Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004881.1 Hibiscus syriacus cultivar Beakdansim tig00010996_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: 101725
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:4973 original size:19 final size:19
Alignment explanation
Indices: 4951--4999 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
4941 TATATATGAT
4951 AATATATAATAATTTCAAA
1 AATATATAATAATTTCAAA
* **
4970 AATATATAATAGTTTTTAA
1 AATATATAATAATTTCAAA
4989 AATATATAATA
1 AATATATAATA
5000 TAGTTTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
AATATATAATAATTTCAAA
Found at i:5002 original size:21 final size:21
Alignment explanation
Indices: 4951--5012 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 21
4941 TATATATGAT
**
4951 AATATATAATA-A-TTTCAAA
1 AATATATAATATAGTTTTTAA
4970 AATATAT-A-ATAGTTTTTAA
1 AATATATAATATAGTTTTTAA
4989 AATATATAATATAGTTTTTGAA
1 AATATATAATATAGTTTTT-AA
5011 AA
1 AA
5013 CTTATTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 19 0.53
20 1 0.03
21 9 0.25
22 4 0.11
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (21 bp):
AATATATAATATAGTTTTTAA
Found at i:5102 original size:22 final size:23
Alignment explanation
Indices: 5063--5105 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
5053 AAATATGGTT
*
5063 TTTTGAAATATATATAATATAGG
1 TTTTGAAATACATATAATATAGG
5086 TTTTGAAA-ACATATAATATA
1 TTTTGAAATACATATAATATA
5106 TAGTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (23 bp):
TTTTGAAATACATATAATATAGG
Found at i:5106 original size:24 final size:26
Alignment explanation
Indices: 5070--5118 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
5060 GTTTTTTGAA
5070 ATATATATAATATAGGTTTTGAAAAC
1 ATATATATAATATAGGTTTTGAAAAC
* *
5096 ATATA-AT-ATATAGTTTTTTAAAA
1 ATATATATAATATAGGTTTTGAAAA
5119 ACTATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
25 2 0.10
26 5 0.24
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (26 bp):
ATATATATAATATAGGTTTTGAAAAC
Found at i:5145 original size:38 final size:41
Alignment explanation
Indices: 5086--5198 Score: 144
Period size: 38 Copynumber: 2.8 Consensus size: 41
5076 ATAATATAGG
* *
5086 TTTTGAAAACATATA-ATATATAGTTTTTTAAAAACTATT-
1 TTTTAAAAACATATATATATATAGTTTTTTAAAAAATATTA
* *
5125 TTTT-TAAACATATATA-ATATAGTTTTTGAAAAAATATTA
1 TTTTAAAAACATATATATATATAGTTTTTTAAAAAATATTA
5164 TTTTAAAAAACATATATATATATAGCTTTTTTAAA
1 TTTT-AAAAACATATATATATATAG-TTTTTTAAA
5199 CTGGTTTTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
38 29 0.46
39 9 0.14
41 11 0.17
42 6 0.10
43 8 0.13
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (41 bp):
TTTTAAAAACATATATATATATAGTTTTTTAAAAAATATTA
Found at i:5145 original size:62 final size:64
Alignment explanation
Indices: 5018--5161 Score: 186
Period size: 62 Copynumber: 2.2 Consensus size: 64
5008 GAAAACTTAT
* *
5018 TTTTGAAAACATATAATATATAGTTTATTTTTTCAAAATATGGTTTTTTGAAATATATATAATAT
1 TTTTGAAAACATATAATATATAG--T-TTTTTTAAAAATAT-GTTTTTTGAAACATATATAATAT
5083 AGG
62 AGG
*
5086 TTTTGAAAACATATAATATATAG-TTTTTTAAAAACTAT-TTTTTT-AAACATATATAATATAGT
1 TTTTGAAAACATATAATATATAGTTTTTTTAAAAA-TATGTTTTTTGAAACATATATAATATAGG
*
5148 TTTTGAAAAAATAT
1 TTTTGAAAACATAT
5162 TATTTTAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
62 29 0.41
63 6 0.08
64 10 0.14
65 3 0.04
68 23 0.32
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (64 bp):
TTTTGAAAACATATAATATATAGTTTTTTTAAAAATATGTTTTTTGAAACATATATAATATAGG
Found at i:5219 original size:144 final size:140
Alignment explanation
Indices: 4982--5257 Score: 314
Period size: 144 Copynumber: 1.9 Consensus size: 140
4972 TATATAATAG
* **
4982 TTTTTAAAATATATAATATAGTTTTTGAAAACTTATTTTTGAAAACATATAATATATAGTTTATT
1 TTTTTAAAATATATAATATAGTTTTTGAAAAATTATTTTAAAAAACATATAATATATAG--TATT
5047 TTTTCAAAATATGGTTTTTTGAAATATAT-ATAATATAG-GT-TTTGAAAACATATAATATATAG
64 TTTT-AAAATATGGTTTTTTGAAATATATAAT-ATATAGTGTCTTTGAAAACATAT--TATATAG
5109 TTTTTTAAAAACTATT
125 TTTTTTAAAAACTATT
5125 TTTTTAAACATATATAATATAGTTTTTGAAAAAATATTATTTTAAAAAACATATATATATATAG-
1 TTTTTAAA-ATATATAATATAGTTTTTG--AAAA-ATTATTTTAAAAAACATATA-ATATATAGT
* * *
5189 CTTTTTT-AAA-CTGG-TTTTTGAAAACGTATATAATATATAGTTTCTTTGAAAACATATTATAT
61 ATTTTTTAAAATATGGTTTTTTG-AAA--TATATAATATATAGTGTCTTTGAAAACATATTATAT
*
5251 TGTTTTT
123 AGTTTTT
5258 GAAGTATAAT
Statistics
Matches: 115, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
141 6 0.05
142 6 0.05
143 11 0.10
144 41 0.36
145 9 0.08
146 17 0.15
147 17 0.15
148 8 0.07
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (140 bp):
TTTTTAAAATATATAATATAGTTTTTGAAAAATTATTTTAAAAAACATATAATATATAGTATTTT
TTAAAATATGGTTTTTTGAAATATATAATATATAGTGTCTTTGAAAACATATTATATAGTTTTTT
AAAAACTATT
Found at i:5295 original size:16 final size:16
Alignment explanation
Indices: 5282--5315 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
5272 GTTATACAGC
5282 TTTTAATATATACATG
1 TTTTAATATATACATG
5298 TTTTAATATATACATG
1 TTTTAATATATACATG
5314 TT
1 TT
5316 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTTAATATATACATG
Found at i:7596 original size:44 final size:44
Alignment explanation
Indices: 7546--7909 Score: 532
Period size: 44 Copynumber: 8.2 Consensus size: 44
7536 TATTTATTAT
* * * *
7546 TTTCATTTATGGCATCATTTCATGCCTTACA-ACACCGTTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTA-ATGCACCATTATGCA
* * * *
7590 TTTCATTTATGGAATCCTTTCATGCCTTAATACACCAATATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * **
7634 TTTCAGTTATGGCTTCCTTTTATGCCTTAATGCACCATTATATA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* * *
