genome.fa.s260.2.7.7.80.10.50.1000.5.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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   

This is table  5  of  26  ( 3102 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)
960532--960585	20	2.7	20	77	8	56	25	1	7	64	1.30
968336--968372	19	1.9	19	94	0	65	40	0	13	45	1.43
968337--968379	19	2.3	19	88	4	61	46	0	13	39	1.44
968764--968954	101	1.9	101	83	4	251	32	21	8	36	1.84
969133--969187	22	2.5	22	100	0	110	10	41	3	43	1.57
971962--972065	30	3.5	30	83	0	136	18	4	54	22	1.62
971961--972076	60	1.9	60	89	0	178	18	5	54	22	1.63
977295--977322	2	14.0	2	100	0	56	50	0	0	50	1.00
977383--977415	17	1.9	17	88	11	50	51	3	0	45	1.16
978264--978293	2	15.0	2	100	0	60	50	0	0	50	1.00
978354--978386	17	1.9	17	88	11	50	51	3	0	45	1.16
979366--979578	106	2.0	106	94	0	372	38	10	9	41	1.72
979779--979965	60	3.1	59	72	13	148	30	21	7	40	1.81
980130--980271	60	2.4	60	81	2	169	38	4	24	32	1.75
982721--982883	81	2.0	80	84	1	209	36	15	11	36	1.84
982883--982920	20	1.9	20	88	0	58	52	0	7	39	1.31
982991--983041	22	2.3	22	93	0	84	35	21	7	35	1.83
988045--988110	2	33.5	2	96	3	125	50	0	0	50	1.00
988376--988445	21	3.2	20	69	25	52	45	10	24	20	1.81
988331--988738	45	9.1	45	88	1	595	44	11	21	22	1.84
989341--989378	20	1.9	20	88	0	58	21	26	10	42	1.85
989400--989678	45	6.2	45	95	0	468	43	11	22	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
989448--989913	45	10.8	39	80	13	177	42	12	21	22	1.87
989400--990038	135	4.9	135	73	15	559	42	12	21	22	1.87
989645--989708	28	2.3	28	100	0	128	40	12	21	25	1.88
989673--990038	45	8.1	45	85	0	507	43	13	20	22	1.87
989465--990038	208	2.7	208	86	5	745	42	12	21	22	1.87
989420--989931	253	2.0	252	90	1	810	42	12	21	22	1.87
992117--992272	84	1.9	83	86	6	226	30	18	21	30	1.97
992543--992579	18	2.1	18	94	0	65	59	8	5	27	1.48
994855--994935	23	3.6	22	81	6	101	28	24	24	22	1.99
994859--994954	44	2.2	43	87	5	131	28	21	25	25	1.99
1000746--1000954	65	3.2	65	82	9	241	27	18	23	30	1.98
1004843--1004949	56	1.9	56	88	3	162	39	10	14	35	1.81
1005045--1005731	45	15.3	45	87	0	924	43	11	21	23	1.84
1005321--1005431	24	5.0	21	64	19	55	44	10	21	23	1.84
1016899--1016940	22	1.9	22	95	0	75	28	14	30	26	1.95
1016896--1016950	22	2.7	20	83	10	74	25	14	34	25	1.94
1017332--1017635	79	3.9	78	88	3	414	35	12	23	28	1.91
1017325--1017645	156	2.0	157	85	2	439	37	12	23	27	1.90
1018039--1018212	81	2.1	81	83	1	213	39	6	23	30	1.81
1019985--1020013	2	14.5	2	100	0	58	51	0	0	48	1.00
1022702--1022839	45	3.3	43	66	24	116	29	11	25	33	1.91
1022608--1022891	79	3.6	79	90	0	442	32	12	24	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1022615--1022927	158	2.0	158	85	1	421	33	12	23	30	1.91
1024311--1024387	36	2.1	36	80	0	82	23	15	20	40	1.91
1028163--1028188	10	2.6	10	100	0	52	92	0	0	7	0.39
1038576--1038608	2	16.5	2	100	0	66	51	0	0	48	1.00
1048566--1048625	31	2.0	31	86	3	86	33	10	23	33	1.88
1049636--1049750	38	3.0	38	91	2	178	23	23	28	24	1.99
1053123--1053458	167	2.0	169	98	1	658	32	12	28	26	1.93
1060037--1060104	30	2.3	32	85	12	92	41	8	20	29	1.82
1061461--1061576	40	2.9	40	85	0	133	33	23	18	24	1.97
1062910--1062963	20	2.5	22	79	8	67	31	14	31	22	1.94
1062932--1062977	22	2.0	23	83	4	58	30	10	32	26	1.90
1064023--1064209	42	4.4	42	77	6	169	21	18	23	36	1.95
1064023--1064209	21	8.7	21	81	3	149	21	18	23	36	1.95
1064866--1064899	16	2.1	17	88	5	52	38	0	17	44	1.49
1064957--1065065	42	2.7	41	82	4	130	38	19	19	22	1.93
