Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008569.1 Hibiscus syriacus cultivar Beakdansim tig00111493_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: 1513883
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:11818 original size:18 final size:18
Alignment explanation
Indices: 11789--11861 Score: 85
Period size: 18 Copynumber: 4.1 Consensus size: 18
11779 AGGAACAAAT
*
11789 AAAAGATGAAAAATAAAA
1 AAAAAATGAAAAATAAAA
* *
11807 AAAAAA-AAAAAAAAAGAA
1 AAAAAATGAAAAATAA-AA
*
11825 AAAAAATGAAAAATGAAA
1 AAAAAATGAAAAATAAAA
*
11843 AAGAAATGAAAAATAAAA
1 AAAAAATGAAAAATAAAA
11861 A
1 A
11862 GAGAAAAAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
17 7 0.16
18 32 0.71
19 6 0.13
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (18 bp):
AAAAAATGAAAAATAAAA
Found at i:11844 original size:1 final size:1
Alignment explanation
Indices: 11797--11830 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
11787 ATAAAAGATG
* *
11797 AAAAATAAAAAAAAAAAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11831 TGAAAAATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.94, C:0.00, G:0.03, T:0.03
Consensus pattern (1 bp):
A
Found at i:11855 original size:43 final size:42
Alignment explanation
Indices: 11772--11869 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 42
11762 ATGCTTGAAG
* * *
11772 AAAAAAAAG-GAACAAATAAAAGATGAAAAATAAAAAAAAAAA
1 AAAAAAAAGAAAAAAAATAAAAGATGAAAAA-GAAAAAAAAAA
**
11814 AAAAAAAAGAAAAAAAATGAAAA-ATGAAAAAGAAATGAAAAA
1 AAAAAAAAGAAAAAAAAT-AAAAGATGAAAAAGAAAAAAAAAA
* *
11856 TAAAAAGAGAAAAA
1 AAAAAAAAGAAAAA
11870 GGAGGGTTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 29 0.62
43 14 0.30
44 4 0.09
ACGTcount: A:0.81, C:0.01, G:0.11, T:0.07
Consensus pattern (42 bp):
AAAAAAAAGAAAAAAAATAAAAGATGAAAAAGAAAAAAAAAA
Found at i:11862 original size:17 final size:17
Alignment explanation
Indices: 11817--11863 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
11807 AAAAAAAAAA
*
11817 AAAAAGAAAAA-AAATG
1 AAAAATAAAAAGAAATG
11833 AAAAATGAAAAAGAAATG
1 AAAAAT-AAAAAGAAATG
11851 AAAAATAAAAAGA
1 AAAAATAAAAAGA
11864 GAAAAAGGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 5 0.18
17 12 0.43
18 11 0.39
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.09
Consensus pattern (17 bp):
AAAAATAAAAAGAAATG
Found at i:12979 original size:135 final size:135
Alignment explanation
Indices: 12732--13082 Score: 535
Period size: 135 Copynumber: 2.6 Consensus size: 135
12722 GGAGGTGAAC
12732 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAAACTCATCCGACAGAGGAGAAGAAGTTCATA
1 CAACATTTCCAATGGAGAGTTCATAATGAGAAG-AACTCATCCGACAGAGGAGAAGAAGTTCATA
* * *
12797 ATGAGAAGAGC-TGTTCGACCTATCACTAGATTCACGACATTTTGAATCAGTGACACCTTGCTTG
65 ATGAGAAGAGCTTGTTCGACCTATCACTAGATTCACAACATTTCGAATCAGTGACACCTCGCTTG
12861 AAGGAT
130 AAGGAT
** *
12867 CAGTATTTCCAATGGATAGTTCATAATGAGAAGAACTCATCCGACAGAGGAGAAGAAGTTCATAA
1 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGAGAAGAAGTTCATAA
* *
12932 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCATAACATTTCGAATCAGTGACACCTCGCTTGA
66 TGAGAAGAGCTTGTTCGACCTATCACTAGATTCACAACATTTCGAATCAGTGACACCTCGCTTGA
*
12997 GGGAT
131 AGGAT
* * ** *
13002 CAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCAAAC-GAAGAAGAAGAAGTTCATA
1 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAG-AGGAGAAGAAGTTCATA
*
13066 ATGAGAAGAACTTGTTC
65 ATGAGAAGAGCTTGTTC
13083 AACTTCGCAT
Statistics
Matches: 196, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
134 43 0.22
135 153 0.78
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (135 bp):
CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGAGAAGAAGTTCATAA
TGAGAAGAGCTTGTTCGACCTATCACTAGATTCACAACATTTCGAATCAGTGACACCTCGCTTGA
AGGAT
Found at i:13166 original size:88 final size:89
Alignment explanation
Indices: 13000--13170 Score: 240
Period size: 88 Copynumber: 1.9 Consensus size: 89
12990 CGCTTGAGGG
*
13000 ATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCAAACGAAGAAGAAGAAGTTCAT
1 ATCAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATC--ACGAAGAAGAAGAAGTTCAT
13065 AATGAGAAGAACTTGTTCAACTTCGC
64 AATGAGAAGAACTTGTTCAACTTCGC
* * * *
13091 ATCAACATTTTCAATGGAGAGCTTCATAATGAGAAGAACTCATC-CTAA-AGGATA-AAGTTCAT
1 ATCAACATTTCCAATGAAGAG-TTCATAATGAGAAGAACTCATCACGAAGAAGA-AGAAGTTCAT
13153 AATGAGAAGAACTTGTTC
64 AATGAGAAGAACTTGTTC
13171 CTTTCAAATC
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
88 29 0.40
89 4 0.05
91 18 0.25
92 22 0.30
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (89 bp):
ATCAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCACGAAGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACTTCGC
Found at i:13281 original size:20 final size:20
Alignment explanation
Indices: 13218--13282 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
13208 TTCAGTGAAG
13218 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* **
13238 CA-TCCA-AA-GAGGAAGAAGA
1 -AGTTCATAATGA-GAAGAACT
13257 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
13277 TGTTCA
1 AGTTCA
13283 ACCTTGGTTC
Statistics
Matches: 33, Mismatches: 7, Indels: 9
0.67 0.14 0.18
Matches are distributed among these distances:
18 3 0.09
19 11 0.33
20 16 0.48
21 3 0.09
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.22
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:13348 original size:116 final size:114
Alignment explanation
Indices: 13091--13398 Score: 395
Period size: 116 Copynumber: 2.7 Consensus size: 114
13081 TCAACTTCGC
* * * *
13091 ATCAACATTTTCAATGGAGAGCTTCATAATGAGAAGAACTCATCCTAAAGG-A-TA-AAGTTCAT
1 ATCAACATTTTCAGTGAAGAG-TTCATAATGAGAAGAACTCATCCAAAAGGAAGAAGAAGTTCAT
*
13153 AATGAGAAGAACTTGTT---CCTTTCAAATCCATCACAGAAAGAGATGGG
65 AATGAGAAGAACTTGTTCAACCTTTCAAATCCATCACAGAAAGAGAGGGG
13200 -TCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAAAGAGGAAGAAGAAGTTCAT
1 ATCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAAA-AGGAAGAAGAAGTTCAT
* * * *
13264 AATGAGAAGAACTTGTTCAACCTTGGTTCGATTTCATCACAGAAGGAG-GGGG
65 AATGAGAAGAACTTGTTCAACC-T--TTCAAATCCATCACAGAAAGAGAGGGG
13316 ATCAACA-TTTCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAACAA-GAGAGAAGAAGTTCA
1 ATCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAA-AAGGA-AGAAGAAGTTCA
13379 T-ATGAGAAGAACTTGTTCAA
64 TAATGAGAAGAACTTGTTCAA
13399 TCCAACGCTT
Statistics
Matches: 177, Mismatches: 9, Indels: 20
0.86 0.04 0.10
Matches are distributed among these distances:
107 25 0.14
108 21 0.12
109 1 0.01
110 1 0.01
111 25 0.14
114 2 0.01
115 22 0.12
116 55 0.31
117 25 0.14
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (114 bp):
ATCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAAAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTCAAATCCATCACAGAAAGAGAGGGG
Found at i:14235 original size:179 final size:179
Alignment explanation
Indices: 13936--14294 Score: 670
Period size: 179 Copynumber: 2.0 Consensus size: 179
13926 GGGCAAAAAA
13936 AAAAAAAAAAAAAAAATCAGTGTACAGAGGGGGCTCAGTGATGAAAAAACAAGTGCAAAGAAAAT
1 AAAAAAAAAAAAAAAATCAGTGTACAGAGGGGGCTCAGTGATGAAAAAACAAGTGCAAAGAAAAT
14001 TTAGAGAGATCGCTTGTAACAGTTTACTCGGCATCCATTGAAGAAAAGCATAATCGTTGTAATAG
66 TTAGAGAGATCGCTTGTAACAGTTTACTCGGCATCCATTGAAGAAAAGCATAATCGTTGTAATAG
14066 ATAAATCTCATGC-AAAA-AGAATACTGAACAAAGTTTTCCTTTAAAGGT
131 ATAAATCTCATGCAAAAATAGAATA-TGAACAAAGTTTTCCTTTAAAGGT
14114 AAAAAAAAAAAAAAAATCAGTGTACACAGAGGGGGCTCAGTGATGAAAAAACAAGTGCAAAG-AA
1 AAAAAAAAAAAAAAAATCAGTGT--ACAGAGGGGGCTCAGTGATGAAAAAACAAGTGCAAAGAAA
14178 ATTTAGAGAGATCGCTTGTAACAGTTTACTCGGCATCCATTGAAGAAAAGCATAATCGTTGTAAT
64 ATTTAGAGAGATCGCTTGTAACAGTTTACTCGGCATCCATTGAAGAAAAGCATAATCGTTGTAAT
14243 AGATAAATCTCATGCAAAAATAGAATATGAACAAAGTTTTCCTTTAAAGGT
129 AGATAAATCTCATGCAAAAATAGAATATGAACAAAGTTTTCCTTTAAAGGT
14294 A
1 A
14295 TATATCATTT
Statistics
Matches: 177, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
178 23 0.13
179 82 0.46
180 66 0.37
181 6 0.03
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (179 bp):
AAAAAAAAAAAAAAAATCAGTGTACAGAGGGGGCTCAGTGATGAAAAAACAAGTGCAAAGAAAAT
TTAGAGAGATCGCTTGTAACAGTTTACTCGGCATCCATTGAAGAAAAGCATAATCGTTGTAATAG
ATAAATCTCATGCAAAAATAGAATATGAACAAAGTTTTCCTTTAAAGGT
Found at i:17149 original size:19 final size:19
Alignment explanation
Indices: 17125--17185 Score: 122
Period size: 19 Copynumber: 3.2 Consensus size: 19
17115 TAAAAGATTT
17125 ATTAGAATTAATTTTATTA
1 ATTAGAATTAATTTTATTA
17144 ATTAGAATTAATTTTATTA
1 ATTAGAATTAATTTTATTA
17163 ATTAGAATTAATTTTATTA
1 ATTAGAATTAATTTTATTA
17182 ATTA
1 ATTA
17186 ACTCATGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
ATTAGAATTAATTTTATTA
Found at i:19020 original size:27 final size:27
Alignment explanation
Indices: 18964--19090 Score: 151
Period size: 26 Copynumber: 4.9 Consensus size: 27
18954 AAAATATAAA
18964 AATA-ATTA-TTTTAAAAA-T-TATAT
1 AATATATTATTTTTAAAAACTATATAT
*
18987 AGTATATTATTTTTAAAAACTATATAT
1 AATATATTATTTTTAAAAACTATATAT
19014 AATATA-TATTTTTAAAAACTATATA-
1 AATATATTATTTTTAAAAACTATATAT
*
19039 ATATTTATTATTTTT-AAAACTATATAT
1 A-ATATATTATTTTTAAAAACTATATAT
* *
19066 ATTTATACTATTTTTAAAAACTATA
1 A-ATATATTATTTTTAAAAACTATA
19091 CATTTTCAAA
Statistics
Matches: 90, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
23 3 0.03
24 4 0.04
25 10 0.11
26 35 0.39
27 29 0.32
28 9 0.10
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (27 bp):
AATATATTATTTTTAAAAACTATATAT
Found at i:34814 original size:14 final size:14
Alignment explanation
Indices: 34795--34827 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
34785 AGGTGAATAG
34795 GTGGTGCTAAATCA
1 GTGGTGCTAAATCA
*
34809 GTGGTGCTAAATCG
1 GTGGTGCTAAATCA
34823 GTGGT
1 GTGGT
34828 AGGCAACCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.12, G:0.36, T:0.30
Consensus pattern (14 bp):
GTGGTGCTAAATCA
Found at i:36755 original size:21 final size:19
Alignment explanation
Indices: 36684--36755 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 19
36674 TATGTGTTAG
36684 AAAATAATAAAGAAAGTAAA
1 AAAATAATAAAGAAAGT-AA
*
36704 ACAAATGAAATAAGGAAAGTAA
1 A-AAAT--AATAAAGAAAGTAA
36726 AAAATAATAAAGTAAA-TATA
1 AAAATAATAAAG-AAAGTA-A
36746 AAAATGAATA
1 AAAAT-AATA
36756 GAATACATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
19 8 0.18
20 10 0.23
21 12 0.27
22 3 0.07
23 11 0.25
ACGTcount: A:0.69, C:0.01, G:0.11, T:0.18
Consensus pattern (19 bp):
AAAATAATAAAGAAAGTAA
Found at i:36987 original size:7 final size:7
Alignment explanation
Indices: 36972--37002 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
36962 TAAGTAAAAT
*
36972 AATAAAA
1 AATAGAA
36979 AATAGAA
1 AATAGAA
36986 AATAGAA
1 AATAGAA
36993 AATAGAA
1 AATAGAA
37000 AAT
1 AAT
37003 CAAAAGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (7 bp):
AATAGAA
Found at i:36994 original size:14 final size:14
Alignment explanation
Indices: 36972--37007 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
36962 TAAGTAAAAT
36972 AATAAAAAATAGAA
1 AATAAAAAATAGAA
*
36986 AATAGAAAATAGAA
1 AATAAAAAATAGAA
37000 AATCAAAA
1 AAT-AAAA
37008 GTAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.14
Consensus pattern (14 bp):
AATAAAAAATAGAA
Found at i:37055 original size:2 final size:2
Alignment explanation
Indices: 37042--37114 Score: 98
Period size: 2 Copynumber: 37.0 Consensus size: 2
37032 AAAATCGGAA
*
37042 AT AT AA 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
37084 A- AT ACT A- AT GAT A- AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT -AT AT AT AT AT AT AT AT AT AT AT
37115 GAACTAAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
1 3 0.05
2 57 0.89
