genome.fa.s7999.2.7.7.80.10.50.1000.39.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  39  of  50  ( 5918 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)
9305847--9305894	19	2.5	20	82	3	62	52	6	12	29	1.63
9307084--9307142	31	1.9	31	89	3	93	37	5	11	45	1.63
9307225--9307337	21	5.4	21	75	9	79	25	34	15	23	1.95
9307362--9307435	20	3.7	20	85	3	103	18	28	24	28	1.98
9307362--9307444	41	2.0	41	90	4	132	19	27	26	26	1.99
9308730--9308777	19	2.5	20	82	3	62	52	6	12	29	1.63
9309810--9309878	30	2.2	30	85	15	95	34	5	17	42	1.73
9309819--9309878	30	2.0	30	93	6	104	33	6	16	43	1.74
9309977--9310028	22	2.5	20	81	12	61	23	32	21	23	1.98
9310052--9310125	20	3.7	20	78	3	85	21	27	22	28	1.99
9310492--9310561	34	2.1	32	86	5	95	31	15	30	22	1.95
9323211--9323250	21	1.9	21	89	0	62	20	25	20	35	1.96
9342022--9342054	15	2.2	15	100	0	66	39	0	0	60	0.97
9342022--9342068	15	3.1	15	87	9	51	42	0	2	55	1.12
9343567--9343615	18	2.8	17	81	9	62	75	0	10	14	1.04
9343674--9343775	40	2.5	41	91	4	170	70	1	5	21	1.18
9343752--9343787	17	2.0	19	89	10	58	83	0	2	13	0.76
9343902--9343968	8	8.4	8	96	0	71	49	4	0	46	1.22
9343909--9343991	2	42.0	2	89	7	125	50	1	2	45	1.22
9345384--9345642	110	2.4	108	84	5	328	24	18	22	34	1.96
9346391--9346764	36	11.0	36	69	20	241	39	12	19	28	1.89
9346309--9346505	65	2.9	67	82	5	211	38	10	19	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9346466--9346564	37	2.7	36	87	3	135	41	16	21	21	1.90
9346400--9346660	135	1.9	137	92	2	436	40	13	19	26	1.88
9346693--9346764	37	1.9	37	86	5	101	38	15	20	25	1.92
9346795--9346881	37	2.4	37	86	1	113	39	12	19	28	1.88
9346492--9346968	204	2.4	199	84	3	641	38	12	19	29	1.89
9346492--9346973	102	4.8	102	85	3	573	38	12	19	29	1.88
9347161--9347483	106	3.0	106	89	0	459	22	20	23	32	1.98
9348081--9348142	32	2.0	32	87	3	90	41	16	12	29	1.85
9349220--9349286	30	2.2	30	84	5	82	4	17	2	74	1.11
9349234--9349275	13	3.2	13	81	18	52	2	16	4	76	1.07
9349251--9349284	17	1.9	18	94	5	61	2	17	2	76	1.04
9350424--9350474	27	1.9	26	84	11	68	49	5	15	29	1.68
9352357--9352399	19	2.3	19	84	8	52	72	2	2	23	1.08
9352520--9352643	33	3.7	33	74	16	87	67	3	4	25	1.23
9352619--9352693	37	2.1	38	80	16	97	66	2	5	25	1.26
9352631--9352693	17	3.5	17	70	19	56	65	1	6	26	1.26
9352725--9352772	25	1.9	25	83	8	62	56	0	6	37	1.25
9352728--9352777	19	2.6	19	84	6	66	58	0	6	36	1.23
9353439--9353472	15	2.3	15	89	0	50	47	0	0	52	1.00
9353466--9353513	2	24.5	2	95	4	89	52	0	0	47	1.00
9356164--9356250	35	2.5	35	87	3	115	44	18	1	35	1.57
9356234--9356309	35	2.2	35	83	2	100	44	0	13	42	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9356426--9357413	253	3.9	252	92	3	1532	37	14	16	31	1.89
9356426--9357413	498	2.0	501	89	4	1526	37	14	16	31	1.89
9357379--9357449	36	2.0	36	97	0	133	39	4	15	40	1.67
9358668--9358701	17	2.0	17	100	0	68	29	29	11	29	1.92
9359143--9359211	34	2.0	34	94	0	120	18	28	7	44	1.76
9359782--9359836	20	2.8	20	97	2	103	45	14	18	21	1.85
9366025--9366072	17	3.0	15	77	14	51	56	27	2	14	1.50
9367995--9368032	20	1.9	20	88	0	58	13	21	34	31	1.91
9371843--9371885	20	2.2	20	83	8	52	37	4	2	55	1.33
9374301--9374386	22	3.9	22	81	3	75	29	18	19	32	1.96
9378889--9378948	31	2.0	30	83	9	77	35	23	3	38	1.71
9378991--9379052	25	2.5	24	82	10	70	43	9	11	35	1.73
9385777--9385836	31	2.0	31	87	9	88	38	21	3	36	1.70
9387289--9387338	25	2.0	25	85	11	68	44	6	20	30	1.75
9387561--9387619	31	1.9	31	85	0	82	25	15	6	52	1.67
