genome.fa.s7708.2.7.7.80.10.50.1000.2.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: VEPZ01007708.1 Hibiscus syriacus cultivar Beakdansim tig00109923_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  882274

Tables:   1   2   3   

This is table  2  of  3  ( 284 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)
435137--435197	30	2.0	30	96	0	113	22	21	3	52	1.61
443785--443858	38	2.0	37	84	12	98	51	5	2	40	1.39
452922--452955	3	11.3	3	100	0	68	32	0	0	67	0.91
458571--458627	21	2.8	21	76	10	55	64	3	15	15	1.42
465206--465232	14	1.9	14	100	0	54	88	11	0	0	0.50
466009--466690	105	6.5	105	96	0	1238	33	25	18	22	1.97
468448--468489	18	2.4	17	77	14	50	14	11	0	73	1.09
470796--470832	17	2.2	17	90	0	56	32	0	13	54	1.40
472285--472388	29	3.6	28	80	8	102	50	3	2	42	1.35
474427--474453	3	9.0	3	100	0	54	66	0	0	33	0.92
490440--490536	32	3.0	31	77	8	97	44	6	5	44	1.51
491844--491877	18	2.0	17	88	11	52	38	0	29	32	1.58
518516--518556	20	2.0	21	86	13	59	29	2	4	63	1.28
521563--521594	16	2.0	16	100	0	64	25	37	0	37	1.56
524578--524605	14	2.0	14	100	0	56	42	0	7	50	1.30
528771--528827	2	29.0	2	87	3	80	47	0	52	0	1.00
533404--533454	25	2.0	25	96	0	93	27	13	15	43	1.85
538725--539524	400	2.0	400	100	0	1600	38	13	11	36	1.81
541305--541376	25	3.2	25	65	29	70	45	2	2	48	1.31
541305--541370	20	3.1	21	65	16	55	45	3	3	48	1.33
541316--541386	20	3.4	21	67	16	58	49	1	2	46	1.25
541305--541435	42	3.6	37	79	16	100	46	2	1	49	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541391--541464	14	5.3	14	68	10	53	47	1	1	50	1.18
548589--548620	2	16.0	2	100	0	64	50	0	0	50	1.00
549835--549869	18	1.9	18	88	0	52	54	0	5	40	1.24
556293--556331	2	19.5	2	100	0	78	48	0	0	51	1.00
557049--557084	18	2.0	18	88	0	54	66	2	8	22	1.31
559132--559172	20	2.0	20	86	9	57	34	26	12	26	1.92
563282--563384	51	2.0	51	94	0	179	41	16	13	28	1.86
567334--567412	2	39.5	2	89	5	106	48	1	1	49	1.17
567575--567645	24	3.0	24	75	17	76	52	16	11	19	1.74
567582--567684	24	4.3	24	67	14	61	50	16	12	20	1.77
570108--570146	18	2.2	18	95	0	69	12	20	48	17	1.80
571402--571446	22	2.0	22	86	4	63	31	33	26	8	1.87
572835--573023	100	1.9	100	84	0	252	22	17	22	37	1.94
574424--574466	2	21.5	2	100	0	86	48	0	0	51	1.00
575434--575511	22	3.4	23	68	21	65	21	25	17	34	1.96
575427--575514	44	2.0	44	95	0	158	21	23	17	37	1.94
592602--592677	36	2.1	36	83	11	93	48	1	3	46	1.29
592822--592859	20	1.9	20	88	0	58	21	26	10	42	1.85
603719--603780	30	2.1	30	93	0	106	17	22	11	48	1.79
606930--607120	49	3.9	49	87	2	294	27	13	12	47	1.78
607140--607176	16	2.1	19	85	14	53	45	0	5	48	1.25
614468--614496	5	5.8	5	100	0	58	20	37	0	41	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623144--623187	2	22.0	2	100	0	88	50	0	0	50	1.00
628257--628457	99	2.0	99	93	0	339	35	11	29	23	1.91
630199--630231	17	1.9	17	93	0	57	36	21	3	39	1.69
630456--630487	6	5.3	6	100	0	64	50	15	0	34	1.45
633020--633371	37	9.7	38	75	12	271	45	4	6	43	1.50
632999--633369	75	5.1	73	79	10	354	44	4	6	43	1.52
633254--633361	39	2.9	37	81	10	132	50	4	5	39	1.47
633335--633389	29	1.9	28	88	3	83	49	5	3	41	1.43
636674--636719	19	2.4	19	100	0	92	10	10	10	67	1.43
639803--640670	165	5.3	164	90	0	1349	30	24	20	24	1.99
639803--640746	329	2.9	327	89	2	1390	30	23	20	24	1.98
641341--641675	37	9.3	38	76	12	255	44	4	6	43	1.51
641321--641689	103	3.5	106	77	12	307	44	4	6	44	1.52