3 4 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:40430 original size:40 final size:40
Alignment explanation
Indices: 40374--40450 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
40364 GAAAATCATA
40374 AGTCAAATGAATACTTTAATTTTTTTTATTTTAACTTATT
1 AGTCAAATGAATACTTTAATTTTTTTTATTTTAACTTATT
40414 AGTCAAATG-ATCACTTTAATTTTTTTTATTTTAACTT
1 AGTCAAATGAAT-ACTTTAATTTTTTTTATTTTAACTT
40451 GAAGACTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 2 0.06
40 34 0.94
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (40 bp):
AGTCAAATGAATACTTTAATTTTTTTTATTTTAACTTATT
Found at i:45731 original size:31 final size:31
Alignment explanation
Indices: 45693--45848 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
45683 AGGGTCGAGG
*
45693 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
45724 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
45755 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
45786 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
45817 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
45848 G
1 G
45849 GTCCTTCGGG
Statistics
Matches: 120, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:48138 original size:16 final size:16
Alignment explanation
Indices: 48117--48158 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
48107 GAAAAAGGTA
48117 ATTGAAAAGTTAAAAG
1 ATTGAAAAGTTAAAAG
48133 ATTGAAAAGTTAAAAG
1 ATTGAAAAGTTAAAAG
48149 ATTGAAAAGT
1 ATTGAAAAGT
48159 ACGTTTCCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.19, T:0.26
Consensus pattern (16 bp):
ATTGAAAAGTTAAAAG
Found at i:49037 original size:21 final size:21
Alignment explanation
Indices: 48993--49038 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
48983 GATTTCTGGG
* * *
48993 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
49014 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
49035 CAAG
1 CAAG
49039 CGAGCCATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:49876 original size:59 final size:58
Alignment explanation
Indices: 49783--49897 Score: 142
Period size: 59 Copynumber: 2.0 Consensus size: 58
49773 GATTACATGC
* * * * *
49783 AACATATGATATTAGATATATGTTTACACATACATGTGGTATGTGACAGAAGAGAAGG
1 AACATATGATATGAGATATATGATTACACATACATGTGATACGTGACAGAAAAGAAGG
* *
49841 AACATATGATTATGAGATCA-ATGATTACACGTACATGTGATACGTGACTGAAAAGAA
1 AACATATGA-TATGAGAT-ATATGATTACACATACATGTGATACGTGACAGAAAAGAA
49898 AAGATATGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 9 0.19
59 38 0.79
60 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (58 bp):
AACATATGATATGAGATATATGATTACACATACATGTGATACGTGACAGAAAAGAAGG
Found at i:50054 original size:31 final size:31
Alignment explanation
Indices: 50016--50171 Score: 269
Period size: 31 Copynumber: 5.0 Consensus size: 31
50006 AGGGTCGAGG
50016 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
50047 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
50078 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
50109 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
50140 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
50171 G
1 G
50172 GTCCTTCGGG
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 120 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:60443 original size:17 final size:17
Alignment explanation
Indices: 60421--60506 Score: 84
Period size: 17 Copynumber: 5.1 Consensus size: 17
60411 TTAATATGTG
*
60421 TCTGATAACTGTAAACA
1 TCTGATAATTGTAAACA
* *
60438 TCTGATATTTGTAAATA
1 TCTGATAATTGTAAACA
* *
60455 TCTAATAATTGTAATCA
1 TCTGATAATTGTAAACA
* * *
60472 TCTTAT-ATATGTGAATA
1 TCTGATAAT-TGTAAACA
60489 TCTGATAATTGTAAACA
1 TCTGATAATTGTAAACA
60506 T
1 T
60507 TTAGAATTCA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
16 2 0.04
17 49 0.92
18 2 0.04
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (17 bp):
TCTGATAATTGTAAACA
Found at i:60468 original size:34 final size:34
Alignment explanation
Indices: 60425--60506 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
60415 TATGTGTCTG
* *
60425 ATAACTGTAAACATCTGATATTTGTAAATATCTA
1 ATAATTGTAAACATCTGATATATGTAAATATCTA
* * * *
60459 ATAATTGTAATCATCTTATATATGTGAATATCTG
1 ATAATTGTAAACATCTGATATATGTAAATATCTA
60493 ATAATTGTAAACAT
1 ATAATTGTAAACAT
60507 TTAGAATTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (34 bp):
ATAATTGTAAACATCTGATATATGTAAATATCTA
Found at i:73398 original size:15 final size:15
Alignment explanation
Indices: 73378--73414 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
73368 TCTACTTCCA
*
73378 TGGTGTTGTTGCATG
1 TGGTGTTGATGCATG
73393 TGGTGTTGATGCATG
1 TGGTGTTGATGCATG
*
73408 TTGTGTT
1 TGGTGTT
73415 TTTGTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.05, G:0.38, T:0.49
Consensus pattern (15 bp):
TGGTGTTGATGCATG
Found at i:82066 original size:16 final size:16
Alignment explanation
Indices: 82040--82077 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
82030 TCTACTAAAG
82040 CATGATTGGGTAGATAT
1 CATG-TTGGGTAGATAT
82057 CATGTTGGGTAGATAT
1 CATGTTGGGTAGATAT
82073 CATGT
1 CATGT
82078 GAATAAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (16 bp):
CATGTTGGGTAGATAT
Found at i:92055 original size:16 final size:15
Alignment explanation
Indices: 92034--92079 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
92024 TTGCTTGAAA
92034 AAATAATGAAAAAATG
1 AAATAA-GAAAAAATG
*
92050 AAATAAAAAAAAATG
1 AAATAAGAAAAAATG
92065 AAA-AAG-AAAAATG
1 AAATAAGAAAAAATG
92078 AA
1 AA
92080 TGAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 9 0.32
14 2 0.07
15 11 0.39
16 6 0.21
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (15 bp):
AAATAAGAAAAAATG
Found at i:92058 original size:13 final size:13
Alignment explanation
Indices: 92042--92100 Score: 64
Period size: 13 Copynumber: 4.4 Consensus size: 13
92032 AAAAATAATG
92042 AAAAAATGAAATAAA
1 AAAAAATG-AA-AAA
92057 AAAAAATGAAAAA
1 AAAAAATGAAAAA
* **
92070 GAAAAATGAATGA
1 AAAAAATGAAAAA
*
92083 AAAAAATGGAAAA
1 AAAAAATGAAAAA
92096 AAAAA
1 AAAAA
92101 GAAGGGTTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
13 27 0.73
14 2 0.05
15 8 0.22
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (13 bp):
AAAAAATGAAAAA
Found at i:92074 original size:28 final size:25
Alignment explanation
Indices: 92042--92100 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 25
92032 AAAAATAATG
92042 AAAAAATGAAATAAAAAAAAATGAAAA
1 AAAAAATG-AAT-AAAAAAAATGAAAA
* *
92069 AGAAAAATGAATGAAAAAAATGGAAA
1 A-AAAAATGAATAAAAAAAATGAAAA
92095 AAAAAA
1 AAAAAA
92101 GAAGGGTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 5 0.17
26 13 0.45
27 4 0.14
28 7 0.24
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (25 bp):
AAAAAATGAATAAAAAAAATGAAAA
Found at i:93188 original size:55 final size:55
Alignment explanation
Indices: 93103--93888 Score: 1205
Period size: 55 Copynumber: 14.3 Consensus size: 55
93093 AGATTTCCCA
* *
93103 ACGATTATTGAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
93158 GCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
93213 ACGATTGTTGAAAATTGTTCGAGTCTTATACTCTATGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
93268 ACGACTGTTGAAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
93323 ACGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
93378 ACGATTGTTGAAAATTGTTCGAGTCTTATACTCTATGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* *
93433 ACGACTGTTGAAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
93488 ACGATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
93543 ACGATTGATGAAAATTGTTGGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
93598 ACGACTGTTGAAGATTGTTGGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * *
93653 ACGACTGTTGAAGATTGTTGGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
93708 ACGATTGATGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATGGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
93763 ACGATTGATGAAGATTGTTCG-GTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
93817 AAGATTTGTTGAAGATTGTTTGGGTCTTATACTCTCTGAGGAAATAGGGAGCAGAC
1 ACGA-TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
*
93873 ACGATTGATGAAGATT
1 ACGATTGTTGAAGATT
93889 CTTCAAGTTC
Statistics
Matches: 676, Mismatches: 53, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
54 34 0.05
55 607 0.90
56 35 0.05
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:93974 original size:55 final size:54
Alignment explanation
Indices: 93882--94038 Score: 203
Period size: 55 Copynumber: 2.9 Consensus size: 54
93872 CACGATTGAT
* * *
93882 GAAGATTCTTCAAGTTC-CTACTCCCTAAGAAAGAGGGAGTGAACCCGTT-GACA
1 GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGTGAACCCGTTCG-CA
* *
93935 GAAGATTGTTCGAGTTCTATACTCCCCGAAGAAAGAGGGAGTGAACTCGTTCGCA
1 GAAGATTGTTCGAGTTCTATACT-CCCTAAGAAAGAGGGAGTGAACCCGTTCGCA
* * *
93990 GAAAATTGTTCGAGTTCTATACTCCCTAA-AATGAGGGAGCGAACCCGTT
1 GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGTGAACCCGTT
94039 TTCCGAATAT
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
53 32 0.35
54 9 0.10
55 49 0.54
56 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (54 bp):
GAAGATTGTTCGAGTTCTATACTCCCTAAGAAAGAGGGAGTGAACCCGTTCGCA
Found at i:96065 original size:2 final size:2
Alignment explanation
Indices: 96058--96108 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
96048 ATGTATAGAG
96058 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
96100 TA TA TA TA T
1 TA TA TA TA T
96109 TTGTAATTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97328 original size:27 final size:28
Alignment explanation
Indices: 97287--97339 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
97277 TATTAATTTA
*
97287 TTAAATATATTTTATTATTAACTTAATT
1 TTAAATATATATTATTATTAACTTAATT
* *
97315 TTAAA-ATATATTATTTTTAATTTAA
1 TTAAATATATATTATTATTAACTTAA
97340 AATTTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
TTAAATATATATTATTATTAACTTAATT
Found at i:98291 original size:3 final size:3
Alignment explanation
Indices: 98285--98347 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
98275 TTTACTCATT
* * *
98285 TTA TTA TTA TTA TTA GTA TTA TTA TAA TTA TAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
98333 TTA ATA TATA TTA TT
1 TTA TTA T-TA TTA TT
98348 TATTCATATT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:99753 original size:17 final size:15
Alignment explanation
Indices: 99733--99782 Score: 59
Period size: 14 Copynumber: 3.3 Consensus size: 15
99723 ATATAATAAA
99733 TAATAATTTATATTTTT
1 TAATAA-TT-TATTTTT
*
99750 TAATAAATTA-TTTT
1 TAATAATTTATTTTT
99764 TAAT-ATTTATTTTT
1 TAATAATTTATTTTT
99778 TAATA
1 TAATA
99783 TCGAAGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 4 0.14
14 16 0.55
15 2 0.07
16 1 0.03
17 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATAATTTATTTTT
Found at i:99925 original size:99 final size:97
Alignment explanation
Indices: 99754--99942 Score: 236
Period size: 99 Copynumber: 1.9 Consensus size: 97
99744 ATTTTTTAAT
* * * * * *
99754 AAATTATTTTTAATATTTATTTTTTAATATCGAAGAAAAGGGCAGTCTTAATACAACTGGATGTC
1 AAATTATTATTAATATTTATTTTTTAATATCAAAGAAAAGAGCAGTCTTAAGACAACTAGAAGTC
*
99819 CTATTCTGGTATTTTAAAATTAAATATTATAAA
66 CTATTCTGATATTTTAAAA-TAAATATTATAAA
* * *
99852 AAATTATTATTAAT-TTTATATTTATTAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAG
1 AAATTATTATTAATATTTAT-TTT-TTAATATCAAAGAAAAGAGCAGTCTTAAGACAACTAGAAG
* *
99916 TCCTTTTCTGATATTTTTAAATAAATA
64 TCCTATTCTGATATTTTAAAATAAATA
99943 AATATTTTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
97 5 0.06
98 22 0.29
99 50 0.65
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (97 bp):
AAATTATTATTAATATTTATTTTTTAATATCAAAGAAAAGAGCAGTCTTAAGACAACTAGAAGTC
