genome.fa.s8751.2.7.7.80.10.50.1000.3.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: VEPZ01008751.1 Hibiscus syriacus cultivar Beakdansim tig00111842_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  806611

Tables:   1   2   3   4   

This is table  3  of  4  ( 473 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)
349546--349700	40	3.8	40	82	4	186	18	18	26	37	1.93
349687--349769	21	4.0	21	73	6	78	25	16	24	33	1.96
349667--349765	42	2.4	43	77	11	100	21	18	23	37	1.94
356217--356301	44	1.9	44	92	0	143	57	5	12	23	1.57
358139--358167	2	14.5	2	100	0	58	48	0	0	51	1.00
359412--359540	39	3.4	39	79	4	136	41	9	6	42	1.62
359412--359554	76	1.9	76	82	2	180	44	8	6	40	1.60
359777--359905	58	2.2	58	91	0	204	41	11	10	36	1.75
360066--360221	45	3.4	45	72	10	113	39	17	8	34	1.80
362704--362867	83	2.0	83	93	0	283	36	15	15	32	1.89
370461--370537	22	3.4	22	76	13	93	37	6	16	38	1.75
370461--370563	46	2.2	46	94	0	179	36	7	14	40	1.75
370482--370564	24	3.5	24	74	12	91	37	8	13	40	1.75
370493--370563	21	3.2	21	72	14	70	36	7	12	43	1.70
370467--370543	25	3.2	25	69	14	81	38	7	14	38	1.75
386378--386426	21	2.3	21	92	0	80	46	20	0	32	1.51
388595--389173	292	2.0	289	97	1	1104	29	16	8	45	1.77
393831--393897	18	3.6	18	86	11	98	38	0	0	61	0.96
393819--393897	39	2.1	38	95	2	140	40	0	0	59	0.97
393819--393901	20	4.2	20	86	11	118	40	0	0	59	0.98
394959--394987	7	4.1	7	100	0	58	44	41	13	0	1.44
407026--407068	21	2.0	21	100	0	86	39	0	13	46	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
407037--407122	35	2.5	35	84	0	100	37	1	20	40	1.61
408685--408731	13	4.0	12	76	13	53	57	2	0	40	1.11
412589--412635	18	2.6	18	86	0	67	29	19	21	29	1.97
415211--415244	15	2.2	16	89	5	52	38	0	0	61	0.96
422254--422362	36	3.0	36	91	0	164	34	15	20	29	1.93
423107--423168	22	2.9	22	83	7	83	37	17	22	22	1.94
424783--424870	28	3.0	29	77	9	81	61	2	2	34	1.21
426386--426823	113	4.0	113	90	4	621	30	18	13	37	1.90
426630--426827	105	1.9	105	98	0	387	28	20	13	37	1.91
426383--426823	218	2.0	220	87	4	638	30	18	14	37	1.90
428364--428403	10	4.0	10	84	12	55	7	12	2	77	1.07
428379--428421	15	2.8	16	86	10	54	6	18	0	74	1.04
435278--435309	16	2.1	16	88	11	50	31	3	12	53	1.54
439551--439612	31	2.1	32	85	11	87	62	3	0	33	1.11
440938--440986	3	17.0	3	78	16	50	65	0	0	34	0.93
440933--440986	20	2.8	19	72	16	58	61	0	0	38	0.96
440962--440988	14	1.9	14	100	0	54	51	0	0	48	1.00
444284--444317	13	2.7	13	90	4	52	50	14	0	35	1.44
446773--446831	26	2.2	27	81	3	66	49	22	0	28	1.50
449373--449403	16	1.9	16	93	0	53	35	0	3	61	1.12
454734--454820	21	4.2	21	68	12	63	49	20	2	27	1.61
454742--454792	19	2.5	21	78	9	61	52	25	1	19	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455022--455083	15	4.1	15	74	11	56	61	12	1	24	1.41
457202--457416	102	2.1	102	84	5	274	27	13	24	34	1.92
457814--458193	156	2.3	162	77	11	368	32	21	15	31	1.94
459226--459273	21	2.3	21	92	0	87	14	25	4	56	1.56
459782--459825	20	2.2	20	91	0	70	72	11	0	15	1.11
459852--459877	13	2.0	13	100	0	52	53	15	0	30	1.42
460355--460407	21	2.5	22	81	6	56	30	24	20	24	1.99
460700--460751	2	26.0	2	92	7	88	50	1	0	48	1.12
474075--474124	22	2.3	22	96	3	93	22	16	18	44	1.87
476215--476249	16	2.2	16	90	10	54	25	8	22	42	1.82
479099--479293	75	2.7	74	81	4	218	27	4	15	52	1.62
485959--486004	23	2.0	23	86	4	65	17	4	15	63	1.47
486622--486717	36	2.7	36	91	0	147	36	13	20	29	1.91
