genome.fa.s9175.2.7.7.80.10.50.1000.5.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  5  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)
819198--819231	17	2.1	17	94	5	61	44	20	0	35	1.52
819641--819754	35	3.2	36	88	5	169	43	20	3	32	1.68
820496--820552	20	2.8	20	94	0	96	40	10	24	24	1.87
820710--820781	36	2.0	35	86	7	101	48	4	0	47	1.21
821353--821408	29	1.9	29	81	0	67	46	5	0	48	1.25
821545--821660	42	2.8	42	89	0	160	18	12	14	54	1.71
821861--821920	30	2.1	30	84	9	81	41	0	1	56	1.09
821859--821963	28	3.5	29	79	18	101	44	0	1	53	1.11
827458--827482	2	12.5	2	100	0	50	52	0	48	0	1.00
833614--833765	76	2.0	76	93	0	259	34	13	29	23	1.92
834078--834311	51	4.6	50	86	4	281	47	14	11	26	1.79
834066--834299	101	2.3	102	85	1	317	49	14	10	25	1.76
846180--846222	21	2.0	21	100	0	86	11	32	13	41	1.81
851364--851390	14	1.9	14	100	0	54	33	22	7	37	1.82
852828--852875	19	2.5	19	86	10	62	29	12	2	56	1.48
853350--853384	17	2.1	17	88	0	52	0	28	2	68	1.04
853348--853385	3	13.0	3	83	5	51	0	28	2	68	1.03
853348--853385	20	1.9	20	88	0	58	0	28	2	68	1.03
864916--864953	10	3.5	11	85	10	51	47	2	0	50	1.15
865106--865157	14	3.6	14	82	12	61	17	1	0	80	0.80
865112--865153	8	5.4	8	78	16	52	14	2	0	83	0.75
865112--865156	23	2.0	23	91	4	74	15	2	0	82	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
865241--865284	22	2.0	22	86	0	61	9	4	6	79	1.04
865255--865396	5	27.6	5	69	23	66	19	3	3	73	1.12
865255--865320	16	4.1	16	74	16	64	15	0	4	80	0.87
865261--865312	19	2.7	19	82	11	61	13	0	5	80	0.88
865256--865351	34	2.6	36	84	11	117	15	3	5	76	1.10
873225--873271	22	2.3	20	82	13	60	31	0	0	68	0.90
874125--874188	32	2.0	32	93	0	110	39	17	20	23	1.92
874169--874261	21	4.4	21	86	0	132	30	29	22	18	1.97
874273--874325	21	2.5	21	87	0	79	18	20	30	30	1.97
879105--879177	29	2.5	28	82	8	92	36	16	30	16	1.91
884186--884228	22	2.0	22	86	4	61	44	13	2	39	1.57
886297--886345	3	16.7	3	82	4	64	61	2	4	32	1.26
886544--886882	130	2.6	129	90	3	520	23	19	30	26	1.98
886623--886836	43	4.9	45	74	14	180	23	19	31	25	1.98
886894--886956	28	2.2	28	86	5	83	44	12	14	28	1.82
886914--886989	28	2.6	28	82	14	93	46	11	15	26	1.81
886991--887180	66	2.9	65	73	6	170	37	13	18	30	1.89
892688--892730	22	2.0	22	86	4	61	44	13	2	39	1.57
894813--894861	3	16.7	3	82	4	64	61	2	4	32	1.26
897897--897938	21	2.0	21	95	0	75	30	28	16	23	1.96
898051--898107	15	3.5	15	72	25	53	19	24	36	19	1.94
898050--898134	34	2.5	34	96	1	152	17	27	35	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
898079--898135	15	3.2	18	65	30	50	14	29	33	22	1.93
898078--898140	20	3.4	19	66	29	55	12	30	34	22	1.91
899525--899572	19	2.5	20	82	3	62	29	12	6	52	1.63
900783--900824	21	2.0	21	95	0	75	26	28	21	23	1.99
900937--900993	15	3.5	15	72	25	53	19	22	36	21	1.95
900936--901020	34	2.5	34	92	1	134	17	27	35	20	1.95
902166--902223	28	2.1	27	84	6	73	32	5	1	60	1.29
903804--903832	13	2.3	13	94	5	51	24	13	6	55	1.63
906459--906509	26	2.0	25	92	3	84	84	0	15	0	0.63
906459--906510	9	5.9	9	80	13	63	84	0	15	0	0.62
906461--906499	8	4.9	8	93	0	69	87	0	12	0	0.55
907007--907068	32	1.9	32	96	0	115	43	17	19	19	1.88
909365--909608	75	3.3	75	93	0	416	28	18	24	29	1.98
910956--911010	22	2.5	21	82	8	74	34	14	12	38	1.84
911370--911754	113	3.5	113	84	5	550	37	14	19	28	1.91
911662--911825	73	2.2	73	88	4	233	32	18	18	30	1.95
