genome.fa.s8653.2.7.7.80.10.50.1000.3.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: VEPZ01008653.1 Hibiscus syriacus cultivar Beakdansim tig00111644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1778368

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1032 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)
420255--420342	13	7.8	12	71	18	57	72	1	19	6	1.13
420280--420338	32	1.9	30	86	6	82	72	0	20	6	1.06
421591--422415	166	5.0	166	91	1	1246	27	16	24	32	1.96
421585--422415	55	15.1	55	90	1	1245	27	16	24	32	1.96
427647--427683	15	2.5	15	86	0	56	8	67	16	8	1.40
435661--435719	21	2.8	21	97	0	109	16	25	18	38	1.92
435720--435815	40	2.4	40	86	6	149	35	18	21	23	1.96
435724--435800	20	3.8	20	94	0	136	36	15	22	25	1.93
435784--435831	20	2.4	20	89	0	69	27	27	20	25	1.99
437075--437123	22	2.2	22	78	7	55	32	28	28	10	1.90
437818--438035	103	2.1	103	93	0	382	26	12	23	37	1.91
438042--438161	47	2.6	47	93	1	197	24	22	22	30	1.99
438042--438166	23	5.3	23	75	2	115	24	21	22	31	1.98
442906--442948	21	2.0	21	81	4	50	32	27	27	11	1.92
443641--443860	103	2.1	104	94	1	388	26	13	23	36	1.92
443867--443986	47	2.6	47	91	1	197	24	20	22	32	1.98
443867--443991	23	5.3	23	74	2	106	24	20	22	32	1.97
445247--445300	24	2.2	24	93	0	90	20	18	20	40	1.91
445490--445526	14	2.6	14	91	4	56	51	21	21	5	1.68
447656--447925	140	1.9	140	94	0	477	29	11	14	43	1.81
447942--447980	20	2.0	20	89	0	60	35	25	12	25	1.92
447913--448039	54	2.3	55	83	4	168	34	23	16	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
447992--448112	20	6.4	19	76	16	101	30	21	21	26	1.98
447938--448112	74	2.4	74	85	5	221	33	22	19	25	1.97
448012--448148	54	2.5	54	91	0	220	33	21	21	23	1.97
448120--448163	20	2.2	20	84	4	54	29	25	20	25	1.99
448153--448210	20	2.9	20	76	0	62	12	13	25	48	1.77
449699--449739	21	2.0	21	95	0	73	24	29	19	26	1.98
450319--450374	20	2.8	20	97	0	103	39	26	17	16	1.91
450417--450480	20	3.2	20	95	0	110	17	20	25	37	1.93
452388--452455	20	3.5	20	81	2	84	51	20	13	14	1.76
452841--452882	22	1.9	22	85	0	57	21	14	38	26	1.91
453059--453165	20	5.3	20	83	4	126	25	22	26	26	2.00
453181--453243	21	2.9	22	76	4	83	38	19	23	19	1.93
453181--453263	41	2.0	42	85	4	114	34	19	25	20	1.96
462370--462502	20	6.7	20	92	0	221	40	19	18	21	1.91
462699--462764	22	3.0	22	90	0	105	24	39	15	21	1.91
463132--463201	20	3.5	20	86	0	68	15	14	25	44	1.84
463166--463203	20	1.9	20	100	0	76	10	10	21	57	1.61
463168--463211	20	2.2	20	87	0	61	13	11	20	54	1.69
465169--465225	20	2.8	20	94	0	96	38	19	19	22	1.93
465092--465246	34	4.4	34	70	13	125	43	18	19	18	1.89
465273--465378	20	5.3	20	96	0	176	19	19	22	37	1.94
465889--465969	42	1.9	42	82	5	101	22	38	17	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467594--467698	45	2.3	45	82	11	126	34	20	18	26	1.96
468075--468124	24	2.1	24	85	7	66	34	2	22	42	1.65
468090--468136	12	3.9	12	94	0	76	31	4	25	38	1.75
468152--468281	28	4.6	28	97	0	224	46	15	20	18	1.84
469603--469638	14	2.6	14	90	0	54	30	0	22	47	1.52
469743--469839	33	2.9	33	87	3	131	45	20	21	12	1.84
469854--469949	33	2.9	34	87	3	140	12	22	20	43	1.86
469921--470009	20	4.4	20	88	2	135	17	22	24	34	1.96
472214--472240	14	1.9	14	100	0	54	7	11	29	51	1.64
472438--472491	24	2.2	24	93	0	90	40	20	18	20	1.91
472438--472505	24	2.8	24	84	0	64	38	20	17	23	1.93
473332--473379	20	2.4	20	89	0	69	25	18	25	31	1.98
473366--473415	20	2.5	20	96	0	91	18	20	22	40	1.92
