genome.fa.s1465.2.7.7.80.10.50.1000.50.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  50  of  55  ( 6520 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)
10027147--10027201	2	27.5	2	100	0	110	49	0	0	50	1.00
10032391--10032478	35	2.6	33	86	12	124	28	11	19	40	1.86
10032527--10032577	12	4.2	12	78	9	59	68	0	0	31	0.90
10032528--10032581	3	18.7	3	75	21	53	68	0	0	31	0.90
10032913--10033274	84	4.4	80	76	9	300	25	19	23	31	1.98
10032972--10033294	84	3.9	83	80	5	357	25	19	23	32	1.98
10032910--10033274	165	2.2	163	83	4	439	25	19	23	31	1.98
10034038--10034081	18	2.5	18	96	3	81	15	45	25	13	1.83
10034113--10034264	29	5.4	28	74	14	125	31	7	20	40	1.79
10035752--10035965	84	2.6	81	82	4	268	25	20	24	30	1.98
10036986--10037031	17	2.7	17	100	0	92	76	4	13	6	1.14
10040065--10040148	23	3.7	23	86	0	114	20	27	25	27	1.99
10040058--10040148	46	2.0	46	88	0	137	21	26	24	27	1.99
10044624--10044658	15	2.3	15	100	0	70	14	22	34	28	1.93
10051454--10051489	15	2.4	15	95	0	63	13	19	33	33	1.91
10052500--10052544	22	2.0	22	82	4	54	33	33	24	8	1.86
10054209--10054268	23	2.6	23	97	0	111	18	26	31	23	1.97
10060264--10060323	23	2.6	23	91	0	102	20	26	30	23	1.98
10061520--10061597	23	3.4	23	78	0	84	23	23	23	30	1.99
10066595--10066678	23	3.7	23	85	0	114	20	27	25	27	1.99
10066590--10066678	46	1.9	46	88	0	133	21	26	23	28	1.99
10067617--10067660	22	1.9	24	86	9	65	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10068036--10068104	33	2.1	33	94	0	120	30	10	15	43	1.80
10068154--10068225	3	25.3	3	78	18	59	63	0	0	36	0.94
10068154--10068225	13	5.1	15	73	23	59	63	0	0	36	0.94
10068176--10068226	5	10.4	5	93	6	63	58	0	0	41	0.98
10070263--10070326	27	2.4	27	100	0	128	21	7	21	48	1.75
10075254--10075331	40	2.0	40	100	0	156	28	16	21	33	1.95
10076367--10076391	12	2.1	12	100	0	50	16	0	28	56	1.41
10080205--10080251	18	2.7	18	87	12	64	40	6	0	53	1.27
10080231--10080289	25	2.5	22	74	17	55	35	6	0	57	1.25
10082335--10082438	34	3.1	34	93	2	167	23	29	16	30	1.96
10082722--10082763	21	2.0	21	95	0	75	26	28	21	23	1.99
10083050--10083109	30	2.0	31	90	6	97	41	15	6	36	1.73
10084823--10084861	20	2.0	20	89	0	60	38	5	15	41	1.69
10084806--10084922	53	2.3	51	91	5	198	32	5	13	47	1.67
10084876--10084915	20	2.0	20	85	9	55	42	5	12	40	1.64
10092102--10092138	18	2.1	18	100	0	74	45	21	5	27	1.73
10094569--10094603	2	17.5	2	100	0	70	48	0	0	51	1.00
10097771--10097820	17	3.0	16	80	8	55	44	0	0	56	0.99
10097818--10097846	13	2.2	13	100	0	58	31	6	0	62	1.22
10098687--10098727	3	13.7	3	89	0	64	29	0	0	70	0.87
10098939--10098991	21	2.5	21	81	6	63	20	24	18	35	1.95
10098981--10099074	20	4.7	20	82	2	125	40	19	20	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10098984--10099074	41	2.2	41	86	1	121	41	18	19	19	1.90
10099379--10099409	9	3.3	9	91	8	53	22	0	0	77	0.77
10099637--10099690	20	2.7	19	91	8	90	37	20	24	18	1.94
10099727--10099839	20	6.1	19	77	13	119	11	23	19	46	1.82
10101534--10101809	94	3.0	93	88	7	415	21	12	18	47	1.81
10101898--10101974	19	4.0	19	89	3	118	49	19	22	9	1.76
10101898--10102013	19	6.3	19	78	13	116	48	23	19	8	1.76
10102560--10102626	21	3.2	21	66	6	55	23	35	20	19	1.95
10103978--10104013	14	2.6	14	95	0	63	33	0	22	44	1.53
10104138--10104170	14	2.4	14	100	0	66	42	21	27	9	1.83
10104152--10104224	33	2.2	33	90	0	110	43	19	24	12	1.85
10104227--10104289	19	3.3	19	93	4	101	12	17	25	44	1.84
10104280--10104336	14	3.7	14	75	20	60	10	24	21	43	1.83
10104261--10104354	33	2.8	33	98	0	179	11	23	20	44	1.84
10104237--10104374	19	7.7	19	74	17	127	11	22	21	44	1.84
10104327--10104420	20	4.7	20	72	13	68	21	20	23	35	1.96
