genome.fa.s7994.2.7.7.80.10.50.1000.3.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: VEPZ01007994.1 Hibiscus syriacus cultivar Beakdansim tig00110444_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  788627

Tables:   1   2   3   4   

This is table  3  of  4  ( 367 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)
515487--515532	15	2.9	16	83	6	58	10	13	19	56	1.66
518326--518363	13	2.9	13	92	0	58	15	47	15	21	1.82
529601--529631	15	2.0	16	93	6	55	45	6	12	35	1.68
532373--532732	44	8.3	43	88	4	517	16	24	24	34	1.96
537794--537840	16	2.9	16	90	0	76	10	12	19	57	1.64
537912--537944	16	2.1	16	94	0	57	9	12	24	54	1.66
540654--540690	13	2.9	13	92	4	58	16	48	16	18	1.81
543190--543281	48	1.9	48	84	0	121	21	11	16	50	1.77
554715--555088	44	8.5	44	87	1	529	17	26	22	33	1.96
554715--555088	133	2.8	132	90	4	560	17	26	22	33	1.96
558274--558325	18	2.9	18	94	0	86	19	50	19	11	1.77
559631--559665	18	1.9	18	88	0	52	54	0	17	28	1.43
560810--560892	24	3.5	24	90	3	123	24	15	21	38	1.92
561377--561977	303	2.0	303	88	1	902	27	15	21	35	1.94
564783--564834	17	2.8	18	82	11	61	23	26	32	17	1.96
564783--564834	27	2.0	25	81	7	59	23	26	32	17	1.96
570158--570363	109	1.9	109	90	2	333	35	17	16	29	1.93
578869--579074	109	1.9	109	90	0	331	34	17	16	31	1.92
594389--594545	37	4.3	37	87	0	208	24	17	16	41	1.90
595558--595592	16	2.2	16	100	0	70	28	22	11	37	1.89
610710--610739	15	2.0	15	100	0	60	20	20	20	40	1.92
612673--612750	40	1.9	41	92	2	131	41	15	2	41	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
618736--618812	37	2.1	35	88	4	109	20	22	20	36	1.95
622037--622161	62	2.0	62	92	0	205	32	11	17	38	1.85
623217--623264	19	2.5	19	76	10	53	29	6	0	64	1.18
623648--623679	2	16.0	2	100	0	64	0	50	0	50	1.00
623679--623731	2	26.5	2	100	0	106	49	0	0	50	1.00
626617--627167	177	3.1	177	90	1	845	32	21	16	29	1.95
627155--627256	42	2.5	42	90	1	152	32	21	22	23	1.98
628195--628303	54	2.0	54	87	3	157	23	22	12	40	1.89
630246--630325	5	16.0	5	79	10	83	2	20	0	77	0.88
630276--630323	21	2.3	21	92	0	78	0	16	0	83	0.65
630885--630914	7	4.1	7	91	8	51	0	13	0	86	0.57
630888--630923	8	4.5	8	89	10	56	0	13	0	86	0.58
630884--630923	15	2.6	16	92	8	73	0	17	0	82	0.67
633458--633514	27	2.1	28	90	3	89	52	12	17	17	1.74
636899--636925	3	9.0	3	100	0	54	66	0	0	33	0.92
640903--640927	2	12.5	2	100	0	50	48	0	0	52	1.00
641853--642051	110	1.8	110	86	4	294	39	10	15	34	1.82
642404--642922	287	1.8	288	92	2	882	35	16	15	32	1.90
647053--647362	29	10.7	29	89	5	387	34	2	17	46	1.61
647053--647369	88	3.7	85	86	5	390	35	2	17	45	1.61
647300--647352	17	3.4	16	70	24	51	33	0	20	45	1.52
654722--654943	29	7.7	29	89	2	259	33	2	17	46	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
657738--657864	29	4.4	28	76	9	105	48	8	8	34	1.65
662178--662347	75	2.3	72	84	5	200	31	1	11	55	1.44
663153--663193	17	2.3	19	79	8	50	26	4	0	68	1.10
673103--673141	10	3.8	10	83	6	51	10	7	5	76	1.13
673103--673143	21	2.0	21	95	0	73	9	7	4	78	1.10
673149--673190	5	8.6	5	89	5	68	21	2	0	76	0.90
673149--673190	14	2.9	15	89	7	68	21	2	0	76	0.90
673149--673186	19	2.0	19	94	0	67	21	2	0	76	0.91
673209--673238	15	2.0	15	93	0	51	63	13	16	6	1.50
673222--673360	29	4.5	31	68	21	101	46	14	19	20	1.84
675791--676012	59	3.8	58	80	7	209	38	10	22	28	1.87
678086--678192	24	4.3	24	67	17	65	30	0	12	57	1.36
678871--678919	15	3.2	16	78	21	61	22	6	0	71	1.08
