genome.fa.s8773.2.7.7.80.10.50.1000.3.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: VEPZ01008773.1 Hibiscus syriacus cultivar Beakdansim tig00111881_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1239499

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 660 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)
380341--380399	30	2.0	30	86	0	82	32	23	15	28	1.95
390262--390595	167	2.0	166	99	0	659	34	17	23	23	1.96
394760--394826	35	1.9	35	87	0	98	47	8	8	34	1.66
399884--399941	21	2.8	21	94	0	107	20	39	18	20	1.92
400410--400480	34	2.1	33	89	2	106	33	14	28	23	1.94
403123--403162	21	1.9	21	89	0	62	30	10	10	50	1.69
403627--403666	20	1.9	22	90	10	66	37	40	10	12	1.77
404780--404821	19	2.2	19	95	0	75	40	0	0	59	0.97
404938--404997	25	2.4	26	71	18	63	36	0	1	61	1.06
404728--405032	160	1.9	162	81	6	368	37	3	11	47	1.58
406089--406122	3	11.3	3	100	0	68	64	0	35	0	0.94
409819--409852	3	11.3	3	87	12	52	35	0	0	64	0.94
409820--409852	13	2.5	13	95	5	57	33	0	0	66	0.92
409800--409848	16	3.1	16	85	8	64	30	0	0	69	0.89
415847--415876	14	2.1	14	100	0	60	30	13	16	40	1.87
416619--416671	14	3.7	14	75	12	54	67	5	24	1	1.22
417818--417863	4	12.2	4	82	13	62	52	19	0	28	1.47
417828--417863	18	2.1	17	94	5	63	52	16	0	30	1.44
418248--418480	104	2.3	102	84	7	303	30	19	12	37	1.88
418453--418550	36	2.8	34	78	9	101	34	19	13	32	1.90
418800--418926	56	2.3	55	84	11	179	29	9	15	45	1.78
418800--418926	29	4.6	27	88	5	175	29	9	15	45	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418800--418941	27	5.1	27	84	8	162	29	9	14	46	1.76
419025--419093	30	2.3	30	87	7	106	37	10	15	36	1.82
419370--419495	63	2.0	63	89	1	191	31	14	11	42	1.80
420066--420147	28	2.9	28	80	10	87	24	13	13	48	1.78
420206--420576	46	8.4	45	68	18	149	25	31	18	24	1.97
420176--420761	134	4.5	129	86	4	764	25	31	18	25	1.98
420691--420767	40	1.9	40	91	0	127	20	33	19	25	1.96
420931--420966	3	12.0	3	88	11	56	33	0	0	66	0.92
420930--420962	16	2.1	16	100	0	66	30	0	0	69	0.88
424404--424748	190	1.8	190	88	1	530	39	4	9	45	1.58
428187--428234	25	1.9	25	83	8	62	56	4	0	39	1.19
428648--428703	10	5.4	10	72	16	51	57	21	12	8	1.62
428649--428697	16	3.1	16	93	0	89	57	22	12	8	1.61
430091--430123	16	2.1	16	88	11	50	72	9	0	18	1.10
430939--431050	14	9.2	13	62	26	50	43	0	1	54	1.10
430967--431063	26	3.1	34	73	26	122	43	0	2	54	1.11
430945--431063	59	2.0	57	93	4	202	43	0	2	53	1.14
430915--431057	60	2.3	65	86	9	199	41	0	2	56	1.11
430944--431067	60	2.1	59	91	7	207	43	0	2	54	1.13
430960--431083	59	2.1	60	87	4	180	45	0	1	52	1.16
431066--431127	19	3.3	19	78	15	58	37	1	0	61	1.06
431714--431746	9	3.7	9	88	12	50	51	18	9	21	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432074--432117	21	2.2	20	83	4	52	43	2	2	52	1.26
431752--432138	184	2.1	183	92	2	636	47	7	2	42	1.47
432358--432417	31	1.9	31	93	0	102	43	10	6	40	1.64
441247--441284	14	2.7	14	91	0	58	28	5	7	57	1.49
441435--441481	22	2.1	22	100	0	94	48	27	14	8	1.73
443671--443724	26	2.1	26	89	6	83	68	0	1	29	1.00
443605--443724	27	4.5	26	70	15	84	70	2	3	23	1.14
443958--443994	2	18.5	2	100	0	74	51	0	0	48	1.00
443992--444063	10	7.3	10	80	13	60	70	0	1	27	0.95
444182--444222	11	3.6	11	87	6	55	65	4	4	24	1.32
444305--444343	12	3.2	12	85	3	51	66	0	5	28	1.12
444910--445006	37	2.6	37	88	0	149	30	13	15	40	1.86
445738--447324	106	15.0	106	89	1	2305	23	18	24	33	1.96
