genome.fa.s8746.2.7.7.80.10.50.1000.3.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: VEPZ01008746.1 Hibiscus syriacus cultivar Beakdansim tig00111835_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2013901

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  3  of  10  ( 1164 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)
454808--454870	21	3.0	21	95	2	110	17	39	28	14	1.89
455197--455266	34	2.1	34	92	5	117	30	14	31	24	1.94
457594--457675	20	4.1	20	88	0	128	19	36	29	14	1.92
461040--461099	32	1.9	30	83	6	75	46	5	6	41	1.52
466123--466168	19	2.4	19	88	3	65	69	0	6	23	1.11
466123--466184	10	6.0	11	74	16	53	69	0	6	24	1.12
466123--466188	20	3.4	19	78	17	66	71	0	6	22	1.08
466210--466251	17	2.4	18	88	4	59	71	0	4	23	1.05
466233--466262	12	2.4	13	94	5	53	66	3	0	30	1.07
466668--466892	112	2.0	113	89	0	344	44	10	20	25	1.83
468412--468707	47	6.3	47	93	2	472	23	20	10	45	1.82
469872--469908	3	12.3	3	100	0	74	64	0	35	0	0.94
473154--473204	27	1.9	28	84	11	72	47	9	9	33	1.70
474580--474619	21	1.9	22	90	10	66	12	10	40	37	1.77
474732--474805	20	3.7	20	83	3	94	28	24	27	20	1.99
474840--474882	22	1.9	23	90	4	70	20	20	32	25	1.97
474826--474924	21	4.8	20	83	13	119	21	19	36	23	1.95
475961--476026	20	3.3	20	87	6	89	34	15	9	40	1.78
475971--476034	20	3.2	20	91	4	94	37	18	6	37	1.76
484175--484218	18	2.4	18	96	0	79	27	11	36	25	1.90
488546--488605	21	2.9	21	79	0	75	23	38	28	10	1.87
498227--498283	23	2.5	23	88	0	87	21	28	22	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503303--503331	14	2.1	14	93	6	51	55	0	10	34	1.34
514644--514677	2	17.0	2	93	0	59	47	0	0	52	1.00
524484--524533	20	2.5	20	100	0	100	44	10	20	26	1.82
526396--526435	20	2.0	20	90	0	62	5	22	0	72	1.04
530090--530127	20	1.9	20	84	10	51	2	23	2	71	1.12
530404--530752	173	2.0	168	99	0	473	27	21	14	36	1.92
533240--533285	20	2.3	20	100	0	92	50	21	0	28	1.49
533698--533737	21	1.9	21	94	0	71	47	22	0	30	1.52
538447--538509	12	5.1	12	71	25	51	49	1	0	49	1.10
538427--538505	28	3.0	27	80	10	92	49	2	0	48	1.14
538447--538509	16	3.8	16	76	17	65	49	1	0	49	1.10
538642--538796	51	2.9	51	71	13	134	42	5	6	45	1.54
538679--538923	33	7.5	33	86	9	317	42	6	7	42	1.59
538679--538923	68	3.8	60	86	8	253	42	6	7	42	1.59
538738--538923	68	2.7	67	89	4	284	43	5	8	42	1.58
538953--539133	2	84.0	2	67	19	71	45	4	7	41	1.53
538929--539003	11	6.9	11	69	19	59	41	2	6	49	1.43
538953--539133	20	8.6	20	74	19	120	45	4	7	41	1.53
539058--539298	33	6.6	33	65	26	96	45	6	7	41	1.57
538931--539240	57	5.5	57	73	16	175	43	6	7	42	1.58
539146--539188	18	2.4	18	84	0	59	44	6	6	41	1.58
539249--539322	20	3.5	20	77	16	85	52	1	6	39	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539249--539309	23	2.7	23	79	16	74	54	1	6	37	1.37
539262--539311	13	3.8	13	77	17	59	54	2	6	38	1.37
539381--539447	22	2.9	23	76	17	66	49	2	1	46	1.26
539547--539613	27	2.4	28	77	2	82	43	5	7	43	1.57
539607--539691	2	42.0	2	71	15	59	48	4	1	45	1.31
539608--539678	20	3.4	20	80	16	81	47	5	1	45	1.35
539608--539690	42	1.9	44	90	4	134	48	4	1	45	1.31
539619--539686	20	3.3	20	76	12	66	47	4	1	47	1.31
539716--540743	217	4.8	217	92	2	1592	29	12	8	50	1.68
543150--543297	73	2.0	73	97	0	278	29	14	18	37	1.91
549435--549516	3	28.0	3	76	14	73	42	0	0	57	0.98
549435--549516	21	4.0	22	79	20	106	42	0	0	57	0.98
550878--550918	3	13.3	3	84	5	55	26	0	0	73	0.84
550878--550915	19	2.0	19	100	0	76	26	0	0	73	0.83
