genome.fa.s480.2.7.7.80.10.50.1000.3.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: VEPZ01000480.1 Hibiscus syriacus cultivar Beakdansim tig00000910_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  869251

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 492 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)
394376--394422	20	2.4	19	85	3	58	46	14	17	21	1.83
395238--395331	31	3.0	31	84	0	116	38	20	18	23	1.93
407682--407727	18	2.6	18	85	0	65	19	19	17	43	1.88
417265--417305	20	2.0	20	95	0	73	36	9	12	41	1.76
418465--418505	21	2.0	20	86	13	57	56	0	2	41	1.13
422186--422239	20	2.5	23	79	17	78	20	18	24	37	1.94
422197--422249	20	2.7	20	100	0	106	20	20	24	33	1.97
427849--427987	64	2.2	64	98	0	269	24	18	19	37	1.94
429932--429989	24	2.4	24	91	5	91	8	34	8	48	1.65
432975--433020	3	16.0	3	78	17	53	69	0	0	30	0.89
432975--433007	11	3.0	11	90	0	57	66	0	0	33	0.92
432975--433022	9	5.1	10	80	19	59	68	0	0	31	0.90
433486--433778	105	2.8	105	86	3	407	24	20	16	39	1.92
433377--433786	105	3.9	104	79	9	404	25	20	16	38	1.92
434722--434759	7	5.4	7	93	6	60	0	36	0	63	0.95
434720--434785	20	3.2	20	80	8	62	1	25	0	72	0.93
434757--434800	19	2.3	19	85	11	63	6	13	0	79	0.92
439005--439062	18	3.1	18	73	14	55	32	8	25	32	1.86
439799--439871	24	3.0	24	79	0	83	23	26	17	32	1.97
462718--462751	14	2.5	14	95	4	61	64	0	20	14	1.28
466930--466968	12	3.4	11	82	10	51	28	0	20	51	1.48
468908--468935	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469389--469573	75	2.4	75	83	3	228	42	13	11	32	1.80
469473--469671	98	2.0	98	85	1	265	41	13	13	31	1.83
469405--469841	173	2.5	173	86	2	563	38	13	13	34	1.84
469581--469743	75	2.2	75	86	2	220	39	14	12	34	1.83
469647--469916	98	2.8	98	90	1	407	37	12	14	35	1.85
470152--470187	17	2.1	17	100	0	72	47	11	5	36	1.63
470403--470675	107	2.5	107	85	1	350	34	14	12	37	1.85
470520--470978	226	2.0	226	83	3	566	32	14	12	40	1.84
472494--472533	6	6.8	6	88	11	57	82	0	0	17	0.67
472495--472532	17	2.2	17	90	9	60	81	0	0	18	0.69
472491--472548	29	2.0	28	83	3	71	79	0	3	17	0.87
472576--472636	28	2.1	30	81	6	72	40	11	1	45	1.50
472639--472812	66	2.6	67	81	5	206	38	7	9	44	1.65
473768--473820	15	3.6	15	78	16	58	26	0	1	71	0.96
473776--473820	17	3.1	15	80	20	51	26	0	2	71	0.98
475529--475577	19	2.7	17	84	9	53	26	20	28	24	1.99
475549--475708	65	2.5	65	87	5	218	27	19	23	30	1.98
475549--475758	65	3.3	63	80	12	214	26	19	23	30	1.98
477857--477896	16	2.6	16	80	4	55	65	2	0	32	1.06
483914--483939	11	2.4	11	100	0	52	7	26	7	57	1.54
484199--484364	65	2.6	61	78	11	172	24	18	25	31	1.97
485213--485340	66	1.9	66	84	6	170	49	14	3	32	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486167--486214	21	2.2	22	82	14	64	70	2	22	4	1.15
486183--486230	12	3.9	12	76	15	53	79	2	14	4	0.98
486183--486215	13	2.6	13	85	4	50	78	0	18	3	0.87
486273--486297	9	2.8	9	100	0	50	32	0	44	24	1.54
487462--487823	133	2.7	131	84	1	447	34	11	14	39	1.83
489092--489141	23	2.2	23	96	0	91	38	10	10	42	1.72
489920--490005	23	3.9	22	82	14	106	29	26	24	19	1.99
490577--490614	20	2.0	19	90	10	60	47	10	23	18	1.79
491267--491395	55	2.3	55	82	2	161	31	17	17	34	1.93
496113--496174	21	3.0	21	71	17	65	33	29	17	19	1.95
496113--496195	42	2.0	42	90	4	132	33	27	16	21	1.95
496125--496206	21	3.9	21	71	16	71	34	28	15	21	1.95
496794--496924	55	2.4	55	88	0	190	31	18	18	32	1.95
511225--511262	20	1.9	20	100	0	76	26	5	31	36	1.79
