genome.fa.s9067.2.7.7.80.10.50.1000.7.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: VEPZ01009067.1 Hibiscus syriacus cultivar Beakdansim tig00112491_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2329927

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

This is table  7  of  10  ( 1150 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)
1316672--1316701	15	2.0	15	93	0	51	36	3	6	53	1.44
1316870--1316921	2	26.5	2	88	3	79	48	0	0	51	1.00
1317797--1317834	18	2.1	19	90	5	60	55	0	7	36	1.29
1328324--1328363	21	2.0	21	85	5	55	25	35	10	30	1.88
1334072--1334119	2	24.5	2	82	4	53	50	4	4	41	1.41
1337646--1337673	2	14.0	2	100	0	56	50	0	0	50	1.00
1340192--1340219	4	7.0	4	100	0	56	25	0	25	50	1.50
1351231--1351274	22	2.0	22	100	0	88	22	27	9	40	1.84
1351950--1351996	24	2.0	24	91	0	76	31	6	27	34	1.82
1363725--1366581	4	724.2	4	96	2	5357	49	25	0	24	1.50
1367172--1367204	17	1.9	17	93	0	57	45	18	21	15	1.85
1374893--1374938	19	2.3	20	81	7	58	28	30	17	23	1.97
1375632--1375855	41	5.5	41	88	3	330	37	24	20	16	1.93
1375682--1375748	20	3.3	20	67	19	57	38	23	23	13	1.91
1375632--1375855	80	2.8	81	85	4	319	37	24	20	16	1.93
1382942--1382984	21	2.0	21	95	0	77	27	16	9	46	1.77
1388743--1388828	42	2.1	41	84	2	109	24	29	16	30	1.96
1388802--1388874	21	3.5	21	79	7	85	20	31	23	24	1.98
1389529--1389573	14	3.2	14	96	0	81	55	15	2	26	1.52
1389661--1389723	23	2.7	23	95	0	108	33	17	0	49	1.47
1393956--1393997	21	2.0	21	95	0	75	26	28	21	23	1.99
1394196--1394255	29	2.0	31	90	6	97	41	16	6	35	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1396026--1396070	2	22.5	2	100	0	90	48	0	0	51	1.00
1398468--1398527	22	2.7	22	82	12	77	43	0	0	56	0.99
1398477--1398537	19	3.0	20	83	9	70	45	0	0	54	1.00
1398861--1398896	11	3.4	11	92	3	56	52	0	0	47	1.00
1398934--1399051	61	2.0	60	86	5	166	22	31	24	21	1.98
1400556--1400580	2	12.5	2	100	0	50	52	0	0	48	1.00
1400989--1401013	2	12.5	2	100	0	50	52	0	0	48	1.00
1403842--1403868	2	13.5	2	100	0	54	51	0	0	48	1.00
1403939--1403986	2	23.5	2	95	4	87	50	0	2	47	1.12
1409101--1409128	3	9.3	3	100	0	56	35	0	0	64	0.94
1414253--1414318	28	2.4	26	82	7	78	19	7	4	68	1.32
1414222--1414331	48	2.3	46	79	13	118	19	10	7	62	1.50
1419275--1419436	54	3.0	53	86	1	225	37	13	20	28	1.91
1419797--1419919	22	5.6	22	84	1	131	36	12	10	40	1.77
1419796--1419925	66	2.0	66	83	8	167	37	11	10	40	1.75
1420699--1420761	20	3.0	22	64	17	60	36	22	22	19	1.95
1420574--1420979	116	3.5	116	88	2	566	31	20	19	28	1.97
1421109--1421152	3	15.3	3	86	9	65	38	0	0	61	0.96
1421109--1421152	17	2.6	17	89	7	63	38	0	0	61	0.96
1421109--1421152	20	2.2	20	95	0	79	38	0	0	61	0.96
1423012--1423065	23	2.3	24	78	9	58	48	5	0	46	1.25
1424957--1425042	45	1.9	45	83	4	111	15	22	10	52	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1426905--1426945	14	2.9	14	86	10	57	34	7	24	34	1.83
1435377--1435622	123	2.0	123	88	3	370	31	24	9	33	1.88
1439953--1439982	13	2.2	14	94	5	53	70	3	13	13	1.30
1440892--1440921	13	2.2	14	94	5	53	70	3	13	13	1.30
1439613--1442253	940	2.8	941	93	0	4574	39	16	12	30	1.86
1443161--1443795	182	3.5	182	92	0	1002	28	16	13	42	1.85
1443701--1443747	20	2.3	20	85	0	67	17	17	12	53	1.73
1443666--1444128	112	4.1	112	92	0	730	26	14	13	45	1.82
1443666--1444128	225	2.1	223	91	0	746	26	14	13	45	1.82
1445961--1446002	2	21.0	2	100	0	84	50	0	0	50	1.00
1448304--1448330	14	1.9	14	100	0	54	37	0	11	51	1.37
1449669--1449711	18	2.4	18	100	0	86	32	30	9	27	1.88
1449938--1449966	13	2.1	14	93	6	51	6	20	3	68	1.27
1450108--1450157	20	2.5	20	86	0	64	38	22	16	24	1.93
