genome.fa.s8087.2.7.7.80.10.50.1000.26.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  26  of  37  ( 4336 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)
6001872--6001907	16	2.2	16	95	0	63	16	8	33	41	1.78
6002907--6002961	13	4.9	12	73	22	57	72	5	16	5	1.22
6002907--6002955	25	2.0	25	84	8	64	73	6	16	4	1.19
6004034--6004120	31	2.8	32	85	1	122	31	11	19	37	1.87
6004755--6005011	106	2.4	106	88	1	390	35	24	16	23	1.95
6005345--6005379	15	2.3	15	90	0	52	20	20	20	40	1.92
6005522--6005608	36	2.4	36	88	5	124	43	17	6	32	1.75
6006763--6006878	49	2.4	48	84	9	148	36	1	0	61	1.12
6006874--6006962	24	3.9	22	76	15	81	14	5	2	77	1.05
6006924--6006965	20	2.2	19	86	4	57	9	7	0	83	0.81
6006999--6007065	26	2.6	25	86	11	82	20	8	0	70	1.14
6035517--6035561	21	2.1	21	87	0	63	31	28	24	15	1.96
6036143--6036177	18	1.9	18	88	11	54	54	5	17	22	1.64
6036234--6036277	22	2.0	22	86	4	63	45	0	22	31	1.53
6037059--6037362	149	2.0	149	97	0	572	26	17	21	34	1.95
6037341--6037385	23	2.0	23	81	0	54	22	24	26	26	2.00
6040653--6040697	21	2.1	21	87	0	63	31	28	24	15	1.96
6041279--6041313	18	1.9	18	88	11	54	54	5	17	22	1.64
6041370--6041413	22	2.0	22	86	4	63	45	0	22	31	1.53
6041636--6041697	2	31.0	2	100	0	124	50	0	0	50	1.00
6042233--6042535	149	2.0	149	98	0	579	27	17	20	34	1.95
6042515--6042559	23	2.0	23	86	0	63	20	24	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6050878--6051003	58	2.1	60	83	2	157	34	15	19	31	1.92
6059206--6059258	26	2.0	26	100	0	106	35	15	15	33	1.88
6062349--6062384	14	2.6	14	100	0	72	61	13	11	13	1.58
6070590--6070657	35	2.0	35	91	2	111	23	19	4	52	1.63
6083078--6083169	44	2.1	44	90	8	143	44	29	7	18	1.77
6083898--6083925	14	2.0	14	100	0	56	14	21	14	50	1.78
6085683--6085783	51	2.0	51	96	0	184	31	21	11	34	1.90
6087999--6088026	14	2.0	14	100	0	56	14	21	14	50	1.78
6107898--6108028	42	3.2	42	92	2	203	22	18	22	37	1.94
6107892--6108007	21	5.6	20	70	13	83	21	19	23	35	1.96
6107957--6108030	21	3.5	21	71	20	73	21	17	20	40	1.91
6107873--6108028	42	3.8	42	84	7	196	22	19	21	37	1.95
6108107--6108155	6	8.5	6	93	2	75	32	51	16	0	1.45
6108651--6108724	6	12.5	6	92	1	123	2	16	48	32	1.60
6108821--6109041	21	10.6	20	73	14	137	37	21	18	23	1.94
6108817--6108999	42	4.4	42	91	0	294	37	21	19	21	1.95
6109592--6109659	29	2.4	27	80	9	73	51	14	27	5	1.65
6116689--6116758	18	4.1	16	76	12	59	75	0	18	5	0.99
6116704--6116767	27	2.5	25	80	7	67	76	0	18	4	0.95
6120895--6120975	22	3.7	22	89	0	135	32	13	12	41	1.82
6121489--6121816	167	2.0	164	95	1	584	33	14	12	39	1.84
6121815--6121980	73	2.3	73	96	0	305	27	21	19	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6122887--6122931	23	2.0	23	95	0	81	31	26	20	22	1.98
6122887--6122942	23	2.4	23	87	0	67	30	23	23	23	1.99
6122974--6123188	103	2.1	103	95	0	385	36	24	12	26	1.91
6123979--6124136	64	2.5	64	76	8	151	27	20	18	32	1.97
6124903--6125400	73	6.8	73	95	0	897	26	20	20	32	1.97
6125553--6125594	3	14.0	3	100	0	84	33	0	0	66	0.92
6135902--6135948	20	2.5	18	80	12	58	44	10	25	19	1.82
6136098--6136172	37	2.0	37	82	10	91	46	4	1	48	1.29
6137188--6137279	20	4.6	19	73	10	76	35	22	11	29	1.90
6138166--6138219	24	2.2	24	90	0	81	25	18	16	38	1.92
6138978--6139022	20	2.2	20	92	0	72	20	17	24	37	1.93
6139095--6139142	25	1.9	25	91	0	78	22	6	22	47	1.73
6139526--6139571	24	1.9	24	86	0	65	34	4	8	52	1.52
6140665--6140724	29	2.1	29	80	0	66	33	15	26	25	1.95
6140831--6140983	64	2.4	65	93	1	254	51	17	1	28	1.56
