Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000886.1 Hibiscus syriacus cultivar Beakdansim tig00001731_pilon, whole genome shotgun sequence
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: 974096
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 1 of 4
Found at i:74 original size:27 final size:28
Alignment explanation
Indices: 16--71 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
6 ATCTTGACCC
16 TCTTTTTATATTTTTCCTTTTTTTTCTT
1 TCTTTTTATATTTTTCCTTTTTTTTCTT
**
44 TCTTTTT-TATTTTTTTTATTTTTTTCTT
1 TCTTTTTATATTTTTCCT-TTTTTTTCTT
72 CTTCAAGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (28 bp):
TCTTTTTATATTTTTCCTTTTTTTTCTT
Found at i:9589 original size:18 final size:18
Alignment explanation
Indices: 9574--9611 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9564 CCTTACACAC
9574 TTTGCCACAACAACACCA
1 TTTGCCACAACAACACCA
* *
9592 TTTGCCACGACAACGCCA
1 TTTGCCACAACAACACCA
9610 TT
1 TT
9612 CATACTTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.37, G:0.11, T:0.21
Consensus pattern (18 bp):
TTTGCCACAACAACACCA
Found at i:11945 original size:2 final size:2
Alignment explanation
Indices: 11938--11966 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11928 TGTAAAAATC
11938 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11967 GTACGACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13831 original size:3 final size:3
Alignment explanation
Indices: 13802--13848 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
13792 GCAAAATCAT
*
13802 TAA T-A TAA TTAA TAA -AA TAA AAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13845 TAA T
1 TAA T
13849 GTTTTCGTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 6 0.16
3 29 0.76
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:14169 original size:22 final size:22
Alignment explanation
Indices: 14128--14171 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14118 CATTTTTGTC
**
14128 CATTTGATGCTCAATGGTTTGA
1 CATTTGATGCTCAAAAGTTTGA
*
14150 CATTTGATGTTCAAAAGTTTGA
1 CATTTGATGCTCAAAAGTTTGA
14172 TGGGGTAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.41
Consensus pattern (22 bp):
CATTTGATGCTCAAAAGTTTGA
Found at i:14805 original size:7 final size:7
Alignment explanation
Indices: 14795--14858 Score: 62
Period size: 7 Copynumber: 9.3 Consensus size: 7
14785 ATCTTTGCTC
14795 TTTCTTT
1 TTTCTTT
14802 TTTCTTT
1 TTTCTTT
*
14809 TGT-TTT
1 TTTCTTT
*
14815 TTTCCTT
1 TTTCTTT
*
14822 TTTGTTT
1 TTTCTTT
14829 CTTTCTTT
1 -TTTCTTT
14837 TTTC--T
1 TTTCTTT
14842 TTTCTTT
1 TTTCTTT
14849 TTTCCTTT
1 TTT-CTTT
14857 TT
1 TT
14859 GCTTCTTATT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
5 5 0.11
6 5 0.11
7 24 0.52
8 12 0.26
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (7 bp):
TTTCTTT
Found at i:14807 original size:11 final size:11
Alignment explanation
Indices: 14793--14852 Score: 59
Period size: 12 Copynumber: 5.2 Consensus size: 11
14783 TGATCTTTGC
14793 TCTTTCTTTTT
1 TCTTTCTTTTT
*
14804 TCTTTTGTTTTTT
1 TC-TTT-CTTTTT
*
14817 TCCTTT-TTGTT
1 T-CTTTCTTTTT
14828 TCTTTCTTTTT
1 TCTTTCTTTTT
14839 TCTTTTCTTTTT
1 TC-TTTCTTTTT
14851 TC
1 TC
14853 CTTTTTGCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 4 0.10
11 13 0.32
12 14 0.34
13 9 0.22
14 1 0.02
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (11 bp):
TCTTTCTTTTT
Found at i:14824 original size:15 final size:15
Alignment explanation
Indices: 14806--14844 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
14796 TTCTTTTTTC
14806 TTTTGTTTTTTTCCT
1 TTTTGTTTTTTTCCT
* *
14821 TTTTGTTTCTTTCTT
1 TTTTGTTTTTTTCCT
*
14836 TTTTCTTTT
1 TTTTGTTTT
14845 CTTTTTTCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (15 bp):
TTTTGTTTTTTTCCT
Found at i:14838 original size:34 final size:34
Alignment explanation
Indices: 14788--14865 Score: 122
Period size: 34 Copynumber: 2.3 Consensus size: 34
14778 CTTTTTGATC
*
14788 TTTGC-TCTTTCTTTTTTCTTTTGTTTTTTTCCTT
1 TTTGCTTCTTTCTTTTTTCTTTT-CTTTTTTCCTT
*
14822 TTTGTTTCTTTCTTTTTTCTTTTCTTTTTTCCTT
1 TTTGCTTCTTTCTTTTTTCTTTTCTTTTTTCCTT
14856 TTTGCTTCTT
1 TTTGCTTCTT
14866 ATTGAATCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 23 0.57
35 17 0.43
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (34 bp):
TTTGCTTCTTTCTTTTTTCTTTTCTTTTTTCCTT
Found at i:19163 original size:3 final size:3
Alignment explanation
Indices: 19139--19185 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
19129 GCAAAATCAT
*
19139 TAA T-A TAA TTAA TAA AAA TAA TAA TAA T-A TAA TAA TAA TAA T-A
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19182 TAA T
1 TAA T
19186 GTTTTCGTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 6 0.16
3 29 0.76
4 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:19174 original size:14 final size:14
Alignment explanation
Indices: 19139--19185 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
19129 GCAAAATCAT
19139 TAATATAAT--TAA
1 TAATATAATAATAA
19151 TAA-A-AATAATAA
1 TAATATAATAATAA
19163 TAATATAATAATAA
1 TAATATAATAATAA
19177 TAATATAAT
1 TAATATAAT
19186 GTTTTCGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 3 0.10
11 1 0.03
12 9 0.29
13 1 0.03
14 17 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATATAATAATAA
Found at i:19748 original size:18 final size:18
Alignment explanation
Indices: 19727--19761 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19717 AACAAATTTT
19727 AAATAAAAAATATATAAA
1 AAATAAAAAATATATAAA
*
19745 AAATATAAAATATATAA
1 AAATAAAAAATATATAA
19762 TAATTTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAAAAATATATAAA
Found at i:20516 original size:2 final size:2
Alignment explanation
Indices: 20509--20555 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
20499 TGTCACATCT
20509 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20551 TA TA T
1 TA TA T
20556 TACTGCATTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:29683 original size:26 final size:26
Alignment explanation
Indices: 29646--29714 Score: 111
Period size: 26 Copynumber: 2.6 Consensus size: 26
29636 TTCATTAATT
29646 TATTATTATTTGGTAGTTAATGCTAAC
1 TATT-TTATTTGGTAGTTAATGCTAAC
29673 TATTTTATTTGGTAGTTAATGCTAAC
1 TATTTTATTTGGTAGTTAATGCTAAC
* *
29699 GATTTTATTTTGTAGT
1 TATTTTATTTGGTAGT
29715 AGTACTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 36 0.90
27 4 0.10
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (26 bp):
TATTTTATTTGGTAGTTAATGCTAAC
Found at i:35056 original size:12 final size:12
Alignment explanation
Indices: 35041--35083 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
35031 GATTGTGATT
*
35041 ATGATGAGTTCG
1 ATGATGAGTTTG
*
35053 ATGATGAATTTG
1 ATGATGAGTTTG
*
35065 ATGATCAGTTTG
1 ATGATGAGTTTG
35077 ATGATGA
1 ATGATGA
35084 TGAGTTTGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.37
Consensus pattern (12 bp):
ATGATGAGTTTG
Found at i:37740 original size:13 final size:13
Alignment explanation
Indices: 37722--37749 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37712 TTGGTCCTGC
37722 ATATTTCTTTAGG
1 ATATTTCTTTAGG
37735 ATATTTCTTTAGG
1 ATATTTCTTTAGG
37748 AT
1 AT
37750 TTATTGATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (13 bp):
ATATTTCTTTAGG
Found at i:39008 original size:105 final size:106
Alignment explanation
Indices: 38789--39063 Score: 349
Period size: 105 Copynumber: 2.6 Consensus size: 106
38779 AAGGTTGAAC
38789 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCATT-GGATGAGTTCTTCTCATTATGAACTCTCC
1 AAGTTCTTCTCATTATGAAC-T-TTC-TCCT--TTAGGATGAGTTCTTCTCATTATGAACTCT-C
** * *
38853 ACTGAAAATGTTGAGTCACCTCCTTCTGCGGTGGACTTGAAAGGAAT
60 ACTGAAAATACTGAGTCACCTCATTCTGCGGTGAACTTGAAAGGAAT
* * ** *
38900 AAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTTATTATGAACTCT-TTTGGA
1 AAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTCACTGAA
* * *
38964 AATACTG-GTTCACCTCATTTTGTGGTGAATTTGAAAGGAAT
66 AATACTGAG-TCACCTCATTCTGCGGTGAACTTGAAAGGAAT
*
39005 AAGTTCTTCTCATTATGAACTTTCTCCTTTATGATGAGTTCTTCTCATTATGAACTCTC
1 AAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTC
39064 CATTAGAAAT
Statistics
Matches: 146, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
104 1 0.01
105 90 0.62
106 2 0.01
107 25 0.17
108 4 0.03
109 3 0.02
110 1 0.01
111 20 0.14
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.41
Consensus pattern (106 bp):
AAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTCACTGAA
AATACTGAGTCACCTCATTCTGCGGTGAACTTGAAAGGAAT
Found at i:39090 original size:13 final size:13
Alignment explanation
Indices: 39072--39098 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39062 TCCATTAGAA
39072 ATATCAATCCCTC
1 ATATCAATCCCTC
39085 ATATCAATCCCTC
1 ATATCAATCCCTC
39098 A
1 A
39099 AGTGAGGCGT
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:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (13 bp):
ATATCAATCCCTC
Found at i:40110 original size:23 final size:24
Alignment explanation
Indices: 40083--40137 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
40073 CAAACCCTCC
*
40083 TTTTTCTCTCTTCATTTTTTTT-T
1 TTTTTCTCTCATCATTTTTTTTAT
* *
40106 TTTTTTTTTCATCATTTTTTTTCAT
1 TTTTTCTCTCATCATTTTTTTT-AT
40131 TTTTTCT
1 TTTTTCT
40138 TCAAGCATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 19 0.73
25 7 0.27
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTCTCTCATCATTTTTTTTAT
Found at i:43155 original size:51 final size:51
Alignment explanation
Indices: 43090--43193 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
43080 ATATTACTTA
43090 ATAAATTCTACACATACAAATTATTACAAACCATTTAAACATCATATACAT
1 ATAAATTCTACACATACAAATTATTACAAACCATTTAAACATCATATACAT
43141 ATAAATTCTACACATACAAATTATTACAAACCATTTAAACATCATATACAT
1 ATAAATTCTACACATACAAATTATTACAAACCATTTAAACATCATATACAT
43192 AT
1 AT
43194 CAGATCATTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (51 bp):
ATAAATTCTACACATACAAATTATTACAAACCATTTAAACATCATATACAT
Found at i:46602 original size:13 final size:13
Alignment explanation
Indices: 46550--46603 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
46540 CATTCACGGC
46550 TTCTTCTTTCCTT
1 TTCTTCTTTCCTT
*
46563 CAT-TTCTTTCTCATT
1 -TTCTTCTTTC-C-TT
46578 TTC--CTTTCCTT
1 TTCTTCTTTCCTT
46589 TTCTTCTTTCCTT
1 TTCTTCTTTCCTT
46602 TT
1 TT
46604 ATCGGAATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
11 5 0.15
12 1 0.03
13 22 0.67
14 3 0.09
15 2 0.06
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCTTCTTTCCTT
Found at i:48278 original size:31 final size:32
Alignment explanation
Indices: 48217--48278 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
48207 TTCGTGTAGG
* *
48217 ATTTTTTTAAAAAGAATTCGGGATCTGGTCGA
1 ATTTTTTTAAAAAGAATTCGAGATCAGGTCGA
*
