Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009632.1 Hibiscus syriacus cultivar Beakdansim tig00117028_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: 343994
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:1278 original size:8 final size:8
Alignment explanation
Indices: 1265--1305 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1255 CTCATTTTCA
1265 GAGAATTT
1 GAGAATTT
1273 GAGAATTT
1 GAGAATTT
*
1281 -AGAGTTT
1 GAGAATTT
*
1288 GGGAATTT
1 GAGAATTT
1296 GAGAATTT
1 GAGAATTT
1304 GA
1 GA
1306 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:1593 original size:124 final size:126
Alignment explanation
Indices: 1371--1844 Score: 868
Period size: 125 Copynumber: 3.8 Consensus size: 126
1361 CTATAATCGG
*
1371 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATTA
1436 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
1497 TTCACTATTCACGTGAAGGCGCGTTCCCGGGG-CGCGCCTTCCATTATTTCGTCAGAGAATA-TA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
1560 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAG--ATATCAGTACCTACTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
1619 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGTCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
1684 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGTCACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
1745 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGACGC-CCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
1809 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGA
1845 ATAACTTAAA
Statistics
Matches: 338, Mismatches: 6, Indels: 9
0.96 0.02 0.03
Matches are distributed among these distances:
122 48 0.14
123 29 0.09
124 87 0.26
125 91 0.27
126 83 0.25
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:2292 original size:33 final size:34
Alignment explanation
Indices: 2231--2330 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
2221 AAATTTAATG
*
2231 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
2265 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
2298 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
2331 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:2934 original size:21 final size:21
Alignment explanation
Indices: 2846--2939 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
2836 TATGGTATAA
*
2846 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
2867 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
2888 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
2909 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
2930 AACCCTGCGG
1 AACCCTGCGG
2940 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:2969 original size:21 final size:21
Alignment explanation
Indices: 2943--2990 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2933 CCTGCGGAGA
*
2943 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
2964 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
2985 GGGCAT
1 TGGCAT
2991 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:4793 original size:33 final size:32
Alignment explanation
Indices: 4742--4808 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 32
4732 TTAATAATAA
* * * *
4742 AATAATATTTACATAAATATTAATATAAAAAT
1 AATAATATTTAAAAAAATACTAACATAAAAAT
4774 AATAACTATTTAAAAAAATACTAACATAAAAAT
1 AATAA-TATTTAAAAAAATACTAACATAAAAAT
4807 AA
1 AA
4809 ATTTCTTACC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 5 0.17
33 25 0.83
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (32 bp):
AATAATATTTAAAAAAATACTAACATAAAAAT
Found at i:6160 original size:12 final size:12
Alignment explanation
Indices: 6143--6167 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6133 AGAAACAATG
6143 ATTATAATAATT
1 ATTATAATAATT
6155 ATTATAATAATT
1 ATTATAATAATT
6167 A
1 A
6168 CTACATCTAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTATAATAATT
Found at i:8390 original size:31 final size:31
Alignment explanation
Indices: 8355--8422 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
8345 TTGCAATACA
8355 GTCCCCCAACATTCAGTCCATTTGCAAAATG
1 GTCCCCCAACATTCAGTCCATTTGCAAAATG
* * *
8386 GTCCCCCAACATTTAGTCTATTTGCAATATG
1 GTCCCCCAACATTCAGTCCATTTGCAAAATG
8417 GTCCCC
1 GTCCCC
8423 GACGTAACTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.29
Consensus pattern (31 bp):
GTCCCCCAACATTCAGTCCATTTGCAAAATG
Found at i:10101 original size:30 final size:31
Alignment explanation
Indices: 10064--10141 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
10054 CAGTTACGTC
10064 AGGGACCATATTGCAACGGACTAAATGTTGG
1 AGGGACCATATTGCAACGGACTAAATGTTGG
*
10095 -GGGACCATATTACAAACGGACTAAATGTTGG
1 AGGGACCATATTGC-AACGGACTAAATGTTGG
**
10126 AGGGACTGTATTGCAA
1 AGGGACCATATTGCAA
10142 GTTTTAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 12 0.29
31 19 0.46
32 10 0.24
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.23
Consensus pattern (31 bp):
AGGGACCATATTGCAACGGACTAAATGTTGG
Found at i:10970 original size:39 final size:37
Alignment explanation
Indices: 10884--10970 Score: 88
Period size: 39 Copynumber: 2.3 Consensus size: 37
10874 ATCTTTTCAT
* *
10884 TAAATAATTTTATATTTTCAATTTTATAAAAAAAATTA
1 TAAAT-ATTTTATAATTTAAATTTTATAAAAAAAATTA
*
10922 TATAA-ATTTTATGAATTTAAATTCTTTTAAAAGAAAA-TA
1 TA-AATATTTTAT-AATTTAAATT-TTATAAAA-AAAATTA
10961 TAAATATTTT
1 TAAATATTTT
10971 TCAACTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
37 7 0.17
38 12 0.29
39 18 0.44
40 4 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (37 bp):
TAAATATTTTATAATTTAAATTTTATAAAAAAAATTA
Found at i:20172 original size:5 final size:5
Alignment explanation
Indices: 20141--20165 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
20131 GATCTCTTCA
20141 GTTTT GTTTT GTTTT GTTTT GTTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT
20166 TTGTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
GTTTT
Found at i:20627 original size:31 final size:31
Alignment explanation
Indices: 20592--20651 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
20582 TTCATTTTTA
* **
20592 ATTTAATTTTTAATTTTTAAATAAAATATTG
1 ATTTAATCTTTAAAATTTAAATAAAATATTG
*
20623 ATTTAATCTTTAAAATTTAGATAAAATAT
1 ATTTAATCTTTAAAATTTAAATAAAATAT
20652 CAATTTGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (31 bp):
ATTTAATCTTTAAAATTTAAATAAAATATTG
Found at i:22129 original size:30 final size:31
Alignment explanation
Indices: 22056--22129 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
22046 AAGCTGTGGT
22056 AATTAATATTTTACTTAAAATTTAAGAGTTA
1 AATTAATATTTTACTTAAAATTTAAGAGTTA
* *
22087 ATTTGATATTTTACTTAAAATTTAAG-GTTA
1 AATTAATATTTTACTTAAAATTTAAGAGTTA
*
22117 AATTAATTTTTTA
1 AATTAATATTTTA
22130 AAGTTCAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
30 14 0.37
31 24 0.63
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.50
Consensus pattern (31 bp):
AATTAATATTTTACTTAAAATTTAAGAGTTA
Found at i:24953 original size:2 final size:2
Alignment explanation
Indices: 24946--24970 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24936 GAAAGGCAAG
24946 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
24971 GGGACGGACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:33080 original size:21 final size:20
Alignment explanation
Indices: 33041--33078 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33031 TTTATTATAA
33041 TTATTTTAAAAAATTAAATT
1 TTATTTTAAAAAATTAAATT
33061 TTATATTT-AAAAATTAAA
1 TTAT-TTTAAAAAATTAAA
33079 ATATAGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTATTTTAAAAAATTAAATT
Found at i:33154 original size:22 final size:21
Alignment explanation
Indices: 33100--33162 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 21
33090 GTTTTTATTG
33100 ATAATATATTTTAAATAATAAAAA
1 ATAATA-ATTTT-AATAA-AAAAA
33124 ATTAA-AATTTTAATAAAAAATA
1 A-TAATAATTTTAATAAAAAA-A
*
33146 ATAATAATTTTAGTAAA
1 ATAATAATTTTAATAAA
33163 CGGAAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 7 0.20
22 18 0.51
23 5 0.14
24 2 0.06
25 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAATAATTTTAATAAAAAAA
Found at i:33196 original size:28 final size:28
Alignment explanation
Indices: 33138--33196 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
33128 AAATTTTAAT
** * *
33138 AAAAAATAATAATAATTTTAGTAAACGG
1 AAAAAATAATAATAAGGTTAATAAACAG
33166 AAAAAATAATAATTAAGGTTAATAAA-AG
1 AAAAAATAATAA-TAAGGTTAATAAACAG
33194 AAA
1 AAA
33197 CTCTCGCGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (28 bp):
AAAAAATAATAATAAGGTTAATAAACAG
Found at i:35788 original size:37 final size:37
Alignment explanation
