Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004225.1 Hibiscus syriacus cultivar Beakdansim tig00009247_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: 96538
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1872 original size:27 final size:28
Alignment explanation
Indices: 1778--2040 Score: 175
Period size: 27 Copynumber: 9.5 Consensus size: 28
1768 AAAAATCATC
* *
1778 AAATTACAATAAAAG-ACAAAATGCTTTAG
1 AAATTACAAT-AAAGTACAAAAT-ATTTAT
* * ** * * *
1807 AATTTATAATAAAGTTTAAACTTTTTAG
1 AAATTACAATAAAGTACAAAATATTTAT
*
1835 AATTTACAATAAAGTA-AAAATATTTAT
1 AAATTACAATAAAGTACAAAATATTTAT
* * * ** *
1862 AAATTATAAT-AAGGATAATTTTTTTAT
1 AAATTACAATAAAGTACAAAATATTTAT
*
1889 AAATTACAATAAAGTACAAAACAATTTAT
1 AAATTACAATAAAGTACAAAA-TATTTAT
1918 --ATTACAATAAAGTACAAACA-ATTTAT
1 AAATTACAATAAAGTACAAA-ATATTTAT
1944 AAATTACAATAAAGTACAAAACTATTTAT
1 AAATTACAATAAAGTACAAAA-TATTTAT
* * * *
1973 AAATTAAAATAAAGGA-TAAATTTTTAT
1 AAATTACAATAAAGTACAAAATATTTAT
* * *
2000 AAA-TATAATAAAAGGAGACAAAT-TTTAT
1 AAATTACAAT-AAAGTACA-AAATATTTAT
*
2028 AAAATACAATAAA
1 AAATTACAATAAA
2041 TTTAGCATAA
Statistics
Matches: 190, Mismatches: 31, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
26 15 0.08
27 67 0.35
28 62 0.33
29 46 0.24
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.33
Consensus pattern (28 bp):
AAATTACAATAAAGTACAAAATATTTAT
Found at i:2010 original size:55 final size:56
Alignment explanation
Indices: 1778--2011 Score: 214
Period size: 55 Copynumber: 4.2 Consensus size: 56
1768 AAAAATCATC
* * * * ** *
1778 AAATTACAATAAAAG-ACAAAA-TGCTTTAGAATTTATAATAAAGTTTAAACTTTTTAG
1 AAATTACAAT-AAAGTACAAAACT-ATTTATAAATTAAAATAAAGGATAAA-TTTTTAT
* * *
1835 AATTTACAATAAAGTA-AAAA-TATTTATAAATTATAAT-AAGGATAATTTTTTTAT
1 AAATTACAATAAAGTACAAAACTATTTATAAATTAAAATAAAGGATAA-ATTTTTAT
* * * * **
1889 AAATTACAATAAAGTACAAAACAATTTAT--ATTACAATAAAGTACAAACAATTTAT
1 AAATTACAATAAAGTACAAAACTATTTATAAATTAAAATAAAGGATAAA-TTTTTAT
1944 AAATTACAATAAAGTACAAAACTATTTATAAATTAAAATAAAGGATAAATTTTTAT
1 AAATTACAATAAAGTACAAAACTATTTATAAATTAAAATAAAGGATAAATTTTTAT
*
2000 AAA-TATAATAAA
1 AAATTACAATAAA
2012 AGGAGACAAA
Statistics
Matches: 146, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
54 34 0.23
55 64 0.44
56 23 0.16
57 25 0.17
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.35
Consensus pattern (56 bp):
AAATTACAATAAAGTACAAAACTATTTATAAATTAAAATAAAGGATAAATTTTTAT
Found at i:3874 original size:55 final size:54
Alignment explanation
Indices: 3844--4269 Score: 642
Period size: 55 Copynumber: 7.8 Consensus size: 54
3834 CCCACTACCA
* *
3844 ATACGGAAATTCATAAACTTATTATGAATTTCTAAGTTTTGCACACACAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTGCACACAAAGTGCCC
* * *
3899 ATATGGAAATTCATAAACTTATTGTGAATTTCTTAGTTTTGCACAC-AAGAGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTGCACACAAAGTGCCC
* *
3953 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTACACGCAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTGCACACAAAGTGCCC
*
4008 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGGACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTGCACACAAAGTGCCC
*
4063 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGGACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTGCACACAAAGTGCCC
*
4118 ATAC-AAAATTCATAAACTTATTAT-AATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTGCACACAAAGTGCCC
** *
4171 ATACAAAAATTCATAAACTTATTATGAATTTCTTAGTGTTGCACACAAAGTTCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGT-TTGCACACAAAGTGCCC
