genome.fa.s7950.2.7.7.80.10.50.1000.3.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: VEPZ01007950.1 Hibiscus syriacus cultivar Beakdansim tig00110372_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1941792

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

This is table  3  of  10  ( 1138 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)
337361--337426	33	2.0	33	82	5	80	50	1	16	31	1.55
341898--342198	147	2.0	147	91	1	487	25	15	22	35	1.94
342170--342221	23	2.3	23	83	6	72	25	21	25	28	1.99
344186--344244	20	2.8	20	76	10	55	28	18	22	30	1.97
345037--345068	2	16.0	2	100	0	64	50	0	0	50	1.00
345795--345862	23	3.0	23	80	4	75	19	23	26	30	1.98
347215--347270	18	3.1	18	100	0	112	5	37	0	57	1.22
347455--347521	33	2.0	33	97	0	125	23	46	0	29	1.53
347554--347597	21	2.1	21	95	0	79	13	34	11	40	1.81
349410--349802	182	2.2	182	91	0	633	27	17	14	40	1.88
349764--349817	25	2.5	20	71	25	54	37	16	9	37	1.81
349772--349827	25	2.2	25	100	0	112	39	14	7	39	1.73
349590--350008	207	2.0	207	95	0	757	28	16	14	41	1.87
360597--360640	21	2.1	21	100	0	88	22	29	13	34	1.93
366702--366787	35	2.5	35	84	0	100	40	20	1	37	1.61
366756--366798	21	2.0	21	100	0	86	46	13	0	39	1.44
366913--366946	16	2.0	18	88	11	54	26	2	5	64	1.30
374456--374495	21	1.9	21	90	10	64	52	2	0	45	1.14
375190--375508	161	2.0	161	98	0	611	53	11	4	30	1.56
377281--377307	13	2.1	13	100	0	54	37	11	7	44	1.68
377566--377734	44	3.9	44	85	2	243	21	9	21	46	1.79
384023--384052	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384291--384360	36	2.0	35	94	2	122	52	2	1	42	1.24
386578--386732	15	10.4	15	74	4	125	54	16	12	16	1.72
386697--386748	15	3.5	15	79	7	52	51	13	19	15	1.75
386581--386732	45	3.4	45	77	3	146	54	16	12	16	1.71
388366--388399	18	1.9	18	94	5	61	38	2	0	58	1.13
388667--388691	2	12.5	2	100	0	50	48	0	0	52	1.00
391691--391716	8	3.2	8	100	0	52	42	0	0	57	0.98
395535--395684	76	2.0	78	86	4	216	59	9	2	28	1.42
397491--397530	14	2.8	14	88	3	53	67	2	7	22	1.28
397537--397577	20	2.1	19	90	4	64	80	4	2	12	0.97
403227--403277	23	2.2	23	82	6	59	76	0	3	19	0.94
403737--403766	12	2.5	12	88	0	51	66	3	23	6	1.30
403872--404019	76	2.0	75	90	4	235	58	10	2	29	1.45
423270--423298	14	2.1	14	100	0	58	37	0	6	55	1.27
427901--427961	23	2.7	23	89	0	95	31	27	21	19	1.97
427977--428194	103	2.1	103	94	1	384	37	23	12	26	1.90
429725--429770	3	15.3	3	95	0	83	34	2	0	63	1.07
430188--430225	19	2.0	19	94	0	67	78	7	13	0	0.94
442584--442623	12	3.4	12	83	16	57	82	0	17	0	0.67
443746--444322	82	7.0	82	97	0	1028	25	13	22	38	1.90
445046--445943	114	7.9	114	96	0	1575	38	12	20	28	1.89
446175--446246	3	24.3	3	88	2	110	36	2	0	61	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446657--446692	17	2.1	17	94	0	63	75	8	16	0	1.04
449947--449984	16	2.4	16	100	0	76	36	13	23	26	1.91
450021--450072	22	2.4	21	81	6	59	26	19	23	30	1.98
452405--452444	2	20.0	2	100	0	80	50	0	0	50	1.00
452666--452699	17	2.0	17	100	0	68	58	0	0	41	0.98
452662--452722	28	2.1	29	87	3	88	52	0	3	44	1.17
455957--456151	97	2.0	97	100	0	390	33	19	9	37	1.84
461470--461510	3	13.7	3	100	0	82	0	31	0	68	0.90
464378--464414	15	2.4	16	82	17	51	27	13	27	32	1.94
468618--468668	20	2.5	20	84	6	68	50	1	41	5	1.37
481517--481574	26	2.2	26	87	0	80	22	15	17	44	1.86
481801--481878	26	3.0	26	82	0	84	24	14	15	46	1.83
496554--496584	16	2.0	15	93	6	53	12	25	41	19	1.87
496732--496784	4	13.0	4	80	11	63	69	0	3	26	1.05
