Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005069.1 Hibiscus syriacus cultivar Beakdansim tig00011374_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: 68446
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:5705 original size:21 final size:20
Alignment explanation
Indices: 5665--5703 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5655 ATAAAAATAA
*
5665 AAATAAAATTTTATATTTTC
1 AAATAAAATTTGATATTTTC
*
5685 AAATTAAATTTGATATTTT
1 AAATAAAATTTGATATTTT
5704 TCCATATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
AAATAAAATTTGATATTTTC
Found at i:6195 original size:14 final size:15
Alignment explanation
Indices: 6172--6213 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
6162 GCACCATTAA
*
6172 ATTAATTTATAAA-T
1 ATTAAATTATAAAGT
*
6186 GTTAAATTATAAAGT
1 ATTAAATTATAAAGT
6201 ATTAAAATTATAA
1 ATT-AAATTATAA
6214 TTATAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 3 0.13
16 9 0.39
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (15 bp):
ATTAAATTATAAAGT
Found at i:6215 original size:22 final size:23
Alignment explanation
Indices: 6190--6236 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
6180 ATAAATGTTA
*
6190 AATTATAAAGTA-TTAAAATTAT
1 AATTATAAAGTAGTTAAAAATAT
*
6212 AATTATAAATTAGTTAAAAATAT
1 AATTATAAAGTAGTTAAAAATAT
6235 AA
1 AA
6237 ATGTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
AATTATAAAGTAGTTAAAAATAT
Found at i:6251 original size:23 final size:23
Alignment explanation
Indices: 6169--6253 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
6159 CGAGCACCAT
* *
6169 TAAATTAATTTATAAATGTTAAATTA
1 TAAATTAA-TTAAAAAT-ATAAA-TA
* * *
6195 TAAAGT-ATTAAAATTATAATTA
1 TAAATTAATTAAAAATATAAATA
* *
6217 TAAATTAGTTAAAAATATAAATG
1 TAAATTAATTAAAAATATAAATA
*
6240 TAATTTAATTAAAA
1 TAAATTAATTAAAA
6254 TACAATATTT
Statistics
Matches: 46, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
22 7 0.15
23 27 0.59
24 6 0.13
25 1 0.02
26 5 0.11
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (23 bp):
TAAATTAATTAAAAATATAAATA
Found at i:8003 original size:23 final size:23
Alignment explanation
Indices: 7975--8019 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
7965 AAATATTGTA
*
7975 TTTTAATTAAATTATAATTATAT
1 TTTTAAGTAAATTATAATTATAT
*
7998 TTTTAAGTAAGTTATAATTATA
1 TTTTAAGTAAATTATAATTATA
8020 CGTTTAGTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTTTAAGTAAATTATAATTATAT
Found at i:8034 original size:22 final size:23
Alignment explanation
Indices: 7976--8038 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
7966 AATATTGTAT
* * **
7976 TTTAATTAAATTATAATTATATT
1 TTTAAGTAAGTTATAATTATACG
7999 TTTAAGTAAGTTATAATTATACG
1 TTTAAGTAAGTTATAATTATACG
**
8022 TTT-AGTACTTTATAATT
1 TTTAAGTAAGTTATAATT
8039 TAACATTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 12 0.35
23 22 0.65
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.52
Consensus pattern (23 bp):
TTTAAGTAAGTTATAATTATACG
Found at i:10156 original size:21 final size:21
Alignment explanation
Indices: 10105--10157 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
10095 ATTCTGACTA
10105 TCGCAATGCGATTTTCCAAAT
1 TCGCAATGCGATTTTCCAAAT
*** *
10126 TCGTGTTGCGATTTTCCTAAT
1 TCGCAATGCGATTTTCCAAAT
10147 TCGCAATGCGA
1 TCGCAATGCGA
10158 ATACATAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAAAT
Found at i:10172 original size:20 final size:20
Alignment explanation
Indices: 10147--10239 Score: 150
Period size: 20 Copynumber: 4.7 Consensus size: 20
10137 TTTTCCTAAT
*
10147 TCGCAATGCGAATACATAAA
1 TCGCAATGCGAATACGTAAA
10167 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
