Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007971.1 Hibiscus syriacus cultivar Beakdansim tig00110408_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: 346037
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:526 original size:21 final size:21
Alignment explanation
Indices: 500--539 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
490 TCTGCTGAAA
* *
500 CTCCACCTGTTTTGGAGTATG
1 CTCCACCTGCTGTGGAGTATG
521 CTCCACCTGCTGTGGAGTA
1 CTCCACCTGCTGTGGAGTA
540 CTTGTCTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.28, G:0.25, T:0.33
Consensus pattern (21 bp):
CTCCACCTGCTGTGGAGTATG
Found at i:6008 original size:13 final size:13
Alignment explanation
Indices: 5990--6040 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
5980 GGTCACAACC
*
5990 TGACCCGACCTGT
1 TGACCCGACCCGT
6003 TGACCCGACCCGT
1 TGACCCGACCCGT
*
6016 TGACCCGACCCAT
1 TGACCCGACCCGT
6029 TGACCCGACCCG
1 TGACCCGACCCG
6041 ATCTGTTGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.18, C:0.45, G:0.22, T:0.16
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:6039 original size:31 final size:31
Alignment explanation
Indices: 6004--6064 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
5994 CCGACCTGTT
6004 GACCCGACCCGTTGACCCGACCCATTGACCC
1 GACCCGACCCGTTGACCCGACCCATTGACCC
* * * *
6035 GACCCGATCTGTTGACCTGACCCGTTGACC
1 GACCCGACCCGTTGACCCGACCCATTGACC
6065 GGCGTTGACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.18, C:0.43, G:0.21, T:0.18
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCATTGACCC
Found at i:6072 original size:10 final size:10
Alignment explanation
Indices: 6057--6094 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
6047 TGACCTGACC
6057 CGTTGACCGG
1 CGTTGACCGG
*
6067 CGTTGACC-A
1 CGTTGACCGG
6076 CTGTTGACCGG
1 C-GTTGACCGG
6087 CGTTGACC
1 CGTTGACC
6095 ACTGTTGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 1 0.04
10 22 0.92
11 1 0.04
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.24
Consensus pattern (10 bp):
CGTTGACCGG
Found at i:6083 original size:20 final size:20
Alignment explanation
Indices: 6058--6102 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
6048 GACCTGACCC
6058 GTTGACCGGCGTTGACCACT
1 GTTGACCGGCGTTGACCACT
6078 GTTGACCGGCGTTGACCACT
1 GTTGACCGGCGTTGACCACT
6098 GTTGA
1 GTTGA
6103 TCAAAACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.16, C:0.27, G:0.31, T:0.27
Consensus pattern (20 bp):
GTTGACCGGCGTTGACCACT
Found at i:14946 original size:106 final size:106
Alignment explanation
Indices: 14761--15774 Score: 1488
Period size: 106 Copynumber: 9.6 Consensus size: 106
14751 TATTGTTTCA
* * * * *
14761 AGTCCAATATCCTCCGCCGCGAAGTTGAAATTGGCTCTGGAACTGGGATA-TTGTTTGTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGA-AGTTGTTTGTTGACAA
14825 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
14867 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
14932 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
14973 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
15038 CAGCGGTCCCTTCGTCATGAAGTTGAACATGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * ** *
15079 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGGGAAAATGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
15144 CAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
15185 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * *
15250 CAGCGGTACCTTCGTCGTGAAGTTGAACATGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
15291 AGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT--AA----GAAGTTATTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * *
15350 CAGCGGTCCCTTCGTCATGAAGTTGAACATGCGTTGTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
15391 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
15456 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
15497 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
15562 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
15603 AGTCCACTATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AGAAGT-GGAAATTTTTTATTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTTGTTTGTTGACAA
15666 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * ** * * * *
15708 AGTCCAATTTTCTTCGCTGCAAAGTTGAAATAGACTATGAATGAAATTGGAAAGTTGTTTGTTGA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGC--T--CTGAAATTGGGAAGTTGTTTGTTGA
15773 CA
62 CA
15775 GACAACTTTT
Statistics
Matches: 828, Mismatches: 66, Indels: 24
0.90 0.07 0.03
Matches are distributed among these distances:
100 92 0.11
102 2 0.00
104 2 0.00
105 87 0.11
106 625 0.75
107 1 0.00
109 4 0.00
110 15 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:15495 original size:312 final size:312
Alignment explanation
Indices: 14761--15738 Score: 1553
Period size: 312 Copynumber: 3.1 Consensus size: 312
14751 TATTGTTTCA
* * * * *
14761 AGTCCAATATCCTCCGCCGCGAAGTTGAAATTGGCTCTGGAACTGGGATATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTGGGA-ATTGTTTATTGACAAC
14826 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
14891 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
14956 GAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
195 GAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT--AA---AGA
*
15021 AGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACATGCGTTGTCTGG
255 AGTTATTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACATGCGTTGTCTGG
* * * *
15079 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGGGAAAATGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTGGG-AATTGTTTATTGACAAC
*
15144 CAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
15209 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTACCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* *
15274 GAACATGCATTGTCTGGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AAGAAGTTA
195 GAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAGAAGTTA
*
15338 TTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACATGCGTTGTCTAG
260 TTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACATGCGTTGTCTGG
* *
15391 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAAC
1 AGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTGTTTATTGACAAC
15456 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
15521 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* *
15586 GAACTTGCGTTGTCTGGAGTCCACTATCCTTCGCTGTGAAGTTGAAATTGGCTCTAGAAGTGGAA
195 GAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTA-AA---GAA
* * * * *
15651 ATTTTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
256 GTTATTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACATGCGTTGTCTGG
* * *
15708 AGTCCAATTTTCTTCGCTGCAAAGTTGAAAT
1 AGTCCAATATCCTTCGCTGCGAAGTTGAAAT
15739 AGACTATGAA
Statistics
Matches: 613, Mismatches: 40, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
311 2 0.00
312 294 0.48
314 2 0.00
315 1 0.00
317 81 0.13
318 232 0.38
319 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (312 bp):
AGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTATTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAGAAGTTAT
TTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACATGCGTTGTCTGG
Found at i:19558 original size:6 final size:6
Alignment explanation
Indices: 19542--19573 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
19532 TTTAATTGCG
19542 AAAATT AAAAATT AAAATT AAAATT AAAATT A
1 AAAATT -AAAATT AAAATT AAAATT AAAATT A
19574 TTCGATTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:25552 original size:100 final size:101
Alignment explanation
Indices: 25285--25563 Score: 293
Period size: 100 Copynumber: 2.8 Consensus size: 101
25275 TTGTCAACTG
* * * * * * * *
25285 TTTAGATTATATTTTTGAAACCTTTTTTATAATGAAAAAGTTAGACAAAACACA--TT-TATATA
1 TTTACATTATATGTTTGAAACCATTTTTATTATGAAAATGTAACACAAAACA-AGGTTATATGTA
** * *
25347 TAACAATACAAATATCA-CATGTT-TATATTGCCAACCA
65 TAACAATACATGTA-GAGC-TTTTCTATATTGCCAACCA
* *
25384 TTTACATTATATGTTTGAAACCTTTTTTATTATGAAAATGTAAGACAAAACAAGGTTATATGTAT
1 TTTACATTATATGTTTGAAACCATTTTTATTATGAAAATGTAACACAAAACAAGGTTATATGTAT
* * *
25449 AACAATACATGTAGAGCTTTTCTATATTGTCAATCG
66 AACAATACATGTAGAGCTTTTCTATATTGCCAACCA
* * *
25485 TTTACGTTATATGTTT-AAACCATTTTTATTATGAAAATGTAACATAAAA-TAGGTTTATATGTA
1 TTTACATTATATGTTTGAAACCATTTTTATTATGAAAATGTAACACAAAACAAGG-TTATATGTA
25548 TAACAATACATGTAGA
65 TAACAATACATGTAGA
25564 ACCTTTTTAA
Statistics
Matches: 156, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
98 1 0.01
99 50 0.32
100 61 0.39
101 44 0.28
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (101 bp):
TTTACATTATATGTTTGAAACCATTTTTATTATGAAAATGTAACACAAAACAAGGTTATATGTAT
AACAATACATGTAGAGCTTTTCTATATTGCCAACCA
Found at i:25612 original size:100 final size:99
Alignment explanation
Indices: 25408--25613 Score: 238
Period size: 100 Copynumber: 2.1 Consensus size: 99
25398 TTGAAACCTT
* *
25408 TTTTATTATGAAAATGTAAGACAAAACAAGGTTATATGTATAACAATACATGTAGAGCTTTTCTA
1 TTTTATTATGAAAATGTAACACAAAACAAGGTTATATGTATAACAATACATGTAGACCTTTTCTA
* * * * * * *
25473 TATTGTCAATCGTTTACGTTATATGTTTAAACCA
66 AATGGTCAACCGATTACGTTAGAGGATTAAACCA
* *
25507 TTTTTATTATGAAAATGTAACATAAAA-TAGGTTTATATGTATAACAATACATGTAGAACCTTTT
1 -TTTTATTATGAAAATGTAACACAAAACAAGG-TTATATGTATAACAATACATGTAG-ACCTTTT
*
25571 -TAAAATGGTCAACCGATTAGGTTAGAGGCATTAAACC-
63 CT-AAATGGTCAACCGATTACGTTAGAGG-ATTAAACCA
25608 TTTTAT
1 TTTTAT
25614 ATTAGTAAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
99 3 0.03
100 55 0.61
101 25 0.28
102 7 0.08
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (99 bp):
TTTTATTATGAAAATGTAACACAAAACAAGGTTATATGTATAACAATACATGTAGACCTTTTCTA
AATGGTCAACCGATTACGTTAGAGGATTAAACCA
Found at i:30598 original size:190 final size:190
Alignment explanation
Indices: 30275--30654 Score: 715
Period size: 190 Copynumber: 2.0 Consensus size: 190
30265 ACTAGAATCA
30275 AGAGAGAATCAAAGAGAAAGCATCAAACCTCAAGTTTAAGCATTTCAAGCCTATTTTTCATTCAA
1 AGAGAGAATCAAAGAGAAAGCATCAAACCTCAAGTTTAAGCATTTCAAGCCTATTTTTCATTCAA
*
30340 TATTCATTTTACTTTCAAGAACACTTATTGTGCTCAATTGTATTCATTCTTGAGTGTTCTTTTCT
66 TATTCATTTTACTTTCAAGAACACTTATTGTGCTAAATTGTATTCATTCTTGAGTGTTCTTTTCT
30405 TTGTTCTAGAATTGTGCAAACAATCTACCTTGTGAGGATTTCCTTGTAAGTTTGCAAATT
131 TTGTTCTAGAATTGTGCAAACAATCTACCTTGTGAGGATTTCCTTGTAAGTTTGCAAATT
*
30465 AGAGAGAATCAAAGAGAAAGCATCAAACCTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTCAA
1 AGAGAGAATCAAAGAGAAAGCATCAAACCTCAAGTTTAAGCATTTCAAGCCTATTTTTCATTCAA
* * *
30530 TATTCATTTTGCTTTCAAGAATACTTATTGTGCTAAATTTTATTCATTCTTGAGTGTTCTTTTCT
66 TATTCATTTTACTTTCAAGAACACTTATTGTGCTAAATTGTATTCATTCTTGAGTGTTCTTTTCT
30595 TTGTTCTAGAATTGTGCAAACAATCTACCTTGTGAGGATTTCCTTGTAAGTTTGCAAATT
131 TTGTTCTAGAATTGTGCAAACAATCTACCTTGTGAGGATTTCCTTGTAAGTTTGCAAATT
30655 TGTAGTGTTC
Statistics
Matches: 185, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
190 185 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (190 bp):
AGAGAGAATCAAAGAGAAAGCATCAAACCTCAAGTTTAAGCATTTCAAGCCTATTTTTCATTCAA
TATTCATTTTACTTTCAAGAACACTTATTGTGCTAAATTGTATTCATTCTTGAGTGTTCTTTTCT
TTGTTCTAGAATTGTGCAAACAATCTACCTTGTGAGGATTTCCTTGTAAGTTTGCAAATT
Found at i:38831 original size:65 final size:63
Alignment explanation
Indices: 38757--38916 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 63
38747 AATTAAATTG
* *
38757 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCACCGATGCACTCAGGATATTT-TGA
* ** * *
38821 AAGCATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATTGATGCACTCTGGCTATTTTGA
1 AA-CATCGAATGCATTTGATGCATCGATGCA-CAACCATGCACCGATGCACTCAGGATATTTTGA
*
38886 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
38917 TCTTAGTGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 29 0.34
65 50 0.59
66 5 0.06
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCACCGATGCACTCAGGATATTTTGA
