genome.fa.s8428.2.7.7.80.10.50.1000.2.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  2  of  30  ( 3508 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)
421548--421577	5	6.2	5	96	3	53	0	20	0	80	0.72
425164--425205	16	2.5	17	88	7	68	76	7	14	2	1.10
428125--428170	23	2.0	23	83	8	58	36	6	8	47	1.60
429744--429798	24	2.3	25	81	6	60	32	16	21	29	1.95
434939--434968	11	2.7	11	100	0	60	10	10	53	26	1.66
437408--437453	22	2.1	22	96	4	85	82	8	8	0	0.84
437416--437453	11	3.5	11	85	0	58	81	7	10	0	0.87
445936--445962	9	3.0	9	100	0	54	22	11	11	55	1.66
449520--449546	9	3.0	9	100	0	54	22	11	11	55	1.66
453103--453129	9	3.0	9	100	0	54	22	11	11	55	1.66
457108--457134	9	3.0	9	100	0	54	22	11	11	55	1.66
474404--474446	23	1.9	21	81	13	50	34	13	18	32	1.90
476848--476890	22	2.0	22	90	0	68	11	13	16	58	1.64
477861--477914	19	2.7	20	91	5	83	46	7	12	33	1.70
479730--479779	24	2.0	24	84	3	64	24	18	16	42	1.89
481612--481645	16	2.1	17	89	10	54	70	5	0	23	1.09
486286--486331	22	2.0	22	83	12	56	52	13	2	32	1.52
490674--490715	19	2.2	19	83	8	50	54	0	19	26	1.44
497084--497135	19	2.6	21	90	6	81	44	5	15	34	1.70
503292--503347	19	3.1	18	82	7	69	0	21	1	76	0.87
505342--505380	20	2.0	19	85	5	51	41	10	17	30	1.83
507573--507627	8	6.3	9	75	12	53	3	18	1	76	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508346--508397	19	2.6	21	90	6	81	46	5	13	34	1.67
509372--509410	20	2.0	19	85	5	51	41	10	17	30	1.83
509838--509868	15	2.0	16	93	6	55	12	25	0	61	1.32
514810--514839	13	2.4	13	94	5	53	26	30	0	43	1.55
517567--517622	23	2.4	24	88	8	80	12	16	16	55	1.70
517586--517636	22	2.2	24	82	6	61	11	11	13	62	1.54
517567--517622	24	2.4	24	87	3	78	12	16	16	55	1.70
525153--525203	24	2.2	23	89	3	75	60	11	19	7	1.55
526315--526365	24	2.1	24	85	0	66	37	11	17	33	1.86
536243--536326	23	3.9	21	78	6	78	26	33	22	17	1.96
536244--536304	23	2.7	22	89	2	86	22	32	24	19	1.97
537908--537948	18	2.3	18	91	8	66	43	21	34	0	1.53
543923--543966	20	2.1	21	84	12	56	63	2	2	31	1.19
545472--545538	35	1.9	34	96	3	125	28	11	23	35	1.91
545472--545550	35	2.3	35	91	2	124	29	11	24	35	1.90
551407--551448	21	2.0	21	86	4	59	30	0	16	52	1.44
556813--556858	22	2.1	22	95	0	83	21	23	23	30	1.99
558476--558555	38	2.1	38	82	13	94	50	3	1	45	1.28
564759--564907	77	1.9	79	82	8	189	39	10	6	44	1.63
581522--581573	25	2.1	25	88	0	77	59	11	13	15	1.61
581532--581578	25	1.9	25	86	4	69	65	10	12	10	1.46
584069--584107	20	1.9	20	84	5	51	28	23	15	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585416--585453	10	3.8	10	93	6	60	60	2	10	26	1.43
588661--588805	72	2.0	72	100	0	290	40	22	19	17	1.92
594523--594565	23	1.9	21	81	13	50	32	18	13	34	1.90
601002--601122	59	2.1	59	85	0	161	28	16	24	29	1.97
613925--613958	13	2.6	13	90	0	50	32	0	35	32	1.58
615612--615681	36	1.9	36	91	0	113	20	24	8	47	1.78
616716--616758	6	7.0	6	80	15	52	2	16	2	79	0.95
616716--616758	13	3.5	12	78	15	52	2	16	2	79	0.95
616716--616761	24	1.9	24	91	8	76	2	15	4	78	1.01
617340--617380	22	1.9	21	90	5	64	19	2	31	46	1.63
630531--630571	12	3.2	12	86	10	55	80	7	12	0	0.90
652710--652763	6	8.8	6	87	4	63	11	3	3	81	0.95
652953--652998	17	2.7	17	90	10	76	65	0	17	17	1.28
652954--653009	21	2.7	21	76	17	55	64	0	16	19	1.29
652953--653012	16	3.7	16	86	8	77	65	0	16	18	1.28
663656--663689	15	2.1	15	89	10	50	55	0	32	11	1.36
