Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008967.1 Hibiscus syriacus cultivar Beakdansim tig00112309_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: 97660
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:769 original size:14 final size:14
Alignment explanation
Indices: 746--781 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
736 TTTTTTTCAA
746 AAAAACAAAAAAGGC
1 AAAAA-AAAAAAGGC
761 -AAAAAAAAAAGGC
1 AAAAAAAAAAAGGC
774 AAAAAAAA
1 AAAAAAAA
782 CAAAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.81, C:0.08, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGGC
Found at i:770 original size:13 final size:13
Alignment explanation
Indices: 747--781 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
737 TTTTTTCAAA
747 AAAACAAAAAAGGC
1 AAAA-AAAAAAGGC
761 AAAAAAAAAAGGC
1 AAAAAAAAAAGGC
774 AAAAAAAA
1 AAAAAAAA
782 CAAAAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.80, C:0.09, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGGC
Found at i:776 original size:22 final size:20
Alignment explanation
Indices: 744--789 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
734 TTTTTTTTTC
**
744 AAAAAAACAAAAAAGGCAAA
1 AAAAAAACAAAAAAAACAAA
764 AAAAAAAGGCAAAAAAAACAAA
1 AAAAAAA--CAAAAAAAACAAA
786 AAAA
1 AAAA
790 GAGCCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
22 15 0.68
ACGTcount: A:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAAAACAAAAAAAACAAA
Found at i:8045 original size:24 final size:23
Alignment explanation
Indices: 8004--8054 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
7994 AGTGATTCAA
** *
8004 CTTTTTTTTTAGTTCTTGACTTTT
1 CTTTTTTTGGAGTGCTTGAC-TTT
8028 CTTTTTTTGGAGTGCTTGACTTT
1 CTTTTTTTGGAGTGCTTGACTTT
8051 CTTT
1 CTTT
8055 GCTGATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.08, C:0.14, G:0.14, T:0.65
Consensus pattern (23 bp):
CTTTTTTTGGAGTGCTTGACTTT
Found at i:10014 original size:18 final size:16
Alignment explanation
Indices: 9966--10018 Score: 70
Period size: 16 Copynumber: 3.1 Consensus size: 16
9956 GAGTTGTAAG
9966 TTATCTTCATTTTCTTA
1 TTAT-TTCATTTTCTTA
9983 TTATTTCATTTTCTTA
1 TTATTTCATTTTCTTA
*
9999 TTCTTTCATCTTTTCTTA
1 TTATTTCA--TTTTCTTA
10017 TT
1 TT
10019 TTCATTACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 19 0.58
17 4 0.12
18 10 0.30
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTTCATTTTCTTA
Found at i:16017 original size:14 final size:14
Alignment explanation
Indices: 15998--16040 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
15988 ATAAGATACT
* *
15998 ATCTATTCATCATC
1 ATCTATCCATCACC
16012 ATCTATCCATCACC
1 ATCTATCCATCACC
*
16026 ATC-CTCCATCACC
1 ATCTATCCATCACC
16039 AT
1 AT
16041 TCACGCCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.28, C:0.40, G:0.00, T:0.33
Consensus pattern (14 bp):
ATCTATCCATCACC
Found at i:16514 original size:19 final size:20
Alignment explanation
Indices: 16490--16529 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
16480 CATCCTTTCT
16490 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
16509 TTATTTCATTTCATTACTTA
1 TTATTTCATTTCATTACTTA
16529 T
1 T
16530 ATTATTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:24235 original size:20 final size:18
Alignment explanation
Indices: 24212--24257 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 18
