Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01007138.1 Kokia drynarioides strain JFW-HI SEQ_121750, 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: 13643
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:593 original size:73 final size:74
Alignment explanation
Indices: 486--648 Score: 188
Period size: 77 Copynumber: 2.2 Consensus size: 74
476 ATAATAATTC
* *
486 AATTAACTCTAAATTCATTTTATTTTTTGCTAT-AACTTCA-TTTTTTAATAATTTAATCTTCAT
1 AATTAA-TCTAAATTCATTTTATTTTTTGCTATAAACTTCATTTTTTTAATAATTGAATCATCAT
*
549 ACCAATCATA
65 AACAATCATA
* * *
559 AATTAATCTAAACTT-ATTTTACTTTTTTGTTATAAATTTGATTTTTTTTTAATAATTGAATCAT
1 AATTAATCTAAA-TTCATTTTA-TTTTTTGCTATAAACTTCA--TTTTTTTAATAATTGAATCAT
*
623 CATAACAATCATG
62 CATAACAATCATA
*
636 AATTAATATAAAT
1 AATTAATCTAAAT
649 ATTCTGTTCA
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
72 12 0.16
73 18 0.24
74 5 0.07
76 1 0.01
77 40 0.53
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (74 bp):
AATTAATCTAAATTCATTTTATTTTTTGCTATAAACTTCATTTTTTTAATAATTGAATCATCATA
ACAATCATA
Found at i:1524 original size:15 final size:17
Alignment explanation
Indices: 1506--1539 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1496 TGGGGTTTAG
1506 TTTTA-TCTTCA-TCTT
1 TTTTACTCTTCACTCTT
1521 TTTTACTCTTCACTCTT
1 TTTTACTCTTCACTCTT
1538 TT
1 TT
1540 GCCATTATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 6 0.35
17 6 0.35
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTACTCTTCACTCTT
Found at i:2105 original size:23 final size:25
Alignment explanation
Indices: 2079--2124 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2069 CCAATTAGGG
2079 AATTAT-TGTTTAG-ATTTAATTCA
1 AATTATCTGTTTAGAATTTAATTCA
*
2102 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
2125 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCA
Found at i:6738 original size:99 final size:99
Alignment explanation
Indices: 6610--7111 Score: 404
Period size: 99 Copynumber: 5.1 Consensus size: 99
6600 GCCGTAACAA
* * * * ***
6610 CGAACCCGGTACC-TAAGAAGACGTGATGGGAAAAGTAGAGGCCGCAATGATAAACCCGGTACCA
1 CGAATCCGGTACCTTAA-AAGATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCA
6674 TGAAGATTTGAAGGGAAGGATTGAAGCCGCAACGG
65 TGAAGATTTGAAGGGAAGGATTGAAGCCGCAACGG
* * * *
6709 TGAATCCGGTATCTTAAAAGATGTTATGGGAAAGGTTGAGGCCGCAATGGCGAACCTGGTACCAT
1 CGAATCCGGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCAT
** * *
6774 GAAGATACGAAGGGAAAGG-TTGAGGCCGCAACAG
66 GAAGATTTGAAGGG-AAGGATTGAAGCCGCAACGG
* * * **
6808 CG-AGCTTGGTACCTAAAAAGACATGATGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCA
1 CGAATC-CGGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCA
* * *
6872 TGAAGATTTGAAGGGAAGGATTGAAGCCACAATGA
65 TGAAGATTTGAAGGGAAGGATTGAAGCCGCAACGG
* * * * * * *
6907 CAAATCCGATACCTTAAAAGATGTGATAGGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTA
1 CGAATCCGGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACC-A
* * * * ** *
