genome.fa.s7960.2.7.7.80.10.50.1000.30.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  30  of  39  ( 4646 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)
5724570--5724634	25	2.5	25	80	14	78	35	0	1	63	1.04
5724581--5724630	24	2.0	25	88	3	75	32	0	0	68	0.90
5726481--5726520	19	2.1	19	85	0	53	20	22	17	40	1.92
5728191--5728233	16	2.6	17	81	7	52	55	4	6	32	1.47
5728609--5728917	154	2.0	154	98	0	591	34	13	13	38	1.84
5733894--5733954	3	20.0	3	85	9	79	29	0	3	67	1.07
5733894--5733958	19	3.5	19	83	10	82	30	0	3	66	1.07
5738734--5738779	20	2.3	20	100	0	92	26	19	15	39	1.91
5740282--5740336	23	2.4	23	79	11	69	38	10	5	45	1.63
5740612--5740732	4	30.8	4	88	3	174	51	21	0	27	1.48
5740825--5740855	12	2.6	12	100	0	62	41	35	0	22	1.54
5741088--5741185	36	2.7	36	90	4	144	33	18	13	34	1.89
5741240--5741322	36	2.3	36	81	12	98	34	20	8	36	1.83
5741577--5741685	35	3.1	34	79	11	121	32	19	10	38	1.85
5741723--5741781	31	1.9	31	89	3	93	30	13	15	40	1.86
5742235--5742331	36	2.7	35	79	7	90	32	18	10	38	1.85
5742422--5742655	43	5.5	43	69	10	151	24	29	18	27	1.98
5742505--5742660	82	1.9	84	83	4	208	25	27	17	30	1.97
5742406--5742788	133	2.9	130	80	3	430	25	28	18	26	1.98
5742954--5743038	3	28.0	3	84	7	109	30	0	3	65	1.09
5743769--5743793	9	2.8	9	100	0	50	56	0	44	0	0.99
5749595--5749619	13	1.9	13	100	0	50	68	8	0	24	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5756103--5756145	21	2.0	21	86	0	59	20	18	18	41	1.90
5756165--5756211	20	2.3	20	92	0	76	36	23	19	21	1.95
5756220--5756312	20	4.6	20	82	7	107	33	25	12	27	1.93
5756159--5756312	60	2.5	61	80	5	152	36	24	14	25	1.93
5756205--5756351	61	2.4	60	82	4	161	34	23	12	29	1.91
5756219--5756312	41	2.3	39	82	13	111	32	25	12	28	1.93
5756219--5756351	20	6.6	19	76	12	106	33	23	12	31	1.91
5757140--5757173	12	2.8	12	90	0	50	55	29	0	14	1.40
5757299--5757352	24	2.2	24	86	0	72	22	18	18	40	1.91
5759882--5759929	25	1.9	25	95	0	87	20	8	22	47	1.77
5760312--5760348	18	2.1	18	89	0	56	32	5	10	51	1.60
5760304--5760356	24	2.2	24	86	0	70	35	3	13	47	1.61
5761927--5761960	14	2.4	14	100	0	68	47	20	0	32	1.51
5763332--5763434	21	4.9	21	81	0	125	27	20	31	21	1.98
5763312--5763434	42	2.9	42	82	0	147	26	20	32	21	1.97
5765529--5765593	19	3.3	20	89	6	98	50	21	16	10	1.75
5765591--5765632	20	2.1	20	86	0	57	14	14	21	50	1.78
5765953--5766017	22	3.0	22	84	4	89	21	16	43	18	1.88
5766186--5766251	20	3.3	20	95	0	114	22	19	21	36	1.95
5766265--5766313	19	2.5	19	90	3	71	20	16	32	30	1.94
5767342--5767524	75	2.4	75	80	3	181	44	9	13	32	1.76
5767499--5767570	23	3.1	23	89	0	99	38	15	13	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5767555--5767720	75	2.2	75	86	2	235	39	9	14	36	1.79
5767695--5767789	23	4.1	23	84	0	109	34	14	12	37	1.84
5767402--5767766	196	1.9	196	83	3	484	40	10	14	33	1.81
5767695--5767789	46	2.1	46	85	0	127	34	14	12	37	1.84
5768259--5768288	15	2.0	15	100	0	60	66	13	0	20	1.24
5768279--5768332	17	3.2	17	100	0	108	48	11	5	35	1.62
5768540--5768820	107	2.6	106	83	6	341	37	13	11	37	1.81
5768682--5769120	223	2.0	223	82	3	535	36	13	10	39	1.80
5774694--5774744	22	2.3	22	90	6	77	31	19	25	23	1.98
5784186--5784253	34	2.0	34	83	13	86	22	10	19	48	1.78
5791150--5791181	15	2.1	15	94	0	55	6	25	15	53	1.65
5797107--5797163	20	2.8	20	86	0	87	22	19	12	45	1.83
5802399--5802447	21	2.3	21	75	6	55	24	22	16	36	1.94
5802454--5802551	21	4.7	21	98	0	187	38	16	23	21	1.92
5802540--5802654	20	5.7	20	79	6	115	34	26	16	21	1.95