Indices: 35716--35789 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
35706 TTATATTTTC
*
35716 AATTTTGTAAAAAAATTATATAAATTTTATGAATTTA
1 AATTTTGTAAAAAAATTATATAAATTTTATCAATTTA
35753 AATTTT-TAAAGAAAA-TATATAAATATTT-TCCAATTTA
1 AATTTTGTAAA-AAAATTATATAAAT-TTTAT-CAATTTA
35790 TTAAAAACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
36 14 0.42
37 19 0.58
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (37 bp):
AATTTTGTAAAAAAATTATATAAATTTTATCAATTTA
Found at i:46839 original size:30 final size:30
Alignment explanation
Indices: 46753--46840 Score: 78
Period size: 31 Copynumber: 3.0 Consensus size: 30
46743 ATATTTCTTT
*
46753 TAATTATT-AAATTCTT-AAA-AATTATAGAA
1 TAATTATTAAAATT-TTGAAATTATTATA-AA
*
46782 TAATTTTTAAAATTTTGAAATTATTATAAA
1 TAATTATTAAAATTTTGAAATTATTATAAA
*
46812 TATATTATTAAATTTATTG-AATT-TTATAA
1 TA-ATTATTAAAATT-TTGAAATTATTATAA
46841 TTTACTGTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
29 9 0.18
30 18 0.36
31 20 0.40
32 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (30 bp):
TAATTATTAAAATTTTGAAATTATTATAAA
Found at i:46844 original size:17 final size:18
Alignment explanation
Indices: 46817--46859 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
46807 ATAAATATAT
*
46817 TATTA-AATTTATTG-AA
1 TATTATAATTTACTGTAA
*
46833 TTTTATAATTTACTGTAA
1 TATTATAATTTACTGTAA
46851 TATTATAAT
1 TATTATAAT
46860 AATTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 4 0.18
17 8 0.36
18 10 0.45
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TATTATAATTTACTGTAA
Found at i:48174 original size:23 final size:23
Alignment explanation
Indices: 48109--48191 Score: 73
Period size: 23 Copynumber: 3.6 Consensus size: 23
48099 TATAAATTTA
*
48109 CACCGAAGTACCACGTAGAATTTG
1 CACCGAAGTGCCACGTAGAA-TTG
* *
48133 TC-CCAAAG-GACCGCGTAGAGA-TG
1 -CACCGAAGTG-CCACGTAGA-ATTG
48156 CACCGAAGTGCCACGTAGAATTG
1 CACCGAAGTGCCACGTAGAATTG
*
48179 CACCGTAGTGCCA
1 CACCGAAGTGCCA
48192 TATAATATGT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
22 2 0.04
23 29 0.62
24 14 0.30
25 2 0.04
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.17
Consensus pattern (23 bp):
CACCGAAGTGCCACGTAGAATTG
Found at i:54876 original size:19 final size:19
Alignment explanation
Indices: 54852--54890 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
54842 AAAAATATTT
54852 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
54871 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
54890 A
1 A
54891 ATGCATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:60287 original size:22 final size:21
Alignment explanation
Indices: 60245--60284 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
60235 GAGTTTGTTT
*
60245 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
60266 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
60285 ACAGTTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:62264 original size:64 final size:64
Alignment explanation
Indices: 62211--62373 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 64
62201 CGGTGCACCA
*
62211 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
62275 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * * *
62340 AGAGTGCATCGGTGCATGGAATGCATTTGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
62374 CAATTAATTC
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 39 0.46
65 45 0.54
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:62345 original size:19 final size:19
Alignment explanation
Indices: 62321--62359 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
62311 GAAAATATTC
62321 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
62340 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
62359 A
1 A
62360 ATGCATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:66142 original size:23 final size:21
Alignment explanation
Indices: 66116--66164 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
66106 ATAATTTATC
66116 TAAAAATGTTATTAAATTATAAT
1 TAAAAATGTTATT--ATTATAAT
* * *
66139 TAAATATTTTATTATTATTAT
1 TAAAAATGTTATTATTATAAT
66160 TAAAA
1 TAAAA
66165 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 11 0.50
23 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TAAAAATGTTATTATTATAAT
Found at i:66155 original size:21 final size:20
Alignment explanation
Indices: 66131--66169 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
66121 ATGTTATTAA
66131 ATTATAATTAAATATTTTATT
1 ATTATAATTAAA-ATTTTATT
*
66152 ATTATTATTAAAATTTTA
1 ATTATAATTAAAATTTTA
66170 AAAATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTATAATTAAAATTTTATT
Found at i:66176 original size:21 final size:21
Alignment explanation
Indices: 66129--66179 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
66119 AAATGTTATT
*
66129 AAATTATAATTAAATATTTTA
1 AAATTATTATTAAATATTTTA
**
66150 TTATTATTATTAAA-ATTTTAA
1 AAATTATTATTAAATATTTT-A
66171 AAATTATTA
1 AAATTATTA
66180 AAAAATCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATTATTATTAAATATTTTA
Found at i:73575 original size:16 final size:17
Alignment explanation
Indices: 73540--73576 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
73530 AATCCTAAAG
73540 AAATATTTAAACCTCTA
1 AAATATTTAAACCTCTA
73557 AAATCATTT-AACC-CTA
1 AAAT-ATTTAAACCTCTA
73573 AAAT
1 AAAT
73577 TATAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 8 0.42
18 4 0.21
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATATTTAAACCTCTA
Found at i:77132 original size:14 final size:14
Alignment explanation
Indices: 77115--77141 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77105 TTTTTTATTT
77115 TTTTGCTTTTTCTG
1 TTTTGCTTTTTCTG
77129 TTTTGCTTTTTCT
1 TTTTGCTTTTTCT
77142 TTTCGAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.11, T:0.74
Consensus pattern (14 bp):
TTTTGCTTTTTCTG
Found at i:80149 original size:21 final size:20
Alignment explanation
Indices: 80123--80220 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
80113 ATCAGTTTCC
80123 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTG
* **
80144 AAAATCGCAATGCGATAGT-
1 AAAATCGCAACGCGATTTTG
** *
80163 ACAAATTCGCATTGCGATTTTCA
1 A-AAA-TCGCAACGCGATTTT-G
* *
80186 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTG
80206 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
80221 ACACATAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 19 0.31
21 38 0.61
22 3 0.05
23 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTG
Found at i:80249 original size:20 final size:20
Alignment explanation
Indices: 80187--80380 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
80177 CGATTTTCAA
* ** *
80187 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
80207 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
80227 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
80247 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
80267 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
80287 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
80307 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
80327 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
80347 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
80368 AAATCGCAACGCG
1 AAATCGCAACGCG
80381 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:80271 original size:60 final size:60
Alignment explanation
Indices: 80187--80380 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
80177 CGATTTTCAA
* ** * *
80187 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
80247 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
80307 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
80368 AAATCGCAACGCG
1 AAATCGCAACGCG
80381 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:80801 original size:33 final size:33
Alignment explanation
Indices: 80762--80832 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
80752 TTCACTTAGA
* *
80762 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
80795 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
80828 TTTCA
1 TTTCA
80833 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:80938 original size:21 final size:20
Alignment explanation
Indices: 80912--81015 Score: 87
Period size: 21 Copynumber: 5.5 Consensus size: 20
80902 TGCAGAAGAG
80912 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
80933 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
80953 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
*
80974 GCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
80988 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
81007 TCGCAACGA
1 TCGCAACGA