CTATTCTGATATTTTAAAATAAATATTATAAA
Found at i:103775 original size:15 final size:15
Alignment explanation
Indices: 103755--103786 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
103745 ATCAATACCT
103755 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
103770 TTTTGCATACATTCA
1 TTTTGCATACATGCA
103785 TT
1 TT
103787 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:112582 original size:114 final size:114
Alignment explanation
Indices: 112361--112688 Score: 548
Period size: 114 Copynumber: 2.9 Consensus size: 114
112351 GAGGAATGTG
*
112361 CCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACAGAAC
1 CCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAGAAC
*
112426 CAATCATTAAATTTGAAAGATGAATTTGTTCATAGTAGAAATAAGGAGAC
65 CAATCATTAAATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGAC
*
112476 CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
1 CCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
112541 AATCATTAAATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGAC
66 AATCATTAAATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGAC
*
112590 CCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGTATGAACTACAGAACC
1 CCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
* * * * * * *
112655 AGTTATTGAATTTGGAAGAGGAATGTGCTAATAG
66 AATCATTAAATTTGAAAGATGAATTTGCTCATAG
112689 CATCTTCTGA
Statistics
Matches: 201, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
114 150 0.75
115 51 0.25
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (114 bp):
CCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
AATCATTAAATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGAC
Found at i:113653 original size:113 final size:113
Alignment explanation
Indices: 113455--114900 Score: 2631
Period size: 113 Copynumber: 12.8 Consensus size: 113
113445 GCAAAGATTT
113455 AAATCCATCACTT-GATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATCCATCA-TTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
* *
113519 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTAGGCTC
65 GGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
113568 AAATCCATCACTT-GATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATCCATCA-TTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
113632 GGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
65 GGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
113681 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAAT--G-AGAACTCATCTGAAG
1 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
113743 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTAGGCTC
66 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
113791 AAATCCATCACTT-GATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATCCATCA-TTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
*
113855 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
65 GGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
113904 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
113969 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTAGGCTC
66 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
114017 AAATCCATCACTT-GATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATCCATCA-TTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
114081 GGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
65 GGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
114130 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
114195 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
66 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
114243 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
114308 GAGGAAGAA-AAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
66 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
114355 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
114420 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTATGCTC
66 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
114468 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
114533 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTAGGCTC
66 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
*
114581 AAATCCATCACTT-GATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATCCATCA-TTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
*
114645 TGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
65 GGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
* *
114694 AAATCCATCATTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAT
1 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
114759 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
66 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
*
114807 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAT
1 AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
114872 AAAGAAGAAGAAGTTCATAATGAGAAGAA
66 GAGGAAGAAGAAATTCATAATGAGAAGAA
114901 CTCATCTGAA
Statistics
Matches: 1302, Mismatches: 20, Indels: 22
0.97 0.01 0.02
Matches are distributed among these distances:
110 104 0.08
111 3 0.00
112 121 0.09
113 1070 0.82
114 4 0.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (113 bp):
AAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
Found at i:114604 original size:564 final size:565
Alignment explanation
Indices: 113455--114900 Score: 2706
Period size: 564 Copynumber: 2.6 Consensus size: 565
113445 GCAAAGATTT
113455 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
113520 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTAGGCTCAAATCCATCACTT-GAT
66 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCA-TTCGAT
113584 GGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGGAAGAAGAAATTC
130 GGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGGAAGAAGAAATTC
113649 ATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGA
195 ATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGA
113714 GAAAGTTCATAAT--G-AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG
260 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG
113776 TTCAACCTTAGGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGA
325 TTCAACCTTAGGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGA
113841 AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAA
390 AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAA
113906 ATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
455 ATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
113971 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTAGGCTC
520 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTAGGCTC
114017 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
114082 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATTCGATG
66 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATTCGATG
114147 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGGAAGAAGAAATTCA
131 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGGAAGAAGAAATTCA
114212 TAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAG
196 TAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAG
*
114277 AAAGTTCATAATGAGAAGAACTCATCTGAAGGAGGAAGAA-AAATTCATAATGAGAAGAATTTGT
261 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
*
114341 TCAACCTTATGCTCAAATCCATCA-TTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGA
326 TCAACCTTAGGCTCAAATCCATCACTT-GATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGA
* *
114405 AGAACTCATCTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTATGCTCAA
390 AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAA
*
114470 ATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGA
455 ATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
114535 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTAGGCTC
520 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTAGGCTC
* *
114581 AAATCCATCACTTGATAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAT
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
114646 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATTCGATG
66 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATTCGATG
* *
114711 GATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAATGAGGAAGAAGAAATTCA
131 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGGAAGAAGAAATTCA
114776 TAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAG
196 TAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAG
* * *
114841 AAAGTTCATAATGAGAAGAACTCATCTGAATAAAGAAGAAGAAGTTCATAATGAGAAGAA
261 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
114901 CTCATCTGAA
Statistics
Matches: 863, Mismatches: 15, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
561 2 0.00
562 267 0.31
563 2 0.00
564 551 0.64
565 41 0.05
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (565 bp):
AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATTCGATG
GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAGGAAGAAGAAATTCA
TAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAG
AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
TCAACCTTAGGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAA
GAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAA
TCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTAGGCTC
Found at i:114672 original size:20 final size:20
Alignment explanation
Indices: 114613--114674 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
114603 GCTTTTCCAG
114613 AGAAAGTTCATAATGAGAAGA
1 AGAAA-TTCATAATGAGAAGA
***
114634 ACTCA-TC-TGAATGAGGAAGA
1 AGAAATTCAT-AATGA-GAAGA
114654 AGAAATTCATAATGAGAAGA
1 AGAAATTCATAATGAGAAGA
114674 A
1 A
114675 TTTGTTCAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 9
0.67 0.13 0.20
Matches are distributed among these distances:
18 1 0.03
19 7 0.23
20 13 0.42
21 9 0.29
22 1 0.03
ACGTcount: A:0.50, C:0.08, G:0.23, T:0.19
Consensus pattern (20 bp):
AGAAATTCATAATGAGAAGA
Found at i:114785 original size:20 final size:20
Alignment explanation
Indices: 114726--114787 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
114716 ACTTTTCCAG
114726 AGAAAGTTCATAATGAGAAGA
1 AGAAA-TTCATAATGAGAAGA
***
114747 ACTCA-TC-TGAATGAGGAAGA
1 AGAAATTCAT-AATGA-GAAGA
114767 AGAAATTCATAATGAGAAGA
1 AGAAATTCATAATGAGAAGA
114787 A
1 A
114788 TTTGTTCAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 9
0.67 0.13 0.20
Matches are distributed among these distances:
18 1 0.03
19 7 0.23
20 13 0.42
21 9 0.29
22 1 0.03
ACGTcount: A:0.50, C:0.08, G:0.23, T:0.19
Consensus pattern (20 bp):
AGAAATTCATAATGAGAAGA
Found at i:114899 original size:17 final size:17
Alignment explanation
Indices: 114877--114934 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
114867 TGAATAAAGA
114877 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
* *
114894 AGAAGAA-CTCAT-CTG
1 AGAAGAAGTTCATAATG
114909 A-AAGAAGAGATTCATAATG
1 AGAAG-A-AG-TTCATAATG
114928 AGAAGAA
1 AGAAGAA
114935 TTTGTTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 11
0.67 0.09 0.24
Matches are distributed among these distances:
14 3 0.10
15 4 0.13
16 5 0.16
17 7 0.23
18 5 0.16
19 4 0.13
20 3 0.10
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.19
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:114923 original size:34 final size:38
Alignment explanation
Indices: 114842--114934 Score: 140
Period size: 40 Copynumber: 2.5 Consensus size: 38
114832 TTTCCAGAGA
114842 AAGTTCATAATGAGAAGAACTCATCTGAATAAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTG-A-AAAGAAGAAG
114882 AAGTTCATAATGAGAAGAACTCATCTG-AAAGAAG-AG
1 AAGTTCATAATGAGAAGAACTCATCTGAAAAGAAGAAG
114918 -A-TTCATAATGAGAAGAA
