genome.fa.s8097.2.7.7.80.10.50.1000.5.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: VEPZ01008097.1 Hibiscus syriacus cultivar Beakdansim tig00110621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3094402

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  5  of  12  ( 1389 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)
1123638--1123678	22	1.9	21	85	5	55	0	31	2	65	1.05
1123932--1124045	50	2.4	48	80	13	139	49	8	0	41	1.40
1124005--1124067	28	2.2	30	94	5	112	57	12	0	30	1.36
1124009--1124074	28	2.4	28	87	10	107	56	12	0	31	1.36
1124044--1124092	21	2.3	21	85	3	71	53	16	0	30	1.43
1124342--1124390	21	2.2	23	85	7	66	42	10	14	32	1.79
1124486--1124586	25	4.0	25	97	0	184	28	19	34	16	1.94
1124700--1124763	29	2.2	29	97	0	119	9	35	29	25	1.87
1130117--1130239	51	2.4	51	88	0	174	29	25	17	28	1.97
1130148--1130261	51	2.2	50	84	6	140	32	26	14	27	1.94
1138914--1139077	51	3.2	51	81	5	145	28	20	23	28	1.99
1140567--1140614	22	2.2	22	92	0	78	45	8	14	31	1.74
1146667--1146768	43	2.4	43	79	0	105	21	28	12	37	1.90
1148612--1148670	30	2.0	30	83	6	75	33	8	13	44	1.74
1153873--1153947	31	2.4	31	95	0	141	36	6	33	24	1.81
1159750--1159797	17	2.8	17	75	12	53	43	0	0	56	0.99
1162026--1162251	117	1.9	117	93	0	389	25	23	22	29	1.99
1168776--1168801	2	13.0	2	100	0	52	50	0	0	50	1.00
1174858--1174948	33	2.8	33	88	3	139	46	25	9	18	1.80
1178529--1178568	21	1.9	21	85	10	55	12	10	37	40	1.77
1185506--1185628	59	2.1	59	80	3	131	34	15	4	46	1.65
1185516--1185628	60	1.9	59	83	1	145	34	14	4	46	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1190922--1190964	20	2.2	20	86	0	59	37	20	11	30	1.89
1195927--1195979	27	2.0	27	88	0	79	24	22	20	32	1.98
1196210--1196252	20	2.2	20	86	0	59	37	20	11	30	1.89
1199496--1199760	66	4.0	66	90	0	422	31	18	24	26	1.97
1210605--1211050	223	2.0	223	97	1	842	40	12	15	31	1.84
1214122--1214153	15	2.0	17	88	11	50	50	3	0	46	1.17
1219204--1219243	2	20.5	2	94	5	73	50	0	0	50	1.00
1219316--1219355	21	2.0	21	85	5	55	40	5	22	32	1.76
1222944--1222975	3	10.7	3	100	0	64	68	0	0	31	0.90
1225050--1225095	3	15.3	3	100	0	92	0	32	0	67	0.91
1225464--1225502	6	6.5	6	90	0	51	28	2	20	48	1.62
1235724--1235764	3	13.3	3	89	5	64	36	0	0	63	0.95
1238304--1238339	18	1.9	19	88	5	56	66	0	0	33	0.92
1240614--1240679	9	7.1	9	79	19	73	46	0	0	53	1.00
1245140--1245186	23	2.1	22	88	4	67	29	6	25	38	1.81
1246665--1246822	21	7.8	20	70	7	77	37	25	17	18	1.93
1246790--1246983	20	9.6	20	85	3	219	37	26	18	18	1.93
1246790--1246982	60	3.2	60	83	3	244	36	26	18	18	1.94
1247361--1247431	33	2.2	33	94	0	124	11	23	16	47	1.79
1247511--1247606	21	4.8	20	82	6	122	45	17	23	12	1.83
1247509--1247605	41	2.4	40	87	1	140	46	17	24	11	1.81
1247655--1247719	21	3.1	21	82	4	96	10	26	15	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1247654--1247717	20	3.2	20	82	4	92	12	25	15	46	1.81
1249407--1250059	93	7.1	93	98	0	1258	22	13	18	45	1.83
1250104--1250231	19	7.3	19	75	19	125	47	28	15	8	1.75
1250139--1250231	32	2.8	32	87	7	125	49	26	16	7	1.72
1250227--1250399	19	9.6	19	77	12	168	10	19	23	46	1.81
1250249--1250305	14	3.7	14	77	20	60	10	21	22	45	1.82
1250227--1250399	33	4.8	38	82	5	168	10	19	23	46	1.81
1252322--1252357	14	2.6	14	95	0	63	33	0	22	44	1.53
1252447--1252564	19	6.8	19	73	23	118	47	16	22	13	1.81
1252454--1252544	31	2.8	32	93	3	157	47	17	21	13	1.82
1252617--1252671	14	3.6	14	73	21	56	10	23	20	45	1.82
1252597--1252809	33	6.2	33	75	16	193	13	22	18	46	1.83
1252631--1252795	53	3.2	53	94	3	282	13	21	18	46	1.84
