Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1310
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: 111219
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Found at i:706 original size:13 final size:13
Alignment explanation
Indices: 688--713 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
678 CAATTTTTTG
688 TGTATCGATACAT
1 TGTATCGATACAT
701 TGTATCGATACAT
1 TGTATCGATACAT
714 ATTTTGTGTA
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:724 original size:32 final size:33
Alignment explanation
Indices: 668--731 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
658 TACAAGCCAA
*
668 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
701 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
732 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:725 original size:19 final size:19
Alignment explanation
Indices: 668--731 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
658 TACAAGCCAA
*
668 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
688 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
701 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
720 TGTATCGATACA
1 TGTATCGATACA
732 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:815 original size:20 final size:20
Alignment explanation
Indices: 761--817 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
751 AATTCCAATG
*
761 ACATGTATCGATACATTGCA
1 ACATGTATCGATACTTTGCA
781 ACATGTATCGATACTTTG-A
1 ACATGTATCGATACTTTGCA
*
800 ACTGTGTATCGATACTTT
1 AC-ATGTATCGATACTTT
818 TAAGGGTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 31 0.91
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (20 bp):
ACATGTATCGATACTTTGCA
Found at i:1254 original size:15 final size:17
Alignment explanation
Indices: 1223--1254 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1213 AGCAAGATGA
1223 AAGCGTCCAAAATGAAG
1 AAGCGTCCAAAATGAAG
1240 AAGC-TCCAAAA-GAAG
1 AAGCGTCCAAAATGAAG
1255 TTGATGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 7 0.47
17 4 0.27
ACGTcount: A:0.50, C:0.19, G:0.22, T:0.09
Consensus pattern (17 bp):
AAGCGTCCAAAATGAAG
Found at i:5863 original size:13 final size:13
Alignment explanation
Indices: 5845--5871 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5835 ACATTATGCT
5845 TTGTATCGATACA
1 TTGTATCGATACA
5858 TTGTATCGATACA
1 TTGTATCGATACA
5871 T
1 T
5872 GGACAATTGT
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:5955 original size:13 final size:13
Alignment explanation
Indices: 5937--5998 Score: 73
Period size: 13 Copynumber: 5.2 Consensus size: 13
5927 CAATACATGG
5937 TACATTGTATCGA
1 TACATTGTATCGA
5950 TACATTGTATCGA
1 TACATTGTATCGA
*
5963 TACA-TG-GT-G-
1 TACATTGTATCGA
5972 -A-ATTGTATCGA
1 TACATTGTATCGA
5983 TACATTGTATCGA
1 TACATTGTATCGA
5996 TAC
1 TAC
5999 GTGGTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 1 0.02
8 3 0.07
9 1 0.02
10 2 0.05
11 1 0.02
12 3 0.07
13 30 0.73
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.37
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:5966 original size:33 final size:33
Alignment explanation
Indices: 5921--6021 Score: 168
Period size: 33 Copynumber: 3.1 Consensus size: 33
5911 CTACCACTGT
*
5921 TTGTATCAATACATGGT-ACATTGTATCGATACA
1 TTGTATCGATACATGGTGA-ATTGTATCGATACA
5954 TTGTATCGATACATGGTGAATTGTATCGATACA
1 TTGTATCGATACATGGTGAATTGTATCGATACA
*
5987 TTGTATCGATACGTGGTGAATTGTATCGATACA
1 TTGTATCGATACATGGTGAATTGTATCGATACA
6020 TT
1 TT
6022 ACTTGTAACG
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
33 64 0.98
34 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGGTGAATTGTATCGATACA
Found at i:5978 original size:20 final size:20
Alignment explanation
Indices: 5953--6020 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
5943 GTATCGATAC
5953 ATTGTATCGATACATGGTGA
1 ATTGTATCGATACATGGTGA
5973 ATTGTATCGATAC-------
1 ATTGTATCGATACATGGTGA
*
5986 ATTGTATCGATACGTGGTGA
1 ATTGTATCGATACATGGTGA
6006 ATTGTATCGATACAT
1 ATTGTATCGATACAT
6021 TACTTGTAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 13 0.32
20 27 0.68
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (20 bp):
ATTGTATCGATACATGGTGA
Found at i:7486 original size:30 final size:29
Alignment explanation
Indices: 7435--8002 Score: 434
Period size: 28 Copynumber: 19.1 Consensus size: 29
7425 CTAGAATGTT
*
7435 CATCTTTTCAAAGCC-CACAAGTCAGTGG
1 CATCATTTCAAAGCCACACAAGTCAGTGG
**
7463 CATCATTTCAAAGCCCACACAAGTTGGTGG
1 CATCATTTCAAAG-CCACACAAGTCAGTGG
* *
7493 CAACTCATTTGAAAGCCCACACAAGTTAGTGG
1 C-A-TCATTTCAAAG-CCACACAAGTCAGTGG
*
7525 CATCATTTCAAAGCCCACACAAGTCGGTGG
1 CATCATTTCAAAG-CCACACAAGTCAGTGG
**
7555 CATCATTTCAAAGCACACACAAGTTGGTGG
1 CATCATTTCAAAGC-CACACAAGTCAGTGG
* * **
7585 CAACCCATTTCAAAGCCCATACAAGTTGGTGG
1 C-A-TCATTTCAAAG-CCACACAAGTCAGTGG
* **
7617 CAACCTATTTCAAAGCCTACACAAGTTGGTGG
1 C-ATC-ATTTCAAAGCC-ACACAAGTCAGTGG
*
7649 CAACCCATTTCAAAGCCCACACAAGTCAGTGG
1 C-A-TCATTTCAAAG-CCACACAAGTCAGTGG
*
7681 CAACCCATTTCAAAGCC-CACAAGTCAGTGG
1 C-A-TCATTTCAAAGCCACACAAGTCAGTGG
*
7711 CATCTTTTCAAAGCC-CACAAGTCAGTGG
1 CATCATTTCAAAGCCACACAAGTCAGTGG
* * *
7739 CACCCTTTCAAAGCC-CACAAGTCAATGG
1 CATCATTTCAAAGCCACACAAGTCAGTGG
* * *
7767 CATCCTTTCAAAGTC-CACAAGTCGGTGG
1 CATCATTTCAAAGCCACACAAGTCAGTGG
** *
7795 CATGTTTTCAAAGCC-CACAAGTCGGTGG
1 CATCATTTCAAAGCCACACAAGTCAGTGG
* * * *
7823 CACCTTTTCAAAGCC-TACAATTCAGTGG
1 CATCATTTCAAAGCCACACAAGTCAGTGG
* * *
7851 CACCCTTTCAAAG-CTCACAAGTCAGTGG
1 CATCATTTCAAAGCCACACAAGTCAGTGG
* *
7879 CATTCTTTTCAAAGCC-CACAAGTTAGTGG
1 CA-TCATTTCAAAGCCACACAAGTCAGTGG
* * * *
7908 CACTCTTTTCAACGCCCACACGAGTCGGTGG
1 CA-TCATTTCAAAG-CCACACAAGTCAGTGG
* *
7939 CAACTCTTTTCAAAGCCCACACAAGTTAGTGG
1 C-A-TCATTTCAAAG-CCACACAAGTCAGTGG
* * * * *
7971 CACCCTTTAAAAGGCCACGCAAGTCGGTGG
1 CATCATTTCAAA-GCCACACAAGTCAGTGG
8001 CA
1 CA
8003 ACCCTTTTCA
Statistics
Matches: 469, Mismatches: 52, Indels: 36
0.84 0.09 0.06
Matches are distributed among these distances:
27 1 0.00
28 158 0.34
29 37 0.08
30 104 0.22
31 22 0.05
32 142 0.30
33 5 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (29 bp):
CATCATTTCAAAGCCACACAAGTCAGTGG
Found at i:7508 original size:32 final size:32
Alignment explanation
Indices: 7440--8014 Score: 379
Period size: 32 Copynumber: 19.2 Consensus size: 32
7430 ATGTTCATCT
**
7440 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCA
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
7468 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
* *
7500 TTTGAAAGCCCACACAAGTTAGTGGC-A-TCA
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
*
7530 TTTCAAAGCCCACACAAGTCGGTGGC-A-TCA
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
* *
7560 TTTCAAAGCACACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
*
7592 TTTCAAAGCCCATACAAGTTGGTGGCAAC-CTA
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTC-A
* *
7624 TTTCAAAGCCTACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
** *
7656 TTTCAAAGCCCACACAAGTCAGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
** *
7688 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCT
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
** *
7716 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
*** *
7744 TTTCAAAG-CC-CACAAGTCAATGGC-A-TCC
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
* * **
7772 TTTCAAAG-TC-CACAAGTCGGTGGC-A-TGT
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
* *
7800 TTTCAAAG-CC-CACAAGTCGGTGGC-AC-CT
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
* * *
7828 TTTCAAAG-CC-TACAA-TTCAGTGGC-AC-CC
1 TTTCAAAGCCCACACAAGTT-GGTGGCAACTCA
* ** * *
7856 TTTCAAAG--CTCACAAGTCAGTGGC-ATTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