496736--496791	12	4.8	12	78	8	53	67	0	3	28	1.07
496802--496989	73	2.5	72	86	5	234	51	9	0	38	1.39
496788--497104	38	8.9	35	79	10	279	48	8	2	41	1.45
496892--496989	13	7.6	13	64	14	51	46	9	0	43	1.35
496930--497152	36	6.2	36	76	10	174	45	6	3	44	1.46
496871--497146	73	3.9	70	80	9	240	45	6	2	44	1.45
497834--498879	164	6.3	163	82	5	1156	24	20	25	29	1.99
497769--498831	249	4.3	248	90	2	1500	24	20	24	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502888--502919	16	1.9	17	93	6	57	71	9	12	6	1.29
505302--505332	16	2.0	15	93	6	53	12	25	41	19	1.87
505480--505543	4	17.0	4	77	9	64	70	0	3	26	1.02
505474--505543	24	3.0	24	80	16	76	68	1	4	25	1.16
505555--505794	38	6.5	36	85	8	268	50	8	0	40	1.38
505583--505664	40	2.1	39	90	2	128	58	8	0	32	1.28
505549--505752	75	2.7	72	82	10	221	51	9	0	38	1.38
505656--505752	13	7.6	13	66	18	53	48	9	0	42	1.35
505632--505909	72	3.9	69	82	10	244	45	6	3	44	1.46
505634--505915	35	7.9	35	78	12	143	45	7	3	43	1.47
512205--512242	19	2.1	19	90	5	60	47	7	0	44	1.32
530339--530408	31	2.3	31	97	0	131	32	10	25	31	1.89
540412--540571	65	2.5	65	84	7	202	30	18	21	30	1.97
545215--545297	3	27.0	3	85	9	105	37	0	0	62	0.95
558089--558151	30	2.1	28	86	13	83	80	0	19	0	0.70
558089--558142	9	5.9	9	82	8	56	81	0	18	0	0.69
559283--559753	92	5.2	92	98	1	896	26	14	24	34	1.93
560498--561153	113	5.8	113	81	5	722	39	12	18	30	1.87
560996--561040	24	1.9	23	82	13	56	48	6	26	17	1.72
561370--561440	3	25.0	3	75	21	64	39	0	0	60	0.97
561371--561440	10	7.0	11	78	16	73	40	0	0	60	0.97
561371--561440	22	3.2	22	88	9	92	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561370--561440	28	2.4	30	90	6	110	39	0	0	60	0.97
562804--563044	117	2.0	123	81	11	293	40	7	8	43	1.64
574634--574674	21	2.1	19	86	9	55	39	9	14	36	1.79
577780--577821	20	2.0	21	90	4	68	40	9	14	35	1.78
578793--578824	9	3.6	9	100	0	64	56	12	31	0	1.37
579174--579233	23	2.7	22	72	7	68	13	21	18	46	1.83
580040--580227	104	1.8	103	83	4	252	35	10	12	41	1.77
580845--580893	12	4.2	12	75	21	50	44	0	0	55	0.99
580844--580900	22	2.7	21	80	17	64	43	0	0	56	0.99
582019--582151	42	3.3	38	79	10	113	49	17	9	24	1.75
582052--582151	42	2.4	42	89	0	155	52	18	9	21	1.72
583246--583315	34	2.0	36	91	8	117	18	31	30	20	1.96
583720--583792	22	3.2	21	67	14	56	41	6	19	32	1.78
583730--583804	23	3.3	22	70	15	71	40	8	20	32	1.81
583704--583816	46	2.5	46	92	4	187	41	6	18	33	1.75
583965--584060	38	2.5	38	89	0	147	25	21	28	25	1.99
584214--584255	20	2.0	21	90	4	68	42	7	9	40	1.65
584225--584338	54	2.1	54	98	0	219	42	6	14	35	1.71
585989--586023	2	17.5	2	100	0	70	51	0	0	48	1.00
589440--589510	35	2.0	37	94	5	128	16	29	32	21	1.95
589915--589987	22	3.2	21	67	14	56	41	6	19	32	1.78
589925--589999	23	3.3	22	70	15	71	40	8	20	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589899--590011	46	2.5	46	92	4	187	41	6	18	33	1.75
590160--590255	38	2.5	38	89	0	147	25	21	28	25	1.99
590409--590504	20	5.1	20	70	24	73	42	6	13	37	1.70
590420--590533	54	2.1	54	100	0	228	42	6	15	35	1.72
604769--604797	14	2.1	14	100	0	58	13	13	27	44	1.82
614967--615232	126	2.1	126	100	0	532	33	19	25	22	1.97
615300--615340	8	5.2	8	82	5	57	36	29	0	34	1.58
618329--618366	13	3.0	13	88	3	60	44	0	0	55	0.99
625628--625694	34	1.9	34	82	14	84	47	19	11	20	1.81
632589--632618	15	2.0	15	93	0	51	26	16	6	50	1.70

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