genome.fa.s8314.2.7.7.80.10.50.1000.3.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: VEPZ01008314.1 Hibiscus syriacus cultivar Beakdansim tig00111008_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2414839

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

This is table  3  of  10  ( 1196 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)
457532--457676	61	2.4	61	79	4	152	31	20	5	42	1.74
458523--458575	15	3.5	15	94	0	88	37	7	18	35	1.80
458560--458627	20	3.4	20	95	0	127	41	10	14	33	1.80
458797--458859	28	2.2	28	83	10	76	53	1	1	42	1.19
458825--458884	24	2.7	23	82	7	61	56	1	0	41	1.09
458912--458955	22	2.0	23	86	4	63	54	0	0	45	0.99
458916--458972	21	2.6	22	81	10	64	52	0	0	47	1.00
458852--458972	54	2.3	51	77	19	133	50	0	0	47	1.12
459161--459280	42	2.9	42	96	0	213	44	18	20	17	1.87
466449--466529	38	2.1	38	84	4	101	46	6	1	45	1.35
473393--473471	38	2.1	38	85	4	106	37	12	1	48	1.50
478524--478586	19	3.2	19	84	8	81	17	28	11	42	1.83
478527--478587	21	3.0	20	86	6	79	18	26	11	44	1.83
481098--481138	21	2.0	21	100	0	82	43	9	29	17	1.80
482979--483414	199	2.2	199	94	0	757	35	13	18	32	1.90
484924--484977	18	3.0	18	86	0	63	42	11	27	18	1.84
498706--498851	59	2.5	59	81	8	156	31	21	3	43	1.69
504751--504784	2	17.0	2	100	0	68	50	0	0	50	1.00
508875--508900	11	2.4	11	100	0	52	61	0	11	26	1.30
512064--512108	15	2.7	16	86	13	56	71	2	2	24	1.09
512696--512821	64	2.0	64	84	9	168	57	11	1	29	1.42
512751--512893	76	1.9	75	86	2	205	60	9	2	28	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514685--514731	20	2.3	20	82	10	69	82	4	2	10	0.88
514686--514722	19	1.9	20	94	5	67	83	2	2	10	0.84
516631--516661	13	2.4	13	100	0	62	25	29	22	22	1.99
520186--520252	11	5.9	11	76	16	57	73	0	1	25	0.92
520189--520252	17	3.7	17	77	10	67	73	0	1	25	0.92
520200--520241	13	3.4	13	84	15	54	71	0	0	28	0.86
520960--521108	75	2.0	76	90	1	237	59	10	2	28	1.41
520967--521135	76	2.2	75	86	4	232	56	10	2	30	1.45
531005--531231	109	2.1	109	99	0	445	29	19	17	34	1.94
532619--532805	43	4.4	43	90	4	290	31	23	27	17	1.97
532588--532805	85	2.5	85	85	7	273	32	22	26	19	1.97
534737--534772	17	2.1	18	89	5	56	36	13	2	47	1.58
536984--537028	19	2.4	19	92	0	72	73	8	2	15	1.18
537096--537139	19	2.3	19	92	0	70	75	9	2	13	1.14
536969--537219	113	2.3	112	90	2	391	49	7	5	37	1.55
538880--538927	24	2.0	23	84	11	62	29	6	2	62	1.31
545855--545899	23	2.0	23	90	0	72	17	24	26	31	1.97
551599--551629	2	15.5	2	100	0	62	48	0	0	51	1.00
559420--559462	22	2.0	21	86	4	59	55	4	2	37	1.33
560240--560287	19	2.6	18	76	3	51	72	0	0	27	0.84
567871--567895	7	3.6	7	100	0	50	76	0	24	0	0.80
568153--568203	20	2.6	20	93	3	86	39	27	11	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568189--568289	20	4.9	20	70	3	58	33	23	18	23	1.97
568256--568447	20	9.6	20	81	5	219	35	26	19	18	1.95
568819--568888	32	2.2	33	92	2	115	11	24	17	47	1.80
568967--569050	19	4.6	19	74	18	72	44	20	25	10	1.83
568967--569021	19	2.8	20	88	5	76	45	18	23	12	1.83
569006--569061	14	3.6	14	74	21	58	41	23	26	8	1.84
568986--569066	33	2.5	33	91	4	119	43	22	25	8	1.82
569074--569191	14	7.1	18	64	28	64	10	24	21	44	1.83
569079--569193	33	3.5	33	91	3	196	9	24	20	45	1.81
569129--569185	14	3.7	14	79	20	69	8	26	24	40	1.84
570867--571229	91	4.0	91	95	5	657	21	13	19	46	1.83
570863--571233	181	2.0	181	96	3	685	21	12	19	46	1.83
571277--571405	19	7.3	19	75	17	125	45	28	17	8	1.77
