Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 66 of 73
Found at i:15189964 original size:19 final size:20
Alignment explanation
Indices: 15189922--15189965 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
15189912 TTTCATCCCT
15189922 TTTTCTTTGTTTTTTTCTTC
1 TTTTCTTTGTTTTTTTCTTC
15189942 -TTTCTTT-TCTTTTTT-TTC
1 TTTTCTTTGT-TTTTTTCTTC
15189960 TTTTCT
1 TTTTCT
15189966 CTTTTTGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTTCTTTGTTTTTTTCTTC
Found at i:15189970 original size:16 final size:16
Alignment explanation
Indices: 15189949--15190097 Score: 97
Period size: 17 Copynumber: 8.9 Consensus size: 16
15189939 TTCTTTCTTT
15189949 TCTTTTTTTTCTTTTC
1 TCTTTTTTTTCTTTTC
** *
15189965 TCTTTTTGCTCTGATTGC
1 TCTTTTTTTTCT--TTTC
*
15189983 TC-TTTTTTTATTTTC
1 TCTTTTTTTTCTTTTC
*
15189998 TCTTTACTTTTTTCCTTTTT
1 TC-TT--TTTTTT-CTTTTC
*
15190018 TCCTTTTTTTCTTTTC
1 TCTTTTTTTTCTTTTC
** *
15190034 TCTTTTTACTCTGATTGC
1 TCTTTTTTTTCT--TTTC
*
15190052 TC-TTTTTTTATTTTC
1 TCTTTTTTTTCTTTTC
15190067 TCTTTTTTTTTCTTTT-
1 TC-TTTTTTTTCTTTTC
*
15190083 TCTTTTTCTTCTTTT
1 TCTTTTTTTTCTTTT
15190098 TCAAGTGTAA
Statistics
Matches: 101, Mismatches: 21, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
15 22 0.22
16 26 0.26
17 30 0.30
18 10 0.10
19 7 0.07
20 6 0.06
ACGTcount: A:0.04, C:0.19, G:0.03, T:0.74
Consensus pattern (16 bp):
TCTTTTTTTTCTTTTC
Found at i:15189989 original size:33 final size:33
Alignment explanation
Indices: 15189952--15190073 Score: 129
Period size: 33 Copynumber: 3.6 Consensus size: 33
15189942 TTTCTTTTCT
* *
15189952 TTTTTTTCTTTTCTCTTTTTGCTCTGATTGCTC
1 TTTTTTTATTTTCTCTTTTTACTCTGATTGCTC
** ** *
15189985 TTTTTTTATTTTCTCTTTACTTTTTTCCTTTTTTC-C
1 TTTTTTTATTTTCTC-TT--TTTACT-CTGATTGCTC
*
15190021 TTTTTTTCTTTTCTCTTTTTACTCTGATTGCTC
1 TTTTTTTATTTTCTCTTTTTACTCTGATTGCTC
15190054 TTTTTTTATTTTCTCTTTTT
1 TTTTTTTATTTTCTCTTTTT
15190074 TTTTCTTTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
32 5 0.07
33 38 0.54
34 2 0.03
35 2 0.03
36 19 0.27
37 5 0.07
ACGTcount: A:0.05, C:0.19, G:0.04, T:0.72
Consensus pattern (33 bp):
TTTTTTTATTTTCTCTTTTTACTCTGATTGCTC
Found at i:15189997 original size:38 final size:37
Alignment explanation
Indices: 15189944--15190079 Score: 121
Period size: 38 Copynumber: 3.8 Consensus size: 37
15189934 TTTTCTTCTT
*
15189944 TCTTTTCTTTTTTTTCTTTTCTCTTTTTGCTCTGATTGC
1 TCTTTT-TTTATTTTCTTTTCTCTTTTT-CTCTGATTGC
15189983 TCTTTTTTTATTTTCTCTTTACT-TTTTTC-CT--TT--
1 TCTTTTTTTATTTTCT-TTT-CTCTTTTTCTCTGATTGC
**
15190016 T-TTCCTTT-TTTTCTTTTCTCTTTTTACTCTGATTGC
1 TCTTTTTTTATTTTCTTTTCTCTTTTT-CTCTGATTGC
15190052 TCTTTTTTTATTTTCTCTTT-T-TTTTTCT
1 TCTTTTTTTATTTTCT-TTTCTCTTTTTCT
15190080 TTTTCTTTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 27
0.71 0.04 0.24
Matches are distributed among these distances:
29 2 0.03
30 8 0.10
31 7 0.09
32 7 0.09
33 1 0.01
34 2 0.03
35 2 0.03
36 3 0.04
37 12 0.15
38 17 0.21
39 17 0.21
40 2 0.03
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.73
Consensus pattern (37 bp):
TCTTTTTTTATTTTCTTTTCTCTTTTTCTCTGATTGC
Found at i:15190027 original size:69 final size:65
Alignment explanation
Indices: 15189942--15190097 Score: 235
Period size: 69 Copynumber: 2.4 Consensus size: 65
15189932 TTTTTTCTTC
* *
15189942 TTTC-TTTTCTTTTTTTTCTTTTCTCTTTTTGCTCTGATTGCTCTTTTTTTATTTTCTCTTTACT
1 TTTCTTTTTCCTTTTTTTCTTTTCTCTTTTTACTCTGATTGCTCTTTTTTTATTTTCTCTTT--T
15190006 TT
64 TT
15190008 TTTCCTTTTTTCCTTTTTTTCTTTTCTCTTTTTACTCTGATTGCTCTTTTTTTATTTTCTCTTTT
1 TTT-C-TTTTTCCTTTTTTTCTTTTCTCTTTTTACTCTGATTGCTCTTTTTTTATTTTCTCTTTT
15190073 TT
64 TT
15190075 TTTCTTTTT-CTTTTTCTTCTTTT
1 TTTCTTTTTCCTTTTT-TTCTTTT
15190098 TCAAGTGTAA
Statistics
Matches: 84, Mismatches: 2, Indels: 9
0.88 0.02 0.09
Matches are distributed among these distances:
64 6 0.07
65 12 0.14
66 4 0.05
67 7 0.08
69 55 0.65
ACGTcount: A:0.04, C:0.19, G:0.03, T:0.74
Consensus pattern (65 bp):
TTTCTTTTTCCTTTTTTTCTTTTCTCTTTTTACTCTGATTGCTCTTTTTTTATTTTCTCTTTTTT
Found at i:15190045 original size:9 final size:8
Alignment explanation
Indices: 15189946--15190099 Score: 62
Period size: 7 Copynumber: 19.6 Consensus size: 8
15189936 TTCTTCTTTC
15189946 TTTTCT-T
1 TTTTCTCT
*
15189953 TTTTTTC-
1 TTTTCTCT
15189960 TTTTCTCT
1 TTTTCTCT
15189968 TTTTGCTCT
1 TTTT-CTCT
* *
15189977 GATTGCTCT
1 -TTTTCTCT
15189986 TTTT-T-T
1 TTTTCTCT
15189992 ATTTTCTC-
1 -TTTTCTCT
*
15190000 TTTACT-T
1 TTTTCTCT
15190007 TTTTC-CT
1 TTTTCTCT
15190014 TTTT-TCCT
1 TTTTCT-CT
*
15190022 TTTTTTC-
1 TTTTCTCT
15190029 TTTTCTCT
1 TTTTCTCT
15190037 TTTTACTCT
1 TTTT-CTCT
* *
15190046 GATTGCTCT
1 -TTTTCTCT
15190055 TTTT-T-T
1 TTTTCTCT
15190061 ATTTTCTCT
1 -TTTTCTCT
*
15190070 TTTT-TTT
1 TTTTCTCT
*
15190077 TCTTTTTCT
1 T-TTTCTCT
15190086 TTTTCTTCT
1 TTTTC-TCT
15190095 TTTTC
1 TTTTC
15190100 AAGTGTAATA
Statistics
Matches: 110, Mismatches: 16, Indels: 40
0.66 0.10 0.24
Matches are distributed among these distances:
6 2 0.02
7 44 0.40
8 31 0.28
9 29 0.26
10 4 0.04
ACGTcount: A:0.04, C:0.19, G:0.03, T:0.74
Consensus pattern (8 bp):
TTTTCTCT
Found at i:15190077 original size:12 final size:12
Alignment explanation
Indices: 15190056--15190098 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
15190046 GATTGCTCTT
15190056 TTTTTATTTTCTC
1 TTTTT-TTTTCTC
15190069 TTTTTTTTTCT-
1 TTTTTTTTTCTC
15190080 TTTTCTTTTTCTTC
1 TTTT-TTTTTC-TC
15190094 TTTTT
1 TTTTT
15190099 CAAGTGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 4 0.15
12 12 0.44
13 7 0.26
14 4 0.15
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:15191259 original size:37 final size:38
Alignment explanation
Indices: 15191209--15191298 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 38
15191199 AAGCACCTGA
* * * *
15191209 TCTTTGTTTTCTTTT-TTTTT-TTTGCTTTTGCTTTTGC
1 TCTTTTTTTTCTTTTCTTTTTCTTCGCTTTTGCCTCT-C
*
15191246 TCTTTTTTTTCTTTTCTTTTTCTTCGTTTTTGCCTCTC
1 TCTTTTTTTTCTTTTCTTTTTCTTCGCTTTTGCCTCTC
*
15191284 TCTTTTTTTGCTTTT
1 TCTTTTTTTTCTTTT
15191299 GCCTCTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 14 0.31
38 20 0.44
39 11 0.24
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.74
Consensus pattern (38 bp):
TCTTTTTTTTCTTTTCTTTTTCTTCGCTTTTGCCTCTC
Found at i:15191275 original size:23 final size:24
Alignment explanation
Indices: 15191225--15191276 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
15191215 TTTTCTTTTT
15191225 TTTTTTTGCTTTTGCTTTTGCTC-
1 TTTTTTTGCTTTTGCTTTTGCTCG
* *
15191248 TTTTTTTTCTTTT-CTTTTTCTTCG
1 TTTTTTTGCTTTTGCTTTTGC-TCG
15191272 TTTTT
1 TTTTT
15191277 GCCTCTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.24
23 14 0.56
24 5 0.20
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (24 bp):
TTTTTTTGCTTTTGCTTTTGCTCG
Found at i:15192978 original size:13 final size:13
Alignment explanation
Indices: 15192943--15192980 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
15192933 AATTTTAAGA
* *
15192943 TTTTGAAATCAAG
1 TTTTGAAATTACG
15192956 TTTTGAAATTACG
1 TTTTGAAATTACG
15192969 TTTTGAAATTAC
1 TTTTGAAATTAC
15192981 TCCCCCTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (13 bp):
TTTTGAAATTACG
Found at i:15193574 original size:12 final size:12
Alignment explanation
Indices: 15193557--15193585 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
15193547 TTGTTGTGCT
15193557 TGCTCCTCGGGC
1 TGCTCCTCGGGC
15193569 TGCTCCTCGGGC
1 TGCTCCTCGGGC
15193581 TGCTC
1 TGCTC
15193586 AGGCTCATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.41, G:0.31, T:0.28
Consensus pattern (12 bp):
TGCTCCTCGGGC
Found at i:15194609 original size:20 final size:20
Alignment explanation
Indices: 15194580--15194617 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15194570 CCCCTTCAAA
*
15194580 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
15194600 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
15194618 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:15201624 original size:27 final size:25
Alignment explanation
Indices: 15201587--15201636 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
15201577 GAAAATGTTT
* *
15201587 AAAAATGAAATGTAGATGCAAAAGG
1 AAAAATGAAATGCAGATGAAAAAGG
15201612 AAAAGATGCAAATGCAGATGAAAAA
1 AAAA-ATG-AAATGCAGATGAAAAA
15201637 ATGTTGATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 3 0.14
27 14 0.67
ACGTcount: A:0.58, C:0.06, G:0.22, T:0.14
Consensus pattern (25 bp):
AAAAATGAAATGCAGATGAAAAAGG
Found at i:15216007 original size:50 final size:52
Alignment explanation
Indices: 15215901--15216007 Score: 130
Period size: 50 Copynumber: 2.1 Consensus size: 52
15215891 GATATATTTT
* * * *
15215901 AATAAAAAAATTATATTTTATTAGAACTCGTCACTTCGGCGTGACGAATTCA
1 AATAAAAAAATTATATTTTATTAAAACTCGTCACCTCGACATGACGAATTCA
* *
15215953 AATAAAAAAA-TAT-TTTTATTAAAACTCGTCACCTCGATATGA-GAAGTTCC
1 AATAAAAAAATTATATTTTATTAAAACTCGTCACCTCGACATGACGAA-TTCA
15216003 AATAA
1 AATAA
15216008 CACTATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
49 3 0.06
50 32 0.67
51 3 0.06
52 10 0.21
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (52 bp):
AATAAAAAAATTATATTTTATTAAAACTCGTCACCTCGACATGACGAATTCA
Found at i:15219161 original size:54 final size:53
Alignment explanation
Indices: 15219080--15219181 Score: 186
Period size: 54 Copynumber: 1.9 Consensus size: 53
15219070 TTGGCTACTA
*
15219080 AGCAATGCTTCTACTTGTTTTTACAGTACTTGTTGCCATCGGGTGGGCTTAGT
1 AGCAATGCTACTACTTGTTTTTACAGTACTTGTTGCCATCGGGTGGGCTTAGT
15219133 AGCAATGCTCACTACTTGTTTTTACAGTACTTGTTGCCATCGGGTGGGC
1 AGCAATGCT-ACTACTTGTTTTTACAGTACTTGTTGCCATCGGGTGGGC
15219182 ATATTCATTA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 9 0.19
54 38 0.81
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.37
Consensus pattern (53 bp):
AGCAATGCTACTACTTGTTTTTACAGTACTTGTTGCCATCGGGTGGGCTTAGT
Found at i:15242627 original size:31 final size:31
Alignment explanation
Indices: 15242591--15242672 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 31
15242581 TAGATATTCT
*
15242591 ATAAAATATTAATTTTATAT-TTAAATTTTA-
1 ATAAAATATTAATTTAAT-TCTTAAATTTTAG
*
15242621 ATTAAAATAATAATTTAATTCTTAAATTTTAG