7678 TTTTCAGTTATGGCATCATTTTATTCCTTAATGCACCATTATGCA
1 -TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
*
7723 TTTCAGTTATGGCATCATTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
*
7767 TTTCAGTTATGGCATCTTTTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATC-CTTTCATGCCTTAATGCACCATTATGCA
*
7812 TTTCAGTTATGGAATCCTTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
7856 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
7900 TTTCAGTTAT
1 TTTCAGTTAT
7910 TAATTTGGTT
Statistics
Matches: 294, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
43 1 0.00
44 212 0.72
45 81 0.28
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (44 bp):
TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
Found at i:7715 original size:89 final size:88
Alignment explanation
Indices: 7546--7909 Score: 532
Period size: 89 Copynumber: 4.1 Consensus size: 88
7536 TATTTATTAT
* * * * * *
7546 TTTCATTTATGGCATCATTTCATGCCTTACA-ACACCGTTATGCATTTCATTTATGGAATCCTTT
1 TTTCAGTTATGGCATCCTTTCATGCCTTA-ATGCACCATTATGCATTTCAGTTATGGCATCCTTT
* *
7610 CATGCCTTAATACACCAATATGCA
65 CATGCCTTAATGCACCATTATGCA
* * ** *
7634 TTTCAGTTATGGCTTCCTTTTATGCCTTAATGCACCATTATATATTTTCAGTTATGGCATCATTT
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA-TTTCAGTTATGGCATCCTTT
* *
7699 TATTCCTTAATGCACCATTATGCA
65 CATGCCTTAATGCACCATTATGCA
* *
7723 TTTCAGTTATGGCATCATTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCTTTTT
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATC-CTTT
7788 CATGCCTTAATGCACCATTATGCA
65 CATGCCTTAATGCACCATTATGCA
*
7812 TTTCAGTTATGGAATCCTTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCCTTTC
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCCTTTC
7877 ATGCCTTAATGCACCATTATGCA
66 ATGCCTTAATGCACCATTATGCA
7900 TTTCAGTTAT
1 TTTCAGTTAT
7910 TAATTTGGTT
Statistics
Matches: 247, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
87 1 0.00
88 87 0.35
89 159 0.64
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (88 bp):
TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCCTTTC
ATGCCTTAATGCACCATTATGCA
Found at i:7768 original size:27 final size:27
Alignment explanation
Indices: 7738--7816 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
7728 GTTATGGCAT
7738 CATTTCATGCCTTAATGCACCATTATG
1 CATTTCATGCCTTAATGCACCATTATG
*
7765 CATTTCA-G--TT-ATG--GCATCT-T-
1 CATTTCATGCCTTAATGCACCAT-TATG
7785 --TTTCATGCCTTAATGCACCATTATG
1 CATTTCATGCCTTAATGCACCATTATG
7810 CATTTCA
1 CATTTCA
7817 GTTATGGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 22
0.62 0.03 0.35
Matches are distributed among these distances:
18 5 0.13
19 1 0.03
21 6 0.15
22 4 0.10
23 4 0.10
24 6 0.15
26 1 0.03
27 12 0.31
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (27 bp):
CATTTCATGCCTTAATGCACCATTATG
Found at i:7816 original size:133 final size:133
Alignment explanation
Indices: 7544--7909 Score: 556
Period size: 133 Copynumber: 2.8 Consensus size: 133
7534 ATTATTTATT
* * * * *
7544 ATTTTCATTTATGGCATCATTTCATGCCTTACA-ACACCGTTATGCATTTCATTTATGGAATCCT
1 ATTTTCAGTTATGGCATCATTTCATGCCTTA-ATGCACCATTATGCATTTCAGTTATGGCATCCT
* * *
7608 TTCATGCCTTAATACACCAATATGCATTTCAGTTATGGCTTCCTTTTATGCCTTAATGCACCATT
65 TTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCCTTTTATGCCTTAATGCACCATT
*
7673 ATAT
130 ATAC
* * *
7677 ATTTTCAGTTATGGCATCATTTTATTCCTTAATGCACCATTATGCATTTCAGTTATGGCATCATT
1 ATTTTCAGTTATGGCATCATTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCCTT
*
7742 TCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCTTTTTCATGCCTTAATGCACCATT
66 TCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCCTTTT-ATGCCTTAATGCACCATT
*
7807 ATGC
130 ATAC
* *
7811 A-TTTCAGTTATGGAATCCTTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCCTT
1 ATTTTCAGTTATGGCATCATTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCCTT
7875 TCATGCCTTAATGCACCATTATGCATTTCAGTTAT
66 TCATGCCTTAATGCACCATTATGCATTTCAGTTAT
7910 TAATTTGGTT
Statistics
Matches: 212, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
132 1 0.00
133 190 0.90
134 21 0.10
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (133 bp):
ATTTTCAGTTATGGCATCATTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCCTT
TCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCCTTTTATGCCTTAATGCACCATTA
TAC
Found at i:14696 original size:44 final size:44
Alignment explanation
Indices: 14632--15074 Score: 693
Period size: 44 Copynumber: 10.2 Consensus size: 44
14622 TATTTATTAT
* * * * *
14632 TTTCATTTATGGAATCCTTTCATGCCTTACTACACCGTTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* *
14676 ATTCATTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* *
14720 TTTCAGTTATGGCATCTTTTCATGCCTTAATACACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
* *
14764 TTTCAATTATGGAATCCTTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
*
14808 TTTCAGTTATGGCATCCTTTCATGCCTTAAT-----A-TA-CCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
*
14845 TTTCAGTTATGGCATCCTTTCATTCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
14889 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
*
14933 TTTAAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
*
14977 TTTAAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
*
15021 TTTCAGTTATGGCAACCTTTCATGCCTTAATGCACCATTATGCA
1 TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
15065 TTTCAGTTAT
1 TTTCAGTTAT
15075 TAATTCAATT
Statistics
Matches: 370, Mismatches: 22, Indels: 14
0.91 0.05 0.03
Matches are distributed among these distances:
37 32 0.09
38 2 0.01
39 1 0.00
42 1 0.00
43 2 0.01