24202 GCTTTCTTTC
24212 TCTTTTTGAACTTTTTTTTT
1 TCTTTTTGAA--TTTTTTTT
24232 TCTTTTCT-AATTTTTTTT
1 TCTTTT-TGAATTTTTTTT
24250 TCTTTTTG
1 TCTTTTTG
24258 TCTGTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.04
18 14 0.58
20 8 0.33
21 1 0.04
ACGTcount: A:0.09, C:0.11, G:0.04, T:0.76
Consensus pattern (18 bp):
TCTTTTTGAATTTTTTTT
Found at i:27273 original size:43 final size:44
Alignment explanation
Indices: 27205--27290 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 44
27195 GGACAAATCA
27205 CATAAAAGAAGGGGGGATGATGTGAGCACACCAACGCCATCTTG
1 CATAAAAGAAGGGGGGATGATGTGAGCACACCAACGCCATCTTG
27249 CATAAAAGAA-GGGGGATGATGTGAGCACACCAACGCCATCTT
1 CATAAAAGAAGGGGGGATGATGTGAGCACACCAACGCCATCTT
27291 CAAAGGATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 32 0.76
44 10 0.24
ACGTcount: A:0.35, C:0.21, G:0.28, T:0.16
Consensus pattern (44 bp):
CATAAAAGAAGGGGGGATGATGTGAGCACACCAACGCCATCTTG
Found at i:34590 original size:19 final size:20
Alignment explanation
Indices: 34551--34596 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
34541 GAAATCCCTT
*
34551 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATCTTTAA
34571 TGAAAATACATGA-CTTTAA
1 TGAAAATACATGATCTTTAA
34590 TGAAAAT
1 TGAAAAT
34597 GATACAGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATCTTTAA
Found at i:36896 original size:10 final size:10
Alignment explanation
Indices: 36876--36912 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
36866 ATCAGAAAAG
36876 AAAAAAG-AA
1 AAAAAAGAAA
36885 AAAAAAGAAA
1 AAAAAAGAAA
*
36895 AAAAAAGGAA
1 AAAAAAGAAA
36905 AAAAAAGA
1 AAAAAAGA
36913 GAAGTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:36899 original size:20 final size:21
Alignment explanation
Indices: 36860--36912 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
36850 CAAAAAGAAG
**
36860 AGAAAAATCAGAAAAGAAAAA
1 AGAAAAAAAAGAAAAGAAAAA
36881 AGAAAAAAAAGAAAA-AAAAA
1 AGAAAAAAAAGAAAAGAAAAA
*
36901 GGAAAAAAAAGA
1 AGAAAAAAAAGA
36913 GAAGTTCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (21 bp):
AGAAAAAAAAGAAAAGAAAAA
Found at i:39161 original size:257 final size:257
Alignment explanation
Indices: 38686--39201 Score: 1016
Period size: 258 Copynumber: 2.0 Consensus size: 257
38676 AGAAATGGGA
38686 TTAAAAACGTTGAAGAATTCAAATCCGTACAAATTACAATGGTTAAATGAACGAAGATACTTAAT
1 TTAAAAACGTTGAAGAATTCAAATCCGTACAAATTACAATGGTTAAATGAACGAAGATACTTAAT
38751 GTCAACAAACATGTGATGGTTCCTTTCTCCATTGGTAAGAACAAGGACAAGGTTATGTGTGATGT
66 GTCAACAAACATGTGATGGTTCCTTTCTCCATTGGTAAGAACAAGGACAAGGTTATGTGTGATGT
38816 TGTTCCTATGCATGCTAGCCACTTACTCCTTGGAAGATTATGACAATATGATAGGAGGACCATTC
131 TGTTCCTATGCATGCTAGCCACTTACTCCTTGGAAGATTATGACAATATGATAGGAGGACCATTC
38881 ATAATTGTTTTACCAATCACTATTCATTCAACCATGGAGGGAAGAAGATCATCCGAACACCC
196 ATAATTGTTTTACCAATCACTATTCATTCAACCATGGAGGGAAGAAGATCATCCGAACACCC
38943 TTAAAAACGTTGAAGAATTCAAATCCGTACAAATTACAATGGTTAAATGAACGAAGATAACTTAA
1 TTAAAAACGTTGAAGAATTCAAATCCGTACAAATTACAATGGTTAAATGAACGAAGAT-ACTTAA
39008 TGTCAACAAACATGTGATGGTTCCTTTCTCCATTGGTAAGAACAAGGACAAGGTTATGTGTGATG
65 TGTCAACAAACATGTGATGGTTCCTTTCTCCATTGGTAAGAACAAGGACAAGGTTATGTGTGATG
39073 TTGTTCCTATGCATGCTAGCCACTTACTCCTTGGAAGATTATGACAATATGATAGGAGGACCATT
130 TTGTTCCTATGCATGCTAGCCACTTACTCCTTGGAAGATTATGACAATATGATAGGAGGACCATT
