Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009208.1 Hibiscus syriacus cultivar Beakdansim tig00112795_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: 140331
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Found at i:9542 original size:19 final size:19
Alignment explanation
Indices: 9500--9544 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9490 CCCTTTAAAA
* *
9500 TATATAATTTAAAATTAAT
1 TATATAATATAAAAATAAT
9519 TATATAATATAAAAAT-AT
1 TATATAATATAAAAATAAT
9537 TGATATAA
1 T-ATATAA
9545 GTTTATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TATATAATATAAAAATAAT
Found at i:10064 original size:15 final size:15
Alignment explanation
Indices: 10044--10091 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
10034 ACATTACCCA
10044 CCCCGCATCCGCCCG
1 CCCCGCATCCGCCCG
*
10059 CCCCGCATCCGCCTG
1 CCCCGCATCCGCCCG
* *
10074 CCCCACATCCGCTCG
1 CCCCGCATCCGCCCG
10089 CCC
1 CCC
10092 AGCTAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.08, C:0.65, G:0.17, T:0.10
Consensus pattern (15 bp):
CCCCGCATCCGCCCG
Found at i:10961 original size:2 final size:2
Alignment explanation
Indices: 10954--10986 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10944 ATCACATGGT
10954 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10987 CATTATACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13358 original size:33 final size:33
Alignment explanation
Indices: 13311--13414 Score: 174
Period size: 33 Copynumber: 3.2 Consensus size: 33
13301 ACAAAGTTTA
* *
13311 CGAT-AATTGAAATACTTAAATACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
13343 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
*
13376 CGATAAATTCAAATACTTAAAAACTTACAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
13409 CGATAA
1 CGATAA
13415 TTGAAACAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 4 0.06
33 64 0.94
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (33 bp):
CGATAAATTCAAATACTTAAAAACTTCCAAGTT
Found at i:13434 original size:21 final size:21
Alignment explanation
Indices: 13409--13450 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13399 CTTACAAGTT
13409 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
13430 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
13451 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:19748 original size:13 final size:13
Alignment explanation
Indices: 19730--19754 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19720 TCCTACATTG
19730 GTAGGATAACAAT
1 GTAGGATAACAAT
19743 GTAGGATAACAA
1 GTAGGATAACAA
19755 ACATGGGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (13 bp):
GTAGGATAACAAT
Found at i:20462 original size:21 final size:21
Alignment explanation
Indices: 20419--20466 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
20409 AATCGAGGAA
20419 AAAAATAAAAAAAACGTACCAC
1 AAAAATAAAAAAAACGTA-CAC
*
20441 AAAAATAAAAAAACATGT-CAC
1 AAAAATAAAAAAA-ACGTACAC
20462 AAAAA
1 AAAAA
20467 CATATCTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 13 0.54
23 3 0.12
ACGTcount: A:0.71, C:0.15, G:0.04, T:0.10
Consensus pattern (21 bp):
AAAAATAAAAAAAACGTACAC
Found at i:22327 original size:20 final size:20
Alignment explanation
Indices: 22298--22340 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22288 TAGAATTATT
*
22298 ATAATATTTTAAAATTAATA
1 ATAATATTTTAAAATAAATA
* *
22318 ATAATTTTTTATAATAAATA
1 ATAATATTTTAAAATAAATA
22338 ATA
1 ATA
22341 TTAATTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAATATTTTAAAATAAATA
Found at i:25214 original size:100 final size:100
Alignment explanation
Indices: 25041--25240 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
25031 ATTCAAAGAA
25041 AATTTAAAGCTTTCATTAAAGTAAAAGCAGTTTAGTTACATAATTTGACCACAATAACCAAAATC
1 AATTTAAAGCTTTCATTAAAGTAAAAGCAGTTTAGTTACATAATTTGACCACAATAACCAAAATC
25106 GATCAGAGCATATTTAACTCAATCAATTAGTACAT
66 GATCAGAGCATATTTAACTCAATCAATTAGTACAT
25141 AATTTAAAGCTTTCATTAAAGTAAAAGCAGTTTAGTTACATAATTTGACCACAATAACCAAAATC
1 AATTTAAAGCTTTCATTAAAGTAAAAGCAGTTTAGTTACATAATTTGACCACAATAACCAAAATC
25206 GATCAGAGCATATTTAACTCAATCAATTAGTACAT
66 GATCAGAGCATATTTAACTCAATCAATTAGTACAT
25241 GCCAACTATA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (100 bp):
AATTTAAAGCTTTCATTAAAGTAAAAGCAGTTTAGTTACATAATTTGACCACAATAACCAAAATC
GATCAGAGCATATTTAACTCAATCAATTAGTACAT
Found at i:25945 original size:23 final size:23
Alignment explanation
Indices: 25919--25987 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
25909 CACCACAGCT
*
25919 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
25942 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
25965 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
25988 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:26542 original size:13 final size:13
Alignment explanation
Indices: 26524--26555 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
26514 TACTAGCAAC
26524 TTAAACGAACTTA
1 TTAAACGAACTTA
26537 TTAAACGAACTTA
1 TTAAACGAACTTA
26550 TTAAAC
1 TTAAAC
26556 CCATATTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (13 bp):
TTAAACGAACTTA
Found at i:27771 original size:23 final size:23
Alignment explanation
Indices: 27745--27813 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
27735 CACCACAGCT
*
27745 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
27768 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
27791 CTTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
27814 TATAAGGTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:33412 original size:2 final size:2
Alignment explanation
Indices: 33405--33448 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
33395 ATTCATCTTC
33405 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33447 AT
1 AT
33449 CATTTTTCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34148 original size:21 final size:22
Alignment explanation
Indices: 34096--34148 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
34086 TTAAAGATCT
* *
34096 TATCA-CATAATTTCTCTTTTA
1 TATCATCATAATTTCTCTATCA
34117 TATTCAT-ATAATTTCT-TATCA
1 TA-TCATCATAATTTCTCTATCA
34138 TATCATCATAA
1 TATCATCATAA
34149 CATAGCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 4 0.15
21 11 0.41
22 12 0.44
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (22 bp):
TATCATCATAATTTCTCTATCA
Found at i:36647 original size:117 final size:117
Alignment explanation
Indices: 36448--36906 Score: 641
Period size: 117 Copynumber: 3.9 Consensus size: 117
36438 CATGTGAAGA
* * *
36448 CGCGTTTCTGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCTTATTATGT
1 CGCGTTTCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGT
*
36513 CACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAATGGTGAAAG
66 CACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAAG
* *
36565 CGCGTTTCCGAGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTATTATGT
1 CGCGTTTCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGT
* * * *
36630 CACTCATGTCCCTCGGGGGCTCTATTCATGTCAGTACCTAAAGTGATAAAAA
66 CACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAAG
* * * *
36682 CGCGTTTTCGGGGGGGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTTCCCTATTATGT
1 CGCGTTTCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGT
*
36747 CACTCATGTCCCTC-GGGGCACTATTCATGTCAGTGCCTAAAGTGGTGAAAG
66 CACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAAG
* * * * *
36798 TGCATTTTCGGGGGGGGGGGCACCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1 CGC-GTTTC---CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
* * * * * *
36863 ATATCACTCATGTCCCCCCGGGGTATTATTCATGCCAGTACCTA
62 ATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTA
36907 TTATGTTTGA
Statistics
Matches: 305, Mismatches: 32, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
116 34 0.11
117 185 0.61
120 65 0.21
121 21 0.07
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (117 bp):
CGCGTTTCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGT
CACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAAG
Found at i:36904 original size:237 final size:234
Alignment explanation
Indices: 36447--36906 Score: 674
Period size: 237 Copynumber: 2.0 Consensus size: 234
36437 TCATGTGAAG
*
36447 ACGCGTTTCTGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCTTATTATG
1 ACGCGTTTCTGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
36512 TCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAATGGTGAAAGCGCGTTTCCGAG
66 TCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAATGGTGAAAGCGCGTTTCCGAG
* * *
36577 GGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
131 GGCGCACCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATATCACTCATGTCCC
* * *
36642 TCGGGGGCTCTATTCATGTCAGTACCTAAAGTGATAAAA
196 CCCGGGGCTCTATTCATGCCAGTACCTAAAGTGATAAAA
** * *
36681 ACGCGTTT-TCGGGGGGGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTTCCCTATTAT
1 ACGCGTTTCT-GGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTAT
* * * *
36745 GTCACTCATGTCCCTC-GGGGCACTATTCATGTCAGTGCCTAAAGTGGTGAAAGTGCATTTTCGG
65 GTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAATGGTGAAAGCGC-GTTTC--
* * *
36809 GGGGGGGGGCACCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATATCACTCAT
127 -CGAGGGCGCACCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATATCACTCAT
*
36874 GTCCCCCCGGGG-TATTATTCATGCCAGTACCTA
191 GTCCCCCCGGGGCT-CTATTCATGCCAGTACCTA
36907 TTATGTTTGA
Statistics
Matches: 201, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
233 38 0.19
234 77 0.38
236 1 0.00
237 85 0.42
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (234 bp):
ACGCGTTTCTGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
TCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAATGGTGAAAGCGCGTTTCCGAG
GGCGCACCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATATCACTCATGTCCC
CCCGGGGCTCTATTCATGCCAGTACCTAAAGTGATAAAA
Found at i:37210 original size:23 final size:23
Alignment explanation
Indices: 37162--37212 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
37152 TGAAGTTTGA
* * *
37162 ATAAATTGGATAAAATGTTATGG
1 ATAAATTGAATAAAATGTGAAGG
37185 ATAAATTGAAT-AAATGTGAAGTG
1 ATAAATTGAATAAAATGTGAAG-G
37208 ATAAA
1 ATAAA
37213 GTCAACATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (23 bp):
ATAAATTGAATAAAATGTGAAGG
Found at i:38065 original size:21 final size:21
Alignment explanation
Indices: 38011--38077 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
38001 GGTGTCATAA
* *
38011 AACCCTGCGGGCTAGGCATGT
1 AACCCTGTGGGCTAGGAATGT
*
38032 AA-CCTGGTAGGCTAGGAATGT
1 AACCCT-GTGGGCTAGGAATGT
* *
38053 AACCCTGTGGGCTAGAAATAT
1 AACCCTGTGGGCTAGGAATGT
38074 AACC
1 AACC
38078 TTGCGGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 3 0.08
21 32 0.84
22 3 0.08
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (21 bp):
AACCCTGTGGGCTAGGAATGT
Found at i:38142 original size:42 final size:41
Alignment explanation
Indices: 38070--38160 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 41
38060 TGGGCTAGAA
* * * *
38070 ATATAACCTTGCGGAGATGACATATGAACTGGTGGGCTTGGC
1 ATATACCCTTGCGGAGATGACATATAAACTGGAGGG-ATGGC
* *
38112 ATATACCCTTGCGGAGATGGCATCTAAACTGGAGGGATGGC
1 ATATACCCTTGCGGAGATGACATATAAACTGGAGGGATGGC
*
38153 ATGTACCC
1 ATATACCC
38161 ATGTGGCATC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 11 0.26
42 31 0.74
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (41 bp):
ATATACCCTTGCGGAGATGACATATAAACTGGAGGGATGGC
Found at i:39952 original size:17 final size:17
Alignment explanation
Indices: 39899--39954 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
39889 GTTTAAATAA
*
39899 ATAATAATTATATAAAT
1 ATAATATTTATATAAAT
* *
39916 ATTAT-TTTA-ATAAAAA
1 ATAATATTTATAT-AAAT
39932 ATAATATTTATATAAAT
1 ATAATATTTATATAAAT
39949 ATAATA
1 ATAATA
39955 ATAAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 2 0.06
16 10 0.32
17 17 0.55
18 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATATTTATATAAAT
Found at i:39957 original size:30 final size:32
Alignment explanation
Indices: 39892--39964 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 32
39882 TTAATAAGTT
*
39892 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAA-AAATAATAATTATATAAATATTA-TATAA
*
39926 TAAAAAATAATATTTATATAAATA-TA-ATAA
1 TAAAAAATAATAATTATATAAATATTATATAA
39956 TAAAAAATA
1 TAAAAAATA
39965 TAAAAACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 12 0.32
32 2 0.05
33 19 0.51
34 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (32 bp):
TAAAAAATAATAATTATATAAATATTATATAA
Found at i:41969 original size:22 final size:22
Alignment explanation
Indices: 41932--41989 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
41922 TTATAAAATT
41932 AAATAAATATTATAAAACCTATAA
1 AAATAAA-ATT-TAAAACCTATAA
** *
41956 AAATAAAATTTAAAAGTTATGA
1 AAATAAAATTTAAAACCTATAA
*
41978 AATTAAAATTTA
1 AAATAAAATTTA
41990 TAAATTATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 20 0.67
23 3 0.10
24 7 0.23
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (22 bp):
AAATAAAATTTAAAACCTATAA
Found at i:43032 original size:15 final size:15
Alignment explanation
Indices: 43014--43116 Score: 118
Period size: 15 Copynumber: 6.5 Consensus size: 15
43004 AATTAAGGTT
43014 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
43029 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
43044 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
43059 ATTTATTATAAAATATTGA
1 ATTTATT-TTAAA-A-T-A
43078 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
43096 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
43110 ATTTATT
1 ATTTATT
43117 ATTATGGTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.16
15 44 0.57
16 4 0.05
17 1 0.01
18 2 0.03
19 2 0.03
20 1 0.01
21 4 0.05
22 7 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:43097 original size:52 final size:47
Alignment explanation
Indices: 43029--43250 Score: 159
Period size: 47 Copynumber: 4.5 Consensus size: 47
43019 TTTTAAAATA
* *
43029 ATTTATTATAAAATAATTTATTTTAAAATAATTTATTATAAAATATTGATTG
1 ATTTATTTTAAAATAATTTATTTT-AAATAATTTATTAT----TATGGATTG
*
43081 ATTTATTTTAAAATAATTTATTTTAAATAATTTATTATTATGGTTTG
1 ATTTATTTTAAAATAATTTATTTTAAATAATTTATTATTATGGATTG
* * *
43128 ATTTATTTTAAAATATGGATTGA-TTT--ATTATTATAGTT-GTATGGATTG
1 ATTTATTTTAAAATA---ATTTATTTTAAATAATT-TA-TTATTATGGATTG
* * *
43176 ATTTATTTT-AAATAATTTATTAGTATAGATTGATTTACTTTAAAATATGGATTG
1 ATTTATTTTAAAATAATTTATT--T-TA-AATAATTTA--TT--ATTATGGATTG
43230 ATTTATTTT-AAATAATTTATT
1 ATTTATTTTAAAATAATTTATT
43251 AGTATGAATT
Statistics
Matches: 142, Mismatches: 12, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
44 4 0.03
45 1 0.01
47 33 0.23
48 20 0.14
49 5 0.04
50 6 0.04
51 20 0.14
52 23 0.16
54 30 0.21
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (47 bp):
ATTTATTTTAAAATAATTTATTTTAAATAATTTATTATTATGGATTG
Found at i:43135 original size:22 final size:22
Alignment explanation
Indices: 43110--43161 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
43100 ATTTTAAATA
*
43110 ATTTATTATTATGGTTTGATTT
1 ATTTATTATTATGGATTGATTT
* *
43132 ATTT-TAAAATATGGATTGATTT
1 ATTTAT-TATTATGGATTGATTT
43154 A-TTATTAT
1 ATTTATTAT
43162 AGTTGTATGG
Statistics
Matches: 23, Mismatches: 5, Indels: 5
0.70 0.15 0.15
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (22 bp):
ATTTATTATTATGGATTGATTT
Found at i:43212 original size:32 final size:31
Alignment explanation
Indices: 43166--43890 Score: 284
Period size: 32 Copynumber: 24.7 Consensus size: 31
43156 TATTATAGTT
43166 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
*
43198 GTATAGATTGATTTACTTT-AA-AA--TA-T-
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
43224 G---GATTGATTTATTTTAAATAATTTATTA
1 GTATGATTGATTTATTTTAAATAATTTATTA
*
43252 GTATGAATTGATTTATTTTAAATAATTTATTT
1 GTATG-ATTGATTTATTTTAAATAATTTATTA
* * ** * *
43284 GTATGGATTGATTGA-TTGATTTATTTTA-AA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
* *
43314 ATATGAATTGATTTA--TT--AT--TGTAGTT-
1 GTATG-ATTGATTTATTTTAAATAATTTA-TTA
43340 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
*
43372 GTATAAATTGATTTATTTT--A-AA---A-TA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
43397 -TA-GA-TGATTTATTTT-AATAA--T-TTA
1 GTATGATTGATTTATTTTAAATAATTTATTA
*
43421 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
*
43453 GTATGGATTGATTTATTTTAAAATATGGATTGATT-
1 GTAT-GATTGATTTATTTT-AAATA---ATTTATTA
* * * * ** *
43488 -TATTATTGTAGTTGTATGGATTAATTTATTTTA
1 GTATGATTG-ATTTATTTTAAATAATTTA--TTA
* * * * ** *
43521 -AATAATTTATTAGTATGGATTGATTTAATTTA-AA
1 GTATGATTGATT--TAT---TTTAAATAATTTATTA
