genome.fa.s8824.2.7.7.80.10.50.1000.5.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: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4603428

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  5  of  19  ( 2203 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)
850928--850991	22	2.9	22	85	0	83	25	29	28	17	1.97
851066--851113	21	2.3	21	85	0	69	18	29	25	27	1.98
851430--851457	2	14.0	2	100	0	56	50	0	0	50	1.00
853012--853105	30	3.1	31	78	7	102	17	26	24	31	1.97
854126--854384	129	2.0	129	95	0	464	34	13	19	32	1.91
861121--861173	21	2.5	21	93	0	88	30	32	20	16	1.95
861169--861216	19	2.4	20	75	6	53	18	20	22	37	1.94
863983--864026	18	2.4	18	88	0	61	25	6	20	47	1.74
863992--864029	18	2.1	18	95	0	67	21	7	28	42	1.81
864285--864424	73	1.9	73	89	0	217	26	20	19	33	1.96
864274--864426	37	4.2	37	87	1	200	26	19	20	33	1.97
864496--864603	42	2.6	42	88	2	146	33	22	15	28	1.95
864827--865103	22	13.1	22	62	23	98	32	19	19	28	1.96
864826--865121	42	7.1	42	88	2	427	32	20	19	28	1.97
864885--865040	20	7.5	20	62	16	57	32	21	21	25	1.98
864636--865559	216	4.3	210	73	10	737	31	20	17	31	1.95
865460--865556	42	2.3	41	84	5	124	29	21	24	23	1.99
865530--865665	20	6.7	20	63	17	64	29	22	25	23	1.99
865501--865616	61	1.9	62	87	1	171	29	21	26	22	1.99
865454--865663	103	2.0	103	99	0	411	29	21	24	25	1.99
865563--865659	42	2.3	41	85	1	131	29	21	25	22	1.99
866974--867235	125	2.1	125	89	1	391	25	27	14	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
873255--873283	12	2.3	13	94	5	51	31	0	0	68	0.89
874182--874225	18	2.4	18	88	0	61	25	6	20	47	1.74
874191--874228	18	2.1	18	95	0	67	21	7	28	42	1.81
874398--874447	26	1.9	26	91	0	82	38	14	8	40	1.75
874811--874884	37	2.0	37	94	0	130	22	13	24	39	1.90
875973--876018	19	2.5	19	86	13	62	69	4	10	15	1.32
880128--880577	220	2.0	218	97	2	819	30	18	17	33	1.94
880692--880738	21	2.1	23	84	7	62	65	2	0	31	1.04
880743--880774	2	16.0	2	100	0	64	50	0	0	50	1.00
883335--883380	22	2.1	22	91	0	74	26	26	23	23	2.00
891931--892854	463	2.0	453	96	2	1704	37	18	17	26	1.93
894731--894771	20	2.0	21	86	13	59	53	0	0	46	1.00
896420--896447	13	2.2	13	100	0	56	32	39	0	28	1.57
898310--898351	20	2.1	20	86	0	57	14	19	21	45	1.85
900497--900592	21	4.6	21	68	10	70	23	34	16	25	1.95
902009--902048	14	2.9	14	80	0	53	30	0	17	52	1.45
902158--902232	20	3.8	20	82	3	98	41	21	17	20	1.90
902157--902232	40	1.9	40	86	5	109	40	22	17	19	1.91
902437--902523	39	2.2	39	93	0	147	17	14	20	47	1.83
902826--902878	24	2.2	24	89	0	79	47	13	1	37	1.54
903257--903306	25	2.0	25	96	0	91	44	22	8	26	1.80
903397--903455	20	3.0	20	84	0	82	37	22	18	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
903734--903769	18	2.0	18	94	0	63	16	2	25	55	1.55
905989--906056	24	2.8	24	86	0	91	38	19	17	25	1.93
906921--907006	19	4.5	19	91	2	129	30	10	20	38	1.87
910387--910837	4	114.5	4	96	3	835	25	0	25	49	1.50
915969--916077	52	2.1	52	98	1	211	22	27	12	36	1.91
920112--920214	44	2.3	44	79	1	116	29	33	18	19	1.96
924570--924621	20	2.9	16	73	24	50	46	0	1	51	1.12
924571--924612	21	2.0	21	90	9	68	45	0	0	54	0.99
927304--927346	22	2.0	20	86	8	59	39	11	4	44	1.62
927924--928232	147	2.1	146	95	3	557	41	14	11	33	1.81
928217--928258	19	2.2	19	87	8	59	54	4	7	33	1.49
928884--928983	37	2.8	35	80	15	116	43	5	6	46	1.50
928803--928983	36	5.1	35	73	16	126	45	4	6	43	1.50
928799--929011	35	5.9	36	72	15	140	44	4	6	45	1.48
