG
1 TTG
34616 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAACATGTATCGATACA
Found at i:36042 original size:51 final size:51
Alignment explanation
Indices: 35959--37486 Score: 364
Period size: 51 Copynumber: 30.4 Consensus size: 51
35949 CTAGCACTTC
* * *
35959 TATAAGGAGGTCAAGCCCTATAGAGTCAAAGTCTACATTAGTTGGCACATG
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
* * * * * *
36010 TATAAGGAGGTCAAGCCTTACAAAGTCGAAGTCTACATTAGCTGACACATA
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
* * * * * *
36061 CATACA-GAGGTCAAGCCTTATAAAGTCGAAATCTACATTAATTGGCACTTG
1 TATA-AGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
* * *
36112 TATAGGGAGGTCAAGCCCTGTAAAGTCAAAATCTACATTAGTTGGCACCTA
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
* * * * ** * * *
36163 TATAGGGAGGTCAAGCCAT-TAAAGTC-AACTCCACATTAACTGGGACTTG
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
** * * * * *
36212 TATAAGG-CCTTATAG---AATCAAAGTCCAAA-CTA-ATTA---AGCACCTA
1 TATAAGGAGGTCA-AGCCCTAT-AAAGTCAAAATCTACATTAGTTGGCACATA
* * * * * *
36256 TATAGGGAGGTCAAGCCTTATAAAATCAAAGTCCACATTAGTTGAG-ACCTA
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTG-GCACATA
** * * * * * *
36307 TATAAAAAGGTTAATCCCTAAAAAGTC-AAATCCCATATTAGTTGGCACCTA
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAAT-CTACATTAGTTGGCACATA
* * * *
36358 TAT-AGGGGGTCAAGCCCTATAAAGTC-AATTCCACATTAATTAGG-AC-T-
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTT-GGCACATA
* * * * * * * * * *
36405 TGT-A-TAGG----G-CCTATAAACTCAAAGTCCAAACTAATTAAGCACCTA
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTT-GGCACATA
* ** * * *
36450 TATAGGGAGGTCAAGCTTTATAAAGTCAAAGTCCACATTAGTTGAG-ACCTA
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTG-GCACATA
* * * ** * * *
36501 TATAA-AAGGTTAAACCCTATAAAGTCAAAGCCCATATTAGTTGGCACATG
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
* * ** * * * * *
36551 TATAAGGATGTCAAACCCTATAAAGTTGAAGTCCACAATCGTTGGCAGC-TC
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCA-CATA
* * * * ** * * * * *
36602 TATAAAGAGGACAAGCCATATAGAGTTGAAGTCCACACTAGCTGGTA-ACTA
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACA-TA
* * * ** ** ** * *
36653 TAT-AGAAAAGTCAAGCCCTATAGAGTTGAAATAAATGTTAGCTGGCACTTA
1 TATAAG-GAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
** * * * * ** * * * * *
36704 TATAAATAAGTCAAGCCTTGTAGAGTTGAAGTCCACATTAGCT-GCACCTG
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
* * * * *
36754 TAAAAAGAGGTCAAGCCCTACAAAGTCAAAATCTACATTAGCTGGCACCTA
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
* * * * * * ** * *
36805 CATAAGAAGGTCAAGCCCTATAGAGTCTAAGTCTATACAAGCTGGCAC-TCG
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACAT-A
* * * * * * *
36856 TAT-AGAGAGGTCAAGGCCTATAGAGTCAAAACCCACATTAGTTGACACCTG
1 TATAAG-GAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
* * * * * * * * * * *
36907 TATAAGGAGGTAAAGCCTTATAGAGTCGAAGTCCATATTAATTAGCACCTG
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
* * * * * * * * ** * *
36958 TAT-AGGAAGGTTAAGCCTTATAGAG-CGGAAGTCCATATGAACTGGCACCTG
1 TATAAGG-AGGTCAAGCCCTATAAAGTC-AAAATCTACATTAGTTGGCACATA
* * * * * * *
37009 TATAAAGAGGTCAAGCCTTATAAAGTCGAAGT-TCACATTAGCTAGCACCTA
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCT-ACATTAGTTGGCACATA
* * * * * * * *
37060 AATAGGGAGGTCAAG-CCTAATAAAGTCGAAGT-TCGCATTAGGTGGCACTTG
1 TATAAGGAGGTCAAGCCCT-ATAAAGTCAAAATCT-ACATTAGTTGGCACATA
* * * * * * * *
37111 TATAGGGAGGTCAAGCCTTATAGAGTTATTAA-C-ATATTAATTGACAC-TA
1 TATAAGGAGGTCAAGCCCTATAAAGTCA-AAATCTACATTAGTTGGCACATA
* * * * * * *
37160 TAT-AGAGAGGTTAATCCCTATAGAGTCAAAATCTACAATAGTTAGCACCTG
1 TATAAG-GAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
* * * ** * * * * * *
37211 TA-CAGAGAAGTCAAGCTCTATAAAGT-TGACTTTCATATTAGCT-GCTACCTG
1 TATAAG-GAGGTCAAGCCCTATAAAGTCAAAATCT-ACATTAGTTGGC-ACATA
* * * * * * ** *
37262 TATAAGGAGGTTAAGCCCTATAGAGCCGAAGTCCACATTAGTTGGCATTTG
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
* * * * * * * *
37313 TATAAAGAGGTCAAGCCTTATAGAGTCAAAGTCCACATTAGCTAGCACCTA
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
* * * *
37364 TATAGGGAGGTCAAGCCTTATAAAGTCAAAAATCGT--AGTAGTTGGCACCTA
1 TATAAGGAGGTCAAGCCCTATAAAGTC-AAAATC-TACATTAGTTGGCACATA
* ** ** * * *
37415 TATAAGGAGGTCATGCTTTATAGGGTCAAAGTCTACATTAGTCGGCACTTA
1 TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
37466 TAT-AGAGAGGTCAAGCCCTAT
1 TATAAG-GAGGTCAAGCCCTAT
37487 CGATTTAAGT
Statistics
Matches: 1115, Mismatches: 294, Indels: 136
0.72 0.19 0.09
Matches are distributed among these distances:
41 10 0.01
42 15 0.01
43 2 0.00
44 13 0.01
45 4 0.00
46 9 0.01
47 15 0.01
48 18 0.02
49 62 0.06
50 149 0.13
51 772 0.69
52 46 0.04
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (51 bp):
TATAAGGAGGTCAAGCCCTATAAAGTCAAAATCTACATTAGTTGGCACATA
Found at i:36264 original size:93 final size:94
Alignment explanation
Indices: 36156--36489 Score: 340
Period size: 93 Copynumber: 3.5 Consensus size: 94
36146 ACATTAGTTG
* * *
36156 GCACCTATATAGGGAGGTCAAGCCAT-TAAAGTC-AACTCCACATTAACTGGGACTTGTATAAGG
1 GCACCTATATAGGGAGGTCAAGCCTTATAAAGTCAAAGTCCACATTAATTGGGACTTGTATAAGG
36219 CCTTATAGAA-TCAAAGTCCAAACTAATTAA
66 CC-TATA-AACTCAAAGTCCAAACTAATTAA
* * * * *
36249 GCACCTATATAGGGAGGTCAAGCCTTATAAAATCAAAGTCCACATTAGTTGAGACCTATATAAAA
1 GCACCTATATAGGGAGGTCAAGCCTTATAAAGTCAAAGTCCACATTAATTGGGA-CT-TGT-ATA
* * * * * *
36314 AGGTTAATCCCTAAAAAGTCAAA-TCCCATATTAGTT-G
63 AGG------CCTATAAACTCAAAGT-CCAAACTAATTAA
* * * *
36351 GCACCTATATAGGG-GGTCAAGCCCTATAAAGTC-AATTCCACATTAATTAGGACTTGTATAGGG
1 GCACCTATATAGGGAGGTCAAGCCTTATAAAGTCAAAGTCCACATTAATTGGGACTTGTATAAGG
36414 CCTATAAACTCAAAGTCCAAACTAATTAA
66 CCTATAAACTCAAAGTCCAAACTAATTAA
*
36443 GCACCTATATAGGGAGGTCAAGCTTTATAAAGTCAAAGTCCACATTA
1 GCACCTATATAGGGAGGTCAAGCCTTATAAAGTCAAAGTCCACATTA
36490 GTTGAGACCT
Statistics
Matches: 193, Mismatches: 31, Indels: 33
0.75 0.12 0.13
Matches are distributed among these distances:
91 20 0.10
92 15 0.08
93 42 0.22
94 17 0.09
95 15 0.08
96 2 0.01
97 6 0.03
98 7 0.04
99 2 0.01
100 15 0.08
101 17 0.09
102 17 0.09
103 16 0.08
104 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (94 bp):
GCACCTATATAGGGAGGTCAAGCCTTATAAAGTCAAAGTCCACATTAATTGGGACTTGTATAAGG
CCTATAAACTCAAAGTCCAAACTAATTAA
Found at i:36481 original size:194 final size:194
Alignment explanation
Indices: 36148--36576 Score: 666
Period size: 194 Copynumber: 2.2 Consensus size: 194
36138 CAAAATCTAC
* *
36148 ATTAGTTGGCACCTATATAGGGAGGTCAAGCCAT-TAAAGTCAACTCCACATTAACTGGGACTTG
1 ATTAGTTGGCACCTATATAGGG-GGTCAAGCCCTATAAAGTCAACTCCACATTAACTAGGACTTG
36212 TATAAGGCCTTATAGAATCAAAGTCCAAACTAATTAAGCACCTATATAGGGAGGTCAAGCCTTAT
65 TATAAGGCCTTATAGAATCAAAGTCCAAACTAATTAAGCACCTATATAGGGAGGTCAAGCCTTAT
* *
36277 AAAATCAAAGTCCACATTAGTTGAGACCTATATAAAAAGGTTAATCCCTAAAAAGTCAAATCCCA
130 AAAATCAAAGTCCACATTAGTTGAGACCTATAT-AAAAGGTTAAACCCTAAAAAGTCAAAGCCCA
36342 T
194 T
* *
36343 ATTAGTTGGCACCTATATAGGGGGTCAAGCCCTATAAAGTCAATTCCACATTAATTAGGACTTGT
1 ATTAGTTGGCACCTATATAGGGGGTCAAGCCCTATAAAGTCAACTCCACATTAACTAGGACTTGT
* *
36408 ATAGGGCC-TATA-AACTCAAAGTCCAAACTAATTAAGCACCTATATAGGGAGGTCAAGCTTTAT
66 ATAAGGCCTTATAGAA-TCAAAGTCCAAACTAATTAAGCACCTATATAGGGAGGTCAAGCCTTAT
* *
36471 AAAGTCAAAGTCCACATTAGTTGAGACCTATATAAAAGGTTAAACCCTATAAAGTCAAAGCCCAT
130 AAAATCAAAGTCCACATTAGTTGAGACCTATATAAAAGGTTAAACCCTAAAAAGTCAAAGCCCAT
* * ** *
36536 ATTAGTTGGCACATGTATAAGGATGTCAAACCCTATAAAGT
1 ATTAGTTGGCACCTATAT-AGGGGGTCAAGCCCTATAAAGT
36577 TGAAGTCCAC
Statistics
Matches: 216, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
193 47 0.22
194 112 0.52
195 57 0.26
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (194 bp):
ATTAGTTGGCACCTATATAGGGGGTCAAGCCCTATAAAGTCAACTCCACATTAACTAGGACTTGT
ATAAGGCCTTATAGAATCAAAGTCCAAACTAATTAAGCACCTATATAGGGAGGTCAAGCCTTATA
AAATCAAAGTCCACATTAGTTGAGACCTATATAAAAGGTTAAACCCTAAAAAGTCAAAGCCCAT
Found at i:36555 original size:50 final size:51
Alignment explanation
Indices: 36468--36576 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 51
36458 GGTCAAGCTT
* * *
36468 TATAAAGTCAAAGTCCACATTAGTTGAGACCTATATAA-AAGGTTAAACCC
1 TATAAAGTCAAAGCCCACATTAGTTGAGACATATATAAGAAGGTCAAACCC
* * * *
36518 TATAAAGTCAAAGCCCATATTAGTTG-GCACATGTATAAGGATGTCAAACCC
1 TATAAAGTCAAAGCCCACATTAGTTGAG-ACATATATAAGAAGGTCAAACCC
36569 TATAAAGT
1 TATAAAGT