10187 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
*
10207 TCGCAAAGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
10227 TCGCAACGCGAAT
1 TCGCAATGCGAAT
10240 CTGACTATCG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:10461 original size:22 final size:22
Alignment explanation
Indices: 10436--10501 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
10426 GGAGACATCC
* *
10436 GTCCCCGTCTCCGATGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
10458 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
10480 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
10502 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:10877 original size:20 final size:20
Alignment explanation
Indices: 10852--10904 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
10842 CGATTTTCAT
10852 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
**
10872 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCAAA
*
10892 TTCGTGTTGCGAT
1 TTCGCGTTGCGAT
10905 TTAAAGTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:12250 original size:18 final size:18
Alignment explanation
Indices: 12229--12268 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12219 GATGAGCAGC
* *
12229 CACCACATCGAGAGCCAT
1 CACCACACCCAGAGCCAT
*
12247 CACCTCACCCAGAGCCAT
1 CACCACACCCAGAGCCAT
12265 CACC
1 CACC
12269 TGATCGACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.47, G:0.12, T:0.10
Consensus pattern (18 bp):
CACCACACCCAGAGCCAT
Found at i:12826 original size:20 final size:21
Alignment explanation
Indices: 12797--12847 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
12787 AGAATAGTTT
12797 ACTATCGCAATGCG-AAAATG
1 ACTATCGCAATGCGAAAAATG
* *
12817 ACTATTGCAATTCGAAAAATG
1 ACTATCGCAATGCGAAAAATG
12838 ACTATCGCAA
1 ACTATCGCAA
12848 CGAGAGAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.24
Consensus pattern (21 bp):
ACTATCGCAATGCGAAAAATG
Found at i:12837 original size:21 final size:20
Alignment explanation
Indices: 12797--12993 Score: 154
Period size: 20 Copynumber: 10.5 Consensus size: 20
12787 AGAATAGTTT
12797 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
12817 ACTATTGCAATTCGAAAAATG
1 ACTATCGCAATGCG-AAAATG
*
12838 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
12854 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
12871 A--A----AAT-CGTAAAAAC
1 ACTATCGCAATGCG-AAAATG
** *
12885 AAAATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
12905 ACTATCGCAACGCAAAAATG
1 ACTATCGCAATGCGAAAATG
12925 ACTATC-CAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
12944 ACTATCGCAATGTGAAAATG
1 ACTATCGCAATGCGAAAATG
**
12964 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
12984 ACTATCGCAA
1 ACTATCGCAA
12994 CGAAAGAATC
Statistics
Matches: 144, Mismatches: 19, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
12 2 0.01
13 3 0.02
14 11 0.08
16 7 0.05
17 5 0.03
19 19 0.13
20 80 0.56
21 17 0.12
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:12921 original size:33 final size:33
Alignment explanation
Indices: 12832--12921 Score: 85
Period size: 33 Copynumber: 2.7 Consensus size: 33
12822 TGCAATTCGA
*
12832 AAAATGACTATCGCAACG-AGAGAATCGCAATGCG
1 AAAATGACTATCGCAACGCA-A-AATCGCAACGCG
** * **
12866 -AAATGAAAATCGTAAAAACAAAATCGCAACGCG
1 AAAATGACTATCG-CAACGCAAAATCGCAACGCG
12899 AAAATGACTATCGCAACGCAAAA
1 AAAATGACTATCGCAACGCAAAA
12922 ATGACTATCC
Statistics
Matches: 42, Mismatches: 11, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
33 28 0.67
34 13 0.31
35 1 0.02
ACGTcount: A:0.49, C:0.20, G:0.18, T:0.13
Consensus pattern (33 bp):
