Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004266.1 Hibiscus syriacus cultivar Beakdansim tig00009348_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: 141956
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:13682 original size:30 final size:30
Alignment explanation
Indices: 13646--13704 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
13636 CAAAGAAGTA
13646 GAAATTATTTCTGATTGATTAATTGTATAT
1 GAAATTATTTCTGATTGATTAATTGTATAT
13676 GAAATTATTTCTGATTGATTAATTGTATA
1 GAAATTATTTCTGATTGATTAATTGTATA
13705 GGTGGCTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (30 bp):
GAAATTATTTCTGATTGATTAATTGTATAT
Found at i:19232 original size:31 final size:31
Alignment explanation
Indices: 19173--19266 Score: 84
Period size: 31 Copynumber: 3.0 Consensus size: 31
19163 AGGGTACATG
*
19173 ATCCATAACATTATCAATCCGTTTGATTTTA
1 ATCCATAACATTATCAATCCGTTCGATTTTA
* ** *
19204 ATCCCTAACATTATTGATCGGTTCGATTTTA
1 ATCCATAACATTATCAATCCGTTCGATTTTA
* *
19235 GTCCTTCAACCATTATC--TCTCGTTCGATTTTA
1 ATCCAT-AA-CATTATCAATC-CGTTCGATTTTA
19267 GTCTCTCAGC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
31 32 0.63
32 13 0.25
33 6 0.12
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.43
Consensus pattern (31 bp):
ATCCATAACATTATCAATCCGTTCGATTTTA
Found at i:31093 original size:20 final size:20
Alignment explanation
Indices: 31068--31113 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
31058 TACCACACTT
31068 ATCATTTTTGTTTCGTTTTG
1 ATCATTTTTGTTTCGTTTTG
31088 ATCATTTTTGTTTCGTTTTG
1 ATCATTTTTGTTTCGTTTTG
31108 ATCATT
1 ATCATT
31114 CAACTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.13, C:0.11, G:0.13, T:0.63
Consensus pattern (20 bp):
ATCATTTTTGTTTCGTTTTG
Found at i:41778 original size:22 final size:22
Alignment explanation
Indices: 41737--41803 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
41727 CTCGTATAAA
41737 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
41760 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
41782 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
41804 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:43521 original size:21 final size:21
Alignment explanation
Indices: 43497--43541 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
43487 TCTTGTTCGT
* *
43497 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
43518 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
43539 TTG
1 TTG
43542 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:46721 original size:22 final size:22
Alignment explanation
Indices: 46680--46746 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
46670 CTCGTATAAA
46680 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
46703 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
46725 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
46747 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:48464 original size:21 final size:21
Alignment explanation
Indices: 48440--48484 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
48430 TCTTGTTCGT
* *
48440 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
48461 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
48482 TTG
1 TTG
48485 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:50548 original size:84 final size:82
Alignment explanation
Indices: 50370--52068 Score: 1580
Period size: 84 Copynumber: 20.5 Consensus size: 82
50360 CTGCCACCAT
* * * *
50370 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACACCATTTGCAGTATAGCTTAAGTCGAGAA
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
* *
50435 GAGCTATCTG--CCAAA
66 GGGTTATCTGCACCAAA
* * * * * * * * *
50450 GACCCTT-AAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAG
1 GA-CCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAG
50514 AAGGGTTATCTGTCACCAAA
64 AAGGGTTATCTG-CACCAAA
* * * *
50534 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAA
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
* *
50599 GGGTTGTCTGCCAACACAA
66 GGGTTATCTG-CACCA-AA
*
50618 GACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTGCAGCATAACTTAAGTCGAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGA
*
50682 AGGGTTATCTGCCAACACAA
65 AGGGTTATCTG-CACCA-AA
* * * *
50702 GACCTTTGAGTTCGACTACACTCAGC-TCAACGGTACATCATTTGCAGTATAACTTAAGTCGAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGA
*
50766 AGGGCTATCTG--CCAAA
65 AGGGTTATCTGCACCAAA