36577 TGAAGTCCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.02
50 32 0.64
51 17 0.34
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (51 bp):
TATAAAGTCAAAGCCCACATTAGTTGAGACATATATAAGAAGGTCAAACCC
Found at i:36961 original size:102 final size:101
Alignment explanation
Indices: 36443--37530 Score: 572
Period size: 102 Copynumber: 10.7 Consensus size: 101
36433 AACTAATTAA
* ** * * *
36443 GCACCTATATAGGGAGGTCAAGCTTTATAAAGTCAAAGTCCACATTAGTTGAG-ACCTATATAA-
1 GCACCTATATAGAGAGGTCAAGCCCTATAGAGTCAAAATCCACATTAGTTG-GCACCTGTATAAG
* * * * * * * * *
36506 AAGGTTAAACCCTATAAAGTCAAAGCCCATATTAGTT
65 GAGGTCAAGCCTTATAGAGTCGAAGTCCACATTAGCT
* * * * * ** * * * * *
36543 GGCACATGTATA-AGGATGTCAAACCCTATAAAGTTGAAGTCCACAATCGTTGGCAGCTCTATAA
1 -GCACCTATATAGA-GAGGTCAAGCCCTATAGAGTCAAAATCCACATTAGTTGGCACCTGTATAA
* * * * *
36607 AGAGGACAAGCCATATAGAGTTGAAGTCCACACTAGCT
64 GGAGGTCAAGCCTTATAGAGTCGAAGTCCACATTAGCT
* * * * ** ** ** * * * *
36645 GGTAACTATATAGAAAAGTCAAGCCCTATAGAGTTGAAATAAATGTTAGCTGGCACTTATATAAA
1 -GCACCTATATAGAGAGGTCAAGCCCTATAGAGTCAAAATCCACATTAGTTGGCACCTGTATAAG
* * * *
36710 TAAGTCAAGCCTTGTAGAGTTGAAGTCCACATTAGCT
65 GAGGTCAAGCCTTATAGAGTCGAAGTCCACATTAGCT
* * * * * * * ** *
36747 GCACCTGTAAAAAGAGGTCAAGCCCTACAAAGTCAAAATCTACATTAGCTGGCACCTACATAAGA
1 GCACCTATATAGAGAGGTCAAGCCCTATAGAGTCAAAATCCACATTAGTTGGCACCTGTATAAGG
* * * * **
36812 AGGTCAAGCCCTATAGAGTCTAAGTCTATACAAGCT
66 AGGTCAAGCCTTATAGAGTCGAAGTCCACATTAGCT
* * * *
36848 GGCA-CTCGTATAGAGAGGTCAAGGCCTATAGAGTCAAAACCCACATTAGTTGACACCTGTATAA
1 -GCACCT-ATATAGAGAGGTCAAGCCCTATAGAGTCAAAATCCACATTAGTTGGCACCTGTATAA
* * **
36912 GGAGGTAAAGCCTTATAGAGTCGAAGTCCATATTAATT
64 GGAGGTCAAGCCTTATAGAGTCGAAGTCCACATTAGCT
* * * * * * * **
36950 AGCACCTGTATAG-GAAGGTTAAGCCTTATAGAG-CGGAAGTCCATATGAACTGGCACCTGTATA
1 -GCACCTATATAGAG-AGGTCAAGCCCTATAGAGTC-AAAATCCACATTAGTTGGCACCTGTATA
* * *
37013 AAGAGGTCAAGCCTTATAAAGTCGAAGTTCACATTAGCT
63 AGGAGGTCAAGCCTTATAGAGTCGAAGTCCACATTAGCT
* * * * * * * * * *
37052 AGCACCTAAATAGGGAGGTCAAG-CCTAATAAAGTCGAAGTTCGCATTAGGTGGCACTTGTATAG
1 -GCACCTATATAGAGAGGTCAAGCCCT-ATAGAGTCAAAATCCACATTAGTTGGCACCTGTATAA
* * * * **
37116 GGAGGTCAAGCCTTATAGAGT--TATTAACATATTAATT
64 GGAGGTCAAGCCTTATAGAGTCGAAGT-CCACATTAGCT
* * * * * *
37153 G-ACACTATATAGAGAGGTTAATCCCTATAGAGTCAAAATCTACAATAGTTAGCACCTGTA-CAG
1 GCAC-CTATATAGAGAGGTCAAGCCCTATAGAGTCAAAATCCACATTAGTTGGCACCTGTATAAG
* * * ** * *
37216 AGAAGTCAAG-CTCTATAAAGTTGACTTTCATATTAGCT
65 -GAGGTCAAGCCT-TATAGAGTCGAAGTCCACATTAGCT
* * * * * **
37254 GCTACCTGTATA-AGGAGGTTAAGCCCTATAGAGCCGAAGTCCACATTAGTTGGCATTTGTATAA
1 GC-ACCTATATAGA-GAGGTCAAGCCCTATAGAGTCAAAATCCACATTAGTTGGCACCTGTATAA
* *
37318 AGAGGTCAAGCCTTATAGAGTCAAAGTCCACATTAGCT
64 GGAGGTCAAGCCTTATAGAGTCGAAGTCCACATTAGCT
* * * ** * *
37356 AGCACCTATATAGGGAGGTCAAGCCTTATAAAGTCAAAAAT-CGTAGTAGTTGGCACCTATATAA
1 -GCACCTATATAGAGAGGTCAAGCCCTATAGAGTC-AAAATCCACATTAGTTGGCACCTGTATAA
* * * * * *
37420 GGAGGTCATGCTTTATAGGGTCAAAGTCTACATTAGTCG
64 GGAGGTCAAGCCTTATAGAGTCGAAGTCCACATTAG-CT
* * ** * * *
37459 GCACTTATATAGAGAGGTCAAGCCCTATCGA-TTTAAGTCCATATGAGTTGGCACCTAGTA-AA-
1 GCACCTATATAGAGAGGTCAAGCCCTATAGAGTCAAAATCCACATTAGTTGGCACCT-GTATAAG
37521 GAGGTCAAGC
65 GAGGTCAAGC
37531 TTTACACGAA
Statistics
Matches: 743, Mismatches: 214, Indels: 61
0.73 0.21 0.06
Matches are distributed among these distances:
99 5 0.01
100 69 0.09
101 163 0.22
102 490 0.66
103 16 0.02
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (101 bp):
GCACCTATATAGAGAGGTCAAGCCCTATAGAGTCAAAATCCACATTAGTTGGCACCTGTATAAGG
AGGTCAAGCCTTATAGAGTCGAAGTCCACATTAGCT
Found at i:37419 original size:153 final size:152
Alignment explanation
Indices: 36690--37482 Score: 562
Period size: 153 Copynumber: 5.2 Consensus size: 152
36680 GAAATAAATG
* * * **
36690 TTAGCTGGCACTTATATAAATAAGTCAAGCCTTGTAGAGTTGAAGTCCACATTAGCT-GCACCTG
1 TTAGCTGGCACTTATATAAAGAGGTCAAGCCTTATAGAGTCAAAGTCCACATTAGCTAGCACCTG
* ** * * * ** *
36754 TAAAAAGAGGTCAAGCCCTACAAAGTCAAAATCTACATTAGCTGGCACCTACATAAGAAGGTCAA
66 TATAGGGAGGTCAAGCCTTATAAAGTCAAAATC-ATATTAGCTGGCACCTGTATAAGGAGGTCAA
* * * *
36819 GCCCTATAGAGTCTAAGTCTATA
130 GCCTTATAGAGCCGAAGTCCATA
** ** * ** *
36842 CAAGCTGGCACTCGTATAGAGAGGTCAAGGCC-TATAGAGTCAAAACCCACATTAG-TTGACACC
1 TTAGCTGGCACTTATATAAAGAGGTCAA-GCCTTATAGAGTCAAAGTCCACATTAGCTAG-CACC
* * * * * ** *
36905 TGTATAAGGAGGTAAAGCCTTATAGAGTCGAAGTCCATATTAATTAGCACCTGTAT-AGGAAGGT
64 TGTATAGGGAGGTCAAGCCTTATAAAGTCAAAAT-CATATTAGCTGGCACCTGTATAAGG-AGGT
* *
36969 TAAGCCTTATAGAGCGGAAGTCCATA
127 CAAGCCTTATAGAGCCGAAGTCCATA
* * * * * * * *
36995 TGAACTGGCACCTGTATAAAGAGGTCAAGCCTTATAAAGTCGAAGTTCACATTAGCTAGCACCTA
1 TTAGCTGGCACTTATATAAAGAGGTCAAGCCTTATAGAGTCAAAGTCCACATTAGCTAGCACCTG
* * ** ** * * *
37060 AATAGGGAGGTCAAGCCTAATAAAGTCGAAGTTCGCATTAGGTGGCACTTGTATAGGGAGGTCAA
66 TATAGGGAGGTCAAGCCTTATAAAGTC-AAAATCATATTAGCTGGCACCTGTATAAGGAGGTCAA
** * *
37125 GCCTTATAGAG--TTATTAACATA
130 GCCTTATAGAGCCGAAGT-CCATA
** * * * * * * * * *
37147 TTAATTGACAC-TATATAGAGAGGTTAATCCCTATAGAGTCAAAATCTACAATAGTTAGCACCTG
1 TTAGCTGGCACTTATATAAAGAGGTCAAGCCTTATAGAGTCAAAGTCCACATTAGCTAGCACCTG
* * * * *** *
37211 TACAGAGAAGTCAAG-CTCTATAAAGTTGACTTTCATATTAGCT-GCTACCTGTATAAGGAGGTT
66 TATAGGGAGGTCAAGCCT-TATAAAG-TCAAAATCATATTAGCTGGC-ACCTGTATAAGGAGGTC
* *
37274 AAGCCCTATAGAGCCGAAGTCCACA
128 AAGCCTTATAGAGCCGAAGTCCATA
* * * *
37299 TTAGTTGGCATTTGTATAAAGAGGTCAAGCCTTATAGAGTCAAAGTCCACATTAGCTAGCACCTA
1 TTAGCTGGCACTTATATAAAGAGGTCAAGCCTTATAGAGTCAAAGTCCACATTAGCTAGCACCTG
* * * * *
37364 TATAGGGAGGTCAAGCCTTATAAAGTCAAAAATCGTAGTAGTTGGCACCTATATAAGGAGGTCAT
66 TATAGGGAGGTCAAGCCTTATAAAGTC-AAAATCATATTAGCTGGCACCTGTATAAGGAGGTCAA
* * * * * *
37429 GCTTTATAGGGTCAAAGTCTACA
130 GCCTTATAGAGCCGAAGTCCATA
*
37452 TTAG-TCGGCACTTATATAGAGAGGTCAAGCC
1 TTAGCT-GGCACTTATATAAAGAGGTCAAGCC
37483 CTATCGATTT
Statistics
Matches: 484, Mismatches: 137, Indels: 39
0.73 0.21 0.06
Matches are distributed among these distances:
150 4 0.01
151 96 0.20
152 71 0.15
153 302 0.62
154 11 0.02
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (152 bp):
TTAGCTGGCACTTATATAAAGAGGTCAAGCCTTATAGAGTCAAAGTCCACATTAGCTAGCACCTG
TATAGGGAGGTCAAGCCTTATAAAGTCAAAATCATATTAGCTGGCACCTGTATAAGGAGGTCAAG
CCTTATAGAGCCGAAGTCCATA
Found at i:42565 original size:28 final size:28
Alignment explanation
Indices: 42533--42605 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
42523 AGGTAAAAAT
*
42533 AGGGTTAGAGTATCTCCTCAAAAACAAC
1 AGGGTTAGAGTATCCCCTCAAAAACAAC
* * *
42561 AGGGTTGGAGTATCCCCTCGAAAATAAC
1 AGGGTTAGAGTATCCCCTCAAAAACAAC
* * *
42589 AAGGTTGGAATATCCCC
1 AGGGTTAGAGTATCCCC
42606 GATGGTGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (28 bp):
AGGGTTAGAGTATCCCCTCAAAAACAAC
Found at i:42783 original size:78 final size:79
Alignment explanation
Indices: 42562--42785 Score: 297
Period size: 80 Copynumber: 2.8 Consensus size: 79
42552 AAAAACAACA
* * * * * *
42562 GGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAATATCCCCGATGGTGAAAAATCGATATTT
1 GGGTTGGAGTATCCCTTAG-AAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAATTGATATTT
*
42627 TAGAAATAAAAAATG
65 TAAAAATAAAAAATG
* * * * *
42642 GGGTTGGAGTATCCTCTCAGAAATAACGGGGTTAGAGTATCCTCGATGGTGAAAAAATAATATTT
1 GGGTTGGAGTATCC-CTTAGAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAATTGATATTT
42707 TAAAAAT-AAAAATG
65 TAAAAATAAAAAATG
* *
42721 GGGTTAGAGTATCCCTTAGAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAATTTGATATTTT
1 GGGTTGGAGTATCCCTTAGAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAATTGATATTTT
42786 GGGAATAAAA
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
78 45 0.36
79 20 0.16
80 57 0.46
81 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCTTAGAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAATTGATATTTT
AAAAATAAAAAATG
Found at i:42793 original size:78 final size:78
Alignment explanation
Indices: 42562--42810 Score: 309
Period size: 78 Copynumber: 3.2 Consensus size: 78
42552 AAAAACAACA
* * * * * *
42562 GGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAATATCCCCGATGGTGAAAAATCGATATTT
1 GGGTTGGAGTATCCCTTAG-AAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAATTGATATTT
42627 TAGAAATAAAAAATG
65 TAGAAAT-AAAAATG
* * * * *
42642 GGGTTGGAGTATCCTCTCAGAAATAACGGGGTTAGAGTATCCTCGATGGTGAAAAAATAATATTT
1 GGGTTGGAGTATCC-CTTAGAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAATTGATATTT
*
42707 TAAAAATAAAAATG