641639--641693	29	1.9	28	88	3	83	49	5	3	41	1.43
641321--641724	215	1.9	211	81	6	492	44	4	6	44	1.51
649854--649893	21	1.9	21	84	0	53	37	5	17	40	1.72
651406--651458	25	2.1	25	96	0	97	49	0	7	43	1.31
660475--660577	53	1.9	55	86	4	147	36	13	11	37	1.81
661782--661823	3	14.0	3	100	0	84	66	0	0	33	0.92
661922--661976	27	2.0	27	86	6	76	43	9	10	36	1.72
674274--674321	24	2.1	23	85	11	64	37	10	0	52	1.36
685796--685839	23	1.9	23	90	0	70	59	0	2	38	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
688689--688722	18	1.9	18	88	5	52	44	0	5	50	1.26
693705--693748	3	15.0	3	95	4	81	65	0	0	34	0.93
693855--693902	13	3.6	13	74	2	51	16	4	2	77	1.03
694229--694264	14	2.6	15	83	16	51	16	2	5	75	1.12
694182--695056	435	2.0	433	95	1	1583	36	7	8	46	1.63
696186--696307	63	1.9	63	90	3	192	18	18	24	38	1.93
702425--702463	18	2.2	17	86	4	51	56	2	5	35	1.35
702754--702789	18	1.9	19	88	5	56	44	8	11	36	1.70
712706--712750	15	3.0	15	93	0	72	51	0	0	48	1.00
712721--712804	32	2.4	34	80	13	100	42	0	7	50	1.30
712848--712906	31	1.9	31	92	0	100	42	10	6	40	1.65
714908--715065	79	2.0	79	96	0	289	42	8	6	41	1.63
715685--715712	2	14.0	2	100	0	56	50	0	0	50	1.00
727084--727330	127	1.9	127	96	0	458	32	5	29	31	1.80
732769--732797	7	4.1	7	100	0	58	13	58	0	27	1.36
732873--732919	6	7.8	6	76	9	51	31	36	12	19	1.89
732868--732905	18	2.1	18	100	0	76	34	31	10	23	1.89
732868--732919	18	2.9	18	88	5	61	32	34	11	21	1.89
740517--740560	23	2.0	22	86	13	63	65	4	6	22	1.35
746098--746148	19	2.6	20	90	3	77	43	23	17	15	1.88
746098--746395	20	14.6	20	78	9	147	38	19	24	17	1.93
746223--746393	40	4.2	40	83	4	207	35	17	27	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
746202--746395	63	3.1	63	84	2	250	35	18	27	19	1.94
746382--746425	20	2.2	20	91	0	70	54	15	18	11	1.70
746098--746413	60	5.2	60	73	6	190	39	18	23	17	1.92
746503--746579	6	12.5	6	84	14	95	31	49	15	3	1.63
746493--746573	27	3.1	27	88	10	116	32	44	16	7	1.75
746493--746537	15	3.2	15	71	28	53	33	37	15	13	1.86
747275--747385	6	19.5	6	99	0	180	0	17	53	29	1.44
747463--747506	20	2.2	20	91	0	70	11	18	15	54	1.70
747493--747727	20	11.6	20	77	7	134	19	21	19	40	1.92
747493--747623	40	3.2	40	85	3	163	21	24	18	35	1.95
747676--747727	19	2.7	19	87	3	68	19	15	21	44	1.87
752274--752364	46	2.0	46	95	0	164	41	7	10	39	1.69
752803--752872	37	1.9	37	85	2	97	50	2	0	47	1.16
754846--754895	25	2.0	25	92	0	82	32	22	12	34	1.90
762752--762790	21	1.9	21	84	5	53	53	2	7	35	1.43
763142--763256	28	3.6	30	76	19	117	12	10	33	43	1.76
763072--763187	62	1.9	61	80	5	135	14	12	31	40	1.84
763778--763824	18	2.7	18	90	3	69	27	31	6	34	1.82
764347--764386	20	2.0	21	90	5	64	45	5	5	45	1.47
778354--778391	19	2.0	19	100	0	76	42	10	10	36	1.74
780247--780283	2	18.5	2	94	0	65	45	0	0	54	1.00
787651--787823	60	2.9	61	84	4	208	31	20	5	42	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
791524--791630	16	6.9	16	71	22	61	76	7	14	0	1.05
791524--791620	9	11.2	8	75	16	70	77	7	15	0	0.98
791523--791643	32	3.8	33	72	15	96	74	8	16	0	1.10
792264--792314	22	2.3	22	93	0	84	35	25	11	27	1.91
793215--793346	36	3.7	36	81	7	160	26	20	13	39	1.90
793305--793460	64	2.4	64	80	9	156	32	21	8	37	1.83
794109--794824	104	7.0	105	90	4	1070	33	26	17	22	1.96
794109--794825	209	3.5	209	89	4	1102	33	26	17	22	1.96
795892--795956	2	34.5	2	82	11	75	43	1	1	53	1.19
795888--795961	16	4.3	19	81	14	81	40	1	1	56	1.16

Tables:   1   2   3