genome.fa.s9576.2.7.7.80.10.50.1000.3.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: VEPZ01009576.1 Hibiscus syriacus cultivar Beakdansim tig00116944_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1684752

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

This is table  3  of  10  ( 1108 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)
405125--405166	2	21.5	2	95	4	77	50	0	0	50	1.00
411491--411521	2	15.5	2	100	0	62	51	0	0	48	1.00
419525--419561	17	2.2	17	100	0	74	40	5	27	27	1.78
424646--424702	28	2.1	28	87	6	82	50	10	0	38	1.37
424643--424707	28	2.3	29	81	10	80	52	9	0	38	1.34
425423--425448	2	13.0	2	100	0	52	50	0	0	50	1.00
426736--426877	3	47.3	3	100	0	284	33	0	0	66	0.92
427562--427604	21	2.1	21	86	4	61	34	2	6	55	1.39
431859--431950	7	13.1	7	81	4	51	50	28	0	21	1.49
431859--431950	42	2.2	42	90	3	141	50	28	0	21	1.49
431863--431930	28	2.4	28	80	4	66	50	26	0	23	1.50
434898--434946	10	4.8	11	78	16	61	18	18	26	36	1.94
434899--434953	9	5.6	10	79	12	69	16	20	29	34	1.94
434956--435011	18	3.1	18	94	0	103	17	48	17	16	1.82
434989--435013	13	1.9	13	100	0	50	16	48	16	20	1.82
435032--435098	29	2.3	29	86	0	89	22	10	26	40	1.86
435061--435115	29	1.9	28	81	3	65	29	9	23	38	1.85
436727--436786	11	5.4	11	73	11	50	30	6	25	38	1.81
436720--436786	34	2.0	33	88	2	98	29	8	25	35	1.86
437522--437568	21	2.2	21	88	0	76	19	25	17	38	1.92
437564--437636	20	3.7	20	94	0	119	41	20	19	19	1.91
437623--437689	20	3.3	20	85	0	98	29	25	19	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437564--437690	40	3.2	40	82	8	127	35	22	18	23	1.96
438531--438584	24	2.2	24	93	0	90	20	18	20	40	1.91
438759--438785	3	9.0	3	100	0	54	66	0	33	0	0.92
441001--441074	20	3.7	20	92	3	114	35	24	21	18	1.96
441079--441205	20	6.8	20	74	14	119	47	18	22	12	1.81
441098--441200	34	2.9	34	84	11	118	46	18	22	12	1.82
442645--442684	20	2.0	21	85	14	57	42	5	7	45	1.54
442917--442989	19	3.8	19	98	0	128	21	34	16	27	1.95
442928--442982	11	5.5	11	68	24	50	21	32	14	30	1.93
442947--443101	65	2.4	65	84	3	195	30	25	14	29	1.95
445152--445191	20	2.0	21	85	14	57	37	15	5	42	1.68
445151--445195	20	2.2	20	80	11	56	40	13	4	42	1.64
449041--449133	2	46.5	2	100	0	186	49	0	0	50	1.00
449360--449411	26	2.0	26	96	0	95	34	3	28	32	1.76
449558--449593	12	3.0	12	100	0	72	33	8	8	50	1.63
449766--449972	65	3.2	63	82	8	213	31	24	15	28	1.95
450835--450946	42	2.7	42	77	10	113	23	18	36	21	1.95
451426--451650	20	11.4	20	78	7	201	38	21	19	20	1.94
451477--451666	96	2.0	96	90	0	299	38	21	20	20	1.94
451698--451761	20	3.2	21	91	4	80	21	18	21	37	1.94
451774--451832	20	3.0	20	89	0	91	20	18	18	42	1.90
453713--453841	20	6.8	20	78	10	110	48	23	16	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
453715--453901	33	5.2	33	72	15	115	44	24	17	13	1.84
453728--453889	73	2.2	73	93	0	270	45	23	16	14	1.85
454218--454277	22	2.7	22	86	0	84	21	15	33	30	1.94
454478--454530	20	2.7	20	96	0	97	22	20	18	37	1.94
454527--454567	21	2.0	21	85	0	55	46	17	24	12	1.82
457602--457648	22	2.1	22	88	0	67	48	2	8	40	1.45
459895--460030	60	2.3	60	81	8	145	35	15	13	36	1.86
461679--461739	33	1.9	33	86	6	90	55	6	3	34	1.42
463542--463901	175	2.0	178	97	1	690	35	15	9	39	1.80
464869--464928	11	5.5	11	80	4	59	58	20	5	16	1.56
466426--466474	11	4.5	11	84	5	73	61	20	2	16	1.44
466418--466474	21	2.7	22	83	5	73	61	22	1	14	1.42
466819--466874	27	2.0	28	82	3	69	37	14	3	44	1.62
