genome.fa.s8937.2.7.7.80.10.50.1000.3.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: VEPZ01008937.1 Hibiscus syriacus cultivar Beakdansim tig00112255_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  635368

Tables:   1   2   3   4   

This is table  3  of  4  ( 409 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)
312517--312647	7	21.7	6	72	21	105	80	0	18	0	0.75
312517--312647	64	2.0	64	84	13	173	80	0	18	0	0.75
313557--313621	20	3.3	20	64	12	53	41	13	23	21	1.89
313539--313804	89	2.9	91	85	6	353	39	15	21	23	1.92
314192--314263	3	24.3	3	97	2	137	34	0	0	65	0.93
329229--329337	42	2.6	41	92	4	182	23	21	22	33	1.98
329275--329338	20	3.1	20	70	16	67	25	20	20	34	1.96
329764--330068	37	8.1	37	75	7	283	38	20	18	22	1.93
329737--330026	153	1.9	153	89	1	456	37	21	18	22	1.94
333903--334553	212	3.1	208	87	5	898	23	19	24	32	1.97
333903--334350	106	4.2	106	90	1	648	24	19	23	32	1.97
334259--334438	88	2.0	88	95	0	324	22	19	24	33	1.97
334155--334524	194	1.9	194	94	0	659	23	18	24	33	1.97
335213--335553	164	2.1	165	98	1	659	26	17	22	33	1.96
336215--336256	22	1.9	22	90	0	66	23	9	23	42	1.83
336880--336945	13	5.2	13	81	5	82	1	13	3	81	0.87
336880--336947	7	9.4	7	73	17	59	1	13	2	82	0.86
336880--336926	16	2.9	16	82	17	62	0	12	4	82	0.80
336873--336954	37	2.2	36	87	8	114	1	14	4	79	0.96
336907--336947	21	1.9	22	90	5	66	2	12	2	82	0.86
337963--338004	21	2.0	21	85	4	57	52	4	19	23	1.65
339800--339849	24	2.1	23	85	10	66	70	2	8	20	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
340271--340500	115	2.0	115	97	0	433	26	19	32	21	1.97
341751--341788	17	2.2	17	86	9	51	50	0	5	44	1.24
341918--341963	17	2.6	18	77	16	51	47	0	0	52	1.00
345465--345498	18	1.9	17	88	5	50	64	0	2	32	1.08
346284--346501	108	2.0	108	95	4	395	34	11	14	39	1.82
346504--346528	6	4.2	6	100	0	50	36	0	0	64	0.94
349336--349419	2	42.0	2	72	21	61	51	1	4	42	1.30
349343--349436	29	3.2	29	77	14	88	48	2	4	44	1.34
351931--351974	23	1.9	23	90	9	72	31	2	2	63	1.19
355013--355059	19	2.4	20	79	13	53	19	17	10	53	1.72
363274--363324	22	2.3	22	96	0	93	37	13	11	37	1.82
365320--365486	45	3.7	45	73	4	140	23	16	15	44	1.85
365325--365531	90	2.3	90	83	1	245	22	16	15	44	1.85
365452--365567	45	2.6	45	83	2	153	25	15	16	43	1.87
373123--373154	15	2.1	15	94	0	55	62	28	6	3	1.34
373962--373998	18	2.1	18	100	0	74	32	27	13	27	1.94
380563--380680	56	2.1	56	95	0	209	33	5	25	34	1.80
382703--382744	16	2.6	16	88	0	66	16	23	14	45	1.84
383218--383267	23	2.1	24	92	3	84	48	2	4	46	1.32
384278--384382	20	5.1	19	75	21	88	42	9	7	40	1.66
384284--384341	24	2.5	24	86	5	75	46	6	6	39	1.57
384661--384801	2	72.0	2	68	19	75	46	4	2	46	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384664--384864	85	2.3	88	80	9	218	45	4	1	47	1.35
384748--384783	15	2.4	15	95	0	63	41	2	5	50	1.40
384631--384802	56	3.0	54	70	21	127	41	5	4	48	1.44
384659--384816	8	17.7	9	67	20	57	47	4	1	46	1.33
384696--384864	87	2.0	84	85	3	230	46	5	1	46	1.36
384757--384868	17	6.5	17	66	19	52	44	5	1	48	1.36
384849--384917	28	2.6	26	77	8	75	47	7	2	42	1.46
384733--384939	87	2.4	86	79	8	217	44	5	2	46	1.40
384923--385055	18	7.0	18	67	19	74	44	2	6	46	1.42
384852--385050	98	2.0	97	91	0	317	44	4	5	45	1.45
384998--385073	36	2.1	35	85	9	100	44	0	5	50	1.24
387818--387875	20	2.7	20	84	10	71	31	18	22	27	1.97
388767--388861	31	3.1	31	78	6	86	20	17	24	37	1.93
388792--388888	30	3.2	30	83	2	106	17	19	28	34	1.95