1 A-TAAAATATTAATTTAATTCTTAAATTTTAG
*
15242653 ATAAAATATCAATTTAATTC
1 ATAAAATATTAATTTAATTC
15242673 ATAAGTTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
30 2 0.04
31 42 0.93
32 1 0.02
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.48
Consensus pattern (31 bp):
ATAAAATATTAATTTAATTCTTAAATTTTAG
Found at i:15250130 original size:78 final size:80
Alignment explanation
Indices: 15250041--15250228 Score: 242
Period size: 80 Copynumber: 2.4 Consensus size: 80
15250031 TTTTGTGACA
* *
15250041 ACCCGTCAAGAAGAATG-TGATTTACCCTATTC-AAAAAA-GGGCACATATT-TGAATGTATAG-
1 ACCCGTCAAGAAGAA-GATGA-TCACCCTATTCGAAAAAAGGGGCACAT-TTCTCAATGTATAGT
*
15250101 CAAAAAGGCAAGAATACG
63 AAAAAAGGCAAGAATACG
*
15250119 ACCCGTCAAGAAGAAGATGATCACCTTATTCGAAAAAAGGGGCACATTTCTCAATGTATAGTAAA
1 ACCCGTCAAGAAGAAGATGATCACCCTATTCGAAAAAAGGGGCACATTTCTCAATGTATAGTAAA
15250184 AAAGGCAAGAATACG
66 AAAGGCAAGAATACG
* * * *
15250199 ACCAGTTAAAAAGAAGATGATCACCTTATT
1 ACCCGTCAAGAAGAAGATGATCACCCTATT
15250229 TGGAAGATGT
Statistics
Matches: 98, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
77 10 0.10
78 26 0.27
79 18 0.18
80 44 0.45
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.22
Consensus pattern (80 bp):
ACCCGTCAAGAAGAAGATGATCACCCTATTCGAAAAAAGGGGCACATTTCTCAATGTATAGTAAA
AAAGGCAAGAATACG
Found at i:15250637 original size:41 final size:42
Alignment explanation
Indices: 15250569--15250663 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 42
15250559 AATGTCGGGA
* * *
15250569 CATTTTGAAGGCCCATTTTAACCAGAAAT-AT-AATTTTGGGG
1 CATTTTGAAGGCCCATTTCAACAAGAAATGATCAA-TATGGGG
*
15250610 CATTTTGAAGGCCCATTTCAGA-AAGAAATGATCCATATGGGG
1 CATTTTGAAGGCCCATTTCA-ACAAGAAATGATCAATATGGGG
15250652 CATTTTGAAGGC
1 CATTTTGAAGGC
15250664 TCACATCAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 25 0.53
42 21 0.45
43 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
CATTTTGAAGGCCCATTTCAACAAGAAATGATCAATATGGGG
Found at i:15250724 original size:38 final size:38
Alignment explanation
Indices: 15250486--15250749 Score: 117
Period size: 38 Copynumber: 6.8 Consensus size: 38
15250476 TACAACTTAG
* * * *
15250486 AATGTTGGGACATCTTGAAGGCTGACATTAGTATG-AA
1 AATGTTGGGACATTTTGAAGGCTCATATCAGTATGAAA
* * * * *
15250523 AAT-TTGGAACATCTTGAAGGCTCACATCAGCATG-TA
1 AATGTTGGGACATTTTGAAGGCTCATATCAGTATGAAA
* * * * **
15250559 AATGTCGGGACATTTTGAAGGCCCATTTTAACCA-GAAATA
1 AATGTTGGGACATTTTGAAGGCTCA-TATCAGTATG-AA-A
* * * * * *
15250599 TAATTTTGGGGCATTTTGAAGGCCCATTTCAGAAAGAAA
1 -AATGTTGGGACATTTTGAAGGCTCATATCAGTATGAAA
* * * *
15250638 TGATCCATATGGGGCATTTTGAAGGCTCACATCAGTATGAAA
1 -AAT--GT-TGGGACATTTTGAAGGCTCATATCAGTATGAAA
*
15250680 ATTGTTGGGACATTTTGAAGGCTCATATCA-TAAT-AAA
1 AATGTTGGGACATTTTGAAGGCTCATATCAGT-ATGAAA
** * *
15250717 CAATGTTGAACACATTTTGAACGTTCATATCAG
1 -AATGTTG-GGACATTTTGAAGGCTCATATCAG
15250750 CAAATATTGG
Statistics
Matches: 176, Mismatches: 37, Indels: 25
0.74 0.16 0.11
Matches are distributed among these distances:
36 31 0.18
37 25 0.14
38 35 0.20
39 24 0.14
40 8 0.05
41 25 0.14
42 28 0.16
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (38 bp):
AATGTTGGGACATTTTGAAGGCTCATATCAGTATGAAA
Found at i:15252470 original size:200 final size:200
Alignment explanation
Indices: 15252108--15252539 Score: 706
Period size: 200 Copynumber: 2.2 Consensus size: 200
15252098 ATGAAATTAT
* * *
15252108 TGAAAAGTAAGAAAGTGATTTTCAAAGTTTCTTACCCAGTAAATTATTTCCCAAATTTGTAAATC
1 TGAAAA-TGAGAAAATGATTTTCAAAGTTTCTTACCCAGTAAATAATTTCCCAAATTTGTAAATC
* *
15252173 CTTCGGGTCATTTGTCAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGTCATCTATCAGTCTTT
65 CTTCGGGTCATTTGTCAGTCTTTCAAGCATGATACTTAAATCCTTAGGGTCATCTATCAGTCTTT
* *
15252238 TCAGCAAGATGATAAGTCCTTAGGACCATCCGTCAGACCTTTGGCTAGGATGTTTACACATGATT
130 TAAGCAAGATGATAAGTCCTTAGGACCATCCGTCAGACCTTTGGCTAAGATGTTTACACATGATT
15252303 TTCACA
195 TTCACA
15252309 TGAAAATGAGAAAATGATTTTCAAAGTTTCTTACCCAGTAAATAATTTCCCAAATTTGTAAATCC
1 TGAAAATGAGAAAATGATTTTCAAAGTTTCTTACCCAGTAAATAATTTCCCAAATTTGTAAATCC
*
15252374 TTCGGGTCATCTT-TCAGTCTTTCAAGCATGATACTTAAATCCTTAGGGTCATCTGTCAGTCTTT
66 TTCGGGTCAT-TTGTCAGTCTTTCAAGCATGATACTTAAATCCTTAGGGTCATCTATCAGTCTTT
** * *
15252438 TAAGCAAGATGATAAGT-CTATAGGGTCATCCGTCATACCTTTGGGTAAGATGTTTACACATGAT
130 TAAGCAAGATGATAAGTCCT-TAGGACCATCCGTCAGACCTTTGGCTAAGATGTTTACACATGAT
*
15252502 TTTCACT
194 TTTCACA
15252509 TGAAAATGAGAAAATGATTTTCAAAGTTTCT
1 TGAAAATGAGAAAATGATTTTCAAAGTTTCT
15252540 AATTTAATGT
Statistics
Matches: 216, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
199 2 0.01
200 206 0.95
201 8 0.04
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (200 bp):
TGAAAATGAGAAAATGATTTTCAAAGTTTCTTACCCAGTAAATAATTTCCCAAATTTGTAAATCC
TTCGGGTCATTTGTCAGTCTTTCAAGCATGATACTTAAATCCTTAGGGTCATCTATCAGTCTTTT
AAGCAAGATGATAAGTCCTTAGGACCATCCGTCAGACCTTTGGCTAAGATGTTTACACATGATTT
TCACA
Found at i:15252895 original size:3 final size:3
Alignment explanation
Indices: 15252887--15252926 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
15252877 ATAATTATAT
* *
15252887 TTA TTA TTA TTA TTA TTA TTA TTAA ATA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
15252927 CAAGACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:15254148 original size:58 final size:58
Alignment explanation
Indices: 15254024--15254141 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
15254014 CTGAAGTCCC
15254024 TGTAATTTGTAATTCTTCAATTTTAGTCACTGAAATCAGGTTTATGTGCATTTTAATT
1 TGTAATTTGTAATTCTTCAATTTTAGTCACTGAAATCAGGTTTATGTGCATTTTAATT
15254082 TGTAATTTGTAATTCTTCAATTTTAGTCACTGAAATCAGGTTTATGTGCATTTTAATT
1 TGTAATTTGTAATTCTTCAATTTTAGTCACTGAAATCAGGTTTATGTGCATTTTAATT
15254140 TG
1 TG
15254142 ATATTTGCAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.48
Consensus pattern (58 bp):
TGTAATTTGTAATTCTTCAATTTTAGTCACTGAAATCAGGTTTATGTGCATTTTAATT
Found at i:15258762 original size:103 final size:102
Alignment explanation
Indices: 15258573--15258767 Score: 243
Period size: 103 Copynumber: 1.9 Consensus size: 102
15258563 TATGATAGAG
* * * * *
15258573 TATTGATACTCTTAGTAGGGGTATCGATATCAAGGTATTTTTCAAAGCATCGAATTCAATTTTAG
1 TATTGATACTCTCAGGAGGAGTATCGATATCAAGGTATTTTCCAAAACATCGAATTCAATTTTAG
* * *
15258638 TATCGATACTAATAGGGGTATCGATACTGAGGGTAGTT
66 TACCAATACT-ACAGGGGTATCGATACTGAGGGTAGTT
15258676 TATTGATACTCTCAGGAGGAGTATCGATA-CTAAGGTATTTTCCAAAACATCGAATGT-AATTTT
1 TATTGATACTCTCAGGAGGAGTATCGATATC-AAGGTATTTTCCAAAACATCGAAT-TCAATTTT
*
15258739 AGTACCAATACT-CGGGGAAGTATCGATAC
64 AGTACCAATACTACAGGG--GTATCGATAC
15258768 CATAAGAGGA
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
101 3 0.04
102 1 0.01
103 74 0.94
104 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (102 bp):
TATTGATACTCTCAGGAGGAGTATCGATATCAAGGTATTTTCCAAAACATCGAATTCAATTTTAG
TACCAATACTACAGGGGTATCGATACTGAGGGTAGTT
Found at i:15261136 original size:2 final size:2
Alignment explanation
Indices: 15261131--15261170 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15261121 TTTCTTTAAC
15261131 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
15261171 ACTTTTACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15265767 original size:19 final size:19
Alignment explanation
Indices: 15265743--15265789 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 19
15265733 AATTACGATA
15265743 AAAACTAACTCATGAATAT
1 AAAACTAACTCATGAATAT
15265762 AAAACTTAACTCATGAATAT
1 AAAAC-TAACTCATGAATAT
15265782 AAAACTAA
1 AAAACTAA
15265790 ATAGTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAACTAACTCATGAATAT
Found at i:15267286 original size:29 final size:29
Alignment explanation
Indices: 15267249--15267352 Score: 156
Period size: 29 Copynumber: 3.6 Consensus size: 29
15267239 CACATTCGAA
*
15267249 AATTTCCAGAATGTCACCTTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
*
15267278 AATTACCAGAATGTCACCTTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
* *
15267307 ATTTCCCAGAATATCACCTTTTTCACAAA-
1 AATTCCCAGAATGTCACCTTTTTCA-AAAT
15267336 AATTCCCAGAATGTCAC
1 AATTCCCAGAATGTCAC
15267353 TAGGTCGGGT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 65 0.96
30 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (29 bp):
AATTCCCAGAATGTCACCTTTTTCAAAAT
Found at i:15274656 original size:29 final size:29
Alignment explanation
Indices: 15274617--15274747 Score: 156
Period size: 29 Copynumber: 4.5 Consensus size: 29
15274607 CATTCGAAAA
* * *
15274617 TTTCCAAAATGTTACCTTTTTCAAAATAA
1 TTTCCAGAATGTCACCTTTTTCAAAATAT
* *
15274646 TTACCAGAATGTCACCTTTTTTAAAATAT
1 TTTCCAGAATGTCACCTTTTTCAAAATAT
** *
15274675 TTTTTAGAATGTCACATTTTTCAAAATAT
1 TTTCCAGAATGTCACCTTTTTCAAAATAT
* *
15274704 TTCCCAGAATATCACCTTTTTCACAAA-AT
1 TTTCCAGAATGTCACCTTTTTCA-AAATAT
15274733 TTTCCAGAATGTCAC
1 TTTCCAGAATGTCAC
15274748 TGGGTTGGGT
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
29 81 0.96
30 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.40
Consensus pattern (29 bp):
TTTCCAGAATGTCACCTTTTTCAAAATAT
Found at i:15282178 original size:20 final size:20
Alignment explanation
Indices: 15282155--15282198 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
15282145 ATTAATCTCT
15282155 GCAGTGTCTCATGCCTGATA
1 GCAGTGTCTCATGCCTGATA
15282175 GCAGTGTCTCATGCCTGATA
1 GCAGTGTCTCATGCCTGATA
15282195 GCAG
1 GCAG
15282199 CTGCTCTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.27
Consensus pattern (20 bp):
GCAGTGTCTCATGCCTGATA
Found at i:15290275 original size:13 final size:13
Alignment explanation
Indices: 15290257--15290284 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15290247 TACTACTCCT
15290257 TCGGTATCGATAC
1 TCGGTATCGATAC
15290270 TCGGTATCGATAC
1 TCGGTATCGATAC
15290283 TC
1 TC
15290285 CTTGAATAAT
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:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (13 bp):
TCGGTATCGATAC
Found at i:15291778 original size:8 final size:8
Alignment explanation
Indices: 15291765--15291789 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15291755 TATTAGTCAG
15291765 TGGCATGT
1 TGGCATGT
15291773 TGGCATGT
1 TGGCATGT
15291781 TGGCATGT
1 TGGCATGT
15291789 T
