genome.fa.s1547.2.7.7.80.10.50.1000.24.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  24  of  51  ( 6083 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)
4720372--4720558	44	4.2	44	71	5	124	29	20	18	32	1.96
4720335--4721594	133	9.5	132	83	4	1400	30	18	20	30	1.96
4720335--4721594	395	3.2	393	84	3	1582	30	18	20	30	1.96
4721117--4721349	44	5.4	44	73	7	152	27	20	21	30	1.98
4721902--4722077	37	5.1	36	73	18	142	40	13	18	27	1.88
4722009--4722073	33	1.9	34	90	3	105	40	15	15	29	1.88
4721890--4722151	102	2.6	102	81	7	295	37	12	19	30	1.90
4722192--4722468	90	3.1	90	87	1	407	33	20	19	26	1.96
4722389--4722547	79	2.0	79	87	2	230	33	20	20	25	1.97
4724514--4724613	9	10.9	9	77	12	80	6	13	0	81	0.87
4724529--4724581	19	2.8	18	82	8	61	5	9	0	84	0.76
4724483--4724615	52	2.6	52	78	13	132	6	15	0	77	1.00
4724548--4724612	8	7.9	8	81	10	62	4	10	0	84	0.75
4724551--4724611	25	2.5	24	81	7	70	4	11	0	83	0.79
4724501--4724615	32	3.7	32	70	19	100	5	14	0	79	0.96
4724484--4724615	11	12.6	10	76	15	85	5	15	0	78	0.98
4724489--4724615	17	7.3	17	72	18	77	5	15	0	77	0.99
4728033--4728074	2	21.0	2	90	0	66	45	0	4	50	1.23
4728246--4728279	2	17.0	2	93	0	59	50	2	0	47	1.16
4728306--4728377	31	2.3	30	79	13	74	51	4	5	38	1.45
4730150--4730258	36	3.1	35	68	22	100	27	14	22	34	1.94
4741021--4741045	12	2.1	12	100	0	50	32	16	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4741556--4741665	36	3.1	35	68	23	102	27	14	23	34	1.94
4751136--4751165	5	6.0	5	100	0	60	0	20	0	80	0.72
4758808--4759144	167	2.0	170	98	1	653	31	19	15	33	1.92
4760444--4760473	14	2.1	14	100	0	60	20	46	6	26	1.75
4768124--4768595	158	3.0	156	90	1	728	40	11	13	34	1.81
4768401--4768450	23	2.2	23	85	0	64	38	8	18	36	1.80
4770806--4771682	198	4.4	198	90	2	1239	31	15	14	38	1.87
4771679--4772257	181	3.2	181	93	0	978	28	14	13	43	1.83
4772875--4772914	21	1.9	21	89	0	62	40	10	0	50	1.36
4773462--4773621	21	7.7	21	85	9	172	31	24	20	23	1.98
4773524--4773575	20	2.6	20	96	0	95	40	17	19	23	1.91
4773482--4773673	82	2.2	87	85	9	252	32	21	21	23	1.98
4773592--4773647	29	1.9	29	96	0	103	28	25	23	23	1.99
4773656--4773730	21	3.6	21	85	3	98	22	22	26	28	1.99
4773656--4773755	42	2.4	43	81	9	109	23	22	24	31	1.99
4773854--4773893	6	7.2	6	97	2	59	37	45	17	0	1.49
4778833--4779190	180	2.0	180	96	0	653	30	23	8	37	1.85
4784290--4784333	23	2.0	23	90	4	72	50	15	0	34	1.45
4784446--4784522	31	2.6	30	84	8	95	41	1	16	40	1.57
4786896--4787060	65	2.5	64	80	1	177	32	24	16	27	1.96
4791950--4791997	20	2.4	20	96	0	87	27	29	18	25	1.98
4795394--4795446	2	26.5	2	100	0	106	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4802837--4802883	23	2.0	23	83	4	58	42	14	8	34	1.77
4813298--4813375	33	2.4	32	93	4	138	10	8	41	39	1.71
4814262--4814306	19	2.4	18	78	10	54	57	4	0	37	1.19
4816062--4816103	22	1.9	22	90	9	68	11	11	9	66	1.44
4816129--4816171	20	2.1	20	86	4	59	44	2	16	37	1.60
4819516--4819568	21	2.5	21	93	0	88	20	15	39	24	1.91
4819617--4819653	12	3.1	12	92	0	56	40	24	8	27	1.83
4820039--4820239	46	4.4	45	87	2	276	30	22	6	39	1.80
4820039--4820239	91	2.2	91	87	1	278	30	22	6	39	1.80
4820587--4820627	21	1.9	22	90	5	66	43	12	7	36	1.70
4821320--4821387	30	2.3	30	82	2	84	30	23	8	36	1.85
4823839--4823951	27	4.3	26	76	13	115	0	15	0	83	0.75
4823852--4823951	6	17.7	6	82	9	106	1	15	1	83	0.77
4823839--4823951	1	113.0	1	67	0	55	0	15	0	83	0.75
4836189--4836261	12	6.1	12	85	0	74	35	21	10	31	1.88