*
43555 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
*
43587 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
*
43619 GTATGGATTGATTTA-TTT--AT--TTTA-AA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
* *
43645 ATATGGATTGATTTA--TT--AT--TGTAGTT-
1 GTAT-GATTGATTTATTTTAAATAATTTA-TTA
*
43671 GTATAGATTGATTTA--TT--AT--TGTAGTT-
1 GTAT-GATTGATTTATTTTAAATAATTTA-TTA
43697 GTATAGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
*
43729 GTATATATTGATTTATTTT-AA-AA--TA-T-
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
*
43755 G---GATTAATTTATTTTAAATAATTTATTA
1 GTATGATTGATTTATTTTAAATAATTTATTA
*
43783 GTATGGATTGATTTAATTT--A-AA---A-TA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
43808 -TA-GATTGATTTATTTTAAATAATTTATTA
1 GTATGATTGATTTATTTTAAATAATTTATTA
*
43837 GTATGAATTGATTTATTTTAAATAATTTATTT
1 GTATG-ATTGATTTATTTTAAATAATTTATTA
*
43869 TTATGGATTGATTTATTTTAAA
1 GTAT-GATTGATTTATTTTAAA
43891 ATATGGATTG
Statistics
Matches: 547, Mismatches: 66, Indels: 160
0.71 0.09 0.21
Matches are distributed among these distances:
21 11 0.02
22 40 0.07
23 6 0.01
24 11 0.02
25 18 0.03
26 73 0.13
27 12 0.02
28 22 0.04
29 15 0.03
30 27 0.05
31 33 0.06
32 222 0.41
33 19 0.03
34 14 0.03
35 2 0.00
36 12 0.02
37 10 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (31 bp):
GTATGATTGATTTATTTTAAATAATTTATTA
Found at i:43231 original size:54 final size:54
Alignment explanation
Indices: 43167--43608 Score: 319
Period size: 54 Copynumber: 8.0 Consensus size: 54
43157 ATTATAGTTG
* *
43167 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTACTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAA
* *
43221 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTT-AA-AA
* * * * * * * * * ***
43277 TTTATTTGTATGGATTGATTGATTGATTTATTT-TAAAATATGAATTGATTTATTATTGTAGTTG
1 --TA--TGGATTGATTTATT--TTAAATAATTTAT-TAGTATGGATTGATTTA--ATT-TA-AAA
** *
43341 TATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAA
* *
43395 TATAGA-TGATTTATTTT-AATAA--T-TTAGTATGGATTGATTT-ATTTTAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAA
* * * ** * * * ***
43443 TA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA--ATT-TA-AAA
*
43502 TATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAA
*
43556 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAA
43609 TAATTTATTT
Statistics
Matches: 300, Mismatches: 57, Indels: 62
0.72 0.14 0.15
Matches are distributed among these distances:
45 1 0.00
46 7 0.02
47 3 0.01
48 8 0.03
49 16 0.05
50 1 0.00
52 7 0.02
53 11 0.04
54 117 0.39
55 6 0.02
56 7 0.02
57 3 0.01
58 40 0.13
59 3 0.01
60 24 0.08
61 1 0.00
62 41 0.14
64 3 0.01
65 1 0.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAA
Found at i:43249 original size:14 final size:14
Alignment explanation
Indices: 43230--43283 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
43220 ATATGGATTG
43230 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
43244 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
43262 ATTTATTTTAAATA
1 ATTTATTTTAAATA
43276 ATTTATTT
1 ATTTATTT
43284 GTATGGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 18 0.56
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:43398 original size:22 final size:21
Alignment explanation
Indices: 43373--43413 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
43363 AATTTATTAG
43373 TATAAATTGATTTATTTTAAAA
1 TATAAA-TGATTTATTTTAAAA
*
43395 TATAGATGATTTATTTTAA
1 TATAAATGATTTATTTTAA
43414 TAATTTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (21 bp):
TATAAATGATTTATTTTAAAA
Found at i:43562 original size:22 final size:22
Alignment explanation
Indices: 43534--43576 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
43524 AATTTATTAG
43534 TATGGATTGATTTAATTTAAAA
1 TATGGATTGATTTAATTTAAAA
*
43556 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTAATTTAAA
43577 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (22 bp):
TATGGATTGATTTAATTTAAAA
Found at i:43637 original size:54 final size:54
Alignment explanation
Indices: 43422--43854 Score: 258
Period size: 54 Copynumber: 7.9 Consensus size: 54
43412 AATAATTTAG
*
43422 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTT-TAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTAT-TAA
* * *
43476 TATGGATTGATTTA--TT--AT--TGTAGTTGTATGGATTAATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTA--TT---T-A-TTA--A
* * * * * * *
43533 GTATGGATTGATTTAATTTAAAATATGGATTGA-TT-TAT--TTTAAATAATTTATTAG
1 -TATGGATTGATTT-ATTTTAAATA---ATTTATTTGTATGGATTGATTTATTTATTAA
43588 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTA--TT--AA
* * * *
43646 TATGGATTGATTTA--TT--AT--TGTAGTTGTATAGATTGATTTA-TTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTA-T-TA---A
* * ** *
43698 TATAGATTGATTTATTTTAAATAATTTATTAGTATATATTGATTTATTT-TAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTAT-TAA
* * *
43752 TATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTA-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTT-ATTTATTAA
* * *
43806 TATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTT
43855 TAAATAATTT
Statistics
Matches: 300, Mismatches: 37, Indels: 85
0.71 0.09 0.20
Matches are distributed among these distances:
48 19 0.06
49 1 0.00
50 10 0.03
51 6 0.02
52 37 0.12
53 14 0.05
54 126 0.42
55 5 0.02
56 7 0.02
57 6 0.02
58 47 0.16
59 4 0.01
61 1 0.00
62 2 0.01
63 2 0.01
64 6 0.02
66 3 0.01
67 2 0.01
68 2 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTATTAA
Found at i:43679 original size:26 final size:26
Alignment explanation
Indices: 43650--43713 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
43640 TTAAAATATG
43650 GATTGATTTATTATTGTAGTTGTATA
1 GATTGATTTATTATTGTAGTTGTATA
43676 GATTGATTTATTATTGTAGTTGTATA
1 GATTGATTTATTATTGTAGTTGTATA
43702 GATTGATTTATT
1 GATTGATTTATT
43714 TTAAATAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.55
Consensus pattern (26 bp):
GATTGATTTATTATTGTAGTTGTATA
Found at i:43822 original size:26 final size:26
Alignment explanation
Indices: 43624--43822 Score: 79
Period size: 26 Copynumber: 7.5 Consensus size: 26
43614 TATTTGTATG
* * *
43624 GATTGATTTATTTATTTTAAAATATG
1 GATTGATTTATTTAATTTAATATATA
* *
43650 GATTGATTTA-TT-ATTGTAGTTGTATA
1 GATTGATTTATTTAATT-TA-ATATATA
* *
43676 GATTGATTTA-TT-ATTGTAGTTGTATA
1 GATTGATTTATTTAATT-TA-ATATATA
* *
43702 GATTGATTTATTTTAA-ATAATTTATTA
1 GATTGATTTA-TTTAATTTAATATA-TA
* * * *
43729 GTATAT-ATTGATTTATTTTAAAATATG
1 G-AT-TGATTTATTTAATTTAATATATA
* * *
43756 GATTAATTTATTTTAA-ATAATTTATTA
1 GATTGATTTA-TTTAATTTAATATA-TA
* * *
43783 GTATGGATTGATTTAATTTAAAATATA
1 G-ATTGATTTATTTAATTTAATATATA
43810 GATTGATTTATTT
1 GATTGATTTATTT
43823 TAAATAATTT
Statistics
Matches: 131, Mismatches: 28, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
24 2 0.02
25 5 0.04
26 73 0.56
27 25 0.19
28 24 0.18
29 2 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (26 bp):
GATTGATTTATTTAATTTAATATATA
Found at i:43834 original size:14 final size:14
Alignment explanation
Indices: 43815--43869 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
43805 ATATAGATTG
43815 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
43829 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
43847 ATTTATTTTAAATA
1 ATTTATTTTAAATA
43861 ATTTATTTT
1 ATTTATTTT
43870 TATGGATTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 19 0.58
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.30
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:43857 original size:54 final size:54
Alignment explanation
Indices: 43592--43858 Score: 278
Period size: 54 Copynumber: 4.9 Consensus size: 54
43582 TATTAGTATG
* * *
43592 GATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTAT-GA---ATTGATTTATTTTAAAATATA
* * * * ***
43650 GATTGATTTATTATT--GTAGTTGTA-TAG-ATTG-ATTTA-TTATTGTAGTTGTATA
1 GATTGATTTATT-TTAAATAATT-TATTAGTA-TGAATTGATTTATTTTA-AAATATA
*
43702 GATTGATTTATTTTAAATAATTTATTAGTAT-ATATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATTTTAAAATATA
* * *
43756 GATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTAATTTAAAATATA
1 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATA
43810 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
1 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