571313--571405	33	2.8	32	91	4	150	46	27	18	7	1.76
571277--571405	52	2.5	52	74	14	140	45	28	17	8	1.77
571423--571479	14	3.7	14	75	20	51	12	19	22	45	1.83
571406--571498	33	2.8	33	93	0	159	11	19	21	47	1.81
571401--571536	19	7.6	19	74	17	121	11	18	23	46	1.82
573336--573404	38	1.9	36	88	11	106	27	1	15	55	1.50
573514--573614	19	5.6	19	82	15	142	43	17	23	14	1.87
573605--573878	52	5.2	51	76	14	220	15	20	17	45	1.85
573621--573948	33	9.5	33	78	15	210	14	20	18	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573643--573948	19	17.4	19	78	17	349	14	20	18	47	1.83
573643--573920	52	5.2	52	90	6	361	14	20	17	47	1.83
574607--574631	12	2.1	12	100	0	50	0	28	0	72	0.86
574806--574852	24	2.0	24	87	8	69	38	21	14	25	1.92
575525--575893	20	18.5	20	86	4	458	20	18	26	34	1.96
577673--577712	20	2.0	20	85	0	53	50	17	0	32	1.47
577778--577823	19	2.4	19	85	0	56	54	13	2	30	1.50
577778--577830	23	2.3	23	78	12	56	52	15	1	30	1.53
577813--577872	4	14.8	4	87	8	86	48	21	1	28	1.60
579594--579667	23	3.2	23	82	1	94	37	1	18	41	1.59
580491--580528	6	6.3	6	82	11	51	18	2	0	78	0.86
580491--580528	11	3.2	12	82	14	51	18	2	0	78	0.86
588221--588254	13	2.6	13	95	0	59	50	17	26	5	1.69
591673--591707	15	2.3	15	100	0	70	40	5	8	45	1.58
613316--613356	21	2.0	21	90	9	66	46	7	4	41	1.53
622407--622472	30	2.2	30	83	0	87	22	25	19	31	1.98
627854--627920	20	3.3	20	74	15	75	38	20	17	22	1.93
627871--627942	20	3.6	20	78	14	85	34	22	19	23	1.96
627854--627942	40	2.2	40	93	0	151	37	21	19	22	1.95
628511--628559	20	2.5	20	86	0	71	34	24	20	20	1.96
628572--628658	20	4.4	20	82	1	77	16	16	21	45	1.84
628623--628666	20	2.2	20	83	0	52	15	13	18	52	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
630529--630595	20	3.3	20	100	0	134	38	20	19	20	1.93
630626--630744	34	3.4	34	76	15	141	18	22	21	37	1.94
630645--630795	20	7.9	20	79	8	145	20	19	19	39	1.92
630607--630763	73	2.2	73	88	0	233	22	21	20	35	1.96
630626--630784	73	2.2	74	93	3	268	19	21	20	38	1.93
631313--631394	42	2.0	42	82	4	103	21	35	19	23	1.96
632748--632783	14	2.6	14	90	0	54	30	0	22	47	1.52
632885--632980	33	2.8	33	88	3	129	42	20	21	14	1.88
632989--633097	20	5.4	20	86	2	130	19	20	23	36	1.95
636444--636490	20	2.3	20	89	7	69	23	19	19	38	1.93
636423--636509	20	4.4	19	73	13	59	24	19	22	33	1.97
637214--637241	2	14.0	2	100	0	56	50	0	0	50	1.00
640377--640416	18	2.3	18	82	4	55	37	2	0	60	1.11
642098--642153	18	3.1	18	94	0	94	25	23	21	30	1.99
642632--642703	26	3.0	24	68	27	62	26	6	4	62	1.39
646107--646140	14	2.2	16	90	10	54	67	2	5	23	1.26
646107--646145	14	2.6	15	88	8	53	69	5	5	20	1.28
665306--665339	16	2.1	17	89	10	54	47	0	0	52	1.00
683685--683735	23	2.2	23	85	0	66	37	0	3	58	1.16
685437--685470	18	1.9	18	88	5	52	67	0	29	2	1.05
686320--686355	3	12.0	3	100	0	72	66	0	0	33	0.92
687603--687672	20	3.4	21	81	15	67	70	0	2	27	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
687617--687674	3	19.3	3	75	19	50	67	0	1	31	1.01
687633--687669	7	5.6	7	90	3	51	64	0	0	35	0.94
687617--687671	21	2.7	19	86	11	65	67	0	1	30	1.01
687661--687709	25	2.0	25	88	4	73	59	2	0	38	1.09
687655--687768	33	3.4	33	74	18	108	53	3	0	42	1.18
687667--688047	36	10.9	35	72	15	157	46	5	2	45	1.38
687820--687901	29	2.7	29	78	19	87	45	3	2	48	1.33
687683--687899	31	6.5	31	74	20	147	46	4	2	47	1.34
687682--687901	33	6.6	32	77	15	164	46	4	2	46	1.34
687889--687947	2	29.5	2	100	0	118	49	0	0	50	1.00

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