81016 CAGAATCGCA
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 2 0.03
19 10 0.15
20 16 0.25
21 25 0.38
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.11
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:80956 original size:20 final size:21
Alignment explanation
Indices: 80910--80988 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
80900 TTTGCAGAAG
*
80910 AGTCGCAACGAGATAAATGAAA
1 AGTCGCAACGAGA-GAATGAAA
*
80932 A-TCGCAACGAGAGAATG-AC
1 AGTCGCAACGAGAGAATGAAA
*
80951 TGTCGCAACGAGAGAAATGAAA
1 AGTCGCAACGAGAG-AATGAAA
80973 AG-CGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
80989 CGCAACGCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 19 0.39
21 26 0.53
22 3 0.06
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (21 bp):
AGTCGCAACGAGAGAATGAAA
Found at i:80969 original size:41 final size:41
Alignment explanation
Indices: 80911--80988 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
80901 TTGCAGAAGA
* *
80911 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
80952 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAAT
80989 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.27, T:0.12
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
Found at i:81004 original size:33 final size:33
Alignment explanation
Indices: 80964--81033 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
80954 CGCAACGAGA
*
80964 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGACAGAATCGCAACGC
*
80997 GAAATGAAAATCGCAACGACAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGACAGAATCGCAACGC
81030 GAAA
1 GAAA
81034 CCAAAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.47, C:0.21, G:0.24, T:0.07
Consensus pattern (33 bp):
GAAATGAAAAGCGCAACGACAGAATCGCAACGC
Found at i:81040 original size:33 final size:33
Alignment explanation
Indices: 80970--81044 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
80960 GAGAGAAATG
* * **
80970 AAAAGCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGACAGAATCGCAACGCGAAACC
81003 AAAATCGCAACGACAGAATCGCAACGCGAAACC
1 AAAATCGCAACGACAGAATCGCAACGCGAAACC
81036 AAAATCGCA
1 AAAATCGCA
81045 TTGCGATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.47, C:0.25, G:0.21, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGACAGAATCGCAACGCGAAACC
Found at i:81043 original size:19 final size:18
Alignment explanation
Indices: 80986--81044 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
80976 GCAACGAGAG
*
80986 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-CAA
*
81005 AATCGCAA--CG--ACAG
1 AATCGCAACGCGAAACAA
81019 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-CAA
81038 AATCGCA
1 AATCGCA
81045 TTGCGATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 9 0.28
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.53
ACGTcount: A:0.46, C:0.27, G:0.19, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAACAA
Found at i:81067 original size:19 final size:19
Alignment explanation
Indices: 81045--81145 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 19
81035 CAAAATCGCA
81045 TTGCGATTTTCATTTCTCG
1 TTGCGATTTTCATTTCTCG
*
81064 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCTCG
81083 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCTCG
* * *
81097 TTGCGATTGTCATCTCGCG
1 TTGCGATTTTCATTTCTCG
81116 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCTCG
81130 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
81146 AACCAAAAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
14 20 0.30
16 5 0.08
17 5 0.08
19 36 0.55
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCTCG
Found at i:81098 original size:33 final size:33
Alignment explanation
Indices: 81059--81145 Score: 156
Period size: 33 Copynumber: 2.6 Consensus size: 33
81049 GATTTTCATT
81059 TCTCGTTGCGATTTTCATTTCGCGTTGCGATTC
1 TCTCGTTGCGATTTTCATTTCGCGTTGCGATTC
* *
81092 TCTCGTTGCGATTGTCATCTCGCGTTGCGATTC
1 TCTCGTTGCGATTTTCATTTCGCGTTGCGATTC
81125 TCTCGTTGCGATTTTCATTTC
1 TCTCGTTGCGATTTTCATTTC
81146 AACCAAAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.09, C:0.25, G:0.21, T:0.45
Consensus pattern (33 bp):
TCTCGTTGCGATTTTCATTTCGCGTTGCGATTC
Found at i:81100 original size:14 final size:14
Alignment explanation
Indices: 81081--81137 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
81071 TTTCATTTCG
81081 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
81095 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
81112 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
81128 CGTTGCGATT
1 CGTTGCGATT
81138 TTCATTTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 18 0.47
15 1 0.03
16 5 0.13
17 5 0.13
18 1 0.03
19 8 0.21
ACGTcount: A:0.09, C:0.26, G:0.25, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:83164 original size:93 final size:93
Alignment explanation
Indices: 82843--83221 Score: 726
Period size: 92 Copynumber: 4.1 Consensus size: 93
82833 TAGATTGCTT
*
82843 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
82908 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
82935 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
83000 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
83027 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
83092 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
83120 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
83185 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
83213 AGTAAATTT
1 AGTAAATTT
83222 ATCCATTCAA
Statistics
Matches: 282, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
91 6 0.02
92 158 0.56
93 118 0.42
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:83192 original size:185 final size:185
Alignment explanation
Indices: 82843--83223 Score: 728
Period size: 185 Copynumber: 2.1 Consensus size: 185
82833 TAGATTGCTT
*
82843 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
82908 TTTGTCTTTGTTTTGTCTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTTGTCTTTGTTTTGTCTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
82973 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG-TTTGTCTTTTGGTTGAA
131 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
83027 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
83092 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTC-TTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
83157 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
130 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
83213 AGTAAATTTAT
1 AGTAAATTTAT
83224 CCATTCAAGT
Statistics
Matches: 192, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
184 80 0.42
185 85 0.44
186 27 0.14
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:83305 original size:19 final size:19
Alignment explanation
Indices: 83265--83393 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
83255 TAGTTTACTT
* *
83265 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
83285 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
83304 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
83323 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
83337 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
* *
83356 TCGCAA--CG--A-TAAGA
1 TCGCAACGCGAAACCAAAA
83370 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
83389 TCGCA
1 TCGCA
83394 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 18 0.20
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 45 0.51
20 13 0.15
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:83344 original size:33 final size:32
Alignment explanation
Indices: 83301--83393 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
83291 CGCGAAACCA
**
83301 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
*
83333 AGAATCGCAACGCGAAACCAAAATCGCAACGAT
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
83366 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
83394 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:83391 original size:52 final size:52
Alignment explanation
Indices: 83265--83393 Score: 138
Period size: 52 Copynumber: 2.5 Consensus size: 52
83255 TAGTTTACTT
** *
83265 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGAGAAA
* * * *
83317 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGATAAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACGAGAA-A
*
83370 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
83394 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.69
53 2 0.03
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGAGAAA
Found at i:83411 original size:19 final size:19
