genome.fa.s8428.2.7.7.80.10.50.1000.29.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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   

This is table  29  of  30  ( 3508 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)
6674580--6674655	9	9.2	8	73	15	66	78	1	15	3	0.96
6674589--6674653	24	2.6	25	83	9	80	80	0	15	4	0.88
6674581--6674653	25	3.1	24	83	11	89	80	1	13	4	0.92
6674590--6674664	15	5.3	14	73	16	57	80	0	14	5	0.89
6674581--6674653	26	3.0	25	81	11	82	80	1	13	4	0.92
6675983--6676282	51	5.9	51	96	0	537	29	16	28	26	1.96
6682218--6682286	25	2.8	25	90	0	111	18	27	24	28	1.98
6682401--6682445	23	2.0	23	86	0	63	20	26	26	26	1.99
6684087--6684133	16	2.9	16	93	0	85	40	0	40	19	1.51
6685911--6686026	60	1.9	60	87	3	171	37	18	7	36	1.79
6687122--6687166	17	2.6	17	100	0	90	17	22	20	40	1.92
6687513--6687567	28	2.0	28	92	0	92	32	23	16	27	1.96
6689413--6689445	16	2.0	17	94	5	59	51	0	0	48	1.00
6691261--6691342	29	2.8	29	94	1	137	32	14	9	42	1.79
6696022--6696103	29	2.8	29	94	1	137	32	14	9	42	1.79
6699142--6699189	24	2.0	24	83	0	60	35	2	10	52	1.48
6699835--6699864	12	2.5	12	94	0	51	20	20	0	60	1.37
6699900--6699934	15	2.3	15	90	5	52	11	2	2	82	0.88
6701112--6701159	23	2.1	23	88	0	69	35	2	4	58	1.29
6705074--6705099	12	2.2	12	100	0	52	7	0	7	84	0.77
6705713--6705786	37	2.0	37	82	7	89	48	5	1	44	1.34
6711168--6711222	22	2.7	20	76	20	67	60	1	0	38	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6712122--6712158	2	18.5	2	100	0	74	51	0	0	48	1.00
6718407--6718578	54	3.2	54	89	0	229	19	27	31	20	1.97
6718451--6718607	54	2.9	54	86	4	158	21	28	31	19	1.97
6722675--6722717	15	2.9	15	89	0	68	62	18	11	6	1.50
6723282--6723315	3	11.3	3	100	0	68	32	0	0	67	0.91
6726967--6727090	61	2.0	63	96	3	234	32	19	23	25	1.98
6728798--6728829	16	2.0	16	100	0	64	31	18	18	31	1.95
6730276--6730439	82	2.0	83	93	4	287	30	12	14	42	1.83
6737078--6737168	36	2.6	36	83	8	109	32	37	12	17	1.87
6746423--6746529	38	2.9	38	84	4	130	48	0	18	32	1.49
6749870--6749996	60	2.1	60	86	2	175	33	22	6	37	1.80
6762823--6762880	29	2.0	29	89	0	89	24	8	31	36	1.85
6763052--6763102	21	2.4	21	90	6	77	68	7	0	23	1.15
6766585--6766632	19	2.5	19	90	6	71	68	0	2	29	1.01
6766590--6766627	7	5.7	7	81	12	53	68	0	2	28	1.03
6769742--6769775	2	17.0	2	100	0	68	50	0	0	50	1.00
6771950--6771979	15	2.0	15	93	0	51	50	13	30	6	1.67
6773765--6773840	21	3.4	21	66	16	62	30	5	9	55	1.54
6774692--6774918	113	2.0	113	91	0	364	31	14	17	37	1.89
6779274--6779304	15	2.1	15	100	0	62	32	6	32	29	1.83
6779534--6779574	21	1.9	22	85	5	57	24	17	17	41	1.89
6782099--6782217	60	2.0	60	83	3	150	28	15	18	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6782812--6782836	11	2.3	11	100	0	50	32	8	24	36	1.84
6783083--6783573	229	2.1	228	94	1	849	44	7	8	39	1.63
6783643--6784116	181	2.6	182	89	1	702	42	13	16	27	1.86
6784037--6784083	20	2.4	19	82	10	67	53	10	17	19	1.72
6784046--6784088	20	2.3	19	88	11	63	51	11	16	20	1.75
6786302--6786345	21	2.1	21	91	0	70	40	11	31	15	1.83
6786379--6786444	33	2.0	33	87	0	96	28	0	46	24	1.52
6788227--6788275	19	2.6	19	93	0	80	30	2	10	57	1.43
6788394--6789363	198	4.9	198	97	0	1782	36	14	17	31	1.90
6790819--6790895	12	6.4	12	89	0	100	36	9	33	20	1.85
6790816--6790895	18	4.4	18	82	0	97	37	8	33	20	1.83
6790816--6790907	6	15.3	6	79	0	76	39	7	33	19	1.80
6790819--6790910	12	7.4	12	84	7	85	38	7	33	20	1.81
6792105--6792138	16	2.1	16	88	0	50	47	8	20	23	1.78
6792500--6792572	23	3.2	23	88	0	101	34	4	21	39	1.73
