genome.fa.s1978.2.7.7.80.10.50.1000.2.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: VEPZ01001978.1 Hibiscus syriacus cultivar Beakdansim tig00004013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2594977

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  2  of  10  ( 1125 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)
284766--284834	26	2.6	26	77	6	68	57	10	2	28	1.46
284873--285293	212	2.0	214	87	1	605	44	16	11	27	1.82
285529--285603	36	2.1	36	90	5	116	34	13	9	42	1.76
285804--285849	21	2.2	21	84	0	56	52	4	21	21	1.64
285794--285843	21	2.4	21	86	0	73	54	0	24	22	1.45
286037--286086	23	2.2	23	92	0	82	38	8	26	28	1.84
288579--288648	34	2.0	35	83	8	90	35	2	4	57	1.33
288695--288732	15	2.4	16	86	8	51	50	0	0	50	1.00
293142--293201	21	2.9	21	76	18	70	26	10	21	41	1.85
293213--293258	21	2.1	22	88	4	67	21	15	30	32	1.94
297289--297436	21	7.4	21	66	10	76	24	13	25	37	1.92
303328--303380	17	3.1	17	80	0	61	41	5	13	39	1.68
303390--303473	36	2.4	36	80	7	93	45	14	10	29	1.78
305609--305661	28	2.0	26	88	7	79	13	1	7	77	1.06
306959--307000	18	2.4	17	84	11	50	47	11	9	30	1.72
311957--311981	12	2.1	12	100	0	50	16	44	8	32	1.76
318959--320406	698	2.1	696	87	3	2081	27	22	15	33	1.94
330051--330083	2	16.5	2	100	0	66	48	0	0	51	1.00
348532--348572	13	3.0	14	75	17	50	4	12	0	82	0.81
348532--348577	19	2.3	20	89	10	69	4	13	0	82	0.81
348543--348582	19	2.1	19	86	9	55	2	17	0	80	0.83
351910--351944	15	2.3	15	90	0	52	51	0	25	22	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357711--357741	2	15.5	2	100	0	62	51	0	0	48	1.00
368947--369075	24	5.4	24	84	3	107	41	20	13	24	1.88
368964--369075	24	4.7	24	86	4	154	39	20	15	25	1.91
368964--369097	48	2.8	48	82	4	128	41	19	14	24	1.89
376480--376544	31	2.1	32	88	2	96	24	26	29	20	1.99
377362--377399	20	1.9	20	94	0	67	28	13	26	31	1.93
390334--390428	36	2.6	36	93	0	163	55	10	16	16	1.68
392225--392341	59	2.0	59	86	0	162	41	17	14	25	1.88
393534--393699	81	2.1	75	83	7	199	34	13	11	39	1.81
393582--393707	43	3.0	42	67	20	111	34	12	11	42	1.79
394197--394392	81	2.5	80	83	4	245	33	13	12	40	1.82
397652--397701	18	2.9	17	85	5	73	38	0	0	62	0.96
399091--399131	21	2.0	21	95	0	73	46	14	21	17	1.84
399092--399142	21	2.4	21	87	6	68	47	17	19	15	1.83
405280--405364	36	2.3	36	88	9	120	34	21	17	27	1.96
405733--406201	215	2.2	211	88	6	684	32	14	20	32	1.92
406107--406200	39	2.4	38	81	6	109	25	20	24	29	1.99
406207--406339	55	2.4	55	82	7	162	33	18	21	26	1.96
408533--408578	17	2.7	17	87	9	67	43	0	0	56	0.99
411722--411789	34	2.0	35	85	8	95	36	17	5	39	1.74
411739--411789	17	3.0	17	91	0	84	39	15	5	39	1.72
418510--418918	45	9.0	45	84	3	471	26	22	12	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418510--418906	182	2.2	179	86	3	537	26	21	12	38	1.89
419000--419325	68	4.8	68	80	3	334	30	25	15	28	1.95
419530--419805	57	4.8	57	90	1	410	41	18	6	33	1.76
422063--422093	2	15.5	2	100	0	62	48	0	0	51	1.00
423817--424489	45	15.0	45	85	2	827	25	24	11	37	1.89
424532--424849	68	4.7	68	84	2	406	29	24	16	30	1.96
425014--425263	57	4.4	57	89	2	342	38	17	8	36	1.80
428643--428697	22	2.5	22	88	2	76	30	14	34	20	1.92
446783--446861	26	3.1	26	94	1	133	36	27	15	20	1.92
470919--470947	10	2.7	11	94	5	51	27	10	3	58	1.47
471080--472347	424	3.0	424	88	1	1861	28	19	9	41	1.83
483827--484078	132	1.9	132	98	0	486	26	11	12	49	1.74
490621--490672	25	2.2	25	82	6	63	50	5	3	40	1.45
