genome.fa.s8772.2.7.7.80.10.50.1000.3.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: VEPZ01008772.1 Hibiscus syriacus cultivar Beakdansim tig00111877_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3098974

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  3  of  16  ( 1817 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)
449701--450388	113	6.0	113	85	6	850	38	15	19	26	1.91
449700--450388	225	3.0	225	88	4	941	38	15	19	26	1.91
450196--450240	24	1.9	23	82	13	56	48	6	26	17	1.72
450106--450371	130	2.1	129	95	0	478	40	14	19	24	1.89
450219--450259	17	2.4	17	100	0	82	51	4	24	19	1.66
450356--450518	84	1.9	84	87	2	238	38	17	15	27	1.91
450799--450866	3	23.0	3	79	8	77	30	1	0	67	0.99
450778--450866	18	5.0	18	80	11	78	28	1	2	68	1.08
452264--452291	13	2.2	13	100	0	56	28	0	7	64	1.20
452292--452323	3	10.7	3	93	0	55	31	3	0	65	1.08
452597--452660	33	1.9	33	84	6	85	48	1	0	50	1.10
457506--457643	36	3.9	35	84	5	181	36	21	25	17	1.94
457501--457643	70	2.0	71	90	4	227	37	20	25	16	1.93
462598--462640	20	2.1	21	95	4	79	20	6	23	48	1.73
464017--464284	99	2.7	99	87	5	364	24	19	16	39	1.92
464017--464302	101	2.9	101	85	3	294	24	19	16	39	1.91
465324--465349	8	3.2	8	100	0	52	76	0	23	0	0.78
470931--471749	55	14.9	55	91	0	1217	36	18	11	34	1.86
475320--475995	139	4.9	139	88	0	967	35	16	20	27	1.94
479292--479691	200	2.0	200	100	0	800	28	14	23	34	1.93
482265--482351	31	2.8	30	81	10	95	54	3	1	41	1.25
482260--482327	19	3.5	20	73	15	54	54	1	2	41	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484655--484755	44	2.3	44	89	3	150	55	8	28	6	1.57
484655--484777	44	2.7	44	83	8	140	51	12	30	6	1.64
484892--485187	148	2.0	148	98	0	574	28	13	22	35	1.92
487210--487280	6	10.8	6	80	15	70	2	14	1	81	0.87
487209--487281	14	5.4	14	85	8	98	2	13	1	82	0.85
487216--487248	8	4.4	8	85	14	52	0	12	0	87	0.53
487210--487280	20	3.5	20	81	11	92	2	14	1	81	0.87
487615--487867	91	2.8	91	84	7	313	24	21	16	37	1.93
488279--488622	73	4.8	73	82	7	409	40	13	20	25	1.89
488279--488640	36	10.1	36	78	8	346	40	13	21	25	1.89
488423--488622	109	1.8	108	93	1	346	41	15	21	22	1.90
488565--488679	57	2.0	57	88	3	169	37	14	26	21	1.92
488625--488699	36	2.1	35	83	11	91	36	13	24	26	1.92
488716--488803	36	2.4	36	83	7	106	39	10	23	26	1.86
491291--491334	8	6.0	8	84	10	51	50	11	22	15	1.76
491326--491362	13	2.6	15	79	16	51	45	8	29	16	1.76
491820--491877	29	1.9	31	82	6	75	53	8	18	18	1.70
497743--497798	29	2.0	28	96	3	103	32	28	12	26	1.93
497745--497805	29	2.1	28	90	3	95	32	27	13	26	1.93
498912--498952	12	3.5	11	84	12	55	75	2	0	21	0.92
499694--499830	72	1.9	73	93	4	242	59	8	2	29	1.42
500127--500207	39	2.1	39	97	0	153	54	14	4	25	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501155--501340	92	2.0	92	100	0	372	39	11	20	27	1.88
503524--503588	31	2.0	34	91	8	109	27	18	35	18	1.94
509085--509114	15	2.0	15	100	0	60	13	46	26	13	1.80
511037--511207	85	2.0	85	100	0	342	26	28	22	22	1.99
512676--512773	49	2.0	49	88	4	144	20	19	26	33	1.96
512763--513079	44	7.2	44	82	1	370	28	17	23	30	1.97
515437--515522	36	2.4	36	96	0	154	38	18	5	37	1.75
516975--517300	161	2.0	164	98	1	631	30	19	21	28	1.98
518870--519057	41	4.5	41	83	5	202	29	22	17	30	1.97
518870--519057	83	2.3	81	81	7	209	29	22	17	30	1.97
520269--520310	22	1.9	22	85	0	57	33	9	4	52	1.55
521032--521190	65	2.5	63	85	7	214	28	17	23	30	1.97
527879--527921	22	2.0	22	90	0	68	32	13	11	41	1.81
