genome.fa.s8053.2.7.7.80.10.50.1000.6.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   27   28   29   30   31   32   

This is table  6  of  32  ( 3749 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)
1013485--1013591	45	2.4	45	93	3	180	28	26	17	28	1.98
1014771--1014824	20	2.7	20	77	11	74	27	31	14	25	1.95
1014848--1014912	20	3.2	20	86	0	103	41	21	18	18	1.90
1014767--1014912	40	3.6	40	76	10	120	34	24	16	23	1.95
1015040--1015090	22	2.3	22	93	0	84	27	43	7	21	1.80
1015358--1015412	20	2.8	20	89	8	78	52	21	14	10	1.72
1015409--1015450	20	2.1	20	86	0	57	14	19	21	45	1.85
1016975--1017007	13	2.5	13	95	0	57	21	42	24	12	1.86
1017428--1017473	4	11.5	4	80	0	56	28	2	2	67	1.14
1017610--1017665	21	2.7	21	72	10	60	26	32	14	26	1.95
1017613--1017705	42	2.2	42	84	0	114	24	35	16	23	1.95
1017617--1017708	21	4.4	20	69	4	58	23	33	17	25	1.96
1019445--1019531	39	2.2	39	95	0	156	17	14	19	48	1.81
1019835--1019871	18	2.1	18	89	0	56	51	10	5	32	1.60
1020258--1020307	25	2.0	25	96	0	91	44	22	8	26	1.80
1020368--1020409	20	2.1	20	90	0	66	45	11	21	21	1.84
1020418--1020479	20	3.1	20	88	0	97	35	24	20	19	1.96
1020483--1020532	20	2.5	20	96	0	91	16	18	22	44	1.87
1023132--1023183	24	2.2	24	82	0	59	36	17	19	26	1.94
1024062--1024133	20	3.7	19	75	15	58	26	12	22	38	1.89
1024082--1024136	20	2.8	19	91	8	92	21	16	20	41	1.90
1024061--1024152	40	2.3	39	79	5	114	23	13	22	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1024146--1024189	21	2.1	21	95	0	79	38	15	25	20	1.92
1024199--1024269	20	3.6	19	78	12	81	23	15	32	28	1.95
1029149--1029179	15	2.0	16	93	6	55	6	25	25	41	1.79
1031253--1031336	3	27.7	3	81	11	100	35	0	0	64	0.94
1032658--1032684	12	2.2	12	100	0	54	33	7	0	59	1.25
1036802--1036833	15	2.1	15	94	0	55	25	18	9	46	1.79
1044148--1044231	8	11.0	8	73	26	60	75	0	23	1	0.88
1044149--1044254	19	5.3	21	78	17	79	77	0	21	0	0.83
1044168--1044255	6	14.8	6	72	18	60	77	0	22	0	0.77
1044170--1044251	17	4.9	17	79	8	89	76	0	23	0	0.78
1044152--1044249	25	3.8	25	85	11	128	76	0	22	1	0.85
1044932--1045151	114	1.9	114	89	0	341	35	13	20	30	1.91
1045880--1046975	113	9.7	112	83	10	1320	37	13	19	30	1.90
1046436--1047081	113	5.7	110	83	9	712	38	13	19	29	1.90
1045851--1047081	228	5.4	224	82	10	1371	37	13	19	29	1.90
1045880--1047086	571	2.1	571	98	0	2324	37	13	19	29	1.90
1047024--1047117	39	2.4	39	96	0	170	47	7	22	22	1.75
1046903--1047244	160	2.1	160	98	0	666	41	11	19	27	1.86
1047186--1047249	20	3.2	20	65	12	60	43	9	21	25	1.82
1047063--1047282	121	1.8	121	85	5	311	41	13	17	27	1.87
1047738--1047772	6	5.5	6	87	12	52	68	0	0	31	0.90
1049060--1049091	3	11.3	3	93	6	50	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1049612--1050599	106	9.3	106	93	0	1611	22	18	25	34	1.96
1055489--1055523	3	11.7	3	93	0	61	65	0	0	34	0.93
1055580--1055647	3	23.3	3	82	11	88	35	0	0	64	0.94
1056367--1056391	11	2.3	11	100	0	50	48	8	36	8	1.62
1070010--1070095	32	2.7	32	85	0	118	30	22	15	32	1.94
1093995--1094044	23	2.1	24	82	10	59	54	8	2	36	1.42
1099361--1099501	63	2.2	63	88	1	219	28	13	13	44	1.81
1102023--1102069	24	2.0	24	95	0	85	29	23	23	23	1.99
1102044--1102135	47	2.0	47	82	4	114	34	22	20	21	1.96
1102040--1102119	24	3.4	24	68	13	58	35	23	21	20	1.96
1102273--1102345	16	4.7	15	72	5	56	35	19	8	36	1.81
1104202--1104361	85	1.9	85	80	2	187	26	17	21	34	1.95
1104312--1104413	43	2.3	44	91	1	170	26	15	24	33	1.95
1120086--1120466	111	3.4	111	89	2	595	37	21	18	23	1.94
1120690--1120908	111	2.0	111	85	5	300	34	16	24	24	1.96
