genome.fa.s8356.2.7.7.80.10.50.1000.31.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   56   

This is table  31  of  56  ( 6656 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)
6590547--6590589	17	2.5	17	85	11	52	51	0	0	48	1.00
6590952--6590999	3	15.7	3	83	12	62	68	0	29	2	1.01
6592045--6592089	21	2.1	21	91	0	72	17	24	17	40	1.91
6592045--6592097	21	2.5	21	84	0	61	20	22	18	37	1.94
6592091--6592139	20	2.5	20	100	0	98	40	18	20	20	1.91
6592335--6592400	22	3.0	22	90	0	105	24	39	15	21	1.91
6592724--6592776	14	3.4	14	75	22	52	9	20	24	45	1.81
6592769--6592816	20	2.4	20	85	0	60	16	14	25	43	1.86
6592784--6592826	20	2.2	20	91	0	68	11	13	20	53	1.71
6594704--6594798	34	2.8	33	77	6	93	46	22	15	15	1.84
6594782--6594858	20	3.8	20	92	0	118	38	18	16	25	1.92
6594903--6594991	20	4.4	20	89	0	133	17	19	23	39	1.92
6595473--6595514	21	2.2	19	87	12	59	21	35	19	23	1.96
6595498--6595589	42	2.2	42	82	3	105	26	35	16	21	1.94
6596962--6596997	14	2.6	14	90	0	54	30	0	22	47	1.52
6597120--6597214	33	2.8	34	87	3	138	14	22	21	42	1.89
6597187--6597260	20	3.7	20	87	0	112	17	18	25	37	1.93
6599690--6599741	24	2.2	24	82	0	59	36	21	19	23	1.95
6600569--6600695	20	6.3	20	84	5	152	24	18	25	31	1.97
6600569--6600695	40	3.2	40	87	4	184	24	18	25	31	1.97
6600569--6600695	60	2.1	60	88	2	184	24	18	25	31	1.97
6600682--6600738	20	2.8	20	97	0	105	19	19	21	40	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6600734--6600776	21	2.0	22	81	4	52	41	9	20	27	1.83
6600999--6601209	70	3.0	69	78	9	219	46	3	4	45	1.40
6601004--6601115	35	3.2	34	76	14	129	48	3	2	45	1.34
6603312--6603570	123	2.1	123	97	0	482	22	19	10	47	1.80
6604618--6605012	60	6.8	58	71	13	249	44	12	7	36	1.70
6608020--6608202	71	2.5	70	79	11	183	46	3	7	42	1.47
6616675--6616736	26	2.4	26	79	12	74	67	1	1	29	1.09
6618862--6618920	3	20.3	3	75	13	52	67	1	3	27	1.16
6618870--6618931	29	2.2	28	81	16	76	62	3	4	29	1.31
6619709--6619760	20	2.6	20	78	0	59	3	5	30	59	1.39
6620375--6620429	3	18.7	3	85	10	78	63	1	0	34	1.05
6620750--6621981	113	11.0	113	90	1	1503	28	18	14	37	1.91
6620767--6621983	337	3.6	337	87	4	1543	28	18	14	37	1.91
6622381--6622435	22	2.5	22	90	0	92	38	14	12	34	1.84
6622802--6622963	54	3.0	54	91	0	252	22	24	16	36	1.94
6625016--6625235	114	1.9	114	93	0	377	29	20	15	33	1.94
6631759--6631797	20	2.0	20	85	10	53	71	2	2	23	1.10
6631809--6631844	19	1.9	19	88	5	56	63	0	2	33	1.08
6632664--6632722	3	20.3	3	75	13	52	67	1	3	27	1.16
6632664--6632733	29	2.6	27	82	12	90	65	2	2	28	1.21
6632750--6632811	29	2.2	29	80	13	67	61	1	6	30	1.31
6634880--6634940	31	2.0	31	93	0	104	39	9	24	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6638975--6639176	39	5.2	39	82	0	242	27	17	22	31	1.97
6654755--6654783	14	2.0	15	93	6	51	0	27	0	72	0.85
6654939--6655009	31	2.3	31	97	0	133	54	0	30	14	1.40
6655962--6655997	18	2.0	18	100	0	72	22	27	11	38	1.88
6656971--6657010	20	2.0	20	100	0	80	35	25	5	35	1.78
6658050--6658093	18	2.4	18	92	0	70	50	20	13	15	1.78
6659060--6659224	76	2.2	75	84	3	215	30	1	12	55	1.47
6659146--6659179	13	2.5	13	85	4	50	20	2	2	73	1.09
6659873--6659914	22	1.9	22	95	0	75	21	4	0	73	1.01
6667485--6667648	75	2.2	75	85	4	215	29	2	11	56	1.48
6668275--6668341	19	3.4	18	78	14	62	19	7	1	71	1.17
6669628--6669683	24	2.3	24	96	0	103	46	10	12	30	1.76
6671839--6671865	13	2.1	13	100	0	54	55	22	7	14	1.64
6679448--6679481	18	1.9	17	88	5	50	64	5	0	29	1.17
6687489--6687522	18	1.9	17	88	5	50	64	5	0	29	1.17
