genome.fa.s7721.2.7.7.80.10.50.1000.2.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: VEPZ01007721.1 Hibiscus syriacus cultivar Beakdansim tig00109957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3738426

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  2  of  16  ( 1904 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)
277888--277944	25	2.3	25	87	6	80	47	0	12	40	1.41
277888--277940	13	4.1	13	85	9	81	50	0	11	37	1.38
278160--278274	57	2.0	57	93	0	194	38	22	21	17	1.93
282378--282434	20	2.8	20	81	5	71	33	22	7	36	1.81
296570--296603	18	1.9	17	88	5	50	44	0	0	55	0.99
298022--298353	56	6.0	56	92	0	508	33	19	11	35	1.88
298671--298708	20	1.9	20	94	0	67	28	21	13	36	1.91
298674--298725	22	2.5	21	90	6	79	26	21	15	36	1.93
315844--315890	20	2.4	20	78	3	51	36	21	12	29	1.91
316116--316445	56	5.9	56	90	2	497	33	18	12	36	1.88
316767--316821	22	2.7	20	75	10	65	27	25	12	34	1.92
316848--316931	41	2.0	42	84	9	109	22	22	11	42	1.86
324131--324175	2	22.5	2	100	0	90	51	0	0	48	1.00
324255--324311	13	4.4	13	86	0	69	35	14	19	31	1.91
350003--350053	23	2.2	23	96	0	93	9	29	27	33	1.89
353044--353088	20	2.2	21	88	7	67	37	13	28	20	1.90
353114--353154	19	2.2	19	90	0	64	34	17	19	29	1.94
354789--354833	20	2.2	20	80	7	56	26	20	24	28	1.99
358483--358599	37	3.1	36	65	22	87	31	17	14	36	1.90
358444--358732	76	3.8	76	90	0	436	33	14	15	35	1.89
358444--358732	153	1.9	151	92	1	479	33	14	15	35	1.89
358988--359017	6	5.0	6	91	0	51	20	0	30	50	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
364672--364709	15	2.5	15	95	4	67	2	28	0	68	1.03
366848--366888	18	2.2	18	86	4	55	51	7	7	34	1.58
368882--368940	31	1.9	31	92	0	100	42	5	8	44	1.57
368964--369195	22	10.5	22	96	0	419	50	11	0	37	1.43
376274--376303	12	2.5	12	100	0	60	30	16	13	40	1.87
378647--378701	21	2.6	21	82	0	74	7	27	40	25	1.82
379327--379358	14	2.4	14	94	5	57	62	0	0	37	0.95
381266--381318	27	1.9	27	84	3	70	45	5	1	47	1.37
395569--395596	3	9.3	3	100	0	56	0	32	0	67	0.91
399506--399574	32	2.2	32	94	2	122	24	20	20	34	1.96
400750--400783	10	3.4	10	95	0	59	47	20	11	20	1.81
405487--405553	21	3.2	20	72	14	64	28	14	29	26	1.96
411769--411913	48	2.9	51	74	10	163	36	11	29	22	1.89
413111--413416	44	7.0	44	83	1	263	29	20	16	32	1.95
413468--413537	35	2.0	36	91	2	115	27	10	11	51	1.69
414751--415199	229	2.0	227	94	2	785	44	8	7	39	1.62
415264--415309	20	2.3	19	89	10	74	54	10	17	17	1.70
417772--417837	33	2.0	33	87	0	96	28	1	45	24	1.62
419628--419671	19	2.4	19	92	3	72	31	2	9	56	1.43
419754--421175	200	7.1	200	97	0	2669	37	15	15	32	1.88
419754--421175	399	3.6	400	97	0	2678	37	15	15	32	1.88
419754--421175	599	2.4	598	98	0	2726	37	15	15	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422631--422698	21	3.4	18	69	21	55	36	8	35	19	1.83
422631--422728	6	16.3	6	80	0	70	36	7	34	21	1.81
422646--422732	3	29.0	3	77	0	84	35	5	34	24	1.79
422634--422724	42	2.2	42	91	0	146	35	7	35	21	1.83
422631--422728	18	5.4	18	78	0	88	36	7	34	21	1.81
424159--424867	183	3.9	183	95	0	1274	35	14	15	33	1.89
426868--426932	25	2.6	25	80	0	85	35	9	13	41	1.77
427275--427338	23	2.8	23	87	0	92	35	6	20	37	1.78
427275--427347	23	3.2	23	82	7	85	34	5	20	39	1.76
427616--427666	25	2.0	25	92	0	84	33	7	19	39	1.81
428055--428091	18	2.1	18	89	0	56	32	5	10	51	1.60
428348--428434	39	2.2	39	93	0	147	49	20	12	17	1.79
428827--428902	23	3.5	22	78	15	68	39	5	19	35	1.75