1252579--1252809	86	2.7	90	88	8	331	13	22	18	46	1.83
1252631--1252824	53	3.7	52	88	5	166	13	21	19	46	1.83
1253494--1253518	12	2.1	12	100	0	50	0	28	0	72	0.86
1253693--1253738	24	1.9	24	86	8	67	36	21	15	26	1.93
1254432--1254660	20	11.4	20	87	1	244	20	17	25	36	1.94
1256346--1256388	19	2.2	20	80	12	54	51	0	11	37	1.39
1270624--1270652	14	2.1	14	100	0	58	34	27	6	31	1.83
1276057--1276108	25	2.1	25	85	7	70	48	7	1	42	1.43
1278595--1278634	19	2.2	18	86	4	53	40	2	10	47	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1280033--1280133	50	2.0	50	100	0	202	37	15	17	28	1.91
1287626--1287666	16	2.4	18	80	15	52	51	4	0	43	1.23
1288839--1288890	15	3.5	15	86	0	68	7	63	17	11	1.50
1289837--1289964	59	2.2	59	83	8	154	35	7	3	53	1.45
1291000--1291031	7	4.6	7	96	0	55	18	0	34	46	1.49
1291000--1291054	14	3.9	14	74	9	58	23	0	32	43	1.54
1295223--1295264	15	2.9	15	96	3	77	57	0	0	42	0.99
1295308--1295350	22	2.0	22	95	0	77	37	0	11	51	1.39
1297423--1297484	21	3.0	22	81	9	67	61	1	1	35	1.16
1297690--1297731	18	2.3	19	91	4	68	61	9	4	23	1.45
1298085--1298133	19	2.6	18	78	9	53	71	8	4	16	1.26
1298090--1298133	19	2.3	19	88	7	63	70	9	4	15	1.30
1298144--1298196	27	2.0	25	86	13	72	33	3	0	62	1.13
1298987--1299024	20	1.9	20	100	0	76	36	10	28	23	1.88
1299272--1299584	154	2.0	156	93	4	537	40	4	10	45	1.58
1303693--1303733	8	5.2	8	82	5	57	34	0	29	36	1.58
1303806--1304289	128	3.8	126	97	1	893	23	25	19	32	1.98
1304658--1304755	33	3.0	34	82	7	121	39	3	4	53	1.36
1305274--1305353	41	1.9	42	85	7	110	22	21	37	18	1.94
1305268--1305357	21	4.3	21	86	8	105	22	24	34	18	1.96
1306909--1306962	17	3.2	17	78	0	63	66	1	0	31	1.02
1307129--1307201	15	4.8	15	70	20	53	65	5	0	28	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1307132--1307185	17	3.4	16	72	23	51	64	3	0	31	1.11
1307133--1307204	33	2.2	32	83	11	94	66	5	0	27	1.13
1311722--1311747	13	2.0	13	100	0	52	30	15	23	30	1.95
1311829--1311955	6	21.2	6	100	0	254	33	49	16	0	1.46
1311952--1311988	5	7.6	5	96	3	67	37	21	40	0	1.54
1312470--1312535	6	11.5	6	98	1	111	0	16	53	30	1.44
1312532--1312556	6	4.2	6	100	0	50	32	0	32	36	1.58
1312633--1312702	19	3.5	19	74	11	77	40	21	20	18	1.92
1312630--1312722	41	2.3	41	96	1	170	37	22	19	20	1.94
1312690--1312811	41	3.0	41	93	4	194	39	23	18	18	1.92
1312714--1312786	20	3.6	20	77	3	92	41	24	19	15	1.89
1312711--1312815	21	5.1	21	73	3	106	39	25	17	18	1.92
1317197--1317364	31	5.4	31	97	0	309	27	13	16	43	1.84
1318406--1318469	19	3.2	20	72	14	53	43	1	1	53	1.19
1318415--1318464	20	2.5	20	78	12	59	40	2	2	56	1.22
1318382--1318468	31	2.8	30	79	10	95	41	1	3	54	1.25
1318651--1318737	31	2.8	30	81	10	95	54	3	1	41	1.25
1330362--1330397	14	2.6	14	100	0	72	47	30	16	5	1.70
1331775--1331800	13	2.0	13	100	0	52	53	0	0	46	1.00
1332189--1332213	10	2.5	10	100	0	50	12	8	0	80	0.92
1334644--1334729	23	3.7	23	74	14	79	27	25	25	20	1.99
1346284--1347091	105	7.7	105	93	1	1237	33	24	19	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1346283--1347091	316	2.6	315	93	1	1352	33	24	19	23	1.97
1346283--1347091	421	1.9	421	92	1	1354	33	24	19	23	1.97
1349310--1349400	4	23.0	4	69	14	55	21	7	3	67	1.31
1366464--1366507	2	22.0	2	100	0	88	50	0	0	50	1.00
1367068--1367105	3	12.3	3	94	5	67	63	2	0	34	1.09
1367653--1367704	24	2.2	24	100	0	104	28	15	30	25	1.96
1370894--1370949	15	3.7	15	71	15	53	41	7	1	50	1.40
1376583--1376655	32	2.2	32	95	2	128	12	10	23	53	1.69
1379865--1379944	40	2.1	39	83	9	101	36	12	17	33	1.87
1379951--1380006	24	2.3	24	84	6	69	8	16	28	46	1.77

Tables:   1   2   3   4   5   6   7   8   9   10   11   12