48249 ATTTTTTTAAAAA-AATTCGAGTTCAGGTCG
1 ATTTTTTTAAAAAGAATTCGAGATCAGGTCG
48279 GGTCGAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (32 bp):
ATTTTTTTAAAAAGAATTCGAGATCAGGTCGA
Found at i:50089 original size:5 final size:5
Alignment explanation
Indices: 50079--50112 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
50069 AAGCTCGGAA
50079 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
50113 AGAGTTATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:57789 original size:40 final size:40
Alignment explanation
Indices: 57745--57864 Score: 222
Period size: 40 Copynumber: 3.0 Consensus size: 40
57735 CTGATGTGAA
*
57745 TAGACCCAACTTAAAAGCCAATTAAAAAGTCCAAAAAATC
1 TAGACCCAACTTAAAACCCAATTAAAAAGTCCAAAAAATC
57785 TAGACCCAACTTAAAACCCAATTAAAAAGTCCAAAAAATC
1 TAGACCCAACTTAAAACCCAATTAAAAAGTCCAAAAAATC
*
57825 TAGACCCAACTGAAAACCCAATTAAAAAGTCCAAAAAATC
1 TAGACCCAACTTAAAACCCAATTAAAAAGTCCAAAAAATC
57865 CAAACAACCA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.53, C:0.24, G:0.07, T:0.17
Consensus pattern (40 bp):
TAGACCCAACTTAAAACCCAATTAAAAAGTCCAAAAAATC
Found at i:63463 original size:103 final size:101
Alignment explanation
Indices: 63259--63483 Score: 220
Period size: 103 Copynumber: 2.2 Consensus size: 101
63249 ATCGATATCG
* * * * **
63259 GACCTTGGGTATCCATACTCATCTGAGTATCGATACCAAATTTTGCTTCGATGTTTTAAAAAATA
1 GACCCTGGGTATCGATACTCATCTGAGTATCCATACCAAAATCAGCTTCGATGTTTTAAAAAATA
** * *
63324 CCTTGGTATTGATAACCCTATGGGGAGCATCGATACTA
66 CCTCAGTATTGATAACCCTAT--GAAGCATCAATACTA
* *
63362 TACCCTGGGTATCGATACTC-TCATGAGTATCCATACCAAAATCAGCTTCGATGTTTTCAAAAAT
1 GACCCTGGGTATCGATACTCATC-TGAGTATCCATACCAAAATCAGCTTCGATGTTTTAAAAAAT
* * * *
63426 GCCTCAGTATTGATACTGACCCTCT-AAGTATCAATACTG
65 ACCTCAGTATTGATA---ACCCTATGAAGCATCAATACTA
* *
63465 GACCCCGAGTATCGATACT
1 GACCCTGGGTATCGATACT
63484 GCCCTTATAA
Statistics
Matches: 99, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
102 2 0.02
103 91 0.92
106 6 0.06
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (101 bp):
GACCCTGGGTATCGATACTCATCTGAGTATCCATACCAAAATCAGCTTCGATGTTTTAAAAAATA
CCTCAGTATTGATAACCCTATGAAGCATCAATACTA
Found at i:70651 original size:65 final size:67
Alignment explanation
Indices: 70484--70790 Score: 415
Period size: 67 Copynumber: 4.6 Consensus size: 67
70474 GTCTGTCTCC
* * * * * *
70484 CTTGAAATAAA-TTTTTTCTCGCTTGAGACAATTTCTTTTGAAGCATGAACCTTTGAGATTGTTT
1 CTTGAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTT
70548 CT
66 CT
* *
70550 ATTGAAACAAAGTTTT-TCTTGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTG-TT
1 CTTGAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTT
70613 CT
66 CT
* * *
70615 CTTGAAATAAA-TTTTGTCTTGCTTGATACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTT
1 CTTGAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTT
70679 CT
66 CT
** * * *
70681 CTCAAAACAAAGTTTCGTCTCGCTTGAGATAGTTTCTATTGAAACATAAACCTTTGAGATTGTTT
1 CTTGAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTT
70746 CT
66 CT
* * *
70748 CTTGAAAGAAAGTTTCGTCTCGCTTGAGACAGTTTCCCTTGAA
1 CTTGAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAA
70791 GCCCAAATTT
Statistics
Matches: 213, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
64 4 0.02
65 57 0.27
66 61 0.29
67 91 0.43
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (67 bp):
CTTGAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTT
CT
Found at i:70681 original size:30 final size:30
Alignment explanation
Indices: 70645--70754 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 30
70635 GCTTGATACA
70645 GTTTCTCTTGAAACATAAACCTTTGAGATT
1 GTTTCTCTTGAAACATAAACCTTTGAGATT
** * *
70675 GTTTCTCTCAAAACA-AAGTTTCGTCTCGCTTGAGATA
1 GTTTCTCTTGAAACATAA---AC--CT---TTGAGATT
*
70712 GTTTCTATTGAAACATAAACCTTTGAGATT
1 GTTTCTCTTGAAACATAAACCTTTGAGATT
70742 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
70755 GAAAGTTTCG
Statistics
Matches: 61, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
29 2 0.03
30 32 0.52
32 1 0.02
33 2 0.03
34 2 0.03
35 1 0.02
37 19 0.31
38 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (30 bp):
GTTTCTCTTGAAACATAAACCTTTGAGATT
Found at i:70726 original size:37 final size:37
Alignment explanation
Indices: 70667--70790 Score: 102
Period size: 37 Copynumber: 3.5 Consensus size: 37
70657 ACATAAACCT
* **
70667 TTGAGATTGTTTCTCTCAAAACAAAGTTTCGTCTCGC
1 TTGAGATAGTTTCTCTTGAAACAAAGTTTCGTCTCGC
* *
70704 TTGAGATAGTTTCTATTGAAACATAA---AC--CT---
1 TTGAGATAGTTTCTCTTGAAACA-AAGTTTCGTCTCGC
* *
70734 TTGAGATTGTTTCTCTTGAAAGAAAGTTTCGTCTCGC
1 TTGAGATAGTTTCTCTTGAAACAAAGTTTCGTCTCGC
* *
70771 TTGAGACAGTTTCCCTTGAA
1 TTGAGATAGTTTCTCTTGAA
70791 GCCCAAATTT
Statistics
Matches: 66, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
29 2 0.03
30 20 0.30
32 1 0.02
33 2 0.03
34 2 0.03
35 1 0.02
37 36 0.55
38 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (37 bp):
TTGAGATAGTTTCTCTTGAAACAAAGTTTCGTCTCGC
Found at i:70839 original size:132 final size:130
Alignment explanation
Indices: 70484--70847 Score: 322
Period size: 131 Copynumber: 2.8 Consensus size: 130
70474 GTCTGTCTCC
* ** * ** * * *
70484 CTTGAAATAAATTTTTTCTCGCTTGAGACAATTTCTTTTGAAGCATGAACCTTTGAGATTGTTTC
1 CTTGAAAGAAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACA-CAAACTTTGAGATTGTTTC
** * * * ** * *
70549 TA-TTGAAACAAAGTTTTTCTTGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTT
65 -ACTCAAAACAAAATTTCTATCACTTGAGATAGTTTCTATTGAAACATAAACCTTTGAGATTGTT
70613 CT
129 CT
* * * * * *
70615 CTTGAAATAAATTTTGTCTTGCTTGATACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTC
1 CTTGAAAGAAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAA-CTTTGAGATTGTTTC
* * * *
70680 TCTCAAAACAAAGTTTCGTCTCGCTTGAGATAGTTTCTATTGAAACATAAACCTTTGAGATTGTT
65 ACTCAAAACAAAATTTC-TATCACTTGAGATAGTTTCTATTGAAACATAAACCTTTGAGATTG-T
70745 TCT
128 TCT
* *
70748 CTTGAAAGAAAGTTTCGTCTCGCTTGAGACAGTTTCCCTTGAAGCCCAAA-TTTCGA-AGTTGTT
1 CTTGAAAGAAA-TTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAACTTT-GAGA-TTGTT
** *
70811 TCACTTGAAACAAAATTGT-TATCACTTGAGATTGTTT
63 TCACTCAAAACAAAATT-TCTATCACTTGAGATAGTTT
70848 TCCTAAAAAC
Statistics
Matches: 195, Mismatches: 30, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
130 2 0.01
131 66 0.34
132 61 0.31
133 34 0.17
134 32 0.16
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (130 bp):
CTTGAAAGAAATTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAACTTTGAGATTGTTTCA
CTCAAAACAAAATTTCTATCACTTGAGATAGTTTCTATTGAAACATAAACCTTTGAGATTGTTCT
Found at i:70900 original size:102 final size:101
Alignment explanation
Indices: 70734--71036 Score: 380
Period size: 102 Copynumber: 3.0 Consensus size: 101
70724 ACATAAACCT
* * * * * *
70734 TTGAGATTGTTTCTCTTGAAAGA-AAGTTTCGTCTCGCTTGAGACAGTTTCCCTTGAAGCCCAAA
1 TTGAGATTGTTT-TCCT-AAAAACAAATTTCGTCTCGCTTGAGAAAGTTTCCCTTGAAACACAAA
* *
70798 TTTCGAAGTTGTTTCACTTGAAACAAAATTGTTATCAC
64 TTTTGAAATTGTTTCACTTGAAACAAAATTGTTATCAC
70836 TTGAGATTGTTTTCCTAAAAACAAATTTCGTCTCGCTTGAGAAAGTTTTCCCTCT-AAACACAAA
1 TTGAGATTGTTTTCCTAAAAACAAATTTCGTCTCGCTTGAGAAAG-TTTCCCT-TGAAACACAAA
* *
70900 TTTTGAAATTGTTTCACTTGAAACAAAATTGTTCTCGC
64 TTTTGAAATTGTTTCACTTGAAACAAAATTGTTATCAC
* * * *
70938 TTGAGATTATCTTCCTAAAAACAAATAT-GATCTCACTTGAGATAAGTTTCCCTTGAAACACAAA
1 TTGAGATTGTTTTCCTAAAAACAAATTTCG-TCTCGCTTGAGA-AAGTTTCCCTTGAAACACAAA
**
71002 TTTTGAAATTGTTTCACTCAAAACAAAATT-TTATC
64 TTTTGAAATTGTTTCACTTGAAACAAAATTGTTATC
71037 TCACCTGAGA
Statistics
Matches: 178, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
100 4 0.02
101 30 0.17
102 140 0.79
103 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (101 bp):
TTGAGATTGTTTTCCTAAAAACAAATTTCGTCTCGCTTGAGAAAGTTTCCCTTGAAACACAAATT
TTGAAATTGTTTCACTTGAAACAAAATTGTTATCAC
Found at i:86385 original size:24 final size:21
Alignment explanation
Indices: 86369--86436 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
86359 AATTACTTAA
86369 ATTATTTTTATTAAAATTATT
1 ATTATTTTTATTAAAATTATT
*
86390 ATTATTATTATTATAAA-TATT
1 ATTATTTTTATTA-AAATTATT
* *
86411 ATGA---TTATTAAATACTATT
1 ATTATTTTTATTAAA-ATTATT
86430 ATTATTT
1 ATTATTT
86437 ACATGCCCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
17 2 0.05
18 7 0.18
19 7 0.18
21 19 0.50
22 3 0.08
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (21 bp):
ATTATTTTTATTAAAATTATT
Found at i:86392 original size:3 final size:3
Alignment explanation
Indices: 86369--86435 Score: 53
Period size: 3 Copynumber: 22.0 Consensus size: 3
86359 AATTACTTAA
* ** * * *
86369 ATT ATT TTT ATT AAA ATT ATT ATT ATT ATT ATT ATA AAT ATT ATG ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
86417 ATT AAAT ACT ATT ATT ATT
1 ATT -ATT ATT ATT ATT ATT
86436 TACATGCCCA
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
3 46 0.96
4 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:90312 original size:56 final size:56
Alignment explanation
Indices: 90245--90356 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
90235 ATACATCTGT
90245 CAGTGAATTAAAAAGATGTCAAGTTGATAATCAAAGGTTGAATAGTGCTATGACCA
1 CAGTGAATTAAAAAGATGTCAAGTTGATAATCAAAGGTTGAATAGTGCTATGACCA
90301 CAGTGAATTAAAAAGATGTCAAGTTGATAATCAAAGGTTGAATAGTGCTATGACCA
1 CAGTGAATTAAAAAGATGTCAAGTTGATAATCAAAGGTTGAATAGTGCTATGACCA
90357 ATATGGAAGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (56 bp):
CAGTGAATTAAAAAGATGTCAAGTTGATAATCAAAGGTTGAATAGTGCTATGACCA
Found at i:93521 original size:15 final size:15
Alignment explanation
Indices: 93496--93529 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
93486 ATACTCATAA
93496 AAAATGAAAAAAAAGG
1 AAAATG-AAAAAAAGG
93512 AAAA-GAAAAAAAGG
1 AAAATGAAAAAAAGG
93526 AAAA
1 AAAA
93530 AAATTGAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 1 0.06
16 4 0.22
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (15 bp):
AAAATGAAAAAAAGG
Found at i:93522 original size:14 final size:14
Alignment explanation
Indices: 93503--93529 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93493 TAAAAAATGA
93503 AAAAAAAGGAAAAG
1 AAAAAAAGGAAAAG
93517 AAAAAAAGGAAAA
1 AAAAAAAGGAAAA
93530 AAATTGAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAAAGGAAAAG
Found at i:97238 original size:23 final size:23
Alignment explanation
Indices: 97212--97286 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
97202 TATTAACCAT
97212 TATCTTTCGTAATATTTCAATAG
1 TATCTTTCGTAATATTTCAATAG
*
97235 TATC-TT--TAAT-TTT-AATACTT
1 TATCTTTCGTAATATTTCAATA--G
*
97255 TATATTTCGTAATATTTCAAATTAG
1 TATCTTTCGTAATATTTC-AA-TAG
97280 TATCTTT
1 TATCTTT
97287 AATTTTAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
18 4 0.10
19 3 0.08
20 7 0.18
21 2 0.05
22 2 0.05
23 8 0.21
24 3 0.08
25 6 0.15
26 2 0.05
27 2 0.05