* *
7885 TTTCAAAG-CC-CACAAGTTAGTGGC-ACTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
* * * *
7914 TTTCAACGCCCACACGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
* *
7946 TTTCAAAGCCCACACAAGTTAGTGGC-AC-CC
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
* * * * * *
7976 TTTAAAAGGCCACGCAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
8008 TTTCAAA
1 TTTCAAA
8015 TCACCACTGT
Statistics
Matches: 472, Mismatches: 54, Indels: 38
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.00
28 150 0.32
29 37 0.08
30 105 0.22
31 21 0.04
32 156 0.33
33 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
Found at i:8911 original size:20 final size:20
Alignment explanation
Indices: 8855--8911 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
8845 AAGTACCCAG
* *
8855 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
*
8875 ATGTATGGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
8895 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
8912 ATCTTTTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:12715 original size:17 final size:17
Alignment explanation
Indices: 12693--12752 Score: 67
Period size: 15 Copynumber: 3.8 Consensus size: 17
12683 CATCCTTCGT
12693 ACAAAAAAAACAAAATA
1 ACAAAAAAAACAAAATA
*
12710 AC-AAAAAAA-AACA-A
1 ACAAAAAAAACAAAATA
12724 ACAAAAAAAAC-AAATA
1 ACAAAAAAAACAAAATA
*
12740 A-AAAATAAACAAA
1 ACAAAAAAAACAAA
12753 TAAAAAAGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
14 3 0.08
15 20 0.56
16 11 0.31
17 2 0.06
ACGTcount: A:0.83, C:0.12, G:0.00, T:0.05
Consensus pattern (17 bp):
ACAAAAAAAACAAAATA
Found at i:12728 original size:31 final size:28
Alignment explanation
Indices: 12693--12759 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 28
12683 CATCCTTCGT
12693 ACAAAAAAAACAAAATAACAAAAAAAAACAA
1 ACAAAAAAAAC-AAAT-A-AAAAAAAAACAA
*
12724 ACAAAAAAAACAAATAAAAAATAAACAA
1 ACAAAAAAAACAAATAAAAAAAAAACAA
*
12752 ATAAAAAA
1 ACAAAAAA
12760 GGGGTCTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 18 0.53
29 1 0.03
30 4 0.12
31 11 0.32
ACGTcount: A:0.84, C:0.10, G:0.00, T:0.06
Consensus pattern (28 bp):
ACAAAAAAAACAAATAAAAAAAAAACAA
Found at i:12753 original size:15 final size:14
Alignment explanation
Indices: 12712--12759 Score: 71
Period size: 15 Copynumber: 3.4 Consensus size: 14
12702 ACAAAATAAC
12712 AAAAAAAAACAAA-
1 AAAAAAAAACAAAT
*
12725 CAAAAAAAACAAAT
1 AAAAAAAAACAAAT
12739 AAAAAATAAACAAAT
1 AAAAAA-AAACAAAT
12754 AAAAAA
1 AAAAAA
12760 GGGGTCTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
13 12 0.39
14 5 0.16
15 14 0.45
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.06
Consensus pattern (14 bp):
AAAAAAAAACAAAT
Found at i:14044 original size:57 final size:56
Alignment explanation
Indices: 13975--14324 Score: 398
Period size: 57 Copynumber: 6.0 Consensus size: 56
13965 CGTTCATCTC
*
13975 TTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCCCAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAATGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCT
* *
14032 TTCAAAGCCCACAAGTTATTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTT
1 TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
14089 TTCAAAGCCCATAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
14145 TTTAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC-T
* * * * * *
14202 TTCAAAGCCCACAAG-CTAGTGGTAACTCTTTTTAAAGCCCACAAGTCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AATGG-CA-TCCTTTCAAAGCCCACAAGTCAGTGG-CA-TCCT
* * * *
14262 TTCAAAGCCCACACAAGTCGATGGTAACCCTTTTCAAAGCCTACACAAGTTAGTGGCA-CCT
1 TTCAAAG-CC-CACAAGTCAATGG-CATCC-TTTCAAAGCC--CACAAGTCAGTGGCATCCT
14323 TT
1 TT
14325 TTTTAAAAAG
Statistics
Matches: 253, Mismatches: 27, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
56 79 0.31
57 98 0.39
58 1 0.00
59 23 0.09
60 9 0.04
61 8 0.03
62 21 0.08
63 2 0.01
64 12 0.05
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (56 bp):
TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:14046 original size:28 final size:28
Alignment explanation
Indices: 13975--14274 Score: 377
Period size: 28 Copynumber: 10.5 Consensus size: 28
13965 CGTTCATCTC
*
13975 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
14003 TCTCAAAGCCCCCAAGTCAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
* *
14032 TTCAAAGCCCACAAGTTATTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
14060 TTCAAAGCCCACAAGTCAGTGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
14089 TTCAAAGCCCATAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
14117 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
14145 TTTAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
14173 TTCAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
14202 TTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CA-TCCT
* * *
14232 TTTAAAGCCCACAAGTCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CA-TCCT
14262 TTCAAAGCCCACA
1 TTCAAAGCCCACA
14275 CAAGTCGATG
Statistics
Matches: 240, Mismatches: 25, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
28 124 0.52
29 73 0.30
30 41 0.17
31 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:14118 original size:85 final size:85
Alignment explanation
Indices: 13975--14324 Score: 400
Period size: 85 Copynumber: 4.0 Consensus size: 85
13965 CGTTCATCTC
* *
13975 TTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCCCCAAGTCAGTGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAATGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
*
14040 CCACAAGTTATTGGCATCCT
66 CCACAAGTTAGTGGCATCCT
* * *
14060 TTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCATAAGTCAATGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAATGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* *
14125 CCACAAGTCAGTGGCACCCT
66 CCACAAGTTAGTGGCATCCT
* * *
14145 TTTAAAGCCCACAAGTCAATGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAATGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAG
* * *
14209 CCCACAAGCTAGTGGTAACTCTT
65 CCCACAAGTTAGTGG-CA-TCCT
* * * * * *
14232 TTTAAAGCCCACAAGTCAGTGGTAACTCTTTTCAAAGCCCACACAAGTC-GATGGTAACCCTTTT
1 TTCAAAGCCCACAAGTCAATGGCATC-CTTTTCAAAG-CC-CACAAGTCAG-TGG-CATCC-TTT
14296 CAAAGCCTACACAAGTTAGTGGCA-CCT
60 CAAAGCC--CACAAGTTAGTGGCATCCT
14323 TT
1 TT
14325 TTTTAAAAAG
Statistics
Matches: 227, Mismatches: 27, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
84 24 0.11
85 123 0.54
86 1 0.00
87 25 0.11
88 1 0.00
89 8 0.04
90 3 0.01
91 14 0.06
92 15 0.07
93 1 0.00
94 12 0.05
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (85 bp):
TTCAAAGCCCACAAGTCAATGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
CCACAAGTTAGTGGCATCCT
Found at i:14287 original size:32 final size:30
Alignment explanation
Indices: 13975--14317 Score: 275
Period size: 28 Copynumber: 11.7 Consensus size: 30
13965 CGTTCATCTC
* * *
13975 TTCAAAGCCCACAAGTCAATGGCATC-CTT
1 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
* * * *
14004 CTCAAAGCCCCCAAGTCAGTGG-CA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
* * * *
14032 TTCAAAGCCCACAAGTTATTGG-CA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
* *
14060 TTCAAAGCCCACAAGTCAGTGGCATC-CTT
1 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
* * * *
14089 TTCAAAGCCCATAAGTCAATGG-CA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
* *
14117 TTCAAAGCCCACAAGTCAGTGG-CACCCTT
1 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
* * *
14146 TT-AAAGCCCACAAGTCAATGG-CA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
* * *
14173 TTCAAAGCCCACAAGTTAGTGG-CACCCTT
1 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
