genome.fa.s7915.2.7.7.80.10.50.1000.8.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: VEPZ01007915.1 Hibiscus syriacus cultivar Beakdansim tig00110318_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1667290

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

This is table  8  of  10  ( 1148 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)
1335528--1336491	194	4.9	200	94	3	1742	31	17	15	35	1.92
1335528--1336491	394	2.5	393	96	1	1751	31	17	15	35	1.92
1336608--1336655	19	2.6	19	93	3	80	56	10	2	31	1.45
1338525--1338588	21	3.1	20	88	4	83	17	29	10	42	1.83
1338525--1338588	20	3.1	20	90	4	92	17	29	10	42	1.83
1340772--1340814	20	2.3	18	85	14	61	20	16	11	51	1.75
1340777--1340823	20	2.4	19	82	10	67	19	17	10	53	1.72
1340953--1340999	20	2.3	20	89	10	78	17	17	10	55	1.69
1341810--1341896	39	2.2	39	97	0	165	17	14	20	47	1.83
1342154--1342190	18	2.1	18	89	0	56	51	10	5	32	1.60
1342411--1342443	14	2.4	14	94	0	57	36	0	21	42	1.53
1342495--1342530	14	2.6	14	95	0	63	33	0	22	44	1.53
1342638--1342715	19	4.4	19	76	15	94	47	17	19	15	1.83
1342724--1342843	52	2.3	52	98	1	231	15	21	17	45	1.84
1342781--1342888	33	3.2	33	85	7	164	13	20	19	46	1.84
1342724--1342874	19	8.7	19	72	21	143	15	20	18	45	1.85
1345163--1345187	12	2.1	12	100	0	50	0	28	0	72	0.86
1345362--1345408	24	2.0	24	91	0	76	36	21	17	25	1.94
1345364--1345415	24	2.2	24	85	0	68	38	23	17	21	1.93
1346098--1346370	20	13.5	20	83	6	246	19	17	23	39	1.91
1346956--1347047	22	4.3	22	90	1	125	40	31	22	5	1.77
1346956--1347047	43	2.1	43	86	4	123	40	31	22	5	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347448--1347503	27	2.1	27	89	0	85	33	25	12	28	1.92
1356941--1356983	15	2.8	16	78	7	52	32	20	0	46	1.51
1359900--1359942	18	2.4	18	88	0	59	69	2	13	13	1.28
1359912--1359977	18	3.7	18	77	18	66	74	0	9	16	1.06
1360027--1360063	2	18.5	2	100	0	74	51	0	0	48	1.00
1360146--1360222	41	1.9	39	84	5	100	48	5	28	18	1.69
1360290--1360335	23	2.0	22	83	4	56	73	0	4	21	1.00
1360335--1360391	2	28.5	2	100	0	114	50	0	0	49	1.00
1360634--1360669	18	2.1	18	89	5	56	66	2	5	25	1.27
1361044--1361113	35	2.0	35	100	0	140	28	20	11	40	1.87
1361600--1362365	106	7.4	106	82	8	914	24	19	22	34	1.96
1361628--1362365	198	3.6	209	85	6	873	24	18	22	34	1.96
1363037--1363135	51	1.9	51	81	0	117	18	22	10	49	1.77
1373456--1373530	38	2.1	35	85	12	98	56	8	4	32	1.47
1373808--1373851	2	22.5	2	90	4	72	52	0	2	45	1.13
1373930--1374004	35	2.2	36	79	13	86	61	0	5	33	1.19
1374016--1374051	18	2.1	18	89	5	56	66	2	5	25	1.27
1374286--1374357	35	2.1	35	89	0	108	31	11	6	50	1.65
1376133--1376174	21	2.0	21	90	9	68	52	0	2	45	1.13
1376133--1376171	2	20.0	2	85	15	55	51	0	2	46	1.14
1376211--1376420	38	5.7	35	73	17	122	46	5	8	39	1.58
1376231--1376337	35	3.2	32	80	17	103	44	5	9	40	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1376428--1376472	21	2.1	22	87	4	65	37	0	8	53	1.32
1376522--1376555	18	1.9	17	88	5	50	32	0	0	67	0.91
1380824--1380892	24	2.9	24	91	4	104	36	28	15	18	1.92
1388480--1388519	12	3.7	11	87	12	57	55	0	2	42	1.13
1388556--1388793	38	6.1	37	79	11	203	44	5	9	41	1.59
1388550--1388791	74	3.1	75	85	7	299	44	4	9	40	1.59
1388550--1388791	37	6.3	38	76	11	215	44	4	9	40	1.59
1388836--1388891	5	10.2	5	85	14	67	17	7	0	75	1.03
1391899--1391950	21	2.4	21	83	3	59	19	19	19	42	1.90
1391914--1391962	21	2.3	21	85	0	62	20	20	20	38	1.93
1391957--1392034	20	4.0	20	91	3	106	28	24	20	26	1.99
1392855--1392908	24	2.2	24	93	0	90	24	18	16	40	1.90
1395365--1395575	20	11.1	20	78	11	194	33	21	19	25	1.97
