Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010290.1 Kokia drynarioides strain JFW-HI SEQ_125140, 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: 33865
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Warning! 35 characters in sequence are not A, C, G, or T
Found at i:628 original size:3 final size:3
Alignment explanation
Indices: 620--680 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
610 TAATATATTT
* * *
620 ATA ATA ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATG ACA TTA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
666 ATA ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA
681 GCATAAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:1765 original size:29 final size:29
Alignment explanation
Indices: 1716--2059 Score: 263
Period size: 29 Copynumber: 12.0 Consensus size: 29
1706 GAAGGTCCCT
1716 AAACTGTCCAAAAAT-TCCATTTTTACCCCC
1 AAACT-TCCAAAAATCT-CATTTTTACCCCC
* *
1746 GAACTTCCAAAAATCTCATTTTTGACCCCA
1 AAACTTCCAAAAATCTCATTTTT-ACCCCC
*
1776 AAAGTTCCAAAAAT-TCCATTTTTACCCCC
1 AAACTTCCAAAAATCT-CATTTTTACCCCC
* * * *
1805 GAACTTCCAAAAATCCCAATTTTGACCCCA
1 AAACTTCCAAAAATCTC-ATTTTTACCCCC
*
1835 AAAGTTCCAAAAAT-TCCATTTTTACCCCC
1 AAACTTCCAAAAATCT-CATTTTTACCCCC
* *
1864 GAACTTCC-AAAATCCCATTTTTGA-CCCC
1 AAACTTCCAAAAATCTCATTTTT-ACCCCC
* *
1892 --A-----AAAATTC-CATTTTTACTCCC
1 AAACTTCCAAAAATCTCATTTTTACCCCC
* * *
1913 GAACTTCCAAAAATCCCATTTTTGACCCCA
1 AAACTTCCAAAAATCTCATTTTT-ACCCCC
**
1943 AAACTTCCAAAAAT-TCCATTTTTGACCCTA
1 AAACTTCCAAAAATCT-CATTTTT-ACCCCC
* *
1973 AAACTTCAAAAAAT-TCCATTTTTAGCCCC
1 AAACTTCCAAAAATCT-CATTTTTACCCCC
*
2002 AAACTTCCAAAAAATC-CATTTTTAGCCCC
1 AAACTTCC-AAAAATCTCATTTTTACCCCC
*
2031 AAACTTCCAAAAAATC-CATTTTTAACCCC
1 AAACTTCC-AAAAATCTCATTTTTACCCCC
2060 GAATTTTCAC
Statistics
Matches: 260, Mismatches: 32, Indels: 45
0.77 0.09 0.13
Matches are distributed among these distances:
20 1 0.00
21 10 0.04
22 5 0.02
23 1 0.00
26 1 0.00
28 22 0.08
29 110 0.42
30 110 0.42
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (29 bp):
AAACTTCCAAAAATCTCATTTTTACCCCC
Found at i:1784 original size:30 final size:28
Alignment explanation
Indices: 1716--2059 Score: 243
Period size: 30 Copynumber: 12.0 Consensus size: 28
1706 GAAGGTCCCT
1716 AAACTGTCCAAAAAT-TCCATTTTTACCCCC
1 AAACT-TCCAAAAATCT-CATTTTTA-CCCC
*
1746 GAACTTCCAAAAATCTCATTTTTGACCCC
1 AAACTTCCAAAAATCTCATTTTT-ACCCC
*
1775 AAAAGTTCCAAAAAT-TCCATTTTTACCCCC
1 -AAACTTCCAAAAATCT-CATTTTTA-CCCC
* * *
1805 GAACTTCCAAAAATCCCAATTTTGACCCC
1 AAACTTCCAAAAATCTC-ATTTTTACCCC
*
1834 AAAAGTTCCAAAAAT-TCCATTTTTACCCCC
1 -AAACTTCCAAAAATCT-CATTTTTA-CCCC
* *
1864 GAACTTCC-AAAATCCCATTTTTGACCCC
1 AAACTTCCAAAAATCTCATTTTT-ACCCC
*
1892 --A-----AAAATTC-CATTTTTACTCCC
1 AAACTTCCAAAAATCTCATTTTTAC-CCC
* *
1913 GAACTTCCAAAAATCCCATTTTTGACCCC
1 AAACTTCCAAAAATCTCATTTTT-ACCCC
*
1942 AAAACTTCCAAAAAT-TCCATTTTTGACCCTA
1 -AAACTTCCAAAAATCT-CATTTTT-ACCC-C
*
1973 AAACTTCAAAAAAT-TCCATTTTTAGCCCC
1 AAACTTCCAAAAATCT-CATTTTTA-CCCC
2002 AAACTTCCAAAAAATC-CATTTTTAGCCCC
1 AAACTTCC-AAAAATCTCATTTTTA-CCCC
2031 AAACTTCCAAAAAATC-CATTTTTAACCCC
1 AAACTTCC-AAAAATCTCATTTTT-ACCCC
2060 GAATTTTCAC
Statistics
Matches: 262, Mismatches: 22, Indels: 61
