genome.fa.s8356.2.7.7.80.10.50.1000.5.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   50   51   52   53   54   55   56   

This is table  5  of  56  ( 6656 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)
835355--835388	16	2.0	16	88	11	50	29	11	0	58	1.33
835999--836080	34	2.4	34	100	0	164	40	6	26	26	1.79
840757--840816	30	2.0	30	90	6	95	46	8	6	38	1.60
850370--850426	28	2.0	28	86	0	78	29	15	22	31	1.95
853374--853403	14	2.1	15	93	6	53	70	0	0	30	0.88
853838--853975	4	34.5	4	70	9	77	66	5	0	27	1.17
853840--853933	38	2.5	39	79	11	106	62	6	0	30	1.20
854247--854301	21	2.6	21	77	8	58	34	21	20	23	1.97
854289--854517	20	11.4	20	81	5	212	37	24	17	20	1.94
855210--855256	24	2.0	24	87	8	69	25	14	21	38	1.92
855431--855455	12	2.1	12	100	0	50	72	0	28	0	0.86
857712--857961	33	7.2	33	71	17	186	46	18	22	13	1.83
857726--857967	19	13.7	19	78	17	281	45	17	22	14	1.84
857726--857961	52	4.5	53	97	1	431	46	17	22	13	1.83
857938--858053	53	2.2	52	86	3	160	18	23	18	38	1.93
857976--858063	19	4.8	19	82	14	123	13	22	15	47	1.81
858154--858190	14	2.6	14	91	0	65	45	21	0	32	1.52
860115--860268	19	8.6	19	75	14	139	45	22	20	11	1.82
860190--860246	14	3.7	14	75	20	51	43	22	22	10	1.84
860133--860263	33	3.8	33	89	5	181	46	22	21	9	1.80
860132--860268	52	2.6	51	74	7	141	45	21	21	10	1.81
860280--860338	14	3.9	14	76	20	64	6	16	28	47	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
860264--860387	33	3.7	33	91	1	185	8	17	27	45	1.78
860264--860355	19	5.4	18	72	24	83	7	17	28	46	1.75
860313--860369	14	3.7	14	72	20	51	8	22	24	43	1.81
860485--860800	93	3.4	93	98	0	605	45	18	13	22	1.85
862486--862582	20	5.2	20	72	18	100	46	17	24	11	1.81
862484--862548	21	3.1	21	82	4	96	47	15	26	10	1.78
862533--862589	14	3.7	14	75	20	60	43	22	24	8	1.81
862484--862606	33	3.5	33	88	8	156	46	17	24	11	1.81
862607--862686	33	2.4	33	91	0	124	11	21	20	47	1.80
862667--862740	21	3.5	21	80	7	96	14	20	17	47	1.83
862820--862890	33	2.2	33	94	0	124	47	16	23	11	1.79
863270--863461	20	9.6	20	86	4	253	19	19	27	34	1.96
864357--864401	22	2.1	22	91	4	74	37	20	24	17	1.93
865126--865155	13	2.3	13	100	0	60	20	13	26	40	1.89
865218--865280	31	2.0	31	90	0	99	33	15	17	33	1.92
865516--865552	19	1.9	19	88	0	56	37	13	5	43	1.67
866365--866418	7	7.7	7	75	8	56	37	0	0	62	0.95
866355--866438	33	2.5	33	94	1	141	42	0	0	57	0.99
866348--866430	27	2.9	29	77	17	82	43	0	0	56	0.99
870939--871086	52	2.8	52	78	6	149	29	25	18	27	1.98
874415--874858	205	2.2	202	80	4	489	35	20	10	33	1.87
875912--875936	3	8.3	3	100	0	50	68	32	0	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
879927--879978	21	2.4	22	78	18	56	53	3	0	42	1.19
879959--879993	18	1.9	18	88	0	52	51	5	0	42	1.25
882069--882103	5	7.0	5	86	0	52	60	0	0	40	0.97
887831--887880	10	4.6	10	79	18	55	56	18	16	10	1.67
887821--887861	14	2.9	14	88	0	55	56	17	14	12	1.68
892834--892887	24	2.3	23	83	3	63	31	14	22	31	1.94
892846--892894	23	2.1	24	88	3	73	32	12	24	30	1.92
894574--894634	3	20.0	3	78	9	61	32	0	3	63	1.10
894568--894625	18	3.2	18	80	9	64	32	1	3	62	1.22
901359--901432	27	2.8	26	76	13	69	72	5	20	1	1.11
901383--901420	19	2.0	20	94	5	69	76	7	15	0	1.01
901410--901447	10	3.8	10	86	10	51	84	5	10	0	0.77
901397--901461	19	3.5	18	77	6	58	76	9	12	1	1.07
901383--901461	18	4.6	18	74	22	71	75	8	13	1	1.09
902773--908738	4	1527.5	4	92	5	10244	49	25	0	24	1.52
