genome.fa.s9573.2.7.7.80.10.50.1000.5.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: VEPZ01009573.1 Hibiscus syriacus cultivar Beakdansim tig00116938_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1247605

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 707 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)
911270--911661	158	2.5	160	89	2	601	35	10	21	32	1.88
911644--911680	18	2.1	18	100	0	74	35	16	21	27	1.94
911567--911758	99	1.9	99	91	0	312	34	12	20	32	1.90
911662--912476	81	10.1	81	88	0	1144	36	10	21	32	1.88
913466--914284	134	6.1	134	79	5	818	30	14	21	33	1.93
915985--916060	1	76.0	1	76	0	62	1	11	0	86	0.62
915973--916060	21	4.3	19	79	16	95	1	13	0	85	0.66
915960--916060	37	2.9	36	79	15	97	2	15	0	81	0.82
915972--916060	32	2.7	31	81	13	108	1	14	0	84	0.69
915973--916061	38	2.3	39	88	7	128	1	14	0	84	0.69
917583--917615	10	3.4	10	87	8	50	57	3	21	18	1.53
925993--926081	42	2.1	41	81	6	99	23	20	22	33	1.97
925869--926748	251	3.5	255	84	7	1126	34	14	16	34	1.89
926585--926921	173	1.9	173	87	4	493	37	11	15	35	1.83
926982--927335	187	1.9	188	97	2	676	30	14	13	41	1.85
930898--930938	19	2.2	19	86	8	57	68	2	2	26	1.15
930909--930938	13	2.3	13	94	0	51	66	0	3	30	1.07
931342--931377	2	18.0	2	100	0	72	50	0	0	50	1.00
931370--931464	48	2.0	49	87	2	138	50	7	7	34	1.58
931375--931478	48	2.1	49	84	7	131	50	9	6	32	1.61
931467--931525	21	2.9	20	75	5	55	49	23	0	27	1.51
931815--931865	21	2.3	20	81	15	57	39	1	0	58	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
931888--931947	2	30.0	2	90	6	95	51	1	0	46	1.10
932034--932092	21	2.8	21	79	5	66	52	27	0	20	1.47
930977--933223	568	4.1	553	80	10	2316	42	12	9	36	1.74
932539--932608	20	3.5	19	75	9	59	50	27	0	22	1.50
932550--932609	21	3.0	20	75	4	57	48	25	0	26	1.52
932539--932608	14	5.1	14	74	5	54	50	27	0	22	1.50
931927--933223	514	2.5	520	89	6	1947	42	12	9	34	1.75
932965--933001	15	2.4	15	95	4	65	51	5	2	40	1.39
933308--933354	14	3.7	14	71	26	50	51	4	0	44	1.21
933307--933355	23	2.1	24	96	3	91	48	4	0	46	1.20
933391--933424	11	3.3	11	84	16	54	38	0	0	61	0.96
933617--933703	16	5.4	16	92	0	147	39	12	28	19	1.88
934893--934943	15	3.5	15	78	10	70	49	7	31	11	1.68
934887--934944	28	2.1	28	100	0	116	51	6	27	13	1.66
939776--939809	17	2.0	17	88	11	52	64	0	26	8	1.22
941134--941172	20	1.9	21	84	5	53	48	7	17	25	1.74
943237--943293	26	2.1	27	84	9	73	66	5	1	26	1.22
943698--943748	23	2.2	24	86	6	70	31	1	1	64	1.15
946491--946537	21	2.2	21	84	0	58	68	6	2	23	1.24
946542--946593	20	2.5	22	87	9	81	63	1	0	34	1.06
946542--946607	22	3.1	21	82	8	80	63	1	0	34	1.04
946566--946623	30	2.0	28	87	12	82	60	1	0	37	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
946570--946637	30	2.3	30	82	14	79	61	4	0	33	1.16
951545--951590	2	23.0	2	100	0	92	50	0	0	50	1.00
952981--953050	24	2.9	24	74	4	70	51	18	11	18	1.75
953028--953073	24	1.9	24	86	0	65	45	15	15	23	1.84
957578--957738	87	1.9	87	89	0	250	30	18	18	32	1.95
957648--958569	133	6.9	133	82	2	940	29	18	19	32	1.96
957648--958569	134	6.9	134	81	2	946	29	18	19	32	1.96
957650--958539	267	3.3	264	84	3	1046	29	18	19	32	1.96
958728--958809	42	2.0	42	90	0	128	34	17	20	28	1.95
961076--961119	21	2.2	19	84	8	52	18	11	0	70	1.16
964045--964284	95	2.7	88	83	11	303	30	19	20	30	1.97
965580--965660	36	2.2	37	86	2	110	30	18	14	35	1.91
965609--965917	66	4.6	65	80	10	345	27	19	12	40	1.87
965673--965800	37	3.5	37	84	2	177	26	20	12	40	1.88
