genome.fa.s8274.2.7.7.80.10.50.1000.5.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: VEPZ01008274.1 Hibiscus syriacus cultivar Beakdansim tig00110931_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1661830

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 705 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)
1193220--1193268	22	2.2	22	85	3	62	57	12	0	30	1.36
1193303--1193362	22	2.7	22	94	0	111	53	13	0	33	1.40
1193274--1193370	22	4.2	22	80	10	95	54	15	0	29	1.41
1193342--1193439	32	3.4	32	73	26	126	53	11	0	35	1.37
1193374--1193474	22	4.5	22	71	7	94	51	9	0	38	1.35
1193419--1193648	15	14.5	15	80	12	246	49	2	0	46	1.21
1193339--1193671	45	6.9	47	79	11	220	49	5	0	44	1.30
1193365--1193648	67	4.3	67	87	8	365	50	4	0	44	1.27
1194295--1194326	16	2.0	16	93	0	55	53	6	0	40	1.26
1202409--1202447	15	2.6	15	91	0	69	20	10	12	56	1.65
1207231--1207368	60	2.3	59	78	3	161	28	18	23	28	1.98
1207441--1207539	44	2.2	43	82	7	117	40	3	23	33	1.70
1212254--1212288	18	1.9	18	88	0	52	28	17	0	54	1.43
1213387--1213420	15	2.1	16	89	10	52	23	26	35	14	1.94
1213418--1213499	18	4.6	18	92	0	119	13	18	48	19	1.80
1213410--1213441	13	2.5	13	94	0	55	15	25	43	15	1.86
1217064--1217110	17	2.8	16	81	15	51	34	0	4	61	1.15
1225839--1225870	3	10.7	3	93	0	55	37	0	0	62	0.95
1229729--1229809	39	2.1	39	95	0	144	30	20	12	35	1.90
1232503--1232603	49	2.0	49	83	13	123	44	16	13	24	1.85
1233101--1233330	60	3.8	60	85	1	262	34	19	16	30	1.93
1237371--1237428	29	2.0	29	100	0	116	44	3	24	27	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1240919--1240950	2	16.5	2	93	6	57	53	0	0	46	1.00
1241184--1241228	19	2.3	19	85	11	56	20	8	0	71	1.12
1241645--1241965	155	2.1	155	95	1	579	28	9	9	52	1.65
1241994--1242026	17	1.9	17	93	0	57	63	0	3	33	1.10
1252685--1252754	32	2.3	31	85	9	90	45	5	11	37	1.64
1253193--1253247	2	27.5	2	100	0	110	0	49	0	50	1.00
1253247--1253272	2	13.0	2	100	0	52	50	0	0	50	1.00
1253660--1254076	150	2.9	143	85	7	545	28	11	16	43	1.83
1255446--1255477	16	2.0	16	100	0	64	37	37	12	12	1.81
1259372--1259402	14	2.3	13	94	5	53	70	6	0	22	1.09
1259478--1259511	2	17.0	2	100	0	68	50	0	0	50	1.00
1260679--1260714	3	11.7	3	94	5	63	69	0	0	30	0.89
1260678--1260711	16	2.1	16	100	0	68	70	0	0	29	0.87
1260675--1260718	19	2.4	19	96	3	81	70	0	0	29	0.88
1260675--1260730	9	5.7	10	84	16	73	71	0	0	28	0.86
1260826--1260889	18	3.6	18	72	8	58	42	12	1	43	1.52
1260801--1260900	36	2.8	35	88	7	132	38	9	3	50	1.49
1260906--1261111	37	5.5	36	86	9	256	44	4	5	45	1.47
1260906--1261111	73	2.8	74	87	8	269	44	4	5	45	1.47
1261702--1262813	165	6.7	166	90	1	1590	25	20	23	30	1.99
1267876--1267963	22	3.9	22	72	19	74	72	1	3	22	1.06
1267924--1267965	4	10.5	4	82	10	50	78	0	0	21	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1267924--1267964	12	3.4	12	83	12	57	80	0	0	19	0.71
1268038--1268073	2	18.0	2	100	0	72	50	0	0	50	1.00
1269209--1269317	43	2.7	38	76	20	112	46	6	0	45	1.34
1269275--1269370	36	2.8	33	82	13	113	39	10	3	46	1.54
1269285--1269371	36	2.6	34	85	8	115	37	10	3	48	1.54
1269299--1269362	18	3.6	18	70	16	51	42	14	1	42	1.54
1269382--1269580	37	5.4	37	85	8	246	44	4	5	45	1.47
1269382--1269580	73	2.7	73	87	6	260	44	4	5	45	1.47
1293811--1293849	21	1.9	20	85	15	53	10	28	10	51	1.68
1295995--1296020	2	13.0	2	100	0	52	50	0	50	0	1.00
1299690--1299752	30	2.1	30	100	0	126	38	23	22	15	1.93
1304880--1304950	31	2.3	31	85	2	99	40	9	9	39	1.72
1304896--1304965	30	2.3	31	85	2	88	42	8	10	38	1.69
1308474--1308531	27	2.3	25	82	8	64	72	10	1	15	1.19
