genome.fa.s8110.2.7.7.80.10.50.1000.4.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: VEPZ01008110.1 Hibiscus syriacus cultivar Beakdansim tig00110646_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  844371

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 535 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)
563213--563272	12	4.8	12	74	20	52	40	6	1	51	1.38
563079--563373	116	2.6	111	83	8	378	44	7	2	46	1.42
563366--563408	16	2.6	16	81	3	50	48	11	6	32	1.66
564019--564185	85	2.0	85	84	4	221	26	20	20	32	1.97
570147--570171	2	12.5	2	100	0	50	52	0	0	48	1.00
576912--576944	15	2.1	16	88	5	50	9	24	15	51	1.72
577694--577728	16	2.1	17	94	5	63	34	25	8	31	1.86
578456--578534	29	2.7	29	84	0	104	26	17	15	40	1.89
578456--578560	29	3.6	29	75	10	90	23	19	16	40	1.90
582278--582343	32	2.1	32	91	0	105	22	24	33	19	1.97
584138--584276	29	4.8	29	85	6	142	52	11	1	34	1.46
584138--584389	58	4.4	58	73	12	150	51	10	1	35	1.48
584194--584328	29	4.9	29	82	12	149	52	8	1	37	1.42
584255--584301	23	2.0	23	95	0	85	48	6	0	44	1.28
584226--584328	52	2.0	52	88	3	154	51	8	0	38	1.40
585163--585242	20	4.0	21	85	4	96	28	17	20	33	1.95
589070--589131	11	5.6	11	73	21	58	20	4	0	74	1.00
589070--589131	8	7.9	8	81	15	51	20	4	0	74	1.00
589053--589131	36	2.2	36	80	8	90	20	6	0	73	1.05
596869--596928	29	2.1	29	87	0	84	31	18	15	35	1.91
596697--597116	217	1.9	217	84	0	552	33	21	14	30	1.94
596910--597356	188	2.4	188	80	5	467	34	21	15	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
597664--597703	21	1.9	21	89	0	62	32	37	20	10	1.85
603534--603594	23	2.7	23	80	12	72	21	32	18	27	1.96
604007--604037	13	2.4	13	94	0	53	32	0	12	54	1.38
604072--604115	13	3.3	14	78	12	56	34	13	9	43	1.76
606294--606334	22	1.9	21	90	5	64	29	34	21	14	1.93
607591--607651	7	8.7	7	74	18	56	32	1	1	63	1.13
609390--609450	22	2.9	22	75	22	67	32	9	29	27	1.89
609504--609545	19	2.2	19	83	8	50	28	16	30	23	1.96
616781--616895	21	5.4	21	85	12	162	20	18	27	33	1.96
618445--618508	18	3.6	18	97	0	119	28	31	23	17	1.97
623528--623622	44	2.2	44	96	0	172	30	16	28	24	1.97
625979--626015	17	2.1	18	90	5	58	18	2	0	78	0.87
626690--626749	25	2.5	24	76	7	59	43	0	0	56	0.99
628958--629032	32	2.4	32	82	6	91	56	0	16	28	1.41
637317--637363	20	2.3	20	92	0	76	46	19	6	27	1.74
640593--640884	148	2.0	148	85	4	392	26	13	15	44	1.83
641171--641325	78	2.0	77	92	1	256	28	14	22	34	1.94
642186--642246	21	3.2	21	65	29	64	42	21	4	31	1.74
642135--642253	35	3.3	36	90	4	188	43	20	5	31	1.73
642135--642280	35	4.2	34	85	9	163	41	19	5	32	1.75
646309--646341	16	2.1	16	94	0	57	33	27	6	33	1.81
646343--646367	12	2.1	12	100	0	50	40	16	16	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646750--646833	36	2.3	37	87	4	127	42	20	4	32	1.73
646750--646860	36	3.2	34	81	11	118	40	19	5	34	1.75
650307--650382	24	3.0	24	66	23	57	30	2	6	60	1.36
650313--650392	26	3.2	24	67	20	56	32	3	6	57	1.41
656145--656202	28	2.2	27	84	9	75	56	5	3	34	1.38
656245--656400	77	2.0	77	94	0	276	22	5	43	28	1.74
667666--667734	34	2.1	32	83	5	84	30	15	28	24	1.96
672356--672381	2	13.0	2	100	0	52	50	0	0	50	1.00
672452--672563	24	4.8	24	81	7	115	22	21	25	30	1.99
676143--676185	20	2.2	20	91	0	68	34	18	11	34	1.87
677525--677573	24	2.0	24	88	0	71	12	30	30	26	1.92
677530--677580	24	2.1	24	88	0	75	15	25	29	29	1.96
685946--687083	81	14.1	81	88	1	1566	35	10	21	33	1.88