1 AAGTTCATAATGAGAAGAA
114935 TTTGTTCAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
34 16 0.30
35 1 0.02
36 2 0.04
37 7 0.13
40 27 0.51
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.20
Consensus pattern (38 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAAAGAAGAAG
Found at i:115012 original size:146 final size:151
Alignment explanation
Indices: 114729--115048 Score: 447
Period size: 146 Copynumber: 2.1 Consensus size: 151
114719 TTTCCAGAGA
114729 AAGTTCATAATGAGAAGAACTCATCTGAATGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAA-GAGGAAGAAG-AATTCATAATGAGAAGAATTTGTT
* * * * * * *
114794 CAACCTTATGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAG
64 CAACCTTATGCTCAAATCCATCATTCAATAGATCAACCTTTACAAAGAAAATTCATAATGAGAAG
114859 AACTCATCTGAATAAAG-AAGAAG
129 AACTCATCTGAA-AAAGAAAGAAG
114882 AAGTTCATAATGAGAAGAACTCATCTGAA-A-GAAG-AG-ATTCATAATGAGAAGAATTTGTTCA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAATTCATAATGAGAAGAATTTGTTCA
* ** *
114943 A-CTTTTGCTTGAATTCATCACTT-AATAGATCAACCTTTACAAAGAAAATTCATAATGAGAAGA
66 ACCTTATGCTCAAATCCATCA-TTCAATAGATCAACCTTTACAAAGAAAATTCATAATGAGAAGA
*
115006 ATTCATCTGAAAAAGAAAGAAG
130 ACTCATCTGAAAAAGAAAGAAG
115028 AAGTTCATAATGAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
115049 TATTCAACCT
Statistics
Matches: 153, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
145 4 0.03
146 85 0.56
147 28 0.18
149 2 0.01
150 4 0.03
151 1 0.01
153 29 0.19
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (151 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAATTCATAATGAGAAGAATTTGTTCA
ACCTTATGCTCAAATCCATCATTCAATAGATCAACCTTTACAAAGAAAATTCATAATGAGAAGAA
CTCATCTGAAAAAGAAAGAAG
Found at i:115296 original size:3 final size:3
Alignment explanation
Indices: 115288--115359 Score: 81
Period size: 3 Copynumber: 23.7 Consensus size: 3
115278 TTTACTCATT
* * * * *
115288 TTA TTA TTA TTA TTA GTA TTA TTA TAA TAA TTA TTT TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
115336 TTA TTA TTA TTA ATA TATA TTA TT
1 TTA TTA TTA TTA TTA T-TA TTA TT
115360 TATTCATAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:116881 original size:98 final size:101
Alignment explanation
Indices: 116764--116957 Score: 243
Period size: 100 Copynumber: 2.0 Consensus size: 101
116754 ATTTTTTAAT
* * * *
116764 AAATTATTTTTAATATTTAT-TTT-TCAATATCGAAGAAAAGAGCAGTCTTAATACAACTGGATG
1 AAATTATTTTTAATATTTATATTTATCAATATCAAAGAAAAGAGCAGTCTTAAGACAACTAGAAG
* *
116827 TCCTATTCTGGTATTTTAA-AATTAAATATTATAAA
66 TCCTATTCTGATATTTTAATAAATAAATATTATAAA
* ** * *
116862 AAATTATTATTTAAT-TTTATATTTATTAATATCAAAGAAAAGAGTTGTCTTAAGGCACCTAGAA
1 AAATTATT-TTTAATATTTATATTTATCAATATCAAAGAAAAGAGCAGTCTTAAGACAACTAGAA
*
116926 GTCCTTTTCTGATATTTTAATAAATAAATATT
65 GTCCTATTCTGATATTTTAATAAATAAATATT
116958 TTTTATATAT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
98 13 0.16
99 9 0.11
100 48 0.60
101 10 0.12
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.42
Consensus pattern (101 bp):
AAATTATTTTTAATATTTATATTTATCAATATCAAAGAAAAGAGCAGTCTTAAGACAACTAGAAG
TCCTATTCTGATATTTTAATAAATAAATATTATAAA
Found at i:116992 original size:23 final size:22
Alignment explanation
Indices: 116960--117002 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
116950 TAAATATTTT
*
116960 TTATATATTTTGAAATAATAGGA
1 TTATAAATTTT-AAATAATAGGA
*
116983 TTATAAATTTTTAATAATAG
1 TTATAAATTTTAAATAATAG
117003 AGACAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (22 bp):
TTATAAATTTTAAATAATAGGA
Found at i:117768 original size:23 final size:23
Alignment explanation
Indices: 117742--117795 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
117732 TTTAAACATA
*
117742 TAAACAAACACATTCGTGAACGT
1 TAAACAAACACATTCGTCAACGT
* * * *
117765 TAAACGAACATATTTGTCAATGT
1 TAAACAAACACATTCGTCAACGT
117788 TAAACAAA
1 TAAACAAA
117796 TCGAACATGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (23 bp):
TAAACAAACACATTCGTCAACGT
Found at i:118028 original size:21 final size:20
Alignment explanation
Indices: 117991--118032 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
117981 AAATTATAAA
*
117991 AAAATTTAGAGAAAAATATT
1 AAAATTTAAAGAAAAATATT
*
118011 AAAATTTAAAGATTAAATATT
1 AAAATTTAAAGA-AAAATATT
118032 A
1 A
118033 TTGTAATACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAATTTAAAGAAAAATATT
Found at i:119568 original size:64 final size:64
Alignment explanation
Indices: 119495--119620 Score: 225
Period size: 64 Copynumber: 2.0 Consensus size: 64
119485 TTATGAATTA
* *
119495 TTGAACTTGAGAAATGTCACTTTATTAAATATTATTTTTTAAGTTCGAATCAAACACAATTTCT
1 TTGAACTTGAGAAATGTCACTTCAATAAATATTATTTTTTAAGTTCGAATCAAACACAATTTCT
*
119559 TTGAACTTGAGAAATGTCACTTCAATAAATATTATTTTTTAAGTTCGAATCAAACACGATTT
1 TTGAACTTGAGAAATGTCACTTCAATAAATATTATTTTTTAAGTTCGAATCAAACACAATTT
119621 TTTTCGTGGG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (64 bp):
TTGAACTTGAGAAATGTCACTTCAATAAATATTATTTTTTAAGTTCGAATCAAACACAATTTCT
Found at i:122783 original size:24 final size:24
Alignment explanation
Indices: 122756--122809 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
122746 GCTCAAAATC
122756 GAGCTCGAGTCTCGAGCTTCAATT
1 GAGCTCGAGTCTCGAGCTTCAATT
122780 GAGCTCGAGTCTCGAGCTTCAATT
1 GAGCTCGAGTCTCGAGCTTCAATT
122804 GAGCTC
1 GAGCTC
122810 CTGAATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (24 bp):
GAGCTCGAGTCTCGAGCTTCAATT
Found at i:126191 original size:6 final size:6
Alignment explanation
Indices: 126180--126757 Score: 1026
Period size: 6 Copynumber: 96.8 Consensus size: 6
126170 GATCTCTCTA
126180 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TA--TGTG
* * * *
126230 TGTGTG TGTGTG TATGTG TATGTG TATGTGTG TGTGTG TGTGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TA--TGTG TATGTG TATGTG TATGTG
*
126280 TATGTG --TGTG TGTGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
126326 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
126374 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
126422 TA-GTG TA--TG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
126467 TATGTG TATGTG TATGTG TATGTG TATGTG TA--TG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
126513 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
126561 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
126609 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
126657 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
126705 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
126753 TATGT
1 TATGT
126758 TGATCTCTAA
Statistics
Matches: 557, Mismatches: 5, Indels: 20
0.96 0.01 0.03
Matches are distributed among these distances:
4 12 0.02
5 5 0.01
6 530 0.95
8 10 0.02
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (6 bp):
TATGTG
Found at i:128510 original size:167 final size:167
Alignment explanation
Indices: 128211--128512 Score: 489
Period size: 167 Copynumber: 1.8 Consensus size: 167
128201 ATCATAACTT
* *
128211 CCCTTCCAATGAAACACACATAGCTCGTCAGGTTGATATGGAAAACATATTTGTTTGTCGTCGGT
1 CCCTTCCAATGAAACACACATAGCTCGTCAGGTTGATATGGAAAACAGACTTGTTTGTCGTCGGT
* * * * * * *
128276 GCCGTCAAAGGTTTTCAGCCTTGCCCACAGCTGAGACCGTTATTTGTCCGCTTTGCCGTATGGTT
66 GCCGTCAAAAGTTTTCAGCCTCGACCACAGCCGAGACCGTTATTTGCCCGCGTTGCCGTACGGTT
128341 AACCCAATCGGCCGCTAAGGAATGCCCCACCCCATGC
131 AACCCAATCGGCCGCTAAGGAATGCCCCACCCCATGC
128378 CCCTTCCAATGAAACACACATAGCTCGTCAGGTTGATATGGAAAACAGACTTGTTTGTCGT-GAG
1 CCCTTCCAATGAAACACACATAGCTCGTCAGGTTGATATGGAAAACAGACTTGTTTGTCGTCG-G
* *
128442 TGCCGTCAAAAGTTTTCAGCCTCGACCACAGCCGAGACCGTTATTTGCCCGCGTTGCCTTGCGGT
65 TGCCGTCAAAAGTTTTCAGCCTCGACCACAGCCGAGACCGTTATTTGCCCGCGTTGCCGTACGGT
128507 TAACCC
130 TAACCC
128513 CAACCGGCGT
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
166 1 0.01
167 122 0.99
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (167 bp):
CCCTTCCAATGAAACACACATAGCTCGTCAGGTTGATATGGAAAACAGACTTGTTTGTCGTCGGT
GCCGTCAAAAGTTTTCAGCCTCGACCACAGCCGAGACCGTTATTTGCCCGCGTTGCCGTACGGTT
AACCCAATCGGCCGCTAAGGAATGCCCCACCCCATGC
Found at i:133227 original size:6 final size:6
Alignment explanation
Indices: 133190--133224 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
133180 GGTGAAGGTG
*
133190 AGAGAC AGAGAC AGAGAC AGAGAC AGAGAG AGAGA
1 AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGAGA
133225 GAGCTTTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.51, C:0.11, G:0.37, T:0.00
Consensus pattern (6 bp):
AGAGAC
Found at i:137623 original size:24 final size:24
Alignment explanation
Indices: 137587--137673 Score: 83
Period size: 24 Copynumber: 3.7 Consensus size: 24
137577 TATAATATCA
137587 TAAATA-C-ATTTTAATGTTCGAT
1 TAAATAGCTATTTTAATGTTCGAT
**
137609 TAAATAGCTATTTTAAT-TTATAT
1 TAAATAGCTATTTTAATGTTCGAT
** *
137632 TATTTTAG-AATATTTAATGTTCGAT
1 TA-AATAGCTAT-TTTAATGTTCGAT
137657 TAAATAGCTATTTTAAT
1 TAAATAGCTATTTTAAT
137674 TTATATTCTT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
22 6 0.12
23 9 0.18
24 26 0.53
25 8 0.16
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (24 bp):
TAAATAGCTATTTTAATGTTCGAT
Found at i:137667 original size:48 final size:48
Alignment explanation
Indices: 137596--137694 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
137586 ATAAATACAT
137596 TTTAATGTTCGATTAAATAGCTATTTTAATTTATATTATTTTAGAATA
1 TTTAATGTTCGATTAAATAGCTATTTTAATTTATATTATTTTAGAATA
*
137644 TTTAATGTTCGATTAAATAGCTATTTTAATTTATATTCTTTTAGAATA
1 TTTAATGTTCGATTAAATAGCTATTTTAATTTATATTATTTTAGAATA
137692 TTT
1 TTT
137695 TGATATTCGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (48 bp):
TTTAATGTTCGATTAAATAGCTATTTTAATTTATATTATTTTAGAATA
Found at i:140196 original size:16 final size:16
Alignment explanation
Indices: 140175--140207 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
140165 GTCACTAAAA
140175 CAACATCTACCATACT
1 CAACATCTACCATACT
140191 CAACATCTACCATACT
1 CAACATCTACCATACT
140207 C
1 C
140208 GAGAGCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.24
Consensus pattern (16 bp):
CAACATCTACCATACT
Found at i:147195 original size:11 final size:11
Alignment explanation
Indices: 147175--147209 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
147165 GCTTCTCTTC
147175 TTTCTTTTTCT
1 TTTCTTTTTCT
*
147186 TTTTTTTTTCT
1 TTTCTTTTTCT
*
147197 TTTCTGTTTCT
1 TTTCTTTTTCT
147208 TT
1 TT
147210 GCTGCGTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:147724 original size:6 final size:6
Alignment explanation
Indices: 147679--147753 Score: 53
Period size: 6 Copynumber: 11.8 Consensus size: 6
147669 GTAATATTAA
* * *
147679 ATAA-T ATATATT AATAATT ATTATT ATTATT ATTATT ATAATT ATAATAAT
1 ATAATT ATA-ATT -ATAATT ATAATT ATAATT ATAATT ATAATT ATAAT--T
* *
147730 AATAATT ATAATA ATAATA ATAAT
1 -ATAATT ATAATT ATAATT ATAAT
147754 AATATAAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
5 3 0.05
6 44 0.72
7 5 0.08
8 4 0.07
9 5 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:147728 original size:3 final size:3
Alignment explanation
Indices: 147716--147757 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
147706 TATTATTATT
* *
147716 ATA ATT ATA ATA ATA ATA ATT ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
147758 TAAATAACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:147728 original size:9 final size:9
Alignment explanation
Indices: 147670--147760 Score: 53
Period size: 9 Copynumber: 10.3 Consensus size: 9
147660 TTTGGTCTTG
147670 TAAT-ATTA
1 TAATAATTA
147678 -AATAATATA
1 TAATAAT-TA
* *
147687 TATTAATAA
1 TAATAATTA
* *
147696 TTATTATTA
1 TAATAATTA
* *
147705 TTATTATTA
1 TAATAATTA
*
147714 TTATAATTA
1 TAATAATTA
*
147723 TAATAATAA
1 TAATAATTA
* *
147732 TAATTATAA