448810--448863	14	3.8	13	79	15	63	1	9	7	81	0.94
448803--448863	7	8.6	7	73	10	52	3	8	8	80	1.01
462376--462431	29	2.0	29	89	3	87	35	8	21	33	1.85
466384--466450	32	2.1	32	100	0	134	14	25	11	47	1.79
486449--486481	15	2.2	15	89	10	50	48	24	6	21	1.72
491755--491788	16	2.2	15	94	5	59	47	23	5	23	1.73
496374--496668	163	1.8	163	85	6	418	38	4	5	51	1.44
505067--505133	30	2.3	28	80	12	73	38	13	1	46	1.52
505064--505204	70	2.0	70	97	0	264	36	12	1	48	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505137--505203	29	2.3	28	80	12	73	38	10	1	49	1.46
508708--508916	15	13.2	15	68	21	51	48	3	4	44	1.39
508713--508770	18	3.2	17	79	15	55	48	3	3	44	1.36
508718--508781	18	3.5	17	78	18	51	48	3	3	45	1.34
508803--508843	11	3.5	11	84	12	55	48	7	4	39	1.52
508812--508881	28	2.7	25	82	13	79	51	5	4	38	1.45
508985--509078	46	2.0	46	85	4	127	44	0	23	31	1.54
509028--509097	19	3.6	19	72	11	70	44	0	28	27	1.55
509036--509092	20	2.9	20	76	5	62	43	0	29	26	1.55
509333--509383	6	8.8	6	85	14	72	0	15	49	35	1.45
509329--509385	21	2.8	20	89	7	87	0	15	49	35	1.45
509323--509380	27	2.1	27	90	0	89	1	18	46	32	1.60
509329--509383	27	2.0	27	96	0	101	0	16	49	34	1.46
509453--509495	17	2.5	17	88	7	61	58	4	6	30	1.45
509504--509538	14	2.5	14	90	0	52	51	25	0	22	1.48
509516--509563	14	3.4	14	77	8	53	50	20	4	25	1.66
510052--510104	14	3.7	14	87	2	70	50	22	0	26	1.49
510046--510124	21	3.8	20	75	6	68	50	26	0	22	1.49
510046--510120	14	5.4	14	77	4	53	50	26	0	22	1.49
513620--513706	35	2.5	34	80	12	97	55	10	8	26	1.61
515819--516040	111	2.0	111	91	1	365	45	11	7	35	1.69
516164--516194	10	3.1	10	95	0	53	35	0	32	32	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516402--516471	29	2.4	29	92	0	122	27	12	30	30	1.93
517854--517918	31	2.1	31	94	0	112	40	10	13	35	1.80
518302--518380	40	2.0	40	87	2	113	49	5	8	36	1.56
525230--525278	9	5.4	9	87	0	71	38	30	28	2	1.68
525230--525271	3	14.0	3	89	0	66	38	33	28	0	1.58
525230--525278	18	2.7	18	96	0	89	38	30	28	2	1.68
530191--530440	134	1.9	132	85	5	351	48	3	5	42	1.42
530417--530455	17	2.4	17	86	4	53	51	2	0	46	1.14
530469--530536	2	34.0	2	100	0	136	50	0	0	50	1.00
533270--533321	22	2.4	22	93	0	86	17	13	25	44	1.85
533704--533744	6	7.0	6	97	2	75	68	17	0	14	1.22
533912--533988	33	2.3	33	95	0	136	48	10	19	22	1.79
535017--535062	16	2.9	16	100	0	92	45	19	15	19	1.85
535826--535886	26	2.3	26	94	0	104	31	19	21	27	1.97
543171--543364	63	3.1	63	93	3	327	55	8	5	30	1.53
543215--543314	30	3.2	30	68	22	89	57	5	4	34	1.39
543182--543285	33	3.2	33	66	24	87	54	9	4	30	1.53
545983--546013	15	2.1	15	93	0	53	48	0	3	48	1.17
547476--547513	19	2.0	20	89	5	60	26	5	2	65	1.27
553836--554340	200	2.5	200	81	5	567	32	21	18	27	1.97
556498--556553	27	2.0	28	86	3	78	48	10	14	26	1.76
558171--558218	24	2.0	24	95	0	87	47	16	6	29	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565186--565216	5	6.2	5	100	0	62	0	80	0	19	0.71
566140--566175	13	2.8	13	86	0	54	50	0	0	50	1.00
570193--570241	3	16.7	3	82	4	55	32	6	2	59	1.34
573723--573782	30	2.0	30	86	0	84	15	15	6	63	1.50
575815--575959	21	6.7	21	74	18	111	75	8	15	0	1.04
575844--575939	13	7.7	13	74	18	89	77	8	14	0	0.99
575815--575921	34	3.2	32	82	8	119	76	7	15	0	1.00
575809--575958	47	3.2	46	93	5	248	75	9	15	0	1.04
577123--577187	20	3.2	20	70	20	55	46	23	1	29	1.61
577526--577630	35	3.0	35	80	2	129	31	18	12	38	1.87

Tables:   1   2   3   4   5   6