genome.fa.s9634.2.7.7.80.10.50.1000.4.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  4  of  78  ( 9351 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)
741355--741397	18	2.4	18	84	7	52	25	23	18	32	1.97
746739--747556	406	2.0	406	97	0	1557	28	15	21	34	1.94
750598--750642	21	2.1	21	87	0	63	22	13	24	40	1.90
750079--751238	599	1.9	600	93	1	1984	32	10	20	35	1.88
751017--751067	21	2.4	22	80	9	70	41	13	15	29	1.86
751198--751247	21	2.4	21	90	3	75	18	18	28	36	1.94
753812--753863	23	2.2	23	86	6	68	25	17	23	34	1.96
757678--757797	64	1.9	63	85	1	168	35	21	17	25	1.95
759546--759596	11	4.5	11	78	9	50	37	29	0	33	1.58
763764--763853	42	2.1	42	91	2	144	32	31	6	30	1.83
764834--764945	35	3.2	35	87	0	152	41	22	0	35	1.60
764941--765015	35	2.1	35	82	4	89	34	0	21	44	1.53
774996--775023	2	14.0	2	100	0	56	50	0	50	0	1.00
777446--777499	20	2.7	20	75	11	65	29	27	14	27	1.95
777507--777553	21	2.2	21	80	0	67	21	21	17	40	1.91
777545--777595	20	2.5	20	93	0	93	37	25	15	21	1.93
778476--778535	24	2.5	24	76	10	68	28	18	15	38	1.91
780786--780821	18	2.0	18	94	0	63	55	25	2	16	1.55
781146--781199	20	2.7	20	91	0	90	22	20	22	35	1.96
781174--781258	34	2.5	34	98	0	161	20	22	20	37	1.94
781304--781353	25	2.0	25	96	0	91	26	8	22	44	1.80
781710--781746	18	2.1	18	89	0	56	32	5	10	51	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
781702--781754	24	2.2	24	86	0	70	35	3	13	47	1.61
782013--782052	17	2.4	17	100	0	80	42	30	7	20	1.79
782411--782515	29	3.3	29	70	28	88	57	16	0	25	1.45
783923--783995	21	3.5	21	70	7	58	21	17	32	27	1.96
783923--784022	42	2.4	42	80	9	114	23	17	34	26	1.96
786454--786511	22	2.6	22	91	0	89	20	15	39	24	1.91
786631--786716	20	4.3	20	93	0	127	22	15	23	39	1.91
786740--786793	20	2.7	20	72	11	65	25	12	31	29	1.93
787218--787259	21	2.0	21	85	0	57	28	26	14	30	1.95
792990--793112	63	2.0	63	86	0	174	33	18	15	32	1.92
795624--795686	24	2.7	23	92	5	99	41	19	20	19	1.91
795614--795699	24	3.7	23	81	6	82	41	20	18	18	1.90
795695--795779	23	3.7	22	75	9	64	37	23	20	18	1.94
795704--795779	23	3.3	24	80	5	77	38	25	19	17	1.93
795921--796003	15	5.4	15	70	5	58	32	19	12	36	1.88
799660--799700	21	2.0	21	85	0	55	29	26	19	24	1.98
802275--802326	2	26.0	2	100	0	104	50	0	0	50	1.00
810254--810325	28	3.1	22	72	24	58	45	0	0	54	0.99
810408--810452	23	2.0	23	90	0	72	44	0	2	53	1.13
810442--810485	17	2.6	17	89	3	63	47	0	0	52	1.00
810361--810475	30	3.8	30	70	20	80	46	0	3	50	1.18
810551--810660	24	4.2	24	70	18	69	51	0	2	44	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
810588--810630	22	2.0	22	81	9	52	46	0	2	51	1.13
810652--810717	24	3.0	22	77	16	73	45	0	3	51	1.16
811151--811217	33	2.0	32	86	11	91	49	0	2	47	1.16
812580--812618	19	2.0	21	90	10	64	30	5	12	51	1.62
813928--813975	24	2.0	24	84	12	62	56	0	0	43	0.99
816147--816224	31	2.5	30	83	4	84	41	5	6	47	1.51
816270--816455	34	5.5	34	88	6	247	42	0	8	48	1.36
816462--816503	8	5.4	8	85	2	50	30	4	0	64	1.14
816664--816694	16	2.0	15	93	6	53	19	41	25	12	1.87
822889--823612	80	8.9	80	82	5	781	30	24	20	24	1.99
822823--823612	247	3.2	248	91	3	1182	30	24	20	24	1.98
822894--823670	328	2.4	327	81	5	858	31	24	20	23	1.98
824220--824403	36	5.3	36	71	12	136	42	3	7	46	1.49
824280--824582	33	8.8	34	75	15	207	43	1	7	46	1.43
824380--824582	70	3.0	66	81	11	221	42	0	8	48	1.37
824593--824651	4	14.8	4	82	7	75	25	5	0	69	1.09
