genome.fa.s8005.2.7.7.80.10.50.1000.4.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: VEPZ01008005.1 Hibiscus syriacus cultivar Beakdansim tig00110467_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1778185

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 727 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)
924228--924314	23	3.8	23	85	0	111	20	24	26	28	1.99
930635--930700	12	5.3	13	77	16	61	24	3	1	71	1.09
930875--930936	25	2.4	25	82	10	72	33	4	0	61	1.17
931013--931077	26	2.5	26	81	16	89	24	4	1	69	1.16
931016--931107	15	6.5	14	68	27	52	26	4	4	65	1.30
930489--931238	377	2.0	373	98	1	1437	23	8	3	64	1.36
932925--932967	19	2.3	18	84	7	59	11	13	11	62	1.54
940931--941948	105	9.7	105	95	0	1713	34	25	17	23	1.96
943464--943565	14	7.1	14	74	19	77	26	3	3	65	1.27
943464--943535	28	2.5	29	82	12	87	25	4	1	69	1.14
943710--943771	25	2.4	25	82	10	72	33	4	0	61	1.17
943855--943951	15	6.7	14	73	20	76	25	4	5	64	1.32
943855--943921	28	2.3	29	85	12	86	25	4	1	68	1.17
943852--943920	29	2.6	25	79	18	77	26	4	1	68	1.17
943852--943929	28	2.8	26	77	21	79	26	5	1	66	1.20
943319--944081	386	2.0	377	96	2	1409	24	8	3	64	1.37
951615--951681	27	2.5	27	82	0	89	31	16	14	37	1.89
957216--957475	72	3.8	71	76	10	268	22	26	11	38	1.89
957150--957464	134	2.3	135	86	3	418	22	27	12	37	1.90
961150--961182	2	17.0	2	87	6	50	51	3	0	45	1.16
966386--966431	17	2.7	17	86	0	65	28	13	15	43	1.83
985584--985650	33	2.0	33	91	0	107	44	14	7	32	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
985645--985686	21	2.0	21	95	0	75	47	9	11	30	1.72
994356--994413	28	2.1	28	96	0	107	60	0	3	36	1.14
995355--995414	23	2.8	21	75	9	57	20	13	10	56	1.65
1010705--1010733	14	2.1	14	100	0	58	48	0	0	51	1.00
1019167--1019194	2	14.0	2	100	0	56	50	0	0	50	1.00
1019616--1019669	27	2.0	28	85	3	74	35	0	5	59	1.21
1020129--1020285	72	2.1	74	93	5	275	20	21	8	49	1.76
1020845--1020891	21	2.3	20	82	7	58	72	2	8	17	1.19
1022984--1023040	29	2.0	29	100	0	114	14	35	31	19	1.91
1023099--1023154	29	1.9	29	96	0	103	12	35	30	21	1.90
1023262--1023295	10	3.4	10	84	15	52	8	29	38	23	1.85
1023158--1023315	33	4.8	33	88	0	181	10	37	27	24	1.88
1032565--1032658	21	4.6	21	68	15	61	50	1	3	45	1.24
1034973--1035036	24	2.7	24	77	0	65	23	21	32	21	1.98
1042203--1042249	19	2.5	19	82	6	60	40	2	0	57	1.11
1042322--1042366	23	2.0	23	86	0	63	53	2	2	42	1.25
1042440--1042502	17	3.5	17	70	12	54	41	0	0	58	0.98
1042445--1042527	36	2.4	35	78	11	91	37	2	0	60	1.10
1046729--1046765	18	2.0	18	89	5	56	72	2	0	24	0.97
1046811--1046870	32	1.9	31	86	6	86	36	0	1	61	1.06
1047002--1047039	2	19.0	2	100	0	76	50	0	0	50	1.00
1055762--1055955	2	101.0	2	65	25	64	51	7	1	39	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055762--1055966	7	29.1	7	69	18	106	52	7	1	39	1.38
1055862--1055948	34	2.7	33	80	16	92	54	6	1	37	1.35
1056980--1057015	3	12.0	3	100	0	72	33	0	0	66	0.92
1057399--1057442	20	2.3	19	84	7	54	40	6	27	25	1.80
1060399--1060462	2	33.0	2	81	12	80	50	3	0	46	1.17
1071148--1071295	2	78.0	2	68	24	72	40	0	4	54	1.21
1071161--1071312	71	2.1	72	82	11	179	40	0	4	54	1.21
1071158--1071295	42	3.3	41	71	19	110	40	0	5	54	1.22
1071264--1071314	12	4.2	12	82	2	66	39	0	0	60	0.97
1071231--1071309	16	4.9	16	79	13	67	44	0	2	53	1.14
1086723--1086803	41	2.0	40	87	2	117	34	24	14	25	1.94
1089052--1089127	38	2.0	38	100	0	152	26	34	13	26	1.93
1095013--1095119	24	4.5	24	72	4	99	49	16	11	22	1.77
1095013--1095119	48	2.2	48	76	0	115	49	16	11	22	1.77