Alignment explanation
Indices: 83389--83523 Score: 130
Period size: 19 Copynumber: 7.6 Consensus size: 19
83379 GAAACCAAAA
*
83389 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
83408 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
83424 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
83441 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
83457 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
83474 TCGCGTTGCGATTTT-AGTT
1 TCGCGTTGCGATTTTCA-TT
*
83493 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
83513 TCGTGTTGCGA
1 TCGCGTTGCGA
83524 AAGTAAACTA
Statistics
Matches: 98, Mismatches: 6, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
14 15 0.15
16 11 0.11
17 11 0.11
18 1 0.01
19 46 0.47
20 14 0.14
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:83430 original size:14 final size:14
Alignment explanation
Indices: 83411--83467 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
83401 TTTCATTTCG
83411 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
83425 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
83442 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
83458 CGTTGCGATT
1 CGTTGCGATT
83468 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:83436 original size:33 final size:33
Alignment explanation
Indices: 83394--83486 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
83384 CAAAATCGCA
*
83394 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
83427 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
83460 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
83487 TTAGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:85469 original size:14 final size:14
Alignment explanation
Indices: 85450--85485 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
85440 ATTGTTTAAT
85450 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
85464 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
85478 TGATTTGT
1 TGATTTGT
85486 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:85616 original size:19 final size:19
Alignment explanation
Indices: 85592--85636 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
85582 AAAATTGACT
85592 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
85611 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
85630 ATCGCAA
1 ATCGCAA
85637 CGAGAGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:87944 original size:12 final size:12
Alignment explanation
Indices: 87927--87951 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87917 TCTTCGGGGA
87927 CTTTTTCTTCTT
1 CTTTTTCTTCTT
87939 CTTTTTCTTCTT
1 CTTTTTCTTCTT
87951 C
1 C
87952 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:88160 original size:24 final size:24
Alignment explanation
Indices: 88126--88172 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
88116 CTGAAACATC
88126 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
88150 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
88173 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:88882 original size:20 final size:20
Alignment explanation
Indices: 88854--89103 Score: 268
Period size: 20 Copynumber: 12.5 Consensus size: 20
88844 AAATTTCAGT
* *
88854 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
88874 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
88894 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
88914 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
88934 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
88954 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
88974 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
88994 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
89014 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
89034 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
89054 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
89074 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
89094 GTTGCGATTT
1 GTTGCGATTT
89104 TGGAAAATCG
Statistics
Matches: 200, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 199 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:89120 original size:21 final size:21
Alignment explanation
Indices: 89090--89172 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
89080 ATTTTCATAT
*
89090 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
89111 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
89132 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
89153 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
89173 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:89163 original size:42 final size:43
Alignment explanation
Indices: 89070--89168 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
89060 ATTTATGTGT
* *
89070 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
89111 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
89153 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
89169 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:90953 original size:14 final size:14
Alignment explanation
Indices: 90934--90984 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
90924 TCGTGAACGA
90934 TCGGTTATGTTCGT
1 TCGGTTATGTTCGT
90948 TCGGTTATGTTCG-
1 TCGGTTATGTTCGT
90961 T---TTATGTTCGT
1 TCGGTTATGTTCGT
90972 TCGGTTATGTTCG
1 TCGGTTATGTTCG
90985 CTTATGTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 9 0.27
11 1 0.03
13 1 0.03
14 22 0.67
ACGTcount: A:0.08, C:0.14, G:0.27, T:0.51
Consensus pattern (14 bp):
TCGGTTATGTTCGT
Found at i:91006 original size:24 final size:24
Alignment explanation
Indices: 90938--90993 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
90928 GAACGATCGG
*
90938 TTATGTTCGTTCGGTTATGTTCGT
1 TTATGTTCGTTCGGTTATGTTCGC
90962 TTATGTTCGTTCGGTTATGTTCGC
1 TTATGTTCGTTCGGTTATGTTCGC
90986 TTATGTTC
1 TTATGTTC
90994 ATTCATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.09, C:0.14, G:0.23, T:0.54
Consensus pattern (24 bp):
TTATGTTCGTTCGGTTATGTTCGC
Found at i:92038 original size:10 final size:10
Alignment explanation
Indices: 92023--92097 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
92013 GGGTCTCCAA
92023 CGTTTATGTT
1 CGTTTATGTT
92033 CGTTTATGTT
1 CGTTTATGTT
92043 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
92054 ATGTTCGTGTT
1 -CGTTTATGTT
92065 CGTTTATGTT
1 CGTTTATGTT
92075 CG----TGTT
1 CGTTTATGTT
92081 CGTTTATGTT
1 CGTTTATGTT
92091 CGTTTAT
1 CGTTTAT
92098 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:92054 original size:16 final size:16
Alignment explanation
Indices: 92029--92093 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
92019 CCAACGTTTA
92029 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
92045 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
92061 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
92077 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
92093 T
1 T
92094 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:92184 original size:16 final size:16
Alignment explanation
Indices: 92163--92193 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
92153 AAAAAATTTT
92163 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
92179 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
92194 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:97838 original size:16 final size:16
Alignment explanation
Indices: 97814--97845 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
97804 AATATATAAA
97814 AAATAATTATAATATT
1 AAATAATTATAATATT
*
97830 AAATCATTATAATATT
1 AAATAATTATAATATT
97846 TTATCGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATAATTATAATATT
Found at i:108519 original size:22 final size:22
Alignment explanation
Indices: 108476--108519 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
108466 AAATTTACAT
*
108476 TCACATAAAATAAAATAAATTG
1 TCACATAAAATAAAACAAATTG
* * *
108498 TCACTTAAAATAACACACATTG
1 TCACATAAAATAAAACAAATTG
108520 CATCGTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (22 bp):
TCACATAAAATAAAACAAATTG
Found at i:110584 original size:3 final size:3
Alignment explanation
Indices: 110576--110640 Score: 64
Period size: 3 Copynumber: 22.3 Consensus size: 3
110566 CAAAAATTTG
* * **
110576 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TGA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
110620 TAA TAA TAA TAA TAA -AA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
110641 GAAAAAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.09
3 46 0.85