ACGTcount: A:0.31, C:0.11, G:0.05, T:0.53
Consensus pattern (23 bp):
TATCTTTCGTAATATTTCAATAG
Found at i:97292 original size:45 final size:43
Alignment explanation
Indices: 97211--97306 Score: 165
Period size: 45 Copynumber: 2.2 Consensus size: 43
97201 CTATTAACCA
*
97211 TTATCTTTCGTAATATTTCAATAGTATCTTTAATTTTAATACT
1 TTATATTTCGTAATATTTCAATAGTATCTTTAATTTTAATACT
97254 TTATATTTCGTAATATTTCAAATTAGTATCTTTAATTTTAATACT
1 TTATATTTCGTAATATTTC-AA-TAGTATCTTTAATTTTAATACT
97299 TTATATTT
1 TTATATTT
97307 AGTTTTAAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 18 0.36
44 2 0.04
45 30 0.60
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.55
Consensus pattern (43 bp):
TTATATTTCGTAATATTTCAATAGTATCTTTAATTTTAATACT
Found at i:97307 original size:20 final size:20
Alignment explanation
Indices: 97239--97314 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
97229 CAATAGTATC
97239 TTTAATTTTAATACTTTATA
1 TTTAATTTTAATACTTTATA
*
97259 TTTCGTAATATTTCAA-A-TTAGTATC
1 -TT--TAAT-TTT-AATACTT--TATA
97284 TTTAATTTTAATACTTTATA
1 TTTAATTTTAATACTTTATA
*
97304 TTTAGTTTTAA
1 TTTAATTTTAA
97315 GAATTTTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 17
0.69 0.05 0.27
Matches are distributed among these distances:
20 15 0.34
21 6 0.14
22 6 0.14
23 6 0.14
24 6 0.14
25 5 0.11
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTAATTTTAATACTTTATA
Found at i:100626 original size:22 final size:22
Alignment explanation
Indices: 100571--100645 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
100561 TACTGAAGGG
100571 AGTATCGATACCATAGTATAGA
1 AGTATCGATACCATAGTATAGA
*
100593 AGTATATG-TACCATAGTATAGA
1 AGTAT-CGATACCATAGTATAGA
*
100615 AGTATCGATACCATA--ATAGG
1 AGTATCGATACCATAGTATAGA
*
100635 GGTATCGATAC
1 AGTATCGATAC
100646 TATTGAGCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 14 0.30
21 1 0.02
22 31 0.66
23 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (22 bp):
AGTATCGATACCATAGTATAGA
Found at i:104765 original size:16 final size:16
Alignment explanation
Indices: 104735--104765 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104725 AATATTGAAA
*
104735 CTTGAACTCGAAAAAG
1 CTTGAACTCAAAAAAG
104751 CTTGAACTCAAAAAA
1 CTTGAACTCAAAAAA
104766 AAATTTAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (16 bp):
CTTGAACTCAAAAAAG
Found at i:105257 original size:18 final size:18
Alignment explanation
Indices: 105225--105259 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
105215 TCGGTTCTTC
*
105225 CGACCGGTCGGACCAGTT
1 CGACCGGTCGAACCAGTT
*
105243 CGACCGGTTGAACCAGT
1 CGACCGGTCGAACCAGT
105260 GAACCGGTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.17
Consensus pattern (18 bp):
CGACCGGTCGAACCAGTT
Found at i:108872 original size:9 final size:9
Alignment explanation
Indices: 108858--108887 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
108848 ACATCCTTTA
108858 AATATTTTT
1 AATATTTTT
108867 AATATTTTT
1 AATATTTTT
108876 AATATTTTT
1 AATATTTTT
108885 AAT
1 AAT
108888 GGCGACTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:115165 original size:22 final size:21
Alignment explanation
Indices: 115137--115189 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
115127 TACTCGGGGT
* *
115137 AGTATCGATAACCTCCTATAGG
1 AGTATCGATAA-CTCCCATAAG
115159 AGTATCGAT-ACTCCCATAAG
1 AGTATCGATAACTCCCATAAG
115179 AGTATCGATAA
1 AGTATCGATAA
115190 TGTTAGCACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 17 0.61
21 2 0.07
22 9 0.32
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (21 bp):
AGTATCGATAACTCCCATAAG
Found at i:116294 original size:28 final size:28
Alignment explanation
Indices: 116257--116332 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 28
116247 AATTAGATAC
*
116257 GTATATATATATATATAATATGAATAAT
1 GTATAAATATATATATAATATGAATAAT
* * *
116285 GTA-ATAATATAGA-A-AATAT-ATTTAT
1 GTATA-AATATATATATAATATGAATAAT
116310 GTATAAATAATATATATAATATG
1 GTATAAAT-ATATATATAATATG
116333 TATGTAAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 11
0.70 0.09 0.21
Matches are distributed among these distances:
25 10 0.27
26 10 0.27
27 3 0.08
28 14 0.38
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (28 bp):
GTATAAATATATATATAATATGAATAAT
Found at i:116696 original size:17 final size:18
Alignment explanation
Indices: 116674--116713 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
116664 GATACATCAG
*
116674 TTAAAAGAA-AAAAAATC
1 TTAAAAGAATAAAAAATA
*
116691 TTAAAATAATAAAAAATA
1 TTAAAAGAATAAAAAATA
116709 TTAAA
1 TTAAA
116714 TTACCCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (18 bp):
TTAAAAGAATAAAAAATA
Found at i:119489 original size:11 final size:11
Alignment explanation
Indices: 119459--119491 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
119449 CCCTTAAAAA
119459 ATTAAAAATAT
1 ATTAAAAATAT
119470 A-TAAAAATAT
1 ATTAAAAATAT
*
119480 ATTAATAATAT
1 ATTAAAAATAT
119491 A
1 A
119492 CAAATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATTAAAAATAT
Found at i:121477 original size:21 final size:21
Alignment explanation
Indices: 121439--121478 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
121429 GGACTCATAT
* *
121439 TTTTTTTTGATTCAGATTTAG
1 TTTTTTTTCAGTCAGATTTAG
*
121460 TTTTTTTTCAGTCGGATTT
1 TTTTTTTTCAGTCAGATTT
121479 GGATTGAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.62
Consensus pattern (21 bp):
TTTTTTTTCAGTCAGATTTAG
Found at i:121641 original size:23 final size:23
Alignment explanation
Indices: 121614--121662 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
121604 CTATACTTCT
*
121614 TTTAGAT-TCATTTTAATTTTTAA
1 TTTAGATAT-ATTTTAATTATTAA
*
121637 TTTAGATATATTTTAGTTATTAA
1 TTTAGATATATTTTAATTATTAA
121660 TTT
1 TTT
121663 GAAGTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (23 bp):
TTTAGATATATTTTAATTATTAA
Found at i:125051 original size:29 final size:29
Alignment explanation
Indices: 125010--125065 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
125000 CCCTAAAATT
* *
125010 TTTCCAAATTTATACTTTGATCACTAAAC
1 TTTCAAAAATTATACTTTGATCACTAAAC
* *
125039 TTTCAAAAATTATATTTTGGTCACTAA
1 TTTCAAAAATTATACTTTGATCACTAA
125066 TAAAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (29 bp):
TTTCAAAAATTATACTTTGATCACTAAAC
Found at i:126289 original size:30 final size:28
Alignment explanation
Indices: 126224--126308 Score: 71
Period size: 30 Copynumber: 2.9 Consensus size: 28
126214 TTTGGGTAGT
* *
126224 GACTAAAATATAAGTTTTGAAAGTTTAG
1 GACTAAAATATAACTTTTAAAAGTTTAG
* *
126252 TAGCTAAAGTATAAACTTTTAAAAGTTTAAG
1 GA-CTAAAATAT-AACTTTTAAAAGTTT-AG
* * *
126283 GACTAAAAATGTAAATTTGAAAAGTT
1 GACT-AAAATATAACTTTTAAAAGTT
126309 ATATATTTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
28 1 0.02
29 8 0.18
30 27 0.61
31 8 0.18
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (28 bp):
GACTAAAATATAACTTTTAAAAGTTTAG
Found at i:127041 original size:23 final size:23
Alignment explanation
Indices: 127015--127064 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
127005 ATTAATCCTC
127015 AAGCATGTATGATGTTTAAAATA
1 AAGCATGTATGATGTTTAAAATA
*
127038 AAGCATGTATGATGTTTAAAATC
1 AAGCATGTATGATGTTTAAAATA
127061 AAGC
1 AAGC
127065 GTATAGTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (23 bp):
AAGCATGTATGATGTTTAAAATA
Found at i:129865 original size:39 final size:39
Alignment explanation
Indices: 129794--129904 Score: 179
Period size: 39 Copynumber: 2.8 Consensus size: 39
129784 GGGCCTTATA
* *
129794 CACATAGCATAAAGA-CTTGCGGTAAGGACTTACCTTGAG
1 CACAAAGC-TAAAGAGCCTGCGGTAAGGACTTACCTTGAG
*
129833 CACAAAGCTAAGGAGCCTGCGGTAAGGACTTACCTTGAG
1 CACAAAGCTAAAGAGCCTGCGGTAAGGACTTACCTTGAG
129872 CACAAAGCTAAAGAGCCTGCGGTAAGGACTTAC
1 CACAAAGCTAAAGAGCCTGCGGTAAGGACTTAC
129905 AAGTCATAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 5 0.07
39 62 0.93
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (39 bp):
CACAAAGCTAAAGAGCCTGCGGTAAGGACTTACCTTGAG
Found at i:130632 original size:18 final size:18
Alignment explanation
Indices: 130609--130645 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
130599 TTTTTGTCAA
130609 AGTCAACGGTCAATGGTC
1 AGTCAACGGTCAATGGTC
*
130627 AGTCAACGGTTAATGGTC
1 AGTCAACGGTCAATGGTC
130645 A
1 A
130646 ACGATCAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (18 bp):
AGTCAACGGTCAATGGTC
Found at i:138823 original size:1 final size:1
Alignment explanation
Indices: 138819--138866 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
138809 CTTTTTTGGC
* *** *
138819 TTTTTTTTTTGTTTTTTTTTTTTTTTTTTGCCTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
138867 GAAAAAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:138828 original size:13 final size:11
Alignment explanation
Indices: 138819--138866 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
138809 CTTTTTTGGC
138819 TTTTTTTTTTG
1 TTTTTTTTTTG
138830 --TTTTTTTT-
1 TTTTTTTTTTG
138838 TTTTTTTTTTG
1 TTTTTTTTTTG
**
138849 CCTTTTTTTTG
1 TTTTTTTTTTG
138860 TTTTTTT
1 TTTTTTT
138867 GAAAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
9 8 0.27
10 8 0.27
11 14 0.47
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:138854 original size:19 final size:19
Alignment explanation
Indices: 138819--138867 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
138809 CTTTTTTGGC
**
138819 TTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTGCCTTTTTT
138838 TTTTTTTTTTGCCTTTTTT
1 TTTTTTTTTTGCCTTTTTT
*
138857 TTGTTTTTTTG
1 TTTTTTTTTTG
138868 AAAAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTTGCCTTTTTT
Found at i:140266 original size:31 final size:31
Alignment explanation
Indices: 140221--140332 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
140211 CCTTAAGTCC
* *
140221 ACAATGAATTACCAGTTAATGCTGAACCTAT
1 ACAAGGAATTACCAGTCAATGCTGAACCTAT
* *
140252 ACAAGGTATTACCAG-CAACGACTGAACCTGCCAT
1 ACAAGGAATTACCAGTCAATG-CTGAACCT---AT
* *
140286 AGATAGGAATTACCAGTCAGTGCTGAACCTAT
1 ACA-AGGAATTACCAGTCAATGCTGAACCTAT
*
140318 ACATGGAATTACCAG
1 ACAAGGAATTACCAG
140333 CATCGACTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
30 3 0.05
31 32 0.49
32 4 0.06
34 4 0.06
35 19 0.29
36 3 0.05
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (31 bp):
ACAAGGAATTACCAGTCAATGCTGAACCTAT
Found at i:140332 original size:66 final size:66
Alignment explanation
Indices: 140226--140350 Score: 196
Period size: 66 Copynumber: 1.9 Consensus size: 66
140216 AGTCCACAAT
* * *
140226 GAATTACCAGTTAATGCTGAACCTATACAAGGTATTACCAGCAACGACTGAACCTGCCATAGATA
1 GAATTACCAGTCAATGCTGAACCTATACAAGGAATTACCAGCAACGACTAAACCTGCCATAGATA
140291 G
66 G
* * *
140292 GAATTACCAGTCAGTGCTGAACCTATACATGGAATTACCAGCATCGACTAAACCTGCCA
1 GAATTACCAGTCAATGCTGAACCTATACAAGGAATTACCAGCAACGACTAAACCTGCCA