AAAATGACTATCGCAACGCAAAATCGCAACGCG
Found at i:12939 original size:39 final size:40
Alignment explanation
Indices: 12888--12995 Score: 155
Period size: 39 Copynumber: 2.7 Consensus size: 40
12878 TAAAAACAAA
*
12888 ATCGCAACGCGAAAATGACTATCGCAACGCAAAAATGACT
1 ATCGCAATGCGAAAATGACTATCGCAACGCAAAAATGACT
* **
12928 ATC-CAATGCGAAAATGACTATCGCAATGTGAAAATGACT
1 ATCGCAATGCGAAAATGACTATCGCAACGCAAAAATGACT
**
12967 ATCGCAATGCGAATTTGACTATCGCAACG
1 ATCGCAATGCGAAAATGACTATCGCAACG
12996 AAAGAATCGC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.58
40 25 0.42
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (40 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCAAAAATGACT
Found at i:13065 original size:20 final size:20
Alignment explanation
Indices: 13040--13112 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
13030 GATTCTCTCG
13040 TTGCGATAGTCAAATTTGCA
1 TTGCGATAGTCAAATTTGCA
13060 TTGCGATAGTCAAATTTGCA
1 TTGCGATAGTCAAATTTGCA
** *
13080 TTGCGATAGTCATTTTTCGCG
1 TTGCGATAGTCAAATTT-GCA
13101 TTGCGATAGTCA
1 TTGCGATAGTCA
13113 TTTTCGCGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 35 0.71
21 14 0.29
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCAAATTTGCA
Found at i:13127 original size:20 final size:21
Alignment explanation
Indices: 13083--13127 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
13073 ATTTGCATTG
*
13083 CGATAGTCATTTTTCGCGTTG
1 CGATAGTCATTTTTCGCGTTA
13104 CGATAGTCA-TTTTCGCGTTA
1 CGATAGTCATTTTTCGCGTTA
13124 CGAT
1 CGAT
13128 TTTAAGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (21 bp):
CGATAGTCATTTTTCGCGTTA
Found at i:13682 original size:21 final size:21
Alignment explanation
Indices: 13608--13694 Score: 84
Period size: 21 Copynumber: 4.1 Consensus size: 21
13598 GCCCGACTCA
13608 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* ** *
13629 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
** *
13650 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* * *
13671 ACTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
13692 CCT
1 CCT
13695 CCCAACATTC
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.21, C:0.37, G:0.20, T:0.23
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:13688 original size:42 final size:42
Alignment explanation
Indices: 13616--13698 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
13606 CACCTGTCAT
*
13616 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAC
* ** *
13658 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
13699 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.39, G:0.19, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:14971 original size:14 final size:14
Alignment explanation
Indices: 14952--14987 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
14942 ATTGTTTAAT
14952 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
14966 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
14980 TGATTTGT
1 TGATTTGT
14988 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:15181 original size:34 final size:33
Alignment explanation
Indices: 15093--15188 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 33
15083 AAAACAGACT
* ** *
15093 ATCGCAACGCGGAAATGACTATCACAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
15127 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
15160 ATCGTAATGCGAAAATGAAAATTGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
15189 CGAATTTAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:15265 original size:33 final size:33
Alignment explanation
Indices: 15203--15298 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