1 T
15291790 TTGTGTTCCC
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:0.12, C:0.12, G:0.36, T:0.40
Consensus pattern (8 bp):
TGGCATGT
Found at i:15295996 original size:29 final size:29
Alignment explanation
Indices: 15295963--15296049 Score: 174
Period size: 29 Copynumber: 3.0 Consensus size: 29
15295953 TAAATTGATG
15295963 GATATTTATAACCCATACCCAAACTAATA
1 GATATTTATAACCCATACCCAAACTAATA
15295992 GATATTTATAACCCATACCCAAACTAATA
1 GATATTTATAACCCATACCCAAACTAATA
15296021 GATATTTATAACCCATACCCAAACTAATA
1 GATATTTATAACCCATACCCAAACTAATA
15296050 AGTAATGGCC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.28
Consensus pattern (29 bp):
GATATTTATAACCCATACCCAAACTAATA
Found at i:15308870 original size:17 final size:17
Alignment explanation
Indices: 15308837--15308870 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15308827 TAGACACCAA
* *
15308837 CCAACTTGTCAACTTTG
1 CCAACTTGCCAAATTTG
15308854 CCAACTTGCCAAATTTG
1 CCAACTTGCCAAATTTG
15308871 ACAATTTGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (17 bp):
CCAACTTGCCAAATTTG
Found at i:15314451 original size:2 final size:2
Alignment explanation
Indices: 15314446--15314484 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15314436 TATACTTTTG
15314446 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15314485 CTTACACATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15322593 original size:2 final size:2
Alignment explanation
Indices: 15322586--15322625 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15322576 AAAATCATTA
15322586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15322626 TATCTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15328119 original size:520 final size:519
Alignment explanation
Indices: 15326805--15328348 Score: 2730
Period size: 519 Copynumber: 3.0 Consensus size: 519
15326795 TATTATGAGA
15326805 AATTATTTTGAAAGAATAAATTCAACGACCTCAAAAAACAAGTATCATTAAGAAGATCCACAAAA
1 AATTATTTTGAAAGAATAAATTCAACGACCTCAAAAAACAAGTATCATTAAGAAGATCCACAAAA
15326870 TGAGATAATTGTTATTTATATTATTATGTTATATTTCTCCAAGAAATAAGGATGACATTGGAATG
66 TGAGATAATTGTTATTTATATTATTATGTTATATTTCTCCAAGAAATAAGGATGACATTGGAATG
*
15326935 ATGAAAGATAATCTAATCAACTTTCTTCATGTCATAAAAGTTCTGACTCTAAAAAATGGATTAAT
131 ATGAAAGATAATCTAATCAACTTTCTTCATGTCATAAAAGTTTTGACTCTAAAAAATGGATTAAT
15327000 GCGATATAAGAAGAGTATAAGTTCTATACAAGAAAATAAAGTTTGAGAACTTGTTTCATTACCTG
196 GCGATATAAGAAGAGTATAAGTTCTATACAAGAAAATAAAGTTTGAGAACTTGTTTCATTACCTG
*
15327065 AAGGTGCACATCAGATTGGTTGAAAATGGATATTTAATATCAAGATGGATATGAATGGTGATGTT
261 AAGGTGCACATCAGATTGGTTGAAAATGGATATTTAATATCAAGATGGATGTGAATGGTGATGTT
*
15327130 GACAAGTATAAAACATGTCTTGTATCTAAAGAATATGCTCATAAAGAAGACATTGATTTTGTAGA
326 GACAAGTATAAAACATGTCTTGTATCTAAAGAATATACTCATAAAGAAGACATTGATTTTGTAGA
*
15327195 AACTTTCTTTTTTAGTTTCGTTAAAATACTTTTTCAGGATAATCATGATATTTATTGCTAATATT
391 AACTTTCTTTTTTAGTTTCATTAAAATACTTTTTCAGGATAATCATGATATTTATTGCTAATATT
*
15327260 TAATTTTGAGTTACATAAGTTGGATTTCAAAATGGAAACATTGATGCGATGTTTTATAAGGTGT
456 TAATTTTGAGTTACATAAGTTGGATTTCAAAATGGAAACATTGATGAGATGTTTTATAAGGTGT
*
15327324 AATTATTTTGAAAGAATAAATTCAACGACCTCAAAAAACAAGTAACATTAAGAAGATCCACAAAA
1 AATTATTTTGAAAGAATAAATTCAACGACCTCAAAAAACAAGTATCATTAAGAAGATCCACAAAA
*
15327389 TGAGATAATTGTTATTTAGATTATTATGTTATATTTCTCCAAGAAATAAGGATGACATTGGAATG
66 TGAGATAATTGTTATTTATATTATTATGTTATATTTCTCCAAGAAATAAGGATGACATTGGAATG
15327454 ATGAAAGATAATCTAATCAACTTTCTTCATGTCATAAAAGTTTTGACTCTAAAAAATGGATTAAT
131 ATGAAAGATAATCTAATCAACTTTCTTCATGTCATAAAAGTTTTGACTCTAAAAAATGGATTAAT
* *
15327519 GCGATGTAAGAAAAGTATAAGTTCTATACAAGAAAATAAAGTTTGAGAACTTGTTTCATTACCTG
196 GCGATATAAGAAGAGTATAAGTTCTATACAAGAAAATAAAGTTTGAGAACTTGTTTCATTACCTG
** *
15327584 AACTTGCACATCAGATTGGTTGAAAATGGATATTTAATATCAACATGGATGTGAATGGTGATGTT
261 AAGGTGCACATCAGATTGGTTGAAAATGGATATTTAATATCAAGATGGATGTGAATGGTGATGTT
*
15327649 GACAAGTATAAAACATGTCTTGTATCTAAAGAATGTACTCATAAAGAAGACATTGATTTTGTAGA
326 GACAAGTATAAAACATGTCTTGTATCTAAAGAATATACTCATAAAGAAGACATTGATTTTGTAGA
*
15327714 AACTTTCTTTTTTAGTTTCATTAAAATACTTTTTTAGGATAATCATGATATTTATTGCTAATATT
391 AACTTTCTTTTTTAGTTTCATTAAAATACTTTTTCAGGATAATCATGATATTTATTGCTAATATT
15327779 TAATTTTGAGTTACATAAGTTGGATTTCAAAATGGAAACATTGATGAGATGTTTTATAAGGTGT
456 TAATTTTGAGTTACATAAGTTGGATTTCAAAATGGAAACATTGATGAGATGTTTTATAAGGTGT
*
15327843 AATTATTTTTGAAAGAATAAATTCAACGACCTCAAAAAACAGGTATCATTAAGAAGATCCACAAA
1 AATTA-TTTTGAAAGAATAAATTCAACGACCTCAAAAAACAAGTATCATTAAGAAGATCCACAAA
15327908 ATGAGATAATTGTTATTTATATTATTATGTTATATTTCTCCAAGAAATAAGGATGACATTGGAAT
65 ATGAGATAATTGTTATTTATATTATTATGTTATATTTCTCCAAGAAATAAGGATGACATTGGAAT
*
15327973 GATGAAAGATAATCTAATCAACTTTCTTCATGTCATAAAAGTTTTGACTCTAAAAAACGGATTAA
130 GATGAAAGATAATCTAATCAACTTTCTTCATGTCATAAAAGTTTTGACTCTAAAAAATGGATTAA
* * * *
15328038 TGCAACATGAGAAGAGTATAAGTTCTATACAATAAAATAAAGTTTGAGAACTTGTTTCATTACCT
195 TGCGATATAAGAAGAGTATAAGTTCTATACAAGAAAATAAAGTTTGAGAACTTGTTTCATTACCT
*
15328103 GAAGGTGCACATCAGATTAGTTGAAAATGGATATTTAATATCAAGATGGATGTGAATGGTGATGT
260 GAAGGTGCACATCAGATTGGTTGAAAATGGATATTTAATATCAAGATGGATGTGAATGGTGATGT
15328168 TGACAAGTATAAAACATGTCTTGTATCTAAAGAATATACTCAT---------A---A------AG
325 TGACAAGTATAAAACATGTCTTGTATCTAAAGAATATACTCATAAAGAAGACATTGATTTTGTAG
*
15328215 AAACTTTC-TTTTTAGTTTCATTAAAAGACTTTTTCAGGATAATCATGATATTTATTGCTAATAT
390 AAACTTTCTTTTTTAGTTTCATTAAAATACTTTTTCAGGATAATCATGATATTTATTGCTAATAT
* *
15328279 TTAATTTTGAGTTACATAAGTTGGATTTCAAAATGGTAACATTGATGAGATGCTTTATAAGGTGT
455 TTAATTTTGAGTTACATAAGTTGGATTTCAAAATGGAAACATTGATGAGATGTTTTATAAGGTGT
15328344 AATTA
1 AATTA
15328349 GAAAATTGTG
Statistics
Matches: 991, Mismatches: 33, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
501 122 0.12
502 10 0.01
508 1 0.00
511 1 0.00
519 510 0.51
520 347 0.35
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (519 bp):
AATTATTTTGAAAGAATAAATTCAACGACCTCAAAAAACAAGTATCATTAAGAAGATCCACAAAA
TGAGATAATTGTTATTTATATTATTATGTTATATTTCTCCAAGAAATAAGGATGACATTGGAATG
ATGAAAGATAATCTAATCAACTTTCTTCATGTCATAAAAGTTTTGACTCTAAAAAATGGATTAAT
GCGATATAAGAAGAGTATAAGTTCTATACAAGAAAATAAAGTTTGAGAACTTGTTTCATTACCTG
AAGGTGCACATCAGATTGGTTGAAAATGGATATTTAATATCAAGATGGATGTGAATGGTGATGTT
GACAAGTATAAAACATGTCTTGTATCTAAAGAATATACTCATAAAGAAGACATTGATTTTGTAGA
AACTTTCTTTTTTAGTTTCATTAAAATACTTTTTCAGGATAATCATGATATTTATTGCTAATATT
TAATTTTGAGTTACATAAGTTGGATTTCAAAATGGAAACATTGATGAGATGTTTTATAAGGTGT
Found at i:15328854 original size:20 final size:20
Alignment explanation
Indices: 15328829--15328868 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15328819 TCATCAGGTT
15328829 TATGGACTCCGACTTATTGG
1 TATGGACTCCGACTTATTGG
15328849 TATGGACTCCGACTTATTGG
1 TATGGACTCCGACTTATTGG
15328869 AATAGGATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
TATGGACTCCGACTTATTGG
Found at i:15329624 original size:21 final size:21
Alignment explanation
Indices: 15329600--15329639 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
15329590 GAGATTATTG
15329600 GATTAAAATCCATAATTGTTA
1 GATTAAAATCCATAATTGTTA
15329621 GATTAAAATCCATAATTGT
1 GATTAAAATCCATAATTGT
15329640 GGAAACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
GATTAAAATCCATAATTGTTA
Found at i:15330355 original size:20 final size:20
Alignment explanation
Indices: 15330332--15330388 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
15330322 AAGATATAAC
15330332 AGAAAGTTCTAGAATACAAT
1 AGAAAGTTCTAGAATACAAT
*
15330352 AGAAAGATT-TAG--TACATT
1 AGAAAG-TTCTAGAATACAAT
15330370 ACGAAAAGTTCTAGAATAC
1 A-G-AAAGTTCTAGAATAC
15330389 TTTGGAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
18 6 0.20
19 3 0.10
20 16 0.53
21 2 0.07
22 3 0.10
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (20 bp):
AGAAAGTTCTAGAATACAAT
Found at i:15335464 original size:22 final size:22
Alignment explanation
Indices: 15335436--15335486 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
15335426 ACATCCATTC
15335436 TCAGACCTCAACCGCTTGACTT
1 TCAGACCTCAACCGCTTGACTT
15335458 TCAGACCTCAACCGCTTGACTT
1 TCAGACCTCAACCGCTTGACTT
15335480 TCAGACC
1 TCAGACC
15335487 AGTCTCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.24, C:0.37, G:0.14, T:0.25
Consensus pattern (22 bp):
TCAGACCTCAACCGCTTGACTT
Found at i:15337190 original size:16 final size:17
Alignment explanation
Indices: 15337162--15337194 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
15337152 ATTGCCGACA
15337162 AAATTTCACTATTCACG
1 AAATTTCACTATTCACG
15337179 AAATTT-ACTATTCACG
1 AAATTTCACTATTCACG
15337195 TGAATAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATTTCACTATTCACG
Found at i:15356525 original size:17 final size:17
Alignment explanation
Indices: 15356503--15356535 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15356493 TGGCCCTTTG
15356503 ATCAACGGTTTCCATTA
1 ATCAACGGTTTCCATTA
15356520 ATCAACGGTTTCCATT
1 ATCAACGGTTTCCATT
15356536 GTTGACGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.36
Consensus pattern (17 bp):
ATCAACGGTTTCCATTA
Found at i:15357229 original size:10 final size:10
Alignment explanation
Indices: 15357214--15357238 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15357204 ATTTAATGAT
15357214 TATTTAAAAA
1 TATTTAAAAA
15357224 TATTTAAAAA
1 TATTTAAAAA
15357234 TATTT
1 TATTT
15357239 TTAGTGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TATTTAAAAA
Found at i:15357519 original size:31 final size:31
Alignment explanation
Indices: 15357478--15357545 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
15357468 AATATTGGTC
* *
15357478 AAAGGGTCACATTAGGTTCTTTTTATAAGTT
1 AAAGGCTCACATTAGGTTATTTTTATAAGTT
*
15357509 AAAGGCTCACATTGGGTTATTTTTATAAGTT
1 AAAGGCTCACATTAGGTTATTTTTATAAGTT
*
15357540 AGAGGC
1 AAAGGC
15357546 CCATATTGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (31 bp):
AAAGGCTCACATTAGGTTATTTTTATAAGTT
Found at i:15358102 original size:2 final size:2
Alignment explanation
Indices: 15358095--15358135 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
15358085 ATGATATACT
15358095 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15358135 T
1 T
15358136 CGTTACAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15358358 original size:23 final size:23
