genome.fa.s9461.2.7.7.80.10.50.1000.7.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: VEPZ01009461.1 Hibiscus syriacus cultivar Beakdansim tig00113724_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2346588

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

This is table  7  of  12  ( 1395 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)
1207161--1207190	8	3.6	8	95	4	51	0	0	10	90	0.47
1207161--1207196	17	2.1	17	94	0	63	0	2	8	88	0.59
1207637--1207697	29	2.1	29	93	0	104	24	24	21	29	1.99
1207856--1207908	3	17.7	3	88	7	81	64	1	0	33	1.05
1208405--1208446	18	2.4	18	80	11	52	47	0	2	50	1.14
1215827--1215881	22	2.5	22	93	3	92	30	12	16	40	1.86
1216468--1216678	99	2.1	100	89	3	329	32	16	17	33	1.93
1216500--1216780	99	2.7	99	84	7	312	33	14	16	35	1.89
1217224--1217328	55	1.9	55	82	3	131	37	15	17	30	1.90
1217636--1217677	16	2.4	18	80	19	61	47	0	0	52	1.00
1219418--1219442	3	8.3	3	100	0	50	68	32	0	0	0.90
1232340--1232370	15	2.1	15	93	0	53	45	0	0	54	0.99
1237422--1238107	343	2.0	343	97	0	1300	33	16	17	32	1.92
1238361--1238396	16	2.2	17	90	5	56	33	0	22	44	1.53
1243142--1243175	14	2.4	14	90	0	50	52	2	5	38	1.41
1243295--1243371	29	2.7	29	73	13	70	48	0	3	48	1.20
1243360--1243419	29	2.0	30	84	9	79	50	1	0	48	1.11
1243435--1243504	35	2.0	34	89	8	106	51	0	1	47	1.09
1244550--1244604	5	10.8	5	81	11	67	20	52	21	5	1.66
1244549--1244604	17	3.7	15	86	11	78	19	51	21	7	1.70
1251584--1251630	7	6.9	7	80	4	60	17	23	27	31	1.96
1251607--1251631	13	1.9	13	100	0	50	16	24	28	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256181--1256206	13	2.0	13	100	0	52	15	0	7	76	0.99
1256528--1256591	26	2.3	26	84	12	76	51	0	1	46	1.10
1256745--1256772	14	2.0	14	100	0	56	64	0	0	35	0.94
1259025--1259266	21	11.6	21	71	14	171	21	19	23	35	1.95
1259025--1259266	42	5.8	41	92	2	344	21	19	23	35	1.95
1259911--1259949	6	6.5	6	100	0	78	0	15	51	33	1.44
1260046--1260258	21	10.3	21	67	18	135	37	21	19	22	1.94
1260109--1260321	40	5.2	42	88	4	285	35	24	18	21	1.96
1260130--1260327	21	9.6	21	76	8	192	34	25	19	20	1.96
1260042--1260302	63	4.2	61	78	9	260	36	22	19	21	1.95
1260336--1260388	21	2.5	21	90	0	79	18	20	30	30	1.97
1268569--1268673	45	2.3	46	90	1	158	30	20	18	31	1.96
1270452--1270490	15	2.6	15	87	0	60	38	10	30	20	1.86
1277168--1277205	20	1.9	20	94	0	67	31	34	15	18	1.92
1277216--1277380	64	2.5	66	89	3	235	29	24	16	29	1.96
1279854--1279898	15	3.0	14	81	15	54	51	6	2	40	1.41
1292968--1293002	2	18.0	2	94	5	63	0	51	0	48	1.00
1294228--1294260	2	16.5	2	100	0	66	48	0	0	51	1.00
1294572--1294605	10	3.4	10	88	12	52	70	2	0	26	1.01
1294697--1294744	18	2.8	17	78	6	60	47	4	6	41	1.48
1295521--1295558	15	2.4	16	86	4	51	71	0	2	26	1.00
1296942--1296977	18	2.0	18	94	0	63	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296617--1297403	394	2.0	395	98	0	1522	43	7	8	40	1.64
1297965--1297991	14	1.9	14	100	0	54	59	0	3	37	1.15
1306163--1306377	105	2.1	104	92	0	358	36	12	16	34	1.86
1314488--1314522	3	11.7	3	100	0	70	31	0	0	68	0.90
1320994--1321020	13	2.1	13	100	0	54	40	7	7	44	1.60
1320949--1321172	111	2.0	108	84	10	285	41	10	4	44	1.57
1320930--1321182	73	3.4	73	81	13	293	42	10	3	43	1.57
1320949--1321172	36	6.1	38	83	10	254	41	10	4	44	1.57
1322788--1322854	29	2.3	29	84	0	80	31	4	5	58	1.42
1323172--1323262	45	2.0	45	97	0	173	35	13	12	39	1.81
1323977--1324028	23	2.2	23	86	3	68	30	0	1	67	1.02
1327043--1327158	58	2.0	58	94	0	205	39	19	15	25	1.91
1329534--1329566	17	1.9	17	88	11	50	54	21	6	18	1.64
1329770--1329923	73	2.1	73	97	0	290	47	3	27	21	1.68
