genome.fa.s9643.2.7.7.80.10.50.1000.5.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  5  of  41  ( 4862 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)
931582--931705	62	2.0	62	81	9	146	25	17	21	35	1.95
931777--931836	6	10.0	6	100	0	120	33	50	16	0	1.46
933478--933512	18	2.0	18	88	5	54	8	20	0	71	1.11
933858--933893	2	18.0	2	100	0	72	50	0	0	50	1.00
934616--934773	21	7.8	20	72	7	95	39	24	16	19	1.92
934739--934792	20	2.7	20	91	0	81	46	25	16	11	1.80
934760--934950	20	9.6	20	83	4	217	35	25	19	20	1.96
935652--935698	24	2.0	24	87	8	69	25	14	21	38	1.92
935873--935897	12	2.1	12	100	0	50	72	0	28	0	0.86
938179--938410	33	6.7	34	75	17	219	46	18	21	14	1.84
938160--938391	67	3.4	65	78	11	216	45	19	20	14	1.85
938193--938410	19	12.4	19	75	19	224	46	18	20	14	1.84
938221--938432	52	4.0	53	95	0	365	45	17	22	14	1.84
938278--938432	33	4.5	32	72	19	125	45	17	21	14	1.84
938439--938554	53	2.2	53	98	1	225	13	24	18	43	1.86
938457--938554	19	5.4	19	84	13	143	14	22	17	45	1.84
938652--938709	14	4.4	13	77	10	55	50	20	0	29	1.49
940620--940734	19	6.6	19	75	18	106	46	23	20	10	1.81
940656--940712	14	3.7	14	77	20	60	45	22	21	10	1.82
940637--940729	33	2.8	33	95	0	168	47	21	20	10	1.80
940730--940839	19	6.3	18	71	20	74	10	15	28	46	1.78
940730--940821	33	2.8	33	90	3	141	8	16	28	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
940887--941359	93	5.1	93	97	1	885	46	19	12	22	1.83
943065--943121	14	3.7	14	75	20	60	43	22	24	8	1.81
943057--943138	33	2.5	33	100	0	164	47	19	23	9	1.79
943079--943143	19	3.7	19	74	19	77	44	21	23	10	1.83
943163--943281	21	5.8	21	83	4	161	11	25	16	46	1.81
943162--943279	41	2.9	41	98	0	227	12	25	16	44	1.83
943359--943429	33	2.2	33	92	0	115	47	18	22	11	1.80
943611--943665	22	2.5	22	81	0	74	20	16	40	23	1.91
943812--944004	20	9.6	20	83	4	210	19	20	24	35	1.96
943991--944073	21	4.0	21	73	6	78	25	16	24	33	1.96
943971--944069	42	2.4	43	77	11	100	21	18	23	37	1.94
944514--944552	20	2.0	20	94	0	69	38	30	17	12	1.88
944514--944552	9	4.1	9	81	12	51	38	30	17	12	1.88
944559--944662	29	3.6	29	93	0	163	16	29	31	22	1.95
945197--945289	47	1.9	49	85	8	129	43	0	11	45	1.41
945330--945406	34	2.3	33	81	14	88	40	0	12	46	1.42
947647--947679	17	1.9	17	93	0	57	45	12	6	36	1.66
947664--947732	22	3.0	22	73	19	77	47	7	4	40	1.51
947871--947957	38	2.4	37	81	9	99	51	4	2	41	1.35
947941--948238	12	22.8	13	69	17	140	44	9	2	43	1.50
947887--948238	14	27.1	13	70	17	152	45	9	2	43	1.49
947887--948238	26	14.2	26	73	12	247	45	9	2	43	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
947903--948296	124	3.2	124	93	1	659	45	9	2	43	1.47
951002--951060	26	2.3	24	78	16	64	40	3	8	47	1.51
951799--951911	50	2.4	47	80	15	128	49	7	0	41	1.38
951871--951933	28	2.2	30	91	5	103	57	11	0	31	1.34
951875--951940	28	2.4	28	85	10	98	56	10	0	33	1.34
951910--951958	21	2.3	21	85	3	71	53	16	0	30	1.43
952327--952398	21	3.3	21	70	21	67	29	26	26	18	1.98
952323--952413	44	2.1	44	95	0	164	28	27	24	19	1.99
952511--952548	20	1.9	20	94	0	67	21	50	13	15	1.78
952634--952733	29	3.6	29	81	10	136	17	37	30	16	1.91
952897--952938	20	2.1	20	95	0	75	16	11	9	61	1.55
953327--953391	32	2.1	31	85	5	87	23	15	10	50	1.75
954032--954080	25	2.0	25	83	0	62	44	0	8	46	1.33
966619--966643	12	2.1	12	100	0	50	36	24	8	32	1.84
967073--967200	63	2.0	64	89	1	195	42	14	10	31	1.81
968926--969136	111	1.9	112	88	1	316	35	16	13	34	1.88
