genome.fa.s1465.2.7.7.80.10.50.1000.46.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  46  of  55  ( 6520 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)
9239021--9239143	65	1.9	66	88	5	187	47	22	17	12	1.80
9239139--9239188	19	2.6	19	90	0	82	14	24	18	44	1.86
9239153--9239227	20	3.8	19	82	5	87	14	22	22	40	1.91
9241085--9241124	20	2.0	20	90	0	62	35	25	20	20	1.96
9241619--9241670	20	2.6	20	93	0	86	25	21	28	25	1.99
9241598--9241711	20	5.7	19	79	7	84	24	17	24	33	1.96
9241761--9241811	21	2.4	21	96	0	93	33	27	19	19	1.96
9241800--9241843	21	2.1	21	86	0	61	34	29	15	20	1.94
9258208--9258375	20	8.3	20	81	5	176	27	26	20	25	1.99
9258973--9259060	20	4.4	20	84	1	88	14	18	22	44	1.86
9259024--9259067	20	2.2	20	91	0	70	11	13	20	54	1.69
9260774--9260823	18	2.8	18	100	0	100	32	20	6	42	1.76
9261036--9261087	20	2.7	19	82	5	61	13	23	25	38	1.91
9261556--9261665	42	2.6	41	77	7	114	21	37	18	22	1.94
9263055--9263116	14	4.3	14	77	6	61	38	0	14	46	1.45
9263215--9263308	20	4.7	20	90	0	116	45	26	19	8	1.78
9263351--9263521	40	4.4	40	76	8	156	28	18	21	32	1.97
9263351--9263521	20	8.9	19	74	14	129	28	18	21	32	1.97
9263302--9263521	114	1.9	113	84	2	289	26	18	21	33	1.96
9263492--9263761	140	1.9	140	98	0	522	42	15	13	28	1.85
9263821--9263851	12	2.6	12	94	0	53	16	6	29	48	1.70
9265884--9265920	14	2.6	14	91	4	56	5	21	21	51	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9267015--9267131	20	5.8	20	84	4	164	26	19	16	37	1.93
9267000--9267135	60	2.3	60	94	0	236	25	19	17	36	1.94
9268268--9268293	2	13.0	2	100	0	52	50	0	0	50	1.00
9276941--9277053	53	2.1	53	90	0	172	33	10	9	46	1.71
9277538--9277579	21	2.0	21	90	0	66	33	0	9	57	1.31
9280509--9280559	24	2.2	24	82	10	61	33	5	3	56	1.42
9289857--9289922	33	2.0	33	100	0	132	36	30	9	24	1.86
9292958--9293007	3	17.0	3	84	12	68	66	4	0	30	1.10
9293200--9293523	131	2.4	134	92	2	530	21	18	34	25	1.96
9293306--9293541	39	5.5	43	74	16	163	22	19	33	25	1.97
9293582--9293643	28	2.2	28	88	5	90	51	16	11	20	1.74
9293708--9293818	31	3.6	31	65	11	86	35	10	19	34	1.87
9293716--9293848	60	2.2	61	98	1	259	33	12	20	33	1.90
9293971--9294104	65	2.0	66	80	8	148	42	12	17	27	1.85
9294309--9294388	28	2.8	28	77	5	79	47	8	13	30	1.73
9294464--9294575	27	3.7	29	70	19	86	47	14	9	28	1.76
9294447--9294572	65	2.0	63	95	3	225	46	14	11	27	1.78
9294551--9294593	21	2.0	21	95	0	77	48	11	11	27	1.74
9294530--9294735	29	7.6	27	70	20	135	47	14	10	27	1.76
9294627--9294724	29	3.5	29	87	4	139	46	15	8	29	1.74
9294975--9295102	35	3.8	33	84	7	159	34	15	18	31	1.93
9294975--9295102	68	1.9	67	82	7	161	34	15	18	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9303617--9303656	3	13.0	3	85	15	55	65	2	0	32	1.06
9308822--9308868	4	11.5	4	79	20	53	74	0	2	23	0.93
9308860--9309045	43	4.2	43	71	20	109	73	1	5	18	1.12
9308822--9309014	10	18.9	10	67	14	63	74	1	5	19	1.07
9308939--9309040	39	2.5	41	81	12	106	73	0	5	19	1.09
9308822--9309040	8	25.9	8	72	20	78	73	1	5	19	1.10
9320063--9320126	2	32.5	2	96	3	121	50	0	0	50	1.00
9324903--9324958	2	28.0	2	100	0	112	50	0	0	50	1.00
9341395--9341430	18	2.0	18	88	0	54	22	33	27	16	1.95
9341435--9341474	21	1.9	21	89	0	62	25	40	25	10	1.86
9349071--9349139	23	3.0	24	70	23	58	63	0	2	33	1.09
9350080--9350112	3	11.0	3	93	0	57	63	0	0	36	0.95
9350268--9350702	73	6.0	73	98	0	791	32	20	21	26	1.97
9350701--9351027	166	2.0	164	95	1	582	39	12	13	34	1.82
9351544--9351624	22	3.7	22	93	0	144	40	13	13	32	1.84