15193 TTTAGTTTCG
*
15203 CGTTGCGATTTTCATTTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
15237 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** *
15270 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
15299 AGTCAATTCC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 33 0.58
34 24 0.42
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:15295 original size:20 final size:20
Alignment explanation
Indices: 15270--15344 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
15260 GCGATTCTCT
15270 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
15290 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
**
15310 CGTTGCGATAGTCATTTATG
1 CGTTGCGATAGTCATTTCCG
*
15330 TGTTGCGATAGTCAT
1 CGTTGCGATAGTCAT
15345 ATTCACGTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:15325 original size:40 final size:39
Alignment explanation
Indices: 15270--15378 Score: 122
Period size: 40 Copynumber: 2.9 Consensus size: 39
15260 GCGATTCTCT
*
15270 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCAATT-CA
** *
15310 CGTTGCGATAGTCATTTATGTGTTGCGATAGTCATATTCA
1 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCA-ATTCA
15350 CGTTGC---A---ATTTCCGCGTTGCGATAGTCAA
1 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCAA
15379 ATAAATGTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
33 1 0.02
34 18 0.30
37 1 0.02
40 38 0.62
41 3 0.05
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (39 bp):
CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCAATTCA
Found at i:15354 original size:20 final size:20
Alignment explanation
Indices: 15270--15355 Score: 93
Period size: 20 Copynumber: 4.3 Consensus size: 20
15260 GCGATTCTCT
*
15270 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCA
* *
15290 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCA
***
15310 CGTTGCGATAGTCATTTATG
1 CGTTGCGATAGTCATTTCCA
*
15330 TGTTGCGATAGTCATATT-CA
1 CGTTGCGATAGTCAT-TTCCA
15350 CGTTGC
1 CGTTGC
15356 AATTTCCGCG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 55 0.96
21 2 0.04
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCA
Found at i:17825 original size:24 final size:24
Alignment explanation
Indices: 17791--17844 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
17781 CTAAAAAATC
17791 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
17815 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
17839 ATCAAA
1 ATCAAA
17845 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:18711 original size:20 final size:20
Alignment explanation
Indices: 18686--18752 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
18676 AAATTCAGTA
18686 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* **
18706 TTGCGATAGTTAGAATCTTA
1 TTGCGATAGTCAGAATCTCG
* *
18726 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCTCG
18746 TTGCGAT
1 TTGCGAT
18753 TTACATATTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:18762 original size:20 final size:20
Alignment explanation
Indices: 18739--18911 Score: 283
Period size: 20 Copynumber: 8.7 Consensus size: 20
18729 CGATAGTCAG
* *
18739 ATTCGCGTTGCGATTTACAT
1 ATTCGCATTGCGATTTACGT
18759 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
18779 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
18799 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
18819 ATTCGTATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
18839 ATTCGCATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
18859 ATTCGCATTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
18879 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