4 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:110887 original size:42 final size:42
Alignment explanation
Indices: 110797--111074 Score: 191
Period size: 42 Copynumber: 6.6 Consensus size: 42
110787 TGGTGGGGAC
* **
110797 GACACTGCTCATACGCAATGAAGAG-GTCTGGTCATCTAAGGGT
1 GACACGGCTCATACGTGATGAAGAGAG-CTGGTCATCT-AGGGT
* * *
110840 GACACGGCTCCTACGTGATGAGGACG-GCTGGTTATCTAGGGT
1 GACACGGCTCATACGTGATGAAGA-GAGCTGGTCATCTAGGGT
* *
110882 GACACGGCTCATACGTGATGAAGAGATCTGG---TC-GGGGAAT
1 GACACGGCTCATACGTGATGAAGAGAGCTGGTCATCTAGGG--T
* ** *
110922 GACACGGCTCATACATGATGAAGAGTTCTGGCCATCTAAAGGTGAT
1 GACACGGCTCATACGTGATGAAGAGAGCTGGTCATCT--AGG-G-T
* * * * *
110968 AACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTAGGGT
1 GACACGGCTCATACGTGATGAAGA-GAGCTGGTCATCTAGGGT
* *
111010 GACACGGCTCATACGTGATGAAGAGATCTGG---TC-GGGGAAT
1 GACACGGCTCATACGTGATGAAGAGAGCTGGTCATCTAGGG--T
*
111050 GACACGGCTCATACGTGATAAAGAG
1 GACACGGCTCATACGTGATGAAGAG
111075 TTCTGGCCAT
Statistics
Matches: 192, Mismatches: 28, Indels: 33
0.76 0.11 0.13
Matches are distributed among these distances:
38 6 0.03
39 4 0.02
40 55 0.29
41 2 0.01
42 56 0.29
43 31 0.16
44 5 0.03
46 31 0.16
47 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (42 bp):
GACACGGCTCATACGTGATGAAGAGAGCTGGTCATCTAGGGT
Found at i:110935 original size:40 final size:41
Alignment explanation
Indices: 110791--111080 Score: 170
Period size: 40 Copynumber: 6.9 Consensus size: 41
110781 TTTTGTTGGT
* * ** *
110791 GGGGACGACACTGCTCATACGCAATGAAGAGGTCTGGTCATCTA
1 GGGGATGACACGGCTCATACGTGATGAAGAGATCTGG--ATC-A
* * * *
110835 AGGG-TGACACGGCTCCTACGTGATGAGGACG-GCTGGTTATCTA
1 GGGGATGACACGGCTCATACGTGATGAAGA-GATCTGG--ATC-A
110878 -GGG-TGACACGGCTCATACGTGATGAAGAGATCTGG-TC-
1 GGGGATGACACGGCTCATACGTGATGAAGAGATCTGGATCA
* *
110915 GGGGAATGACACGGCTCATACATGATGAAGAGTTCTGGCCATCTAAA
1 GGGG-ATGACACGGCTCATACGTGATGAAGAGATCTGG--ATC---A
* * * * * *
110962 GGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTA
1 GGGGATGACACGGCTCATACGTGATGAAGA-GATCTGG--ATC-A
111006 -GGG-TGACACGGCTCATACGTGATGAAGAGATCTGG-TC-
1 GGGGATGACACGGCTCATACGTGATGAAGAGATCTGGATCA
* *
111043 GGGGAATGACACGGCTCATACGTGATAAAGAGTTCTGG
1 GGGG-ATGACACGGCTCATACGTGATGAAGAGATCTGG
111081 CCATCTAAAG
Statistics
Matches: 197, Mismatches: 32, Indels: 38
0.74 0.12 0.14
Matches are distributed among these distances:
38 6 0.03
39 4 0.02
40 60 0.30
41 2 0.01
42 55 0.28
43 33 0.17
44 5 0.03
46 28 0.14
47 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.22
Consensus pattern (41 bp):
GGGGATGACACGGCTCATACGTGATGAAGAGATCTGGATCA
Found at i:111005 original size:46 final size:44
Alignment explanation
Indices: 110798--111132 Score: 152
Period size: 40 Copynumber: 7.8 Consensus size: 44
110788 GGTGGGGACG
* ** * *
110798 ACACTGCTCATACGCAATGAAGAG-GTCTGGTCATCTAAGG-G-TG
1 ACACGGCTCATACGTGATGAAGAGAG-CTGGTTATCT-AGGTGATA
* * *
110841 ACACGGCTCCTACGTGATGAGGACG-GCTGGTTATCTAGG-G-TG
1 ACACGGCTCATACGTGATGAAGA-GAGCTGGTTATCTAGGTGATA
* * *
110883 ACACGGCTCATACGTGATGAAGAGATCTGG---TC--GGGGAATG
1 ACACGGCTCATACGTGATGAAGAGAGCTGGTTATCTAGGTG-ATA
* ** **
110923 ACACGGCTCATACATGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCATACGTGATGAAGAGAGCTGGTTATCT--AGGTGATA
* * * *
110969 ACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTAGG-G-TG
1 ACACGGCTCATACGTGATGAAGA-GAGCTGGTTATCTAGGTGATA
* * *
111011 ACACGGCTCATACGTGATGAAGAGATCTGG---TC--GGGGAATG
1 ACACGGCTCATACGTGATGAAGAGAGCTGGTTATCTAGGTG-ATA
* ** **
111051 ACACGGCTCATACGTGATAAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCATACGTGATGAAGAGAGCTGGTTATCT--AGGTGATA
* * *
111097 ACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCT
1 ACACGGCTCATACGTGATGAAGA-GAGCTGGTTATCT
111133 CTAGGGATAA
Statistics
Matches: 231, Mismatches: 36, Indels: 47
0.74 0.11 0.15
Matches are distributed among these distances:
37 4 0.02
38 2 0.01
39 4 0.02
40 60 0.26
41 2 0.01
42 56 0.24
43 32 0.14
44 5 0.02
46 58 0.25
47 8 0.03
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (44 bp):
ACACGGCTCATACGTGATGAAGAGAGCTGGTTATCTAGGTGATA
Found at i:111022 original size:128 final size:128
Alignment explanation
Indices: 110814--111132 Score: 563
Period size: 128 Copynumber: 2.5 Consensus size: 128
110804 CTCATACGCA
* * * *
110814 ATGAAGAGGTCTGGTCATCT-AAGG-G-TGACACGGCTCCTACGTGATGAGGACGGCTGGTTATC
1 ATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATC
110876 TAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACATG
66 TAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACATG
110939 ATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATC
1 ATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATC
*
111004 TAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTG
66 TAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACATG
*
111067 ATAAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATC
1 ATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATC
111132 T
66 T
111133 CTAGGGATAA
Statistics
Matches: 185, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
125 18 0.10
126 4 0.02
127 1 0.01
128 162 0.88
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.24
Consensus pattern (128 bp):
ATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATC
TAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACATG
Found at i:111317 original size:35 final size:35
Alignment explanation
Indices: 111238--111371 Score: 137
Period size: 35 Copynumber: 3.7 Consensus size: 35
111228 GACAAAATTC
* *
111238 GTTTCAAGAGAAAC-GATCTCAAAGATATTAGTTTTTT
1 GTTTCAAGAGAAACAGAT-TCAAAGATGTT--TATTTT
* *
111275 GTTTCAAGGGAAACAGATTCAAAGATGTTTGTTTT
1 GTTTCAAGAGAAACAGATTCAAAGATGTTTATTTT
* **
111310 GTTTCAAGGGAAACAGATTCAAAGATGGTAAATTTT
1 GTTTCAAGAGAAACAGATTCAAAGAT-GTTTATTTT
*
111346 GTTTCCAA-AGAAACAGACTCAAAGAT
1 GTTT-CAAGAGAAACAGATTCAAAGAT
111372 TTTTCTCAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
35 31 0.36
36 26 0.30
37 26 0.30
38 3 0.03
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.32
Consensus pattern (35 bp):
GTTTCAAGAGAAACAGATTCAAAGATGTTTATTTT
Found at i:111654 original size:15 final size:15
Alignment explanation
Indices: 111611--111654 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
111601 AAGATGTTCT
*
111611 TGTTTTAAGAGAAAA
1 TGTTTCAAGAGAAAA
*
111626 TGTTTCAAAAGAAAA
1 TGTTTCAAGAGAAAA
*
111641 TGTTTCAAGTGAAA
1 TGTTTCAAGAGAAA
111655 CGACTCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (15 bp):
TGTTTCAAGAGAAAA
Found at i:112219 original size:67 final size:67
Alignment explanation
Indices: 112114--112447 Score: 554
Period size: 66 Copynumber: 5.1 Consensus size: 67
112104 ATAATTAATT
* * *
112114 TTAAGAGAAACAGAA-TTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTA
1 TTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTA
112178 TC
66 TC
112180 TTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTA
1 TTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTA
112245 TC
66 TC
* *
112247 TTAAGAGAGAC-AATTTTTGTTTTCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTA
1 TTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTA
112311 TC
66 TC
*
112313 TT-A-AGAGACAAAATTTTTGTTTTCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATT
1 TTAAGAGAGACAAAA-TTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATT
112376 ATC
65 ATC
*
112379 TT-A-AGAGACAAAATTTTGTTTACAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTA
1 TTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTA
112442 TC
66 TC
112444 TTAA
1 TTAA
112448 AGATTTTTTT
Statistics
Matches: 257, Mismatches: 7, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
64 6 0.02
65 56 0.22
66 134 0.52
67 61 0.24
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (67 bp):
TTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTA
TC
Found at i:112394 original size:132 final size:130
Alignment explanation
Indices: 112129--112447 Score: 548
Period size: 131 Copynumber: 2.4 Consensus size: 130
112119 AGAAACAGAA
* *
112129 TTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAA
1 TTTGTTTACAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTT-A-AGAGACAAA
*
112194 ATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACA
64 ATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGACA-A
*
112259 ATT
128 AAT
*
112262 TTTGTTTTCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGACAAAAT
1 TTTGTTTACAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGACAAAA-
*
112327 TTTTGTTTTCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGACAAAA
65 TTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGACAAAA
112392 T
130 T
