genome.fa.s7960.2.7.7.80.10.50.1000.34.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  34  of  39  ( 4646 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)
6507872--6507910	20	1.9	21	94	5	71	7	7	5	79	1.05
6507818--6507928	56	1.9	59	82	8	140	15	9	6	69	1.34
6507912--6508075	87	1.9	88	87	1	240	24	6	17	52	1.67
6508048--6508147	18	5.7	17	78	11	80	13	2	8	77	1.08
6508048--6508099	11	4.5	11	74	11	50	11	1	7	78	1.02
6508080--6508161	27	3.0	26	82	8	94	14	1	7	76	1.05
6508076--6508154	13	6.1	12	77	21	63	12	1	8	77	1.06
6508089--6508160	18	4.1	18	75	12	69	15	1	8	75	1.11
6513700--6513754	16	3.5	15	80	11	65	16	25	18	40	1.91
6513967--6514016	23	2.1	24	92	3	84	48	2	4	46	1.32
6514670--6514734	7	9.3	7	79	0	58	23	0	29	47	1.52
6514999--6515046	19	2.5	19	82	0	60	41	10	16	31	1.82
6515593--6515632	21	1.9	21	89	0	62	55	2	7	35	1.42
6519536--6519585	20	2.5	20	96	0	91	34	28	20	18	1.95
6522246--6522353	45	2.4	46	84	4	139	29	21	17	31	1.96
6523786--6523831	22	2.1	22	91	0	74	23	23	15	36	1.93
6524033--6524092	25	2.2	26	82	11	68	40	20	6	33	1.78
6525699--6525757	2	29.5	2	100	0	118	50	0	0	49	1.00
6526082--6526125	7	6.3	7	83	0	61	13	2	36	47	1.56
6526200--6526244	13	3.3	13	82	11	63	40	0	6	53	1.27
6526200--6526249	15	3.4	15	81	13	68	40	2	6	52	1.38
6526259--6526325	22	2.8	24	84	13	93	58	0	1	40	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6527083--6527109	13	2.1	13	100	0	54	55	0	0	44	0.99
6527083--6527125	13	3.1	14	86	6	52	55	0	2	41	1.12
6526292--6527346	401	2.6	402	96	0	1945	37	8	11	41	1.73
6527547--6527602	17	3.2	17	89	2	85	39	1	7	51	1.40
6527550--6527618	17	3.8	20	79	12	60	37	5	8	47	1.58
6527626--6527652	13	2.1	13	100	0	54	55	0	0	44	0.99
6527626--6527668	13	3.1	14	86	6	52	55	0	2	41	1.12
6528494--6528547	20	2.8	20	94	2	92	27	33	0	38	1.57
6528769--6528805	11	3.3	11	92	7	65	40	0	8	51	1.32
6528763--6528827	23	2.9	23	84	6	80	43	1	4	50	1.32
6530482--6530549	21	3.4	20	80	6	84	52	2	1	42	1.25
6531302--6531351	20	2.5	20	90	0	73	44	20	18	18	1.88
6531663--6531700	20	1.9	20	88	0	58	21	15	15	47	1.82
6531728--6531936	110	1.9	110	89	2	321	25	21	17	36	1.94
6531946--6531983	20	1.9	20	94	0	67	26	18	10	44	1.82
6532002--6532120	63	1.9	63	91	3	195	34	17	19	28	1.95
6532135--6532181	20	2.3	20	85	0	58	19	21	19	40	1.92
6532192--6532259	20	3.3	20	70	11	66	23	29	19	27	1.98
6532321--6532386	20	3.3	20	76	4	62	24	18	16	40	1.90
6532320--6532411	40	2.3	40	88	0	130	25	17	17	40	1.91
6532381--6532488	40	2.7	40	84	2	146	19	17	20	42	1.89
6532389--6532492	20	5.2	20	82	1	118	17	16	20	46	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6535282--6535314	2	17.0	2	93	6	59	48	0	0	51	1.00
6552839--6552864	12	2.2	12	100	0	52	7	53	0	38	1.30
6557422--6557484	20	2.9	21	79	9	65	17	25	34	22	1.95
6568000--6568040	12	3.4	12	82	0	55	53	0	2	43	1.13
6570012--6570078	23	3.2	23	61	30	58	22	7	20	49	1.74
6569999--6570080	40	2.0	40	100	0	164	25	7	23	43	1.79
6578918--6578973	27	2.1	27	93	0	94	37	12	30	19	1.89
6578923--6578980	27	2.1	27	90	0	89	36	12	34	17	1.87
6579357--6579394	2	19.5	2	89	5	60	55	0	0	44	0.99
6589760--6589831	32	2.3	30	76	9	74	51	1	0	47	1.09
6590574--6590668	49	1.9	49	91	0	154	16	37	31	13	1.88
6590925--6590966	20	2.1	20	100	0	84	59	4	0	35	1.19
6592207--6592232	2	13.0	2	100	0	52	50	0	0	50	1.00
6603171--6603228	29	2.0	29	82	0	71	48	8	13	29	1.73
6605109--6605160	25	2.1	25	100	0	104	25	17	7	50	1.72
6613679--6613728	2	25.0	2	100	0	100	0	50	0	50	1.00