929015--929061	18	2.7	18	80	16	62	17	4	4	74	1.14
929015--929056	16	2.7	15	80	16	50	16	4	4	73	1.17
929610--929658	23	2.1	24	84	3	64	53	24	12	10	1.69
929665--929988	161	2.0	163	98	1	634	46	27	15	10	1.78
930439--930488	22	2.3	21	83	10	57	40	6	0	54	1.25
933189--933233	22	2.0	22	100	0	90	51	0	35	13	1.41
935301--936336	84	12.5	84	80	5	1108	29	25	21	23	1.99
935301--936405	165	6.7	165	87	2	1527	29	25	20	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
936991--937420	37	12.2	36	75	14	268	42	4	7	44	1.55
937123--937147	12	2.1	12	100	0	50	40	8	8	44	1.63
937055--937420	37	10.4	35	77	14	287	42	4	7	44	1.55
937311--937445	33	4.2	34	74	18	103	40	4	8	46	1.55
937323--937456	29	4.3	29	72	19	101	42	3	7	46	1.50
937467--937526	10	5.9	10	72	18	52	20	5	1	73	1.11
938758--938814	27	2.1	27	86	0	78	40	3	0	56	1.17
943747--943784	2	19.0	2	100	0	76	50	0	0	50	1.00
944477--944603	51	2.5	51	94	0	218	22	9	11	57	1.61
944514--944596	25	3.3	25	67	26	75	21	9	10	57	1.61
944600--944631	16	2.1	16	94	5	57	21	9	6	62	1.47
944907--944942	5	7.2	5	100	0	72	22	0	0	77	0.76
944973--945058	25	3.4	26	70	10	88	25	6	6	60	1.48
944920--945065	51	2.8	51	86	5	186	23	6	7	61	1.47
945062--945093	16	2.1	16	94	5	57	21	9	6	62	1.47
945374--945518	51	2.8	51	88	1	209	23	7	8	60	1.53
945429--945511	25	3.3	25	65	26	66	22	9	9	57	1.59
945515--945546	16	2.1	16	94	5	57	21	9	6	62	1.47
944390--945640	462	2.8	453	93	3	2201	19	13	10	57	1.64
947927--947957	16	1.9	16	93	0	53	45	19	3	32	1.66
949420--949487	23	3.0	23	93	0	109	27	23	23	25	2.00
952284--952320	17	2.2	17	100	0	74	43	5	24	27	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
953898--954403	74	6.8	74	85	4	628	30	16	13	39	1.87
954075--954366	38	7.8	38	72	10	217	32	15	13	38	1.86
954485--954619	59	2.3	59	80	2	155	28	23	16	31	1.96
963502--963556	20	2.8	20	74	0	56	30	18	16	34	1.93
963822--963866	20	2.3	20	80	3	56	42	24	20	13	1.87
964490--964572	40	2.0	41	97	2	159	33	28	14	22	1.94
965784--965818	17	2.1	17	100	0	70	51	17	0	31	1.45
968557--968594	20	1.9	20	94	0	67	34	34	15	15	1.90
971044--971145	51	2.0	51	98	0	195	35	12	21	30	1.91
978954--978990	15	2.4	16	90	4	58	13	10	5	70	1.32
979497--980162	333	2.0	333	99	0	1314	27	13	22	35	1.93
985996--986073	23	3.4	23	98	0	147	41	21	21	15	1.90
986932--987114	79	2.3	80	79	8	196	25	17	21	35	1.95
989852--989905	23	2.3	23	96	0	99	42	22	20	14	1.88
990791--990947	79	2.0	79	82	6	192	26	18	19	36	1.94
996713--996867	65	2.4	65	83	4	179	32	18	21	27	1.97
999471--999544	23	3.3	22	73	7	69	25	20	25	28	1.99
1003713--1003793	20	4.0	20	75	12	76	34	24	17	23	1.96
1003764--1003807	20	2.2	20	91	0	70	31	20	18	29	1.96
1004301--1004359	20	3.0	20	87	0	73	15	18	22	44	1.87
1005678--1005725	18	2.7	18	90	6	71	29	43	10	16	1.81
1006256--1006300	20	2.3	20	84	3	65	37	20	24	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1006315--1006428	19	6.5	19	70	19	86	49	18	17	14	1.80
1006284--1006372	33	2.7	33	87	0	133	48	20	17	13	1.81
1006315--1006432	52	2.3	52	92	0	200	48	18	18	14	1.81
1006264--1006427	85	1.9	86	88	1	249	46	20	19	14	1.84
1006439--1006503	14	4.3	14	73	17	58	10	20	20	49	1.78
1006439--1006514	33	2.3	33	93	0	125	11	19	19	48	1.79
1006460--1006514	19	3.2	19	73	24	66	14	20	16	49	1.80
1006486--1006557	20	3.7	19	75	5	63	13	20	22	43	1.87
1006925--1006980	21	2.7	20	72	8	58	25	39	14	21	1.91
1006925--1007013	42	2.1	42	87	4	126	22	41	14	21	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19