Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010540.1 Kokia drynarioides strain JFW-HI SEQ_125459, 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: 73282
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Warning! 30 characters in sequence are not A, C, G, or T
Found at i:5824 original size:24 final size:24
Alignment explanation
Indices: 5796--5882 Score: 111
Period size: 24 Copynumber: 3.6 Consensus size: 24
5786 TAGACTAATA
* *
5796 AGAGTTTGATTCAAACAAATAAAC
1 AGAGTTTAATTGAAACAAATAAAC
* *
5820 AGAGTTTAATTGAAATAAATAAAT
1 AGAGTTTAATTGAAACAAATAAAC
*
5844 AGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTAATTGAAACAAATAAAC
* *
5868 AAAGTTTAACTGAAA
1 AGAGTTTAATTGAAA
5883 GATTATTTCT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.29
Consensus pattern (24 bp):
AGAGTTTAATTGAAACAAATAAAC
Found at i:6864 original size:27 final size:27
Alignment explanation
Indices: 6826--6878 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
6816 TGCCTTACTA
*
6826 TCTGAACCAAACTCATTGTCGAGTTTC
1 TCTGAACCAAACTCATTGTCAAGTTTC
*
6853 TCTGGACCAAACTCATTGTCAAGTTT
1 TCTGAACCAAACTCATTGTCAAGTTT
6879 ATCTTTGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (27 bp):
TCTGAACCAAACTCATTGTCAAGTTTC
Found at i:10067 original size:17 final size:18
Alignment explanation
Indices: 10036--10069 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10026 GAACAACCTC
10036 GGGCAAAAGAAAAGTCTT
1 GGGCAAAAGAAAAGTCTT
*
10054 GGGC-AAAGAGAAGTCT
1 GGGCAAAAGAAAAGTCT
10070 CGGGAGTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.12, G:0.32, T:0.15
Consensus pattern (18 bp):
GGGCAAAAGAAAAGTCTT
Found at i:10728 original size:49 final size:49
Alignment explanation
Indices: 10675--11006 Score: 282
Period size: 49 Copynumber: 6.8 Consensus size: 49
10665 ATGTTTCTGA
* *
10675 GGTACAAGGTTCGCCGTTGCGACTTAAACCTTTTCC-TCCATATCTTCGT
1 GGTACTAGATTCGCCGTTGCGACTTAAACC-TTTCCTTCCATATCTTCGT
* * * *
10724 GGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCATCCATATCTTCGT
1 GGTACTAGATTCGCCGTTGCGACTTAAACCTTTCCTTCCATATCTTCGT
* * * * * *
10773 GGTACTAGATTTGTCGTTGCGGCTTAAATCTTTCCCTT-CATGT-TTCTGA
1 GGTACTAGATTCGCCGTTGCGACTTAAACCTTT-CCTTCCATATCTTC-GT
* * *
10822 GGT-TTAAAGTTCGCCGTTACGACTTAAACCTTTCCTTCCATATCTTCGT
1 GGTACTAGA-TTCGCCGTTGCGACTTAAACCTTTCCTTCCATATCTTCGT
* ** * * *
10871 GGTACTAGATTCACCGTTTTGACTTAAATCTTTCCTTTCAT-GCTTC-T
1 GGTACTAGATTCGCCGTTGCGACTTAAACCTTTCCTTCCATATCTTCGT
* * * *
10918 AAGGTACTAGGTTCGTCGTTGAGACTTAAACCCTTCCTT-CATATCTTCGT
1 --GGTACTAGATTCGCCGTTGCGACTTAAACCTTTCCTTCCATATCTTCGT
* ** * *
10968 GGTACTGGATTCGTAGTTACGACTTAAATCTTTCTCTTC
1 GGTACTAGATTCGCCGTTGCGACTTAAACCTTTC-CTTC
11007 ATGCTTTCGA
Statistics
Matches: 227, Mismatches: 43, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.00
48 49 0.22
49 167 0.74
50 10 0.04
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (49 bp):