551209--551263	27	2.0	27	86	6	76	49	1	0	49	1.11
551738--551801	25	2.6	26	85	9	82	26	1	0	71	0.94
554114--554153	21	1.9	21	94	0	71	22	15	10	52	1.71
558281--558494	114	1.9	114	89	0	329	33	17	20	28	1.95
560529--560686	54	3.0	54	81	6	191	37	15	21	25	1.93
561054--561108	22	2.5	22	81	0	83	34	10	14	40	1.81
561623--561943	164	2.0	164	92	0	534	34	13	13	38	1.85
561946--562653	76	9.4	76	94	1	1230	23	18	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562807--562888	3	28.0	3	76	14	73	41	0	0	58	0.98
562807--562888	21	4.0	22	79	20	106	41	0	0	58	0.98
564257--564287	3	10.3	3	92	0	53	29	0	0	70	0.87
564288--564322	16	2.2	16	90	10	54	60	0	0	40	0.97
564569--564623	27	2.0	27	86	6	76	49	1	0	49	1.11
566737--566841	16	6.6	16	76	2	77	51	24	8	15	1.71
566737--566841	48	2.2	48	84	0	129	51	24	8	15	1.71
566754--566847	32	2.9	32	80	0	98	50	26	9	13	1.73
566754--566861	48	2.2	48	83	0	126	49	25	11	13	1.76
566775--566878	48	2.2	48	80	0	109	47	25	11	15	1.79
566947--567002	18	3.1	19	80	12	64	57	0	5	37	1.22
566965--567002	19	2.1	18	90	5	58	57	0	5	36	1.21
573863--573914	22	2.4	22	93	0	86	34	17	13	34	1.89
574066--574128	23	2.6	24	78	19	60	49	1	1	47	1.20
574094--574202	29	3.9	29	71	22	90	45	1	0	51	1.18
574112--574312	54	3.8	53	71	18	152	46	0	1	50	1.17
574278--574330	19	2.9	18	81	10	63	43	1	0	54	1.11
574409--574488	28	2.7	29	83	13	83	51	3	0	45	1.19
574642--574671	15	2.0	15	93	0	51	33	3	13	50	1.58
575023--575066	19	2.3	19	88	7	63	59	2	2	36	1.23
577810--577889	42	1.9	42	85	10	110	51	0	0	48	1.00
577973--578048	35	2.3	33	84	10	95	18	32	13	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
588316--588364	24	2.1	23	88	7	73	51	6	0	42	1.27
595590--595620	15	2.1	15	100	0	62	45	16	12	25	1.83
595598--596246	179	3.4	196	83	7	694	39	13	16	30	1.87
596829--596864	8	4.2	8	89	10	54	72	0	0	27	0.85
596819--596868	16	3.3	15	73	21	50	70	0	2	28	0.99
596965--597054	12	6.9	12	68	26	51	67	1	3	27	1.13
596983--597038	22	2.8	19	79	15	60	67	1	5	25	1.21
596970--597038	18	3.6	18	75	19	59	68	1	4	26	1.17
598516--598730	69	3.1	67	75	9	209	40	12	18	28	1.87
598685--598811	31	3.7	34	77	16	129	33	7	18	40	1.79
598821--598877	15	3.5	15	69	17	51	40	14	21	24	1.90
598826--598931	37	2.9	35	81	9	117	39	15	20	24	1.91
598849--599141	102	2.9	102	83	4	342	43	11	18	27	1.84
599051--599206	36	4.3	37	82	4	192	40	10	18	30	1.84
600586--600775	95	2.0	96	85	5	260	33	17	16	32	1.93
604860--604906	12	3.7	13	78	16	53	70	0	2	27	0.99
606313--606358	21	2.2	20	85	7	65	23	10	13	52	1.71
608563--608693	35	3.7	34	78	14	133	43	3	7	45	1.48
608695--608757	29	2.1	31	85	5	85	49	3	1	46	1.27
608623--608768	38	3.9	38	70	14	108	45	3	4	45	1.41
608892--608938	15	3.2	15	79	8	53	27	2	0	70	0.99
610258--610346	33	2.7	33	91	5	135	23	13	1	61	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615095--615923	165	5.0	165	93	0	1356	28	25	21	24	1.99
616495--616629	35	3.8	36	85	13	190	42	4	6	46	1.50
616848--616877	2	15.0	2	92	0	51	46	0	0	53	1.00
616875--616917	12	3.5	12	84	12	52	27	2	0	69	1.00
619030--619079	23	2.2	23	85	0	64	34	16	10	40	1.81
618885--619373	158	3.1	158	90	0	735	33	12	12	41	1.80
618885--619343	159	2.9	158	91	0	729	33	12	11	41	1.80
624755--624857	15	7.3	15	68	16	76	41	0	2	54	1.22
624756--624822	19	3.2	21	64	16	57	38	0	2	58	1.14
624740--624857	42	2.8	42	96	0	218	41	1	4	52	1.31

Tables:   1   2   3   4   5   6   7   8   9   10