genome.fa.s8243.2.7.7.80.10.50.1000.29.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: 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  29  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)
6108965--6109097	31	4.2	32	72	20	100	45	5	3	45	1.44
6108969--6109280	38	8.8	37	80	11	300	44	5	4	46	1.45
6108954--6109301	38	9.8	36	79	12	287	43	6	4	45	1.47
6111074--6111138	2	32.5	2	100	0	130	50	0	0	49	1.00
6111570--6111617	16	2.8	17	90	6	71	33	6	31	29	1.82
6112207--6112287	32	2.5	31	73	15	83	37	23	12	27	1.90
6112326--6112392	32	2.1	31	83	10	82	46	20	8	23	1.79
6113938--6113969	16	2.0	16	100	0	64	25	12	18	43	1.85
6114956--6115000	19	2.5	17	80	13	54	53	2	4	40	1.33
6117898--6118020	59	2.1	59	81	6	142	36	15	14	33	1.88
6119054--6119125	2	36.0	2	100	0	144	50	0	0	50	1.00
6119460--6119489	15	2.1	15	93	6	53	50	0	0	50	1.00
6119492--6119535	20	2.2	19	84	8	52	68	2	0	29	1.02
6119777--6119814	20	1.9	20	84	10	51	50	0	0	50	1.00
6119995--6120031	19	2.0	19	89	5	58	32	10	0	56	1.34
6120091--6120120	15	2.0	15	93	0	51	33	10	0	56	1.32
6124547--6124592	21	2.2	20	88	11	67	76	2	2	19	1.00
6131916--6131961	14	3.3	14	81	0	56	39	0	10	50	1.38
6135709--6135810	51	2.0	51	94	0	177	38	22	5	33	1.78
6139408--6139513	54	2.0	53	94	1	185	33	21	10	33	1.88
6141490--6141522	3	11.0	3	87	12	50	33	0	0	66	0.92
6141495--6141519	13	1.9	13	100	0	50	36	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6141495--6141525	16	1.9	16	100	0	62	35	0	0	64	0.94
6141640--6141763	25	5.0	25	97	1	223	33	20	15	31	1.93
6142086--6142147	26	2.4	25	78	17	65	74	6	17	1	1.11
6154634--6154691	18	3.3	18	78	4	64	81	0	12	6	0.88
6154627--6154682	13	4.5	12	82	8	67	83	0	8	7	0.80
6154627--6154682	25	2.2	25	84	6	69	83	0	8	7	0.80
6155644--6155903	141	1.8	141	89	3	407	27	29	18	24	1.98
6156166--6156198	3	11.0	3	87	12	50	33	0	0	66	0.92
6156171--6156195	13	1.9	13	100	0	50	36	0	0	64	0.94
6156171--6156201	16	1.9	16	100	0	62	35	0	0	64	0.94
6156316--6156439	25	5.0	25	97	1	223	33	20	15	31	1.93
6156762--6156825	27	2.4	25	78	16	67	73	6	18	1	1.12
6160627--6160709	16	5.3	16	92	2	134	60	15	9	14	1.59
6160627--6160722	32	3.1	32	86	3	106	59	15	9	15	1.60
6161788--6161866	10	7.5	10	79	10	68	54	24	11	10	1.66
6161775--6161829	24	2.3	24	87	0	74	61	18	9	10	1.54
6161788--6161866	20	3.8	20	80	12	95	54	24	11	10	1.66
6161789--6161855	24	3.0	23	82	14	95	55	26	8	8	1.61
6161857--6161936	40	2.0	40	97	0	151	35	16	10	38	1.82
6167842--6167938	2	50.0	2	87	10	139	47	2	0	50	1.12
6177177--6177250	36	2.1	36	89	2	114	55	16	12	16	1.69
6179000--6179035	11	3.3	11	100	0	72	44	0	19	36	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6179372--6179551	90	2.0	90	98	0	351	36	11	14	38	1.82
6191797--6191838	20	2.1	20	95	0	75	26	30	23	19	1.98
6199359--6199430	17	4.2	17	82	3	74	62	5	11	20	1.48
6202688--6202771	23	3.7	23	93	0	132	19	27	26	27	1.99
6203101--6203146	18	2.6	18	82	6	58	43	0	19	36	1.51
6209476--6209632	74	2.1	74	84	2	199	40	19	16	23	1.91
6211119--6211199	40	2.0	40	100	0	162	37	12	18	32	1.88
6211988--6212018	3	10.7	3	93	6	55	70	0	0	29	0.87
6213283--6213341	3	19.7	3	76	13	59	67	0	5	27	1.11
6213281--6213338	10	5.2	11	76	15	57	68	0	5	25	1.10
6213420--6213485	32	2.1	32	91	0	105	43	6	3	46	1.43
6213471--6213724	37	6.9	36	78	11	221	43	6	4	45	1.50
6213548--6213728	72	2.5	72	85	8	235	43	7	4	44	1.51
6213652--6213711	11	5.4	11	73	11	50	41	6	6	45	1.57
6214335--6215093	164	4.6	165	88	2	959	24	21	25	28	1.99