** * * * * * * *
50782 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
*
50847 AGGGTTATCTGTGACCAAAA
65 AGGGTTATCTG-CACC-AAA
* * * * *
50867 GATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTT-AAGTCGAGA
*
50931 AGGGTTGTCTGCCAACCAAA
65 AGGGTTATCTG-C-ACCAAA
* * * * *
50951 AACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATTATTTGCAGTATAGCTTAAGTCGAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGA
*
51015 AGGGCTATCTG--CCAAA
65 AGGGTTATCTGCACCAAA
** * * * * * * *
51031 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
*
51096 AGGGTTATCTGTGACCAAAA
65 AGGGTTATCTG-CACC-AAA
* * * * *
51116 GATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTT-AAGTCGAGA
*
51180 AGGGTTGTCTGCCAACCAAA
65 AGGGTTATCTG-C-ACCAAA
* * * *
51200 AACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGA
*
51264 AGGGCTATCTG--CCAAA
65 AGGGTTATCTGCACCAAA
** * * * * * * * *
51280 GACCCCCGAGTTTGATTACACTCAGCTTCGAGGGCACATTCATTTACAGCATAACTCAAGGCTAG
1 GACCTTCGAGTTCGACTACGCTCAGCTTC-AAGGCACA-TCATTTGCAGCATAACTTAAGTCGAG
* *
51345 AAGGGTTATCTGTGACTAAAA
64 AAGGGTTATCTG-CAC-CAAA
* * * * *
51366 GATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTT-AAGTCGAGA
*
51430 AGGGTTGTCTGCCAACCAAA
65 AGGGTTATCTG-C-ACCAAA
* * * *
51450 GACCTTTGAGTTCGACTATGCTCAGC-TCAACGACACATCATTTGCAGCATAGCTTAAGTCGAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGA
*
51514 AGGGCTATCTG--CCAAA
65 AGGGTTATCTGCACCAAA
** * * * * *
51530 GACCCCCGAGTTCGA-TCACACTCAGCTTCGAGGGCACATGATTTGCAGTATAACTTAAGTCAAG
1 GACCTTCGAGTTCGACT-ACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
51594 AAGGGTTATCTGCTAACAAAA
64 AAGGGTTATCTGC--ACCAAA
* * * *
51615 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAA
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
*
51680 GGGGTATCTG--CCAAA
66 GGGTTATCTGCACCAAA
** * * * * *
51695 GACCCCCGAGTTCGA-TCACACTCAGCTTCGAGGGCACATGATTTGCAGTATAACTTAAGTCAAG
1 GACCTTCGAGTTCGACT-ACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
51759 AAGGGTTATCTGCTAACAAAA
64 AAGGGTTATCTGC--ACCAAA
* *
51780 GACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
*
51845 GGGCTATCTG--CCAAA
66 GGGTTATCTGCACCAAA
** * * * * *
51860 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATACCTGAAGTCGAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
*
51925 AGGGTTGTCTGCCAACCAAA
65 AGGGTTATCTG-C-ACCAAA
* * * *
51945 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCACAACTTAAGTCGAGAA
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
*
52010 GGGCTATCTG--CCAAA
66 GGGTTATCTGCACCAAA
** * * * * *
52025 GACCCCCGAGTTCGATTACACTCAACTTCGAGGTCATATCATTT
1 GACCTTCGAGTTCGACTACGCTCAGCTTCAAGG-CACATCATTT
52069 ACAACATAGC
Statistics
Matches: 1322, Mismatches: 237, Indels: 119
0.79 0.14 0.07
Matches are distributed among these distances:
79 2 0.00
80 204 0.15
81 257 0.19
82 35 0.03
83 64 0.05
84 578 0.44
85 155 0.12
86 27 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (82 bp):
GACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
GGGTTATCTGCACCAAA
Found at i:50912 original size:249 final size:249
Alignment explanation
Indices: 50370--52093 Score: 2088
Period size: 249 Copynumber: 6.9 Consensus size: 249
50360 CTGCCACCAT
* * *
50370 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACACCATTTGCAGTATAGCTTAAGTCGAGAA
1 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
* * * * * * * * * * *
50435 GAGCTATCTG----CCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTAC
66 GGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTGC
* * * * * ** * *
50496 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-
130 AGTATAACTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACACTCAGCT
* * * * * * * * ** * *
50560 TCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACACAA
192 TCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
*
50618 GACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCATAACTTAAGTCGAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGA
* * *
50682 AGGGTTATCTGCCAA-CACAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGTACATCATTTG
65 AGGGTTGTCTGCCAACCA-AAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTG
50746 CAGTATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTC
129 CAGTATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTC
50811 GAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
