genome.fa.s417.2.7.7.80.10.50.1000.6.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: VEPZ01000417.1 Hibiscus syriacus cultivar Beakdansim tig00000764_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2005044

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1058 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)
1104834--1104911	33	2.4	31	85	10	95	60	1	0	38	1.05
1104839--1104944	34	3.1	33	79	14	85	61	3	0	34	1.14
1111871--1111926	15	3.6	15	76	9	58	42	10	12	33	1.77
1111874--1111907	17	2.0	17	94	0	59	38	11	11	38	1.79
1112322--1112376	13	4.2	13	75	13	58	49	12	3	34	1.59
1112362--1112460	33	3.0	33	94	1	164	45	15	7	32	1.73
1112455--1112494	21	1.9	21	94	0	71	47	7	15	30	1.72
1114784--1114830	12	3.7	12	81	15	58	17	19	17	46	1.84
1114783--1114822	15	2.9	14	85	14	57	20	17	15	47	1.83
1120707--1120788	29	2.8	29	92	1	128	31	12	13	42	1.81
1121177--1121210	13	2.6	13	100	0	68	23	26	26	23	2.00
1125464--1125545	29	2.8	29	94	1	137	31	13	13	41	1.83
1131323--1131361	13	2.7	14	84	15	53	25	15	25	33	1.95
1131731--1131761	14	2.2	14	94	0	53	54	12	9	22	1.67
1143836--1144215	177	2.1	176	87	6	532	44	7	3	43	1.51
1144172--1144231	26	2.3	25	77	8	66	48	1	1	48	1.21
1144755--1144818	31	2.1	31	90	0	101	23	28	14	34	1.93
1148046--1148097	26	2.0	27	92	3	88	38	15	11	34	1.83
1148047--1148103	26	2.2	26	87	3	78	42	12	10	35	1.77
1147978--1148202	94	2.4	96	93	2	393	40	15	8	36	1.78
1148423--1148508	25	3.2	25	68	15	73	38	9	13	38	1.78
1148396--1148483	30	3.1	30	67	17	89	40	6	18	34	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148384--1148538	55	2.9	55	91	4	239	41	7	14	35	1.75
1153689--1153733	21	2.1	21	91	0	72	46	6	13	33	1.69
1155058--1155133	32	2.4	32	81	0	80	31	28	22	17	1.96
1157704--1157751	23	2.1	23	84	0	60	37	12	16	33	1.86
1158227--1158299	23	3.2	22	84	9	92	38	20	4	36	1.72
1158236--1158300	23	2.8	23	92	0	103	35	21	3	40	1.69
1158718--1158790	23	3.2	23	92	0	119	38	21	5	34	1.77
1159209--1159281	23	3.2	23	92	0	110	38	21	4	35	1.73
1159218--1159282	23	2.8	23	95	0	112	35	23	3	38	1.70
1159698--1159770	23	3.2	23	92	0	119	38	21	5	34	1.77
1157825--1160117	491	4.7	490	97	0	4301	40	10	7	41	1.69
1162508--1163693	183	6.5	183	95	0	2054	33	16	14	35	1.89
1164901--1164975	3	25.0	3	77	0	60	21	33	9	36	1.85
1164901--1164992	12	7.7	12	82	0	76	20	32	9	36	1.86
1164929--1164987	24	2.5	24	88	0	91	18	33	10	37	1.85
1164929--1164992	6	10.7	6	79	0	65	18	32	9	39	1.83
1166948--1167008	19	3.3	18	88	2	59	52	11	1	34	1.47
1166960--1167008	19	2.6	19	96	0	89	55	10	2	32	1.45
1168784--1168849	33	2.0	33	87	0	96	22	46	1	28	1.61
1168886--1168926	21	2.0	21	90	0	64	19	26	12	41	1.87
1171148--1171195	20	2.4	20	82	6	53	22	12	8	56	1.63
1171321--1171367	20	2.3	20	89	10	78	17	17	10	55	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171107--1171579	182	2.6	179	86	3	626	27	16	13	42	1.86
1172021--1172112	29	3.2	29	80	4	96	38	6	10	44	1.65
1176786--1176833	25	1.9	25	100	0	96	29	25	8	37	1.85
1182066--1182441	179	2.1	183	95	4	681	39	8	10	41	1.70
1182797--1182842	23	2.0	23	87	8	67	45	19	21	13	1.84
1192346--1192390	15	2.8	16	80	9	56	33	2	4	60	1.29
1193242--1193304	21	3.3	21	65	28	59	49	20	4	25	1.68
1193199--1193315	35	3.2	36	87	6	157	45	18	4	31	1.69
1203221--1203932	6	119.7	6	96	3	1262	17	0	32	50	1.47
1204716--1204741	11	2.4	11	100	0	52	30	0	0	69	0.89
1204833--1204863	15	2.1	15	93	0	53	32	9	6	51	1.60
1206318--1206362	21	2.1	21	87	0	63	31	28	24	15	1.96
1207721--1207748	14	2.0	14	100	0	56	28	7	28	35	1.84
1207849--1208153	149	2.1	149	96	0	567	27	16	20	35	1.94