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.01
21 10 0.04
22 5 0.02
23 1 0.00
26 1 0.00
28 22 0.08
29 110 0.42
30 111 0.42
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (28 bp):
AAACTTCCAAAAATCTCATTTTTACCCC
Found at i:1814 original size:59 final size:59
Alignment explanation
Indices: 1716--2059 Score: 435
Period size: 59 Copynumber: 6.0 Consensus size: 59
1706 GAAGGTCCCT
*
1716 AAACTGTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCTCATTTTTGACCCCA
1 AAACT-TCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
* *
1776 AAAGTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCAATTTTGACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
*
1835 AAAGTTCCAAAAATTCCATTTTTACCCCCGAACTTCC-AAAATCCCATTTTTGA---C-
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
*
1889 ---C--CCAAAAATTCCATTTTTACTCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
*** * *
1943 AAACTTCCAAAAATTCCATTTTTGACCCTAAAACTTCAAAAAATTCCATTTTT-AGCCCC-
1 AAACTTCCAAAAATTCCATTTTT-ACCCCCGAACTTCCAAAAATCCCATTTTTGA-CCCCA
* * * *
2002 AAACTTCCAAAAAATCCATTTTTAGCCCCAAACTTCCAAAAAAT-CCATTTTTAACCCC
1 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCC-AAAAATCCCATTTTTGACCCC
2060 GAATTTTCAC
Statistics
Matches: 253, Mismatches: 17, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
49 30 0.12
50 16 0.06
53 1 0.00
55 1 0.00
57 1 0.00
58 37 0.15
59 136 0.54
60 31 0.12
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (59 bp):
AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
Found at i:1914 original size:49 final size:50
Alignment explanation
Indices: 1841--1951 Score: 197
Period size: 49 Copynumber: 2.2 Consensus size: 50
1831 CCCAAAAGTT
1841 CCAAAAATTCCATTTTTACCCCCGAACTTCC-AAAATCCCATTTTTGACC
1 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACC
*
1890 CCAAAAATTCCATTTTTACTCCCGAACTTCCAAAAATCCCATTTTTGACC
1 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACC
*
1940 CCAAAACTTCCA
1 CCAAAAATTCCA
1952 AAAATTCCAT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
49 30 0.51
50 29 0.49
ACGTcount: A:0.32, C:0.34, G:0.04, T:0.30
Consensus pattern (50 bp):
CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACC
Found at i:1983 original size:108 final size:108
Alignment explanation
Indices: 1782--2004 Score: 340
Period size: 108 Copynumber: 2.0 Consensus size: 108
1772 CCCAAAAGTT
*
1782 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCAATTTTGACCCCAAAAGTTCCAAAA
1 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCAATTTTGACCCCAAAACTTCCAAAA
**
1847 ATTCCATTTTTACCCCCGAACTTCCAAAATCCCATTTTTGACC
66 ATTCCATTTTTACCCCAAAACTTCCAAAATCCCATTTTTGACC
* *
1890 CCAAAAATTCCATTTTTACTCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAAACTTCCAAAA
1 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCAATTTTGACCCCAAAACTTCCAAAA
* * *
1955 ATTCCATTTTTGACCCTAAAACTTCAAAAAATTCCATTTTT-AGCC
66 ATTCCATTTTT-ACCCCAAAACTTC-CAAAATCCCATTTTTGA-CC
2000 CCAAA
1 CCAAA
2005 CTTCCAAAAA
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
108 73 0.70
109 11 0.11
110 20 0.19
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (108 bp):
CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCAATTTTGACCCCAAAACTTCCAAAA
ATTCCATTTTTACCCCAAAACTTCCAAAATCCCATTTTTGACC
