Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008638.1 Hibiscus syriacus cultivar Beakdansim tig00111612_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: 80355
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:7196 original size:13 final size:13
Alignment explanation
Indices: 7180--7228 Score: 89
Period size: 13 Copynumber: 3.8 Consensus size: 13
7170 TCCTTACGTT
*
7180 TCATCCTTCCATG
1 TCATCCTTCCAGG
7193 TCATCCTTCCAGG
1 TCATCCTTCCAGG
7206 TCATCCTTCCAGG
1 TCATCCTTCCAGG
7219 TCATCCTTCC
1 TCATCCTTCC
7229 CTTCGTATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.14, C:0.41, G:0.10, T:0.35
Consensus pattern (13 bp):
TCATCCTTCCAGG
Found at i:7937 original size:17 final size:16
Alignment explanation
Indices: 7917--7950 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7907 GTACTTTAAG
7917 TTATGGTTAATTAAAAA
1 TTAT-GTTAATTAAAAA
*
7934 TTATTTTAATTAAAAA
1 TTATGTTAATTAAAAA
7950 T
1 T
7951 ATTATCATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TTATGTTAATTAAAAA
Found at i:11512 original size:21 final size:21
Alignment explanation
Indices: 11462--11503 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11452 TTTCACAGCC
11462 TAAGCTCTAGAGAGCTTGGCT
1 TAAGCTCTAGAGAGCTTGGCT
11483 TAAGCTCTAGAGAGCTTGGCT
1 TAAGCTCTAGAGAGCTTGGCT
11504 CTGGCTCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (21 bp):
TAAGCTCTAGAGAGCTTGGCT
Found at i:15277 original size:23 final size:23
Alignment explanation
Indices: 15247--15293 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
15237 AAATATTTGT
15247 GGGTGGCGACTAAGGCACCGAAA
1 GGGTGGCGACTAAGGCACCGAAA
15270 GGGTGGCGACTAAGGCACCGAAA
1 GGGTGGCGACTAAGGCACCGAAA
15293 G
1 G
15294 TTGAAGACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.40, T:0.09
Consensus pattern (23 bp):
GGGTGGCGACTAAGGCACCGAAA
Found at i:27461 original size:21 final size:20
Alignment explanation
Indices: 27429--27470 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 20
27419 ATTTGACTTT
27429 ATTATAATGATT-ATTTTTA
1 ATTATAATGATTAATTTTTA
27448 ATTATATATAGATTCAATTTTTA
1 ATTATA-AT-GATT-AATTTTTA
27471 TTTAATGTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.32
20 2 0.11
21 4 0.21
23 7 0.37
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTATAATGATTAATTTTTA
Found at i:28282 original size:17 final size:17
Alignment explanation
Indices: 28260--28292 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
28250 CGATGAAATG
28260 AATTTGATTCGAGTTCA
1 AATTTGATTCGAGTTCA
28277 AATTTGATTCGAGTTC
1 AATTTGATTCGAGTTC
28293 TTAACAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (17 bp):
AATTTGATTCGAGTTCA
Found at i:29862 original size:2 final size:2
Alignment explanation
Indices: 29850--29895 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
29840 GGGATTTAAT
29850 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29891 TA TA T
1 TA TA T
29896 TTCTTTATGT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33054 original size:17 final size:18
Alignment explanation
Indices: 33013--33055 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
33003 AGTCATCAAC
33013 TTCAAAGAAAATGAACAA
1 TTCAAAGAAAATGAACAA
*
33031 TTCAAAGAAGATGAACAA
1 TTCAAAGAAAATGAACAA
33049 -TCAAAGA
1 TTCAAAGA
33056 GGAAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.58, C:0.12, G:0.14, T:0.16
Consensus pattern (18 bp):
TTCAAAGAAAATGAACAA
Found at i:36170 original size:20 final size:20
Alignment explanation
Indices: 36145--36233 Score: 97
Period size: 21 Copynumber: 4.3 Consensus size: 20
36135 TTTTCCCAAT
36145 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
36165 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
36185 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
36206 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
36227 TCGCAAT
1 TCGCAAT
36234 TCGATACTGA
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
20 27 0.49
21 28 0.51
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:36187 original size:41 final size:41
Alignment explanation
Indices: 36142--36233 Score: 166
Period size: 41 Copynumber: 2.2 Consensus size: 41
36132 CGATTTTCCC
*
36142 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
36183 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
36224 AAATCGCAAT
1 AATTCGCAAT
36234 TCGATACTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:36250 original size:41 final size:41
Alignment explanation
Indices: 36164--36298 Score: 114