*
4226 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTACACA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACA
4270 TAGTGTCATT
Statistics
Matches: 348, Mismatches: 19, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
53 32 0.09
54 94 0.27
55 222 0.64
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (54 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACAAAGTGCCC
Found at i:3974 original size:109 final size:110
Alignment explanation
Indices: 3844--4264 Score: 695
Period size: 109 Copynumber: 3.9 Consensus size: 110
3834 CCCACTACCA
* * *
3844 ATACGGAAATTCATAAACTTATTATGAATTTCTAAGTTTTGCACACACAGTGCCCATATGGAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
* *
3909 TCATAAACTTATTGTGAATTTCTTAGTTTTGCACAC-AAGAGCCC
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* *
3953 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTACACGCAAAGTGCCCATACGGAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
*
4018 TCATAAACTTATTATGAATTTCTTAGTTTTGGACACAAAGTGCCC
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* *
4063 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGGACACAAAGTGCCCATAC-AAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
4127 TCATAAACTTATTAT-AATTTCTTAGTTTTGCACACAAAGTGCCC
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
** * *
4171 ATACAAAAATTCATAAACTTATTATGAATTTCTTAGTGTTGCACACAAAGTTCCCATACGGAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
4236 TCATAAACTTATTATGAATTTCTTAGTTT
66 TCATAAACTTATTATGAATTTCTTAGTTT
4265 ACACATAGTG
Statistics
Matches: 290, Mismatches: 19, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
108 82 0.28
109 132 0.46
110 76 0.26
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (110 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
Found at i:4035 original size:164 final size:163
Alignment explanation
Indices: 3844--4264 Score: 691
Period size: 163 Copynumber: 2.6 Consensus size: 163
3834 CCCACTACCA
* * *
3844 ATACGGAAATTCATAAACTTATTATGAATTTCTAAGTTTTGCACACACAGTGCCCATATGGAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
* *
3909 TCATAAACTTATTGTGAATTTCTTAGTTTTGCACAC-AAGAGCCCATACGGAAATTCATAAACTT
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGAGCCCATAC-AAAATTCATAAACTT
*
3973 ATTATGAATTTCTTAGTTTTACACGCAAAGTGCCC
130 ATTAT-AATTTCTTAGTTTTACACACAAAGTGCCC
*
4008 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGGACACAAAGTGCCCATACGGAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
* *
4073 TCATAAACTTATTATGAATTTCTTAGTTTTGGACACAAAGTGCCCATACAAAATTCATAAACTTA
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGAGCCCATACAAAATTCATAAACTTA
*
4138 TTATAATTTCTTAGTTTTGCACACAAAGTGCCC
131 TTATAATTTCTTAGTTTTACACACAAAGTGCCC
** * *
4171 ATACAAAAATTCATAAACTTATTATGAATTTCTTAGTGTTGCACACAAAGTTCCCATACGGAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
4236 TCATAAACTTATTATGAATTTCTTAGTTT
66 TCATAAACTTATTATGAATTTCTTAGTTT
4265 ACACATAGTG
Statistics
Matches: 241, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
163 116 0.48
164 114 0.47
165 11 0.05
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (163 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGAGCCCATACAAAATTCATAAACTTA
TTATAATTTCTTAGTTTTACACACAAAGTGCCC
Found at i:12012 original size:6 final size:6
Alignment explanation
Indices: 11996--12089 Score: 118
Period size: 6 Copynumber: 15.5 Consensus size: 6
11986 AGAGAAAAGT
* *
