genome.fa.s9175.2.7.7.80.10.50.1000.29.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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  29  of  51  ( 6037 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)
5858625--5858684	13	4.8	13	79	8	79	68	1	0	30	0.99
5858630--5858680	8	6.8	8	79	20	65	66	1	0	31	1.03
5858642--5858695	24	2.3	23	78	12	56	66	5	0	27	1.13
5861788--5861825	3	12.7	3	100	0	76	34	0	0	65	0.93
5862768--5862881	55	2.1	55	84	0	147	28	13	15	42	1.84
5863627--5863653	13	2.1	13	100	0	54	40	29	22	7	1.81
5863712--5863745	15	2.2	16	89	5	52	32	8	23	35	1.86
5863897--5863930	17	2.1	17	94	5	61	58	0	2	38	1.13
5865519--5866984	572	2.6	566	97	0	2698	24	23	18	33	1.97
5869532--5869748	108	2.0	108	93	0	371	24	23	25	26	2.00
5873973--5874007	13	2.7	13	86	13	54	5	20	40	34	1.76
5874030--5874085	3	18.7	3	82	14	71	64	0	0	35	0.94
5874657--5875583	105	8.8	105	93	0	1503	22	18	25	33	1.97
5874506--5875583	315	3.4	314	89	2	1586	22	18	25	33	1.97
5888659--5889463	114	6.9	114	79	10	785	27	18	14	39	1.89
5888815--5889227	124	3.4	114	80	11	328	27	18	14	39	1.89
5888572--5889320	238	3.2	237	94	1	1263	27	18	13	40	1.89
5890622--5890660	18	2.2	18	100	0	78	58	5	5	30	1.41
5891016--5891056	21	2.0	21	85	9	57	9	19	0	70	1.14
5893809--5894254	223	2.0	223	97	0	847	26	19	17	36	1.94
5901947--5902004	28	2.2	26	84	6	71	60	1	5	32	1.29
5904441--5904489	3	16.7	3	83	12	66	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5904442--5904489	11	4.4	11	81	5	53	64	0	0	35	0.94
5904441--5904490	14	3.9	13	87	12	77	62	0	0	38	0.96
5905009--5905140	4	33.0	4	79	0	84	40	20	9	30	1.83
5905009--5905140	16	8.2	16	79	0	102	40	20	9	30	1.83
5905888--5905997	53	2.1	53	92	0	184	30	16	24	28	1.96
5906754--5906804	24	2.1	24	88	0	75	29	29	5	35	1.81
5908281--5908336	25	2.2	25	96	0	103	26	30	12	30	1.93
5925144--5925195	22	2.4	21	81	6	59	34	5	1	57	1.33
5926704--5926784	40	2.0	40	100	0	162	34	0	22	43	1.54
5928587--5928629	19	2.4	18	84	7	52	18	9	27	44	1.80
5926762--5929391	801	3.3	798	81	6	2935	30	8	19	40	1.82
5933926--5933977	18	2.9	18	77	11	61	61	3	9	25	1.44
5933962--5933999	20	1.9	20	89	10	60	63	0	2	34	1.09
5936167--5936526	36	10.0	36	88	0	488	46	9	14	29	1.75
5936564--5936653	44	2.1	43	89	2	135	27	15	25	31	1.96
5938168--5938234	22	3.0	22	73	2	71	34	25	22	17	1.96
5938941--5938978	20	1.9	20	88	0	58	28	23	15	31	1.96
5944821--5944946	24	5.4	23	76	9	98	34	20	21	23	1.97
5946339--5946427	44	2.0	44	95	0	160	30	13	10	46	1.76
5952109--5952168	21	2.9	21	92	0	84	36	11	15	36	1.83
5952251--5952316	18	3.8	18	76	7	57	66	3	7	22	1.31
5952353--5952404	25	2.0	26	81	3	61	50	7	11	30	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5963533--5963585	8	6.8	8	81	10	56	73	0	3	22	0.99
5968066--5968144	2	39.5	2	100	0	158	50	0	49	0	1.00
5969233--5969302	31	2.3	31	89	0	122	40	15	18	25	1.90
5969989--5970073	2	45.0	2	78	15	92	45	2	2	49	1.27
5979853--5979969	37	3.1	37	70	19	96	41	9	5	42	1.61
5980138--5980480	165	2.1	165	97	0	650	28	13	22	35	1.92
5987239--5987720	234	2.0	238	95	2	882	40	12	17	29	1.86
5991290--5991333	20	2.3	19	81	11	54	34	4	0	61	1.16
5992615--5992663	20	2.5	21	80	12	59	38	10	24	26	1.87
5993498--5993572	23	3.4	22	81	7	89	28	17	25	29	1.97
5995695--5995743	2	24.0	2	95	4	89	48	0	2	48	1.12
5998609--5998664	21	2.7	21	84	10	71	33	7	26	32	1.84
5999501--5999618	23	5.3	21	81	14	114	25	19	26	28	1.99
5999500--5999605	46	2.4	45	88	6	153	24	20	26	28	1.99
6015190--6015248	27	2.3	26	82	11	68	45	5	18	30	1.71