Period size: 41 Copynumber: 3.3 Consensus size: 41
36154 GAATAAGTAA
* * * *
36164 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCG-ATACTG-ACT
*
36205 ATCGCAACGCGAATTGAGAAAATCGCAATTCGATACTGACT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
* * * * * *
36246 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
*
36287 TTCGCAACGCGA
1 ATCGCAACGCGA
36299 TACTGACTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
40 4 0.05
41 71 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
Found at i:36293 original size:20 final size:20
Alignment explanation
Indices: 36268--36320 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
36258 TAATAAAAAA
* *
36268 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
36288 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
36308 TCGCAACGCGATA
1 TCGCAACGCGATA
36321 ATACATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:36535 original size:22 final size:22
Alignment explanation
Indices: 36507--36550 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
36497 CACTCTCTCA
36507 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
36529 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
36551 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:36834 original size:20 final size:20
Alignment explanation
Indices: 36809--36846 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36799 CGATTCTCTC
36809 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
36829 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
36847 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:38206 original size:18 final size:18
Alignment explanation
Indices: 38162--38206 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
38152 TCCACTTCGG
*
38162 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* * *
38180 GAACTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
38198 GAGCCATCA
1 GAGCCATCA
38207 TCTGATCGAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.42, G:0.13, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:38614 original size:17 final size:17
Alignment explanation
Indices: 38580--38624 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
38570 GCTGCCAATC
38580 TGTTTTT-GTTAGTATT
1 TGTTTTTGGTTAGTATT
* *
38596 TGTTTTTGGTTTGTTTT
1 TGTTTTTGGTTAGTATT
38613 TGTCTTTTGGTT
1 TGT-TTTTGGTT
38625 GAAGTAATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.28
17 10 0.40
18 8 0.32
ACGTcount: A:0.04, C:0.02, G:0.22, T:0.71
Consensus pattern (17 bp):
TGTTTTTGGTTAGTATT
Found at i:38701 original size:18 final size:19
Alignment explanation
Indices: 38678--38728 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
38668 TAGTTTACTT
38678 TCGCAA-CGAAAATGACTA
1 TCGCAAGCGAAAATGACTA
* *
38696 TCGCAACGCGGAAATGGCTA
1 TCGCAA-GCGAAAATGACTA
38716 TCGCAATGCGAAA
1 TCGCAA-GCGAAA
38729 TGAAATCGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 6 0.22
20 21 0.78
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.16
Consensus pattern (19 bp):
TCGCAAGCGAAAATGACTA
Found at i:38716 original size:20 final size:19
Alignment explanation
Indices: 38678--38741 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
38668 TAGTTTACTT
*
38678 TCGCAACG-AAAATGACTA
1 TCGCAACGCGAAATGACTA
*
38696 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGACTA
* *
38716 TCGCAATGCGAAATGA-AA
1 TCGCAACGCGAAATGACTA
38734 TCGCAACG
1 TCGCAACG
38742 ACAAAATCGC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
18 16 0.42
19 6 0.16
20 16 0.42
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:38730 original size:19 final size:20
Alignment explanation
Indices: 38687--38741 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
38677 TTCGCAACGA
38687 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
38707 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
*
38726 AAATGA-AATCGCAACG
1 AAATGACTATCGCAACG
38742 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 8 0.27
19 6 0.20
20 16 0.53
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:38759 original size:32 final size:32
Alignment explanation
Indices: 38715--38804 Score: 162
Period size: 32 Copynumber: 2.8 Consensus size: 32
38705 GGAAATGGCT
*
38715 ATCGCAATGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
38747 ATCGCAACGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAATCGCAACGACAAA
38779 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATG-AAATCGCAA