11996 TTTTTA TTTTT- TATTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTCC
1 TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* * *
12044 TTTTTC TTTTTC ATTTTC TTTTTC ATTTTC TTTTTC ATTTTAC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTT
12090 CTTTCTTTCT
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
5 1 0.01
6 71 0.91
7 6 0.08
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:12029 original size:24 final size:24
Alignment explanation
Indices: 11996--12089 Score: 134
Period size: 24 Copynumber: 3.9 Consensus size: 24
11986 AGAGAAAAGT
* *
11996 TTTTTATTTTTTATTTTCTTTTTC
1 TTTTTCTTTTTCATTTTCTTTTTC
* *
12020 TTTTTCTTTTTCTTTTTCTTTTCC
1 TTTTTCTTTTTCATTTTCTTTTTC
12044 TTTTTCTTTTTCATTTTCTTTTTC
1 TTTTTCTTTTTCATTTTCTTTTTC
*
12068 ATTTTCTTTTTCATTTTACTTT
1 TTTTTCTTTTTCATTTT-CTTT
12090 CTTTCTTTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 58 0.94
25 4 0.06
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTCTTTTTCATTTTCTTTTTC
Found at i:22681 original size:15 final size:15
Alignment explanation
Indices: 22661--22717 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
22651 GTAATCGGTT
22661 TCGGTTTTAAAAAAA
1 TCGGTTTTAAAAAAA
*
22676 TCGGTTTTTTTAAAAAA
1 TCGG--TTTTAAAAAAA
*
22693 TCGGTTATAAAAAAA
1 TCGGTTTTAAAAAAA
*
22708 TCGATTTTAA
1 TCGGTTTTAA
22718 TATTCCAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 21 0.60
17 14 0.40
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (15 bp):
TCGGTTTTAAAAAAA
Found at i:22690 original size:17 final size:17
Alignment explanation
Indices: 22665--22715 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
22655 TCGGTTTCGG
22665 TTTTAAAAAAATCGGTT
1 TTTTAAAAAAATCGGTT
*
22682 TTTTTAAAAAATCGG--
1 TTTTAAAAAAATCGGTT
* *
22697 TTATAAAAAAATCGATT
1 TTTTAAAAAAATCGGTT
22714 TT
1 TT
22716 AATATTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (17 bp):
TTTTAAAAAAATCGGTT
Found at i:22911 original size:21 final size:21
Alignment explanation
Indices: 22887--22939 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
22877 ACACTTAGGG
22887 AACCGATTCCCTATGAGAGGA
1 AACCGATTCCCTATGAGAGGA
*
22908 AACCGATTCCCTATGAGAGGG
1 AACCGATTCCCTATGAGAGGA
*
22929 TACCGATTCCC
1 AACCGATTCCC
22940 CCACGCTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (21 bp):
AACCGATTCCCTATGAGAGGA
Found at i:23156 original size:13 final size:13
Alignment explanation
Indices: 23135--23189 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
23125 AAGTTCGATA
*
23135 AATTCAAATACTT
1 AATTGAAATACTT
23148 AATTGAAATACTT
1 AATTGAAATACTT
* *
23161 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
23175 AATTGAAATACTT
1 AATTGAAATACTT
23188 AA
1 AA
23190 ATACTTCTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:23271 original size:32 final size:32
Alignment explanation
Indices: 23175--23273 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 32
23165 AACTCAACAT
* * **
23175 AATTGAAATACTTAAATACTTCTAAGTTTAATA
1 AATTCAAATACTTAAAAACTTC-AAGTTCGATA
23208 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
23241 AATTCAAATACTTAAAAACTTCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCAAGTTCGATA
23273 A
1 A
23274 TTGAAACAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
32 12 0.20
33 48 0.79
34 1 0.02
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (32 bp):
AATTCAAATACTTAAAAACTTCAAGTTCGATA
Found at i:23292 original size:21 final size:21
Alignment explanation
Indices: 23268--23307 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23258 ACTTCAAGTT