GGTACTAGATTCGCCGTTGCGACTTAAACCTTTCCTTCCATATCTTCGT
Found at i:10850 original size:147 final size:147
Alignment explanation
Indices: 10634--10905 Score: 393
Period size: 147 Copynumber: 1.9 Consensus size: 147
10624 TAGTTATAAT
* * * ** * *
10634 ATTTGCCGTTGTGGCTTCAATTTTTTTCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACT
1 ATTTGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAAGTTCGCCGTTACGACT
* *
10699 TAAACCTTTTCC-TCCATATCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCATCC
66 TAAACC-TTTCCTTCCATATCTTCGTGGTACTAGATTCACCATTGCGACTTAAATCTTTCCATCC
10763 ATATCTTCGTGGTACTAG
130 ATATCTTCGTGGTACTAG
* **
10781 ATTTGTCGTTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTTTAAAGTTCGCCGTTACGACT
1 ATTTGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAAGTTCGCCGTTACGACT
* **
10846 TAAACCTTTCCTTCCATATCTTCGTGGTACTAGATTCACCGTTTTGACTTAAATCTTTCC
66 TAAACCTTTCCTTCCATATCTTCGTGGTACTAGATTCACCATTGCGACTTAAATCTTTCC
10906 TTTCATGCTT
Statistics
Matches: 109, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
146 5 0.05
147 104 0.95
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (147 bp):
ATTTGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAAGTTCGCCGTTACGACT
TAAACCTTTCCTTCCATATCTTCGTGGTACTAGATTCACCATTGCGACTTAAATCTTTCCATCCA
TATCTTCGTGGTACTAG
Found at i:10924 original size:147 final size:147
Alignment explanation
Indices: 10634--10947 Score: 382
Period size: 147 Copynumber: 2.1 Consensus size: 147
10624 TAGTTATAAT
* * * * ** * *
10634 ATTTGCCGTTGTGGCTTCAATTTTTTTCTTCATGTTTCTGAGGTACAAGGTTCGCCGTTGCGACT
1 ATTTGTCGTTGAGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAAGTTCGCCGTTACGACT
* *
10699 TAAACCTTTTCCTCCATATCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCATCCA
66 TAAACCTTTTCCTCCATATCTTCGTGGTACTAGATTCACCATTGCGACTTAAATCTTTCCATCCA
*
10764 TATCTTCGTGGTACTAG
131 TAGCTTCGTGGTACTAG
* **
10781 ATTTGTCGTTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTTTAAAGTTCGCCGTTACGACT
1 ATTTGTCGTTGAGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAAGTTCGCCGTTACGACT
* ** * *
10846 TAAACC-TTTCCTTCCATATCTTCGTGGTACTAGATTCACCGTTTTGACTTAAATCTTTCCTTTC
66 TAAACCTTTTCC-TCCATATCTTCGTGGTACTAGATTCACCATTGCGACTTAAATCTTTCCATCC
10910 AT-GCTTC-TAAGGTACTAG
130 ATAGCTTCGT--GGTACTAG
* * *
10928 GTTCGTCGTTGAGACTTAAA
1 ATTTGTCGTTGAGGCTTAAA
10948 CCCTTCCTTC
Statistics
Matches: 142, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
145 1 0.01
146 9 0.06
147 132 0.93
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (147 bp):
ATTTGTCGTTGAGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAAGTTCGCCGTTACGACT
TAAACCTTTTCCTCCATATCTTCGTGGTACTAGATTCACCATTGCGACTTAAATCTTTCCATCCA
TAGCTTCGTGGTACTAG
Found at i:11008 original size:97 final size:97
Alignment explanation
Indices: 10675--11051 Score: 341
Period size: 98 Copynumber: 3.9 Consensus size: 97