14202 TTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGGTAACTCTT
*
14232 TTTAAAGCCCACAAGTCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
*
14262 TTCAAAGCCCACACAAGTC-GATGGTAACCCTT
1 TTCAAAG-CC-CACAAGTCAG-TGGTAACTCTT
*
14294 TTCAAAGCCTACACAAGTTAGTGG
1 TTCAAAGCC--CACAAGTCAGTGG
14318 CACCTTTTTT
Statistics
Matches: 261, Mismatches: 38, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
27 4 0.02
28 109 0.42
29 67 0.26
30 38 0.15
31 6 0.02
32 36 0.14
33 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (30 bp):
TTCAAAGCCCACAAGTCAGTGGTAACTCTT
Found at i:14357 original size:66 final size:61
Alignment explanation
Indices: 14000--14365 Score: 239
Period size: 56 Copynumber: 6.2 Consensus size: 61
13990 TCAATGGCAT
* * * * * ** * *
14000 CCTTCTCAAAGCCCCCAAGTCAGTGGCA--TCCTTTCAAAGCCC-ACAAGTTATTGG-CAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCACCTCTTTTCAAAGCCCAACAAGCTGGTGGTAAC
* * * ** * *
14057 CC-TTTCAAAGCCCACAAGTCAGTGGCATC-CTTTTCAAAGCCC-ATAAG-TCAATGG-CAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCACCTCTTTTCAAAGCCCAACAAGCT-GGTGGTAAC
* ** * *
14114 CC-TTTCAAAGCCCACAAGTCAGTGGCACC-CTTTT-AAAGCCC-ACAAG-TCAATGG-CAT
1 CCTTTTCAAAGCCCACAAGTTAGTGGCACCTCTTTTCAAAGCCCAACAAGCT-GGTGGTAAC
*
14170 CC-TTTCAAAGCCCACAAGTTAGTGGCACC-CTTTTCAAAGCCC-ACAAGCTAGTGGTAAC
1 CCTTTTCAAAGCCCACAAGTTAGTGGCACCTCTTTTCAAAGCCCAACAAGCTGGTGGTAAC
* * * * * *
14228 TCTTTTTAAAGCCCACAAGTCAGTGGTAACTCTTTTCAAAGCCCACACAAG-TCGATGGTAAC
1 CCTTTTCAAAGCCCACAAGTTAGTGGCACCTCTTTTCAAAGCCCA-ACAAGCT-GGTGGTAAC
* * *
14290 CCTTTTCAAAGCCTACACAAGTTAGTGGCACCTTTTTTTAAAAAGCCCATACAAGCTGGTGGCAA
1 CCTTTTCAAAGCC--CACAAGTTAGTGGCACC-TCTTTT-CAAAGCCCA-ACAAGCTGGTGGTAA
14355 C
61 C
14356 CCTTTTCAAA
1 CCTTTTCAAA
14366 TCACCACTTT
Statistics
Matches: 265, Mismatches: 28, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
56 78 0.29
57 74 0.28
58 3 0.01
59 23 0.09
60 13 0.05
61 1 0.00
62 23 0.09
64 14 0.05
65 5 0.02
66 30 0.11
67 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (61 bp):
CCTTTTCAAAGCCCACAAGTTAGTGGCACCTCTTTTCAAAGCCCAACAAGCTGGTGGTAAC
Found at i:32338 original size:20 final size:20
Alignment explanation
Indices: 32313--32427 Score: 135
Period size: 20 Copynumber: 5.8 Consensus size: 20
32303 AAAATGCTTG
32313 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
32333 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
* *
32353 AATGTATCGATACAATGCT-C
1 AATGTATCGATACATTG-TAA
*
32373 AATGTATCGATACATT-TAGC
1 AATGTATCGATACATTGTA-A
* * *
32393 AATGTATCAATACAATGCAA
1 AATGTATCGATACATTGTAA
*
32413 AATGTATCAATACAT
1 AATGTATCGATACAT
32428 CTAGGTAAAC
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.01
20 80 0.96
21 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGTAA
Found at i:32399 original size:60 final size:60
Alignment explanation
Indices: 32313--32426 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
32303 AAAATGCTTG
* * * *
32313 AATGTATCGATACATTGTAAAATGTATCGATACATTGTAAAATGTATCGATACAATGCTC
1 AATGTATCGATACATTGTAAAATGTATCAATACAATGCAAAATGTATCAATACAATGCTC
*
32373 AATGTATCGATACATT-TAGCAATGTATCAATACAATGCAAAATGTATCAATACA
1 AATGTATCGATACATTGTA-AAATGTATCAATACAATGCAAAATGTATCAATACA
32427 TCTAGGTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 2 0.04
60 46 0.96
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (60 bp):
AATGTATCGATACATTGTAAAATGTATCAATACAATGCAAAATGTATCAATACAATGCTC
Found at i:32460 original size:13 final size:13
Alignment explanation
Indices: 32442--32471 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32432 GTAAACCCAA
*
32442 AATGTATCGATAT
1 AATGTATCGATAC
32455 AATGTATCGATAC
1 AATGTATCGATAC
32468 AATG
1 AATG
32472 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:32470 original size:62 final size:62
Alignment explanation
Indices: 32393--32550 Score: 246
Period size: 62 Copynumber: 2.5 Consensus size: 62
32383 TACATTTAGC
* * *
32393 AATGTATCAATACAATGCAA-AATGTATCAATACATCTAGGTAAACCCAAAATGTATCGATAT
1 AATGTATCGATACAATG-AACAATGTATCGATACATCTAGGAAAACCCAAAATGTATCGATAT
** *
32455 AATGTATCGATACAATGAACAATGTATCGATAGGTCTGGGAAAACCCAAAATGTATCGATAT
1 AATGTATCGATACAATGAACAATGTATCGATACATCTAGGAAAACCCAAAATGTATCGATAT
32517 AATGTATCGATACAATGAACAATGTATCGATACA
1 AATGTATCGATACAATGAACAATGTATCGATACA
32551 AATTGTGAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
61 2 0.02
62 85 0.98
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (62 bp):
AATGTATCGATACAATGAACAATGTATCGATACATCTAGGAAAACCCAAAATGTATCGATAT
Found at i:32484 original size:33 final size:33
Alignment explanation
Indices: 32442--32548 Score: 109
Period size: 33 Copynumber: 3.4 Consensus size: 33
32432 GTAAACCCAA
32442 AATGTATCGATATAATGTATCGATACAATGAAC
1 AATGTATCGATATAATGTATCGATACAATGAAC
* * * **
32475 AATGTATCG--AT-AGGTCTGGGA-A-AACCCAA-
1 AATGTATCGATATAATGTAT-CGATACAA-TGAAC
32504 AATGTATCGATATAATGTATCGATACAATGAAC
1 AATGTATCGATATAATGTATCGATACAATGAAC
32537 AATGTATCGATA
1 AATGTATCGATA
32549 CAAATTGTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
29 11 0.20
30 7 0.12
31 8 0.14
32 7 0.12
33 23 0.41
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (33 bp):
AATGTATCGATATAATGTATCGATACAATGAAC
Found at i:32551 original size:13 final size:13
Alignment explanation
Indices: 32504--32533 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32494 GAAAACCCAA
*
32504 AATGTATCGATAT
1 AATGTATCGATAC
32517 AATGTATCGATAC
1 AATGTATCGATAC
32530 AATG
1 AATG
32534 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:33279 original size:42 final size:42
Alignment explanation
Indices: 33244--33352 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
33234 AAAAAGAGTA
* *
33244 CGTCTTGCT-TTTCGAGGACAAAGGAAAAAAGGAAAACAAAATG
1 CGTCTTGCTCTTT-GAGGACAAAAG-AAAAAGGAAAACAAAGTG
* * *
33287 CGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTG
1 CGTCTTGCTCTTTGAGGACAAAAGAAAAAGGAAAACAAAGTG
*
33329 TGTCTTGCTCTTTGAGGACAAAAG
1 CGTCTTGCTCTTTGAGGACAAAAG
33353 GGAAAAGAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
42 37 0.64
43 18 0.31
44 3 0.05
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.22
Consensus pattern (42 bp):
CGTCTTGCTCTTTGAGGACAAAAGAAAAAGGAAAACAAAGTG
Found at i:33511 original size:56 final size:56
Alignment explanation
Indices: 33405--33632 Score: 289
Period size: 56 Copynumber: 4.1 Consensus size: 56
33395 AGGATAAAAG
* * * * *
33405 GAAATGGCGTTCTGCTATTTGAGGACTA-AAAAGTACCACCAACTCATGTGGGCCTT
1 GAAA-GGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTT
33461 GAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTT
1 GAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTT
* * * * *
33517 GAAAGGCGTCCTACTCTTTGAAGACTAAAAAATTGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTT
* * * * *
33573 AAAAGGCGTCCCGCTCTTTGAGGACT-GAAAGGTGCCGCCAATCTTGTGTGGGCTTT
1 GAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAA-CTTATGTGGGCTTT
33629 GAAA
1 GAAA
33633 AGAAAAGGCG
Statistics
Matches: 151, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
55 32 0.21
56 119 0.79
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (56 bp):
GAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTATGTGGGCTTT
Found at i:33847 original size:62 final size:62
Alignment explanation
Indices: 33679--34074 Score: 442
Period size: 62 Copynumber: 6.4 Consensus size: 62
33669 AAAGGAGAGA
* * * * ** * * *
33679 GCGTCCTGCTTTTTGAAGACTCGAAAGTGCCATAAACTTGTATGGGC-TTCAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
* * * *
33740 ACATCCTGCTCTTTGAGAACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
* * * * * * * * *
33801 GCGTCCTACTTTTTGAGGATTGGAGGGTGTCACCAACTCGTGTGGGCTTT--GAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
