genome.fa.s8122.2.7.7.80.10.50.1000.5.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: VEPZ01008122.1 Hibiscus syriacus cultivar Beakdansim tig00110676_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2511854

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 956 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)
1304691--1304715	13	1.9	13	100	0	50	24	8	4	64	1.38
1305525--1305551	14	1.9	14	100	0	54	51	7	25	14	1.68
1306990--1307063	21	3.4	21	85	7	96	12	17	17	52	1.74
1307329--1307382	21	2.6	21	81	0	72	16	14	18	50	1.79
1312855--1312955	29	3.4	29	78	6	105	41	11	6	39	1.69
1313065--1313134	32	2.3	31	80	7	79	40	11	7	41	1.69
1316235--1316316	29	2.8	29	94	1	137	32	14	12	40	1.83
1317581--1317610	15	2.0	15	93	0	51	56	23	0	20	1.42
1320974--1321084	29	3.8	29	95	1	186	34	14	11	39	1.82
1322178--1322203	4	6.5	4	100	0	52	50	26	0	23	1.50
1325710--1325762	16	3.1	16	89	10	70	28	16	13	41	1.86
1325711--1325766	20	3.0	20	90	10	84	26	16	19	37	1.92
1327844--1327876	2	16.5	2	100	0	66	48	0	0	51	1.00
1330250--1330280	15	2.1	15	93	0	53	54	0	9	35	1.33
1330803--1330841	19	2.0	21	85	10	55	58	0	0	41	0.98
1335969--1336010	18	2.3	18	100	0	84	33	21	26	19	1.97
1336577--1336625	21	2.4	21	93	3	82	55	14	8	22	1.65
1338266--1338324	15	3.8	15	77	16	57	55	0	0	44	0.99
1338266--1338344	24	3.3	24	75	15	83	51	0	0	48	1.00
1338595--1338653	29	2.0	29	93	0	100	45	6	6	40	1.57
1343696--1343976	142	2.0	142	97	0	535	39	14	19	26	1.90
1344375--1344405	16	1.9	16	93	0	53	32	6	0	61	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1356025--1356452	103	4.1	105	90	4	656	32	26	18	21	1.97
1356025--1356452	205	2.1	208	89	4	654	32	26	18	21	1.97
1356025--1356504	205	2.3	205	86	7	634	32	26	17	22	1.96
1356025--1356504	103	4.6	103	86	7	611	32	26	17	22	1.96
1356863--1356932	2	36.5	2	85	8	101	45	2	0	51	1.16
1357470--1357746	140	2.0	138	93	3	475	39	14	19	26	1.90
1358344--1358402	10	5.3	10	78	15	55	30	1	1	66	1.12
1358344--1358402	11	5.3	11	73	18	59	30	1	1	66	1.12
1360965--1361071	53	2.1	51	96	3	196	40	20	13	26	1.89
1362756--1362805	19	2.8	18	82	8	57	38	6	0	56	1.24
1364346--1364400	2	27.5	2	100	0	110	50	0	0	49	1.00
1372984--1373827	78	10.8	78	90	0	1222	23	17	32	26	1.97
1380462--1380501	21	1.9	21	89	0	62	10	25	40	25	1.86
1380483--1380545	21	2.9	21	83	4	81	20	25	33	20	1.97
1387496--1387548	27	2.0	27	96	0	97	47	11	18	22	1.81
1388588--1388681	36	2.6	37	79	12	115	23	6	13	56	1.60
1388659--1388699	19	2.1	20	90	4	66	24	0	17	58	1.38
1390362--1390401	21	2.0	20	90	5	62	32	10	17	40	1.83
1391114--1391159	14	3.1	14	90	6	65	13	15	19	52	1.75
1391308--1391339	16	2.0	16	100	0	64	43	12	6	37	1.68
1391462--1391490	14	2.1	14	100	0	58	55	13	13	17	1.70
1394073--1394204	66	2.0	66	89	0	201	46	8	12	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1404941--1405018	36	2.2	36	84	13	99	47	1	1	50	1.17
1404975--1405009	15	2.3	15	85	0	52	48	0	0	51	1.00
1404965--1405019	18	3.1	17	78	17	67	47	0	0	52	1.00
1406243--1406409	86	1.9	86	95	0	298	31	15	17	34	1.92
1411175--1411235	32	1.9	32	86	0	86	45	11	4	37	1.62
1411264--1411322	14	4.1	14	72	12	57	42	5	16	35	1.71
1411269--1411323	29	1.9	28	92	3	92	47	3	16	32	1.64
1411712--1411803	34	2.8	33	79	12	82	50	1	1	47	1.15
1411888--1411955	23	3.0	24	80	6	70	52	1	0	45	1.09
1423228--1423275	24	2.0	24	100	0	96	33	25	12	29	1.92
1430852--1430906	26	2.1	26	86	6	76	20	47	10	21	1.80
1431463--1431582	59	2.0	60	91	3	197	30	16	19	34	1.94
1436080--1436153	36	2.1	36	87	10	107	47	4	0	48	1.20