6972 AGAAGATGTGATGGGAAAGG-TTGAGGCTTCAACGA
65 TGAAGATTTGAAGGG-AAGGATTGAAGCCGCAACGG
* * * ** * * * * * * *
7007 CAAACCCGATACC--ACGGAGATATGAAGGGAAAGATTGAGGCTGCAATGGCAAACCCGATACCT
1 CGAATCCGGTACCTTA-AAAGATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCA
* * * * * *
7070 TAGAATATATGATGGGAAGGATTGAGGTCGCAATGG
65 T-GAAGATTTGAAGGGAAGGATTGAAGCCGCAACGG
7106 CGAATC
1 CGAATC
7112 TGATACCATG
Statistics
Matches: 322, Mismatches: 71, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
98 11 0.03
99 262 0.81
100 45 0.14
101 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.18
Consensus pattern (99 bp):
CGAATCCGGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCAT
GAAGATTTGAAGGGAAGGATTGAAGCCGCAACGG
Found at i:6753 original size:50 final size:50
Alignment explanation
Indices: 6578--7109 Score: 310
Period size: 50 Copynumber: 10.7 Consensus size: 50
6568 AAAACCCTGG
* * * **
6578 AGATGCGATGAGAAAGGTTGAGGCCGTAACAACGAACCCGGTACC-TAAGA
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAA-A
* * * * *** * *
6628 AGACGTGATGGGAAAAGTAGAGGCCGCAATGATAAACCCGGTACCAT-GA
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAA
* * * * * *
6677 AGATTTGAAGGG-AAGGATTGAAGCCGCAACGGTGAATCCGGTATCTTAAA
1 AGATGTGATGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTAAA
* * * * *
6727 AGATGTTATGGGAAAGGTTGAGGCCGCAATGGCGAACCTGGTACCAT-GA
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAA
** * * * ** *
6776 AGATACGAAGGGAAAGGTTGAGGCCGCAACAGCGAGCTTGGTACCTAAAA
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAA
** * * *
6826 AGACATGATGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCAT-GA
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAA
* * * * * * * * *
6875 AGATTTGAAGGG-AAGGATTGAAGCCACAATGACAAATCCGATACCTTAAA
1 AGATGTGATGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTAAA
* * * *
6925 AGATGTGATAGGAAAGGTTGAGGCTGCAACGGTGAACCCGATACC-TAAGA
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAA-A
** * * * **
6975 AGATGTGATGGGAAAGGTTGAGGCTTCAACGACAAACCCGATACC--ACGG
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA-AA
* * * * * * * *
7024 AGATATGAAGGGAAAGATTGAGGCTGCAATGGCAAACCCGATACCTTAGA
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAA
* * * *
7074 ATATATGATGGG-AAGGATTGAGGTCGCAATGGCGAA
1 AGATGTGATGGGAAAGG-TTGAGGCCGCAACGGCGAA
7110 TCTGATACCA
Statistics
Matches: 370, Mismatches: 99, Indels: 26
0.75 0.20 0.05
Matches are distributed among these distances:
48 7 0.02
49 149 0.40
50 204 0.55
51 10 0.03
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.17
Consensus pattern (50 bp):
AGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAA
Found at i:6884 original size:198 final size:199
Alignment explanation
Indices: 6589--6998 Score: 543
Period size: 198 Copynumber: 2.1 Consensus size: 199
6579 GATGCGATGA
* * *
6589 GAAAGGTTGAGGCCGTAACAACGAACCCGGTACCTAAGAAGACGTGATGGGAAAAGTAGAGGCCG
