genome.fa.s7490.2.7.7.80.10.50.1000.3.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: VEPZ01007490.1 Hibiscus syriacus cultivar Beakdansim tig00020682_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  795028

Tables:   1   2   3   4   

This is table  3  of  4  ( 475 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)
333360--333406	21	2.2	21	92	0	76	29	14	25	29	1.95
333435--333510	20	3.8	20	80	0	80	19	18	17	44	1.87
337271--337322	21	2.5	21	93	0	86	13	19	34	32	1.90
337714--338193	91	5.3	91	90	1	707	23	22	16	37	1.93
338694--339429	36	20.5	36	86	6	777	38	14	20	26	1.91
338713--338837	66	1.9	66	90	3	198	36	15	22	25	1.93
339476--339698	76	2.9	76	86	3	324	40	13	14	31	1.85
339649--339745	39	2.4	39	87	3	131	38	17	14	29	1.89
339670--339751	39	2.1	39	95	0	146	41	19	14	24	1.89
339698--339811	60	1.9	60	83	0	147	36	17	16	28	1.92
345283--345335	21	2.5	21	90	0	88	11	18	35	33	1.87
353372--353416	20	2.3	20	88	3	65	44	2	4	48	1.35
353938--353973	16	2.2	17	90	5	56	50	2	0	47	1.15
369186--369211	9	2.9	9	100	0	52	80	0	0	19	0.71
373006--373038	17	1.9	17	93	0	57	39	9	6	45	1.61
382120--382169	20	2.9	16	75	18	55	54	0	2	44	1.11
382120--382176	17	3.2	17	73	9	60	56	0	1	42	1.10
382152--382226	22	3.3	24	75	17	79	54	1	1	42	1.17
382663--382722	31	2.0	31	83	3	77	58	3	11	26	1.49
383136--383187	25	2.0	26	82	10	63	32	17	3	46	1.66
386312--386359	19	2.5	20	76	6	55	29	0	4	66	1.10
388837--388931	44	2.2	42	81	9	104	29	18	20	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388847--388931	44	1.9	44	83	4	109	32	20	17	29	1.95
388904--389020	40	2.9	41	84	2	146	30	16	13	39	1.87
392536--392631	44	2.3	41	76	5	102	34	20	17	27	1.95
394482--394546	31	2.1	31	94	0	112	24	24	16	33	1.96
396483--396568	31	2.8	31	87	3	120	34	13	24	26	1.93
401093--401139	24	2.0	25	87	8	71	31	2	4	61	1.27
401331--401430	5	20.4	5	76	17	61	4	12	4	80	1.00
401330--401368	7	5.6	7	91	8	62	0	12	0	87	0.55
401330--401383	14	3.8	13	85	14	63	1	11	3	83	0.85
401330--401443	34	3.6	33	80	14	102	6	11	3	78	1.04
401345--401427	29	2.8	30	81	9	89	4	10	4	79	1.03
401336--401436	29	3.5	28	74	12	80	4	10	3	80	1.00
401420--401490	28	2.5	28	81	6	81	18	5	2	73	1.16
401452--401511	22	2.7	22	82	7	68	20	5	3	71	1.19
407614--407712	45	2.1	49	87	7	143	28	10	20	41	1.84
417414--417458	21	2.0	21	87	8	63	75	0	24	0	0.80
417470--417509	14	2.9	14	81	3	55	75	2	17	5	1.10
418835--419249	51	7.9	52	87	6	457	29	15	26	28	1.96
419003--419256	55	4.7	54	87	3	291	29	17	25	27	1.98
418952--419253	110	2.8	109	84	5	300	29	16	26	27	1.97
424589--424623	10	3.5	10	92	0	52	14	5	0	80	0.89
424718--424773	10	5.7	10	72	4	51	33	3	1	60	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424770--424804	15	2.3	15	90	5	52	20	5	2	71	1.19
424832--424978	6	25.0	6	68	20	64	13	6	2	78	1.03
424851--424978	47	2.7	47	75	15	129	12	6	2	78	1.02
424866--424947	40	2.0	40	82	13	98	9	6	2	81	0.94
424932--424995	28	2.3	27	91	5	101	18	3	1	76	1.00
424952--424995	13	3.2	13	75	12	52	20	4	2	72	1.13
435875--435902	13	2.2	13	100	0	56	25	25	14	35	1.93
438203--438342	64	2.2	64	83	5	167	35	22	17	25	1.95
439121--439147	8	3.4	8	100	0	54	37	0	0	62	0.95
451970--452042	24	3.0	23	74	7	74	32	24	20	21	1.97
462968--463022	27	2.0	27	89	0	83	21	10	21	45	1.82
466252--466301	23	2.3	23	82	6	59	38	20	22	20	1.94
471277--471497	116	1.9	117	81	4	268	29	13	8	48	1.71