140351 GAGTCTTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (66 bp):
GAATTACCAGTCAATGCTGAACCTATACAAGGAATTACCAGCAACGACTAAACCTGCCATAGATA
G
Found at i:140346 original size:31 final size:31
Alignment explanation
Indices: 140242--140346 Score: 97
Period size: 31 Copynumber: 3.3 Consensus size: 31
140232 CCAGTTAATG
* * *
140242 CTGAACCTATACAAGGTATTACCAGCAACGA
1 CTGAACCTATACATGGAATTACCAGCATCGA
*
140273 CTGAACCTGCCATAGATAGGAATTACCAGTCAGT-G-
1 CTGAACCT---ATACAT-GGAATTACCAG-CA-TCGA
140308 CTGAACCTATACATGGAATTACCAGCATCGA
1 CTGAACCTATACATGGAATTACCAGCATCGA
*
140339 CTAAACCT
1 CTGAACCT
140347 GCCAGAGTCT
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
29 1 0.02
30 3 0.05
31 26 0.43
32 5 0.08
34 4 0.07
35 18 0.30
36 3 0.05
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (31 bp):
CTGAACCTATACATGGAATTACCAGCATCGA
Found at i:144113 original size:15 final size:15
Alignment explanation
Indices: 144061--144113 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 15
144051 AAGTCAACAT
144061 GTTAACTCAGA-CGA
1 GTTAACTCAGACCGA
* *
144075 GTTAACTCAAACTG-
1 GTTAACTCAGACCGA
*
144089 GTTTACTCAGACCGA
1 GTTAACTCAGACCGA
*
144104 GTTGACTCAG
1 GTTAACTCAG
144114 TGACTGGACT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 21 0.68
15 10 0.32
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (15 bp):
GTTAACTCAGACCGA
Found at i:148200 original size:30 final size:30
Alignment explanation
Indices: 148166--148222 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
148156 TTTGGATCTT
* * *
148166 AATTTAATCAAAATTTCACTTTGGTCCCTA
1 AATTTAATCAAAAATTCAATTTAGTCCCTA
*
148196 AATTTAATTAAAAATTCAATTTAGTCC
1 AATTTAATCAAAAATTCAATTTAGTCC
148223 TTAGAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (30 bp):
AATTTAATCAAAAATTCAATTTAGTCCCTA
Found at i:149870 original size:20 final size:20
Alignment explanation
Indices: 149821--149875 Score: 101
Period size: 21 Copynumber: 2.7 Consensus size: 20
149811 ATATAAGTTT
149821 ATCTAGTATCGATATTGTTC
1 ATCTAGTATCGATATTGTTC
149841 ATCTTAGTATCGATATTGTTC
1 ATC-TAGTATCGATATTGTTC
149862 ATCTAGTATCGATA
1 ATCTAGTATCGATA
149876 CTCAAACCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATCTAGTATCGATATTGTTC
Found at i:150149 original size:19 final size:17
Alignment explanation
Indices: 150127--150170 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
150117 CCGAAGACCC
150127 ATTTTTATTATTATTTTAT
1 ATTTTTATTA-T-TTTTAT
*
150146 ATTTATATTATTTTTAT
1 ATTTTTATTATTTTTAT
*
150163 AATTTTAT
1 ATTTTTAT
150171 GCAAGCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 12 0.55
18 1 0.05
19 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTATTATTTTTAT
Found at i:163028 original size:20 final size:21
Alignment explanation
Indices: 162990--163029 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
162980 ATTGCAGGAA
* *
162990 TTTATGGCTTCGACGAAAGAT
1 TTTATGGCCTCCACGAAAGAT
163011 TTTATGGCCTCCAC-AAAGA
1 TTTATGGCCTCCACGAAAGA
163030 CCTTGATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (21 bp):
TTTATGGCCTCCACGAAAGAT
Found at i:164591 original size:11 final size:11
Alignment explanation
Indices: 164570--164600 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
164560 TTGAACAGGA
164570 GAATAGTTTGTT
1 GAAT-GTTTGTT
164582 GAATGTTTGTT
1 GAATGTTTGTT
164593 GAATGTTT
1 GAATGTTT
164601 TGTCACAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (11 bp):
GAATGTTTGTT
Found at i:174603 original size:24 final size:24
Alignment explanation
Indices: 174576--174654 Score: 113
Period size: 24 Copynumber: 3.3 Consensus size: 24
174566 TACCTAACTA
*
174576 GGATTCTGATCGGATACTTGACCT
1 GGATTATGATCGGATACTTGACCT
* *
174600 GGATTATGATCGAATACTTGACAT
1 GGATTATGATCGGATACTTGACCT
* *
174624 GGATTTTGATCTGATACTTGACCT
1 GGATTATGATCGGATACTTGACCT
174648 GGATTAT
1 GGATTAT
174655 ATTTTGATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (24 bp):
GGATTATGATCGGATACTTGACCT
Found at i:184492 original size:40 final size:39
Alignment explanation
Indices: 184427--184533 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 39
184417 TAAAATGTGA
* *
184427 CATAACATATTCA-GTTGCACCCTAAAATGTGACATTCTT
1 CATAACAT-TTTAGGTTGCAACCTAAAATGTGACATTCTT
* * * *
184466 CATAACTTTTTTGGTTGACAACCTAAAATGTTACCTTCTT
1 CATAACATTTTAGGTTG-CAACCTAAAATGTGACATTCTT
** *
184506 TGTAACATTTTAGGTTGCAACCAAAAAT
1 CATAACATTTTAGGTTGCAACCTAAAAT
184534 ATTATAAAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
38 2 0.04
39 21 0.38
40 32 0.58
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (39 bp):
CATAACATTTTAGGTTGCAACCTAAAATGTGACATTCTT
Found at i:184787 original size:32 final size:32
Alignment explanation
Indices: 184750--184810 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
184740 TGTTCGAATC
184750 AATATCG-GATTGGTT-GACTTTTGGGTCGGTTT
1 AATATCGTG-TTGGTTAGA-TTTTGGGTCGGTTT
184782 AATATCGTGTTGGTTAGATTTTGGGTCGG
1 AATATCGTGTTGGTTAGATTTTGGGTCGG
184811 GACAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.16, C:0.08, G:0.33, T:0.43
Consensus pattern (32 bp):
AATATCGTGTTGGTTAGATTTTGGGTCGGTTT
Found at i:187388 original size:16 final size:16
Alignment explanation
Indices: 187367--187399 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
187357 ACATCAAAAT
187367 TCAATTTTGAGTATAG
1 TCAATTTTGAGTATAG
*
187383 TCAATTTTGATTATAG
1 TCAATTTTGAGTATAG
187399 T
1 T
187400 TTAGTCACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.48
Consensus pattern (16 bp):
TCAATTTTGAGTATAG
Found at i:192835 original size:90 final size:88
Alignment explanation
Indices: 192681--192853 Score: 283
Period size: 90 Copynumber: 1.9 Consensus size: 88
192671 CTAACACACC
* *
192681 CTTTTATAGCCAAATTACCCTAATCATCTTAGGGTTTTATTATTTCAAATTAATTAAATCTATAT
1 CTTTTATAGCCAAATTACCCTAATCATATTAGGGTTTTATTATTTCAAACTAATTAAATCTATAT
*
192746 TTAATTAATTAGAATTTAATAATT
66 TTAATTAATT-GAAATTAATAATT
* *
192770 CTTTTATATCCAAGTTACCCTAATCATATTAGGAGTTTTATTATTTCAAACTAATTAAATCTATA
1 CTTTTATAGCCAAATTACCCTAATCATATTAGG-GTTTTATTATTTCAAACTAATTAAATCTATA
192835 TTTAATTAATTGAAATTAA
65 TTTAATTAATTGAAATTAA
192854 ATATTTGGGA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 37 0.47
90 41 0.53
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.45
Consensus pattern (88 bp):
CTTTTATAGCCAAATTACCCTAATCATATTAGGGTTTTATTATTTCAAACTAATTAAATCTATAT
TTAATTAATTGAAATTAATAATT
Found at i:196525 original size:15 final size:16
Alignment explanation
Indices: 196500--196529 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
196490 CATTTAAATC
196500 TTTTCTGAAAATGAAA
1 TTTTCTGAAAATGAAA
196516 TTTT-TGAAAATGAA
1 TTTTCTGAAAATGAA
196530 GAATACGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.40
Consensus pattern (16 bp):
TTTTCTGAAAATGAAA
Found at i:197154 original size:42 final size:41
Alignment explanation
Indices: 197086--197165 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 41
197076 TCTTTCAGGC
197086 CATCAGTCAGTCTTTCGAGCATGATGATAAAATCCTTCGAGT
1 CATCAGTCAGTCTTTCGAGCATGATGAT-AAATCCTTCGAGT
* *
197128 CATCTGTCAGTCTTTCGAGCGA-GATGATAAGTCCTTCG
1 CATCAGTCAGTCTTTCGAGC-ATGATGATAAATCCTTCG
197166 GGCCATACGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 9 0.26
42 25 0.71
43 1 0.03
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (41 bp):
CATCAGTCAGTCTTTCGAGCATGATGATAAATCCTTCGAGT
Found at i:197340 original size:255 final size:256
Alignment explanation
Indices: 196558--197648 Score: 1246
Period size: 255 Copynumber: 4.2 Consensus size: 256
196548 TTCTTACTTA
* * ** * *
196558 GTAAGTCCTTCGAGCCATGAGTAAGTCTTTTAAGCATGATGATTAAATCCTTCGCGTCATCTGTA
1 GTAAGTCATTCG-GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTC
* * *
196623 AGTCTTTCGAGCAAGTTGATAAGTCCTTCGGGCCATCTATAAGACTTTTGGGCAGGATG-TTTCT
65 AGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGG-AGGATGTTTTC-
* * * * *
196687 ACATGATTTTGGAAAAATAAGAAAGCGATTT-CAGAAGTTTCTCATTTAAATCTTTT-TTGAAAA
128 ACATGAATTT-GAAAAATGAGAAAGCGATTTCCA-AAGTTTCTCATTT-AATGTTTTCATAAAAA
* *
196750 TGAAATTTTTGAAAAGTAAGAAAGCGA--TCCAAAGTTTCTTACCTAGTAAATTATTTCCAAAAT
190 TGAAATTTTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAAT
**
196813 CA
255 TT
* * * * * *
196815 GTAAGTTATTTGGGCCATCAGTAAGTCTTTCGCGAATGGTGATTAAATCCTTC-AGGTTATCTGT
1 GTAAGTCA-TTCGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGA-GTCATCTGT
* * * * *
196879 AAGTCTTTCAAGCAAGATGATAAGTCCTTCGGTCCATCCTA-AA-ACCTTCGAGTAGGATATTTT
64 CAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT-CTATAAGACCTTCG-GGAGGATGTTTT
* * * * * *
196942 TACATGAATTTGAAAAATGAGAAAGCTATTTTCAAAGTTTCTCATTTAGTATTTTCA-GAAAAT-
127 CACATGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTCATAAAAATG
* ** * * * *
197005 AAATTTTTTGAAAACTAAGAAAGTGATTTACAAATTTTCTCA-CTCAATAAACTATTTCCAAAAT
192 AAA-TTTTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTCTTACCT-AGTAAACTATTTCCAAAAT
197069 TT
255 TT
* * *
197071 GTAAGTCTTTCAGGCCATCAGTCAGTCTTTCGAGCATGATGATAAAATCCTTCGAGTCATCTGTC
1 GTAAGTCATTC-GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTC
* * * *
197136 AGTCTTTCGAGCGAGATGATAAGTCCTTCGGGCCATAC-GTAAGACCTTCAGG-TGATGTTTTCA
65 AGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT-CTATAAGACCTTCGGGAGGATGTTTTCA
* *
197199 AATGAATTTGAAAGAA-GAGAAAGCGATTTCCAAAGTTTCTCATTTAGTGTTTTCAT-AAAATGA
129 CATGAATTTGAAA-AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTCATAAAAATGA
* * * * *
197262 AATTTTTAAAAAGTAAGAAAGCAATTTCCATAGTTTCTTACATGGTAAACTATTTCCCAAA-TT
193 AATTTTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTT
*
197325 GATAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGT
1 G-TAAGTCATTC-GGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGT
* * *
197390 CAGTCTTTCTAGCAAGATGATAAGTCCTTTGGGCCATCTATAAGACCTTCGGGAAGGATGTTTCC
64 CAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGG-AGGATGTTTTC
* * *
197455 ACATGATTTTTGAAAAACGAGAAAGTGATTTCCAAAGTTTCTCATTTAATGTTTTC-TAAAAATG
128 ACATGA-ATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTCATAAAAATG
* * *
197519 AAATTTTTGAAAAGTAAGAAAG-AGATTTCCAATGTTTCTTACCTTGTAGACTATTTCCAAAATT
192 AAATTTTTGAAAAGTAAGAAAGCA-ATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATT
197583 T
256 T
* * *
197584 GTAAGTCATTCGAGCCATCAGTAAATCTTTCGAGCATGATGATTAAATCCTTCGGGTTATCTGTC
1 GTAAGTCATTCG-GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTC
197649 GGTTTCACTT
Statistics
Matches: 710, Mismatches: 95, Indels: 57
0.82 0.11 0.07
Matches are distributed among these distances:
253 3 0.00
254 36 0.05
255 247 0.35
256 142 0.20
257 113 0.16
258 166 0.23
259 3 0.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (256 bp):
GTAAGTCATTCGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTCA
GTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCGGGAGGATGTTTTCACA
TGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTCATAAAAATGAAAT
TTTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTT
Found at i:197528 original size:513 final size:512
Alignment explanation
Indices: 196558--197648 Score: 1334
Period size: 513 Copynumber: 2.1 Consensus size: 512
196548 TTCTTACTTA
* * ** * *
196558 GTAAGTCCTTCGAGCCATGAGTAAGTCTTTTAAGCATGATGATTAAATCCTTCGCGTCATCTGTA
1 GTAAGTCATTCGAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTC
* * **
196623 AGTCTTTCGAGCAAGTTGATAAGTCCTTCGGGCCATCTATAAGACTTTTGGGCAGGATGTTTCTA
66 AGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCAGG-AGGATGTTTCTA
* * *
196688 CATGATTTTGGAAAAATAAGAAAGCGATTTCAGAAGTTTCTCATTTAAATCTTTTTTGAAAATGA
130 AATGAATTTGGAAAAATAAGAAAGCGATTTCAGAAGTTTCTCATTTAAATCTTTTATGAAAATGA
* * * *
196753 AATTTTTGAAAAGTAAGAAAGCGATCCAAAGTTTCTTACCTAGTAAATTATTTCCAAAATCAGTA
195 AATTTTTAAAAAGTAAGAAAGCAATCCAAAGTTTCTTACATAGTAAACTATTTCCAAAATCAGTA
* ** * * *
196818 AGTTATTTGGGCCATCAGTAAGTCTTTCGCGAATGGTGATTAAATCCTTCAGGTTATCTGTAAGT
260 AGTCATTCAGGCCATCAGTAAGTCTTTCGAGAATGATGATTAAATCCTTCAGGTCATCTGTAAGT
* * **
196883 CTTTCAAGCAAGATGATAAGTCCTTCGGTCCATCCTAAAACCTTCGAGTAGGATATTTTTACATG
325 CTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCCTAAAACCTTCGAGAAGGATATTTCCACATG
* * *
196948 AATTTGAAAAATGAGAAAGCTATTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATAAATTTTT
390 AATTTGAAAAACGAGAAAGCTATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATAAATTTTT
*
197013 TGAAAACTAAGAAAGTGATTTACAAAT-TTTCTCA-CTCAATAAACTATTTCCAAAATTT
455 TGAAAACTAAGAAAGAGATTT-CAAATGTTTCTCACCT-AATAAACTATTTCCAAAATTT
* * *
197071 GTAAGTCTTTC-AGGCCATCAGTCAGTCTTTCGAGCATGATGATAAAATCCTTCGAGTCATCTGT
1 GTAAGTCATTCGA-GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGT
* * *
197135 CAGTCTTTCGAGCGAGATGATAAGTCCTTCGGGCCATAC-GTAAGACCTTCAGG-TGATGTTT-T
65 CAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAT-CTATAAGACCTTCAGGAGGATGTTTCT
* * *
197197 CAAATGAATTT-GAAAGAA-GAGAAAGCGATTTCCA-AAGTTTCTCATTT-AGTGTTTTCAT-AA
129 -AAATGAATTTGGAAA-AATAAGAAAGCGATTT-CAGAAGTTTCTCATTTAAATCTTTT-ATGAA
* * *
197257 AATGAAATTTTTAAAAAGTAAGAAAGCAATTTCCATAGTTTCTTACATGGTAAACTATTTCCCAA
190 AATGAAATTTTTAAAAAGTAAGAAAGCAA--TCCAAAGTTTCTTACATAGTAAACTATTTCCAAA
* * *
197322 AT-TGATAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTC-GAGTCA
253 ATCAG-TAAGTCATTCAGGCCATCAGTAAGTCTTTCGAGAATGATGATTAAATCCTTCAG-GTCA
* * * *
197385 TCTGTCAGTCTTTCTAGCAAGATGATAAGTCCTTTGGGCCAT-CTATAAGACCTTCGGGAAGGAT
316 TCTGTAAGTCTTTCAAGCAAGATGATAAGTCCTTCGGGCCATCCTA-AA-ACCTTCGAGAAGGAT
* * *
197449 GTTTCCACATGATTTTTGAAAAACGAGAAAG-TGATTTCCAAAGTTTCTCATTTAATGTTTTCTA
379 ATTTCCACATGA-ATTTGAAAAACGAGAAAGCT-ATTTCCAAAGTTTCTCATTTAATATTTTC-A
* * * ** *
197513 -AAAATGAAA-TTTTTGAAAAGTAAGAAAGAGATTTCCAATGTTTCTTACCTTGTAGACTATTTC
441 GAAAAT-AAATTTTTTGAAAACTAAGAAAGAGATTTCAAATGTTTCTCACCTAATAAACTATTTC
197576 CAAAATTT
505 CAAAATTT
* * *
197584 GTAAGTCATTCGAGCCATCAGTAAATCTTTCGAGCATGATGATTAAATCCTTCGGGTTATCTGTC
1 GTAAGTCATTCGAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTC
197649 GGTTTCACTT
Statistics
Matches: 495, Mismatches: 64, Indels: 38
0.83 0.11 0.06
Matches are distributed among these distances:
509 35 0.07
510 36 0.07
511 138 0.28
512 28 0.06
513 250 0.51
514 8 0.02
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (512 bp):
GTAAGTCATTCGAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTC
AGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCAGGAGGATGTTTCTAA
ATGAATTTGGAAAAATAAGAAAGCGATTTCAGAAGTTTCTCATTTAAATCTTTTATGAAAATGAA
ATTTTTAAAAAGTAAGAAAGCAATCCAAAGTTTCTTACATAGTAAACTATTTCCAAAATCAGTAA
GTCATTCAGGCCATCAGTAAGTCTTTCGAGAATGATGATTAAATCCTTCAGGTCATCTGTAAGTC
TTTCAAGCAAGATGATAAGTCCTTCGGGCCATCCTAAAACCTTCGAGAAGGATATTTCCACATGA
ATTTGAAAAACGAGAAAGCTATTTCCAAAGTTTCTCATTTAATATTTTCAGAAAATAAATTTTTT
GAAAACTAAGAAAGAGATTTCAAATGTTTCTCACCTAATAAACTATTTCCAAAATTT
Found at i:198090 original size:36 final size:36
Alignment explanation
Indices: 198045--198123 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
198035 CACTGTGCCA
*
198045 AAATCATCATCTCGTATCAAATAGTAAAGGGGAACC
1 AAATCATCATCTCGCATCAAATAGTAAAGGGGAACC
198081 AAATCATCATCTCGCATCAAATAGTAAAGGGGAACC
1 AAATCATCATCTCGCATCAAATAGTAAAGGGGAACC
198117 AAATCAT
1 AAATCAT
198124 AAAAAATAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (36 bp):
AAATCATCATCTCGCATCAAATAGTAAAGGGGAACC
Found at i:199964 original size:14 final size:14
Alignment explanation
Indices: 199945--199971 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
199935 TTTTTATCTT
199945 TTAAAATTATTTTC
1 TTAAAATTATTTTC
199959 TTAAAATTATTTT
1 TTAAAATTATTTT
199972 AAAAGGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAAAATTATTTTC
Found at i:201918 original size:46 final size:47
Alignment explanation
Indices: 201827--201933 Score: 153
Period size: 46 Copynumber: 2.3 Consensus size: 47
201817 TTATTCATTA
* * *
201827 ATTTCATTTATGGAATCCTTTCATACCTTTAATGCACCCTTTCATGC
1 ATTTCATTTATGGAATCATTCCATACCTTTAATGCACCATTTCATGC
* * *
201874 ATTTCATTTATGGCATCATTCCATGCC-TTAATGCATCATTTCATGC
1 ATTTCATTTATGGAATCATTCCATACCTTTAATGCACCATTTCATGC
201920 ATTTCATTTATGGA
1 ATTTCATTTATGGA
201934 TTCGTTTCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
46 30 0.57
47 23 0.43
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.43
Consensus pattern (47 bp):
ATTTCATTTATGGAATCATTCCATACCTTTAATGCACCATTTCATGC
Found at i:203469 original size:55 final size:55
Alignment explanation
Indices: 203383--203539 Score: 197
Period size: 55 Copynumber: 2.8 Consensus size: 55
203373 ATGACACTGA
* * * *
203383 GTGTGCAAAAAGTTGAGAAATTCATAGTAAGTGTACGAATATCCGTAAGGGCACTTT
1 GTGTGC-AAAA-TTGAGAAATTCATACTAAGTGTATGAATTTCCGTAAGAGCACTTT
* *
203440 GTGTGCAAAATTGAGAAATTCATACTAAGTGTATGAATTTACGTATGAGCACTTT
1 GTGTGCAAAATTGAGAAATTCATACTAAGTGTATGAATTTCCGTAAGAGCACTTT
* * * * *
203495 CTGTGTAAAACTGAGAAACTCATACTACGTGTATGAATTTCCGTA
1 GTGTGCAAAATTGAGAAATTCATACTAAGTGTATGAATTTCCGTA
203540 TGGACACTGC
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
55 78 0.89
56 4 0.05
57 6 0.07
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (55 bp):
GTGTGCAAAATTGAGAAATTCATACTAAGTGTATGAATTTCCGTAAGAGCACTTT
Found at i:203921 original size:67 final size:68
Alignment explanation
Indices: 203811--203996 Score: 259
Period size: 67 Copynumber: 2.8 Consensus size: 68
203801 ATTAATAGAC
* * * * *
203811 CTAACTGTCCATTTGATAGAAATGTTTAATTTATGCGAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
203876 G-T
66 GAT
* * *
203878 CATAACTGTGCATATGACAGAAA-GTGTAAATTATGCCAGTTAGATGAAACGCTAAGTGCCTTTG
1 C-TAACTGTGCATTTGACAGAAAGGTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
203942 AGAT
65 AGAT
* *
203946 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGG
1 CTAACTGTGCATTTGACAGAAAGGTGTAATTTATGCCAGTTAGATGAAAGG
203997 TTAAATACCA
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
67 60 0.58
68 44 0.42
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (68 bp):
CTAACTGTGCATTTGACAGAAAGGTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GAT
Found at i:204081 original size:81 final size:81
Alignment explanation
Indices: 203946--204244 Score: 418
Period size: 81 Copynumber: 3.7 Consensus size: 81
203936 CCTTTGAGAT
* * * * * *
203946 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGTTAAATACCATTGA
1 CTAACTGAGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCATTGA
204011 GTAAAAGAATAATGGC
66 GTAAAAGAATAATGGC
** *
204027 CTAACTGAGCAATTGGCAGAAATATGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGA
1 CTAACTGAGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCATTGA
204092 GTAAAAGAATAATGGC
66 GTAAAAGAATAATGGC
* * * * *
204108 CTAACTCAGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAAATGAACAGTTAAATACCTTTGA
1 CTAACTGAGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCATTGA
*
204173 GTAAAACAATAATGGC
66 GTAAAAGAATAATGGC
* * * * *
204189 CTAACTGCGCAATTGGCAGAAAGGTGTCAATGATGCCAATTAGAAGAATGGTTAAA
1 CTAACTGAGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAA
204245 CATTGTTCAG
Statistics
Matches: 194, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 194 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (81 bp):
CTAACTGAGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCATTGA
GTAAAAGAATAATGGC
Found at i:209038 original size:55 final size:52
Alignment explanation
Indices: 208921--209061 Score: 162
Period size: 55 Copynumber: 2.7 Consensus size: 52
208911 TGTAAAAAGT
* * *
208921 TGAGAAATTCATAGTAAGTGTATGAATTTCCG--T-CACTTTGTGTGCAAAA
1 TGAGAAATTCATACTAAGTGTATGAATTTACGTATGCACTTTCTGTGCAAAA
*
208970 TCGAGAAATTCATACTAAGTGTATGAATTTACGTATGAGCACTTTCTGTGTAAAA
1 T-GAGAAATTCATACTAAGTGTATGAATTTACGTAT--GCACTTTCTGTGCAAAA
* * *
209025 CTGAGAAACTCATACTACGTGTATGAATTTTCGTATG
1 -TGAGAAATTCATACTAAGTGTATGAATTTACGTATG
209062 GACACTACGT
Statistics
Matches: 78, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
49 1 0.01
50 29 0.37
52 1 0.01
53 1 0.01
55 45 0.58
56 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (52 bp):
TGAGAAATTCATACTAAGTGTATGAATTTACGTATGCACTTTCTGTGCAAAA
Found at i:209407 original size:68 final size:68
Alignment explanation
Indices: 209328--209651 Score: 406
Period size: 68 Copynumber: 4.8 Consensus size: 68
209318 AAAGATTAAT
* * * * *
209328 AGGCCTAACTGTACATTTGATAGGAA-GATGTCATTTATGCCTA-TTAGATAAAAGGCTAAGTGC
1 AGGCCTAACTGTGCATTTGACAGAAATG-TGTCAATTATGCC-AGTTAGATGAAAGGCTAAGTGC
209391 CTTTG
64 CTTTG
* *
209396 AGGCCTAACTGTGCATTTGAAAGAAATGTGTCAATTATGCCAGTTATATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
209461 TTG
66 TTG
* * * *
209464 AGGCCAAACTGTGCATTTGACAGAAAGGTGTCAATTATGCTAGCTAGATGAAAGGCTCAA-TGCC
1 AGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCT-AAGTGCC
209528 TTTG
65 TTTG
* *
209532 AGGCCTAATTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
209597 TTG
66 TTG
* * * * *
209600 AGGCCTAACAATGT-AATTGGA-AAAAAGGTGTCAATTATGCCAGTTAAATGAA
1 AGGCCTAAC--TGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
209652 TGGTTAAATA
Statistics
Matches: 225, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
67 3 0.01
68 211 0.94
69 8 0.04
70 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:209739 original size:81 final size:81
Alignment explanation
Indices: 209614--209997 Score: 486
Period size: 81 Copynumber: 4.7 Consensus size: 81
209604 CTAACAATGT
* * * *
209614 AATTGGAAAAAAGGTGTCAATTATGCCAGTTAAATGAATGGTTAAATACCGTTGAGTAAAAGAAT
1 AATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCGTTGAGTAAAAGAAT
*
209679 AATGGACTAACTGAGC
66 AATGGCCTAACTGAGC
