genome.fa.s3856.2.7.7.80.10.50.1000.3.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: VEPZ01003856.1 Hibiscus syriacus cultivar Beakdansim tig00008289_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  822684

Tables:   1   2   3   4   

This is table  3  of  4  ( 415 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)
476960--477163	112	1.8	112	97	2	392	35	16	18	29	1.93
479488--479541	24	2.2	24	93	0	90	40	20	18	20	1.91
479488--479555	24	2.8	24	84	0	64	38	20	17	23	1.93
480401--480546	21	7.2	21	80	6	151	33	17	21	26	1.96
481427--481456	13	2.3	13	94	0	51	26	3	16	53	1.59
483919--483956	20	1.9	20	94	0	67	23	21	28	26	1.99
486485--486537	20	2.7	20	96	0	97	20	22	32	24	1.98
486482--486625	20	6.8	20	75	16	78	25	20	26	28	1.99
486525--486613	24	3.9	23	76	16	87	25	21	23	29	1.99
486532--486625	45	2.1	44	82	9	111	27	20	22	29	1.98
490411--490450	21	1.9	21	90	10	64	32	7	5	55	1.50
491764--491827	23	2.8	22	80	4	74	26	26	25	21	2.00
491843--492163	103	3.1	103	96	0	597	36	24	13	25	1.92
494676--494821	64	2.3	64	86	4	197	32	17	19	29	1.95
494829--494866	20	1.9	20	88	0	58	23	18	28	28	1.98
498511--498618	53	2.0	53	82	7	130	4	41	0	53	1.21
498626--498728	24	4.4	22	83	7	98	1	48	2	46	1.28
498508--498729	2	116.0	2	67	16	87	4	44	1	50	1.31
500038--500347	152	2.0	152	93	0	523	36	18	11	33	1.87
504771--504961	62	3.0	61	72	15	161	50	5	0	43	1.28
511868--511916	23	2.2	22	81	3	53	20	16	22	40	1.91
513152--513177	12	2.2	12	100	0	52	38	0	15	46	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514460--514509	18	2.7	19	84	9	77	38	32	6	24	1.79
515879--515921	22	2.0	22	90	9	70	37	4	6	51	1.50
521296--521397	2	51.0	2	100	0	204	50	0	0	50	1.00
526343--526367	2	12.5	2	100	0	50	52	0	0	48	1.00
527307--527383	20	3.8	20	79	5	75	25	16	22	35	1.95
530512--530595	43	2.0	42	80	2	96	33	13	3	50	1.58
532540--532612	21	3.5	21	80	10	87	21	15	27	35	1.93
533959--534002	18	2.4	18	92	0	70	43	36	4	15	1.68
540955--541010	21	2.6	22	83	8	71	23	17	28	30	1.97
551386--551424	12	3.2	12	77	0	51	71	10	2	15	1.23
551724--551786	29	2.1	29	85	5	81	20	3	15	60	1.49
553524--553588	29	2.2	28	81	5	67	41	3	6	49	1.43
556596--556629	16	2.1	16	89	10	52	38	8	20	32	1.84
557861--557908	17	2.7	18	78	15	55	33	12	8	45	1.72
558903--558959	23	2.5	23	97	0	105	49	3	21	26	1.65
562683--562735	21	2.5	21	96	0	97	43	26	11	18	1.84
570368--570458	45	2.0	46	91	4	148	39	14	18	27	1.89
572077--572121	20	2.2	20	96	0	81	46	24	22	6	1.75
581973--582031	29	2.0	29	100	0	118	49	13	13	23	1.78
586656--586714	29	2.0	29	100	0	118	49	13	13	23	1.78
591440--591481	21	2.0	21	86	9	59	23	0	33	42	1.55
592046--592120	35	2.2	35	85	4	100	41	9	22	26	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593203--593241	16	2.3	18	86	8	55	38	2	0	58	1.12
593347--593401	19	3.0	18	75	25	53	56	1	1	40	1.21
593430--593484	22	2.4	24	85	11	71	36	7	0	56	1.27
598685--598766	23	3.6	23	88	0	110	17	31	28	23	1.96
603895--603939	21	2.1	22	87	4	65	53	0	13	33	1.40
604226--604274	19	2.5	21	80	16	68	46	2	8	42	1.45
605006--605065	23	2.6	23	86	0	93	18	26	26	28	1.98
615899--615937	16	2.4	16	91	0	60	17	25	15	41	1.89
616127--616185	24	2.5	24	83	8	66	57	0	5	37	1.21
616207--616253	14	3.7	14	71	26	50	44	0	4	51	1.21
616206--616255	23	2.1	24	96	3	93	48	0	4	48	1.20
616419--616469	21	2.4	21	87	6	68	17	0	27	54	1.43
616438--616469	14	2.3	14	94	0	55	15	0	31	53	1.43