39138 CAT-ATTGTTTTACCAATCACTATTCATTCAACCATGGAGGGAAGAAGATCATCCGAACACCC
195 CATAATTGTTTTACCAATCACTATTCATTCAACCATGGAGGGAAGAAGATCATCCGAACACCC
39200 TT
1 TT
39202 GACGCCTAGA
Statistics
Matches: 258, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
257 119 0.46
258 139 0.54
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (257 bp):
TTAAAAACGTTGAAGAATTCAAATCCGTACAAATTACAATGGTTAAATGAACGAAGATACTTAAT
GTCAACAAACATGTGATGGTTCCTTTCTCCATTGGTAAGAACAAGGACAAGGTTATGTGTGATGT
TGTTCCTATGCATGCTAGCCACTTACTCCTTGGAAGATTATGACAATATGATAGGAGGACCATTC
ATAATTGTTTTACCAATCACTATTCATTCAACCATGGAGGGAAGAAGATCATCCGAACACCC
Found at i:41629 original size:23 final size:23
Alignment explanation
Indices: 41585--41631 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
41575 TTGGAGTGCA
* ** *
41585 AAAGAAGAGAAAAATCAGAAAAG
1 AAAGAAAAGAAAAAAAAAAAAAG
41608 AAAGAAAAGAAAAAAAAAAAAAG
1 AAAGAAAAGAAAAAAAAAAAAAG
41631 A
1 A
41632 GAAGTTCAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (23 bp):
AAAGAAAAGAAAAAAAAAAAAAG
Found at i:44938 original size:10 final size:10
Alignment explanation
Indices: 44923--44952 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
44913 AGAAAAGAAG
44923 AAAAGAAAAA
1 AAAAGAAAAA
44933 AAAAGAAAAA
1 AAAAGAAAAA
44943 AAAAGAAAAA
1 AAAAGAAAAA
44953 GAGAAGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:44957 original size:18 final size:18
Alignment explanation
Indices: 44915--44954 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
44905 GAAAAATCAG
44915 AAAAGAAGAAAAGAAAAA
1 AAAAGAAGAAAAGAAAAA
*
44933 AAAAGAA-AAAA-AAAGA
1 AAAAGAAGAAAAGAAAAA
44949 AAAAGA
1 AAAAGA
44955 GAAGTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 4 0.19
18 7 0.33
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAGAAGAAAAGAAAAA
Found at i:61503 original size:19 final size:19
Alignment explanation
Indices: 61479--61534 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
61469 TCTTTTTGAA
61479 TTCTTTTTCTTTTCTTTTC
1 TTCTTTTTCTTTTCTTTTC
*
61498 TTC-TTTTCTTTTTCTTTTT
1 TTCTTTTTC-TTTTCTTTTC
61517 TGTCTTTTTC-TTTCTTTT
1 T-TCTTTTTCTTTTCTTTT
61535 TGCACTCCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.15
19 21 0.64
20 2 0.06
21 5 0.15
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (19 bp):
TTCTTTTTCTTTTCTTTTC
Found at i:61524 original size:15 final size:14
Alignment explanation
Indices: 61488--61534 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
61478 ATTCTTTTTC
*
61488 TTTTC-TTTTCTTC
1 TTTTCTTTTTCTTT
61501 TTTTCTTTTTCTTT
1 TTTTCTTTTTCTTT
61515 TTTGTCTTTTTCTTT
1 TTT-TCTTTTTCTTT
61530 CTTTT
1 -TTTT
61535 TGCACTCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 5 0.17
14 10 0.33
15 12 0.40
16 3 0.10
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTTCTTTTTCTTT
Found at i:66087 original size:19 final size:19
Alignment explanation
Indices: 66063--66118 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
66053 TCTTTTTGAA
66063 TTCTTTTTCTTTTCTTTTC
1 TTCTTTTTCTTTTCTTTTC
*
66082 TTC-TTTTCTTTTTCTTTTT
1 TTCTTTTTC-TTTTCTTTTC
66101 TGTCTTTTTC-TTTCTTTT
1 T-TCTTTTTCTTTTCTTTT
66119 TGCACTCCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.15
19 21 0.64
20 2 0.06
21 5 0.15
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (19 bp):
TTCTTTTTCTTTTCTTTTC
Found at i:66108 original size:15 final size:14
