genome.fa.s7804.2.7.7.80.10.50.1000.8.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: VEPZ01007804.1 Hibiscus syriacus cultivar Beakdansim tig00110122_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1697051

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1034 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)
1285097--1285301	42	4.8	42	89	4	265	32	23	25	18	1.97
1286234--1286301	29	2.4	28	80	7	73	42	22	7	27	1.80
1288800--1288859	28	2.2	28	85	8	79	71	1	6	20	1.17
1288811--1288847	16	2.2	17	90	4	58	70	0	5	24	1.08
1300502--1300579	21	3.7	21	71	0	57	26	16	19	37	1.93
1300589--1300644	23	2.5	22	82	5	69	19	23	23	33	1.97
1307746--1307951	51	4.0	51	98	0	385	25	16	15	43	1.86
1308194--1308248	27	2.0	28	92	3	94	41	18	1	38	1.61
1308253--1308303	25	2.0	25	96	0	93	33	21	7	37	1.82
1313139--1313197	27	2.2	25	82	11	73	32	3	10	54	1.51
1314712--1314796	2	42.5	2	92	0	98	9	0	48	42	1.35
1314893--1315012	20	5.3	20	65	27	62	44	11	24	20	1.84
1314880--1315049	47	3.6	47	91	0	286	43	11	22	21	1.85
1315910--1316002	44	2.0	47	84	10	122	51	5	18	24	1.67
1331330--1331382	27	2.0	26	92	3	88	22	22	9	45	1.81
1340048--1340091	20	2.2	20	100	0	88	15	20	13	50	1.78
1343653--1343686	4	8.0	4	90	9	50	70	0	2	26	1.01
1343653--1343686	13	2.7	12	90	4	50	70	0	2	26	1.01
1343653--1343686	17	1.9	18	94	5	61	70	0	2	26	1.01
1345010--1345074	3	21.0	3	90	6	103	64	0	1	33	1.03
1345319--1345373	19	3.0	19	84	5	60	20	1	1	76	0.97
1348053--1348313	95	2.7	95	88	3	353	33	18	17	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1349522--1349765	116	2.1	116	89	0	371	30	26	18	24	1.98
1348961--1350569	804	2.0	804	97	0	3004	32	22	18	27	1.97
1350326--1350738	116	3.5	116	86	2	531	31	25	19	23	1.98
1350748--1351136	84	4.6	84	89	0	553	33	25	18	22	1.97
1352732--1352780	19	2.5	19	87	9	64	16	2	0	81	0.78
1352732--1352780	12	3.8	13	79	17	57	16	2	0	81	0.78
1363325--1363361	13	2.8	13	91	0	65	2	37	0	59	1.12
1364115--1364200	34	2.5	35	84	1	102	29	12	25	32	1.93
1364520--1364554	16	2.2	16	100	0	70	51	11	14	22	1.74
1364543--1364720	36	4.9	36	72	13	132	41	10	16	30	1.83
1364545--1364726	73	2.5	73	80	5	190	40	10	17	32	1.83
1364802--1365060	136	1.9	139	79	7	296	42	9	19	28	1.83
1365926--1369729	948	4.0	951	91	1	5981	29	17	14	37	1.90
1369416--1369468	23	2.3	23	100	0	106	26	30	9	33	1.88
1369416--1369469	11	4.7	12	78	21	62	25	29	9	35	1.87
1370013--1370050	19	2.0	20	85	15	53	10	21	2	65	1.35
1370031--1370066	15	2.3	16	90	4	56	8	25	0	66	1.19
1371550--1371824	32	8.6	32	78	6	225	33	13	17	36	1.89
1378282--1378327	15	2.9	16	93	6	85	50	10	0	39	1.38
1381323--1381359	19	1.9	19	88	0	56	24	2	2	70	1.14
1382373--1382852	194	2.5	192	81	6	531	37	11	11	39	1.78
1384748--1384800	20	2.6	21	76	8	65	28	32	15	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1384809--1384947	20	7.0	19	84	8	145	39	25	16	18	1.91
1384783--1384947	59	2.8	59	86	7	201	40	24	15	19	1.91
1385444--1385497	20	2.7	19	80	8	63	14	14	22	48	1.81
1387622--1387720	21	4.7	21	76	9	94	26	35	17	21	1.95
1387622--1387740	42	2.8	42	77	7	116	25	36	17	21	1.95
1389740--1389879	66	2.2	62	87	7	194	30	0	17	50	1.51
1390249--1390335	39	2.2	39	95	0	156	17	12	20	49	1.79
1390645--1390681	18	2.1	18	89	0	56	51	10	5	32	1.60
1390888--1390946	30	2.0	30	96	0	109	27	23	6	42	1.79
1391223--1391285	20	3.2	20	88	0	99	17	15	23	42	1.88
1391571--1391606	18	2.0	18	94	0	63	16	2	25	55	1.55
1393858--1393913	24	2.3	24	87	0	76	37	23	14	25	1.92
1394038--1394071	12	2.8	12	90	0	50	14	0	29	55	1.40
1394812--1394883	19	3.7	19	83	7	81	23	12	25	38	1.90
