genome.fa.s887.2.7.7.80.10.50.1000.3.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: VEPZ01000887.1 Hibiscus syriacus cultivar Beakdansim tig00001732_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  662576

Tables:   1   2   3   4   

This is table  3  of  4  ( 432 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)
382714--383048	142	2.3	141	81	8	367	28	21	17	32	1.96
385384--385417	17	2.0	17	88	0	50	38	2	11	47	1.55
386131--386229	33	3.0	33	94	1	164	45	15	7	32	1.73
386224--386265	21	2.0	21	95	0	75	47	7	14	30	1.71
388645--388683	19	2.0	20	90	5	62	43	20	15	20	1.88
388888--388914	7	3.9	7	100	0	54	29	14	14	40	1.86
391040--391127	33	2.7	32	87	5	106	14	20	28	36	1.92
391211--391273	33	1.9	33	100	0	126	44	9	31	14	1.77
391399--391463	32	2.1	31	91	2	103	36	4	10	47	1.59
394021--394062	15	2.9	15	86	6	52	52	0	4	42	1.22
394104--394162	26	2.3	26	91	2	93	45	15	1	37	1.56
394214--394264	10	5.0	10	77	13	59	41	9	0	49	1.36
394208--394280	21	3.4	21	76	14	69	45	8	0	46	1.33
394209--394277	31	2.3	31	92	2	113	44	8	0	46	1.34
394262--394305	12	3.5	13	84	9	56	40	6	2	50	1.42
394262--394311	25	2.0	24	92	3	82	40	8	4	48	1.51
396975--397079	53	1.9	53	84	9	140	31	16	5	46	1.70
399490--399520	15	2.1	15	100	0	62	38	16	12	32	1.86
405833--405889	19	3.0	19	94	0	96	33	5	26	35	1.79
405833--405918	19	4.2	19	81	12	82	34	5	26	32	1.80
408873--409026	53	2.9	53	84	2	175	23	24	21	30	1.99
409399--409607	42	5.1	42	70	16	145	32	22	16	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
409531--409612	42	2.0	42	95	0	146	31	21	19	26	1.97
409650--410087	210	2.1	214	92	2	731	31	18	15	33	1.93
410972--411339	184	2.0	183	94	5	645	23	22	18	35	1.95
412227--412442	105	2.0	107	95	3	393	26	21	18	32	1.97
416465--416496	6	5.3	6	92	0	55	50	18	15	15	1.79
424310--424353	13	3.5	13	76	17	56	34	27	18	20	1.96
424307--424355	25	2.0	25	100	0	98	32	28	18	20	1.96
424384--424428	21	2.1	22	95	4	83	24	31	24	20	1.98
425918--425959	19	2.2	19	79	12	50	59	0	35	4	1.19
429444--429485	17	2.5	17	88	0	66	16	19	9	54	1.69
429693--429736	22	2.0	22	100	0	88	40	18	4	36	1.71
431028--431206	64	2.8	61	79	12	175	28	24	20	26	1.99
431158--431206	19	2.6	19	84	9	57	24	28	20	26	1.99
439293--439343	21	2.4	22	84	15	72	33	1	39	25	1.67
439735--439767	17	1.9	17	93	0	57	27	39	18	15	1.90
439720--439861	63	2.2	64	86	6	191	31	24	18	25	1.97
441461--441496	17	2.1	17	100	0	72	47	11	13	27	1.77
441913--441964	2	26.0	2	100	0	104	50	0	0	50	1.00
444348--444395	21	2.3	21	79	10	55	37	6	0	56	1.25
445086--445174	34	2.7	31	79	6	88	39	0	2	58	1.11
446945--447017	21	3.5	21	86	0	92	19	32	26	21	1.97
447539--447636	34	2.9	34	89	0	142	55	4	4	36	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452768--452795	7	4.0	7	100	0	56	71	0	0	28	0.86
453061--453091	12	2.6	12	100	0	62	61	0	32	6	1.21
464002--464046	22	2.0	22	100	0	90	33	13	17	35	1.89
464506--464537	17	1.9	16	93	6	55	9	28	0	62	1.26
474272--474318	20	2.3	21	82	10	53	72	6	12	8	1.27
481230--481272	19	2.3	19	91	0	68	41	13	23	20	1.88
484355--484410	16	3.6	16	90	9	89	25	5	7	62	1.42
484582--484634	2	26.5	2	100	0	106	49	0	0	50	1.00
485610--485640	16	1.9	16	100	0	62	51	19	9	19	1.74
486643--486683	21	2.0	21	85	4	57	63	7	4	24	1.40
489712--489795	35	2.5	33	90	3	123	33	9	16	40	1.81
489715--489795	33	2.4	35	89	4	121	34	9	14	40	1.80
489813--489881	36	1.9	36	96	0	129	42	14	21	21	1.89