Found at i:47089 original size:19 final size:21
Alignment explanation
Indices: 47054--47092 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
47044 AAATAAAAAT
47054 AAAAACAAAGAAAAAACTTTG
1 AAAAACAAAGAAAAAACTTTG
47075 AAAAA-AAAG-AAAAACTTT
1 AAAAACAAAGAAAAAACTTT
47093 TATTAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (21 bp):
AAAAACAAAGAAAAAACTTTG
Found at i:48171 original size:7 final size:6
Alignment explanation
Indices: 48154--48187 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
48144 TTTTTTCACC
48154 ATTTTT ATTTTT ATTTTT ATTTTTT AATTTTT AT
1 ATTTTT ATTTTT ATTTTT A-TTTTT -ATTTTT AT
48188 GGTTTTCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 15 0.58
7 10 0.38
8 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:53057 original size:11 final size:11
Alignment explanation
Indices: 53041--53066 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
53031 AAAGTATGCT
53041 AAAATAAAACA
1 AAAATAAAACA
53052 AAAATAAAACA
1 AAAATAAAACA
53063 AAAA
1 AAAA
53067 AGGTTGCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAATAAAACA
Found at i:54877 original size:634 final size:634
Alignment explanation
Indices: 53669--54933 Score: 2440
Period size: 634 Copynumber: 2.0 Consensus size: 634
53659 CGCCAGCTGT
*
53669 ATTGTTACTCTTGTATCCTTCAATGGCTTATTAGAAAGTAAGTTGTACACATATAAAGGCATAAT
1 ATTGTTACTCTTGTATCCTTCAATGGCTCATTAGAAAGTAAGTTGTACACATATAAAGGCATAAT
53734 ATTTATAGAAGCTCCTAAATCACACATTGCACGTTTAATTCCAACTGAACTAATTTTGTAAGGTA
66 ATTTATAGAAGCTCCTAAATCACACATTGCACGTTTAATTCCAACTGAACTAATTTTGTAAGGTA
*
53799 TAACAGACATACCTTGATCTTTTAATTTTGATGGAAGCGTTCGTTGGAAAACAACAGAAACATGT
131 TAAAAGACATACCTTGATCTTTTAATTTTGATGGAAGCGTTCGTTGGAAAACAACAGAAACATGT
53864 TCTCCCAAATTCACCTTTTCTGTTTCGGTAAGCTTTCTTTTTGTAGTACAAAGGTTTTTAAGAAA
196 TCTCCCAAATTCACCTTTTCTGTTTCGGTAAGCTTTCTTTTTGTAGTACAAAGGTTTTTAAGAAA
53929 TCTAGCGTACCTTTGTATTTTTCGGATTAAGTCAAGGAGGGGTATGTTGATTTCAACCTTTCGAA
261 TCTAGCGTACCTTTGTATTTTTCGGATTAAGTCAAGGAGGGGTATGTTGATTTCAACCTTTCGAA
* *
53994 ATACTACAAGAATTTCATTTTCTTTAGCTTGTTTGTCTCTTTTTACTAACATGGAAGGAAAATGT
326 ATACTACAAGAATTTCATTCTCTTTAGCTTGTTTGTCTCTTTTTACTAACAAGGAAGGAAAATGT
54059 AGCGGAGTTTCATAGGGAGATGGTATTGGATCAGGTTTTGAAACTTTTTTCTTCTTTCTCTGGGG
391 AGCGGAGTTTCATAGGGAGATGGTATTGGATCAGGTTTTGAAACTTTTTTCTTCTTTCTCTGGGG
*
54124 ATTTGCGTCAATCCCATTTTCTTTAGGAGGATCTGCGCCAACTGATTTTTTTTCTACTTGGGATT
456 ATTTGCGTCAATCCCATTTTCTTTAGGAGGATCTGCGCAAACTGATTTTTTTTCTACTTGGGATT
*
54189 TCAGATTTTCTTCATTCCTTTGTGGATTTGCGCCTATATCTTCTGGGATTGGTTGTTCGACAATT
521 TCAGATTTTCTTCATTCCTTTGTGGATTTACGCCTATATCTTCTGGGATTGGTTGTTCGACAATT
54254 GTACCGCTTCAGAGAGTTATGGCGCTAACATTTTCCCATGGGTTCGACA
586 GTACCGCTTCAGAGAGTTATGGCGCTAACATTTTCCCATGGGTTCGACA
54303 ATTGTTACTCTTGTATCCTTCAATGGCTCATTAGAAAGTAAGTTGTACACATATAAAGGCATAAT
1 ATTGTTACTCTTGTATCCTTCAATGGCTCATTAGAAAGTAAGTTGTACACATATAAAGGCATAAT
54368 ATTTATAGAAGCTCCTAAATCACACATTGCACGTTTAATTCCAACTGAACTAATTTTGTAAGGTA
66 ATTTATAGAAGCTCCTAAATCACACATTGCACGTTTAATTCCAACTGAACTAATTTTGTAAGGTA
*
54433 TAAAAGATATACCTTGATCTTTTAATTTTGATGGAAGCGTTCGTTGGAAAACAACAGAAACATGT
131 TAAAAGACATACCTTGATCTTTTAATTTTGATGGAAGCGTTCGTTGGAAAACAACAGAAACATGT
54498 TCTCCCAAATTCACCTTTTCTGTTTCGGTAAGCTTTCTTTTTGTAGTACAAAGGTTTTTAAGAAA
196 TCTCCCAAATTCACCTTTTCTGTTTCGGTAAGCTTTCTTTTTGTAGTACAAAGGTTTTTAAGAAA
*
54563 TCTGGCGTACCTTTGTATTTTTCGGATTAAGTCAAGGAGGGGTATGTTGATTTCAACCTTTCGAA
261 TCTAGCGTACCTTTGTATTTTTCGGATTAAGTCAAGGAGGGGTATGTTGATTTCAACCTTTCGAA
54628 ATACTACAAGAATTTCATTCTCTTTAGCTTGTTTGTCTCTTTTTACTAACAAGGAAGGAAAATGT
326 ATACTACAAGAATTTCATTCTCTTTAGCTTGTTTGTCTCTTTTTACTAACAAGGAAGGAAAATGT
54693 AGCGGAGTTTCATAGGGAGATGGTATTGGATCAGGTTTTGAAACTTTTTTCTTCTTTCTCTGGGG
391 AGCGGAGTTTCATAGGGAGATGGTATTGGATCAGGTTTTGAAACTTTTTTCTTCTTTCTCTGGGG
54758 ATTTGCGTCAATCCCATTTTCTTTAGGAGGATCTGCGCAAACTGATTTTTTTTCTACTTGGGATT
456 ATTTGCGTCAATCCCATTTTCTTTAGGAGGATCTGCGCAAACTGATTTTTTTTCTACTTGGGATT
*
54823 TCAGATTTTCTTCATTCCTTTGTGGATTTACTCCTATATCTTCTGGGATTGGTTGTTCGACAATT
521 TCAGATTTTCTTCATTCCTTTGTGGATTTACGCCTATATCTTCTGGGATTGGTTGTTCGACAATT
*
54888 GTACCGCTTCAGAGAGTTATGGCGCTAACATTTTCCCGTGGGTTCG
586 GTACCGCTTCAGAGAGTTATGGCGCTAACATTTTCCCATGGGTTCG
54934 CCTCTGTTTG
Statistics
Matches: 621, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
634 621 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (634 bp):
ATTGTTACTCTTGTATCCTTCAATGGCTCATTAGAAAGTAAGTTGTACACATATAAAGGCATAAT
ATTTATAGAAGCTCCTAAATCACACATTGCACGTTTAATTCCAACTGAACTAATTTTGTAAGGTA
TAAAAGACATACCTTGATCTTTTAATTTTGATGGAAGCGTTCGTTGGAAAACAACAGAAACATGT
TCTCCCAAATTCACCTTTTCTGTTTCGGTAAGCTTTCTTTTTGTAGTACAAAGGTTTTTAAGAAA
TCTAGCGTACCTTTGTATTTTTCGGATTAAGTCAAGGAGGGGTATGTTGATTTCAACCTTTCGAA
ATACTACAAGAATTTCATTCTCTTTAGCTTGTTTGTCTCTTTTTACTAACAAGGAAGGAAAATGT
AGCGGAGTTTCATAGGGAGATGGTATTGGATCAGGTTTTGAAACTTTTTTCTTCTTTCTCTGGGG
ATTTGCGTCAATCCCATTTTCTTTAGGAGGATCTGCGCAAACTGATTTTTTTTCTACTTGGGATT
TCAGATTTTCTTCATTCCTTTGTGGATTTACGCCTATATCTTCTGGGATTGGTTGTTCGACAATT
GTACCGCTTCAGAGAGTTATGGCGCTAACATTTTCCCATGGGTTCGACA
Found at i:56596 original size:18 final size:18
Alignment explanation
Indices: 56575--56617 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
56565 GTTGTTTTTA
* *
56575 AAATAAAATATAATAATT
1 AAATAAAAGAAAATAATT
56593 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAATAATT
*
56611 AATTAAA
1 AAATAAA
56618 TAAATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
AAATAAAAGAAAATAATT
Found at i:56616 original size:22 final size:23
Alignment explanation
Indices: 56573--56621 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
56563 AAGTTGTTTT
*
56573 TAAAATAAAATATAATAATTAAA
1 TAAAAGAAAATATAATAATTAAA
*
56596 TAAAAGAAAATA-ATTAATTAAA
1 TAAAAGAAAATATAATAATTAAA
56618 TAAA
1 TAAA
56622 TTTAAAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (23 bp):
TAAAAGAAAATATAATAATTAAA
Found at i:57043 original size:23 final size:23
Alignment explanation
Indices: 56993--57044 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
56983 CTTGGCATCT
*
56993 TTAAAAATAAAAAAAAACTTTGA
1 TTAAAAAGAAAAAAAAACTTTGA
* * *
57016 -AAAAAAGAAAGAAAAACTTTTA
1 TTAAAAAGAAAAAAAAACTTTGA
57038 TTAAAAA
1 TTAAAAA
57045 CTACAGAAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (23 bp):
TTAAAAAGAAAAAAAAACTTTGA
Found at i:58079 original size:23 final size:23
Alignment explanation
Indices: 58050--58118 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
58040 GATTAATTTC
*
58050 CAGGAACATTTCGATTCTCAAAT
1 CAGGAACATTTTGATTCTCAAAT
*
58073 CATGAACATTTTGATTCTCAAAT
1 CAGGAACATTTTGATTCTCAAAT
*
58096 CAGGATCATTTTGATTCTCAAAT
1 CAGGAACATTTTGATTCTCAAAT
58119 GGGGCACTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (23 bp):
CAGGAACATTTTGATTCTCAAAT
Found at i:73915 original size:20 final size:21
Alignment explanation
Indices: 73863--73923 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
73853 TTCCCCTGTG
73863 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
*
73886 GGGGGAATCGGTTCCCTC-AT
1 GGGGGAATCGGTTCCCTCAAA
* *
73906 GGGGGTATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
73924 TGCATCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.16, C:0.26, G:0.33, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:75683 original size:21 final size:21
Alignment explanation
Indices: 75644--75683 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
75634 CTCAAATTGA
* *
75644 TTTAATTCTTCTTGCATATCT
1 TTTAATGCTTCTTGAATATCT
*
75665 TTTAATGCTTCTTTAATAT
1 TTTAATGCTTCTTGAATAT
75684 TCTTAGGCTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTAATGCTTCTTGAATATCT
Found at i:79711 original size:19 final size:20
Alignment explanation
Indices: 79674--79711 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
79664 CGTTGAATAG
*
79674 TGGGGGGAATTGGTATCCCC
1 TGGGGGGAATCGGTATCCCC
79694 TGGGGGGAATCGGT-TCCC
1 TGGGGGGAATCGGTATCCC
79712 TCCGAGCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.13, C:0.21, G:0.42, T:0.24
Consensus pattern (20 bp):
TGGGGGGAATCGGTATCCCC
Found at i:81525 original size:33 final size:32
Alignment explanation
Indices: 81488--81577 Score: 99
Period size: 33 Copynumber: 2.8 Consensus size: 32
81478 TGGAGAAATA
* *
81488 AACCAACAACTCATCGAAAAATCTTAACCAATC
1 AACCAACAACTCAT-AAAAAATCTCAACCAATC
* * * *
81521 AACCAACCATTCATTAAAAAATCTCAACTAATG
1 AACCAACAACTCA-TAAAAAATCTCAACCAATC
*
81554 AACCAATAACTCATAAAAAATCTC
1 AACCAACAACTCATAAAAAATCTC
81578 CAGAATTCAA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
32 11 0.23
33 35 0.74
34 1 0.02
ACGTcount: A:0.50, C:0.27, G:0.02, T:0.21
Consensus pattern (32 bp):
AACCAACAACTCATAAAAAATCTCAACCAATC
Found at i:83121 original size:20 final size:18
Alignment explanation
Indices: 83098--83183 Score: 63
Period size: 17 Copynumber: 4.8 Consensus size: 18
83088 GAAAAAACAT
83098 TTAAAAATAAAATAAAATAA
1 TTAAAAATAAAAT-AAAT-A
*
83118 TTAAAACAAAAAATAAATA
1 TTAAAA-ATAAAATAAATA
* * *
83137 TAAAAAATAAAA-CAGTA
1 TTAAAAATAAAATAAATA
*
83154 --AAAAATAACATAAA-A
1 TTAAAAATAAAATAAATA
*
83169 TGAAAAATAAAATAA
1 TTAAAAATAAAATAA
83184 GTACAAGAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
15 10 0.19
16 1 0.02
17 15 0.28
18 5 0.09
19 6 0.11
20 10 0.19
21 6 0.11
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.20
Consensus pattern (18 bp):
TTAAAAATAAAATAAATA
Found at i:83128 original size:25 final size:25
Alignment explanation
Indices: 83100--83150 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
83090 AAAAACATTT
83100 AAAAATAAA-ATAAAATAATTAAAACA
1 AAAAATAAATATAAAA-AA-TAAAACA
83126 AAAAATAAATATAAAAAATAAAACA
1 AAAAATAAATATAAAAAATAAAACA
83151 GTAAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 7 0.29
26 11 0.46
27 6 0.25
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (25 bp):
AAAAATAAATATAAAAAATAAAACA
Found at i:83143 original size:13 final size:12
Alignment explanation
Indices: 83100--83168 Score: 66
Period size: 14 Copynumber: 5.2 Consensus size: 12
83090 AAAAACATTT
83100 AAAAATAAAATA
1 AAAAATAAAATA
*
83112 AAATAATTAAAACA
1 AAA-AA-TAAAATA
83126 AAAAATAAATATA
1 AAAAATAAA-ATA
83139 AAAAATAAAACAGTA
1 AAAAAT-AAA-A-TA
*
83154 AAAAATAACATA
1 AAAAATAAAATA
83166 AAA
1 AAA
83169 TGAAAAATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
12 12 0.25
13 13 0.27
14 15 0.31
15 8 0.17
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.17
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:83155 original size:15 final size:14
Alignment explanation
Indices: 83100--83161 Score: 53
Period size: 15 Copynumber: 4.6 Consensus size: 14
83090 AAAAACATTT
83100 AAAAAT-AAA-ATA
1 AAAAATAAAACATA
83112 AAATAATTAAAAC--A
1 AAA-AA-TAAAACATA
*
83126 AAAAAT-AAATATA
1 AAAAATAAAACATA
83139 AAAAATAAAACAGTA
1 AAAAATAAAACA-TA
83154 AAAAATAA
1 AAAAATAA
83162 CATAAAATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
11 3 0.08
12 4 0.10
13 11 0.28
14 9 0.22
15 13 0.32
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (14 bp):
AAAAATAAAACATA
Found at i:83401 original size:17 final size:17
Alignment explanation
Indices: 83374--83413 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
83364 AAATAGTGAC
83374 TAAAA-TTGAAAATTAA
1 TAAAATTTGAAAATTAA
83390 TAAAATTTGAAAATTAA
1 TAAAATTTGAAAATTAA
83407 TAAAATT
1 TAAAATT
83414 AATATACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
TAAAATTTGAAAATTAA
Found at i:83437 original size:28 final size:26
Alignment explanation
Indices: 83382--83437 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 26
83372 ACTAAAATTG
* *
83382 AAAATTAATAAAATTTGAAAATTAAT
1 AAAATTAATAAAATTTCAAAATAAAT
*
83408 AAAATTAATATACATATTCAAAATAAAT
1 AAAATTAATA-AAAT-TTCAAAATAAAT
83436 AA
1 AA
83438 CAAAGTACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.40
27 3 0.12
28 12 0.48
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (26 bp):
