genome.fa.s2.2.7.7.80.10.50.1000.3.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: VEPZ01000002.1 Hibiscus syriacus cultivar Beakdansim tig00000003_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2131600

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

This is table  3  of  10  ( 1119 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)
505819--505868	19	2.5	20	90	3	75	44	6	14	36	1.69
506030--506084	22	2.3	25	81	18	89	27	23	23	25	2.00
506038--506091	22	2.5	22	100	0	108	27	25	24	22	2.00
506770--506834	30	2.1	32	85	5	89	52	9	9	29	1.64
509315--509378	27	2.3	28	81	10	78	3	18	1	76	1.00
509316--509374	19	3.0	20	76	16	52	3	20	1	74	1.05
509645--509684	19	2.0	20	90	4	64	65	0	15	20	1.28
510098--510148	19	2.6	20	90	3	77	43	5	15	35	1.71
511040--511099	30	2.0	31	86	3	86	53	10	8	28	1.63
512077--512112	15	2.4	15	90	0	54	41	0	5	52	1.24
519410--519473	16	4.2	16	66	26	50	1	17	3	78	0.96
519410--519468	13	4.7	12	75	22	50	1	16	3	77	0.98
519412--519468	19	2.9	19	76	23	64	1	17	3	77	1.00
519397--519468	32	2.2	32	81	13	85	4	15	4	76	1.09
519741--519780	19	2.0	20	90	4	64	65	0	15	20	1.28
520196--520244	19	2.5	20	86	3	64	42	6	14	36	1.70
521141--521200	30	2.0	31	86	3	86	53	10	8	28	1.63
523684--523746	27	2.3	27	74	17	67	4	17	1	76	1.04
524014--524053	19	2.0	20	90	4	64	65	0	15	20	1.28
524469--524517	19	2.5	20	86	3	64	42	6	14	36	1.70
525409--525468	30	2.0	31	90	3	95	53	8	10	28	1.63
532886--532933	18	2.6	18	78	15	53	4	16	6	72	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535158--535207	19	2.7	19	78	9	50	2	20	4	74	1.08
535140--535213	32	2.3	32	80	15	89	4	17	4	74	1.13
535484--535523	19	2.0	20	90	4	64	65	0	15	20	1.28
535928--535978	19	2.6	20	90	3	77	43	5	15	35	1.71
538556--538593	13	2.9	13	88	0	58	78	0	21	0	0.74
542315--542891	301	1.9	301	99	0	1136	35	14	17	32	1.90
550543--550647	36	2.9	36	94	1	176	29	4	35	30	1.78
553198--553248	19	2.6	20	84	3	68	43	5	11	39	1.66
554162--554221	30	2.0	31	90	3	95	53	8	8	30	1.60
556573--556635	30	2.0	32	87	6	94	55	7	7	28	1.57
559114--559151	19	2.0	19	85	10	51	81	5	13	0	0.85
559334--559385	16	3.3	15	77	17	52	15	17	0	67	1.24
565655--565699	20	2.2	21	84	11	58	22	8	6	62	1.48
566618--566658	19	2.1	20	90	4	66	34	7	12	46	1.69
569384--569455	17	4.2	17	80	3	72	40	8	12	38	1.73
569428--569476	20	2.6	19	90	9	82	40	14	12	32	1.83
573249--573290	11	3.7	11	84	9	50	71	0	11	16	1.14
577019--577048	12	2.5	12	94	0	51	3	13	3	80	0.97
577395--577441	11	4.1	12	75	8	53	72	4	10	12	1.25
577395--577441	23	2.1	21	88	7	67	72	4	10	12	1.25
588418--588457	21	1.9	21	90	10	64	20	27	5	47	1.70
589313--589366	5	11.0	5	77	18	51	11	5	0	83	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589314--589367	25	2.2	25	93	6	92	9	5	0	85	0.75
589313--589369	9	5.8	10	76	12	55	10	5	0	84	0.77
590910--590990	17	4.5	18	79	13	71	39	12	9	38	1.76
590944--590992	20	2.5	20	90	6	75	40	14	10	34	1.79
595092--595132	2	20.5	2	100	0	82	51	0	0	48	1.00
600321--600372	15	3.4	15	75	15	52	15	17	0	67	1.24
603033--603083	19	2.6	20	90	3	77	43	5	15	35	1.71
607217--607267	19	2.6	20	90	3	77	43	5	15	35	1.71
608812--608862	20	2.6	20	90	3	77	35	15	5	43	1.71
622407--622457	20	2.6	20	90	3	77	35	15	5	43	1.71
626779--626829	19	2.6	20	90	3	77	43	5	15	35	1.71
635268--635334	32	2.1	33	81	13	77	59	0	25	14	1.36
641849--641878	13	2.4	13	94	5	53	26	30	0	43	1.55
647765--647816	24	2.1	25	89	3	79	63	11	13	11	1.52
