genome.fa.s8417.2.7.7.80.10.50.1000.3.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: VEPZ01008417.1 Hibiscus syriacus cultivar Beakdansim tig00111197_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1004101

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 600 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)
463384--463422	18	2.2	18	100	0	78	46	0	10	43	1.37
466656--466799	69	2.1	69	94	0	252	39	16	22	21	1.92
477688--477770	37	2.2	37	100	0	166	21	7	22	48	1.75
480065--480094	15	1.9	16	93	6	53	26	30	13	30	1.94
480897--480952	27	2.0	27	89	3	85	26	7	7	58	1.50
484139--484177	18	2.2	18	100	0	78	28	12	15	43	1.83
484144--484183	18	2.2	18	90	0	62	30	12	12	45	1.79
488451--488481	14	2.3	13	94	5	53	35	6	0	58	1.24
490341--490404	28	2.3	28	94	0	119	45	20	10	23	1.82
492853--492891	20	2.0	20	85	10	53	43	2	20	33	1.65
495536--495566	15	2.1	15	93	0	53	22	29	9	38	1.86
497737--497780	21	2.1	21	86	0	61	9	40	15	34	1.79
498827--499017	65	3.0	64	80	11	194	31	24	18	26	1.97
500289--500381	20	4.7	20	90	2	134	30	22	27	19	1.98
500314--500372	10	5.6	12	69	29	53	32	23	27	16	1.96
500405--500521	42	2.8	41	79	11	121	23	17	35	23	1.96
500442--500520	21	3.8	21	89	0	113	24	16	37	21	1.93
501883--501930	19	2.5	20	82	3	62	29	12	6	52	1.63
503252--503300	19	2.7	17	84	9	53	26	20	28	24	1.99
503445--503492	14	3.5	14	81	13	64	43	0	2	54	1.12
503434--503481	3	16.0	3	85	8	62	37	0	2	60	1.09
504833--505104	136	2.0	134	78	4	280	38	9	7	44	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507570--507609	6	5.9	7	83	16	57	15	17	10	57	1.64
507570--507609	13	2.9	14	86	13	57	15	17	10	57	1.64
509873--509908	2	18.0	2	100	0	72	50	0	0	50	1.00
510195--510248	26	2.0	27	96	3	101	68	11	16	3	1.33
510209--510306	27	3.6	27	75	13	76	77	5	14	3	1.06
512149--512338	93	2.0	93	86	4	267	30	13	19	36	1.90
514586--514697	54	2.1	54	89	0	170	38	16	23	22	1.93
515074--515128	22	2.5	22	81	0	65	34	10	14	40	1.81
515803--516898	76	14.5	76	96	0	2038	21	22	21	34	1.97
517021--517097	24	3.0	26	90	7	106	40	0	1	58	1.06
517021--517086	3	22.0	3	80	11	73	37	0	1	60	1.06
524648--524694	23	2.0	23	95	0	85	38	10	25	25	1.88
530306--530357	18	2.9	18	85	0	68	34	11	11	42	1.77
531385--531447	23	2.7	23	97	0	117	34	19	22	23	1.96
536459--536494	14	2.6	14	90	0	54	22	5	8	63	1.43
536713--536752	10	4.0	10	84	12	55	12	12	17	57	1.65
539288--539337	25	2.0	25	84	7	66	42	24	22	12	1.87
544992--545045	19	2.8	19	85	0	72	31	0	1	66	1.02
544983--545045	22	2.8	22	85	2	81	28	0	3	68	1.05
544993--545045	3	19.0	3	81	14	60	32	0	1	66	1.03
546282--546333	11	4.7	11	81	13	63	25	1	1	71	1.07
546292--546340	22	2.2	22	89	7	73	26	4	2	67	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546282--546340	11	5.4	10	82	15	55	27	3	1	67	1.16
547210--547268	26	2.3	26	82	11	68	25	1	0	72	0.93
548705--548746	7	6.0	7	81	8	50	16	14	14	54	1.71
548708--548746	15	2.7	15	88	4	53	17	12	12	56	1.67
548805--548857	12	4.2	12	72	13	52	22	13	7	56	1.62
551673--551807	7	17.3	7	71	23	76	74	2	18	4	1.09
551662--551715	26	2.0	27	92	3	92	72	11	12	3	1.25
551675--551807	17	7.9	16	75	18	94	74	2	18	4	1.10
551676--551803	41	3.0	41	88	6	166	73	2	19	4	1.12
551723--551812	26	3.7	23	74	10	72	72	0	23	4	1.03
556556--556635	22	3.6	22	96	0	151	32	12	13	41	1.82
557313--557494	76	2.4	76	92	1	294	24	21	21	32	1.98
557505--558304	113	6.9	113	85	6	903	37	14	20	28	1.91