AAAATTAATAAAATTTCAAAATAAAT
Found at i:84740 original size:116 final size:116
Alignment explanation
Indices: 84525--84740 Score: 276
Period size: 116 Copynumber: 1.9 Consensus size: 116
84515 ACCAAGGTTA
* * * *
84525 AACAAATTCTTCTTATTATGAATTTCTTCTCCCTTATCGGATGAGTTCTTCTCATTATGAACTCT
1 AACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACCCT
* *
84590 CCACTGGAAATATTGATCTACCTTCTTCTGTGATGACATCGAAAAAAGTTG
66 CCACTGGAAATATTGATCCACCTTCTTCTATGATGACATCGAAAAAAGTTG
* * *
84641 AACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATTG-GTTCTTCTCATTATGAACCC
1 AACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATCGGA-TGAGTTCTTCTCATTATGAACCC
* * *
84705 TTTCA-TTGAAATATTGGTCCACC-TCATTCTATGATG
65 -TCCACTGGAAATATTGATCCACCTTC-TTCTATGATG
84741 GTTGACTCAA
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
115 2 0.02
116 78 0.92
117 5 0.06
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (116 bp):
AACAAATTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACCCT
CCACTGGAAATATTGATCCACCTTCTTCTATGATGACATCGAAAAAAGTTG
Found at i:85198 original size:136 final size:136
Alignment explanation
Indices: 84885--85198 Score: 384
Period size: 139 Copynumber: 2.3 Consensus size: 136
84875 AGGTTGAACA
* * * * * ** **
84885 AGTTCTTATCATTATGAACACTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCA
1 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCAAGCGAGACGTCACTGATTCA
* *
84950 ACTCCATATGCGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCT
66 A---CATATGCGATGAATCGAGCTAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCT
*
85015 CATCGGATG
128 CATCAGATG
* * * * *
85024 AGTTCTTCTCATTATTAACTCTTCATTTGAAATATTGATCTCTCAAGCGAGACGTCACTGATTCG
1 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCAAGCGAGACGTCACTGATTC-
85089 AA-ATAT-CG-TGAATCGAG-TGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCT
65 AACATATGCGATGAATCGAGCT-A-AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCT
85150 CTATCAGATG
128 C-ATCAGATG
85160 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGAT
1 AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGAT
85199 TGGTTTTCCC
Statistics
Matches: 150, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
133 1 0.01
134 10 0.07
135 41 0.27
136 46 0.31
139 50 0.33
140 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (136 bp):
AGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCAAGCGAGACGTCACTGATTCA
ACATATGCGATGAATCGAGCTAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCAT
CAGATG
Found at i:85788 original size:18 final size:18
Alignment explanation
Indices: 85762--85799 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
85752 TTAGAATTGG
85762 TTGCAAGAGCAGTCTTCA
1 TTGCAAGAGCAGTCTTCA
*
85780 TTGCTAGAGCAGTCTTCA
1 TTGCAAGAGCAGTCTTCA
85798 TT
1 TT
85800 CTTTTCTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (18 bp):
TTGCAAGAGCAGTCTTCA
Found at i:86409 original size:109 final size:109
Alignment explanation
Indices: 86165--86507 Score: 447
Period size: 109 Copynumber: 3.2 Consensus size: 109
86155 TAGAAAGATC
*** * *
86165 AAATAATCAAGAAACTTCCAAAAAATTGGACTTAGTTTCTTTCAAATTCATTTG-AAAGCATCAA
1 AAATAATCAAGAAACTTCC-AAAAATCATACTTAGTTTCTTTAAAATTCATTTGAAAATCATCAA
** * * *
86229 GAAACCCCTGAAAATCAGGCTTAACTTCTTTGAAA-TTCATTTAA
65 GAAACTTCTGAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAA
* * * *
86273 AAATCATCAAGAAACTTCTAAAAATCATACTTAGTTTCTTTAAAACTCATTTGAAAATCGTCAAG
1 AAATAATCAAGAAACTTCCAAAAATCATACTTAGTTTCTTTAAAATTCATTTGAAAATCATCAAG
* * * *
86338 AAACTTCTGAAAATCAGATTTAGTTTCTTTAAAAGCTCGTTTAA
66 AAACTTCTGAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAA
* * *
86382 AAATAATCAAGAAACTTCCAAATATCATACTTAGTTTCTTTAAAATTCAATTAAAAATCATCAAG
1 AAATAATCAAGAAACTTCCAAAAATCATACTTAGTTTCTTTAAAATTCATTTGAAAATCATCAAG
* *
86447 AAACTTCTAAAAATCAGACTTAATTTCCTTGAAAGCTCATTTAA
66 AAACTTCTGAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAA
*
86491 AAATTATCAAGAAACTT
1 AAATAATCAAGAAACTT
86508 TTGAAAATCA
Statistics
Matches: 201, Mismatches: 32, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
107 29 0.14
108 53 0.26
109 119 0.59
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (109 bp):
AAATAATCAAGAAACTTCCAAAAATCATACTTAGTTTCTTTAAAATTCATTTGAAAATCATCAAG
AAACTTCTGAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAA
Found at i:86416 original size:55 final size:54
Alignment explanation
Indices: 86165--86526 Score: 375
Period size: 54 Copynumber: 6.7 Consensus size: 54
86155 TAGAAAGATC
* * ** * * *
86165 AAATAATCAAGAAACTTCCAAAAAATTGGACTTAGTTTCTTTCAAATTCATTT-G
1 AAATCATCAAGAAACTT-CTAAAAATCAGACTTAGTTTCTTTAAAACTCATTTAA
* ** * * ** * *
86219 AAAGCATCAAGAAACCCCTGAAAATCAGGCTTAACTTCTTTGAAATTCATTTAA
1 AAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAACTCATTTAA
* *
86273 AAATCATCAAGAAACTTCTAAAAATCATACTTAGTTTCTTTAAAACTCATTTGA
1 AAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAACTCATTTAA
* * * *
86327 AAATCGTCAAGAAACTTCTGAAAATCAGATTTAGTTTCTTTAAAAGCTCGTTTAA
1 AAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAA-CTCATTTAA
* * * * * *
86382 AAATAATCAAGAAACTTCCAAATATCATACTTAGTTTCTTTAAAATTCAATTAA
1 AAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAACTCATTTAA
* * *
86436 AAATCATCAAGAAACTTCTAAAAATCAGACTTAATTTCCTTGAAAGCTCATTTAA
1 AAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTT-CTTTAAAACTCATTTAA
* * * *
86491 AAATTATCAAGAAACTTTTGAAAATCAGATTTAGTT
1 AAATCATCAAGAAACTTCTAAAAATCAGACTTAGTT
86527 CCTAAAAAAA
Statistics
Matches: 251, Mismatches: 54, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
53 27 0.11
54 135 0.54
55 89 0.35
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (54 bp):
AAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAACTCATTTAA
Found at i:89489 original size:122 final size:119
Alignment explanation
Indices: 89332--89612 Score: 382
Period size: 122 Copynumber: 2.3 Consensus size: 119
89322 ACACTGCTTC
* * *
89332 TTCTCATTGACGAAATCGGGTCAATCTGGAAATAATTTGGTGTTGAAGATGACTCTAATCATCCG
1 TTCTCGTTGAGGAAATCAGGTCAATCTGGAAATAATTTGGTGTTGAAGATGACTCTAATCATCCG
* *
89397 TGTTGAAGAGTTATGATCACTTTCACATGAATTATTTGTTGAAGATGATGTTGTTCA
66 TGTTAAAGAGATATGATCACTTTCACATGAATTATTTGTT---GATGATGTTGTTCA
* * **
89454 TTCTCGTTGAGGAAATCATGTCAATCTGGAAATAATTTAGTGTTGAAGATGACTCTGCTCATCCG
1 TTCTCGTTGAGGAAATCAGGTCAATCTGGAAATAATTTGGTGTTGAAGATGACTCTAATCATCCG
* * * * * *
89519 TTTTAAAGAGATCTGGTCTCTTTCAGATGAATTGTTTGTTGATGATGTTGTTCA
66 TGTTAAAGAGATATGATCACTTTCACATGAATTATTTGTTGATGATGTTGTTCA
* *
89573 TTCTCGTTGAGGAAATTAGGTCATTCTGGAAATAATTTGG
1 TTCTCGTTGAGGAAATCAGGTCAATCTGGAAATAATTTGG
89613 AGACAAAATG
Statistics
Matches: 140, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
119 50 0.36
122 90 0.64
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (119 bp):
TTCTCGTTGAGGAAATCAGGTCAATCTGGAAATAATTTGGTGTTGAAGATGACTCTAATCATCCG
TGTTAAAGAGATATGATCACTTTCACATGAATTATTTGTTGATGATGTTGTTCA
Found at i:89754 original size:61 final size:61
Alignment explanation
Indices: 89676--89814 Score: 226
Period size: 61 Copynumber: 2.3 Consensus size: 61
89666 GCTCCTTCGC
* *
89676 GTTGAGGAGATCGGGTCAAT-TTGGAAATAATTTGGTGTTGAATATGACACTACTCATCTAT
1 GTTGAAGAGATCAGGTCAATCTT-GAAATAATTTGGTGTTGAATATGACACTACTCATCTAT
*
89737 GTTGAAGAGATCAGGTCAATCTTGAAATAATTTGGTGTTGAATATGACACTTCTCATCTAT
1 GTTGAAGAGATCAGGTCAATCTTGAAATAATTTGGTGTTGAATATGACACTACTCATCTAT
*
89798 GTTGAAGAGATCTGGTC
1 GTTGAAGAGATCAGGTC
89815 GCTTTGAGGT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 71 0.97
62 2 0.03
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (61 bp):
GTTGAAGAGATCAGGTCAATCTTGAAATAATTTGGTGTTGAATATGACACTACTCATCTAT
Found at i:91155 original size:12 final size:12
Alignment explanation
Indices: 91134--91166 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
91124 GTCATTCTTA
91134 TTTTTC-TTTAT
1 TTTTTCTTTTAT
91145 TTTTTCTTTTAT
1 TTTTTCTTTTAT
*
91157 CTTTTCTTTT
1 TTTTTCTTTT
91167 TTCATCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTTAT
Found at i:97456 original size:95 final size:95
Alignment explanation
Indices: 97307--97506 Score: 237
Period size: 95 Copynumber: 2.1 Consensus size: 95
97297 TACTGATGGG
* *
97307 GTATCGATACTAAAAGAGAAAGTATCGATACCATGGATTGCAAAATGCCAAAATGGTATCGATAC
1 GTATCGATACT-AAAGAGAAAGTATCGATACCATGCATTACAAAATGCCAAAATGGTATCGATAC
*
97372 TGAAAG-GGAGTATCGGTACCATAGTATA-ATA
65 TGAAAGAGG-CTATCGGTACCATAGTATAGA-A
* * * * *
97403 GTATCGATACT-GAGAGAAAGGTATTGATACCATGCATTACAGAATG-TAGAAATGGTTTCGATA
1 GTATCGATACTAAAGAGAAA-GTATCGATACCATGCATTACAAAATGCCA-AAATGGTATCGATA
* *
97466 CTGAGAGAGGCTATCGGTACCATAGTGTAGAA
64 CTGAAAGAGGCTATCGGTACCATAGTATAGAA
97498 GTATCGATA
1 GTATCGATA
97507 ACATGGTAGT
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
94 8 0.09
95 68 0.76
96 14 0.16
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.26
Consensus pattern (95 bp):
GTATCGATACTAAAGAGAAAGTATCGATACCATGCATTACAAAATGCCAAAATGGTATCGATACT
GAAAGAGGCTATCGGTACCATAGTATAGAA
Found at i:98036 original size:45 final size:45
Alignment explanation
Indices: 97928--98109 Score: 231
Period size: 45 Copynumber: 4.3 Consensus size: 45
97918 TAAAATGAAT
*
97928 CCATAAATAAAATGCATAACGGTGCATTAAAGGCATGAAAGG-TG
1 CCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATG
* *
97972 CCATAAATGAAATGCATAACAGTGCATTAAAGGTATGAAAGGATG
1 CCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATG
*
98017 CCATAAATGAAATGTATAAC---G-A-T----GCATGAAAGGATG
1 CCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATG
* *
98053 TCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAATGATG
1 CCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATG
*
98098 CCTTAAATGAAA
1 CCATAAATGAAA
98110 ATAATTCATA
Statistics
Matches: 118, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
36 30 0.25
39 1 0.01
40 2 0.02
41 2 0.02
42 1 0.01
44 39 0.33
45 43 0.36
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (45 bp):
CCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATG
Found at i:98046 original size:36 final size:36
Alignment explanation
Indices: 98006--98085 Score: 124
Period size: 36 Copynumber: 2.2 Consensus size: 36
97996 CATTAAAGGT
*
98006 ATGAAAGGATGCCATAAATGAAATGTATAACGATGC
1 ATGAAAGGATGCCATAAATGAAATGCATAACGATGC
* *
98042 ATGAAAGGATGTCATAAATGAAATGCATAACGGTGC
1 ATGAAAGGATGCCATAAATGAAATGCATAACGATGC
*
98078 ATTAAAGG
1 ATGAAAGG
98086 CATGAAATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.23
Consensus pattern (36 bp):
ATGAAAGGATGCCATAAATGAAATGCATAACGATGC
Found at i:98063 original size:81 final size:80
Alignment explanation
Indices: 97960--98109 Score: 246
Period size: 81 Copynumber: 1.9 Consensus size: 80
97950 TGCATTAAAG
*
97960 GCATGAAAGGTGCCATAAATGAAATGCATAACAGTGCATTAAAGGTATGAAAGGATGCCATAAAT
1 GCATGAAAGGTGCCATAAATGAAATGCATAACAGTGCATTAAAGGCATGAAAGGATGCCATAAAT
98025 GAAATGTATAACGAT
66 GAAATGTATAACGAT
* * * *
98040 GCATGAAAGGATGTCATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAATGATGCCTTAAA
1 GCATGAAAGG-TGCCATAAATGAAATGCATAACAGTGCATTAAAGGCATGAAAGGATGCCATAAA
98105 TGAAA
65 TGAAA
98110 ATAATTCATA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
80 10 0.16
81 54 0.84
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (80 bp):
GCATGAAAGGTGCCATAAATGAAATGCATAACAGTGCATTAAAGGCATGAAAGGATGCCATAAAT
GAAATGTATAACGAT
Found at i:100221 original size:8 final size:8
Alignment explanation
Indices: 100208--100246 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
100198 TTAATATGCG
100208 AATGCAAA
1 AATGCAAA
*
100216 AATGCAAT
1 AATGCAAA
100224 AATG-AAA
1 AATGCAAA
100231 AATGC-AA
1 AATGCAAA
100238 AATGCAAA
1 AATGCAAA
100246 A
1 A
100247 GGTGTCGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.62, C:0.10, G:0.13, T:0.15
Consensus pattern (8 bp):
AATGCAAA
