genome.fa.s7802.2.7.7.80.10.50.1000.1.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01007802.1 Hibiscus syriacus cultivar Beakdansim tig00110120_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  449556

Tables:   1   2   3   

This is table  1  of  3  ( 287 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2424--2454	7	4.4	7	95	0	53	25	25	29	19	1.99
2451--2540	5	16.8	5	80	13	99	6	22	52	18	1.69
2444--2513	22	3.2	22	100	0	140	8	22	50	18	1.74
2437--2540	27	3.8	27	81	12	131	9	23	49	18	1.77
2473--2540	32	2.1	32	100	0	136	5	22	52	19	1.66
2537--2606	9	7.3	9	80	12	68	30	25	28	15	1.96
2543--2606	19	3.3	18	81	12	74	31	26	26	15	1.96
3326--3524	81	2.4	81	86	2	265	34	13	20	32	1.91
13206--13254	24	2.0	24	100	0	98	34	40	8	16	1.78
24311--24337	2	13.5	2	100	0	54	51	0	0	48	1.00
27478--27516	19	2.1	18	85	4	51	17	10	17	53	1.71
30633--30837	102	2.0	102	93	1	349	25	19	26	29	1.98
33468--33587	59	2.0	59	91	0	195	42	19	15	23	1.88
35180--35244	22	2.9	23	77	11	64	43	0	6	50	1.27
42767--42843	3	25.3	3	89	7	120	37	0	0	62	0.96
44088--44128	22	1.9	21	85	5	55	29	2	2	65	1.18
44110--44147	14	2.7	14	100	0	76	34	0	0	65	0.93
44171--44239	23	3.0	23	78	12	79	28	5	1	63	1.26
44171--44236	11	5.8	11	75	19	64	28	4	1	65	1.21
44288--44684	148	2.6	154	77	14	417	39	5	7	47	1.55
44580--44620	18	2.3	18	88	12	59	39	0	0	60	0.96
44702--44738	2	19.0	2	94	5	67	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45918--45971	18	3.0	18	97	0	99	51	5	5	37	1.49
47194--47245	21	2.5	21	81	3	61	38	19	25	17	1.93
47234--47347	20	5.7	20	83	6	113	31	25	18	24	1.97
47231--47347	61	1.9	61	85	0	162	33	24	17	23	1.97
47905--47946	19	2.2	19	91	0	66	52	26	16	4	1.63
47942--48125	19	10.1	19	75	15	156	12	21	21	44	1.85
48013--48100	33	2.6	33	90	1	131	12	25	23	38	1.90
48079--48125	20	2.3	20	79	13	60	12	25	14	46	1.80
49398--49465	21	3.2	21	64	15	59	29	39	13	17	1.88
49388--49486	42	2.4	42	100	0	198	30	38	15	16	1.89
49419--49486	21	3.2	21	64	15	59	30	39	13	16	1.86
50151--50243	42	2.2	42	82	0	114	21	38	16	23	1.92
51630--51665	14	2.6	14	95	0	63	30	0	25	44	1.54
51846--52006	33	4.9	31	87	6	196	16	21	19	42	1.89
51840--52006	66	2.5	64	84	7	219	17	20	19	41	1.90
54291--54315	12	2.1	12	100	0	50	0	28	0	72	0.86
54490--54543	24	2.2	24	86	0	72	40	20	14	24	1.90
55601--55651	20	2.5	20	96	0	93	35	27	21	15	1.94
55601--55658	20	2.9	20	89	5	91	39	24	20	15	1.91
55677--55763	19	4.8	19	87	9	130	13	20	17	48	1.81
55880--55916	14	2.6	14	86	0	56	48	21	0	29	1.50
57788--57851	19	3.3	19	80	4	74	37	21	25	15	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57840--57897	14	3.9	14	79	16	71	48	25	17	8	1.75
57824--57902	32	2.4	33	93	2	133	46	22	18	11	1.81
57931--57988	14	3.9	14	79	16	71	10	17	24	48	1.78
57914--58004	32	2.8	33	94	3	166	12	18	21	47	1.81
57989--58043	20	2.8	19	83	8	65	16	23	23	36	1.94
58525--58569	18	2.5	18	88	0	72	13	15	44	26	1.83
59880--59922	20	2.2	20	95	0	77	53	18	18	9	1.70
60410--60489	40	2.0	40	85	7	108	32	17	22	27	1.96
60433--60496	20	3.2	20	84	4	85	32	18	23	25	1.97
60537--60612	21	3.7	21	78	3	91	15	23	18	42	1.89
60556--60622	20	3.3	20	79	4	89	16	23	17	41	1.89
60537--60629	41	2.3	41	96	0	177	17	22	18	41	1.90
63820--63870	23	2.2	23	92	0	84	43	17	15	23	1.88
64783--64847	28	2.4	27	94	2	112	55	21	15	7	1.65
