genome.fa.s8243.2.7.7.80.10.50.1000.4.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  4  of  49  ( 5786 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)
529047--529267	64	3.5	64	81	4	234	33	20	19	26	1.96
529573--529608	12	3.0	12	87	0	54	33	5	19	41	1.75
535956--536139	64	2.9	63	85	3	235	35	20	17	25	1.95
536614--536646	15	2.2	15	100	0	66	15	18	33	33	1.92
538528--538594	20	3.3	20	93	0	116	22	17	22	37	1.94
538588--538635	20	2.4	20	89	0	69	27	12	29	31	1.93
538528--538614	40	2.2	40	85	8	115	25	16	22	35	1.94
540133--540193	27	2.2	28	91	2	97	47	18	19	14	1.82
543059--543093	17	2.1	17	100	0	70	42	0	17	40	1.49
545525--545661	59	2.3	59	81	2	177	28	17	24	29	1.97
545762--545880	48	2.6	45	82	8	150	37	8	21	31	1.84
546025--546086	21	3.0	21	90	0	88	0	41	19	38	1.51
546023--546131	21	5.2	21	83	2	85	2	39	17	40	1.64
554415--554617	83	2.4	82	81	3	237	25	22	19	32	1.97
555835--555960	47	2.8	45	86	5	173	37	7	23	31	1.82
558048--558115	31	2.2	31	94	5	120	33	16	29	20	1.94
561056--561103	20	2.4	20	85	0	60	29	16	25	29	1.97
563866--563899	13	2.6	13	95	0	59	47	8	20	23	1.78
564147--564214	23	3.0	23	86	0	91	19	25	26	29	1.98
564353--564385	14	2.3	15	89	5	50	33	0	27	39	1.57
564488--564520	2	16.5	2	100	0	66	48	0	0	51	1.00
568676--568730	23	2.4	23	87	0	74	18	23	27	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569000--569045	2	23.0	2	100	0	92	50	0	0	50	1.00
570132--570179	19	2.5	19	93	0	78	47	25	2	25	1.62
574591--574628	16	2.4	16	95	0	67	55	5	34	5	1.45
577030--577096	12	5.7	12	94	1	118	32	0	40	26	1.57
583119--583165	18	2.7	18	96	3	87	34	6	31	27	1.82
583751--583811	28	2.2	28	91	2	97	44	32	8	14	1.75
587644--587685	5	8.4	5	82	10	50	80	2	0	16	0.81
589510--589558	3	16.3	3	100	0	98	65	0	0	34	0.93
589748--590474	131	5.6	131	84	1	841	25	16	30	27	1.97
589748--590476	261	2.8	259	83	2	913	25	16	30	27	1.97
589850--590474	43	14.4	43	65	18	169	24	16	31	27	1.97
590405--590481	40	1.9	40	83	0	100	22	19	36	22	1.95
590499--590784	133	2.2	132	81	6	346	39	13	20	26	1.90
590631--590749	31	3.7	30	70	17	89	41	12	18	27	1.87
590499--590784	66	4.3	65	77	6	279	39	13	20	26	1.90
590845--590964	37	3.3	36	72	10	91	40	10	18	30	1.84
590861--590964	37	2.8	37	75	5	102	40	11	18	29	1.86
591302--591335	16	2.1	16	88	0	50	26	0	23	50	1.50
592367--592408	2	21.0	2	100	0	84	50	0	0	50	1.00
598509--598548	3	13.7	3	84	5	55	60	0	0	40	0.97
600288--600339	24	2.2	24	85	0	68	38	21	21	19	1.94
600333--600429	46	2.1	46	90	3	151	32	24	25	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600320--600429	23	4.8	23	82	6	116	32	26	25	15	1.95
604598--604674	37	2.1	37	87	0	109	38	15	14	31	1.87
608137--608199	21	3.0	21	83	0	90	23	17	28	30	1.97
615013--615075	21	3.0	21	90	0	99	25	20	28	25	1.99
616213--616270	24	2.4	25	94	2	100	56	3	6	32	1.42
616304--616329	7	3.7	7	100	0	52	0	0	57	42	0.98
616853--616911	25	2.4	25	94	5	102	55	5	8	30	1.51
622904--622952	12	4.2	12	78	5	55	24	40	16	18	1.90
625323--625601	24	11.9	24	72	10	139	19	47	9	24	1.78
625337--625623	117	2.5	118	83	5	379	19	49	8	22	1.74
625592--625644	21	2.5	21	81	0	61	16	58	1	22	1.48
625550--625692	66	2.2	66	82	2	171	18	51	6	23	1.71
625766--625824	21	2.8	21	94	0	100	13	54	6	25	1.64
634059--634108	18	2.8	18	87	3	75	30	32	14	24	1.94
638762--638861	21	4.9	20	73	10	78	22	15	27	36	1.93
