genome.fa.s1563.2.7.7.80.10.50.1000.4.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: VEPZ01001563.1 Hibiscus syriacus cultivar Beakdansim tig00003096_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  849978

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 555 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)
482905--482960	26	2.2	26	80	6	60	73	1	5	19	1.12
482920--482960	19	2.2	19	86	8	57	73	0	2	24	0.96
483435--483512	33	2.4	33	89	4	113	30	14	17	37	1.90
483570--483619	3	16.7	3	80	19	52	70	0	0	30	0.88
483570--483620	20	2.8	19	81	18	56	70	0	0	29	0.87
483577--483620	23	2.0	23	86	13	65	70	0	0	29	0.88
484471--484728	110	2.4	108	90	2	394	22	17	25	34	1.95
486892--486929	18	2.0	20	85	10	53	26	23	10	39	1.87
508509--508589	3	27.7	3	82	9	105	64	0	2	33	1.07
508509--508589	28	2.9	28	80	10	94	64	0	2	33	1.07
508947--509506	121	4.7	122	86	5	754	26	19	14	38	1.91
509310--509526	112	1.9	112	94	0	380	26	20	16	36	1.93
510619--510697	20	3.9	19	79	12	79	59	3	6	30	1.40
510624--510663	18	2.2	18	90	0	62	60	7	2	30	1.38
520194--520248	24	2.5	22	80	11	58	67	1	3	27	1.17
520217--520273	28	2.1	27	83	3	69	61	0	5	33	1.18
522416--522492	3	26.7	3	82	12	99	64	0	2	32	1.07
522418--522489	33	2.2	33	92	5	119	65	0	2	31	1.07
527788--527825	3	12.7	3	83	10	51	36	2	0	60	1.11
528794--528828	12	2.8	12	95	4	61	17	0	0	82	0.66
532781--533452	105	6.4	106	93	0	1046	34	24	18	22	1.96
532781--533452	211	3.2	209	91	1	1065	34	24	18	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532745--533452	316	2.2	316	89	1	1058	34	24	17	23	1.96
534340--534389	3	16.7	3	83	8	66	32	2	2	64	1.16
535360--535397	6	6.2	6	85	14	51	18	0	0	81	0.69
535355--535397	18	2.4	18	88	11	63	18	0	0	81	0.69
537776--537815	3	13.3	3	100	0	80	32	0	0	67	0.91
542763--542803	21	2.0	21	85	0	55	4	36	0	58	1.20
543920--544054	57	2.3	58	85	6	168	48	4	16	31	1.66
543947--544054	58	1.9	55	88	5	162	47	3	14	34	1.62
545135--545182	2	26.5	2	76	19	52	50	0	0	50	1.00
551723--551844	64	1.9	63	86	5	174	31	16	24	27	1.96
551742--551884	64	2.2	64	85	8	184	29	14	25	30	1.95
552573--552644	34	2.1	35	82	12	87	52	22	6	18	1.68
554530--554624	21	4.4	21	75	9	77	24	22	25	28	1.99
560468--560505	20	1.9	20	94	0	67	18	15	34	31	1.92
560870--561068	2	102.0	2	67	24	88	51	2	5	41	1.37
560876--560958	32	2.6	32	83	5	98	51	4	4	38	1.44
560899--561056	32	5.0	31	74	16	103	51	3	5	40	1.40
560870--561054	53	3.5	53	75	15	172	51	2	4	41	1.37
560940--561056	51	2.3	50	78	10	121	51	0	4	43	1.27
563381--563431	23	2.2	24	83	16	63	41	0	3	54	1.19
564267--564320	18	2.9	18	88	2	81	18	42	24	14	1.88
572914--572963	13	3.8	13	94	0	82	14	24	46	16	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572885--572937	18	2.9	18	91	0	79	15	24	43	16	1.87
572885--572967	31	2.7	31	71	23	84	15	21	45	16	1.85
578489--578526	19	2.0	19	100	0	76	31	5	15	47	1.68
578618--578676	21	2.9	20	81	18	77	22	16	23	37	1.94
578616--578776	42	3.7	44	74	12	118	19	19	24	36	1.95
578699--578800	46	2.2	45	84	8	127	16	21	26	35	1.95
578616--578800	22	8.5	22	76	14	134	19	19	24	36	1.95
580660--580722	31	2.0	31	100	0	126	41	12	19	26	1.87
583129--583292	90	1.8	88	94	2	292	39	10	6	44	1.63
602245--602325	39	2.0	39	81	9	92	40	8	9	40	1.69
602311--602380	19	3.6	19	88	7	104	32	5	21	40	1.77
606384--606430	23	2.0	25	84	16	64	48	2	2	46	1.25
606517--606549	12	2.5	13	85	14	50	42	0	6	51	1.26
