genome.fa.s9611.2.7.7.80.10.50.1000.24.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   

This is table  24  of  27  ( 3214 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)
5998437--5998507	33	2.2	33	89	0	106	47	16	23	11	1.79
5998689--5998743	22	2.5	22	81	0	74	20	16	40	23	1.91
5998866--5998947	40	2.1	40	81	6	96	23	15	23	37	1.93
5998889--5999081	20	9.6	20	82	3	210	19	20	24	35	1.96
5999068--5999150	21	4.0	21	73	6	78	25	16	24	33	1.96
5999048--5999146	42	2.4	43	77	11	100	21	18	23	37	1.94
5999464--5999532	3	23.0	3	100	0	138	66	0	0	33	0.92
6002034--6002178	42	3.5	42	94	0	254	37	25	19	17	1.93
6002040--6002220	84	2.2	83	86	7	242	35	27	18	18	1.95
6002081--6002229	62	2.4	62	88	4	219	36	26	18	18	1.94
6002325--6002368	6	7.5	6	97	2	81	31	52	15	0	1.44
6002868--6002947	6	13.5	6	98	1	153	0	16	51	32	1.45
6002944--6002968	6	4.2	6	100	0	50	32	0	32	36	1.58
6003069--6003288	20	10.7	20	79	14	202	17	18	27	36	1.93
6003070--6003293	42	5.4	42	84	6	289	16	18	27	37	1.92
6003061--6003349	62	4.7	61	78	13	274	16	18	25	39	1.91
6003070--6003348	82	3.4	81	82	9	309	16	18	26	38	1.92
6003070--6003348	42	6.8	41	79	7	239	16	18	26	38	1.92
6003061--6003350	20	14.2	20	76	7	192	16	18	25	39	1.91
6003548--6003586	18	2.0	20	85	9	55	35	0	0	64	0.94
6007099--6007241	31	4.7	31	86	5	177	25	15	11	47	1.79
6007099--6007239	30	4.7	30	85	6	169	24	15	12	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6007099--6007238	59	2.3	59	84	7	176	25	15	12	47	1.80
6010368--6010862	229	2.2	229	97	1	922	44	7	8	40	1.62
6011120--6011166	20	2.4	19	89	10	76	55	10	17	17	1.69
6010917--6011380	181	2.6	182	89	1	680	42	14	16	26	1.87
6013568--6013611	21	2.1	21	91	0	70	40	11	31	15	1.83
6013645--6013710	33	2.0	33	90	0	105	28	0	48	22	1.51
6015498--6015546	19	2.6	19	93	0	80	30	2	10	57	1.43
6015811--6015848	20	2.0	20	89	5	60	15	10	21	52	1.72
6015665--6016637	199	4.9	198	96	1	1759	37	14	16	31	1.90
6015665--6016637	399	2.4	398	96	1	1779	37	14	16	31	1.90
6018101--6018194	6	15.7	6	81	0	89	38	7	32	21	1.81
6018101--6018194	12	7.8	12	86	0	107	38	7	32	21	1.81
6018101--6018194	18	5.2	18	84	0	107	38	7	32	21	1.81
6019393--6019426	16	2.1	16	88	0	50	35	8	23	32	1.86
6019785--6019857	23	3.2	23	84	0	92	34	4	20	41	1.72
6019785--6019882	46	2.1	45	81	7	108	33	5	17	43	1.71
6020235--6020727	183	2.7	183	96	0	898	34	14	17	33	1.91
6022702--6022774	23	3.2	23	84	0	92	34	4	20	41	1.72
6022702--6022799	46	2.1	45	81	7	108	33	5	17	43	1.71
6023155--6023645	183	2.7	183	96	0	903	34	15	17	33	1.91
6025247--6025280	16	2.1	16	88	0	50	35	8	23	32	1.86
6025640--6025712	23	3.2	23	88	0	101	34	2	21	41	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6026009--6026053	22	2.0	22	83	8	56	42	11	8	37	1.72
6026091--6026583	183	2.7	183	96	0	907	34	14	17	33	1.91
6028183--6028216	16	2.1	16	88	0	50	47	8	20	23	1.78
6028577--6028649	23	3.2	23	88	0	101	34	4	21	39	1.73
6029029--6029517	183	2.7	183	96	0	890	34	14	17	33	1.90
6032308--6032353	22	2.1	22	84	8	58	41	10	8	39	1.71
6032371--6032443	23	3.2	23	88	0	101	34	4	21	39	1.73
6032801--6032873	23	3.2	23	88	0	101	34	4	21	39	1.73
6032168--6033466	431	3.0	430	97	0	2395	40	7	12	40	1.71
6033232--6033304	23	3.2	23	92	0	119	34	5	21	38	1.77
6040609--6040673	16	4.1	16	87	0	94	58	20	10	10	1.61
6040936--6041000	16	4.1	16	93	0	112	56	21	12	9	1.63
6040932--6041006	10	7.7	10	68	21	52	57	20	12	10	1.64
6040352--6041003	326	2.0	325	97	0	1223	43	15	15	25	1.86
6042074--6042121	24	2.0	24	87	0	69	56	22	8	12	1.63