638741--638861	42	2.9	41	80	4	145	22	14	28	34	1.93
640751--640775	4	6.2	4	100	0	50	76	0	0	24	0.80
647723--647891	85	2.0	85	100	0	338	18	17	24	38	1.93
651090--651120	15	2.1	15	93	0	53	45	0	0	54	0.99
651280--651317	20	1.9	20	88	0	58	21	26	10	42	1.85
659772--659810	17	2.4	17	95	4	71	43	0	5	51	1.24
662086--662146	23	2.7	23	86	0	95	26	26	27	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
667510--667570	23	2.7	23	76	0	77	29	24	26	19	1.99
668017--668051	15	2.3	15	90	0	52	34	22	0	42	1.54
670901--671308	35	11.4	35	80	8	385	42	10	3	43	1.55
670901--671322	138	2.9	143	80	9	441	42	9	3	43	1.55
670901--671322	110	3.9	108	82	8	468	42	9	3	43	1.55
672719--672764	20	2.3	20	100	0	92	10	26	30	32	1.90
672729--672773	20	2.2	20	88	0	63	15	22	31	31	1.95
675219--675258	15	2.7	15	84	11	55	35	7	37	20	1.81
675994--676053	30	2.0	30	90	0	93	43	5	10	41	1.60
676928--677243	155	2.0	155	96	3	555	29	15	9	45	1.78
678993--679021	5	5.8	5	100	0	58	0	17	0	82	0.66
685407--685452	4	11.5	4	100	0	92	50	23	0	26	1.50
686399--686431	10	3.3	10	91	0	57	63	15	18	3	1.43
688166--688214	21	2.3	21	85	0	62	69	4	2	24	1.17
693174--693198	11	2.3	11	100	0	50	8	0	0	92	0.40
694440--694483	21	2.1	21	95	0	79	11	34	36	18	1.86
695138--695187	23	2.2	23	100	0	100	26	8	16	50	1.72
695331--695363	12	2.8	12	90	0	57	51	15	9	24	1.72
695331--695385	24	2.3	23	81	6	56	50	14	9	25	1.72
696229--696266	4	9.5	4	88	0	58	47	21	5	26	1.71
696276--696301	13	2.0	13	100	0	52	23	23	7	46	1.78
701459--701540	31	2.7	31	81	5	96	58	7	14	19	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
701459--701560	29	3.4	30	80	6	91	56	6	15	20	1.62
704267--704297	10	3.1	10	95	0	53	58	19	9	12	1.62
712684--712741	20	2.9	20	77	10	73	25	15	25	32	1.95
712801--712851	20	2.5	21	84	12	70	33	21	13	31	1.92
715445--715769	164	1.9	173	89	8	517	53	9	8	28	1.63
715684--715761	35	2.2	35	80	15	90	55	7	10	26	1.60
716692--717024	111	3.0	111	93	0	560	45	9	7	37	1.65
717607--717702	48	2.0	49	95	2	176	42	2	6	48	1.40
718402--718474	12	5.9	12	73	22	53	24	0	1	73	0.90
719371--719412	4	10.8	4	80	14	52	21	2	0	76	0.90
723530--723788	110	2.4	108	84	5	328	33	24	19	22	1.97
723748--724220	258	1.8	257	84	3	637	34	23	17	25	1.96
724288--724458	84	2.0	84	82	2	209	33	26	17	22	1.96
724616--724681	23	2.8	24	75	13	64	31	0	1	66	1.01
726248--726472	112	2.0	113	99	0	443	35	27	12	24	1.91
730162--730248	38	2.3	38	86	4	113	12	16	14	56	1.68
730847--731111	42	6.2	42	85	4	300	24	23	18	33	1.97
730847--731091	85	2.9	85	84	3	305	24	23	18	32	1.97
735898--735951	21	2.6	21	96	0	99	24	29	27	18	1.98
737197--737250	2	28.0	2	92	7	94	50	0	0	50	1.00
737197--737247	23	2.2	23	96	0	93	50	0	0	49	1.00
737810--737843	17	2.1	17	88	5	52	32	23	5	38	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
741166--741207	22	1.9	22	95	0	75	9	26	45	19	1.80
741176--741208	17	1.9	17	100	0	66	9	24	48	18	1.76
741206--741303	19	5.1	19	78	13	92	28	26	26	18	1.98
741206--741254	10	5.1	10	78	11	50	24	30	26	18	1.98
741210--741303	9	9.7	10	78	11	90	28	26	26	18	1.98
741205--741302	29	3.4	28	83	5	115	28	26	27	17	1.98
748401--748441	21	1.9	22	90	5	66	9	26	43	19	1.82
751615--751750	28	4.9	28	80	2	105	47	16	14	21	1.83
755916--755967	27	2.0	27	85	11	72	30	3	17	48	1.65
756463--756530	22	3.2	21	65	23	52	22	16	7	54	1.66

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