10665 ATGTTTCTGA
* * * * * * * * * *
10675 GGTACAAGGTTCGCCGTTGCGACTTAAACCTTTTCCTCCATATCTTC-GTGGTACTAGATTCGCC
1 GGTACTAGATTCGTCGTTACGACTTAAATC-TTTCCTTCAT-GCTTCTGAGGTACTAGGTTCGTC
* * * * *
10739 ATTGCGGCTTAAATCTTTCCATCCATATCTTCGT
64 GTTGAGACTTAAACCTTTCCTTCCATATCTTCGT
* * * * * * *
10773 GGTACTAGATTTGTCGTTGCGGCTTAAATCTTTCCCTTCATGTTTCTGAGGT-TTAAAGTTCGCC
1 GGTACTAGATTCGTCGTTACGACTTAAATCTTT-CCTTCATGCTTCTGAGGTACT-AGGTTCGTC
10837 GTT-ACGACTTAAACCTTTCCTTCCATATCTTCGT
64 GTTGA-GACTTAAACCTTTCCTTCCATATCTTCGT
** ** *
10871 GGTACTAGATTCACCGTTTTGACTTAAATCTTTCCTTTCATGCTTCTAAGGTACTAGGTTCGTCG
1 GGTACTAGATTCGTCGTTACGACTTAAATCTTTCC-TTCATGCTTCTGAGGTACTAGGTTCGTCG
*
10936 TTGAGACTTAAACCCTTCCTT-CATATCTTCGT
65 TTGAGACTTAAACCTTTCCTTCCATATCTTCGT
* * *
10968 GGTACTGGATTCGTAGTTACGACTTAAATCTTTCTCTTCATGCTT-TCGAGGTACCAGGTTCGTC
1 GGTACTAGATTCGTCGTTACGACTTAAATCTTTC-CTTCATGCTTCT-GAGGTACTAGGTTCGTC
* * *
11032 GTGGTGACTTGAACCTTTCC
64 GTTGAGACTTAAACCTTTCC
11052 CTCAAAACCT
Statistics
Matches: 228, Mismatches: 42, Indels: 19
0.79 0.15 0.07
Matches are distributed among these distances:
96 1 0.00
97 88 0.39
98 137 0.60
99 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.38
Consensus pattern (97 bp):
GGTACTAGATTCGTCGTTACGACTTAAATCTTTCCTTCATGCTTCTGAGGTACTAGGTTCGTCGT
TGAGACTTAAACCTTTCCTTCCATATCTTCGT
Found at i:11041 original size:49 final size:48
Alignment explanation
Indices: 10661--11051 Score: 150
Period size: 49 Copynumber: 8.0 Consensus size: 48
10651 CAATTTTTTT
* * *
10661 CTTCATG-TTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTTC
1 CTTCATGCTTTC-GAGGTACCAGGTTCGTCGTTGTGACTTAAACC-TTTC
* * * * * * * * * *
10710 CTCCAT-ATCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTTTC
1 CTTCATGCT-TTCGAGGTACCAGGTTCGTCGTTGTGACTTAAACCTTTC
* * * * * * * * *
10758 CATCCAT-ATCTTCGTGGTACTAGATTTGTCGTTGCGGCTTAAATCTTTCC
1 C-TTCATGCT-TTCGAGGTACCAGGTTCGTCGTTGTGACTTAAACCTTT-C
*** * * **
10808 CTTCATG-TTTCTGAGGTTTAAAGTTCGCCGTTACGACTTAAACCTTTC
1 CTTCATGCTTTC-GAGGTACCAGGTTCGTCGTTGTGACTTAAACCTTTC
* * * * ** * *
10856 CTTCCAT-ATCTTCGTGGTACTAGATTCACCGTTTTGACTTAAATCTTTC
1 CTT-CATGCT-TTCGAGGTACCAGGTTCGTCGTTGTGACTTAAACCTTTC
* * * *
10905 CTTTCATGC-TTCTAAGGTACTAGGTTCGTCGTTGAGACTTAAACCCTTC
1 C-TTCATGCTTTC-GAGGTACCAGGTTCGTCGTTGTGACTTAAACCTTTC
* * * * ** *
10954 CTTCAT-ATCTTCGTGGTA-CTGGATTCGTAGTTACGACTTAAATCTTTC
1 CTTCATGCT-TTCGAGGTACCAGG-TTCGTCGTTGTGACTTAAACCTTTC
* *
11002 TCTTCATGCTTTCGAGGTACCAGGTTCGTCGTGGTGACTTGAACCTTTC
1 -CTTCATGCTTTCGAGGTACCAGGTTCGTCGTTGTGACTTAAACCTTTC
11051 C
1 C
11052 CTCAAAACCT
Statistics
Matches: 263, Mismatches: 61, Indels: 37
0.73 0.17 0.10
Matches are distributed among these distances:
47 2 0.01
48 45 0.17
49 202 0.77
50 14 0.05
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (48 bp):
CTTCATGCTTTCGAGGTACCAGGTTCGTCGTTGTGACTTAAACCTTTC
Found at i:26580 original size:12 final size:12