1 GAAAGGTTGAGGCCGCAACAACGAACCCGGTACCTAAAAAGACATGATGGGAAAAGTAGAGGCCG
* * *** *
6654 CAATGATAAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAAGCCGCAACGGTGAATCCGGT
66 CAATGACAAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAAGCCACAACGACAAATCCGAT
* * * * * * *
6719 ATCTTAAAAGATGTTATGGGAAAGGTTGAGGCCGCAATGGCGAACCTGGTACC-ATGAAGATACG
131 ACCTTAAAAGATGTGATAGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTAAGAAGATACG
6783 AAGG
196 AAGG
* * ** * *
6787 GAAAGGTTGAGGCCGCAACAGCGAGCTTGGTACCTAAAAAGACATGATGGGAAAGGTTGAGGCCG
1 GAAAGGTTGAGGCCGCAACAACGAACCCGGTACCTAAAAAGACATGATGGGAAAAGTAGAGGCCG
* * *
6852 CAATGGCGAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAAGCCACAATGACAAATCCGAT
66 CAATGACAAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAAGCCACAACGACAAATCCGAT
* * **
6917 ACCTTAAAAGATGTGATAGGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTAAGAAGATGTG
131 ACCTTAAAAGATGTGATAGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTAAGAAGATACG
*
6982 ATGG
196 AAGG
6986 GAAAGGTTGAGGC
1 GAAAGGTTGAGGC
6999 TTCAACGACA
Statistics
Matches: 181, Mismatches: 30, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
198 157 0.87
199 24 0.13
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.17
Consensus pattern (199 bp):
GAAAGGTTGAGGCCGCAACAACGAACCCGGTACCTAAAAAGACATGATGGGAAAAGTAGAGGCCG
CAATGACAAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAAGCCACAACGACAAATCCGAT
ACCTTAAAAGATGTGATAGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTAAGAAGATACG
AAGG
Found at i:7039 original size:198 final size:198
Alignment explanation
Indices: 6589--7094 Score: 530
Period size: 198 Copynumber: 2.6 Consensus size: 198
6579 GATGCGATGA
* * * * * * * * *
6589 GAAAGGTTGAGGCCGTAACAACGAACCCGGTACCTAAGAAGACGTGATGGGAAAAGTAGAGGCCG
1 GAAAGGTTGAGGCCGCAACAGCAAACCCGATACCTAAAAAGACATGAAGGGAAAGGTTGAGGCCG
** * *** *
6654 CAATGATAAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAAGCCGCAACGGTGAATCCGGT
66 CAATGGCAAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAAGCCACAACGACAAATCCGAT
* * * * * * *
6719 ATCTTAAAAGATGTTATGGGAAAGGTTGAGGCCGCAATGGCGAACCTGGTACCATGAAGATACGA
131 ACCTTAAAAGATGTGATAGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCAAGAAGATACGA
6784 AGG
196 AGG
* * ** * *
6787 GAAAGGTTGAGGCCGCAACAGCGAGCTTGGTACCTAAAAAGACATGATGGGAAAGGTTGAGGCCG
1 GAAAGGTTGAGGCCGCAACAGCAAACCCGATACCTAAAAAGACATGAAGGGAAAGGTTGAGGCCG
* *
6852 CAATGGCGAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAAGCCACAATGACAAATCCGAT
66 CAATGGCAAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAAGCCACAACGACAAATCCGAT
* * **
6917 ACCTTAAAAGATGTGATAGGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTAAGAAGATGTG
131 ACCTTAAAAGATGTGATAGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACC-AAGAAGATACG
*
6982 ATGG
195 AAGG
** *** * * *
6986 GAAAGGTTGAGGCTTCAAC-GACAAACCCGATACC-ACGGAGATATGAAGGGAAAGATTGAGGCT
1 GAAAGGTTGAGGCCGCAACAG-CAAACCCGATACCTAAAAAGACATGAAGGGAAAGGTTGAGGCC