1 TAATAATTA
*
147741 TAATAATAA
1 TAATAATTA
147750 TAATAA-TA
1 TAATAATTA
147758 TAA
1 TAA
147761 ATAACATTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
7 3 0.04
8 6 0.09
9 54 0.79
10 5 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TAATAATTA
Found at i:147764 original size:15 final size:15
Alignment explanation
Indices: 147716--147757 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
147706 TATTATTATT
147716 ATAATTATAATAATA
1 ATAATTATAATAATA
147731 ATAATTATAATAATA
1 ATAATTATAATAATA
*
147746 ATAATAATAATA
1 ATAATTATAATA
147758 TAAATAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATTATAATAATA
Found at i:148026 original size:17 final size:17
Alignment explanation
Indices: 148004--148059 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
147994 TTGAATAAGC
148004 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
*
148021 TCTTCTTC-TCCTGATG-AGT
1 TCTTC-TCAT--T-ATGAACT
148040 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
148057 TCT
1 TCT
148060 CTGGAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
16 3 0.10
17 12 0.39
18 4 0.13
19 9 0.29
20 3 0.10
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.48
Consensus pattern (17 bp):
TCTTCTCATTATGAACT
Found at i:148134 original size:20 final size:20
Alignment explanation
Indices: 148111--148174 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
148101 GCTGAACAAA
148111 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
* **
148131 TTCTTCCTTC-TT-T-AAATGAG
1 TTCTT-C-TCATTATGAACT-TC
148151 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
148171 TTCT
1 TTCT
148175 GGAAAAGCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
18 2 0.06
19 6 0.19
20 16 0.50
21 6 0.19
22 2 0.06
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (20 bp):
TTCTTCTCATTATGAACTTC
Found at i:148208 original size:113 final size:113
Alignment explanation
Indices: 147987--148970 Score: 1370
Period size: 113 Copynumber: 8.8 Consensus size: 113
147977 TAGAGTCATT
* ** *
147987 CAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTT-C-TC--CTGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
148048 TTATGAACTTC-TCTGGAAAAACTGACCCATCAAGTGATGGATTTGAG
66 TTATGAACTTCTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
* * * *
148095 CAAAAAGCTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAAATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
148160 TTATGAACTTCTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTCTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
*
148208 CAAAAGGTTGAACAAAATCTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** *
148270 TTATGAAC-TCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTC-TTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
148318 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** *
148383 TTATGAAC-TCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTC-TTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
*
148431 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTAA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** *
148496 TTATGAAC-TCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTC-TTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
** *
148544 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
148609 TTATGAACTTCTTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTCTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
* * * *
148657 CATAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAAGTAATGAATTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC-AG--ATGAGTTCTTC
* *** * ** *
148722 TCATTATGAAC-TCTACCTGGAAATTTTAATCCATCACA-TGATGAATTCAAA
63 TCATTATGAACTTCT-TCTGGAAAAGCTAATCCATCA-AGTGATGGATTTGAG
*
148773 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
148838 TTATGAACTT-TCTCTGGAAAAGCTGATCCATCAAGTGAT-GAATTCAGG
66 TTATGAACTTCT-TCTGGAAAAGCTAATCCATCAAGTGATGGATTTGA-G
*
148886 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
148951 TTATGAACTT-TCTCTGGAAA
66 TTATGAACTTCT-TCTGGAAA
148971 TGTTGATCCA
Statistics
Matches: 796, Mismatches: 62, Indels: 31
0.90 0.07 0.03
Matches are distributed among these distances:
108 36 0.05
109 3 0.00
110 103 0.13
112 29 0.04
113 524 0.66
114 5 0.01
115 5 0.01
116 90 0.11
117 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTCTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
Found at i:148857 original size:342 final size:339
Alignment explanation
Indices: 147987--148981 Score: 1354
Period size: 342 Copynumber: 2.9 Consensus size: 339
147977 TAGAGTCATT
* ** *
147987 CAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTT-CTCC-T--GATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAATTCTTCTCA
* * * * ** * * * *
148048 TTATGAACTTC--TCTGGAAAA-ACTGACCCATCAAGTGATGGATTTGAGCAAAAAGCTGAACAA
66 TTATGAAC-TCGAACTGGAAAAGA-TAATCCATCAAGTGATGAATTCAAACAAAAGGTTAAACAA
* *
148110 ATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAAATGAGTTCTTCTCATTATGAAC-TTCTTC
129 ATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-TC
*
148174 TGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAATCTTCTCATTATGA
193 TGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGATCTTCTCATTATGA
** *
148239 A---CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCGAACTGGAAAAGATAATCCA
258 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC-TTCTGGAAAAGATGATCCA
148300 TCAAGTGATGGATTTGAG
322 TCAAGTGATGGATTTGAG
* *
148318 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAATTCTTCTCA
* ** * *
148383 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
66 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTAAACAAAT
* ****
148448 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTAATTATGAACTCGAACTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* *
148513 AAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACT
196 AAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGATCTTCTCATTATGAACT
* *
148578 TCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGGAAAAGCTGATCCATCAA
261 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAAAGATGATCCATCAA
148643 GTGATGGATTTGAG
326 GTGATGGATTTGAG
* *
148657 CATAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAAGTAATGAATTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCCTTC-AG--ATGAATTCTTC
* * ***
148722 TCATTATGAACTCTACCTGGAAATTTTAATCCATCACA-TGATGAATTCAAACAAAAGGTTAAAC
63 TCATTATGAACTCGAACTGGAAAAGATAATCCATCA-AGTGATGAATTCAAACAAAAGGTTAAAC
148786 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
127 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
* * * *
148851 CTGGAAAAGCTGATCCATCAAGTGAT-GAATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTAT
192 CTGGAAAAGCTAATCCATCAAGTGATGGATTTGA-GCAAAAGGTTGAACAAGATCTTCTCATTAT
* *
148915 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT-TCTCTGGAAATGTTGATC
256 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCT-TCTGGAAAAGATGATC
148979 CAT
320 CAT
148982 TGTTATGGAT
Statistics
Matches: 595, Mismatches: 51, Indels: 25
0.89 0.08 0.04
Matches are distributed among these distances:
331 38 0.06
332 3 0.01
333 1 0.00
334 2 0.00
335 23 0.04
336 163 0.27
337 1 0.00
339 116 0.19
340 4 0.01
341 6 0.01
342 237 0.40
343 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (339 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGAATTCTTCTCA
TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGAATTCAAACAAAAGGTTAAACAAAT
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGATCTTCTCATTATGAACT
TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAAAGATGATCCATCAA
GTGATGGATTTGAG
Found at i:149905 original size:83 final size:83
Alignment explanation
Indices: 149808--150364 Score: 997
Period size: 83 Copynumber: 6.7 Consensus size: 83
149798 CTGTGGTTCA
* *
149808 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
149873 AAATTCAATGACTGGTTT
66 AAATTCAATAACTGGTTT
*
149891 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
149956 AAATTCAATAACTGGTTT
66 AAATTCAATAACTGGTTT
149974 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
150039 AAATTCAATAACTGGTTT
66 AAATTCAATAACTGGTTT
*
150057 TACGAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* *
150122 AAATTCAATGATTGGTTTT
66 AAATTCAATAACTGG-TTT
*
150141 TACCAAACCAGATCAGATAACTCAAAGAACATTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
150206 AAATTCAATAACTGGTTT
66 AAATTCAATAACTGGTTT
* *
150224 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
150289 AAATTCAATAATTGGTTTT
66 AAATTCAATAACTGG-TTT
150308 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
150365 ACATTTGTTC
Statistics
Matches: 456, Mismatches: 16, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
83 317 0.70
84 139 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
AAATTCAATAACTGGTTT
Found at i:150212 original size:250 final size:249
Alignment explanation
Indices: 149722--150364 Score: 1090
Period size: 250 Copynumber: 2.5 Consensus size: 249
149712 GTTTTATATC
*
149722 AACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
149787 CAAT-ACTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
66 CAATAACT-G----GT--TT--TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
* *
149851 GCTATTAGCAAATTCATCTTTCAAATTCAATGACTGGTTTTACCAAACCAGATCAGATAACTCAA
122 GCTATGAGCACATTCATCTTTCAAATTCAATGACTGGTTTTACCAAACCAGATCAGATAACTCAA
*
149916 AGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAATTCAATAACTGGTTTTACCA
187 AGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTACCA
* *
149979 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
*
150044 CAATAACTGGTTTTACGAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
66 CAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
* *
150109 ACATTCATCTTTCAAATTCAATGATTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACATT
131 ACATTCATCTTTCAAATTCAATGACTGG-TTTTACCAAACCAGATCAGATAACTCAAAGAACACT
150174 TCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTACCA
195 TCCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTACCA
150229 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
*
150294 CAATAATTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
66 CAATAACTGG-TTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
150359 CACATT
130 CACATT
150365 ACATTTGTTC
Statistics
Matches: 370, Mismatches: 13, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
249 76 0.21
250 161 0.44
251 61 0.16
253 2 0.01
257 67 0.18
258 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (249 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
CAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
ACATTCATCTTTCAAATTCAATGACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTT
CCAGAAGATGCTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTACCA
Found at i:150225 original size:167 final size:167
Alignment explanation
Indices: 149722--150364 Score: 1092
Period size: 167 Copynumber: 3.8 Consensus size: 167
149712 GTTTTATATC
*
149722 AACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
149787 CAAT-ACTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
66 CAATAACTGG---T-T--TT--TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
* * *
149851 GCTATTAGCAAATTCATCTTTCAAATTCAATGACTGGTTTTACCA
123 GCTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTACCA
*
149896 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTTCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
149961 CAATAACTGG-TTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
66 CAATAACTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
*