Alignment explanation
Indices: 26563--26595 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
26553 AAAATGATTG
26563 ATGCTTGAACTT
1 ATGCTTGAACTT
26575 ATGCTTGAACTT
1 ATGCTTGAACTT
26587 ATGCTTGAA
1 ATGCTTGAA
26596 AACTATAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (12 bp):
ATGCTTGAACTT
Found at i:28818 original size:5 final size:5
Alignment explanation
Indices: 28803--28842 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
28793 TATAAATATA
28803 TTTCTT TTTCT TTTCT TTTCT TTTCT TTTCT TCTTCT TTT
1 TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT T-TTCT TTT
28843 TTTATGTAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 24 0.73
6 9 0.27
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:39217 original size:14 final size:13
Alignment explanation
Indices: 39181--39221 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
39171 TTGTTTTGAG
*
39181 AAGTGCTTTCAAA
1 AAGTGCTTTGAAA
39194 AAGTGCTTTGAAA
1 AAGTGCTTTGAAA
*
39207 AAGTGATTTTGAAA
1 AAGTG-CTTTGAAA
39221 A
1 A
39222 GCTTGGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 17 0.68
14 8 0.32
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (13 bp):
AAGTGCTTTGAAA
Found at i:50452 original size:65 final size:64
Alignment explanation
Indices: 50342--50463 Score: 208
Period size: 65 Copynumber: 1.9 Consensus size: 64
50332 GTATTTGATT
* *
50342 TAAAAACGATTTGTGCGTATATGTTATAAGAATGAGCTTGTTGCTTTAGTGGTAAGACTTCAGC
1 TAAAAACGATTTGTGCGCAAATGTTATAAGAATGAGCTTGTTGCTTTAGTGGTAAGACTTCAGC
*
50406 TAAAAACGATTTGTGCGCAAATGTTTATAAGAATGAGTTTGTTGCTTTAGTGGTAAGA
1 TAAAAACGATTTGTGCGCAAATG-TTATAAGAATGAGCTTGTTGCTTTAGTGGTAAGA
50464 TTTTAGCTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
64 21 0.39
65 33 0.61
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (64 bp):
TAAAAACGATTTGTGCGCAAATGTTATAAGAATGAGCTTGTTGCTTTAGTGGTAAGACTTCAGC
Found at i:55253 original size:18 final size:18
Alignment explanation
Indices: 55212--55255 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
55202 CTCCACAGGA
*
55212 TCTTCCTCAGGATCTTCT
1 TCTTCTTCAGGATCTTCT
55230 TCTTCTTCAGGATCTTCT
1 TCTTCTTCAGGATCTTCT
55248 TCTTCTTC
1 TCTTCTTC
55256 TTCTTTAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.09, C:0.32, G:0.09, T:0.50
Consensus pattern (18 bp):
TCTTCTTCAGGATCTTCT
Found at i:59663 original size:91 final size:91
Alignment explanation
Indices: 59508--59690 Score: 339
Period size: 91 Copynumber: 2.0 Consensus size: 91
59498 CCCAAAATGG
* *
59508 AATTACTTTCTCATGGTTTCTTTATTCATCAATAACACAATATATGAAAATATATAAATGTAAAA
1 AATTACTTCCTCATGGTTTCTTTATTCATCAATAACACAATATATGAAAACATATAAATGTAAAA
59573 GAGAATGAAAAAGAAACTAAAATTGT
66 GAGAATGAAAAAGAAACTAAAATTGT
*
59599 AATTAGTTCCTCATGGTTTCTTTATTCATCAATAACACAATATATGAAAACATATAAATGTAAAA
1 AATTACTTCCTCATGGTTTCTTTATTCATCAATAACACAATATATGAAAACATATAAATGTAAAA
59664 GAGAATGAAAAAGAAACTAAAATTGT