18899 ATTCGCATTGCGA
1 ATTCGCATTGCGA
18912 ATTAGGAAAA
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 143 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:18769 original size:40 final size:40
Alignment explanation
Indices: 18685--18812 Score: 120
Period size: 40 Copynumber: 3.2 Consensus size: 40
18675 GAAATTCAGT
* * * **
18685 ATTGCGATAGTCAGAATCTCGTTGCGATAGTTAGA-A-TCTT
1 ATTGCGATAGTCAGATTCGCGTTGCGAT--TTACATATTCGC
18725 ATTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCGC
1 ATTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCGC
* * *
18765 ATTGCGAT--TTACGTATTCGCATTGCGATTTACGTATTCGC
1 ATTGCGATAGTCA-G-ATTCGCGTTGCGATTTACATATTCGC
18805 ATTGCGAT
1 ATTGCGAT
18813 TTACGTATTC
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
38 6 0.08
39 2 0.03
40 68 0.89
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (40 bp):
ATTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCGC
Found at i:18931 original size:21 final size:21
Alignment explanation
Indices: 18901--18950 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
18891 ATTTACGTAT
*
18901 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
*
18922 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAGGAAAA
18943 TCGCAATG
1 TCGCAATG
18951 TGATAGTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:24942 original size:14 final size:14
Alignment explanation
Indices: 24923--24966 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
24913 GCGTAAGTCA
24923 TAAAACAAATATAT
1 TAAAACAAATATAT
*
24937 TAAAACAAGTATAT
1 TAAAACAAATATAT
*
24951 TACAACAAAATATAT
1 TAAAAC-AAATATAT
24966 T
1 T
24967 GTACGAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAAAACAAATATAT
Found at i:26981 original size:22 final size:22
Alignment explanation
Indices: 26917--26974 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
26907 GAAATTTATT
*
26917 AAGATGTTGATGGCCTTGATGG
1 AAGATGTTGATGGTCTTGATGG
26939 AAGATGTTGATGGTCTTGATGG
1 AAGATGTTGATGGTCTTGATGG
26961 AAGATGTTGATGGT
1 AAGATGTTGATGGT
26975 TCTGATGTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.24, C:0.05, G:0.36, T:0.34
Consensus pattern (22 bp):
AAGATGTTGATGGTCTTGATGG
Found at i:31173 original size:20 final size:20
Alignment explanation
Indices: 31139--31178 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
31129 TGTAGGAGTC
*
31139 TTTTCTTTTCTTTTTGTTTT
1 TTTTCTTTTCTTTTTCTTTT
31159 TTTTC-TTTCTTTTTTCTTTT
1 TTTTCTTTTC-TTTTTCTTTT
31179 GTCTTTGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (20 bp):
TTTTCTTTTCTTTTTCTTTT
Found at i:31493 original size:22 final size:22
Alignment explanation
Indices: 31435--31499 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
31425 TGAAATTTAT
* *
31435 GAAGATGTTGATGGCCTTGATG
1 GAAGATGTTGATGGTCTTGATA
31457 GAAGATGTTGATGGTCTTGATA
1 GAAGATGTTGATGGTCTTGATA
*
31479 GAAGATGTTGATGGTGTTGAT
1 GAAGATGTTGATGGTCTTGAT
31500 CTTGAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.25, C:0.05, G:0.35, T:0.35
Consensus pattern (22 bp):
GAAGATGTTGATGGTCTTGATA
Found at i:38004 original size:17 final size:17
Alignment explanation
Indices: 37984--38018 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
37974 AGGTTCTGTT
*
37984 TTGGGTGTTGGTTTGGG
1 TTGGATGTTGGTTTGGG
*
38001 TTGGATGTTTGTTTGGG
1 TTGGATGTTGGTTTGGG
38018 T
1 T
38019 ATGATTGTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (17 bp):
TTGGATGTTGGTTTGGG
Found at i:38843 original size:140 final size:140
Alignment explanation
Indices: 38191--38844 Score: 848
Period size: 140 Copynumber: 4.7 Consensus size: 140
38181 TTTCAAGCTG