428839--428911	23	3.2	23	92	0	119	35	4	19	41	1.70
428911--428953	21	2.1	21	86	4	61	27	13	9	48	1.73
431864--431909	20	2.3	20	84	0	56	10	26	26	36	1.89
433946--434539	288	2.1	289	98	1	1142	21	19	11	48	1.80
438839--438889	21	2.4	21	96	0	93	25	31	17	25	1.97
442980--443036	15	3.7	15	69	17	53	24	33	24	17	1.96
443243--443317	34	2.2	34	100	0	150	45	8	2	44	1.47
443468--443601	36	3.7	34	78	13	133	32	7	0	58	1.31
443517--443573	14	3.6	14	71	24	51	29	7	0	63	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443651--443781	27	4.8	28	78	6	133	35	11	9	42	1.74
443861--443935	30	2.6	27	76	14	78	37	9	14	38	1.79
452895--453304	81	5.1	81	90	0	588	36	11	23	28	1.89
452895--453296	161	2.5	161	90	1	590	36	11	23	28	1.89
459960--460371	161	2.5	162	89	1	612	37	10	22	29	1.88
459960--460371	81	5.1	81	89	2	596	37	10	22	29	1.88
466506--466550	20	2.2	20	84	8	54	37	15	17	28	1.91
466952--467202	81	3.1	81	91	0	403	37	9	22	30	1.87
473913--473959	24	1.9	25	86	4	69	38	14	21	25	1.92
485484--485529	17	2.7	17	79	0	56	41	2	6	50	1.40
487307--487343	3	12.0	3	88	5	56	37	0	0	62	0.96
488716--488743	2	14.0	2	100	0	56	50	0	0	50	1.00
497707--497746	2	20.0	2	94	0	71	47	0	2	50	1.14
501202--501274	8	9.6	8	78	15	75	79	1	8	10	0.99
501202--501273	31	2.4	30	88	4	101	80	1	6	11	0.96
502714--503090	134	2.9	127	81	6	402	30	21	17	29	1.96
503313--503355	6	7.0	6	94	5	77	16	0	0	83	0.64
503318--503363	18	2.6	17	83	10	65	15	2	0	82	0.76
504123--504155	16	2.1	16	94	0	57	81	3	9	6	0.95
525435--525483	22	2.1	23	85	14	66	53	2	24	20	1.56
532463--532517	24	2.3	24	93	0	92	36	20	21	21	1.95
532541--532605	23	2.8	23	85	0	94	30	26	26	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541693--541776	42	2.0	42	86	6	118	57	5	10	26	1.56
541707--541788	41	2.0	42	80	7	96	58	6	7	28	1.49
542098--542134	13	2.8	13	95	0	65	32	0	27	40	1.57
547572--547684	27	4.2	27	96	2	201	30	27	11	30	1.92
548710--548759	15	3.1	16	78	21	68	68	0	2	30	1.01
553111--553178	23	3.0	23	97	0	127	27	22	27	22	1.99
553378--553418	15	2.6	16	75	17	50	68	2	0	29	1.03
563950--564000	20	2.5	21	81	9	61	33	17	23	25	1.96
566300--566350	23	2.2	23	82	6	59	19	17	27	35	1.94
566341--566387	24	2.0	24	91	0	76	21	25	23	29	1.99
566494--566523	6	5.0	6	95	0	51	46	0	20	33	1.51
567729--567773	18	2.3	20	88	7	67	24	26	17	31	1.97
569833--569998	10	15.9	10	68	9	82	63	19	9	8	1.49
569833--569920	33	2.8	32	83	6	108	69	17	4	9	1.32
569833--569998	44	4.0	41	76	7	147	63	19	9	8	1.49
571959--571983	12	2.1	12	100	0	50	60	0	8	32	1.26
572425--572604	37	5.2	37	66	17	134	46	12	14	26	1.80
572383--572653	68	4.0	68	91	1	409	49	11	12	27	1.74
572395--572571	31	5.3	31	66	17	104	50	11	13	24	1.74
575576--575669	13	7.1	14	80	4	72	9	7	20	62	1.49
575582--575668	40	2.2	40	89	2	131	10	8	19	62	1.52
575592--575671	13	6.1	13	82	8	108	12	8	17	61	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
577494--577538	2	22.5	2	100	0	90	51	0	0	48	1.00
581465--581520	20	2.7	21	81	15	55	28	10	8	51	1.66
582600--582638	19	2.0	20	90	10	62	51	12	23	12	1.74
583515--583611	45	2.2	45	88	0	140	20	21	11	46	1.82
583710--583815	54	1.9	55	90	3	169	33	17	11	37	1.86
583713--583834	54	2.2	55	84	8	160	31	20	14	32	1.93
583797--584212	54	7.7	53	82	8	448	24	18	20	35	1.95
583767--584213	161	2.8	161	84	6	448	25	18	20	35	1.95
584067--584149	27	3.1	27	65	25	66	21	19	25	33	1.97
591659--591686	12	2.3	12	100	0	56	39	7	7	46	1.59

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16