genome.fa.s8243.2.7.7.80.10.50.1000.46.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   40   41   42   43   44   45   46   47   48   
          49   

This is table  46  of  49  ( 5786 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)
9395080--9395145	27	2.6	25	75	13	64	65	0	3	31	1.08
9398053--9398079	14	1.9	14	100	0	54	48	7	14	29	1.71
9398518--9398563	23	2.0	23	91	0	74	21	26	21	30	1.99
9399305--9399344	21	1.9	21	94	0	71	27	20	25	27	1.99
9399394--9399441	19	2.4	19	86	6	60	20	10	14	54	1.70
9400241--9400331	3	31.0	3	74	12	82	67	0	1	31	0.98
9403804--9403880	29	2.6	30	95	4	147	48	7	7	36	1.61
9404129--9404299	60	2.8	60	89	1	245	38	16	11	33	1.85
9404153--9404319	60	2.8	59	84	10	205	40	17	10	30	1.84
9404878--9404914	2	18.5	2	100	0	74	51	0	0	48	1.00
9410857--9410982	36	3.5	36	91	2	218	36	19	24	19	1.95
9412768--9412902	36	3.8	36	85	7	193	38	20	22	18	1.93
9412764--9412902	72	1.9	72	92	2	235	38	20	23	17	1.93
9415553--9415595	23	1.9	22	85	4	59	27	6	4	60	1.43
9428797--9429161	182	2.0	183	99	0	723	35	24	19	21	1.96
9429657--9429692	17	2.1	18	89	5	56	47	2	0	50	1.15
9435457--9435649	83	2.3	82	78	6	183	35	20	19	24	1.96
9436145--9436196	12	4.3	12	82	0	68	13	15	46	25	1.82
9436893--9436918	11	2.4	11	100	0	52	7	15	11	65	1.46
9436975--9437024	3	16.7	3	83	8	66	38	0	0	62	0.96
9438132--9438170	13	2.8	13	85	11	51	15	7	17	58	1.59
9440062--9440138	28	2.8	24	93	2	73	24	12	12	49	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9440049--9440138	29	3.1	29	95	3	164	25	14	11	48	1.76
9443418--9443453	3	12.0	3	100	0	72	66	0	0	33	0.92
9448609--9448666	26	2.2	26	81	0	62	60	1	5	32	1.29
9451095--9451119	3	8.3	3	100	0	50	32	0	0	68	0.90
9458737--9458776	3	13.3	3	100	0	80	35	0	0	65	0.93
9465352--9465385	17	2.1	17	89	10	54	32	17	11	38	1.86
9469450--9469494	2	24.5	2	82	17	62	48	0	0	51	1.00
9470986--9471021	11	3.2	11	88	7	54	66	0	0	33	0.92
9481485--9481609	64	2.0	64	85	6	173	32	13	24	30	1.93
9481590--9481628	20	2.0	20	89	0	60	20	15	33	30	1.94
9482679--9482722	21	2.1	21	82	0	52	31	15	43	9	1.79
9487113--9487156	20	2.1	20	87	8	61	34	0	29	36	1.58
9487079--9487124	2	23.5	2	95	4	85	50	0	0	50	1.00
9489169--9489208	21	1.9	21	85	10	55	35	10	2	52	1.48
9492214--9492334	49	2.6	45	77	10	134	41	7	20	30	1.80
9492779--9492833	22	2.5	22	100	0	110	21	34	20	23	1.97
9494459--9494547	45	2.0	46	90	2	144	26	20	25	26	1.99
9494567--9494605	20	2.0	20	89	0	60	20	15	33	30	1.94
9497111--9497163	13	4.2	13	70	4	54	41	18	11	28	1.85
9501582--9501606	6	4.2	6	100	0	50	20	32	32	16	1.94
9502274--9502321	2	24.0	2	100	0	96	0	0	50	50	1.00
9502533--9502566	2	17.5	2	93	6	61	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9504078--9504155	2	39.0	2	100	0	156	50	0	0	50	1.00
9506617--9506691	33	2.3	33	97	0	141	18	29	18	33	1.95
9508473--9508505	17	1.9	17	100	0	66	60	0	9	30	1.27
9508681--9508713	4	8.2	4	100	0	66	75	0	0	24	0.80
9509337--9509366	13	2.2	14	94	5	53	80	0	0	20	0.72
9514943--9514985	21	2.0	21	86	0	59	16	25	27	30	1.97
9530689--9530758	6	11.7	6	82	11	72	30	50	20	0	1.49
9535722--9535748	3	9.0	3	100	0	54	66	0	33	0	0.92
9547215--9547291	39	2.0	39	100	0	154	44	7	12	35	1.72
9554393--9554465	33	2.2	34	97	2	139	39	0	0	60	0.97
9554470--9554513	14	3.1	14	87	6	61	40	38	0	20	1.53
9554470--9554513	7	6.1	7	78	5	52	40	38	0	20	1.53
9558248--9558293	18	2.6	18	85	0	65	21	28	13	36	1.91
9568240--9568291	9	6.1	9	76	13	56	32	1	1	63	1.16
9568239--9568288	17	3.0	17	91	2	75	34	2	4	60	1.27