* *
33861 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAGAAA-
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA-AAAG
* * *
33923 ACGTCCTGCTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
* * * * *
33985 GCATCTTGCTCTTTGAGGACAAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAATG
1 GCGTCCTGCTCTTTGAGGAC-TGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
*
34048 ACGTCCTGCTCTTTGAGGACTGGAAGG
1 GCGTCCTGCTCTTTGAGGACTGGAAGG
34075 GCTAAAAGAG
Statistics
Matches: 278, Mismatches: 50, Indels: 13
0.82 0.15 0.04
Matches are distributed among these distances:
60 71 0.26
61 46 0.17
62 104 0.37
63 57 0.21
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (62 bp):
GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
Found at i:33896 original size:122 final size:123
Alignment explanation
Indices: 33680--34074 Score: 481
Period size: 122 Copynumber: 3.2 Consensus size: 123
33670 AAGGAGAGAG
* * * * ** * * * * *
33680 CGTCCTGCTTTTTGAAGACTCGAAAGTGCCATAAACTTGTATGGGCTTCAAAAGGAAAAGACATC
1 CGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATC
* *
33745 CTGCTCTTTGAGAACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGG
66 CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGA
* * * * * * * * *
33802 CGTCCTACTTTTTGAGGATTGGAGGGTGTCACCAACTCGTGTGGGCTTT-GAAGGAGAAGGCGTC
1 CGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATC
*
33866 CTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAGAAA-A
66 CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA-AAAGA
* * *
33924 CGTCCTGCTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCAT
1 CGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCAT
* * *
33989 CTTGCTCTTTGAGGACAAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAATGA
65 CCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGA
34049 CGTCCTGCTCTTTGAGGACTGGAAGG
1 CGTCCTGCTCTTTGAGGACTGGAAGG
34075 GCTAAAAGAG
Statistics
Matches: 230, Mismatches: 37, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
121 26 0.11
122 113 0.49
123 3 0.01
124 28 0.12
125 60 0.26
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (123 bp):
CGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATC
CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGA
Found at i:38867 original size:1 final size:1
Alignment explanation
Indices: 38861--38939 Score: 68
Period size: 1 Copynumber: 79.0 Consensus size: 1
38851 GGCGTCCTCC
* * ** * * * *
38861 AAAAAAAAAAAAAAAAAAACAAAAAAACAAAAGGAAAAAAAAAAACAAAAACAATAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
38926 ACAAAAACAAAAAA
1 AAAAAAAAAAAAAA
38940 GGGGGTCCGG
Statistics
Matches: 60, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:38887 original size:21 final size:21
Alignment explanation
Indices: 38861--38939 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
38851 GGCGTCCTCC
38861 AAAAAAAAAAAAAAAAAAACA
1 AAAAAAAAAAAAAAAAAAACA
*
38882 AAAAAACAAAAGGAAAAAAAA-A
1 AAAAAA-AAAA-AAAAAAAAACA
* * *
38904 AACAAAAACAATAAAAAAACA
1 AAAAAAAAAAAAAAAAAAACA
* *
38925 AACAAAAACAAAAAA
1 AAAAAAAAAAAAAAA
38940 GGGGGTCCGG
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 7 0.14
21 24 0.49
22 10 0.20
23 8 0.16
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (21 bp):
AAAAAAAAAAAAAAAAAAACA
Found at i:38911 original size:35 final size:34
Alignment explanation
Indices: 38861--38926 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
38851 GGCGTCCTCC
38861 AAAAAAAAAAAAAAAAAAACAAAAAAACAAAAGG
1 AAAAAAAAAAAAAAAAAAACAAAAAAACAAAAGG
* *
38895 AAAAAAAAAAACAAAAACAATAAAAAAACAAA
1 AAAAAAAAAAA-AAAAAAAACAAAAAAACAAA
38927 CAAAAACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 11 0.38
35 18 0.62
ACGTcount: A:0.88, C:0.08, G:0.03, T:0.02
Consensus pattern (34 bp):
AAAAAAAAAAAAAAAAAAACAAAAAAACAAAAGG
Found at i:38938 original size:35 final size:32
Alignment explanation
Indices: 38860--38939 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 32
38850 CGGCGTCCTC
38860 CAAAAAAAAAAAAAAAAAAACAAAAAAACAAA
1 CAAAAAAAAAAAAAAAAAAACAAAAAAACAAA
*
38892 -AGGAAAAAAAAAAACAAAAACAATAAAAAAACAAA
1 CA--AAAAAAAAAAA-AAAAA-AACAAAAAAACAAA
*
38927 CAAAAACAAAAAA
1 CAAAAAAAAAAAA
38940 GGGGGTCCGG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
31 1 0.02
33 11 0.27
34 15 0.37
35 13 0.32
36 1 0.02
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.01
Consensus pattern (32 bp):
CAAAAAAAAAAAAAAAAAAACAAAAAAACAAA
Found at i:40605 original size:89 final size:87
Alignment explanation
Indices: 40374--40725 Score: 478
Period size: 89 Copynumber: 4.1 Consensus size: 87
40364 CATTCATCAC
* * * *
40374 CCTTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTCA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAATTTTTTCAAAGCCCACAAGTCAGTGGCATATTTTTCA
40439 AAAGCCCACAAGTCAGTGGCAA
66 AAAGCCCACAAGTCAGTGGCAA
* * ***
40461 CC-TTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTC
1 CCTTTAAAAGCCCACAAGTCAGTGGCAATTTTTTC-AAAGCCCACAAGTCAGTGGCATATTTTTC
40525 AAAAGCCCACAAGTCAGTGGCAA
65 AAAAGCCCACAAGTCAGTGGCAA
40548 CCTTTAAAAGCCCACAAGTCAGTGGCATATTTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTT
1 CCTTTAAAAGCCCACAAGTCAGTGGCA-ATTTTTTC-AAAGCCCACAAGTCAGTGGCATATTTTT
40613 CAAAAGCCCACAAGTCAGTGGCAA
64 CAAAAGCCCACAAGTCAGTGGCAA
* ** * *** *
40637 CCTTTACAAGCCCACAAGTCAGTGGCAA--CCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCT
1 CCTTTAAAAGCCCACAAGTCAGTGGCAATTTTTTCAAAGCCCACAAGTCAGTGGCATATTTTTCA
* *
40700 GAAGCCCACAAGTCGGTGGC-A
66 AAAGCCCACAAGTCAGTGGCAA
40721 CCTTT
1 CCTTT
40726 TCCATCTTTA
Statistics
Matches: 239, Mismatches: 23, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
84 6 0.03
85 43 0.18
86 28 0.12
87 55 0.23
88 23 0.10
89 84 0.35
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (87 bp):
CCTTTAAAAGCCCACAAGTCAGTGGCAATTTTTTCAAAGCCCACAAGTCAGTGGCATATTTTTCA
AAAGCCCACAAGTCAGTGGCAA
Found at i:40721 original size:30 final size:30
Alignment explanation
Indices: 40376--40727 Score: 408
Period size: 30 Copynumber: 12.1 Consensus size: 30
40366 TTCATCACCC
* ***
40376 TTCAAAAGTCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
***
40406 TTC-AAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
40435 TTCAAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
40463 TTC-AAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
*
40492 TTCAAAAGCCCACAAGTCAGTGGCATA-TTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
40522 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
**
40551 TT-AAAAGCCCACAAGTCAGTGGCATATTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
*
40581 TTCAAAAGCCCACAAGTCAGTGGCATA-TTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
40611 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
*
40640 TT-ACAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
40667 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
** *
40696 TTCTGAAGCCCACAAGTCGGTGGC-ACCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
40725 TTC
1 TTC
40728 CATCTTTAAG
Statistics
Matches: 287, Mismatches: 21, Indels: 29
0.85 0.06 0.09
Matches are distributed among these distances:
27 45 0.16
28 49 0.17
29 50 0.17
30 119 0.41
31 24 0.08
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTT
Found at i:40792 original size:43 final size:43
Alignment explanation
Indices: 40731--40820 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
40721 CCTTTTCCAT
*
40731 CTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
* *
40774 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
40817 CTTT
1 CTTT
40821 TCCATCTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