23268 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
23289 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
23308 ATAAAATAAA
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:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:25624 original size:23 final size:24
Alignment explanation
Indices: 25598--25645 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
25588 CCAGACCGAT
* *
25598 TTTTTTTTCCGG-ATAAAAACCGG
1 TTTTTTATCCGGTAAAAAAACCGG
25621 TTTTTTATCCGGTAAAAAAACCGG
1 TTTTTTATCCGGTAAAAAAACCGG
25645 T
1 T
25646 CTAGGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (24 bp):
TTTTTTATCCGGTAAAAAAACCGG
Found at i:26995 original size:50 final size:50
Alignment explanation
Indices: 26940--27037 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
26930 GCACAAGTGG
*
26940 GTTCACTTCTTTACATCTGGTGTACGAAGTTTAGAAGATTGTGTTAATGA
1 GTTCACTTCTTTACATCGGGTGTACGAAGTTTAGAAGATTGTGTTAATGA
26990 GTTCACTTCTTTACATCGGGTGTACGAAGTTTAGAAGATTGTGTTAAT
1 GTTCACTTCTTTACATCGGGTGTACGAAGTTTAGAAGATTGTGTTAAT
27038 CTTAAGGGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (50 bp):
GTTCACTTCTTTACATCGGGTGTACGAAGTTTAGAAGATTGTGTTAATGA
Found at i:31813 original size:15 final size:15
Alignment explanation
Indices: 31793--31837 Score: 90
Period size: 15 Copynumber: 3.0 Consensus size: 15
31783 GTTAGATGCC
31793 CGATTTTCTTTAAAG
1 CGATTTTCTTTAAAG
31808 CGATTTTCTTTAAAG
1 CGATTTTCTTTAAAG
31823 CGATTTTCTTTAAAG
1 CGATTTTCTTTAAAG
31838 GACAGTGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
CGATTTTCTTTAAAG
Found at i:34657 original size:15 final size:15
Alignment explanation
Indices: 34628--34660 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
34618 TGTTATATGA
34628 GAAAATGTTCTACGT
1 GAAAATGTTCTACGT
34643 GAAAATGTTCTACGT
1 GAAAATGTTCTACGT
34658 GAA
1 GAA
34661 TGAATGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (15 bp):
GAAAATGTTCTACGT
Found at i:34808 original size:23 final size:23
Alignment explanation
Indices: 34778--34860 Score: 98
Period size: 23 Copynumber: 3.6 Consensus size: 23
34768 GCAGTCATTC
34778 GGACAATTCTATGTGGTCCTTCG
1 GGACAATTCTATGTGGTCCTTCG
**
34801 GGACAATTCTATACGGTCCTTCG
1 GGACAATTCTATGTGGTCCTTCG
*
34824 GGACAAATCTATGTGG-CACTTCG
1 GGACAATTCTATGTGGTC-CTTCG
34847 GTG-CAAATTCTATG
1 G-GAC-AATTCTATG
34861 CGGCAGTTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
22 1 0.02
23 41 0.80
24 9 0.18
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (23 bp):
GGACAATTCTATGTGGTCCTTCG
Found at i:36784 original size:14 final size:14
Alignment explanation
Indices: 36750--36809 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
36740 AACGATCAAG
36750 ATATAT-TAAATAA
1 ATATATATAAATAA
*
36763 A-ATATATACATAA
1 ATATATATAAATAA
36776 ATATATATAAAGGTAA
1 ATATATATAAA--TAA
*
36792 ATCATATCT-AATAA
1 AT-ATATATAAATAA
36806 ATAT
1 ATAT
36810 GGTAGAACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
12 4 0.10
13 10 0.26
14 13 0.33
16 7 0.18
17 5 0.13
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (14 bp):
ATATATATAAATAA
Found at i:41703 original size:23 final size:23
Alignment explanation
Indices: 41671--41742 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
41661 CGGTAAAATA
* *
41671 AAATATACGCTACCTATTATGTT
1 AAATAAACGCTACCTATTACGTT
*
41694 AAATAAACGCTTCCTATTACGTT
1 AAATAAACGCTACCTATTACGTT
* *
41717 AAATAAACGATACTTATTACGTT
1 AAATAAACGCTACCTATTACGTT
41740 AAA
1 AAA
