genome.fa.s8100.2.7.7.80.10.50.1000.3.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: VEPZ01008100.1 Hibiscus syriacus cultivar Beakdansim tig00110630_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1372717

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 729 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)
399265--399354	3	30.7	3	79	8	96	38	0	0	61	0.96
399822--399863	15	2.8	15	89	7	59	76	2	21	0	0.90
399822--399863	20	2.1	20	86	8	59	76	2	21	0	0.90
402172--402243	30	2.4	30	92	0	117	30	25	20	23	1.99
402230--402354	31	4.0	30	80	13	137	30	20	20	29	1.97
403104--403146	21	2.1	21	86	4	61	16	27	25	30	1.97
409108--409571	235	2.0	229	95	4	833	36	22	11	29	1.89
410509--410559	14	3.8	14	82	5	61	31	0	0	68	0.90
410508--410568	27	2.2	27	80	11	79	34	0	0	65	0.93
410505--410560	13	4.2	13	80	6	51	35	0	0	64	0.94
420805--420840	2	18.0	2	100	0	72	50	0	0	50	1.00
424170--424215	20	2.3	20	88	3	67	21	8	30	39	1.84
424186--424237	20	2.6	20	81	0	59	15	15	34	34	1.89
424243--424366	20	6.2	20	90	0	176	31	21	17	29	1.96
424303--424417	40	2.9	39	83	5	124	36	23	15	24	1.94
428105--428180	29	2.5	31	81	10	77	44	3	17	34	1.67
444336--444384	20	2.5	20	100	0	98	26	24	24	24	2.00
444507--444567	31	2.0	31	93	3	106	40	18	6	34	1.76
447751--447845	20	4.8	20	94	0	163	30	22	31	15	1.95
447865--447966	23	4.8	20	81	12	82	23	19	34	22	1.97
447865--447945	23	3.7	23	87	8	107	23	19	33	23	1.97
448046--448106	31	2.0	31	96	3	115	42	18	6	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449120--449173	21	2.7	20	74	5	54	37	22	18	22	1.95
459614--459739	63	2.0	63	98	0	243	39	15	20	24	1.91
464039--464086	11	4.4	11	83	0	60	56	10	10	22	1.63
465175--465212	12	3.4	11	82	17	51	0	18	0	81	0.69
467676--467886	102	2.1	102	90	3	327	18	17	20	43	1.88
471670--471722	25	2.1	26	82	3	63	56	9	7	26	1.57
473709--473987	138	2.0	138	94	0	486	44	12	7	35	1.71
488474--488538	25	2.6	25	100	0	130	41	20	12	26	1.87
494745--494782	19	2.0	19	89	0	58	23	31	5	39	1.77
495727--496217	41	12.0	41	82	3	524	28	19	17	34	1.94
498574--498623	2	25.0	2	100	0	100	50	0	0	50	1.00
499948--500193	42	5.9	43	80	11	248	24	25	19	30	1.98
499972--500193	81	2.7	84	83	8	251	25	24	19	30	1.98
500060--500220	84	1.9	86	85	5	229	20	25	22	31	1.98
501343--501393	26	2.0	26	96	0	93	29	37	5	27	1.80
513157--513197	21	1.9	22	85	5	57	63	4	14	17	1.47
538672--538725	22	2.5	22	96	0	99	18	22	25	33	1.97
540761--540803	21	2.0	21	95	0	77	39	13	16	30	1.87
551363--551395	17	2.0	16	94	5	57	66	3	6	24	1.28
551381--551444	31	2.1	31	93	0	110	37	9	6	46	1.61
555487--555585	32	3.1	32	83	1	101	19	28	23	29	1.98
556185--556222	19	2.0	20	84	5	51	28	2	5	63	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561862--561916	24	2.2	24	81	15	60	47	0	3	49	1.19
561902--561950	25	2.0	24	84	11	64	53	0	2	44	1.12
563080--563121	17	2.5	17	96	0	75	19	23	14	42	1.87
575343--575468	49	2.6	47	79	11	110	58	1	4	34	1.29
575463--575498	18	2.1	18	89	5	56	66	2	5	25	1.27
575860--575960	37	2.7	37	87	0	130	29	14	12	42	1.83
576507--577137	105	6.0	105	88	3	864	21	17	26	34	1.95
577130--577160	15	2.1	15	100	0	62	19	25	25	29	1.99
577352--577424	36	2.0	36	86	0	101	41	15	20	23	1.90
577329--577619	104	2.8	104	92	1	462	36	13	20	29	1.90
577685--577798	36	3.2	36	71	6	99	43	10	17	28	1.82
577625--577798	72	2.4	74	83	9	198	41	12	18	27	1.86
578939--579475	183	2.9	183	95	0	968	30	21	20	26	1.98