65 TAGAAATAAAAATG
* *
42721 GGGTTAGAGTATCCCTTAGAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAATTTGATATTTT
1 GGGTTGGAGTATCCCTTAGAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAATTGATATTTT
* * *
42786 GGGAATAAAAACG
66 AGAAATAAAAATG
*
42799 GGATTGGAGTAT
1 GGGTTGGAGTAT
42811 TTTTTTCGGA
Statistics
Matches: 143, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
78 64 0.45
79 20 0.14
80 57 0.40
81 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.28
Consensus pattern (78 bp):
GGGTTGGAGTATCCCTTAGAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAATTGATATTTT
AGAAATAAAAATG
Found at i:43011 original size:53 final size:53
Alignment explanation
Indices: 42908--43036 Score: 163
Period size: 53 Copynumber: 2.4 Consensus size: 53
42898 AAAATGGTAG
** * *
42908 GGTTGGAGTATCCCCGAAGAT-AGAAATTTTGATTTTTAAGAAGTAAAAACGA
1 GGTTGGAGTATCCCTAAAGATGAGAAAATTGGATTTTTAAGAAGTAAAAACGA
* *
42960 GGTTGGAGTATCCCTAAAGATGA-AAAATTGGATATTTTTAGAAGTAAAAACGG
1 GGTTGGAGTATCCCTAAAGATGAGAAAATTGGAT-TTTTAAGAAGTAAAAACGA
43013 GGTTGGAGTATCCCCTAAGAGATG
1 GGTTGGAGTAT-CCCTAA-AGATG
43037 GTGGGGTTGG
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
52 27 0.40
53 29 0.43
54 6 0.09
55 5 0.07
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (53 bp):
GGTTGGAGTATCCCTAAAGATGAGAAAATTGGATTTTTAAGAAGTAAAAACGA
Found at i:43016 original size:133 final size:129
Alignment explanation
Indices: 42829--43184 Score: 397
Period size: 133 Copynumber: 2.7 Consensus size: 129
42819 GAATTGATGG
* * * *
42829 GGTTGGAGTAT-CTTCAAAATGAAAATTTTAATATTTTT-GAAATAAAAATGGGGTTGGAATATC
1 GGTTGGAGTATCCCT-AAAATGAAAATTTTGATATTTTTAG-AATAAAAACGGGGTTGGAGTATC
*
42892 CCCTCGAAAATGGTAGGGTTGGAGTATCCCCGAAGAT-AGAAATTTTGATTTTTAAGA-AGTAAA
64 CCCT-GAAAATGGTAGGGTTGGAGTATCCCCGAAAATGA-AAATTTTGATTTTTAAGAGA-T-AA
42955 AACG-A
125 AA-GTA
* *
42960 GGTTGGAGTATCCCTAAAGATGAAAAATTGGATATTTTTAGAAGTAAAAACGGGGTTGGAGTATC
1 GGTTGGAGTATCCCTAAA-ATGAAAATTTTGATATTTTTAGAA-TAAAAACGGGGTTGGAGTATC
* *
43025 CCCT-AAGAGATGGTGGGGTTGGAGTATCCCCGAAAATGAAAATTTTGATTTTTTAGAGATAAAA
64 CCCTGAA-A-ATGGTAGGGTTGGAGTATCCCCGAAAATGAAAATTTTGATTTTTAAGAGATAAAA
43089 GTA
127 GTA
* *
43092 GAGTTGGAGTATCTCTAAAAATGAAAATTTTGAT-TTTTTAGATATAAAAGCGGGGTTGGAGTAT
1 G-GTTGGAGTATCCCT-AAAATGAAAATTTTGATATTTTTAGA-ATAAAAACGGGGTTGGAGTAT
**
43156 CCCCTTGAAAAACG-A-GGTTGGAGTATCCC
63 CCCC-TGAAAATGGTAGGGTTGGAGTATCCC
43185 TTCAAAAACT
Statistics
Matches: 195, Mismatches: 16, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
130 14 0.07
131 17 0.09
132 61 0.31
133 96 0.49
134 7 0.04
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (129 bp):
GGTTGGAGTATCCCTAAAATGAAAATTTTGATATTTTTAGAATAAAAACGGGGTTGGAGTATCCC
CTGAAAATGGTAGGGTTGGAGTATCCCCGAAAATGAAAATTTTGATTTTTAAGAGATAAAAGTA
Found at i:43113 original size:52 final size:52
Alignment explanation
Indices: 43042--43159 Score: 173
Period size: 52 Copynumber: 2.3 Consensus size: 52
43032 AGATGGTGGG
* *
43042 GTTGGAGTATCCCCGAAAATGAAAATTTTGATTTTTTAGAGATAAAAGTAGA
1 GTTGGAGTATCCCCAAAAATGAAAATTTTGATTTTTTAGAGATAAAAGCAGA
* * * * *
43094 GTTGGAGTATCTCTAAAAATGAAAATTTTGATTTTTTAGATATAAAAGCGGG
1 GTTGGAGTATCCCCAAAAATGAAAATTTTGATTTTTTAGAGATAAAAGCAGA
43146 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
43160 TTGAAAAACG
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (52 bp):
GTTGGAGTATCCCCAAAAATGAAAATTTTGATTTTTTAGAGATAAAAGCAGA
Found at i:43191 original size:25 final size:26
Alignment explanation
Indices: 43145--43193 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
43135 ATAAAAGCGG
*
43145 GGTTGGAGTATCCCCTTGAAAAACGA
1 GGTTGGAGTATCCCCTTCAAAAACGA
43171 GGTTGGAGTAT-CCCTTCAAAAAC
1 GGTTGGAGTATCCCCTTCAAAAAC
43194 TTTAATGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (26 bp):
GGTTGGAGTATCCCCTTCAAAAACGA
Found at i:44644 original size:3 final size:3
Alignment explanation
Indices: 44638--44670 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
44628 TTTTTTTTCA
44638 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
44671 CTTTCTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:45975 original size:69 final size:70
Alignment explanation
Indices: 45892--46054 Score: 224
Period size: 69 Copynumber: 2.3 Consensus size: 70
45882 CGCCAACTCG
* *
45892 TGTGGGCTTTAAAAAGAAAAAGCATCCTT-CTCTATGAGGACTG-AAAGGGTAAGA-GATGCCAC
1 TGTGGGCTTTAAAAAGAAAAAGCAT-CTTGCTCTATGAGGACTGAAAAGGATAACATG-TGCCAC
45954 CAGCTTC
64 CAGCTTC
* *
45961 TGTGGGCTTTAAAAAGAAAAAGCATCTTGCTCTTTGAGGATTGAAAAGGATAACATGTGCCACCA
1 TGTGGGCTTTAAAAAGAAAAAGCATCTTGCTCTATGAGGACTGAAAAGGATAACATGTGCCACCA
*
46026 GCTTG
66 GCTTC
*
46031 TATGGGCTTTTAAAAAGAAAAAGC
1 TGTGGGC-TTTAAAAAGAAAAAGC
46055 GAGTGTTCTG
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
68 3 0.04
69 37 0.44
70 27 0.32
71 17 0.20
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (70 bp):
TGTGGGCTTTAAAAAGAAAAAGCATCTTGCTCTATGAGGACTGAAAAGGATAACATGTGCCACCA
GCTTC
Found at i:46116 original size:136 final size:133
Alignment explanation
Indices: 45967--46229 Score: 364
Period size: 133 Copynumber: 2.0 Consensus size: 133
45957 CTTCTGTGGG
* * * *
45967 CTTTAAAAAGAAAAAGCATCTTGCTCTTTGAGGATTGAAAAGGATAACATGTGCCACCAGCTTGT
1 CTTTAAAAAGAAAAAACATCCTGCTCTTTGAGAATTGAAAA-GATAACAGGTGCCACCAGCTTGT
* *
46032 ATGGGCTTTTAAAAAGAAAAAGCGAGTGTTCTGCTCTTTGAGGACTAAAAGGTGCCACCATCTTG
65 AT-GGCTTTT-AAAAGAAAAAGCGAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTG
46097 CGTACA
128 CGTACA
* * * *
46103 CTTTAAAAGGAAAAAACGTCCTGCTCTTTGAGAATTGAAAAGATAAGAGGTGCCACCAGCTTGTG
1 CTTTAAAAAGAAAAAACATCCTGCTCTTTGAGAATTGAAAAGATAACAGGTGCCACCAGCTTGTA
* * * * *
46168 TGGCTTTTAAAGGAAAAGGTGAGTGTCCTGCTCTTTGAGGACTAAGAGGTGCTACCAACTTG
66 TGGCTTTTAAAAGAAAAAGCGAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTG
46230 TGTGGGCTTT
Statistics
Matches: 112, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
133 47 0.42
134 7 0.06
135 22 0.20
136 36 0.32
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (133 bp):
CTTTAAAAAGAAAAAACATCCTGCTCTTTGAGAATTGAAAAGATAACAGGTGCCACCAGCTTGTA
TGGCTTTTAAAAGAAAAAGCGAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGCGT
ACA
Found at i:46177 original size:69 final size:69
Alignment explanation
Indices: 45891--46497 Score: 243
Period size: 61 Copynumber: 9.3 Consensus size: 69
45881 CCGCCAACTC
* * * * * * *
45891 GTGTGGGCTTTAAAAAGAAAAAGCATCCTTCTCTATGAGGACTGAAAGGGTAAGAGATGCCACCA
1 GTGTGGGCTTTAAAAAGAAAAAACATCCTGCTCTTTGAGGATTGAAAAGATAAGAGGTGCCACCA
45956 GCTT
66 GCTT
* * * * *
45960 CTGTGGGCTTTAAAAAGAAAAAGCATCTTGCTCTTTGAGGATTGAAAAGGATAACATGTGCCACC
1 GTGTGGGCTTTAAAAAGAAAAAACATCCTGCTCTTTGAGGATTGAAAA-GATAAGAGGTGCCACC
46025 AGCTT
65 AGCTT
* * * *
46030 GTATGGGCTTTTAAAAAGAAAAAGCGAGTGTTCTGCTCTTTGAGGACT------A-AA-AGGTGC
1 GTGTGGGC-TTTAAAAAGAAAAAAC-A---TCCTGCTCTTTGAGGATTGAAAAGATAAGAGGTGC
*
46087 CACCATCTT
61 CACCAGCTT
* *** * * *
46096 GCGTACACTTTAAAAGGAAAAAACGTCCTGCTCTTTGAGAATTGAAAAGATAAGAGGTGCCACCA
1 GTGTGGGCTTTAAAAAGAAAAAACATCCTGCTCTTTGAGGATTGAAAAGATAAGAGGTGCCACCA
46161 GCTT
66 GCTT
* * *** * *
46165 GTGT-GGCTTTTAAAGGAAAAGGTGAGTGTCCTGCTCTTTGA-G---G---A-CTAAGAGGTGCT
1 GTGTGGGCTTTAAAAAGAAAA----AACATCCTGCTCTTTGAGGATTGAAAAGATAAGAGGTGCC
*
46221 ACCAACTT
62 ACCAGCTT
* *
46229 GTGTGGGCTTTAAAAAAGAAAAGAA-AGTGTCCTACTCTTTGAGGACT------A-AA-AGGTGC
1 GTGTGGGCTTT-AAAAAGAAAA-AACA---TCCTGCTCTTTGAGGATTGAAAAGATAAGAGGTGC
*
46285 CACCAACTT
61 CACCAGCTT
* * * * * * *
46294 GTGTGGACTTTAAAAGGAAAAGACGTCCTACTCTTTGA--A--G---A-CTAAAAGGTGCCACCA
1 GTGTGGGCTTTAAAAAGAAAAAACATCCTGCTCTTTGAGGATTGAAAAGATAAGAGGTGCCACCA
46351 GCTT
66 GCTT
* ** * *
46355 GTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA--A--G---A-CTAAAAGGTGCCACCA
1 GTGTGGGCTTTAAAAAGAAAAAACATCCTGCTCTTTGAGGATTGAAAAGATAAGAGGTGCCACCA
*
46412 ACTT
66 GCTT
* ** * *
46416 GTGTGGGCTTTAAAAGGAAAAGCCATCTTGCTCTTTGAGGACT----A-A-AAGA--TGCCACCA
1 GTGTGGGCTTTAAAAAGAAAAAACATCCTGCTCTTTGAGGATTGAAAAGATAAGAGGTGCCACCA
46473 GCTT
66 GCTT
*
46477 GTGTGGGCTTTTAAAAGAAAA
1 GTGTGGGCTTTAAAAAGAAAA
46498 GAAAGTGTCC
Statistics
Matches: 438, Mismatches: 64, Indels: 80
0.75 0.11 0.14
Matches are distributed among these distances:
59 1 0.00
60 2 0.00
61 164 0.37
63 7 0.02
64 31 0.07
65 57 0.13
66 27 0.06
67 3 0.01
68 17 0.04
69 59 0.13
70 23 0.05
71 16 0.04
72 16 0.04
75 15 0.03
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (69 bp):