973822--973867	19	2.4	19	85	0	65	54	13	13	19	1.71
974566--974605	21	2.0	21	85	5	55	60	7	2	30	1.38
982171--982223	2	26.5	2	100	0	106	50	0	0	49	1.00
983587--983618	14	2.1	16	88	11	50	6	6	6	81	0.99
983821--983896	39	2.0	38	89	2	116	38	14	7	39	1.75
984115--984176	28	2.4	24	79	15	70	35	24	1	38	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
987566--987623	30	1.9	30	92	0	98	18	36	6	37	1.78
989318--989355	16	2.4	16	82	8	51	10	23	5	60	1.50
999304--999672	20	18.5	20	84	5	442	34	25	18	20	1.96
1000354--1000400	24	2.0	24	87	8	69	25	14	21	38	1.92
1000575--1000599	12	2.1	12	100	0	50	72	0	28	0	0.86
1002882--1003155	19	15.4	19	81	15	354	47	18	20	14	1.83
1002882--1003177	71	4.2	74	82	13	314	46	18	20	14	1.83
1002910--1003177	109	2.5	104	90	6	446	46	17	21	14	1.83
1002882--1003193	161	2.0	157	91	5	502	46	18	20	15	1.84
1002910--1003177	52	5.0	52	90	4	437	46	17	21	14	1.83
1003184--1003285	19	5.6	19	85	12	151	14	23	17	44	1.86
1003392--1003428	14	2.6	14	91	0	65	45	21	0	32	1.52
1005388--1005444	14	3.7	14	77	20	60	45	22	21	10	1.82
1005369--1005461	33	2.8	33	95	0	168	47	21	20	10	1.80
1005332--1005466	19	7.6	19	76	16	128	45	23	19	11	1.82
1005462--1005538	19	4.3	19	76	17	83	9	15	29	45	1.77
1005582--1006051	93	5.1	93	96	2	885	46	18	12	22	1.82
1005582--1006051	183	2.6	185	98	0	899	46	18	12	22	1.82
1007757--1007846	14	5.7	14	74	23	72	42	23	24	10	1.84
1007749--1007863	33	3.5	33	93	0	203	45	20	23	10	1.82
1007756--1007868	19	6.8	18	72	23	88	43	22	23	10	1.84
1007880--1007936	14	3.7	14	75	20	60	8	24	22	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1007894--1007982	19	4.9	19	72	15	89	11	23	20	44	1.83
1007864--1007982	33	3.4	33	90	6	166	10	22	21	45	1.82
1008074--1008144	33	2.2	33	89	0	106	49	18	21	11	1.78
1008325--1008379	22	2.5	22	81	0	74	20	16	40	23	1.91
1008525--1008717	20	9.6	20	82	5	219	19	19	25	35	1.95
1008525--1008717	60	3.2	60	83	0	251	19	19	25	35	1.95
1008773--1008824	20	2.6	20	96	0	95	21	13	26	38	1.90
1009353--1009409	23	2.5	23	94	0	96	52	8	17	21	1.71
1018189--1018262	33	2.2	34	97	2	141	39	10	0	50	1.38
1019030--1019132	52	2.0	52	96	0	188	41	12	23	22	1.88
1023610--1023712	52	2.0	52	96	0	188	41	12	23	22	1.88
1025970--1026051	3	27.7	3	92	2	130	34	3	0	62	1.13
1026047--1026076	11	2.8	11	95	5	53	56	0	0	43	0.99
1027501--1027547	14	3.5	13	80	13	51	40	2	2	55	1.24
1029898--1029940	21	2.0	21	90	0	68	27	27	27	16	1.97
1029920--1030070	67	2.3	67	82	6	173	25	27	27	19	1.99
1030456--1030515	30	2.0	31	90	3	95	36	6	23	33	1.81
1030736--1030777	22	1.9	22	100	0	84	16	28	28	26	1.97
1030738--1030785	22	2.2	22	92	0	78	18	25	27	29	1.98
1033224--1033303	27	3.0	27	78	10	101	37	11	12	38	1.79
1033317--1033374	29	2.0	30	83	10	75	34	6	24	34	1.82
1033587--1033642	22	2.5	22	97	2	103	21	25	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1033587--1033655	22	3.0	22	91	4	84	24	24	26	24	2.00
1039578--1039617	20	2.0	20	90	0	62	27	30	25	17	1.97
1039598--1039745	67	2.2	67	84	5	185	26	26	27	19	1.99
1040045--1040115	29	2.5	29	88	2	99	36	11	12	39	1.79
1040130--1040189	30	2.0	31	90	3	95	36	6	23	33	1.81
1040419--1040463	22	2.0	22	100	0	90	20	26	26	26	1.99
1040419--1040471	22	2.4	22	93	0	79	20	24	24	30	1.99
1052551--1053017	84	5.6	84	96	2	863	28	14	22	35	1.93
1052551--1053017	167	2.8	168	96	2	863	28	14	22	35	1.93
1053755--1054181	112	3.8	113	93	2	711	37	13	19	29	1.90

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