genome.fa.s7846.2.7.7.80.10.50.1000.3.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: VEPZ01007846.1 Hibiscus syriacus cultivar Beakdansim tig00110202_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  846497

Tables:   1   2   3   4   

This is table  3  of  4  ( 396 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)
520243--520715	179	2.6	179	89	3	707	26	16	13	42	1.86
524289--524356	27	2.6	27	90	4	104	32	10	16	41	1.82
526883--526950	27	2.6	27	95	4	122	30	11	16	41	1.84
528853--528967	37	3.0	40	76	14	125	49	18	17	14	1.80
530192--530243	24	2.1	25	82	3	61	34	0	11	53	1.37
530275--530313	19	2.1	19	85	0	51	58	0	2	38	1.12
531691--531744	20	2.7	20	85	5	65	46	3	5	44	1.44
534016--534052	11	3.3	11	96	3	65	8	13	0	78	0.96
545112--545136	13	1.9	13	100	0	50	16	4	0	80	0.87
547627--547657	15	2.1	15	93	0	53	25	16	29	29	1.96
557083--557142	24	2.6	24	79	10	72	60	6	10	23	1.52
564512--564549	19	2.0	19	100	0	76	36	10	15	36	1.82
567381--567441	23	2.6	24	80	12	74	44	3	1	50	1.28
567611--567675	27	2.4	28	80	12	73	47	1	0	50	1.10
567615--567720	51	2.1	49	79	6	115	49	1	0	48	1.18
567647--567686	20	2.0	20	85	0	53	50	0	2	47	1.14
567632--567777	50	2.9	47	80	11	132	50	1	2	46	1.21
567764--567819	23	2.3	23	84	6	67	46	1	1	50	1.22
570390--570434	23	2.0	23	86	0	63	26	28	24	20	1.99
571450--571484	18	1.9	18	88	11	54	22	17	5	54	1.64
572068--572112	21	2.1	21	87	0	63	15	24	28	31	1.96
588943--588996	29	1.9	27	85	7	72	42	5	12	38	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
605521--605567	15	3.1	15	81	6	58	53	4	17	25	1.62
610797--610857	31	2.0	31	90	0	95	42	14	18	24	1.88
611389--611544	21	7.6	21	66	7	86	19	19	25	36	1.95
611366--611591	41	5.5	41	86	3	287	19	20	23	36	1.95
611682--611711	6	5.0	6	100	0	60	33	50	16	0	1.46
612219--612320	6	17.0	6	100	0	204	0	16	50	33	1.46
612411--612536	41	3.0	41	90	3	155	38	23	19	19	1.93
612439--612511	20	3.6	20	75	3	83	39	24	20	15	1.91
612436--612540	21	5.1	21	69	4	88	38	25	17	19	1.93
612436--612536	41	2.5	41	96	0	184	37	24	17	19	1.94
612581--612694	20	5.6	20	67	4	84	36	27	21	14	1.92
612601--612674	21	3.6	21	70	3	78	31	31	18	18	1.96
612579--612695	41	2.9	41	96	0	216	35	27	20	16	1.94
612436--612695	142	1.8	141	86	3	378	35	25	20	19	1.96
612576--612719	41	3.5	41	90	0	207	36	27	18	17	1.93
620566--620610	21	2.1	21	87	0	63	42	22	0	35	1.54
623842--623877	2	18.0	2	100	0	72	50	0	0	50	1.00
624490--624564	22	3.5	22	75	21	79	49	0	2	48	1.15
624490--624564	21	3.5	21	77	15	82	49	0	2	48	1.15
625724--625811	40	2.2	40	97	0	167	44	2	3	50	1.31
631781--631842	24	2.9	20	73	17	52	11	11	24	53	1.69
631794--631842	24	2.0	24	96	0	89	8	12	24	55	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631800--631856	24	2.4	24	87	0	78	12	8	19	59	1.58
634340--634402	23	2.8	23	85	7	85	28	25	25	20	1.99
635268--635488	64	3.5	64	82	7	236	26	19	20	34	1.96
641096--641148	21	2.5	21	87	0	79	30	28	20	20	1.98
641160--641202	21	2.0	21	81	0	50	23	20	27	27	1.99
643421--643478	23	2.5	23	91	0	89	27	22	29	20	1.99
660595--660750	78	2.0	78	97	2	296	23	32	11	32	1.91
663992--664065	22	3.4	22	69	22	57	25	4	2	67	1.21
664003--664067	22	3.0	20	79	14	67	29	3	3	64	1.23
663985--664067	23	3.7	22	78	13	73	25	4	3	66	1.28
664021--664067	21	2.2	23	85	11	64	31	4	4	59	1.36
666184--666217	6	5.7	6	96	0	59	26	0	17	55	1.42
669439--669465	2	13.5	2	100	0	54	0	48	0	51	1.00