41743 CTAGATATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (23 bp):
AAATAAACGCTACCTATTACGTT
Found at i:41892 original size:75 final size:75
Alignment explanation
Indices: 41734--41892 Score: 201
Period size: 75 Copynumber: 2.1 Consensus size: 75
41724 CGATACTTAT
* * *
41734 TACGTTAAACTAGATATTGGTTTGTTTAAAGGTTAATAATAATATAAACAGTAAAATAAAATAGA
1 TACGTTAAAATAGATACTGGTTTGTTTAAAAGTTAATAATAATATAAACAGTAAAATAAAATAGA
* *
41799 CGTTACATAT
66 CGCTACATAA
** * * * * *
41809 TAAATTAAAATATATACTGGTTTGTTTAAAAGTTACTAATAATGTAAACGGTAAAATAAAATAGG
1 TACGTTAAAATAGATACTGGTTTGTTTAAAAGTTAATAATAATATAAACAGTAAAATAAAATAGA
*
41874 CGCTACCTAA
66 CGCTACATAA
41884 TACGTTAAA
1 TACGTTAAA
41893 TAAGCGCTAC
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (75 bp):
TACGTTAAAATAGATACTGGTTTGTTTAAAAGTTAATAATAATATAAACAGTAAAATAAAATAGA
CGCTACATAA
Found at i:44596 original size:50 final size:50
Alignment explanation
Indices: 44521--44670 Score: 194
Period size: 50 Copynumber: 3.0 Consensus size: 50
44511 AATTATTTGT
* **
44521 TTAAGAAGGACATCGCAGAAAAGTTGACTCCTCTCCACGAGAAAGTCAAG
1 TTAAGAATGACATAACAGAAAAGTTGACTCCTCTCCACGAGAAAGTCAAG
* * *
44571 TTAAGAATGACATAACCGGAAAGTTGACTCCTCTCCATGAGAAAGTCAAG
1 TTAAGAATGACATAACAGAAAAGTTGACTCCTCTCCACGAGAAAGTCAAG
* * * *
44621 TTGAGAATGACATCACAGAAAAGTTGACTACTCT-TAGCGAGAAAGTCAAG
1 TTAAGAATGACATAACAGAAAAGTTGACTCCTCTCCA-CGAGAAAGTCAAG
44671 AATGACATCA
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 1 0.01
50 85 0.99
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (50 bp):
TTAAGAATGACATAACAGAAAAGTTGACTCCTCTCCACGAGAAAGTCAAG
Found at i:44700 original size:19 final size:19
Alignment explanation
Indices: 44676--44714 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
44666 TCAAGAATGA
*
44676 CATCACTAAAAATTTGACT
1 CATCACTAAAAAGTTGACT
*
44695 CATCACTGAAAAGTTGACT
1 CATCACTAAAAAGTTGACT
44714 C
1 C
44715 TTCTTCGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (19 bp):
CATCACTAAAAAGTTGACT
Found at i:44746 original size:45 final size:45
Alignment explanation
Indices: 44695--44959 Score: 338
Period size: 45 Copynumber: 5.9 Consensus size: 45
44685 AAATTTGACT
* *
44695 CATCACTGAAAAGTTGACTCTTCTTCGTGAGAAAGTCAAGAAAGA
1 CATCACTGAAAAGTTGACTCTTCTTCGCGAGAAAGTCAAGAATGA
* * *
44740 CATCACTGAAAGGTTGACTCCTCTTTGCGAGAAAGTCAAGAATGA
1 CATCACTGAAAAGTTGACTCTTCTTCGCGAGAAAGTCAAGAATGA
* * *
44785 TATCACTGAAATA-TTGACTCATCTTCGTGAGAAAGTCAAGAATGA
1 CATCACTGAAA-AGTTGACTCTTCTTCGCGAGAAAGTCAAGAATGA
44830 CATCACTGAAATA-TTGACTCTTCTTCGCGAGAAAGTCAAGAATGA
1 CATCACTGAAA-AGTTGACTCTTCTTCGCGAGAAAGTCAAGAATGA
* *
44875 CATCACTGAAAGGTTGACTCCTCTTCGCGAGAAAGTCAAGAATGA
1 CATCACTGAAAAGTTGACTCTTCTTCGCGAGAAAGTCAAGAATGA
** * * * *
44920 TGTCACTTAAAGGTTGACT-TCTCTTCGTGAAAAAGTCAAG
1 CATCACTGAAAAGTTGACTCT-TCTTCGCGAGAAAGTCAAG
44960 TTTAGGTTTC
Statistics
Matches: 196, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
45 196 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (45 bp):
CATCACTGAAAAGTTGACTCTTCTTCGCGAGAAAGTCAAGAATGA
Found at i:44757 original size:64 final size:64
Alignment explanation
Indices: 44631--44759 Score: 179
Period size: 64 Copynumber: 2.0 Consensus size: 64
44621 TTGAGAATGA
* *
44631 CATCACAGAAAAGTTGACTACTCTTAGCGAGAAAGTCAAGAATGACATCACTAAAAATTTGACT
1 CATCACAGAAAAGTTGACTACTCTTAGCGAGAAAGTCAAGAAAGACATCACTAAAAAGTTGACT
* * * * *
44695 CATCACTGAAAAGTTGACT-CTTCTTCGTGAGAAAGTCAAGAAAGACATCACTGAAAGGTTGACT
1 CATCACAGAAAAGTTGACTAC-TCTTAGCGAGAAAGTCAAGAAAGACATCACTAAAAAGTTGACT
