genome.fa.s8466.2.7.7.80.10.50.1000.3.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: VEPZ01008466.1 Hibiscus syriacus cultivar Beakdansim tig00111280_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  685270

Tables:   1   2   3   4   

This is table  3  of  4  ( 439 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)
362073--362748	343	2.0	342	84	7	879	25	9	24	40	1.85
368439--368479	10	4.1	10	93	0	64	2	12	0	85	0.70
368978--369012	11	3.3	11	88	4	54	60	8	17	14	1.58
378361--378661	165	1.8	167	98	1	588	42	17	20	19	1.90
381549--381588	21	1.9	21	94	0	71	30	15	7	47	1.72
381583--381682	34	3.0	33	91	4	157	32	7	15	46	1.72
381668--381722	13	4.2	13	75	13	58	36	3	10	49	1.56
381918--381974	21	2.7	21	86	0	87	21	26	24	28	1.99
382141--382193	15	3.4	15	75	10	61	33	7	11	47	1.68
383586--383793	109	1.9	109	91	0	344	28	25	16	29	1.97
388272--388323	25	2.1	25	92	0	86	61	3	7	26	1.41
389312--389351	19	2.1	19	100	0	80	10	30	5	55	1.54
403164--403223	26	2.3	26	91	8	97	51	3	6	38	1.45
404768--405069	149	2.0	153	96	2	567	37	9	22	30	1.86
407689--407745	9	6.7	9	76	11	57	43	1	0	54	1.10
407699--407736	15	2.5	15	83	8	51	44	2	0	52	1.14
408582--408608	12	2.2	12	100	0	54	0	59	40	0	0.98
409995--410022	2	14.0	2	100	0	56	50	0	0	50	1.00
411674--411726	21	2.5	21	84	0	70	20	22	18	37	1.94
411716--411768	20	2.7	20	90	0	88	37	22	18	20	1.94
411755--411821	20	3.3	20	95	0	116	31	23	19	25	1.98
411709--411823	40	2.9	39	81	8	117	33	23	18	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411755--411842	20	4.4	20	91	0	113	32	23	17	26	1.96
414853--415154	151	2.0	151	96	3	556	30	22	15	30	1.95
415270--415318	20	2.5	18	78	18	53	34	24	20	20	1.96
415301--415384	33	2.5	33	92	1	132	44	19	22	14	1.86
415395--415462	20	3.8	20	69	23	60	13	20	17	48	1.80
415400--415495	33	2.8	33	87	3	129	13	22	19	43	1.86
415601--415637	14	2.6	14	86	0	56	48	21	0	29	1.50
417014--417120	21	5.1	21	75	3	99	22	18	37	21	1.94
417015--417125	42	2.6	42	77	7	125	23	18	37	19	1.94
417606--417714	20	5.4	20	92	0	137	37	22	18	21	1.94
417738--417917	53	3.3	53	75	14	184	18	18	18	44	1.87
417738--417918	20	9.8	20	74	16	131	19	18	18	44	1.87
419779--419834	21	2.8	20	86	5	76	50	23	16	10	1.76
419822--419894	33	2.2	34	85	7	96	39	26	20	13	1.90
420169--420234	22	3.0	22	90	0	105	21	15	39	24	1.91
420411--420459	20	2.5	20	89	0	71	28	18	20	32	1.96
420450--420559	20	5.4	20	85	2	157	20	20	20	39	1.93
420426--420559	40	3.3	40	84	1	169	23	19	18	38	1.93
421455--421512	15	4.1	13	87	12	55	43	0	0	56	0.99
421471--421514	2	22.5	2	95	4	81	47	0	0	52	1.00
421901--421928	3	9.3	3	100	0	56	32	0	0	67	0.91
422843--422935	31	3.0	31	95	1	159	39	9	12	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
423501--423552	16	3.2	16	83	5	68	25	0	3	71	1.03
425013--425666	146	4.4	148	82	6	708	24	26	19	29	1.98
429587--429636	21	2.4	21	93	0	91	18	26	30	26	1.98
430227--430422	97	2.0	98	97	3	369	35	23	15	26	1.94
432468--432497	15	2.0	15	100	0	60	40	6	13	40	1.71
438823--439002	93	1.9	92	89	4	281	31	18	18	31	1.95
438817--439013	94	2.1	93	85	7	281	32	16	17	32	1.93
440332--440447	35	3.2	36	80	8	137	31	18	11	38	1.86
440345--440639	137	2.2	136	89	3	441	26	19	12	41	1.86
440470--440584	36	3.2	36	86	1	158	29	17	12	40	1.86
440910--441005	35	2.7	35	84	7	106	30	18	13	37	1.90
441044--441156	36	3.2	35	82	6	140	26	18	11	43	1.84
440954--441324	121	2.9	124	82	11	421	25	21	12	41	1.87