150025 CACATTCATCTTTCAAATTCAATAACTGGTTTTACGA
131 CACATTCATCTTTCAAATTCAATAACTGGTTTTACCA
* *
150062 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
* * *
150127 CAATGATTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACATTTCCAGAAGATGCTATGAG
66 CAATAACTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
150192 CACATTCATCTTTCAAATTCAATAACTGGTTTTACCA
131 CACATTCATCTTTCAAATTCAATAACTGGTTTTACCA
150229 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
*
150294 CAATAATTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
66 CAATAACTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
150359 CACATT
131 CACATT
150365 ACATTTGTTC
Statistics
Matches: 452, Mismatches: 15, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
166 156 0.35
167 221 0.49
168 2 0.00
170 1 0.00
174 67 0.15
175 5 0.01
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (167 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATT
CAATAACTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
CACATTCATCTTTCAAATTCAATAACTGGTTTTACCA
Found at i:151545 original size:14 final size:15
Alignment explanation
Indices: 151522--151579 Score: 77
Period size: 14 Copynumber: 3.9 Consensus size: 15
151512 TTTTTCTTCT
151522 TTTTTCTCTTTTTTC
1 TTTTTCTCTTTTTTC
151537 TTTTT-TCTTTTTTC
1 TTTTTCTCTTTTTTC
151551 TTTTTCTCTCTTTTT-
1 TTTTTCTCT-TTTTTC
151566 TTTCTTCT-TTTTTT
1 TTT-TTCTCTTTTTT
151580 TTCTTCAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
14 19 0.47
15 12 0.30
16 9 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCTCTTTTTTC
Found at i:151550 original size:33 final size:33
Alignment explanation
Indices: 151512--151585 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
151502 TGACCCCTCC
* *
151512 TTTTTCTTCTTT-TTTCTCTTTTTTCTTTTTTCT
1 TTTTTCTTCTTTCTCTCTCTTTTTTCTTCTTT-T
*
151545 TTTTTCTT-TTTCTCTCTTTTTTTTCTTCTTTT
1 TTTTTCTTCTTTCTCTCTCTTTTTTCTTCTTTT
151577 TTTTTCTTC
1 TTTTTCTTC
151586 AAGCATAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 12 0.33
33 24 0.67
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (33 bp):
TTTTTCTTCTTTCTCTCTCTTTTTTCTTCTTTT
Found at i:151558 original size:29 final size:30
Alignment explanation
Indices: 151522--151585 Score: 50
Period size: 27 Copynumber: 2.3 Consensus size: 30
151512 TTTTTCTTCT
151522 TTTTTC-TCTTTTTTCTTTTTTCT-T-TTT
1 TTTTTCTTCTTTTTTCTTTTTTCTCTCTTT
* * *
151549 TCTTT-TTCTCTCTT-TTTTTTCT-TCTTTT
1 TTTTTCTTCTTTTTTCTTTTTTCTCTC-TTT
151577 TTTTTCTTC
1 TTTTTCTTC
151586 AAGCATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
26 9 0.31
27 10 0.34
28 7 0.24
29 3 0.10
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (30 bp):
TTTTTCTTCTTTTTTCTTTTTTCTCTCTTT
Found at i:151573 original size:16 final size:16
Alignment explanation
Indices: 151511--151585 Score: 57
Period size: 16 Copynumber: 4.8 Consensus size: 16
151501 TTGACCCCTC
* * *
151511 CTTTTTCTTCTTTTTT
1 CTTTTTTTTCTTCTCT
* * *
151527 CTCTTTTTTCTTTTTT
1 CTTTTTTTTCTTCTCT
*
151543 CTTTTTTCTTTTTCTCT
1 CTTTTTT-TTCTTCTCT
151560 CTTTTTTTTC-T-TCT
1 CTTTTTTTTCTTCTCT
151574 -TTTTTTTTCTTC
1 CTTTTTTTTCTTC
151586 AAGCATAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
13 9 0.18
14 4 0.08
15 1 0.02
16 22 0.45
17 13 0.27
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
CTTTTTTTTCTTCTCT
Found at i:151585 original size:13 final size:13
Alignment explanation
Indices: 151512--151585 Score: 82
Period size: 13 Copynumber: 5.7 Consensus size: 13
151502 TGACCCCTCC
151512 TTTTTCTTC-TTT
1 TTTTTCTTCTTTT
* *
151524 TTTCTCTTTTTTCT
1 TTTTTCTTCTTT-T
151538 TTTTTCTT-TTTT
1 TTTTTCTTCTTTT
151550 CTTTTTC-TCTCTTT
1 -TTTTTCTTCT-TTT
151564 TTTTTCTTCTTTT
1 TTTTTCTTCTTTT
151577 TTTTTCTTC
1 TTTTTCTTC
151586 AAGCATAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
12 9 0.17
13 30 0.57
14 14 0.26
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTCTTCTTTT
Found at i:158945 original size:15 final size:16
Alignment explanation
Indices: 158925--158957 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
158915 TGAATGATGA
*
158925 ATGTATGC-AAAATGT
1 ATGTATGCGAAAAGGT
158940 ATGTATGCGAAAAGGT
1 ATGTATGCGAAAAGGT
158956 AT
1 AT
158958 TGATCCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.30
Consensus pattern (16 bp):
ATGTATGCGAAAAGGT
Found at i:162971 original size:23 final size:25
Alignment explanation
Indices: 162945--162996 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
162935 TTTTCTTCGA
*
162945 TATTGAAAAATAT-TAAAATA-ATT
1 TATTGAAAAAAATATAAAATATATT
*
162968 TATTGAAAAAAATATAAATTATATT
1 TATTGAAAAAAATATAAAATATATT
162993 TATT
1 TATT
162997 ATATATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 12 0.48
24 6 0.24
25 7 0.28
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
TATTGAAAAAAATATAAAATATATT
Found at i:164389 original size:3 final size:3
Alignment explanation
Indices: 164371--164447 Score: 82
Period size: 3 Copynumber: 25.3 Consensus size: 3
164361 TGTAATATTA
* * * * * *
164371 AAT AAT ATAT ATT AAT AAT AAT AAT AAT TAT TAT TAT TAT AAT TAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
164417 AAT AAT AAT AAT TAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
164448 TAAATAACAT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
3 62 0.95
4 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
AAT
Found at i:164759 original size:16 final size:16
Alignment explanation
Indices: 164713--164752 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
164703 TATGAACTTC
164713 TTCTTCTCCTGATGAG
1 TTCTTCTCCTGATGAG
164729 TTCTTCTCCTGATGAG
1 TTCTTCTCCTGATGAG
164745 TTCTTCTC
1 TTCTTCTC
164753 ATTATGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.10, C:0.28, G:0.15, T:0.47
Consensus pattern (16 bp):
TTCTTCTCCTGATGAG
Found at i:164840 original size:20 final size:20
Alignment explanation
Indices: 164817--164880 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
164807 GCTGAACAAA
164817 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
* **
164837 TTCTTCCTTC-TT-T-AAATGAG
1 TTCTT-C-TCATTATGAACT-TC
164857 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
164877 TTCT
1 TTCT
164881 GGAAAAGCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
18 2 0.06
19 6 0.19
20 16 0.50
21 6 0.19
22 2 0.06
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (20 bp):
TTCTTCTCATTATGAACTTC
Found at i:164914 original size:113 final size:113
Alignment explanation
Indices: 164739--165666 Score: 1356
Period size: 113 Copynumber: 8.2 Consensus size: 113
164729 TTCTTCTCCT
* * *
164739 GATGAGTTCTTCTCATTATGAACTTC-TCTGGAAAAACTGACCCATCAAGTGATGGATTTGAGCA
1 GATGAGTTCTTCTCATTATGAACTTCTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCA
* * *
164803 AAAAGCTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTA
66 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
*
164851 AATGAGTTCTTCTCATTATGAACTTCTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCA
1 GATGAGTTCTTCTCATTATGAACTTCTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCA
164916 AAAGGTTGAACAAATTCTTCTCATTATGAA---CTTCTTCCTTCTTCA
66 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
** *
164961 GATGAGTTCTTCTCATTATGAAC-TCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGC
1 GATGAGTTCTTCTCATTATGAACTTC-TTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGC
165025 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
65 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
** *
165074 GATGAGTTCTTCTCATTATGAAC-TCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGC
1 GATGAGTTCTTCTCATTATGAACTTC-TTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGC
165138 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
65 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
** *
165187 GATGAGTTCTTCTCATTATGAAC-TCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGC
1 GATGAGTTCTTCTCATTATGAACTTC-TTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGC
**
165251 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
65 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* *
165300 GATGAGTTCTTCTTATTATGAACTTCTTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCA
1 GATGAGTTCTTCTCATTATGAACTTCTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCA
* * *
165365 TAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAA
66 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC-A
* * *** * **
165414 GTAATGAATTCTTCTCATTATGAAC-TCTACCTGGAAATTTTAATCCATCACA-TGATGAATTCA
1 G--ATGAGTTCTTCTCATTATGAACTTCT-TCTGGAAAAGCTAATCCATCA-AGTGATGGATTTG
* *
165477 AACAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
62 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * *
165529 GATGAGTTCTTCTCATTATGAACTT-TCTCTGGAAAAGCTGATCCATCAAGTGAT-GAATTCAGG
1 GATGAGTTCTTCTCATTATGAACTTCT-TCTGGAAAAGCTAATCCATCAAGTGATGGATTTGA-G
*
165592 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
64 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
165642 GATGAGTTCTTCTCATTATGAACTT
1 GATGAGTTCTTCTCATTATGAACTT
165667 TCTCCTCTCT
Statistics
Matches: 750, Mismatches: 52, Indels: 27
0.90 0.06 0.03
Matches are distributed among these distances:
109 2 0.00
110 102 0.14
112 29 0.04
113 516 0.69
114 5 0.01
115 5 0.01
116 90 0.12
117 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (113 bp):
GATGAGTTCTTCTCATTATGAACTTCTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCA
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
Found at i:165563 original size:342 final size:340
Alignment explanation
Indices: 164739--165666 Score: 1329
Period size: 342 Copynumber: 2.7 Consensus size: 340
164729 TTCTTCTCCT
* * * * * ** *
164739 GATGAGTTCTTCTCATTATGAACTTC--TCTGGAAAA-ACTGACCCATCAAGTGATGGATTTGAG
1 GATGAATTCTTCTCATTATGAAC-TCGAACTGGAAAAGA-TAATCCATCAAGTGATGAATTCAAA
* * * * *
164801 CAAAAAGCTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAAATGAGTTCTTCTCA
64 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
164866 TTATGAAC-TTCTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
129 TTATGAACTTTC-TCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
164930 TTCTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCGAACT
193 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCGAACT
164991 GGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
258 GGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
*
165056 CTTCTTCTTCCTTCTTCA
323 CTTCTTCTTCCTCCTTCA
* * ** *
165074 GATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCA
1 GATGAATTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGAATTCAAACA
*
165139 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
66 AAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
**** * *
165204 ATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTC
131 ATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTC
* **
165269 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTC-TTCTGGA
196 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCGAACTGGA
* * * *
165333 AAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAATTCTTCTCATTATGAATTT
261 AAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
165398 CTTCTTCCTCCTTCAA
326 CTTCTTCCTCCTTC-A
* * ***
165414 GTAATGAATTCTTCTCATTATGAACTCTACCTGGAAATTTTAATCCATCACA-TGATGAATTCAA
1 G--ATGAATTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCA-AGTGATGAATTCAA
165478 ACAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
63 ACAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
165543 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGAT-GAATTCAGGCAAAAGGTTGAACAA
128 ATTATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGA-GCAAAAGGTTGAACAA