38805 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 47 0.84
33 9 0.16
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAATCGCAACGACAAA
Found at i:38798 original size:19 final size:19
Alignment explanation
Indices: 38695--38809 Score: 74
Period size: 14 Copynumber: 6.6 Consensus size: 19
38685 GAAAATGACT
***
38695 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGAAA
*
38715 ATCGCAATGCGAAATG-AA
1 ATCGCAACGCGAAATGAAA
*
38733 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
38747 ATCGCAACGCGAAATG-AA
1 ATCGCAACGCGAAATGAAA
*
38765 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
38779 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
38798 ATCGCAATGCGA
1 ATCGCAACGCGA
38810 TTTGTGTTTC
Statistics
Matches: 75, Mismatches: 8, Indels: 25
0.69 0.07 0.23
Matches are distributed among these distances:
14 20 0.27
16 8 0.11
18 18 0.24
19 20 0.27
20 9 0.12
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:38840 original size:14 final size:14
Alignment explanation
Indices: 38821--38909 Score: 88
Period size: 14 Copynumber: 5.8 Consensus size: 14
38811 TTGTGTTTCG
38821 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
38835 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
38851 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
*
38867 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
38883 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
38899 CGTTGCGATTT
1 CGTTGCGATTT
38910 CATTTCGCAT
Statistics
Matches: 63, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
14 33 0.52
16 8 0.13
18 22 0.35
ACGTcount: A:0.09, C:0.18, G:0.26, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:38855 original size:32 final size:32
Alignment explanation
Indices: 38816--38965 Score: 212
Period size: 32 Copynumber: 4.5 Consensus size: 32
38806 GCGATTTGTG
38816 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
38848 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
38880 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
* * *
38912 TTTCGCATTGCGATAGCCATTT-CCGTTGCGATAGTCA
1 TTTCGCGTTGCGAT-----TTTGTCGTTGCGAT-TTCA
38949 TTTCGCGTTGCGATTTT
1 TTTCGCGTTGCGATTTT
38966 AAGTTTCGTG
Statistics
Matches: 108, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
32 80 0.74
36 9 0.08
37 19 0.18
ACGTcount: A:0.11, C:0.20, G:0.24, T:0.45
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:38858 original size:18 final size:18
Alignment explanation
Indices: 38816--38964 Score: 126
Period size: 18 Copynumber: 8.9 Consensus size: 18
38806 GCGATTTGTG
38816 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
38832 TGT--CGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
38848 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
38864 TGT--CGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
38880 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
38896 TGT--CGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
* **
38912 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGAT-TTCA
*
38931 TTTC-CGTTGCGATAGTCA
1 TTTCGCGTTGCGAT-TTCA
38949 TTTCGCGTTGCGATTT
1 TTTCGCGTTGCGATTT
38965 TAAGTTTCGT
Statistics
Matches: 107, Mismatches: 12, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
14 33 0.31
16 12 0.11
18 47 0.44
19 15 0.14
ACGTcount: A:0.11, C:0.20, G:0.24, T:0.44
Consensus pattern (18 bp):
TTTCGCGTTGCGATTTCA
Found at i:38895 original size:50 final size:51
Alignment explanation
Indices: 38835--38965 Score: 130
Period size: 50 Copynumber: 2.6 Consensus size: 51
38825 GCGATTTTGT
**
38835 CGTTGCGATTTCATTTCGCGTTGCGATTTTGTCG-TTGCGAT-TTCATTTC
1 CGTTGCGATTTCATTTCGCGTTGCGATTTTGTCGATTGCGATAGCCATTTC
* *
38884 GCGTTGCGATTT--TGT--CGTTGCGATTTCATTTCGCATTGCGATAGCCATTTC
1 -CGTTGCGATTTCATTTCGCGTTGCGATTT--TGTCG-ATTGCGATAGCCATTTC
*
38935 CGTTGCGATAGTCATTTCGCGTTGCGATTTT
1 CGTTGCGAT-TTCATTTCGCGTTGCGATTTT
38966 AAGTTTCGTG
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
46 11 0.17
48 6 0.09
50 27 0.42
51 7 0.11
53 3 0.05
55 11 0.17
ACGTcount: A:0.12, C:0.21, G:0.24, T:0.44
Consensus pattern (51 bp):
CGTTGCGATTTCATTTCGCGTTGCGATTTTGTCGATTGCGATAGCCATTTC
Found at i:40978 original size:14 final size:14
Alignment explanation
Indices: 40959--41012 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
40949 CGAAATGGCT
40959 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
40973 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