44759 C
1 C
44760 CTCTTTGCGA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 1 0.02
64 56 0.98
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (64 bp):
CATCACAGAAAAGTTGACTACTCTTAGCGAGAAAGTCAAGAAAGACATCACTAAAAAGTTGACT
Found at i:44790 original size:109 final size:112
Alignment explanation
Indices: 44590--44807 Score: 300
Period size: 109 Copynumber: 2.0 Consensus size: 112
44580 ACATAACCGG
44590 AAAGTTGACTCCTCTCCATGAGAAAGTCAAGTTGAGAATGACATCACAGAAAAGTTGACTACTCT
1 AAAGTTGACTCCTCTCCATGAGAAAGTCAA--TGAGAATGACATCACAGAAAAGTTGACTACTCT
44655 TAGCGAGAAAGTCAAGAATGACATCACTAAAA-ATTTGACTCATCACTGA
64 TAGCGAGAAAGTCAAGAATGACATCACTAAAATA-TTGACTCATCACTGA
* * * * * * *
44704 AAAGTTGACTCTTCTTCGTGAGAAAGTCAA-GA-AA-GACATCACTGAAAGGTTGACTCCTCTTT
1 AAAGTTGACTCCTCTCCATGAGAAAGTCAATGAGAATGACATCACAGAAAAGTTGACTACTCTTA
* *
44766 GCGAGAAAGTCAAGAATGATATCACTGAAATATTGACTCATC
66 GCGAGAAAGTCAAGAATGACATCACTAAAATATTGACTCATC
44808 TTCGTGAGAA
Statistics
Matches: 94, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
109 62 0.66
110 3 0.03
111 2 0.02
114 27 0.29
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (112 bp):
AAAGTTGACTCCTCTCCATGAGAAAGTCAATGAGAATGACATCACAGAAAAGTTGACTACTCTTA
GCGAGAAAGTCAAGAATGACATCACTAAAATATTGACTCATCACTGA
Found at i:44856 original size:135 final size:135
Alignment explanation
Indices: 44695--44959 Score: 426
Period size: 135 Copynumber: 2.0 Consensus size: 135
44685 AAATTTGACT
*
44695 CATCACTGAAAAGTTGACTCTTCTTCGTGAGAAAGTCAAGAAAGACATCACTGAAAGGTTGACTC
1 CATCACTGAAAAGTTGACTCTTCTTCGCGAGAAAGTCAAGAAAGACATCACTGAAAGGTTGACTC
* * *
44760 CTCTTTGCGAGAAAGTCAAGAATGATATCACTGAAATATTGAC-TCATCTTCGTGAGAAAGTCAA
66 CTCTTCGCGAGAAAGTCAAGAATGATATCACTGAAAGATTGACTTC-TCTTCGTGAAAAAGTCAA
44824 GAATGA
130 GAATGA
*
44830 CATCACTGAAATA-TTGACTCTTCTTCGCGAGAAAGTCAAGAATGACATCACTGAAAGGTTGACT
1 CATCACTGAAA-AGTTGACTCTTCTTCGCGAGAAAGTCAAGAAAGACATCACTGAAAGGTTGACT
* * *
44894 CCTCTTCGCGAGAAAGTCAAGAATGATGTCACTTAAAGGTTGACTTCTCTTCGTGAAAAAGTCAA
65 CCTCTTCGCGAGAAAGTCAAGAATGATATCACTGAAAGATTGACTTCTCTTCGTGAAAAAGTCAA
44959 G
130 G
44960 TTTAGGTTTC
Statistics
Matches: 120, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
135 117 0.98
136 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (135 bp):
CATCACTGAAAAGTTGACTCTTCTTCGCGAGAAAGTCAAGAAAGACATCACTGAAAGGTTGACTC
CTCTTCGCGAGAAAGTCAAGAATGATATCACTGAAAGATTGACTTCTCTTCGTGAAAAAGTCAAG
AATGA
Found at i:50397 original size:22 final size:23
Alignment explanation
Indices: 50354--50400 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
50344 AACACAATAA
50354 TTAATTTTTTTTAATTTCGAAAAT
1 TTAATTTTTTTT-ATTTCGAAAAT
*
50378 TTAATTTTTTTT-TTTGGAAAAT
1 TTAATTTTTTTTATTTCGAAAAT
50400 T
1 T
50401 CTTGCGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.45
24 12 0.55
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (23 bp):
TTAATTTTTTTTATTTCGAAAAT
Found at i:50601 original size:20 final size:20
Alignment explanation
Indices: 50564--50602 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50554 AGATTGAGTG
* * *
50564 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
50584 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
50603 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:50806 original size:23 final size:20
Alignment explanation
Indices: 50780--50831 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
50770 TTCCCCTGTG
50780 GGGGGAATCAGTCCCCCTTCAAA
1 GGGGGAATCAGT-CCCC-T-AAA
* *
50803 GGGGGAATCGGTTCCCTAAA