489822--489911	34	2.6	35	85	3	110	44	17	18	18	1.87
489980--490062	36	2.3	36	82	0	94	39	14	19	26	1.90
490013--490176	65	2.5	65	84	2	231	37	14	16	31	1.88
490083--490278	102	1.9	102	84	4	261	41	14	18	25	1.88
489949--490593	167	3.9	167	90	1	884	39	13	18	29	1.88
490197--490343	65	2.3	65	86	4	199	39	12	19	27	1.89
490254--490445	102	1.9	102	86	4	280	42	13	18	25	1.87
490356--490509	64	2.4	65	82	3	186	40	11	20	27	1.87
490741--491063	106	3.0	105	89	0	466	23	18	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491661--491752	32	2.8	32	85	1	121	39	20	9	30	1.85
492252--492311	25	2.4	25	88	2	86	26	28	20	25	1.99
492689--492826	69	2.0	69	94	0	240	25	15	22	36	1.93
497911--497998	35	2.5	35	94	1	149	72	6	1	19	1.13
497910--497997	13	6.4	13	67	15	52	72	6	1	19	1.13
503431--503524	31	3.0	31	90	3	145	38	24	17	20	1.93
504179--504399	64	3.5	62	85	6	264	28	17	20	33	1.95
507365--507489	31	4.0	31	90	2	198	38	23	17	20	1.93
508145--508429	64	4.5	64	91	2	405	27	18	20	33	1.96
517599--517703	51	2.1	51	96	0	192	38	17	7	37	1.78
518520--518569	25	2.0	25	96	0	91	48	18	4	30	1.66
519412--519438	2	13.5	2	100	0	54	51	0	0	48	1.00
527775--527847	18	4.2	17	75	5	65	41	10	6	41	1.67
533080--533233	77	2.0	79	88	2	231	44	5	12	38	1.65
535017--535093	31	2.5	31	86	0	109	37	6	18	37	1.76
538031--538145	39	3.0	38	83	1	131	43	14	6	34	1.73
538032--538380	137	2.6	136	82	7	413	44	13	6	36	1.69
538170--538283	39	2.9	37	77	13	104	43	14	7	35	1.72
538459--538633	39	4.5	39	86	2	244	40	14	8	37	1.75
538415--538514	49	2.0	49	84	0	128	36	12	8	44	1.71
538459--538633	78	2.2	78	88	0	269	40	14	8	37	1.75
538928--539086	45	3.5	43	84	8	192	35	16	8	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539469--539508	14	2.9	14	88	0	62	32	35	12	20	1.90
545119--545208	15	5.9	15	70	20	53	56	2	3	37	1.28
545125--545241	37	3.1	37	78	15	100	55	3	2	38	1.30
545126--545239	44	2.5	44	82	13	119	54	3	2	39	1.31
552277--552309	6	5.5	6	92	0	57	45	0	51	3	1.16
556676--556727	22	2.5	21	75	12	54	30	17	28	23	1.97
557297--557357	30	2.0	30	84	6	79	26	18	22	32	1.97
558905--558962	20	2.6	22	86	10	75	31	18	22	27	1.97
559274--559314	13	3.2	13	80	13	50	34	0	19	46	1.50
559782--559832	23	2.2	23	86	6	68	31	19	15	33	1.93
562292--562335	23	2.0	22	86	4	61	52	6	22	18	1.69
563565--563605	13	3.2	13	80	13	50	34	0	19	46	1.50
566778--566888	53	2.1	53	94	0	195	38	19	17	24	1.92
568108--568141	10	3.3	10	91	4	50	29	8	8	52	1.62
573270--573380	53	2.1	53	89	0	177	38	18	18	24	1.93
575922--576216	9	31.6	9	69	24	61	54	3	1	40	1.26
575930--576029	39	2.7	34	80	15	76	54	5	1	40	1.29
575922--576232	7	43.6	7	73	21	222	54	3	1	40	1.26
575923--576215	2	158.5	2	70	26	188	54	3	1	40	1.26
578839--578875	12	3.2	12	84	7	58	8	8	27	56	1.56
578933--579006	23	3.2	23	80	1	85	21	6	18	52	1.68
579310--579451	42	3.4	42	92	2	223	52	19	4	23	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581090--581219	65	2.0	65	98	0	251	37	25	7	29	1.84
581569--581617	21	2.3	22	82	10	66	42	24	6	26	1.78
582484--582541	28	2.0	29	96	3	109	44	6	10	37	1.65
600238--600276	17	2.3	17	100	0	78	43	10	25	20	1.83
600975--601033	23	2.6	23	88	0	82	35	22	16	25	1.95
600993--601050	23	2.5	23	82	0	62	37	24	17	20	1.93
603202--603294	21	4.5	21	78	4	100	39	18	24	17	1.91
603202--603294	41	2.3	41	100	0	186	39	18	24	17	1.91
603221--603355	41	3.3	41	84	4	148	37	21	20	20	1.94
603283--603376	20	4.7	20	80	7	91	32	25	17	24	1.96

Tables:   1   2   3   4