Found at i:40852 original size:52 final size:53
Alignment explanation
Indices: 40774--40911 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 53
40764 ACATTGGCAC
* *
40774 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTCCAT
* * *
40826 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCC-TTTTC-CAT
* * * * *
40881 CTTTAGGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
40912 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 38 0.54
53 2 0.03
54 5 0.07
55 26 0.37
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTCCAT
Found at i:41809 original size:13 final size:13
Alignment explanation
Indices: 41791--41815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41781 CATAAAGTGT
41791 TGTATCGATACAA
1 TGTATCGATACAA
41804 TGTATCGATACA
1 TGTATCGATACA
41816 TGTTTTTTTT
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):
TGTATCGATACAA
Found at i:41897 original size:13 final size:13
Alignment explanation
Indices: 41879--41903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41869 ATCACTTAAA
41879 TGTATCGATACAT
1 TGTATCGATACAT
41892 TGTATCGATACA
1 TGTATCGATACA
41904 CTGATCTTTG
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:41968 original size:52 final size:52
Alignment explanation
Indices: 41912--42092 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
41902 CACTGATCTT
*
41912 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
41964 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
42016 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
42068 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
42093 TCATATTTCG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:55783 original size:1 final size:1
Alignment explanation
Indices: 55777--55854 Score: 66
Period size: 1 Copynumber: 78.0 Consensus size: 1
55767 GGCGTCCTCC
* * ** * * * *
55777 AAAAAAAAAAAAAAAAAAACAAAAAAACAAAAGGAAAAAAAAAACAAAAACAATAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
55842 CAAAAACAAAAAA
1 AAAAAAAAAAAAA
55855 GGGGGTCCGG
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:55802 original size:17 final size:17
Alignment explanation
Indices: 55777--55854 Score: 86
Period size: 17 Copynumber: 4.5 Consensus size: 17
55767 GGCGTCCTCC
55777 AAAAAAAAAAA-AAAAA
1 AAAAAAAAAAACAAAAA
* *
55793 AAACAAAAAAACAAAAG
1 AAAAAAAAAAACAAAAA
*
55810 GAAAAAAAAAACAAAAA
1 AAAAAAAAAAACAAAAA
* *
55827 CAATAAAAAAACAAACAA
1 AAAAAAAAAAACAAA-AA
55845 AAACAAAAAA
1 AAA-AAAAAA
55855 GGGGGTCCGG
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
16 10 0.20
17 31 0.62
18 4 0.08
19 5 0.10
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (17 bp):
AAAAAAAAAAACAAAAA
Found at i:55815 original size:34 final size:34
Alignment explanation
Indices: 55777--55841 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
55767 GGCGTCCTCC
55777 AAAAAAAAAAAAAAAAAAACAAAAAAACAAAAGG
1 AAAAAAAAAAAAAAAAAAACAAAAAAACAAAAGG
* * *
55811 AAAAAAAAAACAAAAACAATAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAACAAAAAAACAAA
55842 CAAAAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.88, C:0.08, G:0.03, T:0.02
Consensus pattern (34 bp):
AAAAAAAAAAAAAAAAAAACAAAAAAACAAAAGG
Found at i:55853 original size:34 final size:32
Alignment explanation
Indices: 55776--55854 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 32
55766 CGGCGTCCTC
55776 CAAAAAAAAAAAAAAAAAAACAAAAAAACAAA
1 CAAAAAAAAAAAAAAAAAAACAAAAAAACAAA
* *
55808 -AGGAAAAAAAAAACAAAAACAATAAAAAAACAAA
1 CA--AAAAAAAAAA-AAAAAAAACAAAAAAACAAA
*
55842 CAAAAACAAAAAA
1 CAAAAAAAAAAAA
55855 GGGGGTCCGG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
31 1 0.03
32 1 0.03
33 19 0.47
34 18 0.45
35 1 0.03
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.01
Consensus pattern (32 bp):
CAAAAAAAAAAAAAAAAAAACAAAAAAACAAA
Found at i:57520 original size:89 final size:87
Alignment explanation
Indices: 57289--57640 Score: 478
Period size: 89 Copynumber: 4.1 Consensus size: 87
57279 CATTCATCAC
* * * *
57289 CCTTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTCA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAATTTTTTCAAAGCCCACAAGTCAGTGGCATATTTTTCA
57354 AAAGCCCACAAGTCAGTGGCAA
66 AAAGCCCACAAGTCAGTGGCAA
* * ***
57376 CC-TTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTC
1 CCTTTAAAAGCCCACAAGTCAGTGGCAATTTTTTC-AAAGCCCACAAGTCAGTGGCATATTTTTC
57440 AAAAGCCCACAAGTCAGTGGCAA
65 AAAAGCCCACAAGTCAGTGGCAA
57463 CCTTTAAAAGCCCACAAGTCAGTGGCATATTTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTT
1 CCTTTAAAAGCCCACAAGTCAGTGGCA-ATTTTTTC-AAAGCCCACAAGTCAGTGGCATATTTTT
57528 CAAAAGCCCACAAGTCAGTGGCAA
64 CAAAAGCCCACAAGTCAGTGGCAA
* ** * *** *
57552 CCTTTACAAGCCCACAAGTCAGTGGCAA--CCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCC
1 CCTTTAAAAGCCCACAAGTCAGTGGCAATTTTTTCAAAGCCCACAAGTCAGTGGCATATTTTTCA
* *
57615 GAAGCCCACAAGTCGGTGGC-A
66 AAAGCCCACAAGTCAGTGGCAA
57636 CCTTT
1 CCTTT
57641 TCCATCTTTA
Statistics
Matches: 239, Mismatches: 23, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
84 6 0.03
85 43 0.18
86 28 0.12
87 55 0.23
88 23 0.10
89 84 0.35
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (87 bp):
CCTTTAAAAGCCCACAAGTCAGTGGCAATTTTTTCAAAGCCCACAAGTCAGTGGCATATTTTTCA
AAAGCCCACAAGTCAGTGGCAA
Found at i:57636 original size:30 final size:30
Alignment explanation
Indices: 57291--57642 Score: 408
Period size: 30 Copynumber: 12.1 Consensus size: 30
57281 TTCATCACCC
* ***
57291 TTCAAAAGTCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
***
57321 TTC-AAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
57350 TTCAAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
57378 TTC-AAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
*
57407 TTCAAAAGCCCACAAGTCAGTGGCATA-TTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
57437 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
**
57466 TT-AAAAGCCCACAAGTCAGTGGCATATTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
*
57496 TTCAAAAGCCCACAAGTCAGTGGCATA-TTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTT
57526 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
*
57555 TT-ACAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
57582 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
** *
57611 TTCCGAAGCCCACAAGTCGGTGGC-ACCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
57640 TTC
1 TTC
57643 CATCTTTAAG
Statistics
Matches: 287, Mismatches: 21, Indels: 29
0.85 0.06 0.09
Matches are distributed among these distances:
27 45 0.16
28 49 0.17
29 50 0.17
30 119 0.41
31 24 0.08
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTT
Found at i:57707 original size:43 final size:43
Alignment explanation
Indices: 57646--57735 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
57636 CCTTTTCCAT
*
57646 CTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
* *
57689 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
57732 CTTT
1 CTTT
57736 TCCATCTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
Found at i:57767 original size:52 final size:53
Alignment explanation
Indices: 57689--57826 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 53
57679 ACATTGGCAC
* *
57689 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTCCAT
* * *
57741 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCC-TTTTC-CAT
* * * * *
57796 CTTTAGGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
57827 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 38 0.54
53 2 0.03
54 5 0.07
55 26 0.37
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTCCAT
Found at i:58703 original size:13 final size:13
Alignment explanation