43859 TAATTTATTT
Statistics
Matches: 174, Mismatches: 23, Indels: 28
0.77 0.10 0.12
Matches are distributed among these distances:
51 9 0.05
52 22 0.13
53 8 0.05
54 103 0.59
55 7 0.04
56 2 0.01
57 7 0.04
58 14 0.08
59 2 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATA
Found at i:43882 original size:18 final size:19
Alignment explanation
Indices: 43861--43907 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 19
43851 ATTTTAAATA
43861 ATTTATTTT-TATGGATTG
1 ATTTATTTTATATGGATTG
43879 ATTTATTTTAAAATATGGATTG
1 ATTTATTTT---ATATGGATTG
43901 ATTTATT
1 ATTTATT
43908 ATTGTAGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.36
22 16 0.64
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (19 bp):
ATTTATTTTATATGGATTG
Found at i:43960 original size:31 final size:31
Alignment explanation
Indices: 43923--43981 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
43913 AGTTGTATGT
*
43923 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGTAAAACTAAA
43954 ATTATTTAAATCTCAGTATTGTAAAACT
1 ATTATTTAAATCTCAGTATTGTAAAACT
43982 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGTAAAACTAAA
Found at i:50584 original size:4 final size:4
Alignment explanation
Indices: 50575--50629 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
50565 AAATTTGATA
50575 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
50623 TATG TAT
1 TATG TAT
50630 AAATTAAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:54623 original size:16 final size:17
Alignment explanation
Indices: 54602--54634 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
54592 TTTTAATATA
54602 ATTTAAA-CATATTTTT
1 ATTTAAATCATATTTTT
*
54618 ATTTAAATTATATTTTT
1 ATTTAAATCATATTTTT
54635 TTATTTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTAAATCATATTTTT
Found at i:58830 original size:22 final size:22
Alignment explanation
Indices: 58780--58845 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
58770 GGCATGTGAA
*
58780 ATATGTCCCGAAAGACCT-CGT
1 ATATGTCCCGAAAGACCTATGT
*
58801 GTATGTCCC-AAAGGACCTATGT
1 ATATGTCCCGAAA-GACCTATGT
58823 ATATGTCCCGAAAGACCTATGT
1 ATATGTCCCGAAAGACCTATGT
58845 A
1 A
58846 ACCCTTGACT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.08
21 13 0.33
22 20 0.51
23 3 0.08
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (22 bp):
ATATGTCCCGAAAGACCTATGT
Found at i:59088 original size:2 final size:2
Alignment explanation
Indices: 59081--59156 Score: 143
Period size: 2 Copynumber: 38.0 Consensus size: 2
59071 AATTATCATA
59081 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
59123 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59157 GCATGTTCAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:59679 original size:30 final size:30
Alignment explanation
Indices: 59643--59703 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
59633 ATGAATAACT
*
59643 TTATCAAATTCAGGCTTATGGTATCGATAC
1 TTATCAAATTCAGGCTTATGGTATCAATAC
59673 TTATCAAATTCAGGCTTATGGTATCAATAC
1 TTATCAAATTCAGGCTTATGGTATCAATAC
59703 T
1 T
59704 GTTCAACTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (30 bp):
TTATCAAATTCAGGCTTATGGTATCAATAC
Found at i:62406 original size:22 final size:24
Alignment explanation
Indices: 62381--62424 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
62371 ATTAAAATTA
62381 TTAATAAAT-ATA-TTTTATTATT
1 TTAATAAATAATATTTTTATTATT
*
62403 TTAATAATTAATATTTTTATTA
1 TTAATAAATAATATTTTTATTA
62425 AAATATTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTAATAAATAATATTTTTATTATT
Found at i:65887 original size:4 final size:4
Alignment explanation
Indices: 65878--65921 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
65868 CCCAAACTGA
* * *
65878 TATG TATG TATG TATG TATG TATA TATA TATG TATG TACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
65922 AGTTAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:68241 original size:37 final size:37
Alignment explanation
Indices: 68191--68265 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
68181 TGAGTCACTC
68191 TACAAGTAGGAATAATTGAGGTGGGAAACCATTTGTT
1 TACAAGTAGGAATAATTGAGGTGGGAAACCATTTGTT
68228 TACAAGTAGGAATAATTGAGGTGGGAAACCATTTGTT
1 TACAAGTAGGAATAATTGAGGTGGGAAACCATTTGTT
68265 T
1 T
68266 GTCTATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (37 bp):
TACAAGTAGGAATAATTGAGGTGGGAAACCATTTGTT
Found at i:77973 original size:3 final size:3
Alignment explanation
Indices: 77957--78034 Score: 72
Period size: 3 Copynumber: 26.7 Consensus size: 3
77947 TGTAATATTA
* * * * *
77957 AAT AAT -AT ATT AAT AAT AAT TAT TAT TAT AAT TAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
78004 AAT AAT TAT AAT AAT AAT -AT AAAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
78035 AAAATGAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
2 6 0.10
3 55 0.87
4 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:78008 original size:21 final size:21
Alignment explanation
Indices: 77957--78022 Score: 87
Period size: 21 Copynumber: 3.0 Consensus size: 21
77947 TGTAATATTA
*
77957 AATAATATATTAATAATAATTAT
1 AATAATA-ATT-ATAATAATAAT
* *
77980 TATTATAATTATAATAATAAT
1 AATAATAATTATAATAATAAT
78001 AATAATAATTATAATAATAAT
1 AATAATAATTATAATAATAAT
78022 A
1 A
78023 TAAATAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 30 0.79
22 3 0.08
23 5 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATAATAATTATAATAATAAT
Found at i:78568 original size:113 final size:113
Alignment explanation
Indices: 78321--78884 Score: 1042
Period size: 113 Copynumber: 5.0 Consensus size: 113
78311 ATAGAATTAT
* * * *
78321 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
78386 ATTATGAACTTC--TCTGGAAAAGCTGCTCCATCAAGTGATAGATTTGA
66 ATTATGAAC-TCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
78433 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
78498 ATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
78546 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
78611 ATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
78659 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
78724 ATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
78772 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
78837 ATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
78885 ATCTTTGCTA
Statistics
Matches: 443, Mismatches: 7, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
111 2 0.00
112 70 0.16
113 371 0.84
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
Found at i:79812 original size:83 final size:83
Alignment explanation
Indices: 79668--80261 Score: 1107
Period size: 83 Copynumber: 7.2 Consensus size: 83
79658 CTTATTTCTA
*
79668 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
79733 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* * * *
79751 CTATTAGCAAATTCATCTTTCAAATTCAATGGTTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
79816 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
79834 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
79899 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
79917 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
*
79982 GAACACTTCCAGAAGATT
66 GAACACTTCCAGAAGATG
* *
80000 CTATGAGTAAATTCATCTTCCAAATTCAATTATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
80065 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
80083 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
80148 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
80166 CTATGAGTAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
80231 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
80249 CTATGAGCAAATT
1 CTATGAGCAAATT
80262 GCACTTATTC
Statistics
Matches: 496, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 496 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (83 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:81388 original size:16 final size:14
Alignment explanation
Indices: 81367--81424 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 14
81357 CTTGACCCCC
81367 CTTTTTCTTTTTGTCT
1 CTTTTTCTTTTT-T-T
81383 CTTTTTCTTTTTTTT
1 CTTTTTC-TTTTTTT
81398 CTTTTT-TTTTTCTT
1 CTTTTTCTTTTT-TT
*
81412 TTTTTTCTTTTTT
1 CTTTTTCTTTTTT
81425 CTTCAAGCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
13 5 0.13
14 8 0.21