Found at i:100233 original size:15 final size:15
Alignment explanation
Indices: 100208--100246 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
100198 TTAATATGCG
100208 AATGCAAAAATGCAA
1 AATGCAAAAATGCAA
100223 TAATG-AAAAATGCAA
1 -AATGCAAAAATGCAA
100238 AATGCAAAA
1 AATGCAAAA
100247 GGTGTCGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.18
15 14 0.64
16 4 0.18
ACGTcount: A:0.62, C:0.10, G:0.13, T:0.15
Consensus pattern (15 bp):
AATGCAAAAATGCAA
Found at i:100239 original size:7 final size:7
Alignment explanation
Indices: 100208--100246 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
100198 TTAATATGCG
100208 AATGCAAA
1 AATGC-AA
100216 AATGCAA
1 AATGCAA
*
100223 TAATGAAA
1 -AATGCAA
100231 AATGCAA
1 AATGCAA
100238 AATGCAA
1 AATGCAA
100245 AA
1 AA
100247 GGTGTCGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 17 0.61
8 11 0.39
ACGTcount: A:0.62, C:0.10, G:0.13, T:0.15
Consensus pattern (7 bp):
AATGCAA
Found at i:104980 original size:32 final size:32
Alignment explanation
Indices: 104929--105018 Score: 110
Period size: 32 Copynumber: 2.8 Consensus size: 32
104919 AATAACAATA
* *
104929 AAAATAAAAATTAGTATGTTAGTATGAACAAAT
1 AAAATAAAAGTTAGAATGTTAGTATGAA-AAAT
* **
104962 -AAATAAAAGTTAGAATGTTAGTTTGAATGAT
1 AAAATAAAAGTTAGAATGTTAGTATGAAAAAT
*
104993 AAAATAAATGTTAGAATGTTAGTATG
1 AAAATAAAAGTTAGAATGTTAGTATG
105019 TTAGTGACTA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
31 2 0.04
32 47 0.96
ACGTcount: A:0.49, C:0.01, G:0.17, T:0.33
Consensus pattern (32 bp):
AAAATAAAAGTTAGAATGTTAGTATGAAAAAT
Found at i:106671 original size:2 final size:2
Alignment explanation
Indices: 106664--106695 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
106654 ATTATAATTA
*
106664 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
106696 TTCCACGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:111500 original size:20 final size:21
Alignment explanation
Indices: 111461--111500 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
111451 TAGAGTATAA
*
111461 GTATTATCTTTTTGAGTATTG
1 GTATTATCTTTATGAGTATTG
*
111482 GTATTTTCTTTAT-AGTATT
1 GTATTATCTTTATGAGTATT
111501 TAAATAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.20, C:0.05, G:0.15, T:0.60
Consensus pattern (21 bp):
GTATTATCTTTATGAGTATTG
Found at i:111828 original size:20 final size:20
Alignment explanation
Indices: 111803--111840 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
111793 GTTCAAATTC
* *
111803 TATTTTTGTATACTTTGAAT
1 TATTTTTGAAGACTTTGAAT
111823 TATTTTTGAAGACTTTGA
1 TATTTTTGAAGACTTTGA
111841 GCAAATTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.55
Consensus pattern (20 bp):
TATTTTTGAAGACTTTGAAT
Found at i:113190 original size:21 final size:21
Alignment explanation
Indices: 113156--113196 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
113146 CTTGTAACTC
113156 TTTAAAAGAATTAGAATTTAA
1 TTTAAAAGAATTAGAATTTAA
* *
113177 TTTAATAGAGTTAGAATTTA
1 TTTAAAAGAATTAGAATTTA
113197 TCATTGAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.41
Consensus pattern (21 bp):
TTTAAAAGAATTAGAATTTAA
Found at i:113483 original size:3 final size:3
Alignment explanation
Indices: 113477--113517 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
113467 TATTCTTTTT
*
113477 TTC TTC TTC TTC TTC TTC TTC GTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
113518 TCACCTCTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:115614 original size:30 final size:31
Alignment explanation
Indices: 115512--115617 Score: 105
Period size: 30 Copynumber: 3.5 Consensus size: 31
115502 TATTTGATTA
* *
115512 TGCATGGGACTATGTCAT-CTA-TTCTAATTT
1 TGCATGGGACTATGT-TTCCCAGTTCTAATTT
* *
115542 TGCATGGGACTATG-TTCCCAGTTTTGATTCT
1 TGCATGGGACTATGTTTCCCAGTTCTAATT-T
115573 T-CATGGGACTATGTTTCCC-GTTCTAATTT
1 TGCATGGGACTATGTTTCCCAGTTCTAATTT
* *
115602 TGTATGGAACTATGTT
1 TGCATGGGACTATGTT
115618 CCTCGTCCTG
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.02
29 4 0.06
30 51 0.81
31 7 0.11
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (31 bp):
TGCATGGGACTATGTTTCCCAGTTCTAATTT
Found at i:119439 original size:30 final size:30
Alignment explanation
Indices: 119403--119467 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
119393 GATGCATTAT
* *
119403 TGATTCTATATGGGACTATGTTCCTCGTTC
1 TGATTCTACATGGGACTATGTTCCCCGTTC
*
119433 TGATTCTGCATGGGACTATGTTCCCCGTTC
1 TGATTCTACATGGGACTATGTTCCCCGTTC
119463 TGATT
1 TGATT
119468 TTGTACGAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.42
Consensus pattern (30 bp):
TGATTCTACATGGGACTATGTTCCCCGTTC
Found at i:119482 original size:30 final size:30
Alignment explanation
Indices: 119414--119488 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
119404 GATTCTATAT
* *
119414 GGGACTATGTTCCTCGTTCTGATTCTGCAT
1 GGGACTATGTTCCCCGTTCTGATTCTGCAC
* *
119444 GGGACTATGTTCCCCGTTCTGATTTTGTAC
1 GGGACTATGTTCCCCGTTCTGATTCTGCAC
119474 GAGG-CTATGTTCCCC
1 G-GGACTATGTTCCCC
119489 ATCTTAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 38 0.95
31 2 0.05
ACGTcount: A:0.13, C:0.25, G:0.24, T:0.37
Consensus pattern (30 bp):
GGGACTATGTTCCCCGTTCTGATTCTGCAC
Found at i:120361 original size:20 final size:19
Alignment explanation
Indices: 120333--120401 Score: 52
Period size: 22 Copynumber: 3.5 Consensus size: 19
120323 AAAGGGCTAT
*
120333 TATCAATACTCCTTTTGGAG
1 TATCGATACT-CTTTTGGAG
*
120353 TATCGATACTTCTAGTTTGGGG
1 TATCGATAC-TCT--TTTGGAG
*
120375 TATTGATACT-TTCTT-GAG
1 TATCGATACTCTT-TTGGAG
120393 TATCGATAC
1 TATCGATAC
120402 CAAATTTGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
18 11 0.28
19 2 0.05
20 11 0.28
21 2 0.05
22 14 0.35
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (19 bp):
TATCGATACTCTTTTGGAG
Found at i:122663 original size:20 final size:20
Alignment explanation
Indices: 122638--122685 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
122628 GCTGGTAGTG
122638 TCGATACTACCTAGGGAGTA
1 TCGATACTACCTAGGGAGTA
*
122658 TCGATACTACCTAGTGAGTA
1 TCGATACTACCTAGGGAGTA
122678 TCGATACT
1 TCGATACT
122686 TCCCTTACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (20 bp):
TCGATACTACCTAGGGAGTA
Found at i:123100 original size:14 final size:14
Alignment explanation
Indices: 123081--123108 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
123071 ATAATTCTCC
123081 CCATTTTTTTATAT
1 CCATTTTTTTATAT
123095 CCATTTTTTTATAT
1 CCATTTTTTTATAT
123109 AAAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (14 bp):
CCATTTTTTTATAT
Found at i:130707 original size:28 final size:28
Alignment explanation
Indices: 130673--130737 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
130663 TTTATTTTGG
130673 TCGGGTCGGCTTTTTCTAAGTGTGATAT
1 TCGGGTCGGCTTTTTCTAAGTGTGATAT
**
130701 TCGGGTCGATTTTTTCTAAGTGTGATAT
1 TCGGGTCGGCTTTTTCTAAGTGTGATAT
130729 TCGGGTCGG
1 TCGGGTCGG
130738 GTTCGGGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.14, C:0.14, G:0.31, T:0.42
Consensus pattern (28 bp):
TCGGGTCGGCTTTTTCTAAGTGTGATAT
Found at i:130939 original size:288 final size:281
Alignment explanation
Indices: 130416--130964 Score: 713
Period size: 288 Copynumber: 1.9 Consensus size: 281
130406 TTTGGTCTAG
*
130416 TCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATAC
1 TCGGGTCGATTTTTTTAAGTGTGATATTCGGGTC-GG-CGAGTTCGGGTTTAGGGTGAAAAATAC
130481 CCGACCCAAAAATATATATAATTTTACCTTATATATTTAGAAATAATTACAATAATACCCCTCTA
64 CCGACCCAAAAATATATATAATTTTACCTTATATATTTAGAAATAATTACAATAATACCCCTCTA
130546 TATATAATTTTTTTAATTAAGTCACTGTTTTTATTGAATAAAAATAACTTCTTTATTATTTCGGG
129 TATATAATTTTTTTAATTAAGTCACTGTTTTTATTGAATAAAAATAACTTCTTTATTATTTCGGG
* * * *
130611 TCGGGTCGGATCGGATTTCTAATTTATATATTCAGGTCGGGTCGGGTGAAACTTTATTTTGGTCG
194 TCGGGT--GATCGGAATTCTAATTGATATAGTCAGGTCGGGTCGAGTGAAACTTTATTTTGGTCG
130676 GGTCGGCTTTTTCTAAGTGTGATAT
257 GGTCGGCTTTTTCTAAGTGTGATAT
130701 TCGGGTCGATTTTTTCTAAGTGTGATATTCGGGTC-G-G-GTTCGGGTTTAGGGTGAAAAATACC
1 TCGGGTCGATTTTTT-TAAGTGTGATATTCGGGTCGGCGAGTTCGGGTTTAGGGTGAAAAATACC
130763 CGACCCGACCCGACCCAAA-ATATATAA-TTTACCTTATATATTTATG-AATAATTACAATAATA
65 CGACCC-A----A---AAATATATATAATTTTACCTTATATATTTA-GAAATAATTACAATAATA
* * * *
130825 CCCCTCTATATATATTTTTTTTCCAATTAAGTCATTGTTTTTATTGAATAAAAAT-ATTTTTTTA
121 CCCCTCTATATATAATTTTTTT--AATTAAGTCACTGTTTTTATTGAATAAAAATAACTTCTTTA
* * * * *
130889 TTATTTCGGGTCGGGT-TTC-TAATTCATATATTCGGGT-TGGGTCGGGTCGGGTCGAGTGAAAC
184 TTATTTCGGGTCGGGTGATCGGAATTC-TA-ATT--GATAT-AGTCAGGTCGGGTCGAGTGAAAC
130951 TTTATTTTGGTCGG
244 TTTATTTTGGTCGG
130965 ATCGAGTCTC
Statistics
Matches: 233, Mismatches: 14, Indels: 31
0.84 0.05 0.11
Matches are distributed among these distances:
281 31 0.13
282 2 0.01
284 5 0.02
285 18 0.08
286 23 0.10
287 55 0.24
288 66 0.28
289 33 0.14
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (281 bp):
TCGGGTCGATTTTTTTAAGTGTGATATTCGGGTCGGCGAGTTCGGGTTTAGGGTGAAAAATACCC
GACCCAAAAATATATATAATTTTACCTTATATATTTAGAAATAATTACAATAATACCCCTCTATA
TATAATTTTTTTAATTAAGTCACTGTTTTTATTGAATAAAAATAACTTCTTTATTATTTCGGGTC
GGGTGATCGGAATTCTAATTGATATAGTCAGGTCGGGTCGAGTGAAACTTTATTTTGGTCGGGTC
GGCTTTTTCTAAGTGTGATAT
Found at i:131371 original size:18 final size:17
Alignment explanation
Indices: 131334--131380 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
131324 TATGGAATTG
*
131334 GATTCCAATTCCTGACA
1 GATTCCAATTCCTCACA
*
131351 GATTCCAATTCATTCACA
1 GATTCCAATTC-CTCACA
131369 GATTCCAATTCC
1 GATTCCAATTCC
131381 CTTAGAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (17 bp):
GATTCCAATTCCTCACA
Found at i:137669 original size:13 final size:12
Alignment explanation
Indices: 137647--137686 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
137637 AGAAATTTTG
137647 GAAAAAAAAAGA
1 GAAAAAAAAAGA
*
137659 GAAAAATAAAAAA
1 GAAAAA-AAAAGA
137672 GAAAAGAAAAAGA
1 GAAAA-AAAAAGA
137685 GA
1 GA
137687 GTGAATAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 6 0.25
13 17 0.71
14 1 0.04
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (12 bp):
GAAAAAAAAAGA
Found at i:137671 original size:18 final size:18
Alignment explanation
Indices: 137648--137682 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
137638 GAAATTTTGG
137648 AAAAAA-AAAGAGAAAAAT
1 AAAAAAGAAA-AGAAAAAT
137666 AAAAAAGAAAAGAAAAA
1 AAAAAAGAAAAGAAAAA
137683 GAGAGTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (18 bp):
AAAAAAGAAAAGAAAAAT
Found at i:138428 original size:6 final size:6
Alignment explanation
Indices: 138415--138469 Score: 94
Period size: 6 Copynumber: 9.3 Consensus size: 6
138405 CAAATTAGGA
*
138415 TTTA-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTAAT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
138462 TTTATT TT
1 TTTATT TT
138470 AGGAATTATC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 4 0.09
6 43 0.91
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:141388 original size:31 final size:31
Alignment explanation
Indices: 141350--141413 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
141340 GGATAAGTAA
* * * *
141350 AATTTAAATTAAGAAGCTAGATTTAGATGCC
1 AATTTAAATTAAGAAACTAAATGTAGATACC
141381 AATTTAAATTAAGAAACTAAATGTAGATACC
1 AATTTAAATTAAGAAACTAAATGTAGATACC
141412 AA
1 AA
141414 ACTGATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (31 bp):
AATTTAAATTAAGAAACTAAATGTAGATACC
Found at i:146636 original size:18 final size:17
Alignment explanation
Indices: 146582--146630 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
146572 TTGGACTCCT
* *
146582 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
146600 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
146618 AGTGCATTCGATG
1 AGTGCA-TCGATG
146631 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:146696 original size:45 final size:46
Alignment explanation
Indices: 146599--146705 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 46