194 GAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
* * * *
50867 GATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTT-AAGTCGAGA
* *
50931 AGGGTTGTCTGCCAACCAAAAACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATTATTTGC
65 AGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGC
*
50996 AGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCG
130 AGTATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCG
51061 AGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
195 AGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
* * * *
51116 GATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTT-AAGTCGAGA
*
51180 AGGGTTGTCTGCCAACCAAAAACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGC
65 AGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGC
* *
51245 AGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTTGATTACACTCAGCTTCG
130 AGTATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCG
*
51310 AGGGCACATTCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACTAAAA
195 AGGGCACA-TCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
* * * *
51366 GATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGA
1 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTT-AAGTCGAGA
* *
51430 AGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTATGCTCAGCTCAACGACACATCATTTGC
65 AGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGC
* * *
51495 AGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATCACACTCAGCTTCG
130 AGTATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCG
* * * * * * *
51560 AGGGCACATGATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCT-AACAAAA
195 AGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAA
* * *
51615 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAA
1 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
* * *** * * * *
51680 GGGGTATCTG----CCAAAGACCCCCGAGTTCGA-TCACACTCAGCTTCGAGGGCACATGATTTG
66 GGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACT-ACGCTCAGC-TCAACGGCACATCATTTG
* * *** * *
51740 CAGTATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAG
129 CAGTATAACTTAAGTCGAGAAGGGCTATCTGC---C-AAAGACCCCCGAGTTCGATTACACTCAG
* * * * * * *
51805 CTTC-AAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-AAA
190 CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
** * * * * * *
51860 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATACCTGAAGTCGAGA
1 GACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
* *
51925 AGGGTTGTCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTG
65 AGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTG
* * * *
51989 TAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTC
129 CAGTATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTC
* * * * *
52054 GAGGTCATATCATTTACAACATAGCTCAAGGCAAGAAGGG
194 GAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGG
52094 CTATTTGTCA
Statistics
Matches: 1313, Mismatches: 135, Indels: 58
0.87 0.09 0.04
Matches are distributed among these distances:
244 1 0.00
245 74 0.06
246 118 0.09
247 3 0.00
248 94 0.07
249 652 0.50
250 304 0.23
251 42 0.03
252 25 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (249 bp):
GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
GGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCA
GTATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGA
GGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
Found at i:52093 original size:165 final size:165
Alignment explanation
Indices: 50376--52068 Score: 1626
Period size: 165 Copynumber: 10.2 Consensus size: 165
50366 CCATGACCTT
* * * * * * * *
50376 CGAGTTCGACTACGCTCAGCTCCAAGGCACACCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTA
1 CGAGTTCGACTACACTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTA
* * * * * * * *
50441 TCTG----CCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATA
66 TCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATA
* * * **
50502 ACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTT
130 ACTTAAGTCGAGAAGGGTTATCTG--ACCAAAGACCCC
* * * * *
50540 CGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTG
1 CGAGTTCGACTACACTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTA
50605 TCTGCCAA-CACAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCAT
66 TCTGCCAACCA-AAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCAT
* **