Alignment explanation
Indices: 66072--66118 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
66062 ATTCTTTTTC
*
66072 TTTTC-TTTTCTTC
1 TTTTCTTTTTCTTT
66085 TTTTCTTTTTCTTT
1 TTTTCTTTTTCTTT
66099 TTTGTCTTTTTCTTT
1 TTT-TCTTTTTCTTT
66114 CTTTT
1 -TTTT
66119 TGCACTCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 5 0.17
14 10 0.33
15 12 0.40
16 3 0.10
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTTCTTTTTCTTT
Found at i:69044 original size:16 final size:17
Alignment explanation
Indices: 69023--69063 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
69013 AAGATATGGT
69023 AATGAAATAA-TAATA-A
1 AATGAAATAACTAA-AGA
69039 AATGAAA-AACTAAAGA
1 AATGAAATAACTAAAGA
69055 AATGAAATA
1 AATGAAATA
69064 GTAAGAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 18 0.82
17 1 0.05
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.20
Consensus pattern (17 bp):
AATGAAATAACTAAAGA
Found at i:69311 original size:18 final size:19
Alignment explanation
Indices: 69277--69332 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
69267 TAGGAGTCTT
*
69277 TTCTTTC-TCTTTTTTTTG
1 TTCTTTCTTCTTTCTTTTG
69295 TT-TTTCTTCTTTCTTTT-
1 TTCTTTCTTCTTTCTTTTG
*
69312 TCTCTTT-TTGTTTCTTTTG
1 T-TCTTTCTTCTTTCTTTTG
69331 TT
1 TT
69333 GCAGCACTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 5 0.16
18 23 0.72
19 4 0.12
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (19 bp):
TTCTTTCTTCTTTCTTTTG
Found at i:76498 original size:19 final size:21
Alignment explanation
Indices: 76474--76525 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
76464 CGGCCAAGAG
*
76474 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
76493 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
76514 CATGTATTTTCA
1 CATGTATTTTCA
76526 AAGGGTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:87070 original size:20 final size:20
Alignment explanation
Indices: 87042--87082 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
87032 AAAGACTTAT
*
87042 GCATGGGAGGAATTAATGAA
1 GCATAGGAGGAATTAATGAA
87062 GCATAGGAGGAATTAATGAA
1 GCATAGGAGGAATTAATGAA
87082 G
1 G
87083 ACATGCATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.34, T:0.20
Consensus pattern (20 bp):
GCATAGGAGGAATTAATGAA
Found at i:92572 original size:13 final size:11
Alignment explanation
Indices: 92549--92670 Score: 79
Period size: 11 Copynumber: 10.2 Consensus size: 11
92539 ATAATAGGCG
92549 TGATAATGGTGA
1 TGAT-ATGGTGA
92561 TGGACTATGGTGA
1 T-GA-TATGGTGA
*
92574 TGATATAGGCG-
1 TGATAT-GGTGA
92585 TGATAATGGTGA
1 TGAT-ATGGTGA
92597 TGGAATATGGTGA
1 T-G-ATATGGTGA
*
92610 TGATATAGGCG-
1 TGATAT-GGTGA
92621 TGATAATGGTGA
1 TGAT-ATGGTGA
92633 TGGACTATGGTGA
1 T-GA-TATGGTGA
*
92646 TGATATAGGCG-
1 TGATAT-GGTGA
92657 TGATAATGGTGA
1 TGAT-ATGGTGA
92669 TG
1 TG
92671 GACAGATTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 30
0.71 0.05 0.24
Matches are distributed among these distances:
11 31 0.35
12 25 0.28
13 29 0.33
14 4 0.04
ACGTcount: A:0.29, C:0.04, G:0.36, T:0.31
Consensus pattern (11 bp):
TGATATGGTGA
Found at i:92582 original size:36 final size:36
Alignment explanation
Indices: 92534--92673 Score: 257
Period size: 36 Copynumber: 3.9 Consensus size: 36
92524 ATTTATAAGT
92534 TGGTGAT-A-ATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