146589 CGGTGCACTA
* *
146599 AGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAAAAATAGCC
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCC
* * *
146645 TG-GTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAA-AG-C
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTGAA-AAATAGCC
146689 AGAGTGCATCGATGCAT
1 AGAGTGCATCGATGCAT
146706 GGAGAGTGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
44 2 0.04
45 48 0.91
46 3 0.06
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (46 bp):
AGAGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCC
Found at i:146713 original size:19 final size:19
Alignment explanation
Indices: 146689--146727 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
146679 TAATTAAAGC
146689 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
146708 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
146727 A
1 A
146728 ATCCATTCGA
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:146777 original size:21 final size:21
Alignment explanation
Indices: 146753--146792 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
146743 CAATTTATTC
146753 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
146774 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
146793 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:149409 original size:24 final size:23
Alignment explanation
Indices: 149337--149417 Score: 96
Period size: 24 Copynumber: 3.6 Consensus size: 23
149327 GCATGGTCTT
*
149337 ATGCATCGATGCACATTCAAGGC
1 ATGCATCGATGCACATTCAAGGG
* *
149360 ATGCATCGGTG--CA-TCATGCGG
1 ATGCATCGATGCACATTCAAG-GG
149381 ATGCATCGATGCACATTCAAAGGG
1 ATGCATCGATGCACATTC-AAGGG
149405 ATGCATCGATGCA
1 ATGCATCGATGCA
149418 TTGTTAAGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.08
21 13 0.27
23 12 0.25
24 17 0.35
25 2 0.04
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (23 bp):
ATGCATCGATGCACATTCAAGGG
Found at i:149430 original size:44 final size:42
Alignment explanation
Indices: 149315--149432 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 42
149305 AAAACCTGAC
* *
149315 GGATGCATCGATGCATGGTCTTATGCATCGATGCACATTCAAG
1 GGATGCATCGATGCATTGT-TAATGCATCGATGCACATTCAAG
* * ***
149358 GCATGCATCGGTGCATCATGCGGATGCATCGATGCACATTCAAAG
1 GGATGCATCGATGCAT--TGTTAATGCATCGATGCACATTC-AAG
149403 GGATGCATCGATGCATTGTTAAGTGCATCG
1 GGATGCATCGATGCATTGTTAA-TGCATCG
149433 GTTCATTGAG
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
43 17 0.28
44 25 0.42
45 18 0.30
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (42 bp):
GGATGCATCGATGCATTGTTAATGCATCGATGCACATTCAAG
Found at i:155224 original size:18 final size:17
Alignment explanation
Indices: 155170--155218 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
155160 TTGGACTCCT
* *
155170 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
155188 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
155206 AGTGCATTCGATG
1 AGTGCA-TCGATG
155219 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:155268 original size:47 final size:46
Alignment explanation
Indices: 155187--155306 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 46
155177 CGGTGCACTA
155187 AGAGTGCATCGATGCAT-GAAGTGCATTCGATGTTTGAA-AAATAGCC
1 AGAGTGCATCGATGCATGGAAGTGCATTCGATGTTTGAATAAA-AG-C
* * * *
155233 TG-GTGCATCGATGCATGGATTGTGCATTCGATGTTTTAATTAAAGC
1 AGAGTGCATCGATGCATGGA-AGTGCATTCGATGTTTGAATAAAAGC
155279 AGAGTGCATCGATGCATGGAGAGTGCAT
1 AGAGTGCATCGATGCATGGA-AGTGCAT
155307 CGGTGCATGG
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
45 14 0.22
46 5 0.08
47 42 0.67
48 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (46 bp):
AGAGTGCATCGATGCATGGAAGTGCATTCGATGTTTGAATAAAAGC
Found at i:155303 original size:19 final size:19
Alignment explanation
Indices: 155279--155317 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
155269 TAATTAAAGC
155279 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
155298 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
155317 A
1 A
155318 ATCCATTCGA
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:155367 original size:21 final size:21
Alignment explanation
Indices: 155343--155382 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
155333 CAATTTATTC
155343 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
155364 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
155383 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:156603 original size:14 final size:14
Alignment explanation
Indices: 156581--156629 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
156571 TTTTTTTCTT
156581 TTTATTTTCATTTTA
1 TTTA-TTTCATTTTA
**
156596 TTTATTTCATTCCA
1 TTTATTTCATTTTA
*
156610 TTTATTTTATTTTA
1 TTTATTTCATTTTA
156624 TATTAT
1 T-TTAT
156630 CAAATGCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 20 0.71
15 8 0.29
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTCATTTTA
Found at i:158366 original size:32 final size:32
Alignment explanation
Indices: 158323--158384 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
158313 TTTAAATAGG
158323 TTTTAGTATTTTA-ATTAAGTTTTAGGATATTAT
1 TTTTAGTATTTTATATT-AGTTTTAGG-TATTAT
*
158356 TTTTA-TATTTTATATTTGTTTTAGGTATT
1 TTTTAGTATTTTATATTAGTTTTAGGTATT
158385 TTAGTTTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 8 0.30
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (32 bp):
TTTTAGTATTTTATATTAGTTTTAGGTATTAT
Found at i:158480 original size:63 final size:63
Alignment explanation
Indices: 158365--158485 Score: 183
Period size: 63 Copynumber: 1.9 Consensus size: 63
158355 TTTTTATATT
* *
158365 TTATATTTGTTTTAGGTATTTTAGTTTAGATAGGTTTTAGTATTTTTATTAGGATTTAGAATA
1 TTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATA
*
158428 TTATATTATTTTTTAGGTATTTTAGTTTAAATA-GTTTTAAGT-TTTTAATTAGGATTTA
1 TTATATT-TGTTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTTA
158486 AAATGTTTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
63 27 0.51
64 26 0.49
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (63 bp):
TTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATA
Found at i:159096 original size:17 final size:17
Alignment explanation
Indices: 159074--159114 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
159064 CTTTAATTTG
* *
159074 TTTATTTAATTTTTTTT
1 TTTATTTAATTCTTTAT
159091 TTTATTTAATTCTTTAT
1 TTTATTTAATTCTTTAT
159108 TTTATTT
1 TTTATTT
159115 TAAAAACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATTTAATTCTTTAT
Found at i:160840 original size:19 final size:20
Alignment explanation
Indices: 160793--160840 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
160783 AAATAATCAT
160793 GGATTTAAACGTTAGTGGTC
1 GGATTTAAACGTTAGTGGTC
160813 GGATTTAAACGTTAGTGGTC
1 GGATTTAAACGTTAGTGGTC
160833 GG-TTTAAA
1 GGATTTAAA
160841 GTGAAAGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.35
Consensus pattern (20 bp):
GGATTTAAACGTTAGTGGTC
Found at i:162113 original size:24 final size:24
Alignment explanation
Indices: 162064--162113 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
162054 TACATGACAT
* *
162064 AAACATAATATAAATAACTAACTA
1 AAACATAACATAAATAACTAAATA
*
162088 AAACATAACATGAA-AACTAATATA
1 AAACATAACATAAATAACTAA-ATA
162112 AA
1 AA
162114 TTATACAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.22
Consensus pattern (24 bp):
AAACATAACATAAATAACTAAATA
Found at i:162657 original size:29 final size:29
Alignment explanation
Indices: 162596--162680 Score: 147
Period size: 29 Copynumber: 3.0 Consensus size: 29
162586 AGTGTTGGCC
162596 GTAGGTCGCCATGCACTCC-GGCGACCTT
1 GTAGGTCGCCATGCACTCCTGGCGACCTT
162624 GTAGGTCGCCATGCACTCCTGGCGACCTT
1 GTAGGTCGCCATGCACTCCTGGCGACCTT
162653 GTAGGTCGCCATGCACT-CTGGGCGACCT
1 GTAGGTCGCCATGCACTCCT-GGCGACCT
162681 ACCCTTGCTC
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
28 21 0.38
29 34 0.62
ACGTcount: A:0.14, C:0.34, G:0.29, T:0.22
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCTGGCGACCTT
Found at i:162772 original size:29 final size:27
Alignment explanation
Indices: 162739--162817 Score: 94
Period size: 23 Copynumber: 2.9 Consensus size: 27
162729 TCCCAACACA
162739 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATG--CTCCGGGCGACCTTG
162768 TAGGTCGCCATG--CC--GCGACCTTG
1 TAGGTCGCCATGCTCCGGGCGACCTTG
162791 TAGGTCGCCATGCAGTCCGGGCGACCT
1 TAGGTCGCCATGC--TCCGGGCGACCT
162818 ACCCTTGCTC
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
23 21 0.48
25 2 0.05
27 2 0.05
29 19 0.43
ACGTcount: A:0.13, C:0.35, G:0.32, T:0.20
Consensus pattern (27 bp):
TAGGTCGCCATGCTCCGGGCGACCTTG
Found at i:162862 original size:33 final size:32
Alignment explanation
Indices: 162824--162914 Score: 101
Period size: 33 Copynumber: 2.8 Consensus size: 32
162814 ACCTACCCTT
* *
162824 GCTCGGCTTCTCTCGGATTCCCTCGTATAGCTC
1 GCTCGG-TTCTCTCGGATGCCCTCGCATAGCTC
*
162857 GCTCGGTTGCCCTCGGATGCCCTCGCATAGCTC
1 GCTCGGTT-CTCTCGGATGCCCTCGCATAGCTC
* * *
162890 GTTCGGATGCTCTCGGATGCTCTCG
1 GCTCGG-TTCTCTCGGATGCCCTCG
162915 GATGGCCTCG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
32 2 0.04
33 46 0.94
34 1 0.02
ACGTcount: A:0.09, C:0.35, G:0.26, T:0.30
Consensus pattern (32 bp):
GCTCGGTTCTCTCGGATGCCCTCGCATAGCTC
Found at i:162877 original size:10 final size:10
Alignment explanation
Indices: 162835--162944 Score: 76
Period size: 10 Copynumber: 10.4 Consensus size: 10
162825 CTCGGCTTCT
*
162835 CTCGGATTCC
1 CTCGGATGCC
*
162845 CTCGTATAGCTC
1 CTCGGAT-GC-C
*
162857 GCTCGGTTGCC
1 -CTCGGATGCC
162868 CTCGGATGCC
1 CTCGGATGCC
*
162878 CTCGCATAGCTC
1 CTCGGAT-GC-C
* *
162890 GTTCGGATGCT
1 -CTCGGATGCC
*
162901 CTCGGATGCT
1 CTCGGATGCC
*
162911 CTCGGATGGC
1 CTCGGATGCC
*
162921 CTCGGATGCT
1 CTCGGATGCC
*
162931 CTCGGATGGC
1 CTCGGATGCC
162941 CTCG
1 CTCG
162945 ATCGAATGGC
Statistics
Matches: 78, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
10 58 0.74
11 4 0.05
12 6 0.08
13 10 0.13
ACGTcount: A:0.10, C:0.34, G:0.29, T:0.27
Consensus pattern (10 bp):
CTCGGATGCC
Found at i:162917 original size:20 final size:19
Alignment explanation
Indices: 162858--162944 Score: 84
Period size: 20 Copynumber: 4.2 Consensus size: 19
162848 GTATAGCTCG
* *
162858 CTCGGTTGCCCTCGGATGCC
1 CTCGGATGCTCTCGGATG-C
*
162878 CTCGCATAGCTCGTTCGGATGC
1 CTCGGAT-GCTC--TCGGATGC
162900 TCTCGGATGCTCTCGGATGGC
1 -CTCGGATGCTCTCGGAT-GC
162921 CTCGGATGCTCTCGGATGGC
1 CTCGGATGCTCTCGGAT-GC
162941 CTCG
1 CTCG
162945 ATCGAATGGC
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
20 35 0.60
21 5 0.09
22 5 0.09
23 13 0.22
ACGTcount: A:0.09, C:0.33, G:0.31, T:0.26
Consensus pattern (19 bp):
CTCGGATGCTCTCGGATGC
Found at i:163039 original size:29 final size:29
Alignment explanation
Indices: 163002--163059 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
162992 GCAATCTCTT
*
163002 GTAGCTCGCCGGGAAGACATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
* *
163031 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
163060 CGGACAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATGGCGACCTA
Found at i:163719 original size:14 final size:15
Alignment explanation
Indices: 163696--163724 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
163686 TTATTAATAT
163696 TTTTTCTTTCTTTTC
1 TTTTTCTTTCTTTTC
163711 TTTTT-TTTCTTTTC
1 TTTTTCTTTCTTTTC
163725 AGGCCTCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTCTTTTC
Found at i:169531 original size:8 final size:8
Alignment explanation
Indices: 169518--169550 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
169508 TAAGTTCATT
169518 CTTTCTAG
1 CTTTCTAG
169526 CTTTCTAG
1 CTTTCTAG
*
169534 CTTGCTAG
1 CTTTCTAG
169542 CTTTCTAG
1 CTTTCTAG
169550 C
1 C
169551 CTTGTCGGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.12, C:0.27, G:0.15, T:0.45
Consensus pattern (8 bp):
