genome.fa.s8242.2.7.7.80.10.50.1000.1.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  1  of  73  ( 8740 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)
626--672	25	2.0	24	87	8	69	31	2	4	61	1.27
3081--3136	23	2.5	23	81	18	66	60	0	1	37	1.07
5406--5460	3	19.3	3	85	10	80	61	0	38	0	0.96
11825--11991	83	2.0	83	100	0	334	47	17	19	15	1.83
14396--14447	3	17.3	3	91	0	86	38	0	0	61	0.96
18274--18305	3	11.3	3	87	12	50	65	0	0	34	0.93
18563--18959	52	7.6	52	94	0	686	29	25	16	28	1.97
18955--19234	55	5.1	55	92	1	483	27	28	15	28	1.96
18955--19234	108	2.6	110	94	2	501	27	28	15	28	1.96
20522--20565	14	3.4	13	87	9	63	0	11	2	86	0.66
20574--20617	22	2.0	22	86	8	63	15	13	0	70	1.17
20559--20633	39	1.9	38	89	7	116	13	12	0	74	1.07
20559--20636	8	9.8	8	75	20	74	12	11	0	75	1.04
20549--20637	9	9.8	9	71	22	62	11	12	0	76	1.02
29368--29399	3	11.3	3	87	12	50	65	0	0	34	0.93
29751--29797	23	2.0	23	95	0	85	27	6	0	65	1.16
32525--32567	3	14.7	3	95	4	79	65	0	0	34	0.93
32809--33634	55	15.3	56	80	9	612	25	24	17	32	1.96
32809--33634	110	7.7	110	77	9	692	25	24	17	32	1.96
33010--33630	55	11.6	54	83	6	689	24	24	18	32	1.97
33021--33634	212	2.9	209	84	6	772	24	24	18	32	1.97
33010--33632	158	3.9	159	83	6	694	24	24	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33620--33951	52	6.4	52	94	0	583	30	25	15	28	1.96
33817--33901	28	3.2	28	63	13	79	32	24	15	27	1.95
33947--34335	55	7.1	55	89	2	606	28	28	14	28	1.96
33944--34335	109	3.6	110	93	2	657	28	28	14	28	1.96
35616--35670	20	3.1	19	82	15	64	5	9	0	85	0.74
35620--35706	28	3.2	27	78	16	76	8	10	0	81	0.87
35615--35659	1	45.0	1	81	0	54	4	4	0	91	0.52
35661--35702	22	2.0	20	90	9	66	14	14	0	71	1.15
35653--35705	8	6.9	8	77	18	51	13	13	0	73	1.10
36828--36862	3	11.3	3	93	6	61	2	34	0	62	1.10
44275--44312	3	12.7	3	100	0	76	65	0	0	34	0.93
46146--46233	46	1.9	46	88	0	131	38	10	19	31	1.85
50236--50536	150	2.0	151	99	0	595	33	16	13	35	1.89
54973--55051	22	3.6	22	85	0	113	34	13	13	37	1.85
55721--56450	45	15.8	47	93	1	1047	25	22	20	32	1.98
56686--56740	3	18.3	3	79	7	58	38	0	0	61	0.96
56669--56720	23	2.1	23	86	10	68	32	1	0	65	1.04
56698--56740	16	2.8	16	96	3	79	41	0	0	58	0.98
58670--58700	2	15.5	2	100	0	62	51	0	0	48	1.00
59818--59877	28	2.2	27	82	8	68	58	13	8	20	1.60
61321--61374	17	3.1	17	70	15	56	24	18	11	46	1.81
61324--61381	19	3.2	18	66	24	50	18	22	8	50	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61444--61618	89	1.9	92	91	3	293	24	22	14	38	1.92
62196--62386	64	3.0	60	77	11	179	41	15	16	26	1.87
62327--62606	35	7.9	35	84	4	330	37	13	22	26	1.92
62326--62606	71	4.0	70	85	5	368	37	13	22	26	1.92
62327--62606	104	2.6	106	83	4	366	37	13	22	26	1.92
62487--62550	20	3.4	20	69	22	66	35	12	26	25	1.91
62581--62631	26	2.0	26	88	0	75	37	15	27	19	1.92
62625--62889	38	7.0	37	80	12	261	43	10	15	30	1.80
62625--62889	76	3.5	76	85	8	335	43	10	15	30	1.80
62641--62891	115	2.2	114	82	7	296	43	10	15	30	1.80
63185--63302	33	3.5	34	83	4	150	34	11	21	32	1.90
63404--63531	31	4.2	31	87	7	172	29	25	16	28	1.97
63404--63531	61	2.1	61	85	7	170	29	25	16	28	1.97
64557--64685	5	25.8	5	68	19	56	3	17	3	76	1.04
64631--64682	7	7.9	7	85	10	74	0	25	1	73	0.94
64558--64690	56	2.4	54	77	14	137	3	17	3	76	1.04
