genome.fa.s8005.2.7.7.80.10.50.1000.5.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: VEPZ01008005.1 Hibiscus syriacus cultivar Beakdansim tig00110467_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1778185

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 727 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)
1256530--1256557	2	14.0	2	100	0	56	50	0	0	50	1.00
1258666--1258825	15	10.5	15	79	11	91	0	44	0	55	1.04
1258666--1258843	30	5.8	31	70	13	102	0	43	1	54	1.10
1258703--1258824	48	2.6	47	78	6	122	0	45	0	54	1.05
1258752--1258840	15	5.7	15	82	10	90	0	35	3	60	1.13
1258752--1258836	33	2.7	32	82	8	102	0	36	3	60	1.14
1261635--1261721	37	2.4	38	96	3	153	22	0	14	62	1.32
1261640--1261703	20	3.3	20	64	27	57	21	0	10	67	1.21
1263283--1263314	2	16.0	2	100	0	64	50	0	0	50	1.00
1264152--1264403	11	22.0	11	67	15	100	76	1	5	16	1.03
1264150--1264268	45	2.6	45	80	13	129	77	0	5	17	0.95
1264182--1264403	4	56.0	4	69	22	62	76	1	5	16	1.04
1264185--1264399	73	2.8	77	76	16	200	76	1	5	16	1.04
1264266--1264352	28	3.3	27	80	13	83	74	3	2	19	1.07
1264160--1264423	29	9.4	27	71	15	112	75	1	6	17	1.06
1264343--1264405	31	2.0	31	84	6	83	79	0	11	9	0.94
1264186--1264300	27	4.4	25	75	12	81	79	0	4	15	0.94
1264846--1264915	12	5.7	12	81	8	61	71	1	5	21	1.15
1265380--1265458	39	2.0	41	80	16	94	18	3	6	70	1.24
1265833--1265901	33	2.0	35	81	10	81	24	4	5	65	1.33
1266050--1266097	19	2.3	22	86	10	66	25	8	2	64	1.32
1266050--1266098	20	2.4	19	80	12	53	26	8	2	63	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266119--1266152	11	3.0	12	87	12	54	8	5	0	85	0.75
1266207--1266332	23	5.9	21	74	16	82	15	3	3	76	1.05
1266230--1266431	5	41.4	5	69	21	69	15	5	1	77	1.04
1266213--1266289	34	2.2	36	81	9	97	16	3	3	75	1.11
1266208--1266372	56	2.9	54	76	15	147	16	4	3	75	1.10
1266230--1266432	9	23.5	8	69	21	94	15	5	1	76	1.05
1266282--1266431	33	4.9	32	74	17	92	14	6	1	78	1.02
1266302--1266431	50	2.6	51	78	17	155	15	7	0	76	0.99
1266127--1266407	11	24.5	11	68	20	91	16	6	2	74	1.14
1266230--1266431	14	13.9	13	70	18	100	15	5	1	77	1.04
1266380--1266429	22	2.3	23	79	10	59	14	8	0	78	0.97
1277222--1277289	21	3.2	21	72	15	68	51	1	0	47	1.09
1277222--1277323	42	2.6	41	83	10	115	48	1	1	48	1.24
1277222--1277308	42	2.1	42	91	0	138	50	2	1	45	1.21
1277355--1277386	14	2.3	14	94	0	55	43	0	6	50	1.27
1279269--1279420	39	4.1	39	76	17	162	41	4	7	46	1.52
1279481--1279505	5	5.0	5	100	0	50	20	0	0	80	0.72
1295451--1295504	19	2.9	19	72	10	58	5	12	31	50	1.64
1298103--1298192	38	2.4	38	78	14	96	56	10	1	32	1.40
1302001--1302208	91	2.3	91	90	0	326	36	10	15	38	1.81
1312602--1312671	22	3.1	22	75	15	72	30	7	4	58	1.44
1313998--1314046	25	2.0	24	84	4	62	34	0	2	63	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316935--1317008	38	1.9	38	83	5	96	47	9	2	40	1.50
1322252--1322296	23	2.0	23	86	0	63	37	8	15	37	1.79
1322398--1322457	23	2.6	23	86	0	84	40	10	18	31	1.84
1322218--1322751	158	3.4	158	91	0	834	41	12	12	33	1.80
1322815--1323064	75	3.4	75	89	4	377	39	15	12	32	1.85
1323144--1323569	112	3.8	112	91	1	665	44	12	11	31	1.78
1323538--1323588	20	2.5	20	93	0	84	43	15	9	31	1.80
1323424--1323700	134	2.1	134	92	0	455	43	11	11	32	1.77
1341650--1341718	21	3.3	21	87	0	93	20	17	52	10	1.73
1346988--1347057	35	2.0	36	85	2	97	38	10	2	48	1.51
1352486--1352545	23	2.6	23	97	0	111	23	31	26	18	1.97
1353126--1353158	13	2.8	12	90	9	50	0	18	0	81	0.68
1353124--1353158	17	2.2	15	90	10	52	0	20	0	80	0.72
1353162--1353311	66	2.3	66	95	1	264	16	26	28	28	1.96