112393 TTTGTTTACAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAA
1 TTTGTTTACAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAA
112448 AGATTTTTTT
Statistics
Matches: 179, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
131 67 0.37
132 61 0.34
133 51 0.28
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (130 bp):
TTTGTTTACAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGACAAAAT
TTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGACAAAAT
Found at i:112625 original size:29 final size:29
Alignment explanation
Indices: 112593--112673 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
112583 TAAACGAAAC
112593 AACTCAAAGATTTTTATTCAAAAGGAACA
1 AACTCAAAGATTTTTATTCAAAAGGAACA
* * *
112622 AACTCAAAGATTTTTTTTTAAGAGGAACA
1 AACTCAAAGATTTTTATTCAAAAGGAACA
*
112651 AACTCAAAGA-TTTTCTTCAAAAG
1 AACTCAAAGATTTTTATTCAAAAG
112674 AAATTGTCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 10 0.22
29 36 0.78
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (29 bp):
AACTCAAAGATTTTTATTCAAAAGGAACA
Found at i:113077 original size:105 final size:105
Alignment explanation
Indices: 112847--113263 Score: 479
Period size: 105 Copynumber: 4.0 Consensus size: 105
112837 CAGCTTTGAA
* * * * * * *
112847 AATCTCAAGTGATATTAATTTTGTTTCAAGT-ACAACAATTTTGAAATTT-TATATTATGAGGGA
1 AATCTCAAGTGAGATTAATTTTGTTTCAAGTGA-AACAAATTCGAAATTTGTATCTCA-AAGGAA
* * * * **
112910 AAATGTATCAAGTGAGACGAAA-----TTTGAAATAAACAAC
64 AAATGTCTCAAGCGAGACGAAATTTGTTTTGAGAGAAATTAC
* * *
112947 AATCTCAAGTGAGATTAATTGTGTTTCATGTGAAGCAAATTCGAAATTTGTATCTCAAAGGAAAA
1 AATCTCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCGAAATTTGTATCTCAAAGGAAAA
* *
113012 ATGTTTCAAGCGATACGAAATTTGTTTTGAGAGAAATTAC
66 ATGTCTCAAGCGAGACGAAATTTGTTTTGAGAGAAATTAC
* *
113052 AATCTCAAGTGAGATTAATTTTGTTTTAAGTGAAACAAATTCAAAATTTGTATCTCAAAGGAAAA
1 AATCTCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCGAAATTTGTATCTCAAAGGAAAA
* * * * *
113117 ATGTCTCAAGCAAGATGAAATGTGTTTTGAAAGAAATAAC
66 ATGTCTCAAGCGAGACGAAATTTGTTTTGAGAGAAATTAC
* *
113157 AATCTCAAGTGAGATTAATTTTGTTTCAAGTGAATCAAATTCGAAATTTGTATCTCAAAGAAAAA
1 AATCTCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCGAAATTTGTATCTCAAAG--GAA
* *
113222 AAATGTCTCAAGCGAGACGAAGTTTATTTTTGAGAGAAATTA
64 AAATGTCTCAAGCGAGACGAAATTT-GTTTTGAGAGAAATTA
113264 TCTCAAGCGA
Statistics
Matches: 267, Mismatches: 40, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
100 64 0.24
101 6 0.02
105 161 0.60
107 23 0.09
108 13 0.05
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.33
Consensus pattern (105 bp):
AATCTCAAGTGAGATTAATTTTGTTTCAAGTGAAACAAATTCGAAATTTGTATCTCAAAGGAAAA
ATGTCTCAAGCGAGACGAAATTTGTTTTGAGAGAAATTAC
Found at i:114866 original size:23 final size:23
Alignment explanation
Indices: 114826--114906 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 23
114816 GTCGAGGGAC
*
114826 TCTTTGTCTTTG-TGCTTTTGTCT
1 TCTTTTTCTTTGCT-CTTTTGTCT
*
114849 TCTTTTTCTTTGCTCTTTTTTCTTT
1 TCTTTTTCTTTGCTCTTTTGTC--T
* * *
114874 GTTTTTTTCTTTGCTCTTCTGTGT
1 -TCTTTTTCTTTGCTCTTTTGTCT
114898 TCTTTTTCT
1 TCTTTTTCT
114907 CTTTTTTCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
23 26 0.55
24 2 0.04
25 1 0.02
26 18 0.38
ACGTcount: A:0.00, C:0.19, G:0.11, T:0.70
Consensus pattern (23 bp):
TCTTTTTCTTTGCTCTTTTGTCT
Found at i:114879 original size:12 final size:12
Alignment explanation
Indices: 114851--114954 Score: 58
Period size: 12 Copynumber: 8.8 Consensus size: 12
114841 TTTTGTCTTC
114851 TTTTTCTTTGCTCT
1 TTTTTCTTTG-T-T
114865 TTTTTCTTTGTT
1 TTTTTCTTTGTT
114877 TTTTTCTTTG--
1 TTTTTCTTTGTT
* * *
114887 CTCTTCTGTGTT
1 TTTTTCTTTGTT
*
114899 CTTTTTC--T-CT
1 -TTTTTCTTTGTT
*
114909 TTTTTCTTTG-C
1 TTTTTCTTTGTT
*
114920 TTTTTCTTTGAT
1 TTTTTCTTTGTT
*
114932 TTTTGCTTTGATT
1 TTTTTCTTTG-TT
*
114945 TTTCTCTTTG
1 TTTTTCTTTG
114955 CTCTTTGTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
9 6 0.09
10 8 0.11
11 12 0.17
12 20 0.29
13 14 0.20
14 10 0.14
ACGTcount: A:0.02, C:0.16, G:0.10, T:0.72
Consensus pattern (12 bp):
TTTTTCTTTGTT
Found at i:114904 original size:26 final size:26
Alignment explanation
Indices: 114846--114904 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
114836 TGTGCTTTTG
* * *
114846 TCTTCTTTTTCTTTGCTCTTTTTTCT
1 TCTTTTTTTTCTTTGCTCTTCTGTCT
*
114872 T-TGTTTTTTTCTTTGCTCTTCTGTGT
1 TCT-TTTTTTTCTTTGCTCTTCTGTCT
114898 TCTTTTT
1 TCTTTTT
114905 CTCTTTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
25 1 0.04
26 25 0.93
27 1 0.04
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (26 bp):
TCTTTTTTTTCTTTGCTCTTCTGTCT
Found at i:114923 original size:10 final size:11
Alignment explanation
Indices: 114909--114949 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
114899 CTTTTTCTCT
*
114909 TTTTTCTTTGC
1 TTTTTCTTTGA
114920 TTTTTCTTTGA
1 TTTTTCTTTGA
114931 TTTTTGCTTTGA
1 TTTTT-CTTTGA
114943 TTTTTCT
1 TTTTTCT
114950 CTTTGCTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 17 0.61
12 11 0.39
ACGTcount: A:0.05, C:0.12, G:0.10, T:0.73
Consensus pattern (11 bp):
TTTTTCTTTGA
Found at i:114927 original size:18 final size:19
Alignment explanation
Indices: 114901--114978 Score: 54
Period size: 18 Copynumber: 4.2 Consensus size: 19
114891 TCTGTGTTCT
114901 TTTTCTCTTTTTTCTTTGC
1 TTTTCTCTTTTTTCTTTGC
*
114920 TTTT-TCTTTGATT-TTTGC
1 TTTTCTCTTT-TTTCTTTGC
** *
114938 TTTGAT-TTTTCTCTTTGC
1 TTTTCTCTTTTTTCTTTGC
* * *
114956 TCTTTGTTTTTTTTCTTCGC
1 T-TTTCTCTTTTTTCTTTGC
114976 TTT
1 TTT
114979 AATATGATCT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
17 1 0.02
18 22 0.48
19 12 0.26
20 11 0.24
ACGTcount: A:0.03, C:0.17, G:0.09, T:0.72
Consensus pattern (19 bp):
TTTTCTCTTTTTTCTTTGC
Found at i:114947 original size:43 final size:43
Alignment explanation
Indices: 114861--114967 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 43
114851 TTTTTCTTTG
* *
114861 CTCTTTTTTCTTTGTTTTTTTCTTTGCTCTTCTGTGTTCTTTTT
1 CTCTTTTTTCTTTG-TTTTTTCTTTGATCTTCTGTGTTATTTTT
* *
114905 CTCTTTTTTCTTTGCTTTTTCTTTGAT-TTTTGCT-TTGATTTTT
1 CTCTTTTTTCTTTGTTTTTTCTTTGATCTTCTG-TGTT-ATTTTT
**
114948 CTCTTTGCTCTTTGTTTTTT
1 CTCTTTTTTCTTTGTTTTTT
114968 TTCTTCGCTT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
42 6 0.11
43 34 0.63
44 14 0.26
ACGTcount: A:0.02, C:0.17, G:0.09, T:0.72
Consensus pattern (43 bp):
CTCTTTTTTCTTTGTTTTTTCTTTGATCTTCTGTGTTATTTTT
Found at i:115656 original size:26 final size:26
Alignment explanation
Indices: 115578--115659 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 26
115568 TTTCAAAGTG
115578 GAAAGAATGTTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
**
115604 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
115625 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
115650 GATAGAATGT
1 GAAAGAATGT
115660 CAAAAAATTG
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
20 13 0.30
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 22 0.51
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (26 bp):
GAAAGAATGTTTCAAGGTCTCAAAGA
Found at i:115658 original size:46 final size:45
Alignment explanation
Indices: 115566--115659 Score: 134
Period size: 46 Copynumber: 2.1 Consensus size: 45
115556 ATAAATACAG
* * *
115566 TGTTTCAAAGTGGAAAGAATGTTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAAGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
* *
115611 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAAGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
115657 TGT
1 TGT
115660 CAAAAAATTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 10 0.23
46 33 0.77
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.27
Consensus pattern (45 bp):
TGTTTCAAAGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:119487 original size:22 final size:22
Alignment explanation
Indices: 119444--119487 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
119434 AAATTTACAT
*
119444 TCACATAAAATAAAATAAATTG
1 TCACATAAAATAAAACAAATTG
* * *
119466 TCACTTAAAATAACACACATTG
1 TCACATAAAATAAAACAAATTG
119488 CATCGTTTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (22 bp):
TCACATAAAATAAAACAAATTG
Found at i:121591 original size:3 final size:3
Alignment explanation
Indices: 121583--121621 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
121573 TAAGATGACG
121583 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
121622 CGAAGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:123983 original size:17 final size:17
Alignment explanation
Indices: 123963--123996 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
123953 AAAAAATTAA