GTGTGGGCTTTAAAAAGAAAAAACATCCTGCTCTTTGAGGATTGAAAAGATAAGAGGTGCCACCA
GCTT
Found at i:46274 original size:198 final size:186
Alignment explanation
Indices: 45948--46563 Score: 574
Period size: 198 Copynumber: 3.2 Consensus size: 186
45938 GGGTAAGAGA
* * * * * *
45948 TGCCACCAGCTTCTGTGGGCTTTAAAAAGAAAAAGCATCTTGCTCTTTGAGGATTGAAAAGGATA
1 TGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAAGACT-AAAA-G---
* * * *
46013 ACATGTGCCACCAGCTTGTATGGGCTTTTAAAAAGAAAAAGCGAGTGTTCTGCTCTTTGAGGACT
61 ----GTGCCACCAACTTGTGTGGGC-TTTAAAAAG-AAAAGCAAGTGTCCTGCTCTTTGAGGACT
* *
46078 AAAAGGTGCCACCATCTTGCGTACACTTTAAAAGGAAAAAACGTCCTGCTCTTTGAGAATTGAAA
120 AAAAGGTGCCACCAACTTGCGTACACTTTAAAAGGAAAAAACGTCCTACTCTTT--GAA--G---
*
46143 AGATAAGAGG
178 A-ATAAAAGG
* * * *
46153 TGCCACCAGCTTGTGT-GGCTTTTAAAGGAAAAGGTGAGTGTCCTGCTCTTTGAGGACTAAGAGG
1 TGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGG-CA---TCCTGCTCTTTGAAGACTAAAAGG
* * *
46217 TGCTACCAACTTGTGTGGGCTTTAAAAAAGAAAAGAAAGTGTCCTACTCTTTGAGGACTAAAAGG
62 TGCCACCAACTTGTGTGGGCTTT-AAAAAGAAAAGCAAGTGTCCTGCTCTTTGAGGACTAAAAGG
* ** * *
46282 TGCCACCAACTTGTGTGGACTTTAAAAGGAAAAGACGTCCTACTCTTTGAAGACTAAAAGG
126 TGCCACCAACTTGCGTACACTTTAAAAGGAAAAAACGTCCTACTCTTTGAAGAATAAAAGG
46343 TGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAAGACTAAAAGGTGCC
1 TGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAAGACTAAAAGGTGCC
* * * *
46408 ACCAACTTGTGTGGGCTTTAAAAGGAAAAGCCA---TCTTGCTCTTTGAGGACTAAAAGATGCCA
66 ACCAACTTGTGTGGGCTTTAAAAAGAAAAGCAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCA
* * *** * * * *
46470 CCAGCTTGTGTGGGCTTTTAAAAGAAAAGAAAGTGTCCTGCTCTTTGAAGACTTTAAAAGG
131 CCAACTTGCGTACAC-TTTAAAAGGAAA-AAA-CGTCCTACTCTTTGAAGA--ATAAAAGG
* * *
46531 TACCACCAGCTTGTTTGGGCTTTAAAAGAAAAA
1 TGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAA
46564 AAAGTGTCCT
Statistics
Matches: 356, Mismatches: 44, Indels: 39
0.81 0.10 0.09
Matches are distributed among these distances:
183 39 0.11
184 11 0.03
185 2 0.01
186 27 0.08
187 44 0.12
188 37 0.10
190 23 0.06
191 18 0.05
194 1 0.00
196 3 0.01
198 76 0.21
199 24 0.07
204 15 0.04
205 16 0.04
206 1 0.00
207 3 0.01
208 16 0.04
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (186 bp):
TGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAAGACTAAAAGGTGCC
ACCAACTTGTGTGGGCTTTAAAAAGAAAAGCAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCA
CCAACTTGCGTACACTTTAAAAGGAAAAAACGTCCTACTCTTTGAAGAATAAAAGG
Found at i:46356 original size:61 final size:62
Alignment explanation
Indices: 46017--46593 Score: 529
Period size: 61 Copynumber: 9.0 Consensus size: 62
46007 AGGATAACAT
* * * * *
46017 GTGCCACCAGCTTGTATGGGCTTTTAAAAAGAAAAAGCGAGTGTTCTGCTCTTTGAGGACTAAAA
1 GTGCCACCAGCTTGTGTGGGC-TTT-AAAAGGAAAA--GAGCGTCCTGCTCTTTGAAGACTAAAA
46082 G
62 G
* * *** * *
46083 GTGCCACCATCTTGCGTACACTTTAAAAGGAAAA-AACGTCCTGCTCTTTGAGAATTGAAAAGAT
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGAGCGTCCTGCTCTTT--GAA--G---A-CT
*
46147 AAGAG
58 AAAAG
* * * *
46152 GTGCCACCAGCTTGTGT-GGCTTTTAAAGGAAAAGGTGAGTGTCCTGCTCTTTGAGGACTAAGAG
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAA---GAGCGTCCTGCTCTTTGAAGACTAAAAG
* * * * * *
46216 GTGCTACCAACTTGTGTGGGCTTTAAAAAAGAAAAGAAAGTGTCCTACTCTTTGAGGACTAAAAG
1 GTGCCACCAGCTTGTGTGGGCTTT-AAAAGGAAAAG--AGCGTCCTGCTCTTTGAAGACTAAAAG
* * *
46281 GTGCCACCAACTTGTGTGGACTTTAAAAGGAAAAGA-CGTCCTACTCTTTGAAGACTAAAAG
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGAGCGTCCTGCTCTTTGAAGACTAAAAG
*
46342 GTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAG-GCATCCTGCTCTTTGAAGACTAAAAG
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGAGCGTCCTGCTCTTTGAAGACTAAAAG
* * * * *
46403 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-CCATCTTGCTCTTTGAGGACTAAAAG
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGAGCGTCCTGCTCTTTGAAGACTAAAAG
* *
46464 ATGCCACCAGCTTGTGTGGGCTTTTAAAA-GAAAAGAAAGTGTCCTGCTCTTTGAAGACTTTAAA
1 GTGCCACCAGCTTGTGTGGGC-TTTAAAAGGAAAAG--AGCGTCCTGCTCTTTGAAGAC--TAAA
46528 AG
61 AG
* * * * *
46530 GTACCACCAGCTTGTTTGGGCTTTAAAAGAAAAAAAAGTGTCCTGCTCTTT-AAGGACTAAAAG
1 GTGCCACCAGCTTGTGTGGGCTTTAAAAG-GAAAAGAGCGTCCTGCTCTTTGAA-GACTAAAAG
46593 G
1 G
46594 ATAAAAGGTT
Statistics
Matches: 432, Mismatches: 53, Indels: 55
0.80 0.10 0.10
Matches are distributed among these distances:
61 173 0.40
62 8 0.02
63 10 0.02
64 57 0.13
65 83 0.19
66 47 0.11
67 4 0.01
68 15 0.03
69 20 0.05
70 2 0.00
72 13 0.03
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (62 bp):
GTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGAGCGTCCTGCTCTTTGAAGACTAAAAG
Found at i:53029 original size:4 final size:4
Alignment explanation
Indices: 53020--53049 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
53010 AGACAAAGCA
*
53020 AAAT AAAT AAAT AAAT AAAT GAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
53050 GCACCTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:55228 original size:31 final size:28
Alignment explanation
Indices: 55190--55246 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 28
55180 ATTTAATATT
55190 TTGAAAATAAAAACGGGGTTGGAGTATCCCC
1 TTGAAAATAAAAA---GGTTGGAGTATCCCC
*
55221 TTGAAAATAACAAGGTTGGAGTATCC
1 TTGAAAATAAAAAGGTTGGAGTATCC
55247 TCCAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 13 0.52
31 12 0.48
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (28 bp):
TTGAAAATAAAAAGGTTGGAGTATCCCC
Found at i:55285 original size:76 final size:75
Alignment explanation
Indices: 55097--55397 Score: 291
Period size: 76 Copynumber: 3.9 Consensus size: 75
55087 TACCCCTAAG
* * ** ** * * * *
55097 AAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCTTCTCGGAATTGATGGGGTTGGA
1 AAAAAATTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCCCCTTGAAAATAATGGGGTTGGA
* *
55162 ATATCC-CTAA
66 GTATCCTC-CA
* ***
55172 GATGAAAAATTTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCCCCTTGAAAATAACAAGGT
1 -A--AAAAA-TTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCCCCTTGAAAATAATGGGGT
55237 TGGAGTATCCTCCA
62 TGGAGTATCCTCCA
* *
55251 AAAAAATTCATAATTTTGAAAATAAAAACAGGGTTGGAGTAT-CCCTTCAAAAATAATGGGGTTG
1 AAAAAATTAAT-ATTTTGAAAATAAAAACAGGGTTGGAGTATCCCCTT-GAAAATAATGGGGTTG
* *
55315 GAGTATCTTCGA
64 GAGTATCCTCCA
* * * * * *
55327 GAAAATTTAATATTTTGAAAATAAAAACAGGATTGGAGTATCCTCTTGGAATTAATGGGGTTGGA
1 AAAAAATTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCCCCTTGAAAATAATGGGGTTGGA
55392 GTATCC
66 GTATCC
55398 CCGAGATGAA
Statistics
Matches: 187, Mismatches: 31, Indels: 15
0.80 0.13 0.06
Matches are distributed among these distances:
75 58 0.31
76 69 0.37
78 5 0.03
79 54 0.29
80 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.31
Consensus pattern (75 bp):
AAAAAATTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCCCCTTGAAAATAATGGGGTTGGA
GTATCCTCCA
Found at i:55403 original size:75 final size:75
Alignment explanation
Indices: 55098--55403 Score: 319
Period size: 75 Copynumber: 4.0 Consensus size: 75
55088 ACCCCTAAGA
* ** * * * * * *
55098 AAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCTTCTCGGAATTGATGGGGTTGGAA
1 AAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCCTCTTGAAAATAATGGGGTTGGAG
*
55163 TATCCCTAAGATG
66 TATCCC--CGA-G
* * ***
55176 AAAAATTTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCCCCTTGAAAATAACAAGGTTGGA
1 -AAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCCTCTTGAAAATAATGGGGTTGGA
*
55241 GTATCCTCC-AA
65 GTATCC-CCGAG
* * *
55252 AAAAATTCATAATTTTGAAAATAAAAACAGGGTTGGAGTATCC-CTTCAAAAATAATGGGGTTGG
1 AAAATTTAAT-ATTTTGAAAATAAAAACAGGGTTGGAGTATCCTCTT-GAAAATAATGGGGTTGG
**
55316 AGTATCTTCGAG
64 AGTATCCCCGAG
* * *
55328 AAAATTTAATATTTTGAAAATAAAAACAGGATTGGAGTATCCTCTTGGAATTAATGGGGTTGGAG
1 AAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCCTCTTGAAAATAATGGGGTTGGAG
55393 TATCCCCGAG
66 TATCCCCGAG
55403 A
1 A
55404 TGAAAGATTG
Statistics
Matches: 190, Mismatches: 32, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
75 68 0.36
76 62 0.33
77 1 0.01
79 58 0.31
80 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (75 bp):
AAAATTTAATATTTTGAAAATAAAAACAGGGTTGGAGTATCCTCTTGAAAATAATGGGGTTGGAG
TATCCCCGAG
Found at i:56942 original size:20 final size:21
Alignment explanation
Indices: 56895--56949 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
56885 GCCAATCACT
*
