genome.fa.s8943.2.7.7.80.10.50.1000.4.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: VEPZ01008943.1 Hibiscus syriacus cultivar Beakdansim tig00112264_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1742779

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 553 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)
1065184--1065221	20	1.9	20	88	0	58	26	34	26	13	1.93
1065206--1065266	21	2.8	21	85	5	68	24	37	22	14	1.92
1067211--1067275	33	2.0	31	82	11	78	20	1	24	53	1.54
1078822--1078938	49	2.4	51	76	11	118	28	19	6	45	1.76
1078998--1079531	81	6.6	80	81	3	572	28	23	11	37	1.89
1078990--1079527	243	2.2	243	84	5	699	28	23	11	37	1.89
1079500--1079671	68	2.5	68	84	1	229	27	22	16	33	1.95
1081642--1081674	11	3.1	11	82	8	50	27	27	30	15	1.96
1088839--1088882	6	7.2	6	82	12	54	79	2	18	0	0.83
1099106--1099144	13	2.8	13	88	7	51	35	7	30	25	1.84
1136648--1137610	478	2.0	481	87	3	1400	38	8	18	34	1.81
1139420--1139451	14	2.3	14	94	0	55	21	18	18	40	1.91
1140981--1141076	38	2.5	38	86	0	138	22	26	23	27	2.00
1141225--1141336	46	2.5	46	91	4	176	33	19	6	41	1.77
1142692--1142747	20	2.8	20	100	0	112	28	10	12	48	1.74
1170683--1170937	126	2.0	126	100	0	510	42	5	18	32	1.74
1173708--1173933	123	1.8	124	87	4	341	35	7	19	37	1.81
1174476--1174511	17	2.1	17	94	0	63	16	19	25	38	1.92
1179069--1179104	17	2.1	17	94	0	63	16	19	25	38	1.92
1181756--1181796	17	2.4	17	83	4	55	19	17	24	39	1.92
1194572--1194611	17	2.3	18	91	4	64	17	22	25	35	1.95
1197187--1197278	28	3.3	28	100	0	184	40	15	9	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1197274--1197306	14	2.4	14	100	0	66	51	0	18	30	1.46
1198644--1198678	17	2.1	16	89	5	52	54	5	11	28	1.59
1199639--1201242	839	1.9	844	86	3	2289	38	7	17	36	1.78
1206476--1206539	31	2.1	30	83	13	78	39	7	14	39	1.74
1209928--1210032	37	2.8	37	85	0	138	39	14	14	32	1.86
1210599--1210695	3	33.7	3	70	22	50	28	5	1	64	1.21
1210593--1210695	25	4.1	25	69	21	72	29	4	0	65	1.20
1210719--1210757	12	3.6	11	87	12	55	23	5	5	66	1.32
1210650--1210758	9	11.0	9	73	20	53	22	5	2	68	1.23
1211234--1211305	34	2.3	31	83	11	85	30	4	2	62	1.28
1211299--1211386	26	3.3	26	72	23	69	17	5	2	75	1.11
1211967--1212467	250	2.0	250	98	1	977	24	20	22	32	1.97
1216195--1216236	16	2.7	15	80	16	50	80	4	11	2	0.95
1217814--1219492	106	16.0	106	88	2	2324	34	24	17	23	1.96
1217814--1219492	317	5.3	317	87	3	2317	34	24	17	23	1.96
1218415--1218575	43	3.6	42	69	21	119	36	23	17	22	1.95
1220223--1220327	37	2.8	37	86	0	147	39	14	15	31	1.87
1220854--1221032	17	10.6	16	66	19	64	21	7	2	68	1.27
1221167--1221202	19	1.9	18	88	5	54	25	5	0	69	1.10
1221568--1221632	30	2.1	31	83	8	80	13	4	3	78	1.03
1221798--1221838	13	3.2	13	96	0	73	36	19	0	43	1.51
1227760--1227801	13	3.2	13	89	0	57	38	19	16	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227765--1227802	13	2.9	13	92	0	58	36	21	15	26	1.93
1228162--1228206	23	2.0	23	82	8	56	60	4	4	31	1.37
1236487--1236530	21	2.0	21	83	12	54	31	0	18	50	1.47
1248442--1248589	65	2.3	65	86	2	199	32	17	20	29	1.96
1249257--1249297	18	2.1	21	86	13	61	53	26	0	19	1.45
1287595--1287681	10	9.1	9	73	12	57	18	24	26	31	1.98
1287594--1287667	29	2.6	29	86	6	105	18	25	25	29	1.98
1287594--1287681	19	4.6	19	74	13	65	19	23	26	30	1.98
1287595--1287678	29	2.9	29	85	3	89	17	25	26	30	1.97
1287691--1287737	17	2.6	18	86	6	60	17	42	23	17	1.88
1287703--1287730	12	2.3	12	100	0	56	17	42	25	14	1.87
1294811--1294884	9	7.8	9	76	16	60	17	25	27	29	1.97
1294811--1294877	10	6.9	10	75	11	50	17	25	25	31	1.97
