genome.fa.s8511.2.7.7.80.10.50.1000.5.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: VEPZ01008511.1 Hibiscus syriacus cultivar Beakdansim tig00111366_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2221980

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1077 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)
942157--942277	42	2.9	41	79	7	109	23	19	35	22	1.96
942676--942732	19	2.8	21	73	10	64	49	21	17	12	1.79
942700--942738	19	2.1	19	90	0	60	48	25	17	7	1.74
942829--943084	94	2.7	94	92	1	426	48	18	11	21	1.79
943867--943911	23	2.0	23	86	0	63	26	26	26	20	1.99
944524--944680	64	2.4	63	80	10	158	28	18	20	33	1.96
950783--950827	23	2.0	23	81	0	54	28	26	24	20	1.99
951440--951596	64	2.4	63	80	10	158	28	18	20	33	1.96
953834--953941	20	5.8	19	76	18	120	49	17	20	12	1.79
953834--953941	19	5.8	19	72	18	86	49	17	20	12	1.79
953942--953993	20	2.7	20	78	3	61	11	19	25	44	1.84
955679--955745	33	2.0	33	91	5	109	8	41	23	25	1.83
955691--955803	10	10.3	10	71	12	55	11	37	28	23	1.89
955691--955763	33	2.2	33	85	0	92	10	39	26	23	1.87
955764--955801	20	1.9	20	94	0	67	13	28	34	23	1.92
955840--955897	29	2.0	29	89	0	89	22	24	36	17	1.95
961427--961468	15	2.7	16	74	3	50	45	38	9	7	1.64
961573--961686	57	2.0	57	100	0	228	28	24	21	26	1.99
964635--964690	28	2.0	27	83	13	69	32	1	17	48	1.58
966011--966044	2	17.0	2	100	0	68	50	0	0	50	1.00
968949--968983	18	1.9	18	88	0	52	28	17	0	54	1.43
970271--970301	13	2.4	13	94	0	53	16	19	48	16	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
971218--971285	16	3.9	16	70	20	55	44	0	2	52	1.16
971214--971289	38	2.1	36	95	5	134	44	0	5	50	1.24
972216--972252	17	2.2	17	86	13	51	37	5	2	54	1.38
972261--972307	16	3.1	15	76	14	51	59	0	2	38	1.09
976886--977002	35	3.2	36	87	6	166	44	17	5	32	1.71
980813--980845	16	2.1	16	94	0	57	39	27	0	33	1.57
981254--981367	35	3.2	36	87	5	169	42	19	4	33	1.71
981306--981365	21	3.2	21	65	30	62	43	20	5	31	1.73
981799--981826	2	14.0	2	100	0	56	50	0	0	50	1.00
990347--990429	43	1.9	43	85	4	114	25	14	22	37	1.92
990497--990538	21	2.0	21	95	0	75	16	23	16	42	1.88
990812--990859	21	2.3	21	96	0	87	47	27	0	25	1.52
991937--991984	23	2.1	23	92	0	78	39	12	47	0	1.41
992258--992375	41	2.9	41	82	2	112	40	21	16	22	1.91
992773--992878	42	2.5	42	79	0	131	36	16	15	32	1.89
994491--994612	64	1.9	65	84	6	167	35	16	21	27	1.94
994621--994658	20	1.9	20	100	0	76	34	21	21	23	1.97
995652--995712	23	2.7	23	92	0	104	18	27	26	27	1.98
999756--999780	8	3.1	8	100	0	50	16	0	0	84	0.63
1000008--1000089	31	2.6	32	83	7	98	45	3	6	45	1.46
1001848--1001889	15	2.8	15	88	0	66	35	23	14	26	1.93
1011929--1012085	20	7.8	20	73	6	93	38	25	17	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011929--1012085	41	3.9	41	70	11	126	38	25	17	19	1.93
1012072--1012245	20	8.6	20	79	5	118	34	25	20	20	1.96
1012052--1012246	40	4.9	39	80	3	183	35	24	20	19	1.95
1012052--1012245	60	3.2	60	83	0	244	35	24	20	19	1.95
1012627--1012697	33	2.2	33	94	0	124	11	23	16	47	1.79
1012777--1012851	20	3.8	20	80	5	89	42	20	24	13	1.87
1012789--1012906	32	3.4	35	84	9	129	44	22	22	10	1.82
1012835--1012890	14	3.7	14	76	17	58	44	23	23	8	1.81
1012924--1012979	14	3.7	14	78	17	67	8	25	23	42	1.82
1012963--1013016	19	2.8	20	82	5	74	12	25	22	38	1.90
1012963--1013024	20	3.2	20	79	4	81	12	24	19	43	1.86
1012907--1013026	32	3.5	33	87	9	161	10	23	20	45	1.83
1015631--1015666	14	2.6	14	95	0	63	33	0	22	44	1.53
1015773--1015874	19	5.6	19	84	13	144	44	17	23	14	1.86