688305--688359	24	2.3	24	96	0	101	20	27	23	29	1.99
692785--692813	14	2.0	15	93	6	51	27	0	6	65	1.18
693370--693449	32	2.5	32	87	2	117	53	12	8	25	1.66
694074--694121	2	24.5	2	95	4	89	50	0	0	50	1.00
710021--710075	21	2.6	22	88	5	71	34	36	10	18	1.86
715050--715088	21	1.9	21	89	5	62	35	0	41	23	1.55
718430--718468	21	1.9	21	89	5	62	35	0	41	23	1.55
724363--724480	59	2.0	59	100	0	236	30	13	27	28	1.94
730166--730225	18	3.3	18	95	0	111	25	20	26	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
732702--732742	21	1.9	22	85	5	57	58	0	4	36	1.20
734394--734433	20	2.0	20	95	0	71	27	25	10	37	1.88
734438--734513	20	3.8	20	75	15	68	31	27	13	27	1.94
734375--734533	60	2.7	59	80	11	155	30	27	11	30	1.92
734497--734612	20	5.8	20	75	4	81	30	24	10	35	1.89
734497--734648	40	3.8	40	81	1	146	30	23	9	35	1.88
734516--734648	20	6.8	20	68	19	82	32	23	9	35	1.86
734782--734819	16	2.5	15	84	12	51	28	5	0	65	1.14
735413--735446	12	2.8	12	90	0	50	55	29	0	14	1.40
735573--735618	24	1.9	24	86	0	65	21	19	21	36	1.95
735572--735625	24	2.2	24	80	0	63	20	16	20	42	1.89
738216--738273	20	2.9	20	89	0	80	17	13	22	46	1.83
739745--739834	42	2.1	42	87	0	126	22	17	36	23	1.95
739762--739860	21	4.8	20	76	10	92	25	19	34	21	1.96
739762--739860	42	2.4	42	85	0	126	25	19	34	21	1.96
740141--740182	21	2.0	21	86	9	59	33	26	16	23	1.96
740268--740314	21	2.2	21	92	0	76	34	31	14	19	1.92
740215--740314	42	2.4	41	73	8	103	31	35	14	20	1.92
741190--741244	21	2.6	22	88	5	71	34	36	10	18	1.86
746225--746263	21	1.9	21	89	5	62	35	0	41	23	1.55
749812--749850	21	1.9	21	89	5	62	35	0	41	23	1.55
755745--755862	59	2.0	59	100	0	236	30	13	27	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
760940--760999	18	3.3	18	95	0	111	25	20	26	28	1.99
763466--763506	21	1.9	22	85	5	57	58	0	4	36	1.20
765150--765189	20	2.0	20	95	0	71	27	25	10	37	1.88
765194--765269	20	3.8	20	75	15	68	31	27	13	27	1.94
765131--765289	60	2.7	59	80	11	155	30	27	11	30	1.92
765253--765368	20	5.8	20	75	4	81	30	24	10	35	1.89
765253--765404	40	3.8	40	81	1	146	30	23	9	35	1.88
765272--765404	20	6.8	20	68	19	82	32	23	9	35	1.86
765538--765575	16	2.5	15	84	12	51	28	5	0	65	1.14
766170--766204	12	2.9	12	91	0	52	54	31	0	14	1.40
766329--766374	24	1.9	24	86	0	65	21	19	21	36	1.95
766328--766381	24	2.2	24	80	0	63	20	16	20	42	1.89
768950--769007	20	2.9	20	89	0	80	17	13	22	46	1.83
770294--770383	42	2.1	42	87	0	126	22	17	36	23	1.95
770311--770409	21	4.8	20	76	10	92	25	19	34	21	1.96
770311--770409	42	2.4	42	85	0	126	25	19	34	21	1.96
770682--770723	21	2.0	21	86	9	59	33	26	16	23	1.96
770806--770852	21	2.2	21	92	0	76	34	31	14	19	1.92
771442--771485	20	2.2	20	87	0	61	18	22	20	38	1.93
771510--771549	20	2.0	20	90	0	62	27	17	17	37	1.92
773027--773123	21	4.7	21	81	8	119	24	17	36	21	1.95
773008--773097	21	4.4	20	81	6	101	21	18	37	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
773008--773097	40	2.2	41	90	2	137	21	18	37	22	1.94
773031--773123	40	2.3	40	88	3	132	25	15	37	21	1.92
773518--773558	21	2.0	21	90	0	64	34	36	14	14	1.87
773796--773925	64	2.0	63	97	1	242	28	23	17	30	1.97
775134--775192	20	3.0	20	84	0	82	18	10	16	54	1.70
775537--775586	22	2.3	22	79	3	57	20	20	40	20	1.92
775711--775756	18	2.5	19	92	3	76	23	13	19	43	1.86
789523--789605	29	2.8	29	85	3	103	42	7	0	50	1.30
789583--789625	21	2.1	21	86	4	61	46	4	0	48	1.22
789668--789815	32	4.9	31	80	16	159	59	2	1	36	1.20

Tables:   1   2   3   4   5