genome.fa.s8685.2.7.7.80.10.50.1000.7.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: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3669133

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  7  of  19  ( 2244 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)
1281652--1281728	38	2.1	37	82	2	91	29	6	18	45	1.74
1290548--1290572	2	12.5	2	100	0	50	52	0	48	0	1.00
1297532--1297584	22	2.4	22	96	0	97	20	24	37	16	1.93
1300280--1300383	22	4.7	22	86	4	120	18	25	29	25	1.98
1302184--1302297	59	1.9	59	98	0	219	22	25	14	36	1.93
1307028--1307060	14	2.4	14	94	0	57	6	30	24	39	1.79
1307190--1307232	23	2.0	23	82	17	56	79	6	6	6	1.07
1312278--1312364	40	2.2	39	87	2	120	21	17	24	36	1.94
1313332--1313379	21	2.3	21	81	0	60	31	12	12	43	1.80
1315327--1315386	22	2.6	23	80	17	63	43	5	0	51	1.23
1315386--1315441	23	2.4	23	85	5	78	50	3	0	46	1.19
1315369--1315481	28	3.9	28	80	10	113	49	2	0	47	1.15
1330034--1330082	13	3.9	13	75	20	59	69	8	6	16	1.33
1330291--1330377	27	3.4	25	86	7	70	28	19	20	31	1.97
1330303--1330377	27	2.8	27	93	0	123	28	18	21	32	1.97
1330387--1330430	18	2.6	18	85	7	56	18	25	29	27	1.98
1331970--1332004	2	17.5	2	100	0	70	51	0	0	48	1.00
1337061--1337110	24	2.1	24	88	0	73	30	2	36	32	1.69
1337139--1337169	10	3.1	10	100	0	62	38	51	9	0	1.35
1337218--1337531	154	2.0	154	98	0	601	31	17	13	37	1.88
1340502--1340547	24	1.9	24	90	0	74	34	0	30	34	1.58
1342356--1342395	17	2.4	16	87	8	53	55	0	2	42	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1343654--1343708	30	1.9	30	82	10	71	47	12	3	36	1.59
1343813--1343841	9	3.2	9	100	0	58	10	37	0	51	1.36
1348251--1348302	23	2.3	23	79	0	59	50	15	23	11	1.76
1348713--1348777	29	2.2	29	89	5	96	29	26	6	38	1.80
1354599--1354640	20	2.0	21	90	4	68	14	14	11	59	1.61
1355157--1355198	19	2.3	18	87	4	57	54	0	0	45	0.99
1356592--1356627	2	18.5	2	94	5	65	52	0	0	47	1.00
1358188--1358255	29	2.3	30	84	5	84	38	0	1	60	1.06
1359964--1360010	21	2.2	21	84	0	58	21	40	14	23	1.90
1360019--1360086	21	3.3	20	83	4	82	17	30	27	23	1.97
1360021--1360080	20	3.0	20	87	2	75	16	35	25	23	1.95
1360618--1360686	34	2.1	34	86	2	95	55	2	4	37	1.35
1361383--1361521	75	1.9	75	92	7	241	33	22	23	20	1.97
1361589--1361629	8	5.2	8	82	5	57	36	29	0	34	1.58
1367231--1367281	24	2.1	24	85	10	68	45	17	25	11	1.83
1367239--1367314	24	3.2	24	79	18	79	44	18	25	11	1.83
1367240--1367316	23	3.3	22	77	10	82	44	16	27	11	1.83
1368248--1368512	133	2.0	131	94	5	471	35	8	8	47	1.64
1374251--1374306	2	28.5	2	96	3	105	50	0	0	50	1.00
1384174--1384209	2	18.0	2	94	0	63	47	0	0	52	1.00
1386758--1386810	21	2.5	21	87	0	70	18	26	20	33	1.96
1386779--1387054	61	4.6	59	81	9	217	25	21	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1386757--1387055	20	14.8	20	86	5	258	25	21	19	33	1.97
1386899--1387067	41	4.1	41	99	0	329	22	22	16	38	1.93
1386908--1387108	82	2.5	82	88	4	246	25	21	15	36	1.93
1387910--1387963	24	2.2	24	93	0	90	20	18	20	40	1.91
1390473--1390551	19	4.4	19	72	16	69	43	18	22	15	1.88
1390493--1390586	33	2.8	33	93	0	152	45	18	23	12	1.83
1390473--1390590	19	6.7	18	67	20	63	44	19	23	12	1.85
1390601--1390640	14	2.9	14	88	0	62	10	17	25	47	1.78
1390762--1390797	13	2.6	14	82	8	56	44	22	0	33	1.53
1392127--1392249	42	2.9	41	79	7	113	22	17	36	22	1.95
1392552--1392773	91	2.4	88	88	6	311	45	19	11	22	1.82
1394455--1394586	19	7.1	19	80	11	157	45	19	22	12	1.83
1408938--1409016	28	2.8	28	90	0	104	39	24	8	27	1.85
1411519--1411584	11	6.4	10	78	15	64	78	1	1	18	0.90
