genome.fa.s8881.2.7.7.80.10.50.1000.2.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: VEPZ01008881.1 Hibiscus syriacus cultivar Beakdansim tig00112127_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  608427

Tables:   1   2   3   

This is table  2  of  3  ( 252 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)
323075--323196	31	3.9	31	77	9	131	30	18	19	31	1.96
327882--327953	30	2.4	30	88	0	99	31	22	20	25	1.98
327945--328067	31	3.9	31	73	8	97	32	19	17	30	1.95
331779--331809	3	10.3	3	100	0	62	32	0	0	67	0.91
333944--333976	7	4.6	7	96	3	57	0	12	0	87	0.53
336531--336568	2	19.0	2	100	0	76	50	0	0	50	1.00
342508--342551	15	2.8	16	83	12	56	61	0	4	34	1.16
343873--343991	16	7.4	16	66	0	67	10	14	31	43	1.78
343863--344018	64	2.4	64	78	6	165	14	13	27	44	1.82
343868--344016	32	4.7	32	77	0	129	12	14	27	45	1.81
347346--347385	20	2.0	20	85	0	53	30	12	15	42	1.83
349859--349889	12	2.6	12	89	0	53	29	19	22	29	1.98
349872--349922	24	2.2	23	89	3	75	41	21	17	19	1.91
349891--349956	34	1.9	34	87	0	96	43	21	15	19	1.87
349918--349963	23	2.0	23	82	0	56	39	21	17	21	1.93
349931--349975	23	2.0	23	86	0	63	42	13	15	28	1.85
358262--358852	84	7.1	84	75	9	428	17	30	10	41	1.83
358273--358803	252	2.1	252	90	0	830	16	30	11	42	1.83
360537--360613	38	2.0	39	89	5	120	35	10	10	44	1.73
365081--365124	19	2.2	20	84	4	54	56	0	0	43	0.99
365090--365131	20	2.2	19	91	4	66	52	0	0	47	1.00
366896--366930	18	1.9	18	88	0	52	25	31	20	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375018--375086	30	2.3	30	89	0	102	53	23	4	18	1.62
376997--377057	23	2.7	23	89	0	95	26	27	26	19	1.99
377562--377595	12	2.7	13	86	9	52	29	11	0	58	1.33
387334--387394	3	20.3	3	85	6	79	60	0	3	36	1.13
387640--387901	84	3.1	84	86	1	355	22	19	27	30	1.98
387936--388746	105	7.7	106	92	1	1227	22	17	24	34	1.96
387936--388746	211	3.8	212	90	1	1256	22	17	24	34	1.96
387943--388730	316	2.5	317	91	2	1260	22	18	24	34	1.96
394013--394084	3	24.3	3	84	8	94	61	0	2	36	1.11
401390--401452	23	2.7	23	97	0	117	20	31	25	22	1.98
401411--401476	19	3.3	19	79	12	53	21	31	30	16	1.95
413181--413309	60	2.2	59	81	8	145	44	11	9	34	1.73
413638--413686	6	8.5	6	80	17	59	0	12	53	34	1.39
413641--413688	11	4.3	11	75	15	53	0	14	50	35	1.44
420484--420783	127	2.3	127	76	6	293	39	19	11	29	1.87
424252--424451	30	6.7	30	91	0	283	43	20	33	3	1.68
424348--424442	10	9.2	11	76	15	96	44	18	36	0	1.51
424465--424527	18	3.3	18	72	12	54	39	15	34	9	1.80
424252--424495	90	2.7	87	79	7	227	42	19	33	4	1.72
432892--432916	8	3.1	8	100	0	50	24	0	0	76	0.80
433517--433601	19	4.4	19	77	16	75	60	1	0	38	1.05
433541--433600	23	2.8	23	87	12	92	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433517--433603	39	2.2	36	75	18	86	59	1	0	39	1.05
436448--436489	19	2.2	19	91	8	68	23	2	38	35	1.68
441035--441076	19	2.2	19	91	8	68	23	2	38	35	1.68
446552--446585	7	5.0	7	96	3	61	14	26	29	29	1.95
449100--449140	21	2.0	21	90	0	64	21	21	12	43	1.85
453610--453642	14	2.4	14	94	0	57	24	39	30	6	1.79
453624--453708	33	2.6	33	90	0	125	24	28	37	9	1.86
453783--453909	10	12.1	10	69	9	74	12	33	28	25	1.92
453779--453867	33	2.7	33	91	0	133	11	37	26	24	1.89
453816--453907	20	4.4	20	77	8	94	14	30	30	25	1.94
454197--454285	29	3.1	29	95	0	160	17	33	31	16	1.93
458027--458055	6	4.8	6	100	0	58	34	13	17	34	1.89
458834--458873	18	2.3	18	91	4	64	27	2	0	70	1.01
475123--475788	333	2.0	333	97	2	1250	40	15	17	26	1.89
