genome.fa.s8011.2.7.7.80.10.50.1000.7.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: VEPZ01008011.1 Hibiscus syriacus cultivar Beakdansim tig00110474_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1648842

Tables:   1   2   3   4   5   6   7   

This is table  7  of  7  ( 811 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)
1357469--1357988	41	12.7	41	76	4	388	27	18	19	35	1.95
1357522--1357709	79	2.3	82	80	7	222	28	17	18	36	1.93
1358856--1358940	41	2.1	40	86	6	118	12	22	31	32	1.92
1360209--1360357	65	2.3	66	89	4	221	28	28	27	14	1.95
1360970--1361029	23	2.6	23	89	0	93	20	25	30	25	1.99
1363009--1363043	16	2.2	16	94	0	61	17	14	34	34	1.90
1367086--1367128	21	2.0	21	81	0	50	30	30	25	13	1.94
1367108--1367257	67	2.3	67	91	3	241	29	28	27	14	1.95
1367869--1367928	23	2.6	23	94	0	102	18	25	31	25	1.97
1371017--1371223	43	4.8	43	83	1	254	26	22	18	32	1.97
1371025--1371223	85	2.3	85	86	3	265	26	21	18	33	1.96
1377369--1377972	324	1.9	323	98	1	1165	24	16	16	42	1.88
1382324--1382382	29	2.0	29	90	6	93	44	16	13	25	1.85
1392073--1392130	21	2.8	21	94	0	107	65	13	8	12	1.47
1400386--1400427	21	2.0	21	90	0	66	50	2	9	38	1.48
1407872--1408048	60	3.0	59	81	4	205	36	18	3	41	1.69
1408179--1408287	29	3.8	29	66	8	69	43	4	17	34	1.70
1411229--1411300	30	2.4	30	86	2	92	40	36	4	19	1.71
1411340--1411368	13	2.2	13	100	0	58	41	0	0	58	0.98
1419338--1419392	2	27.5	2	92	0	92	45	0	3	50	1.19
1421396--1421420	2	12.5	2	100	0	50	52	0	0	48	1.00
1462949--1462994	15	2.9	16	77	6	58	43	0	4	52	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1473645--1473692	21	2.3	20	89	6	78	56	8	18	16	1.65
1473433--1473904	182	2.6	182	88	3	675	42	13	16	27	1.86
1473816--1473871	20	2.8	19	76	7	58	55	8	14	21	1.66
1476092--1476156	21	3.1	21	88	0	94	43	10	29	16	1.82
1476189--1476254	33	2.0	33	90	0	105	28	0	48	22	1.51
1478044--1478092	19	2.6	19	96	0	89	32	2	10	55	1.45
1478216--1479395	200	5.9	200	92	3	1931	36	13	17	32	1.89
1480863--1480897	12	2.9	12	91	0	61	37	11	34	17	1.85
1480858--1480915	24	2.4	24	85	0	71	37	8	32	20	1.83
1480875--1480915	15	2.7	15	80	0	55	36	7	34	21	1.82
1482117--1483606	183	8.1	183	94	1	2531	35	14	16	33	1.89
1486445--1486509	23	2.8	23	92	0	103	40	3	21	35	1.69
1486454--1486518	23	2.8	22	90	4	94	35	4	21	38	1.74
1492421--1492462	22	2.0	21	86	13	59	23	33	23	19	1.97
1493171--1493250	23	3.4	24	77	17	96	32	26	25	16	1.96
1495660--1495745	33	2.9	28	74	16	82	52	11	3	32	1.55
1497518--1498178	51	12.7	54	93	2	345	27	26	15	29	1.96
1497630--1498188	51	10.9	51	96	0	974	27	27	15	29	1.96
1497523--1498188	153	4.3	153	92	2	974	28	26	15	29	1.96
1499508--1499602	18	5.2	19	71	17	60	5	21	0	73	1.02
1499513--1499558	20	2.2	20	88	7	65	4	21	0	73	1.00
