genome.fa.s9036.2.7.7.80.10.50.1000.7.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: VEPZ01009036.1 Hibiscus syriacus cultivar Beakdansim tig00112443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1934717

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1002 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)
1248998--1249030	16	2.1	16	100	0	66	57	24	12	6	1.57
1249093--1249149	16	3.6	16	90	0	78	61	17	12	8	1.55
1251617--1251649	17	1.9	17	93	0	57	66	6	0	27	1.15
1251619--1251698	27	2.9	27	76	9	74	62	7	3	26	1.39
1251628--1251698	28	2.5	29	77	8	76	63	8	4	23	1.40
1253728--1254210	55	8.8	55	81	4	467	30	24	14	30	1.94
1253758--1254210	165	2.8	165	84	2	547	30	24	13	31	1.94
1253747--1254214	110	4.3	109	84	3	539	30	24	14	30	1.94
1254351--1254454	40	2.6	40	80	7	104	33	22	16	27	1.95
1254474--1254702	37	6.2	37	91	0	359	20	21	15	41	1.89
1257229--1257423	99	2.0	100	90	2	311	31	18	16	33	1.93
1262095--1262159	26	2.4	27	76	14	73	61	7	4	26	1.43
1264433--1264499	31	2.2	30	82	15	75	50	5	10	32	1.61
1265428--1265472	23	2.0	23	83	16	58	55	6	8	28	1.56
1272659--1272717	27	2.1	27	81	12	66	47	8	11	32	1.70
1279036--1279078	18	2.4	18	80	0	50	11	11	13	62	1.54
1279266--1279299	14	2.4	14	90	0	50	5	5	17	70	1.28
1279321--1279401	37	2.2	37	100	0	162	39	17	16	27	1.90
1288645--1288870	103	2.2	103	93	1	391	26	13	23	36	1.92
1288887--1288930	23	1.9	23	95	0	79	18	27	27	27	1.98
1288886--1288941	23	2.5	22	85	8	76	17	25	26	30	1.97
1294525--1294577	22	2.4	22	75	12	54	32	9	20	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296574--1296618	19	2.3	20	88	3	65	64	0	2	33	1.06
1296621--1296664	15	3.1	14	84	12	54	59	2	0	38	1.10
1298036--1298078	3	14.0	3	85	4	59	69	0	0	30	0.88
1300316--1300371	21	2.7	21	88	0	85	7	32	37	23	1.82
1301952--1301983	14	2.3	14	100	0	64	50	0	25	25	1.50
1303491--1303524	17	2.0	17	88	11	52	29	5	0	64	1.17
1306535--1306573	14	2.8	14	85	11	53	15	20	5	58	1.55
1309479--1309531	16	3.2	16	76	12	63	73	0	22	3	0.99
1309462--1309531	32	2.2	32	87	7	97	74	0	21	4	0.99
1311648--1311981	114	2.9	114	91	1	546	32	15	20	31	1.94
1313870--1314025	54	3.0	53	85	5	203	37	16	22	23	1.93
1314327--1314379	22	2.5	21	85	8	81	35	11	15	37	1.83
1314928--1315296	186	2.0	185	95	1	659	31	14	14	39	1.86
1315497--1315544	3	15.3	3	82	8	60	37	0	0	62	0.95
1315498--1315541	16	2.5	17	85	14	63	36	0	0	63	0.95
1315497--1315544	13	3.7	14	84	13	59	37	0	0	62	0.95
1315509--1315544	16	2.2	16	100	0	72	33	0	0	66	0.92
1315497--1315544	19	2.6	18	83	9	60	37	0	0	62	0.95
1316793--1316826	17	2.0	17	88	11	52	29	5	0	64	1.17
1317196--1317252	29	2.0	29	82	6	71	50	1	0	47	1.11
1330444--1330488	18	2.5	17	86	10	63	71	0	2	26	0.98
1330604--1330664	31	1.9	32	83	3	79	26	8	9	55	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332283--1332323	21	2.0	21	90	0	64	29	21	17	31	1.96
1332937--1333007	24	3.0	24	81	2	81	30	23	23	21	1.99
1340701--1340861	60	2.7	60	77	8	175	33	21	3	40	1.71
1350799--1350864	31	2.2	30	89	5	105	21	27	13	37	1.91
1352207--1352281	23	3.2	23	84	1	96	33	22	20	24	1.97
1352288--1352505	103	2.1	103	94	0	382	37	23	12	25	1.91
1353207--1353248	22	2.0	21	90	4	66	7	26	38	28	1.82
1356881--1356987	39	2.7	39	76	0	106	28	27	19	25	1.99
1357340--1357722	103	3.7	101	74	12	307	32	2	11	52	1.52
1357322--1357901	310	1.9	304	81	11	694	32	2	11	53	1.51
1364131--1364189	31	1.9	31	89	0	91	40	16	15	27	1.89
1366147--1366185	18	2.0	20	85	9	55	35	0	7	56	1.28
1366446--1366484	21	1.9	20	89	5	60	15	38	25	20	1.92