Indices: 58685--58709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58675 CATAAAGTGT
58685 TGTATCGATACAA
1 TGTATCGATACAA
58698 TGTATCGATACA
1 TGTATCGATACA
58710 TGTTTTTTTT
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):
TGTATCGATACAA
Found at i:58791 original size:13 final size:13
Alignment explanation
Indices: 58773--58797 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58763 ATCACTTAAA
58773 TGTATCGATACAT
1 TGTATCGATACAT
58786 TGTATCGATACA
1 TGTATCGATACA
58798 CTGATCTTTG
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:58862 original size:52 final size:52
Alignment explanation
Indices: 58806--58986 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
58796 CACTGATCTT
*
58806 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
58858 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
58910 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
58962 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
58987 TCATATTTCG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:72784 original size:1 final size:1
Alignment explanation
Indices: 72778--72855 Score: 66
Period size: 1 Copynumber: 78.0 Consensus size: 1
72768 GGCGTCCTCC
* * ** * * * *
72778 AAAAAAAAAAAAAAAAACAAAAAAAACAAAAGGAAAAAAAAAAACAAAAACAATAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
72843 CAAAAACAAAAAA
1 AAAAAAAAAAAAA
72856 GGGGGTCCGG
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:72807 original size:27 final size:27
Alignment explanation
Indices: 72777--72855 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
72767 CGGCGTCCTC
72777 CAAAAAAAAAAAAAAAAACAAAAAAAA
1 CAAAAAAAAAAAAAAAAACAAAAAAAA
** *
72804 CAAAAGGAAAAAAAAAAACAAAAACAA
1 CAAAAAAAAAAAAAAAAACAAAAAAAA
* * *
72831 TAAAAAAACAAACAAAAACAAAAAA
1 CAAAAAAAAAAAAAAAAACAAAAAA
72856 GGGGGTCCGG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.01
Consensus pattern (27 bp):
CAAAAAAAAAAAAAAAAACAAAAAAAA
Found at i:74351 original size:30 final size:30
Alignment explanation
Indices: 74292--74520 Score: 290
Period size: 30 Copynumber: 7.8 Consensus size: 30
74282 TTCATCACCC
*
74292 TTCAAAAGTCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATTTTT
74322 TTC-AAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATTTTT
***
74351 TTCAAAAGCCCACAAGTCAGTGGCA--ACC
1 TTCAAAAGCCCACAAGTCAGTGGCATTTTT
* ***
74379 TTC-AAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATTTTT
*
74408 TTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCATTTTT
***
74438 TTCAAAAGCCCACAAGTCAGTGGCA-ACCT
1 TTCAAAAGCCCACAAGTCAGTGGCATTTTT
74467 TT-AAAAGCCCACAAGTCAGTGGCATATTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAT-TTTT
74497 TTCAAAAGCCCACAAGTCAAGTGG
1 TTCAAAAGCCCACAAGTC-AGTGG
74521 GCAAACCTCA
Statistics
Matches: 174, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
27 20 0.11
28 25 0.14
29 35 0.20
30 74 0.43
31 15 0.09
32 5 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCATTTTT
Found at i:74410 original size:57 final size:58
Alignment explanation
Indices: 74292--74550 Score: 298
Period size: 59 Copynumber: 4.4 Consensus size: 58
74282 TTCATCACCC
* * ***
74292 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-TATTTTCAAAGCCCACAAGTCAGTGGCAACCTT
** * *
74351 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTTCAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATATTTTCAAAGCCCACAAGTCAGTGGCAACCTT
74408 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCATA-TTTTC-AAAGCCCACAAGTCAGTGGCAACCTT
74467 TT-AAAAGCCCACAAGTCAGTGGCATATTTTTTCAAAAGCCCACAAGTCAAGTGGGCAAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCATA--TTTTC-AAAGCCCACAAGTC-AGT-GGC-AACCTT
*
74528 -TC-AAAGCCCACAAATCAGTGGCA
1 TTCAAAAGCCCACAAGTCAGTGGCA
74551 CCTTTTCCGA
Statistics
Matches: 179, Mismatches: 13, Indels: 15
0.86 0.06 0.07
Matches are distributed among these distances:
57 50 0.28
58 25 0.14
59 51 0.28
60 46 0.26
61 3 0.02
62 4 0.02
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (58 bp):
TTCAAAAGCCCACAAGTCAGTGGCATATTTTCAAAGCCCACAAGTCAGTGGCAACCTT
Found at i:74439 original size:87 final size:87
Alignment explanation
Indices: 74290--74520 Score: 347
Period size: 87 Copynumber: 2.6 Consensus size: 87
74280 CATTCATCAC
* * *
74290 CCTTCAAAAGTCCACAAGTCAGTGGCATTTTTTTC-AAAGCCCACAAGTCAGTGGCATTTTTTTC
1 CCTTC-AAAGCCCACAAGTCAGTGGCAATTTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTC
74354 AAAAGCCCACAAGTCAGTGGCAA
65 AAAAGCCCACAAGTCAGTGGCAA
* ***
74377 CCTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCA
1 CCTTCAAAGCCCACAAGTCAGTGGCAATTTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCA
74442 AAAGCCCACAAGTCAGTGGCAA
66 AAAGCCCACAAGTCAGTGGCAA
*
74464 CCTTTAAAAGCCCACAAGTCAGTGGCATATTTTTTCAAAAGCCCACAAGTCAAGTGG
1 CC-TTCAAAGCCCACAAGTCAGTGGCA-ATTTTTTCAAAAGCCCACAAGTC-AGTGG
74521 GCAAACCTCA
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
86 24 0.19
87 58 0.45
88 22 0.17
89 20 0.16
90 5 0.04
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (87 bp):
CCTTCAAAGCCCACAAGTCAGTGGCAATTTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCA
AAAGCCCACAAGTCAGTGGCAA
Found at i:74571 original size:88 final size:87
Alignment explanation
Indices: 74296--74555 Score: 341
Period size: 87 Copynumber: 3.0 Consensus size: 87
74286 TCACCCTTCA
* *
74296 AAAGTCCACAAGTCAGTGGCATTTTTTTC-AAAGCCCACAAGTCAGTGGCATTTTTTTCAAAAGC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTCAAAAGCCCACAAGTCAGTGGCA-TATTTTCAAAAGC
74360 CCACAAGTCAGTGGCAACC-TTC
65 CCACAAGTCAGTGGCAACCTTTC
* ***
74382 AAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTCAAAAGCCCACAAGTCAGTGGCATA-TTTTCAAAAGC
*
74447 CCACAAGTCAGTGGCAACCTTTA
65 CCACAAGTCAGTGGCAACCTTTC
***
74470 AAAGCCCACAAGTCAGTGGCATATTTTTTCAAAAGCCCACAAGTCAAGTGGGCA-AACCTC-AAA
1 AAAGCCCACAAGTCAGTGGCAT-TTTTTTCAAAAGCCCACAAGTC-AGT-GGCATATTTTCAAAA
*
74533 GCCCACAAATCAGTGGC-ACCTTT
63 GCCCACAAGTCAGTGGCAACCTTT
74556 TCCGAAGCCA
Statistics
Matches: 153, Mismatches: 15, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
86 25 0.16
87 57 0.37
88 41 0.27
89 22 0.14
90 4 0.03
91 4 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (87 bp):
AAAGCCCACAAGTCAGTGGCATTTTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTCAAAAGCC
CACAAGTCAGTGGCAACCTTTC
Found at i:74674 original size:43 final size:43
Alignment explanation
Indices: 74592--74677 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
74582 CCTTTTCCAT
*
74592 CTTTAAGTCCAATGTAGCGCCCTTGAATCAGCAACATTGGCAC
1 CTTTAAGTCCAATATAGCGCCCTTGAATCAGCAACATTGGCAC
* *
74635 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGC-ATATTGGCAC
1 CTTTAAGTCCAATATAGC-GCCCTTGAATCAGCAACATTGGCAC
74678 TTTTCATCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 26 0.67
44 13 0.33
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCGCCCTTGAATCAGCAACATTGGCAC
Found at i:75828 original size:13 final size:13
Alignment explanation
Indices: 75810--75834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75800 CATAAAGTGT
75810 TGTATCGATACAA
1 TGTATCGATACAA
75823 TGTATCGATACA
1 TGTATCGATACA
75835 TGTTTTTTTT
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):
TGTATCGATACAA
Found at i:75916 original size:13 final size:13
Alignment explanation
Indices: 75898--75922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75888 ATCACTTAAA
75898 TGTATCGATACAT
1 TGTATCGATACAT
75911 TGTATCGATACA
1 TGTATCGATACA
75923 CTGATCTTTG
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:75987 original size:52 final size:52
Alignment explanation
Indices: 75931--76111 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
75921 CACTGATCTT
*