44 332 0.90
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (44 bp):
TTTCAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCA
Found at i:15012 original size:213 final size:213
Alignment explanation
Indices: 14632--15051 Score: 707
Period size: 213 Copynumber: 2.0 Consensus size: 213
14622 TATTTATTAT
* * * *
14632 TTTCATTTATGGAATCCTTTCATGCCTTACTACACCGTTATGCAATTCATTTATGGCATCCTTTC
1 TTTCAGTTATGGAATCCTTTCATGCCTTAATACACCATTATGCAATTCAGTTATGGCATCCTTTC
* *
14697 ATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCTTTTCATGCCTTAATACACCATTATG
66 ATGCCTTAATGCACCATTATGCATTTAAGTTATGGCATCCTTTCATGCCTTAATACACCATTATG
*
14762 CATTTCAATTATGGAATCCTTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCATCCTT
131 CATTTCAATTATGGAATCCTTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCAACCTT
14827 TCATGCCTTAATATACCA
196 TCATGCCTTAATATACCA
* * * *
14845 TTTCAGTTATGGCATCCTTTCATTCCTTAATGCACCATTATGCATTTCAGTTATGGCATCCTTTC
1 TTTCAGTTATGGAATCCTTTCATGCCTTAATACACCATTATGCAATTCAGTTATGGCATCCTTTC
*
14910 ATGCCTTAATGCACCATTATGCATTTAAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATG
66 ATGCCTTAATGCACCATTATGCATTTAAGTTATGGCATCCTTTCATGCCTTAATACACCATTATG
*
14975 CATTT-AAGTTATGGCATCCTTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCAACCT
131 CATTTCAA-TTATGGAATCCTTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCAACCT
15039 TTCATGCCTTAAT
195 TTCATGCCTTAAT
15052 GCACCATTAT
Statistics
Matches: 193, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
212 2 0.01
213 191 0.99
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (213 bp):
TTTCAGTTATGGAATCCTTTCATGCCTTAATACACCATTATGCAATTCAGTTATGGCATCCTTTC
ATGCCTTAATGCACCATTATGCATTTAAGTTATGGCATCCTTTCATGCCTTAATACACCATTATG
CATTTCAATTATGGAATCCTTTCATGCCTTAATGCACCATTATGCATTTCAGTTATGGCAACCTT
TCATGCCTTAATATACCA
Found at i:21039 original size:20 final size:21
Alignment explanation
Indices: 21002--21045 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
20992 CTCAAAATCA
* *
21002 TTTTTCAAAATTTCATTTT-C
1 TTTTTCAAAATCTAATTTTGC
21022 TTTTTCAAAATCTAATTTTGC
1 TTTTTCAAAATCTAATTTTGC
21043 TTT
1 TTT
21046 GGAAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.25, C:0.14, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTTCAAAATCTAATTTTGC
Found at i:24089 original size:21 final size:21
Alignment explanation
Indices: 24063--24111 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
24053 GTGAGCTCCG
*
24063 ATGGGGTTCAAGTTGCGCATC
1 ATGGGGTTCAAGTTGCACATC
24084 ATGGGGTTCAAGTTGCACATC
1 ATGGGGTTCAAGTTGCACATC
*
24105 ATAGGGT
1 ATGGGGT
24112 GCAACCACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (21 bp):
ATGGGGTTCAAGTTGCACATC
Found at i:25276 original size:51 final size:51
Alignment explanation
Indices: 25216--25325 Score: 204
Period size: 51 Copynumber: 2.2 Consensus size: 51
25206 GAGGGAGAAG
25216 AAATAGATTGAAGGGTTAAGACCTTTCGACGAAAGGACTTAACTTTTTTAT
1 AAATAGATTGAAGGGTTAAGACCTTTCGACGAAAGGACTTAACTTTTTTAT
25267 AAATAGATTGAAGGGTTAAGACCTTTCGACGAAAGGACTTAACTTTTTTAT
1 AAATAGATTGAAGGGTTAAGACCTTTCGACGAAAGGACTTAACTTTTTTAT
*
25318 TAA-AGATT
1 AAATAGATT
25326 TAACCTTTTG
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
50 5 0.09
51 53 0.91
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATAGATTGAAGGGTTAAGACCTTTCGACGAAAGGACTTAACTTTTTTAT
Found at i:26403 original size:31 final size:31
Alignment explanation
Indices: 26301--26411 Score: 127
Period size: 31 Copynumber: 3.6 Consensus size: 31
26291 GATTGGATTC
*
26301 AAGGGTCAAATT-GATATTTTATATAAAGTTT
1 AAGGGTCAAATTAG-TATTTTATATAAAATTT
* * * *
26332 AAAGGTTAAATTAGTATTTTATGTAAAATAT
1 AAGGGTCAAATTAGTATTTTATATAAAATTT
* *
26363 AA-GGTCAAATTAGTATTATGTATAAAATTT
1 AAGGGTCAAATTAGTATTTTATATAAAATTT
*
26393 AAGGGTCAAATTAGAATTT
1 AAGGGTCAAATTAGTATTT
26412 AATTATTTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
30 25 0.38
31 40 0.61
32 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (31 bp):
AAGGGTCAAATTAGTATTTTATATAAAATTT
Found at i:32707 original size:85 final size:85
Alignment explanation
Indices: 32564--32862 Score: 485
Period size: 85 Copynumber: 3.5 Consensus size: 85
32554 TATGACGTGC
*
32564 ATTTATGACGCGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
32629 CACACATTTGTGCGTCATAA
66 CACACATTTGTGCGTCATAA
*
32649 ATTTATGACACGCATGTATGACTTACATTACGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
32714 CACACATTTGTGCGTCATAA
66 CACACATTTGTGCGTCATAA
* *
32734 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCAGTCATAAATCT--GCTT
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAAT-TAAG-AT
* *
32797 GACATACATTTGTGTGTCATAA
64 GACACACATTTGTGCGTCATAA
* * *
32819 ATATATGGCACGCATGTATGACTTACATTGCGTGTCATTGAAGC
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGC
32863 ACACATCATT
Statistics
Matches: 202, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
84 1 0.00
85 200 0.99
86 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (85 bp):
ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
CACACATTTGTGCGTCATAA
Found at i:37768 original size:21 final size:22
Alignment explanation
Indices: 37744--37784 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
37734 GCGATTTTAG
37744 GGGAAGAGGAGGA-GGAGATGT
1 GGGAAGAGGAGGAGGGAGATGT
* *
37765 GGGACGAGGCGGAGGGAGAT
1 GGGAAGAGGAGGAGGGAGAT
37785 ACGGTGGCGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.29, C:0.05, G:0.59, T:0.07
Consensus pattern (22 bp):
GGGAAGAGGAGGAGGGAGATGT
Found at i:41987 original size:10 final size:10
Alignment explanation
Indices: 41972--42001 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