476031--476113	43	1.9	43	95	0	148	36	4	12	46	1.62
482693--482827	20	6.7	20	78	7	112	32	24	18	24	1.97
482690--482827	61	2.3	61	84	0	186	34	23	18	23	1.96
482995--483038	22	2.0	22	95	0	79	20	45	15	18	1.85
483301--483359	20	3.0	20	84	0	64	18	18	20	42	1.90
499188--499266	31	2.5	31	82	8	106	36	5	13	44	1.67
501447--501592	43	3.4	43	86	0	193	28	24	16	30	1.96
503872--503920	18	2.6	18	78	21	55	40	8	0	51	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509807--510091	2	145.0	2	67	18	100	46	3	3	46	1.37
509898--509955	27	2.1	27	87	6	82	51	5	3	39	1.41
509997--510078	33	2.5	34	84	4	114	47	3	2	46	1.33
509942--510085	54	2.6	55	81	7	150	45	3	2	47	1.34
510187--510240	27	2.0	27	85	7	74	44	1	5	48	1.37
523285--523324	20	2.0	20	90	0	62	40	15	25	20	1.90
524171--524254	41	2.0	42	97	2	161	50	9	14	26	1.73
531445--531512	30	2.3	30	100	0	136	33	26	7	32	1.84
534810--534913	29	3.6	29	92	0	163	17	30	34	17	1.93
534999--535036	20	1.9	20	88	0	58	15	13	47	23	1.81
535149--535220	21	3.3	21	69	14	65	16	27	26	29	1.97
535134--535224	44	2.1	44	97	0	173	18	25	27	28	1.98
535134--535206	23	3.3	23	70	14	80	17	26	28	27	1.98
535600--535643	21	2.1	21	91	0	70	29	0	15	54	1.42
535620--535682	28	2.2	30	91	5	103	31	0	11	57	1.34
535643--535755	50	2.4	48	81	12	128	40	0	8	49	1.40
536172--536228	16	3.3	16	71	17	51	38	1	10	49	1.48
539422--539718	26	12.2	26	75	16	203	43	2	10	44	1.50
539485--539770	11	23.6	11	68	23	84	43	1	9	45	1.46
539555--539636	12	6.7	12	76	14	78	47	3	7	41	1.49
539369--539754	120	3.2	122	91	4	608	43	1	9	45	1.47
539426--539759	49	6.8	51	70	16	183	43	2	9	45	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539416--539770	26	14.5	25	74	15	194	42	1	9	45	1.48
539425--539770	14	26.1	14	68	21	110	43	2	9	45	1.48
539723--539796	38	1.9	38	83	5	96	45	4	5	44	1.45
539977--540009	17	1.9	17	93	0	57	36	6	12	45	1.66
539927--540002	24	3.2	24	71	22	70	38	3	9	48	1.54
542359--542450	46	2.0	48	87	8	136	46	13	0	40	1.42
542359--542463	46	2.2	48	85	10	135	47	13	0	39	1.43
543015--543090	29	2.6	29	89	0	107	22	31	28	17	1.96
543096--543134	9	4.1	9	81	12	51	12	17	30	38	1.88
543096--543134	20	2.0	20	94	0	69	12	17	30	38	1.88
546897--546947	23	2.2	23	82	3	57	23	19	11	45	1.83
546907--546957	23	2.2	23	100	0	102	17	15	13	52	1.74
548220--548275	24	2.3	24	87	0	76	33	14	5	46	1.67
553282--553358	19	4.1	19	86	0	100	41	10	19	28	1.84
553282--553376	38	2.5	38	80	0	109	42	9	17	30	1.81
570264--570315	23	2.3	23	100	0	104	32	3	36	26	1.75
574020--574059	20	2.0	21	85	5	55	20	15	0	65	1.28
574100--574131	13	2.4	14	94	5	57	15	0	3	81	0.82
574121--574163	16	2.7	15	79	10	50	30	6	0	62	1.21
577565--577630	8	8.2	8	72	12	55	78	7	13	0	0.94
577586--577638	15	3.3	15	76	10	52	81	7	11	0	0.88
577565--577658	7	12.1	7	76	15	62	77	8	13	0	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578280--578350	22	3.2	22	95	0	124	33	23	14	28	1.94
578946--579200	105	2.4	105	97	0	483	33	24	19	22	1.97
579308--579557	43	5.4	43	69	14	185	36	25	16	22	1.94
579007--579603	188	3.1	192	89	4	870	34	25	17	22	1.96
579351--579603	51	5.3	51	68	14	223	33	26	16	23	1.95
579112--579603	94	5.2	94	88	4	740	34	25	17	22	1.96
579652--579693	20	2.1	20	90	0	66	23	21	16	38	1.93
581123--581162	20	2.0	21	85	5	55	20	15	0	65	1.28
581203--581234	13	2.4	14	94	5	57	15	0	3	81	0.82
581224--581266	16	2.7	15	79	10	50	30	6	0	62	1.21

Tables:   1   2   3