genome.fa.s9639.2.7.7.80.10.50.1000.44.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   57   58   59   60   61   62   

This is table  44  of  62  ( 7398 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)
9654590--9655846	628	2.0	631	90	1	1975	36	18	13	31	1.89
9656265--9656353	17	5.2	17	85	5	117	40	6	13	39	1.71
9657011--9657059	17	2.9	17	81	0	62	38	4	18	38	1.70
9655208--9658975	729	5.2	726	87	4	5127	36	18	13	30	1.90
9658451--9658490	17	2.4	17	87	4	55	30	5	15	50	1.65
9658992--9659063	17	4.2	17	76	3	72	38	6	15	38	1.74
9658448--9659530	541	2.0	541	87	2	1566	36	17	14	32	1.89
9661543--9661584	22	1.9	22	90	0	66	42	7	21	28	1.79
9661488--9661874	81	4.8	81	84	2	490	39	12	21	27	1.89
9661881--9663528	46	36.3	46	81	4	1770	42	11	21	24	1.86
9662288--9662409	22	5.4	21	65	20	59	41	10	22	24	1.86
9662808--9662881	23	3.2	22	68	21	62	45	9	21	22	1.80
9666816--9666855	19	2.0	20	86	13	57	62	2	15	20	1.43
9674702--9675091	81	4.8	81	89	2	550	38	12	21	27	1.89
9674919--9674962	22	2.0	22	86	8	63	38	11	18	31	1.86
9675000--9675043	22	2.0	22	86	0	61	34	11	25	29	1.91
9675096--9677595	46	54.8	46	78	6	2376	43	11	19	24	1.85
9675513--9675637	36	3.2	36	72	20	124	46	10	19	24	1.80
9676057--9676128	23	3.2	22	66	14	56	43	11	20	25	1.85
9676876--9677093	81	2.7	81	84	0	274	38	13	20	27	1.90
9677487--9677552	22	2.9	23	71	13	64	48	7	18	25	1.74
9684863--9685011	39	3.8	39	76	0	145	26	18	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9688287--9688602	26	13.5	26	66	24	141	44	11	21	22	1.84
9688262--9688635	46	8.1	46	91	1	597	44	10	21	22	1.84
9690674--9690725	24	2.2	24	82	0	59	50	17	11	21	1.77
9690697--9690811	48	2.4	48	86	7	162	41	19	14	24	1.89
9690697--9690812	24	4.8	24	84	6	146	41	18	14	25	1.89
9690703--9690835	72	1.9	71	82	7	171	44	18	12	24	1.84
9693340--9693378	15	2.6	15	91	0	60	28	20	35	15	1.93
9695434--9695485	24	2.2	24	82	0	59	50	17	11	21	1.77
9695457--9695572	24	4.8	24	82	10	130	42	18	15	23	1.89
9695490--9695595	48	2.2	48	80	8	119	45	18	13	22	1.84
9695463--9695595	72	1.9	71	81	7	162	45	18	13	23	1.84
9698119--9698159	18	2.3	18	95	0	73	12	19	51	17	1.76
9703392--9703444	22	2.4	23	81	9	65	32	11	32	24	1.91
9703398--9703452	22	2.7	20	78	10	65	32	16	25	25	1.96
9703333--9703533	95	2.1	95	83	1	242	36	13	23	26	1.92
9703915--9704170	26	10.8	26	69	18	209	44	10	21	23	1.83
9703915--9704203	46	6.2	46	86	3	373	44	10	21	23	1.82
9704019--9704139	20	5.4	20	72	21	98	44	9	23	21	1.82
9707794--9707841	23	2.0	24	88	4	71	35	2	8	54	1.42
9710460--9710512	18	2.9	18	74	0	52	28	0	7	64	1.21
9711575--9711626	2	27.0	2	88	7	81	46	0	1	51	1.12
9711557--9711629	20	3.8	19	82	10	87	41	1	2	54	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9712238--9712285	22	2.2	22	84	0	60	54	0	4	41	1.20
9726255--9726426	50	3.5	49	77	11	145	30	26	6	36	1.83
9726653--9726876	48	4.6	50	77	6	183	25	26	13	34	1.93
9726653--9726903	97	2.6	98	79	3	265	25	25	13	35	1.93
9726408--9726903	49	10.2	49	71	7	166	27	24	13	34	1.93
9726653--9727340	49	14.1	48	70	6	226	27	25	13	33	1.93
9727161--9727365	49	4.2	49	76	3	171	26	27	13	32	1.93
9729258--9729292	17	1.9	19	88	11	56	31	0	5	62	1.18
9730313--9730359	19	2.4	20	85	7	69	40	10	12	36	1.78
9730585--9730634	20	2.5	21	77	6	59	46	12	2	40	1.52
9733334--9733383	20	2.5	20	87	6	66	44	14	2	40	1.56
9737199--9737245	20	2.4	20	89	3	69	38	0	23	38	1.55
9738464--9738508	22	2.0	22	95	0	81	35	6	13	44	1.70
9738657--9738754	34	2.9	33	89	3	133	37	16	23	22	1.93
9748370--9748410	21	2.0	21	85	0	55	31	9	21	36	1.86