1067555--1067584	15	2.0	15	93	0	51	53	10	6	30	1.60
1068652--1068700	21	2.5	20	86	6	73	24	22	16	36	1.94
1068716--1068758	20	2.2	20	87	8	61	39	25	18	16	1.91
1068756--1068845	21	4.4	21	87	4	130	44	12	18	24	1.84
1068764--1068845	41	2.0	41	97	0	155	46	10	19	23	1.81
1069199--1069238	20	2.0	20	90	5	62	17	15	20	47	1.83
1069195--1069260	21	3.2	21	80	8	64	18	18	16	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1069208--1069260	20	2.6	20	84	3	61	18	18	16	45	1.86
1073874--1073948	34	2.2	32	84	15	98	62	12	2	22	1.41
1073978--1074023	13	3.7	12	82	8	56	69	13	0	17	1.19
1076223--1076256	9	3.9	9	84	7	52	61	2	0	35	1.11
1076219--1076257	17	2.4	17	95	4	71	61	5	0	33	1.18
1076948--1077006	23	2.6	23	88	0	82	40	8	16	33	1.79
1076920--1077082	87	1.9	87	92	0	272	41	12	14	31	1.83
1077101--1077599	198	2.5	197	81	5	553	30	15	15	38	1.88
1080878--1081560	201	3.4	198	86	5	849	31	13	16	39	1.87
1081999--1082045	24	2.0	24	95	0	85	51	10	0	38	1.37
1081999--1082062	24	2.7	24	85	4	67	51	9	1	37	1.44
1083730--1084665	198	4.7	198	90	3	1432	32	15	16	36	1.89
1084807--1084856	19	2.6	19	90	0	73	60	10	2	28	1.40
1085422--1085806	212	1.8	210	98	1	745	35	18	10	34	1.85
1086188--1086223	17	2.1	17	100	0	72	30	11	8	50	1.67
1086393--1086430	18	2.2	18	90	4	60	5	36	0	57	1.21
1086786--1086815	15	2.0	15	93	0	51	16	50	13	20	1.78
1088980--1089626	182	3.6	182	87	1	861	28	14	12	43	1.83
1089371--1089416	20	2.3	20	76	0	56	26	15	10	47	1.78
1094271--1094559	80	3.6	78	80	7	269	23	17	24	34	1.96
1095054--1095186	66	2.0	66	85	0	176	37	14	22	25	1.92
1095275--1095343	36	1.9	36	81	0	84	43	15	18	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1095232--1095424	101	2.0	95	86	6	269	38	14	20	26	1.91
1095363--1095467	15	6.5	15	79	14	111	36	16	25	21	1.94
1095373--1095501	52	2.5	52	87	3	179	32	16	24	26	1.96
1095502--1095564	20	3.2	20	65	13	58	31	17	19	31	1.95
1095448--1095671	39	5.8	39	87	5	323	34	16	20	29	1.94
1095448--1095671	76	2.9	77	86	7	321	34	16	20	29	1.94
1095682--1095911	76	3.0	74	81	5	284	37	12	16	33	1.86
1095643--1095931	151	1.9	150	81	7	331	39	13	15	32	1.86
1096934--1097190	96	2.7	95	84	6	304	31	17	17	32	1.94
1099650--1099675	6	4.3	6	100	0	52	53	0	0	46	1.00
1102709--1102749	23	1.9	23	85	14	61	46	7	4	41	1.53
1102764--1102826	32	2.0	30	82	11	74	55	9	6	28	1.56
1104956--1105005	2	25.0	2	100	0	100	50	0	0	50	1.00
1107316--1107342	5	5.4	5	100	0	54	62	0	0	37	0.95
1109154--1109184	16	1.9	16	93	0	53	45	12	3	38	1.59
1112294--1112463	52	3.2	51	72	15	144	30	11	16	41	1.83
1112283--1112444	55	2.9	56	73	13	165	32	9	16	41	1.80
1112729--1112824	39	2.5	38	89	1	138	33	17	13	35	1.89
1112980--1113074	39	2.5	39	87	3	122	28	16	15	38	1.90
1113088--1113231	59	2.5	57	73	10	137	31	29	15	23	1.96
1113178--1113420	92	2.7	89	78	5	245	30	24	17	27	1.97
1114847--1114903	18	3.2	17	83	16	71	17	1	1	78	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1114853--1114904	10	4.8	10	78	21	52	17	1	1	78	0.93
1116428--1116465	15	2.7	15	88	8	53	34	2	2	60	1.24
1122526--1122598	23	3.2	23	90	3	103	39	20	5	34	1.76
1123013--1123085	23	3.2	23	92	0	119	38	21	5	34	1.77
1122123--1123429	487	2.7	487	97	0	2452	40	11	7	41	1.69
1125936--1126692	183	4.1	183	94	1	1288	33	16	14	35	1.90
1127895--1127963	3	23.0	3	75	0	66	23	33	7	36	1.82
1127895--1127967	12	6.1	12	86	0	83	23	32	8	35	1.84
1127899--1127980	36	2.3	36	91	0	128	20	32	8	37	1.83
1127921--1127975	12	4.6	12	90	0	83	18	34	10	36	1.86

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