528350--528665	83	3.8	82	80	3	285	32	21	15	31	1.94
528442--528674	41	5.6	41	68	9	150	31	22	15	30	1.95
531259--531315	26	2.2	26	100	0	114	33	22	19	24	1.97
533341--533379	4	9.5	4	88	5	60	74	2	0	23	0.94
533341--533379	17	2.4	17	91	4	62	74	2	0	23	0.94
533336--533379	13	3.4	13	84	9	63	72	2	0	25	0.96
534144--534280	72	1.9	73	92	4	233	58	9	2	29	1.44
534586--534650	18	3.2	22	60	28	52	58	13	4	23	1.54
534588--534653	21	3.3	21	62	12	57	57	15	6	21	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
534581--534661	39	2.1	39	100	0	162	54	16	4	24	1.61
535546--535726	91	2.0	92	98	1	355	38	12	20	28	1.88
537667--537693	5	5.4	5	100	0	54	59	0	0	40	0.98
540639--540665	2	13.5	2	100	0	54	51	0	0	48	1.00
541412--541503	6	15.3	6	98	0	130	0	6	50	43	1.28
543418--543455	19	2.0	19	100	0	76	26	0	10	63	1.27
543419--543465	19	2.5	19	89	6	69	25	2	8	63	1.34
544039--544081	24	1.9	22	86	13	61	41	0	0	58	0.98
545313--545352	20	2.0	20	85	9	55	52	0	0	47	1.00
546345--546739	43	9.3	42	77	9	295	25	19	6	48	1.74
546498--546706	81	2.5	83	80	12	230	24	21	8	46	1.78
546345--546705	168	2.1	168	82	6	435	25	19	6	47	1.74
547383--547416	11	3.0	11	83	8	50	29	0	2	67	1.05
547383--547430	23	2.0	23	84	11	62	29	0	10	60	1.30
547697--547728	2	16.0	2	100	0	64	50	0	0	50	1.00
549042--549155	60	1.9	60	81	3	140	42	14	11	31	1.80
549621--549654	2	18.0	2	88	11	54	47	0	0	52	1.00
551252--551291	21	1.9	21	85	10	55	40	2	10	47	1.50
552810--553007	21	9.6	21	76	10	160	22	19	24	34	1.96
552835--552987	42	3.8	40	88	5	202	22	18	22	35	1.96
552816--553035	103	2.1	102	85	5	291	23	18	23	35	1.96
552909--553036	61	2.1	61	89	0	202	25	18	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
552836--552986	82	1.8	81	90	5	241	22	18	23	35	1.95
553125--553161	6	6.2	6	93	0	65	35	45	16	2	1.61
553889--554015	19	6.3	19	77	13	119	34	23	19	22	1.96
553892--553993	42	2.4	42	96	0	186	36	25	17	20	1.94
554019--554071	21	2.5	21	84	0	70	20	20	28	30	1.98
554435--554468	13	2.7	13	90	4	52	41	2	0	55	1.15
554457--554521	18	3.4	18	71	24	53	36	0	3	60	1.13
554449--554518	29	2.4	30	95	2	124	38	0	2	58	1.13
554449--554535	29	3.0	28	86	8	86	35	0	3	60	1.13
558491--558525	18	1.9	18	88	11	54	54	0	8	37	1.31
559572--559612	21	2.0	21	85	9	57	43	2	2	51	1.28
559967--560004	20	1.9	20	89	10	60	39	0	0	60	0.97
561587--561630	18	2.4	18	77	7	54	27	0	13	59	1.35
561814--561885	30	2.4	30	90	2	108	31	16	15	36	1.90
562347--562390	21	2.0	22	86	4	63	34	11	18	36	1.86
563426--563595	85	2.0	85	97	2	324	34	27	17	20	1.95
564912--565284	187	2.0	186	98	1	721	27	27	13	31	1.94
568105--568170	30	2.2	30	88	0	96	34	6	21	37	1.78
568105--568178	30	2.5	30	84	4	78	33	5	21	39	1.76
569674--569721	21	2.3	21	88	0	78	33	6	16	43	1.73
573541--573600	2	31.5	2	90	9	99	50	0	0	50	1.00
580463--580505	22	2.0	22	90	0	68	20	9	11	58	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584889--585025	42	3.3	42	80	6	120	35	21	19	24	1.96
584928--585025	42	2.3	42	87	0	133	35	22	18	23	1.95
586503--586606	41	2.5	41	84	3	120	34	19	19	26	1.95
589069--590822	749	2.3	747	98	0	3337	34	13	15	36	1.87
593193--593258	21	3.1	22	82	4	66	40	16	40	1	1.58
593668--593848	43	4.2	43	89	1	247	30	24	17	27	1.97
593705--593888	86	2.1	86	83	5	230	32	25	16	25	1.96
593725--593919	86	2.3	86	80	8	202	36	25	15	22	1.94
593726--593931	43	4.8	43	84	7	133	34	25	17	22	1.96
595223--595257	10	3.6	10	92	3	54	25	45	20	8	1.79

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16