165607 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
192 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
165667 TCTCCTCTCT
Statistics
Matches: 537, Mismatches: 43, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
334 2 0.00
335 23 0.04
336 164 0.31
337 1 0.00
339 116 0.22
340 4 0.01
341 5 0.01
342 221 0.41
343 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (340 bp):
GATGAATTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATGAATTCAAACA
AAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTC
TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCGAACTGGA
AAAGATAATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
CTTCTTCCTCCTTCA
Found at i:166497 original size:3 final size:3
Alignment explanation
Indices: 166479--166558 Score: 70
Period size: 3 Copynumber: 26.3 Consensus size: 3
166469 TGTAATATTA
* * * * * * * *
166479 AAT AAT ATAT ATT AAT AAT AAT TAT TAT TAT TAT TAT TAT AAT TAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
166525 AAT AAT AAT AAT AAT AAT TAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
166559 TAAATAACAT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (3 bp):
AAT
Found at i:169132 original size:17 final size:16
Alignment explanation
Indices: 169110--169148 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
169100 AATTTATCAA
*
169110 TTTTATTCAAATTAAT
1 TTTTATTCAAAATAAT
*
169126 TTATTATTGAAAATAAT
1 TT-TTATTCAAAATAAT
169143 TTTTAT
1 TTTTAT
169149 CGTTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTTATTCAAAATAAT
Found at i:169263 original size:16 final size:16
Alignment explanation
Indices: 169242--169331 Score: 90
Period size: 16 Copynumber: 5.6 Consensus size: 16
169232 GTTAAAATCT
*
169242 GGTTCGGGTTTCTTTC
1 GGTTCGGGTTACTTTC
*
169258 GGTTCGGGTTAATTTC
1 GGTTCGGGTTACTTTC
* ** *
169274 AGTTCAAGTTGCTTTC
1 GGTTCGGGTTACTTTC
*
169290 GGTTCGGGTTACTTTT
1 GGTTCGGGTTACTTTC
* *
169306 GGTTCGGTTTAATTTC
1 GGTTCGGGTTACTTTC
*
169322 GGTTCTGGTT
1 GGTTCGGGTT
169332 GATTTCAATT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 57 1.00
ACGTcount: A:0.09, C:0.14, G:0.29, T:0.48
Consensus pattern (16 bp):
GGTTCGGGTTACTTTC
Found at i:169293 original size:32 final size:32
Alignment explanation
Indices: 169178--169300 Score: 113
Period size: 32 Copynumber: 3.8 Consensus size: 32
169168 ATTTCAATCT
* * *
169178 GTTCGAGTTGCTTTCGGGTCGGATTAAATTCA
1 GTTCAAGTTGCTTTCGGTTCGGGTTAAATTCA
* * * * *
169210 GCTCAGGTTGCTTTC-ATATCGGGTTAAAATCTG
1 GTTCAAGTTGCTTTCGGT-TCGGGTTAAATTC-A
** * *
169243 GTTCGGGTTTCTTTCGGTTCGGGTTAATTTCA
1 GTTCAAGTTGCTTTCGGTTCGGGTTAAATTCA
169275 GTTCAAGTTGCTTTCGGTTCGGGTTA
1 GTTCAAGTTGCTTTCGGTTCGGGTTA
169301 CTTTTGGTTC
Statistics
Matches: 70, Mismatches: 18, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
32 46 0.66
33 23 0.33
34 1 0.01
ACGTcount: A:0.15, C:0.16, G:0.28, T:0.41
Consensus pattern (32 bp):
GTTCAAGTTGCTTTCGGTTCGGGTTAAATTCA
Found at i:169336 original size:16 final size:16
Alignment explanation
Indices: 169228--169337 Score: 85
Period size: 16 Copynumber: 6.8 Consensus size: 16
169218 TGCTTTCATA
**
169228 TCGGGTTAAAATCTGGT
1 TCGGGTTAATTTC-GGT
**
169245 TCGGGTTTCTTTCGGT
1 TCGGGTTAATTTCGGT
*
169261 TCGGGTTAATTTCAGT
1 TCGGGTTAATTTCGGT
** **
169277 TCAAGTTGCTTTCGGT
1 TCGGGTTAATTTCGGT
* *
169293 TCGGGTTACTTTTGGT
1 TCGGGTTAATTTCGGT
*
169309 TCGGTTTAATTTCGGT
1 TCGGGTTAATTTCGGT
* *
169325 TCTGGTTGATTTC
1 TCGGGTTAATTTC
169338 AATTTCGCTA
Statistics
Matches: 71, Mismatches: 22, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
16 62 0.87
17 9 0.13
ACGTcount: A:0.12, C:0.15, G:0.27, T:0.46
Consensus pattern (16 bp):
TCGGGTTAATTTCGGT
Found at i:195830 original size:89 final size:91
Alignment explanation
Indices: 195690--195863 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 91
195680 CAAAATTGCG
* ** * *
195690 TCCGTAGGGTTTACCCTAATCACATAGCAAAAGGAAGCCAACCTAAGGATATTCCTTGGGGCCTA
1 TCCGTAGGGTTTACCCAAAGAACACAACAAAAGGAAGCCAACCTAAGGATATTCCTTGGGGCCTA
195755 TGGGCCTACCCAAGAGTATCCTTAGA
66 TGGGCCTACCCAAGAGTATCCTTAGA
*
195781 TCCGTAGGG-TTACCCAAAGAACACAACAAAAGGAA-CCAACCTAAGGATATTCCTTGGGGCTTA
1 TCCGTAGGGTTTACCCAAAGAACACAACAAAAGGAAGCCAACCTAAGGATATTCCTTGGGGCCTA
* *
195844 TGGGCTTACCCAAGGGTATC
66 TGGGCCTACCCAAGAGTATC
195864 TGTAACATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
89 45 0.60
90 21 0.28
91 9 0.12
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (91 bp):
TCCGTAGGGTTTACCCAAAGAACACAACAAAAGGAAGCCAACCTAAGGATATTCCTTGGGGCCTA
TGGGCCTACCCAAGAGTATCCTTAGA
Found at i:198875 original size:53 final size:53
Alignment explanation
Indices: 198817--198934 Score: 148
Period size: 53 Copynumber: 2.2 Consensus size: 53
198807 ACTCTTCTTT
* *
198817 GAACAATCTTCAAC-CAGTGGGTTCGCCCCCTCTTGCTCCAAGGAGTAGAACTC
1 GAACAATCTTCAACTCA-CGGGTTCGCCCCCTCTTGCTCCAAGGAGTAAAACTC
** * * * *
198870 GAACAATCTTCTGCTTACGGGTTCGCTCCCTCTTGCTTCGAGGAGTAAAACTC
1 GAACAATCTTCAACTCACGGGTTCGCCCCCTCTTGCTCCAAGGAGTAAAACTC
198923 GAACAATCTTCA
1 GAACAATCTTCA
198935 TAAAACGGGT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 54 0.98
54 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (53 bp):
GAACAATCTTCAACTCACGGGTTCGCCCCCTCTTGCTCCAAGGAGTAAAACTC
Found at i:198943 original size:53 final size:53
Alignment explanation
Indices: 198835--198953 Score: 150
Period size: 53 Copynumber: 2.2 Consensus size: 53
198825 TTCAACCAGT
* * ***
198835 GGGTTCGCCCCCTCTTGCTCCAAGGAGTAGAACTCGAACAATCTTCTGCTTAC
1 GGGTTCGCTCCCTCTTGCTCCAAGGAGTAAAACTCGAACAATCTTCTGAAAAC
* *
198888 GGGTTCGCTCCCTCTTGCTTCGAGGAGTAAAACTCGAACAATCTTCAT-AAAAC
1 GGGTTCGCTCCCTCTTGCTCCAAGGAGTAAAACTCGAACAATCTTC-TGAAAAC
*
198941 GGGTCCGCTCCCT
1 GGGTTCGCTCCCT
198954 ATCCGTTCAG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 56 0.98
54 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (53 bp):
GGGTTCGCTCCCTCTTGCTCCAAGGAGTAAAACTCGAACAATCTTCTGAAAAC
Found at i:199002 original size:51 final size:50
Alignment explanation
Indices: 198926--199454 Score: 691
Period size: 51 Copynumber: 10.3 Consensus size: 50
198916 AAAACTCGAA
** *
198926 CAATCTTCATA-AAACGGGTCCGCTCCCTATCCGTTCAGAGAGTATAAGACT
1 CAATCTTCA-ACAAACTTGTCCGCTCCCTATCC-TTCAGAGAGTATAGGACT
* * * * *
198977 CGATCTTCAATAAACGTGTCTGCTCCCTATTCCTTCAAAGAGTATAGGACT
1 CAATCTTCAACAAACTTGTCCGCTCCCTA-TCCTTCAGAGAGTATAGGACT
*
199028 CAAACAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
1 ----CAATCTTCAACAAACTTGTCCGCTCCCTA-TCCTTCAGAGAGTATAGGACT
*
199083 CAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACTTGTCCGCTCCCTA-TCCTTCAGAGAGTATAGGACT
* *
199134 CAATCTTCAATAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATATGACT
1 CAATCTTCAACAAACTTGTCCGCTCCCTA-TCCTTCAGAGAGTATAGGACT
* * * * *
199185 CAATCTTTAACAAACGTGTTCGCTCCCTATCCGTTCAGGGAGTATAGAACT
1 CAATCTTCAACAAACTTGTCCGCTCCCTATCC-TTCAGAGAGTATAGGACT
*
199236 CAATCTTCAACAAACTTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACTTGTCCGCTCCCTA-TCCTTCAGAGAGTATAGGACT
* *
199287 CAATCTTCAACGAACTTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACTTGTCCGCTCCCTA-TCCTTCAGAGAGTATAGGACT
* *
199338 CAATCTTCAACGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
1 CAATCTTCAACAAACTTGTCCGCTCCCTA-TCCTTCAGAGAGTATAGGACT
* * *
199389 TAATCTTCAACAAACTTGTCCGCTCCCTATTCTTTCGGAGAGTATAGGACT
1 CAATCTTCAACAAACTTGTCCGCTCCCTA-TCCTTCAGAGAGTATAGGACT
199440 CAATCTTCAACAAAC
1 CAATCTTCAACAAAC
199455 GAATTTGCTT
Statistics
Matches: 436, Mismatches: 34, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
50 4 0.01
51 382 0.88
52 5 0.01
55 45 0.10
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (50 bp):
CAATCTTCAACAAACTTGTCCGCTCCCTATCCTTCAGAGAGTATAGGACT
Found at i:200800 original size:9 final size:9
Alignment explanation
Indices: 200773--200908 Score: 120
Period size: 9 Copynumber: 15.1 Consensus size: 9
200763 CCTCCTTTTA
200773 TTTCTCTTT
1 TTTCTCTTT
*
200782 TTT-TCATT
1 TTTCTCTTT
200790 TTTCTCTTT
1 TTTCTCTTT
200799 TTTCTC-TT
1 TTTCTCTTT
*
200807 TTCCTTCTTT
1 TTTC-TCTTT
200817 TTTC-CATTT
1 TTTCTC-TTT
200826 TTTCTCTTCT
1 TTTCTCTT-T
*
200836 TTT-TATTT
1 TTTCTCTTT
*
200844 CTTCTCTTT
1 TTTCTCTTT
*
200853 CTTCTCTTT
1 TTTCTCTTT
* *
200862 TTTTTCGTT
1 TTTCTCTTT
200871 TTT-TCTTT
1 TTTCTCTTT
200879 TTTCTCATTT
1 TTTCTC-TTT
*
200889 TTTTTCTTCT
1 TTTCTCTT-T
200899 TTTCTCTTT
1 TTTCTCTTT
200908 T
1 T
200909 ATTTCTTCTT
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
8 23 0.22
9 55 0.53
10 26 0.25
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.75
Consensus pattern (9 bp):
TTTCTCTTT
Found at i:200815 original size:18 final size:18
Alignment explanation
Indices: 200777--200908 Score: 65
Period size: 17 Copynumber: 6.8 Consensus size: 18
200767 CTTTTATTTC
*
200777 TCTTTTTT-TCATTTTTC-
1 TCTTTTTTCTC-TTTTCCT
200794 TCTTTTTTCTCTTTTCCT
1 TCTTTTTTCTCTTTTCCT
*
200812 TCTTTTTTCCATTTTTTCTCT
1 TCTTTTTT-C-TCTTTTC-CT
*
200833 TCTTTTTATTTCTTCTCTTTCTT
1 TC--TTT-TTTC-TCT-TTTCCT
*
200856 CTCTTTTTTTTCGTTTT--T
1 -TCTTTTTTCTC-TTTTCCT
**
200874 TCTTTTTTCTCATTTTTTT
1 TCTTTTTTCTC-TTTTCCT
200893 TCTTCTTTTCTCTTTT
1 TCTT-TTTTCTCTTTT
200909 ATTTCTTCTT
Statistics
Matches: 93, Mismatches: 8, Indels: 26
0.73 0.06 0.20
Matches are distributed among these distances:
17 27 0.29
18 11 0.12
19 10 0.11
20 18 0.19
21 8 0.09
22 3 0.03
23 7 0.08
24 9 0.10
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.75
Consensus pattern (18 bp):
TCTTTTTTCTCTTTTCCT
Found at i:200855 original size:22 final size:23
Alignment explanation
Indices: 200830--200917 Score: 69
Period size: 22 Copynumber: 3.9 Consensus size: 23
200820 CCATTTTTTC
200830 TCTTCT-TTTTATTTCTTCTCTT
1 TCTTCTCTTTTATTTCTTCTCTT
*
200852 TCTTCTCTTTTTTTTCGTT-T-TT
1 TCTTCTCTTTTATTTC-TTCTCTT
* *
200874 TCTT-T-TTTCTCATTTTTTTTCTT
1 TCTTCTCTTT-T-ATTTCTTCTCTT
*
200897 CTTTTCTCTTTTATTTCTTCT
1 -TCTTCTCTTTTATTTCTTCT
200918 TCAAGCAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
20 3 0.06
21 4 0.08
22 16 0.31
23 11 0.22
24 12 0.24
25 2 0.04
26 3 0.06
ACGTcount: A:0.03, C:0.20, G:0.01, T:0.75
Consensus pattern (23 bp):
TCTTCTCTTTTATTTCTTCTCTT
Found at i:200918 original size:63 final size:62
Alignment explanation
Indices: 200773--200919 Score: 174
Period size: 63 Copynumber: 2.3 Consensus size: 62
200763 CCTCCTTTTA
*
200773 TTTCTCTTTTTTTCATTTTTCTCTTTTTTCTCTTTTCCTTCTTTTTTCCATTTTTTCTCTTCT
1 TTTCTCTTTTTTTCATTCTTCTCTTTTTTCTCTTTT-CTTCTTTTTTCCATTTTTTCTCTTCT
* * * * *
200836 TTT-TATTTCTTCTCTTTCTTCTCTTTTTTTTCGTTTT-TTCTTTTTTCTCATTTTTTTTCTTCT
1 TTTCTCTTT-TTTTCATTCTTCTCTTTTTTCTC-TTTTCTTCTTTTTTC-CATTTTTTCTCTTCT
200899 TTTCTCTTTTATTTC-TTCTTC
1 TTTCTCTTTT-TTTCATTCTTC
200920 AAGCAAAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
62 14 0.20
63 46 0.65
64 11 0.15
ACGTcount: A:0.03, C:0.22, G:0.01, T:0.74
Consensus pattern (62 bp):
TTTCTCTTTTTTTCATTCTTCTCTTTTTTCTCTTTTCTTCTTTTTTCCATTTTTTCTCTTCT
Found at i:200919 original size:22 final size:20
Alignment explanation
Indices: 200869--200918 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
200859 TTTTTTTTCG
200869 TTTTTTCTT-TTTTCTCATT
1 TTTTTTCTTCTTTTCTCATT
200888 TTTTTTCTTCTTTTCTC-TT
1 TTTTTTCTTCTTTTCTCATT
*
200907 TTATTTCTTCTT
1 TTTTTTCTTCTT
200919 CAAGCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTCTTCTTTTCTCATT
Found at i:214271 original size:21 final size:21
Alignment explanation
Indices: 214229--214271 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
214219 TTTCTGGGTT
* *
214229 AGGGGAATCGATATCCATTCA
1 AGGGGAATCGATACCCACTCA
*
214250 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
214271 A
1 A