56895 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
56916 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
56936 TGTATCGATACATT
1 TGTATCGATACATT
56950 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 16 0.53
21 13 0.43
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:61472 original size:13 final size:13
Alignment explanation
Indices: 61454--61479 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61444 TACAGCAAGT
61454 ATGTATCGATACA
1 ATGTATCGATACA
61467 ATGTATCGATACA
1 ATGTATCGATACA
61480 CAAAAATTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:61477 original size:32 final size:32
Alignment explanation
Indices: 61436--61498 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
61426 TAGCCAAACT
**
61436 TGTATCGATACAGCAAGTA-TGTATCGATACAA
1 TGTATCGATACA-CAAAAATTGTATCGATACAA
61468 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCGATACA
61499 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAAATTGTATCGATACAA
Found at i:63726 original size:21 final size:21
Alignment explanation
Indices: 63693--63737 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
63683 TTGCAAGTTG
*
63693 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
63715 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
63735 AAA
1 AAA
63738 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:67615 original size:20 final size:20
Alignment explanation
Indices: 67590--67665 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 20
67580 GTCCAAAATT
67590 TATCGATACATGTTTCTATG
1 TATCGATACATGTTTCTATG
* *
67610 TATCGATACATCTGGAAATTCAATG
1 TATCGATACA--T-G--TTTCTATG
* *
67635 TATCGATACATTTTTCTTTG
1 TATCGATACATGTTTCTATG
67655 TATCGATACAT
1 TATCGATACAT
67666 TGTATCGATA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 26 0.58
22 1 0.02
23 2 0.04
25 16 0.36
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (20 bp):
TATCGATACATGTTTCTATG
Found at i:67670 original size:13 final size:13
Alignment explanation
Indices: 67652--67690 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
67642 ACATTTTTCT
67652 TTGTATCGATACA
1 TTGTATCGATACA
67665 TTGTATCGATACA
1 TTGTATCGATACA
67678 TTGTATCGATACA
1 TTGTATCGATACA
67691 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:70267 original size:13 final size:13
Alignment explanation
Indices: 70249--70274 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70239 TACAGCAAGT
70249 ATGTATCGATACA
1 ATGTATCGATACA
70262 ATGTATCGATACA
1 ATGTATCGATACA
70275 CAAAAATTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:70274 original size:32 final size:32
Alignment explanation
Indices: 70231--70293 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
70221 TAGCCAAACT
**
70231 TGTATCAATACAGCAAGTA-TGTATCGATACAA
1 TGTATCAATACA-CAAAAATTGTATCGATACAA
*
70263 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCAATACACAAAAATTGTATCGATACA
70294 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (32 bp):
TGTATCAATACACAAAAATTGTATCGATACAA
Found at i:75013 original size:21 final size:20
Alignment explanation
Indices: 74988--75041 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
74978 TTACAAGCCA
74988 ATGTATCGATACAAT-TTAGT
1 ATGTATCGATACAATCTT-GT
75008 CATGTATCGATAC-ATCTTGT
1 -ATGTATCGATACAATCTTGT
*
75028 ATGTATCAATACAA
1 ATGTATCGATACAA
75042 ACAGTTAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.37
20 5 0.17
21 14 0.47
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATCTTGT
Found at i:77205 original size:20 final size:20
Alignment explanation
Indices: 77180--77239 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
77170 TTGGGTTAAA
77180 AACCTAGAATGTATCGATAC
1 AACCTAGAATGTATCGATAC
*
77200 AACCTAAAATGTATCGATAC
1 AACCTAGAATGTATCGATAC
* *
77220 AA-ATAGTATGTATCGATAC
1 AACCTAGAATGTATCGATAC
77239 A
1 A
77240 TTTACTTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 15 0.42
20 21 0.58
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (20 bp):
AACCTAGAATGTATCGATAC
Found at i:77251 original size:20 final size:19
Alignment explanation
Indices: 77208--77262 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
77198 ACAACCTAAA
**
77208 ATGTATCGATACAAATAGT
1 ATGTATCGATACATTTAGT
*
77227 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTTA-GT
77247 ATGTATCGATACATTT
1 ATGTATCGATACATTT
77263 CCTTGGCAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTTAGT
Found at i:77326 original size:13 final size:13
Alignment explanation
Indices: 77308--77347 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
77298 ATTTTAGGCA
77308 TGTATCGATACAT
1 TGTATCGATACAT
* * *
77321 TGTATCAAGAGAT
1 TGTATCGATACAT
77334 TGTATCGATACAT
1 TGTATCGATACAT
77347 T
1 T
77348 TATTGTTTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:80090 original size:21 final size:21
Alignment explanation
Indices: 80039--80090 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
80029 GTCACATTTT
*
80039 GGTCCAAATGTATCGATACAT
1 GGTCCAAATGTATCGATACAA
* *
80060 TGT-TAGAATGTATCGATACAA
1 GGTCCA-AATGTATCGATACAA
*
80081 GGTCCCAATG
1 GGTCCAAATG
80091 GTCAAAAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (21 bp):
GGTCCAAATGTATCGATACAA
Found at i:80160 original size:33 final size:33
Alignment explanation
Indices: 80117--80183 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
80107 TTCAACGATT
80117 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
* *** *
80150 TGTATTGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
80183 T
1 T
80184 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:80313 original size:52 final size:52
Alignment explanation
Indices: 80257--80385 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
80247 CACTGATCTT
* *
80257 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
80309 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
80361 TGTATCGATACATACAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
80386 CCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:85209 original size:20 final size:20
Alignment explanation
Indices: 85184--85258 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 20
85174 AATAGCCTAC
85184 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
* *
85204 ATGTATCGATACAATG-AGTG
1 ATGTATCGATACATTGAAG-A
*
85224 ATGTATCGATACATT-ACCAGC
1 ATGTATCGATACATTGA--AGA
85245 ATGTATCGATACAT
1 ATGTATCGATACAT
85259 AAGTGAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
19 2 0.04
20 29 0.62
21 14 0.30
22 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:85264 original size:40 final size:40
Alignment explanation
Indices: 85184--85264 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
85174 AATAGCCTAC
*
85184 ATGTATCGATACATTGAAGAATGTATCGATACAATGAGTG
1 ATGTATCGATACATTGAAGAATGTATCGATACAATAAGTG
*
85224 ATGTATCGATACATT-ACCAGCATGTATCGATAC-ATAAGTG
1 ATGTATCGATACATTGA--AGAATGTATCGATACAATAAGTG
85264 A
1 A
85265 ATATATTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
39 1 0.03
40 22 0.59
41 14 0.38
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (40 bp):
ATGTATCGATACATTGAAGAATGTATCGATACAATAAGTG
Found at i:85343 original size:21 final size:21
Alignment explanation
Indices: 85317--85371 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
85307 ATATGGTTTA
85317 GTATCGATACATTACAAGCAT
1 GTATCGATACATTACAAGCAT
* ***
85338 GTATCGATACCTT-CACTTAT
1 GTATCGATACATTACAAGCAT
85358 GTATCGATACATTA
1 GTATCGATACATTA
85372 ACTTATTGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (21 bp):
GTATCGATACATTACAAGCAT
Found at i:85383 original size:21 final size:20
Alignment explanation
Indices: 85317--85389 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
85307 ATATGGTTTA
***
85317 GTATCGATACATTACAAGCAT
1 GTATCGATACATTA-ACTTAT
* *
85338 GTATCGATACCTTCACTTAT
1 GTATCGATACATTAACTTAT
85358 GTATCGATACATTAACTTATT
1 GTATCGATACATTAACTTA-T
*
85379 GTATCAATACA
1 GTATCGATACA
85390 AATTGTAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 20 0.47
21 23 0.53
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
GTATCGATACATTAACTTAT
Found at i:85788 original size:17 final size:17
Alignment explanation
Indices: 85768--85801 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
85758 AGCTTGTATT
*
85768 TTATAATTATTAGATAA
1 TTATAATTATGAGATAA
*
85785 TTATATTTATGAGATAA
1 TTATAATTATGAGATAA
85802 ATTAAATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (17 bp):
