genome.fa.s7993.2.7.7.80.10.50.1000.5.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: VEPZ01007993.1 Hibiscus syriacus cultivar Beakdansim tig00110443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2245901

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  5  of  12  ( 1410 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)
971324--971590	45	6.0	45	89	4	407	22	23	19	34	1.96
971754--971812	3	19.7	3	82	6	75	38	0	0	61	0.96
972094--972160	31	2.2	31	94	0	116	19	46	17	16	1.85
972945--972985	2	20.5	2	100	0	82	48	0	0	51	1.00
973357--973636	149	1.9	148	84	7	383	38	5	7	48	1.54
978880--978943	20	3.3	20	75	20	82	28	7	7	56	1.56
978869--978946	37	2.1	37	100	0	156	25	7	7	58	1.52
980750--980783	18	1.9	18	94	5	61	61	0	0	38	0.96
980743--980785	17	2.6	16	85	10	59	62	0	0	37	0.95
982903--982933	9	3.6	9	95	4	55	80	0	0	19	0.71
982900--982933	17	2.0	17	88	0	50	82	0	0	17	0.67
984315--984375	25	2.4	26	86	2	88	32	4	4	57	1.41
987379--987426	2	24.0	2	100	0	96	50	0	0	50	1.00
990624--990798	60	2.9	60	78	8	178	31	21	4	43	1.71
993410--993481	31	2.3	31	95	0	126	26	20	11	41	1.86
994038--994081	21	2.1	21	86	0	61	50	2	11	36	1.51
995221--995372	60	2.5	58	81	6	178	29	26	5	38	1.78
995542--995673	60	2.2	60	78	6	133	39	6	17	36	1.76
996228--996265	20	1.9	20	89	10	60	73	2	5	18	1.14
997549--997620	3	23.7	3	78	18	78	69	0	0	30	0.89
997554--997638	12	7.8	12	77	15	78	64	0	0	35	0.94
997563--997620	19	3.1	19	92	2	91	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
997546--997622	16	5.3	15	80	14	90	71	0	0	28	0.86
997636--997672	17	2.2	16	90	4	56	45	5	2	45	1.40
997619--997714	43	2.3	43	84	8	119	46	5	3	44	1.41
997713--997739	13	2.1	13	100	0	54	40	7	7	44	1.60
997651--997960	37	8.4	37	74	16	202	41	7	6	44	1.58
997631--997964	38	9.0	37	73	17	230	41	7	5	44	1.57
998719--999083	201	1.8	201	81	1	453	28	20	17	33	1.95
999479--999521	22	2.0	22	90	9	70	25	32	11	30	1.91
1003478--1003538	23	2.7	23	86	0	86	27	26	27	18	1.98
1005060--1005104	21	2.1	21	87	0	63	31	28	24	15	1.96
1005532--1005588	20	2.7	22	78	15	66	45	5	12	36	1.64
1006118--1006304	31	6.0	31	97	1	340	19	19	22	38	1.93
1007218--1007275	20	2.6	22	84	10	75	25	20	20	32	1.97
1010515--1010575	23	2.7	23	75	10	61	31	26	24	18	1.97
1011715--1011752	20	1.9	20	88	0	58	26	18	21	34	1.96
1011828--1011877	19	2.6	19	100	0	100	26	32	16	26	1.96
1011757--1011942	84	2.2	81	78	9	196	25	25	17	30	1.97
1016308--1016345	6	6.3	6	87	0	58	76	2	0	21	0.91
1018663--1018727	14	4.7	14	71	21	57	63	1	0	35	1.04
1018663--1018712	25	2.0	26	92	4	84	64	0	0	36	0.94
1018643--1018713	19	3.8	19	82	15	87	64	0	0	35	0.94
1018660--1018731	33	2.1	37	84	10	98	62	1	0	36	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1018698--1018784	42	2.1	43	82	8	108	52	4	1	41	1.29
1018723--1018767	17	2.6	17	89	0	63	48	2	0	48	1.13
1018788--1018828	20	2.0	21	90	4	66	41	7	4	46	1.53
1018801--1018870	25	2.6	29	80	19	89	42	5	4	47	1.47
1018744--1018907	90	1.8	90	83	10	221	43	6	4	45	1.51
1018839--1019032	37	5.2	37	75	13	166	43	7	4	44	1.50
1020129--1020197	34	1.9	38	82	11	92	5	10	17	66	1.40
1028481--1028533	19	2.7	19	80	8	52	16	9	9	64	1.49
1033739--1034432	345	2.0	345	99	0	1361	25	20	22	31	1.98
1037432--1037507	31	2.5	31	100	0	152	61	7	5	25	1.44
1039291--1039340	2	26.0	2	92	8	86	48	0	0	52	1.00
1040185--1040295	55	2.0	55	94	0	195	26	9	7	56	1.57
1044918--1044977	25	2.3	26	75	13	63	43	1	13	41	1.54
1046492--1046566	22	3.3	23	76	14	84	77	0	14	8	0.98
1046544--1046585	16	2.6	17	85	7	61	80	2	16	0	0.81