15 12 0.32
16 8 0.21
17 5 0.13
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (14 bp):
CTTTTTCTTTTTTT
Found at i:81396 original size:9 final size:9
Alignment explanation
Indices: 81384--81424 Score: 64
Period size: 9 Copynumber: 4.3 Consensus size: 9
81374 TTTTTGTCTC
81384 TTTTTCTTT
1 TTTTTCTTT
81393 TTTTTCTTTTT
1 TTTTTC--TTT
81404 TTTTTCTTT
1 TTTTTCTTT
81413 TTTTTCTTT
1 TTTTTCTTT
81422 TTT
1 TTT
81425 CTTCAAGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 21 0.70
11 9 0.30
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:81407 original size:20 final size:20
Alignment explanation
Indices: 81384--81424 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
81374 TTTTTGTCTC
81384 TTTTTCTTTTTTTTCTTTTT
1 TTTTTCTTTTTTTTCTTTTT
81404 TTTTTCTTTTTTTTCTTTTT
1 TTTTTCTTTTTTTTCTTTTT
81424 T
1 T
81425 CTTCAAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (20 bp):
TTTTTCTTTTTTTTCTTTTT
Found at i:81425 original size:16 final size:16
Alignment explanation
Indices: 81368--81427 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
81358 TTGACCCCCC
*
81368 TTTTTCTTTTTGTC-TC
1 TTTTTCTTTTT-TCTTT
81384 TTTTTC-TTTTT-TTT
1 TTTTTCTTTTTTCTTT
*
81398 CTTTT-TTTTTTCTTT
1 TTTTTCTTTTTTCTTT
81413 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
81428 CAAGCATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 11 0.30
15 11 0.30
16 15 0.41
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTT
Found at i:86307 original size:16 final size:16
Alignment explanation
Indices: 86286--86318 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
86276 AAATTCTCGC
86286 TTGTTGTTTGTGTAGT
1 TTGTTGTTTGTGTAGT
86302 TTGTTGTTTGTGTAGT
1 TTGTTGTTTGTGTAGT
86318 T
1 T
86319 GTTCAACCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.30, T:0.64
Consensus pattern (16 bp):
TTGTTGTTTGTGTAGT
Found at i:92083 original size:18 final size:18
Alignment explanation
Indices: 92060--92109 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
92050 AAAATACTTG
92060 TAAATAAAATAAAACAT-A
1 TAAATAAAATAAAA-ATAA
**
92078 TAAATATTATAAAAATAA
1 TAAATAAAATAAAAATAA
92096 TAAAT-AAATAAAAA
1 TAAATAAAATAAAAA
92110 ATTTGACAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAATAAAATAAAAATAA
Found at i:94242 original size:12 final size:13
Alignment explanation
Indices: 94227--94291 Score: 66
Period size: 12 Copynumber: 5.1 Consensus size: 13
94217 TGGGCTTGTA
94227 ATATTA-AATAAT
1 ATATTATAATAAT
94239 ATATTA-ATATAAT
1 ATATTATA-ATAAT
*
94252 A-ATTATAATTAT
1 ATATTATAATAAT
94264 -TATTATAATAAT
1 ATATTATAATAAT
94276 AATAATTATAATAAT
1 -AT-ATTATAATAAT
94291 A
1 A
94292 ATATAAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
12 25 0.56
13 7 0.16
14 2 0.04
15 11 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATATTATAATAAT
Found at i:94253 original size:3 final size:3
Alignment explanation
Indices: 94233--94306 Score: 57
Period size: 3 Copynumber: 25.7 Consensus size: 3
94223 TGTAATATTA
* * * * *
94233 AAT AAT -AT ATT AAT -AT AAT AAT TAT AAT TAT TAT TAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
94279 AAT TAT AAT AAT AAT -AT AAAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
94307 AAAATGAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
2 8 0.14
3 48 0.83
4 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:94270 original size:21 final size:21
Alignment explanation
Indices: 94233--94294 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
94223 TGTAATATTA
*
94233 AATAATATATTAATATAATAAT
1 AATAAT-TATTATTATAATAAT
*
94255 TATAATTATTATTATAATAAT
1 AATAATTATTATTATAATAAT
* *
94276 AATAATTATAATAATAATA
1 AATAATTATTATTATAATA
94295 TAAATAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
21 30 0.86
22 5 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATAATTATTATTATAATAAT
Found at i:94660 original size:23 final size:22
Alignment explanation
Indices: 94626--94694 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
94616 TCTTCCTTGT
*
94626 AATATTATTTAAAAATTATTTAA
1 AATATTATTT-AAAATTAATTAA
94649 AATATTCA-TTAAAATTAATTAA
1 AATATT-ATTTAAAATTAATTAA
* * * *
94671 ATTATTTTTTACAA-TAATAAA
1 AATATTATTTAAAATTAATTAA
94692 AAT
1 AAT
94695 TTAAATATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 8 0.21
22 21 0.55
23 8 0.21
24 1 0.03
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (22 bp):
AATATTATTTAAAATTAATTAA
Found at i:96258 original size:33 final size:33
Alignment explanation
Indices: 96216--96293 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
96206 TTTATCGCAT
96216 TTTAAATTAGTCTTTAAATCTTACAATAAAAGA
1 TTTAAATTAGTCTTTAAATCTTACAATAAAAGA
96249 TTTAAATTAGTCTTTAAATCTTACAATAAAAGA
1 TTTAAATTAGTCTTTAAATCTTACAATAAAAGA
96282 TTTAAATTAGTC
1 TTTAAATTAGTC
96294 CATTTCAATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (33 bp):
TTTAAATTAGTCTTTAAATCTTACAATAAAAGA
Found at i:101295 original size:18 final size:18
Alignment explanation
Indices: 101269--101310 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
101259 TTGAGGGATT
*
101269 GTTAGGATTAAATTACAA
1 GTTATGATTAAATTACAA
101287 GTTATGATTAAATTACAA
1 GTTATGATTAAATTACAA
101305 GTTATG
1 GTTATG
101311 TGCTTAGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (18 bp):
GTTATGATTAAATTACAA
Found at i:102225 original size:27 final size:27
Alignment explanation
Indices: 102187--102240 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
102177 CCTAGACTAA
*
102187 GTAGTTGTTTTAAATTAATTAAGGAAT
1 GTAGTTATTTTAAATTAATTAAGGAAT
102214 GTAGTTATTTTAAATTAATTAAGGAAT
1 GTAGTTATTTTAAATTAATTAAGGAAT
102241 CCAAGTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (27 bp):
GTAGTTATTTTAAATTAATTAAGGAAT
Found at i:103211 original size:24 final size:24
Alignment explanation
Indices: 103184--103271 Score: 79
Period size: 24 Copynumber: 3.7 Consensus size: 24
103174 ATTTCCGACT
*
103184 TGAATTCTGTTTTGATACATGACC
1 TGAATTCTGTTTTGATACATGATC
* * * *
103208 TGAATTTTGTTCTGATTTC-TGATT
1 TGAATTCTGTTTTGA-TACATGATC
* * * *
103232 TGGATTCTGTTATGATATATGTTC
1 TGAATTCTGTTTTGATACATGATC
103256 TGAATTCTGTTTTGAT
1 TGAATTCTGTTTTGAT
103272 TTCTGATATC
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
23 1 0.02
24 45 0.94
25 2 0.04
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTTTGATACATGATC
Found at i:103239 original size:48 final size:48
Alignment explanation
Indices: 103170--103278 Score: 137
Period size: 48 Copynumber: 2.3 Consensus size: 48
103160 AAATATTTTA
* * * *
103170 TCTGATTTCCGACTTGAATTCTGTTTTGATACATGACCTGAATTTTGT
1 TCTGATTTCTGATTTGAATTCTGTTATGATACATGACCTGAATTCTGT
* * **
103218 TCTGATTTCTGATTTGGATTCTGTTATGATATATGTTCTGAATTCTGT
1 TCTGATTTCTGATTTGAATTCTGTTATGATACATGACCTGAATTCTGT
*
103266 TTTGATTTCTGAT
1 TCTGATTTCTGAT
103279 ATCTCCGTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.19, C:0.13, G:0.17, T:0.50
Consensus pattern (48 bp):
TCTGATTTCTGATTTGAATTCTGTTATGATACATGACCTGAATTCTGT
Found at i:104835 original size:21 final size:21
Alignment explanation
Indices: 104811--104850 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
104801 AACTGCCTAG
104811 TACAGAGG-GTATCAGTACTCC
1 TACA-AGGAGTATCAGTACTCC
*
104832 TACAAGGAGTATCGGTACT
1 TACAAGGAGTATCAGTACT
104851 ACCTTTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (21 bp):
TACAAGGAGTATCAGTACTCC
Found at i:105079 original size:20 final size:20
Alignment explanation
Indices: 105054--105102 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
105044 CTTACCTTTG
* *
105054 GTATCGGTACCATATGGACA
1 GTATCGATACCATATAGACA
105074 GTATCGATACCATATAGACA
1 GTATCGATACCATATAGACA
105094 GTATCGATA
1 GTATCGATA
105103 TTGTTCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (20 bp):
GTATCGATACCATATAGACA
Found at i:106291 original size:27 final size:27
Alignment explanation
Indices: 106261--106326 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
106251 GGCCAACTCA
* * *
106261 ACCCGACCCAAAAAATTTACATCCTTC
1 ACCCGACCCAAAAAATATACACCCTCC
* * *
106288 ACCCGATCCGAAAAATATATACCCTCC
1 ACCCGACCCAAAAAATATACACCCTCC
*
106315 ACCCGACGCAAA
1 ACCCGACCCAAA
106327 TCTGACCCGA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.38, G:0.08, T:0.17
Consensus pattern (27 bp):
ACCCGACCCAAAAAATATACACCCTCC
Found at i:106958 original size:17 final size:17
Alignment explanation