CTTTCTAG
Found at i:170746 original size:182 final size:177
Alignment explanation
Indices: 170480--171066 Score: 748
Period size: 180 Copynumber: 3.2 Consensus size: 177
170470 CTGTTTCATT
* * * *
170480 ATGATAAAACCGGTAAATCGCTACTGGATATATCGAAAGTATCGATTAGATTTAA-ATAAGTATC
1 ATGATAAAACCGGTAAATAGCTACCGGATATATTGAAAGTGTCGA-TAG--TTAATATAAGTATC
*
170544 GACACTTTTGAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAGC
63 GACACTTTTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAA--
* * * *
170609 GTATCGATCCATAACAATATAACATGTATAAGTATGACAAAACCGATCACGAA
126 GTATCGATCCATAACAATATAATAGGTA-AAATATGACAAAACCGGTCACGAA
* * *
170662 ATGATAAAACCGATAAATAGCTACCAGATATATTGAAAGTGTTGATACGTTAATATAAGTATCGA
1 ATGATAAAACCGGTAAATAGCTACCGGATATATTGAAAGTGTCGATA-GTTAATATAAGTATCGA
*
170727 CACTTTTTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAATTA
65 CAC-TTTTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAAGTA
* * * *
170792 TCGATCCATAGCAATATAATAGGTAAGAATATGGCAAAACAGGTCTCGAA
129 TCGATCCATAACAATATAATAGGTAA-AATATGACAAAACCGGTCACGAA
* *
170842 ATGATAAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGA
1 ATGATAAAACCGGTAAATAGCTACCGGATATATTGAAAGTGTCGAT-AGTTAATATAAGTATCGA
* * * * * *
170907 CACTTTCGTAATTTAAAATAGAATAAGTTATAGCGCCTAAAAAGTGTCTATAATTTATGAAAATG
65 CACTTTTG-AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT-AAAA-G
*
170972 TATCGATCCATAATAATATAATAGGTAAAAATATGACAAAACCGGT-ATCGAA
127 TATCGATCCATAACAATATAATAGGT-AAAATATGACAAAACCGGTCA-CGAA
** * *
171024 ATGA-AAAACCGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCG
1 ATGATAAAACCGGTAAATAGCTACCGGATATATTGAAAGTGTCG
171067 GTACTTTAAT
Statistics
Matches: 357, Mismatches: 38, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
179 5 0.01
180 151 0.42
181 56 0.16
182 143 0.40
183 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (177 bp):
ATGATAAAACCGGTAAATAGCTACCGGATATATTGAAAGTGTCGATAGTTAATATAAGTATCGAC
ACTTTTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAAGTATC
GATCCATAACAATATAATAGGTAAAATATGACAAAACCGGTCACGAA
Found at i:170881 original size:180 final size:177
Alignment explanation
Indices: 170429--171066 Score: 760
Period size: 182 Copynumber: 3.5 Consensus size: 177
170419 ATGAAAAAGG
* * * * * * * * *
170429 TATCGCTCCATAGCAATATTACATGTAAAATATGATAAAACCTGTTTC-ATTATGATAAAACCGG
1 TATCGATCCATAACAATATAATAGGTAAAATATGACAAAACCGGTCTCGA-AATGATAAAACCGG
* * * *
170493 TAAATCGCTACTGGATATATCGAAAGTATCGATTAGATTTAA-ATAAGTATCGACACTTTTGAAT
65 TAAATAGCTACCGGATATATTGAAAGTGTCGA-TAG--TTAATATAAGTATCGACACTTTTGAAT
* *
170557 TTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAGCG
127 TTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAA--T
* * * * * *
170610 TATCGATCCATAACAATATAACATGTATAAGTATGACAAAACCGATCACGAAATGATAAAACCGA
1 TATCGATCCATAACAATATAATAGGTA-AAATATGACAAAACCGGTCTCGAAATGATAAAACCGG
* *
170675 TAAATAGCTACCAGATATATTGAAAGTGTTGATACGTTAATATAAGTATCGACACTTTTTGAATT
65 TAAATAGCTACCGGATATATTGAAAGTGTCGATA-GTTAATATAAGTATCGACAC-TTTTGAATT
170740 TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAAT
128 TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAAT
* * *
170790 TATCGATCCATAGCAATATAATAGGTAAGAATATGGCAAAACAGGTCTCGAAATGATAAAACCGG
1 TATCGATCCATAACAATATAATAGGTAA-AATATGACAAAACCGGTCTCGAAATGATAAAACCGG
* * *
170855 TAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTCGTAATT
65 TAAATAGCTACCGGATATATTGAAAGTGTCGAT-AGTTAATATAAGTATCGACACTTTTG-AATT
* * * * *
170920 TAAAATAGAATAAGTTATAGCGCCTAAAAAGTGTCTATAATTTATGAAAAT
128 TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT-AAAAT
* *
170971 GTATCGATCCATAATAATATAATAGGTAAAAATATGACAAAACCGGTATCGAAATGA-AAAACCG
1 -TATCGATCCATAACAATATAATAGGT-AAAATATGACAAAACCGGTCTCGAAATGATAAAACCG
** * *
171035 GTAAAGCGCTACCGGTTATGTTGAAAGTGTCG
64 GTAAATAGCTACCGGATATATTGAAAGTGTCG
171067 GTACTTTAAT
Statistics
Matches: 399, Mismatches: 47, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
179 5 0.01
180 151 0.38
181 81 0.20
182 159 0.40
183 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (177 bp):
TATCGATCCATAACAATATAATAGGTAAAATATGACAAAACCGGTCTCGAAATGATAAAACCGGT
AAATAGCTACCGGATATATTGAAAGTGTCGATAGTTAATATAAGTATCGACACTTTTGAATTTAA
AAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAAAT
Found at i:171412 original size:21 final size:23
Alignment explanation
Indices: 171363--171412 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
171353 AAACCCTAGT
171363 TTTTTATTATTATAGTAATTAGGG
1 TTTTTATTATTATAGT-ATTAGGG
171387 TTTTTATGTATTAT-GT-TTAGGG
1 TTTTTAT-TATTATAGTATTAGGG
171409 TTTT
1 TTTT
171413 CGAAGTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.40
24 9 0.36
25 6 0.24
ACGTcount: A:0.22, C:0.00, G:0.18, T:0.60
Consensus pattern (23 bp):
TTTTTATTATTATAGTATTAGGG
Found at i:173893 original size:17 final size:17
Alignment explanation
Indices: 173871--173906 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
173861 TTTAAATATT
*
173871 TCATGAAAATATATTAA
1 TCATGAAAAGATATTAA
173888 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
173905 TC
1 TC
173907 CTAATGATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (17 bp):
TCATGAAAAGATATTAA
Found at i:175070 original size:19 final size:19
Alignment explanation
Indices: 175045--175093 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
175035 AATGCAGGGT
175045 TAATTTTGTATAAGATTT-
1 TAATTTTGTATAAGATTTA
*
175063 TAAATTTTGTATACGATTTA
1 T-AATTTTGTATAAGATTTA
175083 TAATTTTGTAT
1 TAATTTTGTAT
175094 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 1 0.04
19 26 0.93
20 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:175764 original size:198 final size:198
Alignment explanation
Indices: 175423--176390 Score: 1605
Period size: 198 Copynumber: 4.9 Consensus size: 198
175413 GTATGGTAAA
175423 CATAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAAT
1 CATAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAAT
175488 GTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACAT
66 GTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACAT
*
175553 ACAA-TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCTAGAATGATTTCCTTACCAA-G
131 A-AAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGG
*
175616 TGCATG
195 T-CA-C
* *
175622 GA-AATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAGACCCATAATTATAAT
1 CATAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAAT
* * *
175686 GTAATAGGAAAATTATGAATTTAACCGGTCTAAATACACCGGTTTATGAGAAAAAAGGTGTACAT
66 GTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACAT
175751 AAAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAA-GT
131 AAAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGGT
*
175815 --G
196 CAC
* *
175816 CATGGAATGTGTCGATAGATTTATAACAAGTATCGATCCCAAAAACATCGAGACCCATAATTATA
1 CAT--AATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATA
*
175881 ATGTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACATGTGTAC
64 ATGTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTAC
*
175946 ATAAAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAAAATGATTTCCTTACCAAG
129 ATAAAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAG
176011 GTCAC
194 GTCAC
*
176016 CATAATGTTTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAAT
1 CATAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAAT
* * *
176081 GTAATAGGTAAATTATCAATCTAACGGGTCTAAATATACCGGTTTATGAGAAAACAGGTGTACAT
66 GTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACAT
* *
176146 AAAGTATCGACACTTGTTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCATACCAAGGT
131 AAAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGGT
176211 CAC
196 CAC
*
176214 CATAATGTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCGAGACCCATAATTATAAT
1 CATAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAAT
* * *
176279 GCAATAGGTAAATTATGAATCTAATCGGTCTAAATACACCGATTTATGAGAAAACA-GTGTACAT
66 GTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACAT
176343 AAAGTATCGACACTCT-TTGAATTT-TGTCGATACGTTT-TGTCCAGAATG
131 AAAGTATCGACACT-TGTTGAATTTGTGTCGATAC-TTTGTGTCCAGAATG
176391 TAAATGTCAA
Statistics
Matches: 725, Mismatches: 35, Indels: 21
0.93 0.04 0.03
Matches are distributed among these distances:
194 2 0.00
196 20 0.03
197 215 0.30
198 484 0.67
199 1 0.00
200 3 0.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (198 bp):
CATAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAAT
GTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACAT
AAAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGGT
CAC
Found at i:176156 original size:395 final size:394
Alignment explanation
Indices: 175423--176451 Score: 1601
Period size: 395 Copynumber: 2.6 Consensus size: 394
175413 GTATGGTAAA
175423 CATAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAAT
1 CATAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAAT
175488 GTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACAT
66 GTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACA-GTGTACAT
*
175553 ACAA-TATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCTAGAATGATTTCCTTACCAAGT
130 A-AAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGT
** *
175617 GCATGGAAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAGACCCATAATTA
194 GCATCCAAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTA
* *
175682 TAATGTAATAGGAAAATTATGAATTTAACCGGTCTAAATACACCGGTTTATGAGAAAAAAGGTGT
259 TAATGTAATAGGAAAATTATCAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAAAAGGTGT
*
175747 ACATAAAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCA
324 ACATAAAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCATACCA
*
175812 A-GT-G
389 AGGTAC
* *
175816 CATGGAATGTGTCGATAGATTTATAACAAGTATCGATCCCAAAAACATCGAGACCCATAATTATA
1 CAT--AATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATA
175881 ATGTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACATGTGTAC
64 ATGTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACA-GTGTAC
*
175946 ATAAAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAAAATGATTTCCTTACCAAG
128 ATAAAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAG
*
176011 -GTCA-CCATAATGTTTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAA
193 TG-CATCCA-AATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAA
* * * *
176074 TTATAATGTAATAGGTAAATTATCAATCTAACGGGTCTAAATATACCGGTTTATGAGAAAACAGG
256 TTATAATGTAATAGGAAAATTATCAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAAAAGG
*
176139 TGTACATAAAGTATCGACACTTGTTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCATA
321 TGTACATAAAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCATA
176204 CCAAGGTCAC
386 CCAAGGT-AC
*
176214 CATAATGTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCGAGACCCATAATTATAAT
1 CATAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAAT
* * *
176279 GCAATAGGTAAATTATGAATCTAATCGGTCTAAATACACCGATTTATGAGAAAACAGTGTACATA
66 GTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGTGTACATA
** * * **
176344 AAGTATCGACACTCT-TTGAATTT-TGTCGATACGTTT-TGTCCAGAATGTAAAT-GTCAAAAAG
131 AAGTATCGACACT-TGTTGAATTTGTGTCGATAC-TTTGTGTCCAGAATG-ATTTCCTTACCAAG
* * * *
176405 TGCA-CAAAAAAGTGTCGATACATTTATAAAAAGTATCTATCCTAAAA
193 TGCATC-CAAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAA
176452 CAATGAAATT
Statistics
Matches: 587, Mismatches: 36, Indels: 25
0.91 0.06 0.04
Matches are distributed among these distances:
393 3 0.01
394 66 0.11
395 400 0.68
396 115 0.20
398 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (394 bp):
CATAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAAT
GTAATAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGTGTACATA
AAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGC
ATCCAAATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATA
ATGTAATAGGAAAATTATCAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAAAAGGTGTAC
ATAAAGTATCGACACTTGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCATACCAAG
GTAC
Found at i:176548 original size:196 final size:197
Alignment explanation
Indices: 175429--176577 Score: 1063
Period size: 198 Copynumber: 5.8 Consensus size: 197
175419 TAAACATAAT
* * *
175429 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCGAAACCCATAATTATAATGCAATA
* *
175494 GGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATACAA-T
66 GGTAAATTATGAATCTAACCGGTATAAATACACCGATTTATGAGAAAACA-GTGTACATA-AAGT
* * ** * * **
175558 ATCGACAC-TTGTTGAATTTGTGTCGATAC-TTTGTGTCTAGAATG-ATTTCCTTACCAAGTGCA
129 ATCGACACATT-TTAAATTTGTGTCGATACATTT-TGTCCAGAATGTAAAT-GTCAAAAAGTGCA
*** *
175620 TGGAAAT
191 CAAAAAA
* * * *
175627 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAGACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCGAAACCCATAATTATAATGCAATA
* * * * *
175692 GGAAAATTATGAATTTAACCGGTCTAAATACACCGGTTTATGAGAAAAAAGGTGTACATAAAGTA
66 GGTAAATTATGAATCTAACCGGTATAAATACACCGATTTATGAGAAAACA-GTGTACATAAAGTA
* ** * * **
175757 TCGACAC-TTGTTGAATTTGTGTCGATAC-TTTGTGTCCAGAATG-ATTTCCTTACCAAGTGCA-
130 TCGACACATT-TTAAATTTGTGTCGATACATTT-TGTCCAGAATGTAAAT-GTCAAAAAGTGCAC
*** *
175818 TGGAAT
192 AAAAAA
* * * * *
175824 GTGTCGATAGATTTATAACAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCGAAACCCATAATTATAATGCAATA
* *
175889 GGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACATGTGTACATAAAGTA
66 GGTAAATTATGAATCTAACCGGTATAAATACACCGATTTATGAGAAAACA-GTGTACATAAAGTA
* * ** * * **
175954 TCGACAC-TTGTTGAATTTGTGTCGATAC-TTTGTGTCCAAAATG-ATTTCCTTACCAAG-GTCA
130 TCGACACATT-TTAAATTTGTGTCGATACATTT-TGTCCAGAATGTAAAT-GTCAAAAAGTG-CA
* * *
176015 CCATAAT
191 CAAAAAA
* * * *
176022 GTTTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCGAAACCCATAATTATAATGCAATA
* * * * *
176087 GGTAAATTATCAATCTAACGGGTCTAAATATACCGGTTTATGAGAAAACAGGTGTACATAAAGTA
66 GGTAAATTATGAATCTAACCGGTATAAATACACCGATTTATGAGAAAACA-GTGTACATAAAGTA
* * *
176152 TCGACAC-TTGTTTAATTTGTGTCGATAC-TTTGTGTCCAGAATG---ATTTCCATACCAAG-GT
130 TCGACACATT-TTAAATTTGTGTCGATACATTT-TGTCCAGAATGTAAATGT-CA-A-AAAGTG-
* * *
176211 CACCATAAT
189 CACAAAAAA
*
176220 GTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCGAGACCCATAATTATAATGCAATA
1 GTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCGAAACCCATAATTATAATGCAATA
* *
176285 GGTAAATTATGAATCTAATCGGTCTAAATACACCGATTTATGAGAAAACAGTGTACATAAAGTAT
66 GGTAAATTATGAATCTAACCGGTATAAATACACCGATTTATGAGAAAACAGTGTACATAAAGTAT
* *
176350 CGACAC-TCTTTGAATTT-TGTCGATACGTTTTGTCCAGAATGTAAATGTCAAAAAGTGCACAAA
131 CGACACAT-TTTAAATTTGTGTCGATACATTTTGTCCAGAATGTAAATGTCAAAAAGTGCACAAA
176413 AAA
195 AAA
* * * ** *
176416 GTGTCGATACATTTATAAAAAGTATCTAT-CCTAAAACAAT-GAAATTCATAATT-TGAATGTAA
1 GTGTCGATACATTTATAAAAAATATCGATCCCAAAAAC-ATCGAAACCCATAATTAT-AATGCAA
* * * * * **
176478 TAGGT-CATTTTGCAATGTAACCGGTATAAATATACCTATTTAATTTG-AAACAG-GTCACCATA
64 TAGGTAAATTATG-AATCTAACCGGTATAAATACACCGATTT-ATGAGAAAACAGTGT-A-CATA
*
176540 ATGTATCGACACATTTTAAATTTGTGTCGATACATTTT
125 AAGTATCGACACATTTTAAATTTGTGTCGATACATTTT
176578 TAAATTACTT
Statistics
Matches: 867, Mismatches: 64, Indels: 41
0.89 0.07 0.04
Matches are distributed among these distances:
194 8 0.01
195 59 0.07
196 87 0.10
197 235 0.27
198 475 0.55
199 3 0.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (197 bp):
GTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCGAAACCCATAATTATAATGCAATA
GGTAAATTATGAATCTAACCGGTATAAATACACCGATTTATGAGAAAACAGTGTACATAAAGTAT
CGACACATTTTAAATTTGTGTCGATACATTTTGTCCAGAATGTAAATGTCAAAAAGTGCACAAAA
AA
Found at i:176890 original size:15 final size:15
Alignment explanation
Indices: 176864--176912 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
176854 AGAATAGGGG
176864 CTCTTCTCAACCCATC
1 CTCTTCTCAACCCA-C
*
176880 C-CTTCTTAACCCAC
1 CTCTTCTCAACCCAC
*
176894 CTCTTCTCAACCCAG
1 CTCTTCTCAACCCAC
176909 CTCT
1 CTCT
176913 CTTGAGGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 2 0.07
15 26 0.90
16 1 0.03
ACGTcount: A:0.18, C:0.49, G:0.02, T:0.31
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:178083 original size:6 final size:6
Alignment explanation
Indices: 178049--178082 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
178039 CAAGCGGTCA
*
178049 ATGAAG ATGAAG ATGAAG ATGAAG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
178083 TCCAAACAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:179915 original size:201 final size:199
Alignment explanation
Indices: 179455--180561 Score: 1386
Period size: 199 Copynumber: 5.6 Consensus size: 199
179445 GTCACAAAAA
* *
179455 ATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCTAA
1 ATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAA
* * * * * *
179520 ATATACCGGTT-TATGAGAAAAGAGGTATACATAAAGTATCGCCACTTTATATATTTGTGTCGAT
66 ATATACCGGTTAT-TAAGAAAAAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGAC
* ** *
179584 ACTTTGTGTCCATAATGTATTTTCCAACCAAAGCAAGTTCAC-AAATAAGTGTCGATACAATTAT
130 ACTTTATGTCCATAATAAATTTT----CCAAA-CAAGTTCACGAAA-AAGTGTCGATACATTTAT
*
179648 ATCAAGTGTCG
189 AACAAGTGTCG
* * * * * * * * *
179659 ATCCCAAAAATATCAAAACCCTTAACTATAATGTAATAGGTCACTTTACAATGTAACTGGTTTAA
1 ATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAA
* * * * * *
179724 ATTTATCAGTT-TTATGAGAAAATAGGTCTACA-ATATGTATCGACACTTTATTCATTTGTGTCG
66 ATATACCGGTTATTA--AGAAAAAAGGTATACATA-ATGTATCGACACTTTATACATTTGTGTCG
* * * ** * *
179787 ATAC-ATATTGTCCAGAATGTA-TTTCCAAATCAAGTGCACGAAAAAAGTGTTGATACATTTATA
128 ACACTTTA-TGTCCATAATAAATTTTCCAAA-CAAGTTCACG-AAAAAGTGTCGATACATTTATA
179850 ACAAGTGTCG
190 ACAAGTGTCG
*
179860 ATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAA
1 ATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAA
* * *
179925 ATATACCGGTTATTAAAAAAGAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTTGAC
66 ATATACCGGTTATTAAGAAA-AAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGAC
179990 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTT-TAACAAG
130 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAG
180054 TGTCG
195 TGTCG
* *
180059 ATCTCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAA
1 ATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAA
* *
180124 ATATACCGGTTATTAAAAAAGAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGAC
66 ATATACCGGTTATTAAGAAA-AAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGAC
180189 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACG-AAAAGTGTCG--------ATAACAAG
130 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAG
180245 TGTCG
195 TGTCG
* *
180250 ATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTAACATAACAATGCAACCGGTCTAA
1 ATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAA
* *
180315 ATATATCGGTTATTAA-AAAAAAGGTATACATAATGTATCGATACTTTATACATTTGTGTCGACA
66 ATATACCGGTTATTAAGAAAAAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGACA
* *
180379 CTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTAGAAAAAGT
131 CTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAGT
180444 GTCG
196 GTCG
* * * * * * * *
180448 ATCCTAAAAACATCGAAACCCGTAATTATAATGTAATAGATCACTTTATAATGTAACCGGTTTAA
1 ATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAA
* * * *
180513 ATTTACCAGTT-TTATGAGAAAATAGGTTTACATAATGTATCGACACTTT
66 ATATACCGGTTATTA--AGAAAAAAGGTATACATAATGTATCGACACTTT
180562 TTAAATTAGT
Statistics
Matches: 801, Mismatches: 78, Indels: 52
0.86 0.08 0.06
Matches are distributed among these distances:
189 82 0.10
190 13 0.02
191 88 0.11
197 3 0.00
198 86 0.11
199 179 0.22
200 63 0.08
201 146 0.18
202 17 0.02
203 1 0.00
204 68 0.08
205 55 0.07
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (199 bp):
ATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAA
ATATACCGGTTATTAAGAAAAAAGGTATACATAATGTATCGACACTTTATACATTTGTGTCGACA
CTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAGT
GTCG
Found at i:180176 original size:22 final size:21
Alignment explanation
Indices: 180150--180195 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
180140 AAAAGAAAGG
*
180150 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
180172 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
180193 TAT
1 TAT
180196 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:180364 original size:22 final size:21
Alignment explanation
Indices: 180339--180384 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
180329 AAAAAAAAGG
*
180339 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
180361 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
180382 TAT
1 TAT
180385 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:184357 original size:86 final size:87
Alignment explanation
Indices: 184252--184413 Score: 245
Period size: 86 Copynumber: 1.9 Consensus size: 87
184242 AAATAGGTCA
* * * *
184252 ATATAAGAGTTACCTATTACATTATATAAGCGCTACCTAATTTGTTATTGTACTTGATAATATTT
1 ATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTAATAATATTT
184317 -CGATTAAATGCCTATTTTATT
66 CCGATTAAATGCCTATTTTATT
* * *
184338 ATATAAGCGCTACCTATTACATTATATAAGCGCTACTTAATATGTTATTATGCTTAATAATATTT
1 ATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTAATAATATTT
*
184403 CCGGTTAAATG
66 CCGATTAAATG
184414 ATATAACATA
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 58 0.87
87 9 0.13
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (87 bp):
ATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTAATAATATTT
CCGATTAAATGCCTATTTTATT
Found at i:184385 original size:23 final size:23
Alignment explanation
Indices: 184335--184379 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
184325 TGCCTATTTT
*
184335 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
184358 ATTATATAAGCGCTACTTAATA
1 ATTATATAAGCGCTACCTAATA
184380 TGTTATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:184387 original size:26 final size:23
Alignment explanation
Indices: 184327--184373 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
184317 CGATTAAATG
184327 CCTATTTTATTATATAAGCGCTA
1 CCTATTTTATTATATAAGCGCTA
**
184350 CCTATTACATTATATAAGCGCTA
1 CCTATTTTATTATATAAGCGCTA
184373 C
1 C
184374 TTAATATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (23 bp):
CCTATTTTATTATATAAGCGCTA
Found at i:184569 original size:21 final size:21
Alignment explanation
Indices: 184545--184585 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
184535 CATTTTTAAC
184545 ATTTTT-TCTATCAATTTATTT
1 ATTTTTCTCT-TCAATTTATTT
184566 ATTTTTCTCTTCAATTTATT
1 ATTTTTCTCTTCAATTTATT
184586 CGGTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTTTCTCTTCAATTTATTT
Found at i:187517 original size:19 final size:18
Alignment explanation
Indices: 187493--187566 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 18
187483 AAAAGAGAAT
187493 AAGAAAAAACAGAAAAACA
1 AAGAAAAAA-AGAAAAACA
*
187512 AAG-AAAAAAGCAAAAAGA
1 AAGAAAAAAAG-AAAAACA
187530 AA-AGAAAAAAGCAAAAACA
1 AAGA-AAAAAAG-AAAAACA
187549 AAGGAAAATAAAGAAAAA
1 AA-GAAAA-AAAGAAAAA
187567 AGAAAACAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
17 2 0.04
18 13 0.28
19 19 0.40
20 8 0.17
21 5 0.11
ACGTcount: A:0.78, C:0.07, G:0.14, T:0.01
Consensus pattern (18 bp):
AAGAAAAAAAGAAAAACA
Found at i:187521 original size:7 final size:7
Alignment explanation
Indices: 187511--187577 Score: 50
Period size: 7 Copynumber: 9.7 Consensus size: 7
187501 ACAGAAAAAC
187511 AAAGAAA
1 AAAGAAA
*
187518 AAAGCAA
1 AAAGAAA
187525 AAAG--A
1 AAAGAAA
187530 AAAGAAA
1 AAAGAAA
*
187537 AAAGCAA
1 AAAGAAA
*
187544 AAACAAA
1 AAAGAAA
* *
187551 GGAA-AAT
1 -AAAGAAA
187558 AAAGAAA
1 AAAGAAA
187565 AAAGAAA
1 AAAGAAA
187572 ACAAGA
1 A-AAGA
187578 CGTGTATACA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
