genome.fa.s7960.2.7.7.80.10.50.1000.7.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  7  of  39  ( 4646 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)
1196481--1196515	17	2.1	17	88	0	52	17	28	25	28	1.97
1198510--1198612	19	5.7	19	85	8	144	48	16	19	15	1.81
1198631--1198690	19	3.1	19	84	13	86	16	23	23	36	1.94
1198632--1198690	20	3.0	20	92	5	102	15	23	23	37	1.93
1201820--1201914	20	4.7	20	78	7	84	22	17	25	34	1.96
1201840--1201935	41	2.4	40	81	6	113	19	19	23	36	1.95
1201982--1202022	21	2.0	21	85	0	55	34	31	17	17	1.93
1204808--1204840	2	16.5	2	100	0	66	48	0	0	51	1.00
1205703--1205738	16	2.2	16	95	0	63	27	13	8	50	1.71
1212441--1212465	13	1.9	13	100	0	50	56	0	8	36	1.29
1212497--1212526	8	3.8	8	95	0	51	43	0	0	56	0.99
1213059--1213132	20	3.6	19	76	16	69	33	14	22	28	1.94
1213040--1213133	42	2.2	42	83	7	111	35	15	21	27	1.94
1213040--1213133	20	4.5	21	71	14	68	35	15	21	27	1.94
1222895--1223073	66	2.7	65	91	1	286	31	22	22	22	1.99
1230069--1230112	21	2.1	21	100	0	88	25	9	29	36	1.86
1230933--1231300	30	12.2	29	78	9	301	53	1	6	39	1.34
1234376--1234422	19	2.4	19	82	10	51	21	21	6	51	1.70
1235963--1236054	42	2.2	41	79	9	107	26	16	19	38	1.92
1236572--1236626	24	2.3	24	100	0	110	25	38	27	9	1.86
1240301--1240727	42	10.0	43	82	6	494	23	22	20	33	1.97
1240301--1240727	89	5.0	85	83	6	508	23	22	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1243785--1243874	3	30.0	3	77	4	83	36	2	1	60	1.17
1243832--1243888	28	2.0	28	86	6	80	43	0	0	56	0.99
1245046--1245085	21	1.9	21	85	10	55	30	7	0	62	1.23
1245299--1245345	25	1.9	25	86	4	69	53	2	0	44	1.12
1245233--1245676	157	2.8	158	80	10	499	39	7	6	45	1.59
1254783--1254882	22	4.5	22	87	1	128	36	11	12	41	1.78
1255519--1255642	45	2.8	45	91	0	203	29	20	19	30	1.97
1255664--1255912	45	5.5	45	89	0	372	24	23	20	32	1.98
1255844--1256043	76	2.7	76	87	1	269	26	21	20	32	1.97
1255933--1256209	116	2.4	116	93	1	466	29	21	22	27	1.99
1256139--1256197	21	2.8	21	72	15	59	35	25	22	16	1.95
1256468--1256580	3	38.0	3	81	5	77	40	1	0	56	1.16
1257767--1257806	21	1.9	21	85	10	55	30	7	0	62	1.23
1257954--1258354	157	2.5	157	83	7	488	39	8	7	44	1.62
1258376--1258407	2	16.0	2	100	0	64	50	0	0	50	1.00
1265226--1265478	84	3.0	86	81	2	298	32	16	25	25	1.97
1265522--1266123	53	11.2	53	82	2	486	41	17	9	31	1.82
1265693--1266144	55	8.3	55	80	4	346	41	15	9	32	1.81
1265536--1265994	214	2.1	214	88	2	679	40	17	10	32	1.83
1268135--1268246	17	6.9	16	76	17	106	0	16	0	82	0.78
1268133--1268245	10	10.9	10	77	8	102	0	16	0	81	0.79
1268122--1268246	32	3.9	32	75	17	109	0	16	1	81	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1268118--1268246	20	6.7	19	77	18	106	0	15	1	82	0.80
1268118--1268246	40	3.2	40	81	13	138	0	15	1	82	0.80
1268117--1268246	67	1.9	68	83	10	169	1	15	1	81	0.84
1268118--1268246	1	129.0	1	64	0	51	0	15	1	82	0.80
1270262--1270570	167	1.9	166	94	0	546	30	14	18	36	1.91
1273104--1273155	24	2.3	23	83	9	70	17	7	9	65	1.45
1273315--1273355	21	2.0	22	90	9	68	19	9	12	58	1.61
1279821--1280012	75	2.6	75	82	2	217	28	6	14	51	1.67
1281325--1281376	23	2.3	23	83	3	61	25	25	7	42	1.81
1281851--1281902	2	26.0	2	100	0	104	50	0	0	50	1.00
1283050--1283105	22	2.7	21	84	13	71	67	14	10	7	1.40
1293041--1293086	11	4.0	12	77	8	51	71	4	10	13	1.27
1293041--1293083	23	1.9	22	90	4	68	69	4	11	13	1.33
1296603--1296653	19	2.7	20	78	9	61	29	0	3	66	1.09
1296576--1296654	22	3.6	22	80	8	72	22	1	5	70	1.14