123963 TTAAATAAAATAAATAC
1 TTAAATAAAATAAATAC
*
123980 TTAAATAAATTAAATAC
1 TTAAATAAAATAAATAC
123997 AATATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAAATAAAATAAATAC
Found at i:123983 original size:21 final size:19
Alignment explanation
Indices: 123958--124016 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 19
123948 CTGCAAAAAA
123958 ATTAATTAAATAAAATAAAT
1 ATTAA-TAAATAAAATAAAT
*
123978 ACTTAAATAAATTAAATACAAT
1 A-TT-AATAAATAAAATA-AAT
*
124000 ATTAA-AAATATAATAAA
1 ATTAATAAATAAAATAAA
124017 ATATACCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 2 0.06
19 8 0.24
20 3 0.09
21 14 0.42
22 6 0.18
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTAATAAATAAAATAAAT
Found at i:129839 original size:22 final size:23
Alignment explanation
Indices: 129818--129859 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
129808 TTTAATATAT
*
129818 TTCCA-CTTT-CACTCTACCATA
1 TTCCATCTTTCCACTCAACCATA
129839 TTCCATCTTTCCACTCAACCA
1 TTCCATCTTTCCACTCAACCA
129860 AGCACACCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 4 0.22
23 9 0.50
ACGTcount: A:0.24, C:0.40, G:0.00, T:0.36
Consensus pattern (23 bp):
TTCCATCTTTCCACTCAACCATA
Found at i:130206 original size:3 final size:3
Alignment explanation
Indices: 130198--130265 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
130188 ACAAAACGAA
130198 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
130246 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
130266 GCATTAGTAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:130276 original size:3 final size:3
Alignment explanation
Indices: 130270--130314 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
130260 TAATAAGCAT
* * *
130270 TAG TAG TAG TAG TAG TAG TAG TAG TAG AAG TAG AAG TAG GAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
130315 AAGAAGAAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.27
Consensus pattern (3 bp):
TAG
Found at i:130315 original size:12 final size:12
Alignment explanation
Indices: 130274--130329 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
130264 AAGCATTAGT
* *
130274 AGTAGTAGTAGT
1 AGTAGAAGTAGA
*
130286 AGTAGTAGTAGA
1 AGTAGAAGTAGA
*
130298 AGTAGAAGTAGG
1 AGTAGAAGTAGA
*
130310 AGTAGAAGAAGA
1 AGTAGAAGTAGA
*
130322 AGAAGAAG
1 AGTAGAAG
130330 CTTTACATGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.46, C:0.00, G:0.36, T:0.18
Consensus pattern (12 bp):
AGTAGAAGTAGA
Found at i:130858 original size:24 final size:25
Alignment explanation
Indices: 130811--130858 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
130801 ATCAAATATT
* *
130811 TTAAGTAAAACATATTTATTAAAAA
1 TTAAGTAAAACATATTAATCAAAAA
*
130836 TTAATTAAAA-ATATTAATCAAAA
1 TTAAGTAAAACATATTAATCAAAA
130859 TTATTTACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (25 bp):
TTAAGTAAAACATATTAATCAAAAA
Found at i:157349 original size:23 final size:23
Alignment explanation
Indices: 157315--157387 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
157305 ACATATTATA
*
157315 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
157338 TGGCACTTCGGTGTATTTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
157361 CGGTC-CTTCGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-C-AATTCTACG
157385 TGG
1 TGG
157388 AATTTTGGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.03
23 28 0.70
24 11 0.28
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:161372 original size:14 final size:14
Alignment explanation
Indices: 161373--161432 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
161363 AATAATGATT
*
161373 TAATGATTT-ACTAC
1 TAATGATTTGA-TAA
*
161387 TAATGATTTAATAA
1 TAATGATTTGATAA
**
161401 TAATGATTTGATTG
1 TAATGATTTGATAA
161415 TAATGATTTGATAA
1 TAATGATTTGATAA
161429 TAAT
1 TAAT
161433 TACAACTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 38 0.97
15 1 0.03
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (14 bp):
TAATGATTTGATAA
Found at i:161381 original size:22 final size:22
Alignment explanation
Indices: 161353--161398 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
161343 GTGTAATGAT
*
161353 ATGATTTATTAATAATGATTTA
1 ATGATTTACTAATAATGATTTA
*
161375 ATGATTTACTACTAATGATTTA
1 ATGATTTACTAATAATGATTTA
161397 AT
1 AT
161399 AATAATGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (22 bp):
ATGATTTACTAATAATGATTTA
Found at i:161408 original size:28 final size:28
Alignment explanation
Indices: 161373--161432 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
161363 AATAATGATT
161373 TAATGATTT-ACTACTAATGATTTAATAA
1 TAATGATTTGA-TACTAATGATTTAATAA
** *
161401 TAATGATTTGATTGTAATGATTTGATAA
1 TAATGATTTGATACTAATGATTTAATAA
161429 TAAT
1 TAAT
161433 TACAACTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (28 bp):
TAATGATTTGATACTAATGATTTAATAA
Found at i:161624 original size:41 final size:43
Alignment explanation
Indices: 161536--161624 Score: 112
Period size: 41 Copynumber: 2.1 Consensus size: 43
161526 AACAATTAAC
* * **
161536 TATTAATTTATTAATTTACACAAAAATAATATATGAATTAGCA
1 TATTAATCTATTAATTTAAACAAAAATAATATATGAATTAAAA
*
161579 -ATTAATCTA-TAATTTAAACAAGAATAATATATGAA-TAAAA
1 TATTAATCTATTAATTTAAACAAAAATAATATATGAATTAAAA
161619 TATTAA
1 TATTAA
161625 AACCAATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 3 0.08
41 29 0.73
42 8 0.20
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (43 bp):
TATTAATCTATTAATTTAAACAAAAATAATATATGAATTAAAA
Found at i:164019 original size:8 final size:8
Alignment explanation
Indices: 164008--164050 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
163998 AGTTATTATT
164008 TAATTAAA
1 TAATTAAA
164016 TAATTAAA
1 TAATTAAA
164024 TAATTAAA
1 TAATTAAA
*
164032 -AATTGAAC
1 TAATT-AAA
*
164040 TAAATAAA
1 TAATTAAA
164048 TAA
1 TAA
164051 ACAAAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 4 0.13
8 23 0.77
9 3 0.10
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (8 bp):
TAATTAAA
Found at i:165569 original size:21 final size:21
Alignment explanation
Indices: 165528--165570 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
165518 TTTTGGGTTG
*
165528 TGTGCATCGATGCATGTTCAA
1 TGTGCATCGATGCATGCTCAA
*
165549 TGTGTATCGATGCACT-CTCAA
1 TGTGCATCGATGCA-TGCTCAA
165570 T
1 T
165571 TAAAGAAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (21 bp):
TGTGCATCGATGCATGCTCAA
Found at i:166563 original size:15 final size:14
Alignment explanation
Indices: 166545--166592 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
166535 ATCATATGAA
*
166545 ATGTGATAAAGAGCT
1 ATGTGA-AAAGAACT
166560 ATGTG-AAAGAACT
1 ATGTGAAAAGAACT
*
166573 ATGTGAAAGGAA-T
1 ATGTGAAAAGAACT
166586 ATGTGAA
1 ATGTGAA
166593 TGTGTAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 20 0.67
14 5 0.17
15 5 0.17
ACGTcount: A:0.44, C:0.04, G:0.27, T:0.25
Consensus pattern (14 bp):
ATGTGAAAAGAACT
Found at i:166574 original size:13 final size:13
Alignment explanation
Indices: 166552--166592 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
166542 GAAATGTGAT
*
166552 AAAGAGCTATGTG
1 AAAGAACTATGTG
166565 AAAGAACTATGTG
1 AAAGAACTATGTG
166578 AAAGGAA-TATGTG
1 AAA-GAACTATGTG
166591 AA
1 AA
166593 TGTGTAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 23 0.88
14 3 0.12
ACGTcount: A:0.46, C:0.05, G:0.27, T:0.22
Consensus pattern (13 bp):
AAAGAACTATGTG
Found at i:168525 original size:113 final size:111
Alignment explanation
Indices: 168310--168544 Score: 344
Period size: 113 Copynumber: 2.1 Consensus size: 111
168300 GAAGAAGCCG
* * **
168310 AGAAATTCCACTTCAAGCATGCATGATTCCACACCTGCGAAATCTGCTCACGTCCAGGCCCTTAT
1 AGAAATCCCACTTCAAGCATACATGATTCCACACCTGCGAAATCTGCTCACGTCCAGGCCCCCAT
* **
168375 ACAAGAAGACGTCGAGAAATCTGTCCCCACATGCAAGAAGACGTCA
66 ACAAGAAGACGCCGAGAAATCTGTCCCCACATGCAAGAAGACACCA
* *
168421 AGAAATCCCACTTCAAGCATACATGATTCCCACGCCTGCGAAATCTGCTCATGTCCAGGCCCCCC
1 AGAAATCCCACTTCAAGCATACATGATT-CCACACCTGCGAAATCTGCTCACGTCCAGG-CCCCC
* * *
168486 ATTCAAGAAGACGCCGAGAAATCTGTCCTCACATGCAAGAAGACACCT
64 ATACAAGAAGACGCCGAGAAATCTGTCCCCACATGCAAGAAGACACCA
168534 AGAAATCCCAC
1 AGAAATCCCAC
168545 ATGCATCATG
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
111 26 0.24
112 28 0.25
113 56 0.51
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (111 bp):
AGAAATCCCACTTCAAGCATACATGATTCCACACCTGCGAAATCTGCTCACGTCCAGGCCCCCAT
ACAAGAAGACGCCGAGAAATCTGTCCCCACATGCAAGAAGACACCA
Found at i:171872 original size:21 final size:20
Alignment explanation
Indices: 171834--171872 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
171824 AAAGATTAAA
*
171834 ATATTATTTTTAATATTTAT
1 ATATTATTTTTAAAATTTAT
*
171854 ATATTTTTATTTAAAATTT
