genome.fa.s7746.2.7.7.80.10.50.1000.2.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: VEPZ01007746.1 Hibiscus syriacus cultivar Beakdansim tig00110009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3674400

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

This is table  2  of  15  ( 1700 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)
433898--434007	35	3.1	35	85	2	141	30	36	1	31	1.68
434895--434926	15	2.1	15	100	0	64	18	25	0	56	1.42
435126--435169	20	2.1	21	84	12	56	77	0	18	4	0.94
435386--435452	18	3.6	19	78	13	68	16	19	0	64	1.30
437402--437441	19	2.0	20	90	4	64	20	15	0	65	1.28
438726--438756	15	2.0	16	93	6	55	64	0	22	12	1.27
442532--442566	17	2.1	17	88	0	52	40	0	31	28	1.57
446438--446527	35	2.5	35	85	1	117	28	34	4	32	1.77
450452--450509	13	4.7	13	72	12	50	29	39	0	31	1.57
450446--450554	35	3.1	35	85	2	139	29	37	2	30	1.71
451256--451296	6	6.7	6	88	5	64	0	14	2	82	0.76
451256--451296	19	2.2	18	91	4	64	0	14	2	82	0.76
451684--451797	35	3.3	35	87	4	144	31	3	35	29	1.75
452838--452934	48	2.0	48	100	0	194	44	12	20	22	1.85
455356--455408	20	2.6	21	76	5	56	22	30	11	35	1.89
469072--469137	16	4.1	15	73	19	53	65	0	18	16	1.28
469072--469129	16	3.6	16	74	19	57	65	0	17	17	1.27
475630--475683	23	2.2	25	90	6	85	11	16	12	59	1.61
480055--480079	11	2.3	11	100	0	50	16	24	8	52	1.70
492962--493014	23	2.2	24	93	3	90	11	15	13	60	1.59
503978--504286	154	2.0	154	100	0	618	43	9	22	23	1.83
509651--509704	26	2.3	23	74	20	58	72	0	12	14	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510995--511024	2	15.0	2	100	0	60	50	0	0	50	1.00
515658--515712	24	2.3	25	81	6	60	29	21	16	32	1.95
532939--533067	59	2.2	59	88	0	186	28	25	17	27	1.98
536840--536913	17	4.7	17	71	19	61	47	5	14	32	1.67
536837--536892	28	2.0	28	92	0	94	46	7	16	30	1.73
540467--540618	36	4.3	36	88	0	200	33	2	35	28	1.71
540524--540617	13	7.7	13	65	13	56	30	1	38	29	1.64
540958--541026	19	3.5	19	86	7	93	42	5	13	39	1.68
540958--541014	21	2.8	20	92	7	98	38	5	12	43	1.65
541197--541237	22	2.0	21	85	9	57	24	19	24	31	1.98
553103--553178	25	3.0	26	75	9	66	63	11	17	7	1.51
563068--563124	5	11.8	5	77	18	59	85	1	12	0	0.66
563073--563135	24	2.7	23	85	7	92	84	3	11	1	0.81
563085--563127	16	2.7	15	89	10	68	90	0	9	0	0.45
563085--563127	1	43.0	1	80	0	50	90	0	9	0	0.45
564655--564694	19	2.0	20	90	4	64	20	15	0	65	1.28
564651--564697	19	2.6	18	83	12	60	19	14	0	65	1.26
567987--568027	22	1.9	21	90	5	64	41	34	2	21	1.67
588118--588150	6	5.7	6	85	7	50	0	18	3	78	0.87
594488--594539	17	2.9	17	77	5	59	1	17	7	73	1.16
600706--600752	2	23.5	2	100	0	94	51	0	0	48	1.00
600765--600817	26	2.0	27	85	10	74	39	7	5	47	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600787--600825	18	2.2	17	86	13	53	41	2	5	51	1.38
611710--611759	2	25.0	2	100	0	100	50	0	0	50	1.00
617919--617970	7	8.2	6	87	12	61	5	17	0	76	0.97
617919--617952	12	2.9	11	87	12	50	2	17	0	79	0.86
618025--618185	80	2.0	80	91	0	259	29	18	22	29	1.97
619312--619362	15	3.0	18	69	16	54	29	19	23	27	1.98
638925--639043	62	1.9	61	80	8	134	20	21	18	40	1.92
639912--640582	337	2.0	337	100	0	1342	23	16	23	37	1.94
643881--643931	19	2.6	20	84	3	68	45	7	13	33	1.73
646196--646251	24	2.3	25	93	6	105	62	17	12	7	1.51
647412--647462	24	2.1	24	85	0	66	39	9	17	33	1.83
656689--656757	18	3.7	18	86	9	93	5	7	7	79	1.05
660430--660479	17	3.1	17	83	13	54	6	10	4	80	1.02
