genome.fa.s9630.2.7.7.80.10.50.1000.5.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: VEPZ01009630.1 Hibiscus syriacus cultivar Beakdansim tig00117026_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1249403

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 671 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)
850341--850424	29	2.9	29	76	15	68	38	2	14	45	1.58
850434--850467	17	2.0	17	88	11	52	67	5	0	26	1.13
850434--850493	31	1.9	31	83	12	79	68	3	1	26	1.15
860004--860062	31	1.9	30	83	10	75	62	3	8	25	1.39
862499--862532	17	2.0	17	88	0	50	20	5	23	50	1.70
866176--866204	3	9.7	3	100	0	58	34	0	0	65	0.93
876678--876721	19	2.3	19	88	0	61	27	22	2	47	1.63
892325--892354	3	10.0	3	100	0	60	33	0	0	66	0.92
896109--896150	17	2.5	17	81	18	52	57	0	2	40	1.12
902971--903037	29	2.3	29	89	2	98	40	11	13	34	1.81
902979--903060	29	2.6	31	79	15	96	40	14	14	30	1.86
908193--908264	33	2.2	33	84	0	90	22	27	33	16	1.95
913979--914035	29	2.0	29	100	0	114	26	14	14	45	1.82
914772--914802	2	15.5	2	100	0	62	48	0	0	51	1.00
915148--915770	313	2.0	311	95	0	1129	42	10	11	35	1.76
922955--922998	22	2.0	22	100	0	88	45	0	22	31	1.53
926725--926759	18	1.9	18	88	0	52	17	37	31	14	1.89
927019--927060	14	3.0	14	100	0	84	50	7	0	42	1.30
932264--932369	5	21.2	5	100	0	212	60	0	0	39	0.97
936395--936441	23	2.0	24	91	4	78	57	21	14	6	1.60
949314--949378	33	2.0	33	96	0	121	41	24	10	23	1.86
948622--950153	510	3.0	510	99	0	3001	32	20	15	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
956580--956644	34	1.9	33	84	12	87	18	9	3	69	1.29
956592--956630	21	1.9	21	84	5	53	17	10	5	66	1.39
958967--959015	23	2.0	24	88	7	73	51	4	0	44	1.20
961290--961323	13	2.6	13	85	0	50	70	14	11	2	1.27
961834--961872	2	19.5	2	100	0	78	48	0	0	51	1.00
962516--962930	157	2.6	158	81	6	520	46	5	17	30	1.69
968987--969111	30	4.2	30	90	5	182	62	10	14	12	1.55
968987--969111	59	2.1	59	88	5	180	62	10	14	12	1.55
969045--969100	17	3.5	17	67	18	57	58	12	14	14	1.63
969739--970254	259	2.0	259	98	0	987	29	20	28	21	1.98
976410--976465	23	2.4	23	87	0	85	23	19	19	37	1.94
978020--978072	21	2.4	22	81	6	63	30	1	13	54	1.49
980462--980502	12	3.6	12	75	24	52	48	0	0	51	1.00
984278--984348	30	2.3	30	85	2	88	45	9	4	40	1.57
985472--987431	8	247.0	8	97	1	3259	50	28	0	21	1.50
990684--990718	3	11.7	3	100	0	70	65	0	0	34	0.93
992128--992226	21	4.8	20	75	6	81	37	23	18	21	1.94
992193--992386	20	9.6	20	81	5	221	35	25	19	19	1.95
992193--992386	60	3.2	60	83	0	253	35	25	19	19	1.95
992770--992840	33	2.2	33	92	0	115	11	22	18	47	1.80
992920--993029	21	5.8	20	74	17	108	45	18	24	11	1.83
992913--993029	41	3.1	38	81	14	145	46	17	25	11	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
992980--993036	14	3.7	14	75	20	60	43	22	24	8	1.81
992972--993041	33	2.1	33	100	0	140	47	20	24	8	1.78
992978--993049	33	2.2	33	94	0	126	47	23	20	8	1.77
993070--993126	14	3.7	14	75	20	60	8	24	22	43	1.81
993048--993175	33	3.6	33	85	10	157	10	25	17	46	1.79
993111--993175	21	3.2	20	77	4	76	9	26	15	49	1.74
994874--995249	93	4.1	93	96	0	691	22	11	19	46	1.82
995297--995425	19	7.3	19	75	17	125	45	28	17	8	1.77
995333--995425	33	2.8	32	91	4	150	46	27	18	7	1.76
995297--995425	52	2.5	52	74	14	140	45	28	17	8	1.77
997353--997388	14	2.6	14	95	0	63	33	0	22	44	1.53
997495--997573	19	4.4	19	80	16	105	45	17	22	13	1.84
997582--997803	19	12.7	19	76	18	241	14	21	18	45	1.85
997582--997803	52	4.2	52	84	8	290	14	21	18	45	1.85
997639--997817	33	5.2	33	85	10	261	13	21	18	46	1.83