* ** * * * * ** *
38191 TGAGTTATTCTCATTATCAACTCTATACTGGAAATATCGATCCCTTGAGTGGGGCATCACTGATT
1 TGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTCGCTGATT
* *
38256 CAACTCCATATATGATGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTT-TT-TCC
66 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* *
38319 CTTTATCGGA
131 CTCTATCAGA
* * * *
38329 TGAGTTATCCTCATTATGAACTCTCAACTAGAAA-GTTGATCCCTCGAGTGAGGTATCGCTGATT
1 TGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTCGCTGATT
* * * *
38393 CAACTCCATATGTGATGAATCAAACTAAGGCTAAACAAGTTCTTCTCATTATGAACTTCTTCTCC
66 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* *
38458 ATCTATCAGG
131 CTCTATCAGA
* * * *
38468 TGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCATAGAGTAAAGTGTCGCTGATT
1 TGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTCGCTGATT
* * * * *
38533 CAACTCCATATGCGATG-GTCCGAACAAAGGTTGAACAAGTTCTTCTCATTATGAAGTTCTTCTC
66 CAACTCCATATGTGATGAAT-CGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC
38597 CCTCTATCAGA
130 CCTCTATCAGA
* * * *
38608 TGAGTTCTTCTCATTATGAACTCTCTACTGGAAATGTTGATCCCTCAAGTGAGGTGTCACTGATT
1 TGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTCGCTGATT
* * * *
38673 CAACTCCATATGCGATGAATCGAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTATCC
66 CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
*
38738 CTCTATCAGT
131 CTCTATCAGA
* * *
38748 TGAGTTATTCTCACTATGAACTCTCCACTGGAAATGTTGATCACTCGAGTGAGGTGTTGCTGATT
1 TGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTCGCTGATT
* *
38813 CAACTCCATATATGATGAATTGAGCTAAGGTT
66 CAACTCCATATGTGATGAATCGAGCTAAGGTT
38845 ATATGATAAG
Statistics
Matches: 450, Mismatches: 61, Indels: 8
0.87 0.12 0.02
Matches are distributed among these distances:
137 78 0.17
138 31 0.07
139 41 0.09
140 299 0.66
141 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (140 bp):
TGAGTTATTCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTCGCTGATT
CAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
CTCTATCAGA
Found at i:53046 original size:68 final size:68
Alignment explanation
Indices: 52963--53350 Score: 501
Period size: 68 Copynumber: 5.7 Consensus size: 68
52953 ATTAAATGGA
* * *
52963 CTAACTGTGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTAA
1 CTAACTTTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGA
53028 GGC
66 GGC
* * * * *
53031 CTAACTTTGCATTTGACAAAAAGGTGTCCATTATGCTAGTTAGATGAAAGGGTAAGTGCCTTTGA
1 CTAACTTTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGA
53096 GGC
66 GGC
* **
53099 CTAACTATGCATTTGACAGAAAGGTGTCAATTATGTTAGTTAGATGAAAGGCTAAGTACCTTTGA
1 CTAACTTTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGA
53164 GGC
66 GGC
* * * * *
53167 CTAACTGTGCATTTGAC-GAAAAGGTGTCAATTATGCCAATTAGATGAAAGGATAATTATCTTTG
1 CTAACTTTGCATTTGACAG-AAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTG
53231 AGGC
65 AGGC
* * * *
53235 CTAA-TTGTGTATTTGACAGAAAGGTTTCAATTATGCCAGATAGATGAAAGGCTAAGTGCCTTTG
1 CTAACTT-TGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTG
*
53299 AGAC
65 AGGC
* * * * * *
53303 CTAACTTTTCATTTGACAAAAATGTGTTAATTATGTCAATTAGATGAA
1 CTAACTTTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
53351 CGGTTAAAGA
Statistics
Matches: 276, Mismatches: 40, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
67 2 0.01
68 271 0.98
69 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (68 bp):
CTAACTTTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGA
GGC
Found at i:53210 original size:136 final size:136
Alignment explanation
Indices: 52963--53350 Score: 569