1 ATATTATT-TTTAAAATTT
171873 TCTGTCCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATATTATTTTTAAAATTTAT
Found at i:172449 original size:30 final size:30
Alignment explanation
Indices: 172413--172471 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
172403 CCCAGCAGCT
*
172413 GCTATTTACTAGCCAACAACAATAACAACC
1 GCTATTTACTAGCCAACAACAACAACAACC
172443 GCTATTTACTAGCCAACAACAACAACAAC
1 GCTATTTACTAGCCAACAACAACAACAAC
172472 AGCCGCAGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.44, C:0.31, G:0.07, T:0.19
Consensus pattern (30 bp):
GCTATTTACTAGCCAACAACAACAACAACC
Found at i:178529 original size:2 final size:2
Alignment explanation
Indices: 178522--178580 Score: 70
Period size: 2 Copynumber: 30.5 Consensus size: 2
178512 AGGTAAGTTA
* *
178522 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT GT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
178563 AT AT GA- AT AT AT A- AT AT A
1 AT AT -AT AT AT AT AT AT AT A
178581 ATAGCTGGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
1 3 0.06
2 45 0.92
3 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:182653 original size:23 final size:25
Alignment explanation
Indices: 182612--182666 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 25
182602 CAAAAATTAT
182612 AATATTAATTAATTAATTTTA-AAA
1 AATATTAATTAATTAATTTTATAAA
* *
182636 AATATTTA-TAATTTATTTTATAAA
1 AATATTAATTAATTAATTTTATAAA
182660 AA-ATTAA
1 AATATTAA
182667 AAGAGAGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATATTAATTAATTAATTTTATAAA
Found at i:187119 original size:11 final size:11
Alignment explanation
Indices: 187105--187134 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
187095 TTTCTGAATT
187105 TTTTAATAAAA
1 TTTTAATAAAA
187116 TTTTAATAAAA
1 TTTTAATAAAA
187127 TTTTAATA
1 TTTTAATA
187135 TATGCATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTTAATAAAA
Found at i:188295 original size:29 final size:29
Alignment explanation
Indices: 188253--188332 Score: 151
Period size: 29 Copynumber: 2.8 Consensus size: 29
188243 CACCTAACTA
188253 AATTGATGTAAGCAATGTCATCTTCATCT
1 AATTGATGTAAGCAATGTCATCTTCATCT
188282 AATTGATGTAAGCAATGTCATCTTCATCT
1 AATTGATGTAAGCAATGTCATCTTCATCT
*
188311 AATTGATGTAAGCAATGACATC
1 AATTGATGTAAGCAATGTCATC
188333 AATTTAGTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (29 bp):
AATTGATGTAAGCAATGTCATCTTCATCT
Found at i:198227 original size:32 final size:32
Alignment explanation
Indices: 198171--198231 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
198161 GATTTATATT
*
198171 TATATGTATGTATATATTGTATTTGTTGTTTG
1 TATATGTATGTATATATTGAATTTGTTGTTTG
*
198203 TATATGTATGTATGT-TATGAATTTGTTGT
1 TATATGTATGTATATAT-TGAATTTGTTGT
198232 GACAGTATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 1 0.04
32 25 0.96
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (32 bp):
TATATGTATGTATATATTGAATTTGTTGTTTG
Found at i:199162 original size:16 final size:18
Alignment explanation
Indices: 199127--199165 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
199117 ACTAGGCTAT
*
199127 TATATATATGTTGATTTA
1 TATATATATGTTGATGTA
199145 TATATATATG-T-ATGTA
1 TATATATATGTTGATGTA
199161 TATAT
1 TATAT
199166 TGTATTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 1 0.05
18 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (18 bp):
TATATATATGTTGATGTA
Found at i:199185 original size:32 final size:32
Alignment explanation
Indices: 199149--199215 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
199139 GATTTATATA
* *
199149 TATATGTATGTATA-TATTGTATTTGTTGTTTG
1 TATATGTATGTATATTA-TGAATTTATTGTTTG
*
199181 TATATGTATGTATGTTATGAATTTATTGTTTG
1 TATATGTATGTATATTATGAATTTATTGTTTG
199213 TAT
1 TAT
199216 GTTATGAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 29 0.94
33 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (32 bp):
TATATGTATGTATATTATGAATTTATTGTTTG
Found at i:199215 original size:22 final size:22
Alignment explanation
Indices: 199189--199269 Score: 128
Period size: 22 Copynumber: 3.7 Consensus size: 22
199179 TGTATATGTA
*
199189 TGTATGTTATGAATTTATTGTT
1 TGTATGTTATGAATTTACTGTT
199211 TGTATGTTATGAATTTACTGTT
1 TGTATGTTATGAATTTACTGTT
*
199233 TGTATGTTATGAATTTGCTGTT
1 TGTATGTTATGAATTTACTGTT
*
199255 TG-ATGTTATGTATTT
1 TGTATGTTATGAATTT
199270 GATGTGTATG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 12 0.21
22 44 0.79
ACGTcount: A:0.21, C:0.02, G:0.20, T:0.57
Consensus pattern (22 bp):
TGTATGTTATGAATTTACTGTT
Found at i:199217 original size:26 final size:24
Alignment explanation
Indices: 199185--199279 Score: 98
Period size: 22 Copynumber: 4.2 Consensus size: 24
199175 TGTTTGTATA
199185 TGTATGTATGTTATGAATTTA-T-
1 TGTATGTATGTTATGAATTTACTG
*
199207 TGTTTGTATGTTATGAATTTACTG
1 TGTATGTATGTTATGAATTTACTG
*
199231 T-T-TGTATGTTATGAATTTGCTG
1 TGTATGTATGTTATGAATTTACTG
*
199253 T-T-TG-ATGTTATGTATTTGA-TG
1 TGTATGTATGTTATGAATTT-ACTG
199274 TGTATG
1 TGTATG
199280 CTGATTTGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
21 15 0.23
22 44 0.69
23 4 0.06
24 1 0.02
ACGTcount: A:0.21, C:0.02, G:0.22, T:0.55
Consensus pattern (24 bp):
TGTATGTATGTTATGAATTTACTG
Found at i:200406 original size:27 final size:27
Alignment explanation
Indices: 200376--200473 Score: 99
Period size: 27 Copynumber: 3.5 Consensus size: 27
200366 TGTTAGAAAT
200376 ATTATATGGTTTGTCAATGTTTAAAAC
1 ATTATATGGTTTGTCAATGTTTAAAAC
** *
200403 ATTATATGGTTTATGGTTTATG-TTAGAAAT
1 ATTATATGG-TT-T-GTCAATGTTTA-AAAC
* *
200433 ATTATATGGTTTGTCGATGTTCAAAAC
1 ATTATATGGTTTGTCAATGTTTAAAAC
*
200460 ATTATATAGTTTGT
1 ATTATATGGTTTGT
200474 GGTCTATGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
27 30 0.52
28 5 0.09
29 6 0.10
30 17 0.29
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.47
Consensus pattern (27 bp):
ATTATATGGTTTGTCAATGTTTAAAAC
Found at i:200434 original size:57 final size:57
Alignment explanation
Indices: 200346--200503 Score: 262
Period size: 57 Copynumber: 2.8 Consensus size: 57
200336 TGTAAGAAAT
* *
200346 ATTATATGGGTTATGGTCTATGTTAGAAATATTATATGGTTTGTCAATGTTTAAAAC
1 ATTATATGGTTTATGGTCTATGTTAGAAATATTATATGGTTTGTCAATGTTCAAAAC
* *
200403 ATTATATGGTTTATGGTTTATGTTAGAAATATTATATGGTTTGTCGATGTTCAAAAC
1 ATTATATGGTTTATGGTCTATGTTAGAAATATTATATGGTTTGTCAATGTTCAAAAC
* *
200460 ATTATATAGTTTGTGGTCTATGTTAGAAATATTATATGGTTTGT
1 ATTATATGGTTTATGGTCTATGTTAGAAATATTATATGGTTTGT
200504 ATTAAAGTTA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 94 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (57 bp):
ATTATATGGTTTATGGTCTATGTTAGAAATATTATATGGTTTGTCAATGTTCAAAAC
Found at i:200503 original size:30 final size:29
Alignment explanation
Indices: 200334--200501 Score: 177
Period size: 30 Copynumber: 5.8 Consensus size: 29
200324 TCTTTTTGAT
* *
200334 TATGTAAGAAATATTATATGGGTTATGGTC
1 TATGTTAGAAATATTATAT-GGTTTTGGTC
200364 TATGTTAGAAATATTATATGG-TTT-GTC
1 TATGTTAGAAATATTATATGGTTTTGGTC
* * *
200391 AATGTTTA-AAACATTATATGGTTTATGGTT
1 TATG-TTAGAAATATTATATGGTTT-TGGTC
200421 TATGTTAGAAATATTATATGG-TTT-GTC
1 TATGTTAGAAATATTATATGGTTTTGGTC
* * *
200448 GATGTTCA-AAACATTATATAGTTTGTGGTC
1 TATGTT-AGAAATATTATATGGTTT-TGGTC
200478 TATGTTAGAAATATTATATGGTTT
1 TATGTTAGAAATATTATATGGTTT
200502 GTATTAAAGT
Statistics
Matches: 114, Mismatches: 14, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
27 36 0.32
28 11 0.10
29 10 0.09
30 57 0.50
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (29 bp):
TATGTTAGAAATATTATATGGTTTTGGTC
Found at i:201858 original size:31 final size:31
Alignment explanation
Indices: 201821--201879 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
201811 AGTTGTATGG
*
201821 ATTATTTAAATTTCAATATTGTAAAACTAAA
1 ATTATTTAAATTTCAATATTGCAAAACTAAA
*
201852 ATTATTTAAATTTCAGTATTGCAAAACT
1 ATTATTTAAATTTCAATATTGCAAAACT
201880 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAATATTGCAAAACTAAA
Found at i:202701 original size:22 final size:21
Alignment explanation
Indices: 202663--202705 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
202653 TTTAAATCTA
*
202663 TTTAATTTTTAATATTAAAAT
1 TTTAATTTTTAAAATTAAAAT
202684 TTTAATTATTTAAAATTAAAAT
1 TTTAATT-TTTAAAATTAAAAT
202706 AATTTAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAATTTTTAAAATTAAAAT
Found at i:207600 original size:23 final size:23
Alignment explanation
Indices: 207574--207618 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
207564 CACCACAGCT
*
207574 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
207597 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
207619 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Done.