670110--670329	59	3.7	58	88	1	323	30	20	11	37	1.88
670110--670328	118	1.9	118	91	0	357	31	19	11	37	1.87
670699--670768	22	3.5	20	79	9	79	30	27	12	30	1.93
670615--670825	95	2.2	94	84	3	271	28	25	15	31	1.95
678048--678098	19	2.6	20	87	3	68	47	7	9	35	1.66
691118--691163	20	2.3	21	85	7	60	65	0	21	13	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
691279--691336	31	2.0	28	81	15	66	6	20	5	67	1.34
706020--706081	24	2.5	24	92	2	106	25	17	24	32	1.97
709496--709548	24	2.2	24	86	0	79	58	18	15	7	1.60
715719--715775	20	2.9	20	89	2	80	43	10	7	38	1.66
723783--723819	19	1.9	19	94	0	65	43	5	13	37	1.67
728917--728944	8	3.5	8	100	0	56	78	0	0	21	0.75
732525--732553	2	14.5	2	100	0	58	51	0	0	48	1.00
742416--742742	163	2.0	163	100	0	654	23	18	14	43	1.87
745693--745719	2	13.5	2	100	0	54	51	0	0	48	1.00
746005--746260	128	2.0	128	100	0	512	36	21	14	27	1.92
760203--760242	15	2.7	15	92	0	62	30	25	10	35	1.88
762086--762240	77	2.0	77	100	0	310	30	18	12	38	1.88
763126--763476	174	2.0	175	99	0	695	30	19	15	35	1.92
770607--770640	18	1.9	18	94	5	61	38	5	5	50	1.51
770988--771066	24	3.5	23	73	19	76	31	18	15	34	1.92
770986--771085	44	2.3	44	91	3	157	31	21	16	32	1.95
771946--771990	23	2.0	23	90	0	72	40	11	24	24	1.87
780414--780601	97	1.9	97	96	0	349	27	25	12	35	1.91
782566--782654	44	2.0	44	100	0	178	32	20	22	24	1.98
783609--783662	25	2.1	26	86	10	76	31	7	0	61	1.24
785957--786003	18	2.6	18	89	0	76	70	4	12	12	1.31
787123--787194	36	2.0	36	94	0	126	48	8	19	23	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
787765--787820	23	2.4	23	85	5	69	26	21	21	30	1.98
789860--789940	7	11.6	7	85	0	81	20	2	37	39	1.66
792727--792751	12	2.1	12	100	0	50	24	16	0	60	1.36
801281--801441	65	2.5	64	84	5	191	32	22	17	27	1.96
803369--803413	20	2.2	20	84	11	56	51	2	4	42	1.34
807229--807323	23	4.4	21	77	9	86	27	26	22	24	2.00
807248--807328	23	3.7	23	77	8	96	25	25	24	23	2.00
807229--807323	44	2.2	42	87	7	129	27	26	22	24	2.00
807229--807344	43	2.7	43	77	6	112	26	25	24	23	2.00
809949--810071	64	1.9	64	85	5	167	30	20	21	28	1.98
811210--811235	2	13.0	2	100	0	52	50	0	0	50	1.00
817237--817441	95	2.2	95	83	3	243	34	16	23	25	1.95
817329--817383	22	2.7	20	81	15	67	34	16	21	27	1.95
817865--818186	46	7.0	46	90	0	446	41	13	22	22	1.88
817865--818167	20	13.0	25	61	23	99	41	13	22	22	1.88
821020--821047	14	2.0	14	100	0	56	42	14	14	28	1.84
822448--822495	24	2.0	25	91	4	80	16	16	12	54	1.72
825658--825704	22	2.0	22	84	12	58	31	2	12	53	1.51
825764--825797	16	2.1	17	89	10	54	23	0	5	70	1.09
826560--826596	14	2.6	14	86	4	56	78	8	13	0	0.96
830486--830519	16	2.1	17	89	10	54	23	0	5	70	1.09
837623--837901	95	2.9	94	83	4	330	32	17	24	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
837786--837841	22	2.7	21	83	8	78	32	16	23	28	1.96
838288--838608	46	7.0	46	82	1	322	44	11	22	22	1.84
838572--838614	20	2.2	20	86	0	59	48	6	20	23	1.73
848737--848776	20	2.1	19	86	9	55	50	15	2	32	1.57
854379--854405	13	2.1	13	100	0	54	0	0	7	92	0.38
870166--870212	25	1.9	24	91	4	76	74	6	17	2	1.12
873051--873087	16	2.4	16	83	16	51	8	35	0	56	1.29
875618--875649	16	2.0	16	93	0	55	40	6	9	43	1.62
876514--876556	20	2.2	20	91	4	70	37	13	2	46	1.57
884285--884327	13	3.4	13	80	6	52	76	4	13	4	1.10

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30