41962 CGGGCGGAGC
41972 GACGGCCGGA
1 GACGGCCGGA
41982 GACGGCCGGA
1 GACGGCCGGA
41992 GACGGCCGGA
1 GACGGCCGGA
42002 CGACAGTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.50, T:0.00
Consensus pattern (10 bp):
GACGGCCGGA
Found at i:42373 original size:109 final size:110
Alignment explanation
Indices: 42175--42379 Score: 256
Period size: 109 Copynumber: 1.9 Consensus size: 110
42165 TGGTTCATGA
*
42175 AGGGACCAAAACTGATATTTTGCCTCTTCTGTGCATGTGTTGTTATTTTTTGGGTTATTCATTAT
1 AGGGACCAAAACTGATATTTTCCCTCTTCTGTGCATGTGTTGTTATTTTTTGGGTTATTCATTAT
* **
42240 TTAGTCCCTATAACTTTAGTGTGTTTTTACATTTCGATTATCTGT
66 TTAGTCCCTATAACTTAACCGTGTTTTTACATTTCGATTATCTGT
* * *
42285 AGGGACCAAAATTG-TAATTTTCCCTTTTCT-TGCATGT-TTG-TATTTATTTTGGGTTATTCTT
1 AGGGACCAAAACTGAT-ATTTTCCCTCTTCTGTGCATGTGTTGTTA-TT-TTTTGGGTTATTCAT
* * * *
42346 TGTTTGGTCCCTTTAAGTTAACCGTGTTTTTACA
63 TATTTAGTCCCTATAACTTAACCGTGTTTTTACA
42380 CTTTAGTCAT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
107 2 0.02
108 5 0.06
109 49 0.60
110 25 0.31
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.49
Consensus pattern (110 bp):
AGGGACCAAAACTGATATTTTCCCTCTTCTGTGCATGTGTTGTTATTTTTTGGGTTATTCATTAT
TTAGTCCCTATAACTTAACCGTGTTTTTACATTTCGATTATCTGT
Found at i:42678 original size:11 final size:11
Alignment explanation
Indices: 42662--42696 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
42652 AATTATGTCC
42662 TTATTTTATGT
1 TTATTTTATGT
*
42673 TTATTTTATTT
1 TTATTTTATGT
*
42684 TTATTCTATGT
1 TTATTTTATGT
42695 TT
1 TT
42697 TACTATTATT
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:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (11 bp):
TTATTTTATGT
Found at i:42711 original size:4 final size:4
Alignment explanation
Indices: 42702--42751 Score: 70
Period size: 4 Copynumber: 13.2 Consensus size: 4
42692 TGTTTTACTA
*
42702 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA- TTAT TT-G TTAT TT-T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
42747 TTAT T
1 TTAT T
42752 AAGTTTATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 8 0.20
4 33 0.80
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:42767 original size:26 final size:26
Alignment explanation
Indices: 42714--42767 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
42704 ATTTATTTAT
* **
42714 TTATTTATTTATTTATTTATTATTTG
1 TTATTTATTTATTAATTTATTAAATG
42740 TTATTT-TTTATTAAGTTTATTAAATG
1 TTATTTATTTATTAA-TTTATTAAATG
42766 TT
1 TT
42768 TCTTTTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (26 bp):
TTATTTATTTATTAATTTATTAAATG
Found at i:44808 original size:42 final size:41
Alignment explanation
Indices: 44762--44874 Score: 93
Period size: 42 Copynumber: 2.7 Consensus size: 41
44752 AAAGGTTTCT
**
44762 TGATGAGTAAGTCCTTCGGGCCATC-AGTAAGTCTTTCGAGCA
1 TGATGA-TAAGTCCTTCGGGCCATCTA-TAAAACTTTCGAGCA
* * * ** * *
44804 TGATGCTTAAATCGTTCATGTCATCTATAAAACTTTTGAGCA
1 TGATG-ATAAGTCCTTCGGGCCATCTATAAAACTTTCGAGCA
* *
44846 AGATGATAAGTCCTTCGGGCCATCCATAA
1 TGATGATAAGTCCTTCGGGCCATCTATAA
44875 GACATTCGGG
Statistics
Matches: 52, Mismatches: 17, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
41 17 0.33
42 34 0.65
43 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (41 bp):
TGATGATAAGTCCTTCGGGCCATCTATAAAACTTTCGAGCA
Found at i:44875 original size:278 final size:276
Alignment explanation
Indices: 44365--44985 Score: 902
Period size: 278 Copynumber: 2.2 Consensus size: 276
44355 AAACAAATGA
* * * * * *
44365 TGATTTTCTGGGGTTTCTTGATG-ATGATTTTCAAAGATTTTTTAAAAGAAAGATAAGCCCAAAT
1 TGATTTTCAGGGGTTTCTTGATGAAT-ATCTCCAAAGAATTTTTAAAAG-AAGATAAGCCTAATT
* *
44429 TTTAGGGGTTCTTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAA
64 TTTAGGGGTTCCTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAA
* * * **
44494 GTCCTTCGGTCTATCAGTAAGTCTTTCAAGAATGATGCTTAAATCCTTCGGGTCATCTATAAGTC
129 GTCCTTCGGGCCATCAGTAAGTCTTTCAAGAATGATGCTTAAATCCTTCAGGTCATCTATAAAAC
* * * * * *
44559 TTTTGAGTAAGATGATAGGTTATTTGGGCCAACCATAAGACCTTCGAGCAGAATGTTTTCAAATG
194 TTTTGAGCAAGATGATAAGTCATTCGGGCCAACCATAAGACATTCGAGCACAAT-TTTTCAAATG
*
44624 AGTTTTTAGAAACTAAGTC
258 AGTTTTTAGAAACTAAGCC
*
44643 TGATTTTCAGGGGTTTCTTGATGAATATCTCCAAAGAATTTTTAAAATGAAGTTAAGCCTAATTT
1 TGATTTTCAGGGGTTTCTTGATGAATATCTCCAAAGAATTTTTAAAA-GAAGATAAGCCTAATTT
44708 TTAGGGGTTCCTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAAG
65 TTAGGGGTTCCTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAAG
* * * *
44773 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCGTTCATGTCATCTATAAAACT
130 TCCTTCGGGCCATCAGTAAGTCTTTCAAGAATGATGCTTAAATCCTTCAGGTCATCTATAAAACT
* * *
44838 TTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACATTCGGGCACAATTTTTCAAATGAG
195 TTTGAGCAAGATGATAAGTCATTCGGGCCAACCATAAGACATTCGAGCACAATTTTTCAAATGAG
44903 TTTTTAGAAACTAAGCC
260 TTTTTAGAAACTAAGCC
* * * * *
44920 TAATTTTCAGGGGTTTCGTGATGATTATCTCCATAGAATTTTTAAAAGAAGCTAAGCCTAATTTT
1 TGATTTTCAGGGGTTTCTTGATGAATATCTCCAAAGAATTTTTAAAAGAAGATAAGCCTAATTTT
44985 T
66 T
44986 TTAAAAAATC
Statistics
Matches: 308, Mismatches: 33, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
276 18 0.06
277 71 0.23
278 216 0.70
279 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (276 bp):
TGATTTTCAGGGGTTTCTTGATGAATATCTCCAAAGAATTTTTAAAAGAAGATAAGCCTAATTTT
TAGGGGTTCCTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAAGT
CCTTCGGGCCATCAGTAAGTCTTTCAAGAATGATGCTTAAATCCTTCAGGTCATCTATAAAACTT
TTGAGCAAGATGATAAGTCATTCGGGCCAACCATAAGACATTCGAGCACAATTTTTCAAATGAGT
TTTTAGAAACTAAGCC
Found at i:44998 original size:24 final size:25