1015864--1016185	19	17.9	19	84	12	450	15	22	16	46	1.83
1015888--1015942	14	3.6	14	76	21	56	10	21	20	47	1.80
1016844--1017053	20	10.5	20	85	2	215	20	17	25	37	1.94
1017020--1017117	20	4.8	20	77	3	79	21	18	23	36	1.95
1017020--1017176	41	3.9	41	70	14	110	18	17	25	38	1.93
1019026--1019081	29	2.0	29	82	10	71	60	1	3	33	1.24
1020548--1020597	24	2.1	24	85	3	66	40	4	4	52	1.39
1021537--1021589	2	27.0	2	85	11	74	45	3	0	50	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1023054--1023087	16	2.1	16	88	0	50	14	2	0	82	0.79
1027970--1028908	164	5.7	164	89	2	1133	29	24	20	24	1.99
1028170--1028973	411	2.0	410	91	1	1306	30	25	19	24	1.98
1030797--1030821	13	1.9	13	100	0	50	20	0	0	80	0.72
1031077--1031104	6	4.7	6	100	0	56	28	0	0	71	0.86
1036753--1036789	17	2.3	16	90	9	58	51	0	0	48	1.00
1038823--1038847	13	1.9	13	100	0	50	24	16	16	44	1.86
1039173--1039210	2	19.0	2	94	0	67	52	0	0	47	1.00
1039477--1039509	13	2.5	13	95	0	57	63	0	6	30	1.18
1051834--1051965	60	2.2	59	82	5	149	33	10	15	40	1.82
1055477--1055990	257	2.0	257	100	0	1028	20	17	20	42	1.90
1066498--1066557	30	2.0	30	96	0	111	45	13	15	26	1.83
1075315--1075376	20	3.0	20	81	11	81	58	1	1	38	1.18
1075316--1075376	21	3.0	20	81	11	72	59	1	1	37	1.17
1075527--1075604	39	2.0	40	94	2	140	48	16	15	19	1.81
1075729--1075778	22	2.3	22	96	0	91	28	24	24	24	2.00
1087777--1087856	37	2.2	37	97	0	151	50	8	23	17	1.74
1092254--1092355	35	2.8	36	88	5	152	45	18	4	31	1.71
1092287--1092347	21	3.2	20	65	29	53	44	21	3	31	1.68
1096809--1096951	32	4.2	33	82	12	148	41	19	6	32	1.77
1097132--1097231	50	2.0	50	100	0	200	42	14	26	18	1.87
1098711--1098737	13	2.1	13	100	0	54	22	0	22	55	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1113761--1113856	48	2.0	48	97	0	183	37	19	27	15	1.92
1114508--1114550	2	21.5	2	100	0	86	51	0	0	48	1.00
1114550--1114585	2	18.0	2	94	0	63	52	0	47	0	1.00
1117328--1117384	21	2.8	20	77	15	62	61	1	1	35	1.17
1126366--1126677	80	3.8	80	91	2	473	30	25	23	20	1.99
1126366--1126677	161	1.9	163	90	2	495	30	25	23	20	1.99
1130645--1130719	35	2.1	35	87	4	107	34	28	26	10	1.90
1130797--1130887	24	3.8	24	85	2	121	37	19	17	25	1.94
1130797--1130887	47	1.9	48	88	2	139	37	19	17	25	1.94
1133357--1133432	13	5.5	13	79	14	89	15	21	46	17	1.84
1133357--1133418	31	2.0	31	93	0	106	14	20	46	17	1.83
1133357--1133432	31	2.7	27	86	10	91	15	21	46	17	1.84
1133351--1133406	18	2.9	18	86	7	76	14	21	46	17	1.84
1136056--1136087	2	16.0	2	100	0	64	50	0	0	50	1.00
1136171--1136228	24	2.4	23	83	8	71	43	17	6	32	1.75
1149066--1149413	170	2.0	170	99	0	687	29	12	19	39	1.88
1160375--1160489	24	4.8	24	86	4	151	40	19	14	25	1.89
1166112--1166157	22	2.0	22	83	12	56	52	13	2	32	1.52
1173660--1173836	88	2.0	88	97	0	336	37	16	20	24	1.93
1175902--1175963	20	3.0	20	81	11	81	58	1	1	38	1.18
1175903--1175963	21	3.0	20	81	11	72	59	1	1	37	1.17
1176119--1176179	27	2.2	28	91	2	97	47	16	16	19	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176131--1176188	28	2.1	27	87	3	80	55	12	15	17	1.70
1181075--1181104	13	2.3	13	100	0	60	16	46	23	13	1.82
1182417--1182452	18	2.0	18	88	0	54	52	0	16	30	1.44
1183495--1183606	24	4.7	24	88	4	154	26	15	18	39	1.90
1185752--1185793	13	3.2	13	86	3	57	16	42	21	19	1.89
1187116--1187151	18	2.0	18	88	0	54	52	0	16	30	1.44
1188195--1188306	24	4.7	24	88	4	163	25	16	19	39	1.91
1194010--1194131	37	3.3	37	95	0	217	50	7	23	18	1.72
1199888--1199942	24	2.3	25	87	9	87	67	0	9	23	1.19
1200421--1200475	29	1.9	28	88	3	83	25	41	20	12	1.87

Tables:   1   2   3   4   5   6   7   8   9