1294811--1294884	29	2.5	30	82	14	109	17	25	27	29	1.97
1294811--1294899	19	4.6	19	75	17	69	17	24	26	30	1.98
1294911--1294960	12	4.3	12	85	10	77	18	46	24	12	1.82
1294906--1294953	22	2.2	22	100	0	96	18	50	22	8	1.74
1311797--1311854	13	4.3	13	77	18	57	27	3	3	65	1.25
1313661--1314446	396	2.0	398	97	0	1486	34	15	17	32	1.91
1330989--1331017	6	4.8	6	100	0	58	17	17	34	31	1.93
1330989--1331025	18	2.1	18	89	0	56	18	18	32	29	1.96
1332127--1332202	18	4.4	17	77	15	75	69	1	18	10	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332140--1332202	17	3.7	16	76	21	65	69	0	19	11	1.17
1336152--1336261	47	2.4	46	84	4	134	40	9	20	30	1.83
1336722--1336774	22	2.4	22	100	0	106	16	35	20	26	1.94
1339112--1339237	47	2.8	45	89	5	191	30	23	7	38	1.83
1339346--1339474	59	2.2	59	88	0	186	28	25	17	27	1.98
1341747--1341781	6	5.7	6	86	6	52	0	28	2	68	1.04
1342334--1342511	60	3.0	60	81	3	205	29	21	6	41	1.79
1342502--1342528	11	2.5	11	100	0	54	37	22	0	40	1.54
1351475--1351565	40	2.3	41	81	12	109	31	3	3	61	1.28
1351719--1351764	12	3.5	13	78	18	51	17	2	2	78	0.96
1355696--1356049	183	1.9	183	94	0	627	28	22	19	30	1.98
1357175--1357317	72	1.9	75	88	5	220	29	19	11	39	1.86
1357444--1357529	37	2.4	37	86	2	111	25	20	15	38	1.92
1357398--1357595	102	1.9	102	94	0	351	30	18	14	36	1.90
1357480--1357650	65	2.6	65	82	2	200	28	21	11	39	1.88
1357398--1357758	167	2.2	167	85	1	463	29	18	13	38	1.89
1357346--1357864	269	1.9	269	94	0	914	29	19	13	37	1.90
1357545--1357931	102	3.8	101	83	3	409	29	19	12	38	1.88
1357559--1357927	204	1.8	204	81	2	463	29	18	12	38	1.88
1357814--1357896	36	2.3	36	85	0	103	25	20	14	39	1.90
1357995--1358063	36	1.9	36	90	0	111	23	20	14	42	1.89
1359320--1359404	43	2.0	43	82	8	104	29	5	0	64	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1359308--1359404	39	2.4	39	81	8	97	28	5	0	65	1.13
1359521--1359582	29	2.1	30	82	8	74	11	8	3	77	1.09
1364843--1364901	29	2.0	31	90	6	95	35	5	16	42	1.71
1364971--1365031	19	3.2	19	90	0	86	40	9	13	36	1.77
1365141--1365182	21	2.0	21	95	0	75	23	21	28	26	1.99
1366191--1366253	3	21.7	3	84	12	87	33	0	0	66	0.92
1368993--1369069	32	2.4	32	97	0	145	28	37	11	22	1.89
1369579--1369615	15	2.5	15	95	0	65	5	16	70	8	1.30
1371087--1371135	20	2.5	20	96	0	89	30	10	26	32	1.89
1372510--1372556	18	2.6	17	81	15	51	21	4	0	74	0.99
1384455--1384502	13	3.8	13	76	15	55	29	2	43	25	1.66
1384457--1384525	25	2.8	25	82	4	88	30	2	42	24	1.69
1388058--1388100	19	2.3	19	88	8	61	2	16	2	79	0.95
1388468--1388585	36	3.3	35	85	2	155	32	0	36	30	1.64
1396414--1396460	16	2.9	15	87	12	67	89	8	2	0	0.57
1396415--1396463	15	3.5	14	80	8	64	89	8	2	0	0.55
1396414--1396463	21	2.3	21	90	10	75	90	8	2	0	0.54
1396414--1396463	1	50.0	1	81	0	55	90	8	2	0	0.54
1403919--1403944	8	3.2	8	100	0	52	50	11	0	38	1.39
1411287--1411374	32	2.8	31	74	6	79	27	17	13	42	1.86
1413023--1413047	9	2.8	9	100	0	50	20	12	44	24	1.85
1428313--1428392	23	3.5	23	77	8	92	27	21	23	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1433729--1433776	21	2.3	21	96	0	87	22	18	33	25	1.97
1433843--1433949	45	2.3	46	85	4	137	30	18	22	28	1.97
1458385--1458429	24	2.0	24	86	8	67	55	11	15	17	1.68
1458428--1458456	14	2.0	15	93	6	51	75	0	24	0	0.80
1460780--1460859	35	2.2	37	91	4	128	31	37	3	27	1.74
1461419--1461506	43	2.0	44	97	2	169	34	9	22	34	1.86
1464670--1464749	35	2.2	37	88	4	119	31	36	3	28	1.75
1465121--1465158	19	1.9	20	89	10	60	60	0	26	13	1.33
1470446--1470545	45	2.3	46	81	14	115	31	1	14	54	1.47
1471303--1471358	19	3.0	18	79	20	62	80	10	8	0	0.91

Tables:   1   2   3   4   5