6140961--6140989	14	2.1	14	100	0	58	44	20	0	34	1.52
6142262--6142364	21	4.9	21	72	4	82	24	19	33	22	1.97
6142242--6142364	42	2.9	41	83	4	156	24	19	34	21	1.96
6142677--6142722	21	2.2	21	84	7	58	32	36	10	19	1.87
6142627--6142722	42	2.3	42	77	12	108	32	33	11	22	1.90
6143833--6143867	10	3.5	10	88	0	52	11	2	22	62	1.41
6144113--6144203	45	2.0	46	91	2	148	27	19	25	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6144883--6144914	2	16.0	2	100	0	64	50	0	0	50	1.00
6145384--6145423	21	1.9	21	84	0	53	37	12	40	10	1.77
6150791--6150830	21	1.9	21	85	10	55	35	10	2	52	1.48
6152818--6152870	19	2.7	20	91	8	83	18	18	28	33	1.95
6152898--6152935	20	1.9	20	94	0	67	18	15	34	31	1.92
6154103--6154174	30	2.4	30	90	0	117	37	11	23	27	1.89
6154306--6154354	19	2.5	20	93	3	82	51	16	18	14	1.77
6154738--6154799	22	2.8	22	95	0	106	19	19	43	17	1.88
6154947--6154991	20	2.2	20	96	0	81	17	15	24	42	1.88
6156249--6156283	15	2.3	15	90	0	52	5	11	60	22	1.52
6158652--6158690	20	2.0	20	90	5	62	20	15	20	43	1.88
6161033--6161074	21	2.0	21	90	0	66	30	11	7	50	1.66
6161069--6161167	33	3.0	33	94	1	164	33	7	14	45	1.71
6162277--6162315	13	2.9	14	81	14	55	20	10	15	53	1.70
6174140--6174164	2	12.5	2	100	0	50	52	0	0	48	1.00
6177433--6177653	64	3.5	64	83	2	230	33	19	19	28	1.96
6178973--6179187	103	2.1	103	93	0	367	37	23	12	26	1.91
6184510--6184578	23	3.0	23	78	0	75	31	24	21	21	1.98
6184597--6184811	103	2.1	103	94	0	376	37	23	13	26	1.91
6185597--6185759	64	2.5	64	76	9	154	27	20	20	31	1.97
6186543--6186596	24	2.3	23	84	9	65	48	7	24	20	1.75
6186694--6186726	15	2.2	15	94	0	57	18	18	30	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6187436--6187618	64	2.8	63	80	13	196	27	16	25	29	1.97
6187565--6187615	19	2.7	19	85	8	70	25	15	35	23	1.94
6187629--6187668	21	1.9	21	89	0	62	22	12	30	35	1.91
6188700--6188755	25	2.2	25	100	0	112	21	32	19	26	1.97
6190202--6190281	24	3.5	23	77	14	94	27	23	26	22	2.00
6190180--6190296	44	2.7	42	73	16	112	25	21	26	26	1.99
6196083--6196131	19	2.7	17	84	9	53	26	18	30	24	1.98
6196100--6196262	64	2.6	63	82	5	195	28	15	26	30	1.96
6196209--6196259	19	2.7	19	85	8	70	25	15	35	23	1.94
6196284--6196312	13	2.2	13	100	0	58	24	6	31	37	1.82
6204203--6204241	19	2.1	19	95	0	69	20	25	23	30	1.98
6204228--6204370	64	2.2	64	85	2	189	29	16	25	29	1.96
6204335--6204404	19	3.7	19	90	5	108	25	15	35	22	1.94
6204418--6204457	21	1.9	21	89	0	62	22	12	30	35	1.91
6210864--6210959	40	2.3	43	89	5	144	35	11	9	43	1.73
6211963--6212043	15	5.5	15	86	2	103	37	7	18	37	1.79
6212026--6212075	20	2.5	20	100	0	100	40	10	16	34	1.81
6212399--6212468	24	2.8	24	81	18	81	55	1	0	42	1.08
6212399--6212481	24	3.3	24	79	12	78	53	2	0	44	1.13
6212449--6212554	21	4.7	22	68	20	67	51	1	0	45	1.18
6212505--6212556	21	2.4	21	83	3	68	51	1	0	46	1.12
6212745--6212942	42	4.7	42	84	3	274	45	18	16	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6212745--6212942	83	2.4	84	92	0	317	45	18	16	18	1.85
6223187--6223226	2	20.5	2	94	5	73	52	0	0	47	1.00
6227745--6227800	25	2.2	25	96	0	103	37	10	23	28	1.88
6228937--6228977	21	2.0	21	100	0	82	46	14	14	24	1.82
6231546--6231627	36	2.3	36	87	4	112	31	17	24	26	1.97
6233688--6233721	16	2.1	16	94	0	59	47	0	0	52	1.00
6233727--6233772	16	2.8	17	83	9	51	41	8	2	47	1.46
6233782--6233831	26	1.9	26	95	0	91	26	4	2	68	1.18
6238199--6238285	32	2.8	31	80	3	102	41	10	5	42	1.63
6240779--6240809	12	2.5	12	94	5	53	58	0	0	41	0.98

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