4836189--4836261	24	3.0	24	79	0	83	35	21	10	31	1.88
4836647--4836838	46	4.2	45	87	2	276	31	23	6	39	1.79
4836647--4836838	91	2.1	91	88	1	278	31	23	6	39	1.79
4836744--4836818	25	3.2	25	62	27	63	29	20	9	41	1.83
4837931--4837998	30	2.3	30	82	2	84	32	19	8	39	1.82
4839933--4839964	2	16.0	2	100	0	64	50	0	0	50	1.00
4844748--4844820	32	2.3	32	85	4	94	34	6	10	47	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4846454--4846495	20	2.0	20	86	9	57	30	2	11	54	1.49
4853166--4853255	40	2.3	39	82	1	99	22	18	28	30	1.97
4854123--4854176	2	27.0	2	100	0	108	50	0	0	50	1.00
4866319--4866488	49	3.6	49	85	11	241	35	5	25	34	1.79
4866355--4866488	41	3.1	41	82	10	144	35	5	24	34	1.80
4874171--4874227	20	2.9	20	86	2	80	49	21	12	17	1.79
4874228--4874280	24	2.2	24	82	0	79	33	18	20	26	1.96
4875220--4875350	19	6.7	20	85	6	153	30	11	23	34	1.90
4875220--4875389	40	4.3	40	81	9	163	27	12	22	36	1.91
4877692--4877718	13	2.1	13	100	0	54	37	14	25	22	1.93
4877869--4877897	3	9.7	3	100	0	58	0	0	31	68	0.89
4883785--4883834	3	16.7	3	100	0	100	34	0	0	66	0.92
4893150--4893613	149	3.1	149	95	0	831	28	15	20	35	1.93
4893581--4893625	23	2.0	23	86	0	63	22	24	26	26	2.00
4896731--4896870	63	2.2	63	89	0	208	31	20	20	27	1.98
4898699--4898743	23	2.0	23	90	0	72	22	26	26	24	2.00
4898268--4898731	149	3.1	149	95	0	849	28	15	21	35	1.94
4901041--4901137	42	2.3	42	80	7	106	39	2	3	55	1.27
4908587--4908631	19	2.4	18	81	3	54	31	22	26	20	1.98
4909388--4909412	10	2.5	10	100	0	50	8	8	0	84	0.79
4912299--4912328	12	2.6	12	94	5	53	53	0	0	46	1.00
4913136--4913167	15	2.1	15	100	0	64	34	25	6	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4913306--4913483	29	6.2	29	74	8	103	48	15	3	32	1.62
4913348--4913413	28	2.4	28	85	10	82	46	10	1	40	1.47
4913505--4913541	18	2.1	18	94	0	65	13	21	48	16	1.80
4919037--4919335	117	2.6	116	93	2	499	32	35	15	16	1.91
4920264--4920448	29	6.4	29	75	10	137	49	14	3	32	1.61
4926024--4926315	117	2.5	117	96	0	530	32	35	15	16	1.90
4927237--4927283	25	2.0	24	83	8	60	44	10	6	38	1.65
4927254--4927437	29	6.4	29	77	3	122	46	16	3	33	1.66
4927253--4927380	28	4.5	28	75	1	94	47	13	3	35	1.61
4927453--4927493	18	2.3	18	95	0	73	21	21	39	17	1.93
4928476--4928516	15	2.4	18	84	15	61	70	0	4	24	1.06
4932116--4932148	17	2.0	16	94	5	57	60	24	12	3	1.46
4934186--4934218	15	2.2	15	94	0	57	45	6	15	33	1.70
4939709--4939879	23	7.8	22	77	12	158	21	20	19	38	1.93
4939704--4939886	42	4.2	42	84	6	231	23	20	19	37	1.94
4939698--4939801	21	5.1	19	71	15	73	23	20	21	35	1.96
4940488--4940526	6	6.5	6	100	0	78	0	15	51	33	1.44
4940619--4940846	42	5.2	43	74	19	188	32	21	21	24	1.98
4940616--4940719	21	4.9	20	74	15	86	34	21	21	23	1.97
4940683--4940738	21	2.8	20	78	10	69	35	19	21	23	1.96
4940778--4940852	21	3.6	21	81	0	96	28	26	21	24	1.99
4940630--4940898	134	2.0	133	86	7	375	30	21	21	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4940861--4940914	21	2.6	21	93	0	90	22	22	25	29	1.99
4941479--4941503	5	5.0	5	100	0	50	80	0	0	20	0.72
4946543--4946611	30	2.3	30	92	0	111	39	4	23	33	1.74
4946829--4946897	23	3.0	22	77	14	68	24	20	23	31	1.98
4952446--4952482	3	11.7	3	88	11	56	0	32	0	67	0.91
4952442--4952481	10	4.2	10	79	20	50	0	30	0	70	0.88
4952446--4952482	13	2.8	13	100	0	74	0	32	0	67	0.91
4953495--4953563	30	2.3	30	94	0	120	40	4	21	33	1.73
4953774--4953841	23	3.0	23	91	0	109	20	27	26	25	1.99
4956492--4956521	16	1.9	16	93	6	53	46	0	0	53	1.00

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