557969--558367	124	3.2	124	91	3	626	39	13	19	26	1.89
557503--558367	225	3.7	232	83	8	840	37	14	19	27	1.91
558622--558678	19	3.0	20	87	5	73	31	0	1	66	1.02
558613--558678	22	3.0	22	86	2	87	28	0	3	68	1.05
558643--558700	19	2.8	21	79	15	66	43	0	0	56	0.99
558623--558678	3	20.0	3	82	14	66	32	0	1	66	1.03
559910--559961	11	4.7	11	81	13	63	25	1	1	71	1.07
559920--559968	22	2.2	22	89	7	73	26	4	2	67	1.19
559910--559968	11	5.4	10	82	15	55	27	3	1	67	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562686--562716	4	7.8	4	100	0	62	25	0	0	74	0.82
563193--563765	41	14.0	41	80	3	591	36	15	17	31	1.90
563216--563765	83	6.7	83	83	2	603	37	15	16	30	1.90
564065--564125	31	2.0	31	86	0	86	49	8	1	40	1.42
564956--564980	2	12.5	2	100	0	50	52	0	0	48	1.00
571709--571753	10	4.8	10	84	13	60	0	13	11	75	1.05
571705--571751	18	2.7	18	83	3	69	0	12	8	78	0.95
580934--580963	14	2.1	14	93	0	51	60	16	13	10	1.59
580970--581034	23	2.8	23	88	0	94	61	24	7	6	1.46
581605--581684	34	2.4	34	80	4	90	56	17	10	16	1.67
582254--582311	23	2.5	22	78	13	55	55	32	10	1	1.44
584081--584135	6	8.8	6	83	15	60	20	1	0	78	0.85
584082--584122	21	2.0	21	90	9	66	21	2	0	75	0.92
586194--586237	20	2.3	18	81	14	52	25	6	2	65	1.28
589372--589425	23	2.3	23	90	0	81	24	22	25	27	2.00
590385--590438	28	2.0	25	82	10	63	33	3	3	59	1.33
596434--596506	30	2.4	30	93	0	119	46	19	4	30	1.68
604631--604782	40	3.7	40	65	5	106	23	26	19	29	1.98
604638--604829	83	2.3	83	90	0	294	25	28	17	29	1.98
605097--605121	13	1.9	13	100	0	50	32	0	0	68	0.90
605095--605160	19	3.4	19	75	8	62	33	3	6	57	1.38
612279--612310	2	16.5	2	93	6	57	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
613641--613706	20	3.3	20	82	2	80	34	6	21	37	1.78
614152--614214	33	1.9	33	83	6	83	33	15	26	23	1.95
617721--617770	23	2.2	22	85	3	64	22	32	10	36	1.87
618150--618249	3	33.7	3	76	9	89	58	1	4	37	1.24
618193--618268	14	5.6	13	77	16	75	55	0	1	43	1.08
618164--618249	20	4.1	20	78	12	91	58	0	4	37	1.19
618197--618261	20	3.2	20	82	8	78	58	0	1	40	1.07
619038--619093	20	2.8	20	84	7	62	41	8	16	33	1.79
619052--619107	20	2.8	20	83	2	58	37	10	16	35	1.83
620424--620786	67	5.5	66	84	6	466	29	18	12	39	1.88
620424--620786	133	2.7	133	87	6	490	29	18	12	39	1.88
620678--620773	30	3.1	30	65	16	77	34	20	10	34	1.87
621054--621653	139	4.3	139	83	2	720	30	28	16	25	1.96
621054--622001	278	3.3	278	77	9	781	30	28	16	25	1.96
621631--621680	25	2.0	25	96	0	91	24	26	28	22	1.99
621492--621811	164	2.0	164	85	0	433	30	29	17	22	1.97
621656--622001	139	2.5	139	80	1	354	30	27	16	26	1.97
622267--622304	3	12.7	3	100	0	76	31	0	0	68	0.90
623353--623962	305	2.0	304	97	0	1139	21	13	18	46	1.83
629960--629992	16	2.1	16	94	0	57	57	0	0	42	0.98
629967--630028	24	2.6	23	84	7	70	62	1	0	35	1.05
633718--633823	50	2.1	50	96	0	194	33	19	16	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634537--634718	67	2.8	63	76	12	174	38	15	20	25	1.92
634760--634894	64	2.1	63	81	8	148	38	14	14	32	1.86
634817--635001	102	1.8	100	80	10	223	39	15	12	32	1.85
635146--635317	66	2.6	64	79	6	166	43	12	16	28	1.84
635192--635315	66	1.9	66	86	1	178	45	12	12	28	1.79
635582--635705	66	1.9	66	84	3	169	39	16	12	32	1.85
635770--635828	31	1.9	31	93	3	102	44	13	13	28	1.82
635866--636003	36	3.8	36	83	3	163	35	13	17	34	1.88
635942--636188	107	2.3	106	80	11	267	39	11	17	31	1.85
637783--637829	23	2.0	23	84	8	60	2	17	10	70	1.26

Tables:   1   2   3   4   5