genome.fa.s9289.2.7.7.80.10.50.1000.6.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: VEPZ01009289.1 Hibiscus syriacus cultivar Beakdansim tig00112988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1661737

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 855 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)
1097562--1097599	9	4.6	8	84	15	51	84	5	10	0	0.77
1097551--1097611	22	2.8	21	76	14	61	77	6	16	0	0.98
1098199--1098242	22	2.0	22	91	8	72	38	22	11	27	1.88
1099205--1099467	36	7.4	36	78	9	272	26	19	13	40	1.89
1099247--1099431	102	1.8	102	90	2	300	28	17	14	40	1.88
1099139--1099529	138	2.8	138	85	1	500	28	19	12	38	1.89
1099425--1099598	64	2.6	65	83	5	215	33	21	9	35	1.85
1099425--1099597	68	2.6	66	85	3	215	32	21	9	35	1.86
1100202--1100651	105	4.3	105	92	2	694	32	26	18	22	1.97
1101795--1101882	12	7.4	11	68	24	54	28	4	2	64	1.25
1103061--1103493	43	10.1	41	79	9	370	27	18	6	47	1.72
1103061--1103546	86	5.7	83	77	12	398	27	17	6	47	1.73
1103079--1103540	172	2.7	169	82	6	529	27	17	6	48	1.71
1103080--1103554	43	11.1	42	74	11	171	27	17	6	48	1.71
1109245--1109293	8	6.4	8	82	15	50	59	0	2	38	1.09
1116918--1116952	17	2.1	17	100	0	70	28	11	14	45	1.79
1117397--1117445	23	2.2	22	82	10	55	36	2	4	57	1.30
1119685--1119719	18	1.9	18	94	0	61	28	11	20	40	1.87
1120097--1120181	41	2.1	41	93	0	143	30	21	16	31	1.95
1121668--1121711	3	14.7	3	100	0	88	65	0	34	0	0.93
1124501--1124540	19	2.0	22	85	14	59	40	2	5	52	1.37
1125119--1125167	24	2.0	24	84	7	64	48	22	2	26	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1126627--1126680	19	2.8	20	88	2	83	24	20	33	22	1.97
1126896--1126940	21	2.1	21	84	8	56	48	6	8	35	1.61
1128619--1128658	14	2.8	14	96	3	71	2	42	0	55	1.13
1139201--1139263	32	2.0	32	84	6	83	52	0	1	46	1.10
1141027--1141087	21	2.9	21	87	0	86	29	24	21	24	1.99
1141109--1141149	21	2.0	21	85	0	55	29	17	24	29	1.97
1141983--1142046	24	2.7	23	83	4	83	20	25	25	29	1.99
1142369--1142420	25	2.1	25	100	0	104	48	0	7	44	1.31
1142351--1142397	18	2.7	18	93	3	78	48	0	4	46	1.21
1144474--1144573	44	2.2	46	85	7	132	40	14	6	40	1.70
1144587--1144640	22	2.5	21	75	3	54	44	7	11	37	1.68
1153093--1153137	22	2.0	22	100	0	90	22	37	8	31	1.85
1155947--1156028	39	2.2	35	85	10	110	45	12	15	26	1.82
1156794--1156860	35	1.9	35	90	0	107	52	11	7	28	1.65
1165734--1165781	22	2.2	22	85	7	62	52	2	6	39	1.39
1166686--1167094	136	3.0	134	88	3	518	34	10	12	42	1.77
1166785--1166848	29	2.2	29	86	5	85	34	7	10	46	1.68
1166950--1167209	110	2.3	112	81	7	296	37	10	9	42	1.73
1166827--1167280	254	1.8	249	85	6	650	37	11	10	41	1.75
1167777--1167853	30	2.6	30	81	2	84	25	9	25	38	1.85
1172910--1172953	21	2.0	21	82	4	52	25	29	25	20	1.99
1181604--1181636	16	2.1	16	94	0	57	63	0	3	33	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1186480--1186533	29	1.9	29	81	7	67	40	3	18	37	1.69
1192787--1192821	14	2.5	14	100	0	70	40	5	14	40	1.69
1195241--1195266	7	3.7	7	100	0	52	38	0	0	61	0.96
1197839--1197927	44	2.0	44	100	0	178	24	17	13	43	1.85
1207229--1207266	18	2.1	18	95	0	67	26	10	42	21	1.85
1210124--1210177	23	2.5	22	74	17	58	51	3	3	40	1.37
1213216--1213814	301	2.0	301	97	1	1121	25	21	14	37	1.92
1215916--1215946	14	2.2	14	100	0	62	48	0	0	51	1.00
1216654--1216994	172	2.0	172	95	4	629	20	15	24	39	1.91
1222908--1222948	2	20.5	2	100	0	82	51	0	0	48	1.00
1222961--1223140	4	44.8	4	79	11	118	34	0	65	0	0.93
1222955--1223187	12	19.8	12	80	12	171	36	0	63	0	0.98
1223049--1223185	2	71.5	2	84	8	178	43	0	55	0	1.05