Alignment explanation
Indices: 44958--45009 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
44948 CTCCATAGAA
44958 TTTTTAAAAGAAGCTAAGCCTAATT
1 TTTTTAAAAGAAGCTAAGCCTAATT
*
44983 TTTTTAAAA-AATCTAAGCCTAATT
1 TTTTTAAAAGAAGCTAAGCCTAATT
45007 TTT
1 TTT
45010 AGGGGTTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (25 bp):
TTTTTAAAAGAAGCTAAGCCTAATT
Found at i:45108 original size:42 final size:41
Alignment explanation
Indices: 45062--45175 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 41
45052 AAAGGTTTCT
* *
45062 TGATGAGTATGTCCTTCGGGCCATC-AGTAAGTCTTTTGAGCA
1 TGATGA-TAAGTCCTTCGGGCCATCTA-TAAGTCTTTCGAGCA
* * * *
45104 TGATGCTTAAATCCTTCGGGTCGTCTATAAGTCTTTCGAGCA
1 TGATG-ATAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCA
* * * *
45146 AGATGATAAGTCTTTCGAGCCATCCATAAG
1 TGATGATAAGTCCTTCGGGCCATCTATAAG
45176 ACCTTCGGGT
Statistics
Matches: 56, Mismatches: 14, Indels: 5
0.75 0.19 0.07
Matches are distributed among these distances:
41 18 0.32
42 37 0.66
43 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (41 bp):
TGATGATAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCA
Found at i:45405 original size:295 final size:298
Alignment explanation
Indices: 44722--45493 Score: 916
Period size: 300 Copynumber: 2.6 Consensus size: 298
44712 GGGTTCCTTG
* *
44722 ATGACAACTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAAGTCCTTCGGGCCATC
1 ATGAAAACTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAATTCCTTCGGGCCATC
* ** ** *
44787 AGTAAGTCTTTCGAGCATGATGCTTAAATCGTTCATGTCATCTATAAAACTTTTGAGCAAGATGA
66 AGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTAGAGCAAGATGA
* *
44852 TAAGTCCTTCGGGCCATCCATAAGACATTCGGGCACAAT-TTTTC-AAATGAGTTTTTAGAAACT
131 TAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCACGATGTTTTCAAAATGAGTTTTTAGAAACT
* *
44915 AAGCCTAATTTTCAGGGGTTTCGTGATGATTATCTCCATAGAATTTTTAAAAGAAGCTAAGCCTA
196 AAGCCTAATTTTCAGGGGTTTCGTGATGATCATCTCCAAAGAATTTTTAAAAGAAGCTAAGCCTA
** * **** **
44980 ATTTTTTTAAAAAATCTAAGCCTAATTTTTAGGGGTTCCTTG
261 A-TTTTTTAAAAAATCT-A-CCT-ATGATGAGCAACTCCTAA
* * * *
45022 ATGACAACTAAGAAACTAAACTTGAATGTCAAAGGTTTCTTGATGAGT-ATGTCCTTCGGGCCAT
1 ATGAAAACTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAAT-TCCTTCGGGCCAT
* * *
45086 CAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCGTCTATAAGTCTTTCGAGCAAGATG
65 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTAGAGCAAGATG
* * * *
45151 ATAAGTCTTTCGAGCCATCCATAAGACCTTCGGGTATGATGTTTTCAAAATGAGTTTTTAGAAAC
130 ATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCACGATGTTTTCAAAATGAGTTTTTAGAAAC
* * ** * * *
45216 TAAGCCTGATTTTTAGGTGGTTTTTTTATGATCATCTCCAAAGACTTTTTAAAGGAAGCTAAGCC
195 TAAGCCTAATTTTCAGG-GGTTTCGTGATGATCATCTCCAAAGAATTTTTAAAAGAAGCTAAGCC
**** *
45281 TAA-TTTTT-AGGGGT-T-CCT-TGATGA-CAACT-GTAA
259 TAATTTTTTAAAAAATCTACCTATGATGAGCAACTCCTAA
* * *
45314 ATGAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAATTCCTTCGGGTC
1 ATGAAA-A--CTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAATTCCTTCGGGCC
* * * *
45379 ATTAGAAAGTCTTTCGAGCATGATGCTTAAATCCTTTGGGTCATCTATAAGTCTTTAGAGAAAGA
63 ATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTAGAGCAAGA
* *
45444 TGATAAGTCCTTCGGGCCATCCATAAGACCTTCGAGCAGGATGTTTTCAA
128 TGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCACGATGTTTTCAA
45494 CATCTCTGAT
Statistics
Matches: 404, Mismatches: 60, Indels: 21
0.83 0.12 0.04
Matches are distributed among these distances:
292 6 0.01
293 2 0.00
294 3 0.01
295 149 0.37
296 5 0.01
299 2 0.00
300 151 0.37
301 10 0.02
302 33 0.08
303 43 0.11
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (298 bp):
ATGAAAACTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAATTCCTTCGGGCCATC
AGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTAGAGCAAGATGA
TAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCACGATGTTTTCAAAATGAGTTTTTAGAAACT
AAGCCTAATTTTCAGGGGTTTCGTGATGATCATCTCCAAAGAATTTTTAAAAGAAGCTAAGCCTA
ATTTTTTAAAAAATCTACCTATGATGAGCAACTCCTAA
Found at i:47458 original size:7 final size:7
Alignment explanation
Indices: 47430--47471 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
47420 TATGTTTTAC
47430 TATTTTT
1 TATTTTT
*
47437 TATTTCT
1 TATTTTT
*
47444 T-TTATT
1 TATTTTT
47450 TATTTTT
1 TATTTTT
*
47457 TATTTGT
1 TATTTTT
47464 TATTTTT
1 TATTTTT
47471 T
1 T
47472 TATTGAGCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (7 bp):
TATTTTT
Found at i:57771 original size:45 final size:45
Alignment explanation
Indices: 57722--57999 Score: 310
Period size: 45 Copynumber: 6.2 Consensus size: 45
57712 AATACTTCAT
* *
57722 TATGCATTTTAAACTCTAACATA-TTTTCTGTTGATAATGCACCCA
1 TATGCA-TTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* * * *
57767 TATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTACCCA
1 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* * * * *
57812 TATACATTTCAAC-CATAGTATATTTTTCTATTGATAATGTACCCA
1 TATGCATTTCAACTC-TAGCATACTTTTCTGTTGATAATGCACCCA
* * * *
57857 TATACATTTTAACTTTAGCATACTTTTCTGTTGATAATGCACCCG
1 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* *
57902 TATGCATTTCAACTCTAGTATACTTTTCTTTTGATAATGCACCCA
1 TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
* * * **
57947 TATGCATTTCAACTATGGCAT-CATTTCATGTCAATAATGCACCCA
1 TATGCATTTCAACTCTAGCATACTTTTC-TGTTGATAATGCACCCA
57992 TATGCATT
1 TATGCATT
58000 ATTCTTTTAC
Statistics
Matches: 198, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
44 17 0.09
45 181 0.91
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.41
Consensus pattern (45 bp):
TATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCA
Found at i:57984 original size:135 final size:134
Alignment explanation
Indices: 57726--57999 Score: 356
Period size: 135 Copynumber: 2.0 Consensus size: 134
57716 CTTCATTATG
57726 CATTTTAAACTCTAACATATTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACT
1 CATTTTAAACTCTAACATATTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACT
* * * *
57791 TTTATGTTGATAATGTACCCATATACATTTCAACCATAGTATATTTTTCTATTGATAATGTACCC
66 TTTATGTTGATAATGCACCCATATACATTTCAACCATAGCATA-TTTTCTATTAATAATGCACCC
57856 ATATA
130 ATATA
* * * *
57861 CATTTT-AACTTTAGCATACTTTTCTGTTGATAATGCACCCGTATGCATTTCAACTCTAGTATAC
1 CATTTTAAACTCTAACATA-TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
* * * * *
57925 TTTTCTTTTGATAATGCACCCATATGCATTTCAACTATGGCATCA-TTTC-ATGTCAATAATGCA
65 TTTTATGTTGATAATGCACCCATATACATTTCAACCATAGCAT-ATTTTCTAT-T-AATAATGCA
*
57988 CCCATATG
127 CCCATATA
57996 CATT
1 CATT
58000 ATTCTTTTAC
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
133 2 0.02
134 15 0.12
135 103 0.85
136 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (134 bp):
CATTTTAAACTCTAACATATTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACT
TTTATGTTGATAATGCACCCATATACATTTCAACCATAGCATATTTTCTATTAATAATGCACCCA
TATA
Found at i:58536 original size:22 final size:21
Alignment explanation
Indices: 58510--58565 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
58500 AATGTTTACA
*
58510 GGTATCGATACCCTAA-TAGG
1 GGTATCGATACCATAAGTAGG
*
58530 GTAGTATCAATACCATAAGTAGG
1 G--GTATCGATACCATAAGTAGG
58553 GGTATCGATACCA
1 GGTATCGATACCA
58566 GAGGGTCAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.03
21 11 0.37
22 13 0.43
23 5 0.17
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (21 bp):
GGTATCGATACCATAAGTAGG
Found at i:59065 original size:79 final size:79
Alignment explanation
Indices: 58970--59133 Score: 215
Period size: 79 Copynumber: 2.1 Consensus size: 79
58960 AAAACGAATG
* *
58970 TAAAAGAATAATGCATATGAATGCATTATGGGCATGAAATGAT-TCCATAGCTGAAATGTATATG
1 TAAAAGAATAATGCATATGAATGCATTATGGGCATGAAAGGATGT-CATAGCTGAAATGCATATG
*
59034 GGT-ACATTGTCAGCA
65 GGTGA-ATTGTCAACA
** * * *
59049 TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGTTGAAATGCATGTGG
1 TAAAAGAATAATGCATATGAATGCATTATGGGCATGAAAGGATGTCATAGCTGAAATGCATATGG
59114 GTGAATTGTCAACA
66 GTGAATTGTCAACA
*
59128 AAAAAG
1 TAAAAG
59134 TATACTATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
79 72 0.97
80 2 0.03
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (79 bp):
TAAAAGAATAATGCATATGAATGCATTATGGGCATGAAAGGATGTCATAGCTGAAATGCATATGG
GTGAATTGTCAACA
Found at i:59148 original size:45 final size:45
Alignment explanation
Indices: 59095--59313 Score: 271
Period size: 45 Copynumber: 4.9 Consensus size: 45
59085 AAAGGATGTC
* * *
59095 ATAGTTGAAATGCATGTGGGTGAATTGTCAACAAAAAAGTATACT
1 ATAGTTGAAATGCATATGGGTGAATTATCAACAGAAAAGTATACT
** * *
59140 ATTTTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCT
1 ATAGTTGAAATGCATATGGGTGAATTATCAACAGAAAAGTATACT
* * *
59185 AAAGTTGAAATGTATATGGGT-ACATTATAAACAGAAAAGTATACT
1 ATAGTTGAAATGCATATGGGTGA-ATTATCAACAGAAAAGTATACT
* * *
59230 ATGGTTGAAATGTATATGGGT-ACATTATCAACATAAAAGTATACT
1 ATAGTTGAAATGCATATGGGTGA-ATTATCAACAGAAAAGTATACT
* *
59275 ATAGTTGAAATGCATATGGGTGCATTATCAATAGAAAAG
1 ATAGTTGAAATGCATATGGGTGAATTATCAACAGAAAAG
59314 ATGTTAGAGT
Statistics
Matches: 149, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
45 149 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.31
Consensus pattern (45 bp):
ATAGTTGAAATGCATATGGGTGAATTATCAACAGAAAAGTATACT
Found at i:59223 original size:90 final size:90
Alignment explanation
Indices: 59058--59313 Score: 302
Period size: 90 Copynumber: 2.8 Consensus size: 90
59048 ATAAAAGAAT
*** * *
59058 AATGCATATGGGTGCATTATTGGCATG-AAAGGATG-TCATAGTTGAAATGCATGTGGGTGA-AT
1 AATGCATATGGGTGCATTATCAACA-GAAAAGTATGCT-ATAGTTGAAATGCATATGGGT-ACAT
* * **
59120 TGTCAACAAAAAAGTATACTATTTTTGA
63 TATCAACAGAAAAGTATACTATGGTTGA
* *
59148 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAAAGTTGAAATGTATATGGGTACATTAT
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTACATTAT
*
59213 AAACAGAAAAGTATACTATGGTTGA
66 CAACAGAAAAGTATACTATGGTTGA
* * * * *
59238 AATGTATATGGGTACATTATCAACATAAAAGTATACTATAGTTGAAATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTACATTAT
*
59303 CAATAGAAAAG
66 CAACAGAAAAG
59314 ATGTTAGAGT
Statistics
Matches: 142, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
89 2 0.01
90 139 0.98
91 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.30
Consensus pattern (90 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTACATTAT
CAACAGAAAAGTATACTATGGTTGA
Found at i:59347 original size:135 final size:134
Alignment explanation
Indices: 59098--59350 Score: 332
Period size: 135 Copynumber: 1.9 Consensus size: 134
59088 GGATGTCATA
* * **
59098 GTTGAAATGCATGTGGGTGAATTGTCAACAAAAAAGTATACTATTTTTGAAATGCATATGGGTGC
1 GTTGAAATGCATATGGGTGAATTATCAACAAAAAAGTATACTATAGTTGAAATGCATATGGGTGC
* * *
59163 ATTATCAACAGAAAAGTATGCTAAAGTTGAAATGTATATGGGTACATTATAAACAGAAAAGTATA
66 ATTATCAACAGAAAAGTATGCTAAAGTTAAAATGCATATGAGTA-ATTATAAACAGAAAAGTATA
59228 CTATG
130 CTATG
* *
59233 GTTGAAATGTATATGGGT-ACATTATCAACATAAAAGTATACTATAGTTGAAATGCATATGGGTG
1 GTTGAAATGCATATGGGTGA-ATTATCAACAAAAAAGTATACTATAGTTGAAATGCATATGGGTG
* * *
59297 CATTATCAATAGAAAAG-ATGTTAGAGTTTAAAATGCATAATGAAGT-ATTATAAA
65 CATTATCAACAGAAAAGTATGCTAAAG-TTAAAATGCAT-ATG-AGTAATTATAAA
59351 TATAAATGGA
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