1395373--1395514	74	1.9	74	92	0	239	31	23	19	26	1.98
1395365--1395575	94	2.2	94	85	1	280	33	21	19	25	1.97
1395715--1395769	29	1.9	28	85	3	74	47	18	0	34	1.49
1395710--1395771	14	4.3	14	79	6	70	46	16	0	37	1.47
1397170--1397276	21	5.1	21	73	3	90	22	18	36	22	1.95
1397189--1397281	42	2.2	42	80	3	107	23	17	37	21	1.94
1397767--1397833	20	3.5	18	80	11	71	37	25	19	17	1.94
1397778--1397833	20	2.8	20	88	0	76	37	23	19	19	1.94
1397878--1397923	20	2.3	20	92	0	74	19	19	26	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398070--1398119	18	2.8	18	90	0	82	44	6	16	34	1.72
1399850--1399917	20	3.5	20	81	2	84	50	22	14	13	1.77
1400482--1400534	20	2.7	20	85	5	72	22	22	24	30	1.99
1400550--1400595	21	2.2	21	88	0	65	34	19	28	17	1.94
1402260--1402616	170	2.1	175	88	5	539	42	3	8	45	1.52
1408478--1408518	16	2.6	16	80	0	55	17	78	0	4	0.93
1409003--1409078	3	25.0	3	79	15	77	31	1	2	64	1.15
1410515--1410587	29	2.5	28	78	10	85	20	12	5	61	1.50
1410518--1410678	30	5.4	30	79	5	125	19	12	9	57	1.63
1412522--1412579	29	2.0	29	89	0	89	18	10	6	63	1.47
1417359--1417436	22	3.6	22	83	6	97	32	24	17	25	1.97
1418116--1418209	37	2.6	35	83	9	118	73	6	19	1	1.11
1418148--1418233	13	6.7	13	72	19	65	76	4	15	3	1.08
1418147--1418211	8	7.4	8	79	16	67	78	4	15	1	0.99
1418161--1418219	23	2.5	23	79	20	61	77	5	15	1	1.01
1418148--1418219	17	4.2	17	78	18	78	77	5	15	1	1.01
1418132--1418220	37	2.4	38	79	9	112	76	6	15	1	1.05
1418148--1418231	27	3.1	26	77	13	82	76	4	15	3	1.10
1419884--1419943	2	30.0	2	100	0	120	50	0	0	50	1.00
1420537--1420592	20	2.9	19	75	19	62	66	1	8	23	1.30
1420750--1420791	21	2.0	21	90	4	66	61	2	2	33	1.21
1420798--1420858	29	2.3	25	80	11	68	65	4	4	24	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422229--1423799	106	14.9	106	91	1	2420	23	18	24	33	1.96
1425183--1425236	8	6.5	8	82	4	63	0	14	1	83	0.73
1425182--1425236	13	3.9	14	79	13	60	0	16	1	81	0.77
1425183--1425234	11	4.4	12	77	18	56	0	15	1	82	0.75
1425183--1425242	23	2.6	23	82	10	61	0	13	3	83	0.77
1426890--1426921	15	2.1	15	94	0	55	21	12	28	37	1.90
1429687--1429798	11	10.0	11	70	19	63	65	1	2	30	1.17
1429686--1429814	22	5.6	23	68	21	76	65	2	3	29	1.20
1429674--1429742	10	7.0	10	71	15	54	68	0	4	27	1.09
1429725--1429775	24	2.1	23	82	13	59	64	1	3	29	1.22
1429969--1430016	21	2.2	21	85	10	62	72	0	4	22	1.01
1430710--1430772	21	3.0	21	80	0	81	19	22	28	30	1.98
1430988--1431085	9	10.8	9	67	16	51	46	2	15	35	1.57
1432595--1432748	65	2.4	63	85	9	199	31	12	14	40	1.84
1432713--1432780	35	2.0	33	86	11	93	36	19	11	32	1.88
1432852--1433244	131	3.0	131	82	5	461	23	30	19	26	1.98
1432853--1433341	265	1.8	264	81	3	606	24	30	18	25	1.98
1433261--1433374	40	2.8	40	75	9	104	26	30	17	25	1.97
1433530--1433615	3	28.7	3	79	13	97	36	1	1	61	1.11
1433796--1433872	39	2.0	39	97	0	145	25	27	20	25	1.99
1434802--1435015	30	7.2	29	73	8	135	19	9	10	60	1.57
1434802--1434874	28	2.6	28	82	8	85	23	10	8	57	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1434822--1434887	28	2.3	29	82	15	84	24	9	9	57	1.58
1434900--1435015	61	1.9	60	80	5	135	17	8	10	63	1.49
1435925--1436008	2	44.5	2	83	11	115	44	0	0	55	0.99
1435927--1436008	36	2.3	36	93	2	139	43	0	0	56	0.99
1435949--1436057	22	4.9	21	79	13	85	31	0	0	67	0.97
1436003--1436093	10	9.9	9	76	16	55	17	2	1	79	0.90
1435917--1436097	24	7.3	25	76	13	81	29	1	0	68	1.01
1435973--1436098	22	5.6	23	73	15	95	23	1	0	74	0.95
1435987--1436098	43	2.6	43	79	13	115	19	1	0	77	0.91
1435985--1436099	39	3.0	39	81	8	112	20	1	0	76	0.93

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