1 GGGGGAATCAGTCCCCTAAA
50823 GGGGGAATC
1 GGGGGAATC
50832 GATTCCCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 12 0.44
21 1 0.04
22 3 0.11
23 11 0.41
ACGTcount: A:0.25, C:0.23, G:0.35, T:0.17
Consensus pattern (20 bp):
GGGGGAATCAGTCCCCTAAA
Found at i:50825 original size:20 final size:20
Alignment explanation
Indices: 50800--50839 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
50790 GTCCCCCTTC
*
50800 AAAGGGGGAATCGGTTCCCT
1 AAAGGGGGAATCGATTCCCT
50820 AAAGGGGGAATCGATTCCCT
1 AAAGGGGGAATCGATTCCCT
50840 CTGCACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.33, T:0.20
Consensus pattern (20 bp):
AAAGGGGGAATCGATTCCCT
Found at i:66788 original size:17 final size:17
Alignment explanation
Indices: 66768--66812 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
66758 TAAGTAATTA
*
66768 ATTATTTTATTATTATT
1 ATTATTTTATTATTAGT
66785 ATTATTTTATT-TTAGT
1 ATTATTTTATTATTAGT
66801 ATT-TTTT-TTATT
1 ATTATTTTATTATT
66813 TGATTAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 2 0.08
15 6 0.23
16 7 0.27
17 11 0.42
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
ATTATTTTATTATTAGT
Found at i:66797 original size:22 final size:22
Alignment explanation
Indices: 66769--66813 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
66759 AAGTAATTAA
*
66769 TTATTTTATTATTATTATTATT
1 TTATTTTAGTATTATTATTATT
* *
66791 TTATTTTAGTATTTTTTTTATT
1 TTATTTTAGTATTATTATTATT
66813 T
1 T
66814 GATTAGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (22 bp):
TTATTTTAGTATTATTATTATT
Found at i:75893 original size:26 final size:26
Alignment explanation
Indices: 75864--75941 Score: 79
Period size: 26 Copynumber: 3.1 Consensus size: 26
75854 ATTTTCCCTC
*
75864 TCATTTTTAACTTTTTCTTTTATATT
1 TCATTTTTAACTTTTTCTTTCATATT
* * *
75890 TCATTATTAACTTTCTCTTTCATCTT
1 TCATTTTTAACTTTTTCTTTCATATT
* * *
75916 TAACTTTT-ACTTTTTCTCTC-TATT
1 TCATTTTTAACTTTTTCTTTCATATT
75940 TC
1 TC
75942 TTCATCTTCT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 4 0.10
25 10 0.24
26 27 0.66
ACGTcount: A:0.18, C:0.19, G:0.00, T:0.63
Consensus pattern (26 bp):
TCATTTTTAACTTTTTCTTTCATATT
Found at i:81744 original size:6 final size:6
Alignment explanation
Indices: 81737--81818 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
81727 TGAGAGTGAT
* * * * * * * *
81737 GATGAT GATGAC GACGAG GATGAG GATGAT AATGAC GATAAG GAGGAG
1 GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG
* *
81785 GATGAG GATGAC GATGAG GATGAC GATGAG GATG
1 GATGAG GATGAG GATGAG GATGAG GATGAG GATG
81819 GTGAGAAGTA
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.35, C:0.06, G:0.41, T:0.17
Consensus pattern (6 bp):
GATGAG
Found at i:81800 original size:12 final size:12
Alignment explanation
Indices: 81737--81818 Score: 92
Period size: 12 Copynumber: 6.8 Consensus size: 12
81727 TGAGAGTGAT
*
81737 GATGATGATGAC
1 GATGAGGATGAC
* *
81749 GACGAGGATGAG
1 GATGAGGATGAC
**
81761 GATGATAATGAC
1 GATGAGGATGAC
* * *
81773 GATAAGGAGGAG
1 GATGAGGATGAC
81785 GATGAGGATGAC
1 GATGAGGATGAC
81797 GATGAGGATGAC
1 GATGAGGATGAC
81809 GATGAGGATG
1 GATGAGGATG
81819 GTGAGAAGTA
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 55 1.00
ACGTcount: A:0.35, C:0.06, G:0.41, T:0.17
Consensus pattern (12 bp):
GATGAGGATGAC
Found at i:82660 original size:31 final size:31
Alignment explanation
Indices: 82620--82687 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
82610 AAAAGTTTGT
* *
82620 TTTAAGTGTATGTGTATGCTTTTATTTACTG