676310--676368	20	3.0	20	82	0	73	23	5	6	64	1.38
677898--677945	8	5.5	8	83	13	51	66	0	18	14	1.25
677896--677937	15	3.1	14	77	16	52	66	0	16	16	1.25
679854--679901	14	3.3	14	78	18	53	0	18	2	79	0.84
682260--682296	18	2.1	17	90	5	56	78	2	18	0	0.87
682255--682298	15	3.1	14	81	12	54	79	4	15	0	0.89
689544--689586	15	2.9	15	92	0	77	11	25	0	62	1.29
714123--714187	10	6.2	10	72	15	51	76	0	12	10	1.01
714920--714964	19	2.4	19	100	0	90	17	15	15	51	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
726291--726399	47	2.4	46	89	6	161	40	8	19	32	1.81
735397--735430	8	4.5	8	89	10	54	0	23	0	76	0.79
739993--740019	10	2.7	10	100	0	54	51	11	18	18	1.74
742381--742448	34	2.0	34	97	0	127	22	25	14	38	1.92
743373--743407	14	2.5	14	90	9	54	0	17	2	80	0.84
745834--745879	18	2.6	18	92	0	74	26	15	15	43	1.85
750242--750294	25	2.2	25	87	9	76	69	0	9	20	1.15
752397--752447	3	17.0	3	100	0	102	33	0	0	66	0.92
759540--759589	20	2.5	20	90	0	73	32	26	12	30	1.92
759729--759769	22	1.9	22	85	5	57	56	2	0	41	1.13
760517--760569	18	3.0	18	94	2	90	28	7	35	28	1.84
761628--761652	2	12.5	2	100	0	50	52	0	0	48	1.00
762104--762286	44	4.2	42	81	6	161	23	15	6	54	1.64
762104--762322	87	2.5	87	85	4	273	23	17	5	52	1.65
762117--762322	43	4.7	43	83	4	218	24	18	5	51	1.67
763699--763727	12	2.5	12	94	5	51	62	10	0	27	1.28
763892--763926	2	17.5	2	100	0	70	48	0	0	51	1.00
764767--764826	4	15.0	4	89	0	66	40	25	10	25	1.86
764767--764824	16	3.6	16	90	0	98	39	24	10	25	1.87
764770--764820	12	4.6	12	81	18	74	37	25	11	25	1.90
764767--764808	20	2.1	20	100	0	84	40	23	9	26	1.85
765061--765091	14	2.2	14	100	0	62	32	0	25	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
765175--765217	22	1.9	23	90	4	70	48	2	0	48	1.14
766224--766252	12	2.5	12	94	5	51	27	0	10	62	1.28
766185--766369	75	2.5	75	81	5	203	28	4	14	52	1.61
766661--766733	32	2.3	32	83	4	85	45	2	1	50	1.24
770992--771036	1	45.0	1	86	0	63	93	6	0	0	0.35
770992--771036	9	4.7	10	91	8	76	93	6	0	0	0.35
770992--771036	19	2.4	19	96	0	81	93	6	0	0	0.35
774341--774374	9	3.7	9	92	4	50	26	8	14	50	1.72
775774--775800	14	1.9	14	100	0	54	22	29	25	22	1.99
776120--776145	3	8.7	3	100	0	52	30	0	0	69	0.89
776122--776158	12	3.0	13	88	7	51	32	5	2	59	1.34
780304--780386	38	2.2	39	86	6	116	18	21	19	40	1.91
786982--787053	27	3.0	23	83	16	85	19	12	0	68	1.21
786991--787065	27	2.7	27	95	2	132	20	9	0	70	1.14
787002--787048	13	3.5	13	77	5	58	17	12	0	70	1.17
795683--796154	241	2.0	241	85	0	649	34	18	18	28	1.94
801345--801384	21	2.0	20	90	9	64	25	15	22	37	1.93
802059--802125	17	3.9	17	74	5	55	40	13	5	40	1.69
803987--804032	9	4.7	9	82	15	56	84	0	4	10	0.75
803987--804040	11	5.2	10	82	12	65	83	0	3	12	0.78
805313--805379	17	3.9	17	74	5	55	40	13	5	40	1.69
806882--806932	10	5.3	9	77	13	57	80	0	3	15	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
808206--808272	17	3.9	17	74	5	55	40	13	5	40	1.69
808928--809032	37	2.9	36	77	19	103	45	0	5	48	1.26
809021--809047	14	1.9	14	100	0	54	55	0	0	44	0.99
809029--809197	54	3.1	54	93	0	275	35	1	13	50	1.49
809106--809148	22	2.0	22	100	0	86	34	0	13	51	1.42
809128--809433	80	3.9	80	82	7	347	33	0	15	51	1.46
809231--809278	22	2.4	18	73	23	51	33	0	14	52	1.42
809240--809329	22	3.9	22	80	11	117	31	0	16	52	1.44
809208--809502	54	5.6	54	89	6	487	34	0	13	52	1.41
809342--809384	22	2.0	22	95	0	77	37	0	13	48	1.43

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