genome.fa.s893.2.7.7.80.10.50.1000.3.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: VEPZ01000893.1 Hibiscus syriacus cultivar Beakdansim tig00001750_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  734264

Tables:   1   2   3   

This is table  3  of  3  ( 359 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)
513020--513132	36	2.9	40	80	10	162	21	19	15	44	1.87
512981--513187	76	2.8	76	82	9	225	22	20	16	40	1.91
513020--513193	36	4.8	36	78	5	145	22	20	16	40	1.91
525964--526000	17	2.2	17	90	0	56	59	0	0	40	0.97
531847--531901	21	2.6	21	100	0	110	32	25	18	23	1.97
533402--533444	22	1.9	23	85	4	61	44	13	0	41	1.44
542619--542679	2	30.5	2	100	0	122	49	0	0	50	1.00
545188--545246	14	4.3	14	85	14	79	79	0	18	1	0.81
545187--545251	19	3.5	18	84	12	78	80	0	18	1	0.80
545213--545244	8	4.2	8	84	15	50	78	0	21	0	0.76
549513--549548	19	1.9	20	88	11	58	22	11	0	66	1.22
549509--549551	19	2.4	17	82	17	52	23	9	0	67	1.19
553457--553505	2	24.5	2	100	0	98	48	0	0	51	1.00
559860--559888	8	3.6	8	100	0	58	0	10	0	89	0.48
560179--560374	57	3.4	57	95	0	347	43	1	1	53	1.19
560174--560328	15	10.8	15	68	16	96	44	1	0	53	1.13
560361--560418	21	3.0	18	78	14	62	48	0	3	48	1.18
560377--560422	21	2.2	21	85	14	69	56	0	2	41	1.11
560601--560690	42	2.2	42	95	2	164	55	0	4	40	1.20
561386--561452	23	2.9	23	80	10	82	44	1	1	52	1.19
561421--561468	21	2.2	22	88	3	71	45	0	2	52	1.12
561364--561457	26	3.6	26	70	13	68	46	1	1	51	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561338--561472	21	6.6	21	66	18	54	49	0	1	48	1.15
561369--561479	29	4.0	29	73	15	76	48	0	1	48	1.18
561433--561542	21	5.4	20	66	22	59	49	0	2	48	1.15
563542--563583	19	2.3	18	92	8	68	26	0	0	73	0.83
564116--564165	20	2.5	20	78	12	59	40	2	2	56	1.22
564085--564176	11	9.2	10	67	23	52	40	1	3	55	1.23
564083--564169	31	2.8	30	79	10	95	41	1	3	54	1.25
564231--564281	27	2.0	24	85	14	68	56	5	3	33	1.42
564757--564831	31	2.4	31	82	4	89	53	5	0	41	1.24
565121--565152	8	4.2	8	84	15	50	28	0	0	71	0.86
565126--565152	14	1.9	14	100	0	54	25	0	0	74	0.83
565222--565281	19	3.1	19	72	9	66	53	1	0	45	1.10
565244--565321	27	2.8	28	79	11	106	44	2	1	51	1.23
566114--566145	16	2.0	16	93	0	55	6	0	34	59	1.23
567089--567124	2	18.0	2	100	0	72	50	0	0	50	1.00
574122--574729	43	14.1	42	70	14	235	24	19	6	49	1.72
574364--574589	122	1.9	122	83	3	294	27	21	5	45	1.73
574575--574673	49	2.0	48	90	5	155	24	23	5	47	1.71
574533--574701	92	1.8	93	85	3	243	25	23	5	46	1.73
575128--575173	16	3.1	16	75	18	62	50	0	0	50	1.00
575158--575193	18	1.9	19	88	5	56	61	0	5	33	1.19
575771--575826	29	1.9	29	85	0	76	32	5	17	44	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585630--586348	234	3.1	232	89	2	1041	33	16	16	33	1.92
586195--586289	42	2.3	41	83	1	118	23	25	23	28	1.99
586322--586369	19	2.4	20	89	10	80	43	12	16	27	1.84
590136--590178	22	2.0	22	85	0	59	34	0	2	62	1.08
590416--590463	25	1.9	25	83	8	62	33	4	18	43	1.69
593955--594066	57	1.9	58	80	8	131	34	7	13	44	1.71
597475--597515	14	2.7	16	74	11	50	51	12	7	29	1.66
601239--601392	83	1.8	84	90	1	247	40	3	10	46	1.54
601241--601410	83	2.0	83	85	4	189	41	5	9	44	1.59
603569--603808	133	1.8	132	88	6	369	40	7	7	44	1.61
604309--604352	20	2.2	20	100	0	88	27	15	13	43	1.85
604904--604948	13	3.5	13	81	0	54	17	46	20	15	1.84
604941--604979	15	2.4	16	87	12	53	12	28	28	30	1.93