472787--472973	74	2.5	74	86	3	259	21	19	27	31	1.97
473487--473566	28	2.9	28	90	3	126	50	20	2	27	1.61
475642--475672	16	1.9	16	93	0	53	9	22	0	67	1.19
477227--477257	4	7.8	4	92	0	53	0	29	0	70	0.87
484086--484141	20	2.7	21	78	13	62	32	16	23	28	1.96
484813--484886	18	4.1	18	89	0	112	28	16	31	24	1.96
487075--487182	55	2.0	55	96	0	198	28	27	8	35	1.86
491005--491110	54	2.0	54	82	0	131	18	13	18	49	1.80
492822--492881	31	1.9	31	100	0	120	33	10	10	46	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496246--496277	3	10.7	3	93	0	55	62	3	0	34	1.11
496557--496944	47	8.7	47	73	14	259	28	15	30	25	1.96
496618--497446	131	6.3	131	76	4	706	26	16	31	25	1.97
496621--497158	261	2.1	261	84	0	700	27	16	30	25	1.97
497449--497687	66	3.6	66	79	6	207	40	12	17	29	1.87
497916--498010	36	2.7	36	91	1	147	37	13	14	33	1.86
498401--498431	10	3.1	10	95	0	53	22	0	19	58	1.40
499436--499466	2	15.5	2	100	0	62	48	0	0	51	1.00
504578--504714	59	2.3	59	83	2	195	27	18	25	28	1.98
504815--504979	44	3.5	47	84	9	201	38	8	21	31	1.83
508066--508100	3	11.7	3	100	0	70	65	0	0	34	0.93
508589--508656	2	34.5	2	97	2	129	51	0	0	48	1.00
508844--508872	15	1.9	15	100	0	58	55	3	6	34	1.44
514381--514438	24	2.4	25	82	8	75	25	15	13	44	1.83
514655--514703	11	4.5	11	77	10	55	59	24	4	12	1.50
514644--514691	22	2.2	22	88	0	69	62	18	6	12	1.50
514655--514703	22	2.2	22	88	0	71	59	24	4	12	1.50
519918--519977	21	2.9	21	92	0	93	23	15	30	31	1.95
520081--520126	24	1.9	24	86	0	65	26	34	23	15	1.94
521452--521510	30	2.0	30	96	0	109	23	15	27	33	1.95
522890--523301	212	1.9	212	98	0	797	41	11	10	36	1.75
523316--523378	24	2.7	23	75	4	65	39	17	17	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523306--523424	58	2.1	58	93	0	202	39	16	15	27	1.90
523340--523406	34	1.9	36	84	6	93	38	16	16	28	1.90
523372--523454	23	3.4	24	78	8	78	45	14	15	24	1.83
535909--535990	24	3.5	24	69	21	75	40	2	10	46	1.52
535909--536079	11	14.5	11	66	22	55	43	2	8	45	1.50
535912--536010	45	2.2	45	85	3	128	38	2	10	49	1.48
536020--536079	27	2.4	25	83	10	77	48	3	6	41	1.46
536832--536865	7	4.9	7	100	0	68	41	44	0	14	1.45
537703--537768	30	2.2	29	81	7	78	50	7	1	40	1.40
537727--537803	11	7.0	11	75	16	70	46	6	1	45	1.37
537761--537831	14	5.1	14	79	6	72	46	4	2	46	1.37
537727--537817	28	3.3	26	83	12	94	47	5	1	46	1.33
548492--548567	17	4.6	16	74	11	64	11	11	0	76	1.03
548491--548564	32	2.4	33	84	8	93	12	12	0	75	1.04
560267--560298	2	16.5	2	93	6	57	50	0	0	50	1.00
563227--563279	20	2.8	18	86	10	79	35	15	18	30	1.92
571634--571672	19	2.0	20	85	10	53	56	0	2	41	1.13
575824--575878	22	2.5	22	75	0	56	29	9	23	38	1.85
581407--581465	5	11.8	5	90	0	64	6	40	33	18	1.77
581463--581535	6	12.2	6	94	0	128	1	16	50	31	1.53
581814--581868	22	2.5	22	75	0	56	29	9	23	38	1.85
584912--584954	3	13.7	3	85	9	59	34	2	0	62	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584912--584954	13	3.4	12	84	9	59	34	2	0	62	1.08
584914--584952	10	4.0	10	86	6	62	38	2	0	58	1.12
585551--585590	6	6.8	6	85	5	55	87	7	5	0	0.66
585551--585590	12	3.4	12	96	3	73	87	7	5	0	0.66
598795--598865	8	8.9	8	72	20	51	73	0	15	11	1.10
598814--598864	22	2.2	22	86	13	68	78	0	15	5	0.93
599804--600070	134	2.0	135	89	3	414	26	30	17	24	1.98
600263--600330	3	21.7	3	96	3	109	30	0	0	69	0.89
600251--600330	27	3.1	27	83	5	67	27	3	3	65	1.27
605518--605585	33	2.2	32	81	7	77	42	0	1	55	1.08

Tables:   1   2   3   4