genome.fa.s5606.2.7.7.80.10.50.1000.5.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: VEPZ01005606.1 Hibiscus syriacus cultivar Beakdansim tig00013040_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3509357

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  5  of  11  ( 1295 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)
1326547--1326802	45	5.7	45	85	2	219	40	9	19	30	1.84
1326547--1326802	90	2.8	90	82	3	300	40	9	19	30	1.84
1326586--1326810	45	5.0	44	84	4	220	41	8	18	31	1.81
1326584--1326845	90	2.9	86	76	12	242	43	8	16	31	1.78
1326584--1326841	135	1.9	134	81	4	313	43	8	17	31	1.79
1332832--1332982	79	1.9	79	83	2	196	35	9	23	31	1.88
1332960--1333175	45	4.8	45	91	2	344	39	10	21	28	1.86
1332960--1333214	135	1.9	135	83	4	336	41	9	19	29	1.83
1339168--1339536	44	8.4	44	85	2	465	42	12	19	25	1.86
1345051--1345124	38	1.9	38	91	0	121	24	33	8	33	1.85
1346206--1346253	22	2.2	22	96	0	87	39	22	0	37	1.55
1351277--1351545	139	1.9	138	90	0	430	30	24	10	35	1.88
1352626--1352655	15	2.0	15	93	0	51	16	20	0	63	1.31
1354479--1354522	18	2.4	19	88	3	63	54	11	2	31	1.48
1359117--1359180	24	2.7	24	85	0	83	42	15	15	26	1.87
1361117--1361215	34	2.9	34	72	15	96	48	7	2	42	1.42
1361117--1361283	64	2.5	68	81	9	200	47	5	4	42	1.45
1364636--1364890	137	1.9	137	86	3	370	24	13	19	43	1.86
1371155--1371408	137	1.9	137	89	1	402	25	13	18	42	1.87
1392423--1392577	58	2.6	59	92	4	260	33	19	10	36	1.87
1392797--1392862	28	2.4	28	97	0	123	40	15	4	39	1.67
1393018--1393069	20	2.6	21	84	9	72	19	28	17	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1396992--1397026	18	1.9	18	100	0	70	11	17	20	51	1.75
1396995--1397034	18	2.2	18	86	0	53	20	17	15	47	1.83
1398245--1398293	23	2.0	25	84	7	66	55	8	0	36	1.30
1398754--1398911	58	2.7	58	89	1	244	34	18	12	34	1.89
1400329--1400412	44	1.9	44	90	4	134	28	19	9	42	1.82
1404287--1404333	20	2.4	19	86	13	60	25	14	8	51	1.71
1411656--1411689	13	2.6	13	95	0	59	20	14	17	47	1.83
1422995--1423042	19	2.4	21	82	10	64	64	10	20	4	1.41
1442604--1442645	20	2.1	20	100	0	84	50	4	0	45	1.23
1442624--1442767	78	1.9	78	85	7	204	40	11	5	43	1.64
1446232--1446282	23	2.2	23	100	0	102	27	19	21	31	1.97
1451685--1451797	56	2.0	56	100	0	226	31	17	16	33	1.93
1458819--1459527	356	2.0	353	98	1	1366	38	10	18	33	1.84
1480811--1480852	21	2.0	20	86	13	59	50	9	16	23	1.75
1485827--1485897	27	2.6	27	91	4	108	11	32	12	43	1.78
1499321--1499379	29	2.1	28	84	9	75	62	3	15	18	1.45
1511379--1511495	61	1.9	61	92	0	198	17	17	23	41	1.90
1511426--1511662	41	5.8	41	92	2	293	15	18	25	41	1.89
1511443--1511514	21	3.5	21	71	3	74	18	18	29	34	1.94
1511528--1511635	21	5.2	21	66	16	82	14	19	25	39	1.90
1511744--1511776	6	5.5	6	92	0	57	33	48	15	3	1.60
1512505--1512531	6	4.5	6	100	0	54	0	14	51	33	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1512617--1512706	20	4.4	20	76	13	103	42	23	22	12	1.87
1512617--1512747	61	2.1	61	95	0	235	42	22	21	12	1.87
1512617--1512787	20	8.4	20	68	11	96	42	23	21	12	1.87
1512617--1512870	61	4.1	61	73	10	221	41	24	20	13	1.88
1512678--1512911	41	5.7	41	89	0	369	41	24	20	13	1.88
1526095--1526134	21	1.9	21	94	0	71	30	30	15	25	1.95
1526095--1526260	64	2.5	64	82	12	178	31	25	15	26	1.96
1526276--1526324	19	2.6	19	84	9	57	24	30	18	26	1.98
1532124--1532203	24	3.5	22	77	14	83	22	25	23	28	1.99
1534754--1534793	21	1.9	21	94	0	71	32	30	15	22	1.94
1534819--1534857	19	2.1	19	90	0	60	20	35	17	25	1.95
1534754--1534918	64	2.5	65	82	4	199	32	26	16	24	1.96
1538741--1539204	228	2.0	228	99	0	919	30	9	16	43	1.80