607404--607488	24	3.6	23	79	6	71	20	14	17	48	1.81
607427--607491	12	5.5	11	75	20	51	16	12	18	52	1.74
609553--609586	17	2.0	17	94	0	59	20	52	14	11	1.73
609575--609605	13	2.4	13	88	0	53	12	48	25	12	1.77
612108--612174	12	5.6	12	75	7	55	14	13	17	53	1.72
612066--612174	24	4.5	24	80	6	105	18	16	17	47	1.83
616228--616411	98	1.9	98	80	4	219	40	22	11	25	1.87
618688--618723	15	2.5	15	95	4	65	25	13	50	11	1.75
621715--621758	18	2.3	20	76	11	56	68	4	4	22	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621736--621778	12	3.5	12	79	17	52	69	2	2	25	1.12
626680--626722	22	2.1	22	83	12	56	34	2	27	34	1.70
638293--638327	19	1.9	19	88	11	56	71	11	5	11	1.30
641223--641267	22	2.0	24	83	16	60	33	2	13	51	1.53
642107--642155	21	2.2	21	85	7	62	79	14	6	0	0.91
642108--642148	14	3.1	14	82	6	50	85	9	4	0	0.73
656566--656600	12	2.9	12	91	8	54	65	0	11	22	1.24
657121--657151	16	1.9	16	93	0	53	74	0	12	12	1.08
659217--659296	34	2.4	34	91	0	124	30	17	10	42	1.82
660203--660232	12	2.4	13	94	5	53	66	0	10	23	1.21
665438--665518	13	5.8	13	74	21	51	74	0	2	23	0.94
665438--665519	42	2.0	42	86	13	116	73	0	2	24	0.96
665438--665536	37	2.6	37	72	19	64	72	0	4	23	1.01
665465--665543	24	3.1	25	81	17	76	73	1	3	21	1.06
665442--665664	124	1.8	122	80	14	273	70	1	8	20	1.20
665585--665639	26	2.2	26	81	15	71	72	0	5	21	1.04
665627--665677	16	3.1	16	78	10	50	80	0	5	13	0.89
666849--666946	36	2.6	36	84	9	117	48	5	1	44	1.31
666910--667009	29	3.3	29	75	16	94	44	6	5	45	1.50
666876--667009	65	2.1	63	81	5	153	45	4	3	46	1.41
666862--667148	100	2.9	100	79	13	313	47	5	3	44	1.41
667044--667234	37	5.2	36	81	9	217	46	5	3	44	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
666941--667189	139	1.8	137	84	6	342	45	6	4	44	1.48
667044--667236	75	2.6	73	83	6	244	46	5	3	44	1.42
667217--667289	2	37.0	2	91	2	112	46	0	4	49	1.21
667814--668467	84	7.8	83	78	6	518	26	18	22	32	1.97
667824--668467	165	3.9	161	76	7	542	26	18	22	32	1.97
667854--668467	249	2.5	248	84	2	818	26	18	23	31	1.97
668510--668549	20	2.0	21	85	14	57	42	5	7	45	1.54
668798--668924	64	2.0	65	88	1	193	30	25	16	27	1.97
674660--674715	22	2.7	19	77	17	58	30	23	16	30	1.96
676230--676273	21	2.1	21	86	0	61	9	36	15	38	1.80
677283--677330	19	2.6	17	77	9	51	31	29	14	25	1.95
677234--677438	63	3.2	64	83	3	225	31	23	16	27	1.96
678095--678160	32	2.0	33	97	2	125	19	36	13	30	1.91
684246--684366	54	2.2	54	91	0	188	22	19	26	32	1.97
686473--686512	21	2.1	19	86	13	55	75	10	0	15	1.05
686945--687007	23	2.7	23	97	0	117	36	17	20	25	1.94
702693--703315	236	2.6	238	87	3	898	34	14	16	34	1.89
703363--703437	37	2.0	37	92	0	123	37	20	21	21	1.95
706982--707052	3	23.7	3	85	5	90	29	0	2	67	1.05
707071--707131	27	2.3	27	82	5	70	44	32	6	16	1.73
708300--708358	27	2.2	27	82	11	68	40	1	0	57	1.09
719605--719643	10	4.0	10	86	6	62	87	0	12	0	0.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
720797--721585	83	9.5	83	95	1	1381	26	14	22	36	1.93
722309--723092	225	3.5	228	91	5	1215	37	13	18	30	1.89
723020--723075	17	3.2	17	69	18	51	50	8	21	19	1.75
723058--723241	84	2.2	82	82	3	208	38	16	17	27	1.92
723403--723476	3	24.7	3	89	5	114	33	0	1	64	1.02
724865--724915	23	2.2	23	83	13	68	41	1	0	56	1.10
724868--724915	24	2.0	24	88	8	71	39	2	0	58	1.10
730103--730160	21	2.8	21	89	0	80	6	34	39	18	1.78
731892--732081	95	2.0	94	92	1	317	30	6	21	42	1.77

Tables:   1   2   3

The End!