584328--584419	46	2.0	46	82	8	114	64	2	2	31	1.18
584328--584447	55	2.2	54	80	13	133	63	3	2	30	1.24
585151--585201	19	2.7	18	82	8	57	33	1	3	60	1.26
587215--587489	54	5.3	53	80	10	318	52	12	0	34	1.42
587262--587303	22	1.9	22	95	0	75	50	14	2	33	1.56
587263--587311	22	2.2	22	85	3	62	53	14	2	30	1.52
587346--587400	22	2.5	22	100	0	110	52	9	0	38	1.33
587158--587520	76	4.6	79	75	18	318	52	13	0	33	1.43
587417--587459	22	2.0	22	100	0	86	51	13	0	34	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587419--587467	22	2.2	22	88	3	71	55	14	0	30	1.40
587215--587489	102	2.6	102	79	9	317	52	12	0	34	1.42
587439--587541	30	3.4	31	94	4	183	54	11	0	33	1.37
587548--587605	14	4.1	14	82	8	73	53	0	0	46	1.00
587522--587585	13	5.2	13	75	19	66	50	0	0	50	1.00
587526--587603	27	3.1	25	82	13	99	52	0	0	47	1.00
587534--587608	14	5.6	14	71	21	54	56	0	0	44	0.99
587523--587608	12	6.6	13	73	17	72	54	0	0	45	0.99
589367--589414	18	2.8	18	87	9	66	31	4	4	60	1.35
589377--589414	16	2.2	17	90	9	60	31	2	5	60	1.33
593798--593866	3	23.0	3	93	0	120	65	0	2	31	1.08
594900--594928	15	1.9	15	100	0	58	0	27	17	55	1.42
595373--595452	3	26.7	3	85	9	110	62	0	2	35	1.09
595770--596405	112	5.7	113	85	5	843	29	19	13	37	1.90
595770--596438	336	2.0	333	87	5	974	30	19	13	37	1.89
595770--596408	223	2.9	225	92	4	1057	29	19	13	37	1.90
597085--597707	83	7.6	83	94	3	1107	36	21	14	27	1.92
597085--597707	164	3.8	164	95	3	1092	36	21	14	27	1.92
610145--610185	20	2.0	21	85	4	57	58	2	2	36	1.24
611116--611152	8	4.6	8	100	0	74	0	27	21	51	1.48
611618--611703	3	28.7	3	97	0	163	65	0	1	33	1.01
612205--612255	25	2.1	24	82	13	61	45	1	5	47	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
614789--614864	38	2.0	37	94	2	134	38	10	10	40	1.74
623218--623294	37	2.1	37	83	9	95	46	1	3	48	1.28
623348--623436	35	2.8	31	81	15	94	34	29	6	29	1.83
623364--623444	35	2.3	35	100	0	162	39	33	7	19	1.80
623475--623512	20	1.9	20	88	0	58	21	26	10	42	1.85
626841--626904	13	5.0	13	70	11	51	54	1	23	20	1.53
626938--627018	39	2.1	39	88	0	117	29	6	14	49	1.68
628051--628080	2	15.0	2	100	0	60	50	0	0	50	1.00
629875--630316	134	3.3	134	83	0	499	29	16	21	33	1.95
631560--631630	6	11.8	6	79	11	83	4	15	0	80	0.86
631564--631627	17	3.7	16	76	17	65	4	14	0	81	0.85
631594--631639	15	2.9	15	87	6	56	4	13	0	82	0.81
638806--638869	33	2.0	33	81	3	76	14	25	9	51	1.71
641818--641886	15	4.7	15	85	8	97	53	0	11	34	1.37
641832--641895	28	2.3	28	97	2	121	57	0	9	32	1.30
643306--643341	18	2.0	18	100	0	72	22	0	27	50	1.50
643777--643834	3	18.7	3	79	13	64	62	0	3	34	1.12
644120--644160	16	2.5	17	92	4	66	51	0	0	48	1.00
653659--653708	20	2.5	21	81	12	61	38	12	24	26	1.90
658736--658776	6	6.8	6	89	10	66	17	17	17	48	1.81
661086--661196	6	18.0	6	69	25	54	73	0	18	8	1.06
661065--661156	12	7.8	11	68	21	53	73	0	19	6	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661095--661156	24	2.7	23	80	7	72	77	0	16	6	0.97
661149--661178	16	1.9	16	93	6	53	66	0	20	13	1.24
661094--661186	17	5.5	17	67	21	52	75	0	16	8	1.04
663348--663502	36	4.3	36	90	3	222	36	24	19	19	1.95
663918--664519	51	11.7	51	86	3	735	33	19	24	22	1.97
664469--665430	55	17.7	55	85	5	1250	29	14	27	28	1.95
664525--665430	108	8.4	108	92	1	1476	29	14	28	28	1.95
669918--669992	23	3.3	23	80	10	93	24	18	26	30	1.98
669929--670013	23	3.8	22	76	16	77	25	18	25	29	1.98
670168--670205	13	2.9	14	80	11	53	39	0	13	47	1.42

Tables:   1   2   3   4   5   6   7