1454364--1454396	13	2.4	14	95	5	59	30	0	21	48	1.50
1454375--1454525	65	2.4	64	86	3	207	29	2	17	50	1.59
1457444--1457477	16	2.1	16	88	0	50	64	0	5	29	1.17
1457636--1457714	20	4.0	20	74	12	72	34	13	21	30	1.92
1458390--1458420	15	2.1	15	93	0	53	54	0	0	45	0.99
1459475--1459530	28	1.9	30	82	13	73	19	5	16	58	1.56
1459653--1459695	22	2.0	22	95	0	77	27	16	11	44	1.82
1465925--1466376	182	2.5	182	89	1	690	27	15	12	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1466246--1466637	112	3.5	112	92	0	613	25	14	13	46	1.81
1466534--1466730	93	2.1	93	90	0	306	24	12	12	50	1.75
1466423--1466802	205	1.9	204	92	0	634	25	12	12	48	1.77
1470247--1470291	2	22.5	2	100	0	90	48	0	0	51	1.00
1481700--1481738	12	3.4	11	83	13	51	69	0	28	2	1.02
1481708--1481742	14	2.5	14	95	0	61	68	0	31	0	0.90
1482047--1482074	14	2.0	14	100	0	56	7	35	14	42	1.73
1484290--1484328	12	3.4	11	83	13	51	69	0	28	2	1.02
1484298--1484332	14	2.5	14	95	0	61	68	0	31	0	0.90
1486431--1486486	26	2.2	26	93	0	94	28	35	17	17	1.93
1486488--1486559	29	2.5	29	93	0	117	12	37	29	20	1.90
1488114--1488152	6	6.5	6	93	0	69	17	0	64	17	1.30
1489494--1489561	22	3.0	22	97	2	127	26	27	26	19	1.99
1489855--1489927	29	2.5	29	88	2	101	39	10	9	39	1.73
1490230--1490382	70	2.2	69	87	4	213	16	28	27	26	1.97
1496441--1496508	22	3.0	22	97	2	127	26	27	26	19	1.99
1502624--1502691	22	3.0	22	95	2	118	26	26	26	20	1.99
1502985--1503057	29	2.5	29	90	2	110	38	12	9	39	1.76
1503359--1503508	68	2.3	67	88	3	214	17	27	28	27	1.98
1503359--1503530	67	2.6	67	85	6	215	17	27	27	27	1.98
1505276--1505368	30	3.1	30	78	6	98	34	21	17	26	1.95
1505501--1505538	17	2.1	19	90	9	62	36	10	5	47	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1506027--1506186	64	2.5	64	84	4	198	26	20	19	34	1.96
1509047--1509139	30	3.1	31	77	9	102	33	22	18	25	1.97
1509274--1509309	17	2.0	19	89	10	58	38	11	5	44	1.63
1509798--1509957	64	2.5	64	83	4	189	26	19	19	35	1.95
1512813--1512861	24	2.2	24	85	10	68	51	0	0	48	1.00
1513146--1513256	23	4.9	24	71	16	67	48	1	2	46	1.26
1517152--1517200	22	2.2	21	80	16	55	55	6	12	26	1.60
1520037--1520090	23	2.3	23	96	0	99	48	5	22	24	1.72
1524033--1524084	18	2.9	18	97	0	95	53	9	23	13	1.68
1531561--1531654	47	2.0	48	97	2	181	38	8	15	37	1.79
1544197--1544223	2	13.5	2	100	0	54	48	0	0	51	1.00
1548582--1548698	61	1.9	60	85	1	162	19	23	32	23	1.98
1549221--1549278	20	2.8	20	84	5	62	53	0	0	46	1.00
1552430--1552777	138	2.5	138	94	0	590	23	20	22	33	1.97
1552912--1553014	23	4.7	23	70	20	87	43	0	18	36	1.57
1552909--1553033	63	2.0	63	92	3	207	40	0	21	37	1.59
1552930--1553008	40	2.0	41	82	7	99	37	1	20	40	1.60
1553226--1553298	34	2.1	34	87	5	103	36	4	6	52	1.48
1553826--1553875	21	2.4	20	87	9	73	28	20	32	20	1.97
1553838--1553878	21	2.0	21	100	0	82	26	19	34	19	1.96
1555610--1555647	20	1.9	20	89	10	60	65	5	2	26	1.27
1555647--1555673	10	2.7	10	100	0	54	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557353--1557394	17	2.5	17	96	0	75	38	9	0	52	1.34
1557625--1557810	51	3.6	51	87	2	241	21	32	27	18	1.97
1561652--1561688	3	12.3	3	88	0	56	5	35	27	32	1.79
1563574--1563794	110	2.0	111	94	0	390	44	10	9	35	1.71
1563918--1563958	10	4.1	10	84	12	57	39	0	29	31	1.57
1564080--1564206	51	2.5	51	81	2	139	19	27	32	20	1.97
1564218--1564280	29	2.1	29	91	2	99	36	12	22	28	1.91
1564218--1564293	29	2.6	29	87	2	89	42	11	18	27	1.85
1565305--1565373	35	2.0	35	83	11	88	46	0	1	52	1.09
1566382--1566479	39	2.6	36	83	12	124	41	2	9	46	1.47

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