134 8 0.08
135 89 0.87
136 3 0.03
137 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (134 bp):
GTTGAAATGCATATGGGTGAATTATCAACAAAAAAGTATACTATAGTTGAAATGCATATGGGTGC
ATTATCAACAGAAAAGTATGCTAAAGTTAAAATGCATATGAGTAATTATAAACAGAAAAGTATAC
TATG
Found at i:65376 original size:19 final size:18
Alignment explanation
Indices: 65352--65400 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
65342 AAATATTCAG
65352 AGTGCATCGATGCATGGA
1 AGTGCATCGATGCATGGA
*
65370 TAGTGCATCGGTGCATGGA
1 -AGTGCATCGATGCATGGA
65389 A-TGCATTCGATG
1 AGTGCA-TCGATG
65401 TTCAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 17 0.63
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (18 bp):
AGTGCATCGATGCATGGA
Found at i:65376 original size:65 final size:65
Alignment explanation
Indices: 65243--65402 Score: 225
Period size: 65 Copynumber: 2.5 Consensus size: 65
65233 TGCATCAAGT
* * *
65243 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGATA
* **
65307 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GTGCATCGATGCATGGAT
65371 A
65 A
* *
65372 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
65403 CAATTAATTC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGATA
Found at i:66088 original size:17 final size:17
Alignment explanation
Indices: 66066--66109 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
66056 AATAGTCAAG
*
66066 CATCCAAATATCATAAA
1 CATCCAAATAACATAAA
*
66083 CATCCAAACAAACATAAA
1 CATCCAAA-TAACATAAA
66101 CATCCAAAT
1 CATCCAAAT
66110 CAAAAAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (17 bp):
CATCCAAATAACATAAA
Found at i:66100 original size:18 final size:19
Alignment explanation
Indices: 66077--66113 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
66067 ATCCAAATAT
66077 CATAAACATCCAAA-CAAA
1 CATAAACATCCAAATCAAA
66095 CATAAACATCCAAATCAAA
1 CATAAACATCCAAATCAAA
66114 AAGTTTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (19 bp):
CATAAACATCCAAATCAAA
Found at i:71795 original size:21 final size:19
Alignment explanation
Indices: 71738--71797 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 19
71728 GAAAGTAAAT
**
71738 TTTGCAAATCTAAATTTTA
1 TTTGCAAATCTTTATTTTA
71757 TTT-CAAACTCTTCTATTTTGA
1 TTTGCAAA-TCTT-TATTTT-A
71778 TTTGCAAATCTTTGATTTTA
1 TTTGCAAATCTTT-ATTTTA
71798 CTTTCAAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 4 0.12
19 6 0.18
20 7 0.21
21 13 0.38
22 4 0.12
ACGTcount: A:0.28, C:0.13, G:0.07, T:0.52
Consensus pattern (19 bp):
TTTGCAAATCTTTATTTTA
Found at i:71861 original size:21 final size:21
Alignment explanation
Indices: 71837--71878 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
71827 GAGTTTGTTT
*
71837 TCATTTTTCA-ATTTTGAAACA
1 TCATTTTT-ATATTTTAAAACA
71858 TCATTTTTATATTTTAAAACA
1 TCATTTTTATATTTTAAAACA
71879 ATTTCTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (21 bp):
TCATTTTTATATTTTAAAACA
Found at i:73916 original size:62 final size:63
Alignment explanation
Indices: 73804--73960 Score: 178
Period size: 62 Copynumber: 2.5 Consensus size: 63
73794 GTGCATCAAG
* *
73804 TGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGGTGCATCGATGCATGGCT
1 TGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGGTGCATCGATGCATGGAT
* **
73868 TGTGCAT-GATGCAT-CAATGCATTCGATGTTTTG-AAATATTCAGAGTGCATCGATGCATGGAT
1 TGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAG-GTGCATCGATGCATGGAT
* * * *
73930 AGTGCATCG-TGCATGGAATACATTTGATGTT
1 TGTGCATCGATGCATGAAATGCATTCGATGTT
73961 CAATTAATTC
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
61 7 0.09
62 43 0.54
63 23 0.29
64 7 0.09
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (63 bp):
TGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGGTGCATCGATGCATGGAT
Found at i:73944 original size:18 final size:19
Alignment explanation
Indices: 73911--73946 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
73901 AAATATTCAG
73911 AGTGCATCGATGCATGGAT
1 AGTGCATCGATGCATGGAT
73930 AGTGCATCG-TGCATGGA
1 AGTGCATCGATGCATGGA
73947 ATACATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (19 bp):
AGTGCATCGATGCATGGAT
Found at i:74436 original size:24 final size:23
Alignment explanation
Indices: 74402--74451 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
74392 TTCTAAAGTG
*
74402 GCAGTTTCTAGAAGGTCCAGTCA
1 GCAGTTTCTAGAAGATCCAGTCA
*
74425 GCAGTTTTCTAGAAGATCTAGTCA
1 GCAG-TTTCTAGAAGATCCAGTCA
74449 GCA
1 GCA
74452 TCTACTGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (23 bp):
GCAGTTTCTAGAAGATCCAGTCA
Found at i:79610 original size:33 final size:32
Alignment explanation
Indices: 79569--79630 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
79559 AAATTTGATA
*
79569 TTTATAATAAGTCA-TATCACTTGGTGAATGAG
1 TTTATAATAA-TAAGTATCACTTGGTGAATGAG
79601 TTTATTAATAATAAGTATCACTTGGTGAAT
1 TTTA-TAATAATAAGTATCACTTGGTGAAT
79631 AGACTTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 6 0.22
33 21 0.78
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.40
Consensus pattern (32 bp):
TTTATAATAATAAGTATCACTTGGTGAATGAG
Found at i:85232 original size:21 final size:21
Alignment explanation
Indices: 85207--85254 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
85197 CCTAATATTG
85207 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
85228 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
85249 TAATGT
1 CAATGT
85255 TTGAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:89759 original size:21 final size:21
Alignment explanation
Indices: 89734--89781 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
89724 CCTAATATTG