1223000--1223185	4	48.2	4	82	7	179	39	0	59	0	1.01
1226347--1226434	29	3.0	29	63	6	68	51	2	12	34	1.52
1229302--1229346	3	15.0	3	100	0	90	66	0	0	33	0.92
1229868--1229920	21	2.5	21	71	17	56	22	22	18	35	1.95
1229910--1229961	21	2.5	21	87	3	70	38	17	25	19	1.93
1229929--1230064	41	3.3	42	83	5	145	32	24	20	22	1.98
1229950--1230064	20	5.7	20	82	6	124	31	26	19	23	1.98
1229948--1230084	41	3.4	40	81	6	159	34	24	17	23	1.96
1230535--1230593	20	3.0	20	87	0	73	15	18	22	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1230730--1230784	25	2.2	24	78	15	58	20	9	18	52	1.71
1231908--1231965	21	2.8	21	100	0	116	27	25	24	22	2.00
1237646--1237728	21	3.8	22	81	7	89	21	36	24	18	1.95
1241558--1241605	18	2.7	18	86	0	69	27	41	12	18	1.86
1242140--1242206	20	3.4	20	81	2	73	38	23	22	14	1.92
1242232--1242328	19	5.6	19	68	22	79	13	18	20	47	1.82
1242254--1242312	14	3.9	14	72	20	55	11	16	22	49	1.78
1242237--1242328	33	2.8	33	93	0	157	13	17	20	48	1.80
1242322--1242407	40	2.2	40	84	0	109	19	18	24	37	1.94
1242301--1242385	20	4.3	20	80	1	100	15	21	22	41	1.90
1242375--1242413	20	2.0	20	89	0	60	28	12	25	33	1.93
1242756--1242816	21	3.0	20	73	7	68	22	42	13	21	1.87
1242753--1242839	37	2.2	40	82	10	108	22	39	16	21	1.92
1244375--1244412	20	1.9	20	88	0	58	44	28	13	13	1.81
1244418--1244463	19	2.4	19	100	0	92	47	17	19	15	1.82
1244502--1244575	20	3.8	20	89	3	114	12	21	24	41	1.87
1244489--1244594	34	3.0	34	77	12	122	11	22	25	40	1.87
1244944--1245004	20	3.0	20	92	0	86	24	21	27	26	1.99
1245042--1245094	21	2.5	22	81	6	74	33	18	26	20	1.96
1250909--1250963	21	2.6	21	79	0	65	23	23	14	38	1.92
1250951--1251003	20	2.7	20	93	0	97	33	20	20	24	1.97
1251183--1251240	18	2.8	22	75	20	79	29	36	13	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251590--1251654	20	3.2	20	84	0	76	16	18	21	43	1.88
1251576--1251665	20	4.6	20	81	1	74	17	17	20	44	1.87
1253554--1253637	20	4.5	20	71	17	63	36	20	21	21	1.95
1253684--1253857	20	9.4	20	76	16	142	17	18	21	42	1.89
1253744--1253825	33	2.5	33	79	2	92	13	17	21	47	1.81
1254343--1254384	21	2.2	19	87	12	59	21	35	19	23	1.96
1254369--1254429	21	2.9	22	78	7	63	24	39	14	21	1.91
1254368--1254459	42	2.2	42	80	3	96	25	34	16	23	1.95
1255799--1255834	14	2.6	14	90	0	54	30	0	22	47	1.52
1256007--1256101	20	4.7	20	87	5	138	18	21	25	34	1.96
1256007--1256101	40	2.3	41	90	1	156	18	21	25	34	1.96
1256423--1256509	20	4.3	20	79	5	104	21	20	19	37	1.94
1256423--1256509	41	2.2	40	89	2	129	21	20	19	37	1.94
1256506--1256551	21	2.2	21	88	0	65	36	17	28	17	1.92
1257711--1257755	21	2.1	21	95	0	81	35	17	20	26	1.95
1261553--1261614	30	2.0	31	84	3	81	16	20	24	38	1.92
1262185--1262231	10	4.8	10	84	5	60	2	6	27	63	1.30
1269925--1270003	29	2.8	29	86	1	106	44	5	2	48	1.38
1270107--1270203	28	3.4	29	75	5	81	44	6	5	44	1.51
1270134--1270203	29	2.4	28	81	9	77	47	4	2	45	1.37
1270478--1270534	27	2.1	27	87	6	80	68	1	1	28	1.09
1270495--1270535	3	13.7	3	85	10	57	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1276954--1277017	27	2.4	28	84	5	78	42	1	1	54	1.19
1279175--1279203	15	1.9	15	100	0	58	24	20	0	55	1.44
1287188--1287250	31	2.0	31	96	0	117	26	30	9	33	1.88
1293765--1293792	2	14.0	2	100	0	56	50	0	0	50	1.00
1293926--1294042	61	1.9	61	82	3	146	29	6	18	45	1.75
1295859--1295896	6	6.3	6	93	0	67	0	18	34	47	1.49
1302472--1302594	31	4.1	30	78	7	106	51	4	2	42	1.34
1303499--1303583	27	3.2	25	76	16	82	74	3	3	18	1.11
1303880--1303906	2	13.5	2	100	0	54	51	0	0	48	1.00
1304126--1304166	11	3.6	11	87	6	55	65	4	4	24	1.32

Tables:   1   2   3   4   5   6   7   8