Alignment explanation
Indices: 15358303--15358345 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
15358293 CATTTCTTAT
*
15358303 ATTTATTTTTAAATATTTAAATA
1 ATTTATATTTAAATATTTAAATA
15358326 ATTTATATTTAAA-ATTTAAA
1 ATTTATATTTAAATATTTAAA
15358346 ATCACTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTATATTTAAATATTTAAATA
Found at i:15358410 original size:80 final size:81
Alignment explanation
Indices: 15358317--15358481 Score: 314
Period size: 80 Copynumber: 2.0 Consensus size: 81
15358307 ATTTTTAAAT
15358317 ATTTAAATAATTTATATTTAAAATTTAAAATCACTTTTATTTTTTTTTAATTAAATAAGTCCTTA
1 ATTTAAATAATTTATATTTAAAATTTAAAATCACTTTTATTTTTTTTTAATTAAATAAGTCCTTA
15358382 AACTTTTAAAAAGATA
66 AACTTTTAAAAAGATA
*
15358398 ATTTTAAT-ATTTATATTTAAAATTTAAAATCACTTTTATTTTTTTTTAATTAAATAAGTCCTTA
1 ATTTAAATAATTTATATTTAAAATTTAAAATCACTTTTATTTTTTTTTAATTAAATAAGTCCTTA
15358462 AACTTTTAAAAAGATA
66 AACTTTTAAAAAGATA
15358478 ATTT
1 ATTT
15358482 GACCATAGAA
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
80 76 0.92
81 7 0.08
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (81 bp):
ATTTAAATAATTTATATTTAAAATTTAAAATCACTTTTATTTTTTTTTAATTAAATAAGTCCTTA
AACTTTTAAAAAGATA
Found at i:15358600 original size:86 final size:86
Alignment explanation
Indices: 15358455--15358626 Score: 344
Period size: 86 Copynumber: 2.0 Consensus size: 86
15358445 AATTAAATAA
15358455 GTCCTTAAACTTTTAAAAAGATAATTTGACCATAGAATAAAACTAAAAAAACAAATTTAGTACAT
1 GTCCTTAAACTTTTAAAAAGATAATTTGACCATAGAATAAAACTAAAAAAACAAATTTAGTACAT
15358520 CTGTCACACTATTAGTCGTAG
66 CTGTCACACTATTAGTCGTAG
15358541 GTCCTTAAACTTTTAAAAAGATAATTTGACCATAGAATAAAACTAAAAAAACAAATTTAGTACAT
1 GTCCTTAAACTTTTAAAAAGATAATTTGACCATAGAATAAAACTAAAAAAACAAATTTAGTACAT
15358606 CTGTCACACTATTAGTCGTAG
66 CTGTCACACTATTAGTCGTAG
15358627 TGGATTGTCA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.30
Consensus pattern (86 bp):
GTCCTTAAACTTTTAAAAAGATAATTTGACCATAGAATAAAACTAAAAAAACAAATTTAGTACAT
CTGTCACACTATTAGTCGTAG
Found at i:15358686 original size:42 final size:42
Alignment explanation
Indices: 15358639--15358732 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
15358629 GATTGTCATG
* *
15358639 TCAGCACCGTAGAATGCCACATTATTATCGTGAACTACCATA
1 TCAGCACCGTAGAATACCACATTATTATCGTGAACTACCACA
* *
15358681 TCAGCACCGTAGAATATCACATTATTATCGTGAACTACCACG
1 TCAGCACCGTAGAATACCACATTATTATCGTGAACTACCACA
15358723 TCAGCACCGT
1 TCAGCACCGT
15358733 TACAGTCAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (42 bp):
TCAGCACCGTAGAATACCACATTATTATCGTGAACTACCACA
Found at i:15364734 original size:52 final size:52
Alignment explanation
Indices: 15364656--15364763 Score: 216
Period size: 52 Copynumber: 2.1 Consensus size: 52
15364646 GTTGCAGAAA
15364656 GTGGATCCAAAGGATACTGAGTCGTTACGATTGGTTCATTTGATAGGCTTTT
1 GTGGATCCAAAGGATACTGAGTCGTTACGATTGGTTCATTTGATAGGCTTTT
15364708 GTGGATCCAAAGGATACTGAGTCGTTACGATTGGTTCATTTGATAGGCTTTT
1 GTGGATCCAAAGGATACTGAGTCGTTACGATTGGTTCATTTGATAGGCTTTT
15364760 GTGG
1 GTGG
15364764 GAAGCATGCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.36
Consensus pattern (52 bp):
GTGGATCCAAAGGATACTGAGTCGTTACGATTGGTTCATTTGATAGGCTTTT
Found at i:15366495 original size:39 final size:39
Alignment explanation
Indices: 15366426--15366500 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
15366416 ACTTTTAAAT
*
15366426 TAATTTAATTAATTTAGGGACCAAACTGCAAGTTTTTGA
1 TAATTTAATTAATTTAGAGACCAAACTGCAAGTTTTTGA
* * * *
15366465 TAATTTAATTAATTTATATATCAAATTGCAAGTTTT
1 TAATTTAATTAATTTAGAGACCAAACTGCAAGTTTT
15366501 CAAAAATTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (39 bp):
TAATTTAATTAATTTAGAGACCAAACTGCAAGTTTTTGA
Found at i:15366738 original size:39 final size:39
Alignment explanation
Indices: 15366669--15366743 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
15366659 ACTTATAAAT
*
15366669 TAATTTAATTAATTTAGGGACCAAACTGCAAGTTTTTGA
1 TAATTTAATTAATTTAGAGACCAAACTGCAAGTTTTTGA
* * * *
15366708 TAATTTAATTAATTTATATATCAAATTGCAAGTTTT
1 TAATTTAATTAATTTAGAGACCAAACTGCAAGTTTT
15366744 CAAAAATTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (39 bp):
TAATTTAATTAATTTAGAGACCAAACTGCAAGTTTTTGA
Found at i:15366833 original size:243 final size:243
Alignment explanation
Indices: 15366405--15366887 Score: 939
Period size: 243 Copynumber: 2.0 Consensus size: 243
15366395 TAATAATTAC
*
15366405 AAAATATTATAACTTTTAAATTAATTTAATTAATTTAGGGACCAAACTGCAAGTTTTTGATAATT
1 AAAATATTATAACTTATAAATTAATTTAATTAATTTAGGGACCAAACTGCAAGTTTTTGATAATT
15366470 TAATTAATTTATATATCAAATTGCAAGTTTTCAAAAATTGTAGTTCGATTTAGAAACTGTGGGAA
66 TAATTAATTTATATATCAAATTGCAAGTTTTCAAAAATTGTAGTTCGATTTAGAAACTGTGGGAA
15366535 GTTTAGGGACTTAATCCTAAATTTATCTTTTTCTATCAACAGAGAAAATAAATAAATAAAAATAG
131 GTTTAGGGACTTAATCCTAAATTTATCTTTTTCTATCAACAGAGAAAATAAATAAATAAAAATAG
15366600 AGTTGGTGGCCAGCGGAGCTCAAACCCTTGTCCCCCAGGTAAAGTTAA
196 AGTTGGTGGCCAGCGGAGCTCAAACCCTTGTCCCCCAGGTAAAGTTAA
15366648 AAAATATTATAACTTATAAATTAATTTAATTAATTTAGGGACCAAACTGCAAGTTTTTGATAATT
1 AAAATATTATAACTTATAAATTAATTTAATTAATTTAGGGACCAAACTGCAAGTTTTTGATAATT
*
15366713 TAATTAATTTATATATCAAATTGCAAGTTTTCAAAAATTGTAGTTCGATTTAGAAATTGTGGGAA
66 TAATTAATTTATATATCAAATTGCAAGTTTTCAAAAATTGTAGTTCGATTTAGAAACTGTGGGAA
15366778 GTTTAGGGACTTAATCCTAAATTTATCTTTTTCTATCAACAGAGAAAATAAATAAATAAAAATAG
131 GTTTAGGGACTTAATCCTAAATTTATCTTTTTCTATCAACAGAGAAAATAAATAAATAAAAATAG
*
15366843 AGTTGGTGGCCAGCTGAGCTCAAACCCTTGTCCCCCAGGTAAAGT
196 AGTTGGTGGCCAGCGGAGCTCAAACCCTTGTCCCCCAGGTAAAGT
15366888 CGCCCATACC
Statistics
Matches: 237, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
243 237 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (243 bp):
AAAATATTATAACTTATAAATTAATTTAATTAATTTAGGGACCAAACTGCAAGTTTTTGATAATT
TAATTAATTTATATATCAAATTGCAAGTTTTCAAAAATTGTAGTTCGATTTAGAAACTGTGGGAA
GTTTAGGGACTTAATCCTAAATTTATCTTTTTCTATCAACAGAGAAAATAAATAAATAAAAATAG
AGTTGGTGGCCAGCGGAGCTCAAACCCTTGTCCCCCAGGTAAAGTTAA
Found at i:15367353 original size:14 final size:14
Alignment explanation
Indices: 15367334--15367365 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
15367324 ATATTTTTGA
15367334 AATAAAGTTATGAT
1 AATAAAGTTATGAT
*
15367348 AATAAATTTATGAT
1 AATAAAGTTATGAT
15367362 AATA
1 AATA
15367366 TACTACAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (14 bp):
AATAAAGTTATGAT
Found at i:15372212 original size:34 final size:32
Alignment explanation
Indices: 15372159--15372228 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
15372149 CCTTACAAAC
*
15372159 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
15372191 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
15372225 TCCC
1 TCCC
15372229 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:15372613 original size:19 final size:20
Alignment explanation
Indices: 15372576--15372617 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
15372566 CCGTTAGACA
15372576 GGGGGGAATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
*
15372596 GGGGGGAATCTGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
15372616 GG
1 GG
15372618 ACAATCTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.40, T:0.17
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCCCT
Found at i:15375639 original size:34 final size:32
Alignment explanation
Indices: 15375586--15375652 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 32
15375576 CCTTACAAAC
*
15375586 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
15375618 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
15375652 T
1 T
15375653 TCCATTTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 7 0.23
33 5 0.16
34 19 0.61
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:15376048 original size:18 final size:19
Alignment explanation
Indices: 15376013--15376050 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
15376003 GGAGGAATTG
**
15376013 GTACCCCCTGGGGGAATCT
1 GTACCCCCTGGGACAATCT
15376032 GTACCCCCT-GGACAATCT
1 GTACCCCCTGGGACAATCT
15376050 G
1 G
15376051 ATTTTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.18, C:0.34, G:0.26, T:0.21
Consensus pattern (19 bp):
GTACCCCCTGGGACAATCT
Found at i:15380083 original size:404 final size:403
Alignment explanation
Indices: 15378875--15380215 Score: 1942
Period size: 404 Copynumber: 3.3 Consensus size: 403
15378865 ACTCTTGAAA
* *
15378875 AAAATATAAGTT-CCACTTATCGTCTCTATCTCTTTCCATCAAAAGTGTGTTATTTTGCATTTTC
1 AAAATATAAGTTCCCACTTATCATCTCCATCTCTTTCCATCAAAAGTGTGTTATTTTGCATTTTC
* *
15378939 AAGTTCAAAAATATATTTTGTTTTTGCGATTATTGACTATC-CATTTTGCATTCAAATTTCCACA
66 AAGTTCAAAAATATATTTTGTTTTTGTGATTACTGACTA-CACATTTTGCATTCAAATTTCCACA
* *
15379003 TTGTGCCTATTTTTCCTATCGTTTCTCCTTAATTCCCAATTTTTAAAAAAATAAAATTCGACACC
130 TTGTGCCTATTTTTCCTATCGTTTCTCCTTAATTCCCAATTTTTCAAAAAATAAAATTC-ACCCC
* * *
15379068 TCATGGCTATATTTTTCGGTTGTTCATACAGCCTAAAATTCTAACAAAAATAGATAGTTTATGTA
194 TCATGGCTATATTTTT-GATTGTTCATAGAGCCTAAAATTCTAACAAAAATAGATAGTTTAGGTA
*
15379133 CTAAAC-ATGTTGAGTTTTTAATGGTGGAGTACTAAAATGAATCAAAAAC-------TA--TATG
258 CTAAACGAT-TTGAGTTTTTAACGGTGGAGTACTAAAATGAATCAAAAACTAAATGTTAGGTATG
* *
15379188 ATTTTGAAAAATTGAAAGTTTAGGTACTAAAATGGACCAAAATTGATAGTTTAGGTATTAAATGC
322 ATTTTGAAAAATTGAAAGTTTAGGTACTAAAATGGACCAAAATTAATAGTTTAGGTACTAAATGC
15379253 ATAATTTACCCTATTAT
387 ATAATTTACCCTATTAT
*
15379270 AAAATATAAGTTCCCACTTATCATCTCCATCTCTTTCCATCAAAATTGTGTTATTTTGCATTTTC
1 AAAATATAAGTTCCCACTTATCATCTCCATCTCTTTCCATCAAAAGTGTGTTATTTTGCATTTTC
15379335 AAGTTCAAAAATATATTTTGTTTTTGTGATTACTGACTACACATTTTGCATTCAAATTTCTATAT
66 AAGTTCAAAAATATATTTTGTTTTTGTGATTACTGACTACACATTTTGCATTCAAATTTC-----
* * * * *
15379400 GTACTTATTTTTCCTTATTTTTCCTATCGTTTCTCCTTAATTCCAAATTTTTCAAAAAAT-CAAT
126 -CAC--ATTGTGCC-TATTTTTCCTATCGTTTCTCCTTAATTCCCAATTTTTCAAAAAATAAAAT
* * * * *
15379464 TCGCCCCTCATGGCTATATTTTCGATTGTTCATAGAACCTAAAATTCTAACAAAAACAAATAGTT
187 TCACCCCTCATGGCTATATTTTTGATTGTTCATAGAGCCTAAAATTCTAACAAAAATAGATAGTT
* ** *
15379529 TAGGTAGTAAACGCGTTCAGTTTTTAACGGTGGAGTAC-AAAATGAATCAAAAACTAAATGTTAG
252 TAGGTACTAAACGATTTGAGTTTTTAACGGTGGAGTACTAAAATGAATCAAAAACTAAATGTTAG
* * *
