genome.fa.s9585.2.7.7.80.10.50.1000.24.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  24  of  35  ( 4106 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)
5429011--5429164	20	7.7	20	80	7	168	37	26	18	18	1.93
5429547--5429617	33	2.2	33	92	0	115	11	22	18	47	1.80
5429697--5429806	21	5.8	20	74	17	108	45	18	24	11	1.83
5429690--5429806	41	3.1	38	81	14	145	46	17	25	11	1.81
5429757--5429813	14	3.7	14	75	20	60	43	22	24	8	1.81
5429749--5429829	33	2.5	33	95	0	144	46	22	22	8	1.78
5429825--5429922	19	5.7	19	67	22	81	11	21	21	45	1.82
5429848--5429936	14	5.6	14	69	23	61	10	22	22	44	1.82
5429830--5429944	33	3.5	33	96	0	212	10	21	20	47	1.79
5431666--5431718	17	3.1	17	86	5	72	30	16	15	37	1.90
5431683--5432128	93	4.8	93	99	0	885	21	12	19	46	1.83
5432176--5432304	19	7.3	19	75	17	125	46	28	16	8	1.76
5432212--5432304	33	2.8	32	91	4	150	47	27	17	7	1.74
5432176--5432304	52	2.5	52	72	14	131	46	28	16	8	1.76
5432300--5432418	19	6.8	19	75	18	123	10	20	22	47	1.80
5432322--5432378	14	3.7	14	77	20	60	10	21	22	45	1.82
5432305--5432397	33	2.8	33	95	0	168	10	20	21	47	1.80
5432369--5432425	19	2.9	19	87	7	80	10	17	24	47	1.79
5434356--5434391	14	2.6	14	95	0	63	33	0	22	44	1.53
5434498--5434595	19	5.4	19	84	13	143	45	17	22	14	1.84
5434498--5434614	53	2.2	53	96	1	218	43	17	24	13	1.86
5434604--5434792	19	10.7	19	78	17	219	15	21	17	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5434604--5434806	52	3.9	52	86	10	281	14	21	18	45	1.85
5434661--5434806	33	4.2	33	81	13	195	13	21	18	46	1.83
5437238--5437284	24	2.0	24	87	8	69	38	21	14	25	1.92
5437967--5438236	20	13.5	20	86	1	281	20	17	24	37	1.94
5438223--5438305	21	4.0	21	73	6	78	25	16	24	33	1.96
5438203--5438301	42	2.4	43	77	11	100	21	18	23	37	1.94
5443121--5443145	2	12.5	2	100	0	50	52	0	0	48	1.00
5443093--5443197	37	2.9	37	92	1	176	40	12	1	44	1.53
5443469--5443505	16	2.3	16	90	0	56	24	18	18	37	1.94
5444487--5444552	29	2.3	29	94	0	114	39	18	12	30	1.87
5444748--5444786	3	13.0	3	100	0	78	33	0	0	66	0.92
5454072--5454113	18	2.4	18	84	11	52	50	4	0	45	1.23
5458419--5458501	21	4.0	21	91	0	130	40	45	7	6	1.56
5472188--5472230	12	3.6	12	83	0	59	11	13	48	25	1.77
5472228--5472290	24	2.6	25	78	16	71	44	0	0	55	0.99
5472366--5472394	6	4.8	6	100	0	58	0	65	17	17	1.27
5479930--5479954	9	2.8	9	100	0	50	24	52	24	0	1.48
5480036--5480096	24	2.5	24	97	0	113	40	31	16	11	1.84
5483304--5483328	2	12.5	2	100	0	50	48	0	0	52	1.00
5493252--5493278	2	13.5	2	100	0	54	0	48	0	51	1.00
5494417--5494469	17	3.2	16	75	20	56	43	15	9	32	1.78
5494406--5494469	32	2.0	32	96	0	119	43	15	7	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5494406--5494454	15	3.1	15	73	21	55	44	16	8	30	1.76
5504423--5504476	23	2.3	23	80	0	63	25	16	16	40	1.89
5505275--5505535	21	12.5	21	71	17	138	36	23	19	20	1.95
5505268--5505538	42	6.5	42	87	3	395	35	22	19	22	1.96
5505545--5505597	21	2.5	21	90	0	79	18	18	32	30	1.96
5506575--5506634	27	2.2	26	80	8	66	55	0	0	45	0.99
5507541--5507588	22	2.2	22	100	0	96	37	16	10	35	1.83
5509848--5509898	22	2.3	21	81	15	59	50	1	3	43	1.31
5535474--5535527	20	2.6	20	75	16	56	42	0	0	57	0.98
5535484--5535654	28	5.8	29	69	17	77	46	0	4	49	1.20
5535624--5535674	23	2.2	23	82	0	57	45	1	1	50	1.24
5535839--5535885	22	2.1	23	88	4	69	53	0	2	44	1.12
5535847--5535890	22	2.0	22	82	8	54	54	0	2	43	1.12
5535885--5536150	81	3.2	82	68	17	253	47	1	5	45	1.33
5535842--5536171	165	2.0	165	98	0	642	47	1	6	44	1.36