9355559--9355626	6	11.3	6	74	13	52	5	17	0	76	0.98
9355559--9355626	13	5.1	13	74	11	57	5	17	0	76	0.98
9355542--9355615	36	2.1	37	87	10	109	4	21	0	74	0.98
9355559--9355626	19	3.8	18	73	23	63	5	17	0	76	0.98
9355569--9355630	17	3.5	17	77	16	63	6	17	0	75	1.00
9360337--9360427	46	1.9	49	84	10	127	28	19	14	37	1.91
9361771--9361847	25	3.1	25	71	19	63	62	0	3	33	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9362747--9362814	29	2.4	27	83	9	82	2	29	16	51	1.59
9363301--9363327	3	9.0	3	100	0	54	66	0	0	33	0.92
9364210--9364278	34	2.0	34	97	0	129	30	14	13	42	1.84
9366646--9366686	3	13.7	3	100	0	82	31	0	0	68	0.90
9374645--9374712	35	1.9	35	88	5	102	58	2	1	36	1.22
9374687--9374759	28	2.8	25	81	10	67	67	0	2	30	1.05
9374717--9374741	7	3.6	7	100	0	50	64	0	0	36	0.94
9376561--9376654	31	3.0	31	92	3	145	37	23	19	20	1.94
9380883--9380962	31	2.6	31	95	0	142	38	22	20	18	1.93
9381304--9381501	42	4.8	42	73	8	136	32	19	23	24	1.97
9381531--9381704	82	2.1	81	90	3	269	35	15	19	29	1.93
9381530--9381704	41	4.3	41	84	6	230	35	16	19	29	1.93
9384825--9384878	28	1.9	28	81	7	65	31	9	12	46	1.74
9387268--9387373	21	5.0	21	88	2	124	36	20	40	1	1.64
9387272--9387387	21	5.4	21	86	5	78	38	20	38	1	1.63
9387764--9387988	43	5.3	42	73	12	118	28	19	20	30	1.97
9388011--9388071	15	3.9	15	74	18	52	9	16	26	47	1.77
9388426--9388576	70	2.2	70	100	0	302	46	17	6	29	1.73
9388441--9388551	35	3.2	35	65	23	97	45	17	7	30	1.75
9389752--9389785	16	2.1	16	100	0	68	44	11	5	38	1.65
9389776--9389899	66	1.9	66	94	0	221	37	10	4	47	1.59
9389866--9389936	34	2.1	34	100	0	142	33	11	2	52	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9390129--9390271	61	2.3	60	83	4	144	53	3	2	40	1.30
9390167--9390477	61	5.1	61	71	9	197	52	4	1	41	1.31
9390253--9390354	29	3.3	31	69	12	84	57	4	0	37	1.20
9390254--9390374	61	2.0	61	91	1	199	54	4	0	39	1.28
9390427--9390570	44	3.2	44	72	11	123	53	3	2	40	1.30
9390527--9390601	27	2.7	28	76	17	68	54	4	1	40	1.27
9390599--9390647	20	2.3	22	82	10	66	36	0	2	61	1.08
9402853--9402923	19	3.4	19	72	20	70	42	8	11	38	1.71
9402872--9402944	25	3.2	25	70	22	86	42	5	12	39	1.66
9402851--9402944	44	2.1	44	100	0	188	41	6	11	40	1.67
9403732--9403797	30	2.2	30	86	0	87	33	16	25	24	1.96
9420456--9420516	23	2.7	23	89	0	95	18	24	27	29	1.98
9425823--9425883	23	2.7	23	89	0	95	18	24	27	29	1.98
9425921--9425954	17	2.1	17	88	5	52	32	23	5	38	1.79
9427386--9427446	22	2.7	23	82	5	70	37	14	18	29	1.90
9428354--9428529	84	2.1	85	92	3	300	46	10	13	30	1.75
9429375--9429734	170	2.1	171	81	6	408	33	13	18	33	1.90
9445526--9445569	21	2.1	21	88	12	65	56	0	4	38	1.20
9446003--9446080	33	2.4	34	80	18	87	48	6	0	44	1.28
9446092--9446154	30	2.0	32	84	9	85	52	6	0	41	1.27
9446009--9446156	77	2.0	75	88	6	219	50	7	0	41	1.30
9446556--9446627	3	24.3	3	79	8	76	36	2	0	61	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9446556--9446604	22	2.3	21	93	6	82	36	2	0	61	1.08
9448980--9449010	16	1.9	16	100	0	62	41	6	25	25	1.79
9451501--9452663	106	11.0	106	92	0	1914	33	25	17	22	1.96
9452698--9452970	84	3.2	84	85	2	377	30	26	20	22	1.98
9453207--9453267	3	20.3	3	81	6	70	36	3	1	59	1.24
9455590--9455644	26	2.1	27	82	3	67	29	5	1	63	1.27
9455599--9455649	27	1.9	26	88	4	75	25	5	0	68	1.12
9457354--9457405	21	2.5	21	87	0	68	32	26	15	25	1.95
9457357--9457411	21	2.6	21	82	0	65	30	30	16	21	1.95
9458127--9458152	13	2.0	13	100	0	52	30	0	7	61	1.24

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