75931 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
75983 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
76035 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
76087 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
76112 TCATATTTCG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:82784 original size:13 final size:13
Alignment explanation
Indices: 82766--82790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82756 CATAAAGTGT
82766 TGTATCGATACAA
1 TGTATCGATACAA
82779 TGTATCGATACA
1 TGTATCGATACA
82791 TAAGTGTTAT
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):
TGTATCGATACAA
Found at i:82804 original size:32 final size:33
Alignment explanation
Indices: 82746--82809 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
82736 CATAAAGTGT
*
82746 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTATATCGATACAA
82779 TGTATCGATACAT-AAGTGTTATATCGATACA
1 TGTATCGATACATAAAGTGTTATATCGATACA
82810 TAAGTTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTATATCGATACAA
Found at i:82805 original size:19 final size:19
Alignment explanation
Indices: 82725--82828 Score: 130
Period size: 20 Copynumber: 5.7 Consensus size: 19
82715 TTTCAACGAT
82725 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
82745 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
82765 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
82779 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
* *
82797 TTATATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
82816 TTGTATCGATACA
1 TTGTATCGATACA
82829 ATGTAAGCTA
Statistics
Matches: 75, Mismatches: 3, Indels: 13
0.82 0.03 0.14
Matches are distributed among these distances:
13 11 0.15
15 2 0.03
17 2 0.03
19 28 0.37
20 32 0.43
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:82868 original size:13 final size:13
Alignment explanation
Indices: 82850--82874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82840 TGCCAAAAAA
82850 TGTATCGATACAT
1 TGTATCGATACAT
82863 TGTATCGATACA
1 TGTATCGATACA
82875 CTGATCTTTG
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:82941 original size:52 final size:52
Alignment explanation
Indices: 82883--83013 Score: 235
Period size: 52 Copynumber: 2.5 Consensus size: 52
82873 CACTGATCTT
*
82883 TGTATCGATACATGCACGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
82935 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
82987 TGTATCGATACATGCAGGCAAATTTGC
1 TGTATCGATACATGCAAGCAAATTTGC
83014 ATATTTCGGG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:90866 original size:13 final size:13
Alignment explanation
Indices: 90850--90880 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
90840 ATACAATGAG
90850 CAATGCATCGATA
1 CAATGCATCGATA
*
90863 CAATGTATCGATA
1 CAATGCATCGATA
90876 CAATG
1 CAATG
90881 AGCAATGTAT
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:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (13 bp):
CAATGCATCGATA
Found at i:90874 original size:33 final size:33
Alignment explanation
Indices: 90831--90900 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
90821 TACATTGTAA
* *
90831 AATGTTTCGATACAATGAGCAATGCATCGATAC
1 AATGTATCGATACAATGAGCAATGCATCAATAC
*
90864 AATGTATCGATACAATGAGCAATGTATCAATAC
1 AATGTATCGATACAATGAGCAATGCATCAATAC
90897 AATG
1 AATG
90901 CAAAATGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGCATCAATAC
Found at i:90886 original size:20 final size:19
Alignment explanation
Indices: 90811--90917 Score: 82
Period size: 20 Copynumber: 5.7 Consensus size: 19
90801 AAAATGCCTG
* *
90811 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AC
*
90831 AATGTTTCGATACAATGAGC
1 AATGTATCGATACAATGA-C
*
90851 AATG---C-AT-CGAT-AC
1 AATGTATCGATACAATGAC
90864 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
* *
90884 AATGTATCAATACAATGCAA
1 AATGTATCGATACAATG-AC
90904 AATGTATCGATACA
1 AATGTATCGATACA
90918 TTTGGGTAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
13 5 0.07
14 1 0.01
15 3 0.04
16 3 0.04
17 3 0.04
18 3 0.04
19 2 0.03
20 49 0.70
21 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:90888 original size:53 final size:53
Alignment explanation
Indices: 90811--90917 Score: 128
Period size: 53 Copynumber: 2.0 Consensus size: 53
90801 AAAATGCCTG
* * * *
90811 AATGTATCGATACATTGTAAAATGTTTCGATACAATG-AGCAATGCATCGATAC
1 AATGTATCGATACAATGTAAAATGTATCAATACAATGCA-AAATGCATCGATAC
* *
90864 AATGTATCGATACAATG-AGCAATGTATCAATACAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATGTA-AAATGTATCAATACAATGCAAAATGCATCGATAC
90917 A
1 A
90918 TTTGGGTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 1 0.02
53 44 0.96
54 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (53 bp):
AATGTATCGATACAATGTAAAATGTATCAATACAATGCAAAATGCATCGATAC
Found at i:90955 original size:13 final size:13
Alignment explanation
Indices: 90937--90962 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90927 ACCCAGAATA
90937 TATCGATACAATG
1 TATCGATACAATG
90950 TATCGATACAATG
1 TATCGATACAATG
90963 AACAATGTAT
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):
TATCGATACAATG
Found at i:92488 original size:19 final size:19
Alignment explanation
Indices: 92464--92531 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
92454 AATTCAACAA
92464 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
92483 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
92498 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
92515 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
92532 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:92503 original size:13 final size:13
Alignment explanation
Indices: 92485--92509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92475 ACATAAGTTT
92485 TGTATCGATACAA
1 TGTATCGATACAA
92498 TGTATCGATACA
1 TGTATCGATACA
92510 TAAGTATTGT
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):
TGTATCGATACAA
Found at i:92507 original size:32 final size:32
Alignment explanation
Indices: 92466--92528 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
92456 TTCAACAATT
*
92466 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
92498 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
92529 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:92589 original size:13 final size:13
Alignment explanation
Indices: 92571--92596 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92561 CATTTTTCTG
92571 TGTATCGATACAT
1 TGTATCGATACAT
92584 TGTATCGATACAT
1 TGTATCGATACAT
92597 GGATCTTTGT
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:92593 original size:33 final size:33
Alignment explanation
Indices: 92551--92617 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
92541 GCCAAGGAAA
***
92551 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
92584 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
92617 T
1 T
92618 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:95073 original size:52 final size:50
Alignment explanation
Indices: 94951--95074 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 50
94941 CTCAATTCTC
* ** * *
94951 CACAATCGGGGATATTCCAACTCTGATTTTATTTTCAAAACACTAATTTT
1 CACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACACCAATTTT
* *
95001 CTATAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCAATTTTATTTCC-AAAACACCAA-TTTT
*
95054 CACAATCGAGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
95075 CTCGTTATTT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 1 0.02
51 30 0.48
52 26 0.42
53 5 0.08
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACACCAATTTT
Found at i:95198 original size:50 final size:51
Alignment explanation
Indices: 95118--95214 Score: 128