5536007--5536050	22	2.0	23	90	4	72	56	0	0	43	0.99
5536011--5536075	22	3.0	22	78	14	64	55	0	0	44	0.99
5536014--5536063	22	2.2	23	86	10	68	56	0	0	44	0.99
5535846--5536103	84	3.1	84	68	17	257	49	0	5	44	1.31
5539192--5539223	7	4.6	7	96	0	55	0	50	15	34	1.45
5546906--5546998	33	2.8	33	74	8	91	44	4	3	48	1.38
5550940--5551124	31	6.0	31	97	1	336	19	19	22	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5563415--5563635	109	2.0	108	84	4	282	32	9	21	36	1.86
5563936--5563962	13	2.1	13	100	0	54	22	25	14	37	1.93
5566771--5566809	3	13.0	3	100	0	78	33	0	0	66	0.92
5573216--5573385	59	2.8	58	80	10	157	40	5	21	31	1.77
5576353--5576391	17	2.4	17	95	4	71	43	0	5	51	1.24
5577771--5577825	27	2.0	29	89	7	87	18	23	10	47	1.80
5583766--5583831	33	2.0	33	82	5	80	31	19	25	22	1.98
5584271--5584324	26	2.1	26	86	6	74	42	22	16	18	1.89
5586383--5586424	21	2.0	21	85	0	57	26	23	21	28	1.99
5586531--5586579	19	2.6	19	80	0	53	36	12	8	42	1.72
5586547--5586585	19	2.1	19	90	9	62	38	7	7	46	1.61
5586558--5586596	19	2.1	19	85	0	51	43	10	7	38	1.67
5586662--5586721	29	2.0	31	90	6	97	41	15	6	36	1.73
5590045--5590071	14	1.9	14	100	0	54	59	11	14	14	1.62
5590064--5590110	14	3.6	14	72	21	57	48	2	21	27	1.61
5590059--5590115	24	2.4	24	96	0	105	52	3	19	24	1.61
5590101--5590196	20	4.4	20	76	12	66	56	15	14	13	1.68
5590111--5590177	24	2.9	23	82	12	100	55	19	14	10	1.68
5590363--5590403	20	2.1	20	86	4	57	56	17	9	17	1.67
5610625--5610823	99	2.1	95	87	7	289	32	23	14	30	1.94
5610900--5611167	99	2.7	99	93	0	455	28	13	24	33	1.93
5611253--5611314	29	2.1	29	100	0	124	38	0	19	41	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5620214--5620279	32	2.1	32	85	0	87	36	15	10	37	1.82
5620357--5620417	27	2.3	27	100	0	122	45	0	6	47	1.28
5626776--5626843	17	4.1	16	83	9	75	58	1	0	39	1.07
5630224--5630330	32	3.4	32	88	10	143	25	45	16	12	1.82
5630224--5630338	29	3.7	31	89	7	130	25	45	17	12	1.83
5630650--5630707	26	2.3	26	90	3	91	48	8	36	6	1.61
5630853--5630893	22	1.9	21	85	5	55	26	0	19	53	1.45
5631190--5631236	16	3.0	16	84	9	53	29	0	10	59	1.31
5631211--5631241	15	2.1	14	94	5	53	38	0	6	54	1.26
5633402--5633449	14	3.6	14	81	16	66	47	16	0	35	1.47
5633401--5633449	25	2.0	25	95	0	89	46	16	0	36	1.47
5633417--5633672	60	4.3	60	97	0	494	46	12	0	41	1.41
5633748--5633845	14	6.8	14	71	17	58	47	12	0	39	1.41
5633773--5633817	21	2.1	22	87	4	65	53	4	0	42	1.21
5633766--5633881	48	2.4	48	85	7	164	47	10	0	42	1.37
5633861--5633906	23	1.9	24	91	8	76	39	13	0	47	1.42
5633750--5633906	73	2.2	71	80	11	167	46	11	0	42	1.40
5633861--5633896	12	3.1	12	84	8	56	41	11	0	47	1.39
5633601--5634090	200	2.4	201	92	5	784	44	11	3	40	1.59
5633973--5634174	21	9.6	21	65	21	84	48	11	0	40	1.39
5633968--5634079	48	2.3	49	90	3	172	48	9	0	41	1.36
5634017--5634206	60	3.2	60	93	0	328	45	13	0	40	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5634208--5634239	10	3.2	10	90	0	55	56	9	9	25	1.61
5637030--5637080	22	2.2	23	86	6	68	43	5	5	45	1.52
5637683--5637744	28	2.1	30	94	5	110	56	12	0	30	1.37
5638255--5638336	29	2.8	29	90	0	119	14	24	40	20	1.90
5638339--5638404	32	2.0	33	97	2	125	9	16	46	27	1.77
5640853--5640877	2	12.5	2	100	0	50	48	0	0	52	1.00
5644699--5644780	30	2.7	30	84	0	119	42	9	14	32	1.79
5650248--5650332	29	2.9	29	94	3	145	38	2	4	54	1.34
5652325--5652383	14	4.1	14	75	16	59	44	8	13	33	1.74
5652394--5652427	14	2.4	14	85	0	50	41	11	11	35	1.78

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