512391--512433	19	2.3	19	84	8	52	20	0	13	65	1.27
512458--512490	12	2.6	13	90	4	50	36	12	6	45	1.66
514498--514596	45	2.2	44	87	5	137	32	25	15	27	1.95
516804--516843	20	2.0	20	95	0	71	37	15	22	25	1.93
516884--516943	22	3.0	20	81	11	68	30	13	28	28	1.94
516812--517125	95	3.3	94	82	5	362	32	15	24	27	1.95
517055--517125	22	3.5	20	80	12	74	30	14	30	23	1.94
517445--517956	59	8.7	59	90	1	769	33	14	18	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517445--517955	176	2.9	175	91	2	790	33	14	18	33	1.90
519731--519777	18	2.6	18	82	0	58	44	12	14	27	1.82
524040--524352	94	3.4	93	86	6	422	33	15	23	26	1.95
524298--524352	22	2.7	20	81	13	67	34	14	25	25	1.94
524671--525169	59	8.6	59	89	3	737	34	14	18	33	1.91
524671--525169	117	4.3	118	90	3	737	34	14	18	33	1.91
527653--527734	40	2.0	40	90	0	128	36	12	14	36	1.84
530352--531145	131	6.0	131	82	5	920	32	9	16	40	1.81
530370--531173	402	2.0	401	95	1	1441	33	9	16	40	1.80
534105--534155	2	25.5	2	100	0	102	49	0	0	50	1.00
535509--535543	14	2.5	14	90	0	52	0	54	0	45	0.99
537667--537709	19	2.3	19	95	0	77	39	32	6	20	1.80
539649--539712	30	2.1	30	100	0	128	25	34	0	40	1.56
541945--541984	21	1.9	21	89	0	62	10	25	40	25	1.86
545810--545849	21	1.9	21	85	10	55	35	10	2	52	1.48
552960--553043	42	2.0	42	92	0	141	33	2	9	54	1.46
553414--553486	30	2.4	30	83	2	92	47	16	4	31	1.65
553614--553675	26	2.4	26	97	0	115	27	0	24	48	1.51
555930--556010	32	2.5	32	80	4	83	30	18	18	32	1.95
557272--557310	21	1.9	21	89	5	62	33	23	7	35	1.83
562198--562285	32	2.8	31	78	3	86	32	17	14	35	1.90
578571--578659	44	2.0	44	100	0	178	33	17	23	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
598298--598347	2	25.0	2	95	0	91	50	0	2	48	1.12
598891--598957	2	33.5	2	100	0	134	50	0	0	49	1.00
598957--598995	2	19.5	2	100	0	78	51	0	48	0	1.00
599277--599302	2	13.0	2	100	0	52	50	0	0	50	1.00
600507--600557	20	2.7	18	84	9	57	37	15	9	37	1.81
603791--603848	21	2.8	21	86	5	73	24	15	18	41	1.89
604632--604667	19	1.9	18	88	5	54	58	0	5	36	1.22
606467--606497	15	2.1	15	93	0	53	25	9	22	41	1.84
607338--607388	21	2.4	21	96	0	93	23	17	17	41	1.90
607338--607404	21	3.1	21	86	4	71	26	19	16	37	1.93
607380--607427	20	2.5	19	82	3	51	33	20	8	37	1.83
610788--610835	21	2.3	21	96	0	87	25	18	16	39	1.91
614864--615288	235	1.8	236	83	5	572	33	17	15	33	1.92
616669--616733	28	2.3	28	80	19	82	20	7	33	38	1.81
625957--626004	23	2.1	23	100	0	96	22	22	20	33	1.97
626499--626558	27	2.2	27	84	0	75	45	13	10	31	1.76
627803--627943	60	2.4	58	78	12	144	21	24	26	26	1.99
643134--643260	35	3.6	35	78	10	141	29	17	18	34	1.94
647427--647695	121	2.2	121	89	2	407	30	17	8	43	1.78
650082--650139	4	14.0	4	82	13	73	72	0	1	25	0.94
650147--650382	36	6.5	36	77	12	205	46	7	2	43	1.44
650147--650400	73	3.5	73	75	15	204	46	7	1	44	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
650280--650337	13	4.1	13	74	20	53	46	10	1	41	1.48
650366--650421	24	2.4	23	82	8	69	46	7	0	46	1.30
650391--650518	35	3.7	35	77	12	104	46	10	1	42	1.47
650342--650457	59	2.0	60	93	3	200	44	6	2	45	1.44
651099--651224	34	3.6	35	77	8	141	31	9	16	42	1.80
651290--652087	36	23.4	36	68	18	411	42	10	18	28	1.83
651240--651484	101	2.4	100	86	2	339	43	9	18	28	1.81
651290--651859	137	4.2	138	90	3	832	42	10	18	27	1.84
651606--652058	66	6.8	65	74	12	341	42	10	18	28	1.83
651606--652058	201	2.3	200	90	1	701	42	10	18	28	1.83

Tables:   1   2   3   4   5