997620--997836	71	3.1	70	92	3	325	13	21	18	46	1.84
1000295--1000341	24	2.0	24	87	8	69	38	21	14	25	1.92
1000897--1000936	22	1.9	21	90	10	64	27	7	40	25	1.82
1001024--1001253	20	11.5	20	85	1	237	19	18	24	36	1.94
1001240--1001322	21	4.0	21	75	6	78	25	15	24	34	1.95
1001220--1001318	42	2.4	43	77	11	100	21	17	23	38	1.93
1004828--1004897	34	2.0	35	86	8	99	60	17	0	22	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1005746--1005803	17	3.7	16	77	11	66	65	0	0	34	0.93
1005739--1005803	16	4.1	16	78	9	71	63	0	0	36	0.95
1005740--1005803	31	2.0	31	84	6	83	62	0	0	37	0.95
1005735--1005810	24	3.2	24	76	23	72	67	0	0	32	0.91
1005892--1005930	18	2.2	18	90	0	60	25	0	46	28	1.53
1010708--1010745	14	2.7	14	95	0	67	18	13	10	57	1.63
1013040--1013101	32	1.9	32	86	0	88	16	14	11	58	1.64
1017059--1017155	35	2.7	36	88	1	142	31	18	13	36	1.90
1017122--1017429	105	2.9	104	84	4	397	30	16	12	40	1.85
1017581--1017652	29	2.5	29	86	11	103	27	12	13	45	1.80
1017612--1017669	30	2.0	29	86	3	80	31	12	12	44	1.78
1017641--1017787	61	2.4	62	89	2	226	30	12	13	42	1.82
1017759--1017826	28	2.4	29	90	4	104	33	8	14	42	1.77
1017696--1017890	89	2.2	87	82	9	239	32	11	12	43	1.79
1017775--1017929	65	2.4	66	80	4	188	31	12	12	43	1.80
1017794--1018096	66	4.8	64	69	17	170	28	17	13	40	1.87
1018091--1018150	31	1.9	31	86	6	86	30	15	13	41	1.85
1018360--1018461	39	2.5	41	84	6	127	26	34	19	19	1.96
1018353--1018591	43	5.6	41	71	19	150	25	34	19	20	1.96
1018342--1018700	134	2.7	133	88	4	501	25	32	18	22	1.97
1018614--1018733	40	2.9	42	81	12	149	25	29	19	26	1.98
1018902--1018965	3	21.0	3	81	15	62	31	0	4	64	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1033714--1033744	12	2.5	13	94	5	55	41	6	3	48	1.45
1040602--1040757	39	4.0	39	80	5	154	20	38	7	33	1.80
1047173--1047222	3	16.0	3	87	8	73	34	0	0	66	0.92
1049182--1049430	131	1.9	130	82	3	311	33	8	14	44	1.74
1050684--1050720	2	18.5	2	100	0	74	48	0	0	51	1.00
1050810--1050867	16	3.2	16	72	23	53	48	0	1	50	1.11
1057372--1057416	22	2.1	21	87	4	63	60	2	0	37	1.09
1059068--1059096	2	14.5	2	100	0	58	48	0	0	51	1.00
1059139--1059164	2	13.0	2	100	0	52	50	0	0	50	1.00
1061126--1062467	134	10.2	134	84	3	1543	30	19	19	29	1.97
1061199--1062457	44	28.7	44	64	12	207	30	19	19	30	1.97
1061776--1062158	87	4.4	86	70	7	243	31	20	18	29	1.96
1062595--1062625	15	2.1	15	100	0	62	29	38	19	12	1.89
1062914--1063105	66	2.9	67	84	5	246	39	16	19	25	1.92
1062980--1063247	103	2.6	106	80	8	309	39	15	19	26	1.91
1063049--1063139	34	2.6	35	82	6	96	45	14	15	25	1.84
1063147--1063411	39	6.8	39	88	0	332	36	18	17	27	1.93
1063422--1063542	40	3.1	40	67	9	106	43	9	14	31	1.79
1063423--1063584	76	2.1	75	88	5	238	43	11	15	29	1.82
1069017--1069091	33	2.3	32	80	13	82	52	4	5	38	1.43
1071383--1071551	20	8.6	19	71	12	110	31	26	15	27	1.96
1072295--1072328	12	2.8	12	90	0	50	55	29	0	14	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072449--1072495	24	2.0	24	91	0	76	29	19	17	34	1.94
1074753--1074788	18	2.0	18	94	0	63	55	25	2	16	1.55
1075200--1075337	61	2.2	63	82	8	156	48	16	2	32	1.58
1076715--1076814	42	2.4	42	80	6	112	22	17	35	26	1.95
1079007--1079038	13	2.5	13	94	0	55	78	15	3	3	1.01
1079252--1079309	22	2.6	22	80	0	71	20	13	39	25	1.90
1079430--1079494	20	3.2	20	88	0	103	18	15	24	41	1.89
1079430--1079532	40	2.6	40	83	4	111	20	14	27	37	1.91
1079439--1079532	20	4.8	19	80	6	75	20	14	28	36	1.92
1080559--1080618	28	2.1	30	84	6	79	56	1	0	41	1.09

Tables:   1   2   3   4   5   6