1557859--1557904	20	2.3	19	85	14	58	50	8	15	26	1.73
1562732--1562774	17	2.3	19	80	19	63	46	20	11	20	1.82
1562739--1562774	17	2.1	17	100	0	72	47	22	11	19	1.80
1566996--1567133	69	2.0	69	100	0	276	30	20	11	37	1.88
1569451--1569600	78	2.0	75	81	9	178	44	2	11	42	1.54
1579820--1579878	29	2.1	28	84	9	75	61	1	11	25	1.40
1581476--1581531	22	2.5	22	85	2	67	35	12	33	17	1.88
1595381--1595522	76	1.9	76	83	2	187	40	16	2	40	1.63
1603467--1603624	77	2.0	78	97	2	300	42	10	17	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1615078--1615123	20	2.3	19	85	14	58	50	8	15	26	1.73
1625383--1625428	20	2.3	19	85	14	58	50	8	15	26	1.73
1644788--1644846	29	2.1	28	84	9	75	62	5	13	18	1.48
1661696--1661743	24	2.0	24	88	8	71	33	20	22	22	1.97
1674967--1675225	6	43.8	6	96	3	490	16	0	50	33	1.46
1676524--1676795	134	2.0	134	100	0	544	30	8	25	35	1.85
1680017--1680067	23	2.1	25	85	7	70	76	1	0	21	0.88
1680024--1680068	18	2.6	18	89	3	65	75	0	0	24	0.80
1682825--1683184	184	2.0	184	94	1	641	41	14	14	29	1.85
1683159--1683205	21	2.2	21	96	0	85	34	4	12	48	1.61
1686697--1686754	25	2.3	25	90	0	89	15	27	18	37	1.92
1686697--1686785	25	3.6	25	77	7	83	20	23	19	37	1.94
1687816--1687861	15	2.9	16	80	6	58	21	8	21	47	1.77
1687816--1687857	16	2.7	16	85	3	50	23	9	21	45	1.81
1690731--1690783	27	2.0	27	92	0	88	64	3	1	30	1.22
1691245--1691285	13	3.2	13	76	16	50	56	0	0	43	0.99
1691238--1691299	25	2.5	25	82	12	83	58	0	0	41	0.98
1691240--1691308	23	3.0	24	83	14	83	57	0	0	42	0.98
1691238--1691333	26	3.8	25	77	12	72	55	0	0	44	0.99
1691353--1691417	22	3.0	21	72	16	60	46	3	1	49	1.27
1691429--1691529	30	3.3	31	77	15	84	49	0	1	48	1.12
1691429--1691502	30	2.3	33	80	17	86	44	0	2	52	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1691473--1691518	23	2.0	24	82	4	58	56	0	2	41	1.11
1691519--1691988	229	2.0	233	90	2	743	47	6	4	41	1.50
1693269--1693340	38	1.9	36	83	10	92	43	12	16	27	1.84
1697431--1697475	15	3.0	15	83	6	56	37	4	2	55	1.32
1700146--1700192	23	2.0	24	83	4	60	72	2	2	23	1.06
1700165--1700224	17	3.5	16	78	13	66	63	1	0	35	1.05
1700167--1700225	16	3.5	16	74	19	57	62	1	0	35	1.05
1700166--1700224	18	3.3	18	73	17	61	64	1	0	33	1.04
1702778--1702946	47	3.7	46	83	8	202	33	20	7	38	1.80
1703051--1703172	40	3.0	40	92	0	208	32	27	15	24	1.95
1706870--1706974	29	3.6	28	81	13	115	0	18	0	80	0.83
1706875--1706987	35	3.2	35	83	6	138	1	16	0	80	0.85
1706878--1706974	6	16.3	6	80	14	112	0	18	1	80	0.77
1709296--1709351	22	2.5	23	85	2	78	41	16	23	19	1.90
1709831--1710002	47	3.8	45	84	6	229	33	22	6	37	1.81
1709831--1710002	94	1.9	90	87	4	254	33	22	6	37	1.81
1710107--1710228	40	3.0	40	93	2	201	33	26	14	25	1.94
1717746--1717793	17	3.0	15	77	14	51	56	27	2	14	1.50
1725999--1726030	3	11.0	3	93	6	57	0	34	0	65	0.93
1726763--1726800	16	2.4	16	95	0	67	23	10	10	55	1.65
1727253--1727515	136	1.9	137	84	3	352	25	14	17	42	1.87
1731413--1732004	55	10.8	55	87	1	794	28	19	18	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1735742--1735785	23	1.9	23	95	0	79	22	6	34	36	1.81
1737373--1738018	55	11.8	55	89	0	920	29	18	17	34	1.94
1738354--1738380	2	13.5	2	100	0	54	51	0	0	48	1.00
1742666--1742918	136	1.9	137	85	2	357	24	13	18	42	1.87
1743999--1744030	2	17.0	2	87	12	50	50	0	0	50	1.00
1747439--1747501	2	32.0	2	96	3	119	50	0	0	49	1.00
1749234--1749273	21	1.9	21	89	0	62	10	12	12	65	1.49
1753076--1753137	25	2.5	25	84	10	74	33	11	1	53	1.46
1757189--1757229	21	2.0	21	85	0	55	29	9	26	34	1.88
1757976--1758011	16	2.2	17	90	5	56	36	2	19	41	1.66

Tables:   1   2   3   4   5   6   7   8   9   10   11