5 5 0.11
6 2 0.04
7 34 0.72
8 6 0.13
ACGTcount: A:0.78, C:0.06, G:0.15, T:0.01
Consensus pattern (7 bp):
AAAGAAA
Found at i:187526 original size:18 final size:18
Alignment explanation
Indices: 187505--187556 Score: 77
Period size: 19 Copynumber: 2.8 Consensus size: 18
187495 GAAAAAACAG
187505 AAAAACAAAGAAAAAAGC
1 AAAAACAAAGAAAAAAGC
*
187523 AAAAAGAAAAGAAAAAAGC
1 AAAAA-CAAAGAAAAAAGC
187542 AAAAACAAAGGAAAA
1 AAAAACAAA-GAAAA
187557 TAAAGAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 8 0.27
19 22 0.73
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAACAAAGAAAAAAGC
Found at i:189168 original size:43 final size:43
Alignment explanation
Indices: 189119--189238 Score: 186
Period size: 43 Copynumber: 2.8 Consensus size: 43
189109 ACGAATGAGC
189119 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACA
* *
189162 GATCCACGATTTCAACTCCACGACGGAGGATATCGTGCCCACA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACA
* * * *
189205 CAACCACGATTTCAACTTCACAACGAAGGATATC
1 CATCCACGATTTCAACTCCACGACGGAGGATATC
189239 CTGCCAACTT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.19
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCACA
Found at i:189588 original size:32 final size:32
Alignment explanation
Indices: 189510--189621 Score: 117
Period size: 32 Copynumber: 3.7 Consensus size: 32
189500 ATTTAGATTG
* *
189510 GATTTCAACTTCACGACGAA--GG--ATTCAG
1 GATTTCAACTTCACGACGAAGGGGCCATCCAC
* * *
189538 GA-CTCAACTTCACAACGAAGGGGCCATCTAC
1 GATTTCAACTTCACGACGAAGGGGCCATCCAC
* * *
189569 GGTTTTAACTTCACGACGAAGGGGTCATCCAC
1 GATTTCAACTTCACGACGAAGGGGCCATCCAC
189601 GATTTCAACTTCACGACGAAG
1 GATTTCAACTTCACGACGAAG
189622 AGAATCGTAC
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
27 15 0.23
28 2 0.03
29 2 0.03
31 4 0.06
32 43 0.65
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (32 bp):
GATTTCAACTTCACGACGAAGGGGCCATCCAC
Found at i:189764 original size:21 final size:21
Alignment explanation
Indices: 189739--189779 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
189729 ACTCAAAACA
*
189739 AAATTTTGTCTCTCTTGAGAC
1 AAATTTTATCTCTCTTGAGAC
189760 AAATTTTATCTCTCTTGAGA
1 AAATTTTATCTCTCTTGAGA
189780 TAGTTTCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (21 bp):
AAATTTTATCTCTCTTGAGAC
Found at i:189798 original size:36 final size:36
Alignment explanation
Indices: 189752--190000 Score: 113
Period size: 36 Copynumber: 7.3 Consensus size: 36
189742 TTTTGTCTCT
* * *
189752 CTTGAGACAAATTTTATCTCTCTTGAGATAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
** *
189788 CTTGAAACAAATTTCATCTTTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
* * *
189824 CTTGAAACAAA------ATCT-TTGA-ATATGTTTTAC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACA-G-TTTCC
* * * *
189854 ATT-AAACAAATTTCGTCTCCCTTGAGACAGTTTCT
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
* * * **
189889 TTTCG-AACTAAGTTTTGTCTCTCTTGAAACAAATT--
1 CTT-GAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCC
* * * *
189924 -TTG--TC----TTTGTCTCTTTTGAGAACAATTTCT
1 CTTGAAACAAATTTTGTCTCTCTTGAG-ACAGTTTCC
*
189954 CTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
189990 CTTGAAACAAA
1 CTTGAAACAAA
190001 ATCTTTGAAT
Statistics
Matches: 159, Mismatches: 31, Indels: 46
0.67 0.13 0.19
Matches are distributed among these distances:
27 13 0.08
28 8 0.05
29 12 0.08
30 8 0.05
31 3 0.02
32 1 0.01
33 1 0.01
34 2 0.01
35 7 0.04
36 68 0.43
37 36 0.23
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (36 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
Found at i:189998 original size:166 final size:166
Alignment explanation
Indices: 189783--190231 Score: 510
Period size: 166 Copynumber: 2.6 Consensus size: 166
189773 CTTGAGATAG
*
189783 TTTCCCTTGAAACAAATTTCATCTTTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATG
1 TTTCCCTTGAAACAAATTTCATCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATG
189848 TTTTACATT-AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTC-GAACTAAGTTTTGTCTCT
66 TTTT-CATTGAAACAAATTTCGTCTCCCTTGAGACAGTTTC-TTTCGGAACTAAGTTTTGTCTCT
189911 CTTGAAACAAATTTTGTCTTTGTCTCTTTTGAGAACAA
129 CTTGAAACAAATTTTGTCTTTGTCTCTTTTGAGAACAA
* * **
189949 TTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATG
1 TTTCCCTTGAAACAAATTTCATCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATG
* *
190014 TTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACCGTTTCTTTCGGAACTAAGTTTTGTCTCTCT
66 TTTTCATTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTCGGAACTAAGTTTTGTCTCTCT
* *** * * * *
190079 TGAGACGGTTTCTCTTGAAACAAATTTTGTCTCTCTTG-GGACAG
131 TGAAAC-AAAT-T-TTG--TC----TTTGTCTCTTTTGAGAACAA
* ** * * *
190123 TTTCCCTTAAAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACACCAATCTTTGAATA
1 TTTCCCTTGAAACAAA-TTTCATCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATCTTTGAATA
* * * *
190188 CGTTTCTC-TTGAAACAAAATTTTGCCTCCCTGGAGACAGTTTCT
64 TGTTT-TCATTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCT
190232 CTTGAAACAC
Statistics
Matches: 242, Mismatches: 26, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
165 7 0.03
166 119 0.49
167 1 0.00
168 1 0.00
169 3 0.01
171 1 0.00
174 17 0.07
175 44 0.18
176 23 0.10
177 26 0.11
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (166 bp):
TTTCCCTTGAAACAAATTTCATCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATG
TTTTCATTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTCGGAACTAAGTTTTGTCTCTCT
TGAAACAAATTTTGTCTTTGTCTCTTTTGAGAACAA
Found at i:190114 original size:36 final size:36
Alignment explanation
Indices: 190015--190173 Score: 187
Period size: 37 Copynumber: 4.4 Consensus size: 36
190005 TTGAATATGT
* * *
190015 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACCG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
190050 TTTCT-TTCGGAACTAAGTTTTGTCTCTCTTGAGACGG
1 TTTCTCTT-GAAAC-AAATTTTGTCTCTCTTGAGACAG
*
190087 TTTCTCTTGAAACAAATTTTGTCTCTCTTGGGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
190123 TTTCCCTTAAAACAAAGTTTTGTCTCTCTTGAGATAG
1 TTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAG
190160 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
190174 CCAATCTTTG
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
35 6 0.06
36 38 0.37
37 58 0.56
38 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:190141 original size:73 final size:73
Alignment explanation
Indices: 190015--190173 Score: 205
Period size: 73 Copynumber: 2.2 Consensus size: 73
190005 TTGAATATGT
* * ** *
190015 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACCGTTTCTTTCGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCTTCAAAACAAAGTTTTGTCTCTCT
*
190079 TGAGACGG
66 TGAGACAG
* * *
190087 TTTCTCTTGAAACAAATTTTGTCTCTCTTGGGACAGTTTCCCTT-AAAACAAAGTTTTGTCTCTC
1 TTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTT-CCTTCAAAACAAAGTTTTGTCTCTC
*
190151 TTGAGATAG
65 TTGAGACAG
190160 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
190174 CCAATCTTTG
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
72 4 0.05
73 68 0.91
74 3 0.04
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (73 bp):
TTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCTTCAAAACAAAGTTTTGTCTCTCT
TGAGACAG
Found at i:190286 original size:36 final size:33
Alignment explanation
Indices: 190226--190313 Score: 122
Period size: 36 Copynumber: 2.6 Consensus size: 33
190216 CCTGGAGACA
*
190226 GTTTCTCTTGAAACACAAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAAAT
*
190259 GTTTATCTTGAAACGCACAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAA--CAC-AAAAAACCTTTGAAAAT
*
190295 GTTTCTCTTGGAACACAAA
1 GTTTCTCTTGAAACACAAA
190314 GACCTTCGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
33 15 0.31
34 3 0.06
35 3 0.06
36 27 0.56
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAAACCTTTGAAAAT
Found at i:190512 original size:80 final size:80
Alignment explanation
Indices: 190310--190657 Score: 356
Period size: 80 Copynumber: 4.2 Consensus size: 80
190300 TCTTGGAACA
* * * * * *
190310 CAAAGACCTTCGAGTTCGATTACACTCAGCTTCGATGGCACATCATTTGCAGCATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACATCATTTGCAGCATAACTTAA-GT
*
190375 T-ATAAGGGTTATCTGC
64 TGATAAGGGCTATCTGC
* *
190391 CAAGAAAGACCTTTGAGTTCGACTGCGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAG
1 C---AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAG
*
190456 TTGATAAGGGCTATATGC
63 TTGATAAGGGCTATCTGC
* * * *
190474 CAAAGATCTTTGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAGTTG
* *
190539 AAAAGGGCTATCTACCAAC
66 ATAAGGGCTATCT----GC
* * * * **
190558 CAAATACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACCATCATTTGCAGAATAGCTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCA-CATCATTTGCAGCATAACTTAAGTT
* * * * *
190623 AAGAAGGGTTGTCTTC
65 GATAAGGGCTATCTGC
190639 CAAAGACCTTCGAGTTCGA
1 CAAAGACCTTCGAGTTCGA
190658 TTCCATTCAG
Statistics
Matches: 229, Mismatches: 29, Indels: 18
0.83 0.11 0.07
Matches are distributed among these distances:
80 71 0.31
81 20 0.09
82 2 0.01
83 42 0.18
84 62 0.27
85 32 0.14
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (80 bp):
CAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAGTTG
ATAAGGGCTATCTGC
Found at i:190592 original size:164 final size:165
Alignment explanation
Indices: 190310--190609 Score: 424
Period size: 164 Copynumber: 1.8 Consensus size: 165
190300 TCTTGGAACA
* * *
190310 CAAAGACCTTCGAGTTCGATTACACTCAGCTTCGATGGCACATCATTTGCAGCATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTTCAAAGGCACATCATTTGCAGCATAACTCAAGGC
* * * * * * *
190375 TATAAGGGTTATCTGCCAAGAAAGACCTTTGAGTTCGACTGCGCTCAGCTCAAAGGCA-CATCAT
66 GAAAAGGGCTATCTACCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACCATCAT
190439 TTGCAGCATAACTTAAGTTGATAAGGGCTATATGC
131 TTGCAGCATAACTTAAGTTGATAAGGGCTATATGC
* * * * * *
190474 CAAAGATCTTTGAGTTCGACTACGCTCAGC-TCAAAGGCACATCATTTGCAGCATAGCTTAAGTC
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTTCAAAGGCACATCATTTGCAGCATAACTCAAGGC
*
190538 GAAAAGGGCTATCTACCAACCAAATACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACCATCA
66 GAAAAGGGCTATCTACCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACCATCA
190603 TTTGCAG
130 TTTGCAG
190610 AATAGCTCAA
Statistics
Matches: 117, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
163 44 0.38
164 61 0.52
165 12 0.10
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (165 bp):
CAAAGACCTTCGAGTTCGACTACACTCAGCTTCAAAGGCACATCATTTGCAGCATAACTCAAGGC
GAAAAGGGCTATCTACCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACCATCAT
TTGCAGCATAACTTAAGTTGATAAGGGCTATATGC
Found at i:191031 original size:3 final size:3
Alignment explanation
Indices: 191023--191048 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
191013 AATTATTTAT
191023 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
191049 GTTGTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:201371 original size:77 final size:79
Alignment explanation
Indices: 201266--201420 Score: 201
Period size: 77 Copynumber: 2.0 Consensus size: 79
201256 TTCAAATTAA
201266 TTAAACTCTTATTTAAATAATTCAAATTAAATATCCATT-AAAGACTTATAAT-ATAAATTACAC
1 TTAAACTCTTATTTAAATAATTCAAATTAAATATCCATTAAAAGACTTATAATCA-AAATTACAC
201329 TC-TTTAATGTTTAT
65 TCTTTTAATGTTTAT
* * * * * * *
201343 TTAAACTTTTATTT-AATCATTCCGAATTAAATATCCATTAAAAGAGTTGTAATCAGAATTACAT
1 TTAAACTCTTATTTAAATAATT-CAAATTAAATATCCATTAAAAGACTTATAATCAAAATTACAC
201407 TCTTTTAATGTTTA
65 TCTTTTAATGTTTA
201421 CTTACTATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
76 6 0.09
77 29 0.43
78 20 0.30
79 12 0.18
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (79 bp):
TTAAACTCTTATTTAAATAATTCAAATTAAATATCCATTAAAAGACTTATAATCAAAATTACACT
CTTTTAATGTTTAT
Done.