genome.fa.s8888.2.7.7.80.10.50.1000.3.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: VEPZ01008888.1 Hibiscus syriacus cultivar Beakdansim tig00112153_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1025554

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 488 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)
429696--429872	20	9.5	20	72	17	94	16	18	22	41	1.90
432001--432064	33	1.9	33	83	0	83	14	21	18	45	1.85
432047--432140	20	4.7	20	88	2	136	20	21	24	34	1.97
435469--435555	20	4.3	20	80	2	111	22	20	19	36	1.95
435428--435558	61	2.1	61	79	12	144	25	18	19	36	1.94
436202--436237	2	19.5	2	83	16	51	47	0	0	52	1.00
437486--437518	2	17.0	2	93	6	59	48	0	0	51	1.00
443599--443657	21	2.8	21	92	2	100	15	18	20	45	1.85
444012--444362	173	2.0	173	100	0	702	26	13	15	44	1.84
444502--444554	24	2.3	23	80	9	63	50	7	3	37	1.49
445276--445329	24	2.2	24	96	0	99	31	0	3	64	1.11
446455--446563	42	2.6	43	91	4	168	34	21	22	21	1.96
449750--449871	41	3.0	41	91	4	176	32	19	17	30	1.95
452074--452190	39	3.0	39	78	10	132	34	14	0	50	1.49
452227--452272	13	3.5	13	80	16	51	26	2	2	69	1.11
452227--452289	14	4.8	13	81	13	58	31	1	1	65	1.12
452240--452297	14	4.3	14	80	8	59	36	0	1	62	1.06
454837--454890	22	2.5	21	80	14	56	62	7	5	24	1.42
457457--457500	18	2.4	18	100	0	88	15	0	34	50	1.45
458422--458678	125	2.0	127	83	3	322	38	15	15	30	1.89
461419--461502	42	1.9	45	84	15	115	47	2	4	45	1.36
462459--462600	60	2.4	60	87	0	194	36	14	15	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470311--470370	31	2.0	31	96	3	113	25	10	16	48	1.77
473093--473130	20	2.0	20	94	5	69	34	31	10	23	1.89
479323--479396	32	2.3	32	83	0	85	43	14	17	24	1.87
486680--486959	84	3.3	82	80	9	296	48	5	20	25	1.71
486680--486959	42	6.6	43	80	9	254	48	5	20	25	1.71
486680--486959	85	3.3	81	81	6	292	48	5	20	25	1.71
490508--490538	7	4.4	7	100	0	62	48	12	25	12	1.77
491130--491184	20	2.8	20	91	0	92	29	18	30	21	1.97
492070--492119	23	2.1	25	88	7	77	20	24	26	30	1.98
492737--492787	22	2.2	23	86	6	68	17	19	19	43	1.89
508451--508810	91	3.9	91	92	0	594	36	16	22	23	1.94
511685--511740	28	2.0	28	100	0	112	28	32	10	28	1.90
514454--514513	13	4.8	13	74	15	63	66	3	1	28	1.17
514449--514488	21	1.9	21	84	0	53	72	2	0	25	0.97
514509--514542	17	1.9	18	88	5	52	64	5	0	29	1.17
514576--514618	10	4.3	10	80	11	52	37	0	27	34	1.57
515424--515541	43	2.7	42	73	10	112	17	23	11	46	1.81
520593--520872	36	7.8	36	91	0	425	17	27	23	31	1.97
522488--522535	9	5.2	9	82	2	51	54	0	0	45	0.99
522693--522749	20	2.8	20	82	12	80	52	0	17	29	1.45
522889--523126	28	8.6	28	72	9	141	43	11	12	32	1.78
522993--523143	56	2.7	54	77	8	144	43	9	12	35	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523217--523511	29	10.3	29	67	15	98	37	10	12	38	1.78
523102--523402	140	2.2	139	83	5	358	38	12	11	37	1.80
523870--523925	29	2.0	28	85	3	76	41	14	12	32	1.83
524216--524322	28	3.8	29	80	4	112	42	12	8	37	1.73
524214--524353	56	2.5	55	79	3	145	45	11	9	33	1.72
524214--524353	28	5.1	27	78	10	106	45	11	9	33	1.72
529754--529789	17	2.2	17	90	5	56	52	13	16	16	1.74
529781--529861	18	4.7	17	73	11	67	38	18	20	22	1.94
530344--530373	15	2.0	15	93	0	51	43	13	16	26	1.85
531810--531843	12	2.8	12	90	0	50	47	5	5	41	1.52
554952--555033	34	2.4	34	97	0	155	34	15	21	28	1.95
559611--559949	169	2.0	168	98	1	653	31	16	14	37	1.89
564054--564083	15	2.0	15	93	0	51	43	13	16	26	1.85