6614124--6614165	19	2.2	20	82	4	50	9	19	11	59	1.59
6620105--6620175	21	3.3	21	75	21	74	21	18	28	32	1.96
6620105--6620190	44	2.0	44	92	0	145	23	19	26	30	1.98
6621297--6621331	18	1.9	18	88	0	52	17	31	31	20	1.95
6621568--6621595	14	2.0	14	100	0	56	50	7	0	42	1.30
6626356--6626492	61	2.3	60	86	7	188	32	17	18	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6627755--6627783	2	14.5	2	100	0	58	48	0	0	51	1.00
6628522--6628569	5	9.2	5	80	8	51	60	2	0	37	1.09
6628522--6628569	16	3.1	15	76	8	51	60	2	0	37	1.09
6628800--6628825	2	13.0	2	100	0	52	50	0	0	50	1.00
6629109--6629484	85	4.4	86	71	8	214	50	5	16	27	1.68
6629109--6629462	43	8.2	43	70	9	175	50	5	17	27	1.68
6630705--6630774	16	4.2	16	69	5	50	28	1	7	62	1.30
6635002--6635144	61	2.4	60	86	8	193	31	17	17	33	1.93
6636401--6636441	2	20.5	2	100	0	82	48	0	0	51	1.00
6637185--6637232	5	9.2	5	80	8	51	60	2	0	37	1.09
6637185--6637232	16	3.1	15	76	8	51	60	2	0	37	1.09
6637463--6637488	2	13.0	2	100	0	52	50	0	0	50	1.00
6637772--6638145	85	4.4	86	71	8	219	50	5	16	27	1.68
6637772--6638123	43	8.2	43	70	8	180	49	5	17	27	1.69
6639360--6639429	16	4.2	16	69	5	50	28	1	7	62	1.30
6639344--6639454	49	2.2	49	80	4	116	28	3	7	60	1.40
6641762--6641799	20	1.9	20	88	0	58	68	5	2	23	1.23
6642664--6642732	17	4.2	16	69	14	52	28	1	5	63	1.26
6646526--6646751	103	2.2	103	92	4	393	26	13	23	36	1.92
6646750--6646827	23	3.3	23	81	1	93	24	20	23	32	1.98
6649691--6649727	19	1.9	19	88	0	56	40	8	16	35	1.78
6650768--6650805	19	2.0	19	94	0	67	21	23	13	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6650843--6651042	40	4.9	40	74	9	181	22	20	23	34	1.97
6650814--6651034	61	3.6	61	90	0	334	22	19	23	34	1.97
6650823--6651034	21	10.4	21	74	6	193	22	19	24	33	1.97
6650991--6651047	21	2.8	21	71	5	55	22	24	19	33	1.97
6651440--6651530	19	4.4	20	76	17	105	30	28	5	35	1.80
6651451--6651532	44	1.9	41	87	7	119	32	29	6	31	1.82
6651532--6651587	20	2.8	19	83	8	67	26	19	23	30	1.98
6653859--6653975	56	2.1	54	88	3	171	35	2	5	56	1.37
6654334--6654405	31	2.4	31	81	6	76	34	5	2	56	1.37
6655555--6655580	8	3.2	8	100	0	52	65	0	0	34	0.93
6655683--6655709	5	5.4	5	100	0	54	40	0	0	59	0.98
6656161--6656232	3	23.7	3	79	13	76	1	33	0	65	1.02
6658647--6658774	51	2.5	51	79	7	129	15	32	27	24	1.95
6673183--6673258	25	3.0	24	79	7	71	56	1	6	35	1.34
6674095--6674141	20	2.3	20	96	0	85	10	17	27	44	1.81
6677562--6677617	24	2.4	23	80	8	69	44	0	3	51	1.18
6677995--6678039	21	2.1	21	91	0	72	42	8	33	15	1.78
6678078--6678170	33	2.8	33	93	0	150	33	0	44	22	1.53
6678351--6678445	35	2.8	34	90	6	140	57	0	38	3	1.14
6678353--6678445	17	5.5	17	85	12	111	58	0	39	2	1.10
6680357--6682113	200	8.8	201	82	5	1979	37	14	16	31	1.89
6680357--6682089	401	4.3	400	82	4	1964	37	14	16	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6680357--6682074	601	2.9	601	89	2	2568	37	14	16	31	1.89
6684217--6684494	137	2.0	137	100	0	556	32	16	16	35	1.91
6685122--6685160	15	2.6	15	87	0	51	38	17	7	35	1.79
6685497--6685551	21	2.6	21	91	0	92	18	12	21	47	1.82
6685522--6686350	200	4.1	197	80	4	890	37	12	16	32	1.87
6690305--6691005	199	3.5	198	84	4	835	39	15	14	30	1.87
6691023--6691185	87	1.9	87	90	0	263	33	13	10	42	1.78
6697745--6697779	10	3.2	11	88	12	54	17	5	2	74	1.14
6700254--6700283	14	2.1	14	93	6	51	83	6	10	0	0.81
6705409--6705466	28	2.0	29	83	3	73	51	6	12	29	1.65

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39