* * * * *
7049 GCAATGGCAAACCCGATACCTTAGAATATATGATGGGAAGGATTGA
65 GCAATGGCAAACCCGGTACCAT-GAAGATTTGAAGGGAAGGATTGA
7095 GGTCGCAATG
Statistics
Matches: 255, Mismatches: 50, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
198 199 0.78
199 56 0.22
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (198 bp):
GAAAGGTTGAGGCCGCAACAGCAAACCCGATACCTAAAAAGACATGAAGGGAAAGGTTGAGGCCG
CAATGGCAAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAAGCCACAACGACAAATCCGAT
ACCTTAAAAGATGTGATAGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCAAGAAGATACGA
AGG
Found at i:7117 original size:99 final size:97
Alignment explanation
Indices: 6825--7146 Score: 299
Period size: 99 Copynumber: 3.3 Consensus size: 97
6815 GGTACCTAAA
* * * * * * * *
6825 AAGACATGATGGGAAAGGTTGAGGCCGCAATGGCGAACCCGGTACCAT-GAAGATTTGAAGGGAA
1 AAGATATGAAGGGAAAGATTGAGGCTGCAATGGCGAACCCGATACCTTAGAAGATATGATGGGAA
* *
6889 GGATTGAAGCCACAATGACAAATCCGATACCTTAA
66 GGATTG-AGGCACAATGACAAATCCGATACC--AG
* * * * * *
6924 AAGATGTGATA-GGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTAAGAAGATGTGATGGGA
1 AAGATATGA-AGGGAAAGATTGAGGCTGCAATGGCGAACCCGATACCTTAGAAGATATGATGGG-
* * *
6988 AAGG-TTGAGGCTTCAACGACAAACCCGATACCACG
64 AAGGATTGAGGC-ACAATGACAAATCCGATACCA-G
* * *
7023 GAGATATGAAGGGAAAGATTGAGGCTGCAATGGCAAACCCGATACCTTAGAATATATGATGGGAA
1 AAGATATGAAGGGAAAGATTGAGGCTGCAATGGCGAACCCGATACCTTAGAAGATATGATGGGAA
* * * *
7088 GGATTGAGGTCGCAATGGCGAATCTGATACCATG
66 GGATTGAGG-CACAATGACAAATCCGATACCA-G
*
7122 AAGATATAAAGGGAAAGATTGAGGC
1 AAGATATGAAGGGAAAGATTGAGGC
7147 CAAAACAGCG
Statistics
Matches: 181, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
98 6 0.03
99 138 0.76
100 33 0.18
101 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (97 bp):
AAGATATGAAGGGAAAGATTGAGGCTGCAATGGCGAACCCGATACCTTAGAAGATATGATGGGAA
GGATTGAGGCACAATGACAAATCCGATACCAG
Found at i:7117 original size:149 final size:149
Alignment explanation
Indices: 6786--7147 Score: 361
Period size: 149 Copynumber: 2.4 Consensus size: 149
6776 AGATACGAAG
* * * ** * * *
6786 GGAAAGGTTGAGGCCGCAACAGCGAGCTTGGTACCTAAAAAGACATGATGGGAAAGGTTGAGGCC
1 GGAAAGGTTGAGGCTGCAACGGCGAACCCGATACCTAAGAAGATATGATGGGAAAGGTTGAGGCC
* * * * * * * *
6851 GCAATGGCGAACCCGGTACCATGAAGATTTGAAGGGAAGGATTGAAGCCACAATGACAAATCCGA
66 GCAACGACAAACCCGATACCACGAAGATATGAAGGGAAAGATTGAAGCCACAATGACAAACCCGA
*
6916 TACCTTAAAAGATGTGATA
131 TACCTTAAAAGATATGATA
* * *
6935 GGAAAGGTTGAGGCTGCAACGGTGAACCCGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGCT
1 GGAAAGGTTGAGGCTGCAACGGCGAACCCGATACCTAAGAAGATATGATGGGAAAGGTTGAGGCC
* * * ** *
7000 TCAACGACAAACCCGATACCACGGAGATATGAAGGGAAAGATTGAGGCTGCAATGGCAAACCCGA
66 GCAACGACAAACCCGATACCACGAAGATATGAAGGGAAAGATTGAAGCCACAATGACAAACCCGA
* *
7065 TACCTTAGAATATATGAT-
131 TACCTTAAAAGATATGATA
* * * * * * * *
7083 GGGAAGGATTGAGG-TCGCAATGGCGAATCTGATACC-ATGAAGATATAAAGGGAAAGATTGAGG
1 GGAAAGG-TTGAGGCT-GCAACGGCGAACCCGATACCTAAGAAGATATGATGGGAAAGGTTGAGG
