genome.fa.s8812.2.7.7.80.10.50.1000.3.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: VEPZ01008812.1 Hibiscus syriacus cultivar Beakdansim tig00111973_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  944649

Tables:   1   2   3   4   

This is table  3  of  4  ( 432 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)
461692--461748	20	2.8	20	94	0	96	29	21	15	33	1.94
461931--461967	16	2.4	16	86	8	51	24	18	10	45	1.81
462130--462192	31	2.1	31	90	3	101	36	7	6	49	1.58
464813--464888	16	4.9	15	77	16	68	61	3	1	32	1.22
464844--464888	14	3.3	14	80	20	51	64	2	0	33	1.06
464867--464912	24	2.0	24	86	4	67	56	8	0	34	1.30
464876--464950	24	3.2	23	83	14	91	49	8	2	40	1.46
465011--465136	35	3.6	35	78	6	146	41	10	6	42	1.64
468303--468337	15	2.3	15	90	0	52	17	2	42	37	1.64
478739--478790	27	1.9	27	88	7	79	63	0	0	36	0.95
478742--478802	24	2.7	22	82	10	70	60	0	1	37	1.07
478738--478802	6	9.6	7	76	17	50	61	0	1	36	1.05
478738--478794	3	20.0	3	79	16	68	63	0	0	36	0.95
478787--478841	24	2.3	24	80	0	56	56	7	1	34	1.38
478805--478855	22	2.2	24	89	6	79	52	9	1	35	1.46
478821--479061	35	7.0	32	74	13	121	41	9	5	43	1.59
478900--479091	37	5.4	36	81	10	200	39	10	6	43	1.65
478895--479083	72	2.7	70	87	8	253	41	10	6	41	1.65
478900--479080	35	5.1	35	80	11	183	40	10	6	42	1.65
479874--479924	7	8.1	7	75	20	51	68	0	0	31	0.90
479870--479936	16	4.2	16	79	11	66	67	1	0	31	1.00
480007--480062	21	2.5	23	83	13	73	42	10	5	41	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480014--480060	23	2.2	22	88	11	71	44	10	4	40	1.59
479982--480096	57	2.0	59	84	6	155	40	9	4	45	1.57
480029--480206	36	4.9	37	80	9	188	40	10	5	43	1.63
480173--480217	23	2.0	23	82	8	56	42	11	4	42	1.60
480184--480282	44	2.3	42	80	16	112	44	5	4	46	1.44
480687--480745	21	2.8	21	72	12	57	44	0	0	55	0.99
482197--482252	26	2.2	26	93	0	94	46	17	1	33	1.59
483537--483566	14	2.1	14	100	0	60	50	13	13	23	1.77
483861--483895	15	2.3	15	90	0	52	37	42	2	17	1.64
484531--484732	62	3.2	63	73	12	191	37	12	21	28	1.91
487885--488046	40	4.1	40	90	0	252	24	14	24	36	1.93
488096--488146	20	2.5	20	78	12	59	15	3	21	58	1.53
488652--488691	21	1.9	21	85	10	55	27	20	22	30	1.98
490658--490734	24	3.3	23	75	15	77	61	16	10	11	1.57
490697--490746	23	2.2	23	96	0	91	64	22	4	10	1.41
490956--490991	10	3.6	10	88	0	54	58	13	11	16	1.63
498082--498241	65	2.5	65	82	5	182	27	17	21	33	1.96
499350--499393	21	2.1	21	86	0	61	40	13	36	9	1.76
500945--501008	23	2.9	23	75	15	71	26	21	23	28	1.99
504802--504841	21	1.9	21	90	10	64	37	7	0	55	1.29
506787--506946	65	2.5	65	85	3	198	28	17	23	30	1.97
508777--508916	36	3.9	36	93	0	228	29	37	4	29	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508799--508899	11	8.5	11	70	23	62	30	36	3	28	1.76
508779--508882	23	4.4	23	69	23	65	28	36	4	29	1.78
509363--509409	14	3.1	15	75	12	51	72	6	19	2	1.17
512976--513150	36	4.9	36	90	4	259	29	36	4	29	1.76
512979--513082	23	4.4	23	69	23	65	28	35	4	30	1.78
514663--514716	23	2.3	24	81	9	67	66	9	3	20	1.35
519062--519108	21	2.3	21	88	3	69	25	25	23	25	2.00
519422--519458	18	2.1	18	89	0	56	51	8	8	32	1.61
522115--522185	34	2.1	33	82	12	83	25	25	15	33	1.95
522545--522589	21	2.2	21	88	4	65	24	24	26	24	2.00
525233--525278	21	2.2	21	88	0	65	30	26	8	34	1.86
529382--529430	25	2.0	25	100	0	98	34	16	24	24	1.95
531184--531221	2	19.5	2	94	5	69	50	0	0	50	1.00