1394812--1394982	40	4.3	39	76	9	148	23	14	25	36	1.92
1394811--1394917	20	5.4	19	79	7	97	20	14	25	40	1.90
1394852--1394917	20	3.3	20	85	2	98	16	13	27	42	1.86
1404866--1404897	2	16.0	2	100	0	64	50	0	0	50	1.00
1405646--1405701	27	2.1	27	93	0	94	44	1	5	48	1.36
1405659--1405701	14	3.1	14	75	18	54	44	0	6	48	1.29
1405673--1405768	39	2.4	41	84	8	137	37	5	5	52	1.46
1406819--1406872	2	27.0	2	100	0	108	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422924--1422964	21	2.0	21	90	0	64	63	4	12	19	1.46
1426274--1426328	14	3.9	14	80	2	56	29	25	21	23	1.99
1442565--1442634	36	1.9	36	85	5	97	35	17	17	30	1.92
1455544--1455602	22	2.8	20	75	10	57	25	32	25	16	1.97
1468523--1468589	27	2.5	27	87	0	98	28	22	28	20	1.99
1472280--1472612	129	2.6	131	82	1	393	40	15	10	33	1.82
1480272--1480408	64	2.1	64	82	2	168	29	18	22	28	1.98
1480292--1480454	64	2.5	64	82	6	175	31	16	22	30	1.96
1481336--1481369	17	2.0	17	88	0	50	55	14	20	8	1.65
1483046--1483136	31	2.9	31	95	0	155	39	6	8	45	1.61
1483182--1483260	36	2.3	35	87	12	119	34	13	7	44	1.73
1487555--1487772	116	1.9	116	80	3	260	27	13	9	49	1.73
1489091--1489214	64	1.9	64	85	3	169	28	17	23	30	1.97
1491086--1491118	13	2.4	14	90	5	50	63	0	15	21	1.30
1491214--1491394	36	5.1	36	81	7	210	29	12	8	49	1.70
1492910--1493365	54	8.4	54	86	1	610	27	15	21	35	1.94
1492909--1493360	162	2.8	162	90	0	690	27	15	21	35	1.94
1497761--1497956	97	2.0	97	90	0	311	40	15	11	33	1.83
1501199--1501338	56	2.5	56	80	1	154	40	25	18	15	1.89
1501178--1501398	113	2.0	113	82	1	273	37	27	18	16	1.93
1501173--1501399	57	4.0	57	80	1	249	36	28	18	16	1.92
1504936--1505123	29	6.6	29	74	5	125	45	15	4	33	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1509736--1509875	56	2.5	56	80	1	154	40	25	18	15	1.89
1509715--1509935	113	2.0	113	82	1	273	37	27	18	16	1.93
1509710--1509936	57	4.0	57	80	1	249	36	28	18	16	1.92
1513478--1513665	29	6.6	29	74	5	125	45	15	4	33	1.68
1517211--1517505	54	5.4	54	83	2	358	29	16	20	33	1.94
1537247--1537305	3	20.0	3	92	3	102	33	0	0	66	0.92
1538339--1538408	29	2.4	29	77	15	72	30	7	5	57	1.49
1538745--1538792	3	16.0	3	100	0	96	33	0	0	66	0.92
1538967--1539013	16	3.0	16	81	9	53	46	0	0	53	1.00
1545969--1547377	703	2.0	703	100	0	2818	34	15	16	33	1.90
1550516--1550586	12	5.8	12	74	14	56	71	0	14	14	1.14
1550509--1550588	18	4.5	18	73	18	78	72	0	13	13	1.12
1552930--1552993	20	3.2	20	63	20	53	42	9	23	25	1.84
1552799--1553358	121	4.8	112	78	13	519	40	15	18	26	1.90
1552911--1553358	121	3.7	122	82	7	594	39	15	18	25	1.90
1552799--1553358	239	2.4	234	92	3	910	40	15	18	26	1.90
1553691--1553741	3	17.0	3	87	0	57	33	7	0	58	1.27
1555387--1555433	16	3.0	16	81	9	53	46	0	0	53	1.00
1556166--1556209	19	2.3	19	100	0	88	18	11	22	47	1.80
1556913--1557044	63	2.1	63	97	0	246	28	28	14	29	1.95
1559798--1559840	3	14.3	3	100	0	86	67	0	0	32	0.91
1572794--1572846	24	2.2	24	86	6	72	30	0	0	69	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573325--1573373	18	2.8	17	72	6	53	18	4	12	65	1.41
1587328--1587366	18	2.2	18	90	0	60	35	20	2	41	1.66
1590778--1590807	2	15.0	2	100	0	60	50	0	0	50	1.00
1590821--1590876	26	2.4	24	78	18	64	41	3	8	46	1.52
1592053--1592127	29	2.6	29	86	0	105	34	38	1	25	1.64
1592486--1592542	23	2.5	23	82	2	62	71	3	15	8	1.24
1595360--1595408	24	2.0	25	84	11	66	36	4	4	55	1.38
1596641--1596720	29	2.7	29	90	1	115	37	41	0	21	1.53
1596641--1596684	23	1.9	23	85	0	61	38	45	0	15	1.47
1597169--1597229	7	8.7	7	87	10	81	77	0	22	0	0.78

Tables:   1   2   3   4   5   6   7   8   9