209695 AATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCGTTGAGTAAAAGAAT
1 AATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCGTTGAGTAAAAGAAT
* *
209760 AATGTCCTAGCTGAGC
66 AATGGCCTAACTGAGC
* * *
209776 AATTGGCAGAATA-GTGTCAATTATGCCATTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAA
1 AATTGGCAGAA-AGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCGTTGAGTAAAAGAA
*
209840 TAATGTCCTAACTGAGC
65 TAATGGCCTAACTGAGC
* * * * * * *
209857 AATTGGCAGAAACGTGTCAATTATGCCAATTAGATGAACGATTAAATACCATTAAGTAAAATAAT
1 AATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCGTTGAGTAAAAGAAT
* *
209922 AATTGTCTAACT-ATGC
66 AATGGCCTAACTGA-GC
* * * * **
209938 AATTGGCAGAAAGGTGTCAATGATGCCAGCTAGAAGAACA-GTTAAACACTATTGAGTAAA
1 AATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA-AGGTTAAATACCGTTGAGTAAA
209998 CGATGAAAGG
Statistics
Matches: 269, Mismatches: 30, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
80 2 0.01
81 266 0.99
82 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (81 bp):
AATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCGTTGAGTAAAAGAAT
AATGGCCTAACTGAGC
Found at i:216882 original size:26 final size:24
Alignment explanation
Indices: 216816--217090 Score: 94
Period size: 20 Copynumber: 12.0 Consensus size: 24
216806 TTATTCGTTA
216816 ATTTCATTTATGGCATCCTTTCATG
1 ATTTCATTTAT-GCATCCTTTCATG
* * *
216841 ----CCTTTAATGTACCCTTTCATG
1 ATTTCATTT-ATGCATCCTTTCATG
216862 TATTTCATTTATGACATCCTTT-A--
1 -ATTTCATTTATG-CATCCTTTCATG
* * *
216885 A-TGCCTTAATGCATCCTTTCATG
1 ATTTCATTTATGCATCCTTTCATG
216908 CATTTCATTTATGGCATCCTTT-A--
1 -ATTTCATTTAT-GCATCCTTTCATG
* * *
216931 A-TGCCTTAATGCATCCTTTCATG
1 ATTTCATTTATGCATCCTTTCATG
* *
216954 ----CCTTAATGCATCCTTTCATG
1 ATTTCATTTATGCATCCTTTCATG
*
216974 CATTTCATTTATGGCATCCTTTCACG
1 -ATTTCATTTAT-GCATCCTTTCATG
* * *
217000 ----CCTTAATACATCCTTTCATG
1 ATTTCATTTATGCATCCTTTCATG
*
217020 CATTTCATTTATGGGATCCTTTCATG
1 -ATTTCATTTAT-GCATCCTTTCATG
* * *
217046 ----CCTTAATGCATCCTTTCTTG
1 ATTTCATTTATGCATCCTTTCATG
*
217066 CATTTTATTTATGGCATCCTTTCAT
1 -ATTTCATTTAT-GCATCCTTTCAT
217091 TCCTTAATGC
Statistics
Matches: 182, Mismatches: 34, Indels: 67
0.64 0.12 0.24
Matches are distributed among these distances:
20 59 0.32
21 40 0.22
22 4 0.02
24 1 0.01
25 25 0.14
26 53 0.29
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (24 bp):
ATTTCATTTATGCATCCTTTCATG
Found at i:216901 original size:20 final size:20
Alignment explanation
Indices: 216876--217152 Score: 230
Period size: 20 Copynumber: 12.7 Consensus size: 20
216866 TCATTTATGA
*
216876 CATCCTTTAATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
216896 CATCCTTTCATGCATTTCATTTATGG
1 CATCCTTTCATGC----C-TTAAT-G
*
216922 CATCCTTTAATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
216942 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
216962 CATCCTTTCATGCATTTCATTTATGG
1 CATCCTTTCATGC----C-TTAAT-G
* *
216988 CATCCTTTCACGCCTTAATA
1 CATCCTTTCATGCCTTAATG
*
217008 CATCCTTTCATGCATTTCATTTATGG
1 CATCCTTTCATGC----C-TTAAT-G
*
217034 GATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
* *
217054 CATCCTTTCTTGCATTTTATTTATGG
1 CATCCTTTCATGC--CTTA---AT-G
*
217080 CATCCTTTCATTCCTTAATG
1 CATCCTTTCATGCCTTAATG
217100 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
217120 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
217140 CATCCTTCCATGC
1 CATCCTTTCATGC
217153 ATTTTATTTA
Statistics
Matches: 211, Mismatches: 22, Indels: 48
0.75 0.08 0.17
Matches are distributed among these distances:
20 121 0.57
21 14 0.07
22 6 0.03
24 6 0.03
25 14 0.07
26 50 0.24
ACGTcount: A:0.20, C:0.27, G:0.10, T:0.43
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATG
Found at i:216913 original size:46 final size:46
Alignment explanation
Indices: 216816--216954 Score: 224
Period size: 46 Copynumber: 3.0 Consensus size: 46
216806 TTATTCGTTA
* * * *
216816 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGTACCCTTTCATGT
1 ATTTCATTTATGGCATCCTTTAATGCC-TTAATGCATCCTTTCATGC
*
216863 ATTTCATTTATGACATCCTTTAATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTAATGCCTTAATGCATCCTTTCATGC
216909 ATTTCATTTATGGCATCCTTTAATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTAATGCCTTAATGCATCCTTTCATGC
216955 CTTAATGCAT
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
46 61 0.71
47 25 0.29
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.45
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTAATGCCTTAATGCATCCTTTCATGC
Found at i:216956 original size:66 final size:66
Alignment explanation
Indices: 216875--217020 Score: 256
Period size: 66 Copynumber: 2.2 Consensus size: 66
216865 TTCATTTATG
* *
216875 ACATCCTTTAATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTAATGCCTTAA
1 ACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTAACGCCTTAA
216940 T
66 T
* *
216941 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCACGCCTTAA
1 ACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTAACGCCTTAA
217006 T
66 T
217007 ACATCCTTTCATGC
1 ACATCCTTTCATGC
217021 ATTTCATTTA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 75 1.00
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (66 bp):
ACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTAACGCCTTAA
T
Found at i:216991 original size:46 final size:46
Alignment explanation
Indices: 216941--217165 Score: 327
Period size: 46 Copynumber: 5.0 Consensus size: 46
216931 ATGCCTTAAT
216941 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
* *
216987 GCATCCTTTCACGCCTTAATACATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
* * *
217033 GGATCCTTTCATGCCTTAATGCATCCTTTCTTGCATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
* *
217079 GCATCCTTTCATTCCTTAATGCATCCTTTCATGC----C-TTAAT-
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
* *
217119 GCATCCTTTCATGCCTTAATGCATCCTTCCATGCATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
217165 G
1 G
217166 ATTCATTTTA
Statistics
Matches: 157, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
40 32 0.20
41 4 0.03
45 4 0.03
46 117 0.75
ACGTcount: A:0.20, C:0.26, G:0.11, T:0.44
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
Found at i:217026 original size:112 final size:113
Alignment explanation
Indices: 216828--217062 Score: 382
Period size: 112 Copynumber: 2.1 Consensus size: 113
216818 TTCATTTATG
* * *
216828 GCATCCTTTCATGCCTTTAATGTACCCTTTCATGTATTTCATTTATGACATCCTTTAATGCCTTA
1 GCATCCTTTCATGCCTTTAATGCACCCTTTCATGCATTTCATTTATGACATCCTTTAACGCCTTA
*
216893 ATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTAATGCCTTAAT
66 ATACATCCTTTCATGCATTTCATTTATGGCATCCTTTAATGCCTTAAT
* * *
216941 GCATCCTTTCATGCC-TTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCACGCCTTA
1 GCATCCTTTCATGCCTTTAATGCACCCTTTCATGCATTTCATTTATGACATCCTTTAACGCCTTA
* *
217005 ATACATCCTTTCATGCATTTCATTTATGGGATCCTTTCATGCCTTAAT
66 ATACATCCTTTCATGCATTTCATTTATGGCATCCTTTAATGCCTTAAT
217053 GCATCCTTTC
1 GCATCCTTTC
217063 TTGCATTTTA
Statistics
Matches: 113, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
112 98 0.87
113 15 0.13
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.43
Consensus pattern (113 bp):
GCATCCTTTCATGCCTTTAATGCACCCTTTCATGCATTTCATTTATGACATCCTTTAACGCCTTA
ATACATCCTTTCATGCATTTCATTTATGGCATCCTTTAATGCCTTAAT
Found at i:217057 original size:66 final size:66
Alignment explanation
Indices: 216987--217165 Score: 182
Period size: 66 Copynumber: 2.7 Consensus size: 66
216977 TTCATTTATG
* * *
216987 GCATCCTTTCACGCCTTAATACATCCTTTCATGCATTTCATTTATGGGATCCTTTCATGCCTTAA
1 GCATCCTTTCATGCCTTAATACATCCTTCCATGCATTTCATTTATGGCATCCTTTCATGCCTTAA
217052 T
66 T
* * * ** * * * * * *
217053 GCATCCTTTCTTGCATTTTATTTATGGCATCCTTTCA-TTCCTTAAT-GCATCCTTTCATGCCTT
1 GCATCCTTTCATGC-CTTAATACAT-CCTTCCATGCATTTCATTTATGGCATCCTTTCATGCCTT
217116 AAT
64 AAT
* *
217119 GCATCCTTTCATGCCTTAATGCATCCTTCCATGCATTTTATTTATGG
1 GCATCCTTTCATGCCTTAATACATCCTTCCATGCATTTCATTTATGG
217166 ATTCATTTTA
Statistics
Matches: 83, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
64 7 0.08
65 12 0.14
66 45 0.54
67 13 0.16
68 6 0.07
ACGTcount: A:0.20, C:0.26, G:0.11, T:0.44
Consensus pattern (66 bp):
GCATCCTTTCATGCCTTAATACATCCTTCCATGCATTTCATTTATGGCATCCTTTCATGCCTTAA
T
Found at i:217085 original size:158 final size:159
Alignment explanation
Indices: 216816--217132 Score: 519
Period size: 158 Copynumber: 2.0 Consensus size: 159
216806 TTATTCGTTA
* ** *
216816 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGTACCCTTTCATGTATTTCATTTATGACATCC
1 ATTTCATTTATGGCATCCTTTCACGCCTTTAATACACCCTTTCATGCATTTCATTTATGACATCC
216881 TTTAATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTAATGCCTTAATGCATC
66 TTTAATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTAATGCCTTAATGCATC
216946 CTTTCATGCCTTAATGCATCCTTTCATGC
131 CTTTCATGCCTTAATGCATCCTTTCATGC
* **
216975 ATTTCATTTATGGCATCCTTTCACGCC-TTAATACATCCTTTCATGCATTTCATTTATGGGATCC
1 ATTTCATTTATGGCATCCTTTCACGCCTTTAATACACCCTTTCATGCATTTCATTTATGACATCC
* * * * *
217039 TTTCATGCCTTAATGCATCCTTTCTTGCATTTTATTTATGGCATCCTTTCATTCCTTAATGCATC
66 TTTAATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTAATGCCTTAATGCATC
217104 CTTTCATGCCTTAATGCATCCTTTCATGC
131 CTTTCATGCCTTAATGCATCCTTTCATGC
217133 CTTAATGCAT
Statistics
Matches: 146, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
158 120 0.82
159 26 0.18
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.44
Consensus pattern (159 bp):
ATTTCATTTATGGCATCCTTTCACGCCTTTAATACACCCTTTCATGCATTTCATTTATGACATCC
TTTAATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTAATGCCTTAATGCATC
CTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:217103 original size:112 final size:111
Alignment explanation
Indices: 216828--217132 Score: 368
Period size: 112 Copynumber: 2.7 Consensus size: 111
216818 TTCATTTATG
* * * * * *
216828 GCATCCTTTCATGCCTTTAATGTACCCTTTCATGTATTTCATTTATGACATCCTTTAATGCCTTA
1 GCATCCTTTCATGCC-TTAATGCATCCTTT-ATGCATTTCATTAATGGCATCCTTTCATGCCTTA
216893 ATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTAATGCCTTAAT
64 ATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTAATGCCTTAAT
* *
216941 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCACGCCTTAA
1 GCATCCTTTCATGCCTTAATGCATCCTTT-ATGCATTTCATTAATGGCATCCTTTCATGCCTTAA
* * *
217006 TACATCCTTTCATGCATTTCATTTATGGGATCCTTTCATGCCTTAAT
65 TGCATCCTTTCATGCATTTCATTTATGGCATCCTTTAATGCCTTAAT
* * *
217053 GCATCCTTTCTTGCATTTTATTTATGGCATCC-TT-T-CA-TTCCTTAAT-GCATCCTTTCATGC
1 GCATCCTTTCATGC--CTTA---AT-GCATCCTTTATGCATTTCATTAATGGCATCCTTTCATGC
217113 CTTAATGCATCCTTTCATGC
60 CTTAATGCATCCTTTCATGC
217133 CTTAATGCAT
Statistics
Matches: 171, Mismatches: 15, Indels: 13
0.86 0.08 0.07
