genome.fa.s935.2.7.7.80.10.50.1000.3.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: VEPZ01000935.1 Hibiscus syriacus cultivar Beakdansim tig00001869_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  730910

Tables:   1   2   3   4   

This is table  3  of  4  ( 368 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)
509865--509905	16	2.6	16	92	3	66	31	21	9	36	1.86
510301--510393	45	2.1	45	93	0	159	49	12	12	24	1.76
519737--519764	2	14.0	2	100	0	56	50	0	0	50	1.00
522101--522176	25	3.2	25	61	21	63	34	17	17	31	1.93
523733--523762	8	3.6	8	95	4	51	70	0	0	30	0.88
524051--524109	16	3.6	16	76	15	50	76	0	5	18	0.97
524051--524113	22	3.4	18	75	23	51	76	0	4	19	0.96
526015--526423	36	11.3	35	68	11	137	39	9	17	33	1.82
526015--526283	38	7.3	38	71	7	187	38	10	18	32	1.84
526019--526283	74	3.6	74	78	2	226	38	10	18	32	1.84
526192--526325	37	3.8	36	68	14	107	38	8	17	35	1.80
527702--527741	21	2.0	20	85	5	53	42	12	5	40	1.64
528180--528284	39	2.7	40	79	2	106	23	20	21	34	1.97
529634--529679	20	2.3	20	92	3	76	36	28	0	34	1.58
530510--530540	14	2.2	14	94	0	53	29	19	3	48	1.64
534014--534053	21	2.0	20	85	5	53	42	12	5	40	1.64
542183--542244	32	2.0	32	84	9	83	37	4	25	32	1.77
544015--544064	23	2.1	23	85	14	66	76	6	0	18	0.99
545794--546208	105	4.0	106	79	7	467	19	20	26	33	1.97
545842--546207	203	1.8	203	94	1	653	19	21	25	33	1.97
546150--546340	105	1.8	103	92	4	321	21	19	25	32	1.97
559950--560002	20	2.7	19	85	5	70	37	16	24	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560025--560098	19	3.7	19	81	12	85	29	16	28	25	1.97
560517--560792	59	4.7	59	86	5	377	32	11	17	38	1.86
566734--566806	20	3.7	20	90	3	103	38	15	28	17	1.90
567325--567727	59	6.8	59	93	1	675	31	10	19	38	1.85
570022--570122	7	13.1	8	76	15	56	19	2	0	76	0.98
570034--570131	6	14.7	6	74	19	79	17	4	1	77	0.98
570040--570145	56	1.9	55	96	3	194	16	4	1	76	1.05
570309--570380	2	37.0	2	88	5	112	50	0	0	50	1.00
571182--571226	21	2.1	21	87	0	63	42	2	0	55	1.12
571201--571260	5	11.2	5	78	18	50	38	6	0	55	1.27
571217--571259	17	2.5	17	80	3	50	39	9	0	51	1.34
571175--571254	36	2.2	38	84	10	105	40	5	0	55	1.22
589706--589738	13	2.4	14	90	5	50	63	0	36	0	0.95
589706--589738	7	4.9	7	88	7	50	63	0	36	0	0.95
591799--591850	19	2.7	20	79	11	63	15	15	1	67	1.32
592228--592256	2	14.5	2	100	0	58	51	0	0	48	1.00
593461--593500	19	2.0	20	95	4	73	42	20	5	32	1.73
594790--594838	20	2.5	20	93	0	80	40	16	24	18	1.90
596818--596904	29	3.0	29	83	12	92	51	6	8	33	1.58
596827--596904	29	2.7	29	90	7	115	50	6	7	35	1.57
596893--597147	29	8.9	28	77	7	199	49	9	5	35	1.58
596893--597155	58	4.6	57	77	11	232	50	9	5	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596893--597148	86	3.0	86	79	8	256	50	9	5	35	1.58
596997--597152	57	2.7	57	83	3	152	49	11	5	33	1.63
596893--597147	87	3.0	86	79	5	232	49	9	5	35	1.58
597761--597843	32	2.6	32	90	0	121	24	28	28	18	1.98
597922--597998	31	2.4	32	74	8	86	28	28	25	16	1.97
609379--609439	23	2.7	22	85	5	77	22	31	26	19	1.98
609390--609440	23	2.2	23	89	0	84	19	37	23	19	1.94
610999--611046	18	2.6	19	87	6	64	47	20	29	2	1.61
611004--611059	18	3.1	18	85	10	62	46	23	30	0	1.53
611715--611746	16	2.0	16	100	0	64	31	12	6	50	1.65
618161--618219	21	2.8	21	78	14	68	42	0	1	55	1.09
619521--619568	23	2.0	25	84	8	64	60	8	2	29	1.37
621241--621276	3	12.0	3	100	0	72	33	0	0	66	0.92
622378--622746	4	92.2	4	98	0	612	25	3	24	46	1.69