Indices: 106936--106969 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
106926 GAGGAGTATA
106936 ATTTAAT-ATATTTAAAT
1 ATTTAATAAT-TTTAAAT
106953 ATTTAATAATTTTAAAT
1 ATTTAATAATTTTAAAT
106970 TTATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTAATAATTTTAAAT
Found at i:111601 original size:21 final size:21
Alignment explanation
Indices: 111577--111639 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
111567 TTATTAATGC
111577 ATGCATGTATGTATAATATGT
1 ATGCATGTATGTATAATATGT
*
111598 ATGCATATATGTATAAT-T-T
1 ATGCATGTATGTATAATATGT
** * *
111617 ATTAATGCATGTATGATATGT
1 ATGCATGTATGTATAATATGT
111638 AT
1 AT
111640 ATTAATGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 13 0.38
20 2 0.06
21 19 0.56
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
ATGCATGTATGTATAATATGT
Found at i:111642 original size:23 final size:23
Alignment explanation
Indices: 111568--111646 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 23
111558 ATATATAATT
*
111568 TATTAATGCATGCATG-TATGTA
1 TATTAATGCATGTATGATATGTA
* *
111590 TAATATGTATGCATATATGTATAAT-T-
1 T-AT-T-AATGCATGTATG-AT-ATGTA
111616 TATTAATGCATGTATGATATGTA
1 TATTAATGCATGTATGATATGTA
111639 TATTAATG
1 TATTAATG
111647 TAATATGCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
21 2 0.05
22 4 0.09
23 20 0.45
24 2 0.05
25 11 0.25
26 1 0.02
27 2 0.05
28 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.44
Consensus pattern (23 bp):
TATTAATGCATGTATGATATGTA
Found at i:111717 original size:42 final size:42
Alignment explanation
Indices: 111665--111744 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
111655 ATAGTATTTC
*
111665 TATAAACTATAT-AAGTAATTTACTTTATATAGTTTATATATA
1 TATAAACTATATAAAGTAAATTAC-TTATATAGTTTATATATA
*
111707 TATATACTATATAAAGTAAATTACTTATATAGTTTATA
1 TATAAACTATATAAAGTAAATTACTTATATAGTTTATA
111745 GAAATACTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 25 0.71
43 10 0.29
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (42 bp):
TATAAACTATATAAAGTAAATTACTTATATAGTTTATATATA
Found at i:111804 original size:7 final size:7
Alignment explanation
Indices: 111794--111871 Score: 59
Period size: 7 Copynumber: 11.3 Consensus size: 7
111784 TAGTTTATAG
111794 AAACCCT
1 AAACCCT
111801 AAACCCT
1 AAACCCT
* *
111808 AAATCAT
1 AAACCCT
*
111815 AAACCAT
1 AAACCCT
*
111822 ACACCCT
1 AAACCCT
**
111829 -AACTTT
1 AAACCCT
*
111835 AAACCAT
1 AAACCCT
*
111842 AAACACT
1 AAACCCT
*
111849 AAACACT
1 AAACCCT
*
111856 AAACCAT
1 AAACCCT
111863 AAACCCT
1 AAACCCT
111870 AA
1 AA
111872 TATAAATAGA
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
6 3 0.05
7 52 0.95
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:111827 original size:21 final size:21
Alignment explanation
Indices: 111794--111871 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
111784 TAGTTTATAG
*
111794 AAACCCTAAACCCTAAATCAT
1 AAACCATAAACCCTAAATCAT
* * *
111815 AAACCATACACCCTAACT-TT
1 AAACCATAAACCCTAAATCAT
*
111835 AAACCATAAACACTAAA-CACT
1 AAACCATAAACCCTAAATCA-T
111856 AAACCATAAACCCTAA
1 AAACCATAAACCCTAA
111872 TATAAATAGA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 15 0.33
21 31 0.67
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (21 bp):
AAACCATAAACCCTAAATCAT
Found at i:111839 original size:41 final size:41
Alignment explanation
Indices: 111794--111871 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
111784 TAGTTTATAG
* * *
111794 AAACCCTAAACCCTAAATCA-TAAACCATACACCCTAACTTT
1 AAACCATAAACACTAAA-CACTAAACCATAAACCCTAACTTT
111835 AAACCATAAACACTAAACACTAAACCATAAACCCTAA
1 AAACCATAAACACTAAACACTAAACCATAAACCCTAA
111872 TATAAATAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 2 0.06
41 31 0.94
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (41 bp):
AAACCATAAACACTAAACACTAAACCATAAACCCTAACTTT
Found at i:112018 original size:13 final size:13
Alignment explanation
Indices: 111986--112012 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
111976 TAATTTACAT
111986 TTAAATAATTTTA
1 TTAAATAATTTTA
111999 TTAAATAATTTTA
1 TTAAATAATTTTA
112012 T
1 T
112013 ATAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:112048 original size:20 final size:19
Alignment explanation
Indices: 112016--112074 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 19
112006 ATTTTATATA
*
112016 ATAT-GTATGTATAAACCAT
1 ATATAGTATATATAAACC-T
*
112035 GTATAGTATATATAAA-CT
1 ATATAGTATATATAAACCT
112053 ATATA-TATATATAAA-CT
1 ATATAGTATATATAAACCT
112070 ATATA
1 ATATA
112075 AAGTAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 17 0.47
18 5 0.14
19 4 0.11
20 10 0.28
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (19 bp):
ATATAGTATATATAAACCT
Found at i:112055 original size:9 final size:9
Alignment explanation
Indices: 112043--112076 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
112033 ATGTATAGTA
112043 TATATAAAC
1 TATATAAAC
*
112052 TATATATA-
1 TATATAAAC
112060 TATATAAAC
1 TATATAAAC
112069 TATATAAA
1 TATATAAA
112077 GTAAATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (9 bp):
TATATAAAC
Found at i:112063 original size:17 final size:18
Alignment explanation
Indices: 112036--112074 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
112026 ATAAACCATG
112036 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
112054 TATA-TATATATAAACTA
1 TATAGTATATATAAACTA
112071 TATA
1 TATA
112075 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (18 bp):
TATAGTATATATAAACTA
Found at i:112152 original size:48 final size:49
Alignment explanation
Indices: 112058--112166 Score: 148
Period size: 49 Copynumber: 2.2 Consensus size: 49
112048 AAACTATATA
* * **
112058 TATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
*
112107 TATACATAAACTATATAAAGT-AATAAAATATATAGTTTATAGAAACCC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
*
112155 TAAAGCATAAAC
1 TATA-CATAAAC
112167 CATAAACCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 26 0.49
49 27 0.51
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.32
Consensus pattern (49 bp):
TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
Found at i:112194 original size:21 final size:22
Alignment explanation
Indices: 112149--112220 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 22
112139 TAGTTTATAG
* *
112149 AAACC-CTAAAGCA-TAAACCAT
1 AAACCACTAAA-CACTAAATCAC
**
112170 AAACCA-TAAACTTTAAATCAC
1 AAACCACTAAACACTAAATCAC
*
112191 AAA-CACTAAACACTAAATCAT
1 AAACCACTAAACACTAAATCAC
112212 AAACC-CTAA
1 AAACCACTAA
112221 TATAAATAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
20 3 0.07
21 37 0.90
22 1 0.02
ACGTcount: A:0.54, C:0.26, G:0.01, T:0.18
Consensus pattern (22 bp):
AAACCACTAAACACTAAATCAC
Found at i:112599 original size:20 final size:20
Alignment explanation
Indices: 112567--112632 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 20
112557 ATTTTATATA
*
112567 ATAT-GTATGTATAAACCAT
1 ATATAGTATATATAAACCAT
* *
112586 GTATAGTATATATAAACTAT
1 ATATAGTATATATAAACCAT
* *
112606 ATATA-CATATATAAACTAT
1 ATATAGTATATATAAACCAT
*
112625 ATAAAGTA
1 ATATAGTA
112633 AATTACTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 20 0.53
20 18 0.47
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (20 bp):
ATATAGTATATATAAACCAT
Found at i:112606 original size:9 final size:9
Alignment explanation
Indices: 112594--112629 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
112584 ATGTATAGTA
112594 TATATAAAC
1 TATATAAAC
*
112603 TATATATAC
1 TATATAAAC
112612 ATATATAAAC
1 -TATATAAAC
112622 TATATAAA
1 TATATAAA
112630 GTAAATTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (9 bp):
TATATAAAC
Found at i:112717 original size:49 final size:49
Alignment explanation
Indices: 112616--112719 Score: 131
Period size: 48 Copynumber: 2.1 Consensus size: 49
112606 ATATACATAT
* ** *
112616 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATAC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
*
112665 ATAAACTATATAAAGT-AGTAAAATATATAGTTTATAGAAAC-CTTAAATC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC-TAAA-C
112714 ATAAAC
1 ATAAAC
112720 CCTAAACCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.02
48 24 0.50
49 23 0.48
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
Found at i:112748 original size:553 final size:550
Alignment explanation
