genome.fa.s7880.2.7.7.80.10.50.1000.5.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: VEPZ01007880.1 Hibiscus syriacus cultivar Beakdansim tig00110258_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1382630

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 593 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)
1128209--1128266	23	2.5	23	71	0	62	48	12	25	13	1.77
1132415--1132797	141	2.7	141	82	2	450	33	20	22	22	1.97
1132866--1132903	18	2.1	18	85	9	51	21	18	34	26	1.96
1135048--1135213	53	3.1	53	88	0	233	35	19	22	22	1.96
1137223--1137263	20	2.0	20	90	0	64	24	21	31	21	1.98
1137586--1137627	12	3.5	12	83	0	57	14	16	47	21	1.82
1137626--1137708	31	2.6	31	84	1	112	49	0	0	50	1.00
1137726--1137769	13	3.5	13	84	3	54	18	15	47	18	1.83
1138440--1138501	18	3.2	20	78	19	62	61	0	1	37	1.06
1138520--1138596	23	3.3	23	75	12	75	53	1	0	45	1.08
1138535--1138636	53	2.0	53	90	7	165	53	1	0	44	1.11
1142657--1142750	48	2.0	48	95	0	170	26	31	7	34	1.84
1143739--1143804	23	2.9	23	90	0	96	62	15	7	15	1.53
1143748--1143797	13	4.1	13	75	15	52	62	14	8	16	1.54
1144069--1144115	14	3.6	14	75	21	57	59	14	12	12	1.61
1144068--1144115	24	2.0	24	95	0	87	58	14	12	14	1.64
1144069--1144123	24	2.3	24	90	0	83	56	16	14	12	1.68
1150596--1151315	301	2.4	296	87	5	984	41	20	9	28	1.83
1153525--1153590	32	2.1	32	88	5	98	28	6	15	50	1.67
1153555--1153613	30	2.0	30	83	9	77	37	6	13	42	1.71
1153699--1153789	28	3.1	28	83	7	101	36	9	12	41	1.76
1153705--1153789	31	2.9	30	85	5	102	34	10	11	43	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153590--1153980	195	2.0	195	95	3	716	36	9	10	42	1.73
1153894--1153996	28	3.6	29	81	6	122	33	10	13	41	1.79
1154434--1154458	12	2.1	12	100	0	50	24	16	16	44	1.86
1159746--1159789	19	2.3	19	96	0	79	34	22	18	25	1.96
1159816--1159861	19	2.3	21	88	7	69	21	17	28	32	1.96
1160763--1160801	4	9.8	4	82	0	51	0	66	0	33	0.92
1160763--1160801	12	3.2	12	88	0	60	0	66	0	33	0.92
1162000--1162048	23	2.1	23	84	0	62	36	12	18	32	1.88
1162345--1162373	2	14.5	2	100	0	58	51	0	0	48	1.00
1162566--1162648	36	2.5	34	88	9	118	44	20	10	24	1.83
1168221--1168379	79	2.0	79	91	3	257	33	17	12	35	1.88
1171794--1171885	46	2.0	46	100	0	184	28	19	26	26	1.99
1179904--1180071	73	2.3	73	100	0	336	23	16	20	40	1.91
1185526--1185623	44	2.1	47	88	7	148	26	11	22	39	1.87
1195180--1195324	9	14.4	10	69	19	56	75	1	17	5	1.06
1195180--1195321	17	8.2	17	68	26	52	76	1	16	5	1.05
1195227--1195263	10	3.5	11	89	10	60	86	5	8	0	0.70
1195227--1195281	11	5.2	11	80	8	51	83	3	10	1	0.84
1195227--1195323	20	4.7	20	71	12	72	80	2	13	4	0.95
1195272--1195322	24	2.1	24	88	3	75	76	0	17	5	0.98
1196613--1197165	51	10.9	51	92	3	866	29	15	27	26	1.96
1196613--1197165	150	3.6	151	91	2	869	29	15	27	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196613--1197165	201	2.7	200	90	3	831	29	15	27	26	1.96
1196609--1197265	51	12.9	54	89	4	466	29	15	26	28	1.96
1206184--1206403	108	2.0	108	100	0	440	25	31	15	28	1.96
1210549--1210612	31	2.1	31	84	0	83	37	14	10	37	1.81
1213700--1213993	43	6.9	43	83	3	252	22	19	23	34	1.96
1213938--1214098	43	3.8	42	72	11	130	25	18	21	34	1.96
1214404--1214498	21	4.5	21	86	4	120	0	32	22	45	1.53
1217872--1218075	41	5.0	42	77	4	168	32	17	14	35	1.89
1217873--1218032	82	2.0	81	82	3	196	33	18	13	35	1.89
1218059--1218170	39	2.8	41	80	6	129	26	21	18	33	1.97