606543--606590	21	2.2	22	85	3	62	41	0	12	45	1.42
606678--606715	19	1.9	19	89	5	58	42	23	0	34	1.55
607922--608043	32	3.7	31	81	11	136	45	3	9	42	1.52
608029--608122	13	7.1	14	75	12	92	42	0	9	47	1.36
608029--608087	27	2.2	27	96	0	109	44	0	10	45	1.37
608056--608191	38	3.6	38	88	3	204	39	0	8	51	1.37
608191--608232	4	10.8	4	80	14	52	23	4	0	71	1.05
609490--609544	22	2.5	22	82	5	58	16	9	0	74	1.06
609525--609613	5	17.8	5	76	21	64	14	2	2	80	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609525--609629	9	11.1	9	75	15	70	13	3	2	80	0.97
609539--609642	27	3.8	27	81	13	115	13	4	2	78	1.02
609539--609629	25	3.4	24	76	22	92	12	4	3	80	0.98
609530--609643	6	18.5	6	78	16	78	14	4	2	78	1.00
609490--609643	40	3.8	39	75	16	109	14	6	1	77	1.06
609530--609643	15	8.1	14	72	20	62	14	4	2	78	1.00
609573--609650	27	3.0	25	85	7	86	11	8	2	76	1.10
609539--609641	56	1.9	56	84	7	142	13	4	2	78	1.02
613672--613907	97	2.4	97	85	2	312	30	18	19	32	1.96
615002--615872	84	10.5	84	84	3	1026	33	24	18	23	1.97
615004--615867	334	2.6	329	83	5	1108	32	24	18	24	1.97
616432--616555	37	3.3	35	73	18	99	42	2	8	45	1.48
616513--616618	32	3.2	32	76	11	97	46	5	8	39	1.58
616656--616710	13	4.0	13	80	13	65	41	0	10	47	1.39
616659--616709	14	3.6	14	77	15	59	43	0	9	47	1.36
616653--616715	29	2.2	29	97	0	117	44	0	9	46	1.36
616682--616811	38	3.4	37	88	5	188	42	1	7	48	1.41
618144--618214	31	2.2	31	82	9	81	9	9	1	78	1.02
619310--619353	20	2.2	21	80	15	58	38	0	4	56	1.20
626055--626086	2	16.5	2	93	6	57	53	0	0	46	1.00
626073--626388	37	8.7	35	82	8	282	44	2	7	44	1.47
626073--626383	36	8.5	36	83	8	312	44	2	7	45	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626396--626459	25	2.7	24	83	11	78	26	0	1	71	0.94
626420--626484	16	4.3	15	76	18	55	18	0	4	76	0.95
626405--626458	19	2.8	19	86	8	65	29	0	0	70	0.88
626394--626485	15	6.2	15	70	18	68	20	0	4	75	0.98
626422--626486	19	3.4	19	78	6	69	16	0	4	78	0.91
630367--630500	40	3.4	40	90	3	202	33	29	15	20	1.94
637795--637916	40	3.0	40	90	0	190	32	27	15	24	1.95
640452--640573	40	3.0	40	84	1	172	32	25	15	26	1.95
643034--643189	84	1.9	84	91	0	258	28	16	22	32	1.96
644353--644658	85	3.6	85	88	3	425	38	20	16	23	1.93
644593--644722	64	2.0	64	92	0	215	38	20	18	22	1.93
644506--644796	149	1.9	150	89	2	451	36	20	19	23	1.95
644657--644822	85	2.0	85	87	0	242	32	19	20	27	1.97
645418--645802	38	10.2	38	73	20	221	44	3	8	43	1.50
645431--645534	39	2.8	38	73	13	67	40	3	9	46	1.55
645524--645812	37	7.6	36	82	11	273	46	3	7	43	1.48
645850--645913	5	12.8	5	81	15	71	21	3	0	75	0.95
645837--645890	27	2.0	27	85	0	72	22	0	3	74	0.98
645850--645911	18	3.4	18	82	6	72	20	3	0	75	0.94
647017--647050	15	2.3	15	90	10	52	11	2	0	85	0.71
657252--657283	2	16.0	2	100	0	64	50	0	0	50	1.00
660344--660451	36	3.0	36	93	0	180	15	24	21	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
667291--667369	18	4.2	19	80	15	85	43	1	0	55	1.07
667291--667358	3	23.3	3	73	11	61	41	1	0	57	1.08
667454--667483	15	2.1	14	93	6	51	13	46	16	23	1.82
667993--668051	27	2.2	27	100	0	118	32	6	23	37	1.81
671437--671653	114	1.9	114	90	1	346	33	15	20	30	1.94
674190--674266	22	3.5	22	94	0	136	33	12	14	38	1.84
674941--675198	76	3.4	76	98	0	489	24	19	22	34	1.96
675353--675445	12	8.0	12	76	20	81	46	0	0	53	1.00
675367--675445	18	4.2	18	81	15	90	44	0	0	55	0.99
675355--675434	3	27.3	3	75	9	76	43	0	0	56	0.99

Tables:   1   2   3   4   5