1370908--1370998	45	2.0	46	91	2	148	29	19	23	27	1.98
1373718--1373797	22	3.6	22	79	5	99	23	25	26	25	2.00
1373696--1373816	43	2.8	42	77	11	129	22	22	28	27	1.99
1373722--1373816	21	4.4	21	77	9	86	24	22	26	27	2.00
1377510--1377549	21	1.9	21	84	0	53	30	10	5	55	1.54
1377606--1377645	21	1.9	21	89	0	62	30	7	7	55	1.56
1379247--1379343	46	2.1	46	100	0	194	45	8	19	26	1.78
1382625--1382663	18	2.0	20	85	9	55	35	0	7	56	1.28
1384494--1384557	23	2.8	23	79	13	69	25	26	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1386790--1386828	18	2.0	20	85	9	55	35	0	7	56	1.28
1388984--1389042	27	2.2	27	90	0	91	44	10	3	42	1.55
1391913--1391955	11	3.8	11	75	6	50	51	0	0	48	1.00
1392021--1392113	46	2.0	45	85	8	125	38	11	2	47	1.52
1392797--1392829	16	2.0	17	94	5	59	6	30	0	63	1.18
1393297--1393430	66	2.1	65	91	2	216	32	24	28	14	1.95
1394039--1394098	23	2.6	23	97	0	111	18	26	31	23	1.97
1400079--1400121	21	2.0	21	81	0	50	30	30	25	13	1.94
1400101--1400252	67	2.3	67	89	3	225	30	27	26	15	1.96
1400842--1400901	23	2.6	23	97	0	111	18	26	31	23	1.97
1408149--1408177	2	14.5	2	100	0	58	48	0	0	51	1.00
1408092--1408229	73	1.9	71	84	11	183	33	2	3	60	1.29
1408256--1408321	23	2.8	24	74	19	68	16	16	1	65	1.36
1419675--1419731	21	2.7	21	73	10	62	22	14	29	33	1.93
1421132--1421192	28	2.1	29	93	3	106	32	14	11	40	1.82
1430858--1430963	43	2.4	44	85	1	142	28	29	23	18	1.98
1430861--1430963	22	4.7	22	85	2	136	28	29	24	18	1.98
1431551--1431635	45	1.9	45	85	2	118	27	12	21	38	1.90
1434368--1434400	16	2.1	16	100	0	66	45	18	0	36	1.49
1436670--1436727	23	2.8	21	84	12	75	18	25	34	20	1.96
1449162--1449245	42	1.9	45	85	7	120	59	1	1	38	1.13
1449159--1449228	17	4.5	16	76	16	67	60	1	0	38	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1449171--1449245	13	5.5	12	70	23	51	58	1	1	38	1.15
1452709--1452748	19	2.0	20	86	13	57	55	0	0	45	0.99
1452919--1452963	20	2.2	21	84	11	58	57	0	0	42	0.98
1452630--1453053	211	2.0	212	96	3	784	45	9	6	38	1.62
1461015--1461079	32	2.1	31	85	2	85	43	20	21	15	1.88
1462476--1462506	15	2.1	15	93	0	53	54	0	0	45	0.99
1462565--1462608	22	2.0	22	91	4	72	45	4	0	50	1.22
1472563--1472626	21	3.0	21	79	4	74	31	21	21	25	1.98
1492434--1492464	13	2.4	13	94	0	53	12	32	29	25	1.93
1494018--1494066	19	2.6	19	96	0	89	22	28	24	24	1.99
1504556--1504607	22	2.4	22	76	0	59	30	7	21	40	1.81
1506613--1506670	16	3.6	16	92	0	98	17	27	15	39	1.90
1506918--1506964	14	3.7	14	71	26	50	44	0	4	51	1.21
1506917--1506966	23	2.1	24	96	3	93	48	0	4	48	1.20
1507130--1507200	7	10.3	7	76	3	63	22	0	30	46	1.52
1507134--1507200	14	4.9	14	75	3	73	22	0	31	46	1.52
1507284--1507340	2	28.0	2	81	10	62	43	1	5	49	1.35
1507290--1507340	19	2.6	19	93	3	84	43	1	5	49	1.38
1507275--1507324	25	2.0	25	96	0	91	44	0	6	50	1.26
1507332--1507365	14	2.2	16	90	10	54	41	11	2	44	1.56
1507693--1507770	28	2.8	28	78	3	77	21	0	29	48	1.50
1507700--1507767	35	1.9	35	82	5	84	23	0	26	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1507946--1507983	16	2.4	16	90	0	58	47	13	2	36	1.56
1508203--1508276	19	3.5	19	74	25	76	28	24	0	47	1.52
1508189--1508276	46	2.0	44	88	8	133	27	23	0	48	1.51
1508352--1508456	34	3.3	32	73	17	85	41	2	4	50	1.38
1508421--1508544	13	9.6	13	71	13	87	43	3	5	47	1.43
1508475--1508534	18	3.3	18	84	11	68	46	1	5	46	1.34
1521234--1521270	19	2.0	19	89	5	58	59	10	24	5	1.52
1526466--1526572	55	1.9	55	94	0	187	24	27	16	31	1.96
1527274--1527318	21	2.2	21	84	4	56	57	11	6	24	1.57
1527463--1527546	35	2.4	35	95	2	150	60	7	9	22	1.52

Tables:   1   2   3   4   5   6   7   8   9