TTATAATTATGAGATAA
Found at i:88081 original size:13 final size:13
Alignment explanation
Indices: 88063--88093 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
88053 GTTACAAGCT
88063 ATGTATCGATACA
1 ATGTATCGATACA
88076 ATGTATCGATACA
1 ATGTATCGATACA
*
88089 TTGTA
1 ATGTA
88094 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:88198 original size:13 final size:13
Alignment explanation
Indices: 88180--88204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88170 ACAATGAACA
88180 TGTATCGATACAT
1 TGTATCGATACAT
88193 TGTATCGATACA
1 TGTATCGATACA
88205 AGGCAGCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:88220 original size:33 final size:32
Alignment explanation
Indices: 88161--88226 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
88151 AATTTGTCCA
*
88161 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAGGAACATGTATCGATACAT
*
88193 TGTATCGATACAAGGCAGCATGTATCGATACAT
1 TGTATCGATACAAGG-AACATGTATCGATACAT
88226 T
1 T
88227 TGGGTGTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (32 bp):
TGTATCGATACAAGGAACATGTATCGATACAT
Found at i:88781 original size:19 final size:19
Alignment explanation
Indices: 88745--88797 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
88735 TTGTTTTTCT
88745 CCCCTTAAA-AA-T-TCTC
1 CCCCTTAAACAATTATCTC
*
88761 CCCCTTAAACGATTATCTC
1 CCCCTTAAACAATTATCTC
88780 CCCCTTAAACAATTATCT
1 CCCCTTAAACAATTATCT
88798 TCTCCCCCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 9 0.28
17 1 0.03
18 1 0.03
19 21 0.66
ACGTcount: A:0.30, C:0.36, G:0.02, T:0.32
Consensus pattern (19 bp):
CCCCTTAAACAATTATCTC
Found at i:88804 original size:22 final size:20
Alignment explanation
Indices: 88755--88808 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 20
88745 CCCCTTAAAA
*
88755 ATTCTCCCCCTTAAACGATT
1 ATTCTCCCCCTTAAACAATT
88775 A-TCTCCCCCTTAAACAATT
1 ATTCTCCCCCTTAAACAATT
88794 ATCTTCTCCCCCTTA
1 A--TTCTCCCCCTTA
88809 TGTAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 18 0.60
20 1 0.03
22 11 0.37
ACGTcount: A:0.24, C:0.39, G:0.02, T:0.35
Consensus pattern (20 bp):
ATTCTCCCCCTTAAACAATT
Found at i:90667 original size:13 final size:13
Alignment explanation
Indices: 90649--90687 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
90639 AAATAGTACC
*
90649 CAATGTATTGATA
1 CAATGTATCGATA
90662 CAATGTATCGATA
1 CAATGTATCGATA
90675 CAATGTATCGATA
1 CAATGTATCGATA
90688 TATGTCGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:96784 original size:33 final size:33
Alignment explanation
Indices: 96747--96810 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
96737 GTTACAAGAT
*
96747 ATGTATCGATACATT-TCTTCATGTATCGATATA
1 ATGTATCGATACATTGT-ATCATGTATCGATATA
96780 ATGTATCGATACATTGTATCATGTATCGATA
1 ATGTATCGATACATTGTATCATGTATCGATA
96811 CAAATAGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (33 bp):
ATGTATCGATACATTGTATCATGTATCGATATA
Found at i:98246 original size:163 final size:161
Alignment explanation
Indices: 98044--98497 Score: 475
Period size: 163 Copynumber: 2.8 Consensus size: 161
98034 TGCGGAGTTA
* *
98044 GGATTTTTCTTGTTTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTTTGTTAGATA
1 GGATTTTTCTTG-ATTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTTTATTA-ATA
* * *
98109 AGTTCTCAAAATTCATTCATTTTCATGAATTTTTGTTTTTTTCTTGAAATTTTCCTATTTTCAAA
64 AGTTTTCAAAATTCATTTATTTTCATGAATTTTT-TTTTTTTCTTGAAATTTTCATATTTTCAAA
* **
98174 ATACGG-AGTTTTCTA-TTTCGTAAATGTTTTTTAG
128 ATA-GGAAGTTTTCTACTCT-GTAAATGTTTTCGAG
* * * * * * *
98208 GGATTTTTCATGGTTTTTAGTTTTTAAAATTAATCAAATATTATTTTTTAATTTGTATTAATCAG
1 GGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTTTATTAATAAG
* * * * * *
98273 TTTTTAAAAATTCATTTATTTCCTTGAGTTTTTTATTTTTTCCTTGAAATTCTCATATTTTCGAA
66 -TTTTCAAAATTCATTTATTTTCATGAATTTTTT-TTTTTT-CTTGAAATTTTCATATTTTCAAA
* *
98338 ATAGGAAGTTTTTTACTCTGTAAATGTTTTCGGG
128 ATAGGAAGTTTTCTACTCTGTAAATGTTTTCGAG
***
98372 GCGATTCCCCTTGATTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTTTATTAAATC
1 G-GATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTTTATT-AAT-
* ** *
98437 AA-TTTTCAAAAATTCATTTATTTTTAT-AAGTTTTAAATTTTTTCTTTGAAATTTTCTTATT
63 AAGTTTTC-AAAATTCATTTATTTTCATGAA-TTTT-TTTTTTTTC-TTGAAATTTTCATATT
98498 ACCAAAAAAT
Statistics
Matches: 237, Mismatches: 41, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
162 5 0.02
163 76 0.32
164 55 0.23
165 57 0.24
166 43 0.18
167 1 0.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (161 bp):
GGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTTTATTAATAAG
TTTTCAAAATTCATTTATTTTCATGAATTTTTTTTTTTTCTTGAAATTTTCATATTTTCAAAATA
GGAAGTTTTCTACTCTGTAAATGTTTTCGAG
Found at i:98566 original size:166 final size:160
Alignment explanation
Indices: 98059--98645 Score: 470
Period size: 166 Copynumber: 3.6 Consensus size: 160
98049 TTTCTTGTTT
* * *
98059 TTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTTTGTTAGAT-AAGTTCTC-AAAATT
1 TTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTTTATTAAATCAA-TTTTCAAAAATT
* * ** * *
98122 CATTCATTTTCATGAA-TTTTTGTTTTTTTCTTGAAATTTTCCTATTTTCAAAATACGGAGTTTT
65 CATTTATTTTTAT-AAGTTTTTAATTTTTTCTTGAAATTTTCATATTTTCAAAATA-GGAATTTT
* * *** *
98186 CTATTTCGTAAATGTTTTTTAGGGATTTTTCATGGT
128 CTATTCCGTAAAT-ATTTCGGGGGATTTTTC-T-GA
* * * * * *
98222 TTTTAGTTTTTAAAATTAATCAAATATTATTTTTTAATTTGTATT-AATCAGTTTTTAAAAATTC
1 TTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTTTATTAAATCAATTTTCAAAAATTC
* * * * *
98286 ATTTATTTCCT-TGAGTTTTTTATTTTTTCCTTGAAATTCTCATATTTTCGAAATAGGAAGTTTT
66 ATTTATTT-TTATAAGTTTTTAATTTTTT-CTTGAAATTTTCATATTTTCAAAATAGGAA-TTTT
* * * * ***
98350 TTACTCTGTAAATGTTTTCGGGGCGATTCCCCTTGA
128 CTATTCCGTAAAT-ATTTCGGGG-GATTTTTC-TGA
98386 TTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTTTATTAAATCAATTTTCAAAAATT
1 -TTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTTTATTAAATCAATTTTCAAAAATT
* * ** * *
98451 CATTTATTTTTATAAGTTTTAAATTTTTTCTTTGAAATTTTCTTATTACCAAAAAATTGAATTTT
65 CATTTATTTTTATAAGTTTTTAATTTTTTC-TTGAAATTTTCATATTTTCAAAATA-GGAATTTT
*
98516 CTATTCCATAAATATTTCAGGGAGGATTTTTCTCGA
128 CTATTCCGTAAATATTTC-GGG-GGATTTTTCT-GA
* * * * * ** *
98552 TTTAAACATTTTAAAATTCATCTAATATTGTCT-TTAAATTTACATTAAATCAATTTTGAAAAAT
1 TTTTAA-TTTTTAAAATTCATCAAATATTAT-TATTTAATTTTTATTAAATCAATTTTCAAAAAT
* *
98616 TCAAATTA-TTTCATGAA-TTTTTAATTTTTT
64 TC-ATTTATTTTTAT-AAGTTTTTAATTTTTT
98646 TGTAAACATT
Statistics
Matches: 338, Mismatches: 67, Indels: 35
0.77 0.15 0.08
Matches are distributed among these distances:
162 6 0.02
163 70 0.21
164 44 0.13
165 59 0.17
166 148 0.44
167 11 0.03
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.52
Consensus pattern (160 bp):
TTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTTTTATTAAATCAATTTTCAAAAATTC
ATTTATTTTTATAAGTTTTTAATTTTTTCTTGAAATTTTCATATTTTCAAAATAGGAATTTTCTA
TTCCGTAAATATTTCGGGGGATTTTTCTGA
Found at i:98797 original size:5 final size:5
Alignment explanation
Indices: 98776--98812 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
98766 ACTTTTCTTA
*
98776 ATTTT ATATTT ACTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT AT-TTT ATTTT ATTTT ATTTT ATTTT ATTTT A
98813 AATCTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:99129 original size:21 final size:20
Alignment explanation
Indices: 99111--99158 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 20
99101 GAGGAAAAAG
99111 GAAAAAAAAGAGAAAAAAATA
1 GAAAAAAAAGA-AAAAAAATA
99132 GAAGAAAAAAGAAAAAAAATA
1 GAA-AAAAAAGAAAAAAAATA
99153 GAAAAA
1 GAAAAA
99159 TTAGTTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.12
21 15 0.58
22 8 0.31
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (20 bp):
GAAAAAAAAGAAAAAAAATA
Found at i:99137 original size:13 final size:11
Alignment explanation
Indices: 99105--99158 Score: 60
Period size: 10 Copynumber: 5.2 Consensus size: 11
99095 GCAAGTGAGG
99105 AAAAAG-GAAA
1 AAAAAGAGAAA
99115 AAAAAGAG-AA
1 AAAAAGAGAAA
* *
99125 AAAAATAGAAG
1 AAAAAGAGAAA
99136 AAAAA-AGAAA
1 AAAAAGAGAAA
*
99146 AAAAATAGAAA
1 AAAAAGAGAAA
99157 AA
1 AA
99159 TTAGTTAGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
10 24 0.63
11 14 0.37
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (11 bp):
AAAAAGAGAAA
Found at i:99858 original size:13 final size:13
Alignment explanation
Indices: 99840--99865 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99830 TACACCAAGT