15379593 GTAT-ATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAATAGATCAAAATTAATAGTTTATGTAC
317 GTATGATTTTG--AAAAATTGAAAGTTTAGGTACTAAAATGGACCAAAATTAATAGTTTAGGTAC
*
15379657 TAAATACATAATTTACCCTATTAT
380 TAAATGCATAATTTACCCTATTAT
* *
15379681 AAAATATAAGTTCCCACTTATCGTCTCCATCTCTTTCCATCTAAA-TGTGTTATTTTGCATTTTC
1 AAAATATAAGTTCCCACTTATCATCTCCATCTCTTTCCATCAAAAGTGTGTTATTTTGCATTTTC
* *
15379745 AAGTTCAAAAATATATATTT-TTTTTGTGATTACTAACTACGCATTTTGCATTCAAATTTCCACA
66 AAGTTCAAAAATATAT-TTTGTTTTTGTGATTACTGACTACACATTTTGCATTCAAATTTCCACA
* * *
15379809 TTGCGCCTATTTTTCCTATCGTTTATCCTTAATTCCCAATTTTTCAAAAAATAAAACTCACCCCT
130 TTGTGCCTATTTTTCCTATCGTTTCTCCTTAATTCCCAATTTTTCAAAAAATAAAATTCACCCC-
* * * *
15379874 TCATGGCTATATTTTTTATTGTTCATAGAGCCTAAAATTCCAACAAAAATGGATCGTTTAGGTAC
194 TCATGGCTATATTTTTGATTGTTCATAGAGCCTAAAATTCTAACAAAAATAGATAGTTTAGGTAC
*
15379939 TAAACGATTTGAGTTTTTAACGATGGAGTACTAAAATGAATCAAAAACTAAATGTTAGGTATGAT
259 TAAACGATTTGAGTTTTTAACGGTGGAGTACTAAAATGAATCAAAAACTAAATGTTAGGTATGAT
* * * *
15380004 TTTGAAAAAGTTGAAAATTCAGGTACTAGAACGGACCAAAATTAATAGTTTAGGTACTAAATGCA
324 TTTGAAAAA-TTGAAAGTTTAGGTACTAAAATGGACCAAAATTAATAGTTTAGGTACTAAATGCA
*
15380069 TAATTTATCCTATTAT
388 TAATTTACCCTATTAT
15380085 AAAATATAAGTTCCCACTTATCATCTCCATCTCTTTCCATCAAAAGTGTGTTATTTTGCATTTTT
1 AAAATATAAGTTCCCACTTATCATCTCCATCTCTTTCCATCAAAAGTGTGTTATTTTGCA-TTTT
* *
15380150 TAAGTTCAAAAATATATTTTGTTTTTGTGATTACTGACTACACATCTTGCATTCAAATTTCCACA
65 CAAGTTCAAAAATATATTTTGTTTTTGTGATTACTGACTACACATTTTGCATTCAAATTTCCACA
15380215 T
130 T
15380216 AAAAGAAATT
Statistics
Matches: 842, Mismatches: 72, Indels: 53
0.87 0.07 0.05
Matches are distributed among these distances:
395 13 0.02
396 105 0.12
401 59 0.07
402 83 0.10
403 106 0.13
404 148 0.18
405 66 0.08
406 62 0.07
408 2 0.00
409 6 0.01
410 76 0.09
411 116 0.14
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (403 bp):
AAAATATAAGTTCCCACTTATCATCTCCATCTCTTTCCATCAAAAGTGTGTTATTTTGCATTTTC
AAGTTCAAAAATATATTTTGTTTTTGTGATTACTGACTACACATTTTGCATTCAAATTTCCACAT
TGTGCCTATTTTTCCTATCGTTTCTCCTTAATTCCCAATTTTTCAAAAAATAAAATTCACCCCTC
ATGGCTATATTTTTGATTGTTCATAGAGCCTAAAATTCTAACAAAAATAGATAGTTTAGGTACTA
AACGATTTGAGTTTTTAACGGTGGAGTACTAAAATGAATCAAAAACTAAATGTTAGGTATGATTT
TGAAAAATTGAAAGTTTAGGTACTAAAATGGACCAAAATTAATAGTTTAGGTACTAAATGCATAA
TTTACCCTATTAT
Found at i:15383424 original size:2 final size:2
Alignment explanation
Indices: 15383417--15383443 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15383407 TCATTTTAAA
15383417 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 A
15383444 CCCAGAGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15383801 original size:3 final size:3
Alignment explanation
Indices: 15383793--15383818 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15383783 CAGGTATTTA
15383793 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
15383819 AAAACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:15384868 original size:21 final size:21
Alignment explanation
Indices: 15384838--15384885 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
15384828 GTTTCCACAC
* *
15384838 CTGCAATTTGGGAATTGGTTA
1 CTGCATTTTGGGAATGGGTTA
15384859 CTGCATTTTGGGAATGGGTTA
1 CTGCATTTTGGGAATGGGTTA
15384880 CTGCAT
1 CTGCAT
15384886 GTTTTACTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.12, G:0.29, T:0.38
Consensus pattern (21 bp):
CTGCATTTTGGGAATGGGTTA
Found at i:15387680 original size:2 final size:2
Alignment explanation
Indices: 15387673--15387715 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
15387663 GTAAATGTAA
15387673 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15387715 A
1 A
15387716 CATACCATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15401351 original size:7 final size:7
Alignment explanation
Indices: 15401336--15401375 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
15401326 TCCTTAAATA
15401336 AAATAAT
1 AAATAAT
*
15401343 AAATCAT
1 AAATAAT
*
15401350 AAATAGT
1 AAATAAT
15401357 AAATAAT
1 AAATAAT
15401364 AAATAAAT
1 AAAT-AAT
15401372 AAAT
1 AAAT
15401376 TAATGAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:15403525 original size:125 final size:125
Alignment explanation
Indices: 15403264--15403517 Score: 355
Period size: 125 Copynumber: 2.0 Consensus size: 125
15403254 TATTTGAATT
* * ** **
15403264 GTATCGGTACACTATACGTATTGATACACACAACACTCGTTGTAATTACAATAAATTCATAGTGT
1 GTATCAGTACACTATAAGTATCAATACACACAACACTCACTGTAATTACAATAAATTCATAGTGT
* *** *
15403329 ATTGATACATGGTGCGTATCAATATTGTCAAAACACACTACAATTTCACATAATTTATCA
66 ATAGATACATGGTGCGTATCAATACCATCAAAACACACTAAAATTTCACATAATTTATCA
*
15403389 GTATCAGTACACTATAAGTATCAATACACACAATACTCACTGTAATTACAATAAATTCATAGTGT
1 GTATCAGTACACTATAAGTATCAATACACACAACACTCACTGTAATTACAATAAATTCATAGTGT
* * * * *
15403454 ATAGGTATATGGTGCGTATCGATACCATCAAAATACATTAAAATTTCACATAATTTATCA
66 ATAGATACATGGTGCGTATCAATACCATCAAAACACACTAAAATTTCACATAATTTATCA
15403514 GTAT
1 GTAT
15403518 TGATACACGA
Statistics
Matches: 112, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
125 112 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (125 bp):
GTATCAGTACACTATAAGTATCAATACACACAACACTCACTGTAATTACAATAAATTCATAGTGT
ATAGATACATGGTGCGTATCAATACCATCAAAACACACTAAAATTTCACATAATTTATCA
Found at i:15403858 original size:31 final size:31
Alignment explanation
Indices: 15403820--15403882 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
15403810 TAGTATGTTT
15403820 TGCATGTATATCTAGAATAAAATAACATAAC
1 TGCATGTATATCTAGAATAAAATAACATAAC
*
15403851 TGCATGTATATCTAGAATAGAATAACATAAC
1 TGCATGTATATCTAGAATAAAATAACATAAC
15403882 T
1 T
15403883 AAACTAATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (31 bp):
TGCATGTATATCTAGAATAAAATAACATAAC
Found at i:15404083 original size:14 final size:14
Alignment explanation
Indices: 15404064--15404091 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15404054 ATTATCAACG
15404064 TACATAACAACAAA
1 TACATAACAACAAA
15404078 TACATAACAACAAA
1 TACATAACAACAAA
15404092 GAGTAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.21, G:0.00, T:0.14
Consensus pattern (14 bp):
TACATAACAACAAA
Found at i:15407379 original size:22 final size:22
Alignment explanation
Indices: 15407354--15407418 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
15407344 GATTAAAAAA
* *
15407354 TTAATTTAATTA-ATATTGTATT
1 TTAATTAAATTACA-ATTATATT
*
15407376 TTAAATAAATTACAATTATATT
1 TTAATTAAATTACAATTATATT
*
15407398 TTCAATTAAATTATAATTATA
1 TT-AATTAAATTACAATTATA
15407419 CGTTGAATAC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 19 0.53
23 17 0.47
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAATTAAATTACAATTATATT
Found at i:15407409 original size:23 final size:22
Alignment explanation
Indices: 15407372--15407418 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
15407362 ATTAATATTG
15407372 TATTTTAAATAAATTACAATTA
1 TATTTTAAATAAATTACAATTA
* *
15407394 TATTTTCAATTAAATTATAATTA
1 TATTTT-AAATAAATTACAATTA
15407417 TA
1 TA
15407419 CGTTGAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTTTAAATAAATTACAATTA
Found at i:15408061 original size:119 final size:119
Alignment explanation
Indices: 15407850--15408088 Score: 478
Period size: 119 Copynumber: 2.0 Consensus size: 119
15407840 ATTAAATATT
15407850 TTAATAAGAAAAAGTAGCACATAATAAAAAAATAGACAGTGGACTCATGAAAATTATAGTAAGCT
1 TTAATAAGAAAAAGTAGCACATAATAAAAAAATAGACAGTGGACTCATGAAAATTATAGTAAGCT
15407915 ACAAAGATGATGAAATATTAAGCCGAAATAATAATCCCTTGGGCTTTTGGAAGA
66 ACAAAGATGATGAAATATTAAGCCGAAATAATAATCCCTTGGGCTTTTGGAAGA
15407969 TTAATAAGAAAAAGTAGCACATAATAAAAAAATAGACAGTGGACTCATGAAAATTATAGTAAGCT
1 TTAATAAGAAAAAGTAGCACATAATAAAAAAATAGACAGTGGACTCATGAAAATTATAGTAAGCT
15408034 ACAAAGATGATGAAATATTAAGCCGAAATAATAATCCCTTGGGCTTTTGGAAGA
66 ACAAAGATGATGAAATATTAAGCCGAAATAATAATCCCTTGGGCTTTTGGAAGA
15408088 T
1 T
15408089 GTTTGGAGGC
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.25
Consensus pattern (119 bp):
TTAATAAGAAAAAGTAGCACATAATAAAAAAATAGACAGTGGACTCATGAAAATTATAGTAAGCT
ACAAAGATGATGAAATATTAAGCCGAAATAATAATCCCTTGGGCTTTTGGAAGA
Found at i:15411588 original size:85 final size:85
Alignment explanation
Indices: 15411445--15411614 Score: 340
Period size: 85 Copynumber: 2.0 Consensus size: 85
15411435 TAGCCAACTT
15411445 ATTGTCTTTCAGAATCCCTTCTACCTGAAATGTCAGCATTTCTATCAAGCTGGAGTTCAAATTAT
1 ATTGTCTTTCAGAATCCCTTCTACCTGAAATGTCAGCATTTCTATCAAGCTGGAGTTCAAATTAT
15411510 TGGACAAAACGTTAATCCAA
66 TGGACAAAACGTTAATCCAA
15411530 ATTGTCTTTCAGAATCCCTTCTACCTGAAATGTCAGCATTTCTATCAAGCTGGAGTTCAAATTAT
1 ATTGTCTTTCAGAATCCCTTCTACCTGAAATGTCAGCATTTCTATCAAGCTGGAGTTCAAATTAT
15411595 TGGACAAAACGTTAATCCAA
66 TGGACAAAACGTTAATCCAA
15411615 GCAAAGTGAA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (85 bp):
ATTGTCTTTCAGAATCCCTTCTACCTGAAATGTCAGCATTTCTATCAAGCTGGAGTTCAAATTAT
TGGACAAAACGTTAATCCAA
Found at i:15418329 original size:16 final size:16
Alignment explanation
Indices: 15418308--15418371 Score: 110
Period size: 16 Copynumber: 4.0 Consensus size: 16
15418298 CTTCATCTTC
* *
15418308 TTCTCCTTATTTCATT
1 TTCTCCATAATTCATT
15418324 TTCTCCATAATTCATT
1 TTCTCCATAATTCATT
15418340 TTCTCCATAATTCATT
1 TTCTCCATAATTCATT
15418356 TTCTCCATAATTCATT
1 TTCTCCATAATTCATT
15418372 CTCACATTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (16 bp):
TTCTCCATAATTCATT
Found at i:15419173 original size:16 final size:16
Alignment explanation
Indices: 15419152--15419206 Score: 110
Period size: 16 Copynumber: 3.4 Consensus size: 16
15419142 CGTAATGGTA
15419152 GGACTTAGTCCATGAG
1 GGACTTAGTCCATGAG
15419168 GGACTTAGTCCATGAG
1 GGACTTAGTCCATGAG
15419184 GGACTTAGTCCATGAG
1 GGACTTAGTCCATGAG
15419200 GGACTTA
1 GGACTTA
15419207 AATGGCAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (16 bp):
GGACTTAGTCCATGAG
Found at i:15419870 original size:22 final size:22
Alignment explanation
Indices: 15419841--15419923 Score: 103
Period size: 22 Copynumber: 3.8 Consensus size: 22
15419831 ATATCCCGAG
15419841 CAGTGCTAAGGCACTTTAGTAT
1 CAGTGCTAAGGCACTTTAGTAT
* * **
15419863 TAGTGCTAATGCACTTCCGTAT
1 CAGTGCTAAGGCACTTTAGTAT
* * *
15419885 CAGTGCTGAGGCACTTTAATAC
1 CAGTGCTAAGGCACTTTAGTAT
15419907 CAGTGCTAAGGCACTTT