486708--486739	15	2.1	15	94	0	55	28	25	28	18	1.98
486663--486917	51	5.1	51	83	2	336	38	15	23	22	1.92
486663--486917	100	2.5	101	87	3	345	38	15	23	22	1.92
486849--486889	15	2.7	15	92	0	64	34	19	29	17	1.94
486877--487053	36	4.9	36	82	9	236	38	12	22	25	1.89
486877--487247	67	5.4	67	84	7	353	39	11	20	28	1.88
487139--487483	103	3.2	102	76	14	296	41	11	18	28	1.85
487308--487418	52	2.2	52	81	4	127	42	10	18	27	1.84
487339--487437	30	3.6	29	71	21	95	38	10	19	32	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487698--487980	37	8.1	36	72	16	166	40	8	19	31	1.81
487595--488011	103	4.0	103	95	0	708	39	8	19	31	1.82
487820--487945	66	1.9	66	85	9	177	41	5	19	34	1.74
487908--487970	21	3.2	20	65	21	53	36	7	20	34	1.82
488441--488482	17	2.5	17	92	0	66	19	0	47	33	1.49
489470--489508	2	19.5	2	100	0	78	51	48	0	0	1.00
489990--490307	151	2.1	151	96	2	588	39	14	11	33	1.83
490589--490639	22	2.3	22	80	6	59	56	9	17	15	1.65
492916--493284	39	9.5	37	73	16	182	44	2	7	45	1.46
493007--493178	86	2.0	87	82	6	213	42	4	8	45	1.52
493096--493284	36	5.2	35	79	9	177	47	2	5	44	1.41
493283--493340	4	14.0	4	76	20	57	20	3	0	75	0.94
493283--493340	9	6.4	9	84	11	75	20	3	0	75	0.94
493285--493340	14	4.1	13	82	11	67	19	3	0	76	0.93
493283--493337	19	3.0	18	80	19	69	20	3	0	76	0.94
497990--498192	99	2.0	100	88	0	300	33	15	17	33	1.91
499811--500138	37	8.6	40	75	18	178	43	3	8	45	1.49
499841--500134	37	7.8	37	79	14	250	42	3	8	45	1.50
499808--500153	38	9.2	37	78	12	282	43	2	7	45	1.47
500125--500157	11	2.8	12	86	9	50	39	0	3	57	1.14
500151--500207	10	6.0	10	78	13	50	19	3	0	77	0.92
500151--500210	14	4.3	14	78	14	61	20	3	0	76	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500158--500210	10	5.8	9	82	8	63	20	3	0	75	0.96
500160--500207	19	2.6	19	78	15	55	20	4	0	75	0.97
501176--501213	20	1.9	20	89	10	60	18	5	10	65	1.41
509136--509160	13	1.9	13	100	0	50	44	16	16	24	1.86
509510--509564	21	2.6	21	75	18	51	27	1	9	61	1.36
509524--509564	21	1.9	21	85	14	57	26	0	9	63	1.25
512978--513060	26	3.2	25	69	14	69	37	3	9	49	1.53
516098--516135	15	2.5	16	87	8	53	52	0	0	47	1.00
516089--516122	15	2.1	17	89	10	54	50	0	0	50	1.00
516181--516303	49	2.5	50	73	17	123	52	4	4	39	1.40
517405--517468	30	2.1	30	85	0	83	35	7	18	37	1.80
517419--517475	30	2.0	28	86	10	80	36	7	21	35	1.80
527753--527840	24	3.7	24	78	6	97	19	13	18	48	1.80
527781--527845	12	5.4	12	70	7	51	13	12	18	55	1.69
527738--527847	48	2.3	49	88	3	161	18	14	17	50	1.79
528890--528929	19	2.1	19	100	0	80	32	15	17	35	1.91
530520--530662	36	4.0	36	90	4	236	39	10	16	33	1.83
533985--534014	15	1.9	16	93	6	53	53	6	0	40	1.27
539116--539248	35	3.8	35	81	2	176	21	21	18	39	1.93
539116--539259	71	2.0	71	90	0	225	20	22	17	40	1.91
543211--543244	18	1.9	17	88	5	50	85	5	8	0	0.75
543972--543999	14	2.0	14	100	0	56	28	21	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547303--547351	21	2.3	21	85	0	71	18	26	32	22	1.97
550621--550654	3	11.3	3	93	0	59	0	35	0	64	0.94
556279--556306	12	2.3	12	100	0	56	25	14	14	46	1.82
558408--558474	30	2.2	30	91	0	107	28	28	11	31	1.92
560348--560450	50	2.1	50	89	7	156	33	7	9	48	1.65
561477--561548	32	2.2	32	82	0	81	37	5	6	50	1.53
581937--581979	20	2.2	20	91	0	68	32	20	13	32	1.92
582417--582474	13	4.8	13	75	16	63	37	1	8	51	1.43
582405--582488	34	2.5	34	100	0	168	38	3	8	50	1.50
582413--582486	11	6.5	11	75	15	62	37	2	9	50	1.49

Tables:   1   2   3   4