911549--911938	186	2.1	186	90	1	604	34	15	19	29	1.93
911735--912415	113	6.0	113	84	6	729	37	15	19	27	1.92
911441--912053	299	2.1	294	88	4	901	36	15	19	29	1.92
911932--911976	24	1.9	23	82	13	56	48	6	26	17	1.72
914410--914439	2	15.0	2	100	0	60	50	0	0	50	1.00
917587--917637	22	2.4	21	87	12	70	54	9	0	35	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
917786--917864	31	2.5	31	81	0	95	35	16	17	30	1.92
918753--918777	3	8.3	3	100	0	50	0	32	0	68	0.90
923953--924048	37	2.5	38	81	9	108	70	2	12	14	1.25
923951--924048	38	2.6	36	79	11	99	70	2	12	15	1.26
924003--924134	52	2.6	48	75	18	126	75	2	10	12	1.15
924096--924139	9	5.0	9	88	5	54	81	0	6	11	0.86
924097--924185	18	4.6	18	75	18	72	78	0	4	16	0.91
924032--924139	55	2.0	55	82	10	132	74	2	10	12	1.18
924097--924143	19	2.5	18	86	13	60	82	0	4	12	0.80
924122--924185	26	2.5	26	83	11	80	76	0	3	20	0.92
924100--924182	26	3.2	26	76	13	71	77	0	4	18	0.95
924200--924240	15	2.8	15	88	3	57	80	0	2	17	0.82
925425--925489	28	2.4	28	92	2	105	41	4	3	50	1.38
925435--925643	38	5.4	38	76	12	192	47	5	1	45	1.34
925362--925517	69	2.2	70	77	17	171	44	6	1	46	1.40
925510--925633	34	3.5	34	80	13	142	48	5	0	45	1.31
925574--925653	38	2.1	38	85	0	106	57	5	1	36	1.28
928062--928117	22	2.5	22	85	5	67	44	0	0	55	0.99
928076--928153	11	7.2	11	70	17	56	44	1	1	52	1.17
928135--928208	29	2.5	30	81	14	100	45	1	0	52	1.09
935806--935832	14	1.9	14	100	0	54	37	3	29	29	1.75
936146--936227	39	2.1	39	100	0	164	32	18	7	41	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
939988--940099	36	3.1	36	93	1	190	30	37	3	28	1.74
940251--940288	20	1.9	20	94	0	67	7	23	0	68	1.16
940493--940545	12	4.5	11	80	17	54	79	3	16	0	0.88
944495--944606	36	3.1	36	93	1	190	30	37	3	28	1.74
949761--949912	70	2.2	67	91	3	241	50	17	7	25	1.72
953976--954052	37	2.1	37	85	4	102	46	1	3	48	1.28
954198--954235	20	1.9	20	88	0	58	21	26	10	42	1.85
958371--958395	7	3.6	7	100	0	50	0	12	44	44	1.41
959161--959516	20	15.7	20	73	19	109	21	25	10	42	1.85
959181--959378	46	4.3	46	95	0	351	21	25	11	42	1.85
959247--959496	118	2.1	118	97	0	473	21	23	11	43	1.85
959365--959521	46	3.4	46	97	0	296	21	23	10	44	1.83
959148--959521	164	2.3	160	91	2	599	22	24	10	43	1.84
959994--960046	22	2.4	23	81	9	65	26	30	9	33	1.88
959927--960115	95	2.0	95	89	0	288	25	25	14	34	1.94
959953--960152	95	2.1	93	79	7	215	27	22	15	35	1.94
961142--961183	21	2.0	21	95	0	75	40	4	4	50	1.45
961147--961193	21	2.1	21	84	7	58	40	6	4	48	1.48
961259--961309	20	2.6	21	87	12	65	45	3	3	47	1.40
961271--961309	20	2.0	20	100	0	78	51	5	2	41	1.38
961967--961999	17	1.9	17	93	0	57	30	21	21	27	1.98
965037--965635	297	2.0	297	87	0	867	45	15	21	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
968873--968937	20	3.1	20	88	6	94	35	30	0	33	1.58
968926--968955	2	15.0	2	100	0	60	50	0	0	50	1.00
969332--969381	17	3.1	17	68	26	54	20	6	22	52	1.68
969886--969937	21	2.5	20	81	3	59	71	1	9	17	1.22
969942--970006	22	3.0	22	78	12	73	80	3	6	10	1.01
970002--970036	12	2.9	12	100	0	70	68	0	14	17	1.21
970002--970036	18	1.9	18	100	0	70	68	0	14	17	1.21
970068--970139	20	3.5	21	78	17	80	73	1	2	22	1.04
970528--970569	19	2.2	19	86	0	57	50	28	16	4	1.66
970565--970676	19	6.1	19	79	12	126	12	23	18	45	1.83

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