50668 AACTTAAGTCGAGAAGGGTTATCTGCCAACACAAGACCTT
129 AACTTAAGTCGAGAAGGGTTATCTG--ACCA-AAGACCCC
* * * * *
50708 TGAGTTCGACTACACTCAGC-TCAACGGTACATCATTTGCAGTATAACTTAAGTCGAGAAGGGCT
1 CGAGTTCGACTACACTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTT
*** * * * * *
50772 ATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCAT
65 ATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCAT
* * * * **
50833 AACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTT
129 AACTTAAGTCGAGAAGGGTTATC--TGACC-AAAGACCCC
* * * *
50873 CGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTT
1 CGAGTTCGACTACACTCAGCTTCAAGGCACATCATTTGCAGCATAACTT-AAGTCTAGAAGGGTT
* * * *
50937 GTCTGCCAACCAAAAACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATTATTTGCAGTAT
65 ATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCAT
* *
51001 AGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCC
129 AACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCCC
* * * * *
51037 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTT
1 CGAGTTCGACTACACTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTT
** * * * *
51102 ATCTG-TGACCAAAAGATCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCAC
65 ATCTGCCAACC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT
* * * **
51166 AACTTGAA-TCTAGAAGGGTTGTCTGCCAACCAAAAACCTT
129 AACTT-AAGTCGAGAAGGGTTATCTG---ACCAAAGACCCC
* * * * * *
51206 TGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCT
1 CGAGTTCGACTACACTCAGCTTCAA-GGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTT
*** * * * * * *
51270 ATCTG----CCAAAGACCCCCGAGTTTGATTACACTCAGCTTCGAGGGCACATTCATTTACAGCA
65 ATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACA-TCATTTGCAGCA
* * * * * **
51331 TAACTCAAGGCTAGAAGGGTTATCTGTGACTAAAAGATCTT
128 TAACTTAAGTCGAGAAGGGTTATC--TGAC-CAAAGACCCC
* * * *
51372 CGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTGAA-TCTAGAAGGGTT
1 CGAGTTCGACTACACTCAGCTTCAAGGCACATCATTTGCAGCATAACTT-AAGTCTAGAAGGGTT
* * *
51436 GTCTGCCAACCAAAGACCTTTGAGTTCGACTATGCTCAGCT-CAACGACACATCATTTGCAGCAT
65 ATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCAT
* *
51500 AGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCC
129 AACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCCC
* * * *
51536 CGAGTTCGA-TCACACTCAGCTTCGAGGGCACATGATTTGCAGTATAACTTAAGTCAAGAAGGGT
1 CGAGTTCGACT-ACACTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGT
* * *
51600 TATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTAT
64 TATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT
* *
51665 AGCTTAAGTCGAGAAGGGGTATCTG-CCAAAGACCCC
129 AACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCCC
* * * *
51701 CGAGTTCGA-TCACACTCAGCTTCGAGGGCACATGATTTGCAGTATAACTTAAGTCAAGAAGGGT
1 CGAGTTCGACT-ACACTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGT
* * *
51765 TATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCAT
64 TATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT
* *
51830 AGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCC
129 AACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCCC
* * * * *
51866 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATACCTGAAGTCGAGAAGGGTT
1 CGAGTTCGACTACACTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTT
* * * * *
51931 GTCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCACA
65 ATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATA
*
51996 ACTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCC
130 ACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCCC
* * * *
52031 CGAGTTCGATTACACTCAACTTCGAGGTCATATCATTT
1 CGAGTTCGACTACACTCAGCTTCAAGG-CACATCATTT
52069 ACAACATAGC
Statistics
Matches: 1287, Mismatches: 193, Indels: 97
0.82 0.12 0.06
Matches are distributed among these distances:
163 1 0.00
164 166 0.13
165 678 0.53
166 108 0.08
167 59 0.05
168 195 0.15
169 56 0.04
170 24 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (165 bp):
CGAGTTCGACTACACTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTA
TCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAA
CTTAAGTCGAGAAGGGTTATCTGACCAAAGACCCC
Found at i:56872 original size:2 final size:2
Alignment explanation
Indices: 56865--56895 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
56855 ATTGCATGTC
56865 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
56896 AAGAAACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75734 original size:2 final size:2
