genome.fa.s8342.2.7.7.80.10.50.1000.4.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: VEPZ01008342.1 Hibiscus syriacus cultivar Beakdansim tig00111069_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1228932

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 636 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)
757129--757370	69	3.6	69	96	1	436	15	22	39	21	1.91
758245--758278	17	2.0	17	100	0	68	64	0	5	29	1.17
760052--760117	31	2.1	31	85	0	87	37	13	24	24	1.91
761880--761917	2	19.0	2	100	0	76	50	0	0	50	1.00
768776--768809	16	2.1	16	89	10	52	67	2	8	20	1.31
769244--769295	26	2.0	26	100	0	104	34	26	7	30	1.85
770662--770690	11	2.5	12	88	11	51	65	0	6	27	1.18
775830--775857	14	2.0	14	100	0	56	28	28	14	28	1.95
779661--779687	14	1.9	14	100	0	54	29	14	18	37	1.91
780531--780653	64	1.9	64	82	9	153	36	17	16	29	1.92
781029--781166	29	4.8	29	98	0	251	44	14	21	18	1.85
783933--783966	5	7.2	5	93	6	54	0	61	0	38	0.96
783982--784012	1	31.0	1	100	0	62	0	100	0	0	0.00
790983--791024	21	2.0	21	100	0	84	33	19	19	28	1.96
795209--795253	17	2.7	17	83	16	58	40	4	0	55	1.20
795262--795296	15	2.4	15	90	4	54	65	0	5	28	1.15
796044--796089	24	2.0	23	86	4	65	58	0	0	41	0.98
796075--796108	16	2.1	17	94	5	61	61	0	8	29	1.26
799599--799704	53	2.0	53	96	1	196	43	19	9	27	1.82
809832--809886	21	2.5	21	82	8	65	52	3	1	41	1.29
809922--809955	2	17.0	2	100	0	68	50	0	0	50	1.00
810234--810285	20	2.6	20	100	0	104	36	26	11	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
812476--812532	8	7.0	8	73	11	53	29	3	33	33	1.75
812477--812532	24	2.3	25	81	9	62	30	3	33	32	1.75
812823--812867	23	2.0	23	86	8	65	60	2	2	35	1.22
819571--819608	20	1.9	19	94	5	67	36	5	28	28	1.79
820338--820395	29	2.0	29	100	0	116	20	13	24	41	1.89
821734--821779	18	2.8	16	83	6	56	34	6	28	30	1.82
822206--822252	17	2.7	17	83	3	58	59	4	2	34	1.29
822359--822420	28	2.2	28	97	2	117	43	33	9	12	1.76
822588--822677	37	2.4	37	90	0	144	36	40	11	12	1.78
822846--822927	38	2.2	38	93	2	139	37	39	12	10	1.78
822300--823116	254	3.2	250	86	9	1130	35	27	12	23	1.91
822914--823299	184	2.1	184	92	0	639	35	25	12	25	1.92
823110--823529	226	1.9	222	91	3	682	36	26	11	25	1.90
823746--823805	26	2.3	26	91	5	95	30	28	13	28	1.94
831423--831503	29	2.7	30	83	12	96	24	45	17	12	1.82
831450--831533	29	2.9	29	83	1	98	21	39	23	15	1.92
831732--831839	29	3.7	29	91	0	153	14	23	40	21	1.90
831827--831907	32	2.6	31	84	5	101	14	12	46	25	1.80
831843--831907	31	2.1	32	85	8	89	15	9	46	29	1.77
833578--833616	20	2.0	20	84	0	51	69	10	0	20	1.17
834713--834754	16	2.6	16	84	0	66	19	19	52	9	1.72
834884--834967	3	28.0	3	100	0	168	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
835220--836319	114	9.6	113	90	4	1644	30	20	12	36	1.89
835220--836319	230	4.8	229	89	5	1619	30	20	12	36	1.89
837061--837619	83	6.7	83	96	0	1003	36	22	13	26	1.92
838652--838711	9	6.9	9	85	11	81	0	15	0	85	0.61
838651--838702	25	2.2	23	93	6	86	0	15	0	84	0.62
838658--838708	25	2.1	24	92	7	86	0	13	0	86	0.58
850114--850152	20	2.0	20	84	0	51	69	10	0	20	1.17
851229--851270	16	2.6	16	92	0	75	16	19	54	9	1.69
851405--851493	3	29.7	3	88	0	133	62	0	0	37	0.95
851405--851490	30	2.9	30	96	0	163	62	0	0	37	0.95
872396--872435	15	2.6	16	84	8	55	72	0	5	22	1.04
872443--872490	27	1.9	24	84	16	62	54	6	2	37	1.38
872594--872695	27	3.9	25	73	19	84	44	5	3	46	1.46
872513--872644	36	3.6	37	80	10	146	42	6	5	46	1.51