6015207--6015280	27	2.7	27	85	8	89	45	10	12	31	1.76
6018526--6018571	21	2.2	21	100	0	92	45	0	8	45	1.34
6019450--6019538	41	2.2	41	97	0	169	28	5	8	57	1.52
6025048--6025099	22	2.4	22	93	3	88	44	34	3	17	1.67
6030033--6030119	35	2.5	35	83	7	106	44	12	17	25	1.83
6030356--6030575	43	5.0	43	75	14	182	38	17	15	29	1.90
6030282--6030561	43	6.4	43	74	7	151	35	16	16	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6030183--6030571	87	4.5	87	77	3	363	37	16	15	30	1.90
6034076--6034903	438	1.9	438	87	1	1203	44	16	11	28	1.81
6042815--6042883	22	3.1	22	75	10	68	17	24	21	36	1.95
6045472--6045526	19	2.7	20	88	8	76	32	16	21	29	1.95
6045874--6046210	58	5.8	58	93	0	550	33	10	20	35	1.87
6045874--6046210	173	1.9	174	92	0	559	33	10	20	35	1.87
6045874--6046210	115	2.9	116	92	0	559	33	10	20	35	1.87
6056851--6057204	132	2.7	131	86	4	468	30	18	20	30	1.96
6057449--6057620	91	1.9	91	88	0	263	26	19	14	40	1.90
6057321--6057740	226	1.9	228	86	4	607	25	20	17	37	1.93
6057539--6057872	135	2.5	134	84	2	409	25	20	17	37	1.94
6057817--6057879	17	3.4	17	68	19	54	15	25	11	47	1.79
6057833--6057901	22	3.4	22	69	19	76	11	24	15	47	1.79
6057817--6057911	39	2.4	39	100	0	190	16	23	13	46	1.83
6058452--6058569	31	3.6	30	67	21	76	37	10	16	35	1.83
6058315--6058607	68	4.2	68	83	5	354	36	11	19	32	1.87
6058556--6058643	37	2.4	37	92	1	142	40	14	20	23	1.90
6061129--6061168	21	1.9	21	90	10	64	35	15	17	32	1.91
6063690--6063752	25	2.7	23	78	14	65	68	1	3	26	1.14
6065120--6065304	44	4.2	44	65	10	108	31	18	19	30	1.96
6065052--6065398	132	2.6	132	83	2	437	31	18	19	30	1.96
6065411--6065759	136	2.6	135	82	0	410	25	21	18	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6065780--6066106	136	2.4	135	87	2	449	24	21	17	36	1.94
6065403--6066106	362	1.9	362	91	0	1158	25	20	18	35	1.95
6066051--6066126	39	1.9	39	91	0	125	15	21	14	48	1.80
6066184--6066363	71	2.6	68	84	8	238	36	12	18	32	1.88
6066321--6066419	31	3.5	30	71	23	106	38	11	18	32	1.86
6066303--6066416	53	2.2	53	93	0	192	37	11	19	31	1.87
6066352--6066393	22	2.0	22	85	4	59	38	11	16	33	1.86
6066405--6066634	36	6.4	36	84	4	286	40	15	20	24	1.91
6066679--6066761	36	2.3	37	80	16	93	40	9	13	36	1.77
6069172--6069243	28	2.6	28	84	8	85	50	9	25	15	1.74
6072988--6073017	14	2.1	14	93	0	51	43	0	16	40	1.48
6073574--6073655	32	2.6	32	81	11	96	18	12	23	46	1.82
6073704--6073759	16	3.4	16	88	11	78	1	14	35	48	1.54
6078743--6078784	22	1.9	22	90	0	66	50	11	2	35	1.52
6078779--6078819	14	2.9	14	85	0	55	53	17	0	29	1.44
6083598--6083639	22	1.9	22	85	0	57	38	16	0	45	1.48
6084487--6084549	11	5.9	11	69	14	51	57	3	1	38	1.24
6084596--6084653	7	8.3	7	79	7	55	48	32	0	18	1.49
6084596--6084653	14	4.1	14	81	0	71	48	32	0	18	1.49
6084601--6084654	28	1.9	28	96	0	99	48	29	0	22	1.51
6084705--6084744	21	1.9	21	84	0	53	52	25	0	22	1.47
6086314--6086413	12	8.6	12	73	6	89	36	20	22	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6086326--6086413	23	3.8	23	93	0	158	35	21	22	20	1.96
6086314--6086426	46	2.4	45	84	7	154	34	19	21	24	1.96
6088527--6088564	2	19.5	2	94	5	69	50	0	0	50	1.00
6091968--6092398	54	8.0	54	87	0	594	33	20	17	28	1.95
6092721--6092777	22	2.7	20	84	12	78	24	31	14	29	1.94
6092721--6092958	94	2.5	94	80	4	259	27	24	14	33	1.94
6099010--6099417	54	7.6	54	84	2	446	31	18	17	31	1.95
6099010--6099416	162	2.5	162	85	1	519	31	18	17	31	1.95
6099787--6099961	95	1.8	95	87	0	260	25	24	18	32	1.97
6113969--6114011	21	2.0	21	82	8	52	37	16	11	34	1.85

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