1208131--1208173	22	2.0	22	90	0	68	23	27	23	25	2.00
1209934--1210032	30	3.3	30	91	1	155	30	26	22	21	1.99
1209934--1210057	30	4.1	30	83	6	135	31	26	21	20	1.98
1218079--1218233	78	2.0	78	81	3	179	37	10	15	36	1.82
1223802--1223849	21	2.3	20	76	16	53	35	6	10	47	1.63
1233372--1233459	41	2.2	41	91	2	142	26	39	14	19	1.90
1233876--1233956	28	3.0	28	78	7	78	65	3	0	30	1.10
1235724--1235776	15	3.6	15	84	5	81	47	7	13	32	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1235984--1236152	90	1.9	87	83	8	216	46	0	4	49	1.21
1236122--1236172	23	2.2	23	82	6	59	47	0	3	49	1.20
1236183--1236343	17	10.3	17	63	22	50	50	0	1	47	1.13
1236184--1236332	24	6.0	26	67	25	74	51	0	1	46	1.14
1236167--1236229	20	3.1	19	76	21	56	47	1	1	49	1.20
1236219--1236254	19	1.9	18	88	5	54	58	0	0	41	0.98
1236258--1236295	19	2.0	19	85	10	51	42	0	5	52	1.24
1236277--1236343	31	2.2	31	86	10	93	49	0	1	49	1.10
1236556--1236650	42	2.3	42	92	0	154	47	18	16	16	1.83
1237094--1237141	21	2.4	19	80	10	51	50	4	6	39	1.47
1238476--1238541	30	2.2	31	83	2	80	46	6	3	43	1.43
1238863--1238902	21	1.9	21	100	0	80	30	30	15	25	1.95
1239026--1239076	22	2.3	22	86	0	75	19	43	21	15	1.88
1239417--1239484	20	3.2	20	87	6	91	47	17	17	17	1.84
1239448--1239494	23	2.2	21	85	11	60	36	14	25	23	1.93
1241124--1241173	21	2.4	21	89	0	73	26	12	28	34	1.92
1241251--1241297	21	2.2	21	84	0	58	21	19	27	31	1.97
1241584--1241641	21	2.8	19	84	10	62	27	29	15	27	1.96
1241607--1241700	42	2.2	42	78	0	107	24	35	15	24	1.95
1241607--1241700	21	4.5	21	71	4	55	24	35	15	24	1.95
1243619--1243652	15	2.3	15	94	0	59	17	35	23	23	1.95
1245969--1246044	24	3.2	24	86	3	100	22	17	19	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245978--1246051	24	3.1	24	88	3	105	20	17	17	44	1.87
1249597--1249641	21	2.1	21	91	0	72	31	26	24	17	1.97
1250424--1250565	31	4.6	31	96	0	257	19	19	21	38	1.93
1251060--1251102	21	2.0	21	82	8	52	32	4	13	48	1.63
1252973--1253084	24	4.7	24	84	6	138	24	16	18	40	1.91
1252970--1253094	24	5.2	24	85	5	105	24	16	18	41	1.89
1254110--1254167	27	2.2	26	90	3	89	24	0	17	58	1.38
1254046--1254167	13	9.4	13	70	16	92	25	1	16	56	1.49
1254380--1254415	16	2.2	16	90	0	54	19	0	13	66	1.24
1254462--1254560	20	4.9	20	86	2	137	41	26	20	12	1.87
1254574--1254679	20	5.3	20	89	0	149	13	18	22	45	1.84
1254991--1255026	18	2.0	18	94	0	63	16	2	25	55	1.55
1257288--1257341	24	2.2	24	90	0	81	40	20	16	22	1.91
1258407--1258518	20	5.6	20	78	14	115	18	18	19	42	1.89
1258408--1258518	40	2.8	40	80	15	131	18	18	18	43	1.89
1258406--1258520	60	1.9	60	96	0	212	18	19	20	42	1.89
1258382--1258535	60	2.5	60	80	11	197	19	18	22	38	1.93
1269145--1269170	6	4.3	6	100	0	52	0	34	0	65	0.93
1269450--1269642	96	2.0	96	100	0	386	31	13	21	33	1.92
1274096--1274127	16	2.0	16	100	0	64	56	0	18	25	1.42
1292550--1292709	84	1.9	84	89	2	250	30	18	8	42	1.79
1293678--1293721	21	2.1	21	86	0	61	38	20	9	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1295915--1295960	22	2.1	22	83	0	56	36	2	19	41	1.64
1309495--1309917	216	2.0	216	96	3	789	36	20	21	21	1.95
1316121--1316168	24	2.0	23	84	15	62	50	2	2	45	1.25
1318133--1318550	208	2.0	208	97	2	786	39	20	15	24	1.91
1324768--1324796	14	2.1	14	100	0	58	34	20	0	44	1.52
1325140--1325186	22	2.1	22	84	7	60	25	0	10	63	1.26
1326442--1326470	14	2.1	14	100	0	58	34	13	0	51	1.42
1332540--1332643	24	4.3	24	73	9	95	20	16	16	47	1.83
1332540--1332643	48	2.2	48	84	3	129	20	16	16	47	1.83
1332554--1332648	24	4.0	24	79	5	102	22	13	16	47	1.82

Tables:   1   2   3   4   5   6   7   8   9