66 GAGAATGAAAAAGAAACTAAAATTGT
59690 A
1 A
59691 TTAAGCGATC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (91 bp):
AATTACTTCCTCATGGTTTCTTTATTCATCAATAACACAATATATGAAAACATATAAATGTAAAA
GAGAATGAAAAAGAAACTAAAATTGT
Found at i:59789 original size:7 final size:6
Alignment explanation
Indices: 59755--59792 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
59745 TCTTGTTTCA
59755 AAAACT AAAA-T AAAA-T AAAACT AAAACT GAAAACT AAA
1 AAAACT AAAACT AAAACT AAAACT AAAACT -AAAACT AAA
59793 GTCTAAGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 10 0.33
6 14 0.47
7 6 0.20
ACGTcount: A:0.71, C:0.11, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAACT
Found at i:61363 original size:26 final size:26
Alignment explanation
Indices: 61334--61387 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
61324 TGGGTACTAA
61334 TTGGAAATTCATAATAGGGTTTGGTT
1 TTGGAAATTCATAATAGGGTTTGGTT
61360 TTGGAAATTCATAATAGGGTTTGGTT
1 TTGGAAATTCATAATAGGGTTTGGTT
61386 TT
1 TT
61388 TTAGCTTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.44
Consensus pattern (26 bp):
TTGGAAATTCATAATAGGGTTTGGTT
Found at i:64657 original size:19 final size:19
Alignment explanation
Indices: 64629--64667 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
64619 GCAAGCTCTA
64629 CCAGCAGCAGATATTTCTC
1 CCAGCAGCAGATATTTCTC
*
64648 CCAGCGGCAGATATTTCTC
1 CCAGCAGCAGATATTTCTC
64667 C
1 C
64668 TAACTTCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (19 bp):
CCAGCAGCAGATATTTCTC
Found at i:69044 original size:21 final size:21
Alignment explanation
Indices: 69018--69074 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
69008 AGTGTAAACA
*
69018 TCTACCGATACAAGTGA-TAGT
1 TCTACCGATACAAGTGACT-CT
*
69039 TTTACCGATACAAGTGACTCT
1 TCTACCGATACAAGTGACTCT
69060 TCTACCGATACAAGT
1 TCTACCGATACAAGT
69075 CTTACTTCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (21 bp):
TCTACCGATACAAGTGACTCT
Found at i:69082 original size:21 final size:20
Alignment explanation
Indices: 69018--69087 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
69008 AGTGTAAACA
* *
69018 TCTACCGATACAAGTGATAGT
1 TCTACCGATACAAGT-CTACT
*
69039 TTTACCGATACAAGTGACT-CT
1 TCTACCGATACAAGT--CTACT
69060 TCTACCGATACAAGTCTTACT
1 TCTACCGATACAAGTC-TACT
69081 TCTACCG
1 TCTACCG
69088 GTACTAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 38 0.93
22 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (20 bp):
TCTACCGATACAAGTCTACT
Found at i:71243 original size:24 final size:24
Alignment explanation
Indices: 71211--71259 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
71201 GAAACTCCTT
*
71211 ACCTGGACTAAGACGTCCTCTAAA
1 ACCTAGACTAAGACGTCCTCTAAA
71235 ACCTAGACTAAGACGTCCTCTAAA
1 ACCTAGACTAAGACGTCCTCTAAA
71259 A
1 A
71260 TTCCCCTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20
Consensus pattern (24 bp):
ACCTAGACTAAGACGTCCTCTAAA
Done.