Alignment explanation
Indices: 75727--75788 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
75717 TAGAAAATAC
75727 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
75769 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
75789 TTTAATGTGA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:80090 original size:18 final size:18
Alignment explanation
Indices: 80067--80101 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
80057 TTCCATCCGG
*
80067 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
80085 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
80102 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:81445 original size:19 final size:19
Alignment explanation
Indices: 81418--81473 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
81408 CAACAATCAA
*
81418 CGGTTCGGTCCAGGCGGTT
1 CGGTCCGGTCCAGGCGGTT
81437 CGGTCCGGTCCAGGCGGTT
1 CGGTCCGGTCCAGGCGGTT
81456 CGGTCCGGTCCAGGCGGT
1 CGGTCCGGTCCAGGCGGT
81474 CCAGTCTAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.05, C:0.30, G:0.43, T:0.21
Consensus pattern (19 bp):
CGGTCCGGTCCAGGCGGTT
Found at i:81552 original size:13 final size:13
Alignment explanation
Indices: 81499--81551 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
81489 CGATCAGCTA
*
81499 GATCGGCTCGGTC
1 GATCGGCTCAGTC
*
81512 GATCGGCTCGGTC
1 GATCGGCTCAGTC
81525 GATCGGCTCAGTC
1 GATCGGCTCAGTC
*
81538 GGTCGGCTCAGTC
1 GATCGGCTCAGTC
81551 G
1 G
81552 GCTCAACTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.09, C:0.30, G:0.38, T:0.23
Consensus pattern (13 bp):
GATCGGCTCAGTC
Found at i:85272 original size:18 final size:18
Alignment explanation
Indices: 85249--85283 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85239 TTCCATCCTG
*
85249 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
85267 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
85284 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:86651 original size:9 final size:9
Alignment explanation
Indices: 86639--86696 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
86629 CCAGTCTAAG
*
86639 CGGCTCGAT
1 CGGCTCGGT
86648 CGGCTCGGT
1 CGGCTCGGT
*
86657 CGG-TCAGCT
1 CGGCTC-GGT
*
86666 CGG-TCGAT
1 CGGCTCGGT
*
86674 CAG-TCGGT
1 CGGCTCGGT
86682 CGGCTCGGT
1 CGGCTCGGT
86691 CGGCTC
1 CGGCTC
86697 AATTGGTTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 12 0.29
9 29 0.71
ACGTcount: A:0.07, C:0.33, G:0.38, T:0.22
Consensus pattern (9 bp):
CGGCTCGGT
Found at i:86668 original size:13 final size:13
Alignment explanation
Indices: 86650--86684 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
86640 GGCTCGATCG
86650 GCTCGGTCGGTCA
1 GCTCGGTCGGTCA
*
86663 GCTCGGTCGATCA
1 GCTCGGTCGGTCA
86676 G-TCGGTCGG
1 GCTCGGTCGG
86685 CTCGGTCGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.09, C:0.29, G:0.40, T:0.23
Consensus pattern (13 bp):
GCTCGGTCGGTCA
Found at i:91668 original size:18 final size:18
Alignment explanation
Indices: 91645--91679 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91635 TTCCATCCGG
*
91645 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
91663 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
91680 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:93023 original size:19 final size:19
Alignment explanation
Indices: 92996--93051 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
92986 CAACAATCAA
*
92996 CGGTTCGGTCCAGGCGGTT
1 CGGTCCGGTCCAGGCGGTT
93015 CGGTCCGGTCCAGGCGGTT
1 CGGTCCGGTCCAGGCGGTT
93034 CGGTCCGGTCCAGGCGGT
1 CGGTCCGGTCCAGGCGGT
93052 CCAGTCTAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.05, C:0.30, G:0.43, T:0.21
Consensus pattern (19 bp):
CGGTCCGGTCCAGGCGGTT
Found at i:93130 original size:13 final size:13
Alignment explanation
Indices: 93077--93129 Score: 88
Period size: 13 Copynumber: 4.1 Consensus size: 13
93067 CGATCAGCTA
93077 GATCGGCTCAGTC
1 GATCGGCTCAGTC
*
93090 GATCGGCTCGGTC
1 GATCGGCTCAGTC
93103 GATCGGCTCAGTC
1 GATCGGCTCAGTC
*
93116 GGTCGGCTCAGTC
1 GATCGGCTCAGTC
93129 G
1 G
93130 GCTCAACTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.11, C:0.30, G:0.36, T:0.23
Consensus pattern (13 bp):
GATCGGCTCAGTC
Found at i:96848 original size:18 final size:18
Alignment explanation
Indices: 96825--96859 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96815 TTCCATCCTG
*