Matches are distributed among these distances:
112 133 0.78
113 22 0.13
114 5 0.03
115 1 0.01
117 4 0.02
118 6 0.04
ACGTcount: A:0.20, C:0.26, G:0.10, T:0.44
Consensus pattern (111 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTATGCATTTCATTAATGGCATCCTTTCATGCCTTAAT
GCATCCTTTCATGCATTTCATTTATGGCATCCTTTAATGCCTTAAT
Found at i:237897 original size:22 final size:22
Alignment explanation
Indices: 237871--237946 Score: 134
Period size: 22 Copynumber: 3.5 Consensus size: 22
237861 ATCGTTCCCT
237871 TCCCTCCATTCTCTTAGTGGTG
1 TCCCTCCATTCTCTTAGTGGTG
*
237893 TCCCTCAATTCTCTTAGTGGTG
1 TCCCTCCATTCTCTTAGTGGTG
237915 TCCCTCCATTCTCTTAGTGGTG
1 TCCCTCCATTCTCTTAGTGGTG
*
237937 TTCCTCCATT
1 TCCCTCCATT
237947 AACGAGCTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.11, C:0.32, G:0.16, T:0.42
Consensus pattern (22 bp):
TCCCTCCATTCTCTTAGTGGTG
Found at i:242694 original size:20 final size:20
Alignment explanation
Indices: 242665--242708 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
242655 CAACATCAAA
242665 GTATTGATACCATCAGGTGG
1 GTATTGATACCATCAGGTGG
*
242685 GTATTTATACCATCAGGTGG
1 GTATTGATACCATCAGGTGG
242705 GTAT
1 GTAT
242709 CAATACTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (20 bp):
GTATTGATACCATCAGGTGG
Found at i:242714 original size:20 final size:20
Alignment explanation
Indices: 242671--242720 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
242661 CAAAGTATTG
**
242671 ATACCATCAGGTGGGTATTT
1 ATACCATCAGGTGGGTATCA
242691 ATACCATCAGGTGGGTATCA
1 ATACCATCAGGTGGGTATCA
*
242711 ATACTATCAG
1 ATACCATCAG
242721 ATGAATATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (20 bp):
ATACCATCAGGTGGGTATCA
Found at i:253546 original size:18 final size:20
Alignment explanation
Indices: 253515--253552 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
253505 AAGACATATG
253515 CATTCATTTAAAGTTATGTA
1 CATTCATTTAAAGTTATGTA
253535 CATTCA-TT-AAGTTATGTA
1 CATTCATTTAAAGTTATGTA
253553 TTTTAGCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (20 bp):
CATTCATTTAAAGTTATGTA
Found at i:257231 original size:2 final size:2
Alignment explanation
Indices: 257224--257253 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
257214 TATTACATGG
257224 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
257254 TACATCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:262007 original size:16 final size:16
Alignment explanation
Indices: 261986--262029 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
261976 GATTGTTAGA
*
261986 ATTTGACCCAAATTTG
1 ATTTGACTCAAATTTG
262002 ATTTGACTCAAATTTG
1 ATTTGACTCAAATTTG
262018 ATTTGACTCAAA
1 ATTTGACTCAAA
262030 GTAAAGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (16 bp):
ATTTGACTCAAATTTG
Found at i:263986 original size:202 final size:190
Alignment explanation
Indices: 263630--264020 Score: 485
Period size: 202 Copynumber: 2.0 Consensus size: 190
263620 GAAAAAGTTT
* * *
263630 CCCCTATGTTTTATAATCCTGATTTCTTCGCAGTGCATGATCTTTTGTTTGTTGGAAACTTGATT
1 CCCCTATGTTTTATAACCCCGATTTCTTCGCAATGCATGATCTTTTGTTTGTTGGAAACTTGATT
* * * * *
263695 TTGTTATTCTCCTTAATAATTTTTTCTTAGTACGCATGATTAGGGTTTTGCTCATTTAACTCACT
66 TTGTTATTCTCCTTAATAATTTCTTATTAGTACACATGATTAGAGTTTTGCTCATCTAACTCACT
** *
263760 TCGACATCTAATGTGTACTCAAAATATATACACGTTCTCTTATGTAACACTCCAAATTTTAC
131 TCGACATCTAATGTGTACTCAAAATAT-T-CACGCCCTCTTATGTAACACTCAAAATTTTAC
263822 CCCCTATGTTTTATAACCCCGATTTCTTCGCAATGCATGATCTTTTGTTTGTTGGAAACTTGAAT
1 CCCCTATGTTTTATAACCCCGATTTCTTCGCAATGCATGATCTTTTGTTTGTTGGAAAC------
* * * * **
263887 TTGTGTTATTTTGTTATTTTTCTTAATCATTTCTTATTAGTACACATGATTAGAGTTTTGTTTGT
60 -T-TG--ATTTTGTTATTCTCCTTAATAATTTCTTATTAGTACACATGATTAGAGTTTTGCTCAT
* * **
263952 CTGACTCACTTCGGCATCTAATGTGTACTCAAAATATTCGGGCCCTCTTATGTAACACTCAAAAT
121 CTAACTCACTTCGACATCTAATGTGTACTCAAAATATTCACGCCCTCTTATGTAACACTCAAAAT
264017 TTTA
186 TTTA
264021 GAGTTTAAAT
Statistics
Matches: 168, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
192 56 0.33
199 1 0.01
200 28 0.17
201 1 0.01
202 82 0.49
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (190 bp):
CCCCTATGTTTTATAACCCCGATTTCTTCGCAATGCATGATCTTTTGTTTGTTGGAAACTTGATT
TTGTTATTCTCCTTAATAATTTCTTATTAGTACACATGATTAGAGTTTTGCTCATCTAACTCACT
TCGACATCTAATGTGTACTCAAAATATTCACGCCCTCTTATGTAACACTCAAAATTTTAC
Found at i:266268 original size:27 final size:27
Alignment explanation
Indices: 266235--266288 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
266225 TGCCCTCGAA
266235 CCCAAAATGACTAAAAT-ACCCTCAAGT
1 CCCAAAATGACTAAAATAACCCT-AAGT
266262 CCCAAAATGACTAAAATAACCCTAAGT
1 CCCAAAATGACTAAAATAACCCTAAGT
266289 ACTGAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.46, C:0.28, G:0.07, T:0.19
Consensus pattern (27 bp):
CCCAAAATGACTAAAATAACCCTAAGT
Found at i:266296 original size:27 final size:27
Alignment explanation
Indices: 266236--266312 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
266226 GCCCTCGAAC
*
266236 CCAAAATGACTAAAATACCCTCAAGTC
1 CCAAAATGACTAAAATACCCTCAAGTA
266263 CCAAAATGACTAAAATAACCCT-AAGTA
1 CCAAAATGACTAAAAT-ACCCTCAAGTA
** *
266290 CTGAAATGACCT-AAACACCCTCA
1 CCAAAATGA-CTAAAATACCCTCA
266313 TGATTTGGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.12
27 31 0.72
28 7 0.16
ACGTcount: A:0.45, C:0.29, G:0.08, T:0.18
Consensus pattern (27 bp):
CCAAAATGACTAAAATACCCTCAAGTA
Found at i:269795 original size:2 final size:2
Alignment explanation
Indices: 269790--269836 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
269780 TTTACATATA
* *
269790 TG TG TG TG TG TG TA TG AG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
269832 TG TG T
1 TG TG T
269837 AGGTTTACAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.04, C:0.00, G:0.47, T:0.49
Consensus pattern (2 bp):
TG
Found at i:274642 original size:15 final size:15
Alignment explanation
Indices: 274622--274674 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
274612 TTGAGACATT
274622 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
274637 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
* * *
274652 GCCCGTCCCACATCC
1 ACCCGCCCCGCATCC
274667 ACCCGCCC
1 ACCCGCCC
274675 TGTTAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.13, C:0.66, G:0.13, T:0.08
Consensus pattern (15 bp):
ACCCGCCCCGCATCC
Found at i:284925 original size:16 final size:16
Alignment explanation
Indices: 284901--284931 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
284891 CAGCATGAAA
284901 TAATATTGGGGCATTT
1 TAATATTGGGGCATTT
*
284917 TAATGTTGGGGCATT
1 TAATATTGGGGCATT
284932 GTGAATGCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.29, T:0.42
Consensus pattern (16 bp):
TAATATTGGGGCATTT
Found at i:285671 original size:64 final size:65
Alignment explanation
Indices: 285565--285696 Score: 205
Period size: 64 Copynumber: 2.0 Consensus size: 65
285555 AACCTAGTTT
* * *
285565 GAGATCTGATTAGATGTGGAGACATGAAAGGAATTAGTATAAAT-CTTTTTATGA-GTTATTTCA
1 GAGATCTGATTAGATGTGGAGACATAAAAGGAATTAGGATAAATCCTTCTTATGATG-TATTTCA
285628 A
65 A
*
285629 GAGATCTGATTAGATGTGGAGACATAAAAGGAATTAGGATAAATCCTTCTTGTGATGTATTTCAA
1 GAGATCTGATTAGATGTGGAGACATAAAAGGAATTAGGATAAATCCTTCTTATGATGTATTTCAA
285694 GAG
1 GAG
285697 TCAAATCAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
64 42 0.68
65 19 0.31
66 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (65 bp):
GAGATCTGATTAGATGTGGAGACATAAAAGGAATTAGGATAAATCCTTCTTATGATGTATTTCAA
Found at i:286530 original size:20 final size:20
Alignment explanation
Indices: 286497--286547 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
286487 TCTAGAAAAT
*
286497 TAAATGCCTTCGGGTAATTTG
1 TAAA-GCCTCCGGGTAATTTG
286518 TAAAGCCTCCGGGTAATTTG
1 TAAAGCCTCCGGGTAATTTG
*
286538 TAAAACCTCC
1 TAAAGCCTCC
286548 AGGTTATCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (20 bp):
TAAAGCCTCCGGGTAATTTG
Found at i:286606 original size:140 final size:139
Alignment explanation
Indices: 286393--286680 Score: 486
Period size: 140 Copynumber: 2.1 Consensus size: 139
286383 TTTCCCACAG
286393 ATTTGTAAAACCTCCAGGTCATCTATAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAA
1 ATTTGTAAAACCTCCAGGTCATCTATAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAA
* * * *
286458 AGCGATTTTTAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATGCCTTCGGGTAATTTGTAAAG
66 AGCGATTTTCAAAGTTTCTCATTT-ATGTTCTAGAAAATTAAAAGCCTCCGGGTAATTTGTAAAA
286523 CCTCCGGGTA
130 CCTCCGGGTA
*
286533 ATTTGTAAAACCTCCAGGTTATCTATAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAA
1 ATTTGTAAAACCTCCAGGTCATCTATAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAA
* * *
286598 AGCTATTTTCAAAGTTTCTTATTTTTGTTCTAGAAAATTAAAAGCCTCCGGGTAATTTGTAAAAC
66 AGCGATTTTCAAAGTTTCTCATTTATGTTCTAGAAAATTAAAAGCCTCCGGGTAATTTGTAAAAC
*
286663 CTCCGGTTA
131 CTCCGGGTA
286672 ATTTGTAAA
1 ATTTGTAAA
286681 GCCTTCGGGT
Statistics
Matches: 139, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
139 54 0.39
140 85 0.61
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (139 bp):
ATTTGTAAAACCTCCAGGTCATCTATAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAA
AGCGATTTTCAAAGTTTCTCATTTATGTTCTAGAAAATTAAAAGCCTCCGGGTAATTTGTAAAAC
CTCCGGGTA
Found at i:286667 original size:20 final size:20
Alignment explanation
Indices: 286638--286819 Score: 220
Period size: 20 Copynumber: 9.1 Consensus size: 20
286628 TAGAAAATTA
286638 AAAGCCTCCGGGTAATTTGT
1 AAAGCCTCCGGGTAATTTGT
* *
286658 AAAACCTCCGGTTAATTTGT
1 AAAGCCTCCGGGTAATTTGT
* *
286678 AAAGCCTTCGGGTCATTTGT
1 AAAGCCTCCGGGTAATTTGT
** *
286698 AAAGCCTCCAAGTAATTTAT
1 AAAGCCTCCGGGTAATTTGT
** *
286718 AAAGCCTCAAGGTAATTTTT
1 AAAGCCTCCGGGTAATTTGT
286738 AAAGCCTCCGGGTAATTTGT
1 AAAGCCTCCGGGTAATTTGT
286758 AAAGCCTCCGGGTAATTTGT
1 AAAGCCTCCGGGTAATTTGT
* * *
286778 AAAGCCTTCAGGTCATTTGT
1 AAAGCCTCCGGGTAATTTGT
* * *
286798 AAATCCTTCGGGTCATTTGT
1 AAAGCCTCCGGGTAATTTGT
286818 AA
1 AA
286820 GTTCTTCGAG
Statistics
Matches: 140, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 140 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (20 bp):
AAAGCCTCCGGGTAATTTGT
Found at i:286734 original size:60 final size:59
Alignment explanation
Indices: 286638--286819 Score: 247
Period size: 60 Copynumber: 3.0 Consensus size: 59
286628 TAGAAAATTA
* *
286638 AAAGCCTCCGGGTAATTTGTAAAACCTCCGGTTAATTTGTAAAGCCTTCGGGTCATTTGT
1 AAAGCCTCCGGGTAATTTGTAAAGCCTCAGG-TAATTTGTAAAGCCTTCGGGTCATTTGT
** * * * *
286698 AAAGCCTCCAAGTAATTTATAAAGCCTCAAGGTAATTTTTAAAGCCTCCGGGTAATTTGT
1 AAAGCCTCCGGGTAATTTGTAAAGCCTC-AGGTAATTTGTAAAGCCTTCGGGTCATTTGT
* *
286758 AAAGCCTCCGGGTAATTTGTAAAGCCTTCAGGTCATTTGTAAATCCTTCGGGTCATTTGT
1 AAAGCCTCCGGGTAATTTGTAAAGCC-TCAGGTAATTTGTAAAGCCTTCGGGTCATTTGT
286818 AA
1 AA
286820 GTTCTTCGAG