5802537--5802674	41	3.4	41	81	2	179	36	25	15	21	1.93
5802841--5802884	22	2.0	22	95	0	79	20	45	15	18	1.85
5803147--5803205	20	3.0	20	87	0	73	15	18	22	44	1.87
5803342--5803396	25	2.2	24	78	15	58	20	9	18	52	1.71
5804525--5804572	18	2.7	18	90	0	78	25	45	12	16	1.82
5805140--5805236	19	5.6	19	69	22	88	46	20	19	13	1.83
5805140--5805231	33	2.8	33	96	0	166	47	20	18	13	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5805156--5805214	14	3.9	14	74	20	55	49	22	16	11	1.78
5805274--5805348	20	3.8	19	86	8	96	17	25	22	34	1.96
5805321--5805359	20	2.0	20	84	0	51	23	17	23	35	1.95
5805723--5805791	21	3.3	20	74	6	66	24	40	15	18	1.90
5805713--5805803	41	2.2	42	88	2	139	21	41	15	20	1.89
5807212--5807250	14	2.8	14	84	0	51	35	0	17	46	1.49
5808395--5808439	23	2.0	23	81	0	54	26	24	26	22	2.00
5808554--5808622	25	2.8	25	97	0	129	27	26	27	18	1.98
5810288--5810332	21	2.1	21	87	0	63	15	24	28	31	1.96
5813765--5813840	25	3.0	25	96	1	134	31	23	25	19	1.98
5815506--5815550	21	2.1	21	87	0	63	15	24	28	31	1.96
5817622--5817719	19	5.7	18	68	24	77	44	19	24	11	1.83
5817622--5817715	33	2.8	33	96	0	170	44	19	24	11	1.84
5819321--5819409	20	4.8	19	71	18	80	47	19	21	12	1.82
5819440--5819490	19	2.6	20	84	3	77	11	17	23	47	1.81
5820025--5820113	20	4.4	20	84	2	124	20	21	19	39	1.93
5820025--5820113	41	2.2	40	87	2	124	20	21	19	39	1.93
5820042--5820172	41	3.2	42	79	6	126	29	18	19	32	1.96
5820103--5820169	21	3.2	21	87	4	100	38	16	20	23	1.92
5820014--5820154	61	2.3	62	77	10	155	28	18	18	34	1.95
5823504--5823594	33	2.9	32	87	6	132	24	28	26	20	1.99
5823543--5823591	15	3.3	15	73	0	53	26	26	24	22	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5825830--5825875	24	2.0	23	95	4	83	50	17	21	10	1.77
5826460--5826521	2	31.0	2	93	6	108	50	1	0	48	1.10
5831657--5831726	35	2.0	35	100	0	140	40	2	31	25	1.70
5832373--5832417	22	2.0	22	86	0	63	40	40	8	11	1.72
5834990--5835015	2	13.0	2	100	0	52	50	0	0	50	1.00
5838255--5838345	44	2.1	44	100	0	182	43	19	8	27	1.80
5842630--5842721	23	4.0	23	85	0	121	31	25	25	18	1.98
5847519--5847555	18	2.1	18	94	0	65	21	18	5	54	1.64
5848084--5848158	2	38.0	2	97	2	143	50	0	0	49	1.00
5848689--5848713	2	12.5	2	100	0	50	52	0	0	48	1.00
5849663--5849723	27	2.2	29	79	5	72	52	6	11	29	1.62
5850390--5850444	28	2.1	24	83	12	65	56	1	5	36	1.33
5850448--5850496	22	2.1	24	92	7	84	48	0	4	46	1.20
5853615--5853926	102	3.1	102	92	2	506	51	19	8	20	1.71
5853910--5853942	17	1.9	17	100	0	66	60	18	9	12	1.57
5854188--5854228	18	2.3	18	86	0	55	19	4	36	39	1.73
5854276--5854345	6	11.5	6	83	3	86	4	4	45	45	1.42
5854228--5854286	24	2.5	23	75	8	64	11	5	37	45	1.63
5854264--5854344	18	4.4	18	82	1	90	6	4	44	44	1.50
5855044--5855140	28	3.5	28	73	19	87	47	1	1	50	1.14
5855044--5855140	50	1.9	51	85	10	137	47	1	1	50	1.14
5855133--5855179	24	1.9	25	82	4	60	53	6	2	38	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5855189--5855250	14	4.4	14	76	15	56	45	1	6	46	1.38
5855042--5855208	81	2.1	77	81	11	187	47	2	2	47	1.28
5855097--5855303	65	3.2	64	81	10	224	49	3	3	43	1.37
5855169--5855374	21	9.5	21	69	14	96	49	4	4	41	1.45
5855414--5855518	20	5.2	21	74	21	100	42	8	6	41	1.61
5855427--5855484	24	2.5	24	86	5	75	46	6	6	39	1.57
5855453--5855500	18	2.8	18	84	12	66	41	8	6	43	1.60
5855502--5855571	37	1.9	36	85	5	97	40	11	8	40	1.72
5855602--5855646	7	6.4	7	86	0	63	13	2	37	46	1.55
5855776--5855890	2	57.5	2	67	19	53	46	6	2	45	1.42

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