1411518--1411697	21	8.4	20	72	21	91	78	5	3	12	1.05
1411518--1411701	6	29.5	6	70	21	78	78	4	3	13	1.05
1411519--1411584	5	12.8	5	78	15	64	78	1	1	18	0.90
1411547--1411625	25	3.1	25	83	7	97	81	7	1	10	0.94
1411557--1411639	15	5.8	14	75	19	55	81	7	2	8	0.94
1411581--1411612	13	2.4	14	94	5	57	84	15	0	0	0.63
1411557--1411639	42	2.0	43	87	2	123	81	7	2	8	0.94
1411545--1411701	17	8.8	17	69	13	75	78	5	3	11	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1411675--1411730	29	2.0	28	82	10	69	76	5	1	16	1.05
1411916--1411968	18	3.1	17	76	10	54	71	0	0	28	0.86
1411928--1411974	18	2.5	19	74	22	53	76	0	0	23	0.78
1412027--1412059	2	16.5	2	93	0	57	54	0	0	45	0.99
1412135--1412159	5	5.0	5	100	0	50	80	0	0	20	0.72
1412138--1412202	25	2.7	23	73	19	60	73	1	6	18	1.11
1413919--1414736	84	9.8	83	79	3	827	24	19	24	31	1.98
1413870--1414736	168	5.2	168	84	3	917	23	19	24	31	1.98
1413919--1414736	248	3.3	251	84	3	880	24	19	24	31	1.98
1415927--1416119	95	2.0	94	92	4	316	31	18	16	33	1.93
1420051--1420162	21	5.5	19	71	14	82	78	6	3	11	1.06
1420057--1420258	6	32.7	6	68	20	60	77	5	3	12	1.08
1420057--1420258	11	16.8	12	67	20	50	77	5	3	12	1.08
1420058--1420112	5	10.8	5	79	14	51	80	1	1	16	0.90
1420069--1420264	16	12.6	15	68	19	68	77	6	4	12	1.10
1420479--1420530	21	2.5	22	87	9	81	73	0	3	23	1.00
1420491--1420539	26	1.9	25	88	12	73	79	0	2	18	0.83
1420501--1420537	17	2.1	18	90	5	58	78	0	2	18	0.87
1420642--1420666	2	12.5	2	100	0	50	52	0	0	48	1.00
1420687--1420723	19	2.0	19	89	5	58	81	5	0	13	0.86
1420752--1420788	2	19.0	2	94	5	67	51	0	0	48	1.00
1420818--1420855	11	3.5	11	89	3	51	78	5	0	15	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1424854--1425122	41	6.5	42	79	8	243	31	18	17	32	1.94
1426066--1426166	40	2.5	39	80	7	112	30	15	17	35	1.92
1426066--1426212	42	3.6	41	83	7	147	32	15	17	34	1.91
1426108--1426227	42	2.9	42	86	4	147	32	16	16	34	1.92
1431941--1432167	86	2.7	86	77	3	233	28	21	15	34	1.94
1431883--1432171	43	6.8	43	77	2	206	27	19	16	36	1.93
1439541--1439579	18	2.2	18	95	0	69	43	0	23	33	1.54
1439708--1440295	182	3.3	173	84	7	688	43	12	17	26	1.85
1442252--1442307	24	2.4	23	80	8	69	42	0	7	50	1.30
1445017--1445989	201	4.8	201	89	1	1428	36	15	14	32	1.89
1446200--1446244	23	2.0	23	86	0	63	17	6	13	62	1.52
1446312--1446355	15	2.9	15	96	0	79	31	34	6	27	1.83
1448609--1448633	11	2.3	11	100	0	50	36	8	8	48	1.62
1448955--1448991	18	2.1	18	89	0	56	32	5	10	51	1.60
1448947--1448999	24	2.2	24	86	0	70	35	3	13	47	1.61
1450253--1451850	199	8.0	199	87	4	2067	39	13	15	31	1.86
1450257--1451850	397	4.0	402	87	4	2118	39	13	15	31	1.86
1453727--1453818	23	4.0	23	81	5	114	27	23	27	21	1.99
1453837--1454051	103	2.1	103	98	0	412	36	24	13	26	1.91
1458575--1458627	16	3.2	16	72	5	52	41	26	1	30	1.66
1458962--1459025	23	2.8	23	85	0	83	28	25	26	20	1.99
1459043--1459258	103	2.1	103	96	0	396	36	23	13	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1461484--1461520	19	1.9	19	88	0	56	32	8	10	48	1.67
1464312--1464650	185	1.8	184	84	4	468	37	12	17	32	1.88
1464840--1464884	23	2.0	23	90	0	72	35	20	11	33	1.88
1464756--1464918	87	1.9	87	94	0	290	31	15	13	39	1.86
1468373--1468403	16	1.9	16	93	0	53	77	0	0	22	0.77
1468590--1468629	11	3.5	11	83	12	53	70	2	2	25	1.13
1469781--1469822	3	14.3	3	85	14	61	64	0	0	35	0.94
1469773--1469822	23	2.2	24	82	17	70	66	0	0	34	0.92
1470029--1470073	15	3.0	15	87	12	74	33	13	17	35	1.89
1471934--1471976	21	2.0	21	95	0	77	32	37	9	20	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19