Period size: 50 Copynumber: 1.9 Consensus size: 51
95108 TACTCCCGAG
* *
95118 GGGATACTCCAACCCCAACTTTATTCCCAAAATATT-GATTTCTCATAATT
1 GGGATACTCCAACCCCAACTTTATTCCCAAAACATTAAATTTCTCATAATT
*
95168 GGGATACTCCAACCCC-GCTATTA-TCTCCAAAACATTAAATTTCTCAT
1 GGGATACTCCAACCCCAACT-TTATTC-CCAAAACATTAAATTTCTCAT
95215 CGGGAAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
49 4 0.10
50 28 0.68
51 9 0.22
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACCCCAACTTTATTCCCAAAACATTAAATTTCTCATAATT
Found at i:97100 original size:17 final size:17
Alignment explanation
Indices: 97078--97111 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
97068 GCAAACGAGC
97078 ATGTCCCAAACCTTGGT
1 ATGTCCCAAACCTTGGT
*
97095 ATGTCCTAAACCTTGGT
1 ATGTCCCAAACCTTGGT
97112 GACACCTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (17 bp):
ATGTCCCAAACCTTGGT
Found at i:99440 original size:150 final size:146
Alignment explanation
Indices: 99173--99818 Score: 703
Period size: 141 Copynumber: 4.4 Consensus size: 146
99163 AGTTGTAAAT
** * * *
99173 TTTGAAA-ATCTCATTTCGTATGTTAATAGAGAACCGAAAAGATACAAAAAGTTTTGAAGATTTC
1 TTTGAAAGAT-TCATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAGTTTTGAAAATTTC
* * * *
99237 TATACCCCTATGGAAAACCATAGGAATATTAGAAATCTTAAAAAAAATAATAATAATAATTTTTA
65 TATACCCCTATGGAAAACCATAAGAATATTAGAAATCTT-GAAAAATTAA-GATAATAATTTTTA
99302 TTTAATTTTTAATTTTTAA
128 TTTAATTTTTAATTTTTAA
* *
99321 TTTTTGAAAGATTCATTTCATACCTTAATAGAGAACCGAAAAGATACGAAAAGTTTTGAAAACTT
1 --TTTGAAAGATTCATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAGTTTTGAAAA-TT
99386 T-TATACCCC-ATGGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTA
63 TCTATACCCCTATGGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTA
*
99449 TTTAATTTTTAATTTCT-A
128 TTTAATTTTTAATTTTTAA
* * * *
99467 ----AAAGATTTATTTCGTACCTTAATGGAGTAA-CGAAAAGACAGGAAAAGTTTTGAAAATTCC
1 TTTGAAAGATTCATTTCGTACCTTAATGGAG-AACCGAAAAGATACGAAAAGTTTTGAAAATTTC
* * * * *
99527 TATACCCCTACGAAAAACCATATGAATATTA-AAAGTTTTGAAACATTAAGATAATAATTTTTAT
65 TATACCCCTATGGAAAACCATAAGAATATTAGAAA-TCTTGAAAAATTAAGATAATAATTTTTAT
*
99591 TTAATTTTTAA-TTTTCA
129 TTAATTTTTAATTTTTAA
* * * ** * *
99608 ----AAAGATTTATTTCGTACCTTAATGGAGAATCAAAAAGATATAAAAAATTTTGAAGATTTCT
1 TTTGAAAGATTCATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAGTTTTGAAAATTTCT
* *
99669 ATACCCCTA-CGAAAACCCATAAGAATATTAGAAATTTTGAAAAATTAAGATAATAATTTTTATT
66 ATACCCCTATGGAAAA-CCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATT
**
99733 TAATCTTAAAATATTTTAA
130 TAAT-TTTTAAT-TTTTAA
* * * ** * *
99752 CTTTCGAAAAATTCATTTCATACTTTAATGGAGAACTAAAAAGATACGAGAAGTTTTGAAGATTT
1 -TTT-GAAAGATTCATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAGTTTTGAAAATTT
99817 CT
64 CT
99819 GCACCCTTAC
Statistics
Matches: 431, Mismatches: 46, Indels: 38
0.84 0.09 0.07
Matches are distributed among these distances:
139 2 0.00
140 68 0.16
141 166 0.39
142 7 0.02
144 5 0.01
146 1 0.00
147 29 0.07
148 8 0.02
149 29 0.07
150 111 0.26
151 5 0.01
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (146 bp):
TTTGAAAGATTCATTTCGTACCTTAATGGAGAACCGAAAAGATACGAAAAGTTTTGAAAATTTCT
ATACCCCTATGGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTT
AATTTTTAATTTTTAA
Found at i:99899 original size:150 final size:150
Alignment explanation
Indices: 99195--99900 Score: 435
Period size: 141 Copynumber: 4.8 Consensus size: 150
99185 ATTTCGTATG
* * * * * *** *
99195 TTAATAGAGAACCGAAAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTATGGAAAACCATAG
1 TTAATGGAGAATCAAAAAGATACAAAAAATTTTGAAGATTTCTACACCCCTACAAAAAACCATAA
* * * * *** * *
99260 GAATATTAGAAATCTTAAAAAAAATAATAATAATAATTTTTATTTAAT-T-TTTAATTTTTAATT
66 GAATATTAGAAATC-TAGAAAAATTAAGAA-AATAATATTTATTTAATATAAAAAAATTTTAACT
**
99323 TTTGAAAGATTCATTTCATACC
129 TTCAAAAGATTCATTTCATACC
* * * * * * * ***
99345 TTAATAGAGAACCGAAAAGATACGAAAAGTTTTGAAAACTTT-TATACCCC-ATGGAAAACCATA
1 TTAATGGAGAATCAAAAAGATACAAAAAATTTTGAAGA-TTTCTACACCCCTACAAAAAACCATA
* * *
99408 AGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTT-A-AT-------TTTTAA-TT
65 AGAATATTAGAAATCTAGAAAAATTAAGAAAATAATATTTATTTAATATAAAAAAATTTTAACTT
* *
99463 TCTAAAAGATTTATTTCGTACC
130 TC-AAAAGATTCATTTCATACC
* * ** * * * * *
99485 TTAATGGAGTAA-CGAAAAGACAGGAAAAGTTTTGAAAATTCCTATACCCCTACGAAAAACCATA
1 TTAATGGAG-AATCAAAAAGATACAAAAAATTTTGAAGATTTCTACACCCCTACAAAAAACCATA
* * * * * * *
99549 TGAATATTA-AAAGTTTTGAAACATTAAGATAATAATTTTTATTT-A-AT-------TTTTAATT
65 AGAATATTAGAAA-TCTAGAAAAATTAAGAAAATAATATTTATTTAATATAAAAAAATTTTAACT
* *
99604 TTCAAAAGATTTATTTCGTACC
129 TTCAAAAGATTCATTTCATACC
* * * *
99626 TTAATGGAGAATCAAAAAGATATAAAAAATTTTGAAGATTTCTATACCCCTACGAAAACCCATAA
1 TTAATGGAGAATCAAAAAGATACAAAAAATTTTGAAGATTTCTACACCCCTACAAAAAACCATAA
* * * * * * *
99691 GAATATTAGAAATTTTGAAAAATTAAGATAATAATTTTTATTTAATCTTAAAATATTTTAACTTT
66 GAATATTAGAAATCTAGAAAAATTAAGAAAATAATATTTATTTAATATAAAAAAATTTTAACTTT
*
99756 CGAAAA-ATTCATTTCATACT
131 C-AAAAGATTCATTTCATACC
* * * * * *
99776 TTAATGGAGAA-CTAAAAAGATACGAGAAGTTTTGAAGATTTCTGCACCCTTACAAAAAATCATA
1 TTAATGGAGAATC-AAAAAGATACAAAAAATTTTGAAGATTTCTACACCCCTACAAAAAACCATA
* * * * *
99840 GGGATATTAGAAATCTAG-GAAATTATGAAAATAATATTT-TTTAGTGATAAAAGAAATTTTA
65 AGAATATTAGAAATCTAGAAAAATTAAGAAAATAATATTTATTTAAT-ATAAAA-AAATTTTA
99901 TTTATTATTT
Statistics
Matches: 475, Mismatches: 58, Indels: 46
0.82 0.10 0.08
Matches are distributed among these distances:
139 5 0.01
140 67 0.14
141 169 0.36
142 8 0.02
143 1 0.00
146 2 0.00
147 14 0.03
148 15 0.03
149 49 0.10
150 138 0.29
151 7 0.01
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (150 bp):
TTAATGGAGAATCAAAAAGATACAAAAAATTTTGAAGATTTCTACACCCCTACAAAAAACCATAA
GAATATTAGAAATCTAGAAAAATTAAGAAAATAATATTTATTTAATATAAAAAAATTTTAACTTT
CAAAAGATTCATTTCATACC
Found at i:101704 original size:13 final size:13
Alignment explanation
Indices: 101686--101711 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101676 AATTTCTTTG
101686 TGTATCGATACAT
1 TGTATCGATACAT
101699 TGTATCGATACAT
1 TGTATCGATACAT
101712 ACTTTGTGTA
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:101722 original size:32 final size:34
Alignment explanation
Indices: 101665--101729 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
101655 TACAAGCCAA
*
101665 TGTATCGATACAATTTCTTTGTGTATCGATACAT
1 TGTATCGATACAATTACTTTGTGTATCGATACAT
101699 TGTATCGATAC-A-TACTTTGTGTATCGATACA
1 TGTATCGATACAATTACTTTGTGTATCGATACA
101730 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (34 bp):
TGTATCGATACAATTACTTTGTGTATCGATACAT
Found at i:103817 original size:21 final size:20
Alignment explanation
Indices: 103788--103830 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
103778 GGCTAGTGTG
* *
103788 GGGACTGCCCGGTTGCGAGCT
1 GGGACTG-CCGGTCGCGACCT
*
103809 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
103829 GG
1 GG
103831 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.47, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:104288 original size:13 final size:13
Alignment explanation
Indices: 104270--104307 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
104260 ATAATCCCCC
104270 TGTATCGATACAG
1 TGTATCGATACAG
*
104283 TGTATCGATACAT
1 TGTATCGATACAG
*
104296 TGTATTGATACA
1 TGTATCGATACA
104308 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:110368 original size:19 final size:19
Alignment explanation
Indices: 110344--110382 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
110334 TCCCGTGTGA
*
110344 ATGTATCGATACATTTTTG
1 ATGTATCGATACATATTTG
110363 ATGTATCGATACATATTTG
1 ATGTATCGATACATATTTG
110382 A
1 A
110383 AAATATAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (19 bp):
ATGTATCGATACATATTTG
Done.