Indices: 111889--113399 Score: 2523
Period size: 553 Copynumber: 2.8 Consensus size: 550
111879 AGACAAACAC
* *
111889 TAATATGACATGTACTACTATTTATGAACCATATAATATGGAATGTGACATACTAATTATTTAGC
1 TAATATGGCATGTACTACTATTTATGAACCATATAATATGGAATGTGACATACTAATTATTTAAC
111954 ACCTAATTAATCATGTTTTATATAATTTACA-TT---TAA----A-TAATTTTATTAAATAATTT
66 ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
112010 TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATATATAAACTATATA
131 TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATATATAAACTATATA
112075 AAGTAAATTACTTATATAGTTTATAGAAACACTATACATAAACTATATAAAGTAATAAAATATAT
196 AAGTAAATTACTTATATAGTTTATAGAAACACTATACATAAACTATATAAAGTAATAAAATATAT
* *
112140 AGTTTATAGAAACCCTAAAGCATAAACCATAAACCATAAACTTTAAATCACAAACACTAAACACT
261 AGTTTATAGAAACCCTAAATCATAAACCATAAACCCTAAACTTTAAA-CACAAACACTAAACACT
* *
112205 AAATCATAAACCCTAATATAAATAGACTATCACTAATGCATATATATTTGTAATAAAAGAGTGGT
325 AAATCATAAACCCTAATATAAATGGACTATCACTAATGCATATATATTTGTAATAAAAGAGTGGG
* *
112270 CTTGCATTGAGCCTATCTAAATTAATGTTAATGGACTAGCACTATTGCAATTGGACTTATTTTTG
390 CTTGCATTGAGCCTATCTAAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTG
* * *
112335 GGTTTTATTATTACTTATTCATAACAACAAAATAAATGGGCTATTAATGTGAATTAATCTAACAT
455 GGTTTTATTATTACTTATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACAT
*
112400 GCAACTAAAATACTAATTATGCAAATGAAAT
520 GCAACTAAAATACAAATTATGCAAATGAAAT
112431 TAATATGGCATGTACTACTATTTATGAACCATATAATATGGAATGTGACATACTAATTATTTAAC
1 TAATATGGCATGTACTACTATTTATGAACCATATAATATGGAATGTGACATACTAATTATTTAAC
112496 ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
66 ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
112561 TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATACATATATAAACTATA
131 TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATAT--ATATATAAACTATA
*
112626 TAAAGTAAATTACTTATATAGTTTATAGAAACACTATACATAAACTATATAAAGTAGTAAAATAT
194 TAAAGTAAATTACTTATATAGTTTATAGAAACACTATACATAAACTATATAAAGTAATAAAATAT
* * *
112691 ATAGTTTATAGAAACCTTAAATCATAAACCCTAAACCCTAAACTTTAAACGACAAACATTAAACA
259 ATAGTTTATAGAAACCCTAAATCATAAACCATAAACCCTAAACTTTAAAC-ACAAACACTAAACA
*
112756 CTAAATCATAAACCCTAATATAAATGGACTAGCACTAATGCATATATATTTGTAATAAAAGAGTG
323 CTAAATCATAAACCCTAATATAAATGGACTATCACTAATGCATATATATTTGTAATAAAAGAGTG
* * *
112821 GGCTTGCATTGGGCCTATGTAAACTAGTGTTAATGGACTAGCACTATTGCAAATGGACTTATTTT
388 GGCTTGCATTGAGCCTATCTAAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTT
112886 TGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAAC
453 TGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAAC
* *
112951 ATGCAACTAAAATACAAATTATGCAATTTAAAT
518 ATGCAACTAAAATACAAATTATGCAAATGAAAT
*
112984 TAATATGGCATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
1 TAATATGGCATGTACTACTATTTATGAACCATATAATATGGAATGTGACATACTAATTATTTAAC
113049 ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
66 ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
113114 TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATA-A-AAACTATATA
131 TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATATATAAACTATATA
*
113177 AAGTAAATTACTTATATAGTTTATAGAAACACTATGCATAAACTATATAAAGTAATAAAATATAT
196 AAGTAAATTACTTATATAGTTTATAGAAACACTATACATAAACTATATAAAGTAATAAAATATAT
* * **
113242 AGTTTATAGAAACCCTAAATCCTAAATCATAAACCCT-AA-TTCTAAACTTTAAAC-CATAAACA
261 AGTTTATAGAAACCCTAAATCATAAACCATAAACCCTAAACTT-TAAAC-ACAAACAC-TAAACA
* *
113304 CTAAACCATAAACCCTAATTTAAATGGACTAGT-ACTAATGCATATATATTTGTAATAAAAGAGT
323 CTAAATCATAAACCCTAATATAAATGGACTA-TCACTAATGCATATATATTTGTAATAAAAGAGT
* * *
113368 GGGCTTATGTATTG-GCCTTTGTAAACTAATGT
387 GGGC-T-TGCATTGAGCCTATCTAAACTAATGT
113400 ATTGCCAAAA
Statistics
Matches: 913, Mismatches: 39, Indels: 27
0.93 0.04 0.03
Matches are distributed among these distances:
542 94 0.10
543 2 0.00
546 3 0.00
547 2 0.00
548 81 0.09
549 123 0.13
550 8 0.01
551 71 0.08
552 1 0.00
553 528 0.58
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (550 bp):
TAATATGGCATGTACTACTATTTATGAACCATATAATATGGAATGTGACATACTAATTATTTAAC
ACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTT
TATATAATATGTATGTATAAACCATGTATAGTATATATAAACTATATATATATATAAACTATATA
AAGTAAATTACTTATATAGTTTATAGAAACACTATACATAAACTATATAAAGTAATAAAATATAT
AGTTTATAGAAACCCTAAATCATAAACCATAAACCCTAAACTTTAAACACAAACACTAAACACTA
AATCATAAACCCTAATATAAATGGACTATCACTAATGCATATATATTTGTAATAAAAGAGTGGGC
TTGCATTGAGCCTATCTAAACTAATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTGG
GTTTTATTATTACTTATTCATAACAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATG
CAACTAAAATACAAATTATGCAAATGAAAT
Found at i:113163 original size:20 final size:21
Alignment explanation
Indices: 113114--113164 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
113104 TAAATAATTT
*
113114 TATATAATATGTATGTATAAAC
1 TATAT-ATATGTATATATAAAC
* *
113136 CATGTATA-GTATATATAAAC
1 TATATATATGTATATATAAAC
113156 TATATATAT
1 TATATATAT
113165 AAAAACTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 3 0.13
22 3 0.13
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (21 bp):
TATATATATGTATATATAAAC
Found at i:113165 original size:15 final size:15
Alignment explanation
Indices: 113140--113176 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
113130 ATAAACCATG
*
113140 TATAGTATATATAAAC
1 TATA-TATATAAAAAC
113156 TATATATATAAAAAC
1 TATATATATAAAAAC
113171 TATATA
1 TATATA
113177 AAGTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (15 bp):
TATATATATAAAAAC
Found at i:113279 original size:14 final size:14
Alignment explanation
Indices: 113251--113321 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 14
113241 TAGTTTATAG
* *
113251 AAACCCTAAATCCT
1 AAACCATAAACCCT
*
113265 AAATCATAAACCCT
1 AAACCATAAACCCT
** **
113279 AATTC-TAAACTTT
1 AAACCATAAACCCT
*
113292 AAACCATAAACACT
1 AAACCATAAACCCT
113306 AAACCATAAACCCT
1 AAACCATAAACCCT
113320 AA
1 AA
113322 TTTAAATGGA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
13 9 0.20
14 36 0.80
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:113505 original size:14 final size:14
Alignment explanation
Indices: 113486--113532 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
113476 ATTTTTTATT
113486 TATATAAATTAAAC
1 TATATAAATTAAAC
113500 TATAT-AATT----
1 TATATAAATTAAAC
113509 TATATAAATTAAAC
1 TATATAAATTAAAC
*
113523 TATATTAATT
1 TATATAAATT
113533 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:113510 original size:23 final size:24
Alignment explanation
Indices: 113483--113533 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 24
113473 ATTATTTTTT
113483 ATTTATATAAATTAAACTATA-TA
1 ATTTATATAAATTAAACTATATTA
113506 ATTTATATAAATTAAACTATATTA
1 ATTTATATAAATTAAACTATATTA
113530 ATTT
1 ATTT
113534 TCCTTTGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTTATATAAATTAAACTATATTA
Found at i:113591 original size:10 final size:11
Alignment explanation
Indices: 113570--113604 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
113560 TCTAATTTAC
113570 TTTTAAATAAT
1 TTTTAAATAAT
*
113581 TTTTTAA-AAT
1 TTTTAAATAAT
113591 TTTTAAATAAT
1 TTTTAAATAAT
113602 TTT
1 TTT
113605 ATATAATAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAATAAT
Found at i:115758 original size:22 final size:21
Alignment explanation
Indices: 115725--115766 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
115715 TAACTCAACC
*
115725 ATAAATTCTAAACCTTAAATT
1 ATAAAATCTAAACCTTAAATT
115746 ATAAAATCATAAACCTTAAAT
1 ATAAAATC-TAAACCTTAAAT
115767 AAAATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAATCTAAACCTTAAATT
Found at i:126027 original size:12 final size:12
Alignment explanation
Indices: 126010--126060 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
126000 TTCAAAGAGG
126010 TTTTATATTTAA
1 TTTTATATTTAA
126022 TTTTATA-TTATA
1 TTTTATATTTA-A
126034 TTTTAT-TTTAA
1 TTTTATATTTAA
*
126045 ATTTA-ATATTAA
1 TTTTATAT-TTAA
126057 TTTT
1 TTTT
126061 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:126047 original size:24 final size:23
Alignment explanation
Indices: 126010--126113 Score: 86
Period size: 24 Copynumber: 4.3 Consensus size: 23
126000 TTCAAAGAGG
*
126010 TTTTATATTTAATTTTATATTATA
1 TTTTATATTTAATTTAATATTA-A
126034 TTTTAT-TTTAAATTTAATATTAA
1 TTTTATATTT-AATTTAATATTAA
* * * *
126057 TTTTTTAAATAAATTAAATATTAA
1 TTTTAT-ATTTAATTTAATATTAA