1298453--1298502	2	25.0	2	100	0	100	50	0	0	50	1.00
1298644--1298690	15	3.1	15	74	17	51	51	0	2	46	1.13
1305654--1305924	83	3.3	83	95	2	481	28	12	22	36	1.91
1308387--1308460	22	3.4	22	90	0	112	36	12	12	39	1.80
1308898--1309532	112	5.6	112	88	3	938	37	14	20	28	1.91
1308864--1309526	337	2.0	336	95	0	1182	37	14	20	27	1.91
1309856--1309899	21	2.0	23	91	8	74	25	0	4	70	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1311711--1311755	2	22.5	2	100	0	90	48	0	0	51	1.00
1311898--1311944	15	3.1	15	74	17	51	51	0	2	46	1.13
1313086--1313128	18	2.4	18	80	0	50	6	4	16	72	1.24
1313097--1313137	19	2.2	18	91	4	64	0	4	17	78	0.93
1313097--1313137	9	4.4	9	87	6	55	0	4	17	78	0.93
1313470--1313513	23	1.9	23	90	0	70	72	4	6	15	1.22
1313470--1313516	12	4.0	12	77	5	51	74	4	6	14	1.17
1315884--1315957	20	3.7	20	81	3	85	29	22	25	21	1.99
1315875--1315936	21	3.0	21	79	9	74	24	27	27	20	1.99
1315875--1315957	41	2.0	41	83	4	105	27	25	25	21	1.99
1315992--1316034	22	1.9	23	90	4	70	20	20	32	25	1.97
1315978--1316076	21	4.8	20	84	13	128	21	20	36	22	1.95
1316156--1316214	30	2.0	30	90	6	93	44	15	5	35	1.68
1317489--1317536	19	2.5	20	82	3	62	29	12	6	52	1.63
1318673--1318712	21	1.9	22	90	10	66	10	10	42	37	1.72
1319046--1319103	30	2.0	29	90	10	91	44	17	5	32	1.70
1319046--1319104	29	2.0	30	93	6	102	44	16	5	33	1.70
1323165--1323208	22	2.0	22	91	8	72	29	4	15	50	1.64
1327310--1327345	13	2.8	13	86	0	54	44	16	0	38	1.48
1327696--1327740	22	2.0	22	100	0	90	22	22	13	42	1.88
1327825--1327881	24	2.4	24	100	0	114	52	12	7	28	1.64
1336998--1337053	29	1.9	29	92	0	94	21	12	26	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1337036--1337070	17	2.1	17	100	0	70	20	11	17	51	1.75
1350606--1350667	32	1.9	32	86	0	88	40	24	14	20	1.90
1351646--1351671	2	13.0	2	100	0	52	50	0	0	50	1.00
1375811--1375851	20	2.0	20	85	0	55	36	19	9	34	1.85
1380941--1381002	3	20.7	3	83	6	81	35	0	1	62	1.05
1381211--1381265	22	2.5	22	91	2	85	67	7	0	25	1.16
1385295--1385336	20	2.0	21	86	4	59	64	0	2	33	1.07
1387748--1387816	21	3.3	21	82	9	88	18	30	23	27	1.98
1388334--1388406	34	2.1	34	92	0	119	53	5	4	36	1.43
1388615--1388780	23	7.8	22	65	20	93	37	21	0	40	1.58
1388596--1388786	63	3.0	63	94	0	337	37	23	0	38	1.59
1388916--1389491	127	4.6	124	85	6	653	34	22	21	22	1.97
1389284--1389503	117	1.9	116	92	0	368	33	23	23	20	1.97
1389291--1389536	117	2.1	115	84	3	289	33	24	21	19	1.97
1393912--1393957	24	1.9	24	86	8	67	69	8	17	4	1.31
1394799--1394867	25	2.7	26	75	6	61	27	2	1	68	1.13
1394898--1394986	27	3.1	29	78	10	78	25	6	0	67	1.15
1394919--1394980	28	2.2	30	80	16	78	24	8	0	67	1.17
1394958--1395000	20	2.2	19	84	12	52	30	11	0	58	1.34
1395211--1395248	16	2.3	17	81	9	51	31	5	7	55	1.51
1397815--1397841	2	13.5	2	100	0	54	48	0	0	51	1.00
1399156--1399244	32	2.8	32	87	0	124	26	15	24	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1399615--1399817	55	3.5	55	67	18	158	35	25	16	22	1.95
1399545--1399888	121	2.8	121	93	0	571	35	26	15	22	1.94
1399943--1400153	85	2.5	85	81	1	235	35	20	18	26	1.95
1400850--1401130	133	2.1	131	79	3	296	27	29	15	27	1.96
1401367--1401415	3	15.7	3	91	8	80	30	0	0	69	0.89
1402462--1402507	16	2.9	16	78	18	51	23	4	0	71	1.03
1402456--1402561	24	4.5	24	75	10	94	28	3	0	66	1.14
1402514--1402557	11	3.8	11	80	11	52	25	4	0	70	1.06
1402587--1402628	3	14.0	3	100	0	84	33	0	0	66	0.92
1407000--1407068	36	1.9	36	100	0	138	23	21	2	52	1.61

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39