40992 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
41006 ATCGCAA
1 ATCGCAA
41013 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:41030 original size:33 final size:33
Alignment explanation
Indices: 40940--41017 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
40930 AAAACAGACT
* ***
40940 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
40973 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
41006 ATCGCAATGCGA
1 ATCGCAATGCGA
41018 TTTTCATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:41471 original size:13 final size:14
Alignment explanation
Indices: 41439--41473 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
41429 ATTGTTTAAT
41439 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
41453 TGATTTGTAAATG-
1 TGATTTGTAAAAGA
41466 TGATTTGT
1 TGATTTGT
41474 TTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:42954 original size:12 final size:12
Alignment explanation
Indices: 42937--42961 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42927 ATATAATCCT
42937 GAAGAAGAAAAA
1 GAAGAAGAAAAA
42949 GAAGAAGAAAAA
1 GAAGAAGAAAAA
42961 G
1 G
42962 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:45276 original size:32 final size:33
Alignment explanation
Indices: 45235--45327 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
45225 CGGAAATACT
45235 ATCGCAATGCGAAATGAAAATCGCAACGA-GGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
45267 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
*
45300 ATCGCAATGTGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
45328 CGAATTTAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 29 0.49
33 30 0.51
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
Found at i:45401 original size:19 final size:18
Alignment explanation
Indices: 45331--45402 Score: 71
Period size: 19 Copynumber: 4.1 Consensus size: 18
45321 CGCAACGCGA
*
45331 ATTTAATTTCGCGTTGCG
1 ATTTCATTTCGCGTTGCG
45349 ATTTCATTTTCGCGTTGCG
1 ATTTCA-TTTCGCGTTGCG
*
45368 A-TTC---TCTCGTTGCG
1 ATTTCATTTCGCGTTGCG
*
45382 ATTTTCATTTCGCATTGCG
1 A-TTTCATTTCGCGTTGCG
45401 AT
1 AT
45403 AGTACTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
14 10 0.23
16 3 0.07
18 9 0.20
19 22 0.50
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (18 bp):
ATTTCATTTCGCGTTGCG
Found at i:45528 original size:14 final size:14
Alignment explanation
Indices: 45509--45545 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
45499 CATCAATTAA
45509 ACAAATCAACTTGT
1 ACAAATCAACTTGT
* *
45523 ACAAATCACCTTTT
1 ACAAATCAACTTGT
45537 ACAAATCAA
1 ACAAATCAA
45546 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.27
Consensus pattern (14 bp):
ACAAATCAACTTGT
Found at i:49065 original size:33 final size:33
Alignment explanation
Indices: 49008--49106 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
48998 ACGAGATAAT
*
49008 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
49042 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
49075 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
49107 GCGAAATTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:49100 original size:19 final size:19
Alignment explanation
Indices: 48983--49167 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
48973 TCTTTTGGTT
*
48983 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
49002 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
49022 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
49040 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
49056 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
49074 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
49089 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
* * *
49109 GAAATTAAAATCCCAACTC
1 GAAATGAAAATCGCAACGC
49128 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
49147 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
49166 GA
1 GA
49168 TTTTGGTTTC
Statistics
Matches: 134, Mismatches: 19, Indels: 26
0.75 0.11 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 59 0.44
20 44 0.33
21 2 0.01
ACGTcount: A:0.43, C:0.23, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:49131 original size:39 final size:38
Alignment explanation
Indices: 48983--49167 Score: 129
Period size: 33 Copynumber: 5.1 Consensus size: 38
48973 TCTTTTGGTT
* * *
48983 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCCCAACGC
** * *
49022 GGAAATGACTATCGCAA--CG--A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATGAAAATCCCAACGC
** * * *
49056 GAAATGACTATCGCGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCCCAACGC
* *
49089 GAAATGAAAATCGCAACCGCGAAATTAAAATCCCAACTC
1 GAAATGAAAATCGCAA-CGCGAAATGAAAATCCCAACGC
* *
49128 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCCCAACGC
49166 GA
1 GA
49168 TTTTGGTTTC
Statistics
Matches: 122, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
33 42 0.34
34 16 0.13
35 2 0.02
38 22 0.18
39 26 0.21
40 14 0.11
ACGTcount: A:0.43, C:0.23, G:0.21, T:0.13
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCCCAACGC
Found at i:49196 original size:19 final size:19
Alignment explanation
Indices: 49163--49207 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
49153 AAAATCGCAA
*
49163 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
49182 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
49201 TGCGATT
1 TGCGATT
49208 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:49841 original size:20 final size:20
Alignment explanation
Indices: 49756--49849 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
49746 CGCTAAGTAA
*
49756 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
49776 ATCGTGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
49796 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
49817 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
49837 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
49850 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:49868 original size:41 final size:41
Alignment explanation
Indices: 49838--49933 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
49828 ATAGTCAGTA
* * *
49838 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
49879 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
49920 TCGCATTGCGAATT
1 TCGCATTGCGAATT
49934 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:49882 original size:20 final size:20
Alignment explanation
Indices: 49838--49930 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
49828 ATAGTCAGTA
* **
49838 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
49859 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
49879 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
49900 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
49920 TCGCATTGCGA
1 TCGCATTGCGA
49931 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:53946 original size:28 final size:28
Alignment explanation
Indices: 53896--53999 Score: 77
Period size: 28 Copynumber: 3.6 Consensus size: 28
53886 ATTTTTTATT
* * *
53896 TAAATACTTAAAATATTTTTTTTTCAAAA
1 TAAATACCTAAAAT-TATCTTTTTCAAAA
*
53925 TAAATACTTAAAATTATCTTTTTAGTCAAAA
1 TAAATACCTAAAATTATC-TTTT--TCAAAA
* * *
53956 TAGATACCTAAAA-TATTCTATATCAAAA
1 TAAATACCTAAAATTA-TCTTTTTCAAAA
*
53984 TAGATACCT-AAATTAT
1 TAAATACCTAAAATTAT
54000 TTAAACTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
27 4 0.06
28 19 0.30
29 18 0.28
30 4 0.06
31 19 0.30
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (28 bp):
TAAATACCTAAAATTATCTTTTTCAAAA
Found at i:53954 original size:31 final size:30
Alignment explanation
Indices: 53896--54001 Score: 103
Period size: 31 Copynumber: 3.6 Consensus size: 30
53886 ATTTTTTATT
**
53896 TAAATACTTAAAA-TATTTTTTTTTCAAAA
1 TAAATACTTAAAATTATTTTTTAGTCAAAA
53925 TAAATACTTAAAATTATCTTTTTAGTCAAAA
1 TAAATACTTAAAATTAT-TTTTTAGTCAAAA
* * * *
53956 TAGATACCTAAAA-TATTCTATA-TCAAAA
1 TAAATACTTAAAATTATTTTTTAGTCAAAA
* *
53984 TAGATACCT-AAATTATTT
1 TAAATACTTAAAATTATTT
54002 AAACTTTTTC
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
27 3 0.04
28 19 0.28
29 17 0.25
30 6 0.09
31 22 0.33
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (30 bp):
TAAATACTTAAAATTATTTTTTAGTCAAAA
Found at i:54142 original size:30 final size:29
Alignment explanation
Indices: 54083--54173 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 29
54073 GAAAAAATTG
* *
54083 AATATTTTAGATTTCTATTTTGAGAAAAAA
1 AATATTTTA-ATTACTATTTTGACAAAAAA
*
54113 AATATTTTAATTACCTATTTTGACCAAAAA
1 AATATTTTAATTA-CTATTTTGACAAAAAA
* * *
54143 GATAATTTTAAGTACTCATTTTGATAAAAAA
1 AAT-ATTTTAATTACT-ATTTTGACAAAAAA
54174 TTACTTTAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 3 0.06
30 27 0.53
31 21 0.41
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (29 bp):
AATATTTTAATTACTATTTTGACAAAAAA
Found at i:54364 original size:11 final size:11
Alignment explanation
Indices: 54348--54374 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