9394800--9394827	6	4.7	6	100	0	56	50	0	0	50	1.00
9401721--9402287	36	15.7	36	91	0	866	18	24	22	34	1.96
9402470--9403022	62	8.9	62	88	1	752	35	15	20	27	1.94
9412744--9412773	3	10.0	3	92	0	51	63	0	3	33	1.11
9413675--9413719	14	3.2	14	96	0	81	0	11	28	60	1.31
9414127--9414190	9	6.7	9	76	16	58	57	0	0	42	0.98
9414137--9414195	3	20.3	3	80	13	70	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9414386--9416566	75	28.9	76	96	1	3910	36	21	19	22	1.95
9414390--9416566	302	7.2	302	97	0	3961	36	21	19	22	1.95
9417244--9417323	22	3.6	22	72	0	79	40	12	12	35	1.81
9421236--9421289	10	5.6	10	72	16	51	0	16	1	81	0.78
9421236--9421278	15	3.1	15	87	12	65	0	16	0	83	0.64
9421245--9421278	18	1.9	17	88	5	50	0	17	0	82	0.67
9421241--9421289	25	2.0	25	84	8	64	0	16	2	81	0.78
9421583--9421610	2	14.0	2	100	0	56	50	0	0	50	1.00
9426436--9426478	22	2.0	21	86	8	61	39	4	0	55	1.20
9426468--9426506	17	2.3	17	86	0	60	58	0	0	41	0.98
9426713--9426771	19	3.0	20	80	7	57	59	1	6	32	1.34
9426809--9426838	3	10.0	3	92	0	51	63	0	3	33	1.11
9427744--9427781	14	2.7	14	95	0	67	0	13	28	57	1.36
9428189--9428252	9	6.7	9	76	16	58	57	0	0	42	0.98
9428199--9428257	3	20.3	3	80	13	70	59	0	0	40	0.97
9428975--9429002	10	2.8	10	100	0	56	28	39	21	10	1.87
9430987--9431032	22	2.1	22	84	8	58	30	8	30	30	1.87
9433358--9433420	21	3.0	22	83	4	76	34	12	17	34	1.88
9434140--9434171	15	2.1	16	94	5	57	31	12	0	56	1.37
9435964--9436009	24	1.9	24	95	0	83	23	21	26	28	1.99
9435964--9436022	24	2.6	23	84	7	77	22	20	25	32	1.98
9442715--9442781	23	2.9	23	81	0	89	26	19	23	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9442715--9442797	23	3.7	22	78	9	80	24	19	25	31	1.98
9442716--9442809	23	4.3	21	80	8	66	24	17	25	32	1.96
9452882--9452917	2	18.0	2	100	0	72	0	50	0	50	1.00
9455789--9455874	30	2.9	30	94	3	147	36	6	17	39	1.77
9456233--9456280	19	2.5	20	82	3	62	52	6	12	29	1.63
9457548--9457637	30	3.0	30	93	3	146	36	6	15	41	1.74
9457817--9457858	21	2.0	21	95	0	75	23	21	28	26	1.99
9457887--9457926	20	1.9	21	85	10	55	37	37	10	15	1.80
9458142--9458211	34	2.1	32	89	5	104	31	15	31	21	1.95
9459288--9459360	28	2.6	28	100	0	146	19	43	12	24	1.85
9468327--9468558	108	2.1	108	87	4	335	35	24	19	20	1.95
9468327--9468593	36	7.4	36	85	2	304	36	22	19	21	1.95
9468976--9469430	51	8.8	51	84	4	477	32	19	25	22	1.97
9468964--9469425	102	4.5	102	84	4	529	32	19	25	22	1.97
9468976--9469429	153	2.9	152	86	6	594	32	19	25	22	1.97
9469407--9469871	53	8.6	52	80	7	362	30	14	26	27	1.95
9469532--9469847	55	5.8	53	88	4	404	30	13	28	28	1.94
9469407--9469968	108	5.2	107	79	8	466	31	14	25	27	1.95
9470659--9470731	28	2.6	28	100	0	146	19	43	12	24	1.85
9476107--9476310	82	2.5	82	86	0	273	37	15	17	29	1.91
9476103--9476308	41	5.0	41	83	2	243	36	15	18	29	1.92
9494758--9494809	17	3.2	17	75	10	54	32	1	13	51	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9498585--9499333	84	9.0	83	80	4	775	24	21	25	29	1.99
9498585--9499333	165	4.5	165	87	2	1070	24	21	25	29	1.99
9514440--9514656	108	2.0	108	94	0	380	17	24	21	37	1.94
9522079--9522118	17	2.4	17	86	0	53	20	25	25	30	1.99
9524622--9524898	88	3.1	89	89	4	396	21	24	25	28	1.99
9528485--9528522	14	2.7	14	95	0	67	47	0	15	36	1.46
9530557--9530609	21	2.6	20	87	3	70	28	15	24	32	1.95
9530556--9530610	20	2.7	21	85	2	76	27	16	25	30	1.96
9530625--9530697	21	3.5	20	75	12	58	27	16	21	34	1.95
9530627--9530707	42	2.0	41	82	7	101	29	14	20	34	1.93

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