1312025--1312405	189	2.0	192	95	3	700	38	17	18	25	1.92
1315974--1316310	169	2.0	168	98	1	649	32	16	14	37	1.89
1317807--1317843	14	2.6	14	100	0	74	32	5	40	21	1.76
1318564--1318615	21	2.5	21	81	3	61	38	19	25	17	1.93
1318646--1318698	20	2.7	20	87	0	79	26	26	20	26	1.99
1318886--1318929	22	2.0	22	100	0	88	18	45	18	18	1.86
1319172--1319209	20	1.9	20	88	0	58	13	15	21	50	1.78
1319346--1319400	25	2.2	24	78	15	58	20	9	18	52	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320528--1320572	18	2.5	18	88	0	72	26	44	15	13	1.83
1321059--1321111	20	2.7	20	82	2	63	45	22	16	15	1.85
1321095--1321176	19	4.6	19	76	17	95	47	20	18	13	1.82
1321079--1321176	37	2.7	38	74	18	109	45	21	19	13	1.84
1321188--1321245	14	3.9	14	79	16	71	10	17	24	48	1.78
1321183--1321261	32	2.4	33	95	2	142	11	18	22	46	1.81
1321246--1321301	20	2.8	19	84	7	67	16	23	23	37	1.93
1323168--1323203	14	2.6	14	90	0	54	30	0	22	47	1.52
1323155--1323216	13	4.6	14	75	13	51	27	0	19	53	1.45
1323240--1323285	19	2.4	19	100	0	92	47	17	19	15	1.82
1323300--1323336	19	1.9	19	100	0	74	16	18	16	48	1.81
1324350--1324403	24	2.2	24	90	0	81	22	16	20	40	1.91
1324578--1324602	12	2.1	12	100	0	50	72	0	28	0	0.86
1326739--1326861	32	3.9	32	83	11	173	42	20	21	15	1.89
1326878--1326932	14	3.6	14	73	21	56	9	23	21	45	1.80
1326890--1326950	19	3.5	19	72	21	69	11	22	21	44	1.84
1326861--1326950	33	2.7	33	92	0	153	14	22	20	43	1.87
1328416--1328621	42	4.9	41	72	9	155	23	17	36	22	1.94
1328416--1328482	21	3.2	21	68	4	55	19	20	35	23	1.95
1328446--1328621	84	2.1	84	97	0	334	23	16	38	21	1.93
1329167--1329296	62	2.1	63	97	1	244	23	36	17	21	1.94
1330709--1330837	38	3.6	38	79	14	164	44	20	23	11	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1330709--1330834	19	6.9	19	80	13	149	44	20	23	11	1.84
1330733--1330862	38	3.9	33	83	13	160	44	22	23	10	1.82
1330709--1330868	70	2.3	69	87	7	227	44	20	23	11	1.84
1331440--1331534	41	2.3	41	80	3	102	21	20	23	35	1.96
1345509--1345929	209	2.0	212	98	1	821	38	9	13	37	1.79
1354269--1354316	22	2.2	21	79	13	53	14	8	10	66	1.43
1355142--1355176	14	2.4	14	95	4	61	34	28	20	17	1.95
1362253--1362300	2	24.0	2	91	0	78	50	4	0	45	1.21
1364152--1364241	3	30.3	3	93	2	155	65	0	1	33	1.00
1375589--1375617	13	2.3	13	94	5	51	31	0	0	68	0.89
1376153--1376198	23	1.9	25	83	16	62	50	6	4	39	1.48
1377679--1377722	2	22.0	2	100	0	88	50	0	0	50	1.00
1377685--1377750	23	2.9	23	84	6	64	42	4	1	51	1.31
1385336--1385381	23	1.9	25	83	16	62	50	6	4	39	1.48
1394765--1394810	23	1.9	25	83	16	62	50	6	4	39	1.48
1403780--1403822	23	1.9	22	85	4	59	25	11	11	51	1.72
1415047--1415105	29	2.0	29	96	0	109	25	13	11	49	1.76
1422416--1422507	14	6.8	13	68	19	55	66	0	7	26	1.18
1425750--1425967	89	2.4	90	94	2	386	29	24	22	22	1.99
1425750--1425967	119	1.8	118	95	1	391	29	24	22	22	1.99
1425750--1425967	30	7.3	30	96	1	386	29	24	22	22	1.99
1427084--1427128	21	2.1	21	87	0	63	15	24	28	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430777--1430994	30	7.3	30	96	1	386	30	24	22	22	1.99
1430777--1430994	89	2.4	90	95	1	386	30	24	22	22	1.99
1430777--1430994	119	1.8	119	94	2	384	30	24	22	22	1.99
1430980--1431043	30	2.1	31	82	8	78	35	21	18	23	1.95
1432031--1432068	20	1.9	20	94	0	67	7	26	39	26	1.83
1437796--1437896	35	2.9	35	80	1	114	43	25	1	28	1.66
1438054--1438348	146	2.0	146	88	2	441	36	6	9	47	1.61
1438824--1438904	35	2.3	36	89	2	119	32	1	20	45	1.59
1454202--1454253	24	2.2	24	100	0	104	30	11	13	44	1.79
1460893--1460940	23	2.1	23	84	0	60	37	12	16	33	1.86

Tables:   1   2   3   4   5   6