Found at i:10941 original size:29 final size:29
Alignment explanation
Indices: 10894--11129 Score: 222
Period size: 29 Copynumber: 8.4 Consensus size: 29
10884 NNNNNNNNNN
* * *
10894 TTTTGACCCCAAAAGTTCCAAAAATTCCA
1 TTTTTACCCCCAAACTTCCAAAAATTCCA
* *
10923 TTTTTACCCCCGAACTTCC-AAAATCCCA
1 TTTTTACCCCCAAACTTCCAAAAATTCCA
10951 TTTTTGA----C---C--CCAAAAATTCCA
1 TTTTT-ACCCCCAAACTTCCAAAAATTCCA
* * *
10972 TTTTTACTCCCGAACTTCCAAAAATCCCA
1 TTTTTACCCCCAAACTTCCAAAAATTCCA
*
11001 TTTTTGACCCCAAAACTTCCAAAAATTCCA
1 TTTTT-ACCCCCAAACTTCCAAAAATTCCA
** *
11031 TTTTTGACCCTAAAACTTCAAAAAATTCCA
1 TTTTT-ACCCCCAAACTTCCAAAAATTCCA
* *
11061 TTTTTAGCCCCAAACTTCCAAAAAATCCA
1 TTTTTACCCCCAAACTTCCAAAAATTCCA
* *
11090 TTTTTAGCCCCAAACTTCCAAAAAATCCA
1 TTTTTACCCCCAAACTTCCAAAAATTCCA
*
11119 TTTTTAACCCC
1 TTTTTACCCCC
11130 GAATTTTCAC
Statistics
Matches: 176, Mismatches: 19, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.02
21 13 0.07
22 1 0.01
24 1 0.01
25 1 0.01
27 1 0.01
28 13 0.07
29 90 0.51
30 53 0.30
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.31
Consensus pattern (29 bp):
TTTTTACCCCCAAACTTCCAAAAATTCCA
Found at i:10984 original size:49 final size:50
Alignment explanation
Indices: 10911--11021 Score: 197
Period size: 49 Copynumber: 2.2 Consensus size: 50
10901 CCCAAAAGTT
10911 CCAAAAATTCCATTTTTACCCCCGAACTTCC-AAAATCCCATTTTTGACC
1 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACC
*
10960 CCAAAAATTCCATTTTTACTCCCGAACTTCCAAAAATCCCATTTTTGACC
1 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACC
*
11010 CCAAAACTTCCA
1 CCAAAAATTCCA
11022 AAAATTCCAT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
49 30 0.51
50 29 0.49
ACGTcount: A:0.32, C:0.34, G:0.04, T:0.30
Consensus pattern (50 bp):
CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACC
Found at i:11053 original size:59 final size:56
Alignment explanation
Indices: 10960--11129 Score: 209
Period size: 59 Copynumber: 2.9 Consensus size: 56
10950 ATTTTTGACC
*
10960 CCAAAAATTCCATTTTTACTCCCGAACTTCC-AAAAATCCCATTTTTGACCCCAAAACTT
1 CCAAAAATTCCATTTTTAC-CCCAAACTTCCAAAAAAT-CCATTTTT-ACCCC-AAACTT
*
11019 CCAAAAATTCCATTTTTGACCCTAAAACTT-CAAAAAATTCCATTTTTAGCCCCAAACTT
1 CCAAAAATTCCATTTTT-ACCC-CAAACTTCCAAAAAA-TCCATTTTTA-CCCCAAACTT
*
11078 CCAAAAAATCCATTTTTAGCCCCAAACTTCCAAAAAATCCATTTTTAACCCC
1 CCAAAAATTCCATTTTTA-CCCCAAACTTCCAAAAAATCCATTTTT-ACCCC
11130 GAATTTTCAC
Statistics
Matches: 99, Mismatches: 4, Indels: 17
0.82 0.03 0.14
Matches are distributed among these distances:
58 20 0.20
59 54 0.55
60 24 0.24
61 1 0.01
ACGTcount: A:0.36, C:0.31, G:0.03, T:0.30
Consensus pattern (56 bp):
CCAAAAATTCCATTTTTACCCCAAACTTCCAAAAAATCCATTTTTACCCCAAACTT
Found at i:21765 original size:29 final size:29
Alignment explanation
Indices: 21718--21953 Score: 222
Period size: 29 Copynumber: 8.4 Consensus size: 29
21708 NNNNNNNNNN
* * *
21718 TTTTGACCCCAAAAGTTCCAAAAATTCCA
1 TTTTTACCCCCAAACTTCCAAAAATTCCA
* *
21747 TTTTTACCCCCGAACTTCC-AAAATCCCA
1 TTTTTACCCCCAAACTTCCAAAAATTCCA
21775 TTTTTGA----C---C--CCAAAAATTCCA
1 TTTTT-ACCCCCAAACTTCCAAAAATTCCA
* * *
21796 TTTTTACTCCCGAACTTCCAAAAATCCCA
1 TTTTTACCCCCAAACTTCCAAAAATTCCA
*
21825 TTTTTGACCCCAAAACTTCCAAAAATTCCA
1 TTTTT-ACCCCCAAACTTCCAAAAATTCCA