647770--647825	24	2.2	26	81	9	71	66	10	16	7	1.44
652468--652547	35	2.3	35	91	0	124	27	36	3	32	1.75
653873--653910	8	4.9	8	84	15	53	36	0	0	63	0.95
653874--653900	14	1.9	14	100	0	54	37	0	0	62	0.95
654952--655036	11	7.2	11	72	22	66	31	36	3	28	1.74
654949--655053	36	2.9	36	95	1	185	30	36	4	28	1.78
655195--655230	15	2.4	15	90	0	54	19	25	0	55	1.43
659476--659580	36	2.9	36	94	1	176	31	35	4	28	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664875--664900	12	2.2	12	100	0	52	46	15	23	15	1.83
673619--673664	23	2.0	23	83	8	58	50	8	6	34	1.59
675431--675497	33	2.0	33	88	0	98	29	20	8	40	1.83
677644--677710	23	3.0	23	84	2	82	59	14	11	13	1.61
677652--677718	23	2.9	24	86	6	93	61	13	11	13	1.58
677708--677740	14	2.4	14	90	10	50	78	0	18	3	0.87
681464--681510	23	2.0	24	83	4	60	31	2	36	29	1.70
684866--684917	15	3.4	15	75	15	61	67	1	13	17	1.32
684868--684924	19	3.4	19	64	31	56	68	1	14	15	1.29
684864--684936	31	2.4	31	100	0	146	68	2	12	16	1.32
684881--684933	16	3.4	16	75	15	65	67	3	13	15	1.35
685148--685177	13	2.3	13	100	0	60	0	16	0	83	0.65
685538--685584	23	2.0	24	83	4	60	31	2	36	29	1.70
686699--686734	14	2.5	14	95	4	63	19	13	25	41	1.88
695844--695897	23	2.3	24	83	3	74	62	11	16	9	1.52
699254--699435	90	2.0	91	88	1	267	22	27	21	28	1.99
703304--703375	26	2.7	27	76	8	67	4	16	12	66	1.39
705921--705978	5	11.8	5	81	9	66	1	17	1	79	0.90
705926--705996	10	7.2	9	77	13	61	1	16	2	78	0.94
706690--706741	19	2.6	21	84	6	72	46	7	9	36	1.66
711679--711734	13	4.7	11	74	21	51	0	19	1	78	0.84
711679--711734	18	3.1	18	82	17	71	0	19	1	78	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
714641--714708	35	1.9	36	93	3	120	29	2	36	30	1.72
718159--718201	19	2.2	20	87	4	61	2	16	4	76	1.05
722693--722740	15	3.1	14	75	18	51	16	22	0	60	1.36
722694--722755	33	1.9	32	83	9	81	20	20	0	58	1.40
723237--723285	24	2.2	22	79	13	55	24	14	24	36	1.93
723245--723294	24	2.1	24	100	0	100	26	16	26	32	1.96
723249--723302	24	2.2	24	93	0	90	27	14	24	33	1.94
724729--724841	35	3.2	35	79	3	111	31	31	4	31	1.78
725209--725247	6	6.3	6	82	5	51	79	2	12	5	1.00
725266--725295	13	2.2	13	94	5	51	86	0	13	0	0.57
728286--728390	36	2.9	36	87	1	149	28	4	35	31	1.78
732389--732433	22	2.2	20	84	8	54	0	13	6	80	0.91
734084--734156	28	3.0	22	77	22	83	27	6	36	28	1.82
736323--736434	35	3.2	35	88	1	170	27	35	4	32	1.77
736600--736664	6	10.8	6	94	0	103	12	32	0	55	1.37
746397--746456	30	2.0	31	86	3	86	28	8	10	53	1.63
747337--747388	21	2.6	21	90	6	81	32	13	7	46	1.72
751544--751595	21	2.6	21	84	6	72	32	11	7	48	1.68
756552--756591	15	2.6	16	84	8	55	17	12	2	67	1.33
761301--761354	22	2.3	25	84	12	78	61	12	16	9	1.56
761302--761359	24	2.5	23	83	10	66	62	12	17	8	1.54
763659--764790	586	1.9	585	94	0	1996	29	17	14	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
770424--770596	90	1.9	91	89	1	267	23	26	21	28	1.99
771360--771419	23	2.7	21	76	16	59	66	8	16	8	1.42
774775--774956	90	2.0	91	88	1	267	21	28	22	27	1.99
783922--783972	20	2.6	20	90	3	77	35	15	5	43	1.71
785883--785929	16	2.8	16	81	12	51	68	0	17	14	1.22
794333--794418	13	7.2	12	72	22	58	29	3	37	30	1.74
794315--794419	36	2.9	36	95	1	185	28	4	36	30	1.78
796127--796177	20	2.6	20	90	3	77	35	15	5	43	1.71
800270--800320	20	2.6	20	90	3	77	35	15	5	43	1.71
837511--837623	36	3.2	36	92	1	174	32	36	3	27	1.74

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