7146 CC
64 CC
7148 AAAACAGCGA
Statistics
Matches: 172, Mismatches: 39, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
148 30 0.17
149 142 0.83
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (149 bp):
GGAAAGGTTGAGGCTGCAACGGCGAACCCGATACCTAAGAAGATATGATGGGAAAGGTTGAGGCC
GCAACGACAAACCCGATACCACGAAGATATGAAGGGAAAGATTGAAGCCACAATGACAAACCCGA
TACCTTAAAAGATATGATA
Found at i:7887 original size:13 final size:13
Alignment explanation
Indices: 7869--7902 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
7859 GTCAGTAACA
7869 CAACCACCATTTT
1 CAACCACCATTTT
7882 CAACCACCATTTT
1 CAACCACCATTTT
7895 CAACCACC
1 CAACCACC
7903 GCTACCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (13 bp):
CAACCACCATTTT
Found at i:9506 original size:30 final size:30
Alignment explanation
Indices: 9474--9618 Score: 159
Period size: 30 Copynumber: 4.9 Consensus size: 30
9464 TAAAAATAAT
* * *
9474 ATTTTGACCCCTAAACTTTTCTAAAATTAT
1 ATTTTGACCCCTAAACTTCTCCAAAATTAC
* * * *
9504 ATTTTG-TCTCTAAAATTCTCCAAAATTAA
1 ATTTTGACCCCTAAACTTCTCCAAAATTAC
* *
9533 ATTTTGGCCCCCAAACTTCTCCAAAATTAC
1 ATTTTGACCCCTAAACTTCTCCAAAATTAC
*
9563 ATTTTAACCCCTAAACTAT-TCCAAAATTAC
1 ATTTTGACCCCTAAACT-TCTCCAAAATTAC
* *
9593 ATTTTAACCCTTAAACTTCTCCAAAA
1 ATTTTGACCCCTAAACTTCTCCAAAA
9619 CTTCTCCAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
29 24 0.25
30 72 0.74
31 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
ATTTTGACCCCTAAACTTCTCCAAAATTAC
Found at i:9621 original size:11 final size:11
Alignment explanation
Indices: 9605--9629 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9595 TTTAACCCTT
9605 AAACTTCTCCA
1 AAACTTCTCCA
9616 AAACTTCTCCA
1 AAACTTCTCCA
9627 AAA
1 AAA
9630 TTATGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (11 bp):
AAACTTCTCCA
Found at i:9713 original size:30 final size:28
Alignment explanation
Indices: 9677--9755 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 28
9667 AGCCCCCAAA
*
9677 TTTCCAAAAATCACATTTTAA-CCTCAAATT
1 TTTCCAAAAATCA-ATTTTAATCC-C-AACT
*
9707 TTTCCAAAAGTTCAATTTTAATCCCAACT
1 TTTCCAAAA-ATCAATTTTAATCCCAACT
9736 TTTCCAAAAATTTCAATTTT
1 TTTCCAAAAA--TCAATTTT
9756 GAACCCTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
29 12 0.29
30 25 0.60
31 5 0.12
ACGTcount: A:0.37, C:0.22, G:0.01, T:0.41
Consensus pattern (28 bp):
TTTCCAAAAATCAATTTTAATCCCAACT
Found at i:9797 original size:29 final size:27
Alignment explanation
Indices: 9739--9820 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 27
9729 CCCAACTTTT
* *
9739 CCAAAAATTTCAATTTTGAACCCTAAATTC
1 CCAAAAA-TTC-ATTTTCAACCC-CAATTC
9769 CTCAAAAATTACATTTTCAACCCCAATTC
1 C-CAAAAATT-CATTTTCAACCCCAATTC
* *
9798 CCTAAAACTTCATTTTCGACCCC
1 CC-AAAAATTCATTTTCAACCCC
9821 TTTTTTTCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 13 0.29
29 12 0.27
30 13 0.29
31 7 0.16
ACGTcount: A:0.35, C:0.30, G:0.02, T:0.32
Consensus pattern (27 bp):
CCAAAAATTCATTTTCAACCCCAATTC
Done.