965591--965872	139	2.0	140	95	2	514	26	18	13	41	1.87
965702--966095	166	2.4	168	82	6	503	28	19	12	39	1.88
965923--966099	67	2.7	66	84	5	216	29	20	12	37	1.90
965923--966099	65	2.7	65	83	5	205	29	20	12	37	1.90
966081--966197	34	3.4	34	96	1	207	41	17	9	32	1.81
967422--967459	17	2.3	17	86	4	51	13	10	0	76	1.02
969114--969206	44	2.1	45	86	6	127	32	19	12	35	1.90
969327--969353	13	2.1	13	100	0	54	55	0	7	37	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
969328--969375	13	3.9	12	78	13	53	52	0	6	41	1.27
970270--970335	20	3.3	20	83	12	66	4	15	0	80	0.87
970280--970357	14	5.4	14	77	15	79	1	15	2	80	0.88
970292--970357	30	2.2	30	81	7	82	1	15	3	80	0.91
970289--970335	19	2.4	20	82	13	62	2	14	0	82	0.75
970287--970335	5	10.0	5	79	16	50	2	16	0	81	0.78
974242--974299	28	2.1	28	100	0	116	56	6	6	29	1.51
974779--974848	29	2.6	25	78	20	79	4	17	1	77	1.01
974796--974842	14	3.2	15	76	14	53	4	23	2	70	1.16
981077--981128	22	2.5	22	90	6	81	28	15	28	26	1.96
980905--981130	94	2.4	94	84	2	292	30	15	26	27	1.95
981453--981566	59	2.0	58	92	3	194	32	11	20	35	1.88
981824--982011	68	2.8	67	86	3	241	32	14	23	29	1.94
981963--982198	81	2.9	81	89	0	382	38	12	20	28	1.89
985338--985382	16	2.8	16	79	0	54	42	0	0	57	0.98
994741--994786	18	2.6	18	96	0	83	15	17	10	56	1.67
1010504--1010541	3	13.0	3	88	5	60	31	0	0	68	0.90
1010495--1010541	17	2.9	16	84	12	60	29	0	0	70	0.88
1010500--1010539	11	3.6	11	87	9	55	30	0	0	70	0.88
1013278--1013315	17	2.2	17	86	9	51	13	5	0	81	0.85
1029822--1030054	37	6.4	37	67	12	115	34	17	10	37	1.84
1029868--1030119	73	3.5	73	93	0	416	32	17	11	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1030120--1030493	123	3.0	123	93	0	615	37	17	19	24	1.94
1030621--1030665	3	15.0	3	90	9	74	35	0	0	64	0.94
1030614--1030681	30	2.3	29	82	12	84	36	1	0	61	1.05
1035308--1035385	30	2.6	30	89	4	113	34	6	16	42	1.74
1036553--1036628	34	2.2	34	92	0	125	10	42	26	21	1.85
1040565--1040615	14	3.6	14	82	12	52	23	21	5	49	1.71
1041842--1042018	90	2.0	90	94	0	309	45	6	10	37	1.65
1048601--1048775	90	2.0	89	91	3	289	45	6	12	36	1.66
1055136--1055545	119	3.5	118	93	1	687	34	14	18	33	1.91
1058471--1058538	27	2.6	27	81	6	77	32	1	11	54	1.46
1060679--1060720	7	6.1	7	83	10	52	14	19	14	52	1.75
1062580--1062630	25	2.0	25	96	0	93	21	27	21	29	1.99
1067631--1067655	13	1.9	13	100	0	50	16	24	20	40	1.91
1067656--1067703	8	5.8	8	80	9	60	50	14	6	29	1.67
1067655--1067716	17	3.6	17	91	4	99	46	17	8	27	1.76
1072485--1072530	24	1.9	24	90	0	74	34	23	17	23	1.96
1072534--1072619	23	3.7	23	82	3	100	29	24	24	22	1.99
1074863--1074917	27	2.0	27	100	0	110	50	10	14	23	1.74
1074906--1074945	21	1.9	21	90	10	64	27	17	20	35	1.95
1079105--1079147	15	2.8	16	82	3	52	48	2	2	46	1.27
1097831--1097868	19	2.0	19	100	0	76	31	36	21	10	1.87
1097949--1098025	29	2.7	29	100	0	154	12	31	32	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1098037--1098149	47	2.4	48	85	11	157	21	37	18	23	1.94
1098304--1098354	16	3.2	16	76	13	61	60	0	37	1	1.08
1098360--1098396	15	2.3	17	86	9	51	40	0	2	56	1.13
1098613--1098664	12	4.3	12	85	7	70	30	0	17	51	1.45
1098644--1098723	32	2.6	30	81	16	85	40	0	12	47	1.41
1098769--1098806	15	2.6	15	91	4	60	36	0	7	55	1.29
1110032--1110092	26	2.3	26	91	0	95	27	26	22	22	1.99
1110764--1110983	106	2.0	108	84	4	284	25	18	13	42	1.87
1111073--1111113	22	1.9	22	85	14	59	29	14	7	48	1.71
1111074--1111184	50	2.2	51	79	4	118	26	15	6	52	1.66

Tables:   1   2   3   4   5   6