92568 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
92604 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
92640 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
92674 AGATTGTATC
Statistics
Matches: 102, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
34 7 0.07
35 1 0.01
36 94 0.92
ACGTcount: A:0.29, C:0.05, G:0.36, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:92594 original size:23 final size:24
Alignment explanation
Indices: 92556--92670 Score: 82
Period size: 23 Copynumber: 4.8 Consensus size: 24
92546 GCGTGATAAT
92556 GGTGATGGACTATGGTGATGATATAG
1 GGTGAT-GA-TATGGTGATGATATAG
*
92582 GCGTGAT-A-ATGGTGATGGA-ATAT
1 G-GTGATGATATGGTGAT-GATATAG
* *
92605 GGTGATGATATAGGCG-TGATA-AT
1 GGTGATGATAT-GGTGATGATATAG
92628 GGTGATGGACTATGGTGATGATATAG
1 GGTGAT-GA-TATGGTGATGATATAG
92654 GCGTGAT-A-ATGGTGATG
1 G-GTGATGATATGGTGATG
92671 GACAGATTGT
Statistics
Matches: 74, Mismatches: 4, Indels: 25
0.72 0.04 0.24
Matches are distributed among these distances:
22 5 0.07
23 32 0.43
24 11 0.15
25 13 0.18
26 3 0.04
27 10 0.14
ACGTcount: A:0.28, C:0.04, G:0.37, T:0.30
Consensus pattern (24 bp):
GGTGATGATATGGTGATGATATAG
Found at i:97059 original size:36 final size:36
Alignment explanation
Indices: 97004--97141 Score: 230
Period size: 36 Copynumber: 3.9 Consensus size: 36
96994 ATTTATAAGT
*
97004 TGGTGAT-ATATAGGC-TGATAATGGTGATGGCCTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
97038 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
97074 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
97110 TGGTGATGATATA-GCGTGATAATGGTGA-GGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
97142 AGATTGTATC
Statistics
Matches: 99, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
34 11 0.11
35 23 0.23
36 65 0.66
ACGTcount: A:0.28, C:0.06, G:0.36, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:97078 original size:13 final size:12
Alignment explanation
Indices: 97024--97121 Score: 57
Period size: 13 Copynumber: 8.2 Consensus size: 12
97014 TAGGCTGATA
*
97024 ATGGTGATGGCCT
1 ATGGTGATGG-AT
97037 ATGGTGAT-GAT
1 ATGGTGATGGAT
*
97048 ATAGGCG-T-GAT
1 AT-GGTGATGGAT
97059 AATGGTGATGGAAT
1 -ATGGTGATGG-AT
97073 ATGGTGAT-GAT
1 ATGGTGATGGAT
*
97084 ATAGGCG-T-GAT
1 AT-GGTGATGGAT
97095 AATGGTGATGGACT
1 -ATGGTGATGGA-T
97109 ATGGTGAT-GAT
1 ATGGTGATGGAT
97120 AT
1 AT
97122 AGCGTGATAA
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.34
12 16 0.23
13 27 0.39
14 3 0.04
ACGTcount: A:0.28, C:0.05, G:0.36, T:0.32
Consensus pattern (12 bp):
ATGGTGATGGAT
Found at i:97128 original size:13 final size:12
Alignment explanation
Indices: 97039--97129 Score: 59
Period size: 13 Copynumber: 7.5 Consensus size: 12
97029 GATGGCCTAT
97039 GGTGATGATATA
1 GGTGATGATATA
*
97051 GGCG-TGATA-A
1 GGTGATGATATA
97061 TGGTGATGGA-ATA
1 -GGTGAT-GATATA
97074 TGGTGATGATATA
1 -GGTGATGATATA
*
97087 GGCG-TGATA-A
1 GGTGATGATATA
97097 TGGTGATGGACTAT-
1 -GGTGAT-GA-TATA
97111 GGTGATGATATA
1 GGTGATGATATA
97123 GCGTGAT
1 G-GTGAT
97130 AATGGTGAGG
Statistics
Matches: 63, Mismatches: 4, Indels: 23
0.70 0.04 0.26
Matches are distributed among these distances:
10 2 0.03
11 19 0.30
12 14 0.22
13 26 0.41
14 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.36, T:0.31
Consensus pattern (12 bp):
GGTGATGATATA
Done.