6793140--6793379	122	2.0	119	91	2	390	34	13	17	35	1.89
6795851--6795915	25	2.6	25	80	0	85	35	9	13	41	1.77
6796263--6796335	23	3.2	23	84	0	92	34	4	20	41	1.72
6796607--6796656	25	2.0	25	96	0	91	26	8	22	44	1.80
6797040--6797076	18	2.1	18	89	0	56	32	5	10	51	1.60
6797345--6797431	39	2.2	39	93	4	149	49	20	12	17	1.79
6797852--6797922	21	3.3	21	80	7	79	33	4	22	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6798275--6798347	23	3.2	23	88	0	101	34	4	21	39	1.73
6797650--6799558	430	4.5	430	96	1	3478	41	7	11	38	1.71
6798705--6798777	23	3.2	23	88	0	101	34	4	21	39	1.73
6799135--6799195	23	2.7	23	94	0	104	36	4	22	36	1.76
6802738--6802863	60	2.1	60	85	2	164	34	14	15	35	1.88
6809221--6809284	31	2.1	31	87	0	92	51	10	3	34	1.53
6812315--6812350	2	18.0	2	100	0	72	50	0	0	50	1.00
6814447--6814537	29	3.1	29	95	0	164	15	31	34	18	1.92
6815153--6815196	21	2.1	21	91	0	70	29	0	15	54	1.42
6815166--6815232	28	2.4	28	83	11	93	34	0	10	55	1.34
6815731--6815774	21	2.0	22	91	4	72	29	0	11	59	1.32
6815736--6815780	21	2.2	21	84	4	56	35	0	6	57	1.25
6816041--6816099	26	2.3	25	75	18	66	47	8	3	40	1.51
6818980--6819465	26	19.2	26	77	12	395	43	2	9	44	1.50
6819060--6819099	19	2.1	19	95	0	71	35	0	17	47	1.48
6819034--6819125	45	2.0	45	83	8	116	41	2	13	43	1.55
6818961--6819278	108	3.0	108	91	6	489	42	2	11	43	1.54
6818977--6819405	124	3.4	129	87	10	584	44	2	10	43	1.52
6819085--6819446	150	2.4	150	93	2	615	43	2	9	44	1.49
6818980--6819465	14	36.1	14	69	18	182	43	2	9	44	1.50
6819111--6819449	124	2.8	123	84	9	392	43	2	9	44	1.48
6819418--6819491	38	1.9	38	83	5	96	45	4	5	44	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6819615--6819683	22	3.1	22	70	22	63	40	4	7	47	1.51
6819668--6819700	17	1.9	17	93	0	57	36	6	12	45	1.66
6821850--6821880	15	2.1	14	94	5	53	54	6	0	38	1.26
6821855--6821901	16	3.0	16	84	9	53	59	10	0	29	1.31
6821941--6822024	34	2.6	32	80	16	84	48	13	0	38	1.42
6822074--6822170	44	2.2	43	77	17	99	46	12	0	41	1.41
6822066--6822156	44	2.0	48	85	10	127	46	12	0	41	1.41
6822351--6822396	23	2.0	23	95	0	83	10	36	4	47	1.58
6822541--6822597	27	2.1	27	96	0	105	26	19	24	29	1.98
6822673--6822781	29	3.8	29	92	2	175	22	31	31	15	1.95
6822800--6822856	28	2.0	28	89	0	87	17	35	21	26	1.95
6822859--6822898	9	4.2	9	81	12	53	12	17	32	37	1.87
6822859--6822897	20	2.0	20	94	0	69	12	17	30	38	1.88
6830801--6830889	31	3.0	29	76	12	92	52	2	1	43	1.20
6830886--6830959	31	2.4	31	84	4	87	52	5	5	36	1.47
6835595--6835654	21	2.9	21	97	0	111	33	23	10	33	1.88
6835591--6835676	21	4.1	22	88	5	108	31	23	9	36	1.86
6842602--6842652	25	2.0	25	100	0	102	19	11	7	60	1.55
6843371--6843411	16	2.6	16	88	3	57	36	7	21	34	1.82
6843754--6843802	25	1.9	25	84	12	64	73	2	2	22	1.04
6843766--6843804	16	2.4	16	82	0	51	76	0	2	20	0.90
6845567--6845630	24	2.5	24	80	14	67	73	4	10	10	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6845867--6845920	20	2.7	19	76	17	56	66	1	1	29	1.12
6845869--6845922	23	2.5	20	81	18	65	66	1	1	29	1.12
6847327--6847369	20	2.1	21	87	12	63	55	0	0	44	0.99
6847584--6847625	20	2.1	20	90	0	66	33	16	23	26	1.96
6848004--6848827	105	7.8	105	95	0	1477	22	19	25	32	1.97
6849562--6849661	51	1.9	52	87	2	148	14	26	14	46	1.81
6860058--6860122	24	2.5	24	78	16	60	72	4	10	12	1.26
6860357--6860410	20	2.7	19	76	17	56	66	1	1	29	1.12
6860359--6860412	23	2.5	20	81	18	65	66	1	1	29	1.12
6861819--6861861	20	2.1	21	87	12	63	55	0	0	44	0.99

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