99840 ATGTATCGATACA
1 ATGTATCGATACA
99853 ATGTATCGATACA
1 ATGTATCGATACA
99866 CAAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:102119 original size:21 final size:21
Alignment explanation
Indices: 102086--102135 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
102076 TTGCAAGTTG
*
102086 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
102108 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
102129 AAATAAA
1 AAATAAA
102136 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:106007 original size:13 final size:13
Alignment explanation
Indices: 105989--106014 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105979 ACATTTTTCT
105989 TTGTATCGATACA
1 TTGTATCGATACA
106002 TTGTATCGATACA
1 TTGTATCGATACA
106015 GGGTGATTAT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:106178 original size:20 final size:20
Alignment explanation
Indices: 106135--106180 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
106125 ATATCTTTTG
106135 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
106156 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
106176 CAAAA
1 CAAAA
106181 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:112057 original size:21 final size:21
Alignment explanation
Indices: 112015--112091 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
112005 AAACCCTTAT
* *
112015 TTTTATCGATACA-AATGAAAA
1 TTTT-TCGATACATTATGTAAA
112036 TTTTTCGATACATTATGTAAA
1 TTTTTCGATACATTATGTAAA
* * *
112057 TGTATT-GATATATTATGTGAA
1 T-TTTTCGATACATTATGTAAA
* *
112078 TATATCGATACATT
1 TTTTTCGATACATT
112092 TTGCTGGCAG
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 9 0.20
21 32 0.73
22 3 0.07
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.43
Consensus pattern (21 bp):
TTTTTCGATACATTATGTAAA
Found at i:114594 original size:19 final size:21
Alignment explanation
Indices: 114548--114601 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
114538 TTTCAACAAT
114548 TTGTATCGATACAAATAGTAA
1 TTGTATCGATACAAATAGTAA
* *
114569 ATGTATCGATACATA-AGT-A
1 TTGTATCGATACAAATAGTAA
114588 TTGTATCGATACAA
1 TTGTATCGATACAA
114602 TGTATCGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAATAGTAA
Found at i:119192 original size:13 final size:13
Alignment explanation
Indices: 119174--119200 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
119164 ACATGCTGCT
119174 TTGTATCGATACA
1 TTGTATCGATACA
119187 TTGTATCGATACA
1 TTGTATCGATACA
119200 T
1 T
119201 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:119197 original size:33 final size:32
Alignment explanation
Indices: 119155--119219 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
119145 CACACCCAGA
*
119155 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
119188 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
119220 GGATAAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:119232 original size:20 final size:20
Alignment explanation
Indices: 119188--119260 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
119178 ATCGATACAT
* * *
119188 TGTATCGATACAT-GTTCAT
1 TGTATCGATACATGGATAAA
119207 TGTATCGATACATGGATAAA
1 TGTATCGATACATGGATAAA
119227 TGTATCGATACATGGATAAA
1 TGTATCGATACATGGATAAA
119247 TGTATCGATACATG
1 TGTATCGATACATG
119261 AAACTGGCAG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
19 13 0.26
20 37 0.74
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGGATAAA
Found at i:119326 original size:13 final size:13
Alignment explanation
Indices: 119305--119357 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
119295 CGATACATGG
*
119305 TACAATGTATCGA
1 TACATTGTATCGA
*
119318 TACATTGTATTGA
1 TACATTGTATCGA
119331 TACA-TG-AT-GA
1 TACATTGTATCGA
119341 -A-ATTGTATCGA
1 TACATTGTATCGA
119352 TACATT
1 TACATT
119358 ACTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
8 1 0.03
9 3 0.09
10 4 0.12
11 4 0.12
12 3 0.09
13 18 0.55
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:121038 original size:249 final size:249
Alignment explanation
Indices: 120600--121103 Score: 866
Period size: 249 Copynumber: 2.0 Consensus size: 249
120590 AAATTCTAAA
120600 ACTTATAAAGTGTTTAATAAGAAGACCTTAGTAGTTGAAGAGTCTATACATGTTGTTTTTTATGA
1 ACTTATAAAGTGTTTAATAAGAAGACCTTAGTAGTTGAAGAGTCTATACATGTTGTTTTTTATGA
* *
120665 ATCTAACTCTACCTTGAGAAAGATATCTCTTGACAATGATGATGTATAGATTTATATAGAGAATC
66 ATCTAACTCTACCTTGAGAAAGATATCTCTTGACAATGATGATGTATAGATTTATACAAAGAATC
*
120730 AAGATAAAGCATCACATAAGGAGCAAGAACAAACAACTCAAGATCAAGAAGCTCTAAAAGAAGAC
131 AAGATAAAGCATCACACAAGGAGCAAGAACAAACAACTCAAGATCAAGAAGCTCTAAAAGAAGAC
*
120795 AAACTACATGAGACAACTCAAATTGAAAGAGAAAAGAATCATCCTAGAGAGTTG
196 AAACTACATGAGACAACTCAAATTGAAAGAGAAAAGAATCATCCTACAGAGTTG
* * *
120849 ACTTATAGAGTGTTTAATAAGAAGACGTTAGTGGTTGAAGAGTCTATACATGTTGTTTTTGT-TG
1 ACTTATAAAGTGTTTAATAAGAAGACCTTAGTAGTTGAAGAGTCTATACATGTTGTTTTT-TATG
* *
120913 AATCTAACTTTACCTTGAGAAAGGTATCTCTTGACAATGATGATGTATAGATTTATACAAAGAAT
65 AATCTAACTCTACCTTGAGAAAGATATCTCTTGACAATGATGATGTATAGATTTATACAAAGAAT
* *
120978 CAAGATAAAGTATCACACAAGGAGCAAGAACAAACAACTCAAGATCAATAAGCTCTAAAAGAAGA
130 CAAGATAAAGCATCACACAAGGAGCAAGAACAAACAACTCAAGATCAAGAAGCTCTAAAAGAAGA
* * *
121043 CGAACTACATGAGCCAACTCAAATTGAAAGAGAAAAGAATCATCTTACAGAGTTG
195 CAAACTACATGAGACAACTCAAATTGAAAGAGAAAAGAATCATCCTACAGAGTTG
121098 ACTTAT
1 ACTTAT
121104 GTCAAAGAAA
Statistics
Matches: 240, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
249 239 1.00
250 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.27
Consensus pattern (249 bp):
ACTTATAAAGTGTTTAATAAGAAGACCTTAGTAGTTGAAGAGTCTATACATGTTGTTTTTTATGA
ATCTAACTCTACCTTGAGAAAGATATCTCTTGACAATGATGATGTATAGATTTATACAAAGAATC
AAGATAAAGCATCACACAAGGAGCAAGAACAAACAACTCAAGATCAAGAAGCTCTAAAAGAAGAC
AAACTACATGAGACAACTCAAATTGAAAGAGAAAAGAATCATCCTACAGAGTTG
Found at i:123519 original size:13 final size:13
Alignment explanation
Indices: 123501--123525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123491 ACAATGCAAC
123501 ATGTATCGATACA
1 ATGTATCGATACA
123514 ATGTATCGATAC
1 ATGTATCGATAC
123526 TGTGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:123520 original size:33 final size:33
Alignment explanation
Indices: 123483--123548 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
123473 TCTTTTTCAA
123483 GTATCAATACAATGCAACATGTATCGATACAAT
1 GTATCAATACAATGCAACATGTATCGATACAAT
* **
123516 GTATCGATACTGTGCAACATGTATCGATACAAT
1 GTATCAATACAATGCAACATGTATCGATACAAT
123549 TAAATGTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (33 bp):
GTATCAATACAATGCAACATGTATCGATACAAT
Found at i:125842 original size:20 final size:21
Alignment explanation
Indices: 125813--125853 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
125803 TGTTTTTGAA
125813 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
125832 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
125854 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:125993 original size:13 final size:13
Alignment explanation
Indices: 125975--126013 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
125965 ATAATCCCCC
* *
125975 TGTATCGATATAG
1 TGTATCGATACAA
125988 TGTATCGATACAA
1 TGTATCGATACAA
126001 TGTATCGATACAA
1 TGTATCGATACAA
126014 AGAATACTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:132211 original size:33 final size:32
Alignment explanation
Indices: 132169--132232 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
132159 TACAAGCCAA
*
132169 TGTATCGATACATT-TTATGGTGTATCGATACAT
1 TGTATCGATAC-TTACTAT-GTGTATCGATACAT
132202 TGTATCGATACTTACTATGTGTATCGATACA
1 TGTATCGATACTTACTATGTGTATCGATACA
132233 AGTTTAGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (32 bp):
TGTATCGATACTTACTATGTGTATCGATACAT
Found at i:132323 original size:13 final size:13
Alignment explanation
Indices: 132305--132329 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132295 ACAATGCAAC
132305 ATGTATCGATACA
1 ATGTATCGATACA
132318 ATGTATCGATAC
1 ATGTATCGATAC
132330 TGTGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:132324 original size:33 final size:33
Alignment explanation
Indices: 132287--132352 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
132277 TCTTTTTCAA
132287 GTATCGATACAATGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
**
132320 GTATCGATACTGTGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
