genome.fa.s3924.2.7.7.80.10.50.1000.2.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: VEPZ01003924.1 Hibiscus syriacus cultivar Beakdansim tig00008483_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1466330

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 520 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)
341094--341136	20	2.2	20	86	0	59	83	11	4	0	0.78
350809--350858	21	2.5	19	87	6	64	48	8	12	32	1.69
350809--350860	19	2.6	21	87	6	72	46	7	13	32	1.72
353982--354053	34	2.2	31	85	11	92	5	16	2	75	1.12
354735--354784	21	2.5	19	87	6	64	48	8	14	30	1.72
354735--354786	19	2.6	21	87	6	72	46	7	15	30	1.74
357268--357347	35	2.2	37	88	4	119	27	3	38	30	1.74
361424--361459	19	1.9	20	88	11	58	22	11	0	66	1.22
361420--361462	19	2.4	17	82	17	52	23	9	0	67	1.19
361727--361781	6	9.5	6	74	7	51	80	3	14	1	0.94
369334--369386	5	10.4	5	76	11	54	7	20	49	22	1.74
369325--369359	17	2.1	17	88	0	52	17	17	45	20	1.85
369350--369388	19	2.1	19	95	0	69	7	20	51	20	1.72
369354--369395	19	2.2	19	86	0	57	9	23	47	19	1.78
377690--377716	13	2.1	13	100	0	54	14	22	48	14	1.81
377698--377733	17	2.1	17	94	0	63	13	19	50	16	1.79
381057--381096	21	1.9	21	90	10	64	35	5	5	55	1.44
382562--382605	7	6.4	7	89	5	72	27	29	27	15	1.96
382563--382605	20	2.1	21	91	4	70	27	30	25	16	1.97
382618--382681	19	3.3	19	80	10	60	28	26	25	20	1.99
389811--389843	5	6.8	5	86	6	50	3	21	54	21	1.58
389811--389848	19	2.0	19	100	0	76	5	21	52	21	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389812--389838	14	1.9	14	100	0	54	3	22	51	22	1.63
389812--389856	19	2.4	19	92	0	72	6	17	51	24	1.70
389854--389905	19	2.8	19	88	8	72	26	28	26	17	1.97
391787--391898	24	4.7	24	88	4	163	39	19	16	25	1.91
394344--394383	7	5.4	7	82	11	53	25	25	35	15	1.94
394325--394386	8	7.5	8	80	14	65	24	25	33	16	1.95
394335--394383	15	3.1	15	88	5	71	24	26	34	14	1.94
394386--394436	18	2.8	18	78	0	66	11	15	52	19	1.73
394373--394419	23	2.0	23	87	0	67	12	19	51	17	1.77
404653--404710	30	1.9	30	92	0	98	24	27	13	34	1.93
404660--404722	30	2.1	30	87	0	90	28	26	11	33	1.91
405325--405393	12	5.8	12	80	0	66	52	13	17	17	1.75
405325--405393	24	2.9	24	77	0	84	52	13	17	17	1.75
409038--409128	12	7.6	12	72	0	65	56	14	13	16	1.68
409038--409128	24	3.8	24	83	0	101	56	14	13	16	1.68
409042--409114	36	2.1	35	81	2	83	53	13	15	17	1.73
412607--412671	12	5.4	12	70	7	51	55	12	15	16	1.69
412607--412675	24	2.9	24	88	0	102	53	13	14	18	1.72
416171--416241	24	3.0	24	85	4	81	57	12	14	15	1.65
419873--419940	12	5.7	12	76	0	73	51	14	17	16	1.77
419873--419945	24	3.0	24	93	0	119	53	15	16	15	1.73
421678--421718	19	2.2	19	100	0	82	19	29	31	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422236--422260	2	12.5	2	100	0	50	52	0	0	48	1.00
422469--422580	24	4.7	24	92	4	172	36	22	17	23	1.95
422469--422575	12	8.8	13	65	15	68	37	23	17	21	1.94
425586--425662	23	3.3	23	94	0	136	28	16	41	12	1.86
427921--428029	24	4.5	24	87	0	146	54	15	14	15	1.72
427914--428029	12	9.7	12	73	0	88	54	14	14	16	1.72
435020--435062	19	2.3	19	100	0	86	32	11	20	34	1.89
435333--435407	32	2.4	31	82	4	87	37	29	21	12	1.89
435551--435604	24	2.2	24	90	0	81	53	14	16	14	1.73
437737--437835	49	2.0	48	98	1	189	32	31	4	32	1.76
443316--443341	7	3.7	7	100	0	52	46	0	11	42	1.40
445112--445148	17	2.1	18	85	14	51	13	10	16	59	1.61
445075--445179	48	2.2	48	80	0	111	22	10	14	52	1.72
449750--449822	24	3.0	24	79	0	83	20	5	17	56	1.61