1046512--1046588	17	4.4	16	76	20	66	80	1	14	3	0.92
1046514--1046586	37	2.0	37	83	5	94	80	1	13	4	0.92
1046546--1046587	11	4.0	10	82	17	50	83	2	14	0	0.75
1046518--1046587	28	2.5	28	84	6	90	81	1	12	4	0.90
1046514--1046588	38	2.0	37	82	12	91	80	1	14	4	0.93
1047318--1047392	28	2.7	28	81	8	107	41	33	4	21	1.72
1047897--1047996	18	5.6	18	75	9	96	40	21	2	37	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047897--1047996	36	2.8	36	89	0	155	40	21	2	37	1.65
1048308--1048355	20	2.4	20	96	0	87	37	18	12	31	1.88
1048322--1048365	20	2.2	20	87	0	61	38	18	18	25	1.92
1048740--1048790	26	2.0	26	88	0	75	49	19	3	27	1.66
1048739--1048801	26	2.4	26	81	0	72	49	19	4	26	1.68
1050611--1050669	30	1.9	31	89	3	93	37	16	6	38	1.76
1051459--1051539	9	8.9	9	76	12	67	4	13	1	80	0.94
1051456--1051538	21	4.1	20	74	19	66	6	14	1	78	1.00
1051459--1051532	28	2.7	28	74	17	82	5	13	1	79	0.96
1051464--1051501	16	2.3	17	90	4	60	5	13	2	78	1.02
1051456--1051539	38	2.2	38	83	10	102	5	14	1	78	0.99
1054002--1054104	36	2.9	36	92	0	170	34	21	4	38	1.75
1054002--1054101	18	5.6	18	73	0	101	35	22	4	39	1.73
1054050--1054102	6	8.8	6	80	0	52	37	18	1	41	1.62
1054413--1054460	20	2.4	20	96	0	87	39	20	10	29	1.86
1054848--1054898	26	2.0	26	88	0	75	49	19	3	27	1.66
1054847--1054909	26	2.4	26	81	0	72	49	19	4	26	1.68
1058060--1058203	56	2.6	55	82	5	173	32	6	16	43	1.75
1058211--1058519	53	5.8	53	83	3	370	30	10	20	39	1.85
1059029--1059384	137	2.6	139	87	3	522	37	15	21	26	1.93
1059433--1059629	44	4.5	44	68	6	103	34	20	14	30	1.92
1059431--1059744	132	2.4	132	85	3	391	34	19	15	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064636--1064665	13	2.4	13	94	5	53	26	30	0	43	1.55
1068261--1068372	55	2.0	56	92	1	190	27	11	5	55	1.57
1071827--1071906	28	2.9	27	83	5	106	42	28	3	25	1.72
1073168--1073344	55	3.2	55	86	1	221	32	8	16	42	1.78
1073352--1073603	53	4.7	52	84	6	335	29	11	19	40	1.86
1073352--1073603	106	2.4	105	90	6	382	29	11	19	40	1.86
1073666--1073713	20	2.4	20	96	0	87	25	25	25	25	2.00
1073874--1073964	31	3.0	31	96	3	168	32	6	17	42	1.75
1074029--1074095	19	3.5	19	91	0	89	40	8	13	37	1.76
1074270--1074309	20	1.9	21	85	10	55	37	37	10	15	1.80
1075164--1075221	22	2.6	22	91	0	89	24	25	24	25	2.00
1075577--1075921	139	2.5	139	83	0	438	37	15	22	25	1.93
1075967--1076312	44	7.9	44	69	6	137	32	19	16	31	1.94
1076069--1076228	88	1.8	87	79	4	187	33	18	16	31	1.94
1078854--1078959	55	1.9	55	96	0	194	25	12	4	57	1.54
1080422--1080471	22	2.4	21	81	15	59	18	14	10	58	1.63
1080457--1080495	20	2.0	20	89	0	60	23	20	15	41	1.90
1081851--1081918	17	3.9	16	74	14	55	77	2	17	1	0.96
1081870--1081932	24	2.7	23	77	5	72	77	1	20	0	0.85
1081851--1081920	18	3.9	17	75	18	63	77	2	18	1	0.97
1082624--1082828	55	3.7	55	82	1	232	30	9	14	45	1.76
1082624--1082828	111	1.9	109	82	4	259	30	9	14	45	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1082838--1083358	53	9.8	53	84	4	656	31	9	18	40	1.82
1083419--1083491	20	3.5	20	72	17	60	19	20	23	36	1.95
1084349--1084449	50	2.0	50	96	0	184	29	22	18	28	1.98
1084399--1084719	139	2.3	139	84	3	439	34	17	20	27	1.95
1084723--1085020	132	2.3	132	85	2	402	32	21	16	29	1.95
1087582--1087703	40	3.0	40	100	0	244	22	17	27	32	1.96
1087807--1087924	47	2.6	44	81	7	146	38	8	21	31	1.83
1090748--1090790	16	2.8	16	89	3	61	79	2	16	2	0.95
1090750--1090858	6	18.3	6	69	18	50	74	2	17	5	1.13
1090772--1090806	15	2.3	15	90	0	52	74	0	11	14	1.08

Tables:   1   2   3   4   5   6   7   8   9   10   11   12