1 CAGTGCTAAGGCACTTT
15419924 CGTTAATCGA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (22 bp):
CAGTGCTAAGGCACTTTAGTAT
Found at i:15425107 original size:22 final size:25
Alignment explanation
Indices: 15425058--15425111 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
15425048 ATGAAACTGA
15425058 TTTTTTCGGTTCGGTTCGATAATGCGG
1 TTTTTTCGGTTCGGTT--ATAATGCGG
15425085 TTTTTTCGGTTCGGTT-T-AT-CGG
1 TTTTTTCGGTTCGGTTATAATGCGG
15425107 TTTTT
1 TTTTT
15425112 CAATGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 8 0.30
23 2 0.07
24 1 0.04
27 16 0.59
ACGTcount: A:0.07, C:0.13, G:0.26, T:0.54
Consensus pattern (25 bp):
TTTTTTCGGTTCGGTTATAATGCGG
Found at i:15434820 original size:24 final size:24
Alignment explanation
Indices: 15434782--15434851 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
15434772 CAAATCAGAG
* *
15434782 TCCATGTCAAGTATCATATAAAAA
1 TCCAGGTCAAATATCATATAAAAA
* * *
15434806 TTCAGGTCAAATATCATATCAGAA
1 TCCAGGTCAAATATCATATAAAAA
* *
15434830 TCCAGGTCAAAAATCAGATAAA
1 TCCAGGTCAAATATCATATAAA
15434852 CTATTTATAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (24 bp):
TCCAGGTCAAATATCATATAAAAA
Found at i:15434851 original size:48 final size:47
Alignment explanation
Indices: 15434757--15434851 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 47
15434747 ATTAAAACAT
* * * ** *
15434757 AATTCAGGTCAAGTACAAATCAGAGTCCATGTCAAGTATCATATAAA
1 AATTCAGGTCAAATACAAATCAGAATCCAGGTCAAAAATCAGATAAA
*
15434804 AATTCAGGTCAAATATCATATCAGAATCCAGGTCAAAAATCAGATAAA
1 AATTCAGGTCAAATA-CAAATCAGAATCCAGGTCAAAAATCAGATAAA
15434852 CTATTTATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
47 14 0.35
48 26 0.65
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (47 bp):
AATTCAGGTCAAATACAAATCAGAATCCAGGTCAAAAATCAGATAAA
Found at i:15435582 original size:27 final size:28
Alignment explanation
Indices: 15435543--15435642 Score: 85
Period size: 30 Copynumber: 3.5 Consensus size: 28
15435533 GTCAATCATT
*
15435543 TTACAGAAATAGCACCTTTTTAAAAT-AA
1 TTACA-AAATAGCACATTTTTAAAATAAA
* *
15435571 TTACAAAATAGCACATTTTCAAATTAAA
1 TTACAAAATAGCACATTTTTAAAATAAA
* * * *
15435599 TTCCCAAAATAGCACTTTTTTCGAATTAAA
1 TT-ACAAAATAGCACATTTTT-AAAATAAA
*
15435629 TTGCCAAAATAGCA
1 TT-ACAAAATAGCA
15435643 TTTCTTCGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
27 17 0.28
28 9 0.15
29 15 0.25
30 20 0.33
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (28 bp):
TTACAAAATAGCACATTTTTAAAATAAA
Found at i:15435626 original size:30 final size:30
Alignment explanation
Indices: 15435549--15435697 Score: 157
Period size: 29 Copynumber: 5.2 Consensus size: 30
15435539 CATTTTACAG
* * *
15435549 AAATAGCACCTTTTT-AAAAT-AATT-ACA
1 AAATAGCACTTTTTTCAAATTAAATTCCCA
*
15435576 AAATAGCAC-ATTTTCAAATTAAATTCCCA
1 AAATAGCACTTTTTTCAAATTAAATTCCCA
* *
15435605 AAATAGCACTTTTTTCGAATTAAATTGCCA
1 AAATAGCACTTTTTTCAAATTAAATTCCCA
* *
15435635 AAATAGCA-TTTCTTCGAATTAAATTCCCA
1 AAATAGCACTTTTTTCAAATTAAATTCCCA
***
15435664 AAATAGCACCCATTTCAAATT-AATTCCCA
1 AAATAGCACTTTTTTCAAATTAAATTCCCA
15435693 AAATA
1 AAATA
15435698 TCACCCGATC
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
26 4 0.04
27 13 0.12
28 4 0.04
29 51 0.49
30 32 0.31
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.32
Consensus pattern (30 bp):
AAATAGCACTTTTTTCAAATTAAATTCCCA
Found at i:15435685 original size:59 final size:58
Alignment explanation
Indices: 15435549--15435697 Score: 160
Period size: 59 Copynumber: 2.6 Consensus size: 58
15435539 CATTTTACAG
* * * *
15435549 AAATAGCA-CCTTTTTAAAATAATT-ACAAAATAGCACATTTTCAAATTAAATTCCCA
1 AAATAGCACCCATTTCAAATTAATTCCCAAAATAGCACATTTTCAAATTAAATTCCCA
*** * * * *
15435605 AAATAGCACTTTTTTCGAATTAAATTGCCAAAATAGCA-TTTCTTCGAATTAAATTCCCA
1 AAATAGCACCCATTTCAAATT-AATTCCCAAAATAGCACATT-TTCAAATTAAATTCCCA
15435664 AAATAGCACCCATTTCAAATTAATTCCCAAAATA
1 AAATAGCACCCATTTCAAATTAATTCCCAAAATA
15435698 TCACCCGATC
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
56 8 0.11
57 7 0.09
58 18 0.24
59 43 0.57
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.32
Consensus pattern (58 bp):
AAATAGCACCCATTTCAAATTAATTCCCAAAATAGCACATTTTCAAATTAAATTCCCA
Found at i:15438996 original size:23 final size:23
Alignment explanation
Indices: 15438970--15439014 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
15438960 CACCACAGCT
* *
15438970 CGTATAATTGCACTGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
15438993 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
15439015 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:15439566 original size:20 final size:21
Alignment explanation
Indices: 15439529--15439571 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
15439519 ACCTGATGAC
* * *
15439529 ATATATCATATCATATAT-AT
1 ATATATAATAACAGATATCAT
15439549 ATATATAATAACAGATATCAT
1 ATATATAATAACAGATATCAT
15439570 AT
1 AT
15439572 TATCTACCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATATAATAACAGATATCAT
Found at i:15440646 original size:21 final size:21
Alignment explanation
Indices: 15440616--15440660 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
15440606 ATTCTGTCGT
* *
15440616 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
15440637 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
15440658 TTG
1 TTG
15440661 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:15445121 original size:24 final size:24
Alignment explanation
Indices: 15445083--15445152 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
15445073 CAAATCAGAG
* *
15445083 TCCATGTCAAGTATCATATAAAAA
1 TCCAGGTCAAATATCATATAAAAA
* * *
15445107 TTCAGGTCAAATATCATATCAGAA
1 TCCAGGTCAAATATCATATAAAAA
* *
15445131 TCCAGGTCAAAAATCAGATAAA
1 TCCAGGTCAAATATCATATAAA
15445153 CTATTTATAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (24 bp):
TCCAGGTCAAATATCATATAAAAA
Found at i:15445152 original size:48 final size:47
Alignment explanation
Indices: 15445058--15445152 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 47
15445048 ATTAAAACAT
* * * ** *
15445058 AATTCAGGTCAAGTACAAATCAGAGTCCATGTCAAGTATCATATAAA
1 AATTCAGGTCAAATACAAATCAGAATCCAGGTCAAAAATCAGATAAA
*
15445105 AATTCAGGTCAAATATCATATCAGAATCCAGGTCAAAAATCAGATAAA
1 AATTCAGGTCAAATA-CAAATCAGAATCCAGGTCAAAAATCAGATAAA
15445153 CTATTTATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
47 14 0.35
48 26 0.65
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (47 bp):
AATTCAGGTCAAATACAAATCAGAATCCAGGTCAAAAATCAGATAAA
Found at i:15445877 original size:29 final size:30
Alignment explanation
Indices: 15445834--15445906 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
15445824 GTCAATCATT
* *
15445834 TTACAAAAATAGCACCCTTTTTAAAAT-AA
1 TTACCAAAATAGCACCCTTTTCAAAATAAA
* * *
15445863 TTACCAAAATTGCA-CCTTTTCGAATTAAA
1 TTACCAAAATAGCACCCTTTTCAAAATAAA
15445892 TTACCAAAATAGCAC
1 TTACCAAAATAGCAC
15445907 TTTTTCGGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 9 0.25
29 27 0.75
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (30 bp):
TTACCAAAATAGCACCCTTTTCAAAATAAA
Found at i:15445970 original size:28 final size:29
Alignment explanation
Indices: 15445915--15446006 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
15445905 ACTTTTTCGG
* * *
15445915 AAAATAGCAACTTTTTCCGAATAAATTCCC
1 AAAATAGCACCCTTTT-CGAATTAATTCCC
*
15445945 AAAGTAGCA-CCTTTTCGAATTAATTCCC
1 AAAATAGCACCCTTTTCGAATTAATTCCC
*
15445973 AAAATAGCACCCATTTCGAATTAATTCCC
1 AAAATAGCACCCTTTTCGAATTAATTCCC
15446002 AAAAT
1 AAAAT
15446007 GTCACCCGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 20 0.36
29 28 0.50
30 8 0.14
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (29 bp):
AAAATAGCACCCTTTTCGAATTAATTCCC
Found at i:15451877 original size:38 final size:38
Alignment explanation
Indices: 15451826--15451904 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
15451816 TAAGTTATAT
15451826 AACACGATCCACATTAAATGGTTGTATTTTCAACAACA
1 AACACGATCCACATTAAATGGTTGTATTTTCAACAACA
* *
15451864 AACACGATCCACATTAAATGGTTGTATTTTCAGCAGCA
1 AACACGATCCACATTAAATGGTTGTATTTTCAACAACA
15451902 AAC
1 AAC
15451905 GTAGTAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (38 bp):
AACACGATCCACATTAAATGGTTGTATTTTCAACAACA
Found at i:15453376 original size:20 final size:20
Alignment explanation
Indices: 15453318--15453379 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
15453308 GACCCGGTTT
* **
15453318 GACCC-ACCCGGTCCGACGT
1 GACCCGACCCGGTCTGACCC
15453337 GACCCGACCCGGTCTGACCC
1 GACCCGACCCGGTCTGACCC
15453357 GACCCGACCCGGTCTGACCC
1 GACCCGACCCGGTCTGACCC
15453377 GAC
1 GAC
15453380 TGCTTGGCCC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 5 0.13
20 34 0.87
ACGTcount: A:0.16, C:0.48, G:0.26, T:0.10
Consensus pattern (20 bp):
GACCCGACCCGGTCTGACCC
Found at i:15453379 original size:15 final size:15
Alignment explanation
Indices: 15453303--15453362 Score: 59
Period size: 15 Copynumber: 3.7 Consensus size: 15
15453293 ACCGTTGACC
*
15453303 GACCCGACCCGGTTT
1 GACCCGACCCGGTCT
15453318 GACCC-ACCCGGTCCGACGT
1 GACCCGACCCGGT----C-T
15453337 GACCCGACCCGGTCT
1 GACCCGACCCGGTCT
15453352 GACCCGACCCG
1 GACCCGACCCG
15453363 ACCCGGTCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
14 7 0.18
15 17 0.45
16 1 0.03
19 6 0.16
20 7 0.18
ACGTcount: A:0.15, C:0.47, G:0.27, T:0.12
Consensus pattern (15 bp):
GACCCGACCCGGTCT
Found at i:15457104 original size:18 final size:18
Alignment explanation
Indices: 15457074--15457111 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
15457064 CGTTGACTGT
15457074 TGACCGTTTACCGTTGAC
1 TGACCGTTTACCGTTGAC
15457092 TGACC-TTTGACCGTTGAC
1 TGACCGTTT-ACCGTTGAC
15457110 TG
1 TG
15457112 TGACCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (18 bp):
TGACCGTTTACCGTTGAC
Found at i:15459810 original size:3 final size:3
Alignment explanation
Indices: 15459802--15459873 Score: 117
Period size: 3 Copynumber: 24.0 Consensus size: 3
15459792 CCATATTGAT
* *
15459802 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
15459850 TTA TCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