6214358--6215149	249	3.2	251	84	5	948	23	21	25	28	1.99
6214335--6215149	84	9.8	85	84	4	936	24	21	25	28	1.99
6218345--6218388	19	2.4	19	92	7	74	68	9	11	11	1.40
6218998--6219030	17	1.9	17	93	0	57	72	9	12	6	1.26
6220060--6220089	3	9.7	3	92	7	51	70	0	0	30	0.88
6220058--6220086	13	2.2	13	100	0	58	68	0	0	31	0.89
6220060--6220091	16	2.0	16	100	0	64	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6220188--6220222	17	1.9	18	88	11	54	82	2	2	11	0.88
6221347--6221409	3	21.7	3	81	15	71	69	0	3	26	1.03
6221351--6221412	10	6.5	10	83	5	76	69	0	3	27	1.04
6221489--6221554	32	2.1	32	91	0	105	43	6	3	46	1.43
6221533--6221795	37	7.2	36	78	10	230	44	6	3	45	1.46
6222754--6222780	14	1.9	14	100	0	54	44	14	3	37	1.63
6224476--6224552	40	1.9	40	82	10	95	42	1	2	53	1.23
6226324--6226374	2	25.5	2	100	0	102	50	0	0	49	1.00
6230452--6230497	3	15.3	3	100	0	92	32	0	0	67	0.91
6231416--6231524	57	1.9	57	88	0	164	41	22	16	19	1.90
6231827--6231856	14	2.1	14	93	0	51	13	20	16	50	1.78
6234705--6234838	69	1.9	69	86	8	193	21	20	26	32	1.98
6235245--6235291	21	2.1	23	92	7	80	27	21	21	29	1.98
6235754--6235793	2	20.5	2	94	5	73	52	0	0	47	1.00
6235776--6236004	39	5.8	39	85	10	315	45	3	6	44	1.46
6235928--6235954	2	13.5	2	100	0	54	51	0	0	48	1.00
6235938--6236106	38	4.8	37	75	21	168	44	1	8	45	1.44
6235968--6236029	25	2.5	25	91	0	106	45	1	9	43	1.46
6235940--6236065	63	2.0	66	89	7	199	46	2	8	42	1.47
6235776--6236098	83	4.3	75	78	16	318	45	2	7	44	1.45
6236148--6236278	68	1.9	69	81	4	158	22	16	23	36	1.94
6236317--6236386	30	2.3	30	87	0	95	41	7	14	37	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6236337--6236405	30	2.3	30	92	0	111	44	8	10	36	1.69
6238400--6238461	21	3.0	21	90	0	88	30	24	12	32	1.93
6238400--6238476	21	3.7	20	84	6	73	31	23	15	29	1.95
6241280--6241335	22	2.6	21	91	5	94	42	3	5	48	1.43
6243252--6243292	13	3.1	13	82	6	55	56	0	2	41	1.13
6246140--6246189	17	2.8	18	75	22	52	58	0	0	42	0.98
6246907--6246974	30	2.3	30	82	10	93	26	13	20	39	1.89
6247520--6247587	31	2.2	31	83	0	82	45	14	8	30	1.76
6248011--6248042	16	2.0	16	93	0	55	53	6	0	40	1.26
6249377--6249516	47	3.0	47	84	2	192	26	14	30	28	1.95
6251550--6251584	15	2.3	15	90	9	54	54	0	0	45	0.99
6255785--6255817	15	2.2	15	94	0	57	57	0	0	42	0.98
6256461--6256523	28	2.2	29	82	8	83	31	22	6	39	1.79
6256474--6256539	28	2.4	28	92	0	105	31	19	7	40	1.80
6256488--6256546	28	2.1	28	87	0	82	35	18	5	40	1.73
6256814--6256857	17	2.6	17	92	0	70	34	31	18	15	1.92
6256848--6256899	21	2.5	21	90	0	86	26	17	28	26	1.97
6257059--6257123	33	2.0	33	96	0	121	27	15	13	43	1.85
6258253--6258311	31	1.9	31	93	3	102	35	23	10	30	1.88
6259264--6259338	30	2.6	29	77	10	73	32	18	6	42	1.76
6260496--6260527	12	2.6	13	85	14	50	50	0	0	50	1.00
6260654--6260680	6	4.5	6	100	0	54	48	18	18	14	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6260681--6260731	7	7.3	7	97	0	84	33	0	66	0	0.92
6264636--6264722	24	3.7	23	81	3	84	24	10	18	47	1.79
6264622--6264731	47	2.3	48	83	9	136	23	11	16	48	1.79
6264659--6264731	24	3.1	24	84	2	103	23	9	17	49	1.76
6264912--6264941	2	15.0	2	100	0	60	50	0	0	50	1.00
6271589--6271635	24	2.0	24	91	0	76	29	14	4	51	1.62
6271594--6271648	24	2.3	23	81	9	65	30	16	5	47	1.69
6275155--6275204	19	2.7	18	84	6	64	60	2	0	38	1.09
6275199--6275233	9	3.7	9	85	14	52	57	0	0	42	0.99
6276260--6276336	31	2.5	31	80	2	91	27	31	27	14	1.95

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