476474--476562	30	3.0	31	75	14	89	38	15	4	41	1.68
476474--476562	29	3.0	29	75	4	88	38	15	4	41	1.68
487040--487076	15	2.5	15	100	0	74	35	40	5	18	1.74
492547--492605	2	29.5	2	100	0	118	50	0	0	49	1.00
492640--492729	15	6.1	15	82	2	101	40	6	18	34	1.77
492793--492875	22	3.8	22	73	12	73	44	1	0	54	1.08
492970--493020	23	2.2	23	82	0	57	45	1	1	50	1.24
493008--493078	19	3.6	19	70	10	54	47	1	1	49	1.18
493009--493203	30	6.4	30	69	20	106	50	0	1	48	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493032--493203	28	6.2	26	70	22	88	51	0	0	47	1.09
493145--493227	22	3.7	23	73	16	68	50	0	0	49	1.00
493156--493212	10	5.6	10	78	17	64	56	0	0	43	0.99
494448--494692	121	2.0	121	99	0	481	39	12	11	36	1.80
496141--496300	65	2.5	66	88	5	229	31	23	17	27	1.97
496141--496320	65	2.8	63	81	13	197	30	24	17	27	1.97
496307--496425	53	2.2	53	98	0	229	31	22	18	26	1.97
497587--497658	18	4.0	18	85	0	99	43	16	13	26	1.86
500382--500416	16	2.2	16	94	0	61	31	0	2	65	1.07
502255--502341	2	43.5	2	100	0	174	49	0	0	50	1.00
504724--504824	6	17.2	6	95	4	188	32	0	0	67	0.91
508362--508431	37	1.9	36	88	2	104	48	17	1	32	1.56
508612--508637	12	2.2	12	100	0	52	57	0	0	42	0.98
509153--509208	26	2.1	28	83	12	73	46	0	5	48	1.25
517332--517369	18	2.2	17	90	4	58	42	5	0	52	1.24
521868--521934	25	2.7	25	90	0	98	50	7	23	17	1.71
522818--522860	18	2.4	18	92	0	68	37	4	16	41	1.69
531871--531903	16	2.1	16	100	0	66	18	18	9	54	1.69
532258--532285	2	14.0	2	100	0	56	50	0	50	0	1.00
537042--537071	15	1.9	16	93	6	53	46	6	6	40	1.56
543197--543261	32	2.0	32	93	0	112	23	23	15	38	1.92
549643--549687	18	2.5	20	75	20	53	53	2	11	33	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554516--554566	26	2.0	26	88	0	75	45	3	5	45	1.46
554386--554734	36	9.2	38	74	16	214	44	3	8	44	1.50
554371--554747	151	2.5	143	79	14	356	44	2	7	45	1.48
554529--554747	75	2.8	80	77	16	205	47	1	6	44	1.39
554386--554749	39	9.6	37	73	12	190	44	3	7	44	1.48
555759--555791	15	2.1	16	88	11	50	18	0	3	78	0.87
560210--560241	2	16.0	2	100	0	64	50	0	0	50	1.00
561635--561676	2	21.0	2	100	0	84	0	50	0	50	1.00
562704--562748	3	14.7	3	82	13	56	31	0	4	64	1.13
565681--565733	27	1.9	28	88	3	81	16	9	11	62	1.54
567227--567303	36	2.1	36	97	0	145	24	15	6	53	1.66
569563--569595	9	3.7	9	100	0	66	87	0	12	0	0.53
570060--570161	1	102.0	1	66	0	51	83	0	13	2	0.76
570041--570158	14	9.2	13	74	18	90	81	0	15	3	0.82
570041--570170	5	26.4	5	75	16	94	80	0	15	3	0.85
570041--570165	8	15.9	8	76	12	109	81	0	15	3	0.81
570047--570170	45	2.6	50	72	13	109	80	0	15	4	0.85
570045--570171	54	2.3	55	82	7	154	80	0	14	4	0.87
572960--573181	43	5.2	43	87	3	304	25	12	30	31	1.92
573195--573594	91	4.4	90	87	0	539	26	16	21	35	1.94
573893--573922	15	2.0	15	93	0	51	33	0	3	63	1.11
573885--573922	18	2.1	18	90	9	60	34	0	2	63	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573881--573920	12	3.2	13	86	6	57	35	0	2	62	1.09
573891--573932	18	2.3	19	79	4	50	38	0	4	57	1.20
581348--581422	38	2.0	38	97	0	141	57	4	10	28	1.50
581562--581621	11	5.6	11	76	7	70	51	0	0	48	1.00
581560--581629	21	3.3	21	100	0	140	55	0	0	44	0.99
581573--581629	10	5.5	10	75	8	60	56	0	0	43	0.99
582504--582545	13	3.3	13	90	6	68	50	7	16	26	1.71
585962--585995	3	11.7	3	93	6	61	29	0	0	70	0.87
594158--594385	114	2.0	114	97	0	429	32	14	20	32	1.93
597469--598142	113	5.9	113	85	4	829	39	14	18	27	1.90

Tables:   1   2   3   4   5   6   7   8   9