616544--616597	15	3.4	15	79	20	65	42	3	3	50	1.38
616563--616617	20	2.6	21	82	8	67	40	9	5	45	1.59
616610--616673	22	2.7	24	83	11	78	57	3	0	39	1.14
616818--616889	14	5.1	14	79	0	63	20	4	27	47	1.69
616948--616987	9	4.6	9	84	6	55	40	2	5	52	1.37
616956--616994	17	2.2	18	95	4	71	41	2	5	51	1.38
617013--617055	22	1.9	23	95	4	79	55	0	0	44	0.99
617873--617927	2	27.0	2	80	10	58	43	0	7	49	1.30
617873--617927	13	4.3	13	86	13	78	43	0	7	49	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617954--617995	20	2.0	22	90	9	70	59	0	0	40	0.97
619484--619532	20	2.5	20	100	0	98	24	20	36	18	1.94
625722--625771	15	3.3	15	78	10	57	46	12	14	28	1.79
626535--626583	19	2.6	19	80	0	53	22	28	32	16	1.95
627552--627616	14	4.6	14	76	0	58	20	0	26	53	1.45
627691--627720	13	2.3	13	100	0	60	40	0	6	53	1.27
627702--627746	20	2.3	20	85	11	58	42	6	4	46	1.50
627780--627813	14	2.4	14	90	0	50	23	8	26	41	1.83
627980--628070	12	7.6	12	75	4	85	43	20	8	26	1.81
627980--628070	8	11.4	8	85	4	85	43	20	8	26	1.81
628282--628328	20	2.5	20	86	10	64	25	27	0	46	1.53
628265--628336	19	3.7	20	80	10	87	22	31	0	45	1.52
628447--628642	2	100.0	2	70	18	119	46	2	3	47	1.31
628444--628639	77	2.5	82	78	13	221	46	2	3	47	1.31
631943--632031	3	29.7	3	87	4	126	61	0	3	34	1.12
632287--633159	113	7.7	113	91	0	1331	29	19	12	38	1.89
633844--633945	50	2.0	50	92	3	170	37	22	13	26	1.92
633976--634077	50	2.0	50	94	3	179	37	23	13	25	1.92
633723--634888	133	8.8	133	97	0	2042	35	21	13	29	1.92
635999--636036	13	2.9	13	92	7	60	0	7	0	92	0.40
648762--648913	3	50.7	3	84	2	198	60	0	3	35	1.15
649249--649375	60	2.1	60	81	8	143	34	23	3	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
649925--649986	23	2.7	23	82	5	72	56	3	0	40	1.15
653770--653812	22	1.9	23	86	13	63	27	0	2	69	1.00
653796--653828	16	1.9	17	88	11	50	36	0	3	60	1.12
653791--653830	17	2.3	19	79	16	50	32	0	2	65	1.06
656131--656193	25	2.6	24	80	14	67	20	1	14	63	1.38
659800--659845	21	2.2	21	96	0	83	32	15	28	23	1.95
661975--662026	3	17.3	3	88	7	79	36	0	0	63	0.95
663339--663369	5	6.2	5	92	0	53	16	0	3	80	0.83
665343--665385	22	1.9	23	86	13	63	30	6	11	51	1.65
665343--665390	22	2.2	22	82	14	55	33	6	10	50	1.62
666300--666612	161	1.9	163	98	1	612	28	21	12	38	1.89
667148--667197	17	2.9	17	77	11	57	76	4	18	2	1.04
675011--675192	70	2.6	70	89	4	280	30	13	14	41	1.84
675948--676018	3	23.3	3	85	2	97	32	1	1	64	1.11
677573--677685	29	3.8	29	75	14	88	15	9	9	64	1.48
677972--678002	5	6.2	5	92	0	53	16	0	3	80	0.83
679073--679124	18	2.8	19	82	8	63	55	3	0	40	1.18
685944--685986	17	2.7	15	76	13	50	9	16	62	11	1.53
688783--688822	14	2.7	15	76	7	55	27	22	10	40	1.86
691661--691739	3	26.3	3	100	0	158	32	0	0	67	0.91
692821--692888	31	2.2	31	86	5	93	36	10	22	30	1.87
694793--694840	25	1.9	25	95	0	87	8	20	41	29	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
695040--695080	21	2.0	21	95	0	73	34	26	21	17	1.95
697154--697210	20	2.8	20	86	0	78	35	8	21	35	1.84
698035--698064	15	2.0	15	93	0	51	40	16	10	33	1.82
705002--705093	29	3.1	29	73	9	78	44	4	15	35	1.66
707360--707657	148	2.0	148	94	1	517	38	8	12	41	1.72
711722--711877	31	5.0	31	87	3	217	36	21	20	21	1.95
711722--711875	62	2.5	62	91	4	249	36	21	20	21	1.95
712693--712737	21	2.1	21	87	0	63	15	24	28	31	1.96
715714--715854	31	4.5	31	90	0	219	37	20	21	20	1.94
716031--716077	23	2.0	24	91	4	78	34	21	0	44	1.52

Tables:   1   2   3   4