570590--570653	29	2.3	28	78	10	69	46	1	0	51	1.10
576283--576403	45	2.7	45	90	0	188	30	19	8	42	1.80
576266--576440	90	1.9	90	81	4	210	30	19	8	41	1.81
576589--576754	83	2.0	83	100	0	332	32	19	19	28	1.96
576947--576986	22	1.9	21	85	10	55	27	32	15	25	1.95
577026--577084	22	2.8	21	82	12	68	25	27	16	30	1.97
576976--577157	97	1.9	96	86	8	264	24	23	19	32	1.97
581517--581543	10	2.7	10	100	0	54	0	11	55	33	1.35
582923--582958	18	1.9	19	88	5	56	41	11	0	47	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582984--583207	30	7.6	29	77	6	166	36	10	2	50	1.50
582984--583099	29	4.0	28	83	8	142	36	11	1	50	1.48
582946--583189	30	8.4	30	75	9	125	38	9	2	50	1.47
583197--583257	25	2.5	25	72	17	65	37	4	0	57	1.20
583212--583287	30	2.5	30	93	0	134	39	6	0	53	1.27
583320--583468	30	5.1	28	70	14	106	48	1	6	43	1.37
583331--583412	31	2.7	30	77	9	85	47	1	3	47	1.27
584078--584106	11	2.7	11	94	5	51	62	0	0	37	0.96
584427--584471	23	1.9	23	86	4	63	40	8	0	51	1.33
587498--587553	20	2.8	20	94	0	94	10	23	23	42	1.85
587639--587735	20	4.8	20	79	2	113	14	20	24	40	1.90
587427--587707	141	2.0	141	95	0	508	25	23	18	32	1.97
587727--587812	22	4.0	22	73	8	97	18	18	23	39	1.92
587666--587798	41	3.2	41	86	6	146	17	19	24	39	1.92
588533--588583	22	2.4	22	93	3	86	39	29	13	17	1.88
588576--588669	20	4.7	20	84	2	134	40	23	22	13	1.90
588645--588699	28	2.0	28	82	7	67	34	16	29	20	1.94
594890--594921	2	16.5	2	93	6	57	50	0	0	50	1.00
594891--594975	24	3.4	26	73	15	72	54	0	0	45	1.00
594933--594972	19	2.1	19	85	0	53	55	0	0	45	0.99
594973--595024	23	2.2	23	83	10	61	30	44	13	11	1.79
594990--595024	12	2.9	12	95	0	61	31	48	11	8	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596708--596838	65	2.0	65	100	0	262	23	18	24	33	1.97
601940--601980	16	2.6	16	100	0	82	36	12	24	26	1.91
608319--608364	21	2.1	23	88	8	69	26	2	15	56	1.50
609249--609642	196	2.0	197	99	0	781	35	18	21	25	1.96
612119--612173	17	3.3	16	85	7	65	61	1	0	36	1.06
612112--612174	17	3.8	16	81	6	54	61	3	0	34	1.12
612200--612236	10	3.7	10	88	0	56	35	0	40	24	1.55
612198--612242	20	2.2	20	92	0	72	33	0	37	28	1.58
619190--619267	30	2.6	31	83	6	106	35	12	21	29	1.91
620905--620951	20	2.3	20	92	0	76	51	0	23	25	1.49
625567--625683	34	3.6	34	85	5	152	30	10	25	33	1.89
625561--625709	34	4.7	30	85	5	136	32	11	24	31	1.91
625633--625774	30	4.7	30	87	0	149	26	16	27	29	1.97
629610--629765	61	2.6	61	87	2	224	50	9	12	28	1.71
631264--631303	17	2.4	17	87	8	55	30	0	15	55	1.41
631351--631396	24	1.9	23	86	8	65	47	0	8	43	1.34
631408--631450	11	3.6	11	82	17	59	41	0	11	46	1.40
631393--631472	25	3.2	25	92	0	124	40	3	12	43	1.60
631389--631462	14	5.8	14	76	19	81	39	1	12	47	1.49
633133--633176	20	2.3	19	85	14	56	36	11	25	27	1.90
636579--636647	28	2.5	28	100	0	138	21	21	14	42	1.89
636797--636851	10	5.3	10	89	4	65	76	7	5	10	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636796--636846	11	4.9	10	88	4	66	78	7	3	9	1.07
640482--640588	42	2.5	43	75	12	114	57	12	0	28	1.41
640524--640573	24	2.0	24	84	3	64	54	14	0	32	1.40
644238--644275	19	2.0	19	100	0	76	36	10	10	42	1.74
644493--644561	2	36.5	2	85	11	101	52	0	1	46	1.09
652131--652301	85	2.0	85	98	0	333	35	12	19	32	1.90
654615--654652	14	2.7	14	84	12	51	65	0	0	34	0.93
677207--677237	15	2.1	15	93	0	53	9	67	16	6	1.39
679834--679863	14	2.2	14	94	5	53	46	23	6	23	1.75
681909--682530	54	11.6	54	85	2	786	36	20	16	26	1.94

Tables:   1   2   3   4   5