96825 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
96843 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
96860 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:98196 original size:19 final size:19
Alignment explanation
Indices: 98169--98205 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
98159 CAACGGTCAA
*
98169 CGGTTCGGTCCAGGCGGTT
1 CGGTCCGGTCCAGGCGGTT
98188 CGGTCCGGTCCAGGCGGT
1 CGGTCCGGTCCAGGCGGT
98206 CCAGTCTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.30, G:0.43, T:0.22
Consensus pattern (19 bp):
CGGTCCGGTCCAGGCGGTT
Found at i:98228 original size:9 final size:9
Alignment explanation
Indices: 98216--98273 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
98206 CCAGTCTAAG
*
98216 CGGCTCGAT
1 CGGCTCGGT
98225 CGGCTCGGT
1 CGGCTCGGT
*
98234 CGG-TCAGCT
1 CGGCTC-GGT
*
98243 CGG-TCGAT
1 CGGCTCGGT
*
98251 CAG-TCGGT
1 CGGCTCGGT
98259 CGGCTCGGT
1 CGGCTCGGT
98268 CGGCTC
1 CGGCTC
98274 AATTGGTTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 12 0.29
9 29 0.71
ACGTcount: A:0.07, C:0.33, G:0.38, T:0.22
Consensus pattern (9 bp):
CGGCTCGGT
Found at i:98245 original size:13 final size:13
Alignment explanation
Indices: 98227--98261 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
98217 GGCTCGATCG
98227 GCTCGGTCGGTCA
1 GCTCGGTCGGTCA
*
98240 GCTCGGTCGATCA
1 GCTCGGTCGGTCA
98253 G-TCGGTCGG
1 GCTCGGTCGG
98262 CTCGGTCGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.09, C:0.29, G:0.40, T:0.23
Consensus pattern (13 bp):
GCTCGGTCGGTCA
Found at i:100320 original size:3 final size:3
Alignment explanation
Indices: 100312--100341 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
100302 ACCAAAATAG
100312 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
100342 TTATATACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:101094 original size:2 final size:2
Alignment explanation
Indices: 101087--101128 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
101077 AAATAAATAA
101087 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
101129 CGTTAATTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112718 original size:20 final size:20
Alignment explanation
Indices: 112695--112755 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
112685 TTTTTGAAAA
112695 TATTTTAAATTTCAACATTT
1 TATTTTAAATTTCAACATTT
* *
112715 TATTTT---TTTGAA-A--A
1 TATTTTAAATTTCAACATTT
112729 TATTTTAAATTTCAACATTT
1 TATTTTAAATTTCAACATTT
112749 TATTTTA
1 TATTTTA
112756 GGGTAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
14 6 0.19
16 1 0.03
17 10 0.32
18 1 0.03
20 13 0.42
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (20 bp):
TATTTTAAATTTCAACATTT
Found at i:112727 original size:34 final size:34
Alignment explanation
Indices: 112680--112754 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
112670 ATTTTGATTA
112680 TTTA-TTTTTTGAAAATATTTTAAATTTCAACAT
1 TTTATTTTTTTGAAAATATTTTAAATTTCAACAT
112713 TTTATTTTTTTGAAAATATTTTAAATTTCAACAT
1 TTTATTTTTTTGAAAATATTTTAAATTTCAACAT
112747 TTTATTTT
1 TTTATTTT
112755 AGGGTAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 4 0.10
34 37 0.90
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (34 bp):
TTTATTTTTTTGAAAATATTTTAAATTTCAACAT
Found at i:115573 original size:65 final size:65
Alignment explanation
Indices: 115463--115594 Score: 178
Period size: 65 Copynumber: 2.0 Consensus size: 65
115453 ATTATACATG
* ** * *
115463 TGTCCTTATTACTTGTACATTCTATCAATAAGCAACTTCAAGTTCCACTC-TTCTACTTTAATAA
1 TGTCCTCATTACTTACACAGTCAATCAATAAGCAACTTCAAGTTCCACTCTTTC-ACTTTAATAA
115527 T
65 T
*
115528 TGTCCTCATTACTTACACAGTCAATCAATAAGCAAC-TCTAGGTTCCACTCTTTCACTTTAATAA
1 TGTCCTCATTACTTACACAGTCAATCAATAAGCAACTTC-AAGTTCCACTCTTTCACTTTAATAA
115592 T
65 T
115593 TG
1 TG
115595 ATGATTTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
64 2 0.03
65 54 0.92
66 3 0.05
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.39
Consensus pattern (65 bp):
TGTCCTCATTACTTACACAGTCAATCAATAAGCAACTTCAAGTTCCACTCTTTCACTTTAATAAT
Found at i:135656 original size:15 final size:15
Alignment explanation
Indices: 135623--135656 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
135613 TTTAACTGGG
* *
135623 CGGGCGGATGTGGGG
1 CGGGCGGATGCGGGA
135638 CGGGCGGATGCGGGA
1 CGGGCGGATGCGGGA
135653 CGGG
1 CGGG
135657 TAATGTCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.18, G:0.65, T:0.09
Consensus pattern (15 bp):
CGGGCGGATGCGGGA
Done.