89734 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
89755 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
89776 TAATGT
1 CAATGT
89782 TTGAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:92333 original size:26 final size:26
Alignment explanation
Indices: 92284--92334 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
92274 TAAAATATAA
*
92284 AAAGTAATAAAACTAGTAATTAAATG
1 AAAGTAATAAAACTAGTAACTAAATG
* * *
92310 AAAGTATTAAAATTAGTGACTAAAT
1 AAAGTAATAAAACTAGTAACTAAAT
92335 TATAACATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.55, C:0.04, G:0.12, T:0.29
Consensus pattern (26 bp):
AAAGTAATAAAACTAGTAACTAAATG
Found at i:93598 original size:3 final size:3
Alignment explanation
Indices: 93590--93683 Score: 106
Period size: 3 Copynumber: 31.7 Consensus size: 3
93580 GGGCCTGAAT
93590 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* * *
93635 TTA TAA -AA TAA TTA TAG TAA TAAA TAA -AA TAA TAA T-A TCAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA T-AA TAA
93679 TAA TA
1 TAA TA
93684 TAAAAACAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
2 8 0.10
3 62 0.79
4 8 0.10
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:94295 original size:123 final size:123
Alignment explanation
Indices: 94042--94739 Score: 1147
Period size: 123 Copynumber: 5.7 Consensus size: 123
94032 TTAAGGCAAA
* * * * *
94042 GTTGAACAAATTCTTCTCACTATGAACTTCTTC-TCCTTCTTCATATGAGTTATTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGA
* *
94106 ACTGTT-TC--GAAAATGTTGATGATGATCTATCTCCTTCTGCGATAGAGTCATGCAAAAG
65 ACT-TTCTCTGGAAAA-GTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAG
* *
94164 GTTTAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
* *
94229 CTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATTGAGTCATGCAAAAG
66 CTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAG
* *
94287 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTGTTCAGATAAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
* *
94352 CTTTCTCTAGAAAAGTTGATGTTGATCTATCTCCTTCTGTGATAGATTCATGCAAAAG
66 CTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAG
*
94410 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTATTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
* *
94475 ATTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTTTGTGATAGAGTCATGCAAAAG
66 CTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAG
94533 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
* *
94598 CTTTCTCTGGAAAAGTTGATGTTGA--TATCTCCTTCTGTGAAAGAGTTATGCAAAAG
66 CTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAG
94654 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
94719 CTTTCTCTGGAAAAGTTGATG
66 CTTTCTCTGGAAAAGTTGATG
94740 CTTTGTTAAT
Statistics
Matches: 542, Mismatches: 30, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
121 116 0.21
122 58 0.11
123 363 0.67
124 5 0.01
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (123 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAA
CTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAG
Found at i:95198 original size:22 final size:22
Alignment explanation
Indices: 95087--95193 Score: 135
Period size: 22 Copynumber: 4.9 Consensus size: 22
95077 AAATCCAATA
* * *
95087 AATCTTTCTTCTTTGAAAAGAG
1 AATCTATCATCTTTGAAGAGAG
95109 AATCTATCATCTTTGAAGAGAG
1 AATCTATCATCTTTGAAGAGAG
* * *
95131 AATTTGTCATCTTTGAAGAGAA
1 AATCTATCATCTTTGAAGAGAG
95153 AATCTATCATCTTTGAAGA-ATG
1 AATCTATCATCTTTGAAGAGA-G
*
95175 TATCTATCATCTTTGAAGA
1 AATCTATCATCTTTGAAGA
95194 ATGTAGATGT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
21 1 0.01
22 73 0.99
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (22 bp):
AATCTATCATCTTTGAAGAGAG
Found at i:95834 original size:18 final size:18
Alignment explanation
Indices: 95811--95848 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
95801 TATATAAAAG
95811 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTCGAA
95829 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTCGAA
95847 AA
1 AA
95849 GATAAACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (18 bp):
AATAAATTGAATTTCGAA
Found at i:96235 original size:22 final size:22
Alignment explanation
Indices: 96193--96238 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
96183 ATCTTGACCC
*
96193 TCATTTTCTTTATTATTTTTTT
1 TCATTTTCTTTATTATGTTTTT
*
96215 TCATTTTTTTTATT-TCGTTTTT
1 TCATTTTCTTTATTAT-GTTTTT
96237 TC
1 TC
96239 TTTCGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (22 bp):
TCATTTTCTTTATTATGTTTTT
Found at i:96249 original size:14 final size:14
Alignment explanation
Indices: 96208--96266 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 14
96198 TTCTTTATTA
*
96208 TTTTT-TTTCATTT
1 TTTTTCTTTCGTTT
*
96221 TTTTTATTTCG--T
1 TTTTTCTTTCGTTT
96233 TTTTTCTTTCGTTT
1 TTTTTCTTTCGTTT
*
96247 TTTTTC-TTC-TTC
1 TTTTTCTTTCGTTT
96259 TTTTTCTT
1 TTTTTCTT
96267 CTTCAAACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 19 0.49
13 9 0.23
14 11 0.28
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.80
Consensus pattern (14 bp):
TTTTTCTTTCGTTT
Found at i:96262 original size:26 final size:26
Alignment explanation
Indices: 96208--96266 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
96198 TTCTTTATTA
*
96208 TTTTT-TTTCATTTTTTTTATTTCGT
1 TTTTTCTTTCATTTTTTTTACTTCGT
* *
96233 TTTTTCTTTCGTTTTTTTT-CTTCTT
1 TTTTTCTTTCATTTTTTTTACTTCGT
96258 CTTTTTCTT
1 -TTTTTCTT
96267 CTTCAAACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.80
Consensus pattern (26 bp):
TTTTTCTTTCATTTTTTTTACTTCGT
Done.