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
60 100 0.96
61 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (59 bp):
AAAGCCTCCGGGTAATTTGTAAAGCCTCAGGTAATTTGTAAAGCCTTCGGGTCATTTGT
Found at i:290284 original size:12 final size:12
Alignment explanation
Indices: 290267--290312 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
290257 TATTTTATAC
290267 ATGAAATATTAA
1 ATGAAATATTAA
*
290279 ATGAAATATGAA
1 ATGAAATATTAA
*
290291 AT-AAAAATTAA
1 ATGAAATATTAA
290302 ATGAAATATTA
1 ATGAAATATTA
290313 TGATTAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (12 bp):
ATGAAATATTAA
Found at i:292139 original size:26 final size:26
Alignment explanation
Indices: 292103--292152 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
292093 CTTTATACAA
* * *
292103 CATAATGGTATTTTTGTAATTTTCAC
1 CATAAGGGTATTTTCGAAATTTTCAC
292129 CATAAGGGTATTTTCGAAATTTTC
1 CATAAGGGTATTTTCGAAATTTTC
292153 CCTAACAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (26 bp):
CATAAGGGTATTTTCGAAATTTTCAC
Found at i:295895 original size:375 final size:374
Alignment explanation
Indices: 295185--295922 Score: 1043
Period size: 375 Copynumber: 2.0 Consensus size: 374
295175 CAAAAAGCTC
* * * *
295185 CAATTTTATTCGACTGACTGCAAATCATGAACTCCAGATTCTTCTGATATGAACCCTTCACTCTC
1 CAATTTTATCCGACTGACTGCAAATCACGAACTCCAAATTCTTCTGATATGAAACCTTCACTCTC
* * * *
295250 TGATGAAAGTCAACTCAGAAATCTGAGCAAGCTCTCCTATATGAACTCCTCATTTTCAAATATCT
66 TGATGAAAGTAAACTAAAAAATCTAAGCAAGCTCTCCTATATGAACTCCTCATTTTCAAATATCT
* * *
295315 TGGACAGAACAGACGAGATCTCCTATACGAACCCTCCATTATACCATAACAACTCAGTTTGTGTC
131 TGGACAGAACAGACGAGATCTCATATACGAACCCTCAATTATACCAAAACAACTCAGTTTGTGTC
* * *
295380 GAACGAGCTAGCTTATATAAACTCATTCTTCCTACTGAAATGCTTATTCACCTCTTTCTCTGATG
196 GAACGAGCTAGCCTATATAAACTCATTCTTCCTACTGAAAT-CTTATTCACCTCATTCTCTGATA
* * ** * * *
295445 AAATGGAGCAGAAAACACAATGCTGATCCAACTTTTTCTGTGAAGAGTCGAGCAAAATGGCGAAG
260 AAATGGAGCAGAAAACACAATGCTAATCCAAATCCTTCTGTGAAGAATCAAGCAAAATGACGAAG
* *
295510 CTGGCCCACCTCCTTCTATGATCGTGTTGAGCAAAATGGTAATGCTGATT
325 CTGACCCACCTCCTTCTATGATCGTGTTGAACAAAATGGTAATGCTGATT
295560 CAATTTTATCCGACTGACTGCAAATCACGAACTCCAAATTCTTCTGATATGAAACCTTCACTCTC
1 CAATTTTATCCGACTGACTGCAAATCACGAACTCCAAATTCTTCTGATATGAAACCTTCACTCTC
* * * *
295625 TGATGAAATTAAACTAAAAAATCTAAGCAATCTCTCCTATATGAACTCCTCATTTTTAAATGTCT
66 TGATGAAAGTAAACTAAAAAATCTAAGCAAGCTCTCCTATATGAACTCCTCATTTTCAAATATCT
* * * * *
295690 TGGACAGGACAGACGAGGTCTCATATATGAACCCTCAATTCTACCAAAACAACTTTA-TTTAG-G
131 TGGACAGAACAGACGAGATCTCATATACGAACCCTCAATTATACCAAAACAAC-TCAGTTT-GTG
* * *
295753 TCGAACGAGCTCGCCTATATAAAACTCATTCTTCCTATTGAAAT-TTCGATTCACCTCATTCTGT
194 TCGAACGAGCTAGCCTATAT-AAACTCATTCTTCCTACTGAAATCTT--ATTCACCTCATTCTCT
* *
295817 GATAAAAT-GAGTAGAAAACACAATGCTAATCCAAATCCTTCTGTGAAGAATCAAGCAAAGTGAC
256 GATAAAATGGAGCAGAAAACACAATGCTAATCCAAATCCTTCTGTGAAGAATCAAGCAAAATGAC
* *
295881 GAATCTGACCCACCTCCTTCTATGATGGTGTTGAACAAAATG
321 GAAGCTGACCCACCTCCTTCTATGATCGTGTTGAACAAAATG
295923 ACGATGATGT
Statistics
Matches: 319, Mismatches: 39, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
374 2 0.01
375 271 0.85
376 46 0.14
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (374 bp):
CAATTTTATCCGACTGACTGCAAATCACGAACTCCAAATTCTTCTGATATGAAACCTTCACTCTC
TGATGAAAGTAAACTAAAAAATCTAAGCAAGCTCTCCTATATGAACTCCTCATTTTCAAATATCT
TGGACAGAACAGACGAGATCTCATATACGAACCCTCAATTATACCAAAACAACTCAGTTTGTGTC
GAACGAGCTAGCCTATATAAACTCATTCTTCCTACTGAAATCTTATTCACCTCATTCTCTGATAA
AATGGAGCAGAAAACACAATGCTAATCCAAATCCTTCTGTGAAGAATCAAGCAAAATGACGAAGC
TGACCCACCTCCTTCTATGATCGTGTTGAACAAAATGGTAATGCTGATT
Found at i:296609 original size:8 final size:8
Alignment explanation
Indices: 296598--296622 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
296588 CTCACAATCC
296598 ATGTCAAA
1 ATGTCAAA
296606 ATGTCAAA
1 ATGTCAAA
296614 ATGTCAAA
1 ATGTCAAA
296622 A
1 A
296623 ATATTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (8 bp):
ATGTCAAA
Found at i:300846 original size:373 final size:373
Alignment explanation
Indices: 300141--301248 Score: 1515
Period size: 373 Copynumber: 3.0 Consensus size: 373
300131 TTTTATCCAT
* * * *
300141 CTGACTGCAAATCACGAACTCCAGATTCTTTTGATA-AAACCCTTTACTCTCTGATGAAAGTCAA
1 CTGACTGCAAATCACGAACTCCAGATTCTTCTGATATGAACCCTTCACTCTCTGATGAAATTCAA
* * * *
300205 CTCAGAAATCTGAGCAAGCTCTCCTATATGAACTCCTCATTTTCAAATATCTTGGACAGAACTGA
66 CTCGGAAATCTAAGCAAGCTCTCCTATATGAACTCCTTATTTTCAAATGTCTTGGACAGAACTGA
* *
300270 TGACATCTCATATACAAACCCTCAATTCTACTATAACAAACTCAGTCTGTGTCGAACGAGGTCGC
131 TGACATCTCATAT--AAACCCTCAATTCTACCATAAC-AACTCAGTCTGTGTCGAACGAGCTCGC
* *
300335 TTATATAAACTCATTCTTCCTACTAAAATGCTGATTCACCTCTTTCTGTGATGAAATCGAGT--A
193 TTATATAAACTCATTCTTCCTACTGAAATGCTGATTCACCTCTTTCTGTGATGAAATTGAGTAGA
* *
300398 AAAAACAATGAT-AACCGAATTCTTTCTGTGAAGAATCAAGCAAAATGACGAAGCTGACCCACCT
258 AAAAACAATGATGATCC-AACTCTTTCTGTGAAGAATCAAGCAAAATGACGAAGCTGACCCACCT
* * *
300462 CCTTCTGTGATGGTGTCGAACAAAATGGTGATGCTGATTCAATTTTATCTGG
322 CATTATGTGATGGTGTCGAACAAAATGGTGATGATGATTCAATTTTATCTGG
* *
300514 CTGACTGCAAATCACGAACTCCATACTCTTCTGATATGAACCCTTCACTCTCTGATGAAATTCAA
1 CTGACTGCAAATCACGAACTCCAGATTCTTCTGATATGAACCCTTCACTCTCTGATGAAATTCAA
*
300579 CTCGGAAATATAAGCAAGCTCTCCTATATGAACTCCTTATTTTCAAATGTCTTGGACAGAACTGA
66 CTCGGAAATCTAAGCAAGCTCTCCTATATGAACTCCTTATTTTCAAATGTCTTGGACAGAACTGA
*
300644 TGACATCTCATATAAACCCTCCATTCTACCATAACAACTCAGTCTGTGTCGAACGAGCTCGCTTA
131 TGACATCTCATATAAACCCTCAATTCTACCATAACAACTCAGTCTGTGTCGAACGAGCTCGCTTA
* * *
300709 TATAAACTCAATCTTTCTAATGAAATGCTGATTCACC-CTTTTCTGTGATGAAATTGAGTAGAAA
196 TATAAACTCATTCTTCCTACTGAAATGCTGATTCACCTC-TTTCTGTGATGAAATTGAGTAGAAA
* *
300773 AAACAATGATGATCCAACTATTTCTGTGAAGAATCAAGCGAAATGACGAAGCTGACCCACCTCAT
260 AAACAATGATGATCCAACTCTTTCTGTGAAGAATCAAGCAAAATGACGAAGCTGACCCACCTCAT
*
300838 TATGTGATGGTGTCGAGCAAAATGGTGATGATGATTCAATTTTATCTGG
325 TATGTGATGGTGTCGAACAAAATGGTGATGATGATTCAATTTTATCTGG
*
300887 CTGACTGCAAATCACGAACTCCAGATTCTTCTTATATGAACCCTTCACTCTCTGATGAAAGTT-A
1 CTGACTGCAAATCACGAACTCCAGATTCTTCTGATATGAACCCTTCACTCTCTGATGAAA-TTCA
*
300951 ACTCGAAAATCTAAGCAAGCTCTCCTATATGAACTCCTCT-TTTTCAAATGTCTTGGACA-AGAC
65 ACTCGGAAATCTAAGCAAGCTCTCCTATATGAACTCCT-TATTTTCAAATGTCTTGGACAGA-AC
* * * * * * * *
301014 AT-ACGATATCTCCTATATGAACCCTTAATTCTA-CATAATAACTCTGTCTGGGTCAAACGAGCT
128 -TGATGACATCT-C-ATATAAACCCTCAATTCTACCATAACAACTCAGTCTGTGTCGAACGAGCT
* * * * * * *
301077 CGCCTATATAAACTCATTCTTCCTACTGAAATGATGAATCACCTCATTATGTGAT-AAAATGAGC
190 CGCTTATATAAACTCATTCTTCCTACTGAAATGCTGATTCACCTCTTTCTGTGATGAAATTGAGT
* * * *
301141 AGAAAACACAATGCTGATCCAACTCCTTCTATGAA-AATCAAG-AAAAGTGACGAAGCTGACCCA
255 AGAAAAAACAATGATGATCCAACTCTTTCTGTGAAGAATCAAGCAAAA-TGACGAAGCTGACCCA
* * * * * *
301204 CCTCTTTTTGTGATGGTGT-TAAGAAAAATGGTGATGTTGTTTCAA
319 CCTCATTATGTGATGGTGTCGAA-CAAAATGGTGATGATGATTCAA
301249 CTCCTTTTGT
Statistics
Matches: 657, Mismatches: 64, Indels: 29
0.88 0.09 0.04
Matches are distributed among these distances:
370 1 0.00
371 85 0.13
372 80 0.12
373 297 0.45
374 177 0.27
375 17 0.03
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (373 bp):
CTGACTGCAAATCACGAACTCCAGATTCTTCTGATATGAACCCTTCACTCTCTGATGAAATTCAA
CTCGGAAATCTAAGCAAGCTCTCCTATATGAACTCCTTATTTTCAAATGTCTTGGACAGAACTGA
TGACATCTCATATAAACCCTCAATTCTACCATAACAACTCAGTCTGTGTCGAACGAGCTCGCTTA
TATAAACTCATTCTTCCTACTGAAATGCTGATTCACCTCTTTCTGTGATGAAATTGAGTAGAAAA
AACAATGATGATCCAACTCTTTCTGTGAAGAATCAAGCAAAATGACGAAGCTGACCCACCTCATT
ATGTGATGGTGTCGAACAAAATGGTGATGATGATTCAATTTTATCTGG
Found at i:306302 original size:24 final size:25
Alignment explanation
Indices: 306275--306328 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
306265 AAAGGGAAGC
306275 AAAACAAAGAAATG-AAATGCAAAA
1 AAAACAAAGAAATGAAAATGCAAAA
** *
306299 AAAATGAAGAAATGTAAAATGCAAGA
1 AAAACAAAGAAATG-AAAATGCAAAA
306325 AAAA
1 AAAA
306329 TGATTGCCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.48
26 13 0.52
ACGTcount: A:0.69, C:0.06, G:0.15, T:0.11
Consensus pattern (25 bp):
AAAACAAAGAAATGAAAATGCAAAA
Found at i:306327 original size:26 final size:24
Alignment explanation
Indices: 306281--306331 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 24
306271 AAGCAAAACA
306281 AAGAAATGAAATGCAAAAAAAATG
1 AAGAAATGAAATGCAAAAAAAATG
*
306305 AAGAAATGTAAAATGCAAGAAAAATG
1 AAGAAATG--AAATGCAAAAAAAATG
306331 A
1 A
306332 TTGCCACTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.33
26 16 0.67
ACGTcount: A:0.65, C:0.04, G:0.18, T:0.14
Consensus pattern (24 bp):
AAGAAATGAAATGCAAAAAAAATG
Found at i:322345 original size:103 final size:103
Alignment explanation
Indices: 322166--322370 Score: 365
Period size: 103 Copynumber: 2.0 Consensus size: 103
322156 TGAATCGTTT
*
322166 GAGAATCTATCCCTTCCCAATCGTTTAGACCGTTGCACCAAGCTTTATTGGTAGAAGTAAATGAG
1 GAGAATCTATCCCTTCCCAATCGTTTAGACCGTTGCACCAAGATTTATTGGTAGAAGTAAATGAG
322231 GAGTAATATATATCATCAACAACAATAACCAGAAAAAA
66 GAGTAATATATATCATCAACAACAATAACCAGAAAAAA
* * * *
322269 GAGAATCTATCCTTTCCCATTCGTTTAGACCGTTGTACCAATATTTATTGGTAGAAGTAAATGAG
1 GAGAATCTATCCCTTCCCAATCGTTTAGACCGTTGCACCAAGATTTATTGGTAGAAGTAAATGAG
322334 GAGTAATATATATCATCAACAACAATAACCAGAAAAA
66 GAGTAATATATATCATCAACAACAATAACCAGAAAAA
322371 GGAGGGGAAA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 97 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (103 bp):
GAGAATCTATCCCTTCCCAATCGTTTAGACCGTTGCACCAAGATTTATTGGTAGAAGTAAATGAG
GAGTAATATATATCATCAACAACAATAACCAGAAAAAA
Found at i:331409 original size:12 final size:12
Alignment explanation
Indices: 331394--331427 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
331384 AAATGATATG
331394 AAAAAATG--AA
1 AAAAAATGAAAA
331404 AAAAAATGAAAA
1 AAAAAATGAAAA
331416 AAAAAATGAAAA
1 AAAAAATGAAAA
331428 TGAAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
12 14 0.64
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (12 bp):
AAAAAATGAAAA
Found at i:331424 original size:35 final size:35
Alignment explanation
Indices: 331382--331451 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
331372 AGAAGAGATG
*
331382 AAAAATG-ATATGAAAAAATGA-AAAAAAATGAAAAA
1 AAAAATGAAAATGAAAAAA-GAGAAAAAAA-GAAAAA
*
331417 AAAAATGAAAATGAAAAAAGAGAAAATAAGAAAAA
1 AAAAATGAAAATGAAAAAAGAGAAAAAAAGAAAAA
331452 TAAGAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 15 0.48
36 16 0.52
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (35 bp):
AAAAATGAAAATGAAAAAAGAGAAAAAAAGAAAAA
Found at i:331433 original size:12 final size:10
Alignment explanation
Indices: 331394--331419 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
331384 AAATGATATG
331394 AAAAAATGAA
1 AAAAAATGAA
331404 AAAAAATGAA
1 AAAAAATGAA
331414 AAAAAA
1 AAAAAA
331420 AATGAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAATGAA
Done.