*
126081 TTTT-TAATATTATATTAAATATTAA
1 TTTTAT-AT-TTA-ATTTAATATTAA
126106 TTTTATAT
1 TTTTATAT
126114 CATATAATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
23 12 0.18
24 35 0.52
25 19 0.28
26 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTATATTTAATTTAATATTAA
Found at i:126064 original size:20 final size:22
Alignment explanation
Indices: 126039--126109 Score: 74
Period size: 25 Copynumber: 3.1 Consensus size: 22
126029 TTATATTTTA
126039 TTTTAAAT-TT-AATATTAATT
1 TTTTAAATATTAAATATTAATT
126059 TTTTAAATAAATTAAATATTAATT
1 TTTTAAAT--ATTAAATATTAATT
*
126083 TTTAATATTATATTAAATATTAATT
1 TTT--TA-AATATTAAATATTAATT
126108 TT
1 TT
126110 ATATCATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
20 8 0.19
23 2 0.05
24 13 0.30
25 16 0.37
26 2 0.05
27 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAAATATTAAATATTAATT
Found at i:126085 original size:25 final size:26
Alignment explanation
Indices: 126041--126109 Score: 99
Period size: 24 Copynumber: 2.8 Consensus size: 26
126031 ATATTTTATT
*
126041 TTAAATTTAATATTAATTTTTTAA-A
1 TTAAATTAAATATTAATTTTTTAATA
126066 -TAAATTAAATATTAA-TTTTTAATA
1 TTAAATTAAATATTAATTTTTTAATA
*
126090 TTATATTAAATATTAATTTT
1 TTAAATTAAATATTAATTTT
126110 ATATCATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.18
24 15 0.38
25 14 0.36
26 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTAAATTAAATATTAATTTTTTAATA
Found at i:126097 original size:18 final size:18
Alignment explanation
Indices: 126012--126113 Score: 57
Period size: 18 Copynumber: 5.3 Consensus size: 18
126002 CAAAGAGGTT
126012 TTATATTTAA-TTTT-ATA
1 TTATA-TTAATTTTTAATA
* *
126029 TTATATTTTATTTTAAAT-
1 TTATA-TTAATTTTTAATA
126047 TTAATATTAATTTTTTAAATAAA
1 TT-ATATTAA-TTTTT-AAT--A
126070 TTAAATATTAATTTTTAATA
1 TT--ATATTAATTTTTAATA
* * *
126090 TTATATTAAATATTAATT
1 TTATATTAATTTTTAATA
126108 TTATAT
1 TTATAT
126114 CATATAATTT
Statistics
Matches: 69, Mismatches: 7, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
17 9 0.13
18 27 0.39
19 9 0.13
20 6 0.09
22 3 0.04
23 7 0.10
24 8 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATATTAATTTTTAATA
Found at i:126119 original size:25 final size:23
Alignment explanation
Indices: 126049--126119 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 23
126039 TTTTAAATTT
* *
126049 AATATTAATTTTTTAAATAAATTA
1 AATATTAA-TTTTTATATATATTA
126073 AATATTAATTTTTAATATTATATTA
1 AATATTAATTTTT-ATA-TATATTA
126098 AATATTAATTTTATATCATATA
1 AATATTAATTTT-TAT-ATATA
126120 ATTTTTTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 5 0.12
24 10 0.24
25 24 0.59
26 2 0.05
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTAATTTTTATATATATTA
Found at i:126676 original size:31 final size:31
Alignment explanation
Indices: 126618--126677 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
126608 TAGTTGTATG
* * * *
126618 AATTATTTAAATTTCAGTTTTGTAAAACTAA
1 AATTATTTAAATCTCAATATTGCAAAACTAA
126649 AATTATTTAAATCTCAATATTGCAAAACT
1 AATTATTTAAATCTCAATATTGCAAAACT
126678 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (31 bp):
AATTATTTAAATCTCAATATTGCAAAACTAA
Found at i:128313 original size:17 final size:17
Alignment explanation
Indices: 128291--128323 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
128281 TTTTCAAAGG
128291 CATGCACCGATGCATCC
1 CATGCACCGATGCATCC
*
128308 CATGCATCGATGCATC
1 CATGCACCGATGCATC
128324 AATGAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.21
Consensus pattern (17 bp):
CATGCACCGATGCATCC
Found at i:128397 original size:45 final size:46
Alignment explanation
Indices: 128300--128413 Score: 142
Period size: 45 Copynumber: 2.5 Consensus size: 46
128290 GCATGCACCG
* * *
128300 ATGCATCCCATGCATCGATGCA-TCAATGAATAAATTGAAACATTGA
1 ATGCATTCCATGCATCGATGCACTC-ATGAATAAATTAAAACATCGA
* *
128346 ATGCATTCCATGCATCGATGCACTC-TGATTCAATTAAAACATCGA
1 ATGCATTCCATGCATCGATGCACTCATGAATAAATTAAAACATCGA
**
128391 ATGCATTTGATGCATCGATGCAC
1 ATGCATTCCATGCATCGATGCAC
128414 AATCCATGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
45 37 0.62
46 21 0.35
47 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (46 bp):
ATGCATTCCATGCATCGATGCACTCATGAATAAATTAAAACATCGA
Found at i:128596 original size:17 final size:19
Alignment explanation
Indices: 128574--128622 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 19
128564 ATCGACACTC
128574 GCATCGATGCACT-TCA-T
1 GCATCGATGCACTCTCAGT
*
128591 GCATCGATGCACTCTTAGT
1 GCATCGATGCACTCTCAGT
*
128610 GCACCGATGCACT
1 GCATCGATGCACT
128623 AGGAGTCCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 13 0.46
18 2 0.07
19 13 0.46
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (19 bp):
GCATCGATGCACTCTCAGT
Found at i:128617 original size:19 final size:17
Alignment explanation
Indices: 128578--128622 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
128568 ACACTCGCAT
*
128578 CGATGCACTTCATGCAT
1 CGATGCACTTCATGCAC
*
128595 CGATGCACTCTTAGTGCAC
1 CGATGCACT-TCA-TGCAC
128614 CGATGCACT
1 CGATGCACT
128623 AGGAGTCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 2 0.08
19 13 0.54
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (17 bp):
CGATGCACTTCATGCAC
Found at i:136920 original size:21 final size:21
Alignment explanation
Indices: 136896--136935 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
136886 TTTTCAAAGG
136896 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
136917 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
136936 GAATAAATTG
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:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:136985 original size:19 final size:19
Alignment explanation
Indices: 136949--136999 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
136939 TAAATTGAAA
136949 CATCGAATGCA-T-TCCATG
1 CATCG-ATGCACTCTCCATG
136967 CATCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
136986 CATCGATGCACTCT
1 CATCGATGCACTCT
137000 GATTCAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.16
18 6 0.19
19 20 0.65
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCCATG
Found at i:137024 original size:64 final size:65
Alignment explanation
Indices: 136896--137060 Score: 217
Period size: 64 Copynumber: 2.5 Consensus size: 65
136886 TTTTCAAAGG
* *
136896 CATGCACCGATGCATCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGCA
1 CATGCATCGATGCA-CAAT-CCATGCATCGATGCACTC-ATGAATAAATTAAAACATCGAATGCA
136960 TTC
63 TTC
** * * *
136963 CATGCATCGATGCACTCTCCATGCATCGATGCACTC-TGATTCAATTAAAACATCGAATGCATTT
1 CATGCATCGATGCACAATCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATTC
*
137027 GATGCATCGATGCACAATCCATGCATCGATGCAC
1 CATGCATCGATGCACAATCCATGCATCGATGCAC
137061 CAGGCTATTT
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 55 0.63
65 15 0.17
66 4 0.05
67 13 0.15
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (65 bp):
CATGCATCGATGCACAATCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATTC
Found at i:137078 original size:64 final size:63
Alignment explanation
Indices: 136896--137105 Score: 208
Period size: 64 Copynumber: 3.2 Consensus size: 63
136886 TTTTCAAAGG
* ** * *
136896 CATGCACCGATGCATCAATACCATGCATCGATGCATCAATGAATAAATTGAAACATCGAATGCAT
1 CATGCATCGATGCA-CAAT-CCATGCATCGATGCA-CGCTG-ATTAATTAAAACATCGAATGCAT
*
136961 TC
62 TT
** *
136963 CATGCATCGATGCACTCTCCATGCATCGATGCACTCTGATTCAATTAAAACATCGAATGCATTT
1 CATGCATCGATGCACAATCCATGCATCGATGCACGCTGATT-AATTAAAACATCGAATGCATTT
* * * * *
137027 GATGCATCGATGCACAATCCATGCATCGATGCACCAGGCT-ATT-TTTCAAACATCGAATGTACT
1 CATGCATCGATGCACAATCCATGCATCGATGCA-C--GCTGATTAATTAAAACATCGAATGCATT
137090 T
63 T
137091 CATGCATCGATGCAC
1 CATGCATCGATGCAC
137106 TCTTAGTGCA
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
63 2 0.02
64 84 0.69
65 16 0.13
66 5 0.04
67 15 0.12
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (63 bp):
CATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTAATTAAAACATCGAATGCATTT
Found at i:138212 original size:15 final size:15
Alignment explanation
Indices: 138192--138222 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
138182 CTTTATGTTG
138192 TCAGAATTACAAATT
1 TCAGAATTACAAATT
138207 TCAGAATTACAAATT
1 TCAGAATTACAAATT
138222 T
1 T
138223 TAGATTACGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (15 bp):
TCAGAATTACAAATT
Done.