54338 GTAGTGATGA
54348 ATAACTAAATT
1 ATAACTAAATT
54359 ATAACTAAATT
1 ATAACTAAATT
54370 ATAAC
1 ATAAC
54375 AATAAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAACTAAATT
Found at i:56273 original size:16 final size:16
Alignment explanation
Indices: 56238--56298 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
56228 AGATCCAACT
* *
56238 GAAAATAATCCGAATT
1 GAAAATAATCCAAATC
*
56254 GAAAGTAATCCAAATC
1 GAAAATAATCCAAATC
56270 GAAAATAA-CACAAATC
1 GAAAATAATC-CAAATC
56286 -AAAAGTAATCCAA
1 GAAAA-TAATCCAA
56299 TTCAAATTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 5 0.13
16 32 0.84
17 1 0.03
ACGTcount: A:0.56, C:0.16, G:0.10, T:0.18
Consensus pattern (16 bp):
GAAAATAATCCAAATC
Found at i:56303 original size:16 final size:16
Alignment explanation
Indices: 56255--56304 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
56245 ATCCGAATTG
56255 AAAGTAATCCAAATCGA
1 AAAGTAATCCAAATC-A
56272 AAA-TAA-CACAAATCA
1 AAAGTAATC-CAAATCA
*
56287 AAAGTAATCCAATTCA
1 AAAGTAATCCAAATCA
56303 AA
1 AA
56305 TTGACACCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 5 0.17
16 20 0.69
17 4 0.14
ACGTcount: A:0.58, C:0.18, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAGTAATCCAAATCA
Found at i:63753 original size:2 final size:2
Alignment explanation
Indices: 63746--63788 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
63736 TTAACTGACA
63746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63788 A
1 A
63789 GATGCAATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:66933 original size:29 final size:30
Alignment explanation
Indices: 66900--66962 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
66890 AAATTTTGGC
*
66900 TAGTGACTAAAATATAAGCTTTG-AAAGTT
1 TAGTGACTAAAATATAAACTTTGAAAAGTT
* *
66929 TAGTGGCTAAAGTATAAACTTTGTAAAAGTT
1 TAGTGACTAAAATATAAACTTTG-AAAAGTT
66960 TAG
1 TAG
66963 GGATCAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.69
31 9 0.31
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (30 bp):
TAGTGACTAAAATATAAACTTTGAAAAGTT
Found at i:71772 original size:59 final size:59
Alignment explanation
Indices: 71696--71837 Score: 178
Period size: 59 Copynumber: 2.4 Consensus size: 59
71686 ATATGGATAA
* * ** ***
71696 TCAGGTGACCATGTTGTATCTTTTAATAGTCGAGGGACTCAACAAAGTAATGTCCTATAG
1 TCAGG-GACCATTTTGTATCTTTTAATAGTCGAGAGACTCAACAAAACAACACCCTATAG
*
71756 TCAGGGACCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAACAACACCCTATAG
1 TCAGGGACCATTTTGTATCTTTTAATAGTCGAGAGACTCAACAAAACAACACCCTATAG
71815 TCAAGGGACCA-TTTGTATACTTT
1 TC-AGGGACCATTTTGTAT-CTTT
71838 GCCCTAAAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
59 54 0.76
60 17 0.24
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (59 bp):
TCAGGGACCATTTTGTATCTTTTAATAGTCGAGAGACTCAACAAAACAACACCCTATAG
Found at i:74488 original size:31 final size:30
Alignment explanation
Indices: 74453--74511 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
74443 AAACTATCAA
** *
74453 TTTTGGTTTGCTTTAGTACTTAAACTTTTAG
1 TTTTGGTCCGCTTTAGTACCTAAA-TTTTAG
74484 TTTTGGTCCGCTTTAGTACCTAAATTTT
1 TTTTGGTCCGCTTTAGTACCTAAATTTT
74512 CATTCTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.19, C:0.14, G:0.15, T:0.53
Consensus pattern (30 bp):
TTTTGGTCCGCTTTAGTACCTAAATTTTAG
Found at i:74797 original size:13 final size:12
Alignment explanation
Indices: 74774--74816 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 12
74764 CATACGATTT
74774 TTATAATATAAAA
1 TTAT-ATATAAAA
74787 TTCATATATAAAA
1 TT-ATATATAAAA
74800 TTATATTATAAATA
1 TTATA-TATAAA-A
74814 TTA
1 TTA
74817 CAAAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 3 0.11
13 18 0.67
14 6 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (12 bp):
TTATATATAAAA
Found at i:77399 original size:2 final size:2
Alignment explanation
Indices: 77392--77425 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
77382 AAATAATAAT
77392 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
77426 TAATAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:78147 original size:19 final size:19
Alignment explanation
Indices: 78123--78160 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
78113 CCATTTTTGT
78123 TGCCACTACCGTCGAACCA
1 TGCCACTACCGTCGAACCA
78142 TGCCACTACCGTCGAACCA
1 TGCCACTACCGTCGAACCA
78161 CCGACCCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.42, G:0.16, T:0.16
Consensus pattern (19 bp):
TGCCACTACCGTCGAACCA
Done.