686648--686973	165	2.0	161	96	3	600	34	21	22	22	1.97
694522--694576	22	2.4	25	82	11	64	54	5	0	40	1.23
694579--694625	16	2.7	18	81	12	55	48	0	0	51	1.00
695954--696013	30	2.0	29	87	3	84	60	3	1	35	1.23
696044--696079	13	2.7	14	87	12	58	75	5	0	19	1.00
696031--696068	20	2.0	19	90	10	60	73	5	0	21	1.02
698780--698806	13	2.1	13	100	0	54	7	0	37	55	1.28
699285--699375	20	4.6	20	73	9	71	35	16	13	35	1.87
699284--699376	40	2.3	41	74	7	102	35	16	13	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
699357--699415	21	2.8	21	89	0	82	44	13	11	30	1.80
699377--699444	21	3.3	20	83	4	73	38	13	14	33	1.85
699651--699680	15	1.9	16	93	6	53	20	6	0	73	1.05
700230--700283	21	2.6	21	85	2	65	33	12	16	37	1.87
700230--700330	41	2.5	41	80	6	107	29	10	17	41	1.84
700250--700330	21	4.0	20	82	4	90	28	8	18	44	1.79
700266--700368	20	5.2	20	77	9	95	27	9	22	40	1.85
700317--700366	19	2.5	20	81	9	59	26	14	30	30	1.94
702535--702567	17	2.0	17	88	5	50	27	21	0	51	1.48
703435--703470	17	2.1	17	100	0	72	47	25	0	27	1.52
711261--711294	16	2.1	16	88	0	50	38	8	8	44	1.67
712752--714324	784	2.0	784	100	0	3146	38	13	11	36	1.82
715882--715908	14	1.9	14	100	0	54	44	14	3	37	1.63
715905--715964	25	2.4	25	86	2	77	53	18	10	18	1.71
715856--715934	38	2.1	38	82	0	95	51	16	7	24	1.70
715905--715983	24	3.2	25	83	3	90	50	17	11	20	1.76
716865--716894	15	2.0	15	100	0	60	26	26	20	26	1.99
717979--718010	14	2.2	15	94	5	57	31	28	25	15	1.96
718008--718085	18	4.4	18	80	1	86	11	16	46	25	1.81
720135--720161	2	13.5	2	100	0	54	48	0	0	51	1.00
720491--720520	2	15.0	2	100	0	60	50	0	0	50	1.00
724449--724496	3	16.0	3	91	0	78	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
724449--724496	15	3.2	15	96	0	87	37	0	0	62	0.95
729970--730001	15	2.1	15	94	0	55	28	18	6	46	1.73
737322--737370	6	8.3	6	78	13	57	79	0	20	0	0.73
738518--738814	83	3.6	83	97	0	558	26	13	21	38	1.90
739649--740646	113	8.8	113	96	0	1784	36	15	18	30	1.91
739811--739855	24	1.9	23	82	13	56	51	6	24	17	1.70
739924--739968	24	1.9	23	82	13	56	51	6	24	17	1.70
740150--740194	24	1.9	23	82	13	56	51	6	24	17	1.70
740263--740307	24	1.9	23	82	13	56	51	6	24	17	1.70
740489--740533	24	1.9	23	82	13	56	48	6	26	17	1.72
739687--740869	113	10.3	113	91	3	467	37	15	18	29	1.91
741012--741050	3	13.0	3	94	0	69	35	0	0	64	0.94
744714--744776	2	32.5	2	73	23	55	53	3	1	41	1.26
747547--747620	29	2.6	29	95	0	139	22	16	33	27	1.95
747669--747723	17	3.4	17	66	19	53	38	7	10	43	1.68
747651--747737	32	2.7	32	94	0	156	32	8	12	47	1.71
749052--749094	21	2.0	21	86	0	59	53	16	18	11	1.72
749190--749222	17	1.9	17	93	0	57	66	3	6	24	1.28
752981--753050	21	3.3	20	76	4	68	24	40	15	20	1.91
752997--753077	21	3.9	21	73	0	72	22	35	19	22	1.96
752974--753062	42	2.1	42	91	0	142	22	41	14	21	1.89
754468--754503	14	2.6	14	90	0	54	30	0	22	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
754630--754690	14	4.0	14	76	19	59	45	21	22	9	1.81
754643--754709	19	3.8	18	77	18	70	47	22	19	10	1.79
754630--754702	33	2.2	33	87	4	103	46	23	20	9	1.80
754715--754767	20	2.7	19	91	2	88	16	20	15	47	1.83
754772--754880	20	5.4	20	83	8	134	17	22	25	34	1.95
754772--754880	40	2.7	40	92	0	182	17	22	25	34	1.95
756699--756769	29	2.4	30	86	6	92	42	9	0	47	1.36
757117--757141	12	2.1	12	100	0	50	0	40	0	60	0.97
757721--757779	29	2.1	28	81	9	66	47	5	13	33	1.65
757958--758005	21	2.3	21	83	16	64	41	0	4	54	1.20

Tables:   1   2   3   4