449982--450020	2	19.5	2	94	0	69	48	2	0	48	1.15
458103--458169	29	2.3	29	89	5	100	50	17	2	28	1.61
458103--458177	29	2.6	29	83	8	91	49	20	4	26	1.66
461063--461098	18	2.0	18	88	0	54	61	0	13	25	1.33
467322--467375	28	1.9	28	88	7	83	72	3	9	14	1.24
473511--473559	18	2.7	18	74	0	53	22	46	14	16	1.82
474938--475058	31	3.8	32	76	5	104	33	20	17	28	1.95
480036--480119	30	2.8	30	80	3	89	33	25	20	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480091--480218	31	4.1	31	73	10	109	32	19	18	29	1.96
483981--484017	18	2.1	18	85	14	51	43	10	13	32	1.79
488809--488932	31	4.0	31	75	8	117	33	20	17	29	1.95
493969--494092	31	4.0	31	77	6	133	31	20	16	30	1.95
495038--495190	64	2.4	63	75	14	143	26	18	20	33	1.96
497881--497917	18	2.1	18	85	14	51	43	10	13	32	1.79
499578--499625	12	4.0	12	81	10	53	12	16	18	52	1.75
501880--501962	24	3.5	23	68	6	58	24	13	18	44	1.85
523993--524068	24	3.2	24	81	7	66	46	18	13	22	1.83
524010--524125	24	4.8	24	85	4	153	39	18	14	26	1.90
524041--524143	48	2.1	48	82	7	120	41	18	13	26	1.87
528722--528797	24	3.2	24	83	3	73	44	18	13	23	1.85
528739--528854	24	4.8	24	84	0	142	40	16	14	28	1.88
528764--528872	48	2.3	48	82	6	123	42	15	13	28	1.85
531315--531361	18	2.6	18	96	0	85	10	23	48	17	1.77
531374--531446	30	2.4	30	84	8	103	35	28	15	20	1.93
549854--549896	20	2.2	20	87	4	61	34	9	6	48	1.62
550602--550671	28	2.7	27	82	8	74	71	4	17	7	1.25
553850--553892	20	2.2	20	87	4	61	34	9	6	48	1.62
554597--554650	28	2.0	27	85	3	72	70	5	16	7	1.30
558097--558139	20	2.2	20	87	4	61	34	9	6	48	1.62
564798--564879	20	3.9	21	76	13	71	24	35	25	14	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565347--565372	5	5.2	5	100	0	52	19	0	0	80	0.71
573781--573838	13	3.8	15	75	18	57	20	39	22	17	1.92
573781--573848	31	2.1	32	89	5	102	19	39	22	19	1.92
576344--576454	29	3.8	29	84	4	152	39	22	4	33	1.74
576476--576510	18	1.9	18	88	0	52	14	20	45	20	1.85
584331--584384	19	2.7	20	77	8	56	20	24	33	22	1.97
589738--589768	2	15.5	2	100	0	62	51	0	0	48	1.00
611275--611300	13	2.0	13	100	0	52	30	15	23	30	1.95
620107--620141	16	2.1	17	89	5	54	42	14	0	42	1.45
620129--620440	156	2.0	155	84	5	407	35	30	12	20	1.90
624253--624300	24	2.0	24	83	0	60	52	18	8	20	1.71
624260--624320	24	2.5	24	83	0	68	45	18	9	26	1.80
624283--624344	24	2.6	24	84	0	70	41	14	16	27	1.87
626541--626609	24	2.9	24	93	0	111	43	18	15	21	1.88
629035--629072	17	2.2	17	90	0	58	28	26	23	21	1.99
631215--631307	24	3.9	24	94	0	150	41	18	15	24	1.88
633103--633512	207	2.0	207	99	0	811	38	20	15	25	1.92
634398--634467	27	2.6	27	81	2	86	21	17	18	42	1.89
637512--637804	43	6.8	42	82	5	275	34	23	22	19	1.96
637512--637804	85	3.4	85	80	2	291	34	23	22	19	1.96
638992--639056	27	2.4	26	80	7	76	23	7	18	50	1.72
640229--640289	10	5.7	10	72	14	50	29	19	31	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640229--640289	20	3.3	20	74	25	80	29	19	31	19	1.97
640215--640310	34	2.9	33	90	4	149	27	19	33	19	1.96
642162--642454	43	6.8	43	82	3	304	36	23	20	19	1.95
642199--642403	85	2.4	86	88	0	295	35	25	20	19	1.96
643841--643898	27	2.1	27	87	0	80	24	10	17	48	1.78
645024--645063	18	2.2	19	86	4	55	25	27	30	17	1.97
651976--652288	44	7.1	44	82	0	338	20	20	23	34	1.96
652336--652413	39	2.0	38	85	2	102	15	25	26	32	1.95
657984--658220	88	2.7	88	83	3	307	19	22	24	34	1.97
658003--658260	44	5.8	44	83	2	275	21	24	22	31	1.98

Tables:   1   2   3   4   5