** *
21855 TTTTTGACCCTAAAACTTCAAAAAATTCCA
1 TTTTT-ACCCCCAAACTTCCAAAAATTCCA
* *
21885 TTTTTAGCCCCAAACTTCCAAAAAATCCA
1 TTTTTACCCCCAAACTTCCAAAAATTCCA
* *
21914 TTTTTAGCCCCAAACTTCCAAAAAATCCA
1 TTTTTACCCCCAAACTTCCAAAAATTCCA
*
21943 TTTTTAACCCC
1 TTTTTACCCCC
21954 GAATTTTCAC
Statistics
Matches: 176, Mismatches: 19, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.02
21 13 0.07
22 1 0.01
24 1 0.01
25 1 0.01
27 1 0.01
28 13 0.07
29 90 0.51
30 53 0.30
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.31
Consensus pattern (29 bp):
TTTTTACCCCCAAACTTCCAAAAATTCCA
Found at i:21808 original size:49 final size:50
Alignment explanation
Indices: 21735--21845 Score: 197
Period size: 49 Copynumber: 2.2 Consensus size: 50
21725 CCCAAAAGTT
21735 CCAAAAATTCCATTTTTACCCCCGAACTTCC-AAAATCCCATTTTTGACC
1 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACC
*
21784 CCAAAAATTCCATTTTTACTCCCGAACTTCCAAAAATCCCATTTTTGACC
1 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACC
*
21834 CCAAAACTTCCA
1 CCAAAAATTCCA
21846 AAAATTCCAT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
49 30 0.51
50 29 0.49
ACGTcount: A:0.32, C:0.34, G:0.04, T:0.30
Consensus pattern (50 bp):
CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACC
Found at i:21877 original size:59 final size:56
Alignment explanation
Indices: 21784--21953 Score: 209
Period size: 59 Copynumber: 2.9 Consensus size: 56
21774 ATTTTTGACC
*
21784 CCAAAAATTCCATTTTTACTCCCGAACTTCC-AAAAATCCCATTTTTGACCCCAAAACTT
1 CCAAAAATTCCATTTTTAC-CCCAAACTTCCAAAAAAT-CCATTTTT-ACCCC-AAACTT
*
21843 CCAAAAATTCCATTTTTGACCCTAAAACTT-CAAAAAATTCCATTTTTAGCCCCAAACTT
1 CCAAAAATTCCATTTTT-ACCC-CAAACTTCCAAAAAA-TCCATTTTTA-CCCCAAACTT
*
21902 CCAAAAAATCCATTTTTAGCCCCAAACTTCCAAAAAATCCATTTTTAACCCC
1 CCAAAAATTCCATTTTTA-CCCCAAACTTCCAAAAAATCCATTTTT-ACCCC
21954 GAATTTTCAC
Statistics
Matches: 99, Mismatches: 4, Indels: 17
0.82 0.03 0.14
Matches are distributed among these distances:
58 20 0.20
59 54 0.55
60 24 0.24
61 1 0.01
ACGTcount: A:0.36, C:0.31, G:0.03, T:0.30
Consensus pattern (56 bp):
CCAAAAATTCCATTTTTACCCCAAACTTCCAAAAAATCCATTTTTACCCCAAACTT
Found at i:32532 original size:31 final size:31
Alignment explanation
Indices: 32494--32553 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
32484 TTAGCTTCCT
* *
32494 GACCATCTTCCTGATGAGGTACGGAGAAGTG
1 GACCATCTTCCTGATGAGATACAGAGAAGTG
32525 GACCATCTTCCTGATGAGATACAGAGAAG
1 GACCATCTTCCTGATGAGATACAGAGAAG
32554 CGAATTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (31 bp):
GACCATCTTCCTGATGAGATACAGAGAAGTG
Found at i:32749 original size:31 final size:31
Alignment explanation
Indices: 32706--32765 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
32696 TTAGCTTCCT
* *
32706 GACCATCTTCCTGATGAGGTACGGAGAAGTG
1 GACCATCCTCCTGATGAGGTACAGAGAAGTG
*
32737 GACCATCCTCCTGATGAGTTACAGAGAAG
1 GACCATCCTCCTGATGAGGTACAGAGAAG
32766 CAAATTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (31 bp):
GACCATCCTCCTGATGAGGTACAGAGAAGTG
Found at i:32821 original size:212 final size:205
Alignment explanation
Indices: 32440--32946 Score: 746
Period size: 212 Copynumber: 2.4 Consensus size: 205
32430 ACGTGGTCAT
* *
32440 CTTCCCGATGAGATATTGAGAAGCAAGTCGAAGTAATAAAACGGTTAGCTTCCTGACCATCTTCC