910327--910464	64	2.2	64	88	1	197	30	13	14	42	1.84
910637--910716	28	2.9	28	81	7	99	23	13	16	46	1.83
910824--910901	39	2.0	38	85	2	102	21	35	17	24	1.95
910745--911036	132	2.2	133	88	3	450	25	32	17	24	1.97
911234--911305	3	23.0	3	74	13	56	31	0	4	63	1.13
911228--911265	18	2.1	18	95	0	67	31	2	2	63	1.22
912677--912704	13	2.2	13	100	0	56	17	46	21	14	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
915105--915191	24	3.7	23	84	3	93	20	14	17	47	1.83
915128--915196	12	5.8	12	78	10	61	17	14	18	49	1.80
915129--915200	24	3.0	24	85	2	101	19	12	18	50	1.78
916041--916088	23	2.1	23	88	0	69	31	16	31	20	1.95
917363--917400	19	2.0	19	94	0	67	26	7	26	39	1.83
917697--917738	13	3.3	13	76	6	50	19	16	14	50	1.79
920387--920426	13	3.1	13	88	0	62	25	0	15	60	1.35
920403--920823	199	2.1	198	83	3	515	29	14	18	37	1.90
921211--921248	3	12.7	3	89	10	60	34	0	0	65	0.93
927159--928446	642	2.0	644	99	0	2553	27	14	17	41	1.87
930325--930551	37	6.1	37	80	9	230	45	4	5	43	1.49
930325--930551	75	3.1	75	80	11	279	45	4	5	43	1.49
930480--930620	63	2.2	67	83	10	177	44	1	6	47	1.37
930515--930577	26	2.4	26	86	5	83	44	1	4	49	1.33
930522--930583	28	2.3	26	78	13	65	50	1	3	45	1.27
930622--930665	22	2.0	22	86	13	63	22	0	2	75	0.92
930625--930678	22	2.4	24	79	14	62	22	3	3	70	1.19
931984--932032	22	2.2	21	85	7	62	22	4	2	71	1.13
932094--932124	12	2.5	12	94	5	53	38	3	0	58	1.15
933567--933610	18	2.4	19	88	7	65	13	13	9	63	1.51
936891--938261	84	16.5	85	80	4	1393	29	24	20	25	1.99
936930--938261	582	2.3	582	95	0	2393	30	24	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
936891--938259	333	4.1	331	82	5	1523	29	24	20	25	1.99
938923--939021	35	2.9	35	77	13	89	47	6	4	42	1.47
938952--939155	34	6.1	34	76	16	187	46	5	6	42	1.52
938952--939155	66	3.1	66	79	14	224	46	5	6	42	1.52
939125--939171	21	2.2	21	88	7	69	44	2	6	46	1.40
940502--940526	10	2.5	10	100	0	50	0	0	8	92	0.40
940685--940709	12	2.1	12	100	0	50	40	0	0	60	0.97
943986--944026	20	2.1	19	86	13	57	36	14	9	39	1.79
944102--944392	120	2.4	121	83	6	340	44	7	17	30	1.77
946663--946745	39	2.1	39	95	0	148	49	16	6	27	1.69
946865--946948	37	2.2	38	83	6	100	32	20	9	38	1.85
953192--953234	18	2.3	19	80	8	52	46	2	2	48	1.27
953505--953650	30	4.8	31	80	6	88	35	5	1	57	1.30
953528--953647	29	4.0	29	79	11	118	35	4	1	58	1.27
953652--953804	30	5.1	29	82	12	184	52	0	9	37	1.38
953791--953840	18	2.7	18	84	3	64	40	0	12	48	1.40
955533--955690	46	3.5	46	87	4	232	31	22	8	36	1.85
955710--955755	20	2.2	20	88	3	65	56	21	4	17	1.58
956815--956881	29	2.3	30	79	10	75	35	20	2	40	1.68
957674--957737	30	2.1	30	83	11	78	31	21	6	40	1.78
962536--962600	26	2.5	26	92	0	112	36	38	12	12	1.80
962565--963180	262	2.4	255	87	6	913	41	19	11	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
963801--963902	38	2.7	37	92	3	132	47	0	6	45	1.36
967059--967108	18	2.9	17	76	5	55	56	8	2	34	1.40
967152--967207	29	1.9	29	88	0	85	51	5	16	26	1.65
967325--967380	3	18.3	3	81	3	67	32	60	0	7	1.24
967563--967618	29	1.9	29	88	0	85	44	5	16	33	1.70
968200--968564	193	1.9	193	94	1	642	38	8	15	37	1.78
969021--969083	19	3.4	19	84	6	67	44	6	17	31	1.74
969034--969108	37	2.0	37	84	0	96	46	6	16	30	1.72
969034--969083	19	2.7	18	87	6	73	48	4	16	32	1.64
969216--969280	18	3.4	18	74	12	67	29	1	18	50	1.56

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   50   51   52   53   54   55   56