214272 ACGAACCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:214345 original size:24 final size:23
Alignment explanation
Indices: 214300--214345 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
214290 AATCTCATAG
*
214300 GGGAACCGATTCCCCCATAGGAT
1 GGGAACCGATTCCCCCAAAGGAT
*
214323 GGGAGCCGATTCCCCCCAAAGGA
1 GGGAACCGATT-CCCCCAAAGGA
214346 AAATTGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.13
Consensus pattern (23 bp):
GGGAACCGATTCCCCCAAAGGAT
Found at i:215860 original size:103 final size:103
Alignment explanation
Indices: 215635--215852 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
215625 GTTGAGGGTC
*
215635 TATGTGATCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
* *
215700 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
215738 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
* *
215803 TTGATCCCTAGTATATGTATATGATTCTTAAGTAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
215841 TATGTGGTCCTT
1 TATGTGGTCCTT
215853 ATGGACATTA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:215902 original size:23 final size:23
Alignment explanation
Indices: 215869--215936 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
215859 ATTATTATAT
215869 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
215892 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
215915 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
215937 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:219538 original size:21 final size:21
Alignment explanation
Indices: 219496--219538 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
219486 TTTTTGGGCT
* *
219496 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
219517 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
219538 A
1 A
219539 ACGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:220763 original size:24 final size:24
Alignment explanation
Indices: 220720--220772 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
220710 TAAGTGAACC
*
220720 ATGTG-TTTATATGTATATGAGAT
1 ATGTGATTTATATGTAGATGAGAT
*
220743 ATGTGATTTATATG-ACGATGAGCT
1 ATGTGATTTATATGTA-GATGAGAT
220767 ATGTGA
1 ATGTGA
220773 AAGAACTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.30, C:0.04, G:0.25, T:0.42
Consensus pattern (24 bp):
ATGTGATTTATATGTAGATGAGAT
Found at i:221110 original size:103 final size:103
Alignment explanation
Indices: 220885--221102 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
220875 GTCAAGGGTC
220885 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
* *
220950 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
220988 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
* *
221053 TTGATCCCTAGTATATGTATATGATTCTTAAGTAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
221091 TATGTGTTCCTT
1 TATGTGGTCCTT
221103 ATGGACATTA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTAGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:221186 original size:23 final size:23
Alignment explanation
Indices: 221118--221186 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
221108 CATTATTATA
*
221118 TGGCACTACGGTGCAATTCTACA
1 TGGCACTACGGTGCAATTCTACG
* *
221141 CGGCACTCCGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* * *
221164 TGGCACTTCGCTGCAATTATACG
1 TGGCACTACGGTGCAATTCTACG
221187 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:224794 original size:20 final size:20
Alignment explanation
Indices: 224752--224791 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
224742 ATTTATGGCA
224752 GTCAACGCAGTCAACGGTCG
1 GTCAACGCAGTCAACGGTCG
224772 GTCAACG-AGTCAACGGTCG
1 GTCAACGCAGTCAACGGTCG
224791 G
1 G
224792 GTCGGGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.25, C:0.28, G:0.33, T:0.15
Consensus pattern (20 bp):
GTCAACGCAGTCAACGGTCG
Found at i:227079 original size:2 final size:2
Alignment explanation
Indices: 227072--227104 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
227062 TTCGAATTTA
227072 AT AT 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 AT AT A
227105 AAGCCTGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:236302 original size:66 final size:65
Alignment explanation
Indices: 236197--236319 Score: 183
Period size: 66 Copynumber: 1.9 Consensus size: 65
236187 AGTATTGATG
* * *
236197 TAAAATTTTGCACTATTGTAGATCCATATTGTTTGCCTTTTATATTTGGTCTCCACTCCTAGAAA
1 TAAAACTTTGCACTATTGTAGATCCATATTGTTTGCCTTTCATATTCGGTCTCCACTCCTAGAAA
* * *
236262 TAAAACTTTGTACTATTTTTAGATGCATATTGTTTGCCTTTCATATTCGGTCTCCACT
1 TAAAACTTTGCACTA-TTGTAGATCCATATTGTTTGCCTTTCATATTCGGTCTCCACT
236320 TAGATGAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
65 13 0.25
66 38 0.75
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (65 bp):
TAAAACTTTGCACTATTGTAGATCCATATTGTTTGCCTTTCATATTCGGTCTCCACTCCTAGAAA
Found at i:238348 original size:117 final size:117
Alignment explanation
Indices: 238131--238350 Score: 332
Period size: 117 Copynumber: 1.9 Consensus size: 117
238121 AACACTATTT
* * * * * *
238131 CCATCCAATCACTCCGATTACTAGAATTTTTATGTTTTCCAGAACCATACACCCACCTGCACACC
1 CCATCCAATCACTCCGATTACCAAAATGTGTAGGTTTCCCAGAACCATACACCCACCTGCACACC
* ** *
238196 AGTAAGGACTTACCCTGAGCACAAAGCCGATGAGCCTGCGGTAATAACTTCC
66 AATAAGGACTTACCCTGAGCACAAAGCAAAGGAGCCTGCGGTAATAACTTCC
238248 CCATCCAATCACTCCGATTACCAAAATGTGTAGGTTTCCCAGAACCATACACCCACCTGCACACC
1 CCATCCAATCACTCCGATTACCAAAATGTGTAGGTTTCCCAGAACCATACACCCACCTGCACACC
* *
238313 AATAAGGTCTTACCCTGAGCACACAGCAAAGGAGCCTG
66 AATAAGGACTTACCCTGAGCACAAAGCAAAGGAGCCTG
238351 AAATACTTCC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 91 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (117 bp):
CCATCCAATCACTCCGATTACCAAAATGTGTAGGTTTCCCAGAACCATACACCCACCTGCACACC
AATAAGGACTTACCCTGAGCACAAAGCAAAGGAGCCTGCGGTAATAACTTCC
Found at i:239418 original size:29 final size:28
Alignment explanation
Indices: 239321--239424 Score: 138
Period size: 28 Copynumber: 3.7 Consensus size: 28
239311 AAATTTAAAT
* * *
239321 ATAATTACGAAACTATCACCTTTTAAAA
1 ATAATTACGAAAATATCACATTTTCAAA
239349 ATAATTACGAAAATATCACCATTTTC-AA
1 ATAATTACGAAAATATCA-CATTTTCAAA
* *
239377 ATAATTACAAAAATAGCACAATTTTCAAA
1 ATAATTACGAAAATATCAC-ATTTTCAAA
239406 ATAATTACGAAAATATCAC
1 ATAATTACGAAAATATCAC
239425 TCGGTCAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.02
28 41 0.62
29 24 0.36
ACGTcount: A:0.50, C:0.16, G:0.04, T:0.30
Consensus pattern (28 bp):
ATAATTACGAAAATATCACATTTTCAAA
Found at i:244658 original size:109 final size:109
Alignment explanation
Indices: 244467--244684 Score: 427
Period size: 109 Copynumber: 2.0 Consensus size: 109
244457 CTGAACCCCA
*
244467 AAATTCTCTGCATATCCTGCAACTCACCAACATCTACCCCTGCCGAAAATAGATCACACTTTTAA
1 AAATTCTCTGCATATCCTGCAACTCACCAACATCTACCCCTGCCGAAAATAGATCACACTTTGAA
244532 GGGTTCAACCAAAGTCCCGACATCTCAAAAAACCTCCCTAAAAC
66 GGGTTCAACCAAAGTCCCGACATCTCAAAAAACCTCCCTAAAAC
244576 AAATTCTCTGCATATCCTGCAACTCACCAACATCTACCCCTGCCGAAAATAGATCACACTTTGAA
1 AAATTCTCTGCATATCCTGCAACTCACCAACATCTACCCCTGCCGAAAATAGATCACACTTTGAA
244641 GGGTTCAACCAAAGTCCCGACATCTCAAAAAACCTCCCTAAAAC
66 GGGTTCAACCAAAGTCCCGACATCTCAAAAAACCTCCCTAAAAC
244685 CGACTGAATA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.36, C:0.33, G:0.10, T:0.22
Consensus pattern (109 bp):
AAATTCTCTGCATATCCTGCAACTCACCAACATCTACCCCTGCCGAAAATAGATCACACTTTGAA
GGGTTCAACCAAAGTCCCGACATCTCAAAAAACCTCCCTAAAAC
Found at i:253360 original size:3 final size:3
Alignment explanation
Indices: 253352--253441 Score: 180
Period size: 3 Copynumber: 30.0 Consensus size: 3
253342 GATGGGATTA
253352 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
253400 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
253442 TAACATGTCA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 87 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:253688 original size:15 final size:12
Alignment explanation
Indices: 253654--253678 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
253644 TAACCACTAA
253654 ATAATAATCAAT
1 ATAATAATCAAT
253666 ATAATAATCAAT
1 ATAATAATCAAT
253678 A
1 A
253679 ATTATATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATAATCAAT
Found at i:256742 original size:2 final size:2
Alignment explanation
Indices: 256735--256760 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
256725 TAACTCAATC
256735 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
256761 AAGCAGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:259339 original size:3 final size:3
Alignment explanation
Indices: 259333--259379 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
259323 ATCCATTTGT
*
259333 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -AA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
259380 CATTTCAGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 40 0.98
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:262489 original size:36 final size:36
Alignment explanation
Indices: 262442--262511 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
262432 TGAGCAATGC
* * * *
262442 ACACAGAGATCCTGCTATATTAATACCAAAAGTATT
1 ACACAAAGATCCTACCAGATTAATACCAAAAGTATT
*
262478 ACACAAAGATCCTACCAGATTGATACCAAAAGTA
1 ACACAAAGATCCTACCAGATTAATACCAAAAGTA
262512 GTCTATGGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.23
Consensus pattern (36 bp):
ACACAAAGATCCTACCAGATTAATACCAAAAGTATT
Found at i:263073 original size:6 final size:7
Alignment explanation
Indices: 263060--263100 Score: 50
Period size: 6 Copynumber: 6.0 Consensus size: 7
263050 TTTTCATACA
263060 TGCATTT
1 TGCATTT
263067 T-CATTT
1 TGCATTT
*
263073 TACATCTT
1 TGCAT-TT
263081 TGCATTT
1 TGCATTT
263088 T-CATTT
1 TGCATTT
263094 TGCATTT
1 TGCATTT
263101 GTTTTTTGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
6 12 0.40
7 12 0.40
8 6 0.20
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:263097 original size:13 final size:14
Alignment explanation
Indices: 263062--263100 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
263052 TTCATACATG
263062 CATTTT-CATTTTA
1 CATTTTGCATTTTA
263075 CATCTTTGCATTTT-
1 CAT-TTTGCATTTTA
263089 CATTTTGCATTT
1 CATTTTGCATTT
263101 GTTTTTTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 6 0.25
15 6 0.25
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.59
Consensus pattern (14 bp):
CATTTTGCATTTTA
Found at i:270977 original size:8 final size:8
Alignment explanation
Indices: 270932--270984 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
270922 GTTCGAGCAG
270932 AAAAAAGA
1 AAAAAAGA
*
270940 GAAAAAGA
1 AAAAAAGA
270948 AAAAACAGA
1 AAAAA-AGA
***
270957 AACATTCGA
1 AA-AAAAGA
270966 AAAAAAGA
1 AAAAAAGA
270974 AAAAAAGA
1 AAAAAAGA
270982 AAA
1 AAA
270985 GAAAAAGAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
8 25 0.71
9 9 0.26
10 1 0.03
ACGTcount: A:0.77, C:0.06, G:0.13, T:0.04
Consensus pattern (8 bp):
AAAAAAGA
Found at i:271995 original size:15 final size:15
Alignment explanation
Indices: 271975--272008 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
271965 AATTTTACTT
271975 TTTCTTTTATTTTTC
1 TTTCTTTTATTTTTC
271990 TTTCTTTTATTTTTC
1 TTTCTTTTATTTTTC
272005 TTTC
1 TTTC
272009 AAAGTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTTATTTTTC
Found at i:272499 original size:18 final size:18
Alignment explanation
Indices: 272482--272521 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
272472 TTGTATACTA
272482 TATATATTTT--AAAAAC
1 TATATATTTTCAAAAAAC
272498 TATATATTTTCAAAAAAC
1 TATATATTTTCAAAAAAC
272516 TATATA
1 TATATA
272522 ACATATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.45
18 12 0.55
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (18 bp):
TATATATTTTCAAAAAAC
Done.