1438947--1438980	6	5.7	6	96	0	59	14	0	55	29	1.40
1440789--1440831	21	2.0	21	86	0	59	25	0	0	74	0.82
1444184--1444262	31	2.5	31	95	0	140	22	2	6	68	1.25
1450031--1450146	60	1.9	60	85	3	162	37	12	14	35	1.84
1450021--1450167	60	2.5	60	78	6	156	34	12	17	36	1.87
1454482--1454744	41	6.4	41	90	4	422	17	21	24	36	1.94
1454487--1454767	103	2.7	103	75	9	243	16	21	25	36	1.94
1454549--1454767	62	3.6	60	74	8	235	15	21	25	37	1.92
1454795--1454919	20	6.2	20	71	7	108	41	24	20	14	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1454815--1455033	41	5.4	41	71	9	162	35	24	21	18	1.96
1454951--1455037	21	4.2	21	73	2	77	36	28	17	17	1.92
1454835--1455072	121	2.0	121	85	4	318	33	23	22	21	1.97
1457174--1457234	26	2.4	26	86	8	81	52	1	3	42	1.27
1457352--1457449	29	3.7	25	69	24	67	52	5	2	40	1.35
1457486--1457538	24	2.3	23	84	12	72	43	0	3	52	1.19
1461407--1461458	25	2.1	25	85	3	70	36	7	0	55	1.29
1464231--1464312	22	3.7	22	80	0	92	14	7	20	57	1.61
1464243--1464312	33	2.1	33	89	0	104	14	7	21	57	1.61
1464231--1464301	11	6.5	11	85	0	88	15	5	19	59	1.56
1464249--1464312	11	5.8	11	88	0	74	14	7	21	56	1.63
1470034--1470094	32	1.9	32	86	0	86	45	11	4	37	1.62
1470123--1470181	14	4.1	14	76	4	64	40	5	18	35	1.73
1470126--1470182	29	2.0	29	92	0	96	43	3	19	33	1.68
1470415--1470484	31	2.2	29	77	20	70	47	0	4	48	1.21
1470554--1470637	30	2.8	29	80	16	84	47	0	1	51	1.08
1470569--1470661	33	2.9	33	81	12	97	49	1	1	48	1.15
1476680--1476709	12	2.5	12	100	0	60	36	6	33	23	1.81
1481761--1481808	24	2.0	24	100	0	96	33	25	12	29	1.92
1489227--1489287	27	2.3	27	88	5	90	18	45	13	22	1.83
1489859--1489980	61	2.0	61	95	0	217	30	16	18	34	1.93
1495694--1495783	43	2.1	43	83	8	112	52	4	13	30	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502389--1502443	24	2.3	23	81	3	65	52	1	1	43	1.22
1504027--1504097	32	2.2	32	92	0	115	43	9	11	35	1.74
1507601--1507747	60	2.5	60	77	6	147	33	12	18	35	1.89
1510836--1510903	29	2.3	29	94	0	118	27	5	20	45	1.74
1512075--1512299	21	10.9	21	69	9	158	16	20	25	37	1.93
1512075--1512299	41	5.5	41	90	3	337	16	20	25	37	1.93
1512087--1512351	124	2.1	123	85	6	340	20	20	23	35	1.96
1512327--1512451	20	6.2	20	71	3	97	40	24	19	16	1.90
1512316--1512399	41	2.0	41	93	0	141	39	25	17	17	1.92
1512327--1512563	61	3.9	61	76	7	250	36	24	20	18	1.95
1512388--1512565	41	4.4	41	69	5	155	34	24	21	20	1.97
1512483--1512569	21	4.2	21	73	2	77	36	28	17	17	1.92
1514762--1514822	26	2.4	26	86	8	81	52	1	3	42	1.27
1515132--1515156	2	12.5	2	100	0	50	52	0	0	48	1.00
1518980--1519031	25	2.2	24	82	6	61	40	5	1	51	1.37
1518989--1519041	25	2.1	25	89	0	79	35	3	0	60	1.15
1520148--1520183	2	18.5	2	88	5	56	52	0	0	47	1.00
1521087--1521113	2	13.5	2	100	0	54	48	0	0	51	1.00
1521474--1521513	11	3.6	11	86	0	53	10	10	22	57	1.61
1550015--1550095	24	3.3	24	75	14	78	45	2	0	51	1.14
1550026--1550095	23	3.0	22	78	15	70	45	2	0	51	1.16
1550065--1550133	27	2.6	25	76	10	75	39	2	1	56	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1550252--1550324	31	2.4	31	90	0	110	52	10	5	31	1.59
1561701--1561854	59	2.6	59	81	2	166	37	4	9	48	1.57
1566899--1566933	15	2.3	15	85	14	54	65	0	2	31	1.07
1569144--1569202	2	30.0	2	91	3	93	49	0	1	49	1.11
1570757--1571061	153	2.0	153	91	1	495	32	13	21	32	1.92
1571948--1571988	19	2.2	19	83	12	50	68	0	4	26	1.10
1572178--1572203	2	13.0	2	100	0	52	50	0	0	50	1.00
1585461--1585527	33	2.0	33	91	5	109	25	23	41	8	1.83
1585538--1585572	18	1.9	18	100	0	70	17	28	45	8	1.77
1589026--1589061	18	2.0	18	88	0	54	33	5	5	55	1.46

Tables:   1   2   3   4   5   6   7   8