623721--623774	24	2.2	25	93	6	94	42	14	24	18	1.88
624757--624992	34	6.6	36	69	14	148	31	21	11	36	1.89
624744--624992	70	3.5	72	79	8	267	33	20	11	34	1.88
624756--625026	144	1.9	144	81	7	327	30	20	11	37	1.87
634887--634911	2	12.5	2	100	0	50	52	0	0	48	1.00
634967--635015	20	2.4	19	83	12	62	6	14	0	79	0.91
634967--635016	26	2.0	26	88	4	75	6	14	0	80	0.90
634959--635029	25	2.7	26	79	12	83	8	9	4	77	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
644283--644358	22	3.8	20	80	10	75	27	14	32	25	1.94
644301--644356	22	2.7	20	84	10	76	30	16	28	25	1.96
644227--644411	95	1.9	96	85	1	255	34	15	23	25	1.95
644228--644436	95	2.2	95	82	0	238	34	15	24	24	1.95
644790--644938	63	2.5	60	88	4	219	34	10	16	38	1.84
645291--645476	68	2.7	68	88	0	282	31	15	23	30	1.95
645497--646032	79	6.8	79	93	0	901	37	9	23	29	1.87
646001--646090	45	2.0	45	82	0	108	51	6	17	24	1.70
646063--646111	19	2.6	19	93	0	80	59	0	8	32	1.27
657733--657816	27	3.2	26	63	13	64	30	17	10	40	1.84
657760--657846	25	3.4	26	66	13	72	25	16	17	41	1.89
657722--657841	52	2.3	52	97	0	222	27	16	13	42	1.86
669487--669767	58	4.8	58	85	0	382	36	17	11	34	1.85
669482--669769	116	2.5	116	87	0	423	36	17	11	35	1.85
670091--670162	19	3.6	19	76	12	72	29	26	15	29	1.96
676257--676469	58	3.7	57	87	5	286	35	19	9	36	1.84
676797--676868	19	3.6	19	72	18	56	31	26	11	30	1.91
676891--676942	20	2.6	21	87	6	72	19	28	17	34	1.94
678200--678244	4	12.0	4	90	9	69	26	0	0	73	0.84
678201--678242	14	2.9	14	96	3	75	26	0	0	73	0.83
678200--678259	18	3.2	18	84	15	77	26	0	1	71	0.95
678202--678267	33	2.1	33	81	10	77	28	1	1	68	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
678939--678993	23	2.3	25	79	17	64	41	1	41	14	1.56
683664--683702	13	3.1	13	92	3	62	33	17	7	41	1.79
683963--684020	21	2.8	21	84	10	75	75	1	6	15	1.09
684740--684912	34	4.9	33	73	18	145	54	4	15	26	1.58
684756--684916	75	2.1	75	90	2	252	52	3	16	27	1.60
685005--685053	19	2.6	18	84	15	64	71	2	2	24	1.07
685767--685867	50	2.0	50	90	0	157	54	17	17	9	1.69
686266--686460	61	3.2	59	69	16	164	27	10	26	35	1.89
686195--686610	122	3.4	123	84	2	516	28	12	23	35	1.91
686179--686619	244	1.8	244	82	2	571	28	12	23	36	1.91
686661--687599	139	6.8	138	81	3	838	25	17	26	30	1.97
686661--687599	277	3.4	277	80	3	899	25	17	26	30	1.97
686661--687630	416	2.3	416	81	3	1058	25	16	26	31	1.97
687802--687832	15	2.1	15	100	0	62	48	0	19	32	1.49
687855--688040	95	1.9	96	79	5	207	38	13	15	32	1.86
691025--691086	20	3.1	18	82	13	61	3	12	6	77	1.08
691974--692019	18	2.3	21	75	14	53	63	6	8	21	1.46
696035--696073	2	19.5	2	100	0	78	48	0	0	51	1.00
698479--698724	130	1.9	130	85	3	343	32	19	17	30	1.95
698529--699240	131	5.5	131	77	6	505	33	18	17	29	1.94
699440--699492	3	17.7	3	100	0	106	32	0	0	67	0.91
700593--700632	2	20.0	2	100	0	80	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
706351--706436	30	2.9	28	74	17	75	48	11	11	27	1.74
706466--706530	28	2.3	29	86	7	89	56	7	6	29	1.51
707062--707098	2	18.5	2	100	0	74	48	0	0	51	1.00
707257--707307	2	25.5	2	100	0	102	50	0	0	49	1.00
712256--712282	2	13.5	2	100	0	54	51	48	0	0	1.00
712282--712310	2	14.5	2	100	0	58	51	0	0	48	1.00
714587--714651	3	21.3	3	90	3	76	41	0	0	58	0.98
715117--715165	15	3.4	15	80	8	57	77	2	20	0	0.87
717297--717321	9	2.8	9	100	0	50	48	0	0	52	1.00
727440--727481	13	3.4	12	81	12	50	83	0	16	0	0.65

Tables:   1   2   3   4