64866--64939	2	37.5	2	97	2	141	50	0	0	50	1.00
65877--65974	26	3.7	27	89	8	157	48	12	20	18	1.79
65904--66079	65	2.7	65	85	11	213	47	14	22	16	1.82
65904--66088	78	2.4	76	84	12	202	47	14	21	16	1.82
70409--70469	29	2.2	28	82	11	72	59	13	8	19	1.59
71827--71868	22	2.0	21	86	13	59	64	7	0	28	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
72246--72270	11	2.3	11	100	0	50	8	0	0	92	0.40
72453--72509	15	3.7	15	72	9	60	22	33	26	17	1.96
72557--72599	15	2.8	16	92	7	79	25	32	27	13	1.94
77793--77844	24	2.2	24	82	0	59	50	17	11	21	1.77
77813--77930	24	4.9	24	88	6	159	40	19	17	22	1.91
77816--77947	48	2.7	47	80	11	151	42	18	16	21	1.89
80373--80406	15	2.3	15	94	0	59	26	26	32	14	1.95
80396--80433	18	2.1	18	100	0	76	10	21	50	18	1.76
82582--82633	24	2.2	24	82	0	59	50	17	11	21	1.77
82602--82719	24	4.9	24	88	6	159	40	19	17	22	1.91
82605--82736	48	2.7	47	80	11	151	42	18	16	21	1.89
85169--85215	8	6.5	8	75	20	50	23	25	36	14	1.93
85169--85215	15	3.3	15	85	5	62	23	25	36	14	1.93
85192--85220	13	2.2	13	100	0	58	13	24	44	17	1.85
87366--87417	24	2.2	24	82	0	59	50	17	11	21	1.77
87386--87503	24	4.9	24	86	6	150	40	19	16	22	1.91
89951--89997	15	3.3	15	82	5	53	25	23	36	14	1.93
89979--90055	18	4.6	18	78	15	101	11	20	48	19	1.80
89974--90051	31	2.5	31	91	0	129	14	21	44	19	1.85
89974--90003	13	2.3	13	100	0	60	16	23	43	16	1.87
101849--101880	14	2.3	14	94	0	55	50	0	0	50	1.00
105820--106582	254	3.0	254	99	0	1508	26	16	23	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
123782--123868	37	2.5	37	79	7	101	55	0	2	42	1.12
123978--124039	27	2.3	27	83	10	83	48	0	0	51	1.00
123978--124037	26	2.3	26	85	8	77	48	0	0	51	1.00
124013--124105	48	1.9	49	81	14	113	48	1	1	49	1.15
124013--124138	65	2.0	64	79	7	139	48	1	2	47	1.24
127201--127283	24	3.5	23	68	14	69	69	8	2	19	1.25
127197--127367	42	3.9	41	78	21	147	67	7	3	22	1.31
127205--127370	43	3.7	43	90	6	235	68	7	3	21	1.30
127676--127728	18	3.0	18	76	21	58	66	0	1	32	1.03
131197--131253	24	2.4	24	100	0	114	26	5	19	49	1.69
132564--132612	19	2.6	19	74	6	55	59	2	2	36	1.21
140365--140392	13	2.2	13	100	0	56	39	7	21	32	1.80
143954--144055	31	3.2	32	75	9	111	38	16	16	28	1.91
144857--144914	20	2.7	20	84	10	71	27	22	18	31	1.97
148141--148179	2	19.5	2	100	0	78	51	48	0	0	1.00
148353--148480	31	4.1	31	79	9	152	33	20	19	26	1.96
149326--149488	64	2.5	63	81	9	177	23	23	18	33	1.97
150339--150551	75	2.8	75	84	2	250	25	30	22	21	1.99
156365--156404	21	1.9	21	89	0	62	25	40	25	10	1.86
158984--159191	75	2.8	75	87	1	274	24	30	23	21	1.99
162364--162604	2	120.5	2	100	0	482	50	49	0	0	1.00
162604--162650	2	23.0	2	95	4	85	48	2	0	48	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
162801--162928	31	4.1	31	75	9	125	35	21	17	25	1.95
163084--163139	22	2.6	21	78	13	60	28	23	10	37	1.88
163728--163785	20	2.7	20	84	10	71	31	20	15	32	1.94
164453--164478	13	2.0	13	100	0	52	61	0	38	0	0.96
168841--168897	25	2.3	25	93	0	96	29	29	12	28	1.93
168849--168905	25	2.3	25	90	0	87	33	26	15	24	1.95
170111--170154	22	2.0	22	82	8	54	68	2	27	2	1.14
173365--173450	38	2.3	38	95	0	154	33	5	34	25	1.80
174656--174714	15	3.7	15	74	24	50	42	0	1	55	1.09
174656--174698	18	2.6	16	82	10	52	44	0	2	53	1.13

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73