Period size: 136 Copynumber: 2.9 Consensus size: 136
52953 ATTAAATGGA
*
52963 CTAACTGTGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTAA
1 CTAACTGTGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGA
* * * * *
53028 GGCCTAACTTTGCATTTGACAAAAAGGTGTCCATTATGCTAGTTAGATGAAAGGGTAAGTGCCTT
66 GGCCTAACTTTGCATTTGACAAAAAGGTGTCAATTATGCCAATTAGATGAAAGGATAAGTACCTT
53093 TGAGGC
131 TGAGGC
* * **
53099 CTAACTATGCATTTGACAGAAAGGTGTCAATTATGTTAGTTAGATGAAAGGCTAAGTACCTTTGA
1 CTAACTGTGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGA
* * * *
53164 GGCCTAACTGTGCATTTGACGAAAAGGTGTCAATTATGCCAATTAGATGAAAGGATAATTATCTT
66 GGCCTAACTTTGCATTTGACAAAAAGGTGTCAATTATGCCAATTAGATGAAAGGATAAGTACCTT
53229 TGAGGC
131 TGAGGC
* * * *
53235 CTAATTGTGTATTTGACAGAAAGGTTTCAATTATGCCAGATAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGA
* * * * *
53300 GACCTAACTTTTCATTTGACAAAAATGTGTTAATTATGTCAATTAGATGAA
66 GGCCTAACTTTGCATTTGACAAAAAGGTGTCAATTATGCCAATTAGATGAA
53351 CGGTTAAAGA
Statistics
Matches: 223, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
136 223 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (136 bp):
CTAACTGTGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTGA
GGCCTAACTTTGCATTTGACAAAAAGGTGTCAATTATGCCAATTAGATGAAAGGATAAGTACCTT
TGAGGC
Found at i:53318 original size:204 final size:204
Alignment explanation
Indices: 52963--53350 Score: 555
Period size: 204 Copynumber: 1.9 Consensus size: 204
52953 ATTAAATGGA
* * *
52963 CTAACTGTGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTTAA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGATAAGTACCTTTAA
* * * *
53028 GGCCTAACTTTGCATTTGACAAAAAGGTGTCCATTATGCTAGTTAGATGAAAGGGTAAGTGCCTT
66 GGCCTAACTTTGCATTTGACAAAAAGGTGTCAATTATGCCAGATAGATGAAAGGCTAAGTGCCTT
* * * *
53093 TGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGTTAGTTAGATGAAAGGCTAAGTAC
131 TGAGACCTAACTATGCATTTGACAAAAAGGTGTCAATTATGTCAATTAGATGAAAGGCTAAGTAC
53158 CTTTGAGGC
196 CTTTGAGGC
* * *
53167 CTAACTGTGCATTTGAC-GAAAAGGTGTCAATTATGCCAATTAGATGAAAGGATAATTATCTTTG
1 CTAACTGTGCATTTGACAG-AAAGGTGTCAATTATGCCAATTAGATGAAAGGATAAGTACCTTTA
* * *
53231 AGGCCTAA-TTGTGTATTTGACAGAAAGGTTTCAATTATGCCAGATAGATGAAAGGCTAAGTGCC
65 AGGCCTAACTT-TGCATTTGACAAAAAGGTGTCAATTATGCCAGATAGATGAAAGGCTAAGTGCC
* * * *
53295 TTTGAGACCTAACTTTTCATTTGACAAAAATGTGTTAATTATGTCAATTAGATGAA
129 TTTGAGACCTAACTATGCATTTGACAAAAAGGTGTCAATTATGTCAATTAGATGAA
53351 CGGTTAAAGA
Statistics
Matches: 161, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
203 3 0.02
204 158 0.98
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (204 bp):
CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGATAAGTACCTTTAA
GGCCTAACTTTGCATTTGACAAAAAGGTGTCAATTATGCCAGATAGATGAAAGGCTAAGTGCCTT
TGAGACCTAACTATGCATTTGACAAAAAGGTGTCAATTATGTCAATTAGATGAAAGGCTAAGTAC
CTTTGAGGC
Found at i:53447 original size:81 final size:81
Alignment explanation
Indices: 53322--53601 Score: 391
Period size: 81 Copynumber: 3.5 Consensus size: 81
53312 CATTTGACAA
* * *
53322 AAATGTGTTAATTATGTCAATTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTA
1 AAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTA
*
53387 GCTATACATTTGGTAG
66 GCTGTACATTTGGTAG
* **
53403 AAATGTGTCAATTATGCCAGTTAGATGAACGGTTACAGACCGTTGAGTAAAAGATAAATTACCTA
1 AAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTA
*
53468 GCTGTGCATTTGGTAG
66 GCTGTACATTTGGTAG
* * *
53484 AAAGGTATCAATTATGCCAGTTAGATGAATGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTA
1 AAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTA
*
53549 GCTGTACATTTGGAAG
66 GCTGTACATTTGGTAG
* * * * *
53565 ACAA-GTGTCAGTCATGCAAGTTAGGTGAAAGGTTAAA