671453--671926	182	2.6	182	89	0	707	43	13	15	27	1.84
671847--671893	20	2.4	19	79	10	58	57	10	12	19	1.64
674352--674396	22	2.0	22	86	0	63	42	6	11	40	1.67
674423--675082	182	3.6	182	94	0	1144	42	12	16	28	1.85
675209--675265	23	2.4	23	76	2	69	36	17	10	35	1.84
675218--675380	87	1.9	87	94	0	290	33	14	10	41	1.79
678392--678435	22	2.0	22	86	0	61	88	6	2	2	0.67
678721--678770	15	3.3	15	86	8	66	54	0	2	44	1.11
678735--678769	2	18.0	2	88	5	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
678720--678772	21	2.7	19	78	16	54	54	0	1	43	1.11
678778--678812	16	2.2	16	89	0	52	74	2	2	20	1.08
680011--680066	2	29.0	2	87	7	80	50	1	0	48	1.11
680835--681191	106	3.4	106	85	6	478	21	17	26	34	1.95
682265--682303	20	2.0	20	90	10	62	2	20	0	76	0.90
684084--684122	20	2.0	20	94	0	69	20	38	25	15	1.92
687508--687569	22	2.8	22	95	0	106	17	40	25	16	1.90
696817--696856	13	3.1	13	88	0	62	90	7	0	2	0.55
697160--697203	17	2.7	17	82	6	56	68	0	2	29	1.02
697200--697237	2	19.0	2	100	0	76	50	0	0	50	1.00
698409--698450	13	3.3	13	90	3	59	50	7	0	42	1.30
702955--703009	16	3.4	16	94	0	92	18	25	14	41	1.88
703271--703316	23	2.0	24	91	4	76	43	0	4	52	1.21
703479--703525	24	2.0	24	83	8	60	14	0	19	65	1.26
703485--703518	17	2.1	16	88	5	50	14	0	14	70	1.17
703502--703563	21	3.0	21	82	0	70	20	0	24	54	1.44
703639--703689	2	26.0	2	88	4	77	47	3	0	49	1.20
703811--703850	20	2.0	21	85	5	55	37	15	10	37	1.80
704035--704071	17	2.1	18	90	5	58	40	2	2	54	1.29
704137--704164	2	14.0	2	100	0	56	50	0	0	50	1.00
709971--710010	3	13.3	3	100	0	80	32	0	0	67	0.91
711339--711399	23	2.7	23	86	0	86	31	27	26	14	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
712929--712966	20	1.9	20	94	0	67	26	21	18	34	1.96
717906--717961	21	2.7	21	94	0	94	39	16	16	28	1.89
721569--721894	161	2.0	163	98	1	629	23	21	23	31	1.98
727005--727139	57	2.5	57	88	9	201	28	16	7	48	1.73
727157--727284	59	2.2	59	83	8	154	31	14	7	46	1.72
730091--730115	12	2.1	12	100	0	50	60	0	0	40	0.97
730218--730262	2	22.5	2	90	0	72	53	0	2	44	1.13
730218--730270	14	3.9	14	87	4	65	56	0	1	41	1.10
730309--730342	16	2.1	16	89	10	52	70	0	5	23	1.09
730534--730567	15	2.2	16	89	5	52	64	2	2	29	1.22
730908--730955	23	2.1	23	88	0	69	35	12	18	33	1.89
731327--731378	21	2.5	20	84	9	68	42	19	1	36	1.62
731332--731402	23	3.2	22	84	8	81	39	19	5	35	1.76
733942--734606	184	3.7	184	96	1	1164	34	15	14	35	1.88
735968--736018	3	17.0	3	83	0	66	25	33	3	37	1.74
735968--736030	12	5.2	12	90	0	81	23	33	6	36	1.80
735972--736033	18	3.4	18	88	0	88	20	33	6	38	1.79
735972--736033	6	10.3	6	83	0	61	20	33	6	38	1.79
737479--739870	590	4.0	594	95	2	4232	32	15	14	36	1.88
737479--739870	199	12.1	198	95	2	4223	32	15	14	36	1.88
739957--740010	18	2.9	18	91	5	90	51	11	3	33	1.55
739952--740014	19	3.4	19	91	4	101	55	9	3	31	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
740590--740614	4	6.2	4	100	0	50	48	28	0	24	1.52
741812--741877	33	2.0	33	87	0	96	24	45	1	28	1.62
743982--744034	24	2.2	24	83	6	63	26	7	13	52	1.66
744179--744234	20	2.8	20	73	13	53	19	16	8	55	1.67
744346--744392	20	2.3	20	89	10	78	17	17	10	55	1.69
746517--747484	84	11.7	84	75	6	814	25	19	24	31	1.98
746701--747484	249	3.2	248	90	0	1194	25	19	24	31	1.98
746517--747484	165	5.9	164	80	6	509	25	19	24	31	1.98
752221--752260	16	2.5	17	84	12	57	70	0	5	25	1.08
754988--755031	17	2.6	17	77	0	52	59	0	0	40	0.98

Tables:   1   2   3   4