1 CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTAATAAAACGGTTAGCTTCCTGACCATCTTCC
* *
32505 TGATGAGGTACGGAGAAGTGGACCATCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAACG
66 TGATGAGGTACGGAGAAGTGGACCATCCTCCTGATGAGATACAGAGAAGCAAATTGAAACAAACG
* *
32570 ATGCAGTCATCTTCCCGATGAGATACTAAGAAAAAGACCAAATCAAACTCACGCCCGATGTGAGC
131 ATGCAGTCATCTTCCAGATGAGATACTAAGAAAAAGACCAAATCAAACTCACGCCCAATGTGAGC
32635 -AAATCTTCAAACCCCAG
196 AAAATC-T-------CAG
*
32652 CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTAATAAAATGGTTAGCTTCCTGACCATCTTCC
1 CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTAATAAAACGGTTAGCTTCCTGACCATCTTCC
* *
32717 TGATGAGGTACGGAGAAGTGGACCATCCTCCTGATGAGTTACAGAGAAGCAAATTGAAACAAGCG
66 TGATGAGGTACGGAGAAGTGGACCATCCTCCTGATGAGATACAGAGAAGCAAATTGAAACAAACG
* * ** * * * *
32782 ATGCGGTCATTTTCCAGATGAGATACTGGGGAGAAGACCAAATCAAATTCACGCTCAATGTGAGC
131 ATGCAGTCATCTTCCAGATGAGATACTAAGAAAAAGACCAAATCAAACTCACGCCCAATGTGAGC
*
32847 AAAATCTCGG
196 AAAATCTCAG
* *
32857 CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTAATAAAACGATTAGCTTCCTGATCATCTTCC
1 CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTAATAAAACGGTTAGCTTCCTGACCATCTTCC
*
32922 TGATGAGGTATGGAGAAGTGGACCA
66 TGATGAGGTACGGAGAAGTGGACCA
32947 AATTCGTCTT
Statistics
Matches: 272, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
205 88 0.32
212 179 0.66
213 5 0.02
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (205 bp):
CTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTAATAAAACGGTTAGCTTCCTGACCATCTTCC
TGATGAGGTACGGAGAAGTGGACCATCCTCCTGATGAGATACAGAGAAGCAAATTGAAACAAACG
ATGCAGTCATCTTCCAGATGAGATACTAAGAAAAAGACCAAATCAAACTCACGCCCAATGTGAGC
AAAATCTCAG
Found at i:33414 original size:17 final size:17
Alignment explanation
Indices: 33358--33431 Score: 94
Period size: 17 Copynumber: 4.4 Consensus size: 17
33348 TTGGAAATTG
33358 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
**
33375 AGCTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* *
33392 AGTTTATTTGAAATTTA
1 AATTTATTTTAAATTTA
* *
33409 AATTTATTATAAAATTA
1 AATTTATTTTAAATTTA
33426 AATTTA
1 AATTTA
33432 GAAAAGTCCA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 49 1.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:33824 original size:17 final size:17
Alignment explanation
Indices: 33802--33863 Score: 97
Period size: 17 Copynumber: 3.6 Consensus size: 17
33792 GGAAATTGAA
33802 TTTATTTTAAATTTAAG
1 TTTATTTTAAATTTAAG
33819 TTTATTTTAAATTTAAG
1 TTTATTTTAAATTTAAG
* *
33836 TTTATTTGAAATTTAAA
1 TTTATTTTAAATTTAAG
*
33853 TTTATTATAAA
1 TTTATTTTAAA
33864 AT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTATTTTAAATTTAAG
Found at i:33840 original size:34 final size:33
Alignment explanation
Indices: 33794--33863 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 33
33784 GGCCCATTGG
* * *
33794 AAATTGAATTTATTTTAAATTTAAGTTTATTTT
1 AAATTGAATTTATTTGAAATTTAAATTTATTAT
*
33827 AAATTTAAGTTTATTTGAAATTTAAATTTATTAT
1 AAATTGAA-TTTATTTGAAATTTAAATTTATTAT
33861 AAA
1 AAA
33864 AT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 7 0.22
34 25 0.78
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (33 bp):
AAATTGAATTTATTTGAAATTTAAATTTATTAT
Done.