genome.fa.s3170.2.7.7.80.10.50.1000.3.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: VEPZ01003170.1 Hibiscus syriacus cultivar Beakdansim tig00006666_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  749787

Tables:   1   2   3   

This is table  3  of  3  ( 344 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)
529509--529547	21	2.0	20	85	10	53	46	12	7	33	1.71
529808--529855	23	2.1	23	84	0	60	37	14	8	39	1.76
531906--531951	24	2.0	24	84	16	62	43	0	10	45	1.39
534815--534889	35	2.1	35	82	4	89	46	4	21	28	1.69
536485--536514	2	15.0	2	100	0	60	50	0	0	50	1.00
543975--544014	21	1.9	21	90	10	64	32	7	5	55	1.50
552230--552273	19	2.3	18	84	7	52	31	34	2	31	1.70
555524--555550	8	3.4	8	100	0	54	74	0	14	11	1.08
555581--555614	4	8.2	4	93	6	59	73	0	2	23	0.97
555619--555651	2	16.5	2	100	0	66	51	0	0	48	1.00
555923--555954	2	16.0	2	100	0	64	50	0	0	50	1.00
556480--556584	37	2.8	37	88	0	156	30	14	15	40	1.87
557295--558770	106	14.0	106	89	2	2106	23	17	24	34	1.96
557295--558770	422	3.5	422	89	2	2145	23	17	24	34	1.96
559597--559671	22	3.4	22	90	0	123	22	13	26	37	1.91
563284--563438	4	37.8	4	78	16	63	67	1	1	29	1.06
563320--563352	2	16.5	2	100	0	66	51	0	0	48	1.00
563310--563389	6	12.8	6	81	15	51	60	0	1	38	1.05
563352--563389	14	2.8	14	84	4	51	68	0	2	28	1.03
563350--563403	17	3.2	17	82	10	67	66	1	1	29	1.12
563346--563412	24	2.9	22	79	14	73	68	1	1	28	1.07
564157--564258	37	2.8	37	89	0	141	30	16	13	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566605--566664	21	2.9	21	79	0	66	40	31	13	15	1.85
573937--574258	161	2.0	161	100	0	644	27	17	31	23	1.97
580951--581046	29	3.3	29	97	0	174	33	16	15	34	1.91
589439--589499	31	2.0	31	90	6	97	55	9	8	26	1.60
590794--590861	19	3.8	17	78	16	66	75	4	2	17	1.10
590896--590944	19	2.6	18	78	12	53	75	0	8	16	1.03
590818--590942	36	3.6	34	72	13	87	72	2	8	16	1.19
591045--591100	16	3.2	17	77	10	60	73	0	3	23	0.99
591080--591162	37	2.3	36	87	6	114	65	1	4	28	1.21
591192--591240	2	25.0	2	82	12	57	51	2	4	42	1.32
591240--591303	20	3.1	20	75	18	60	71	0	4	23	1.04
592635--592889	109	2.4	107	84	6	340	23	18	23	34	1.97
593593--593788	65	2.9	66	81	7	218	39	9	19	31	1.84
593737--594049	36	9.0	36	73	14	255	39	12	19	28	1.88
593771--594043	101	2.7	102	86	2	343	39	12	19	28	1.88
593978--594049	37	1.9	37	88	0	108	38	13	20	26	1.90
595703--595754	13	3.8	14	80	17	56	7	17	0	75	1.03
598821--598875	19	2.8	19	73	15	58	74	0	10	14	1.07
600177--600304	44	2.9	44	82	1	148	35	11	20	32	1.89
602846--602903	3	20.0	3	78	7	66	65	0	1	32	1.03
602845--602896	26	2.0	26	85	7	70	61	0	1	36	1.07
602864--602903	17	2.3	18	95	4	73	70	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
602848--602903	29	2.0	28	85	0	67	66	0	1	32	1.03
603247--604040	112	7.0	113	86	4	1001	27	19	16	37	1.92
603247--604041	338	2.3	338	87	4	1094	27	19	16	37	1.92
604221--604349	22	5.9	22	93	0	213	36	13	16	33	1.88
604702--604739	20	1.9	20	100	0	76	31	26	10	31	1.90