1342412--1342442	15	2.1	15	100	0	62	45	19	0	35	1.51
1343734--1343770	17	2.2	17	95	0	65	29	16	2	51	1.58
1343770--1343804	17	2.1	17	88	0	52	54	20	17	8	1.68
1347015--1347119	36	2.9	37	84	2	158	48	14	3	33	1.61
1349393--1349423	16	1.9	16	93	0	53	25	6	12	54	1.62
1349452--1349493	16	2.6	16	88	0	66	30	7	11	50	1.66
1351243--1351292	23	2.0	26	81	14	61	50	8	10	32	1.65
1351414--1351525	23	4.8	23	84	2	125	25	13	23	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1357258--1357293	11	3.3	11	92	0	54	11	44	0	44	1.39
1358335--1358428	40	2.3	40	98	0	179	34	9	17	39	1.82
1358652--1358725	23	3.2	22	86	7	94	16	28	21	33	1.95
1358661--1358727	23	3.0	22	89	6	98	16	28	22	32	1.95
1358897--1358946	2	25.0	2	100	0	100	50	0	0	50	1.00
1366459--1366753	131	2.3	131	87	3	432	35	10	14	38	1.82
1372139--1372212	36	2.1	36	100	0	148	28	10	10	50	1.71
1372150--1372206	17	3.2	17	68	18	53	29	10	7	52	1.62
1372475--1372507	2	16.5	2	100	0	66	48	0	0	51	1.00
1372517--1372648	39	3.6	38	72	15	100	38	12	1	46	1.51
1372754--1372809	2	28.0	2	100	0	112	50	0	0	50	1.00
1372928--1373027	27	4.1	24	71	22	75	42	2	0	56	1.11
1372936--1373029	22	3.9	23	73	18	84	42	2	0	55	1.12
1372995--1373034	21	1.9	21	84	0	53	42	2	0	55	1.13
1373096--1373257	87	1.9	87	88	2	245	42	12	12	32	1.81
1382401--1382459	31	1.9	31	92	0	100	40	6	10	42	1.65
1382521--1382588	26	2.6	26	97	0	127	54	20	0	25	1.45
1382612--1382665	14	3.6	14	72	18	54	55	5	1	37	1.34
1382590--1382674	32	2.7	32	88	3	109	52	10	1	35	1.43
1382652--1382691	21	1.9	21	100	0	80	52	12	0	35	1.39
1382748--1382797	14	3.1	16	73	21	59	58	8	0	34	1.28
1382750--1382989	32	7.4	32	73	13	161	54	10	0	34	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1382547--1383012	162	2.9	158	84	9	594	53	12	0	34	1.42
1382673--1382910	110	2.2	110	91	3	383	53	12	0	33	1.42
1382846--1383022	52	3.5	52	82	10	199	53	9	0	37	1.37
1382969--1383146	15	12.5	15	76	20	177	53	1	0	44	1.07
1382774--1383131	130	2.8	128	79	14	327	53	7	0	38	1.31
1382979--1383078	23	4.1	25	70	25	81	52	2	0	46	1.12
1383021--1383133	40	2.9	40	96	2	203	54	0	0	45	0.99
1383057--1383140	25	3.2	26	70	15	64	53	0	0	46	1.00
1393593--1393628	6	6.0	6	100	0	72	16	33	33	16	1.92
1408118--1408183	3	22.0	3	100	0	132	66	0	0	33	0.92
1418812--1418886	15	4.7	15	75	18	71	77	0	13	9	0.99
1418802--1418871	7	9.4	7	76	17	61	77	1	12	8	1.06
1418832--1418889	12	5.0	12	72	8	57	81	0	12	6	0.88
1418801--1418880	30	2.7	30	86	5	101	77	1	12	8	1.05
1418799--1418889	23	3.7	23	69	22	60	79	1	12	7	0.99
1420533--1420578	3	15.7	3	90	4	76	36	0	0	63	0.95
1440799--1440861	33	1.9	33	100	0	126	22	14	25	38	1.92
1441739--1441818	37	2.2	37	93	2	135	27	2	10	60	1.42
1442412--1442452	3	13.7	3	100	0	82	68	0	0	31	0.90
1442661--1442692	16	1.9	17	93	6	57	62	0	0	37	0.95
1442822--1442934	2	59.5	2	89	10	184	49	0	0	50	1.00
1442822--1442934	51	2.3	51	93	6	198	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445930--1445974	18	2.5	18	81	0	54	40	31	6	22	1.80
1445951--1446195	36	6.6	36	77	7	233	37	28	11	22	1.89
1445955--1446195	75	3.3	75	84	4	303	37	28	11	22	1.89
1449482--1449531	22	2.3	22	100	0	100	38	14	28	20	1.91
1450067--1450146	15	5.3	15	73	5	54	38	5	20	36	1.74
1450255--1450351	24	4.1	24	81	7	119	21	21	25	30	1.98
1453226--1453450	45	5.0	45	93	2	382	40	7	21	31	1.80
1454099--1454127	2	14.5	2	100	0	58	48	0	0	51	1.00
1454352--1454396	21	2.1	21	91	0	72	26	22	24	26	2.00
1457135--1457178	21	2.1	21	82	0	52	20	22	25	31	1.98

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