10108273--10108477	20	10.2	20	88	6	238	29	19	20	30	1.97
10108273--10108520	60	4.1	60	81	5	225	31	18	21	29	1.97
10108284--10108519	20	11.7	21	86	4	87	31	18	21	28	1.97
10117253--10117286	15	2.3	15	89	0	50	26	8	14	50	1.72
10117819--10117849	6	5.2	6	100	0	62	35	48	16	0	1.46
10118481--10118517	16	2.2	17	95	4	67	32	27	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10118511--10118623	20	5.6	20	66	4	64	37	24	18	19	1.94
10118530--10118663	21	6.5	21	76	6	148	33	26	16	23	1.96
10118506--10118644	41	3.4	41	91	1	215	35	25	17	21	1.95
10118628--10118673	21	2.2	21	84	0	56	39	30	10	19	1.86
10127313--10127364	21	2.5	21	87	3	70	38	17	23	21	1.93
10127291--10127529	41	5.9	41	72	7	128	33	18	19	28	1.96
10127374--10127446	21	3.5	22	78	10	73	23	20	17	38	1.93
10127436--10127547	20	5.6	20	81	4	127	37	19	21	21	1.94
10127313--10127529	20	10.6	21	72	11	110	34	18	20	27	1.96
10128065--10128145	33	2.5	33	91	4	128	44	23	20	11	1.84
10128085--10128145	14	4.0	14	73	19	50	44	22	22	9	1.82
10128059--10128126	19	3.8	19	67	25	67	45	22	20	11	1.83
10128161--10128330	19	9.6	19	69	20	100	14	22	19	43	1.87
10128195--10128281	14	5.5	14	68	24	57	12	24	22	40	1.89
10128174--10128302	33	3.9	33	92	1	204	13	24	21	40	1.90
10128166--10128267	52	2.0	52	83	11	129	13	23	21	41	1.89
10128273--10128330	20	2.9	20	82	10	73	15	22	17	44	1.86
10130474--10130540	21	3.2	21	66	6	55	23	35	20	19	1.95
10130422--10130540	42	2.8	42	81	5	107	22	36	18	22	1.95
10131890--10131925	14	2.6	14	86	0	54	33	0	22	44	1.53
10132032--10132097	19	3.7	19	75	19	79	45	19	22	12	1.83
10132103--10132220	19	6.7	19	65	19	67	13	22	20	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10132107--10132200	33	2.8	33	91	0	152	12	22	19	45	1.83
10134529--10134553	12	2.1	12	100	0	50	0	28	0	72	0.86
10134728--10134781	24	2.2	24	90	0	81	40	20	16	22	1.91
10135566--10135617	21	2.5	21	87	3	70	38	17	23	21	1.93
10135607--10135775	20	8.4	20	87	3	196	27	27	18	26	1.98
10135648--10135784	20	6.8	20	93	0	211	24	27	19	29	1.99
10135707--10135793	20	4.3	20	89	2	68	27	24	18	29	1.98
10136046--10136099	14	3.5	14	77	22	63	11	20	20	48	1.80
10136028--10136098	33	2.2	33	84	0	88	19	19	21	39	1.93
10137652--10137743	42	2.2	42	84	1	123	21	14	42	21	1.88
10137679--10137739	21	2.9	21	73	9	70	21	11	42	24	1.86
10138088--10138180	20	4.7	20	86	0	105	35	24	21	18	1.95
10138167--10138233	19	3.8	18	72	20	61	46	23	17	11	1.82
10138197--10138242	19	2.4	19	88	0	65	45	23	19	10	1.82
10138239--10138341	20	5.6	19	71	14	63	13	20	23	42	1.87
10138287--10138341	20	2.8	19	83	8	65	16	23	23	36	1.94
10138891--10138930	18	2.2	18	95	0	71	12	15	45	27	1.82
10140249--10140286	20	1.9	20	94	0	67	52	21	15	10	1.72
10140563--10140611	22	2.3	21	83	10	64	24	12	40	22	1.88
10140570--10140613	22	2.0	22	95	0	79	20	13	43	22	1.87
10140800--10140911	20	5.6	20	76	12	113	23	17	25	33	1.96
10140780--10140917	41	3.4	41	80	7	165	23	16	23	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10140903--10140979	21	3.7	21	96	0	136	22	23	15	38	1.92
10140842--10140977	41	3.3	41	83	7	125	22	21	19	36	1.96
10146862--10146887	6	4.3	6	100	0	52	15	50	34	0	1.45
10154001--10154026	12	2.2	12	100	0	52	34	23	34	7	1.83
10154097--10154254	53	2.9	54	92	1	273	20	20	25	34	1.96
10156925--10156977	20	2.7	20	100	0	106	35	15	18	30	1.92
10160818--10160846	12	2.4	12	100	0	58	44	0	20	34	1.52
10163030--10163081	26	2.0	26	92	0	86	42	11	11	34	1.77
10166080--10166113	12	2.8	12	100	0	68	5	35	17	41	1.74
10167120--10167176	18	3.3	18	80	9	66	36	5	24	33	1.78

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