65214--65290	38	2.0	38	100	0	154	46	9	10	33	1.70
66013--66044	3	10.7	3	100	0	64	31	0	0	68	0.90
66074--66102	2	15.0	2	92	7	51	48	0	0	51	1.00
66090--66371	36	7.8	35	82	10	282	44	4	6	45	1.49
66378--66445	2	34.5	2	97	2	129	50	0	0	50	1.00
66430--66639	38	5.7	36	77	11	212	41	1	7	49	1.40
66662--66722	9	7.2	9	70	20	51	21	1	0	77	0.86
66664--66722	15	3.9	14	79	18	64	20	1	0	77	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66659--66712	17	3.0	18	81	13	67	24	1	0	74	0.92
67955--68077	9	14.2	9	72	16	75	19	4	0	75	1.01
67991--68074	33	2.5	33	82	5	89	20	4	0	75	0.99
67958--68095	24	5.8	24	70	13	81	18	5	1	74	1.08
73690--73843	84	1.8	84	92	0	263	32	20	22	24	1.98
73776--73908	69	1.9	69	87	3	196	30	22	22	24	1.99
74633--74663	2	16.0	2	93	6	55	51	0	0	48	1.00
74649--74785	36	3.6	38	76	13	129	39	2	7	51	1.42
74651--74917	37	7.4	34	75	16	175	43	3	5	47	1.46
74648--74916	34	7.4	34	77	14	179	43	3	5	47	1.45
74905--74938	2	17.0	2	100	0	68	50	0	0	50	1.00
75068--75134	36	1.9	34	82	11	82	17	4	1	76	1.04
76344--76423	26	3.1	26	68	20	60	21	6	0	72	1.06
76352--76486	21	6.3	20	68	23	71	21	4	0	73	1.06
76353--76427	26	2.9	26	71	24	70	20	4	0	76	0.95
76352--76427	16	4.6	16	75	24	70	19	3	0	76	0.94
76352--76486	17	8.0	16	71	25	77	21	4	0	73	1.06
76916--76972	27	2.1	27	83	6	71	42	17	29	10	1.83
79103--79311	104	2.0	104	95	2	377	41	11	7	39	1.70
79206--79259	25	2.3	24	90	9	85	48	11	7	33	1.67
80055--80189	51	2.7	51	82	1	182	25	14	15	45	1.83
83672--83719	3	16.0	3	82	8	62	35	2	0	62	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
85287--85390	30	3.5	30	73	12	90	22	11	8	57	1.60
85287--85410	30	4.2	31	72	12	82	20	9	9	59	1.57
87552--87601	27	1.9	27	92	8	86	18	16	10	56	1.67
91527--91575	9	5.9	8	79	15	55	83	0	14	2	0.73
91535--91574	18	2.2	18	90	4	62	85	0	15	0	0.61
92609--92694	32	2.7	32	81	0	109	27	10	24	37	1.88
93749--94254	127	3.9	127	79	7	509	27	25	18	28	1.98
94461--94513	3	18.0	3	80	3	63	37	1	0	60	1.08
99212--99255	24	1.9	23	86	9	63	45	0	0	54	0.99
104615--104673	28	2.1	29	84	12	79	27	0	6	66	1.17
107359--107415	2	28.5	2	100	0	114	50	0	0	49	1.00
114578--114635	24	2.5	24	88	2	82	18	18	6	55	1.65
117394--117433	2	20.0	2	94	0	71	50	2	0	47	1.14
117614--117700	24	3.7	24	78	6	88	48	17	14	19	1.81
117613--117677	12	5.5	11	75	20	60	52	16	15	15	1.75
117607--117714	47	2.3	48	82	7	123	48	16	16	18	1.82
120152--120467	157	2.0	159	98	1	618	33	10	29	26	1.90
121013--121037	2	12.5	2	100	0	50	52	0	0	48	1.00
124531--124576	17	2.6	18	86	10	60	58	13	2	26	1.46
126306--126354	20	2.5	20	86	3	64	32	10	4	53	1.54
128641--128732	23	3.9	24	80	5	91	27	22	21	28	1.99
130288--130330	20	2.2	20	91	0	68	34	20	11	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
138852--138894	20	2.2	20	91	0	68	34	20	11	32	1.89
145261--145301	18	2.3	18	91	8	66	0	34	21	43	1.53
146904--146976	23	3.1	23	92	3	119	16	24	36	21	1.94
146908--146988	24	3.4	24	93	1	128	16	27	32	24	1.96
150797--150836	21	1.9	21	85	10	55	35	10	2	52	1.48
155135--155226	23	3.9	24	91	5	136	27	23	21	27	1.99
155135--155226	47	2.0	47	89	4	141	27	23	21	27	1.99
155667--155706	15	2.8	14	85	14	55	70	0	2	27	1.01
155744--155785	17	2.4	18	92	4	68	71	0	2	26	0.98
157131--157187	21	2.8	20	78	2	69	56	8	5	29	1.52

Tables:   1   2   3