872630--872658	14	2.0	15	93	6	51	51	6	0	41	1.28
872523--872770	125	2.0	122	96	2	460	43	6	4	45	1.51
872697--872819	35	3.6	33	79	13	115	46	8	3	42	1.49
872713--872833	35	3.7	33	81	11	133	46	8	2	42	1.47
872713--872833	33	3.7	34	83	11	130	46	8	2	42	1.47
873345--873548	84	2.5	84	95	3	360	25	20	19	35	1.95
873512--874442	165	5.6	166	90	2	1268	22	21	26	29	1.99
873535--874470	250	3.8	250	89	2	1269	22	21	26	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
873535--874470	85	11.3	84	83	4	1130	22	21	26	29	1.99
877803--877847	19	2.4	19	85	3	65	64	11	13	11	1.50
880907--881210	38	7.8	37	71	16	188	44	6	4	44	1.49
880997--881098	27	3.9	25	73	19	84	44	5	3	46	1.46
880907--881210	36	7.8	37	73	16	206	44	6	4	44	1.49
881033--881061	14	2.0	15	93	6	51	51	6	0	41	1.28
880908--881047	74	1.9	75	84	7	180	43	6	5	45	1.51
880926--881177	125	2.0	126	99	0	497	43	6	4	45	1.50
881048--881228	37	4.9	37	79	9	183	44	6	3	44	1.48
885149--885178	12	2.5	12	100	0	60	23	30	13	33	1.93
889332--889358	3	9.0	3	100	0	54	33	33	0	33	1.58
900156--900250	31	3.1	31	93	0	163	21	17	20	41	1.91
900194--900314	53	2.3	52	83	7	145	21	19	23	36	1.95
901045--901089	22	2.0	22	95	0	81	22	17	22	37	1.94
903713--903737	2	12.5	2	100	0	50	48	0	0	52	1.00
904581--904620	21	1.9	21	100	0	80	52	15	5	27	1.63
909720--909832	59	1.9	59	92	0	190	36	24	15	23	1.93
913781--914141	150	2.3	154	83	5	453	48	5	19	27	1.70
914563--914653	38	2.4	38	83	0	110	56	7	3	32	1.44
914589--914650	19	3.3	19	67	0	52	61	4	3	30	1.33
915178--915324	72	2.0	72	97	0	276	53	6	17	23	1.66
922476--922514	18	2.2	17	86	4	51	61	0	2	35	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
926210--926271	32	2.0	32	93	3	108	53	12	8	25	1.66
929919--929975	26	2.1	27	83	3	71	61	3	0	35	1.13
931338--931368	12	2.6	12	100	0	62	67	0	0	32	0.91
936439--936561	36	3.4	36	75	6	115	42	6	17	33	1.75
936428--936650	71	3.1	74	82	7	244	38	8	19	34	1.81
947640--947784	49	3.0	49	91	0	227	24	22	20	32	1.98
952384--952632	59	4.1	59	76	6	205	15	16	11	56	1.67
952376--952634	30	8.5	30	74	9	186	15	16	11	56	1.66
952384--952634	89	2.8	89	84	6	281	15	16	11	56	1.67
962378--962433	16	3.5	16	75	0	67	16	8	30	44	1.78
962376--962510	32	4.2	32	80	3	155	17	11	28	42	1.83
962394--962448	16	3.4	16	74	0	65	18	10	29	41	1.84
964198--964261	30	2.1	30	97	0	119	23	25	34	17	1.96
964989--965018	15	2.1	14	93	6	51	76	6	0	16	0.99
969918--969952	18	1.9	18	100	0	70	25	17	28	28	1.97
971292--971345	22	2.5	22	87	0	90	16	35	18	29	1.93
975566--975655	2	45.0	2	100	0	180	50	0	0	50	1.00
977894--977955	31	2.2	28	81	16	74	17	24	29	29	1.97
978831--978888	20	2.9	20	76	7	55	44	1	1	51	1.21
983723--983762	20	2.0	20	100	0	80	20	10	25	45	1.81
987742--987825	38	2.2	38	97	0	159	34	22	8	34	1.84
999533--999564	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1005414--1005473	21	2.8	22	80	10	70	45	0	1	53	1.10
1005937--1005963	2	13.5	2	100	0	54	51	0	0	48	1.00
1011077--1011107	16	1.9	16	93	0	53	51	3	9	35	1.51
1011164--1011219	23	2.2	26	84	15	73	35	5	12	46	1.65
1011614--1011668	16	3.2	17	75	12	58	47	0	3	49	1.19
1012476--1012504	2	14.5	2	100	0	58	51	0	0	48	1.00
1013600--1013641	21	2.0	21	90	0	66	28	19	19	33	1.96
1013776--1013835	29	2.0	31	90	6	97	41	15	6	36	1.73
1016967--1016996	7	4.3	7	95	0	51	43	40	0	16	1.48
1020026--1020126	29	3.5	29	87	0	121	23	7	23	44	1.79

Tables:   1   2   3   4   5   6