genome.fa.s8018.2.7.7.80.10.50.1000.3.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: VEPZ01008018.1 Hibiscus syriacus cultivar Beakdansim tig00110485_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  927418

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 495 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)
428653--428729	31	2.5	31	76	2	82	27	31	25	15	1.96
429622--429749	29	4.4	29	89	4	179	35	22	6	35	1.80
429615--429749	58	2.3	58	88	2	209	37	22	5	34	1.78
429757--429792	16	2.1	18	90	10	58	11	22	41	25	1.86
429754--429795	17	2.4	19	84	15	63	9	23	40	26	1.85
435728--435922	29	6.6	29	81	5	178	37	22	5	34	1.77
435722--435892	90	1.9	89	86	5	247	39	21	5	34	1.76
435722--435922	90	2.3	86	81	10	226	38	21	5	34	1.77
436794--436871	23	3.3	23	81	1	93	32	23	20	24	1.98
436878--437093	101	2.1	102	89	1	335	37	23	12	27	1.90
437943--437969	14	1.9	14	100	0	54	29	22	22	25	1.99
444996--445283	20	14.2	20	78	14	238	41	23	19	15	1.89
445073--445283	40	5.2	40	86	7	300	38	25	19	16	1.92
445077--445283	60	3.4	58	90	7	290	38	25	19	16	1.92
445379--445483	6	17.5	6	100	0	210	33	50	16	0	1.45
445981--446077	6	16.2	6	100	0	194	0	16	49	34	1.46
446173--446600	20	21.2	20	77	13	407	15	19	23	41	1.90
449522--449573	26	2.0	27	85	11	72	7	15	9	67	1.41
449735--449941	102	2.0	102	87	1	299	36	13	25	24	1.92
450509--450931	156	2.7	154	84	3	566	26	16	21	35	1.94
455093--455558	103	4.5	105	75	10	381	31	14	15	37	1.88
455203--455387	98	1.9	98	83	4	239	33	15	16	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455301--455575	105	2.6	107	79	8	290	32	14	13	39	1.85
457102--457137	16	2.2	16	90	9	56	25	13	16	44	1.85
470491--470884	208	1.9	206	88	4	596	44	16	16	22	1.86
471356--471394	19	2.1	19	85	0	51	58	7	2	30	1.39
472367--472423	26	2.2	26	84	6	71	19	5	12	63	1.47
473699--473759	27	2.2	27	85	8	79	57	8	3	31	1.44
474901--475074	87	2.0	87	100	0	348	27	17	11	43	1.83
477136--477180	18	2.4	18	85	10	56	31	2	0	66	1.04
477135--477224	20	4.5	21	74	18	59	30	5	1	63	1.24
477191--477239	14	3.6	13	81	8	62	38	2	0	59	1.09
477148--477228	23	3.5	23	71	24	64	29	6	1	62	1.27
477356--477395	17	2.4	17	87	8	55	20	5	0	75	0.99
477572--477630	11	5.7	10	75	18	50	15	5	5	74	1.17
480120--480181	27	2.3	27	97	0	115	43	20	3	32	1.68
480798--480847	21	2.4	20	80	6	55	78	4	16	2	1.00
480811--480848	20	1.9	19	89	5	58	76	5	13	5	1.13
480924--481057	69	1.9	69	96	3	252	37	22	14	26	1.92
481978--482087	32	3.4	33	84	5	125	29	12	21	36	1.91
482597--482919	106	3.0	106	89	0	468	33	24	19	22	1.97
483214--483286	37	2.0	37	86	0	101	31	17	12	38	1.87
483119--483489	102	3.6	102	88	1	512	31	19	11	37	1.87
483302--483386	37	2.3	36	83	2	107	24	20	12	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
483404--483491	36	2.4	36	90	0	140	29	21	11	37	1.88
483445--483666	121	1.8	122	91	1	365	27	18	11	41	1.85
483570--483732	65	2.4	67	84	5	206	31	19	9	39	1.83
488096--488180	3	28.0	3	92	2	143	63	0	2	34	1.07
488409--489319	46	20.0	46	90	3	1355	34	19	21	24	1.96
488409--489319	183	5.0	181	90	3	1364	34	19	21	24	1.96
488409--489319	137	6.7	137	92	2	1424	34	19	21	24	1.96
489973--490027	22	2.7	21	86	10	78	38	16	7	38	1.76
501545--501589	3	14.7	3	90	4	72	68	0	0	31	0.89
501883--501937	19	2.9	18	84	13	58	30	5	1	61	1.29
501981--502054	37	2.1	36	87	7	107	25	5	2	66	1.27
502219--502255	19	1.9	19	88	0	56	13	10	0	75	1.04
502299--502335	19	2.1	17	90	10	56	16	2	2	78	0.98