9568248--9568293	16	2.9	16	87	6	58	30	2	2	65	1.16
9570820--9570864	22	2.1	21	83	4	54	42	2	0	55	1.12
9571049--9571085	3	12.3	3	100	0	74	32	0	0	67	0.91
9574454--9574526	21	3.5	21	62	3	58	38	16	13	31	1.88
9576880--9577019	36	3.9	35	87	2	199	36	18	25	20	1.95
9576875--9577019	71	2.0	72	93	1	247	37	17	24	19	1.93
9578248--9578387	36	3.9	35	87	2	199	36	18	25	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9578243--9578387	71	2.0	72	93	1	247	37	17	24	19	1.93
9582069--9582106	16	2.3	17	86	4	51	39	31	13	15	1.86
9582496--9582583	31	2.8	30	78	10	88	47	10	6	35	1.64
9584707--9584755	16	2.9	16	81	6	62	32	20	6	40	1.77
9585850--9585875	5	5.2	5	100	0	52	42	0	0	57	0.98
9586485--9586542	24	2.4	24	85	0	80	43	27	20	8	1.81
9586774--9586808	3	11.7	3	93	0	61	65	2	0	31	1.07
9587422--9587513	29	3.3	28	69	15	73	38	4	9	47	1.56
9592429--9592554	50	2.5	50	86	0	180	15	37	27	19	1.92
9592842--9593063	111	2.0	111	95	0	399	36	8	10	44	1.69
9599495--9599534	21	1.9	21	85	10	55	25	37	25	12	1.91
9600228--9600254	12	2.2	12	100	0	54	7	51	0	40	1.30
9602021--9602064	23	2.0	23	81	4	54	50	11	2	36	1.51
9604217--9604266	3	16.7	3	91	0	73	32	28	36	4	1.76
9604475--9604559	35	2.5	33	76	14	82	25	7	10	56	1.58
9607435--9607465	12	2.6	12	100	0	62	25	32	6	35	1.82
9608743--9608793	23	2.2	23	86	6	68	60	3	0	35	1.15
9609776--9609815	21	1.9	21	90	10	64	52	10	0	37	1.35
9613579--9613633	3	19.3	3	82	14	64	1	32	0	65	1.03
9614562--9614621	26	2.3	27	88	8	88	63	0	33	3	1.11
9614574--9614611	16	2.4	16	86	8	51	65	0	31	2	1.06
9621552--9621590	19	2.1	19	95	0	69	25	7	25	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9622050--9622163	35	3.3	35	91	4	187	31	5	19	43	1.73
9622568--9622601	16	2.1	17	88	5	52	35	0	20	44	1.52
9626635--9626695	21	3.2	21	65	29	64	31	4	21	42	1.74
9626630--9626733	35	3.0	35	94	4	176	28	5	19	46	1.73
9630126--9630288	65	2.5	64	85	3	229	26	16	26	29	1.97
9630236--9630286	19	2.7	19	85	8	70	25	15	35	23	1.94
9670656--9670700	20	2.2	20	96	0	81	26	24	13	35	1.92
9676475--9676527	18	2.9	18	85	0	61	24	28	24	22	2.00
9680599--9680630	17	1.9	17	93	6	57	46	15	6	31	1.71
9683575--9683632	17	3.4	17	85	4	89	50	22	1	25	1.59
9683650--9683705	4	13.8	4	81	3	67	42	25	0	32	1.55
9683650--9683705	8	6.9	8	93	4	85	42	25	0	32	1.55
9684505--9684567	28	2.6	23	75	22	65	44	11	15	28	1.81
9684509--9684563	28	2.0	28	100	0	110	43	10	14	30	1.80
9687187--9687296	55	2.0	55	96	0	202	33	13	29	23	1.93
9696482--9696528	22	2.1	22	96	0	85	40	14	27	17	1.89
9698592--9698635	5	8.8	5	92	0	61	2	40	34	22	1.67
9698633--9698687	6	9.2	6	95	0	101	1	16	49	32	1.56
9698965--9699019	22	2.5	22	75	0	56	29	9	23	38	1.85
9704543--9704581	5	7.8	5	91	0	51	2	41	33	23	1.68
9704579--9704669	6	15.2	6	97	0	155	3	16	49	30	1.62
9704944--9704998	22	2.5	22	75	0	56	29	9	23	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9708461--9708618	21	7.8	20	70	7	77	37	24	17	19	1.93
9708824--9708875	26	2.0	26	100	0	104	34	26	19	19	1.95
9708586--9709002	20	20.5	20	81	8	448	35	25	18	20	1.95
9709676--9709722	24	2.0	24	87	8	69	25	14	21	38	1.92
9712190--9712517	19	18.7	19	77	19	347	45	18	21	14	1.84
9712237--9712436	14	11.9	15	69	24	68	47	18	21	13	1.82
9712190--9712517	34	9.4	34	87	8	343	45	18	21	14	1.84
9712190--9712380	67	2.9	67	93	3	314	46	19	20	13	1.83
9712513--9712641	19	7.3	19	75	17	125	8	17	28	45	1.77
9712218--9712518	52	5.7	54	80	15	323	45	17	22	14	1.84

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   40   41   42   43   44   45   46   47   48   
          49