539036--539096	22	2.7	23	72	22	67	21	16	6	55	1.63
544285--544334	2	26.0	2	78	15	52	46	2	4	48	1.32
547378--547425	19	2.5	19	96	0	87	33	25	20	20	1.97
547430--547485	20	2.8	20	91	0	85	37	39	12	10	1.78
547433--547493	20	3.0	20	85	4	79	37	37	14	9	1.80
547522--547588	22	3.0	22	80	0	80	19	25	23	31	1.98
556792--556855	29	2.2	30	83	13	80	40	32	6	20	1.77
563886--563945	23	2.6	24	82	12	81	28	13	15	43	1.84
564126--564169	24	1.9	22	81	9	52	47	13	11	27	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564832--564891	2	30.0	2	100	0	120	50	0	0	50	1.00
573888--573956	30	2.3	29	83	11	86	44	7	20	27	1.77
575492--575529	16	2.2	17	86	9	51	5	15	5	73	1.19
580070--580100	16	1.9	16	93	0	53	61	6	6	25	1.45
580214--580253	19	2.1	19	90	0	62	50	5	0	45	1.23
581984--582012	2	15.0	2	92	7	51	51	0	0	48	1.00
582216--582253	19	2.1	18	90	9	60	44	5	7	42	1.56
582212--582262	19	2.6	19	76	14	59	43	3	7	45	1.51
583002--583150	39	3.8	39	81	3	140	30	19	31	18	1.96
583042--583185	39	3.7	39	79	5	157	30	20	29	19	1.97
583791--583832	21	2.0	22	90	4	68	64	14	7	14	1.48
585734--585777	21	2.1	21	87	8	63	27	4	34	34	1.77
595713--595831	7	17.0	7	93	4	170	80	0	18	0	0.76
595716--595789	1	74.0	1	72	0	58	86	0	13	0	0.57
596704--596728	13	1.9	13	100	0	50	44	16	24	16	1.86
597860--597897	19	2.1	18	90	9	60	44	5	7	42	1.56
597856--597906	19	2.6	19	76	14	59	43	3	7	45	1.51
603577--603640	14	4.3	14	77	13	65	76	7	6	9	1.15
603830--603868	13	2.9	13	96	3	69	76	0	7	15	0.99
603850--603894	24	2.0	24	86	8	67	73	2	6	17	1.15
603827--603870	13	3.3	13	90	3	61	79	0	6	13	0.92
603859--603914	24	2.3	24	87	6	78	67	1	5	25	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603836--603976	36	4.0	35	81	13	141	72	1	6	19	1.14
603888--603992	36	2.8	37	76	17	94	70	0	6	21	1.16
614492--614555	14	4.3	14	77	13	65	78	7	4	9	1.09
614511--614544	17	2.0	17	94	0	59	76	14	2	5	1.09
614794--614842	25	2.0	25	84	8	64	65	0	6	28	1.16
614792--614923	39	3.3	38	76	15	117	65	1	7	25	1.28
614976--615009	5	6.8	5	87	12	52	76	0	2	20	0.92
614959--615006	20	2.4	19	86	13	62	72	0	8	18	1.08
614965--615001	15	2.5	15	95	0	65	72	0	8	18	1.08
615443--615482	19	2.0	20	90	4	64	42	25	2	30	1.68
618970--619038	20	4.0	17	75	19	63	28	2	2	65	1.22
620569--620656	23	4.0	22	82	12	108	17	40	27	14	1.88
620571--620634	21	3.0	21	77	11	58	18	37	28	15	1.92
620571--620656	44	2.0	44	88	4	129	17	39	27	15	1.89
624951--625553	268	2.2	272	89	2	892	37	20	8	33	1.83
626264--626359	29	3.3	29	94	0	156	27	28	33	11	1.91
629354--629402	23	2.2	23	85	10	66	38	14	6	40	1.71
630138--630202	21	3.0	21	88	6	87	27	26	21	24	1.99
644135--644198	19	3.2	20	72	14	53	43	1	1	53	1.19
644144--644193	20	2.5	20	78	12	59	40	2	2	56	1.22
644111--644197	31	2.8	30	79	10	95	41	1	3	54	1.25
644895--644974	31	2.6	30	86	11	110	57	2	1	38	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
649518--649571	26	2.1	26	89	0	81	18	12	29	38	1.88
657854--657911	20	2.9	20	92	0	80	20	13	32	32	1.92
661978--662025	2	24.0	2	100	0	96	50	0	0	50	1.00
662428--662470	21	2.0	21	86	0	59	34	16	39	9	1.80
665929--665971	23	1.9	22	90	4	68	13	11	4	69	1.33
666227--666259	11	2.8	12	81	9	50	66	6	9	18	1.40
671664--671789	26	4.8	26	99	0	243	31	22	23	23	1.98
671664--671781	17	6.8	18	69	20	65	29	22	23	23	1.99
671809--671846	20	1.9	20	88	0	58	18	13	34	34	1.89
675395--675548	40	3.9	40	88	0	229	22	16	28	33	1.95

Tables:   1   2   3   4