1099420--1099500	23	3.8	22	85	7	105	19	25	30	23	1.98
1102528--1102574	13	3.5	13	77	13	51	55	2	2	40	1.24
1104011--1104096	3	28.7	3	90	0	136	61	0	2	36	1.09
1105442--1105481	21	1.9	21	89	0	62	30	7	7	55	1.56
1107400--1107453	20	2.6	21	88	2	74	18	22	44	14	1.86
1131987--1132076	25	3.6	25	88	7	128	36	20	18	24	1.95
1137254--1137314	25	2.5	24	89	10	97	39	21	16	22	1.92
1143931--1143968	5	7.6	5	100	0	76	0	39	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152251--1152308	20	2.9	19	87	7	71	36	22	17	24	1.95
1152313--1152417	19	5.2	19	80	13	111	35	5	27	31	1.80
1152904--1152936	14	2.3	15	89	5	50	39	0	3	57	1.14
1153039--1153070	16	2.1	16	94	5	57	46	0	15	37	1.46
1162300--1162377	23	3.3	23	80	1	84	33	23	19	24	1.97
1162384--1162601	103	2.1	103	93	0	373	37	22	13	26	1.91
1167093--1167419	163	2.0	163	99	0	645	31	13	11	44	1.79
1176047--1176536	243	2.0	243	98	0	944	31	25	16	27	1.96
1179303--1179347	7	6.4	7	87	10	65	37	0	0	62	0.96
1192044--1192099	29	2.0	28	82	10	69	41	0	1	57	1.09
1192482--1192516	13	2.8	13	91	4	54	57	0	0	42	0.99
1195513--1195553	8	5.2	8	82	5	57	34	0	29	36	1.58
1195621--1196476	126	6.8	126	98	0	1642	23	25	19	32	1.97
1196865--1196964	33	3.0	34	83	2	139	39	3	4	54	1.35
1197484--1197577	21	4.5	21	92	5	129	20	26	35	18	1.95
1197581--1197628	21	2.3	21	85	0	60	22	12	39	25	1.89
1199345--1199422	32	2.4	32	81	10	88	61	1	0	37	1.04
1216260--1216417	21	7.8	20	72	7	86	38	25	17	18	1.92
1216384--1216633	20	12.5	20	78	6	220	37	24	17	20	1.94
1216438--1216633	40	4.9	40	94	2	279	36	25	17	21	1.95
1217316--1217362	24	2.0	24	87	8	69	25	14	21	38	1.92
1217537--1217561	12	2.1	12	100	0	50	72	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1219860--1220068	19	11.7	19	80	16	259	45	17	22	14	1.85
1219860--1220068	72	2.9	71	87	7	289	45	17	22	14	1.85
1219846--1220062	105	2.1	102	88	10	314	46	17	22	13	1.84
1220039--1220154	53	2.2	52	86	3	160	18	23	18	38	1.93
1220058--1220174	53	2.2	53	98	1	227	13	23	17	44	1.85
1220077--1220174	19	5.4	19	84	13	143	14	22	17	45	1.84
1220281--1220317	14	2.6	14	91	0	65	45	21	0	32	1.52
1222296--1222352	14	3.7	14	77	20	60	45	22	21	10	1.82
1222277--1222369	33	2.8	33	95	0	168	47	21	20	10	1.80
1222240--1222374	19	7.6	19	76	16	128	45	23	19	11	1.82
1222370--1222498	19	7.3	19	73	17	116	9	17	27	45	1.78
1222370--1222461	33	2.8	33	91	3	141	8	18	27	45	1.78
1222542--1223015	93	5.1	93	98	0	921	45	18	12	22	1.83
1224713--1224802	14	5.7	14	74	23	81	42	23	25	8	1.83
1224705--1224819	33	3.5	33	95	0	212	45	20	24	9	1.81
1224712--1224824	19	6.8	18	72	23	88	43	22	24	9	1.83
1224820--1224878	19	3.4	18	71	22	54	8	18	27	45	1.78
1224820--1224890	33	2.2	33	92	0	115	8	21	26	43	1.81
1224831--1224912	33	2.5	33	87	2	110	9	24	23	42	1.84
1225011--1225081	33	2.2	33	89	0	106	47	16	23	11	1.79
1225263--1225317	22	2.5	22	81	0	74	20	16	40	23	1.91
1225463--1225656	20	9.6	20	82	5	221	19	19	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1225463--1225656	60	3.2	60	83	0	253	19	19	25	35	1.95
1225643--1225725	21	4.0	21	73	6	78	25	16	24	33	1.96
1225623--1225721	42	2.4	43	77	11	100	21	18	23	37	1.94
1226818--1226889	30	2.4	31	85	2	92	36	25	18	20	1.95
1239513--1239566	11	5.0	11	84	4	74	18	1	18	61	1.44
1239514--1239554	21	2.0	21	95	0	73	14	2	21	60	1.45
1241789--1241868	21	3.8	21	86	3	108	18	2	20	58	1.50
1241809--1241868	11	5.6	11	90	7	88	18	3	18	60	1.50
1241810--1241860	10	4.9	10	90	7	66	19	3	19	56	1.57
1256144--1256289	65	2.2	65	82	8	168	43	7	6	42	1.59

Tables:   1   2   3   4   5   6   7