genome.fa.s8959.2.7.7.80.10.50.1000.6.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: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4521124

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  6  of  21  ( 2431 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)
930816--930898	39	2.1	40	82	6	98	27	3	1	67	1.15
931335--931377	18	2.5	17	82	14	52	20	4	2	72	1.14
932380--933285	452	2.0	452	100	0	1812	35	19	18	25	1.95
938507--939014	7	77.0	6	69	21	92	38	1	4	55	1.28
938507--939008	5	100.2	5	69	23	246	39	1	4	55	1.28
938534--939022	19	26.4	18	68	20	196	39	1	4	55	1.27
938533--938920	2	211.0	2	67	26	204	40	0	4	53	1.28
938614--939025	16	24.8	16	69	20	113	38	0	4	56	1.25
940166--940219	11	4.6	12	77	17	51	24	3	0	72	1.01
940153--940233	33	2.3	34	81	12	85	22	3	1	72	1.07
940174--940214	14	2.8	15	85	14	59	21	0	0	78	0.76
940679--940725	17	2.8	17	90	0	76	21	14	17	46	1.83
940801--940826	11	2.4	11	100	0	52	69	23	0	7	1.14
941640--941696	25	2.3	24	77	14	62	3	14	5	77	1.08
942911--942951	16	2.5	17	80	15	50	34	2	2	60	1.23
943392--943465	28	2.6	28	89	0	112	41	12	13	32	1.81
943552--943623	28	2.6	28	86	0	99	41	9	8	40	1.68
945914--945962	24	2.0	24	100	0	98	59	4	12	24	1.50
946067--946145	39	2.0	39	95	0	140	41	15	8	34	1.78
948388--948473	42	2.0	42	95	0	154	36	16	17	30	1.92
947652--951348	913	4.0	912	96	1	6670	36	11	19	32	1.87
965173--965237	29	2.2	31	78	13	73	43	3	1	52	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
965187--965253	16	4.4	15	72	24	52	49	1	1	47	1.19
970035--970172	73	1.9	73	100	0	276	21	15	18	44	1.86
974466--974715	125	2.0	124	97	0	473	26	7	23	42	1.81
976866--976923	29	2.0	29	90	6	91	31	8	24	36	1.85
997232--997262	15	2.1	15	93	0	53	54	0	0	45	0.99
998749--998808	31	1.9	31	89	0	93	30	25	15	30	1.95
1003663--1003711	2	24.5	2	100	0	98	48	0	0	51	1.00
1004098--1004128	2	15.5	2	100	0	62	48	0	0	51	1.00
1003309--1004128	435	1.9	434	99	0	1631	33	15	13	37	1.87
1005132--1005195	26	2.5	26	97	0	119	46	18	9	25	1.79
1005194--1005235	20	2.1	20	86	8	59	33	14	19	33	1.91
1007626--1007747	58	2.1	58	100	0	244	22	17	4	54	1.61
1010947--1011362	158	2.6	157	81	5	471	28	18	5	47	1.69
1011537--1011848	160	2.0	159	98	0	606	38	6	10	44	1.65
1014437--1014484	24	2.0	24	95	0	87	27	25	22	25	2.00
1019438--1019481	23	1.9	23	95	0	79	27	15	22	34	1.95
1020596--1020649	26	2.1	25	82	3	63	77	1	1	18	0.95
1020906--1020944	18	2.2	18	90	4	62	66	2	5	25	1.25
1022095--1022818	105	7.0	105	91	2	1097	22	17	26	33	1.96
1022095--1022818	207	3.5	208	90	2	1100	22	17	26	33	1.96
1023464--1023618	68	2.3	67	82	7	183	36	9	22	31	1.85
1023594--1023717	36	3.4	36	80	6	151	40	12	20	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1024210--1024243	17	2.0	17	94	0	59	44	29	8	17	1.79
1025319--1025376	7	7.4	8	79	12	59	0	10	5	84	0.77
1025308--1025376	23	3.0	22	76	19	61	0	13	5	81	0.87
1025332--1025376	11	4.3	11	78	21	51	0	8	6	84	0.78
1029346--1029408	32	2.1	29	86	13	85	76	1	3	19	1.01
1034480--1034654	88	2.0	86	94	5	307	42	13	11	32	1.79
1036724--1036787	27	2.4	27	87	7	94	53	0	0	46	1.00
1037033--1037257	40	5.8	40	91	8	394	18	23	10	47	1.80
1037031--1037262	76	3.1	76	100	0	464	18	24	10	47	1.79
1037200--1037968	113	6.8	112	91	4	1172	27	19	15	37	1.92
1037200--1037964	229	3.4	223	91	3	1137	27	19	15	37	1.92
1038810--1039074	83	3.2	83	89	2	433	38	23	11	26	1.89
1039022--1039128	55	2.0	54	92	1	178	35	24	10	29	1.88
1040246--1040301	9	6.3	9	82	12	62	0	16	0	83	0.64
1040247--1040298	16	3.3	16	84	12	72	0	13	0	86	0.57