392331--392386	20	2.6	20	83	11	67	32	17	23	26	1.97
393670--393694	2	12.5	2	100	0	50	52	0	0	48	1.00
394647--394758	60	1.9	59	84	1	152	26	25	21	26	1.99
397690--397749	21	2.9	21	79	0	66	23	15	26	35	1.94
398500--398548	21	2.3	21	100	0	98	42	8	4	44	1.53
399289--399335	18	2.5	19	79	3	60	68	4	2	25	1.19
402204--402249	22	2.1	22	91	0	74	36	2	10	50	1.50
402411--402541	61	2.1	61	84	2	174	25	19	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
407394--407432	14	2.8	14	96	0	69	20	51	5	23	1.67
417333--417377	18	2.4	18	88	3	63	2	35	0	62	1.08
417331--417394	22	3.0	21	82	15	69	1	31	1	65	1.11
417576--417694	39	3.0	40	78	3	141	30	10	40	18	1.85
419143--419193	26	2.0	26	84	7	68	49	9	1	39	1.47
421590--421687	42	2.3	42	96	0	178	33	21	23	21	1.97
421619--421691	20	3.5	20	68	14	58	34	21	21	21	1.97
421564--422228	214	3.1	214	93	0	1123	31	19	16	32	1.94
423139--423509	125	3.0	125	81	0	420	23	26	17	32	1.97
426176--426212	15	2.5	15	90	0	56	8	16	67	8	1.40
430088--430138	26	2.0	26	84	7	68	49	9	1	39	1.47
442323--442435	41	2.8	41	84	6	124	34	14	14	37	1.86
446821--447212	133	3.0	133	86	3	517	32	17	20	29	1.96
447681--447779	36	2.7	37	69	1	92	35	16	21	27	1.94
447831--448332	36	14.9	36	65	15	164	41	13	17	27	1.87
447788--448059	101	2.7	99	87	4	384	41	13	18	25	1.88
447859--448339	166	2.9	165	89	0	703	40	13	17	28	1.87
447944--448123	65	2.8	65	88	0	252	41	12	19	27	1.87
448005--448223	101	2.2	101	87	2	305	38	12	19	29	1.88
448107--448295	65	2.9	65	82	3	229	38	13	17	30	1.88
453435--453508	21	3.5	21	96	0	130	31	25	16	27	1.96
453425--453507	42	2.0	43	85	2	114	31	25	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463315--463376	21	2.8	21	76	16	63	14	4	1	79	0.98
466214--466250	6	6.2	6	93	0	56	54	13	0	32	1.40
468217--468253	2	19.0	2	88	5	58	51	0	0	48	1.00
480826--481005	90	2.0	91	91	2	290	36	11	7	45	1.68
489444--489508	14	4.9	14	69	14	57	6	9	18	66	1.41
490642--490707	31	2.1	31	91	0	105	36	15	27	21	1.93
495099--495255	48	3.3	47	77	7	154	38	15	24	21	1.92
499695--499778	23	3.6	23	70	19	66	53	2	2	41	1.27
499712--499793	17	5.0	17	71	21	68	57	1	1	40	1.14
501228--501302	21	3.6	21	81	1	80	36	29	9	25	1.87
501297--501404	20	5.3	20	74	2	99	40	20	14	24	1.90
501313--501404	41	2.3	40	81	3	112	42	20	13	23	1.87
501286--501406	61	2.0	61	83	3	154	40	20	13	25	1.89
501398--501443	20	2.3	20	96	0	83	45	23	15	15	1.84
501902--501932	11	2.8	11	95	0	53	0	12	16	70	1.16
502024--502076	19	2.8	20	85	8	74	15	16	20	47	1.83
502718--502814	42	2.3	42	89	0	140	28	36	17	17	1.93
503409--503502	21	4.5	21	90	0	143	21	40	20	18	1.92
504917--504959	23	1.9	23	90	4	70	30	2	16	51	1.57
504960--505015	20	2.8	20	91	0	94	16	21	21	41	1.90
505062--505138	20	3.8	20	91	0	127	48	23	19	9	1.77
505340--505382	20	2.2	19	87	4	59	41	25	18	13	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508039--508072	12	2.8	12	90	0	50	14	0	29	55	1.40
508840--508948	20	5.6	20	75	14	93	34	11	22	31	1.89
508860--508948	40	2.2	40	89	0	133	33	12	22	31	1.91
508972--509013	21	2.0	21	90	4	68	26	9	23	40	1.85
509021--509104	20	4.2	20	87	0	132	20	17	20	41	1.90
511467--511505	20	2.0	20	94	0	69	84	0	7	7	0.77
518341--518381	21	2.0	20	86	9	57	31	24	19	24	1.98
522120--523338	609	2.0	604	93	1	1879	36	19	20	23	1.95
537694--537727	2	17.0	2	100	0	68	50	0	0	50	1.00
539478--539522	16	2.8	17	80	16	51	13	26	6	53	1.64

Tables:   1   2   3   4