467036--467066	2	15.5	2	100	0	62	51	0	0	48	1.00
467517--467624	55	2.0	55	84	0	144	27	17	21	33	1.96
468470--468848	195	1.9	195	87	1	553	25	26	19	27	1.99
470698--470746	23	2.0	25	84	7	66	51	4	2	42	1.32
483075--483121	24	2.0	24	95	0	85	17	19	10	53	1.72
484564--484597	9	3.8	9	88	0	50	32	29	0	38	1.58
484558--484596	18	2.2	18	90	0	60	30	33	0	35	1.58
487427--487654	20	11.3	21	75	12	121	36	21	17	24	1.95
487488--487620	40	3.3	41	84	5	148	38	21	18	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487426--487639	60	3.6	59	74	12	159	36	21	17	24	1.95
487462--487715	140	1.8	140	92	0	436	38	22	16	22	1.92
487648--487714	20	3.3	20	78	0	80	43	25	10	20	1.84
487702--487782	19	4.1	19	80	13	74	38	22	8	30	1.84
487682--487782	20	5.1	20	76	9	80	40	22	8	27	1.84
487682--487782	40	2.5	40	80	4	105	40	22	8	27	1.84
487460--487754	140	2.1	139	86	4	414	38	22	15	24	1.92
487542--487754	100	2.1	100	80	8	254	39	22	14	23	1.90
487767--487813	18	2.5	19	82	6	60	29	23	14	31	1.95
488728--488781	24	2.2	24	93	0	90	20	18	20	40	1.91
491565--491618	28	1.9	28	84	0	72	48	20	0	31	1.50
491582--491618	14	2.6	14	100	0	74	48	21	0	29	1.50
493037--493135	21	4.7	21	75	13	96	23	20	34	22	1.97
493037--493135	42	2.4	42	79	6	119	23	20	34	22	1.97
495539--495593	22	2.5	22	78	0	65	18	16	41	23	1.89
495698--495877	20	8.9	20	79	3	164	21	15	22	41	1.89
495706--495878	60	2.9	60	85	0	202	21	14	21	42	1.88
495696--495889	40	4.8	40	75	2	183	20	14	22	42	1.88
495881--495929	20	2.5	20	93	0	80	20	16	26	36	1.93
495722--495934	60	3.5	59	80	10	168	21	13	23	42	1.88
495919--496035	20	5.7	21	72	5	69	28	13	26	31	1.94
496132--496233	43	2.3	43	89	1	159	45	7	6	40	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496210--496273	27	2.4	27	97	0	119	39	3	3	54	1.32
496210--496285	27	2.8	27	88	4	64	42	5	3	48	1.44
498282--498317	17	2.2	16	90	5	54	44	8	2	44	1.48
506893--506926	17	1.9	18	88	5	52	44	5	11	38	1.65
524949--524974	13	2.0	13	100	0	52	38	7	23	30	1.83
525365--525419	28	2.0	28	88	0	83	34	21	16	27	1.95
531267--531292	13	2.0	13	100	0	52	61	0	7	30	1.24
531456--531496	16	2.6	15	85	11	55	34	7	9	48	1.64
533737--533782	20	2.3	20	92	0	74	34	15	8	41	1.78
540329--540369	18	2.4	17	88	8	57	43	17	9	29	1.80
544442--544485	3	14.7	3	95	0	79	2	34	29	34	1.70
545383--545434	22	2.4	22	100	0	104	53	3	0	42	1.19
546550--546590	18	2.3	18	91	4	66	63	2	4	29	1.28
546743--546860	50	2.4	51	78	4	123	23	26	30	19	1.98
549807--549831	9	2.8	9	100	0	50	88	0	0	12	0.53
551743--551769	14	1.9	14	100	0	54	22	7	18	51	1.70
551851--551885	17	2.1	17	88	0	52	60	11	2	25	1.45
556437--556472	2	18.0	2	100	0	72	50	0	0	50	1.00
562179--562219	21	2.0	21	95	0	73	31	9	14	43	1.78
562430--562530	33	3.1	33	97	0	193	51	2	21	23	1.62
563781--563827	19	2.5	20	79	10	62	29	6	10	53	1.60
566954--567040	35	2.5	34	78	12	88	52	10	8	28	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569318--569384	28	2.4	28	85	7	82	64	4	0	31	1.14
578801--578932	30	4.4	30	97	1	248	24	19	24	31	1.98
578801--578932	59	2.2	60	97	1	248	24	19	24	31	1.98
582183--582344	30	5.4	30	97	1	308	24	19	24	32	1.97
582183--582344	59	2.7	60	98	0	308	24	19	24	32	1.97
584235--584277	22	2.0	22	86	4	61	18	11	27	41	1.85
585800--585851	24	2.2	23	80	12	61	44	7	0	48	1.31
592910--592939	2	15.0	2	100	0	60	50	0	0	50	1.00
596080--596252	87	2.0	86	98	1	337	24	15	19	41	1.90
596378--596581	102	2.0	101	94	4	358	23	21	15	39	1.92

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