502317--502342	11	2.4	11	100	0	52	15	0	0	84	0.62
504146--504520	159	2.4	158	84	7	503	27	18	6	46	1.74
504803--504828	2	13.0	2	100	0	52	50	0	0	50	1.00
506209--506378	30	5.7	29	84	6	214	49	1	9	40	1.43
506206--506378	90	1.9	89	88	3	258	49	1	9	39	1.45
513546--513581	2	18.0	2	100	0	72	0	50	0	50	1.00
513661--513695	4	8.8	4	93	0	52	22	5	0	71	1.07
514181--514230	26	2.0	25	84	4	64	28	0	8	64	1.22
517436--517467	13	2.5	13	95	5	57	65	28	6	0	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526764--526793	7	4.1	7	95	4	51	83	0	0	16	0.65
527444--527542	50	2.0	50	95	0	180	27	8	32	32	1.86
527444--527558	50	2.3	50	90	0	158	27	8	32	31	1.87
532056--532170	49	2.3	50	83	3	142	29	8	29	32	1.87
533393--533460	25	3.0	21	73	26	59	30	0	1	67	0.99
537850--537907	12	4.8	12	77	12	57	36	34	5	24	1.78
537851--537926	36	2.1	36	97	0	143	38	32	6	22	1.80
537863--537955	24	3.9	24	74	5	80	35	31	9	23	1.87
539396--539439	21	2.1	21	100	0	88	40	9	13	36	1.76
547543--547799	3	86.7	3	94	5	461	34	0	0	65	0.93
551910--552067	39	3.9	40	80	7	169	25	18	33	22	1.97
551959--552210	134	1.9	130	84	9	341	25	18	30	25	1.98
551910--552253	130	2.7	127	79	12	344	25	18	30	25	1.98
551997--552289	130	2.2	129	80	10	317	25	18	28	27	1.98
553924--554096	83	2.0	86	92	7	291	26	23	10	39	1.88
560449--560511	30	2.1	30	84	0	81	31	6	20	41	1.77
564949--564984	12	3.0	12	91	0	54	77	8	0	13	0.98
570221--570306	30	2.9	29	82	6	109	36	15	9	39	1.79
571157--571335	30	6.0	30	93	0	295	36	13	16	32	1.88
578338--578414	31	2.5	31	95	0	136	33	25	15	24	1.95
584545--584595	25	2.0	26	85	11	70	13	11	3	70	1.29
588249--588273	13	1.9	13	100	0	50	0	40	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592602--592658	22	2.8	19	78	14	60	28	3	21	47	1.67
593798--593823	2	13.0	2	100	0	52	50	0	0	50	1.00
610777--610821	21	2.1	21	95	0	81	40	0	0	60	0.97
616564--616607	19	2.3	19	85	14	56	40	0	6	52	1.28
616567--616666	46	2.2	47	82	10	118	45	1	6	48	1.34
616567--616666	23	4.5	22	76	10	96	45	1	6	48	1.34
616813--616954	2	72.0	2	73	12	89	43	2	4	50	1.33
616827--616983	16	9.1	18	72	20	97	43	1	5	49	1.32
616996--617067	29	2.6	27	72	23	69	34	1	2	61	1.19
616996--617071	27	2.8	27	78	7	75	34	1	2	61	1.18
618303--618343	20	2.1	20	86	4	57	48	4	0	46	1.23
628686--628747	32	2.0	31	87	9	92	40	0	3	56	1.15
637155--637182	12	2.3	12	100	0	56	35	25	14	25	1.93
639636--639688	24	2.2	24	86	0	70	26	16	7	49	1.73
639648--639697	24	2.1	24	100	0	100	24	12	4	60	1.49
640080--640136	29	1.9	30	82	10	73	15	8	1	73	1.16
640831--641156	162	2.0	163	94	5	572	27	22	28	21	1.99
644164--647312	106	30.6	106	92	4	4993	33	25	17	23	1.96
644410--644565	43	3.4	43	68	19	127	35	24	17	22	1.96
644193--647264	306	10.0	306	92	5	4983	33	25	17	23	1.96
645034--645283	43	5.4	43	66	16	151	34	24	18	22	1.96
645851--646098	43	5.4	43	65	16	149	34	25	18	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646566--646720	43	3.4	43	68	20	127	34	26	18	20	1.95
646871--647026	43	3.4	43	68	13	132	34	25	18	21	1.96
647799--647841	14	3.0	14	75	18	52	34	4	2	58	1.32
648706--648758	24	2.2	24	86	0	70	26	16	7	49	1.73
648718--648766	24	2.0	24	100	0	98	24	12	4	59	1.50
649161--649215	28	1.9	29	82	10	69	16	9	1	72	1.18
652159--652209	20	2.5	20	96	0	93	19	21	11	47	1.81
652452--652504	25	2.1	25	100	0	106	41	0	7	50	1.30
652978--653002	5	5.0	5	100	0	50	40	0	0	60	0.97
653541--653571	14	2.2	14	100	0	62	45	0	12	41	1.42

Tables:   1   2   3   4   5