441210--441279	35	2.0	35	88	5	106	27	20	12	40	1.88
441214--441434	101	2.2	99	86	4	311	27	20	12	39	1.88
442180--442216	20	1.9	19	89	10	58	48	10	24	16	1.77
444888--444935	2	24.0	2	100	0	96	50	0	0	50	1.00
450223--450362	38	3.7	38	89	0	181	21	19	18	40	1.91
453397--453576	59	3.0	58	77	4	153	30	23	5	40	1.77
453703--453875	60	2.9	59	79	11	190	41	2	22	34	1.67
461798--462242	220	2.0	220	97	0	836	27	13	10	48	1.75
466912--466950	12	3.2	12	82	7	51	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469379--469670	59	4.9	59	73	10	220	33	10	14	41	1.80
469364--469651	119	2.4	119	86	3	400	34	11	13	40	1.80
469379--469696	60	5.3	60	76	6	245	34	11	13	39	1.82
469439--469696	59	4.3	60	78	5	184	34	13	13	38	1.84
469376--469696	119	2.7	119	84	3	335	34	11	14	39	1.82
472697--472816	23	5.3	23	81	4	118	35	24	22	18	1.96
480132--480180	20	2.3	22	82	6	66	26	4	2	67	1.19
480132--480192	20	3.0	21	81	13	65	31	3	1	63	1.20
480130--480247	49	2.5	48	81	12	124	33	2	2	61	1.23
483406--483449	20	2.3	20	92	7	74	27	13	34	25	1.93
484100--484152	18	2.9	18	91	0	88	18	20	32	28	1.97
484464--484542	40	2.0	40	100	0	158	45	2	13	37	1.58
486328--486356	7	4.3	7	95	4	51	13	13	13	58	1.63
486891--486930	21	1.9	21	84	0	53	45	2	30	22	1.66
493364--493407	22	2.0	22	86	8	63	79	4	11	4	1.02
503680--503706	14	1.9	14	100	0	54	40	22	14	22	1.90
506244--506413	20	8.6	20	69	19	74	25	8	1	64	1.32
506277--506328	14	3.5	15	82	10	63	40	0	0	59	0.97
506289--506318	2	15.5	2	93	6	53	46	0	0	53	1.00
506192--506431	118	2.0	117	97	0	453	27	7	1	63	1.32
507168--507237	34	2.1	32	84	5	86	24	28	15	31	1.96
510666--510876	38	5.8	38	80	11	205	42	5	12	39	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513312--513341	12	2.6	12	94	5	53	0	16	0	83	0.65
513843--513874	2	16.0	2	100	0	64	50	0	0	50	1.00
523743--523769	6	4.5	6	100	0	54	51	0	0	48	1.00
524629--524964	160	2.1	161	89	0	512	40	14	17	27	1.88
524941--524987	20	2.4	19	79	10	58	55	10	14	19	1.68
527213--527277	21	3.1	21	90	0	103	41	10	29	18	1.84
529157--529205	19	2.6	19	96	0	89	32	2	10	55	1.45
529439--531195	200	8.8	200	96	0	3141	35	14	18	31	1.91
529439--531195	399	4.4	400	95	0	3141	35	14	18	31	1.91
531707--531779	23	3.2	23	92	0	110	35	4	20	39	1.72
532196--532267	23	3.2	22	88	4	99	34	2	20	41	1.67
532196--532259	22	2.9	22	92	2	101	35	1	21	40	1.63
532684--532756	23	3.2	23	96	0	128	34	2	21	41	1.68
531583--533154	488	3.2	488	96	1	2838	41	7	11	40	1.69
541562--541690	66	2.0	66	82	3	161	36	9	7	46	1.65
541716--541846	60	2.2	59	79	6	147	32	15	15	37	1.88
541985--542039	28	2.0	28	88	0	83	32	14	16	36	1.89
545655--545700	17	2.8	16	83	3	56	23	2	0	73	0.94
554571--554608	6	6.3	6	96	0	58	39	0	50	10	1.37
557635--557698	2	32.5	2	96	3	121	50	0	0	50	1.00
560774--560896	58	2.2	56	85	5	158	21	16	23	39	1.92
562044--562165	59	2.1	59	100	0	244	23	23	11	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562644--562708	34	1.9	34	96	0	121	50	7	16	24	1.71
565439--565506	19	3.5	20	71	4	59	41	1	7	50	1.39
570767--570819	20	2.6	20	77	14	63	41	0	0	58	0.98
570945--571026	32	2.5	33	80	11	89	48	0	2	48	1.14
570975--571071	24	4.1	24	71	17	78	49	0	2	48	1.12
570967--571073	22	4.7	24	71	15	77	47	0	1	50	1.11
579220--579305	27	3.5	25	80	12	97	36	15	17	31	1.91
579932--579967	15	2.4	15	95	0	63	30	11	19	38	1.86
580123--580167	24	1.9	23	81	4	54	24	26	20	28	1.99
585982--586037	23	2.4	23	93	0	94	35	0	5	58	1.21

Tables:   1   2   3   4