1 TTTAAGTGTATGTGTACGATTTTATTTACTG
* * *
82651 TTTAGGTGTATTTGTACGATTTTATTTATTG
1 TTTAAGTGTATGTGTACGATTTTATTTACTG
82682 TTTAAG
1 TTTAAG
82688 GTCTGAGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.21, C:0.04, G:0.19, T:0.56
Consensus pattern (31 bp):
TTTAAGTGTATGTGTACGATTTTATTTACTG
Found at i:83517 original size:16 final size:16
Alignment explanation
Indices: 83491--83529 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
83481 TGAAAATGAT
83491 AGATAACATAATAAGAA
1 AGAT-ACATAATAAGAA
*
83508 AGATACATAATAGGAA
1 AGATACATAATAAGAA
*
83524 AAATAC
1 AGATAC
83530 TAAGGACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.62, C:0.08, G:0.13, T:0.18
Consensus pattern (16 bp):
AGATACATAATAAGAA
Found at i:83845 original size:83 final size:82
Alignment explanation
Indices: 83662--84183 Score: 597
Period size: 83 Copynumber: 6.4 Consensus size: 82
83652 TGTCATAGTG
* * * * * **
83662 TTTTCCATTATTATTCAGAGAATCTTTGTCATGTCATAGTATTCCATCCTATTTGAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCAATCCCATCCGAAATGAAAGG
* *
83727 CACATTTCAGGG--G--
66 CGCATTCCAGGGAAGCA
* * *
83740 TTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTT-ACATCCCATCCAAAATAAAAG
1 TTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCA-ATCCCATCCGAAATGAAAG
* **
83804 GCACATTCCAGGGAAAGTG
65 GCGCATTCCAGGG-AAGCA
* * * *
83823 TTTTCCGTTATTATTCATAGAATCTCTA-CAATGTTATAGTGTTCCATCCCATCCGAAATGAAAG
1 TTTTCCATTATTATTCAGAGAATCTCTATC-ATGTCATAGTGTTCAATCCCATCCGAAATGAAAG
* *
83887 GCGCATTCTAGGGGAAACA
65 GCGCATTCCA-GGGAAGCA
* * * *
83906 TTTTCCATTATTATTTAGAGAATCTCTATCATGTTATAGTGTTCAATCCTATCCGAAATAAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCAATCCCATCCGAAATGAAAGG
* *
83971 TGCGTTCCAGGGGAAGCA
66 CGCATTCCA-GGGAAGCA
* *
83989 TTTTCCATTATTATTCAGAGAATCTCTGTCATGTCATAGTGTTCAATCCCATTCGAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCAATCCCATCCGAAATGAAAGG
*
84054 CGCGTTCCAGGGGAAGCA
66 CGCATTCCA-GGGAAGCA
* * * * *
84072 TTTTCCATTACTATTTAGAGAGTCTCTGTCATGTCATAGTGTTCTATCCCATCCGAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCAATCCCATCCGAAATGAAAGG
* *
84137 CGCGTTCGAGAGGAAGCA
66 CGCATTCCAG-GGAAGCA
*
84155 TTTTCCATTATTATTCAAAGAATCTCTAT
1 TTTTCCATTATTATTCAGAGAATCTCTAT
84184 TATTTCACAT
Statistics
Matches: 383, Mismatches: 50, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
78 65 0.17
81 1 0.00
82 2 0.01
83 311 0.81
84 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (82 bp):
TTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCAATCCCATCCGAAATGAAAGG
CGCATTCCAGGGAAGCA
Found at i:84297 original size:8 final size:8
Alignment explanation
Indices: 84269--84313 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
84259 TTGAAATCTT
*
84269 AAACATTC
1 AAACTTTC
*
84277 AAACGTTC
1 AAACTTTC
84285 AAACTTTC
1 AAACTTTC
*
84293 AAACTTTG
1 AAACTTTC
*
84301 AAACTCTC
1 AAACTTTC
84309 AAACT
1 AAACT
84314 AAGAAAATGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.42, C:0.24, G:0.04, T:0.29
Consensus pattern (8 bp):
AAACTTTC
Found at i:87206 original size:31 final size:31
Alignment explanation
Indices: 87145--87206 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
87135 ATTTTCTAAT
* **
87145 GTTTCAACTTATGTTATTTCAGTTTCTTTTA
1 GTTTCAACTTATGTGATTTCAACTTCTTTTA
*
87176 GTTTCAA-TTAATGTGATTTCAACTTGTTTTA
1 GTTTCAACTT-ATGTGATTTCAACTTCTTTTA
87207 TTTTATAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.55
Consensus pattern (31 bp):
GTTTCAACTTATGTGATTTCAACTTCTTTTA
Done.