6042099--6042126	14	2.0	14	100	0	56	50	28	14	7	1.69
6045610--6045671	23	2.6	23	80	15	63	45	0	0	54	0.99
6045901--6046074	86	2.0	86	96	0	321	32	16	18	32	1.93
6059460--6059487	2	14.0	2	100	0	56	50	0	0	50	1.00
6063344--6063404	28	2.2	28	93	0	104	18	11	24	45	1.82
6065719--6065747	14	2.1	14	100	0	58	41	17	6	34	1.76
6066931--6066955	13	1.9	13	100	0	50	36	24	8	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6067896--6067956	24	2.6	24	92	2	97	18	24	27	29	1.98
6097954--6097993	20	2.1	20	86	9	57	42	5	17	35	1.71
6103424--6103499	38	2.1	35	80	14	82	50	0	3	46	1.20
6103650--6103694	18	2.5	18	96	0	81	28	17	4	48	1.66
6108630--6108960	164	2.0	167	98	1	641	36	16	13	33	1.88
6110116--6110152	10	3.8	10	85	7	58	0	21	21	56	1.42
6110117--6110153	19	1.9	19	100	0	74	0	21	21	56	1.42
6110537--6110567	2	15.5	2	100	0	62	48	0	0	51	1.00
6111255--6111593	163	2.1	163	89	3	522	27	12	12	46	1.78
6111419--6111831	182	2.3	183	85	2	564	27	13	12	46	1.78
6112203--6112266	29	2.1	31	91	8	105	53	6	3	37	1.42
6112484--6112530	18	2.5	19	86	3	60	44	2	10	42	1.51
6113152--6113209	29	2.0	28	93	3	98	12	36	29	22	1.90
6114828--6114923	48	2.0	48	100	0	192	25	18	27	29	1.98
6116417--6116720	14	22.3	14	71	20	191	44	8	1	44	1.46
6116417--6116682	26	10.6	26	79	11	270	43	8	2	45	1.47
6116433--6116563	49	2.5	51	83	9	51	41	8	1	48	1.43
6116499--6116545	23	2.2	21	81	11	51	40	6	2	51	1.39
6116519--6116821	97	3.1	97	88	6	431	48	9	1	40	1.45
6116684--6116875	8	23.5	8	70	23	84	53	9	1	35	1.40
6116674--6116891	35	6.5	35	82	10	276	52	9	0	36	1.40
6116493--6116751	123	2.1	119	82	11	296	45	8	1	44	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6116648--6116868	70	3.5	61	80	15	241	52	9	1	36	1.44
6116551--6116868	158	2.0	156	80	8	358	50	9	1	38	1.45
6117099--6117371	49	5.6	49	89	4	392	44	11	0	43	1.43
6117360--6117409	21	2.3	22	80	10	59	52	18	0	30	1.46
6121189--6121250	28	2.1	30	94	5	110	56	12	0	30	1.37
6121684--6121737	28	1.9	28	100	0	108	57	14	0	27	1.38
6121714--6121762	21	2.3	21	85	3	71	53	16	0	30	1.43
6121189--6122205	522	2.0	514	93	4	1733	34	19	15	30	1.93
6122264--6122311	21	2.2	21	96	3	87	22	45	14	16	1.84
6122512--6122573	20	3.0	20	76	4	61	48	3	0	48	1.17
6124772--6124817	20	2.3	20	88	0	65	26	21	19	32	1.97
6128736--6128792	21	2.8	21	83	2	71	29	22	22	24	1.99
6129796--6129905	44	2.5	44	85	5	141	19	20	33	26	1.96
6129796--6129928	45	3.0	44	83	5	142	21	22	30	25	1.98
6137652--6137808	32	5.0	32	91	3	239	27	17	21	33	1.96
6142074--6142299	112	2.0	113	99	0	445	40	7	11	40	1.71
6146693--6146750	2	29.0	2	100	0	116	50	0	0	50	1.00
6152047--6152071	11	2.3	11	100	0	50	28	44	28	0	1.55
6152259--6152333	33	2.2	34	83	4	98	34	6	4	54	1.45
6156881--6157102	31	7.2	31	95	0	390	34	15	10	39	1.82
6157608--6157784	64	2.8	64	85	1	230	27	19	21	32	1.97
6157608--6157816	64	3.3	64	84	4	208	27	19	20	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6158923--6158956	12	2.7	13	86	9	52	64	0	0	35	0.94
6171880--6172235	178	2.0	175	88	5	522	46	8	3	40	1.53
6172307--6172362	28	2.0	28	85	3	76	33	8	25	32	1.87
6172743--6172835	20	4.6	20	81	7	125	36	17	21	24	1.94
6172708--6172856	41	3.6	41	73	16	128	30	17	24	27	1.97
6172825--6172980	21	7.5	21	81	9	128	23	20	23	32	1.98
6172867--6172918	20	2.6	20	93	0	95	23	19	17	40	1.91
6174716--6174899	92	2.0	92	100	0	368	31	14	21	32	1.93
6176472--6176496	13	1.9	13	100	0	50	24	60	0	16	1.36
6180558--6180582	6	4.2	6	100	0	50	68	0	32	0	0.90

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