1 A-AATGTGTCAATTATGCCAGTTAGATGAACGGTTAAA
53602 TGCCTTTGGG
Statistics
Matches: 176, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
81 174 0.99
82 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (81 bp):
AAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTA
GCTGTACATTTGGTAG
Found at i:53640 original size:162 final size:162
Alignment explanation
Indices: 53331--53649 Score: 394
Period size: 162 Copynumber: 2.0 Consensus size: 162
53321 AAAATGTGTT
*
53331 AATTATGTCAATTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGCTATACAT
1 AATTATGCCAATTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGCTATACAT
* * * * *
53396 TTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTACAGACCGTTGAGTAAAAGATAAA
66 TTGGAAGAAATGTGTCAATCATGCAAGTTAGATGAAAGGTTAAAGACCGTTGAGTAAAAGATAAA
** * *
53461 TTACCTAGCTGTGCATTTGG-TAGAAAGGTATC
131 GGAACTA-CTATGCATTTGGATAGAAAGGTATC
* * *
53493 AATTATGCCAGTTAGATGAATGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGCTGTACAT
1 AATTATGCCAATTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGCTATACAT
* * * * *
53558 TTGGAAGACAA-GTGTCAGTCATGCAAGTTAGGTGAAAGGTTAAATG-CCTTTGGGTAAAAGTCT
66 TTGGAAGA-AATGTGTCAATCATGCAAGTTAGATGAAAGGTTAAA-GACCGTTGAGTAAAAG-AT
*
53621 AAAGGAATTA-TAATGCATTTGGATAGAAA
128 AAAGGAACTACT-ATGCATTTGGATAGAAA
53650 CTGTGCATAA
Statistics
Matches: 133, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
161 1 0.01
162 116 0.87
163 16 0.12
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (162 bp):
AATTATGCCAATTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGCTATACAT
TTGGAAGAAATGTGTCAATCATGCAAGTTAGATGAAAGGTTAAAGACCGTTGAGTAAAAGATAAA
GGAACTACTATGCATTTGGATAGAAAGGTATC
Found at i:58443 original size:68 final size:68
Alignment explanation
Indices: 58171--58425 Score: 429
Period size: 68 Copynumber: 3.8 Consensus size: 68
58161 AAGATTAAAT
58171 GGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
58236 TGA
66 TGA
* * *
58239 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAAGCTAAGTTCCTT
1 GGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
58304 TGA
66 TGA
* * *
58307 GGCCTAACTATGAATTTGACAGAAAGGTGTCAATTATGTCAATTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
58372 TGA
66 TGA
* * *
58375 GGCCTAACTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAA
1 GGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
58426 CGGTTAAAGA
Statistics
Matches: 172, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 172 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (68 bp):
GGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:58517 original size:81 final size:80
Alignment explanation
Indices: 58375--58595 Score: 298
Period size: 81 Copynumber: 2.7 Consensus size: 80
58365 GTGCCTTTGA
* * * *
58375 GGCCTAACTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAA-GTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCAT
58440 TGAGTAAAAGATAAAT
65 TGAGTAAAAGATAAAT
* *
58456 GGTCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACTAT
1 GGCCTAGCTGTGCATTTGGCAGAAA-GTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCAT
*
58521 TGAGTAAAAGATACAT
65 TGAGTAAAAGATAAAT
* * * * * *
58537 GGCCTAGCTATACATTTGGCAGACAAGTGTTAATCATGCAAGTTAGATGAAAGGTTAAA
1 GGCCTAGCTGTGCATTTGGCAGA-AAGTGTCAATTATGCCAGTTAGATGAACGGTTAAA
58596 TGCCTTTGGG
Statistics
Matches: 124, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
81 122 0.98
82 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (80 bp):
GGCCTAGCTGTGCATTTGGCAGAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCATT
GAGTAAAAGATAAAT
Done.