491394--491566	59	2.9	60	77	2	143	56	9	15	19	1.65
491521--491634	30	3.9	29	79	7	122	56	8	13	21	1.64
491532--491645	59	1.9	60	85	1	158	53	9	13	23	1.69
492405--492438	17	2.0	17	100	0	68	5	23	11	58	1.55
493487--493542	26	2.2	26	96	0	103	33	25	21	19	1.97
494598--494624	2	13.5	2	100	0	54	51	0	0	48	1.00
494823--494850	2	14.0	2	100	0	56	50	0	0	50	1.00
495678--495724	19	2.5	19	100	0	94	36	10	42	10	1.74
507332--507588	53	4.8	53	89	0	397	30	19	29	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508890--508939	19	2.6	19	93	0	91	10	8	18	64	1.48
508890--508945	19	2.9	21	89	10	84	8	8	17	64	1.48
510444--510849	130	3.1	129	83	5	508	24	19	31	24	1.98
510924--511029	34	3.2	34	93	5	173	33	10	24	32	1.89
511042--511241	67	3.1	66	83	9	245	41	13	14	31	1.84
511312--511380	32	2.2	32	84	5	86	34	23	13	28	1.92
516962--517086	59	2.1	59	80	16	136	59	10	12	18	1.60
517083--517166	30	2.8	30	81	12	102	57	9	15	17	1.64
519384--519508	59	2.1	59	81	14	143	59	11	11	18	1.60
519505--519588	30	2.8	30	81	12	102	57	9	15	17	1.64
519783--519842	28	2.2	28	77	13	65	58	10	11	20	1.61
521970--522017	19	2.4	21	80	10	57	35	0	6	58	1.23
521969--522015	21	2.2	22	78	17	55	38	0	6	55	1.26
522539--522604	30	2.2	30	88	0	96	50	16	12	21	1.77
522540--522616	30	2.7	29	82	7	95	48	16	11	23	1.79
523886--523922	17	2.1	18	90	5	58	45	0	0	54	1.00
524795--524879	36	2.4	36	78	7	84	44	4	0	50	1.22
524845--524898	23	2.4	22	79	14	56	42	1	0	55	1.10
527944--527975	14	2.2	15	94	5	57	53	0	0	46	1.00
527950--528055	21	5.2	21	68	21	75	47	0	0	51	1.07
529566--529619	20	2.8	19	82	17	60	38	1	0	59	1.08
545674--545728	27	2.0	27	92	0	92	34	20	9	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
552357--552409	19	2.8	19	82	0	70	30	26	15	28	1.96
572874--572919	20	2.3	20	88	0	65	23	26	6	43	1.78
573129--573626	68	7.4	68	90	2	767	27	24	15	32	1.95
573136--573626	203	2.4	201	91	2	792	27	24	15	32	1.95
573827--573937	55	2.0	55	89	5	170	36	19	9	35	1.84
579741--579796	26	2.2	26	96	0	103	35	16	21	26	1.94
579964--580015	19	2.5	22	79	11	58	44	1	7	46	1.43
580137--580205	2	34.5	2	97	0	129	47	0	0	52	1.00
579969--580177	101	2.0	102	81	9	239	46	2	4	46	1.35
580202--580438	92	2.6	90	80	12	259	45	6	7	40	1.57
580308--580596	150	1.9	153	80	4	345	43	5	6	44	1.53
588026--588190	74	2.2	75	92	1	278	50	3	16	29	1.62
588015--588184	32	4.9	32	76	19	162	52	4	14	28	1.60
588019--588190	40	4.6	36	73	15	145	52	3	15	28	1.59
588203--588531	121	2.6	125	84	7	427	45	13	15	24	1.83
588418--588450	5	6.8	5	89	6	50	78	0	3	18	0.87
588419--588449	14	2.2	14	94	0	53	77	0	3	19	0.90
588298--588549	131	1.9	130	87	4	373	49	12	14	23	1.77
590438--590486	15	3.3	15	91	0	71	38	0	8	53	1.31
591042--591076	2	17.5	2	100	0	70	51	0	0	48	1.00
596550--596947	85	4.7	85	78	8	315	30	18	24	26	1.98
596590--596950	42	8.5	41	76	8	305	29	19	24	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600659--601048	41	9.5	41	72	11	251	31	20	18	29	1.96
600726--601048	123	2.6	124	75	12	297	30	20	18	30	1.97
600659--601042	82	4.7	81	75	10	321	31	20	19	29	1.96
614748--615105	131	2.7	132	82	3	402	40	17	10	31	1.83
617210--617252	3	14.0	3	90	4	68	67	2	0	30	1.03
618077--618125	19	2.6	20	78	9	59	44	2	0	53	1.12
618238--618326	42	2.2	42	85	4	128	43	1	2	52	1.20
618245--618319	22	3.5	22	71	14	66	48	1	2	48	1.24
618232--618350	42	2.9	39	81	14	118	46	2	1	49	1.25
618399--618466	27	2.5	28	76	9	79	50	0	1	48	1.10

Tables:   1   2   3   4   5   6   7   8   9   10