1040248--1040300	23	2.3	23	87	9	72	0	15	0	84	0.61
1040246--1040296	26	2.0	25	92	3	84	0	15	0	84	0.63
1047611--1047642	15	2.1	15	94	0	55	46	9	18	25	1.79
1055039--1055090	19	2.7	19	100	0	104	21	17	30	30	1.96
1055118--1055156	20	2.0	20	89	0	60	20	15	33	30	1.94
1063662--1063708	19	2.5	19	86	10	62	31	19	23	25	1.98
1063661--1063849	91	2.1	90	81	10	224	28	17	24	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064824--1064875	23	2.3	23	87	6	72	26	11	28	32	1.91
1067180--1067211	7	4.6	7	96	0	55	59	0	25	15	1.36
1078300--1078371	20	3.6	20	96	0	126	34	16	26	22	1.95
1078995--1079104	21	5.0	21	71	6	69	23	15	25	35	1.94
1079012--1079106	23	4.3	22	73	11	79	25	15	24	34	1.95
1085821--1085862	22	1.9	22	90	0	66	26	21	26	26	1.99
1087613--1087787	88	2.0	86	97	2	332	26	17	20	35	1.95
1088323--1088394	35	2.0	37	94	5	130	34	16	16	31	1.92
1092927--1092964	20	1.9	20	100	0	76	21	15	31	31	1.94
1093643--1094027	45	8.6	45	87	2	524	23	20	14	40	1.90
1093655--1094027	134	2.8	135	88	1	554	24	20	14	40	1.90
1102733--1102765	15	2.3	15	89	5	50	48	15	0	36	1.45
1103387--1103418	16	1.9	17	93	6	57	62	0	3	34	1.11
1106315--1106390	16	4.6	16	72	22	59	28	3	11	55	1.54
1106321--1106409	18	5.2	17	72	21	62	28	3	8	59	1.44
1106337--1106409	33	2.2	33	82	7	94	27	4	9	58	1.48
1107479--1107571	30	3.1	30	85	3	125	39	19	21	19	1.92
1108930--1109013	30	2.8	30	73	8	82	39	15	17	27	1.90
1108955--1109048	30	3.1	29	76	8	91	39	12	23	24	1.90
1109640--1109708	13	5.3	13	91	3	104	37	24	20	17	1.93
1109635--1109708	20	3.8	20	75	10	62	40	24	18	16	1.90
1115983--1116098	30	3.9	30	86	2	153	34	19	24	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116653--1116687	13	2.7	13	95	0	61	45	22	17	14	1.84
1118623--1118833	112	1.9	110	84	6	277	36	23	13	27	1.92
1126375--1126407	17	1.9	17	93	0	57	12	0	18	69	1.18
1126434--1126466	12	2.6	13	90	4	50	36	12	6	45	1.66
1129103--1129132	15	2.0	15	100	0	60	26	6	20	46	1.75
1130227--1130270	23	2.0	23	86	4	63	63	0	0	36	0.95
1130228--1130281	23	2.4	22	78	9	54	61	3	0	35	1.14
1131890--1131939	21	2.4	21	100	0	100	36	14	22	28	1.92
1139501--1139539	18	2.2	18	86	9	53	20	2	2	74	1.06
1141857--1141996	21	6.6	21	71	9	95	40	24	13	22	1.90
1146029--1146171	21	6.7	21	70	6	81	36	23	16	23	1.94
1147576--1147644	23	3.0	23	78	0	75	30	24	26	18	1.98
1153171--1153261	45	2.0	46	89	2	139	28	25	18	27	1.98
1158313--1158866	277	2.0	277	97	1	1049	33	18	17	30	1.94
1159874--1159912	13	3.1	13	92	3	62	38	7	2	51	1.44
1160911--1160954	21	2.1	21	82	0	52	9	43	13	34	1.76
1161422--1161467	2	23.0	2	100	0	92	50	0	0	50	1.00
1162089--1162126	20	1.9	20	94	0	67	31	34	15	18	1.92
1162146--1162236	45	2.0	46	86	2	130	27	25	19	27	1.99
1167303--1167334	2	16.0	2	100	0	64	50	50	0	0	1.00
1174472--1174814	169	2.0	171	95	4	622	41	23	5	28	1.77
1175705--1175729	12	2.1	12	100	0	50	32	16	0	52	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181543--1181590	2	24.0	2	100	0	96	0	0	50	50	1.00
1183359--1183409	21	2.4	21	96	0	93	35	15	13	35	1.87
1183732--1183821	3	30.3	3	86	2	128	38	1	0	60	1.04
1184086--1184141	19	2.9	19	89	2	85	60	16	17	5	1.53
1184086--1184147	20	3.2	20	88	4	90	59	16	17	6	1.57
1185126--1185190	21	3.4	18	75	20	69	41	1	0	56	1.08
1185132--1185218	22	4.2	21	77	12	90	40	2	0	57	1.11
1185126--1185217	40	2.3	41	94	5	161	40	2	0	57	1.11
1185316--1185366	2	25.5	2	92	7	86	47	1	0	50	1.12
1185860--1185928	30	2.4	29	81	11	79	31	5	1	60	1.29

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21