15459874 AATATATTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:15459903 original size:3 final size:3
Alignment explanation
Indices: 15459895--15459930 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
15459885 TACATATATA
15459895 AAT AAT AAT AA- AA- AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15459931 ATTACAAGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:15460374 original size:15 final size:15
Alignment explanation
Indices: 15460354--15460395 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
15460344 ACAACTCAGC
15460354 AAAGAAACAG-AAAAG
1 AAAGAAA-AGAAAAAG
15460369 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
15460384 AAAGAAGAGAAA
1 AAAGAAAAGAAA
15460396 CTTACTGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:15460379 original size:20 final size:20
Alignment explanation
Indices: 15460354--15460395 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
15460344 ACAACTCAGC
*
15460354 AAAGAAACAGAAAAGAA-AGA
1 AAAGAAAAAG-AAAGAAGAGA
15460374 AAAGAAAAAGAAAGAAGAGA
1 AAAGAAAAAGAAAGAAGAGA
15460394 AA
1 AA
15460396 CTTACTGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAGAAGAGA
Found at i:15461972 original size:19 final size:19
Alignment explanation
Indices: 15461950--15461992 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
15461940 TTCTTTCAAA
15461950 TTTTTTAT-TACTTATTATT
1 TTTTTTATATA-TTATTATT
*
15461969 TTTTATATATATTATTATT
1 TTTTTTATATATTATTATT
15461988 TTTTT
1 TTTTT
15461993 ATTTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTATATATTATTATT
Found at i:15461981 original size:16 final size:15
Alignment explanation
Indices: 15461949--15462013 Score: 67
Period size: 16 Copynumber: 4.0 Consensus size: 15
15461939 TTTCTTTCAA
15461949 ATTTTTTATTACTTATT
1 ATTTTTTATTA--TATT
15461966 ATTTTTTATATATATT
1 ATTTTTTAT-TATATT
* *
15461982 ATTATTTTTTTATTTT
1 ATT-TTTTATTATATT
15461998 ATTTATTTATTATATT
1 ATTT-TTTATTATATT
15462014 CAAGAATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 1 0.02
16 24 0.59
17 14 0.34
18 2 0.05
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTTTTATTATATT
Found at i:15462000 original size:19 final size:19
Alignment explanation
Indices: 15461949--15462012 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 19
15461939 TTTCTTTCAA
*
15461949 ATTTTTTAT-TA-CTTATT
1 ATTTTTTATATATATTATT
15461966 ATTTTTTATATATATTATT
1 ATTTTTTATATATATTATT
15461985 ATTTTTT-TAT-T-TTATTT
1 ATTTTTTATATATATTA-TT
*
15462002 ATTTATTATAT
1 ATTTTTTATAT
15462013 TCAAGAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.07
17 18 0.44
18 8 0.20
19 12 0.29
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTTTTATATATATTATT
Found at i:15463454 original size:15 final size:14
Alignment explanation
Indices: 15463429--15463470 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
15463419 TTTTCATGCA
15463429 TACAT-TTGCATTT
1 TACATCTTGCATTT
15463442 TACATCCTTGCATTT
1 TACAT-CTTGCATTT
* *
15463457 TTCATTTTGCATTT
1 TACATCTTGCATTT
15463471 ATACTGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 8 0.32
15 12 0.48
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.55
Consensus pattern (14 bp):
TACATCTTGCATTT
Found at i:15466741 original size:23 final size:23
Alignment explanation
Indices: 15466714--15466758 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
15466704 TATTATACTC
15466714 ATCCAGCAAAGAAAGAAAAAAAA
1 ATCCAGCAAAGAAAGAAAAAAAA
*
15466737 ATCCAGCAAAGAAAGGAAAAAA
1 ATCCAGCAAAGAAAGAAAAAAA
15466759 GAAAAAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.67, C:0.13, G:0.16, T:0.04
Consensus pattern (23 bp):
ATCCAGCAAAGAAAGAAAAAAAA
Found at i:15466774 original size:10 final size:9
Alignment explanation
Indices: 15466753--15466820 Score: 52
Period size: 8 Copynumber: 7.6 Consensus size: 9
15466743 CAAAGAAAGG
15466753 AAAAA-AGA
1 AAAAAGAGA
15466761 AAAAAGAGGA
1 AAAAAGA-GA
15466771 AAAAAGA-A
1 AAAAAGAGA
*
15466779 AAAAAAAGGA
1 AAAAAGA-GA
*
15466789 AAGAAATAGA
1 AA-AAAGAGA
* *
15466799 AAAAAAACA
1 AAAAAGAGA
15466808 AAAAAGA-A
1 AAAAAGAGA
15466816 AAAAA
1 AAAAA
15466821 ATTAAATCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
8 18 0.36
9 12 0.24
10 16 0.32
11 4 0.08
ACGTcount: A:0.82, C:0.01, G:0.15, T:0.01
Consensus pattern (9 bp):
AAAAAGAGA
Found at i:15466799 original size:21 final size:18
Alignment explanation
Indices: 15466748--15466821 Score: 89
Period size: 17 Copynumber: 4.1 Consensus size: 18
15466738 TCCAGCAAAG
15466748 AAAGGAAAAAAG-AAAAA
1 AAAGGAAAAAAGAAAAAA
*
15466765 AGAGGAAAAAAGAAAAAA
1 AAAGGAAAAAAGAAAAAA
*
15466783 AAAGGAAAGAAATAGAAAAA
1 AAAGGAAA-AAAGA-AAAAA
*
15466803 AAA-CAAAAAAGAAAAAA
1 AAAGGAAAAAAGAAAAAA
15466820 AA
1 AA
15466822 TTAAATCAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
17 18 0.37
18 16 0.33
19 7 0.14
20 8 0.16
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.01
Consensus pattern (18 bp):
AAAGGAAAAAAGAAAAAA
Found at i:15466813 original size:22 final size:21
Alignment explanation
Indices: 15466744--15466816 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
15466734 AAAATCCAGC
*
15466744 AAAGAAA-GGAAAAAAGAAAAA
1 AAAGAAATAGAAAAAA-AAAAA
* * **
15466765 AGAGGAAAAAAGAAAAAAAAAGG
1 A-AAG-AAATAGAAAAAAAAAAA
15466788 AAAGAAATAGAAAAAAAACAAA
1 AAAGAAATAGAAAAAAAA-AAA
15466810 AAAGAAA
1 AAAGAAA
15466817 AAAAATTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
21 14 0.35
22 12 0.30
23 7 0.17
24 7 0.17
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.01
Consensus pattern (21 bp):
AAAGAAATAGAAAAAAAAAAA
Found at i:15466821 original size:10 final size:10
Alignment explanation
Indices: 15466753--15466821 Score: 52
Period size: 10 Copynumber: 6.5 Consensus size: 10
15466743 CAAAGAAAGG
15466753 AAAAAAGAAA
1 AAAAAAGAAA
* *
15466763 AAAGAGGAAA
1 AAAAAAGAAA
15466773 AAAGAAA-AAA
1 AAA-AAAGAAA
15466783 AAAGGAAAGAAA
1 AAA--AAAGAAA
15466795 TAGAAAAA-AAA
1 -A-AAAAAGAAA
15466806 CAAAAAAGAAA
1 -AAAAAAGAAA
15466817 AAAAA
1 AAAAA
15466822 TTAAATCAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
10 27 0.56
11 12 0.25
12 6 0.12
13 1 0.02
14 2 0.04
ACGTcount: A:0.83, C:0.01, G:0.14, T:0.01
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:15469083 original size:114 final size:114
Alignment explanation
Indices: 15468868--15469100 Score: 376
Period size: 114 Copynumber: 2.0 Consensus size: 114
15468858 ACTCGGACAA
*
15468868 ATGAATTTGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
1 ATGAATTTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
* * * *
15468933 TCTGATCTGGTTTGGTATAAACCCCAAAACCAATCATTGGATTTGAAAG
66 TCTGATCTGATTCGGTAGAAACCCCAAAACCAATCATTGGAATTGAAAG
*
15468982 ATGAATTTGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
1 ATGAATTTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
* * * *
15469047 TCTGATCTGATTCGGTAGGAACCTCAGAACCGATCATTGGAATTGAAAG
66 TCTGATCTGATTCGGTAGAAACCCCAAAACCAATCATTGGAATTGAAAG
15469096 ATGAA
1 ATGAA
15469101 CTGCATGATC
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 109 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (114 bp):
ATGAATTTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
TCTGATCTGATTCGGTAGAAACCCCAAAACCAATCATTGGAATTGAAAG
Found at i:15470173 original size:73 final size:73
Alignment explanation
Indices: 15470054--15470284 Score: 435
Period size: 73 Copynumber: 3.2 Consensus size: 73
15470044 AGACAGATCC
15470054 ATGTGGGGCATTTTGAAGGCTCATCTCAACAAGAAGTAATGACTAAGCCTACTTTTAGCATCTGT
1 ATGTGGGGCATTTTGAAGGCTCATCTCAACAAGAAGTAATGACTAAGCCTACTTTTAGCATCTGT
15470119 ATCAGCAA
66 ATCAGCAA
*
15470127 ATGTGGGGCATTTTGAAGGCTCATCTCAACAAGAAGTAATGACTAAGCCTATTTTTAGCATCTGT
1 ATGTGGGGCATTTTGAAGGCTCATCTCAACAAGAAGTAATGACTAAGCCTACTTTTAGCATCTGT
15470192 ATCAGCAA
66 ATCAGCAA
15470200 ATGTGGGGCATTTTGAAGGCTCATCTCAACAAGAAGTAATGACTAAGCCTACTTTTAGCATCTGT
1 ATGTGGGGCATTTTGAAGGCTCATCTCAACAAGAAGTAATGACTAAGCCTACTTTTAGCATCTGT
15470265 ATCAGCAA
66 ATCAGCAA
*
15470273 ATACTGGGGCAT
1 AT-GTGGGGCAT
15470285 ACTAAAGGCC
Statistics
Matches: 154, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
73 146 0.95
74 8 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (73 bp):
ATGTGGGGCATTTTGAAGGCTCATCTCAACAAGAAGTAATGACTAAGCCTACTTTTAGCATCTGT
ATCAGCAA
Found at i:15471652 original size:22 final size:22
Alignment explanation
Indices: 15471626--15471702 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
15471616 ATCTACACTC
*
15471626 TTCAAAGATGATGGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
15471648 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGATAGATTCTCTT
* * *
15471670 TTTAAAGATGACAGTTTCTCTT
1 TTCAAAGATGATAGATTCTCTT
15471692 TTCAAAGATGA
1 TTCAAAGATGA
15471703 AAGCTTTATT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:15472402 original size:113 final size:114
Alignment explanation
Indices: 15472103--15473580 Score: 1859
Period size: 115 Copynumber: 13.0 Consensus size: 114
15472093 TAGCAAAGAT
* *
15472103 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGA-AAGAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATTCATCACTTGATGGATCAACTTTTCCAGATAAGAGTTCATAATGAGAAGAACTCATCTG
*
15472167 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGC
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCGC
** * *
15472216 TTGAATTCATCATTTGAT-GATTCAGTA-TTTTCCAGATAA-AGTTCATAATAAGAAGAACTCAT
1 TCAAATTCATCACTTGATGGA-TCA--ACTTTTCCAGATAAGAGTTCATAATGAGAAGAACTCAT
* * * *
15472278 CTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTAT-GT
63 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTCGC
* * * *
15472330 TTAAATCCATCACTTGATGGATCAGCTTTTCCAGATAA-AGTTCATAATAAGAAGAACTCATCTG
1 TCAAATTCATCACTTGATGGATCAACTTTTCCAGATAAGAGTTCATAATGAGAAGAACTCATCTG
* * * * *
15472394 AAGGAGGAAGAAGAAATTCATAATGAGAATAATTTGTTCAACCTTAT-GT
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTCGC
* * * *
15472443 TTAAATCCATCACTTGATGGATCAGCTTTTCCAGATAA-AGTTCATAATAAGAAGAACTCATCTG
1 TCAAATTCATCACTTGATGGATCAACTTTTCCAGATAAGAGTTCATAATGAGAAGAACTCATCTG
* * * *
15472507 AAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTAT-GT