9771646--9771684	20	2.0	20	84	0	51	23	7	23	46	1.78
9771854--9771913	19	2.9	20	85	9	68	16	26	35	21	1.95
9785772--9785836	3	23.3	3	85	14	95	64	0	0	35	0.94
9785772--9785834	11	5.7	11	90	5	101	65	0	0	34	0.93
9798799--9798964	83	2.0	83	93	0	287	30	21	16	31	1.95
9818750--9818792	22	2.0	22	85	0	59	44	13	6	34	1.72
9822304--9822340	2	18.0	2	88	5	56	45	0	2	51	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9838496--9838541	20	2.3	20	85	3	67	39	0	23	36	1.55
9845747--9845853	40	2.7	40	86	0	142	24	15	29	29	1.96
9869928--9870036	5	20.4	5	72	17	60	77	2	13	6	1.08
9869931--9870017	32	2.7	32	77	12	81	77	3	13	5	1.09
9869969--9870036	27	2.6	26	86	6	84	77	2	10	8	1.08
9869977--9870036	21	2.8	22	87	7	79	78	1	10	10	1.04
9869930--9870052	16	6.8	17	72	17	56	77	2	13	6	1.07
9870000--9870054	21	2.5	22	77	16	62	78	0	10	10	0.98
9875348--9875402	20	2.8	19	75	8	56	32	14	30	21	1.93
9875822--9875989	55	3.0	55	89	2	239	33	13	20	32	1.91
9876205--9876387	68	2.7	68	86	1	251	34	15	19	30	1.93
9876366--9876546	81	2.2	81	84	0	227	37	11	20	30	1.87
9876482--9876621	71	2.0	72	82	4	176	37	9	20	32	1.85
9876660--9877035	45	8.3	45	82	2	351	38	11	22	27	1.88
9878687--9878728	22	1.9	22	85	9	59	26	2	11	59	1.45
9880102--9880229	46	2.8	46	91	1	204	38	6	23	32	1.80
9880539--9880567	12	2.4	12	100	0	58	55	10	6	27	1.59
9890188--9890237	20	2.5	20	87	3	75	36	0	24	40	1.55
9892730--9892767	19	2.0	19	85	10	51	31	5	18	44	1.72
9894155--9894204	24	2.1	24	84	0	64	24	4	12	60	1.49
9897117--9897155	21	1.9	20	84	5	51	23	28	0	48	1.51
9898177--9898237	25	2.3	27	83	13	83	11	11	4	72	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9921851--9921893	22	2.0	22	100	0	86	18	18	23	39	1.92
9934418--9934468	13	3.8	13	76	19	52	74	3	0	21	0.98
9934432--9934469	19	2.0	19	89	0	58	71	7	0	21	1.11
9938237--9938335	26	3.8	26	68	15	78	29	19	23	28	1.98
9938241--9938360	52	2.3	51	79	9	134	32	17	22	27	1.96
9939046--9939322	137	2.0	137	96	1	511	38	7	14	38	1.75
9939471--9939500	15	2.0	15	100	0	60	40	6	0	53	1.27
9945489--9945527	20	2.0	20	90	5	62	33	0	28	38	1.57
9947728--9947826	44	2.2	44	87	0	135	32	22	18	27	1.97
9951371--9951410	21	1.9	21	89	0	62	55	7	7	30	1.56
9955235--9955279	23	2.0	23	81	0	54	22	28	20	28	1.98
9960196--9960249	20	2.6	21	82	5	65	33	18	18	29	1.95
9962178--9962218	21	2.0	21	95	0	73	17	26	24	31	1.97
9963686--9964366	342	2.0	343	93	0	1166	29	16	12	40	1.85
9965406--9965459	21	2.8	18	80	8	54	14	22	40	22	1.90
9973672--9973762	31	3.0	31	96	3	168	32	6	17	42	1.75
9973827--9973874	19	2.5	19	89	0	69	41	10	14	33	1.80
9973980--9974021	21	2.0	21	95	0	75	23	21	28	26	1.99
9974050--9974089	20	1.9	21	85	10	55	37	37	10	15	1.80
9974304--9974373	34	2.1	32	89	5	104	31	15	31	21	1.95
9974740--9974785	24	1.9	24	100	0	92	41	15	13	30	1.85
9979325--9979576	42	5.9	41	72	11	152	26	19	22	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9979335--9979577	128	1.9	127	82	5	303	25	17	23	32	1.97
9979350--9979695	45	8.0	45	76	8	154	27	19	20	32	1.96
9979325--9979695	89	4.3	86	76	9	288	27	19	20	32	1.97
9979309--9979696	44	8.9	44	77	5	272	27	18	20	33	1.96
9980510--9980650	17	7.3	18	69	20	74	40	0	1	58	1.07
9980536--9980626	30	2.7	35	72	13	102	43	0	0	56	0.99
9980538--9980616	23	3.1	24	84	12	97	44	0	0	55	0.99
9980642--9980703	19	3.3	19	78	15	58	37	1	0	61	1.06
9981164--9981223	31	1.9	31	89	0	93	46	6	6	40	1.56
9990594--9990624	15	2.1	15	93	0	53	0	22	0	77	0.77

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   57   58   59   60   61   62