1122036--1122087	26	2.0	26	96	0	95	23	3	9	63	1.41
1122262--1122298	18	2.1	18	100	0	74	32	13	21	32	1.92
1125339--1125373	3	11.7	3	100	0	70	31	0	0	68	0.90
1126635--1126703	36	1.9	36	88	5	104	47	4	0	47	1.21
1127707--1127754	2	24.0	2	100	0	96	50	0	0	50	1.00
1129688--1129731	20	2.0	21	83	12	54	59	0	0	40	0.98
1131466--1131507	21	2.0	21	81	9	50	40	4	9	45	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132239--1132353	54	2.1	54	95	0	203	34	34	10	20	1.86
1134098--1134143	23	2.0	23	83	8	58	32	2	0	65	1.05
1141606--1141733	65	2.0	65	92	0	211	28	17	7	46	1.76
1142355--1142385	2	15.5	2	100	0	62	51	0	0	48	1.00
1143966--1144046	31	2.9	27	75	15	76	38	1	0	60	1.05
1145111--1145186	30	2.6	29	85	4	107	46	6	2	44	1.43
1164231--1164263	16	2.0	17	94	5	59	48	0	0	51	1.00
1169220--1169266	16	2.9	16	87	0	76	46	6	14	31	1.70
1173713--1173810	49	2.0	49	97	0	187	34	12	25	27	1.92
1188532--1188701	86	2.0	86	94	2	297	48	7	12	30	1.69
1195919--1195966	23	2.1	23	84	0	60	37	12	16	33	1.86
1196349--1196400	23	2.3	22	90	6	77	44	19	1	34	1.62
1196359--1196421	23	2.7	23	90	0	90	38	19	6	36	1.77
1196747--1196833	39	2.2	39	95	0	156	17	13	20	48	1.81
1197092--1197128	18	2.1	18	89	0	56	51	10	5	32	1.60
1197377--1197427	25	2.0	25	92	0	84	39	19	7	33	1.81
1197704--1197766	23	2.7	23	85	0	81	36	19	6	38	1.77
1198135--1198197	23	2.7	23	85	0	81	36	19	6	38	1.77
1197462--1198702	431	2.9	431	98	0	2405	39	12	7	39	1.73
1198566--1198628	23	2.7	23	85	0	81	36	19	6	38	1.77
1200594--1200654	32	1.9	32	86	0	86	29	1	44	24	1.63
1202448--1202495	18	2.6	19	86	6	71	31	2	10	56	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202643--1203935	198	6.5	199	98	0	2447	35	15	16	32	1.90
1202643--1203935	397	3.3	397	98	0	2470	35	15	16	32	1.90
1205387--1205454	21	3.4	18	69	21	55	36	8	35	19	1.83
1205387--1205484	6	16.3	6	80	0	70	36	7	34	21	1.81
1205402--1205488	3	29.0	3	77	0	84	35	5	34	24	1.79
1205390--1205480	42	2.2	42	91	0	146	35	7	35	21	1.83
1205387--1205484	18	5.4	18	78	0	88	36	7	34	21	1.81
1206362--1206409	23	2.1	23	84	0	60	37	12	16	33	1.86
1206907--1206955	19	2.6	19	93	0	80	57	10	2	30	1.43
1208739--1208804	33	2.0	33	87	0	96	24	45	1	28	1.62
1211275--1211320	20	2.3	20	89	10	76	17	17	10	54	1.70
1211392--1211430	20	1.9	20	84	5	51	30	5	7	56	1.49
1211384--1212061	229	3.0	229	97	0	1259	39	7	7	45	1.62
1212778--1212837	33	1.9	30	89	6	84	46	30	6	16	1.73
1213029--1213056	2	14.0	2	100	0	56	50	0	0	50	1.00
1214397--1214442	3	15.3	3	100	0	92	65	0	0	34	0.93
1214631--1215092	134	3.5	135	88	2	670	31	19	20	29	1.97
1215108--1215212	45	2.4	45	83	4	124	44	15	19	20	1.86
1215183--1216528	38	35.9	38	83	5	1589	37	17	19	24	1.93
1215183--1216521	408	3.3	407	90	2	1957	37	17	19	24	1.93
1217552--1217604	23	2.3	23	96	0	97	41	16	18	22	1.90
1217729--1217858	43	3.0	42	70	11	111	32	23	11	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223000--1223028	3	9.7	3	100	0	58	65	0	0	34	0.93
1223535--1223608	30	2.9	24	79	20	71	54	0	1	44	1.08
1223579--1223619	18	2.4	17	83	4	55	56	0	0	43	0.99
1223601--1223702	31	3.4	29	78	15	102	53	0	2	42	1.22
1223645--1223698	27	2.0	27	85	3	74	55	0	1	42	1.10
1223653--1223704	27	2.0	26	88	3	77	59	0	0	40	0.97
1228049--1228208	78	2.1	78	87	2	232	22	12	35	30	1.91
1230586--1230625	21	1.9	21	90	10	64	55	10	0	35	1.34
1231609--1231658	19	2.6	19	87	9	66	38	12	26	24	1.90
1232260--1232519	138	1.9	135	85	5	353	28	13	17	40	1.87

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   27   28   29   30   31   32