1499552--1499592	21	1.9	22	90	5	66	4	24	0	70	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1499506--1499585	33	2.4	34	79	10	85	6	22	0	71	1.08
1499552--1499592	22	1.9	21	85	5	55	4	24	0	70	1.06
1499520--1499624	54	1.9	54	81	11	126	5	21	0	71	1.13
1499599--1499646	18	2.6	17	84	15	53	8	18	2	70	1.22
1510920--1511005	33	2.9	28	74	16	82	52	11	3	32	1.55
1512674--1512776	45	2.3	45	100	0	206	33	18	15	32	1.92
1512719--1512929	64	3.3	64	83	5	257	34	20	17	27	1.95
1513676--1513893	103	2.1	103	97	0	409	25	13	23	36	1.92
1513910--1513972	23	2.7	23	90	0	90	20	28	25	25	1.99
1518410--1518630	64	3.5	64	81	4	250	33	19	18	29	1.95
1519382--1519599	103	2.1	103	97	0	409	25	13	23	36	1.92
1519616--1519678	23	2.7	23	87	0	81	20	26	25	26	1.99
1523632--1523671	2	20.0	2	100	0	80	50	0	0	50	1.00
1526154--1526233	23	3.4	24	74	17	87	32	25	25	17	1.97
1544860--1544938	33	2.3	34	85	8	108	63	15	1	20	1.38
1545404--1545471	33	2.1	33	83	5	84	22	17	42	17	1.89
1547221--1547268	16	2.9	16	79	14	53	62	2	0	35	1.07
1547249--1547291	22	1.9	23	86	13	63	67	4	0	27	1.10
1547669--1547700	2	16.0	2	100	0	64	50	0	0	50	1.00
1547772--1547806	17	2.0	18	94	5	63	11	17	5	65	1.43
1556512--1556573	31	2.1	28	82	14	72	35	3	1	59	1.23
1556604--1556666	26	2.4	28	78	10	69	39	3	0	57	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1556658--1556750	29	3.1	28	77	9	96	37	5	2	54	1.35
1556619--1556750	64	2.1	60	80	13	135	40	5	1	52	1.33
1556875--1556931	29	2.0	29	92	0	96	64	3	3	28	1.26
1558009--1558070	31	2.0	31	87	3	90	56	11	3	29	1.50
1558664--1558706	18	2.5	18	85	7	54	23	4	2	69	1.18
1579580--1579833	108	2.4	108	85	1	321	38	12	11	37	1.78
1580074--1580140	21	3.5	20	65	23	54	32	10	19	37	1.86
1580727--1580921	76	2.5	77	88	3	295	30	14	15	40	1.87
1580837--1581127	100	2.9	100	89	1	431	32	13	14	39	1.84
1581043--1581283	76	3.1	79	82	8	282	34	13	11	41	1.80
1581037--1581283	80	3.2	79	81	7	276	33	13	11	41	1.80
1580572--1581375	356	2.3	352	84	3	1053	33	12	13	41	1.81
1581132--1581449	176	1.8	176	86	2	460	33	12	11	43	1.78
1581293--1581527	76	3.1	75	90	2	364	30	13	11	43	1.80
1581818--1581978	69	2.3	70	81	6	193	31	8	12	47	1.70
1583096--1583142	25	1.9	25	87	12	71	42	0	2	55	1.12
1597984--1598033	2	25.0	2	100	0	100	50	0	0	50	1.00
1604075--1604124	2	25.0	2	100	0	100	50	0	0	50	1.00
1604771--1604846	36	2.1	36	85	7	100	47	1	3	47	1.29
1604992--1605029	20	1.9	20	88	0	58	21	26	10	42	1.85
1618582--1618606	12	2.1	12	100	0	50	48	0	0	52	1.00
1627895--1627919	3	8.3	3	100	0	50	0	36	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1635270--1635332	20	2.9	21	79	9	65	15	25	34	23	1.95
1639144--1639183	21	1.9	21	85	10	55	35	10	2	52	1.48
1642236--1642306	35	2.0	35	100	0	142	29	25	16	28	1.97

Tables:   1   2   3   4   5   6   7

The End!