6687785--6687855	36	1.9	37	81	13	85	45	22	14	18	1.85
6701979--6702035	25	2.3	25	93	0	96	29	3	7	59	1.40
6702896--6703098	102	2.0	101	93	0	343	26	17	26	29	1.98
6722233--6722359	43	3.0	43	75	4	130	33	20	15	29	1.94
6724026--6724165	62	2.2	67	85	6	200	47	15	17	19	1.82
6725238--6725302	34	1.9	34	100	0	130	29	15	21	33	1.94
6729776--6729896	59	2.1	59	93	0	206	37	22	16	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6730976--6731034	26	2.3	26	96	0	109	25	23	11	38	1.89
6735202--6735241	17	2.3	18	83	12	57	2	30	0	67	1.04
6744188--6744298	2	55.0	2	68	18	61	41	6	1	50	1.38
6744199--6744294	15	6.6	14	75	9	77	40	5	2	52	1.36
6744200--6744298	40	2.7	36	76	21	91	40	5	2	52	1.35
6744330--6744368	19	2.0	20	85	5	53	46	7	10	35	1.67
6744448--6744487	4	10.2	4	83	5	55	27	20	0	52	1.46
6744928--6744971	21	2.2	20	83	4	52	61	11	6	20	1.52
6745126--6745173	18	2.7	17	78	9	51	79	2	14	4	0.98
6752406--6752745	65	5.2	65	87	1	396	28	17	13	40	1.88
6752608--6752708	29	3.2	29	70	22	87	28	19	12	38	1.89
6752622--6752724	36	3.1	36	68	23	96	24	19	13	42	1.87
6752851--6752931	25	3.2	25	63	16	67	23	29	19	27	1.98
6752749--6753013	134	2.0	134	81	0	314	29	30	15	24	1.95
6755542--6755576	2	18.0	2	94	5	63	48	0	0	51	1.00
6766345--6766431	35	2.5	34	77	18	90	55	9	8	27	1.60
6766647--6766690	3	14.7	3	90	0	61	4	36	27	31	1.77
6766645--6766684	21	1.9	21	100	0	80	7	37	25	30	1.83
6767042--6767076	18	1.9	18	94	0	61	25	20	22	31	1.98
6768545--6768877	111	3.0	111	98	0	639	44	11	8	35	1.71
6768939--6768979	18	2.3	18	91	4	66	63	2	4	29	1.28
6769019--6769061	10	4.1	11	88	11	56	41	0	27	30	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6769679--6769721	21	2.0	21	86	0	59	27	16	25	30	1.97
6784760--6784867	53	2.0	53	83	0	135	32	18	21	27	1.97
6784889--6785028	48	2.9	48	90	0	208	46	17	10	26	1.79
6784942--6785014	24	3.0	24	65	20	62	49	17	8	24	1.74
6788274--6789516	623	2.0	623	97	0	2342	32	22	15	29	1.94
6790281--6790357	21	3.7	21	94	3	138	18	19	40	22	1.92
6790579--6790618	21	1.9	21	89	0	62	50	10	10	30	1.69
6791736--6791783	19	2.5	20	82	3	62	29	12	6	52	1.63
6793117--6793171	21	2.6	21	97	0	101	20	12	41	25	1.87
6796405--6796545	48	2.9	48	91	0	228	48	19	9	22	1.77
6798910--6799025	59	2.0	59	92	0	196	27	21	14	36	1.93
6806379--6806440	12	4.7	12	76	21	61	19	43	22	14	1.87
6806370--6806415	17	2.6	17	89	3	65	19	41	23	15	1.89
6806393--6806440	25	1.9	25	86	0	69	20	41	22	14	1.89
6806419--6806451	17	1.9	17	93	0	57	24	48	15	12	1.78
6806375--6806457	42	2.0	43	87	2	123	20	44	20	14	1.86
6806462--6806603	29	4.9	30	81	6	159	34	5	18	41	1.74
6806467--6806618	57	2.6	58	82	5	173	34	4	18	42	1.71
6813969--6814155	29	6.4	30	78	13	183	32	3	21	42	1.69
6823799--6823837	21	1.9	20	85	15	53	33	10	17	38	1.84
6847346--6847389	19	2.3	19	84	4	52	25	22	18	34	1.96
6849188--6849220	16	2.1	16	94	0	57	60	0	30	9	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6851497--6851539	5	8.6	5	85	10	52	58	0	37	4	1.19
6858498--6858746	42	5.9	42	80	6	214	38	16	20	25	1.92
6858539--6858748	42	4.9	42	81	8	226	37	17	20	25	1.94
6865263--6865333	13	5.1	14	71	24	53	74	0	5	19	1.01
6865262--6865348	33	2.6	34	76	16	94	72	0	4	22	1.03
6865349--6865443	34	2.6	38	83	13	144	45	5	2	47	1.37
6867408--6868251	4	211.8	4	99	0	1667	25	0	24	50	1.50
6869055--6869115	29	2.1	29	93	3	104	14	9	9	65	1.46
6870126--6870151	11	2.4	11	100	0	52	7	19	7	65	1.43
6876980--6877334	60	5.9	60	89	0	505	37	21	17	23	1.94

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   56