1230319--1230352	16	2.1	17	88	5	52	35	0	20	44	1.52
1234571--1234595	11	2.3	11	100	0	50	36	8	0	56	1.29
1236620--1236666	15	3.1	15	70	11	51	27	25	25	21	1.99
1236615--1236686	30	2.4	30	79	4	83	33	22	30	13	1.93
1238879--1238914	2	18.0	2	100	0	72	50	0	0	50	1.00
1240960--1240984	12	2.1	12	100	0	50	20	16	24	40	1.91
1246565--1246598	16	2.1	16	88	0	50	47	20	17	14	1.83
1258399--1258522	49	2.5	49	89	0	185	41	16	20	22	1.90
1258629--1258747	28	4.2	28	81	8	150	34	23	29	12	1.92
1261550--1261626	19	4.0	20	68	15	63	37	10	11	40	1.76
1261551--1261647	41	2.4	41	82	6	117	36	11	13	39	1.81
1262563--1262630	18	3.8	18	98	0	127	41	10	0	48	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1262791--1262871	23	3.6	23	79	1	92	22	19	9	48	1.78
1266135--1266176	13	3.2	13	80	13	50	59	0	0	40	0.97
1268503--1268529	2	13.5	2	100	0	54	51	0	0	48	1.00
1271956--1272112	58	2.6	60	82	6	196	16	14	5	63	1.48
1272031--1272157	15	8.7	15	70	13	59	18	15	7	59	1.59
1273763--1273991	93	2.5	93	88	1	334	27	14	19	38	1.90
1277542--1277567	2	13.0	2	100	0	52	50	0	0	50	1.00
1281879--1281916	14	2.4	16	87	12	53	57	0	0	42	0.98
1290110--1290266	62	2.5	63	87	5	228	29	17	21	30	1.97
1294665--1294818	76	2.0	76	100	0	308	47	5	9	38	1.58
1295043--1295077	14	2.4	15	90	4	54	62	5	2	28	1.32
1299045--1299156	43	2.6	44	72	12	106	28	15	21	34	1.94
1301325--1301363	14	2.8	14	80	0	51	10	17	43	28	1.82
1301454--1301775	42	7.9	42	85	5	417	31	18	20	29	1.96
1301454--1301775	82	3.9	82	87	2	432	31	18	20	29	1.96
1301454--1301775	122	2.6	123	86	4	429	31	18	20	29	1.96
1309455--1309480	2	13.0	2	100	0	52	50	0	0	50	1.00
1313795--1313832	14	2.4	16	87	12	53	57	0	0	42	0.98
1313864--1313950	45	1.9	46	81	11	108	47	6	3	42	1.47
1337066--1337189	49	2.5	49	89	0	185	41	16	20	22	1.90
1337296--1337414	28	4.2	28	81	8	150	34	23	29	12	1.92
1340238--1340321	27	3.3	25	78	16	75	36	14	14	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1340239--1340322	25	3.2	27	79	14	79	38	14	14	33	1.86
1340808--1341024	119	1.8	119	85	4	296	24	18	4	52	1.63
1341224--1341292	18	3.8	18	94	3	120	40	10	0	49	1.37
1341453--1341533	23	3.6	22	78	8	83	23	19	9	46	1.80
1345071--1345180	38	2.8	39	80	15	138	33	19	0	46	1.56
1345222--1345267	18	2.5	18	82	10	58	28	2	2	67	1.14
1345990--1346034	22	2.2	20	84	8	54	40	0	4	55	1.20
1351447--1351479	11	2.8	12	86	13	50	60	0	0	39	0.97
1352687--1352719	16	1.9	17	88	11	50	36	0	3	60	1.12
1352682--1352721	17	2.3	19	79	16	50	32	0	2	65	1.06
1353828--1353873	24	1.9	24	90	0	74	41	0	6	52	1.27
1354460--1354517	24	2.3	27	79	17	86	13	41	17	27	1.87
1354467--1354521	24	2.3	24	96	0	101	14	43	16	25	1.86
1355054--1355139	34	2.5	34	84	5	111	20	1	15	62	1.38
1355134--1355214	35	2.3	32	77	20	83	25	8	9	55	1.61
1360317--1360375	5	12.0	5	77	10	59	18	0	8	72	1.09
1360606--1360751	15	9.9	15	64	19	58	17	15	6	60	1.54
1360613--1360762	57	2.5	58	81	9	173	16	15	6	62	1.52
1360725--1360792	15	4.6	14	78	8	55	20	13	5	60	1.54
1360738--1360806	29	2.3	29	78	11	77	24	14	7	53	1.66
1360783--1360818	15	2.4	15	90	0	54	30	19	8	41	1.81
1362410--1362628	93	2.4	93	88	0	312	29	12	19	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365782--1365831	3	16.7	3	100	0	100	32	0	0	68	0.90
1375249--1375301	26	2.0	26	85	0	70	41	13	13	32	1.82
1381612--1381661	21	2.4	21	80	6	57	20	18	40	22	1.92

Tables:   1   2   3   4   5

The End!