1360018--1360055	20	1.9	20	88	0	58	10	31	34	23	1.89
1360019--1360167	66	2.3	66	96	0	271	16	26	28	28	1.97
1369743--1369876	40	3.0	44	78	14	150	27	29	21	20	1.98
1369767--1369851	40	2.1	40	93	0	152	27	28	21	23	1.99
1389754--1389794	18	2.3	18	91	4	66	63	2	4	29	1.28
1391679--1391714	18	2.0	18	88	0	54	30	2	5	61	1.33
1392138--1392169	13	2.4	14	94	5	57	15	12	0	71	1.14
1394665--1394873	78	2.7	77	81	4	233	33	16	13	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1395022--1395050	15	1.9	15	100	0	58	44	6	0	48	1.29
1395843--1395890	25	1.9	26	84	16	66	52	0	2	45	1.12
1396479--1396513	18	1.9	18	88	0	52	71	8	2	17	1.23
1401744--1401888	61	2.4	61	85	2	202	27	22	12	37	1.90
1417898--1417960	7	9.4	7	83	11	71	85	3	11	0	0.70
1417906--1417956	13	3.8	13	82	10	57	88	3	7	0	0.63
1417898--1417967	19	3.7	19	83	5	81	84	4	11	0	0.76
1417891--1417967	33	2.3	34	86	4	111	81	5	12	0	0.84
1417925--1417981	26	2.1	27	80	3	62	82	7	8	1	0.91
1418588--1418638	22	2.3	22	96	0	93	35	27	11	25	1.91
1419576--1419855	37	8.0	37	65	21	147	29	19	12	38	1.89
1419514--1419929	102	4.0	103	92	0	647	29	19	12	37	1.89
1420052--1420140	34	2.6	34	85	5	126	44	15	8	30	1.77
1433403--1433436	15	2.3	15	90	5	52	41	5	2	50	1.42
1447454--1447502	20	2.5	20	86	3	64	38	10	24	26	1.87
1447449--1447511	20	3.2	20	80	4	58	39	7	26	25	1.83
1451746--1451784	19	2.0	21	85	14	57	33	0	0	66	0.92
1451900--1451936	19	1.9	19	100	0	74	32	0	8	59	1.27
1458709--1458793	34	2.5	34	74	9	86	62	3	1	32	1.20
1466462--1466509	23	2.1	23	88	0	69	35	12	18	33	1.89
1466549--1467191	335	1.9	335	96	1	1200	38	10	7	42	1.68
1467190--1467255	25	2.6	25	80	0	87	42	13	9	34	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1468871--1469945	183	5.9	183	95	0	1898	34	15	14	35	1.88
1471367--1471420	3	18.0	3	84	0	72	25	33	3	37	1.74
1471367--1471424	12	4.8	12	93	0	80	25	32	5	36	1.78
1471367--1471435	18	3.8	18	86	0	75	23	33	5	37	1.79
1471380--1471432	12	4.4	12	92	0	70	22	33	7	35	1.83
1473189--1473226	15	2.5	15	80	16	51	18	10	23	47	1.79
1472889--1474258	199	6.9	199	97	0	2589	31	16	15	36	1.90
1474377--1474425	19	2.6	19	93	0	80	57	10	2	30	1.43
1476221--1476286	33	2.0	33	87	0	96	24	48	0	27	1.51
1476320--1476384	21	3.1	21	80	6	69	15	29	15	40	1.88
1478607--1478649	20	2.3	18	85	14	61	20	16	11	51	1.75
1478612--1478658	20	2.4	19	82	10	67	19	17	10	53	1.72
1478780--1478825	20	2.3	20	89	10	76	17	17	10	54	1.70
1478899--1478937	20	1.9	20	84	5	51	25	5	10	58	1.51
1480381--1480433	25	2.2	25	86	6	74	54	0	1	43	1.11
1483847--1483989	6	23.8	6	100	0	286	33	0	16	50	1.45
1488368--1488459	46	2.0	46	95	0	166	15	15	19	50	1.79
1495200--1495230	14	2.2	14	94	0	53	67	9	6	16	1.39
1495835--1495872	14	2.7	15	88	8	53	44	0	0	55	0.99
1504360--1504860	51	9.6	54	90	3	336	28	25	15	30	1.96
1504465--1504874	51	8.0	51	94	1	667	27	27	15	29	1.96
1506187--1506221	14	2.5	14	90	0	52	8	11	0	80	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1506253--1506292	17	2.3	17	86	4	53	7	20	2	70	1.24
1506253--1506313	18	3.4	17	86	6	59	6	19	1	72	1.16
1506266--1506316	17	2.8	18	91	5	77	5	19	0	74	1.02
1515955--1516093	45	2.9	46	81	13	174	39	21	10	28	1.87
1515955--1516095	52	2.9	49	84	12	166	40	21	10	27	1.86
1521387--1521430	3	14.0	3	86	9	52	61	0	0	38	0.96
1521384--1521419	10	3.7	10	92	7	56	63	0	0	36	0.94
1521377--1521418	16	2.4	17	80	15	50	61	0	2	35	1.09
1521387--1521430	16	2.8	16	89	0	61	61	0	0	38	0.96
1521387--1521430	19	2.3	19	88	0	61	61	0	0	38	0.96

Tables:   1   2   3   4   5   6   7