607780--607813	14	2.5	14	90	4	52	5	0	14	79	0.91
611038--611072	13	2.5	15	90	9	56	57	11	17	14	1.66
611146--611230	43	2.0	43	86	4	118	36	22	9	31	1.86
612565--612622	28	2.1	28	84	9	75	62	0	5	32	1.18
626906--626946	21	2.0	20	86	9	57	31	24	19	24	1.98
649497--649594	48	2.0	48	80	3	108	47	3	43	5	1.40
653492--653616	44	2.8	44	97	2	234	42	20	16	20	1.89
656455--656495	10	3.9	11	81	12	50	51	4	0	43	1.23
657840--657886	15	3.1	15	87	0	67	10	19	61	8	1.53
660205--660300	3	33.0	3	86	6	135	38	0	0	61	0.96
661629--661662	18	1.9	18	88	5	52	35	0	0	64	0.94
661693--661755	16	3.9	16	72	14	58	33	0	0	66	0.92
661642--661716	11	6.0	12	79	11	55	33	4	1	61	1.23
661778--661810	15	2.1	16	88	5	50	42	3	0	54	1.15
661940--662024	43	2.0	43	95	4	154	42	0	3	54	1.17
671881--671943	20	3.3	19	82	10	58	79	0	15	4	0.90
672287--672324	18	2.1	18	90	0	58	31	5	5	57	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672947--673020	22	3.4	22	90	3	105	36	16	10	36	1.83
672969--673031	22	2.9	22	90	0	72	36	14	12	36	1.84
672947--673031	44	1.9	44	80	4	100	38	14	11	35	1.82
673675--673970	123	2.4	122	85	2	398	40	14	18	26	1.89
674031--674063	17	1.9	17	93	0	57	51	6	18	24	1.68
674275--674370	3	33.0	3	81	14	103	36	0	0	63	0.95
676167--676206	17	2.3	18	91	4	64	47	0	2	50	1.14
676464--676852	194	2.0	193	92	6	655	35	22	11	30	1.90
679091--679137	16	3.1	15	84	9	51	38	0	2	59	1.09
685752--685781	2	15.0	2	100	0	60	50	0	0	50	1.00
685965--686007	20	2.3	19	88	11	70	23	30	9	37	1.86
685970--686007	20	1.9	20	100	0	76	23	28	10	36	1.88
699986--700024	18	2.2	18	95	4	71	64	2	0	33	1.08
700083--700128	10	4.6	10	91	0	74	47	0	32	19	1.50
700083--700132	20	2.5	20	96	0	91	44	0	32	24	1.54
705008--705047	18	2.2	19	90	4	64	45	0	2	52	1.14
705514--705558	2	22.5	2	90	0	72	51	4	0	44	1.21
716126--716316	62	3.1	62	92	2	303	38	12	16	32	1.86
717746--718362	276	2.4	251	85	11	808	40	19	12	27	1.88
721593--721649	30	1.9	30	88	0	87	19	22	15	42	1.89
721664--721747	30	2.8	29	81	3	87	26	23	17	32	1.97
731572--731747	31	5.6	32	74	13	143	32	19	17	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
731613--731730	32	3.7	31	81	7	148	33	18	16	32	1.93
731596--731750	63	2.5	63	97	0	292	32	19	16	32	1.94
732757--732913	64	2.5	64	76	12	153	26	19	20	33	1.96
736405--736520	32	3.7	31	81	7	153	32	18	16	31	1.94
736388--736542	63	2.5	63	97	0	292	32	19	16	32	1.94
736353--736539	31	5.9	32	77	9	179	32	19	17	31	1.94
740779--740818	16	2.5	16	100	0	80	20	20	25	35	1.96
743820--743999	60	3.1	59	77	8	163	33	24	3	38	1.74
743855--743943	29	3.1	28	67	13	74	37	22	3	37	1.71
744126--744264	59	2.3	58	81	8	156	37	5	21	35	1.76
747154--747186	17	1.9	17	100	0	66	36	12	12	39	1.80
747374--747425	20	2.5	21	87	6	79	28	26	23	21	1.99
747619--747673	13	4.2	13	75	13	58	49	12	3	34	1.59
747659--747757	33	3.0	33	94	1	164	45	15	7	32	1.73
747752--747791	21	1.9	21	94	0	71	47	7	15	30	1.72
747754--747799	21	2.2	21	84	7	58	54	4	10	30	1.55

Tables:   1   2   3

The End!