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTCGC
* * * * **
15472556 TTAAATCCATCACTTGATTGATCAGCTTTTCCAGAGGA-AGTTCATAATGAGAAGAACTCATCTG
1 TCAAATTCATCACTTGATGGATCAACTTTTCCAGATAAGAGTTCATAATGAGAAGAACTCATCTG
15472620 AAGAA-GAATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GC
66 AAGAAGGAA-GAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTCGC
* * *
15472669 TCAAATTTATCACTTGATGGATTATCTTTTCCAG-TGAGAGAGTTCATAATGAGAAGAACTCATC
1 TCAAATTCATCACTTGATGGATCAACTTTTCCAGAT-A-AGAGTTCATAATGAGAAGAACTCATC
* *
15472733 TGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGC
64 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCGC
* * *
15472784 TCGAATTCATCACTCGATGGATCAACTTTTCCAGTTAGAGAGTTCATAATGAGAAGAACTCATCT
1 TCAAATTCATCACTTGATGGATCAACTTTTCCAGATA-AGAGTTCATAATGAGAAGAACTCATCT
*
15472849 GAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCGC
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCGC
* *
15472899 TCGAATTCATCACTCGATGGATCAACTTTTCCAG-TGAGAGAGTTCATAATGAGAAGAACTCATC
1 TCAAATTCATCACTTGATGGATCAACTTTTCCAGAT-A-AGAGTTCATAATGAGAAGAACTCATC
* *
15472963 TGAAGAATGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCGC
64 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCGC
* *
15473014 TCGAATTCATCACTCGATGGATCAACTTTTCCAG-TGAGAGAGTTCATAATGAGAAGAACTCATC
1 TCAAATTCATCACTTGATGGATCAACTTTTCCAGAT-A-AGAGTTCATAATGAGAAGAACTCATC
* *
15473078 TGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGC
64 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCGC
* * *
15473129 TCGAATTCATCACTCGGTGGATCAACTTTTCCAG-TGAAAGAGTTCATAATGAGAAGAACTCATC
1 TCAAATTCATCACTTGATGGATCAACTTTTCCAGAT--AAGAGTTCATAATGAGAAGAACTCATC
* * *
15473193 TGAAGAAAGAAGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGC
64 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCGC
* *
15473244 TCGAATTCATCACTCGATGGATCAACTTTTCCAG-TGAAAGAGTTCATAATGAGAAGAACTCATC
1 TCAAATTCATCACTTGATGGATCAACTTTTCCAGAT--AAGAGTTCATAATGAGAAGAACTCATC
* * *
15473308 TGAAGAAAGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAATCTTTT-GC
64 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTCGC
* * * * *
15473359 TCAAATCCATCATTTGATGGATCAGCTTTTCCCGAGAA-AGTTCATAATGAGAAGAACTCATCTG
1 TCAAATTCATCACTTGATGGATCAACTTTTCCAGATAAGAGTTCATAATGAGAAGAACTCATCTG
* *
15473423 AAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GT
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CTTTTCGC
* * * * * * * *
15473472 TTAAATTCATCATTTGATGGATTAACATTGCCAGGT-AGAGTTCATAATGAGAATAACTCGTCAT
1 TCAAATTCATCACTTGATGGATCAACTTTTCCAGATAAGAGTTCATAATGAGAAGAACTCATC-T
** * **
15473536 -CTGAA-GAAGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACTTTT
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTT
15473581 TGCATAATTC
Statistics
Matches: 1261, Mismatches: 84, Indels: 42
0.91 0.06 0.03
Matches are distributed among these distances:
111 5 0.00
112 37 0.03
113 465 0.37
114 101 0.08
115 643 0.51
116 10 0.01
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (114 bp):
TCAAATTCATCACTTGATGGATCAACTTTTCCAGATAAGAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCGC
Found at i:15473702 original size:84 final size:82
Alignment explanation
Indices: 15473548--15473731 Score: 208
Period size: 84 Copynumber: 2.2 Consensus size: 82
15473538 GAAGAAGAAG
* * * * * * *
15473548 AAGTTCATAATAAGAAGAGCTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTA
1 AAGTTCATAATAAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGGAAAAAGATCA
*
15473613 GCATCAGCCTTTCCAG-AGA
66 ACATCAGCC---CCAGTAGA
* * * *
15473632 AAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACTCTATCACAGAAGGAAAAAGGTCA
1 AAGTTCATAATAAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGGAAAAAGATCA
* *
15473697 ACATCATCCCCAGTGGA
66 ACATCAGCCCCAGTAGA
15473714 AAGTTCATAATAAGAAGA
1 AAGTTCATAATAAGAAGA
15473732 ACTCATCTGA
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
81 4 0.05
82 19 0.23
84 61 0.73
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (82 bp):
AAGTTCATAATAAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGGAAAAAGATCA
ACATCAGCCCCAGTAGA
Found at i:15473905 original size:3 final size:3
Alignment explanation
Indices: 15473897--15473974 Score: 138
Period size: 3 Copynumber: 26.0 Consensus size: 3
15473887 CCATATTGAT
*
15473897 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
15473945 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15473975 AATATATTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15474011 original size:13 final size:13
Alignment explanation
Indices: 15473995--15474019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15473985 ATACATATAT
15473995 AAATAATAATAAA
1 AAATAATAATAAA
15474008 AAATAATAATAA
1 AAATAATAATAA
15474020 TAATAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAATAATAAA
Found at i:15474472 original size:15 final size:15
Alignment explanation
Indices: 15474452--15474493 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
15474442 ACAACTCAGC
15474452 AAAGAAACAG-AAAAG
1 AAAGAAA-AGAAAAAG
15474467 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
15474482 AAAGAAGAGAAA
1 AAAGAAAAGAAA
15474494 CTTACCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:15474477 original size:20 final size:20
Alignment explanation
Indices: 15474452--15474493 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
15474442 ACAACTCAGC
*
15474452 AAAGAAACAGAAAAGAA-AGA
1 AAAGAAAAAG-AAAGAAGAGA
15474472 AAAGAAAAAGAAAGAAGAGA
1 AAAGAAAAAGAAAGAAGAGA
15474492 AA
1 AA
15474494 CTTACCGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAGAAGAGA
Found at i:15475319 original size:14 final size:15
Alignment explanation
Indices: 15475300--15475341 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
15475290 TATCGTTCTA
15475300 GTTTTATTTTTA-TT
1 GTTTTATTTTTACTT
*
15475314 GTTTTAATTTTACTT
1 GTTTTATTTTTACTT
*
15475329 GTCTATATTTTTA
1 GT-TTTATTTTTA
15475342 AATATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 4 0.17
16 8 0.35
ACGTcount: A:0.19, C:0.05, G:0.07, T:0.69
Consensus pattern (15 bp):
GTTTTATTTTTACTT
Found at i:15476610 original size:31 final size:30
Alignment explanation
Indices: 15476560--15476632 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 30
15476550 TTAAAACTTA
* *
15476560 CAATATAATCTCTCACATTTAGTCCGTTTG
1 CAATATGATCCCTCACATTTAGTCCGTTTG
*
15476590 CAATATGATCCCTCAACATTTAGTCTGTTTG
1 CAATATGATCCCTC-ACATTTAGTCCGTTTG
*
15476621 CAATATGGTCCC
1 CAATATGATCCC
15476633 CGACGTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 12 0.32
31 26 0.68
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (30 bp):
CAATATGATCCCTCACATTTAGTCCGTTTG
Found at i:15478195 original size:31 final size:31
Alignment explanation
Indices: 15478133--15478209 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
15478123 CTTTTAAAAC
* * * *
15478133 TTGCAATATAATCCC-CAATATTTATTTCGT
1 TTGCAATATAGTCCCTCAACATTTAGTCCGT
15478163 TTGCAATATAGTCCCTCAACATTTAGTCCGT
1 TTGCAATATAGTCCCTCAACATTTAGTCCGT
*
15478194 TTGCAATATGGTCCCT
1 TTGCAATATAGTCCCT
15478210 GACGTAACTG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 14 0.34
31 27 0.66
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (31 bp):
TTGCAATATAGTCCCTCAACATTTAGTCCGT
Found at i:15479229 original size:21 final size:23
Alignment explanation
Indices: 15479200--15479242 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
15479190 ATTCCCAGAA
*
15479200 AATGTAGTATCGGTACT-CCTTC
1 AATGTAGTATCGATACTACCTTC
15479222 AATG-AGTATCGATACTACCTT
1 AATGTAGTATCGATACTACCTT
15479243 TGTAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (23 bp):
AATGTAGTATCGATACTACCTTC
Found at i:15480387 original size:20 final size:21
Alignment explanation
Indices: 15480342--15480390 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
15480332 GGTACCACAT
* *
15480342 GAACAGTATCGATATTGTTCA
1 GAACAGTATCGATACTGTTAA
*
15480363 -TACAGTATCGATACTG-TAA
1 GAACAGTATCGATACTGTTAA
15480382 GAACAGTAT
1 GAACAGTAT
15480391 TGGTACTACG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (21 bp):
GAACAGTATCGATACTGTTAA
Found at i:15487320 original size:34 final size:33
Alignment explanation
Indices: 15487275--15487356 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 33
15487265 TAAATTAAAT
* *
15487275 TAAAATGAAGAAAAAACAAATTAAATAAAAAAGA
1 TAAAATAAAGAAAAAA-AAATAAAATAAAAAAGA
** * *
15487309 TAAAATAAAGAAGGCAAAAATAAAATATAAAATA
1 TAAAATAAAGAA-AAAAAAATAAAATAAAAAAGA
15487343 TAAAAATAAAGAAA
1 T-AAAATAAAGAAA
15487357 CCAAAGAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
34 26 0.67
35 13 0.33
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (33 bp):
TAAAATAAAGAAAAAAAAATAAAATAAAAAAGA
Found at i:15487452 original size:38 final size:37
Alignment explanation
Indices: 15487400--15487504 Score: 97
Period size: 38 Copynumber: 2.7 Consensus size: 37
15487390 AAAACAATGG
*
15487400 TAAAAAAAGTAAAAATAATATATATATATATAAAATAGA
1 TAAAACAA-TAAAAATAATATATATATATATAAAATA-A
* * *
15487439 TGAAAAC-ATAAAAA-AGGTAAATATATATATAAATTAA
1 T-AAAACAATAAAAATA-ATATATATATATATAAAATAA
*
15487476 TAAAACAGATAAAAAATAACATATATATA
1 TAAAACA-AT-AAAAATAATATATATATA
15487505 CATGCAATCT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
36 5 0.09
37 3 0.06
38 25 0.47
39 15 0.28
40 5 0.09
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.27
Consensus pattern (37 bp):
TAAAACAATAAAAATAATATATATATATATAAAATAA
Found at i:15487452 original size:46 final size:45
Alignment explanation
Indices: 15487400--15487494 Score: 111
Period size: 47 Copynumber: 2.1 Consensus size: 45
15487390 AAAACAATGG
* * * *
15487400 TAAAAAAAGTAAAAATA-ATATATATATATATAAAATAGATGAAAACA
1 TAAAAAAGGTAAAAATATATATAAAT-TA-ATAAAACAGAT-AAAAAA
*
15487447 TAAAAAAGGTAAATATATATATAAATTAATAAAACAGATAAAAAA
1 TAAAAAAGGTAAAAATATATATAAATTAATAAAACAGATAAAAAA
15487492 TAA
1 TAA
15487495 CATATATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 8 0.19
46 10 0.24
47 17 0.40
48 7 0.17
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.25
Consensus pattern (45 bp):
TAAAAAAGGTAAAAATATATATAAATTAATAAAACAGATAAAAAA
Done.