824798--824827	16	1.9	15	93	6	51	20	40	26	13	1.89
825940--825985	22	2.1	22	84	8	58	8	10	8	71	1.30
835278--835325	25	1.9	25	87	8	71	60	0	4	35	1.16
835524--835632	42	2.6	42	98	0	209	44	9	5	40	1.59
835549--835617	15	4.9	14	70	21	54	42	8	2	46	1.49
837495--837558	30	2.1	30	94	0	110	39	28	9	23	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
855149--855383	33	6.8	32	74	18	154	15	8	33	42	1.78
855116--855257	64	2.3	60	81	7	160	16	8	30	43	1.78
855208--855372	38	4.5	37	77	12	169	13	10	35	40	1.79
855362--855744	204	1.9	206	96	1	716	32	13	14	38	1.86
868068--868095	14	2.0	14	100	0	56	7	21	50	21	1.72
870956--871026	31	2.3	29	80	20	81	47	0	4	47	1.21
871129--871200	27	2.7	26	77	12	74	51	1	1	45	1.18
871153--871253	53	1.9	52	82	11	125	51	0	0	47	1.07
880281--880335	26	2.1	26	89	0	83	40	27	10	21	1.87
882734--882809	24	3.2	24	83	3	73	43	21	13	22	1.86
882751--882866	24	4.8	24	88	6	164	38	19	16	25	1.92
882782--882884	48	2.1	48	85	7	138	41	18	15	24	1.89
885310--885349	7	5.4	7	82	11	53	27	27	32	12	1.93
885311--885365	8	7.5	8	78	17	66	23	25	36	14	1.93
885311--885349	15	2.6	15	91	0	69	28	25	33	12	1.93
885339--885382	13	3.4	13	90	0	70	18	22	43	15	1.88
885360--885405	18	2.6	18	89	0	74	15	19	45	19	1.85
887518--887593	24	3.2	24	83	3	73	43	21	13	22	1.86
887535--887674	24	5.8	24	85	6	144	37	20	15	26	1.92
887535--887674	48	2.9	48	82	8	160	37	20	15	26	1.92
888648--888700	26	2.0	26	85	0	70	26	20	16	35	1.94
901748--901793	16	2.9	16	100	0	92	45	19	15	19	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
901847--901874	14	2.0	14	100	0	56	42	0	7	50	1.30
908810--908839	13	2.2	14	94	5	53	40	13	26	20	1.89
913419--913468	24	2.1	24	88	3	75	48	10	0	42	1.37
913423--913478	24	2.4	24	82	8	62	48	7	0	44	1.30
913389--913547	39	4.2	37	67	16	101	46	4	3	45	1.41
913389--913614	114	2.0	112	83	10	287	49	3	3	43	1.37
913442--913614	90	1.9	91	81	8	210	50	2	2	43	1.31
913596--914027	92	4.6	91	81	7	381	45	6	6	41	1.57
913596--913929	97	3.6	94	84	5	346	46	7	5	40	1.56
913596--914015	189	2.2	188	81	8	466	45	6	6	40	1.58
913596--914014	97	4.5	92	79	10	342	45	6	6	41	1.58
917327--917380	24	2.2	25	80	9	67	20	9	18	51	1.73
929567--929619	2	26.5	2	100	0	106	49	0	0	50	1.00
929962--929992	3	10.3	3	100	0	62	67	0	0	32	0.91
934073--934123	23	2.2	23	96	0	93	47	5	11	35	1.65
934734--934799	33	2.0	33	81	0	78	50	16	4	28	1.65
936143--936209	32	2.1	32	85	0	89	40	17	19	22	1.92
939968--940013	20	2.3	19	85	14	58	50	8	15	26	1.73
945409--945471	23	2.7	23	85	0	99	30	26	26	15	1.96
951728--951773	20	2.3	19	85	14	58	50	8	15	26	1.73
957380--957650	61	4.4	61	98	0	515	26	17	16	40	1.90
968624--968673	26	1.9	26	87	0	73	28	22	26	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
971839--971905	31	2.2	31	88	0	98	44	4	22	28	1.72
992902--993022	54	2.2	54	94	0	206	21	19	27	31	1.98
993599--993659	27	2.3	27	82	5	70	57	18	1	22	1.49
995134--995172	19	2.2	17	86	13	53	74	10	0	15	1.07
995606--995668	23	2.7	23	97	0	117	36	17	20	25	1.94
1002124--1002220	42	2.3	41	83	1	131	25	21	21	30	1.98
1001827--1002442	236	2.6	236	89	1	912	32	14	18	34	1.91
1002455--1002529	37	2.0	37	92	0	123	37	20	21	21	1.95
1010627--1010684	21	2.8	21	83	0	62	6	32	37	22	1.81
1012428--1012616	94	2.0	94	93	0	324	30	6	21	41	1.78

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   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78