132353 TAAATGTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (33 bp):
GTATCGATACAATGCAACATGTATCGATACAAT
Found at i:133174 original size:28 final size:28
Alignment explanation
Indices: 133129--133194 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
133119 ATGCAAAATA
*
133129 TATCGATACATCTAGGTTTTTTAGAATG
1 TATCGATACATCTAGGTTTTCTAGAATG
* *
133157 TATCGATACATTTGGGTTTTCTAGAATG
1 TATCGATACATCTAGGTTTTCTAGAATG
133185 TATCGATACA
1 TATCGATACA
133195 ATAAAAAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (28 bp):
TATCGATACATCTAGGTTTTCTAGAATG
Found at i:133209 original size:76 final size:76
Alignment explanation
Indices: 133080--133221 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 76
133070 TATGAACAAG
* **
133080 GTATCGATACATTGGGTTTTTTCAGAATGTATCAATACAATGCAAAATATATCGATACATCTAGG
1 GTATCGATACATTGGGTTTTCTCAGAATGTATCAATACAATAAAAAATATATCGATACATCTAGG
133145 TTTTTTAGAAT
66 TTTTTTAGAAT
* * *
133156 GTATCGATACATTTGGGTTTTCT-AGAATGTATCGATACAATAAAAAATGTATCGATACATTTAG
1 GTATCGATACA-TTGGGTTTTCTCAGAATGTATCAATACAATAAAAAATATATCGATACATCTAG
133220 GT
65 GT
133222 CTCCAGATTG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
76 49 0.83
77 10 0.17
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (76 bp):
GTATCGATACATTGGGTTTTCTCAGAATGTATCAATACAATAAAAAATATATCGATACATCTAGG
TTTTTTAGAAT
Found at i:135820 original size:21 final size:21
Alignment explanation
Indices: 135794--135836 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
135784 AGTTAAGGAT
*
135794 TGAATGTATTGATACATTTTG
1 TGAATGTATCGATACATTTTG
135815 TGAATGTATCGATACATTTTG
1 TGAATGTATCGATACATTTTG
135836 T
1 T
135837 TAGTAGTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.47
Consensus pattern (21 bp):
TGAATGTATCGATACATTTTG
Found at i:135937 original size:92 final size:93
Alignment explanation
Indices: 135798--135974 Score: 232
Period size: 92 Copynumber: 1.9 Consensus size: 93
135788 AAGGATTGAA
* * * * * * *
135798 TGTATTGATACATTTTGTGAATGTATCGATACATTTTGTTAGTAGTAGCTATA-AATTGCTAAAA
1 TGTATCGATACATTATGTGAATGTATCGATACATTTTGCTAGCAGTAGCTAAACAAATCCTAAAA
*
135862 CCCT-AATTTTTATCGATACAAATGAAAG
66 CCCTCAA-TTGTATCGATACAAATGAAAG
* * *
135890 TGTATCGATGCATTATGTGAATGTATCGGTATATTTTGCTAGCAGTAGCTAAACAAATCCTAAAA
1 TGTATCGATACATTATGTGAATGTATCGATACATTTTGCTAGCAGTAGCTAAACAAATCCTAAAA
135955 CCCTCAATTGTATCGATACA
66 CCCTCAATTGTATCGATACA
135975 TCCATAAATG
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
92 45 0.62
93 25 0.35
94 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (93 bp):
TGTATCGATACATTATGTGAATGTATCGATACATTTTGCTAGCAGTAGCTAAACAAATCCTAAAA
CCCTCAATTGTATCGATACAAATGAAAG
Found at i:135989 original size:93 final size:91
Alignment explanation
Indices: 135796--135993 Score: 229
Period size: 92 Copynumber: 2.1 Consensus size: 91
135786 TTAAGGATTG
* * * * * * *
135796 AATGTATTGATACATTTTGTGAATGTATCGATACATTTTGTTAGTAGTAGCTATAAATTGCTAAA
1 AATGTATCGATACATTATGTGAATGTATCGATACATTTTGCTAGCAGTAGCTAAAAAATCCTAAA
*
135861 ACCCTAATTTTTATCGATACAAATGA
66 ACCCTAATTTGTATCGATACAAATGA
* * *
135887 AAGTGTATCGATGCATTATGTGAATGTATCGGTATATTTTGCTAGCAGTAGCTAAACAAATCCTA
1 AA-TGTATCGATACATTATGTGAATGTATCGATACATTTTGCTAGCAGTAGCTAAA-AAATCCTA
*
135952 AAACCCTCAA-TTGTATCGATACATCCAT-A
64 AAACCCT-AATTTGTATCGATACA--AATGA
135981 AATGTATCGATAC
1 AATGTATCGATAC
135994 TTTGAGTTTA
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
91 2 0.02
92 45 0.51
93 35 0.39
94 5 0.06
95 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (91 bp):
AATGTATCGATACATTATGTGAATGTATCGATACATTTTGCTAGCAGTAGCTAAAAAATCCTAAA
ACCCTAATTTGTATCGATACAAATGA
Found at i:137065 original size:30 final size:29
Alignment explanation
Indices: 137026--137103 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
137016 TATAATCTAG
*
137026 GGATCATTTAGTTATTTTCATGCATAT-TA
1 GGATTATTTAGTTATTTTCATGCAT-TGTA
***
137055 GGAATTATTTAACAATTTTCATGCATTGTA
1 GG-ATTATTTAGTTATTTTCATGCATTGTA
*
137085 GGGTTATTTAGGTTATTTT
1 GGATTATTTA-GTTATTTT
137104 ATATAATCTA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
29 10 0.26
30 28 0.74
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.49
Consensus pattern (29 bp):
GGATTATTTAGTTATTTTCATGCATTGTA
Found at i:137094 original size:59 final size:59
Alignment explanation
Indices: 137023--137195 Score: 187
Period size: 59 Copynumber: 2.9 Consensus size: 59
137013 TTGTATAATC
* *
137023 TAGGGATCATTTA-GTTATTTTCATGCATATTAGGAATTATTTAACAATTTTCATGCATTG
1 TAGGG-TCATTTAGGTTATTTTCATG-ATATTAGGAACTATTTAGCAATTTTCATGCATTG
* * *
137083 TAGGGTTATTTAGGTTATTTT-AT-ATAATCTA-GAGACCATTTAGCAATTTTCATGCATTT
1 TAGGGTCATTTAGGTTATTTTCATGAT-AT-TAGGA-ACTATTTAGCAATTTTCATGCATTG
*
137142 TAGGGTCATTTAGGTTATTCTACATGAT-TT-GGAAACTATTTAGCAATTTTCATG
1 TAGGGTCATTTAGGTTATT-TTCATGATATTAGG-AACTATTTAGCAATTTTCATG
137196 GACGGATCAA
Statistics
Matches: 96, Mismatches: 8, Indels: 19
0.78 0.07 0.15
Matches are distributed among these distances:
57 2 0.02
58 4 0.04
59 70 0.73
60 16 0.17
61 2 0.02
62 2 0.02
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (59 bp):
TAGGGTCATTTAGGTTATTTTCATGATATTAGGAACTATTTAGCAATTTTCATGCATTG
Found at i:137103 original size:89 final size:89
Alignment explanation
Indices: 136948--137145 Score: 243
Period size: 89 Copynumber: 2.2 Consensus size: 89
136938 TTTTCACAAA
* * * *
136948 TTATTTTCATGCTTATTAGGGACTATTCAGCAATGTCCATGCATTTTAAGGTCATTTAGGTAATT
1 TTATTTTCATGCATATTAGGAACTATTCAACAATGTCCATGCATTGTAAGGTCATTTAGGTAATT
* * *
137013 TTGTATAATCTAGGGATCATTTAG
66 TTATATAATCTAGAGACCATTTAG
* * * * * * *
137037 TTATTTTCATGCATATTAGGAATTATTTAACAATTTTCATGCATTGTAGGGTTATTTAGGTTATT
1 TTATTTTCATGCATATTAGGAACTATTCAACAATGTCCATGCATTGTAAGGTCATTTAGGTAATT
137102 TTATATAATCTAGAGACCATTTAG
66 TTATATAATCTAGAGACCATTTAG
** *
137126 CAATTTTCATGCATTTTAGG
1 TTATTTTCATGCATATTAGG
137146 GTCATTTAGG
Statistics
Matches: 92, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
89 92 1.00
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.44
Consensus pattern (89 bp):
TTATTTTCATGCATATTAGGAACTATTCAACAATGTCCATGCATTGTAAGGTCATTTAGGTAATT
TTATATAATCTAGAGACCATTTAG
Found at i:137370 original size:49 final size:48
Alignment explanation
Indices: 137289--137451 Score: 137
Period size: 49 Copynumber: 3.3 Consensus size: 48
137279 AAATCAAGTC
* * * * *
137289 TTTTAAGGTTATTTTTGTACTTTCTATGAAAATCGATTAAAATTGAGT
1 TTTTTAGGTTAGTTTTGTACTTTTTATCAAAATCGATCAAAATTGAGT
* * * * *
137337 TTTTTAGTATTAGTTTTGTACTTTTTGTCAAAATTGATCAAAGTTGTGT
1 TTTTTAG-GTTAGTTTTGTACTTTTTATCAAAATCGATCAAAATTGAGT
* * * * * * *
137386 ATTTTAAGGTTAGTTTTGTGCTTCTCATCAAAATCGACCAAAATTAAAT
1 -TTTTTAGGTTAGTTTTGTACTTTTTATCAAAATCGATCAAAATTGAGT
*
137435 CTTTTAGGGTTAGTTTT
1 TTTTTA-GGTTAGTTTT
137452 ATATTTATTG
Statistics
Matches: 88, Mismatches: 24, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
48 10 0.11
49 72 0.82
50 6 0.07
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.48
Consensus pattern (48 bp):
TTTTTAGGTTAGTTTTGTACTTTTTATCAAAATCGATCAAAATTGAGT
Found at i:137420 original size:98 final size:98
Alignment explanation
Indices: 137289--137476 Score: 227
Period size: 98 Copynumber: 1.9 Consensus size: 98
137279 AAATCAAGTC
* * ** * * * *
137289 TTTTAAGGTTATTTTTGTACTTTCTATGAAAATCGATTAAAATTGAGTTTTTTAGTATTAGTTTT
1 TTTTAAGGTTAGTTTTGTACTTTCTATCAAAATCGACCAAAATTAAATCTTTTAGGATTAGTTTT
* * *
137354 GTACTTT-TTGTCAAAATTGATCAAAGTTGTGTA
66 ATA-TTTATTGTCAAAACTGACCAAAGTTGTGTA
* *
137387 TTTTAAGGTTAGTTTTGTGC-TTCTCATCAAAATCGACCAAAATTAAATCTTTTAGGGTTAGTTT
1 TTTTAAGGTTAGTTTTGTACTTTCT-ATCAAAATCGACCAAAATTAAATCTTTTAGGATTAGTTT
137451 TATATTTATTGTCAAAACTGACCAAA
65 TATATTTATTGTCAAAACTGACCAAA
137477 ACTGAGCCTC
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
97 7 0.09
98 68 0.91
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (98 bp):
TTTTAAGGTTAGTTTTGTACTTTCTATCAAAATCGACCAAAATTAAATCTTTTAGGATTAGTTTT
ATATTTATTGTCAAAACTGACCAAAGTTGTGTA
Found at i:140539 original size:23 final size:21
Alignment explanation
Indices: 140508--140555 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
140498 ATAAATTATT
140508 TTATTTTATTAATTA-TTTTAAA
1 TTATTTTATT--TTATTTTTAAA
140530 GTTATTTTATTTTATTTTTAAA
1 -TTATTTTATTTTATTTTTAAA
140552 TTAT
1 TTAT
140556 GTATTTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.29
22 7 0.29
23 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTTTATTTTATTTTTAAA
Done.